BLASTP 2.2.18 [Mar-02-2008] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= lcl|NC_019930.1_cdsid_YP_007237932.1 [gene=terL] [protein=large terminase] [protein_id=YP_007237932.1] [location=13379..15565] (728 letters) Database: capsid_neck_tail 514 sequences; 206,069 total letters Searching...................................................done Score E Sequences producing significant alignments: (bits) Value gi|4938|lcl|protein:vir:94991 Length: 423 # NCBI annotation: hyp... 117 7e-28 gi|11160|lcl|protein:vir:78394 Length: 423 # NCBI annotation: hy... 116 1e-27 gi|4548|lcl|protein:vir:94970 Length: 473 # NCBI annotation: put... 34 0.005 gi|12899|lcl|protein:vir:80432 Length: 510 # NCBI annotation: Bc... 32 0.020 gi|10483|lcl|protein:vir:105297 Length: 446 # NCBI annotation: p... 30 0.069 gi|5891|lcl|protein:vir:107098 Length: 421 # NCBI annotation: pu... 30 0.088 gi|4983|lcl|protein:vir:95058 Length: 421 # NCBI annotation: ORF... 30 0.092 gi|6284|lcl|protein:vir:95890 Length: 421 # NCBI annotation: ORF... 29 0.16 gi|10354|lcl|protein:vir:97448 Length: 421 # NCBI annotation: OR... 29 0.17 gi|3182|lcl|protein:vir:94499 Length: 421 # NCBI annotation: ORF... 29 0.17 gi|7569|lcl|protein:vir:96300 Length: 421 # NCBI annotation: ORF... 29 0.17 gi|13692|lcl|protein:vir:4897 Length: 411 # NCBI annotation: gp4... 27 0.77 gi|5072|lcl|protein:vir:95130 Length: 531 # NCBI annotation: hyp... 27 1.0 gi|22566|lcl|protein:vir:107279 Length: 1007 # NCBI annotation: ... 26 1.6 gi|16780|lcl|protein:vir:2731 Length: 411 # NCBI annotation: hyp... 25 3.1 >gi|4938|lcl|protein:vir:94991 Length: 423 # NCBI annotation: hypothetical protein # Family: family:all:147 # MgeID: mge:1547 # MgeName: KS7 # Cross-refs: genbank:acc:YP_224036;genbank:gi:62327323;genbank:GeneID :5176819 Length = 423 Score = 117 bits (292), Expect = 7e-28, Method: Compositional matrix adjust. Identities = 112/380 (29%), Positives = 174/380 (45%), Gaps = 34/380 (8%) Query: 15 SLVAGYGFGKSTTQDMILSDLANRY-WQHDVKVALFSNTIALLKKTVVADFVKWLIQSGS 73 + VAG+G GKS M S L + D +A++ T L++ + + L G Sbjct: 23 AFVAGFGTGKSEV--MCNSALLDSMEGGSDSLIAMYEPTYDLVRLILAPRMEEKLSDWGI 80 Query: 74 TYHYDRAQNVI--TIGRMTFFLLAS-GRPEDIYGTNVHVSLSDEMDELEQ-------TKC 123 Y Y+++ N+I + G+ F+L + P I G + DE+D L + K Sbjct: 81 RYKYNKSDNIIYTSSGQFGDFVLRTLDNPARIVGYESFRAKIDELDTLNKDHAEHAWNKV 140 Query: 124 IEAHRAIQERTRLVLPDGRKPFSVFTTTAQGFKGTYQIIEEYKETGTPYALVRGKTRDNT 183 I +R + R + P SVFTT +GF+ + K+ G Y +++ T N Sbjct: 141 IARNRQLPRTYRPITPKPANTVSVFTT-PEGFRFVHDRWAVKKKPG--YEMIQASTTSNP 197 Query: 184 ALDPSYVDRLYALYNENERLAFLEGHFVNLTSGKVYPGYDESRHMVDPFDIHPDETIHIG 243 L YV L Y A+++G FVNLTSG VY YD ++ I P ET++IG Sbjct: 198 FLPEDYVQSLRDTYPGQLIDAYIDGEFVNLTSGSVYYAYDRRKNSSRE-TIQPGETLYIG 256 Query: 244 QDLNLGYSKALAFIIRNRNLYAVKEWSFEDIGRAPERFRQ-----DFPANPILWYPDNSG 298 QD N+G+ + ++ R +AV E D+ P+ R+ + I+ YPD SG Sbjct: 257 QDFNVGHMASTVYVQREYVWHAVAE--LVDMFDTPDVVREITERWGRQGHHIVMYPDASG 314 Query: 299 KAILGGYVEAADAYRV-----EIVWTGRNPAILDRTFAVNLAFRSNRLHVFKTLKQWPM- 352 K +D ++ EI NPA+ DR +VN A S RL V + + P+ Sbjct: 315 KNRKSTDASTSDIAQLQNAGFEIRAKSVNPAVKDRVASVNKALESGRLMVNE--QACPVT 372 Query: 353 --ALKTRGYDKKGVAEKGTG 370 L+ + YDK G+ +K +G Sbjct: 373 ARCLEQQAYDKNGIPDKTSG 392 >gi|11160|lcl|protein:vir:78394 Length: 423 # NCBI annotation: hypothetical protein # Family: family:all:147 # MgeID: mge:1851 # MgeName: SETP3 # Cross-refs: genbank:acc:YP_001110830;genbank:gi:134288591;genbank:Ge neID:5179657 Length = 423 Score = 116 bits (290), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 112/378 (29%), Positives = 171/378 (45%), Gaps = 30/378 (7%) Query: 15 SLVAGYGFGKSTTQDMILSDLANRY-WQHDVKVALFSNTIALLKKTVVADFVKWLIQSGS 73 + VAG+G GKS M S L + D +A++ T L++ + + L G Sbjct: 23 AFVAGFGTGKSEV--MCNSALLDSMEGGSDSLIAMYEPTYDLVRLILAPRMEEKLSDWGI 80 Query: 74 TYHYDRAQNVI--TIGRMTFFLLAS-GRPEDIYGTNVHVSLSDEMDELEQ-------TKC 123 Y Y+++ N+I + G+ F+L + P I G + DE+D L + K Sbjct: 81 RYKYNKSDNIIYTSSGQFGDFVLRTLDNPARIVGYESFRAKIDELDTLNKDHAEHAWNKV 140 Query: 124 IEAHRAIQERTRLVLPDGRKPFSVFTTTAQGFKGTYQIIEEYKETGTPYALVRGKTRDNT 183 I +R + R + P SVFTT +GF+ + K G Y +++ T N Sbjct: 141 IARNRQLPRTYRPITPKPANTVSVFTT-PEGFRFVHDRWVVKKNPG--YEMIQAPTTSNP 197 Query: 184 ALDPSYVDRLYALYNENERLAFLEGHFVNLTSGKVYPGYDESRHMVDPFDIHPDETIHIG 243 L YV L Y A+++G FVNLTS VY YD+ ++ I P ET++IG Sbjct: 198 FLPEDYVQSLRDTYPGRLIDAYIDGEFVNLTSDSVYYAYDQRKNSSRE-TIQPGETLYIG 256 Query: 244 QDLNLGYSKALAFIIRNRNLYAVKEWSFEDIGRAPERFRQ-----DFPANPILWYPDNSG 298 QD N+G+ + ++ R +AV E D+ PE R+ + I+ YPD +G Sbjct: 257 QDFNVGHMASTVYVQRGYVWHAVAE--LVDMLDTPEVVREITERWKRHGHHIVMYPDATG 314 Query: 299 KAILGGYVEAADAYRV-----EIVWTGRNPAILDRTFAVNLAFRSNRLHVF-KTLKQWPM 352 K +D ++ EI NPA+ DR +VN A S RL V +T Sbjct: 315 KNRKSTDASTSDIAQLHNAGFEIRAKSVNPAVKDRVASVNKALESGRLMVNEQTCPVTAR 374 Query: 353 ALKTRGYDKKGVAEKGTG 370 LK + YDK G+ +K +G Sbjct: 375 CLKQQAYDKNGIPDKTSG 392 >gi|4548|lcl|protein:vir:94970 Length: 473 # NCBI annotation: putative phage terminase large subunit # Family: family:all:144 # MgeID: mge:1538 # MgeName: Xp15 # Cross-refs: genbank:acc:YP_239275;genbank:gi:66392134;genbank:GeneID :5076615 Length = 473 Score = 34.3 bits (77), Expect = 0.005, Method: Compositional matrix adjust. Identities = 51/221 (23%), Positives = 85/221 (38%), Gaps = 32/221 (14%) Query: 63 DFVKWLIQSGSTYHYDRAQNVITIGRMTFFLLASGRPE-DIY---GTNVHVSLSDEMDEL 118 + +K LI +G Y ++ N T + LA + E DIY G + + DE Sbjct: 75 EMMKGLIDAGDVV-YSKSDNSFTFYNGSRIQLAHSQFENDIYTHQGAQIGFLIIDEATHF 133 Query: 119 EQTKCIEAHRAIQERTRL---VLPDGRKPF--SVFTTTAQGFKGTYQIIEEYKETGTPYA 173 R I+ R RL ++P K + T G G + + + G+ + Sbjct: 134 TPPMI----RFIRSRVRLGSMIIPPKWKALFPRILYTANPGGVGHHYFKSNFVDIGSGHV 189 Query: 174 L-------------VRGKTRDNTAL---DPSYVDRLYALYNENERLAFLEGHFVNLTSGK 217 + K DN + DP Y RL + + A LEG + +++G Sbjct: 190 FQAPEDEGSMLREYIPAKLEDNKVMMETDPDYRARLKGMGDSATVQAMLEGDWEVVSAGG 249 Query: 218 VYPGYDESRHMVDPFDIHPDETIHIGQDLNLGYSKALAFII 258 + + H+V PF I T I + + G SK A+++ Sbjct: 250 IADLWRSKIHVVHPFKI--PHTWKIDRGYDYGSSKPAAYLL 288 >gi|12899|lcl|protein:vir:80432 Length: 510 # NCBI annotation: BcepGomrgp04 # Family: family:all:144 # MgeID: mge:1882 # MgeName: BcepGomr # Cross-refs: genbank:acc:YP_001210224;genbank:gi:146329916;genbank:Ge neID:5123541 Length = 510 Score = 32.3 bits (72), Expect = 0.020, Method: Compositional matrix adjust. Identities = 17/58 (29%), Positives = 30/58 (51%) Query: 177 GKTRDNTALDPSYVDRLYALYNENERLAFLEGHFVNLTSGKVYPGYDESRHMVDPFDI 234 G ++N L P YV L ++ + N+R A+L G + + G + + E H+ F+I Sbjct: 235 GSYKENIYLTPEYVAELESIKDPNKRKAWLHGDWNVVAGGAIDDLWREEVHVKPRFNI 292 >gi|10483|lcl|protein:vir:105297 Length: 446 # NCBI annotation: putative large terminase subunit # Family: family:all:54 # MgeID: mge:1679 # MgeName: PH15 # Cross-refs: genbank:acc:YP_950664;genbank:gi:119967835;genbank:Gene ID:4643176 Length = 446 Score = 30.4 bits (67), Expect = 0.069, Method: Compositional matrix adjust. Identities = 22/67 (32%), Positives = 34/67 (50%), Gaps = 6/67 (8%) Query: 12 QSFSLVA--GYGFGKSTTQDMILSDLANRYWQHDVKVALFSNTIALLKKTVVADFVKWLI 69 + ++VA G G GKS+ +I++ L RY + V V NT+A T V + +KW I Sbjct: 25 EKLNIVAKGGRGSGKSSDISIIITQLIMRYPMNAVVVRKADNTLA----TSVFEQIKWAI 80 Query: 70 QSGSTYH 76 + H Sbjct: 81 EEQKVSH 87 >gi|5891|lcl|protein:vir:107098 Length: 421 # NCBI annotation: putative large terminase subunit # Family: family:all:54 # MgeID: mge:1571 # MgeName: CNPH82 # Cross-refs: genbank:acc:YP_950600;genbank:gi:119953680;genbank:Gene ID:4643107 Length = 421 Score = 30.0 bits (66), Expect = 0.088, Method: Compositional matrix adjust. Identities = 22/67 (32%), Positives = 34/67 (50%), Gaps = 6/67 (8%) Query: 12 QSFSLVA--GYGFGKSTTQDMILSDLANRYWQHDVKVALFSNTIALLKKTVVADFVKWLI 69 + ++VA G G GKS+ +I++ L RY + V V NT+A T V + +KW I Sbjct: 26 EKLNIVAKGGRGSGKSSDISIIITQLIMRYPMNAVVVRKTDNTLA----TSVFEQIKWAI 81 Query: 70 QSGSTYH 76 + H Sbjct: 82 EEQKVSH 88 >gi|4983|lcl|protein:vir:95058 Length: 421 # NCBI annotation: ORF009 # Family: family:all:54 # MgeID: mge:1549 # MgeName: X2 # Cross-refs: genbank:acc:YP_240816;genbank:gi:66394679;genbank:GeneI D:5133852 Length = 421 Score = 30.0 bits (66), Expect = 0.092, Method: Compositional matrix adjust. Identities = 21/67 (31%), Positives = 32/67 (47%), Gaps = 4/67 (5%) Query: 10 EIQSFSLVAGYGFGKSTTQDMILSDLANRYWQHDVKVALFSNTIALLKKTVVADFVKWLI 69 EI + G G GKS+ +I++ L RY + V + NT+A T V + +KW I Sbjct: 26 EILNIVAKGGRGSGKSSDISIIITQLIMRYPMNAVVIRKTDNTLA----TSVFEQIKWAI 81 Query: 70 QSGSTYH 76 + H Sbjct: 82 EEQKVSH 88 >gi|6284|lcl|protein:vir:95890 Length: 421 # NCBI annotation: ORF008 # Family: family:all:54 # MgeID: mge:1588 # MgeName: 71 # Cross-refs: genbank:acc:YP_240381;genbank:gi:66396048;genbank:GeneI D:5133401 Length = 421 Score = 29.3 bits (64), Expect = 0.16, Method: Compositional matrix adjust. Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 4/59 (6%) Query: 18 AGYGFGKSTTQDMILSDLANRYWQHDVKVALFSNTIALLKKTVVADFVKWLIQSGSTYH 76 G G GKS+ +I++ L RY + V + NT+A T V + +KW I+ H Sbjct: 34 GGRGSGKSSDISIIITQLIMRYPMNAVVIRKTDNTLA----TSVFEQIKWAIEEQKVSH 88 >gi|10354|lcl|protein:vir:97448 Length: 421 # NCBI annotation: ORF009 # Family: family:all:54 # MgeID: mge:1676 # MgeName: 92 # Cross-refs: genbank:acc:YP_240743;genbank:gi:66396415;genbank:GeneI D:5133804 Length = 421 Score = 29.3 bits (64), Expect = 0.17, Method: Compositional matrix adjust. Identities = 19/58 (32%), Positives = 29/58 (50%), Gaps = 4/58 (6%) Query: 19 GYGFGKSTTQDMILSDLANRYWQHDVKVALFSNTIALLKKTVVADFVKWLIQSGSTYH 76 G G GKS+ +I++ L RY + V + NT+A T V + +KW I+ H Sbjct: 35 GRGSGKSSDISIIITQLIMRYPMNAVVIRKTDNTLA----TSVFEQIKWAIEEQKVSH 88 >gi|3182|lcl|protein:vir:94499 Length: 421 # NCBI annotation: ORF008 # Family: family:all:54 # MgeID: mge:1508 # MgeName: 88 # Cross-refs: genbank:acc:YP_240671;genbank:gi:66396341;genbank:GeneI D:5133763 Length = 421 Score = 29.3 bits (64), Expect = 0.17, Method: Compositional matrix adjust. Identities = 19/58 (32%), Positives = 29/58 (50%), Gaps = 4/58 (6%) Query: 19 GYGFGKSTTQDMILSDLANRYWQHDVKVALFSNTIALLKKTVVADFVKWLIQSGSTYH 76 G G GKS+ +I++ L RY + V + NT+A T V + +KW I+ H Sbjct: 35 GRGSGKSSDISIIITQLIMRYPMNAVVIRKTDNTLA----TSVFEQIKWAIEEQKVSH 88 >gi|7569|lcl|protein:vir:96300 Length: 421 # NCBI annotation: ORF008 # Family: family:all:54 # MgeID: mge:1612 # MgeName: ROSA # Cross-refs: genbank:acc:YP_240307;genbank:gi:66395973;genbank:GeneI D:5133377 Length = 421 Score = 29.3 bits (64), Expect = 0.17, Method: Compositional matrix adjust. Identities = 19/58 (32%), Positives = 29/58 (50%), Gaps = 4/58 (6%) Query: 19 GYGFGKSTTQDMILSDLANRYWQHDVKVALFSNTIALLKKTVVADFVKWLIQSGSTYH 76 G G GKS+ +I++ L RY + V + NT+A T V + +KW I+ H Sbjct: 35 GRGSGKSSDISIIITQLIMRYPMNAVVIRKTDNTLA----TSVFEQIKWAIEEQKVTH 88 >gi|13692|lcl|protein:vir:4897 Length: 411 # NCBI annotation: gp411 # Family: family:all:54 # MgeID: mge:107 # MgeName: Sfi11 # Cross-refs: genbank:acc:NP_056675;genbank:gi:9635008;genbank:GeneID: 1262679 Length = 411 Score = 26.9 bits (58), Expect = 0.77, Method: Compositional matrix adjust. Identities = 26/99 (26%), Positives = 44/99 (44%), Gaps = 20/99 (20%) Query: 178 KTRDNTALDPSYVDRLYAL------YNENERLAFLEGHFVNLTSGKVYPGYDESRHMVDP 231 K DNT L Y+D + A+ Y+ + + GH+ + G +Y YD H+VD Sbjct: 186 KLDDNTFLSKRYIDSIKAVTPKGKFYDRD-----ILGHWT-VAEGAIYADYDSKIHVVDE 239 Query: 232 FDIHPDETIHIGQDLNLGYSKALAFII----RNRNLYAV 266 P+ + G ++ GY+ + +I + N Y V Sbjct: 240 L---PEMKRYFGG-IDWGYTHYGSIVIVGEGVDNNFYLV 274 >gi|5072|lcl|protein:vir:95130 Length: 531 # NCBI annotation: hypothetical protein ORF006 # Family: family:all:144 # MgeID: mge:1552 # MgeName: PA73 # Cross-refs: genbank:acc:YP_001293413;genbank:gi:148912834;genbank:Ge neID:5228205 Length = 531 Score = 26.6 bits (57), Expect = 1.0, Method: Compositional matrix adjust. Identities = 17/62 (27%), Positives = 28/62 (45%) Query: 175 VRGKTRDNTALDPSYVDRLYALYNENERLAFLEGHFVNLTSGKVYPGYDESRHMVDPFDI 234 + G ++N L SY+ L ++ N R A+L G + G + + H+V F I Sbjct: 249 IFGSYKENPYLPASYIAELESIKEPNLRKAWLYGDWDVTAGGAIDDLWQSHIHVVPRFVI 308 Query: 235 HP 236 P Sbjct: 309 PP 310 >gi|22566|lcl|protein:vir:107279 Length: 1007 # NCBI annotation: gp242 # Family: family:all:11526 # MgeID: mge:1550 # MgeName: Catera # Cross-refs: genbank:acc:YP_656220;genbank:gi:109393421;genbank:GeneI D:4156748 Length = 1007 Score = 26.2 bits (56), Expect = 1.6, Method: Compositional matrix adjust. Identities = 31/131 (23%), Positives = 55/131 (41%), Gaps = 34/131 (25%) Query: 378 CFIGSTLIAT-DKGMVPIRDVQVGDMILT--------RKGYRRAEAAFCSGIKEVR--RY 426 C T + T D VP+ V+ GD ++ + YR + +E++ RY Sbjct: 289 CLAPDTRVLTEDLRWVPVGSVRAGDRLVGFDEHIPGGKGSYRAWRQSIVLSAQEIQAPRY 348 Query: 427 NL---AGHQLVATEEHPVFT---------VNRG---FVPISALMQSDTL--------ITL 463 + +G ++V+T H + NRG PI ++D L + + Sbjct: 349 EIVTESGKRIVSTGAHTWLSRKPAAKGRGKNRGSGALTPILRWWRTDELRPGDEIKTMGV 408 Query: 464 DPWKTNESNQS 474 DPW+T+ES ++ Sbjct: 409 DPWETDESREA 419 >gi|16780|lcl|protein:vir:2731 Length: 411 # NCBI annotation: hypothetical protein # Family: family:all:54 # MgeID: mge:58 # MgeName: O1205 # Cross-refs: genbank:acc:NP_695104;genbank:gi:23455873;genbank:GeneID :955606 Length = 411 Score = 25.0 bits (53), Expect = 3.1, Method: Compositional matrix adjust. Identities = 25/96 (26%), Positives = 40/96 (41%), Gaps = 14/96 (14%) Query: 178 KTRDNTALDPSYVDRLYALYNENERLAFLEGHFVNL---TSGKVYPGYDESRHMVDPFDI 234 K DNT L Y+D + A + F + + L G +Y YD H+VD Sbjct: 186 KLDDNTFLSKRYIDSIKA---ATPKGKFYDRDILGLWTVAEGAIYADYDSKIHVVDEL-- 240 Query: 235 HPDETIHIGQDLNLGYSKALAFII----RNRNLYAV 266 P+ + G ++ GY+ + +I + N Y V Sbjct: 241 -PEMKRYFGG-IDWGYTHYGSIVIVGEGVDNNFYLV 274 Database: capsid_neck_tail Posted date: Nov 7, 2013 12:16 PM Number of letters in database: 206,069 Number of sequences in database: 514 Lambda K H 0.318 0.133 0.403 Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 319,915 Number of Sequences: 514 Number of extensions: 14783 Number of successful extensions: 87 Number of sequences better than 100.0: 19 Number of HSP's better than 100.0 without gapping: 13 Number of HSP's successfully gapped in prelim test: 6 Number of HSP's that attempted gapping in prelim test: 64 Number of HSP's gapped (non-prelim): 21 length of query: 728 length of database: 206,069 effective HSP length: 78 effective length of query: 650 effective length of database: 165,977 effective search space: 107885050 effective search space used: 107885050 T: 11 A: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 41 (20.4 bits)