Документ взят из кэша поисковой машины. Адрес оригинального документа : http://mouse.genebee.msu.ru/~bennigsen/nhunt_files/ex2/fasta.out Дата изменения: Mon Oct 10 18:49:45 2011 Дата индексирования: Mon Oct 1 19:30:39 2012 Кодировка:

# fasta36 rRNA16_part.fasta arch.fasta 3
FASTA searches a protein or DNA sequence data bank
version 36.3.5a Jun, 2011(preload8)
Please cite:
W.R. Pearson & D.J. Lipman PNAS (1988) 85:2444-2448

Query: rRNA16_part.fasta
1>>>NC_000913.2 NC_000913.2 Escherichia coli str. K-12 substr. MG1655 chromosome, compl - 300 nt
Library: arch.fasta
10953209 residues in 5 sequences

Statistics: (shuffled [110]) MLE statistics: Lambda= 0.1515; K=0.01707
statistics sampled from 27 (27) to 110 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: +5/-4 matrix (5:-4), open/ext: -12/-4
ktup: 3, E-join: 0.25 (0.627), E-opt: 0.05 (0.193), width: 16
Scan time: 25.460

The best scores are: opt bits E(75)
AE009441 AE009441.1 Pyrobaculum aerophilum str (2222430) [f] 402 96.2 3.7e-20
AE006641 AE006641.1 Sulfolobus solfataricus P2 (2992245) [f] 390 93.5 2.3e-19
AE000782 AE000782.1 Archaeoglobus fulgidus DSM (2178400) [r] 372 89.6 3.5e-18
AE004437 AE004437.1 Halobacterium sp. NRC-1, c (2014239) [f] 315 77.1 2e-14
AE017261 AE017261.1 Picrophilus torridus DSM 9 (1545895) [r] 307 75.4 6.6e-14
AE017261 AE017261.1 Picrophilus torridus DSM 9 (1545895) [r] 104 31.0 1.5
AE009441 AE009441.1 Pyrobaculum aerophilum str (2222430) [f] 103 30.8 1.7

>>AE009441 AE009441.1 Pyrobaculum aerophilum str. IM2, c (2222430 nt)
initn: 382 init1: 382 opt: 402 Z-score: 427.8 bits: 96.2 E(75): 3.7e-20
banded Smith-Waterman score: 402; 64.1% identity (64.1% similar) in 234 nt overlap (68-300:1090800-1091033)

40 50 60 70 80 90
NC_000 TAAAGTTAATACCTTTGCTCATTGACGTTACCCGCAGAAGAAGCACCGGCTAACTC-CGT
:: : ::: :::: :: :: :: ::
AE0094 AAGAGCCCGGCTTTTGCCCGGTCTAAAACGCCGGGCGAATAAGCGGGGGGCAAGTCTGGT
1090770 1090780 1090790 1090800 1090810 1090820

100 110 120 130 140 150
NC_000 GCCAGCAGCCGCGGTAATACGGAGGGTGCAAGCGTTAATCGGAATTACTGGGCGTAAAGC
: :::: ::::::::::::: :: :: : : : ::::::::: ::::::
AE0094 GTCAGCCGCCGCGGTAATACCAGCTCCGCGAGTGGTCGGGGTGTTTACTGGGCTTAAAGC
1090830 1090840 1090850 1090860 1090870 1090880

160 170 180 190 200 210
NC_000 GCACGCAGGCGGTTTGTTAAGTCAGATGTGAAATCCCCGGGCTCAACCTGGGAACTGCAT
:: :: :: ::: : ::::: :::::::::::::::::::: ::: : :
AE0094 GCCCGTAGCCGGCCCGGCAAGTCGCTCCTGAAATCCCCGGGCTCAACCCGGGGGCGGGGG
1090890 1090900 1090910 1090920 1090930 1090940

220 230 240 250 260 270
NC_000 CTGATACTGGCAAGCTTGAGTCTCGTAGAGGGGGGTAGAATTCCAGGTGTAGCGGTGAAA
::::::: : ::: : : : ::::: : : : ::: :: :::: :: ::::
AE0094 GCGATACTGCCGGGCTAGGGGGCGGGAGAGGCCGCCGGTACTCCGGGGGTAGGGGCGAAA
1090950 1090960 1090970 1090980 1090990 1091000

280 290 300
NC_000 TGCGTAGAGATCTGGAGGAATACC
: ::: : : :::::: :::
AE0094 TCCGTTAATCCCCGGAGGACCACCAGTGGCGAAAGCGGGCGGCCAGAACGCGCCCGACGG
1091010 1091020 1091030 1091040 1091050 1091060

>>AE006641 AE006641.1 Sulfolobus solfataricus P2, comple (2992245 nt)
initn: 373 init1: 373 opt: 390 Z-score: 413.6 bits: 93.5 E(75): 2.3e-19
banded Smith-Waterman score: 390; 64.0% identity (64.0% similar) in 228 nt overlap (74-300:872124-872351)

50 60 70 80 90 100
NC_000 TAATACCTTTGCTCATTGACGTTACCCGCAGAAGAAGCACCGGCTAACTC-CGTGCCAGC
::: :::: :: :: :: ::: ::::
AE0066 GGAGCTTTTCCCCGCTCTACAAAGGCGGGGGAATAAGCGGGGGGCAAGTCTGGTGTCAGC
872100 872110 872120 872130 872140 872150

110 120 130 140 150 160
NC_000 AGCCGCGGTAATACGGAGGGTGCAAGCGTTAATCGGAATTACTGGGCGTAAAGCGCACGC
::::::::::::: :: :: : : ::::::::: :::::::: ::
AE0066 CGCCGCGGTAATACCAGCCCCGCGAGTGGTCGGGACTCTTACTGGGCCTAAAGCGCCCGT
872160 872170 872180 872190 872200 872210

170 180 190 200 210 220
NC_000 AGGCGGTTTGTTAAGTCAGATGTGAAATCCCCGGGCTCAACCTGGGAACTGCATCTGATA
:: ::: : :::::: : ::: ::: ::::::::: ::: : :: :::::
AE0066 AGCCGGCCCGACAAGTCACTCCTTAAAGACCCCGGCTCAACCGGGGGAATGGGGGTGATA
872220 872230 872240 872250 872260 872270

230 240 250 260 270 280
NC_000 CTGGCAAGCTTGAGTCTCGTAGAGGGGGGTAGAATTCCAGGTGTAGCGGTGAAATGCGTA
::: : ::: : : : ::::: : : : ::: :: :::: :: ::::: : :
AE0066 CTGTCGGGCTAGGGGGCGGGAGAGGCCAGCGGTACTCCCGGAGTAGGGGCGAAATCCTCA
872280 872290 872300 872310 872320 872330

290 300
NC_000 GAGATCTGGAGGAATACC
:: :: :::::: :::
AE0066 GATCTCGGGAGGACCACCAGTGGCGAAAGCGGCTGGCTAGAACGCGCCCGACGGTGAGGG
872340 872350 872360 872370 872380 872390

>>AE000782 AE000782.1 Archaeoglobus fulgidus DSM 4304, c (2178400 nt)
rev-comp initn: 366 init1: 228 opt: 372 Z-score: 392.4 bits: 89.6 E(75): 3.5e-18
banded Smith-Waterman score: 372; 63.2% identity (63.2% similar) in 234 nt overlap (300-69:1789805-1790038)

300 290 280
NC_00- GGTATTCCTCCAGATCTCTACGCATTTCAC
::: :::::: : : : :::::::
AE0007 GACCCGTTCCAGCCGGGCGCCTTCGCCACAGGTGGTCCTCCCGGGATTACAGGATTTCAC
1789780 1789790 1789800 1789810 1789820 1789830

270 260 250 240 230 220
NC_00- CGCTACACCTGGAATTCTACCCCCCTCTACGAGACTCAAGCTTGCCAGTAT-CAGATGCA
: :::: :: ::::: : :: ::::: : : : : :: :: :::::: : :::
AE0007 CCCTACTCCGGGAATACCCCCGGCCTCTCCCGGTCCCTAGGCTGGCAGTATCCTCCGGCA
1789840 1789850 1789860 1789870 1789880 1789890

210 200 190 180 170 160
NC_00- GTTCCCAGGTTGAGCCCGGGGATTTCACATCTGACTTAACAAACCGCCTGCGTGCGCTTT
:: :::: :::: :::::: : :::::: :: ::: :: :: ::::::
AE0007 GTCTGACGGTTAAGCCGCCAGATTTCCCGGAGGACTTACCAGCCCGGCTACGGACGCTTT
1789900 1789910 1789920 1789930 1789940 1789950

150 140 130 120 110 100
NC_00- ACGCCCAGTAATTCCGATTAACGCTTGCACCCTCCGTATTACCGCGGCTGCTGGCA-CGG
: ::::: ::: : : :: : :: : ::::::::::::: :::: :: :::
AE0007 AGGCCCAATAAAAGTGGCCGCCACTCGGGCCGCCGGTATTACCGCGGCGGCTGCCACCGG
1789960 1789970 1789980 1789990 1790000 1790010

90 80 70 60 50 40
NC_00- AGTTAGCCGGTGCTTCTTCTGCGGGTAACGTCAATGAGCAAAGGTATTAACTTTACTCCC
:: :::: ::: : :: ::
AE0007 CCTTGCCCGGCCCTTGCTGTGGGGTGCTTTTTAGGCACCCCGACAGCCCGCGCGATGCGC
1790020 1790030 1790040 1790050 1790060 1790070

>>AE004437 AE004437.1 Halobacterium sp. NRC-1, complete (2014239 nt)
initn: 226 init1: 226 opt: 315 Z-score: 325.0 bits: 77.1 E(75): 2e-14
banded Smith-Waterman score: 315; 61.8% identity (61.8% similar) in 225 nt overlap (74-296:1875935-1876158)

50 60 70 80 90 100
NC_000 TAATACCTTTGCTCATTGACGTTACCCGCAGAAGAAGCACCGGCTAACTCC-GTGCCAGC
::: ::: :: :: :: :: ::::::::
AE0044 TTCACTTTTGTACACCGTAAGGTGGTGCACGAATAAGGACTGGGCAAGACCGGTGCCAGC
1875910 1875920 1875930 1875940 1875950 1875960

110 120 130 140 150 160
NC_000 AGCCGCGGTAATACGGAGGGTGCAAGCGTTAATCGGAATTACTGGGCGTAAAGCGCACGC
::::::::::::: : :: : :: : : :: ::: ::::: ::::::: ::
AE0044 CGCCGCGGTAATACCGGCAGTCCGAGTGATGGCCGATCTTATTGGGCCTAAAGCGTCCGT
1875970 1875980 1875990 1876000 1876010 1876020

170 180 190 200 210 220
NC_000 AGGCGGTTTGTTAAGTCAGATGTGAAATCCCCGGGCTCAACCTG-GGAACTGCATCTGAT
:: :: : ::::: : :: :::::: ::: ::: : : : :: : ::
AE0044 AGCTGGCTGAACAAGTCCGTTGGGAAATCTGTCCGCTTAACGGGCAGGCGTCCAGCGGAA
1876030 1876040 1876050 1876060 1876070 1876080

230 240 250 260 270 280
NC_000 ACTGGCAAGCTTGAGTCTCGTAGAGGGGGGTAGAATTCCAGGTGTAGCGGTGAAATGCGT
:::: :::::: : : : ::: : : : : : :: :::: ::::::: : :
AE0044 ACTGTTCAGCTTGGGACCGGAAGACCTGAGGGGTACGTCTGGGGTAGGAGTGAAAT-CCT
1876090 1876100 1876110 1876120 1876130 1876140

290 300
NC_000 AGAGATCTGGAGGAATACC
: ::::: : :
AE0044 GTAATCCTGGACGGACCGCCGGTGGCGAAAGCGCCTCAGGAGAACGGATCCGACAGTGAG
1876150 1876160 1876170 1876180 1876190 1876200

>>AE017261 AE017261.1 Picrophilus torridus DSM 9790, com (1545895 nt)
rev-comp initn: 277 init1: 277 opt: 307 Z-score: 315.6 bits: 75.4 E(75): 6.6e-14
banded Smith-Waterman score: 307; 62.2% identity (62.2% similar) in 230 nt overlap (300-74:471531-471758)

300 290 280
NC_00- GGTATTCC-TCCAGATCTCTACGCATTTCA
::: ::: ::::: : : : :::: :
AE0172 GATCCGTTCTAGTTGAACGCCTTCGCTACCGGTCGTCCTTCCAGGATTACA-GGATTTTA
471510 471520 471530 471540 471550

270 260 250 240 230 220
NC_00- CCGCTACACCTGGAA-TTCTACCCCCCTCTACGAGACTCAAGCTTGCCAGTATCAGATGC
:: :::: :::: :: : : : :: : : : : ::::::: :::: :: :
AE0172 CCCCTAC-CCTGAAAGTACGTTCAACCCCACCCGGTCCCAAGCTTTGCAGTCTCTCCAGG
471560 471570 471580 471590 471600 471610

210 200 190 180 170 160
NC_00- AGTTCCCAGGTTGAGCCCGGGGATTTCACATCTGACTTAACAAACCGCCTGCGTGCGCTT
:: :: : ::: ::: : : :::: : :: ::: :: ::: :: :: :::::
AE0172 AGATCTAACGTTAAGCGCTAGAATTTACCTGGAGATTTACAAAGCCGGCTACGAACGCTT
471620 471630 471640 471650 471660 471670

150 140 130 120 110 100
NC_00- TACGCCCAGTAATTCCGATTAACGCTTGCACCCTCCGTATTACCGCGGCTGCTGGCA-CG
:: :: :::::: :: : : :::: : :: :::::::::: ::::::: :
AE0172 TAGGCTCAGTAAAAGTGACCACCACTTGAGCTGCGGGTGTTACCGCGGCGGCTGGCACCC
471680 471690 471700 471710 471720 471730

90 80 70 60 50 40
NC_00- GAGTTAGCCGGTGCTTCTTCTGCGGGTAACGTCAATGAGCAAAGGTATTAACTTTACTCC
: ::: :: : ::: :::
AE0172 GTCTTACCCAGCCCTTATTCCTTATGCTTTTTAGGCATAAGAAAAGTCTTGGCTTTTGCC
471740 471750 471760 471770 471780 471790

>>AE017261 AE017261.1 Picrophilus torridus DSM 9790, com (1545895 nt)
rev-comp initn: 100 init1: 100 opt: 104 Z-score: 75.7 bits: 31.0 E(75): 1.5
banded Smith-Waterman score: 104; 65.6% identity (65.6% similar) in 61 nt overlap (67-9:415807-415867)

90 80 70 60 50 40
NC_00- CACGGAGTTAGCCGGTGCTTCTTCTGCGGGTAACGTCAATGAGCAAAGGTATTAACTTTA
:::: : : :: :::: ::: :: :::
AE0172 CATCAAAGACAAAAACATCCTCGGGATTATTAACATTGAAGATCAAAACTATAAATCTTA
415780 415790 415800 415810 415820 415830

30 20 10
NC_00- CTCCCTTCCTCCCCGC--TGAAAGTACTTTACAACCCGA
:: ::: :::: :: :: :::: :: :
AE0172 TACCATTCTTCCCTGCTATGTAAGTTTTTAAGCCTGCCAGGTTCCTTTTTGAATAGTATG
415840 415850 415860 415870 415880 415890

AE0172 CAGGCATGGTGTTTAAAACATGGCCTGGAAGGAATATTCTGTCCCTTGCAGATGAGTTGG
415900 415910 415920 415930 415940 415950

>>AE009441 AE009441.1 Pyrobaculum aerophilum str. IM2, c (2222430 nt)
initn: 93 init1: 93 opt: 103 Z-score: 74.5 bits: 30.8 E(75): 1.7
banded Smith-Waterman score: 103; 66.0% identity (66.0% similar) in 53 nt overlap (197-249:97796-97848)

170 180 190 200 210 220
NC_000 GGTTTGTTAAGTCAGATGTGAAATCCCCGGGCTCAACCTGGGAACTGCATCTGATACTGG
: :: :: ::: ::: : :::::: :
AE0094 ATCTCAAAAAGAGGATTGAAAGATTTTTCAGTTCTCCCGCCGAAGTGCTTGAGATACTCG
97770 97780 97790 97800 97810 97820

230 240 250 260 270 280
NC_000 CAAGCTTGAGTCTCGTAGAGGGGGGTAGAATTCCAGGTGTAGCGGTGAAATGCGTAGAGA
::: : ::: :::: : :: ::
AE0094 CAACCGTGAATCTCAAAAAGAGGATTGAAAGCTAGACGGAACTCTCACCAGCTCCTCCTC
97830 97840 97850 97860 97870 97880



300 residues in 1 query sequences
10953209 residues in 5 library sequences
Tcomplib [36.3.5a Jun, 2011(preload8)] (4 proc in memory [0G])
start: Mon Oct 10 17:16:26 2011 done: Mon Oct 10 17:16:33 2011
Scan time: 25.460 Display time: 0.210

Function used was FASTA [36.3.5a Jun, 2011(preload8)]