Документ взят из кэша поисковой машины. Адрес оригинального документа : http://mouse.genebee.msu.ru/~bennigsen/nhunt_files/ex3/fasta.out Дата изменения: Mon Oct 10 18:48:19 2011 Дата индексирования: Mon Oct 1 19:31:09 2012 Кодировка:

# fasta36 miscRNA.fasta bac.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: miscRNA.fasta
1>>>misc_240777 CU928145.2 Escherichia coli 55989 chromosome, comple - 125 nt
Library: bac.fasta
5419036 residues in 1 sequences

Statistics: (shuffled [454]) MLE statistics: Lambda= 0.1094; K=0.001128
statistics sampled from 37 (37) to 454 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: +5/-4 matrix (5:-4), open/ext: -12/-4
ktup: 3, E-join: 0.25 (1), E-opt: 0.05 (0.946), width: 16
Scan time: 16.830

The best scores are: opt bits E(37)
CP001176 CP001176.1 Bacillus cereus B4264, com (5419036) [f] 133 30.9 0.33
CP001176 CP001176.1 Bacillus cereus B4264, com (5419036) [f] 130 30.5 0.45
CP001176 CP001176.1 Bacillus cereus B4264, com (5419036) [r] 129 30.3 0.5
CP001176 CP001176.1 Bacillus cereus B4264, com (5419036) [f] 119 28.7 1.5
CP001176 CP001176.1 Bacillus cereus B4264, com (5419036) [r] 119 28.7 1.5
CP001176 CP001176.1 Bacillus cereus B4264, com (5419036) [r] 118 28.6 1.6
CP001176 CP001176.1 Bacillus cereus B4264, com (5419036) [f] 118 28.6 1.6

>>CP001176 CP001176.1 Bacillus cereus B4264, complete ge (5419036 nt)
initn: 131 init1: 131 opt: 133 Z-score: 82.2 bits: 30.9 E(37): 0.33
banded Smith-Waterman score: 133; 66.2% identity (66.2% similar) in 68 nt overlap (25-92:1668970-1669037)

10 20 30 40 50
misc_2 ATGTCTGTGGCGAAATTGACTACCTTCGTTTTTTTGATTAAGAATGATTTTATT
:: :::: ::: ::::::: : ::::
CP0011 CACAAAACATGCTTTCCTAATGAAGGCATGTTTTTTTTGTTGTTTAAGAAAAAAAGTATT
1668940 1668950 1668960 1668970 1668980 1668990

60 70 80 90 100 110
misc_2 ATCGTAAGTAAAATTACATGAACATTTAAAAAGGAAAACGACATGAAACCAAAGCACAGA
: ::: : ::: :: : : ::::::::: :::
CP0011 TTTGTATAAATAATCTAATTATTACTTAAAAAGGGAAATTTATTTAGTATAATATATAAT
1669000 1669010 1669020 1669030 1669040 1669050

120
misc_2 ATCAACATTCT

CP0011 ATGTTTATTTTAGGGGGAGTATCATGAGGGGATTAAAAGTTGTTGGAATTATAGCTGGAA
1669060 1669070 1669080 1669090 1669100 1669110

>>CP001176 CP001176.1 Bacillus cereus B4264, complete ge (5419036 nt)
initn: 132 init1: 107 opt: 130 Z-score: 79.6 bits: 30.5 E(37): 0.45
banded Smith-Waterman score: 130; 61.4% identity (61.4% similar) in 101 nt overlap (7-101:540045-540145)

10 20 30
misc_2 ATGTCTGTGGCGAAATTGACTACC--TTCGTTTTTT
:: : :: : :::: : ::::::::::
CP0011 GGGTTAAGAGCGAAGAATGGCTCGAGAAAAGTTGGGATAAAAACTATCAATTCGTTTTTT
540020 540030 540040 540050 540060 540070

40 50 60 70 80 90
misc_2 ----TGATTAAGAATGATTTTATTATCGTAAGTAAAATTACATGAACATTTAAAAAGGAA
: ::: : : ::::::::::: :::::::: : : : : : :: : :
CP0011 GAAGAAAATAATATTCCTTTTATTATCGAAAGTAAAAAAGAAAGTAAAGGTGAACACAGA
540080 540090 540100 540110 540120 540130

100 110 120
misc_2 AACGACATGAAACCAAAGCACAGAATCAACATTCT
:: : ::: :
CP0011 AATAAAATGTACTGGTTACTAAACATGTTAAACTAATGTTCCAAAAAAGTTATCCTTCTA
540140 540150 540160 540170 540180 540190

>>CP001176 CP001176.1 Bacillus cereus B4264, complete ge (5419036 nt)
rev-comp initn: 121 init1: 121 opt: 129 Z-score: 78.8 bits: 30.3 E(37): 0.5
banded Smith-Waterman score: 129; 62.8% identity (62.8% similar) in 78 nt overlap (90-13:2717945-2718022)

120 110 100 90 80 70
misc_- GTTGATTCTGTGCTTTGGTTTCATGTCGTTTTCCTTTTTAAATGTTCATGTAATTTTACT
:: : ::::::::::::: : :::: ::
CP0011 AACGTAAATCCAGTACACAAGAAGAAAGAGTTTCAATTTAAATGTTCATTTTATTTCCCT
2717920 2717930 2717940 2717950 2717960 2717970

60 50 40 30 20 10
misc_- TACGATAATAAAATCATTCTTAATCAAAAAAACGAAGGTAGTCAATTTCGCCACAGACAT
: : :::: : : :: :: :: : ::: ::: :: : : :
CP0011 TTCTTGAATACTACTAATCGTATACATATAAATTCAGGAGGTTACTATATGAAGCATCGT
2717980 2717990 2718000 2718010 2718020 2718030

CP0011 AATATGAGTTCCATCACAGCGAAAACGAAAACACAAAAACTCCAATTCTCTAATAATGAT
2718040 2718050 2718060 2718070 2718080 2718090

>>CP001176 CP001176.1 Bacillus cereus B4264, complete ge (5419036 nt)
initn: 145 init1: 107 opt: 119 Z-score: 70.3 bits: 28.7 E(37): 1.5
banded Smith-Waterman score: 119; 59.4% identity (59.4% similar) in 106 nt overlap (20-122:3163364-3163469)

10 20 30 40
misc_2 ATGTCTGTGGCGAAATTGACTACCTTCGTTTTTTTGATTAAGAATGATT
::: ::: : : : : : :::::
CP0011 TTGATAATTATATTTAGCTTACATTCGATTCTAACTTTAATGTCCTAAATGCAAATGAAC
3163340 3163350 3163360 3163370 3163380 3163390

50 60 70 80 90 100
misc_2 TTATTATCGTAAGTAAAATTACATGAACATTTAAAAAGGAAAACGACATGA--AACCAAA
::: : :::::::: ::: : ::::::: : :: ::::: : ::: ::
CP0011 CAGATATAATTTGTAAAATTGTCGGAATAAGTAAAAAGAATAATGACATAAACAACATAA
3163400 3163410 3163420 3163430 3163440 3163450

110 120
misc_2 GCACA-GAATCAACATTCT
: : :::::: ::
CP0011 CTATAGGAATCACAATCATACAAACTCCATAAACTTTATTATTAACCTTGTTTACTAAAC
3163460 3163470 3163480 3163490 3163500 3163510

>>CP001176 CP001176.1 Bacillus cereus B4264, complete ge (5419036 nt)
rev-comp initn: 139 init1: 96 opt: 119 Z-score: 70.3 bits: 28.7 E(37): 1.5
banded Smith-Waterman score: 119; 70.5% identity (70.5% similar) in 61 nt overlap (88-30:639423-639481)

110 100 90 80 70
misc_- TGATTCTGTGCTTTGGTTTCATGTCGTTTTCCTTTTTAAATGT--TCATGTAATTTTACT
: :::: :::::: : :: :::: ::
CP0011 TGTATTTTGCCCTGAAAACGAGATGATAAGCGTTTTCAAATGTAATAATTGAATTCTA--
639400 639410 639420 639430 639440 639450

60 50 40 30 20 10
misc_- TACGATAATAAAATCATTCTTAATCAAAAAAACGAAGGTAGTCAATTTCGCCACAGACAT
: :: :::::::: : ::::::: ::::
CP0011 AAAGAAAATAAAATAGTGATTAATCAGAAAATTTAGATTAAAACATTTATTCTGATATAA
639460 639470 639480 639490 639500 639510

CP0011 AGAAAATATATTCTATTTACTTTCTCAATATAACATATTGGGAATAAAAATACAAAACGA
639520 639530 639540 639550 639560 639570

>>CP001176 CP001176.1 Bacillus cereus B4264, complete ge (5419036 nt)
rev-comp initn: 131 init1: 83 opt: 118 Z-score: 69.4 bits: 28.6 E(37): 1.6
banded Smith-Waterman score: 118; 65.1% identity (65.1% similar) in 83 nt overlap (82-2:4113370-4113448)

110 100 90 80 70 60
misc_- TGTGCTTTGGTTTCATGTCGTTTTCCTTTTTAAATGTTCATGTAATTTTACTTACGATAA
::: :: : :: ::::: :::: ::
CP0011 TTGCAGCATTGTTTACTATACTAGGTGCAATAACTGCCCTTGGGATTTTCTTTAC--AAA
4113340 4113350 4113360 4113370 4113380 4113390

50 40 30 20 10
misc_- TAAAATCA--TTCTTAATCAAAAAAACGAAGGTAGTCAATTTCGCCACAGACAT
:::: : : : ::::: :::::::: ::: :: :: : : : : ::: :
CP0011 TAAAGTGATGTACTTAAAGAAAAAAACAGAGGAAG--AAGTACTCGAAAGAGAAACGAAA
4113400 4113410 4113420 4113430 4113440 4113450

CP0011 AAACATTTTCGTATAGAGGATTTTGATGCTCTTCATAAAGAAGAAATTCATATCCCTTCA
4113460 4113470 4113480 4113490 4113500 4113510

>>CP001176 CP001176.1 Bacillus cereus B4264, complete ge (5419036 nt)
initn: 173 init1: 101 opt: 118 Z-score: 69.4 bits: 28.6 E(37): 1.6
banded Smith-Waterman score: 118; 64.9% identity (64.9% similar) in 77 nt overlap (36-106:2138309-2138385)

10 20 30 40 50 60
misc_2 TGTGGCGAAATTGACTACCTTCGTTTTTTTGATTAAGAATGATTTTATTATCGTAAGTAA
: ::::: ::::: ::::::: :: :::
CP0011 ACGTGATATTAATTTAGAGGCTGTAATGAAGCTTAAGCCAGATTTAATTATCGGAAATAA
2138280 2138290 2138300 2138310 2138320 2138330

70 80 90 100 110
misc_2 AAT--TACATG----AACATTTAAAAAGGAAAACGACATGAAACCAAAGCACAGAATCAA
::: :::: :: :: : : :: ::: :: :: :::::
CP0011 AATGCGTCATGAAAAAATATATGATCAGCTAAAAGAAATCGCACCAACTGTTTATGCAGA
2138340 2138350 2138360 2138370 2138380 2138390

120
misc_2 CATTCT

CP0011 AACATTACGCGGTGATTGGAAAGAAAACTTTACACTTTATACAAAAGCTGTAAATAAAGA
2138400 2138410 2138420 2138430 2138440 2138450



125 residues in 1 query sequences
5419036 residues in 1 library sequences
Tcomplib [36.3.5a Jun, 2011(preload8)] (4 proc in memory [0G])
start: Mon Oct 10 18:41:50 2011 done: Mon Oct 10 18:41:54 2011
Scan time: 16.830 Display time: 0.140

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