fasta35 thrT.fasta ss_genome.fasta -O fastares.txt FASTA searches a protein or DNA sequence data bank version 35.02 September 18, 2007 Please cite: W.R. Pearson & D.J. Lipman PNAS (1988) 85:2444-2448 Query: U00096, 76 nt 1>>>U00096 U00096.2 Escherichia coli K12 MG1655, comple 76 nt - 76 nt Library: ss_genome.fasta 3008365 residues in 272 sequences opt E() < 20 0 0: 22 0 0: one = represents 1 library sequences 24 0 0: 26 0 0: 28 0 0: 30 2 0:== 32 1 1:* 34 2 4:== * 36 3 8:=== * 38 24 13:============*=========== 40 14 18:============== * 42 12 23:============ * 44 24 25:========================* 46 44 25:========================*=================== 48 21 24:===================== * 50 13 22:============= * 52 18 19:==================* 54 12 17:============ * 56 12 14:============ * 58 11 11:==========* 60 17 9:========*======== 62 9 7:======*== 64 5 6:=====* 66 9 5:====*==== 68 3 4:===* 70 3 3:==* 72 2 2:=* 74 2 2:=* 76 1 1:* 78 1 1:* 80 4 1:*=== 82 0 1:* 84 0 0: 86 0 0: 88 0 0: 90 0 0: 92 0 0: 94 0 0: 96 0 0: 98 0 0: 100 0 0: 102 0 0: 104 0 0: 106 0 0: 108 0 0: 110 0 0: 112 0 0: 114 1 0:= 116 0 0: 118 0 0: >120 2 0:== 3008365 residues in 272 sequences Statistics: Expectation_n fit: rho(ln(x))= 4.2733+/-0.0363; mu= 13.5475+/- 3.381 mean_var=49.0345+/-22.279, 0's: 0 Z-trim: 3 B-trim: 0 in 0/10 Lambda= 0.183157 Kolmogorov-Smirnov statistic: 0.0485 (N=25) at 58 Algorithm: FASTA (3.5 Sept 2006) [optimized] Parameters: +5/-4 matrix (5:-4) ktup: 6 join: 45, opt: 30, open/ext: -12/-4, width: 16 The best scores are: opt bits E(272) AE006872 AE006641 |AE006872| Sulfolobus solfat (10029) [f] 133 41.5 7.2e-05 AE006699 AE006641 |AE006699| Sulfolobus solfat (10196) [f] 110 35.5 0.0048 AE006646 AE006641 |AE006646| Sulfolobus solfat (7990) [f] 97 31.9 0.055 AE006831 AE006641 |AE006831| Sulfolobus solfat (14785) [r] 76 26.6 2.2 AE006716 AE006641 |AE006716| Sulfolobus solfat (13396) [f] 76 26.6 2.3 AE006849 AE006641 |AE006849| Sulfolobus solfat (12466) [f] 75 26.3 2.8 AE006820 AE006641 |AE006820| Sulfolobus solfat (11818) [f] 74 26.0 3.4 AE006767 AE006641 |AE006767| Sulfolobus solfat (10585) [f] 74 26.0 3.5 AE006859 AE006641 |AE006859| Sulfolobus solfat (11579) [f] 72 25.5 4.9 AE006649 AE006641 |AE006649| Sulfolobus solfat (10967) [r] 71 25.2 6 AE006685 AE006641 |AE006685| Sulfolobus solfat (12384) [r] 70 25.0 6.9 AE006693 AE006641 |AE006693| Sulfolobus solfat (11867) [r] 70 24.9 7 AE006729 AE006641 |AE006729| Sulfolobus solfat (10992) [f] 70 24.9 7.1 AE006848 AE006641 |AE006848| Sulfolobus solfat (14759) [r] 69 24.7 8 AE006839 AE006641 |AE006839| Sulfolobus solfat (13395) [r] 69 24.7 8.2 AE006746 AE006641 |AE006746| Sulfolobus solfat (12740) [r] 67 24.2 12 AE006824 AE006641 |AE006824| Sulfolobus solfat (13389) [f] 66 23.9 14 AE006731 AE006641 |AE006731| Sulfolobus solfat (11579) [f] 66 23.9 14 AE006728 AE006641 |AE006728| Sulfolobus solfat (7728) [f] 66 23.7 16 AE006866 AE006641 |AE006866| Sulfolobus solfat (11353) [r] 65 23.6 17 >>AE006872 AE006641 |AE006872| Sulfolobus solfataricus P (10029 nt) initn: 95 init1: 95 opt: 133 Z-score: 164.4 bits: 41.5 E(): 7.2e-05 banded Smith-Waterman score: 133; 73.2% identity (73.2% similar) in 56 nt overlap (8-61:2107-2162) 10 20 30 U00096 GCTGATATAGCTCAG--TTGGTAGAGCGCACCCTTGG :::::::: : : ::::::: :: ::: AE0068 CTTGTTTTCTTTATGTTTATGATGCCGCGGTAGCTCAGCCTGGCCAGAGCGCTGCCCTGG 2080 2090 2100 2110 2120 2130 40 50 60 70 U00096 TAAGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCA ::::: :::::: :::: :::: AE0068 TAAGGCAGAGGTCCCGGGTTCAAATCCCGGCCGCGGCTCTTGTTACTAAAGAAAGGATAG 2140 2150 2160 2170 2180 2190 >>AE006699 AE006641 |AE006699| Sulfolobus solfataricus P (10196 nt) initn: 50 init1: 50 opt: 110 Z-score: 131.4 bits: 35.5 E(): 0.0048 banded Smith-Waterman score: 110; 69.1% identity (69.1% similar) in 55 nt overlap (8-61:3416-3470) 10 20 30 U00096 GCTGATATAGCTCAG-TTGGTAGAGCGCACCCTTGGT ::::: :: : :::::::::: : : : AE0066 AGTTTTTCGGTTATTGTATATGTGGGCCCGTAGCTTAGCTCGGTAGAGCGCTCGGCTCAT 3390 3400 3410 3420 3430 3440 40 50 60 70 U00096 AAGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCA :: : : :::: : :::: :::: AE0066 AACCGAGTGGTCAGGGGTTCAAATCCCCTCGGGCCCATGAAATTTTTACTTTGAATTTGC 3450 3460 3470 3480 3490 3500 >>AE006646 AE006641 |AE006646| Sulfolobus solfataricus P (7990 nt) initn: 123 init1: 91 opt: 97 Z-score: 114.3 bits: 31.9 E(): 0.055 banded Smith-Waterman score: 97; 78.1% identity (78.1% similar) in 32 nt overlap (8-39:7723-7754) 10 20 30 U00096 GCTGATATAGCTCAGTTGGTAGAGCGCACCCTTGGTA :::::::::::: ::::::: : :: :: AE0066 TCCATTATTAGTATTTTTATCACGCCGGAGTAGCTCAGTTGGCAGAGCGCCCGGCTGTTA 7700 7710 7720 7730 7740 7750 40 50 60 70 U00096 AGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCA : AE0066 TGCCGGGTGCAGAAACCGGGTGGTCGGAGGTTCGAGTCCTCCCTCCGGCGCTATTCTAGA 7760 7770 7780 7790 7800 7810 >>AE006831 AE006641 |AE006831| Sulfolobus solfataricus P (14785 nt) rev-comp initn: 62 init1: 62 opt: 76 Z-score: 80.6 bits: 26.6 E(): 2.2 banded Smith-Waterman score: 76; 60.4% identity (60.4% similar) in 53 nt overlap (68-16:3281-3333) 70 60 50 40 U0009- TGGTGCTGATAGGCAGATTCGAACTGCCGACCTCACCC :: : ::: :::::: :: : :: AE0068 GCTAAACCTACAAAGTATAATAGAAGGGGAATTGCGAGAATCGAACCTCCTCCTCCAATA 3260 3270 3280 3290 3300 3310 30 20 10 U0009- TTACCAAGGGTGCGCTCTACCAACTGAGCTATATCAGC ::: ::: :: ::::::: AE0068 AGACCGAGGCTGAATCCTACCAATATTCCAGAAATGATAGAAAGCAAGTATTGTAATTGA 3320 3330 3340 3350 3360 3370 >>AE006716 AE006641 |AE006716| Sulfolobus solfataricus P (13396 nt) initn: 65 init1: 65 opt: 76 Z-score: 81.2 bits: 26.6 E(): 2.3 banded Smith-Waterman score: 76; 94.1% identity (94.1% similar) in 17 nt overlap (8-24:8403-8419) 10 20 30 U00096 GCTGATATAGCTCAGTTGGTAGAGCGCACCCTTGGTA ::::::::::::: ::: AE0067 ATTTAGACTATAAAGATGTAAAGCCAAAATTAGCTCAGTTGGTTGAGGAGCTGCATAGAA 8380 8390 8400 8410 8420 8430 40 50 60 70 U00096 AGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCA AE0067 ACGTGCCGAGCGGTGTAGGAAGTGAGGGTAAAGTAAAATTGACATATCAGCAATTAGATC 8440 8450 8460 8470 8480 8490 >>AE006849 AE006641 |AE006849| Sulfolobus solfataricus P (12466 nt) initn: 71 init1: 71 opt: 75 Z-score: 80.2 bits: 26.3 E(): 2.8 banded Smith-Waterman score: 75; 73.8% identity (73.8% similar) in 42 nt overlap (3-41:6021-6061) 10 20 U00096 GCTGATATAGCTC-AGTT--GGTAGAGCGCAC : :::: :: :::: : :: :: :::: AE0068 ATGGTCTAAGAAGAGAAATGATATCCTTTATAATATTAATCAAGTTAAGTTAAAG-GCAC 6000 6010 6020 6030 6040 30 40 50 60 70 U00096 CCTTGGTAAGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCA :::: ::::::: AE0068 CCTTAGTAAGGGCTAATATGTTGAGAGATTTCCTAGCATTTAGGGGACATGTTGAGGCAA 6050 6060 6070 6080 6090 6100 >>AE006820 AE006641 |AE006820| Sulfolobus solfataricus P (11818 nt) initn: 110 init1: 55 opt: 74 Z-score: 79.1 bits: 26.0 E(): 3.4 banded Smith-Waterman score: 74; 78.6% identity (78.6% similar) in 28 nt overlap (21-47:2453-2480) 10 20 30 40 U00096 GCTGATATAGCTCAGTTGGTAGAGCGCACCCTTGGTAAGGGT-GAGGTCG :::: ::::::::::: :: ::::: AE0068 ATAACGAAACCCGTTTATTGGGTTGGGGTAAGAGGAGACCCTTGGTAAAAGTGGAGGTGA 2430 2440 2450 2460 2470 2480 50 60 70 U00096 GCAGTTCGAATCTGCCTATCAGCACCA AE0068 TATGAAATGGTTGAAAAGGAATTGGAAGAAAAAGTGTATAAGTCTATAATTAAGACAATA 2490 2500 2510 2520 2530 2540 >>AE006767 AE006641 |AE006767| Sulfolobus solfataricus P (10585 nt) initn: 53 init1: 53 opt: 74 Z-score: 79.8 bits: 26.0 E(): 3.5 banded Smith-Waterman score: 74; 61.2% identity (61.2% similar) in 49 nt overlap (1-49:7107-7155) 10 20 30 U00096 GCTGATATAGCTCAGTTGGTAGAGCGCACC : :::: ::: :: :::: : : AE0067 GCCAGTCTCATTAGACCCATAACTTTTCAAGATGATTTAGGTCTAATGGTGAAATTCGGG 7080 7090 7100 7110 7120 7130 40 50 60 70 U00096 CTTGGTAAGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCA : :::::: : :::::: AE0067 TTAGGTAAGATTAAGGTCGCTGCAACACTTGCGCCAGGGTTGGTAAAAGAGGTATTCATA 7140 7150 7160 7170 7180 7190 >>AE006859 AE006641 |AE006859| Sulfolobus solfataricus P (11579 nt) initn: 70 init1: 45 opt: 72 Z-score: 76.4 bits: 25.5 E(): 4.9 banded Smith-Waterman score: 72; 62.7% identity (62.7% similar) in 51 nt overlap (4-54:1119-1168) 10 20 30 U00096 GCTGATATAGCTCAGTTGGTAGAGCGCACCCTT : :: :: ::: : ::: : : : AE0068 TCGATAAAAACTACTAGAAAGCTCACAATAGGTAAAGGTCATTCAATAGTTACCTCAAAT 1090 1100 1110 1120 1130 1140 40 50 60 70 U00096 GGTAAGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCA ::::::::: :: :::::: AE0068 CCTAAGGGTGAAGT-GGCAGTATTAGATCTATTCAGACTAGAAGGAGGAAAGGAGAGATC 1150 1160 1170 1180 1190 1200 >>AE006649 AE006641 |AE006649| Sulfolobus solfataricus P (10967 nt) rev-comp initn: 53 init1: 53 opt: 71 Z-score: 75.3 bits: 25.2 E(): 6 banded Smith-Waterman score: 71; 73.0% identity (73.0% similar) in 37 nt overlap (44-11:6240-6273) 70 60 50 40 30 20 U0009- GTGCTGATAGGCAGATTCGAACTGCCGACCTCACCCTTACC---AAGGGTGCGCTCTACC ::::::::: : :: :::: ::: : AE0066 CAAAGAGACTTTGTAGACACTATAATTGAATCACCCTTAACTATAACGGTGTGCT---CG 6210 6220 6230 6240 6250 6260 10 U0009- AACTGAGCTATATCAGC ::::::: AE0066 AACTGAGAAACTACGCCTTTCTTGATCTCAATTAAGATCGGATATCCTCTTAATGCACCT 6270 6280 6290 6300 6310 6320 >>AE006685 AE006641 |AE006685| Sulfolobus solfataricus P (12384 nt) rev-comp initn: 45 init1: 45 opt: 70 Z-score: 73.1 bits: 25.0 E(): 6.9 banded Smith-Waterman score: 70; 60.7% identity (60.7% similar) in 56 nt overlap (61-8:9375-9430) 70 60 50 40 U0009- TGGTGCTGATAGGCAGATTCGAACTGCCGACCTCACCCTTACCAA :: : :::: :::::: :: :: AE0066 ATCCCCCTAACCCCACAACGGACCCGCCGGGACTTGAACCCGGGACCTCCGGCTCCGCAG 9350 9360 9370 9380 9390 9400 30 20 10 U0009- GGGTGCGCTC--TACCAACTGAGCTATATCAGC : :::::: : : :::::::: AE0066 GCCGGCGCTCCGTCCTGGCTGAGCTACGGGTCCTCAAAATACTGTAGTCGTAGTTCTATC 9410 9420 9430 9440 9450 9460 >>AE006693 AE006641 |AE006693| Sulfolobus solfataricus P (11867 nt) rev-comp initn: 67 init1: 67 opt: 70 Z-score: 73.4 bits: 24.9 E(): 7 banded Smith-Waterman score: 70; 78.3% identity (78.3% similar) in 23 nt overlap (23-1:3700-3722) 50 40 30 20 10 U0009- CTGCCGACCTCACCCTTACCAAGGGTGCGCTCTACCAACTGAGCTATATCAGC ::: ::::::: :::::::: AE0066 GCAAATTCCCAAGCTTTAACTGGGTCTAAATCTTTAAACTGAGAAATATCAGCTCCAGCT 3670 3680 3690 3700 3710 3720 AE0066 GAAAAGGCCTTTCCAGAACCCGTAAATATAACAACCTTAATTTTATCATTGTCTACAATT 3730 3740 3750 3760 3770 3780 >>AE006729 AE006641 |AE006729| Sulfolobus solfataricus P (10992 nt) initn: 75 init1: 50 opt: 70 Z-score: 73.8 bits: 24.9 E(): 7.1 banded Smith-Waterman score: 70; 78.3% identity (78.3% similar) in 23 nt overlap (27-49:3183-3205) 10 20 30 40 50 U00096 GCTGATATAGCTCAGTTGGTAGAGCGCACCCTTGGTAAGGGTGAGGTCGGCAGTTC : ::: : ::: :::::::::: AE0067 TATCTCATCTCCAGACTATGAAGTATTTTACTCCCCGGTTAAAGGTGAGGTCGTAGACAT 3160 3170 3180 3190 3200 3210 60 70 U00096 GAATCTGCCTATCAGCACCA AE0067 AGTGCGATTTGAAATAGGACGGCCAAATAGGTTCTCTACTATAAATTACGACTATATGAT 3220 3230 3240 3250 3260 3270 >>AE006848 AE006641 |AE006848| Sulfolobus solfataricus P (14759 nt) rev-comp initn: 63 init1: 63 opt: 69 Z-score: 70.6 bits: 24.7 E(): 8 banded Smith-Waterman score: 69; 81.0% identity (81.0% similar) in 21 nt overlap (24-4:1712-1732) 50 40 30 20 10 U0009- ACTGCCGACCTCACCCTTACCAAGGGTGCGCTCTACCAACTGAGCTATATCAGC ::::::: :: :::::: :: AE0068 ATATGGATTCTTAACGTTCTCACCTATCTTCTCTACCCACCCAGCTATTTCGTGACCAAT 1690 1700 1710 1720 1730 1740 AE0068 TATAAACCCGTTAGGAAGTGGCCCTACCAATTCACCACTTAATAGATGTAAATCGCTATG 1750 1760 1770 1780 1790 1800 >>AE006839 AE006641 |AE006839| Sulfolobus solfataricus P (13395 nt) rev-comp initn: 75 init1: 63 opt: 69 Z-score: 71.2 bits: 24.7 E(): 8.2 banded Smith-Waterman score: 69; 81.0% identity (81.0% similar) in 21 nt overlap (24-4:3687-3707) 50 40 30 20 10 U0009- ACTGCCGACCTCACCCTTACCAAGGGTGCGCTCTACCAACTGAGCTATATCAGC :: ::::::: : ::::::: AE0068 AAATTGGTGCTTCAGTAAACCTCCAACTTTCTATACCAACCCAACTATATCCTAGAATTC 3660 3670 3680 3690 3700 3710 AE0068 GGGCTATAGGTTCTATTTTAAGTTCCTTAGCAGCTTTTTCGCTCACTAGTACCAACGCTG 3720 3730 3740 3750 3760 3770 >>AE006746 AE006641 |AE006746| Sulfolobus solfataricus P (12740 nt) rev-comp initn: 55 init1: 55 opt: 67 Z-score: 68.6 bits: 24.2 E(): 12 banded Smith-Waterman score: 67; 88.2% identity (88.2% similar) in 17 nt overlap (17-1:415-431) 40 30 20 10 U0009- ACCTCACCCTTACCAAGGGTGCGCTCTACCAACTGAGCTATATCAGC : ::: ::::::::::: AE0067 CGTTATTGCATTCACATTCCTAGTAGATGGAGCTGGGCTATATCAGCTAAAAATTCTTAA 390 400 410 420 430 440 AE0067 AGACTGTTCATTCGAACCCCTATCAACCCTAGCGTCTAGTATGATTAAGGAAGAAGAGTC 450 460 470 480 490 500 >>AE006824 AE006641 |AE006824| Sulfolobus solfataricus P (13389 nt) initn: 60 init1: 60 opt: 66 Z-score: 66.9 bits: 23.9 E(): 14 banded Smith-Waterman score: 66; 93.3% identity (93.3% similar) in 15 nt overlap (33-47:8077-8091) 10 20 30 40 50 60 U00096 TGATATAGCTCAGTTGGTAGAGCGCACCCTTGGTAAGGGTGAGGTCGGCAGTTCGAATCT :::::::::::: :: AE0068 AGTGCATGTGATAAGGGAAACATTGAAAGGTGGTAAGGGTGAAGTTATAAAAAACCCTAA 8050 8060 8070 8080 8090 8100 70 U00096 GCCTATCAGCACCA AE0068 GGTCTTTATCGATCCGTTATCTGTATTTAAGGAGATTCCGTTTAGAGAGGATATATTAAG 8110 8120 8130 8140 8150 8160 >>AE006731 AE006641 |AE006731| Sulfolobus solfataricus P (11579 nt) initn: 55 init1: 55 opt: 66 Z-score: 67.8 bits: 23.9 E(): 14 banded Smith-Waterman score: 66; 61.9% identity (61.9% similar) in 42 nt overlap (8-49:8338-8379) 10 20 30 U00096 GCTGATATAGCTCAGTTGGTAGAGCGCACCCTTGGTA ::: ::: : : : : : :::::: AE0067 AATCTATAGGTTTAACATCAGATGAAGTAGTAGATCATTATTTTAATCACGTTGTTGGTA 8310 8320 8330 8340 8350 8360 40 50 60 70 U00096 AGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCA ::::: ::: : AE0067 AGGGTTTGGTGGATGCGTTTTACACTTATTTAGGTAAGACTGACTTTAGAATGTCGTTGA 8370 8380 8390 8400 8410 8420 >>AE006728 AE006641 |AE006728| Sulfolobus solfataricus P (7728 nt) initn: 45 init1: 45 opt: 66 Z-score: 70.3 bits: 23.7 E(): 16 banded Smith-Waterman score: 66; 93.3% identity (93.3% similar) in 15 nt overlap (5-19:3678-3692) 10 20 30 U00096 GCTGATATAGCTCAGTTGGTAGAGCGCACCCTTG ::::: ::::::::: AE0067 TAAGGATGTGGTTAAGGATAAAAACTCCATATATATCTCAGTTGGAGGTTTTTTATTCTA 3650 3660 3670 3680 3690 3700 40 50 60 70 U00096 GTAAGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCA AE0067 TTTAACATATTGGATCCTTGTTCTATATCTTTACAAGTATTTACTTAGTGTAGTCGGAAA 3710 3720 3730 3740 3750 3760 >>AE006866 AE006641 |AE006866| Sulfolobus solfataricus P (11353 nt) rev-comp initn: 80 init1: 50 opt: 65 Z-score: 66.5 bits: 23.6 E(): 17 banded Smith-Waterman score: 65; 62.5% identity (62.5% similar) in 40 nt overlap (65-26:2276-2315) 70 60 50 40 U0009- TGGTGCTGATAGGCAGATTCGAACTGCCGACCTCACCCTTA :: : :::: ::: : : :: : AE0068 GAGTAGGGGAGTGGTTCGCTGTAAACTTATGGGATATTCACCCTGACATTTTAACTACTG 2250 2260 2270 2280 2290 2300 30 20 10 U0009- CCAAGGGTGCGCTCTACCAACTGAGCTATATCAGC :::::::::: AE0068 CCAAGGGTGCTTCTGCATCTTACGTCCCAATTGGAATAACTGGAGTAAGTAAAGAGATAG 2310 2320 2330 2340 2350 2360 76 residues in 1 query sequences 3008365 residues in 272 library sequences Scomplib [35.02] start: Sun Oct 7 15:05:35 2007 done: Sun Oct 7 15:05:53 2007 Total Scan time: 0.110 Total Display time: 0.010 Function used was FASTA [version 35.02 September 18, 2007]