fasta35 thrV.fasta pf_genome.fasta 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 ntf35.txt Library: pf_genome.fasta 1918246 residues in 173 sequences opt E() < 20 0 0: 22 0 0: one = represents 2 library sequences 24 0 0: 26 0 0: 28 0 0: 30 1 1:* 32 2 3:=* 34 0 7: * 36 14 15:=======* 38 52 25:============*============= 40 22 34:=========== * 42 42 42:====================* 44 61 46:======================*======== 46 35 47:================== * 48 32 45:================ * 50 48 41:====================*=== 52 30 36:=============== * 54 36 31:===============*== 56 22 26:=========== * 58 20 21:==========* 60 13 17:======= * 62 11 14:======* 64 16 11:=====*== 66 14 9:====*== 68 7 7:===* 70 4 5:==* 72 3 4:=* 74 3 3:=* 76 3 3:=* 78 3 2:*= 80 0 2:* 82 3 1:*= 84 1 1:* 86 1 1:* 88 0 1:* 90 0 0: 92 1 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 0 0: 116 0 0: 118 0 0: >120 0 0: 1918246 residues in 173 sequences Statistics: (shuffled [500]) Expectation_n fit: rho(ln(x))= 3.5390+/-0.0282; mu= 22.0921+/- 2.647 mean_var=67.3361+/-29.136, 0's: 0 Z-trim: 0 B-trim: 0 in 0/16 Lambda= 0.156297 Kolmogorov-Smirnov statistic: 0.0437 (N=26) at 44 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(173) AE010257 AE009950 |AE010257| Pyrococcus furios (14506) [f] 149 41.9 3.6e-05 AE010241 AE009950 |AE010241| Pyrococcus furios (13004) [f] 138 39.3 0.00021 AE010198 AE009950 |AE010198| Pyrococcus furios (14484) [r] 133 38.3 0.00044 AE010148 AE009950 |AE010148| Pyrococcus furios (14913) [r] 96 29.9 0.14 AE010191 AE009950 |AE010191| Pyrococcus furios (10257) [f] 79 25.9 2.4 AE010263 AE009950 |AE010263| Pyrococcus furios (11081) [r] 78 25.7 2.7 AE010179 AE009950 |AE010179| Pyrococcus furios (13617) [r] 76 25.4 3.3 AE010244 AE009950 |AE010244| Pyrococcus furios (10692) [f] 76 25.2 3.7 AE010254 AE009950 |AE010254| Pyrococcus furios (13034) [f] 75 25.1 3.9 AE010209 AE009950 |AE010209| Pyrococcus furios (12355) [r] 72 24.4 6.4 >>AE010257 AE009950 |AE010257| Pyrococcus furiosus DSM 3 (14506 nt) initn: 141 init1: 116 opt: 149 Z-score: 163.3 bits: 41.9 E(): 3.6e-05 banded Smith-Waterman score: 149; 78.8% identity (78.8% similar) in 52 nt overlap (19-69:9586-9637) 10 20 30 40 U00096 TGGTGCTGATACCCAGAGTCGAACTGGGGACCTCACCCTTACCAAGGG : :::: ::::::: : ::::::::: : AE0102 TTATTAAAAACATGGAGCCCCGGCCGGGCTTTGAACCCGGGACCTGCCGCTTACCAAGCG 9560 9570 9580 9590 9600 9610 50 60 70 U00096 TGCGCTCTACCA-ACTGAGCCATATCAGC :::::::::: :::::::: AE0102 GCCGCTCTACCAGGCTGAGCCACCGGGGCATTGTCGGAGTTTTCTCGCTCGAGAGGATAT 9620 9630 9640 9650 9660 9670 >>AE010241 AE009950 |AE010241| Pyrococcus furiosus DSM 3 (13004 nt) initn: 77 init1: 77 opt: 138 Z-score: 150.4 bits: 39.3 E(): 0.00021 banded Smith-Waterman score: 138; 66.7% identity (66.7% similar) in 69 nt overlap (1-69:2275-2343) 10 20 30 U00096 TGGTGCTGATACCCAGAGTCGAACTGGGGA ::: :: : ::: :: :::::: ::::: AE0102 CTGACCAGGCTGAGCTACGGGCCCACTTACTGGCGCCGCCGCCCGGATTCGAACCGGGGA 2250 2260 2270 2280 2290 2300 40 50 60 70 U00096 CCTCACCCTTACCAAGGGTGCGCTCTACCAACTGAGCCATATCAGC :: : ::: :: :::::: :::: :: ::: : AE0102 CCGCCGGATTAACAGTCCGGCGCTCCACCAGCTAAGCTACGGCGGCTCGCCCAAAAGATA 2310 2320 2330 2340 2350 2360 AE0102 TCCATTGCTATCAATTTATAAATGTTACGGTTCACTTTAAAACTCTTCGTGATAGAGGCA 2370 2380 2390 2400 2410 2420 >>AE010198 AE009950 |AE010198| Pyrococcus furiosus DSM 3 (14484 nt) rev-comp initn: 134 init1: 109 opt: 133 Z-score: 143.8 bits: 38.3 E(): 0.00044 banded Smith-Waterman score: 133; 77.4% identity (77.4% similar) in 53 nt overlap (69-19:2463-2515) 70 60 50 U0009- GCTGATATGGCTCAG-TTGGT-AGAGCGCACCCTTGG :::::::: :::: ::::::: : : :: AE0101 AAATCCCGGCCGGGGCACCAAATGGGCCCGTGGCTCAGCCTGGTCAGAGCGCCCGCCTGA 2440 2450 2460 2470 2480 2490 40 30 20 10 U0009- TAAGGGTGAGGTCCCCAGTTCGACTCTGGGTATCAGCACCA :::: : ::::::: :::::: AE0101 TAAGCGGGAGGTCCGGGGTTCGAAGCCCCGCGGGCCCACCATAATTCTTCTAAAAACTTA 2500 2510 2520 2530 2540 2550 >>AE010148 AE009950 |AE010148| Pyrococcus furiosus DSM 3 (14913 nt) rev-comp initn: 87 init1: 62 opt: 96 Z-score: 98.6 bits: 29.9 E(): 0.14 banded Smith-Waterman score: 96; 66.7% identity (66.7% similar) in 48 nt overlap (59-12:5872-5919) 70 60 50 40 U0009- GCTGATATGGCTCAGTTGGTAGAGCGCACCCTTGGTAAGGGTGAGGT : ::: :::: : : :::: ::::: AE0101 ATTTTCGGATGCGGGCCCGTAGCCTAGCAGGATAGGGCGCCGGCCTTCTAAGCCGGAGGT 5850 5860 5870 5880 5890 5900 30 20 10 U0009- CCCCAGTTCGACTCTGGGTATCAGCACCA ::: :::::: :: :: AE0101 CCCGGGTTCGAATCCCGGCGGGCCCGCCAACTACTTTTGCTCTATTTTCAAGATATAGAA 5910 5920 5930 5940 5950 5960 >>AE010191 AE009950 |AE010191| Pyrococcus furiosus DSM 3 (10257 nt) initn: 61 init1: 61 opt: 79 Z-score: 79.5 bits: 25.9 E(): 2.4 banded Smith-Waterman score: 79; 82.6% identity (82.6% similar) in 23 nt overlap (37-59:6095-6117) 10 20 30 40 50 60 U00096 TGATACCCAGAGTCGAACTGGGGACCTCACCCTTACCAAGGGTGCGCTCTACCAACTGAG ::: ::: ::::::: :::::: AE0101 AAGCATATGTGGGCCTGCGAGCGTGCTTCTCCTATCCATGGGTGCGATCTACCTTAGAAA 6070 6080 6090 6100 6110 6120 70 U00096 CCATATCAGC AE0101 GCGTAATTATTCAACAGAAGTGTCCAGTAATGTATAAAAAGATAAAAACTGATTTATCAT 6130 6140 6150 6160 6170 6180 >>AE010263 AE009950 |AE010263| Pyrococcus furiosus DSM 3 (11081 nt) rev-comp initn: 45 init1: 45 opt: 78 Z-score: 78.0 bits: 25.7 E(): 2.7 banded Smith-Waterman score: 78; 81.5% identity (81.5% similar) in 27 nt overlap (41-15:9943-9968) 70 60 50 40 30 20 U0009- TATGGCTCAGTTGGTAGAGCGCACCCTTGGTAAGGGTGAGGTCCCCAGTTCGACTCTGGG ::::: : : :::::::: :: ::::: AE0102 TCGTTCTATCGTACTTCATGAATTTCTCCTTAAGGCTCATGTCCCCAG-TCCACTCTACA 9920 9930 9940 9950 9960 9970 10 U0009- TATCAGCACCA AE0102 AGAGCTCTCGCAATTGCCATTCTTGCTGCTTCGGCTTGTCCCATGAATCCTCCGCCTTCT 9980 9990 10000 10010 10020 10030 >>AE010179 AE009950 |AE010179| Pyrococcus furiosus DSM 3 (13617 nt) rev-comp initn: 53 init1: 53 opt: 76 Z-score: 74.6 bits: 25.4 E(): 3.3 banded Smith-Waterman score: 76; 64.3% identity (64.3% similar) in 56 nt overlap (66-14:12666-12721) 70 60 50 U0009- GCTGATATGGCTCAGTTGGTAGAGCGCACCC-TTG--GTA :::: :: : :: : : ::: :: ::: AE0101 AATCCCGGTTATGTTGTAGGGTACGTCCCTCTCACTTTGAAGCCCTCCCCCAATGAAGTA 12640 12650 12660 12670 12680 12690 40 30 20 10 U0009- AGGGTGAGGTCCCCAGTTCGACTCTGGGTATCAGCACCA :::::::: : : : :::::: AE0101 TGGGTGAGGAGCATTGGCCCACTCTGATTCCGTCAAGTTAAGGTATGCAAGTGCTACTGA 12700 12710 12720 12730 12740 12750 >>AE010244 AE009950 |AE010244| Pyrococcus furiosus DSM 3 (10692 nt) initn: 60 init1: 60 opt: 76 Z-score: 75.7 bits: 25.2 E(): 3.7 banded Smith-Waterman score: 76; 61.5% identity (61.5% similar) in 65 nt overlap (12-74:1821-1885) 10 20 30 40 U00096 TGGTGCTGATACCCAGAGTCGAACTGGGGACCTCACCCTTA :: ::: :::::::::::: :: : AE0102 TCAAATAGCAAAAGTAGTTTACAACAACCTCCTCGAGAGGAACTGGGGACCAATTCCAAA 1800 1810 1820 1830 1840 1850 50 60 70 U00096 -CCAAGGGTGCGCTCTACCAACTGAGCCAT-ATCAGC ::: :: : : :::: : : : :: :::: AE0102 GCCATGGCCTGGATATACCGAGTACGGAATCATCAAGTACGAATACAACATTGCTAAAGC 1860 1870 1880 1890 1900 1910 AE0102 CAAGCAAATGTTACAAGAAGCAGGAGTTGATCCAAGTAAGTATTCAATAACCCTCATCTA 1920 1930 1940 1950 1960 1970 >>AE010254 AE009950 |AE010254| Pyrococcus furiosus DSM 3 (13034 nt) initn: 96 init1: 66 opt: 75 Z-score: 73.6 bits: 25.1 E(): 3.9 banded Smith-Waterman score: 75; 69.2% identity (69.2% similar) in 39 nt overlap (5-43:6042-6077) 10 20 30 U00096 TGGTGCTGATACCCAGAGTCGAACTGGGGACCTC ::::: : :: : ::: : :::::: AE0102 GCCGAGGAAAGTGGGAGAAATGCCACTATAGCTGAGA---AGTTTATAACAGAAGACCTC 6020 6030 6040 6050 6060 40 50 60 70 U00096 ACCCTTACCAAGGGTGCGCTCTACCAACTGAGCCATATCAGC : ::::::: AE0102 AGCCTTACCCCAGAAGAAGCTCTAAAGTATGGAGTTATTGAAGTCATAGCAAGAGATGTC 6070 6080 6090 6100 6110 6120 >>AE010209 AE009950 |AE010209| Pyrococcus furiosus DSM 3 (12355 nt) rev-comp initn: 82 init1: 66 opt: 72 Z-score: 70.2 bits: 24.4 E(): 6.4 banded Smith-Waterman score: 72; 74.1% identity (74.1% similar) in 27 nt overlap (57-31:10258-10284) 70 60 50 40 30 U0009- GCTGATATGGCTCAGTTGGTAGAGCGCACCCTTGGTAAGGGTGAGGTCC :::::::: :::::: : :::: : AE0102 TTCTTCATCAATGGGTGAGCTGAAGAGTTATAGAGCGCGCCCTTGCTCTCCGTGAAGAGA 10230 10240 10250 10260 10270 10280 20 10 U0009- CCAGTTCGACTCTGGGTATCAGCACCA AE0102 ATTCCCTCTTGTCCAAAGGAGAAGTTTCTATCAAGAACGGCTATTCCCTTAACGCTCTCC 10290 10300 10310 10320 10330 10340 76 residues in 1 query sequences 1918246 residues in 173 library sequences Scomplib [35.02] start: Tue Jan 22 20:23:29 2008 done: Tue Jan 22 20:23:47 2008 Total Scan time: 1.020 Total Display time: 0.000 Function used was FASTA [version 35.02 September 18, 2007]