Multiple sequence alignment - TraesCS7B01G066300

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS7B01G066300 chr7B 100.000 2833 0 0 1 2833 72242805 72239973 0.000000e+00 5232
1 TraesCS7B01G066300 chr7B 82.388 1675 156 77 269 1843 72257280 72255645 0.000000e+00 1330
2 TraesCS7B01G066300 chr7B 84.409 186 16 8 23 196 72257517 72257333 1.350000e-38 171
3 TraesCS7B01G066300 chr7D 85.002 2247 107 94 1 2111 112434727 112432575 0.000000e+00 2071
4 TraesCS7B01G066300 chr7D 93.030 330 18 5 2505 2833 112431553 112431228 7.100000e-131 477
5 TraesCS7B01G066300 chr7D 91.209 182 14 2 2191 2372 112432326 112432147 2.180000e-61 246
6 TraesCS7B01G066300 chr7A 86.171 875 55 38 849 1685 117823598 117822752 0.000000e+00 885
7 TraesCS7B01G066300 chr7A 89.802 657 37 13 2204 2833 117792173 117791520 0.000000e+00 815
8 TraesCS7B01G066300 chr7A 86.792 477 22 14 1723 2178 117822645 117822189 7.050000e-136 494
9 TraesCS7B01G066300 chr7A 81.250 96 15 3 72 165 535462413 535462507 1.090000e-09 75


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7B01G066300 chr7B 72239973 72242805 2832 True 5232.000000 5232 100.0000 1 2833 1 chr7B.!!$R1 2832
1 TraesCS7B01G066300 chr7B 72255645 72257517 1872 True 750.500000 1330 83.3985 23 1843 2 chr7B.!!$R2 1820
2 TraesCS7B01G066300 chr7D 112431228 112434727 3499 True 931.333333 2071 89.7470 1 2833 3 chr7D.!!$R1 2832
3 TraesCS7B01G066300 chr7A 117791520 117792173 653 True 815.000000 815 89.8020 2204 2833 1 chr7A.!!$R1 629
4 TraesCS7B01G066300 chr7A 117822189 117823598 1409 True 689.500000 885 86.4815 849 2178 2 chr7A.!!$R2 1329

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
742 834 0.179169 GGCCGTTGAGTAGAGACGAC 60.179 60.0 0.0 0.0 38.99 4.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2055 2378 0.10852 CGGGTACACTAACCACGCAT 60.109 55.0 0.0 0.0 41.67 4.73 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
143 145 9.961265 GAATTGCTATCAATCATGATTCAAAGA 57.039 29.630 18.16 12.57 43.89 2.52
154 156 7.223260 TCATGATTCAAAGAAAGACTGCATT 57.777 32.000 0.00 0.00 0.00 3.56
192 194 4.340617 TCTTATTGAAAATGGGCGGACTT 58.659 39.130 0.00 0.00 0.00 3.01
202 207 4.918810 ATGGGCGGACTTTTGATTATTC 57.081 40.909 0.00 0.00 0.00 1.75
310 334 3.366052 TGAAGATGCCCTAACTTTCCC 57.634 47.619 0.00 0.00 0.00 3.97
323 347 6.889722 CCCTAACTTTCCCTTCATCATAACAA 59.110 38.462 0.00 0.00 0.00 2.83
338 362 0.769247 AACAACTACACCCCCACTCC 59.231 55.000 0.00 0.00 0.00 3.85
596 661 4.415783 GTGAATGACACCCCACCC 57.584 61.111 0.00 0.00 43.05 4.61
597 662 1.304134 GTGAATGACACCCCACCCC 60.304 63.158 0.00 0.00 43.05 4.95
733 825 2.978010 CTTTGGCGGCCGTTGAGT 60.978 61.111 28.70 0.00 0.00 3.41
737 829 2.202756 GGCGGCCGTTGAGTAGAG 60.203 66.667 28.70 0.00 0.00 2.43
738 830 2.707849 GGCGGCCGTTGAGTAGAGA 61.708 63.158 28.70 0.00 0.00 3.10
739 831 1.516603 GCGGCCGTTGAGTAGAGAC 60.517 63.158 28.70 0.32 0.00 3.36
740 832 1.226323 CGGCCGTTGAGTAGAGACG 60.226 63.158 19.50 0.00 36.61 4.18
741 833 1.642037 CGGCCGTTGAGTAGAGACGA 61.642 60.000 19.50 0.00 38.99 4.20
742 834 0.179169 GGCCGTTGAGTAGAGACGAC 60.179 60.000 0.00 0.00 38.99 4.34
743 835 0.803740 GCCGTTGAGTAGAGACGACT 59.196 55.000 0.00 0.00 38.99 4.18
744 836 1.202054 GCCGTTGAGTAGAGACGACTC 60.202 57.143 6.80 6.80 43.10 3.36
930 1067 8.798859 ACTTACTACTCGTAGGTTATTCTTCA 57.201 34.615 8.77 0.00 35.11 3.02
1078 1218 2.323959 CGCGCACATTGTTTGGTTATT 58.676 42.857 8.75 0.00 0.00 1.40
1079 1219 3.493272 CGCGCACATTGTTTGGTTATTA 58.507 40.909 8.75 0.00 0.00 0.98
1080 1220 4.101942 CGCGCACATTGTTTGGTTATTAT 58.898 39.130 8.75 0.00 0.00 1.28
1081 1221 5.267009 CGCGCACATTGTTTGGTTATTATA 58.733 37.500 8.75 0.00 0.00 0.98
1082 1222 5.912396 CGCGCACATTGTTTGGTTATTATAT 59.088 36.000 8.75 0.00 0.00 0.86
1083 1223 7.072647 CGCGCACATTGTTTGGTTATTATATA 58.927 34.615 8.75 0.00 0.00 0.86
1084 1224 7.588123 CGCGCACATTGTTTGGTTATTATATAA 59.412 33.333 8.75 0.00 0.00 0.98
1085 1225 8.901748 GCGCACATTGTTTGGTTATTATATAAG 58.098 33.333 0.30 0.00 0.00 1.73
1155 1311 2.842188 TAGGGCTAGCGGAACCGACA 62.842 60.000 17.63 2.47 42.83 4.35
1313 1477 1.779569 ACTCCAGCGTGAAACTAACG 58.220 50.000 0.00 0.00 43.81 3.18
1315 1479 2.294233 ACTCCAGCGTGAAACTAACGTA 59.706 45.455 0.00 0.00 42.93 3.57
1316 1480 2.660236 CTCCAGCGTGAAACTAACGTAC 59.340 50.000 0.00 0.00 42.93 3.67
1317 1481 2.294233 TCCAGCGTGAAACTAACGTACT 59.706 45.455 0.00 0.00 42.93 2.73
1319 1483 3.302555 CAGCGTGAAACTAACGTACTCA 58.697 45.455 0.00 0.00 42.93 3.41
1320 1484 3.918591 CAGCGTGAAACTAACGTACTCAT 59.081 43.478 0.00 0.00 42.93 2.90
1321 1485 3.918591 AGCGTGAAACTAACGTACTCATG 59.081 43.478 0.00 0.00 42.93 3.07
1322 1486 3.481467 GCGTGAAACTAACGTACTCATGC 60.481 47.826 7.27 7.27 42.93 4.06
1324 1488 4.149221 CGTGAAACTAACGTACTCATGCAA 59.851 41.667 0.00 0.00 36.31 4.08
1325 1489 5.163992 CGTGAAACTAACGTACTCATGCAAT 60.164 40.000 0.00 0.00 36.31 3.56
1326 1490 7.149076 CGTGAAACTAACGTACTCATGCAATG 61.149 42.308 0.00 0.00 39.96 2.82
1327 1491 9.188981 CGTGAAACTAACGTACTCATGCAATGA 62.189 40.741 0.00 0.00 42.75 2.57
1338 1502 0.250901 ATGCAATGATAGGGACCGGC 60.251 55.000 0.00 0.00 0.00 6.13
1340 1504 1.301716 CAATGATAGGGACCGGCGG 60.302 63.158 27.06 27.06 0.00 6.13
1341 1505 1.764854 AATGATAGGGACCGGCGGT 60.765 57.895 34.81 34.81 39.44 5.68
1342 1506 0.470456 AATGATAGGGACCGGCGGTA 60.470 55.000 34.29 17.74 35.25 4.02
1343 1507 1.183676 ATGATAGGGACCGGCGGTAC 61.184 60.000 33.15 33.15 35.25 3.34
1362 1526 6.459257 GGTACGTCTTGATGAATGATGATC 57.541 41.667 0.00 0.00 0.00 2.92
1363 1527 5.117745 GGTACGTCTTGATGAATGATGATCG 59.882 44.000 0.00 0.00 0.00 3.69
1374 1585 1.956297 TGATGATCGACATGCATGCA 58.044 45.000 26.53 25.04 39.56 3.96
1375 1586 2.500229 TGATGATCGACATGCATGCAT 58.500 42.857 27.46 27.46 39.56 3.96
1486 1697 0.764890 TGCACTTCACCTGCTACCTT 59.235 50.000 0.00 0.00 35.53 3.50
1488 1699 1.543429 GCACTTCACCTGCTACCTTGT 60.543 52.381 0.00 0.00 0.00 3.16
1489 1700 2.146342 CACTTCACCTGCTACCTTGTG 58.854 52.381 0.00 0.00 0.00 3.33
1674 1885 2.097160 CGTCGACGAGGGTACGTG 59.903 66.667 33.35 0.00 46.52 4.49
1676 1887 3.792047 TCGACGAGGGTACGTGCG 61.792 66.667 0.00 0.00 46.52 5.34
1677 1888 4.093952 CGACGAGGGTACGTGCGT 62.094 66.667 0.00 2.05 46.52 5.24
1678 1889 2.503375 GACGAGGGTACGTGCGTG 60.503 66.667 7.55 0.00 46.52 5.34
1698 1909 4.583866 TGCGTGCGTGCAGAGTGA 62.584 61.111 0.00 0.00 40.62 3.41
1699 1910 3.771491 GCGTGCGTGCAGAGTGAG 61.771 66.667 0.00 0.00 34.15 3.51
1701 1912 2.368105 CGTGCGTGCAGAGTGAGAC 61.368 63.158 0.00 0.00 0.00 3.36
1702 1913 2.050077 TGCGTGCAGAGTGAGACG 60.050 61.111 0.00 0.00 34.93 4.18
1705 1916 2.085262 CGTGCAGAGTGAGACGCTG 61.085 63.158 3.38 3.38 46.68 5.18
1708 1919 2.505777 CAGAGTGAGACGCTGCCG 60.506 66.667 0.00 0.00 39.05 5.69
1719 1930 4.030452 GCTGCCGTTTCTTGCGCT 62.030 61.111 9.73 0.00 0.00 5.92
1724 1935 1.268778 GCCGTTTCTTGCGCTGAAAC 61.269 55.000 30.81 30.81 45.59 2.78
1726 1937 1.388888 CGTTTCTTGCGCTGAAACTG 58.611 50.000 33.67 27.50 46.36 3.16
1731 2016 2.796304 TCTTGCGCTGAAACTGTTTTG 58.204 42.857 9.73 5.23 0.00 2.44
1733 2018 0.814457 TGCGCTGAAACTGTTTTGGT 59.186 45.000 9.73 0.00 0.00 3.67
1907 2195 0.683504 TCCGGTCTCCCAGCTTAGTC 60.684 60.000 0.00 0.00 0.00 2.59
1934 2227 5.459982 ACCCCACTGCCTTAATAATAACA 57.540 39.130 0.00 0.00 0.00 2.41
1935 2228 5.198207 ACCCCACTGCCTTAATAATAACAC 58.802 41.667 0.00 0.00 0.00 3.32
1939 2232 5.833131 CCACTGCCTTAATAATAACACCCAT 59.167 40.000 0.00 0.00 0.00 4.00
1941 2234 6.016276 CACTGCCTTAATAATAACACCCATCC 60.016 42.308 0.00 0.00 0.00 3.51
1999 2320 3.056821 TCTGTCTGGTATGTACTGTGTGC 60.057 47.826 0.00 0.00 0.00 4.57
2024 2345 0.451783 CGATTTGTACTTGGCCTGCC 59.548 55.000 3.32 0.00 0.00 4.85
2025 2346 0.817654 GATTTGTACTTGGCCTGCCC 59.182 55.000 3.32 0.00 34.56 5.36
2028 2349 4.029809 GTACTTGGCCTGCCCGGT 62.030 66.667 3.32 7.00 35.87 5.28
2029 2350 3.712907 TACTTGGCCTGCCCGGTC 61.713 66.667 3.32 0.00 38.12 4.79
2054 2377 6.017934 CGTAATGCCAGTCACTTAATTATGCT 60.018 38.462 0.00 0.00 0.00 3.79
2055 2378 7.170828 CGTAATGCCAGTCACTTAATTATGCTA 59.829 37.037 0.00 0.00 0.00 3.49
2056 2379 9.003658 GTAATGCCAGTCACTTAATTATGCTAT 57.996 33.333 0.00 0.00 0.00 2.97
2057 2380 6.866010 TGCCAGTCACTTAATTATGCTATG 57.134 37.500 0.00 0.00 0.00 2.23
2058 2381 5.239306 TGCCAGTCACTTAATTATGCTATGC 59.761 40.000 0.00 0.00 0.00 3.14
2102 2428 2.954611 GCAGTTTCCCTGTTCCGC 59.045 61.111 0.00 0.00 43.55 5.54
2121 2447 3.675485 CGTGTCGCGGACAGTATG 58.325 61.111 6.13 0.00 43.57 2.39
2170 2496 1.668151 GGGCGGCCATTCTCGATAC 60.668 63.158 25.33 0.00 0.00 2.24
2178 2504 1.597663 CCATTCTCGATACCAAACGGC 59.402 52.381 0.00 0.00 0.00 5.68
2179 2505 2.276201 CATTCTCGATACCAAACGGCA 58.724 47.619 0.00 0.00 0.00 5.69
2180 2506 2.004583 TTCTCGATACCAAACGGCAG 57.995 50.000 0.00 0.00 0.00 4.85
2181 2507 0.459585 TCTCGATACCAAACGGCAGC 60.460 55.000 0.00 0.00 0.00 5.25
2182 2508 1.752501 CTCGATACCAAACGGCAGCG 61.753 60.000 0.00 0.00 0.00 5.18
2183 2509 2.403586 GATACCAAACGGCAGCGC 59.596 61.111 0.00 0.00 0.00 5.92
2184 2510 2.046314 ATACCAAACGGCAGCGCT 60.046 55.556 2.64 2.64 0.00 5.92
2185 2511 1.644786 GATACCAAACGGCAGCGCTT 61.645 55.000 7.50 0.00 0.00 4.68
2186 2512 1.644786 ATACCAAACGGCAGCGCTTC 61.645 55.000 7.50 1.16 0.00 3.86
2187 2513 2.997952 TACCAAACGGCAGCGCTTCA 62.998 55.000 7.50 0.00 0.00 3.02
2188 2514 2.127118 CAAACGGCAGCGCTTCAG 60.127 61.111 7.50 6.36 0.00 3.02
2226 2721 2.814336 GACTGGTCAAGCCCAACTAAAG 59.186 50.000 0.00 0.00 33.07 1.85
2258 2753 3.018856 GACATGCATTCTGGACCAATCA 58.981 45.455 0.00 0.00 0.00 2.57
2263 2758 3.294214 GCATTCTGGACCAATCAATCCT 58.706 45.455 0.00 0.00 35.86 3.24
2272 2767 5.125417 TGGACCAATCAATCCTTTTCGAATC 59.875 40.000 0.00 0.00 35.86 2.52
2275 2770 5.711976 ACCAATCAATCCTTTTCGAATCACT 59.288 36.000 0.00 0.00 0.00 3.41
2319 2814 8.687824 TGAGACAAGTCTTTGAAAAACAATTC 57.312 30.769 3.96 0.00 40.61 2.17
2330 2825 8.703604 TTTGAAAAACAATTCAACGACCAATA 57.296 26.923 2.20 0.00 46.06 1.90
2341 2836 5.483811 TCAACGACCAATATGTAGCTTTCA 58.516 37.500 0.00 0.00 0.00 2.69
2372 2867 5.917541 AACCAGTGTCACAAATAAGTACG 57.082 39.130 5.62 0.00 0.00 3.67
2373 2868 4.952460 ACCAGTGTCACAAATAAGTACGT 58.048 39.130 5.62 0.00 0.00 3.57
2374 2869 6.088016 ACCAGTGTCACAAATAAGTACGTA 57.912 37.500 5.62 0.00 0.00 3.57
2375 2870 5.922544 ACCAGTGTCACAAATAAGTACGTAC 59.077 40.000 18.10 18.10 0.00 3.67
2376 2871 6.154445 CCAGTGTCACAAATAAGTACGTACT 58.846 40.000 22.45 22.45 38.39 2.73
2377 2872 6.307318 CCAGTGTCACAAATAAGTACGTACTC 59.693 42.308 27.51 12.64 34.99 2.59
2378 2873 6.307318 CAGTGTCACAAATAAGTACGTACTCC 59.693 42.308 27.51 0.69 34.99 3.85
2379 2874 5.284660 GTGTCACAAATAAGTACGTACTCCG 59.715 44.000 27.51 16.02 44.03 4.63
2380 2875 5.181056 TGTCACAAATAAGTACGTACTCCGA 59.819 40.000 27.51 16.39 40.70 4.55
2382 2877 6.250104 GTCACAAATAAGTACGTACTCCGAAG 59.750 42.308 27.51 18.92 40.70 3.79
2383 2878 6.072508 TCACAAATAAGTACGTACTCCGAAGT 60.073 38.462 27.51 19.50 40.70 3.01
2384 2879 6.033196 CACAAATAAGTACGTACTCCGAAGTG 59.967 42.308 27.51 25.09 40.70 3.16
2385 2880 5.886960 AATAAGTACGTACTCCGAAGTGT 57.113 39.130 27.51 12.47 40.70 3.55
2386 2881 3.820777 AAGTACGTACTCCGAAGTGTC 57.179 47.619 27.51 0.00 40.70 3.67
2392 2912 3.126514 ACGTACTCCGAAGTGTCACATAG 59.873 47.826 5.62 0.00 40.70 2.23
2425 3445 1.144708 TGATTGGTGGTCAAAGGCTCA 59.855 47.619 0.00 0.00 39.05 4.26
2568 3589 5.090652 TGTTCTACAAGCGTGAACAATTC 57.909 39.130 6.65 0.00 44.44 2.17
2569 3590 4.141680 GTTCTACAAGCGTGAACAATTCG 58.858 43.478 6.65 0.00 39.63 3.34
2570 3591 7.737999 TGTTCTACAAGCGTGAACAATTCGC 62.738 44.000 6.65 0.55 44.44 4.70
2672 3694 5.466728 ACATTCGTCCAATCAAATCGATAGG 59.533 40.000 0.00 0.00 32.51 2.57
2695 3717 2.476126 TCATTGCAGGGCCAAAAATG 57.524 45.000 6.18 12.16 0.00 2.32
2704 3726 0.109132 GGCCAAAAATGTGAGGCTCG 60.109 55.000 10.42 0.00 46.23 5.03
2782 3804 6.823286 TCCAGATATCAAACACCTCCATAA 57.177 37.500 5.32 0.00 0.00 1.90
2789 3811 9.209175 GATATCAAACACCTCCATAAGTATCAC 57.791 37.037 0.00 0.00 0.00 3.06
2812 3834 8.486210 TCACTAGGTCAGATAATTAAGCACAAT 58.514 33.333 0.00 0.00 0.00 2.71
2813 3835 9.113838 CACTAGGTCAGATAATTAAGCACAATT 57.886 33.333 0.00 1.76 32.91 2.32
2814 3836 9.686683 ACTAGGTCAGATAATTAAGCACAATTT 57.313 29.630 0.00 0.00 30.84 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
310 334 4.881850 GGGGGTGTAGTTGTTATGATGAAG 59.118 45.833 0.00 0.00 0.00 3.02
323 347 3.001406 GCGGAGTGGGGGTGTAGT 61.001 66.667 0.00 0.00 0.00 2.73
733 825 2.104859 CGCCGGTGAGTCGTCTCTA 61.105 63.158 10.20 0.00 40.98 2.43
949 1086 1.375853 CCGGCCGATTCAGATTTGCA 61.376 55.000 30.73 0.00 0.00 4.08
1084 1224 9.757227 CATATAAGCTGCTAACTCTTTTAGTCT 57.243 33.333 0.90 0.00 37.50 3.24
1085 1225 9.535878 ACATATAAGCTGCTAACTCTTTTAGTC 57.464 33.333 0.90 0.00 37.50 2.59
1088 1228 9.459640 CGTACATATAAGCTGCTAACTCTTTTA 57.540 33.333 0.90 0.00 0.00 1.52
1091 1231 7.040473 ACGTACATATAAGCTGCTAACTCTT 57.960 36.000 0.90 0.00 0.00 2.85
1203 1365 3.782244 CGCCACGCTCTGCTTGAC 61.782 66.667 0.00 0.00 28.94 3.18
1299 1463 3.631145 TGAGTACGTTAGTTTCACGCT 57.369 42.857 0.00 0.00 41.53 5.07
1300 1464 3.481467 GCATGAGTACGTTAGTTTCACGC 60.481 47.826 0.00 0.00 41.53 5.34
1313 1477 4.319177 GGTCCCTATCATTGCATGAGTAC 58.681 47.826 0.00 0.00 43.53 2.73
1315 1479 2.224378 CGGTCCCTATCATTGCATGAGT 60.224 50.000 0.00 0.00 43.53 3.41
1316 1480 2.420642 CGGTCCCTATCATTGCATGAG 58.579 52.381 0.00 0.00 43.53 2.90
1317 1481 1.072173 CCGGTCCCTATCATTGCATGA 59.928 52.381 0.00 0.00 44.55 3.07
1319 1483 0.250901 GCCGGTCCCTATCATTGCAT 60.251 55.000 1.90 0.00 0.00 3.96
1320 1484 1.148273 GCCGGTCCCTATCATTGCA 59.852 57.895 1.90 0.00 0.00 4.08
1321 1485 1.961277 CGCCGGTCCCTATCATTGC 60.961 63.158 1.90 0.00 0.00 3.56
1322 1486 1.301716 CCGCCGGTCCCTATCATTG 60.302 63.158 1.90 0.00 0.00 2.82
1324 1488 1.154454 TACCGCCGGTCCCTATCAT 59.846 57.895 14.44 0.00 37.09 2.45
1325 1489 1.829533 GTACCGCCGGTCCCTATCA 60.830 63.158 14.44 0.00 37.09 2.15
1326 1490 2.912624 CGTACCGCCGGTCCCTATC 61.913 68.421 14.44 0.00 37.09 2.08
1327 1491 2.908940 CGTACCGCCGGTCCCTAT 60.909 66.667 14.44 0.00 37.09 2.57
1328 1492 4.424711 ACGTACCGCCGGTCCCTA 62.425 66.667 14.44 0.00 37.09 3.53
1331 1495 3.752339 AAGACGTACCGCCGGTCC 61.752 66.667 14.44 0.00 37.09 4.46
1332 1496 2.275547 ATCAAGACGTACCGCCGGTC 62.276 60.000 14.44 3.56 37.09 4.79
1335 1499 0.457166 TTCATCAAGACGTACCGCCG 60.457 55.000 0.00 0.00 0.00 6.46
1337 1501 2.536365 TCATTCATCAAGACGTACCGC 58.464 47.619 0.00 0.00 0.00 5.68
1338 1502 4.359706 TCATCATTCATCAAGACGTACCG 58.640 43.478 0.00 0.00 0.00 4.02
1340 1504 5.915196 TCGATCATCATTCATCAAGACGTAC 59.085 40.000 0.00 0.00 0.00 3.67
1341 1505 5.915196 GTCGATCATCATTCATCAAGACGTA 59.085 40.000 0.00 0.00 0.00 3.57
1342 1506 4.742167 GTCGATCATCATTCATCAAGACGT 59.258 41.667 0.00 0.00 0.00 4.34
1343 1507 4.741676 TGTCGATCATCATTCATCAAGACG 59.258 41.667 0.00 0.00 0.00 4.18
1344 1508 6.591261 CATGTCGATCATCATTCATCAAGAC 58.409 40.000 0.00 0.00 34.09 3.01
1345 1509 5.178809 GCATGTCGATCATCATTCATCAAGA 59.821 40.000 0.00 0.00 34.09 3.02
1346 1510 5.049680 TGCATGTCGATCATCATTCATCAAG 60.050 40.000 0.00 0.00 34.09 3.02
1348 1512 4.382291 TGCATGTCGATCATCATTCATCA 58.618 39.130 0.00 0.00 34.09 3.07
1349 1513 5.324697 CATGCATGTCGATCATCATTCATC 58.675 41.667 18.91 0.00 34.09 2.92
1350 1514 4.379499 GCATGCATGTCGATCATCATTCAT 60.379 41.667 26.79 6.48 34.09 2.57
1351 1515 3.058501 GCATGCATGTCGATCATCATTCA 60.059 43.478 26.79 0.00 34.09 2.57
1352 1516 3.058501 TGCATGCATGTCGATCATCATTC 60.059 43.478 26.79 6.83 34.09 2.67
1353 1517 2.882137 TGCATGCATGTCGATCATCATT 59.118 40.909 26.79 0.00 34.09 2.57
1354 1518 2.500229 TGCATGCATGTCGATCATCAT 58.500 42.857 26.79 0.00 34.09 2.45
1355 1519 1.956297 TGCATGCATGTCGATCATCA 58.044 45.000 26.79 11.44 34.09 3.07
1357 1521 2.989422 CATGCATGCATGTCGATCAT 57.011 45.000 40.30 17.74 46.20 2.45
1374 1585 3.866651 CTGCAGCAAACTAGGAGTACAT 58.133 45.455 0.00 0.00 0.00 2.29
1375 1586 2.612972 GCTGCAGCAAACTAGGAGTACA 60.613 50.000 33.36 0.00 41.59 2.90
1376 1587 2.003301 GCTGCAGCAAACTAGGAGTAC 58.997 52.381 33.36 0.00 41.59 2.73
1377 1588 1.404181 CGCTGCAGCAAACTAGGAGTA 60.404 52.381 36.03 0.00 42.21 2.59
1378 1589 0.671781 CGCTGCAGCAAACTAGGAGT 60.672 55.000 36.03 0.00 42.21 3.85
1379 1590 0.671781 ACGCTGCAGCAAACTAGGAG 60.672 55.000 36.03 19.54 42.21 3.69
1380 1591 0.950555 CACGCTGCAGCAAACTAGGA 60.951 55.000 36.03 0.00 42.21 2.94
1381 1592 1.230635 ACACGCTGCAGCAAACTAGG 61.231 55.000 36.03 20.96 42.21 3.02
1382 1593 0.110509 CACACGCTGCAGCAAACTAG 60.111 55.000 36.03 21.67 42.21 2.57
1383 1594 1.506309 CCACACGCTGCAGCAAACTA 61.506 55.000 36.03 0.00 42.21 2.24
1486 1697 4.077184 CCGAAGTAGGCCGCCACA 62.077 66.667 13.15 0.00 0.00 4.17
1664 1875 4.712425 ACGCACGCACGTACCCTC 62.712 66.667 0.96 0.00 46.19 4.30
1681 1892 4.583866 TCACTCTGCACGCACGCA 62.584 61.111 0.00 0.00 40.32 5.24
1685 1896 2.050077 CGTCTCACTCTGCACGCA 60.050 61.111 0.00 0.00 0.00 5.24
1693 1904 1.618640 GAAACGGCAGCGTCTCACTC 61.619 60.000 0.00 0.00 0.00 3.51
1694 1905 1.664965 GAAACGGCAGCGTCTCACT 60.665 57.895 0.00 0.00 0.00 3.41
1695 1906 1.222115 AAGAAACGGCAGCGTCTCAC 61.222 55.000 0.00 0.00 0.00 3.51
1698 1909 2.607892 GCAAGAAACGGCAGCGTCT 61.608 57.895 0.00 0.00 0.00 4.18
1699 1910 2.127232 GCAAGAAACGGCAGCGTC 60.127 61.111 0.00 0.00 0.00 5.19
1702 1913 4.030452 AGCGCAAGAAACGGCAGC 62.030 61.111 11.47 0.00 43.02 5.25
1705 1916 1.008995 TTTCAGCGCAAGAAACGGC 60.009 52.632 19.81 0.00 43.02 5.68
1710 1921 3.178267 CAAAACAGTTTCAGCGCAAGAA 58.822 40.909 11.47 11.02 43.02 2.52
1711 1922 2.479389 CCAAAACAGTTTCAGCGCAAGA 60.479 45.455 11.47 3.85 43.02 3.02
1712 1923 1.854126 CCAAAACAGTTTCAGCGCAAG 59.146 47.619 11.47 0.72 43.44 4.01
1713 1924 1.203523 ACCAAAACAGTTTCAGCGCAA 59.796 42.857 11.47 0.00 0.00 4.85
1714 1925 0.814457 ACCAAAACAGTTTCAGCGCA 59.186 45.000 11.47 0.00 0.00 6.09
1716 1927 4.636975 CAAAAACCAAAACAGTTTCAGCG 58.363 39.130 0.00 0.00 36.44 5.18
1718 1929 4.151512 ACGCAAAAACCAAAACAGTTTCAG 59.848 37.500 0.00 0.00 36.44 3.02
1719 1930 4.058817 ACGCAAAAACCAAAACAGTTTCA 58.941 34.783 0.00 0.00 36.44 2.69
1724 1935 1.266793 CGCACGCAAAAACCAAAACAG 60.267 47.619 0.00 0.00 0.00 3.16
1726 1937 0.716666 ACGCACGCAAAAACCAAAAC 59.283 45.000 0.00 0.00 0.00 2.43
1731 2016 2.576002 CTGCACGCACGCAAAAACC 61.576 57.895 0.00 0.00 42.45 3.27
1733 2018 2.278466 CCTGCACGCACGCAAAAA 60.278 55.556 0.00 0.00 42.45 1.94
1907 2195 2.871096 TTAAGGCAGTGGGGTACTTG 57.129 50.000 0.00 0.00 37.60 3.16
1999 2320 1.135689 GCCAAGTACAAATCGCCACAG 60.136 52.381 0.00 0.00 0.00 3.66
2024 2345 1.082117 GTGACTGGCATTACGACCGG 61.082 60.000 0.00 0.00 38.37 5.28
2025 2346 0.108804 AGTGACTGGCATTACGACCG 60.109 55.000 0.00 0.00 0.00 4.79
2028 2349 6.018262 GCATAATTAAGTGACTGGCATTACGA 60.018 38.462 0.00 0.00 0.00 3.43
2029 2350 6.017934 AGCATAATTAAGTGACTGGCATTACG 60.018 38.462 0.00 0.00 0.00 3.18
2054 2377 1.134753 CGGGTACACTAACCACGCATA 59.865 52.381 0.00 0.00 41.67 3.14
2055 2378 0.108520 CGGGTACACTAACCACGCAT 60.109 55.000 0.00 0.00 41.67 4.73
2056 2379 1.289694 CGGGTACACTAACCACGCA 59.710 57.895 0.00 0.00 41.67 5.24
2057 2380 0.525761 TACGGGTACACTAACCACGC 59.474 55.000 0.00 0.00 41.67 5.34
2058 2381 3.119531 TCATTACGGGTACACTAACCACG 60.120 47.826 0.00 0.00 41.67 4.94
2142 2468 4.710167 GGCCGCCCACCGTAAACT 62.710 66.667 0.00 0.00 34.38 2.66
2152 2478 1.668151 GTATCGAGAATGGCCGCCC 60.668 63.158 7.03 0.00 0.00 6.13
2153 2479 1.668151 GGTATCGAGAATGGCCGCC 60.668 63.158 1.04 1.04 0.00 6.13
2154 2480 0.531974 TTGGTATCGAGAATGGCCGC 60.532 55.000 0.00 0.00 0.00 6.53
2166 2492 1.644786 AAGCGCTGCCGTTTGGTATC 61.645 55.000 12.58 0.00 36.52 2.24
2170 2496 3.599792 CTGAAGCGCTGCCGTTTGG 62.600 63.158 12.58 0.00 38.02 3.28
2178 2504 0.520404 AATTGCAGACTGAAGCGCTG 59.480 50.000 12.58 0.00 0.00 5.18
2179 2505 0.801251 GAATTGCAGACTGAAGCGCT 59.199 50.000 2.64 2.64 0.00 5.92
2180 2506 0.801251 AGAATTGCAGACTGAAGCGC 59.199 50.000 6.65 0.00 0.00 5.92
2181 2507 3.181516 GGTTAGAATTGCAGACTGAAGCG 60.182 47.826 6.65 0.00 0.00 4.68
2182 2508 3.753272 TGGTTAGAATTGCAGACTGAAGC 59.247 43.478 6.65 0.00 0.00 3.86
2183 2509 5.121454 GTCTGGTTAGAATTGCAGACTGAAG 59.879 44.000 6.65 0.00 36.91 3.02
2184 2510 4.997395 GTCTGGTTAGAATTGCAGACTGAA 59.003 41.667 6.65 0.00 36.91 3.02
2185 2511 4.284490 AGTCTGGTTAGAATTGCAGACTGA 59.716 41.667 6.65 0.00 45.00 3.41
2186 2512 4.573900 AGTCTGGTTAGAATTGCAGACTG 58.426 43.478 4.08 0.00 45.00 3.51
2187 2513 4.564406 CCAGTCTGGTTAGAATTGCAGACT 60.564 45.833 11.09 0.59 46.87 3.24
2188 2514 3.686726 CCAGTCTGGTTAGAATTGCAGAC 59.313 47.826 11.09 0.00 39.26 3.51
2243 2738 5.927281 AAAGGATTGATTGGTCCAGAATG 57.073 39.130 0.00 0.00 36.96 2.67
2258 2753 4.154195 CCGTGAAGTGATTCGAAAAGGATT 59.846 41.667 0.00 0.00 0.00 3.01
2263 2758 5.350365 CCTAATCCGTGAAGTGATTCGAAAA 59.650 40.000 0.00 0.00 33.46 2.29
2272 2767 4.152402 CAGTGAAACCTAATCCGTGAAGTG 59.848 45.833 0.00 0.00 37.80 3.16
2275 2770 4.282449 TCTCAGTGAAACCTAATCCGTGAA 59.718 41.667 0.00 0.00 37.80 3.18
2319 2814 5.794687 TGAAAGCTACATATTGGTCGTTG 57.205 39.130 0.00 0.00 0.00 4.10
2330 2825 7.394359 ACTGGTTTTGTATCATGAAAGCTACAT 59.606 33.333 0.00 0.00 33.32 2.29
2341 2836 6.707440 TTTGTGACACTGGTTTTGTATCAT 57.293 33.333 7.20 0.00 0.00 2.45
2352 2847 6.154445 AGTACGTACTTATTTGTGACACTGG 58.846 40.000 22.45 0.00 31.13 4.00
2372 2867 4.959596 TCTATGTGACACTTCGGAGTAC 57.040 45.455 7.20 0.00 33.90 2.73
2373 2868 7.818997 ATATTCTATGTGACACTTCGGAGTA 57.181 36.000 7.20 5.04 33.90 2.59
2374 2869 6.716934 ATATTCTATGTGACACTTCGGAGT 57.283 37.500 7.20 0.00 36.25 3.85
2392 2912 9.778741 TTGACCACCAATCACTCTATAATATTC 57.221 33.333 0.00 0.00 0.00 1.75
2425 3445 8.877195 TCCTAATTTAATAGGTTTCGCTAGGAT 58.123 33.333 2.73 0.00 42.63 3.24
2672 3694 0.896923 TTTGGCCCTGCAATGATGTC 59.103 50.000 0.00 0.00 0.00 3.06
2695 3717 0.460987 ATTACTGCAGCGAGCCTCAC 60.461 55.000 15.27 0.00 44.83 3.51
2704 3726 1.673168 CCCCTCAAGATTACTGCAGC 58.327 55.000 15.27 0.00 0.00 5.25
2782 3804 9.368416 TGCTTAATTATCTGACCTAGTGATACT 57.632 33.333 0.00 0.00 0.00 2.12


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.