Multiple sequence alignment - TraesCS6B01G076200

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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 TraesCS6B01G076200 chr6B 100.000 3469 0 0 1 3469 52139159 52135691 0.000000e+00 6407.0
1 TraesCS6B01G076200 chr6B 91.687 2081 113 29 951 3021 52075589 52077619 0.000000e+00 2830.0
2 TraesCS6B01G076200 chr6B 89.133 865 79 8 3 861 678647529 678646674 0.000000e+00 1062.0
3 TraesCS6B01G076200 chr6B 88.112 143 6 7 951 1090 52058177 52058311 3.580000e-35 159.0
4 TraesCS6B01G076200 chr6D 90.076 2620 154 39 897 3469 28153769 28156329 0.000000e+00 3301.0
5 TraesCS6B01G076200 chr6D 90.091 1322 100 10 1128 2439 28266070 28264770 0.000000e+00 1687.0
6 TraesCS6B01G076200 chr6D 86.667 150 7 7 951 1092 28266213 28266069 1.670000e-33 154.0
7 TraesCS6B01G076200 chr6A 87.041 2585 191 69 867 3402 29807007 29804518 0.000000e+00 2785.0
8 TraesCS6B01G076200 chr6A 92.482 838 37 9 1503 2336 29755278 29756093 0.000000e+00 1175.0
9 TraesCS6B01G076200 chr6A 88.235 340 26 8 951 1281 29716566 29716900 9.020000e-106 394.0
10 TraesCS6B01G076200 chr6A 90.821 207 17 1 1303 1509 29737757 29737961 3.410000e-70 276.0
11 TraesCS6B01G076200 chr6A 84.138 145 23 0 3258 3402 29811053 29810909 1.300000e-29 141.0
12 TraesCS6B01G076200 chr6A 84.138 145 23 0 3258 3402 29812211 29812067 1.300000e-29 141.0
13 TraesCS6B01G076200 chrUn 94.535 860 41 1 1 854 345076217 345077076 0.000000e+00 1323.0
14 TraesCS6B01G076200 chrUn 84.138 145 23 0 3258 3402 71736335 71736191 1.300000e-29 141.0
15 TraesCS6B01G076200 chrUn 83.784 148 24 0 3255 3402 365837336 365837483 1.300000e-29 141.0
16 TraesCS6B01G076200 chrUn 83.784 148 24 0 3255 3402 377995349 377995496 1.300000e-29 141.0
17 TraesCS6B01G076200 chr4B 93.103 870 53 2 1 863 568672775 568673644 0.000000e+00 1267.0
18 TraesCS6B01G076200 chr4B 82.432 74 12 1 790 862 295048829 295048756 2.890000e-06 63.9
19 TraesCS6B01G076200 chr4A 89.862 868 81 2 3 863 136881140 136880273 0.000000e+00 1109.0
20 TraesCS6B01G076200 chr1B 91.530 673 50 2 200 865 638897477 638898149 0.000000e+00 920.0
21 TraesCS6B01G076200 chr1B 92.040 201 16 0 1 201 638897127 638897327 2.040000e-72 283.0
22 TraesCS6B01G076200 chr4D 92.308 39 2 1 804 841 265375621 265375583 2.000000e-03 54.7


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 TraesCS6B01G076200 chr6B 52135691 52139159 3468 True 6407.000000 6407 100.000000 1 3469 1 chr6B.!!$R1 3468
1 TraesCS6B01G076200 chr6B 52075589 52077619 2030 False 2830.000000 2830 91.687000 951 3021 1 chr6B.!!$F2 2070
2 TraesCS6B01G076200 chr6B 678646674 678647529 855 True 1062.000000 1062 89.133000 3 861 1 chr6B.!!$R2 858
3 TraesCS6B01G076200 chr6D 28153769 28156329 2560 False 3301.000000 3301 90.076000 897 3469 1 chr6D.!!$F1 2572
4 TraesCS6B01G076200 chr6D 28264770 28266213 1443 True 920.500000 1687 88.379000 951 2439 2 chr6D.!!$R1 1488
5 TraesCS6B01G076200 chr6A 29755278 29756093 815 False 1175.000000 1175 92.482000 1503 2336 1 chr6A.!!$F3 833
6 TraesCS6B01G076200 chr6A 29804518 29812211 7693 True 1022.333333 2785 85.105667 867 3402 3 chr6A.!!$R1 2535
7 TraesCS6B01G076200 chrUn 345076217 345077076 859 False 1323.000000 1323 94.535000 1 854 1 chrUn.!!$F1 853
8 TraesCS6B01G076200 chr4B 568672775 568673644 869 False 1267.000000 1267 93.103000 1 863 1 chr4B.!!$F1 862
9 TraesCS6B01G076200 chr4A 136880273 136881140 867 True 1109.000000 1109 89.862000 3 863 1 chr4A.!!$R1 860
10 TraesCS6B01G076200 chr1B 638897127 638898149 1022 False 601.500000 920 91.785000 1 865 2 chr1B.!!$F1 864

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
577 729 0.179073 TGGCTGAGGATTTAGCGCTC 60.179 55.0 16.34 0.0 40.78 5.03 F
1076 5435 2.641321 CCTCCATCCATCCAAGCATCTA 59.359 50.0 0.00 0.0 0.00 1.98 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1628 6021 0.393808 GGCCCTGGTAAATGCTTCGA 60.394 55.0 0.0 0.0 0.0 3.71 R
2791 7241 0.033504 GTTCGGGCAAGTGTCTCAGA 59.966 55.0 0.0 0.0 0.0 3.27 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
129 130 2.486592 CGGAACCTACCGCAAAATCTTT 59.513 45.455 0.00 0.00 46.20 2.52
131 132 3.242518 GAACCTACCGCAAAATCTTTGC 58.757 45.455 12.94 12.94 41.71 3.68
261 413 1.130054 AGTCCAGGAGCCACACATGT 61.130 55.000 0.00 0.00 0.00 3.21
319 471 1.959226 GGAGAAGCCGCAAACGACA 60.959 57.895 0.00 0.00 43.93 4.35
366 518 2.048222 TGCTGGAAGAACTCGCCG 60.048 61.111 0.00 0.00 34.07 6.46
420 572 3.551890 CACGTTGATGCTGGTGTATCTAC 59.448 47.826 0.00 0.00 37.55 2.59
442 594 1.762522 ATCATAGGGGAGGTGCAGCG 61.763 60.000 10.78 0.00 0.00 5.18
569 721 2.292267 CGTATGCTTTGGCTGAGGATT 58.708 47.619 0.81 0.00 39.59 3.01
577 729 0.179073 TGGCTGAGGATTTAGCGCTC 60.179 55.000 16.34 0.00 40.78 5.03
640 792 3.011818 TGACATTCACAGCAATGCTAGG 58.988 45.455 7.70 2.90 36.40 3.02
721 873 7.230913 AGCAAGATTGTATATGTAGGTCGTAGT 59.769 37.037 0.00 0.00 0.00 2.73
741 893 8.194769 TCGTAGTTCAAATACAGATGCTCATAA 58.805 33.333 0.00 0.00 0.00 1.90
811 969 3.225104 CCCCCATGATCCAAACTGTATG 58.775 50.000 0.00 0.00 0.00 2.39
812 970 3.373001 CCCCCATGATCCAAACTGTATGT 60.373 47.826 0.00 0.00 0.00 2.29
941 5281 6.683974 TGAAGGAGTTCAAGAGTTTTTGAG 57.316 37.500 0.00 0.00 39.85 3.02
942 5282 5.590259 TGAAGGAGTTCAAGAGTTTTTGAGG 59.410 40.000 0.00 0.00 39.85 3.86
943 5283 5.117406 AGGAGTTCAAGAGTTTTTGAGGT 57.883 39.130 0.00 0.00 38.25 3.85
944 5284 5.510430 AGGAGTTCAAGAGTTTTTGAGGTT 58.490 37.500 0.00 0.00 38.25 3.50
945 5285 5.358160 AGGAGTTCAAGAGTTTTTGAGGTTG 59.642 40.000 0.00 0.00 38.25 3.77
946 5286 5.125578 GGAGTTCAAGAGTTTTTGAGGTTGT 59.874 40.000 0.00 0.00 38.25 3.32
947 5287 5.954335 AGTTCAAGAGTTTTTGAGGTTGTG 58.046 37.500 0.00 0.00 38.25 3.33
948 5288 5.476945 AGTTCAAGAGTTTTTGAGGTTGTGT 59.523 36.000 0.00 0.00 38.25 3.72
949 5289 5.560966 TCAAGAGTTTTTGAGGTTGTGTC 57.439 39.130 0.00 0.00 32.39 3.67
1056 5411 3.868661 CCAACAAAAACTTGCCTTGTACC 59.131 43.478 0.00 0.00 33.05 3.34
1057 5412 4.382577 CCAACAAAAACTTGCCTTGTACCT 60.383 41.667 0.00 0.00 33.05 3.08
1058 5413 4.649088 ACAAAAACTTGCCTTGTACCTC 57.351 40.909 0.00 0.00 31.63 3.85
1059 5414 3.383505 ACAAAAACTTGCCTTGTACCTCC 59.616 43.478 0.00 0.00 31.63 4.30
1060 5415 3.306472 AAAACTTGCCTTGTACCTCCA 57.694 42.857 0.00 0.00 0.00 3.86
1076 5435 2.641321 CCTCCATCCATCCAAGCATCTA 59.359 50.000 0.00 0.00 0.00 1.98
1403 5794 4.720902 CACCCTCACCGGCATGCA 62.721 66.667 21.36 0.00 0.00 3.96
1628 6021 4.082523 CGACAGCGGGACACCCAT 62.083 66.667 7.62 0.00 45.83 4.00
2056 6482 0.168788 CGTCGACTTGGTACGCCTTA 59.831 55.000 14.70 0.00 35.27 2.69
2140 6566 0.659957 GAAGATGATCCTTGCCACGC 59.340 55.000 0.00 0.00 0.00 5.34
2428 6868 0.323629 TGTCTTAACTCCCCTTGCCG 59.676 55.000 0.00 0.00 0.00 5.69
2440 6880 1.745489 CTTGCCGGGTGGAACTAGC 60.745 63.158 2.18 0.00 37.49 3.42
2487 6927 8.879342 AAGCATAATATAGGATTCGACATAGC 57.121 34.615 0.00 0.00 0.00 2.97
2489 6929 8.140628 AGCATAATATAGGATTCGACATAGCTG 58.859 37.037 0.00 0.00 0.00 4.24
2490 6930 7.923344 GCATAATATAGGATTCGACATAGCTGT 59.077 37.037 0.00 0.00 38.67 4.40
2493 6933 7.939784 ATATAGGATTCGACATAGCTGTACA 57.060 36.000 0.00 0.00 35.14 2.90
2494 6934 6.650427 ATAGGATTCGACATAGCTGTACAA 57.350 37.500 0.00 0.00 35.14 2.41
2560 7000 7.711339 CCCTAATATTCTTGTTCTGTCACTACC 59.289 40.741 0.00 0.00 0.00 3.18
2598 7038 1.594331 GAGTGCCAAGAAAACTCGGT 58.406 50.000 0.00 0.00 31.75 4.69
2609 7049 5.121221 AGAAAACTCGGTAAAAGCCAATG 57.879 39.130 0.00 0.00 0.00 2.82
2618 7058 0.539438 AAAAGCCAATGCCCACTCGA 60.539 50.000 0.00 0.00 38.69 4.04
2619 7059 0.539438 AAAGCCAATGCCCACTCGAA 60.539 50.000 0.00 0.00 38.69 3.71
2621 7061 0.962356 AGCCAATGCCCACTCGAAAG 60.962 55.000 0.00 0.00 38.69 2.62
2657 7097 0.251653 AGTTCTCGGCTCAGGGTACA 60.252 55.000 0.00 0.00 0.00 2.90
2790 7240 5.862845 ACAATTCAGAGTGAACTGTCATCT 58.137 37.500 0.00 0.00 42.28 2.90
2791 7241 6.294473 ACAATTCAGAGTGAACTGTCATCTT 58.706 36.000 0.00 0.00 42.28 2.40
2792 7242 6.426328 ACAATTCAGAGTGAACTGTCATCTTC 59.574 38.462 0.00 0.00 42.28 2.87
2793 7243 5.798125 TTCAGAGTGAACTGTCATCTTCT 57.202 39.130 0.00 0.00 38.79 2.85
2794 7244 5.131594 TCAGAGTGAACTGTCATCTTCTG 57.868 43.478 0.00 8.40 39.02 3.02
2795 7245 4.829492 TCAGAGTGAACTGTCATCTTCTGA 59.171 41.667 11.33 11.33 41.38 3.27
2796 7246 5.048154 TCAGAGTGAACTGTCATCTTCTGAG 60.048 44.000 11.33 0.00 40.20 3.35
2797 7247 5.048154 CAGAGTGAACTGTCATCTTCTGAGA 60.048 44.000 8.79 0.00 39.48 3.27
2798 7248 5.048083 AGAGTGAACTGTCATCTTCTGAGAC 60.048 44.000 0.00 0.00 35.80 3.36
2814 7264 2.037902 TGAGACACTTGCCCGAACATTA 59.962 45.455 0.00 0.00 0.00 1.90
2915 7366 5.547465 TCATCAATACACAAGTCTTTCCGT 58.453 37.500 0.00 0.00 0.00 4.69
3047 7499 4.821935 GGCTTTATATGGCCGGCT 57.178 55.556 28.56 10.45 38.91 5.52
3086 7538 0.107410 ACAGGGCGACAAGTGAAACA 60.107 50.000 0.00 0.00 41.43 2.83
3103 7555 5.963586 GTGAAACAGTGCAGTAAAAGTACAC 59.036 40.000 0.00 0.00 36.32 2.90
3119 7571 2.748461 ACACAACGGTTCATTCAACG 57.252 45.000 0.00 0.00 35.59 4.10
3152 7604 1.620819 AGCTGTTGGATCTTCTCGTGT 59.379 47.619 0.00 0.00 0.00 4.49
3163 7619 0.955428 TTCTCGTGTGCATCTTGGCC 60.955 55.000 0.00 0.00 0.00 5.36
3178 7634 0.322322 TGGCCGTCCGTTAACTGAAT 59.678 50.000 3.71 0.00 34.14 2.57
3191 7647 6.237755 CCGTTAACTGAATAATCGAACACTCC 60.238 42.308 3.71 0.00 0.00 3.85
3192 7648 6.309494 CGTTAACTGAATAATCGAACACTCCA 59.691 38.462 3.71 0.00 0.00 3.86
3193 7649 7.462856 CGTTAACTGAATAATCGAACACTCCAG 60.463 40.741 3.71 0.00 0.00 3.86
3194 7650 5.661056 ACTGAATAATCGAACACTCCAGA 57.339 39.130 9.84 0.00 0.00 3.86
3195 7651 6.227298 ACTGAATAATCGAACACTCCAGAT 57.773 37.500 9.84 0.00 0.00 2.90
3196 7652 6.276847 ACTGAATAATCGAACACTCCAGATC 58.723 40.000 9.84 0.00 0.00 2.75
3197 7653 5.601662 TGAATAATCGAACACTCCAGATCC 58.398 41.667 0.00 0.00 0.00 3.36
3198 7654 5.363868 TGAATAATCGAACACTCCAGATCCT 59.636 40.000 0.00 0.00 0.00 3.24
3199 7655 3.810310 AATCGAACACTCCAGATCCTC 57.190 47.619 0.00 0.00 0.00 3.71
3200 7656 2.215942 TCGAACACTCCAGATCCTCA 57.784 50.000 0.00 0.00 0.00 3.86
3201 7657 2.525368 TCGAACACTCCAGATCCTCAA 58.475 47.619 0.00 0.00 0.00 3.02
3202 7658 3.099905 TCGAACACTCCAGATCCTCAAT 58.900 45.455 0.00 0.00 0.00 2.57
3203 7659 3.118992 TCGAACACTCCAGATCCTCAATG 60.119 47.826 0.00 0.00 0.00 2.82
3204 7660 3.118992 CGAACACTCCAGATCCTCAATGA 60.119 47.826 0.00 0.00 0.00 2.57
3205 7661 3.902881 ACACTCCAGATCCTCAATGAC 57.097 47.619 0.00 0.00 0.00 3.06
3206 7662 2.167281 ACACTCCAGATCCTCAATGACG 59.833 50.000 0.00 0.00 0.00 4.35
3207 7663 2.428530 CACTCCAGATCCTCAATGACGA 59.571 50.000 0.00 0.00 0.00 4.20
3208 7664 3.069300 CACTCCAGATCCTCAATGACGAT 59.931 47.826 0.00 0.00 0.00 3.73
3209 7665 3.708631 ACTCCAGATCCTCAATGACGATT 59.291 43.478 0.00 0.00 0.00 3.34
3210 7666 4.163078 ACTCCAGATCCTCAATGACGATTT 59.837 41.667 0.00 0.00 0.00 2.17
3211 7667 4.445453 TCCAGATCCTCAATGACGATTTG 58.555 43.478 6.01 6.01 0.00 2.32
3310 7798 8.599624 AACAAATAGATGGATCAACCTTGAAT 57.400 30.769 0.00 0.00 41.13 2.57
3311 7799 8.599624 ACAAATAGATGGATCAACCTTGAATT 57.400 30.769 0.00 0.00 41.13 2.17
3312 7800 9.039165 ACAAATAGATGGATCAACCTTGAATTT 57.961 29.630 0.00 0.00 41.13 1.82
3313 7801 9.880157 CAAATAGATGGATCAACCTTGAATTTT 57.120 29.630 0.00 0.00 41.13 1.82
3405 7897 9.719355 ATGTGTTATATGTGCTCGGATATTTAA 57.281 29.630 0.00 0.00 0.00 1.52
3429 7921 7.448748 AAGACATTAAAACTCTGCGGTAATT 57.551 32.000 0.00 0.00 0.00 1.40
3443 7935 2.119495 GGTAATTCAGCCCTCTCAGGA 58.881 52.381 0.00 0.00 37.67 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
129 130 4.633126 GTGCTTGAATCATAGAGAACAGCA 59.367 41.667 0.00 0.00 0.00 4.41
131 132 7.114670 CGATAGTGCTTGAATCATAGAGAACAG 59.885 40.741 0.00 0.00 0.00 3.16
261 413 4.565444 CCATCAGGTACCTGTTGATGAACA 60.565 45.833 37.98 21.12 46.99 3.18
319 471 1.460273 GGTTCCCGGTTGCATTGTGT 61.460 55.000 0.00 0.00 0.00 3.72
420 572 1.061905 TGCACCTCCCCTATGATGGG 61.062 60.000 0.00 0.00 46.68 4.00
442 594 0.248215 CATCTCGACAAATTGCCGCC 60.248 55.000 0.00 0.00 0.00 6.13
449 601 1.945394 GCCATGCTCATCTCGACAAAT 59.055 47.619 0.00 0.00 0.00 2.32
460 612 1.134007 CCCAGATAGTTGCCATGCTCA 60.134 52.381 0.00 0.00 0.00 4.26
569 721 4.069304 ACAATAAAGTTGTGGAGCGCTAA 58.931 39.130 11.50 0.00 0.00 3.09
640 792 3.776969 TGATGATAGAGCCATATGGTCCC 59.223 47.826 22.79 11.95 42.62 4.46
711 863 6.096423 AGCATCTGTATTTGAACTACGACCTA 59.904 38.462 0.00 0.00 0.00 3.08
721 873 8.830580 GCTAACTTATGAGCATCTGTATTTGAA 58.169 33.333 0.00 0.00 38.62 2.69
930 5270 3.606687 ACGACACAACCTCAAAAACTCT 58.393 40.909 0.00 0.00 0.00 3.24
938 5278 2.276201 CTTCACAACGACACAACCTCA 58.724 47.619 0.00 0.00 0.00 3.86
939 5279 1.597663 CCTTCACAACGACACAACCTC 59.402 52.381 0.00 0.00 0.00 3.85
940 5280 1.208535 TCCTTCACAACGACACAACCT 59.791 47.619 0.00 0.00 0.00 3.50
941 5281 1.329599 GTCCTTCACAACGACACAACC 59.670 52.381 0.00 0.00 0.00 3.77
942 5282 2.277084 AGTCCTTCACAACGACACAAC 58.723 47.619 0.00 0.00 0.00 3.32
943 5283 2.684001 AGTCCTTCACAACGACACAA 57.316 45.000 0.00 0.00 0.00 3.33
944 5284 2.427812 TGTAGTCCTTCACAACGACACA 59.572 45.455 0.00 0.00 0.00 3.72
945 5285 3.050619 CTGTAGTCCTTCACAACGACAC 58.949 50.000 0.00 0.00 29.71 3.67
946 5286 2.953648 TCTGTAGTCCTTCACAACGACA 59.046 45.455 0.00 0.00 31.56 4.35
947 5287 3.566523 CTCTGTAGTCCTTCACAACGAC 58.433 50.000 0.00 0.00 0.00 4.34
948 5288 2.557056 CCTCTGTAGTCCTTCACAACGA 59.443 50.000 0.00 0.00 0.00 3.85
949 5289 2.557056 TCCTCTGTAGTCCTTCACAACG 59.443 50.000 0.00 0.00 0.00 4.10
1056 5411 2.953284 AGATGCTTGGATGGATGGAG 57.047 50.000 0.00 0.00 0.00 3.86
1057 5412 2.373169 GGTAGATGCTTGGATGGATGGA 59.627 50.000 0.00 0.00 0.00 3.41
1058 5413 2.553904 GGGTAGATGCTTGGATGGATGG 60.554 54.545 0.00 0.00 0.00 3.51
1059 5414 2.107031 TGGGTAGATGCTTGGATGGATG 59.893 50.000 0.00 0.00 0.00 3.51
1060 5415 2.107204 GTGGGTAGATGCTTGGATGGAT 59.893 50.000 0.00 0.00 0.00 3.41
1076 5435 0.317799 TACGTGCATACAACGTGGGT 59.682 50.000 11.51 0.00 40.48 4.51
1158 5543 0.249447 CGAGCACCTCCGCAATCATA 60.249 55.000 0.00 0.00 0.00 2.15
1188 5573 2.570135 GATCTGAGGATGGCTTTCACC 58.430 52.381 0.00 0.00 31.46 4.02
1479 5870 2.110213 GTGGTGGCGTTCAGGACA 59.890 61.111 0.00 0.00 0.00 4.02
1539 5932 2.740826 CCGGCCGTTGTCGAATGT 60.741 61.111 26.12 0.00 43.95 2.71
1628 6021 0.393808 GGCCCTGGTAAATGCTTCGA 60.394 55.000 0.00 0.00 0.00 3.71
2056 6482 8.709308 AGTCAGCAGATATCCTGTTTTATAACT 58.291 33.333 0.00 0.00 44.71 2.24
2152 6578 5.862845 AGACATGAGATCATAGGCGAAAAT 58.137 37.500 0.00 0.00 34.26 1.82
2265 6691 0.610687 GCCTCTGCACTGGAGTAAGT 59.389 55.000 4.54 0.00 37.47 2.24
2428 6868 9.668497 CTAATAATAATAAGGCTAGTTCCACCC 57.332 37.037 0.00 0.00 0.00 4.61
2461 6901 9.967346 GCTATGTCGAATCCTATATTATGCTTA 57.033 33.333 0.00 0.00 0.00 3.09
2462 6902 8.700051 AGCTATGTCGAATCCTATATTATGCTT 58.300 33.333 0.00 0.00 0.00 3.91
2463 6903 8.140628 CAGCTATGTCGAATCCTATATTATGCT 58.859 37.037 0.00 0.00 0.00 3.79
2464 6904 7.923344 ACAGCTATGTCGAATCCTATATTATGC 59.077 37.037 0.00 0.00 32.99 3.14
2467 6907 9.457436 TGTACAGCTATGTCGAATCCTATATTA 57.543 33.333 0.00 0.00 41.01 0.98
2468 6908 8.349568 TGTACAGCTATGTCGAATCCTATATT 57.650 34.615 0.00 0.00 41.01 1.28
2479 6919 6.855914 ACAACAAATTTTGTACAGCTATGTCG 59.144 34.615 14.81 0.00 44.59 4.35
2490 6930 6.432607 TGACACCGTACAACAAATTTTGTA 57.567 33.333 14.81 0.00 44.59 2.41
2492 6932 6.087555 GCTATGACACCGTACAACAAATTTTG 59.912 38.462 7.59 7.59 0.00 2.44
2493 6933 6.016610 AGCTATGACACCGTACAACAAATTTT 60.017 34.615 0.00 0.00 0.00 1.82
2494 6934 5.472137 AGCTATGACACCGTACAACAAATTT 59.528 36.000 0.00 0.00 0.00 1.82
2550 6990 3.325870 TCAGAAATTGCGGTAGTGACAG 58.674 45.455 0.00 0.00 0.00 3.51
2560 7000 1.804151 TCGGGAAACTCAGAAATTGCG 59.196 47.619 0.00 0.00 0.00 4.85
2598 7038 1.173043 CGAGTGGGCATTGGCTTTTA 58.827 50.000 10.31 0.00 40.87 1.52
2609 7049 1.782028 AAACACGCTTTCGAGTGGGC 61.782 55.000 7.36 0.26 44.05 5.36
2618 7058 3.875134 ACTACACTTAGCAAACACGCTTT 59.125 39.130 0.00 0.00 43.56 3.51
2619 7059 3.463944 ACTACACTTAGCAAACACGCTT 58.536 40.909 0.00 0.00 43.56 4.68
2621 7061 3.493503 AGAACTACACTTAGCAAACACGC 59.506 43.478 0.00 0.00 0.00 5.34
2631 7071 2.753452 CCTGAGCCGAGAACTACACTTA 59.247 50.000 0.00 0.00 0.00 2.24
2717 7158 5.574443 GGCTTCAAATTACAAGTGCAGAATC 59.426 40.000 0.00 0.00 0.00 2.52
2790 7240 0.756294 TTCGGGCAAGTGTCTCAGAA 59.244 50.000 0.00 0.00 0.00 3.02
2791 7241 0.033504 GTTCGGGCAAGTGTCTCAGA 59.966 55.000 0.00 0.00 0.00 3.27
2792 7242 0.249868 TGTTCGGGCAAGTGTCTCAG 60.250 55.000 0.00 0.00 0.00 3.35
2793 7243 0.396435 ATGTTCGGGCAAGTGTCTCA 59.604 50.000 0.00 0.00 0.00 3.27
2794 7244 1.523758 AATGTTCGGGCAAGTGTCTC 58.476 50.000 0.00 0.00 0.00 3.36
2795 7245 2.224426 TGTAATGTTCGGGCAAGTGTCT 60.224 45.455 0.00 0.00 0.00 3.41
2796 7246 2.147958 TGTAATGTTCGGGCAAGTGTC 58.852 47.619 0.00 0.00 0.00 3.67
2797 7247 2.264005 TGTAATGTTCGGGCAAGTGT 57.736 45.000 0.00 0.00 0.00 3.55
2798 7248 2.552315 ACTTGTAATGTTCGGGCAAGTG 59.448 45.455 7.34 0.00 45.20 3.16
2814 7264 9.337396 TGAAAAGAAATGATGTAGTGTACTTGT 57.663 29.630 0.00 0.00 0.00 3.16
2895 7345 5.818336 TGAAACGGAAAGACTTGTGTATTGA 59.182 36.000 0.00 0.00 0.00 2.57
2896 7346 6.055231 TGAAACGGAAAGACTTGTGTATTG 57.945 37.500 0.00 0.00 0.00 1.90
2897 7347 6.877611 ATGAAACGGAAAGACTTGTGTATT 57.122 33.333 0.00 0.00 0.00 1.89
2915 7366 6.818644 GCAGTGTACATCTAGGAAGAATGAAA 59.181 38.462 0.00 0.00 34.73 2.69
3040 7492 3.365265 CACTGTTTCCAGCCGGCC 61.365 66.667 26.15 7.06 42.81 6.13
3044 7496 4.079253 TCCTTTTATCACTGTTTCCAGCC 58.921 43.478 0.00 0.00 42.81 4.85
3047 7499 5.534654 CCTGTTCCTTTTATCACTGTTTCCA 59.465 40.000 0.00 0.00 0.00 3.53
3086 7538 3.558418 CCGTTGTGTACTTTTACTGCACT 59.442 43.478 0.00 0.00 0.00 4.40
3103 7555 1.523515 TCGTCGTTGAATGAACCGTTG 59.476 47.619 0.00 0.00 0.00 4.10
3119 7571 3.318555 CAGCTCGCGATGCTCGTC 61.319 66.667 23.94 4.82 42.81 4.20
3152 7604 2.173758 TAACGGACGGCCAAGATGCA 62.174 55.000 8.76 0.00 0.00 3.96
3163 7619 5.286797 TGTTCGATTATTCAGTTAACGGACG 59.713 40.000 8.02 8.39 31.62 4.79
3178 7634 4.278310 TGAGGATCTGGAGTGTTCGATTA 58.722 43.478 0.00 0.00 34.92 1.75
3191 7647 3.624410 TGCAAATCGTCATTGAGGATCTG 59.376 43.478 19.15 17.08 36.36 2.90
3192 7648 3.875727 CTGCAAATCGTCATTGAGGATCT 59.124 43.478 19.15 5.92 36.36 2.75
3193 7649 3.547613 GCTGCAAATCGTCATTGAGGATC 60.548 47.826 19.15 9.88 36.36 3.36
3194 7650 2.357009 GCTGCAAATCGTCATTGAGGAT 59.643 45.455 14.51 14.51 38.56 3.24
3195 7651 1.739466 GCTGCAAATCGTCATTGAGGA 59.261 47.619 11.16 11.16 0.00 3.71
3196 7652 1.741706 AGCTGCAAATCGTCATTGAGG 59.258 47.619 1.02 0.00 0.00 3.86
3197 7653 2.223203 GGAGCTGCAAATCGTCATTGAG 60.223 50.000 0.00 0.00 0.00 3.02
3198 7654 1.739466 GGAGCTGCAAATCGTCATTGA 59.261 47.619 0.00 0.00 0.00 2.57
3199 7655 1.741706 AGGAGCTGCAAATCGTCATTG 59.258 47.619 8.35 0.00 0.00 2.82
3200 7656 2.012673 GAGGAGCTGCAAATCGTCATT 58.987 47.619 8.35 0.00 32.09 2.57
3201 7657 1.661341 GAGGAGCTGCAAATCGTCAT 58.339 50.000 8.35 0.00 32.09 3.06
3202 7658 0.737367 CGAGGAGCTGCAAATCGTCA 60.737 55.000 8.35 0.00 32.09 4.35
3203 7659 0.737715 ACGAGGAGCTGCAAATCGTC 60.738 55.000 13.91 9.28 42.48 4.20
3204 7660 1.293498 ACGAGGAGCTGCAAATCGT 59.707 52.632 13.91 13.91 41.42 3.73
3205 7661 1.746727 CGACGAGGAGCTGCAAATCG 61.747 60.000 8.35 10.94 39.22 3.34
3206 7662 0.458543 TCGACGAGGAGCTGCAAATC 60.459 55.000 8.35 0.02 0.00 2.17
3207 7663 0.176680 ATCGACGAGGAGCTGCAAAT 59.823 50.000 8.35 0.00 0.00 2.32
3208 7664 0.737367 CATCGACGAGGAGCTGCAAA 60.737 55.000 8.35 0.00 0.00 3.68
3209 7665 1.153765 CATCGACGAGGAGCTGCAA 60.154 57.895 8.35 0.00 0.00 4.08
3210 7666 1.387295 ATCATCGACGAGGAGCTGCA 61.387 55.000 17.81 0.00 0.00 4.41
3211 7667 0.662970 GATCATCGACGAGGAGCTGC 60.663 60.000 19.34 0.00 0.00 5.25
3405 7897 7.174253 TGAATTACCGCAGAGTTTTAATGTCTT 59.826 33.333 0.00 0.00 0.00 3.01
3419 7911 0.179000 AGAGGGCTGAATTACCGCAG 59.821 55.000 0.00 0.00 35.28 5.18
3423 7915 2.119495 TCCTGAGAGGGCTGAATTACC 58.881 52.381 0.00 0.00 35.59 2.85
3429 7921 2.392662 CTAATGTCCTGAGAGGGCTGA 58.607 52.381 0.00 0.00 41.63 4.26
3443 7935 3.067106 CAACGGTTCAGACTGCTAATGT 58.933 45.455 0.00 0.00 35.46 2.71


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

AutoCloner maintained by Alex Coulton.