Multiple sequence alignment - TraesCS6A01G065600

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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 TraesCS6A01G065600 chr6A 100.000 3227 0 0 1 3227 35142761 35145987 0.000000e+00 5960.0
1 TraesCS6A01G065600 chr6A 87.211 1861 167 35 7 1818 35178678 35180516 0.000000e+00 2052.0
2 TraesCS6A01G065600 chr6A 86.562 1466 113 38 1818 3224 35180582 35182022 0.000000e+00 1539.0
3 TraesCS6A01G065600 chr6A 77.816 879 160 25 954 1816 26935988 26935129 7.990000e-141 510.0
4 TraesCS6A01G065600 chrUn 87.733 1981 146 49 711 2635 103127664 103129603 0.000000e+00 2222.0
5 TraesCS6A01G065600 chrUn 91.236 1084 56 11 759 1817 103111264 103112333 0.000000e+00 1439.0
6 TraesCS6A01G065600 chrUn 88.180 956 68 16 2294 3223 103112855 103113791 0.000000e+00 1098.0
7 TraesCS6A01G065600 chrUn 90.566 477 33 5 1818 2282 103112400 103112876 3.540000e-174 621.0
8 TraesCS6A01G065600 chrUn 83.984 487 54 17 2686 3151 103129613 103130096 2.280000e-121 446.0
9 TraesCS6A01G065600 chrUn 86.772 378 42 5 2419 2792 103119841 103120214 6.440000e-112 414.0
10 TraesCS6A01G065600 chrUn 85.600 250 22 9 2964 3212 103120313 103120549 1.920000e-62 250.0
11 TraesCS6A01G065600 chrUn 79.137 139 15 12 2587 2713 96283172 96283308 2.060000e-12 84.2
12 TraesCS6A01G065600 chr6B 85.177 1835 181 40 1 1818 64323181 64324941 0.000000e+00 1797.0
13 TraesCS6A01G065600 chr6B 80.836 1101 125 43 1818 2887 64325022 64326067 0.000000e+00 785.0
14 TraesCS6A01G065600 chr3B 100.000 28 0 0 90 117 550781987 550781960 6.000000e-03 52.8


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 TraesCS6A01G065600 chr6A 35142761 35145987 3226 False 5960.000000 5960 100.0000 1 3227 1 chr6A.!!$F1 3226
1 TraesCS6A01G065600 chr6A 35178678 35182022 3344 False 1795.500000 2052 86.8865 7 3224 2 chr6A.!!$F2 3217
2 TraesCS6A01G065600 chr6A 26935129 26935988 859 True 510.000000 510 77.8160 954 1816 1 chr6A.!!$R1 862
3 TraesCS6A01G065600 chrUn 103127664 103130096 2432 False 1334.000000 2222 85.8585 711 3151 2 chrUn.!!$F4 2440
4 TraesCS6A01G065600 chrUn 103111264 103113791 2527 False 1052.666667 1439 89.9940 759 3223 3 chrUn.!!$F2 2464
5 TraesCS6A01G065600 chrUn 103119841 103120549 708 False 332.000000 414 86.1860 2419 3212 2 chrUn.!!$F3 793
6 TraesCS6A01G065600 chr6B 64323181 64326067 2886 False 1291.000000 1797 83.0065 1 2887 2 chr6B.!!$F1 2886

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
48 49 0.037605 GGTCAAACACGATCCGACCT 60.038 55.0 0.0 0.0 42.37 3.85 F
1237 1309 0.037232 GCGGTGCTGGTACTTCTTCT 60.037 55.0 0.0 0.0 0.00 2.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1619 1703 0.110104 AGCAGGAGAAACAAGCAGCT 59.890 50.0 0.0 0.0 0.0 4.24 R
2351 2550 0.740868 ACATCGACCATCAGCCAACG 60.741 55.0 0.0 0.0 0.0 4.10 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
23 24 1.074072 CCAATGGTTGACCGGTCCA 59.926 57.895 31.19 23.11 39.43 4.02
24 25 0.323360 CCAATGGTTGACCGGTCCAT 60.323 55.000 31.19 24.29 42.82 3.41
48 49 0.037605 GGTCAAACACGATCCGACCT 60.038 55.000 0.00 0.00 42.37 3.85
74 75 5.695851 AAAAAGAATGTGATCAAGCGACT 57.304 34.783 0.00 0.00 0.00 4.18
142 143 2.555547 GCGCCAGCAAACCTGTTCT 61.556 57.895 0.00 0.00 44.35 3.01
145 146 1.109323 GCCAGCAAACCTGTTCTGGT 61.109 55.000 15.30 5.73 45.86 4.00
151 152 2.030805 GCAAACCTGTTCTGGTGCTTAG 60.031 50.000 2.32 0.00 40.73 2.18
173 174 1.066587 GCTGAACGAGGAGATCCCG 59.933 63.158 7.83 7.83 40.87 5.14
191 192 2.810274 CCCGTTATCATCATCCTTGCAG 59.190 50.000 0.00 0.00 0.00 4.41
227 231 6.696441 TTTTTGAAAAATGCTTGGCTTCAT 57.304 29.167 0.00 0.00 0.00 2.57
228 232 6.696441 TTTTGAAAAATGCTTGGCTTCATT 57.304 29.167 0.00 0.00 34.66 2.57
237 241 2.094675 CTTGGCTTCATTCGGTGGATT 58.905 47.619 0.00 0.00 0.00 3.01
241 245 1.406539 GCTTCATTCGGTGGATTGCAT 59.593 47.619 0.00 0.00 0.00 3.96
263 267 1.793258 GAGCATCCATCTGTCATCCG 58.207 55.000 0.00 0.00 0.00 4.18
309 314 4.410743 GCCGCTGCTTGTTGCTCC 62.411 66.667 0.00 0.00 43.37 4.70
498 533 5.857822 AAACTATAACAAGACCTCGTTGC 57.142 39.130 0.00 0.00 0.00 4.17
574 611 9.926158 TGTATTGCAGAAATTTCATACAAACAT 57.074 25.926 19.99 8.64 0.00 2.71
593 630 7.490079 ACAAACATGACATGTATTGCAATGATC 59.510 33.333 26.24 12.18 44.07 2.92
600 637 7.656948 TGACATGTATTGCAATGATCGAAGATA 59.343 33.333 22.27 0.00 45.12 1.98
620 657 2.268920 GCTCGGCCACTCAATCCA 59.731 61.111 2.24 0.00 0.00 3.41
627 664 3.005554 CGGCCACTCAATCCATCATATC 58.994 50.000 2.24 0.00 0.00 1.63
633 670 3.903714 ACTCAATCCATCATATCCCGACA 59.096 43.478 0.00 0.00 0.00 4.35
639 676 1.270826 CATCATATCCCGACAGCTCGT 59.729 52.381 0.00 0.00 38.32 4.18
642 679 0.955178 ATATCCCGACAGCTCGTGAG 59.045 55.000 0.00 0.00 38.32 3.51
648 685 4.406173 ACAGCTCGTGAGGCGACG 62.406 66.667 5.84 5.84 45.68 5.12
662 699 5.292589 GTGAGGCGACGGATCTTTTAAAATA 59.707 40.000 0.09 0.00 0.00 1.40
739 780 1.201647 CAGTGTGTAGTTCGGACCGAT 59.798 52.381 19.12 6.30 35.23 4.18
745 786 2.821378 TGTAGTTCGGACCGATGAAAGA 59.179 45.455 19.12 0.00 35.23 2.52
802 843 3.637273 GCGTGTTCCACCCCTCCT 61.637 66.667 0.00 0.00 0.00 3.69
834 891 3.839432 CCCGCGTCCTCTTCTCCC 61.839 72.222 4.92 0.00 0.00 4.30
849 907 4.169696 CCCTACGCGCCATCCCAA 62.170 66.667 5.73 0.00 0.00 4.12
850 908 2.895372 CCTACGCGCCATCCCAAC 60.895 66.667 5.73 0.00 0.00 3.77
870 930 6.815142 CCCAACATTCAAGATTCAAGATTTCC 59.185 38.462 0.00 0.00 0.00 3.13
1237 1309 0.037232 GCGGTGCTGGTACTTCTTCT 60.037 55.000 0.00 0.00 0.00 2.85
1454 1535 0.460109 TTCCGTGTGGCTCATGATCG 60.460 55.000 10.21 0.73 35.23 3.69
1455 1536 1.153568 CCGTGTGGCTCATGATCGT 60.154 57.895 10.21 0.00 35.23 3.73
1456 1537 1.148157 CCGTGTGGCTCATGATCGTC 61.148 60.000 10.21 0.00 35.23 4.20
1467 1548 4.738839 GCTCATGATCGTCAAGGAGATGAA 60.739 45.833 16.57 0.00 45.00 2.57
1619 1703 0.880278 GTGAAGACTGTGAAGCGGCA 60.880 55.000 1.45 0.00 0.00 5.69
1652 1736 1.248785 CCTGCTGCACCAATTCTGCT 61.249 55.000 0.00 0.00 35.53 4.24
1756 1849 0.534412 CCTCACGCCTGATCAAGTCT 59.466 55.000 0.00 0.00 0.00 3.24
1777 1870 1.425066 TGGGTGACTTCTTGATGCCTT 59.575 47.619 0.00 0.00 0.00 4.35
1779 1872 3.073798 TGGGTGACTTCTTGATGCCTTTA 59.926 43.478 0.00 0.00 0.00 1.85
1819 1993 0.744874 CAGCTTCTCCATGGCCAATG 59.255 55.000 10.96 8.95 35.89 2.82
1837 2011 5.589452 GCCAATGAGAATTCTGATCAAGTCT 59.411 40.000 14.00 0.00 33.45 3.24
1870 2047 1.168714 GTTGATGCCTGTCCCTGAAC 58.831 55.000 0.00 0.00 0.00 3.18
1874 2051 1.136329 ATGCCTGTCCCTGAACCAGT 61.136 55.000 0.00 0.00 0.00 4.00
1881 2058 0.472471 TCCCTGAACCAGTGGTCAAC 59.528 55.000 17.06 10.90 33.12 3.18
1897 2074 2.079158 TCAACTACAGCTTCTGCATGC 58.921 47.619 11.82 11.82 42.74 4.06
1931 2108 0.249120 TCCATGGTGAGCAACTACGG 59.751 55.000 12.58 0.00 0.00 4.02
1969 2146 2.361119 GGTTCAGTCACACCCCTTTTTC 59.639 50.000 0.00 0.00 0.00 2.29
2271 2465 1.092348 GTTTTCGCTACCCCATGGAC 58.908 55.000 15.22 0.00 34.81 4.02
2273 2467 0.693622 TTTCGCTACCCCATGGACAA 59.306 50.000 15.22 0.00 34.81 3.18
2363 2562 0.387622 CTTGTTGCGTTGGCTGATGG 60.388 55.000 0.00 0.00 40.82 3.51
2369 2568 2.009108 CGTTGGCTGATGGTCGATG 58.991 57.895 0.00 0.00 0.00 3.84
2370 2569 0.740868 CGTTGGCTGATGGTCGATGT 60.741 55.000 0.00 0.00 0.00 3.06
2375 2574 3.028130 TGGCTGATGGTCGATGTAGTTA 58.972 45.455 0.00 0.00 0.00 2.24
2397 2597 9.726438 AGTTATGGCTTATAATGATCTGGTTAC 57.274 33.333 0.00 0.00 33.99 2.50
2404 2604 9.204570 GCTTATAATGATCTGGTTACGTATGTT 57.795 33.333 0.00 0.00 0.00 2.71
2415 2615 9.955208 TCTGGTTACGTATGTTAGTATACATTG 57.045 33.333 5.50 0.00 39.39 2.82
2420 2644 6.989659 ACGTATGTTAGTATACATTGGGGAG 58.010 40.000 5.50 0.00 39.39 4.30
2434 2658 2.556766 TGGGGAGGTGTATTGTCATCA 58.443 47.619 0.00 0.00 0.00 3.07
2445 2669 9.113838 AGGTGTATTGTCATCATTAACTGAATC 57.886 33.333 0.00 0.00 37.44 2.52
2522 2751 4.203226 TGTGATTTCCTGTGTTGTAAGCA 58.797 39.130 0.00 0.00 0.00 3.91
2532 2761 9.727859 TTCCTGTGTTGTAAGCAGTAATTAATA 57.272 29.630 0.00 0.00 0.00 0.98
2546 2776 7.660208 GCAGTAATTAATACCCTTTAGCTGCTA 59.340 37.037 5.02 5.02 40.57 3.49
2560 2790 6.985653 TTAGCTGCTATCTTTGATCCTACT 57.014 37.500 10.64 0.00 0.00 2.57
2614 2849 9.938670 CTGTCTGATAACTAATGAGTGTAGTAC 57.061 37.037 0.00 0.00 35.52 2.73
2737 2985 6.204882 AGTTACAGTTTGACATTGTTCTAGCC 59.795 38.462 0.00 0.00 0.00 3.93
2759 3007 2.755650 ACTCTTTCAGCACACCTAACG 58.244 47.619 0.00 0.00 0.00 3.18
2773 3021 0.458025 CTAACGCTTCAGACCGGGAC 60.458 60.000 6.32 0.00 0.00 4.46
2793 3041 4.651503 GGACTCCTGGTTCTATCATTCTCA 59.348 45.833 0.00 0.00 0.00 3.27
2801 3049 7.775093 CCTGGTTCTATCATTCTCAAACCATAA 59.225 37.037 5.33 0.00 43.62 1.90
2803 3051 8.328758 TGGTTCTATCATTCTCAAACCATAAGT 58.671 33.333 0.83 0.00 40.76 2.24
2838 3098 7.452880 TTGGAGACAGAAATTATTGGTCTTG 57.547 36.000 8.04 0.00 44.54 3.02
2858 3118 8.261522 GGTCTTGGAAATAGTTTCTCTCTGTAT 58.738 37.037 2.84 0.00 39.59 2.29
2911 3171 2.837591 GTGGAATTTTATGGTGGGCCTT 59.162 45.455 4.53 0.00 35.27 4.35
2935 3203 2.342179 GCTGGAGCACTCTTACAGTTC 58.658 52.381 0.00 0.00 41.59 3.01
3067 3353 5.351189 GGTGCTTATTGTAATGGGCAAAAAG 59.649 40.000 7.50 0.00 32.31 2.27
3076 3362 4.961438 AATGGGCAAAAAGTTCATGTCT 57.039 36.364 0.00 0.00 0.00 3.41
3081 3367 3.068024 GGCAAAAAGTTCATGTCTGGTCA 59.932 43.478 0.00 0.00 0.00 4.02
3162 3451 2.230992 GTGTGTGCCTGCCATGAAAATA 59.769 45.455 0.00 0.00 0.00 1.40
3174 3463 4.498009 GCCATGAAAATATTCCAGTGACCG 60.498 45.833 0.00 0.00 34.49 4.79
3188 3477 2.494870 AGTGACCGTAGACCCAATGTAC 59.505 50.000 0.00 0.00 0.00 2.90
3212 3501 8.934023 ACCTGTTCATTTAAGTATTTCAGGAA 57.066 30.769 13.18 0.00 41.37 3.36
3219 3508 6.721571 TTTAAGTATTTCAGGAAGCAGTCG 57.278 37.500 0.00 0.00 0.00 4.18
3224 3513 5.812642 AGTATTTCAGGAAGCAGTCGTAATG 59.187 40.000 0.00 0.00 0.00 1.90
3225 3514 3.678056 TTCAGGAAGCAGTCGTAATGT 57.322 42.857 0.00 0.00 0.00 2.71
3226 3515 4.794278 TTCAGGAAGCAGTCGTAATGTA 57.206 40.909 0.00 0.00 0.00 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 1.377229 GGACCGGTCAACCATTGGA 59.623 57.895 34.40 0.00 35.14 3.53
5 6 0.323360 ATGGACCGGTCAACCATTGG 60.323 55.000 34.40 0.00 40.91 3.16
23 24 2.699954 GGATCGTGTTTGACCAGTCAT 58.300 47.619 0.48 0.00 39.64 3.06
24 25 1.604438 CGGATCGTGTTTGACCAGTCA 60.604 52.381 0.00 0.00 37.91 3.41
74 75 5.256474 CAAGAAAAAGGCAATCTCTCCCTA 58.744 41.667 0.00 0.00 0.00 3.53
125 126 1.283793 CAGAACAGGTTTGCTGGCG 59.716 57.895 0.00 0.00 0.00 5.69
142 143 2.889606 TTCAGCGCCCTAAGCACCA 61.890 57.895 2.29 0.00 44.04 4.17
145 146 2.434185 CGTTCAGCGCCCTAAGCA 60.434 61.111 2.29 0.00 44.04 3.91
151 152 2.962697 GATCTCCTCGTTCAGCGCCC 62.963 65.000 2.29 0.00 41.07 6.13
168 169 3.072915 TGCAAGGATGATGATAACGGGAT 59.927 43.478 0.00 0.00 0.00 3.85
204 208 6.696441 ATGAAGCCAAGCATTTTTCAAAAA 57.304 29.167 0.00 0.00 32.21 1.94
205 209 6.511444 CGAATGAAGCCAAGCATTTTTCAAAA 60.511 34.615 0.00 0.00 35.05 2.44
206 210 5.050227 CGAATGAAGCCAAGCATTTTTCAAA 60.050 36.000 0.00 0.00 35.05 2.69
207 211 4.448395 CGAATGAAGCCAAGCATTTTTCAA 59.552 37.500 0.00 0.00 35.05 2.69
208 212 3.989167 CGAATGAAGCCAAGCATTTTTCA 59.011 39.130 0.00 0.00 35.05 2.69
209 213 3.368843 CCGAATGAAGCCAAGCATTTTTC 59.631 43.478 0.00 0.00 35.05 2.29
210 214 3.244181 ACCGAATGAAGCCAAGCATTTTT 60.244 39.130 0.00 0.00 35.05 1.94
227 231 1.368345 CTCGCATGCAATCCACCGAA 61.368 55.000 19.57 0.00 32.46 4.30
228 232 1.815003 CTCGCATGCAATCCACCGA 60.815 57.895 19.57 2.90 0.00 4.69
241 245 0.466963 ATGACAGATGGATGCTCGCA 59.533 50.000 0.00 0.00 0.00 5.10
303 308 3.876914 CAGAAACGCATTATAGGGAGCAA 59.123 43.478 0.00 0.00 0.00 3.91
309 314 2.613595 TGCTGCAGAAACGCATTATAGG 59.386 45.455 20.43 0.00 42.06 2.57
349 354 9.646427 TTGCAACCAAGGTATTGTTATAATTTC 57.354 29.630 0.00 0.00 34.39 2.17
362 368 7.195839 GCAATTTATTTTTGCAACCAAGGTA 57.804 32.000 0.00 0.00 46.78 3.08
481 516 5.508200 TTTTTGCAACGAGGTCTTGTTAT 57.492 34.783 0.00 0.00 35.53 1.89
554 591 7.872163 TGTCATGTTTGTATGAAATTTCTGC 57.128 32.000 18.64 9.37 38.69 4.26
565 602 8.468399 TCATTGCAATACATGTCATGTTTGTAT 58.532 29.630 23.05 17.68 41.63 2.29
567 604 6.689554 TCATTGCAATACATGTCATGTTTGT 58.310 32.000 23.05 7.89 41.63 2.83
571 608 5.528320 TCGATCATTGCAATACATGTCATGT 59.472 36.000 21.70 21.70 46.92 3.21
572 609 5.992729 TCGATCATTGCAATACATGTCATG 58.007 37.500 12.53 11.41 0.00 3.07
573 610 6.484308 TCTTCGATCATTGCAATACATGTCAT 59.516 34.615 12.53 0.00 0.00 3.06
574 611 5.816777 TCTTCGATCATTGCAATACATGTCA 59.183 36.000 12.53 0.00 0.00 3.58
576 613 6.872628 ATCTTCGATCATTGCAATACATGT 57.127 33.333 12.53 2.69 0.00 3.21
582 619 4.512944 AGCGTTATCTTCGATCATTGCAAT 59.487 37.500 5.99 5.99 0.00 3.56
593 630 1.226859 TGGCCGAGCGTTATCTTCG 60.227 57.895 0.00 0.00 0.00 3.79
600 637 1.741770 GATTGAGTGGCCGAGCGTT 60.742 57.895 0.00 0.00 0.00 4.84
639 676 3.322211 TTTAAAAGATCCGTCGCCTCA 57.678 42.857 0.00 0.00 0.00 3.86
642 679 6.140786 GGATTATTTTAAAAGATCCGTCGCC 58.859 40.000 21.16 7.14 30.17 5.54
648 685 5.458015 CCGGCGGATTATTTTAAAAGATCC 58.542 41.667 24.41 23.60 34.09 3.36
696 733 9.507329 ACTGAAGATTTGCAAAGATACTTTCTA 57.493 29.630 18.19 9.44 33.05 2.10
707 748 6.449635 AACTACACACTGAAGATTTGCAAA 57.550 33.333 15.44 15.44 0.00 3.68
802 843 0.612453 GCGGGTTTGGGTTTGGGATA 60.612 55.000 0.00 0.00 0.00 2.59
834 891 1.095228 AATGTTGGGATGGCGCGTAG 61.095 55.000 8.43 0.00 0.00 3.51
848 906 7.095270 GCTGGAAATCTTGAATCTTGAATGTT 58.905 34.615 0.00 0.00 0.00 2.71
849 907 6.209986 TGCTGGAAATCTTGAATCTTGAATGT 59.790 34.615 0.00 0.00 0.00 2.71
850 908 6.530534 GTGCTGGAAATCTTGAATCTTGAATG 59.469 38.462 0.00 0.00 0.00 2.67
870 930 1.210155 GCCGCCTTTTGTAGTGCTG 59.790 57.895 0.00 0.00 0.00 4.41
907 975 0.334676 GGTTTGGGATGGGTGGATCA 59.665 55.000 0.00 0.00 0.00 2.92
1216 1288 2.781595 AAGAAGTACCAGCACCGCCG 62.782 60.000 0.00 0.00 0.00 6.46
1428 1509 3.103911 GCCACACGGAACTCGACG 61.104 66.667 0.00 0.00 42.43 5.12
1454 1535 4.934602 CACCTTTCTCTTCATCTCCTTGAC 59.065 45.833 0.00 0.00 0.00 3.18
1455 1536 4.840680 TCACCTTTCTCTTCATCTCCTTGA 59.159 41.667 0.00 0.00 0.00 3.02
1456 1537 5.046735 TCTCACCTTTCTCTTCATCTCCTTG 60.047 44.000 0.00 0.00 0.00 3.61
1467 1548 3.309296 TGGAACTGTCTCACCTTTCTCT 58.691 45.455 0.00 0.00 0.00 3.10
1619 1703 0.110104 AGCAGGAGAAACAAGCAGCT 59.890 50.000 0.00 0.00 0.00 4.24
1756 1849 1.425066 AGGCATCAAGAAGTCACCCAA 59.575 47.619 0.00 0.00 0.00 4.12
1777 1870 5.945191 TGCAATTGACATCTGATTCAGGTAA 59.055 36.000 10.34 0.00 31.51 2.85
1779 1872 4.338012 TGCAATTGACATCTGATTCAGGT 58.662 39.130 10.34 3.42 31.51 4.00
1819 1993 6.315891 CCCAGAAAGACTTGATCAGAATTCTC 59.684 42.308 4.57 0.00 0.00 2.87
1837 2011 2.622942 GCATCAACAAGTCACCCAGAAA 59.377 45.455 0.00 0.00 0.00 2.52
1870 2047 2.037772 AGAAGCTGTAGTTGACCACTGG 59.962 50.000 0.00 0.00 35.97 4.00
1874 2051 1.416030 TGCAGAAGCTGTAGTTGACCA 59.584 47.619 0.00 0.00 42.74 4.02
1881 2058 1.434622 CGGGCATGCAGAAGCTGTAG 61.435 60.000 21.36 0.00 42.74 2.74
1931 2108 2.436646 CACCATGGAGGACGGTGC 60.437 66.667 21.47 0.00 43.43 5.01
1969 2146 7.060289 CGACAAGTCAAATTGATCAGAATTGTG 59.940 37.037 24.32 15.94 45.57 3.33
2121 2304 1.219124 GACTGAGGCCGCTTCATCA 59.781 57.895 8.34 0.00 0.00 3.07
2248 2437 1.468520 CATGGGGTAGCGAAAACACAG 59.531 52.381 0.00 0.00 0.00 3.66
2271 2465 1.599071 ACGGCGATTGCATGTATCTTG 59.401 47.619 16.62 0.00 45.35 3.02
2273 2467 1.953559 AACGGCGATTGCATGTATCT 58.046 45.000 16.62 0.00 45.35 1.98
2348 2547 2.324330 CGACCATCAGCCAACGCAA 61.324 57.895 0.00 0.00 37.52 4.85
2351 2550 0.740868 ACATCGACCATCAGCCAACG 60.741 55.000 0.00 0.00 0.00 4.10
2363 2562 8.981724 TCATTATAAGCCATAACTACATCGAC 57.018 34.615 0.00 0.00 31.88 4.20
2369 2568 9.726438 AACCAGATCATTATAAGCCATAACTAC 57.274 33.333 0.00 0.00 31.88 2.73
2375 2574 6.769512 ACGTAACCAGATCATTATAAGCCAT 58.230 36.000 0.00 0.00 0.00 4.40
2397 2597 6.014840 ACCTCCCCAATGTATACTAACATACG 60.015 42.308 4.17 0.00 39.16 3.06
2404 2604 6.847567 ACAATACACCTCCCCAATGTATACTA 59.152 38.462 4.17 0.00 38.33 1.82
2407 2607 5.668080 TGACAATACACCTCCCCAATGTATA 59.332 40.000 0.00 0.00 38.33 1.47
2415 2615 3.864789 ATGATGACAATACACCTCCCC 57.135 47.619 0.00 0.00 0.00 4.81
2420 2644 9.113838 AGATTCAGTTAATGATGACAATACACC 57.886 33.333 0.00 0.00 37.89 4.16
2522 2751 9.945904 GATAGCAGCTAAAGGGTATTAATTACT 57.054 33.333 6.13 0.00 0.00 2.24
2532 2761 4.844349 TCAAAGATAGCAGCTAAAGGGT 57.156 40.909 6.13 0.00 0.00 4.34
2546 2776 2.776536 AGCCAGCAGTAGGATCAAAGAT 59.223 45.455 0.00 0.00 0.00 2.40
2560 2790 1.974875 CCAAGTGCATGAGCCAGCA 60.975 57.895 0.00 0.00 41.13 4.41
2737 2985 3.059597 CGTTAGGTGTGCTGAAAGAGTTG 60.060 47.826 0.00 0.00 34.07 3.16
2759 3007 1.985116 AGGAGTCCCGGTCTGAAGC 60.985 63.158 5.25 0.00 37.58 3.86
2773 3021 5.819901 GGTTTGAGAATGATAGAACCAGGAG 59.180 44.000 0.00 0.00 37.18 3.69
2801 3049 9.927081 ATTTCTGTCTCCAATATTCCATAAACT 57.073 29.630 0.00 0.00 0.00 2.66
2831 3091 6.043243 ACAGAGAGAAACTATTTCCAAGACCA 59.957 38.462 0.00 0.00 40.54 4.02
2859 3119 9.857656 ATGAGATGGAAATAATGTGTGAGTAAT 57.142 29.630 0.00 0.00 0.00 1.89
2900 3160 1.909781 CAGCACAAAGGCCCACCAT 60.910 57.895 0.00 0.00 39.06 3.55
2935 3203 1.001406 GATCCTACCGGAAGATGCAGG 59.999 57.143 9.46 2.63 44.02 4.85
2975 3243 4.974399 AGTTAGAACCAGAACAAGGAAGG 58.026 43.478 0.00 0.00 0.00 3.46
3015 3301 4.493547 CTGTTCAAGGAGCAAACAAAACA 58.506 39.130 0.00 0.00 32.89 2.83
3076 3362 1.071699 GGCTACCTTGTCTGTTGACCA 59.928 52.381 0.00 0.00 42.28 4.02
3081 3367 6.128138 AGAAAATAGGCTACCTTGTCTGTT 57.872 37.500 0.00 0.00 34.61 3.16
3162 3451 1.192428 GGGTCTACGGTCACTGGAAT 58.808 55.000 0.00 0.00 0.00 3.01
3174 3463 4.546829 TGAACAGGTACATTGGGTCTAC 57.453 45.455 0.00 0.00 0.00 2.59
3188 3477 7.970614 GCTTCCTGAAATACTTAAATGAACAGG 59.029 37.037 0.00 0.00 42.22 4.00


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

AutoCloner maintained by Alex Coulton.