Multiple sequence alignment - TraesCS6B01G195500

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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 TraesCS6B01G195500 chr6B 100.000 1537 0 0 1 1537 231354776 231353240 0.000000e+00 2839.0
1 TraesCS6B01G195500 chr6B 100.000 304 0 0 1853 2156 231352924 231352621 1.440000e-156 562.0
2 TraesCS6B01G195500 chr6B 84.375 288 41 3 871 1156 159133392 159133677 1.630000e-71 279.0
3 TraesCS6B01G195500 chr6B 100.000 31 0 0 1154 1184 231353540 231353510 8.310000e-05 58.4
4 TraesCS6B01G195500 chr6B 100.000 31 0 0 1237 1267 231353623 231353593 8.310000e-05 58.4
5 TraesCS6B01G195500 chr6A 94.486 671 29 5 1 668 172118059 172117394 0.000000e+00 1027.0
6 TraesCS6B01G195500 chr6A 97.342 301 8 0 1856 2156 172116354 172116054 1.480000e-141 512.0
7 TraesCS6B01G195500 chr6A 95.098 306 10 4 1236 1537 172116755 172116451 5.380000e-131 477.0
8 TraesCS6B01G195500 chr6A 86.822 387 41 7 778 1156 172117224 172116840 7.110000e-115 424.0
9 TraesCS6B01G195500 chr6A 100.000 31 0 0 1154 1184 172116754 172116724 8.310000e-05 58.4
10 TraesCS6B01G195500 chr6D 94.170 669 32 5 1 668 133213070 133212408 0.000000e+00 1013.0
11 TraesCS6B01G195500 chr6D 97.945 292 6 0 1865 2156 133211404 133211113 6.870000e-140 507.0
12 TraesCS6B01G195500 chr6D 96.026 302 9 1 1236 1537 133211801 133211503 2.490000e-134 488.0
13 TraesCS6B01G195500 chr6D 85.640 383 44 5 781 1156 133212274 133211896 2.010000e-105 392.0
14 TraesCS6B01G195500 chr3B 89.493 276 27 2 864 1138 495471054 495470780 4.400000e-92 348.0
15 TraesCS6B01G195500 chr4B 84.918 305 36 10 857 1156 579103348 579103647 1.250000e-77 300.0
16 TraesCS6B01G195500 chr4B 84.775 289 35 9 872 1156 579390544 579390827 4.530000e-72 281.0
17 TraesCS6B01G195500 chr3A 84.775 289 36 6 873 1156 645405806 645406091 1.260000e-72 283.0
18 TraesCS6B01G195500 chr4D 84.536 291 36 9 870 1156 477914186 477914471 1.630000e-71 279.0
19 TraesCS6B01G195500 chr4A 83.498 303 42 8 859 1156 21844253 21844552 2.110000e-70 276.0


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 TraesCS6B01G195500 chr6B 231352621 231354776 2155 True 879.45 2839 100.00000 1 2156 4 chr6B.!!$R1 2155
1 TraesCS6B01G195500 chr6A 172116054 172118059 2005 True 499.68 1027 94.74960 1 2156 5 chr6A.!!$R1 2155
2 TraesCS6B01G195500 chr6D 133211113 133213070 1957 True 600.00 1013 93.44525 1 2156 4 chr6D.!!$R1 2155

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
969 1051 0.549902 TGTGATGGACCCACCCTCAT 60.55 55.0 0.0 0.0 43.19 2.9 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2008 2109 0.819582 TGCGGTAGTACTTGTAGGCC 59.18 55.0 0.0 0.0 0.0 5.19 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
285 286 4.645136 ACCTCGTTCTGTGAATATCTAGCA 59.355 41.667 0.00 0.00 0.00 3.49
317 318 4.156008 ACGCTCAACCTGAATTTTGATACC 59.844 41.667 0.00 0.00 31.41 2.73
338 341 3.046390 CTCAGTTCGATAATCTCCACGC 58.954 50.000 0.00 0.00 0.00 5.34
405 408 1.524165 CAGGCTGCTGCATCTCTCC 60.524 63.158 17.89 0.00 41.91 3.71
443 446 4.814294 AATCGTCCCGACCGCTGC 62.814 66.667 0.00 0.00 39.18 5.25
559 562 6.754209 ACTTCTAGTCAGTTGATTAGAATGCG 59.246 38.462 20.44 14.37 45.74 4.73
627 630 3.450457 TGTTGGCACTGAGTTGGAAAAAT 59.550 39.130 0.00 0.00 0.00 1.82
632 635 5.048083 TGGCACTGAGTTGGAAAAATGTATC 60.048 40.000 0.00 0.00 0.00 2.24
633 636 5.088739 GCACTGAGTTGGAAAAATGTATCG 58.911 41.667 0.00 0.00 0.00 2.92
637 640 6.262273 ACTGAGTTGGAAAAATGTATCGTTGT 59.738 34.615 0.00 0.00 0.00 3.32
665 669 9.020731 ACTGGGTTTTTGTAATTGTATAAGAGG 57.979 33.333 0.00 0.00 0.00 3.69
671 730 4.699637 TGTAATTGTATAAGAGGTGCGGG 58.300 43.478 0.00 0.00 0.00 6.13
672 731 2.930826 ATTGTATAAGAGGTGCGGGG 57.069 50.000 0.00 0.00 0.00 5.73
694 753 3.643792 GCATCTCCCCGGCTTATCTATAT 59.356 47.826 0.00 0.00 0.00 0.86
695 754 4.833380 GCATCTCCCCGGCTTATCTATATA 59.167 45.833 0.00 0.00 0.00 0.86
696 755 5.047660 GCATCTCCCCGGCTTATCTATATAG 60.048 48.000 3.10 3.10 0.00 1.31
698 757 6.836714 TCTCCCCGGCTTATCTATATAGTA 57.163 41.667 9.58 0.00 0.00 1.82
699 758 6.839454 TCTCCCCGGCTTATCTATATAGTAG 58.161 44.000 9.58 7.14 0.00 2.57
700 759 6.389278 TCTCCCCGGCTTATCTATATAGTAGT 59.611 42.308 9.58 0.91 0.00 2.73
701 760 7.570232 TCTCCCCGGCTTATCTATATAGTAGTA 59.430 40.741 9.58 0.05 0.00 1.82
702 761 8.106017 TCCCCGGCTTATCTATATAGTAGTAA 57.894 38.462 9.58 7.08 0.00 2.24
706 765 9.680315 CCGGCTTATCTATATAGTAGTAATTGC 57.320 37.037 9.58 8.12 0.00 3.56
743 802 6.327386 AGTCTCTTTTCATATTTAGGCCCA 57.673 37.500 0.00 0.00 0.00 5.36
744 803 6.122964 AGTCTCTTTTCATATTTAGGCCCAC 58.877 40.000 0.00 0.00 0.00 4.61
767 840 9.103861 CCACATTGTTTGTTTACCATTTACTTT 57.896 29.630 0.00 0.00 36.00 2.66
782 855 8.912988 ACCATTTACTTTGTTTGAGAATTGAGA 58.087 29.630 0.00 0.00 0.00 3.27
783 856 9.918630 CCATTTACTTTGTTTGAGAATTGAGAT 57.081 29.630 0.00 0.00 0.00 2.75
795 868 6.475504 TGAGAATTGAGATTAGCAAAGGTGA 58.524 36.000 0.00 0.00 0.00 4.02
796 869 6.596888 TGAGAATTGAGATTAGCAAAGGTGAG 59.403 38.462 0.00 0.00 0.00 3.51
811 884 1.882623 GGTGAGGAAGCCAAAGAACAG 59.117 52.381 0.00 0.00 0.00 3.16
812 885 2.576615 GTGAGGAAGCCAAAGAACAGT 58.423 47.619 0.00 0.00 0.00 3.55
813 886 2.952310 GTGAGGAAGCCAAAGAACAGTT 59.048 45.455 0.00 0.00 0.00 3.16
814 887 4.134563 GTGAGGAAGCCAAAGAACAGTTA 58.865 43.478 0.00 0.00 0.00 2.24
819 894 5.243954 AGGAAGCCAAAGAACAGTTATTTCC 59.756 40.000 2.79 2.06 0.00 3.13
824 899 6.015940 AGCCAAAGAACAGTTATTTCCTTGAG 60.016 38.462 2.79 0.00 29.35 3.02
843 918 4.855340 TGAGAGGAAAGAACAGGTTGTTT 58.145 39.130 6.96 6.96 41.28 2.83
847 922 6.184789 AGAGGAAAGAACAGGTTGTTTTGTA 58.815 36.000 8.43 0.00 41.28 2.41
850 925 5.462068 GGAAAGAACAGGTTGTTTTGTATGC 59.538 40.000 8.43 0.00 41.28 3.14
854 929 7.341445 AGAACAGGTTGTTTTGTATGCTTTA 57.659 32.000 0.00 0.00 41.28 1.85
855 930 7.951591 AGAACAGGTTGTTTTGTATGCTTTAT 58.048 30.769 0.00 0.00 41.28 1.40
856 931 7.867403 AGAACAGGTTGTTTTGTATGCTTTATG 59.133 33.333 0.00 0.00 41.28 1.90
857 932 7.283625 ACAGGTTGTTTTGTATGCTTTATGA 57.716 32.000 0.00 0.00 0.00 2.15
859 934 8.200792 ACAGGTTGTTTTGTATGCTTTATGAAA 58.799 29.630 0.00 0.00 0.00 2.69
889 968 0.984230 TTTGTTTTGGTTGGGGTGCA 59.016 45.000 0.00 0.00 0.00 4.57
892 971 1.306141 TTTTGGTTGGGGTGCACCA 60.306 52.632 35.78 15.50 41.55 4.17
918 997 3.353600 CAGCGGTGCAACATCCAA 58.646 55.556 0.98 0.00 39.98 3.53
924 1003 1.514678 GGTGCAACATCCAAGCGACA 61.515 55.000 0.00 0.00 39.98 4.35
928 1007 1.737236 GCAACATCCAAGCGACACATA 59.263 47.619 0.00 0.00 0.00 2.29
931 1010 3.541996 ACATCCAAGCGACACATATGA 57.458 42.857 10.38 0.00 0.00 2.15
939 1018 0.882042 CGACACATATGAGCCCCAGC 60.882 60.000 10.38 0.00 40.32 4.85
969 1051 0.549902 TGTGATGGACCCACCCTCAT 60.550 55.000 0.00 0.00 43.19 2.90
1068 1150 1.671328 GATCTTAGCCAAAAGGCCGAC 59.329 52.381 2.33 0.00 35.12 4.79
1079 1161 2.109425 AAGGCCGACAAAGGTATGAC 57.891 50.000 0.00 0.00 0.00 3.06
1156 1238 1.218316 CAGGCGAGGTGGGACTAAC 59.782 63.158 0.00 0.00 0.00 2.34
1157 1239 2.183555 GGCGAGGTGGGACTAACG 59.816 66.667 0.00 0.00 0.00 3.18
1158 1240 2.183555 GCGAGGTGGGACTAACGG 59.816 66.667 0.00 0.00 0.00 4.44
1159 1241 2.183555 CGAGGTGGGACTAACGGC 59.816 66.667 0.00 0.00 0.00 5.68
1160 1242 2.582978 GAGGTGGGACTAACGGCC 59.417 66.667 0.00 0.00 0.00 6.13
1161 1243 1.988406 GAGGTGGGACTAACGGCCT 60.988 63.158 0.00 0.00 0.00 5.19
1162 1244 1.957765 GAGGTGGGACTAACGGCCTC 61.958 65.000 0.00 0.00 36.21 4.70
1163 1245 2.183555 GTGGGACTAACGGCCTCG 59.816 66.667 0.00 0.00 43.02 4.63
1194 1276 0.464554 AAAGATAAGCGAGGCAGGGC 60.465 55.000 0.00 0.00 0.00 5.19
1195 1277 1.626356 AAGATAAGCGAGGCAGGGCA 61.626 55.000 0.00 0.00 0.00 5.36
1197 1279 3.764160 ATAAGCGAGGCAGGGCAGC 62.764 63.158 5.45 5.45 0.00 5.25
1203 1285 4.729918 AGGCAGGGCAGCGAAAGG 62.730 66.667 0.00 0.00 34.64 3.11
1205 1287 2.046314 GCAGGGCAGCGAAAGGTA 60.046 61.111 0.00 0.00 41.81 3.08
1209 1291 2.750888 GGGCAGCGAAAGGTAAGCG 61.751 63.158 0.00 0.00 41.81 4.68
1210 1292 2.033194 GGCAGCGAAAGGTAAGCGT 61.033 57.895 0.00 0.00 41.81 5.07
1212 1294 1.566018 GCAGCGAAAGGTAAGCGTGT 61.566 55.000 0.00 0.00 41.81 4.49
1213 1295 1.705256 CAGCGAAAGGTAAGCGTGTA 58.295 50.000 0.00 0.00 41.81 2.90
1214 1296 1.654105 CAGCGAAAGGTAAGCGTGTAG 59.346 52.381 0.00 0.00 41.81 2.74
1215 1297 1.271656 AGCGAAAGGTAAGCGTGTAGT 59.728 47.619 0.00 0.00 41.99 2.73
1216 1298 1.389106 GCGAAAGGTAAGCGTGTAGTG 59.611 52.381 0.00 0.00 0.00 2.74
1219 1301 3.121126 CGAAAGGTAAGCGTGTAGTGTTG 60.121 47.826 0.00 0.00 0.00 3.33
1221 1303 3.022607 AGGTAAGCGTGTAGTGTTGAC 57.977 47.619 0.00 0.00 0.00 3.18
1222 1304 1.717645 GGTAAGCGTGTAGTGTTGACG 59.282 52.381 0.00 0.00 36.18 4.35
1223 1305 1.717645 GTAAGCGTGTAGTGTTGACGG 59.282 52.381 0.00 0.00 33.68 4.79
1225 1307 2.664436 GCGTGTAGTGTTGACGGCC 61.664 63.158 0.00 0.00 33.68 6.13
1226 1308 1.006571 CGTGTAGTGTTGACGGCCT 60.007 57.895 0.00 0.00 0.00 5.19
1227 1309 1.007336 CGTGTAGTGTTGACGGCCTC 61.007 60.000 0.00 0.00 0.00 4.70
1228 1310 1.007336 GTGTAGTGTTGACGGCCTCG 61.007 60.000 0.00 0.00 43.02 4.63
1460 1561 1.683365 GTCCACTGCCGGTACCCTA 60.683 63.158 6.25 0.00 0.00 3.53
1884 1985 1.065251 CGCGAAGACCTAGAACCCTAC 59.935 57.143 0.00 0.00 0.00 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
296 297 5.415701 TGAGGTATCAAAATTCAGGTTGAGC 59.584 40.000 0.00 0.00 37.19 4.26
317 318 3.046390 GCGTGGAGATTATCGAACTGAG 58.954 50.000 0.00 0.00 0.00 3.35
338 341 7.050281 AGTGACGATTATTCAAAAGAAGACG 57.950 36.000 0.00 0.00 0.00 4.18
405 408 2.364970 TCCAGTTGAATTGCCTGGTTTG 59.635 45.455 12.14 0.00 44.92 2.93
450 453 2.887568 GACATGAGTGAGGCGGCG 60.888 66.667 0.51 0.51 0.00 6.46
453 456 1.073964 CACTTGACATGAGTGAGGCG 58.926 55.000 7.13 0.00 45.72 5.52
459 462 1.815408 GCACCACCACTTGACATGAGT 60.815 52.381 0.00 0.00 0.00 3.41
511 514 2.831742 CCAGCATGCCGCCTGAAT 60.832 61.111 15.66 0.00 44.04 2.57
616 619 6.262273 AGTGACAACGATACATTTTTCCAACT 59.738 34.615 0.00 0.00 0.00 3.16
627 630 3.478857 AAACCCAGTGACAACGATACA 57.521 42.857 0.00 0.00 0.00 2.29
632 635 2.931512 ACAAAAACCCAGTGACAACG 57.068 45.000 0.00 0.00 0.00 4.10
633 636 6.103330 ACAATTACAAAAACCCAGTGACAAC 58.897 36.000 0.00 0.00 0.00 3.32
637 640 9.575868 TCTTATACAATTACAAAAACCCAGTGA 57.424 29.630 0.00 0.00 0.00 3.41
671 730 1.003233 GATAAGCCGGGGAGATGCC 60.003 63.158 2.18 0.00 0.00 4.40
672 731 1.267121 TAGATAAGCCGGGGAGATGC 58.733 55.000 2.18 0.00 0.00 3.91
718 777 7.939588 GTGGGCCTAAATATGAAAAGAGACTAT 59.060 37.037 4.53 0.00 0.00 2.12
719 778 7.092623 TGTGGGCCTAAATATGAAAAGAGACTA 60.093 37.037 4.53 0.00 0.00 2.59
722 781 6.073447 TGTGGGCCTAAATATGAAAAGAGA 57.927 37.500 4.53 0.00 0.00 3.10
723 782 6.966534 ATGTGGGCCTAAATATGAAAAGAG 57.033 37.500 4.53 0.00 0.00 2.85
724 783 6.667414 ACAATGTGGGCCTAAATATGAAAAGA 59.333 34.615 4.53 0.00 0.00 2.52
726 785 6.865834 ACAATGTGGGCCTAAATATGAAAA 57.134 33.333 4.53 0.00 0.00 2.29
727 786 6.865834 AACAATGTGGGCCTAAATATGAAA 57.134 33.333 4.53 0.00 0.00 2.69
728 787 6.212388 ACAAACAATGTGGGCCTAAATATGAA 59.788 34.615 4.53 0.00 41.93 2.57
729 788 5.719085 ACAAACAATGTGGGCCTAAATATGA 59.281 36.000 4.53 0.00 41.93 2.15
730 789 5.976458 ACAAACAATGTGGGCCTAAATATG 58.024 37.500 4.53 1.33 41.93 1.78
732 791 6.426646 AAACAAACAATGTGGGCCTAAATA 57.573 33.333 4.53 0.00 42.99 1.40
733 792 4.972751 AACAAACAATGTGGGCCTAAAT 57.027 36.364 4.53 0.00 42.99 1.40
734 793 4.762289 AAACAAACAATGTGGGCCTAAA 57.238 36.364 4.53 0.00 42.99 1.85
735 794 4.039366 GGTAAACAAACAATGTGGGCCTAA 59.961 41.667 4.53 0.00 42.99 2.69
736 795 3.574826 GGTAAACAAACAATGTGGGCCTA 59.425 43.478 4.53 0.00 42.99 3.93
738 797 2.103263 TGGTAAACAAACAATGTGGGCC 59.897 45.455 0.00 0.00 42.99 5.80
739 798 3.460857 TGGTAAACAAACAATGTGGGC 57.539 42.857 0.00 0.00 42.99 5.36
740 799 7.213678 AGTAAATGGTAAACAAACAATGTGGG 58.786 34.615 0.00 0.00 42.99 4.61
741 800 8.655651 AAGTAAATGGTAAACAAACAATGTGG 57.344 30.769 0.00 0.00 42.99 4.17
742 801 9.913451 CAAAGTAAATGGTAAACAAACAATGTG 57.087 29.630 0.00 0.00 42.99 3.21
743 802 9.660180 ACAAAGTAAATGGTAAACAAACAATGT 57.340 25.926 0.00 0.00 46.82 2.71
767 840 7.231317 ACCTTTGCTAATCTCAATTCTCAAACA 59.769 33.333 0.00 0.00 30.14 2.83
778 851 4.836825 CTTCCTCACCTTTGCTAATCTCA 58.163 43.478 0.00 0.00 0.00 3.27
780 853 3.615155 GCTTCCTCACCTTTGCTAATCT 58.385 45.455 0.00 0.00 0.00 2.40
781 854 2.685388 GGCTTCCTCACCTTTGCTAATC 59.315 50.000 0.00 0.00 0.00 1.75
782 855 2.041620 TGGCTTCCTCACCTTTGCTAAT 59.958 45.455 0.00 0.00 0.00 1.73
783 856 1.423541 TGGCTTCCTCACCTTTGCTAA 59.576 47.619 0.00 0.00 0.00 3.09
784 857 1.064003 TGGCTTCCTCACCTTTGCTA 58.936 50.000 0.00 0.00 0.00 3.49
785 858 0.185901 TTGGCTTCCTCACCTTTGCT 59.814 50.000 0.00 0.00 0.00 3.91
786 859 1.000171 CTTTGGCTTCCTCACCTTTGC 60.000 52.381 0.00 0.00 0.00 3.68
787 860 2.586425 TCTTTGGCTTCCTCACCTTTG 58.414 47.619 0.00 0.00 0.00 2.77
795 868 5.243954 GGAAATAACTGTTCTTTGGCTTCCT 59.756 40.000 8.40 0.00 0.00 3.36
796 869 5.243954 AGGAAATAACTGTTCTTTGGCTTCC 59.756 40.000 8.40 4.07 0.00 3.46
819 894 4.455606 ACAACCTGTTCTTTCCTCTCAAG 58.544 43.478 0.00 0.00 0.00 3.02
824 899 5.324784 ACAAAACAACCTGTTCTTTCCTC 57.675 39.130 0.00 0.00 40.14 3.71
859 934 7.374272 CCCAACCAAAACAAATCAAACTTTTT 58.626 30.769 0.00 0.00 0.00 1.94
864 943 4.095632 CACCCCAACCAAAACAAATCAAAC 59.904 41.667 0.00 0.00 0.00 2.93
874 953 1.306141 TGGTGCACCCCAACCAAAA 60.306 52.632 32.62 8.13 34.29 2.44
905 984 1.210155 GTCGCTTGGATGTTGCACC 59.790 57.895 0.00 0.00 0.00 5.01
913 992 2.487934 GCTCATATGTGTCGCTTGGAT 58.512 47.619 1.90 0.00 0.00 3.41
914 993 1.473257 GGCTCATATGTGTCGCTTGGA 60.473 52.381 1.90 0.00 0.00 3.53
918 997 1.337384 TGGGGCTCATATGTGTCGCT 61.337 55.000 21.97 0.00 0.00 4.93
924 1003 1.150081 GCTGCTGGGGCTCATATGT 59.850 57.895 1.90 0.00 39.59 2.29
928 1007 2.044252 CTTGCTGCTGGGGCTCAT 60.044 61.111 0.00 0.00 39.59 2.90
939 1018 2.005451 GTCCATCACAGTAGCTTGCTG 58.995 52.381 14.13 14.13 39.67 4.41
999 1081 8.835734 AGTTTAATATCTGATATGTGGGCCATA 58.164 33.333 10.70 7.76 40.27 2.74
1068 1150 4.670221 GCAGCGAAAGAAGTCATACCTTTG 60.670 45.833 0.00 0.00 31.06 2.77
1079 1161 2.694760 GGCAGGGCAGCGAAAGAAG 61.695 63.158 0.00 0.00 34.64 2.85
1102 1184 2.169978 AGCCGGGAGAGGTGTATAAAAC 59.830 50.000 2.18 0.00 0.00 2.43
1173 1255 2.369394 CCCTGCCTCGCTTATCTTTTT 58.631 47.619 0.00 0.00 0.00 1.94
1174 1256 2.019156 GCCCTGCCTCGCTTATCTTTT 61.019 52.381 0.00 0.00 0.00 2.27
1175 1257 0.464554 GCCCTGCCTCGCTTATCTTT 60.465 55.000 0.00 0.00 0.00 2.52
1176 1258 1.147153 GCCCTGCCTCGCTTATCTT 59.853 57.895 0.00 0.00 0.00 2.40
1178 1260 1.596477 CTGCCCTGCCTCGCTTATC 60.596 63.158 0.00 0.00 0.00 1.75
1179 1261 2.507944 CTGCCCTGCCTCGCTTAT 59.492 61.111 0.00 0.00 0.00 1.73
1180 1262 4.473520 GCTGCCCTGCCTCGCTTA 62.474 66.667 0.00 0.00 0.00 3.09
1185 1267 3.130160 CTTTCGCTGCCCTGCCTC 61.130 66.667 0.00 0.00 0.00 4.70
1186 1268 4.729918 CCTTTCGCTGCCCTGCCT 62.730 66.667 0.00 0.00 0.00 4.75
1187 1269 3.622060 TACCTTTCGCTGCCCTGCC 62.622 63.158 0.00 0.00 0.00 4.85
1188 1270 1.648467 CTTACCTTTCGCTGCCCTGC 61.648 60.000 0.00 0.00 0.00 4.85
1190 1272 1.377333 GCTTACCTTTCGCTGCCCT 60.377 57.895 0.00 0.00 0.00 5.19
1192 1274 2.033194 ACGCTTACCTTTCGCTGCC 61.033 57.895 0.00 0.00 0.00 4.85
1194 1276 1.654105 CTACACGCTTACCTTTCGCTG 59.346 52.381 0.00 0.00 0.00 5.18
1195 1277 1.271656 ACTACACGCTTACCTTTCGCT 59.728 47.619 0.00 0.00 0.00 4.93
1197 1279 2.669364 ACACTACACGCTTACCTTTCG 58.331 47.619 0.00 0.00 0.00 3.46
1198 1280 4.053295 TCAACACTACACGCTTACCTTTC 58.947 43.478 0.00 0.00 0.00 2.62
1199 1281 3.805971 GTCAACACTACACGCTTACCTTT 59.194 43.478 0.00 0.00 0.00 3.11
1201 1283 2.606308 CGTCAACACTACACGCTTACCT 60.606 50.000 0.00 0.00 0.00 3.08
1203 1285 1.717645 CCGTCAACACTACACGCTTAC 59.282 52.381 0.00 0.00 32.03 2.34
1204 1286 1.931709 GCCGTCAACACTACACGCTTA 60.932 52.381 0.00 0.00 32.03 3.09
1205 1287 1.219522 GCCGTCAACACTACACGCTT 61.220 55.000 0.00 0.00 32.03 4.68
1209 1291 1.007336 CGAGGCCGTCAACACTACAC 61.007 60.000 0.00 0.00 0.00 2.90
1210 1292 1.287815 CGAGGCCGTCAACACTACA 59.712 57.895 0.00 0.00 0.00 2.74
1228 1310 3.471399 GAGGCCGTTACTCGCAAC 58.529 61.111 0.00 0.00 38.35 4.17
1290 1388 2.987547 TCCGTTTCCTCCGACGCT 60.988 61.111 0.00 0.00 37.91 5.07
1291 1389 2.808321 GTCCGTTTCCTCCGACGC 60.808 66.667 0.00 0.00 37.91 5.19
1292 1390 2.126189 GGTCCGTTTCCTCCGACG 60.126 66.667 0.00 0.00 38.90 5.12
1853 1954 1.248721 GTCTTCGCGTTCACTAGACG 58.751 55.000 5.77 0.00 0.00 4.18
1854 1955 1.199558 AGGTCTTCGCGTTCACTAGAC 59.800 52.381 5.77 10.24 35.61 2.59
1861 1962 1.626747 GGTTCTAGGTCTTCGCGTTC 58.373 55.000 5.77 0.00 0.00 3.95
2008 2109 0.819582 TGCGGTAGTACTTGTAGGCC 59.180 55.000 0.00 0.00 0.00 5.19


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

AutoCloner maintained by Alex Coulton.