Multiple sequence alignment - TraesCS1B01G186500

Loading Multiple Alignment...

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 TraesCS1B01G186500 chr1B 100.000 4061 0 0 1 4061 333594567 333598627 0.000000e+00 7500.0
1 TraesCS1B01G186500 chr1D 95.580 2896 76 17 892 3748 240665542 240662660 0.000000e+00 4591.0
2 TraesCS1B01G186500 chr1D 97.215 395 11 0 3667 4061 240662659 240662265 0.000000e+00 669.0
3 TraesCS1B01G186500 chr1D 100.000 41 0 0 3114 3154 303314731 303314691 4.350000e-10 76.8
4 TraesCS1B01G186500 chr1A 95.004 2662 83 21 892 3515 305336140 305333491 0.000000e+00 4133.0
5 TraesCS1B01G186500 chr1A 87.115 357 38 6 3555 3911 305333370 305333022 8.180000e-107 398.0
6 TraesCS1B01G186500 chr4D 82.913 872 135 11 12 872 47110145 47111013 0.000000e+00 773.0
7 TraesCS1B01G186500 chr3D 84.890 728 90 16 184 895 416406083 416405360 0.000000e+00 717.0
8 TraesCS1B01G186500 chr3D 76.923 182 36 6 480 658 598420634 598420456 9.290000e-17 99.0
9 TraesCS1B01G186500 chr3D 97.727 44 0 1 3114 3156 377201902 377201859 1.570000e-09 75.0
10 TraesCS1B01G186500 chr3A 89.583 528 53 2 27 554 50392461 50391936 0.000000e+00 669.0
11 TraesCS1B01G186500 chr5B 81.018 511 68 13 405 895 606821538 606821037 2.960000e-101 379.0
12 TraesCS1B01G186500 chr4A 76.000 225 44 10 428 647 673776901 673776682 1.540000e-19 108.0
13 TraesCS1B01G186500 chr6A 100.000 40 0 0 3114 3153 99787476 99787437 1.570000e-09 75.0
14 TraesCS1B01G186500 chr6D 100.000 39 0 0 3114 3152 410152940 410152902 5.630000e-09 73.1
15 TraesCS1B01G186500 chr6D 93.617 47 2 1 3114 3159 82969899 82969853 7.280000e-08 69.4
16 TraesCS1B01G186500 chr5A 95.652 46 1 1 3114 3159 605241815 605241771 5.630000e-09 73.1
17 TraesCS1B01G186500 chr2A 90.196 51 3 2 3108 3156 234466486 234466536 9.420000e-07 65.8


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 TraesCS1B01G186500 chr1B 333594567 333598627 4060 False 7500.0 7500 100.0000 1 4061 1 chr1B.!!$F1 4060
1 TraesCS1B01G186500 chr1D 240662265 240665542 3277 True 2630.0 4591 96.3975 892 4061 2 chr1D.!!$R2 3169
2 TraesCS1B01G186500 chr1A 305333022 305336140 3118 True 2265.5 4133 91.0595 892 3911 2 chr1A.!!$R1 3019
3 TraesCS1B01G186500 chr4D 47110145 47111013 868 False 773.0 773 82.9130 12 872 1 chr4D.!!$F1 860
4 TraesCS1B01G186500 chr3D 416405360 416406083 723 True 717.0 717 84.8900 184 895 1 chr3D.!!$R2 711
5 TraesCS1B01G186500 chr3A 50391936 50392461 525 True 669.0 669 89.5830 27 554 1 chr3A.!!$R1 527
6 TraesCS1B01G186500 chr5B 606821037 606821538 501 True 379.0 379 81.0180 405 895 1 chr5B.!!$R1 490

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
785 792 0.031917 TCCGGGCTTGTATCCCTGTA 60.032 55.0 0.0 0.0 41.69 2.74 F
927 956 0.179000 AGCTCCATGCCCTAAAGACG 59.821 55.0 0.0 0.0 44.23 4.18 F
960 989 0.250901 GTGTCCAAGCTCACCCACAT 60.251 55.0 0.0 0.0 0.00 3.21 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2362 2414 1.202891 TCACTGTCTTCACTCGAGGGA 60.203 52.381 14.89 14.89 0.00 4.2 R
2736 2788 3.257933 GCGGACTGCTTGAAGTGG 58.742 61.111 0.00 0.00 41.73 4.0 R
3077 3129 2.109181 GGATCGCTGGGCCTACAC 59.891 66.667 4.53 0.00 0.00 2.9 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
22 23 3.409026 AACAGCGAATGAGAAGACCTT 57.591 42.857 0.00 0.00 0.00 3.50
23 24 3.409026 ACAGCGAATGAGAAGACCTTT 57.591 42.857 0.00 0.00 0.00 3.11
109 111 2.289010 GCCAGGACAATTTTCAACAGGG 60.289 50.000 0.00 0.00 0.00 4.45
112 114 2.884639 AGGACAATTTTCAACAGGGTCG 59.115 45.455 0.00 0.00 0.00 4.79
127 129 4.079970 CAGGGTCGCTGTATAAGGAGATA 58.920 47.826 8.71 0.00 0.00 1.98
129 131 4.951094 AGGGTCGCTGTATAAGGAGATATC 59.049 45.833 0.00 0.00 0.00 1.63
156 158 0.885879 ACGACTCCATGCGACTTGTA 59.114 50.000 0.00 0.00 0.00 2.41
201 203 4.937620 TCCGTCCAAAATCAAGATCTTCTG 59.062 41.667 4.57 0.00 0.00 3.02
233 235 3.490249 CGCCCACAATAGAATCACGAGTA 60.490 47.826 0.00 0.00 0.00 2.59
262 264 1.374125 GCAAAAACGACATGGCCCC 60.374 57.895 0.00 0.00 0.00 5.80
265 267 2.700407 AAAAACGACATGGCCCCGGA 62.700 55.000 0.73 0.00 0.00 5.14
321 323 8.935844 CGAAGATCGGGATCATATTTTATTTCA 58.064 33.333 11.00 0.00 40.22 2.69
348 350 2.093921 TCACGGCTCGATTTATGTGGAA 60.094 45.455 1.50 0.00 0.00 3.53
362 364 2.095847 TGGAATGCCGTACGTTCGC 61.096 57.895 15.21 11.19 44.03 4.70
475 477 1.005748 GTTTGGGGCTCTTGCTTGC 60.006 57.895 0.00 0.00 39.59 4.01
505 508 3.500680 GGACCACGAGAAACAAAGCATTA 59.499 43.478 0.00 0.00 0.00 1.90
531 534 5.410602 AGAGGGAGTATTTATCAGGCATCT 58.589 41.667 0.00 0.00 0.00 2.90
570 573 3.863142 AATGATGTCTTTCTTGCAGCC 57.137 42.857 0.00 0.00 0.00 4.85
571 574 1.159285 TGATGTCTTTCTTGCAGCCG 58.841 50.000 0.00 0.00 0.00 5.52
631 634 1.549170 GAGGAGCTCGTCAAAAGGGTA 59.451 52.381 27.21 0.00 0.00 3.69
661 664 1.414527 GCACTAAGCTTCGACGCTCC 61.415 60.000 17.51 0.39 39.86 4.70
676 679 1.138859 CGCTCCACATAGGGACATCAA 59.861 52.381 0.00 0.00 38.24 2.57
677 680 2.224378 CGCTCCACATAGGGACATCAAT 60.224 50.000 0.00 0.00 38.24 2.57
689 693 5.467738 AGGGACATCAATGACATACCTCTA 58.532 41.667 0.00 0.00 0.00 2.43
711 715 3.770933 ACATGTCGCCCTTAACTACCTTA 59.229 43.478 0.00 0.00 0.00 2.69
719 723 5.507650 CGCCCTTAACTACCTTAAGAGCTAG 60.508 48.000 3.36 2.54 41.70 3.42
767 773 2.561569 ACGCCACTATGTATTTGCCTC 58.438 47.619 0.00 0.00 0.00 4.70
785 792 0.031917 TCCGGGCTTGTATCCCTGTA 60.032 55.000 0.00 0.00 41.69 2.74
789 796 2.550208 CGGGCTTGTATCCCTGTATTCC 60.550 54.545 0.00 0.00 41.69 3.01
798 805 7.120923 TGTATCCCTGTATTCCTGTACTTTC 57.879 40.000 0.00 0.00 0.00 2.62
799 806 4.730949 TCCCTGTATTCCTGTACTTTCG 57.269 45.455 0.00 0.00 0.00 3.46
801 808 3.118738 CCCTGTATTCCTGTACTTTCGCT 60.119 47.826 0.00 0.00 0.00 4.93
802 809 4.504858 CCTGTATTCCTGTACTTTCGCTT 58.495 43.478 0.00 0.00 0.00 4.68
803 810 4.935808 CCTGTATTCCTGTACTTTCGCTTT 59.064 41.667 0.00 0.00 0.00 3.51
804 811 5.163854 CCTGTATTCCTGTACTTTCGCTTTG 60.164 44.000 0.00 0.00 0.00 2.77
805 812 5.302360 TGTATTCCTGTACTTTCGCTTTGT 58.698 37.500 0.00 0.00 0.00 2.83
806 813 5.761234 TGTATTCCTGTACTTTCGCTTTGTT 59.239 36.000 0.00 0.00 0.00 2.83
807 814 4.545823 TTCCTGTACTTTCGCTTTGTTG 57.454 40.909 0.00 0.00 0.00 3.33
813 831 3.989705 ACTTTCGCTTTGTTGTTTTGC 57.010 38.095 0.00 0.00 0.00 3.68
815 833 1.272781 TTCGCTTTGTTGTTTTGCCG 58.727 45.000 0.00 0.00 0.00 5.69
821 840 2.656973 GTTGTTTTGCCGTGGCCG 60.657 61.111 8.69 0.00 41.09 6.13
845 864 1.197721 GGCAGACTTGTTGGATTCGTG 59.802 52.381 0.00 0.00 0.00 4.35
855 874 1.866015 TGGATTCGTGAGGGTCTCAT 58.134 50.000 0.72 0.00 42.73 2.90
863 882 3.581332 TCGTGAGGGTCTCATTTTAAGGT 59.419 43.478 0.72 0.00 42.73 3.50
873 892 1.135112 CATTTTAAGGTCGGGCAAGCC 60.135 52.381 1.52 1.52 0.00 4.35
927 956 0.179000 AGCTCCATGCCCTAAAGACG 59.821 55.000 0.00 0.00 44.23 4.18
956 985 1.961277 CACGTGTCCAAGCTCACCC 60.961 63.158 7.58 0.00 0.00 4.61
960 989 0.250901 GTGTCCAAGCTCACCCACAT 60.251 55.000 0.00 0.00 0.00 3.21
987 1016 4.493747 CGTCGCCGAGGAGGAACC 62.494 72.222 0.00 0.00 45.00 3.62
988 1017 4.144703 GTCGCCGAGGAGGAACCC 62.145 72.222 0.00 0.00 45.00 4.11
1240 1290 4.798682 CGCTCCCCTACCCCAGGT 62.799 72.222 0.00 0.00 43.80 4.00
1292 1342 1.153066 TCAAAGACAAGGCACGCCA 60.153 52.632 11.35 0.00 38.92 5.69
1321 1371 4.504097 GCTTCATTTCTTGTGTTGTGGTTC 59.496 41.667 0.00 0.00 0.00 3.62
1359 1411 3.822607 GAGGTGCTCGACTGATTGT 57.177 52.632 0.00 0.00 0.00 2.71
1507 1559 1.513158 CCGTGATCTCAACCTCGCT 59.487 57.895 0.00 0.00 0.00 4.93
1556 1608 2.031919 CACTTGGCCTGCCGTACA 59.968 61.111 3.32 0.00 39.42 2.90
1794 1846 5.420725 TGAGGTGAAGCTTCTATTAAGCA 57.579 39.130 26.09 12.45 45.30 3.91
1881 1933 6.239373 CCACGGATGGTATACCTTATGTTGTA 60.239 42.308 22.41 0.00 41.64 2.41
2038 2090 3.687212 CCTGCCGAACACATTGTATGTTA 59.313 43.478 0.00 0.00 42.70 2.41
2350 2402 3.263425 ACATGATCAGTAACCGGTTTCCT 59.737 43.478 27.64 18.62 0.00 3.36
2386 2438 3.192422 CCTCGAGTGAAGACAGTGAATCT 59.808 47.826 12.31 0.00 0.00 2.40
2471 2523 4.383173 TCAGGTATTGCTGCATCTGTATG 58.617 43.478 1.84 0.00 36.09 2.39
2472 2524 4.132336 CAGGTATTGCTGCATCTGTATGT 58.868 43.478 1.84 0.00 35.38 2.29
2477 2529 6.260936 GGTATTGCTGCATCTGTATGTAGTTT 59.739 38.462 1.84 0.00 44.91 2.66
2478 2530 6.764308 ATTGCTGCATCTGTATGTAGTTTT 57.236 33.333 1.84 0.00 44.91 2.43
2519 2571 7.436933 TGAGCCAGTATACATCTTATTCACAG 58.563 38.462 5.50 0.00 0.00 3.66
2630 2682 7.701328 ACCAATTAGGCTTTGGCACAAGTTG 62.701 44.000 16.18 0.00 46.21 3.16
2667 2719 1.135286 GCAGCCAAGCAATAGTGTTCC 60.135 52.381 0.00 0.00 0.00 3.62
2736 2788 4.214332 GTGTTTCAGGTCTTCCAAGATGAC 59.786 45.833 2.83 2.83 37.39 3.06
3030 3082 5.515886 CCTTTTAGACATGGTTAACCCCTCA 60.516 44.000 21.97 3.33 34.29 3.86
3046 3098 1.635487 CCTCAGAATCAAGGTTCCCCA 59.365 52.381 0.00 0.00 0.00 4.96
3077 3129 4.022589 ACTTTGAGTTCCAGCATCAATGTG 60.023 41.667 5.28 0.00 38.87 3.21
3108 3160 1.350193 CGATCCGTCAGTCCAAACAG 58.650 55.000 0.00 0.00 0.00 3.16
3112 3164 2.589720 TCCGTCAGTCCAAACAGTCTA 58.410 47.619 0.00 0.00 0.00 2.59
3381 3446 4.382254 CCTTTGGGATGAAATGTGGATGTG 60.382 45.833 0.00 0.00 33.58 3.21
3441 3513 2.450609 TAACAACGAGGAAGTGCTCC 57.549 50.000 0.00 0.00 45.81 4.70
3751 3986 2.942376 CGGCAATACCATTCAGCTGTAA 59.058 45.455 14.67 7.32 39.03 2.41
3757 3992 3.340814 ACCATTCAGCTGTAACAGGAG 57.659 47.619 14.67 0.00 31.21 3.69
3761 3996 2.604912 TCAGCTGTAACAGGAGGAGA 57.395 50.000 14.67 0.00 31.21 3.71
3780 4015 0.962356 AAGGTGCATAGCAGTGTGGC 60.962 55.000 0.00 0.00 40.08 5.01
3901 4136 2.645797 CAAAAGTAGGGTGGGGGTCTTA 59.354 50.000 0.00 0.00 0.00 2.10
3913 4148 3.113043 GGGGGTCTTACACTTATGGAGT 58.887 50.000 0.00 0.00 39.89 3.85
3920 4155 1.883084 CACTTATGGAGTCGGCGCC 60.883 63.158 19.07 19.07 36.10 6.53
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.744660 AGGTCTTCTCATTCGCTGTTTT 58.255 40.909 0.00 0.00 0.00 2.43
1 2 3.409026 AGGTCTTCTCATTCGCTGTTT 57.591 42.857 0.00 0.00 0.00 2.83
2 3 3.409026 AAGGTCTTCTCATTCGCTGTT 57.591 42.857 0.00 0.00 0.00 3.16
3 4 3.070018 CAAAGGTCTTCTCATTCGCTGT 58.930 45.455 0.00 0.00 0.00 4.40
4 5 2.159599 GCAAAGGTCTTCTCATTCGCTG 60.160 50.000 0.00 0.00 0.00 5.18
5 6 2.079925 GCAAAGGTCTTCTCATTCGCT 58.920 47.619 0.00 0.00 0.00 4.93
6 7 1.806542 TGCAAAGGTCTTCTCATTCGC 59.193 47.619 0.00 0.00 0.00 4.70
7 8 3.070018 AGTGCAAAGGTCTTCTCATTCG 58.930 45.455 0.00 0.00 0.00 3.34
8 9 6.205658 AGTTTAGTGCAAAGGTCTTCTCATTC 59.794 38.462 0.00 0.00 0.00 2.67
9 10 6.016777 CAGTTTAGTGCAAAGGTCTTCTCATT 60.017 38.462 0.00 0.00 0.00 2.57
10 11 5.471456 CAGTTTAGTGCAAAGGTCTTCTCAT 59.529 40.000 0.00 0.00 0.00 2.90
13 14 5.036117 TCAGTTTAGTGCAAAGGTCTTCT 57.964 39.130 0.00 0.00 0.00 2.85
20 21 3.744660 ACCCTCTCAGTTTAGTGCAAAG 58.255 45.455 0.00 0.00 0.00 2.77
22 23 3.007614 GGTACCCTCTCAGTTTAGTGCAA 59.992 47.826 0.00 0.00 0.00 4.08
23 24 2.565834 GGTACCCTCTCAGTTTAGTGCA 59.434 50.000 0.00 0.00 0.00 4.57
58 60 1.629043 GCCATACGACCTCATCCCTA 58.371 55.000 0.00 0.00 0.00 3.53
89 91 2.965147 ACCCTGTTGAAAATTGTCCTGG 59.035 45.455 0.00 0.00 0.00 4.45
109 111 5.899120 TGGATATCTCCTTATACAGCGAC 57.101 43.478 2.05 0.00 42.59 5.19
112 114 6.635755 GGAGTTGGATATCTCCTTATACAGC 58.364 44.000 2.05 0.00 44.68 4.40
127 129 1.208052 CATGGAGTCGTGGAGTTGGAT 59.792 52.381 0.00 0.00 0.00 3.41
129 131 1.021390 GCATGGAGTCGTGGAGTTGG 61.021 60.000 0.00 0.00 0.00 3.77
156 158 4.052518 GTGCTCCCCACAGCCCAT 62.053 66.667 0.00 0.00 44.06 4.00
175 177 5.886960 AGATCTTGATTTTGGACGGAAAG 57.113 39.130 0.00 0.00 0.00 2.62
176 178 6.003950 AGAAGATCTTGATTTTGGACGGAAA 58.996 36.000 14.00 0.00 0.00 3.13
233 235 1.202879 TCGTTTTTGCACCTGATCCCT 60.203 47.619 0.00 0.00 0.00 4.20
262 264 1.001706 CAGATGCATTTGCCATCTCCG 60.002 52.381 4.04 3.13 41.18 4.63
265 267 1.754803 CACCAGATGCATTTGCCATCT 59.245 47.619 11.66 5.99 41.18 2.90
292 294 4.478206 AATATGATCCCGATCTTCGCAT 57.522 40.909 6.28 0.00 38.82 4.73
321 323 1.382522 AAATCGAGCCGTGATGCATT 58.617 45.000 0.00 0.00 0.00 3.56
330 332 2.349817 GCATTCCACATAAATCGAGCCG 60.350 50.000 0.00 0.00 0.00 5.52
348 350 1.804326 GTCAGCGAACGTACGGCAT 60.804 57.895 21.06 5.11 0.00 4.40
362 364 0.321671 TTCCAAGAAGAGCCCGTCAG 59.678 55.000 0.00 0.00 0.00 3.51
395 397 1.543802 TGCAAGCCGGTAAAAATCTGG 59.456 47.619 1.90 0.00 34.70 3.86
475 477 3.060602 GTTTCTCGTGGTCCAAAGAGAG 58.939 50.000 20.94 14.74 40.33 3.20
505 508 7.682028 AGATGCCTGATAAATACTCCCTCTATT 59.318 37.037 0.00 0.00 0.00 1.73
554 557 0.877071 CACGGCTGCAAGAAAGACAT 59.123 50.000 0.50 0.00 34.07 3.06
570 573 1.400242 GCTTTGCCAGTAGCTTTCACG 60.400 52.381 0.00 0.00 44.23 4.35
571 574 1.608590 TGCTTTGCCAGTAGCTTTCAC 59.391 47.619 0.00 0.00 44.23 3.18
631 634 1.026718 GCTTAGTGCATCTTGCCCGT 61.027 55.000 0.00 0.00 44.23 5.28
661 664 5.702670 GGTATGTCATTGATGTCCCTATGTG 59.297 44.000 0.00 0.00 0.00 3.21
689 693 2.185387 AGGTAGTTAAGGGCGACATGT 58.815 47.619 0.00 0.00 0.00 3.21
711 715 2.353803 CGGGTAAACTGTGCTAGCTCTT 60.354 50.000 17.23 5.69 0.00 2.85
719 723 1.198408 GTAAAGGCGGGTAAACTGTGC 59.802 52.381 0.00 0.00 0.00 4.57
747 753 2.561569 GAGGCAAATACATAGTGGCGT 58.438 47.619 0.00 0.00 42.30 5.68
785 792 4.578928 ACAACAAAGCGAAAGTACAGGAAT 59.421 37.500 0.00 0.00 0.00 3.01
789 796 5.498542 GCAAAACAACAAAGCGAAAGTACAG 60.499 40.000 0.00 0.00 0.00 2.74
798 805 0.297230 CACGGCAAAACAACAAAGCG 59.703 50.000 0.00 0.00 0.00 4.68
799 806 0.649993 CCACGGCAAAACAACAAAGC 59.350 50.000 0.00 0.00 0.00 3.51
801 808 0.741221 GGCCACGGCAAAACAACAAA 60.741 50.000 10.83 0.00 44.11 2.83
802 809 1.153549 GGCCACGGCAAAACAACAA 60.154 52.632 10.83 0.00 44.11 2.83
803 810 2.496817 GGCCACGGCAAAACAACA 59.503 55.556 10.83 0.00 44.11 3.33
804 811 2.656973 CGGCCACGGCAAAACAAC 60.657 61.111 10.83 0.00 44.11 3.32
805 812 2.227089 AAACGGCCACGGCAAAACAA 62.227 50.000 10.83 0.00 46.48 2.83
806 813 2.711922 AAACGGCCACGGCAAAACA 61.712 52.632 10.83 0.00 46.48 2.83
807 814 2.105328 AAACGGCCACGGCAAAAC 59.895 55.556 10.83 0.00 46.48 2.43
821 840 3.642705 GAATCCAACAAGTCTGCCAAAC 58.357 45.455 0.00 0.00 0.00 2.93
845 864 3.532542 CCGACCTTAAAATGAGACCCTC 58.467 50.000 0.00 0.00 0.00 4.30
855 874 0.896479 GGGCTTGCCCGACCTTAAAA 60.896 55.000 15.52 0.00 0.00 1.52
863 882 2.764637 GAAAAGAGGGGCTTGCCCGA 62.765 60.000 22.76 0.00 36.80 5.14
918 940 0.101939 GAGTACCGGCCGTCTTTAGG 59.898 60.000 26.12 9.27 0.00 2.69
922 944 2.283388 TGGAGTACCGGCCGTCTT 60.283 61.111 26.12 10.56 39.42 3.01
927 956 3.637926 GACACGTGGAGTACCGGCC 62.638 68.421 21.57 0.00 39.42 6.13
982 1011 2.100749 CCATATTTTTCTGCCGGGTTCC 59.899 50.000 2.18 0.00 0.00 3.62
983 1012 2.100749 CCCATATTTTTCTGCCGGGTTC 59.899 50.000 2.18 0.00 0.00 3.62
984 1013 2.107366 CCCATATTTTTCTGCCGGGTT 58.893 47.619 2.18 0.00 0.00 4.11
985 1014 1.286553 TCCCATATTTTTCTGCCGGGT 59.713 47.619 2.18 0.00 33.70 5.28
986 1015 2.065899 TCCCATATTTTTCTGCCGGG 57.934 50.000 2.18 0.00 0.00 5.73
987 1016 4.370917 CATTTCCCATATTTTTCTGCCGG 58.629 43.478 0.00 0.00 0.00 6.13
988 1017 4.370917 CCATTTCCCATATTTTTCTGCCG 58.629 43.478 0.00 0.00 0.00 5.69
989 1018 4.129380 GCCATTTCCCATATTTTTCTGCC 58.871 43.478 0.00 0.00 0.00 4.85
1240 1290 2.754658 GAGGAGCCGGTCGGAGAA 60.755 66.667 14.15 0.00 39.69 2.87
1292 1342 6.477688 CACAACACAAGAAATGAAGCAAAGAT 59.522 34.615 0.00 0.00 0.00 2.40
1359 1411 0.813610 CACGACCTGCAGGACACAAA 60.814 55.000 39.19 0.00 38.94 2.83
1507 1559 1.141019 GGCTTGGACGATGTCGCTA 59.859 57.895 1.77 0.00 44.43 4.26
1540 1592 0.960364 CATTGTACGGCAGGCCAAGT 60.960 55.000 5.01 3.64 35.37 3.16
1556 1608 2.026822 ACAATGAGAAGGAGTCGCCATT 60.027 45.455 0.00 0.00 40.02 3.16
1794 1846 8.041323 ACATACAGACTCAAGAACCGAAATTAT 58.959 33.333 0.00 0.00 0.00 1.28
2038 2090 4.696479 AGAGGAACAGAATCACAGTGTT 57.304 40.909 0.00 0.00 37.12 3.32
2091 2143 9.461312 TGCATGATTAGATAAGTTGTACCTTTT 57.539 29.630 0.00 0.00 0.00 2.27
2362 2414 1.202891 TCACTGTCTTCACTCGAGGGA 60.203 52.381 14.89 14.89 0.00 4.20
2477 2529 8.497910 ACTGGCTCATAAAGATCCTATAGAAA 57.502 34.615 0.00 0.00 33.57 2.52
2478 2530 9.775539 ATACTGGCTCATAAAGATCCTATAGAA 57.224 33.333 0.00 0.00 33.57 2.10
2492 2544 9.088987 TGTGAATAAGATGTATACTGGCTCATA 57.911 33.333 4.17 0.00 0.00 2.15
2493 2545 7.966812 TGTGAATAAGATGTATACTGGCTCAT 58.033 34.615 4.17 0.00 0.00 2.90
2498 2550 6.986231 TGTGCTGTGAATAAGATGTATACTGG 59.014 38.462 4.17 0.00 0.00 4.00
2499 2551 8.599055 ATGTGCTGTGAATAAGATGTATACTG 57.401 34.615 4.17 0.00 0.00 2.74
2505 2557 8.687292 ATGAATATGTGCTGTGAATAAGATGT 57.313 30.769 0.00 0.00 0.00 3.06
2630 2682 3.316283 GCTGCTCATCAGTCATAGCTAC 58.684 50.000 0.00 0.00 44.66 3.58
2667 2719 9.626045 GTGATCAAAGGGAAAGTTTAGTTAATG 57.374 33.333 0.00 0.00 0.00 1.90
2736 2788 3.257933 GCGGACTGCTTGAAGTGG 58.742 61.111 0.00 0.00 41.73 4.00
3077 3129 2.109181 GGATCGCTGGGCCTACAC 59.891 66.667 4.53 0.00 0.00 2.90
3381 3446 4.336889 AAAGTTTAAGCAAGGAAAGGCC 57.663 40.909 0.00 0.00 0.00 5.19
3448 3520 7.885009 ACATACAAATGTTCATGATCATGGA 57.115 32.000 30.54 22.91 44.07 3.41
3646 3799 2.949644 GTTATTTCCATTGACCCCCTCG 59.050 50.000 0.00 0.00 0.00 4.63
3751 3986 2.114616 CTATGCACCTTCTCCTCCTGT 58.885 52.381 0.00 0.00 0.00 4.00
3757 3992 1.065854 ACACTGCTATGCACCTTCTCC 60.066 52.381 0.00 0.00 33.79 3.71
3761 3996 0.962356 GCCACACTGCTATGCACCTT 60.962 55.000 0.00 0.00 33.79 3.50
3780 4015 0.796312 CATCTTTCGTGGTTGGGTCG 59.204 55.000 0.00 0.00 0.00 4.79
3877 4112 1.860906 ACCCCCACCCTACTTTTGAAA 59.139 47.619 0.00 0.00 0.00 2.69
3901 4136 1.153628 GCGCCGACTCCATAAGTGT 60.154 57.895 0.00 0.00 38.74 3.55
4026 4261 8.494347 TGACCAAAATTATTGCAAAAATTCTCG 58.506 29.630 1.71 0.00 0.00 4.04
4036 4271 5.236282 CACATGGTGACCAAAATTATTGCA 58.764 37.500 9.06 0.00 36.95 4.08


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

AutoCloner maintained by Alex Coulton.