Multiple sequence alignment - TraesCS3A01G326600

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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 TraesCS3A01G326600 chr3A 100.000 3737 0 0 1 3737 571914537 571910801 0.000000e+00 6902
1 TraesCS3A01G326600 chr3A 97.465 1854 27 5 913 2750 571809962 571808113 0.000000e+00 3147
2 TraesCS3A01G326600 chr3A 91.073 941 55 5 2824 3737 48654128 48653190 0.000000e+00 1245
3 TraesCS3A01G326600 chr3B 92.288 1997 129 15 778 2758 566191421 566189434 0.000000e+00 2811
4 TraesCS3A01G326600 chr3B 90.522 939 62 3 2824 3737 43535504 43534568 0.000000e+00 1216
5 TraesCS3A01G326600 chr3B 86.032 630 73 11 1235 1852 800174055 800174681 0.000000e+00 662
6 TraesCS3A01G326600 chr2A 90.948 939 57 4 2824 3737 1104168 1105103 0.000000e+00 1238
7 TraesCS3A01G326600 chr2A 81.487 686 101 15 2 672 266864724 266865398 1.180000e-149 540
8 TraesCS3A01G326600 chrUn 90.832 938 62 2 2824 3737 195663950 195663013 0.000000e+00 1234
9 TraesCS3A01G326600 chrUn 90.851 940 59 4 2824 3737 225680006 225680944 0.000000e+00 1234
10 TraesCS3A01G326600 chrUn 90.841 939 61 2 2824 3737 269607282 269608220 0.000000e+00 1234
11 TraesCS3A01G326600 chrUn 90.841 939 60 3 2824 3737 287108724 287109661 0.000000e+00 1234
12 TraesCS3A01G326600 chrUn 90.415 939 65 2 2824 3737 301338769 301339707 0.000000e+00 1212
13 TraesCS3A01G326600 chrUn 90.231 778 51 2 2824 3577 347578815 347579591 0.000000e+00 992
14 TraesCS3A01G326600 chrUn 93.403 576 36 2 3163 3737 374096200 374096774 0.000000e+00 852
15 TraesCS3A01G326600 chr1B 90.336 952 62 6 2815 3737 8844310 8845260 0.000000e+00 1221
16 TraesCS3A01G326600 chr1B 82.242 687 101 12 1 672 685177634 685178314 1.160000e-159 573
17 TraesCS3A01G326600 chr1A 89.350 939 72 3 2824 3737 507232436 507231501 0.000000e+00 1155
18 TraesCS3A01G326600 chr1A 80.931 666 108 13 1 654 245538516 245537858 3.330000e-140 508
19 TraesCS3A01G326600 chr5A 89.054 941 73 17 2825 3736 3723799 3722860 0.000000e+00 1140
20 TraesCS3A01G326600 chr5A 83.203 893 142 7 1850 2741 702983467 702984352 0.000000e+00 811
21 TraesCS3A01G326600 chr5A 86.870 655 73 10 1206 1852 702982576 702983225 0.000000e+00 721
22 TraesCS3A01G326600 chr5A 87.344 561 62 6 1298 1852 702230038 702230595 5.270000e-178 634
23 TraesCS3A01G326600 chr3D 90.695 849 35 17 772 1594 433427702 433426872 0.000000e+00 1090
24 TraesCS3A01G326600 chr4D 83.203 893 142 5 1850 2741 506721130 506722015 0.000000e+00 811
25 TraesCS3A01G326600 chr4D 84.604 656 86 11 1206 1852 506720266 506720915 4.070000e-179 638
26 TraesCS3A01G326600 chr4D 85.608 403 53 3 1450 1848 506104076 506104477 5.770000e-113 418
27 TraesCS3A01G326600 chr4D 86.122 245 33 1 1218 1462 506103472 506103715 2.860000e-66 263
28 TraesCS3A01G326600 chr4B 85.669 635 79 8 1235 1858 664519542 664518909 0.000000e+00 658
29 TraesCS3A01G326600 chr4B 84.385 301 41 4 1537 1833 661307531 661307829 1.310000e-74 291
30 TraesCS3A01G326600 chr6D 84.279 687 89 9 1 672 6830642 6831324 0.000000e+00 652
31 TraesCS3A01G326600 chr2D 83.115 687 95 13 7 678 110022032 110022712 1.150000e-169 606
32 TraesCS3A01G326600 chr2D 82.336 685 97 13 7 672 577614633 577613954 1.160000e-159 573
33 TraesCS3A01G326600 chr1D 85.714 588 68 9 7 582 222898672 222898089 1.150000e-169 606
34 TraesCS3A01G326600 chr5D 84.772 591 71 13 1 579 412746164 412746747 3.240000e-160 575
35 TraesCS3A01G326600 chr4A 82.029 690 98 16 1 672 722278752 722279433 7.010000e-157 564


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 TraesCS3A01G326600 chr3A 571910801 571914537 3736 True 6902.0 6902 100.0000 1 3737 1 chr3A.!!$R3 3736
1 TraesCS3A01G326600 chr3A 571808113 571809962 1849 True 3147.0 3147 97.4650 913 2750 1 chr3A.!!$R2 1837
2 TraesCS3A01G326600 chr3A 48653190 48654128 938 True 1245.0 1245 91.0730 2824 3737 1 chr3A.!!$R1 913
3 TraesCS3A01G326600 chr3B 566189434 566191421 1987 True 2811.0 2811 92.2880 778 2758 1 chr3B.!!$R2 1980
4 TraesCS3A01G326600 chr3B 43534568 43535504 936 True 1216.0 1216 90.5220 2824 3737 1 chr3B.!!$R1 913
5 TraesCS3A01G326600 chr3B 800174055 800174681 626 False 662.0 662 86.0320 1235 1852 1 chr3B.!!$F1 617
6 TraesCS3A01G326600 chr2A 1104168 1105103 935 False 1238.0 1238 90.9480 2824 3737 1 chr2A.!!$F1 913
7 TraesCS3A01G326600 chr2A 266864724 266865398 674 False 540.0 540 81.4870 2 672 1 chr2A.!!$F2 670
8 TraesCS3A01G326600 chrUn 195663013 195663950 937 True 1234.0 1234 90.8320 2824 3737 1 chrUn.!!$R1 913
9 TraesCS3A01G326600 chrUn 225680006 225680944 938 False 1234.0 1234 90.8510 2824 3737 1 chrUn.!!$F1 913
10 TraesCS3A01G326600 chrUn 269607282 269608220 938 False 1234.0 1234 90.8410 2824 3737 1 chrUn.!!$F2 913
11 TraesCS3A01G326600 chrUn 287108724 287109661 937 False 1234.0 1234 90.8410 2824 3737 1 chrUn.!!$F3 913
12 TraesCS3A01G326600 chrUn 301338769 301339707 938 False 1212.0 1212 90.4150 2824 3737 1 chrUn.!!$F4 913
13 TraesCS3A01G326600 chrUn 347578815 347579591 776 False 992.0 992 90.2310 2824 3577 1 chrUn.!!$F5 753
14 TraesCS3A01G326600 chrUn 374096200 374096774 574 False 852.0 852 93.4030 3163 3737 1 chrUn.!!$F6 574
15 TraesCS3A01G326600 chr1B 8844310 8845260 950 False 1221.0 1221 90.3360 2815 3737 1 chr1B.!!$F1 922
16 TraesCS3A01G326600 chr1B 685177634 685178314 680 False 573.0 573 82.2420 1 672 1 chr1B.!!$F2 671
17 TraesCS3A01G326600 chr1A 507231501 507232436 935 True 1155.0 1155 89.3500 2824 3737 1 chr1A.!!$R2 913
18 TraesCS3A01G326600 chr1A 245537858 245538516 658 True 508.0 508 80.9310 1 654 1 chr1A.!!$R1 653
19 TraesCS3A01G326600 chr5A 3722860 3723799 939 True 1140.0 1140 89.0540 2825 3736 1 chr5A.!!$R1 911
20 TraesCS3A01G326600 chr5A 702982576 702984352 1776 False 766.0 811 85.0365 1206 2741 2 chr5A.!!$F2 1535
21 TraesCS3A01G326600 chr5A 702230038 702230595 557 False 634.0 634 87.3440 1298 1852 1 chr5A.!!$F1 554
22 TraesCS3A01G326600 chr3D 433426872 433427702 830 True 1090.0 1090 90.6950 772 1594 1 chr3D.!!$R1 822
23 TraesCS3A01G326600 chr4D 506720266 506722015 1749 False 724.5 811 83.9035 1206 2741 2 chr4D.!!$F2 1535
24 TraesCS3A01G326600 chr4D 506103472 506104477 1005 False 340.5 418 85.8650 1218 1848 2 chr4D.!!$F1 630
25 TraesCS3A01G326600 chr4B 664518909 664519542 633 True 658.0 658 85.6690 1235 1858 1 chr4B.!!$R1 623
26 TraesCS3A01G326600 chr6D 6830642 6831324 682 False 652.0 652 84.2790 1 672 1 chr6D.!!$F1 671
27 TraesCS3A01G326600 chr2D 110022032 110022712 680 False 606.0 606 83.1150 7 678 1 chr2D.!!$F1 671
28 TraesCS3A01G326600 chr2D 577613954 577614633 679 True 573.0 573 82.3360 7 672 1 chr2D.!!$R1 665
29 TraesCS3A01G326600 chr1D 222898089 222898672 583 True 606.0 606 85.7140 7 582 1 chr1D.!!$R1 575
30 TraesCS3A01G326600 chr5D 412746164 412746747 583 False 575.0 575 84.7720 1 579 1 chr5D.!!$F1 578
31 TraesCS3A01G326600 chr4A 722278752 722279433 681 False 564.0 564 82.0290 1 672 1 chr4A.!!$F1 671

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
715 741 0.034059 AGAGCTCCAAATATCGGCCG 59.966 55.0 22.12 22.12 0.0 6.13 F
717 743 0.180406 AGCTCCAAATATCGGCCGTT 59.820 50.0 27.15 20.39 0.0 4.44 F
742 768 0.246360 CGTGCCCAGTCTGTATGTCA 59.754 55.0 0.00 0.00 0.0 3.58 F
772 798 0.735978 CGAGTACGCTGTGCATGGAA 60.736 55.0 0.00 0.00 0.0 3.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2481 3187 0.389426 ACTCCATGGCGTTCACGTAC 60.389 55.000 6.96 0.0 42.22 3.67 R
2585 3291 1.134367 TGCTCGTTTCTATCCTCGTGG 59.866 52.381 0.00 0.0 0.00 4.94 R
2691 3397 2.197465 AGGCCTCCGATCTTAACCTTT 58.803 47.619 0.00 0.0 0.00 3.11 R
2760 3466 6.713762 ACTCCATCATGTTCTCAAAACAAA 57.286 33.333 0.00 0.0 33.42 2.83 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
132 137 4.565229 CGAAATCATTACCGTTGAACGAG 58.435 43.478 20.47 11.68 46.05 4.18
152 157 2.526873 AGACCGAGGCAACACCCT 60.527 61.111 0.00 0.00 40.58 4.34
155 160 4.722700 CCGAGGCAACACCCTGGG 62.723 72.222 12.28 12.28 43.22 4.45
169 174 0.888736 CCTGGGCACGTCATCAAACA 60.889 55.000 0.00 0.00 0.00 2.83
221 228 1.835531 TCGAAGGAGGAAACCATACCC 59.164 52.381 0.00 0.00 0.00 3.69
226 233 0.463833 GAGGAAACCATACCCGCCAG 60.464 60.000 0.00 0.00 0.00 4.85
248 255 0.040058 ATGAACCATGAGCCCAGCAA 59.960 50.000 0.00 0.00 0.00 3.91
249 256 0.040058 TGAACCATGAGCCCAGCAAT 59.960 50.000 0.00 0.00 0.00 3.56
250 257 1.284491 TGAACCATGAGCCCAGCAATA 59.716 47.619 0.00 0.00 0.00 1.90
267 274 4.759693 AGCAATACATGTTCCGTCTTTCAA 59.240 37.500 2.30 0.00 0.00 2.69
268 275 5.088739 GCAATACATGTTCCGTCTTTCAAG 58.911 41.667 2.30 0.00 0.00 3.02
305 312 2.551721 CCATAATCTGCATCCGCTCCTT 60.552 50.000 0.00 0.00 39.64 3.36
311 319 1.069823 CTGCATCCGCTCCTTGACTAT 59.930 52.381 0.00 0.00 39.64 2.12
327 335 1.115467 CTATCTCCCAAGCTCCGTGT 58.885 55.000 0.00 0.00 0.00 4.49
364 373 3.103911 GTCACAACGACGGAGCCG 61.104 66.667 7.48 7.48 46.03 5.52
444 453 2.044793 TGGTTCCCAGATCCTTCACT 57.955 50.000 0.00 0.00 0.00 3.41
454 463 4.592351 CCAGATCCTTCACTGACCATAGAT 59.408 45.833 0.00 0.00 36.38 1.98
457 466 6.266330 CAGATCCTTCACTGACCATAGATACA 59.734 42.308 0.00 0.00 36.38 2.29
469 478 0.601558 TAGATACAATCGCCTCGCCC 59.398 55.000 0.00 0.00 0.00 6.13
472 481 2.023414 ATACAATCGCCTCGCCCGAA 62.023 55.000 0.00 0.00 38.31 4.30
475 484 1.673009 AATCGCCTCGCCCGAAAAA 60.673 52.632 0.00 0.00 38.31 1.94
528 547 2.179018 CCGCCGAAGCCAACAATG 59.821 61.111 0.00 0.00 34.57 2.82
555 574 3.844804 ACCCTAAGTTTCTTGGACCCTAG 59.155 47.826 0.00 0.00 0.00 3.02
582 604 4.939509 AAATCTAAAACGATCCACACGG 57.060 40.909 0.00 0.00 34.93 4.94
591 613 0.460311 GATCCACACGGACGGAATCT 59.540 55.000 0.00 0.00 46.79 2.40
603 625 1.522569 GGAATCTGGTGACCTCCCG 59.477 63.158 2.11 0.00 0.00 5.14
616 638 3.605749 CTCCCGCACCACCGACAAT 62.606 63.158 0.00 0.00 0.00 2.71
650 672 1.221021 GAAGGAGAACCGCCGGAAT 59.779 57.895 11.71 0.00 41.83 3.01
672 698 4.214327 GGGAAGGAGCGGCTCTCG 62.214 72.222 27.47 0.00 42.82 4.04
673 699 4.214327 GGAAGGAGCGGCTCTCGG 62.214 72.222 27.47 0.00 42.82 4.63
674 700 4.882396 GAAGGAGCGGCTCTCGGC 62.882 72.222 27.47 12.35 42.82 5.54
683 709 3.839432 GCTCTCGGCGGCTAGGTT 61.839 66.667 7.21 0.00 0.00 3.50
684 710 2.893398 CTCTCGGCGGCTAGGTTT 59.107 61.111 7.21 0.00 0.00 3.27
685 711 1.227002 CTCTCGGCGGCTAGGTTTC 60.227 63.158 7.21 0.00 0.00 2.78
686 712 2.582498 CTCGGCGGCTAGGTTTCG 60.582 66.667 7.21 0.00 0.00 3.46
687 713 4.137872 TCGGCGGCTAGGTTTCGG 62.138 66.667 7.21 0.00 0.00 4.30
688 714 4.446413 CGGCGGCTAGGTTTCGGT 62.446 66.667 7.61 0.00 0.00 4.69
689 715 2.894919 GGCGGCTAGGTTTCGGTA 59.105 61.111 0.00 0.00 0.00 4.02
690 716 1.520120 GGCGGCTAGGTTTCGGTAC 60.520 63.158 0.00 0.00 0.00 3.34
691 717 1.520120 GCGGCTAGGTTTCGGTACC 60.520 63.158 0.16 0.16 38.53 3.34
692 718 1.142531 CGGCTAGGTTTCGGTACCC 59.857 63.158 6.25 0.00 39.08 3.69
693 719 1.606885 CGGCTAGGTTTCGGTACCCA 61.607 60.000 6.25 0.00 39.08 4.51
694 720 0.177373 GGCTAGGTTTCGGTACCCAG 59.823 60.000 6.25 0.00 39.08 4.45
695 721 0.177373 GCTAGGTTTCGGTACCCAGG 59.823 60.000 6.25 0.00 39.08 4.45
696 722 1.856629 CTAGGTTTCGGTACCCAGGA 58.143 55.000 6.25 0.00 39.08 3.86
697 723 1.755380 CTAGGTTTCGGTACCCAGGAG 59.245 57.143 6.25 0.00 39.08 3.69
698 724 0.115745 AGGTTTCGGTACCCAGGAGA 59.884 55.000 6.25 0.00 39.08 3.71
699 725 0.535797 GGTTTCGGTACCCAGGAGAG 59.464 60.000 6.25 0.00 31.71 3.20
700 726 0.108281 GTTTCGGTACCCAGGAGAGC 60.108 60.000 6.25 0.00 0.00 4.09
701 727 0.252103 TTTCGGTACCCAGGAGAGCT 60.252 55.000 6.25 0.00 0.00 4.09
702 728 0.683504 TTCGGTACCCAGGAGAGCTC 60.684 60.000 5.27 5.27 0.00 4.09
714 740 1.802069 GAGAGCTCCAAATATCGGCC 58.198 55.000 10.93 0.00 0.00 6.13
715 741 0.034059 AGAGCTCCAAATATCGGCCG 59.966 55.000 22.12 22.12 0.00 6.13
716 742 0.249911 GAGCTCCAAATATCGGCCGT 60.250 55.000 27.15 15.22 0.00 5.68
717 743 0.180406 AGCTCCAAATATCGGCCGTT 59.820 50.000 27.15 20.39 0.00 4.44
718 744 0.307760 GCTCCAAATATCGGCCGTTG 59.692 55.000 27.15 21.23 0.00 4.10
719 745 0.307760 CTCCAAATATCGGCCGTTGC 59.692 55.000 27.15 0.00 0.00 4.17
720 746 1.010125 CCAAATATCGGCCGTTGCG 60.010 57.895 27.15 11.88 38.85 4.85
721 747 1.711060 CCAAATATCGGCCGTTGCGT 61.711 55.000 27.15 9.82 38.85 5.24
722 748 0.931702 CAAATATCGGCCGTTGCGTA 59.068 50.000 27.15 4.32 38.85 4.42
723 749 0.932399 AAATATCGGCCGTTGCGTAC 59.068 50.000 27.15 0.00 38.85 3.67
731 757 3.773630 CGTTGCGTACGTGCCCAG 61.774 66.667 17.90 0.35 45.14 4.45
732 758 2.663852 GTTGCGTACGTGCCCAGT 60.664 61.111 17.90 0.00 0.00 4.00
733 759 2.356553 TTGCGTACGTGCCCAGTC 60.357 61.111 17.90 0.00 0.00 3.51
734 760 2.863346 TTGCGTACGTGCCCAGTCT 61.863 57.895 17.90 0.00 0.00 3.24
735 761 2.809601 GCGTACGTGCCCAGTCTG 60.810 66.667 17.90 0.00 0.00 3.51
736 762 2.649034 CGTACGTGCCCAGTCTGT 59.351 61.111 7.22 0.00 0.00 3.41
737 763 1.878070 CGTACGTGCCCAGTCTGTA 59.122 57.895 7.22 0.00 0.00 2.74
738 764 0.454600 CGTACGTGCCCAGTCTGTAT 59.545 55.000 7.22 0.00 0.00 2.29
739 765 1.797713 CGTACGTGCCCAGTCTGTATG 60.798 57.143 7.22 0.00 0.00 2.39
740 766 1.203994 GTACGTGCCCAGTCTGTATGT 59.796 52.381 0.00 0.00 0.00 2.29
741 767 0.246635 ACGTGCCCAGTCTGTATGTC 59.753 55.000 0.00 0.00 0.00 3.06
742 768 0.246360 CGTGCCCAGTCTGTATGTCA 59.754 55.000 0.00 0.00 0.00 3.58
743 769 1.134699 CGTGCCCAGTCTGTATGTCAT 60.135 52.381 0.00 0.00 0.00 3.06
744 770 2.283298 GTGCCCAGTCTGTATGTCATG 58.717 52.381 0.00 0.00 0.00 3.07
745 771 2.093500 GTGCCCAGTCTGTATGTCATGA 60.093 50.000 0.00 0.00 0.00 3.07
746 772 2.571202 TGCCCAGTCTGTATGTCATGAA 59.429 45.455 0.00 0.00 0.00 2.57
747 773 3.008923 TGCCCAGTCTGTATGTCATGAAA 59.991 43.478 0.00 0.00 0.00 2.69
748 774 4.202441 GCCCAGTCTGTATGTCATGAAAT 58.798 43.478 3.32 3.32 0.00 2.17
749 775 4.641989 GCCCAGTCTGTATGTCATGAAATT 59.358 41.667 3.06 0.00 0.00 1.82
750 776 5.822519 GCCCAGTCTGTATGTCATGAAATTA 59.177 40.000 3.06 0.00 0.00 1.40
751 777 6.318648 GCCCAGTCTGTATGTCATGAAATTAA 59.681 38.462 3.06 0.00 0.00 1.40
752 778 7.467811 GCCCAGTCTGTATGTCATGAAATTAAG 60.468 40.741 3.06 2.67 0.00 1.85
753 779 7.412853 CCAGTCTGTATGTCATGAAATTAAGC 58.587 38.462 3.06 0.17 0.00 3.09
754 780 7.121911 CAGTCTGTATGTCATGAAATTAAGCG 58.878 38.462 3.06 0.00 0.00 4.68
755 781 7.010460 CAGTCTGTATGTCATGAAATTAAGCGA 59.990 37.037 3.06 0.00 0.00 4.93
756 782 7.223582 AGTCTGTATGTCATGAAATTAAGCGAG 59.776 37.037 3.06 0.00 0.00 5.03
757 783 7.010552 GTCTGTATGTCATGAAATTAAGCGAGT 59.989 37.037 3.06 0.00 0.00 4.18
758 784 8.194769 TCTGTATGTCATGAAATTAAGCGAGTA 58.805 33.333 3.06 0.00 0.00 2.59
759 785 8.126871 TGTATGTCATGAAATTAAGCGAGTAC 57.873 34.615 3.06 0.00 0.00 2.73
760 786 5.696260 TGTCATGAAATTAAGCGAGTACG 57.304 39.130 0.00 0.00 42.93 3.67
770 796 3.388134 CGAGTACGCTGTGCATGG 58.612 61.111 0.00 0.00 0.00 3.66
771 797 1.153842 CGAGTACGCTGTGCATGGA 60.154 57.895 0.00 0.00 0.00 3.41
772 798 0.735978 CGAGTACGCTGTGCATGGAA 60.736 55.000 0.00 0.00 0.00 3.53
773 799 1.438651 GAGTACGCTGTGCATGGAAA 58.561 50.000 0.00 0.00 0.00 3.13
774 800 1.394917 GAGTACGCTGTGCATGGAAAG 59.605 52.381 0.00 0.00 0.00 2.62
785 811 4.160065 TGTGCATGGAAAGGGAAATACATG 59.840 41.667 0.00 0.00 38.86 3.21
803 829 1.278637 GTGCGAAAGGTTGGACGTG 59.721 57.895 0.00 0.00 0.00 4.49
839 865 4.320608 TTTCACCAAGAAAACATCCTGC 57.679 40.909 0.00 0.00 43.00 4.85
864 899 1.603802 GTGACCACACACATCCAACAG 59.396 52.381 0.00 0.00 45.32 3.16
885 920 0.737715 CACGTCCCTAGCTTGCAGTC 60.738 60.000 0.00 0.00 0.00 3.51
893 928 1.830477 CTAGCTTGCAGTCCTCTCCTT 59.170 52.381 0.00 0.00 0.00 3.36
894 929 1.944177 AGCTTGCAGTCCTCTCCTTA 58.056 50.000 0.00 0.00 0.00 2.69
895 930 1.552792 AGCTTGCAGTCCTCTCCTTAC 59.447 52.381 0.00 0.00 0.00 2.34
896 931 1.276421 GCTTGCAGTCCTCTCCTTACA 59.724 52.381 0.00 0.00 0.00 2.41
959 1003 3.926527 GCAGCTTAGCCCAAACAAAATAC 59.073 43.478 0.00 0.00 0.00 1.89
2475 3181 1.339929 GGCACGGAAATGGTCAAGTTT 59.660 47.619 0.00 0.00 0.00 2.66
2556 3262 0.742635 GGAGCTACCTGTGCTTGAGC 60.743 60.000 0.00 0.00 41.30 4.26
2651 3357 1.463674 GAAGATTTGGGTGCCGACAT 58.536 50.000 0.00 0.00 0.00 3.06
2662 3368 2.287909 GGTGCCGACATAGATGAGAGTC 60.288 54.545 0.00 0.00 0.00 3.36
2666 3372 3.505680 GCCGACATAGATGAGAGTCTGAT 59.494 47.826 0.00 0.00 0.00 2.90
2691 3397 1.915489 ACATTGGTGCCTAGACATGGA 59.085 47.619 0.00 0.00 0.00 3.41
2712 3418 1.880941 AGGTTAAGATCGGAGGCCTT 58.119 50.000 6.77 0.00 0.00 4.35
2721 3427 4.600062 AGATCGGAGGCCTTAAAATTGTT 58.400 39.130 6.77 0.00 0.00 2.83
2731 3437 6.818142 AGGCCTTAAAATTGTTTACATGATGC 59.182 34.615 0.00 0.00 0.00 3.91
2783 3489 6.713762 TTTGTTTTGAGAACATGATGGAGT 57.286 33.333 0.00 0.00 0.00 3.85
2784 3490 7.815840 TTTGTTTTGAGAACATGATGGAGTA 57.184 32.000 0.00 0.00 0.00 2.59
2785 3491 7.815840 TTGTTTTGAGAACATGATGGAGTAA 57.184 32.000 0.00 0.00 0.00 2.24
2786 3492 7.439157 TGTTTTGAGAACATGATGGAGTAAG 57.561 36.000 0.00 0.00 0.00 2.34
2787 3493 7.223584 TGTTTTGAGAACATGATGGAGTAAGA 58.776 34.615 0.00 0.00 0.00 2.10
2788 3494 7.884877 TGTTTTGAGAACATGATGGAGTAAGAT 59.115 33.333 0.00 0.00 0.00 2.40
2789 3495 8.734386 GTTTTGAGAACATGATGGAGTAAGATT 58.266 33.333 0.00 0.00 0.00 2.40
2790 3496 9.958180 TTTTGAGAACATGATGGAGTAAGATTA 57.042 29.630 0.00 0.00 0.00 1.75
2791 3497 8.948631 TTGAGAACATGATGGAGTAAGATTAC 57.051 34.615 0.00 0.00 0.00 1.89
2792 3498 8.078060 TGAGAACATGATGGAGTAAGATTACA 57.922 34.615 0.00 0.00 36.12 2.41
2793 3499 7.981789 TGAGAACATGATGGAGTAAGATTACAC 59.018 37.037 0.00 0.00 36.12 2.90
2794 3500 7.275920 AGAACATGATGGAGTAAGATTACACC 58.724 38.462 11.05 11.05 42.48 4.16
2800 3506 4.813027 TGGAGTAAGATTACACCACGAAC 58.187 43.478 15.27 0.00 45.35 3.95
2801 3507 4.281435 TGGAGTAAGATTACACCACGAACA 59.719 41.667 15.27 0.00 45.35 3.18
2802 3508 5.221481 TGGAGTAAGATTACACCACGAACAA 60.221 40.000 15.27 0.00 45.35 2.83
2803 3509 5.347907 GGAGTAAGATTACACCACGAACAAG 59.652 44.000 12.58 0.00 41.97 3.16
2804 3510 5.235516 AGTAAGATTACACCACGAACAAGG 58.764 41.667 5.59 0.00 36.12 3.61
2805 3511 4.345859 AAGATTACACCACGAACAAGGA 57.654 40.909 0.00 0.00 0.00 3.36
2806 3512 3.926616 AGATTACACCACGAACAAGGAG 58.073 45.455 0.00 0.00 0.00 3.69
2807 3513 3.576982 AGATTACACCACGAACAAGGAGA 59.423 43.478 0.00 0.00 0.00 3.71
2808 3514 3.823281 TTACACCACGAACAAGGAGAA 57.177 42.857 0.00 0.00 0.00 2.87
2809 3515 2.240493 ACACCACGAACAAGGAGAAG 57.760 50.000 0.00 0.00 0.00 2.85
2810 3516 1.485066 ACACCACGAACAAGGAGAAGT 59.515 47.619 0.00 0.00 0.00 3.01
2811 3517 1.867233 CACCACGAACAAGGAGAAGTG 59.133 52.381 0.00 0.00 0.00 3.16
2812 3518 1.485066 ACCACGAACAAGGAGAAGTGT 59.515 47.619 0.00 0.00 0.00 3.55
2813 3519 2.696707 ACCACGAACAAGGAGAAGTGTA 59.303 45.455 0.00 0.00 0.00 2.90
2814 3520 3.323979 ACCACGAACAAGGAGAAGTGTAT 59.676 43.478 0.00 0.00 0.00 2.29
2815 3521 3.679980 CCACGAACAAGGAGAAGTGTATG 59.320 47.826 0.00 0.00 0.00 2.39
2816 3522 3.679980 CACGAACAAGGAGAAGTGTATGG 59.320 47.826 0.00 0.00 0.00 2.74
2817 3523 3.576982 ACGAACAAGGAGAAGTGTATGGA 59.423 43.478 0.00 0.00 0.00 3.41
2818 3524 4.223032 ACGAACAAGGAGAAGTGTATGGAT 59.777 41.667 0.00 0.00 0.00 3.41
2819 3525 4.568359 CGAACAAGGAGAAGTGTATGGATG 59.432 45.833 0.00 0.00 0.00 3.51
2820 3526 5.624509 CGAACAAGGAGAAGTGTATGGATGA 60.625 44.000 0.00 0.00 0.00 2.92
2821 3527 5.762179 ACAAGGAGAAGTGTATGGATGAA 57.238 39.130 0.00 0.00 0.00 2.57
2822 3528 5.491982 ACAAGGAGAAGTGTATGGATGAAC 58.508 41.667 0.00 0.00 0.00 3.18
2839 3545 4.715534 TGAACCACTACAGGAAAATCCA 57.284 40.909 0.00 0.00 39.61 3.41
2864 3570 4.822685 TTCCCGTGTGTTAGCCTATAAA 57.177 40.909 0.00 0.00 0.00 1.40
3033 3746 0.766131 TCTACGGAAAAAGGCACCCA 59.234 50.000 0.00 0.00 0.00 4.51
3041 3754 2.080654 AAAAGGCACCCAGCTTACAA 57.919 45.000 0.00 0.00 44.79 2.41
3067 3780 1.135083 ACTCGGTAAAGACATCTGCCG 60.135 52.381 11.35 11.35 37.67 5.69
3076 3789 2.433145 CATCTGCCGCGTGTCTGT 60.433 61.111 4.92 0.00 0.00 3.41
3129 3843 0.177141 GCCTATAAGCCGTGTGTCCA 59.823 55.000 0.00 0.00 0.00 4.02
3188 3926 2.124903 GGACATATAAGTCGTGTGCCG 58.875 52.381 2.24 0.00 39.42 5.69
3260 3998 7.867445 ACATTTGTGCGAAATTAGTTTAAGG 57.133 32.000 0.00 0.00 0.00 2.69
3430 4171 0.317160 CGCCACCACACTTCTAGACA 59.683 55.000 0.00 0.00 0.00 3.41
3465 4206 1.216178 GCAAGATTTGGCGGCATGT 59.784 52.632 14.32 4.06 0.00 3.21
3494 4235 2.282180 AAGCCGCCGGTCACAATT 60.282 55.556 4.45 0.00 0.00 2.32
3516 4257 5.268118 TGTAGACATGCGAAGATCAATCT 57.732 39.130 0.00 0.00 39.22 2.40
3613 4355 1.544246 GCCCAGCCGTGTAAGAAAATT 59.456 47.619 0.00 0.00 0.00 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
105 110 4.505808 TCAACGGTAATGATTTCGCCTTA 58.494 39.130 0.00 0.00 0.00 2.69
132 137 1.668151 GGTGTTGCCTCGGTCTGAC 60.668 63.158 0.00 0.00 0.00 3.51
152 157 1.169661 GGTGTTTGATGACGTGCCCA 61.170 55.000 0.00 0.00 0.00 5.36
155 160 2.483583 TTTGGTGTTTGATGACGTGC 57.516 45.000 0.00 0.00 0.00 5.34
160 165 3.005684 GTGCCAGATTTGGTGTTTGATGA 59.994 43.478 3.90 0.00 46.80 2.92
169 174 0.251341 GTGAGGGTGCCAGATTTGGT 60.251 55.000 3.90 0.00 46.80 3.67
185 190 4.705023 TCCTTCGATGTCTTAGTCATGTGA 59.295 41.667 0.00 0.00 0.00 3.58
221 228 1.721664 CTCATGGTTCATGGCTGGCG 61.722 60.000 7.88 0.00 41.66 5.69
226 233 1.380246 TGGGCTCATGGTTCATGGC 60.380 57.895 7.88 9.47 41.66 4.40
248 255 5.305585 ACACTTGAAAGACGGAACATGTAT 58.694 37.500 0.00 0.00 0.00 2.29
249 256 4.699637 ACACTTGAAAGACGGAACATGTA 58.300 39.130 0.00 0.00 0.00 2.29
250 257 3.541632 ACACTTGAAAGACGGAACATGT 58.458 40.909 0.00 0.00 0.00 3.21
267 274 2.346766 TGGTCTGCATCAACAACACT 57.653 45.000 0.00 0.00 0.00 3.55
268 275 4.764679 TTATGGTCTGCATCAACAACAC 57.235 40.909 0.00 0.00 0.00 3.32
305 312 1.342076 ACGGAGCTTGGGAGATAGTCA 60.342 52.381 0.00 0.00 0.00 3.41
311 319 2.636412 CGACACGGAGCTTGGGAGA 61.636 63.158 0.00 0.00 0.00 3.71
327 335 2.254350 CGTCTGCTCCAACGTCGA 59.746 61.111 0.00 0.00 34.30 4.20
374 383 2.040544 GGCATCCTTGTGGTGGACG 61.041 63.158 0.00 0.00 36.30 4.79
407 416 1.271163 CCAGTCTGTTTAAGCGGGGAA 60.271 52.381 0.00 0.00 0.00 3.97
444 453 3.057526 CGAGGCGATTGTATCTATGGTCA 60.058 47.826 0.00 0.00 0.00 4.02
454 463 2.228389 TTTCGGGCGAGGCGATTGTA 62.228 55.000 0.00 0.00 0.00 2.41
457 466 1.673009 TTTTTCGGGCGAGGCGATT 60.673 52.632 0.00 0.00 0.00 3.34
478 487 7.463383 CGGTGATCTGAATAAAGAAACTTCGAG 60.463 40.741 0.00 0.00 0.00 4.04
479 488 6.310467 CGGTGATCTGAATAAAGAAACTTCGA 59.690 38.462 0.00 0.00 0.00 3.71
528 547 4.500887 GGTCCAAGAAACTTAGGGTTTTGC 60.501 45.833 0.00 0.00 46.77 3.68
549 568 7.486407 TCGTTTTAGATTTAGGTTCTAGGGT 57.514 36.000 0.00 0.00 0.00 4.34
555 574 7.461918 GTGTGGATCGTTTTAGATTTAGGTTC 58.538 38.462 0.00 0.00 0.00 3.62
582 604 0.175989 GGAGGTCACCAGATTCCGTC 59.824 60.000 0.00 0.00 0.00 4.79
603 625 1.606668 TCTTTTGATTGTCGGTGGTGC 59.393 47.619 0.00 0.00 0.00 5.01
614 636 2.107950 TCACCGGCGATCTTTTGATT 57.892 45.000 9.30 0.00 39.67 2.57
616 638 1.438651 CTTCACCGGCGATCTTTTGA 58.561 50.000 9.30 0.00 0.00 2.69
672 698 1.520120 GTACCGAAACCTAGCCGCC 60.520 63.158 0.00 0.00 0.00 6.13
673 699 1.520120 GGTACCGAAACCTAGCCGC 60.520 63.158 0.00 0.00 36.53 6.53
674 700 1.142531 GGGTACCGAAACCTAGCCG 59.857 63.158 5.65 0.00 40.86 5.52
686 712 3.957919 GGAGCTCTCCTGGGTACC 58.042 66.667 14.64 2.17 46.16 3.34
695 721 1.802069 GGCCGATATTTGGAGCTCTC 58.198 55.000 14.64 4.40 0.00 3.20
696 722 0.034059 CGGCCGATATTTGGAGCTCT 59.966 55.000 24.07 0.00 0.00 4.09
697 723 0.249911 ACGGCCGATATTTGGAGCTC 60.250 55.000 35.90 4.71 0.00 4.09
698 724 0.180406 AACGGCCGATATTTGGAGCT 59.820 50.000 35.90 0.00 0.00 4.09
699 725 0.307760 CAACGGCCGATATTTGGAGC 59.692 55.000 35.90 0.00 0.00 4.70
700 726 0.307760 GCAACGGCCGATATTTGGAG 59.692 55.000 35.90 7.28 0.00 3.86
701 727 1.433053 CGCAACGGCCGATATTTGGA 61.433 55.000 35.90 0.00 36.38 3.53
702 728 1.010125 CGCAACGGCCGATATTTGG 60.010 57.895 35.90 15.06 36.38 3.28
703 729 0.931702 TACGCAACGGCCGATATTTG 59.068 50.000 35.90 25.93 36.38 2.32
704 730 0.932399 GTACGCAACGGCCGATATTT 59.068 50.000 35.90 13.43 36.38 1.40
705 731 2.596875 GTACGCAACGGCCGATATT 58.403 52.632 35.90 13.88 36.38 1.28
706 732 4.331356 GTACGCAACGGCCGATAT 57.669 55.556 35.90 15.08 36.38 1.63
715 741 2.663852 ACTGGGCACGTACGCAAC 60.664 61.111 16.72 4.59 31.47 4.17
716 742 2.356553 GACTGGGCACGTACGCAA 60.357 61.111 16.72 0.00 31.47 4.85
717 743 3.299977 AGACTGGGCACGTACGCA 61.300 61.111 16.72 5.33 0.00 5.24
718 744 2.203972 TACAGACTGGGCACGTACGC 62.204 60.000 16.72 0.00 0.00 4.42
719 745 0.454600 ATACAGACTGGGCACGTACG 59.545 55.000 15.01 15.01 0.00 3.67
720 746 1.203994 ACATACAGACTGGGCACGTAC 59.796 52.381 7.51 0.00 0.00 3.67
721 747 1.475280 GACATACAGACTGGGCACGTA 59.525 52.381 7.51 0.00 0.00 3.57
722 748 0.246635 GACATACAGACTGGGCACGT 59.753 55.000 7.51 0.00 0.00 4.49
723 749 0.246360 TGACATACAGACTGGGCACG 59.754 55.000 7.51 0.00 0.00 5.34
724 750 2.093500 TCATGACATACAGACTGGGCAC 60.093 50.000 7.51 0.00 0.00 5.01
725 751 2.187100 TCATGACATACAGACTGGGCA 58.813 47.619 7.51 0.00 0.00 5.36
726 752 2.988010 TCATGACATACAGACTGGGC 57.012 50.000 7.51 0.00 0.00 5.36
727 753 7.467811 GCTTAATTTCATGACATACAGACTGGG 60.468 40.741 7.51 0.00 0.00 4.45
728 754 7.412853 GCTTAATTTCATGACATACAGACTGG 58.587 38.462 7.51 0.00 0.00 4.00
729 755 7.010460 TCGCTTAATTTCATGACATACAGACTG 59.990 37.037 0.00 0.00 0.00 3.51
730 756 7.041721 TCGCTTAATTTCATGACATACAGACT 58.958 34.615 0.00 0.00 0.00 3.24
731 757 7.010552 ACTCGCTTAATTTCATGACATACAGAC 59.989 37.037 0.00 0.00 0.00 3.51
732 758 7.041721 ACTCGCTTAATTTCATGACATACAGA 58.958 34.615 0.00 0.00 0.00 3.41
733 759 7.239166 ACTCGCTTAATTTCATGACATACAG 57.761 36.000 0.00 0.00 0.00 2.74
734 760 7.043656 CGTACTCGCTTAATTTCATGACATACA 60.044 37.037 0.00 0.00 0.00 2.29
735 761 7.274367 CGTACTCGCTTAATTTCATGACATAC 58.726 38.462 0.00 0.00 0.00 2.39
736 762 7.389603 CGTACTCGCTTAATTTCATGACATA 57.610 36.000 0.00 0.00 0.00 2.29
737 763 6.274001 CGTACTCGCTTAATTTCATGACAT 57.726 37.500 0.00 0.00 0.00 3.06
738 764 5.696260 CGTACTCGCTTAATTTCATGACA 57.304 39.130 0.00 0.00 0.00 3.58
753 779 0.735978 TTCCATGCACAGCGTACTCG 60.736 55.000 0.00 0.00 40.37 4.18
754 780 1.394917 CTTTCCATGCACAGCGTACTC 59.605 52.381 0.00 0.00 0.00 2.59
755 781 1.442769 CTTTCCATGCACAGCGTACT 58.557 50.000 0.00 0.00 0.00 2.73
756 782 0.447801 CCTTTCCATGCACAGCGTAC 59.552 55.000 0.00 0.00 0.00 3.67
757 783 0.676466 CCCTTTCCATGCACAGCGTA 60.676 55.000 0.00 0.00 0.00 4.42
758 784 1.973281 CCCTTTCCATGCACAGCGT 60.973 57.895 0.00 0.00 0.00 5.07
759 785 1.243342 TTCCCTTTCCATGCACAGCG 61.243 55.000 0.00 0.00 0.00 5.18
760 786 0.968405 TTTCCCTTTCCATGCACAGC 59.032 50.000 0.00 0.00 0.00 4.40
761 787 3.763360 TGTATTTCCCTTTCCATGCACAG 59.237 43.478 0.00 0.00 0.00 3.66
762 788 3.772387 TGTATTTCCCTTTCCATGCACA 58.228 40.909 0.00 0.00 0.00 4.57
763 789 4.160252 ACATGTATTTCCCTTTCCATGCAC 59.840 41.667 0.00 0.00 34.49 4.57
764 790 4.160065 CACATGTATTTCCCTTTCCATGCA 59.840 41.667 0.00 0.00 34.49 3.96
765 791 4.685924 CACATGTATTTCCCTTTCCATGC 58.314 43.478 0.00 0.00 34.49 4.06
766 792 4.685924 GCACATGTATTTCCCTTTCCATG 58.314 43.478 0.00 0.00 36.60 3.66
767 793 3.381272 CGCACATGTATTTCCCTTTCCAT 59.619 43.478 0.00 0.00 0.00 3.41
768 794 2.752354 CGCACATGTATTTCCCTTTCCA 59.248 45.455 0.00 0.00 0.00 3.53
769 795 3.013921 TCGCACATGTATTTCCCTTTCC 58.986 45.455 0.00 0.00 0.00 3.13
770 796 4.695217 TTCGCACATGTATTTCCCTTTC 57.305 40.909 0.00 0.00 0.00 2.62
771 797 4.082245 CCTTTCGCACATGTATTTCCCTTT 60.082 41.667 0.00 0.00 0.00 3.11
772 798 3.443681 CCTTTCGCACATGTATTTCCCTT 59.556 43.478 0.00 0.00 0.00 3.95
773 799 3.016736 CCTTTCGCACATGTATTTCCCT 58.983 45.455 0.00 0.00 0.00 4.20
774 800 2.752903 ACCTTTCGCACATGTATTTCCC 59.247 45.455 0.00 0.00 0.00 3.97
785 811 1.278637 CACGTCCAACCTTTCGCAC 59.721 57.895 0.00 0.00 0.00 5.34
820 846 2.238521 GGCAGGATGTTTTCTTGGTGA 58.761 47.619 0.00 0.00 39.31 4.02
839 865 1.167851 GATGTGTGTGGTCACCATGG 58.832 55.000 11.19 11.19 43.26 3.66
864 899 2.820037 GCAAGCTAGGGACGTGGC 60.820 66.667 0.00 0.00 0.00 5.01
885 920 7.896496 AGTTATATAGGGACATGTAAGGAGAGG 59.104 40.741 0.00 0.00 0.00 3.69
893 928 6.663953 GGAGCAGAGTTATATAGGGACATGTA 59.336 42.308 0.00 0.00 0.00 2.29
894 929 5.482175 GGAGCAGAGTTATATAGGGACATGT 59.518 44.000 0.00 0.00 0.00 3.21
895 930 5.393569 CGGAGCAGAGTTATATAGGGACATG 60.394 48.000 0.00 0.00 0.00 3.21
896 931 4.707448 CGGAGCAGAGTTATATAGGGACAT 59.293 45.833 0.00 0.00 0.00 3.06
945 988 2.490509 AGGCGTAGTATTTTGTTTGGGC 59.509 45.455 0.00 0.00 0.00 5.36
946 989 4.007659 AGAGGCGTAGTATTTTGTTTGGG 58.992 43.478 0.00 0.00 0.00 4.12
2418 3124 3.302347 GACCACCAGCACCTCCTCG 62.302 68.421 0.00 0.00 0.00 4.63
2480 3186 1.410737 CTCCATGGCGTTCACGTACG 61.411 60.000 15.01 15.01 44.09 3.67
2481 3187 0.389426 ACTCCATGGCGTTCACGTAC 60.389 55.000 6.96 0.00 42.22 3.67
2585 3291 1.134367 TGCTCGTTTCTATCCTCGTGG 59.866 52.381 0.00 0.00 0.00 4.94
2586 3292 2.561733 TGCTCGTTTCTATCCTCGTG 57.438 50.000 0.00 0.00 0.00 4.35
2651 3357 7.230309 CCAATGTCACTATCAGACTCTCATCTA 59.770 40.741 0.00 0.00 36.94 1.98
2662 3368 3.272574 AGGCACCAATGTCACTATCAG 57.727 47.619 0.00 0.00 30.46 2.90
2666 3372 3.169908 TGTCTAGGCACCAATGTCACTA 58.830 45.455 0.00 0.00 30.46 2.74
2691 3397 2.197465 AGGCCTCCGATCTTAACCTTT 58.803 47.619 0.00 0.00 0.00 3.11
2712 3418 8.791675 TCTCACTGCATCATGTAAACAATTTTA 58.208 29.630 0.00 0.00 0.00 1.52
2758 3464 7.555087 ACTCCATCATGTTCTCAAAACAAAAA 58.445 30.769 0.00 0.00 33.42 1.94
2759 3465 7.111247 ACTCCATCATGTTCTCAAAACAAAA 57.889 32.000 0.00 0.00 33.42 2.44
2760 3466 6.713762 ACTCCATCATGTTCTCAAAACAAA 57.286 33.333 0.00 0.00 33.42 2.83
2761 3467 7.719193 TCTTACTCCATCATGTTCTCAAAACAA 59.281 33.333 0.00 0.00 33.42 2.83
2762 3468 7.223584 TCTTACTCCATCATGTTCTCAAAACA 58.776 34.615 0.00 0.00 34.31 2.83
2763 3469 7.672983 TCTTACTCCATCATGTTCTCAAAAC 57.327 36.000 0.00 0.00 0.00 2.43
2764 3470 8.868522 AATCTTACTCCATCATGTTCTCAAAA 57.131 30.769 0.00 0.00 0.00 2.44
2765 3471 9.383519 GTAATCTTACTCCATCATGTTCTCAAA 57.616 33.333 0.00 0.00 0.00 2.69
2766 3472 8.539544 TGTAATCTTACTCCATCATGTTCTCAA 58.460 33.333 0.00 0.00 34.77 3.02
2767 3473 7.981789 GTGTAATCTTACTCCATCATGTTCTCA 59.018 37.037 0.00 0.00 34.77 3.27
2768 3474 7.439655 GGTGTAATCTTACTCCATCATGTTCTC 59.560 40.741 13.63 0.00 43.38 2.87
2769 3475 7.092891 TGGTGTAATCTTACTCCATCATGTTCT 60.093 37.037 16.14 0.00 46.50 3.01
2770 3476 7.047891 TGGTGTAATCTTACTCCATCATGTTC 58.952 38.462 16.14 0.00 46.50 3.18
2771 3477 6.957631 TGGTGTAATCTTACTCCATCATGTT 58.042 36.000 16.14 0.00 46.50 2.71
2772 3478 6.560003 TGGTGTAATCTTACTCCATCATGT 57.440 37.500 16.14 0.00 46.50 3.21
2779 3485 4.813027 TGTTCGTGGTGTAATCTTACTCC 58.187 43.478 12.22 12.22 43.89 3.85
2780 3486 5.347907 CCTTGTTCGTGGTGTAATCTTACTC 59.652 44.000 2.11 0.00 34.77 2.59
2781 3487 5.011329 TCCTTGTTCGTGGTGTAATCTTACT 59.989 40.000 2.11 0.00 34.77 2.24
2782 3488 5.232463 TCCTTGTTCGTGGTGTAATCTTAC 58.768 41.667 0.00 0.00 0.00 2.34
2783 3489 5.244402 TCTCCTTGTTCGTGGTGTAATCTTA 59.756 40.000 0.00 0.00 0.00 2.10
2784 3490 4.039973 TCTCCTTGTTCGTGGTGTAATCTT 59.960 41.667 0.00 0.00 0.00 2.40
2785 3491 3.576982 TCTCCTTGTTCGTGGTGTAATCT 59.423 43.478 0.00 0.00 0.00 2.40
2786 3492 3.921677 TCTCCTTGTTCGTGGTGTAATC 58.078 45.455 0.00 0.00 0.00 1.75
2787 3493 4.202326 ACTTCTCCTTGTTCGTGGTGTAAT 60.202 41.667 0.00 0.00 0.00 1.89
2788 3494 3.133362 ACTTCTCCTTGTTCGTGGTGTAA 59.867 43.478 0.00 0.00 0.00 2.41
2789 3495 2.696707 ACTTCTCCTTGTTCGTGGTGTA 59.303 45.455 0.00 0.00 0.00 2.90
2790 3496 1.485066 ACTTCTCCTTGTTCGTGGTGT 59.515 47.619 0.00 0.00 0.00 4.16
2791 3497 1.867233 CACTTCTCCTTGTTCGTGGTG 59.133 52.381 0.00 0.00 0.00 4.17
2792 3498 1.485066 ACACTTCTCCTTGTTCGTGGT 59.515 47.619 0.00 0.00 0.00 4.16
2793 3499 2.240493 ACACTTCTCCTTGTTCGTGG 57.760 50.000 0.00 0.00 0.00 4.94
2794 3500 3.679980 CCATACACTTCTCCTTGTTCGTG 59.320 47.826 0.00 0.00 0.00 4.35
2795 3501 3.576982 TCCATACACTTCTCCTTGTTCGT 59.423 43.478 0.00 0.00 0.00 3.85
2796 3502 4.188247 TCCATACACTTCTCCTTGTTCG 57.812 45.455 0.00 0.00 0.00 3.95
2797 3503 5.734720 TCATCCATACACTTCTCCTTGTTC 58.265 41.667 0.00 0.00 0.00 3.18
2798 3504 5.762179 TCATCCATACACTTCTCCTTGTT 57.238 39.130 0.00 0.00 0.00 2.83
2799 3505 5.491982 GTTCATCCATACACTTCTCCTTGT 58.508 41.667 0.00 0.00 0.00 3.16
2800 3506 4.878397 GGTTCATCCATACACTTCTCCTTG 59.122 45.833 0.00 0.00 35.97 3.61
2801 3507 4.536090 TGGTTCATCCATACACTTCTCCTT 59.464 41.667 0.00 0.00 41.93 3.36
2802 3508 4.104086 TGGTTCATCCATACACTTCTCCT 58.896 43.478 0.00 0.00 41.93 3.69
2803 3509 4.487714 TGGTTCATCCATACACTTCTCC 57.512 45.455 0.00 0.00 41.93 3.71
2812 3518 7.854381 GGATTTTCCTGTAGTGGTTCATCCATA 60.854 40.741 0.00 0.00 40.08 2.74
2813 3519 7.085481 GGATTTTCCTGTAGTGGTTCATCCAT 61.085 42.308 0.00 0.00 40.08 3.41
2814 3520 4.715534 TTTTCCTGTAGTGGTTCATCCA 57.284 40.909 0.00 0.00 45.01 3.41
2815 3521 4.640647 GGATTTTCCTGTAGTGGTTCATCC 59.359 45.833 0.00 0.00 32.53 3.51
2816 3522 5.253330 TGGATTTTCCTGTAGTGGTTCATC 58.747 41.667 0.00 0.00 37.46 2.92
2817 3523 5.255397 TGGATTTTCCTGTAGTGGTTCAT 57.745 39.130 0.00 0.00 37.46 2.57
2818 3524 4.715534 TGGATTTTCCTGTAGTGGTTCA 57.284 40.909 0.00 0.00 37.46 3.18
2819 3525 5.070685 ACTTGGATTTTCCTGTAGTGGTTC 58.929 41.667 0.00 0.00 37.46 3.62
2820 3526 5.061721 ACTTGGATTTTCCTGTAGTGGTT 57.938 39.130 0.00 0.00 37.46 3.67
2821 3527 4.724279 ACTTGGATTTTCCTGTAGTGGT 57.276 40.909 0.00 0.00 37.46 4.16
2822 3528 5.048013 GGAAACTTGGATTTTCCTGTAGTGG 60.048 44.000 6.61 0.00 45.94 4.00
2839 3545 1.142262 AGGCTAACACACGGGAAACTT 59.858 47.619 0.00 0.00 0.00 2.66
2993 3706 7.859377 CGTAGATACCGTGTGTTTCATATAAGT 59.141 37.037 0.00 0.00 0.00 2.24
3033 3746 1.138266 ACCGAGTGTGTGTTGTAAGCT 59.862 47.619 0.00 0.00 0.00 3.74
3041 3754 3.321111 AGATGTCTTTACCGAGTGTGTGT 59.679 43.478 0.00 0.00 0.00 3.72
3067 3780 2.268298 CCACTACCATTACAGACACGC 58.732 52.381 0.00 0.00 0.00 5.34
3076 3789 2.613474 GCACCGTCAACCACTACCATTA 60.613 50.000 0.00 0.00 0.00 1.90
3129 3843 0.035056 ATAAGCCGAGTGCCTGCTTT 60.035 50.000 0.94 0.00 41.61 3.51
3232 3970 9.731819 TTAAACTAATTTCGCACAAATGTTACA 57.268 25.926 0.00 0.00 0.00 2.41
3394 4135 1.751927 CGGGTACGCTAGGGTGTCT 60.752 63.158 21.79 0.00 37.38 3.41
3430 4171 1.271840 TGCGTTGGGGCCTCTTAGAT 61.272 55.000 3.07 0.00 0.00 1.98
3494 4235 5.045872 CAGATTGATCTTCGCATGTCTACA 58.954 41.667 0.00 0.00 34.22 2.74
3516 4257 3.173151 TCTGAACAGTTCCCTCTATGCA 58.827 45.455 10.93 0.00 0.00 3.96
3580 4321 2.810032 CGGCTGGGCACATGTGATATAA 60.810 50.000 29.80 8.31 0.00 0.98
3613 4355 4.506288 CACTCGGTGCGTGATAAAATCATA 59.494 41.667 0.00 0.00 42.04 2.15
3625 4367 2.157834 TTATTGAACACTCGGTGCGT 57.842 45.000 4.23 0.00 36.98 5.24
3629 4371 5.006358 GCGTGAATATTATTGAACACTCGGT 59.994 40.000 0.00 0.00 0.00 4.69


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

AutoCloner maintained by Alex Coulton.