Multiple sequence alignment - TraesCS6D01G342800

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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 TraesCS6D01G342800 chr6D 100.000 4629 0 0 1 4629 441888540 441893168 0.000000e+00 8549.0
1 TraesCS6D01G342800 chr6D 86.486 592 61 9 4047 4624 116356366 116356952 2.350000e-177 632.0
2 TraesCS6D01G342800 chr6D 89.352 216 15 7 4047 4258 441893936 441893725 9.880000e-67 265.0
3 TraesCS6D01G342800 chr6B 90.966 3199 193 60 554 3685 667884409 667887578 0.000000e+00 4218.0
4 TraesCS6D01G342800 chr6B 93.074 592 29 2 4047 4626 539619392 539619983 0.000000e+00 856.0
5 TraesCS6D01G342800 chr6B 93.204 412 18 5 50 455 667883853 667884260 8.570000e-167 597.0
6 TraesCS6D01G342800 chr6A 88.724 2554 154 60 26 2504 591218458 591220952 0.000000e+00 2998.0
7 TraesCS6D01G342800 chr6A 92.321 1146 75 4 2660 3792 591220960 591222105 0.000000e+00 1616.0
8 TraesCS6D01G342800 chr6A 91.440 257 12 5 3801 4050 591222079 591222332 1.230000e-90 344.0
9 TraesCS6D01G342800 chr2B 92.399 592 33 2 4047 4626 394119688 394120279 0.000000e+00 833.0
10 TraesCS6D01G342800 chr2B 87.838 222 17 2 4047 4258 394121085 394120864 7.690000e-63 252.0
11 TraesCS6D01G342800 chr2B 100.000 29 0 0 3765 3793 554307402 554307374 2.000000e-03 54.7
12 TraesCS6D01G342800 chr2D 91.765 595 37 4 4044 4626 153043688 153044282 0.000000e+00 817.0
13 TraesCS6D01G342800 chr2D 86.022 186 17 1 4047 4223 153045091 153044906 1.700000e-44 191.0
14 TraesCS6D01G342800 chr2D 83.163 196 22 5 4048 4233 294618784 294618590 7.970000e-38 169.0
15 TraesCS6D01G342800 chr2D 100.000 28 0 0 3766 3793 473711827 473711800 8.000000e-03 52.8
16 TraesCS6D01G342800 chr4D 91.723 592 35 5 4047 4626 459070589 459071178 0.000000e+00 809.0
17 TraesCS6D01G342800 chr4D 84.409 186 16 5 4045 4219 98077214 98077031 2.210000e-38 171.0
18 TraesCS6D01G342800 chr3D 88.494 591 43 13 4043 4625 444067618 444068191 0.000000e+00 691.0
19 TraesCS6D01G342800 chr5A 83.920 597 80 10 4047 4629 18782064 18781470 1.450000e-154 556.0
20 TraesCS6D01G342800 chr2A 88.651 467 36 4 4047 4496 327214525 327214059 1.880000e-153 553.0
21 TraesCS6D01G342800 chr2A 89.195 435 30 4 4047 4464 327366573 327367007 1.140000e-145 527.0
22 TraesCS6D01G342800 chr2A 86.559 186 16 1 4047 4223 327213151 327213336 3.650000e-46 196.0
23 TraesCS6D01G342800 chr7D 81.985 544 76 14 4048 4577 345735656 345735121 4.250000e-120 442.0
24 TraesCS6D01G342800 chr3B 92.157 306 15 1 4047 4343 763044426 763044121 1.540000e-114 424.0
25 TraesCS6D01G342800 chr3B 92.000 300 20 2 4333 4629 763042030 763041732 7.160000e-113 418.0


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 TraesCS6D01G342800 chr6D 441888540 441893168 4628 False 8549.000000 8549 100.000000 1 4629 1 chr6D.!!$F2 4628
1 TraesCS6D01G342800 chr6D 116356366 116356952 586 False 632.000000 632 86.486000 4047 4624 1 chr6D.!!$F1 577
2 TraesCS6D01G342800 chr6B 667883853 667887578 3725 False 2407.500000 4218 92.085000 50 3685 2 chr6B.!!$F2 3635
3 TraesCS6D01G342800 chr6B 539619392 539619983 591 False 856.000000 856 93.074000 4047 4626 1 chr6B.!!$F1 579
4 TraesCS6D01G342800 chr6A 591218458 591222332 3874 False 1652.666667 2998 90.828333 26 4050 3 chr6A.!!$F1 4024
5 TraesCS6D01G342800 chr2B 394119688 394120279 591 False 833.000000 833 92.399000 4047 4626 1 chr2B.!!$F1 579
6 TraesCS6D01G342800 chr2D 153043688 153044282 594 False 817.000000 817 91.765000 4044 4626 1 chr2D.!!$F1 582
7 TraesCS6D01G342800 chr4D 459070589 459071178 589 False 809.000000 809 91.723000 4047 4626 1 chr4D.!!$F1 579
8 TraesCS6D01G342800 chr3D 444067618 444068191 573 False 691.000000 691 88.494000 4043 4625 1 chr3D.!!$F1 582
9 TraesCS6D01G342800 chr5A 18781470 18782064 594 True 556.000000 556 83.920000 4047 4629 1 chr5A.!!$R1 582
10 TraesCS6D01G342800 chr7D 345735121 345735656 535 True 442.000000 442 81.985000 4048 4577 1 chr7D.!!$R1 529
11 TraesCS6D01G342800 chr3B 763041732 763044426 2694 True 421.000000 424 92.078500 4047 4629 2 chr3B.!!$R1 582


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
501 542 0.106217 CACCTCTCTCCCTCTCCCTC 60.106 65.0 0.00 0.0 0.00 4.30 F
1837 1983 0.405585 ACCACAGGAATGGACCCAAG 59.594 55.0 0.00 0.0 43.02 3.61 F
3532 3695 0.250295 ATGTGGTGGACAACGGTGAG 60.250 55.0 7.88 0.0 38.36 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2174 2327 0.097150 GGATCGCAAAAGAAGTCGCC 59.903 55.000 0.00 0.0 0.00 5.54 R
3584 3747 0.249489 GTAGATTCGCCACCATCGCT 60.249 55.000 0.00 0.0 0.00 4.93 R
4499 6795 2.124983 GCTCATGCAAGCCCGAGA 60.125 61.111 10.82 0.0 39.41 4.04 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
17 18 4.043200 GCACCTTCCGCAACAGCC 62.043 66.667 0.00 0.00 0.00 4.85
18 19 2.281761 CACCTTCCGCAACAGCCT 60.282 61.111 0.00 0.00 0.00 4.58
19 20 2.281761 ACCTTCCGCAACAGCCTG 60.282 61.111 0.00 0.00 0.00 4.85
20 21 3.741476 CCTTCCGCAACAGCCTGC 61.741 66.667 0.00 0.00 39.04 4.85
21 22 2.670934 CTTCCGCAACAGCCTGCT 60.671 61.111 0.00 0.00 40.33 4.24
22 23 1.375908 CTTCCGCAACAGCCTGCTA 60.376 57.895 0.00 0.00 40.33 3.49
23 24 0.745845 CTTCCGCAACAGCCTGCTAT 60.746 55.000 0.00 0.00 40.33 2.97
24 25 1.026182 TTCCGCAACAGCCTGCTATG 61.026 55.000 0.00 0.00 40.33 2.23
44 45 8.822652 GCTATGTGCATGTATATATATGAGCA 57.177 34.615 20.21 16.73 42.31 4.26
117 123 6.442513 AAAAGTGAGAAGAGGTTTTGACTG 57.557 37.500 0.00 0.00 0.00 3.51
118 124 5.359194 AAGTGAGAAGAGGTTTTGACTGA 57.641 39.130 0.00 0.00 0.00 3.41
170 176 1.146485 TCGTGCACGAAAAAGGGGA 59.854 52.632 37.68 13.53 46.30 4.81
171 177 0.882927 TCGTGCACGAAAAAGGGGAG 60.883 55.000 37.68 6.55 46.30 4.30
172 178 0.882927 CGTGCACGAAAAAGGGGAGA 60.883 55.000 34.93 0.00 43.02 3.71
173 179 1.314730 GTGCACGAAAAAGGGGAGAA 58.685 50.000 0.00 0.00 0.00 2.87
179 185 4.793028 GCACGAAAAAGGGGAGAAAGAAAG 60.793 45.833 0.00 0.00 0.00 2.62
215 223 3.948719 GGGGCACGTGGTTGGAGA 61.949 66.667 18.88 0.00 0.00 3.71
230 238 3.680338 GAGACCGAAGCGTCCGACC 62.680 68.421 0.00 0.00 32.91 4.79
436 445 3.866449 GCAAACTTCCCATCTCGTCTCTT 60.866 47.826 0.00 0.00 0.00 2.85
440 449 2.060050 TCCCATCTCGTCTCTTCTCC 57.940 55.000 0.00 0.00 0.00 3.71
443 469 1.384525 CATCTCGTCTCTTCTCCCGT 58.615 55.000 0.00 0.00 0.00 5.28
472 513 4.988598 CGGGCGCCACAGTTGAGT 62.989 66.667 30.85 0.00 0.00 3.41
477 518 1.574702 GCGCCACAGTTGAGTTACCC 61.575 60.000 0.00 0.00 0.00 3.69
479 520 1.610624 CGCCACAGTTGAGTTACCCAT 60.611 52.381 0.00 0.00 0.00 4.00
484 525 4.023193 CCACAGTTGAGTTACCCATTTCAC 60.023 45.833 0.00 0.00 0.00 3.18
490 531 4.168101 TGAGTTACCCATTTCACCTCTCT 58.832 43.478 0.00 0.00 0.00 3.10
495 536 1.488393 CCCATTTCACCTCTCTCCCTC 59.512 57.143 0.00 0.00 0.00 4.30
496 537 2.476199 CCATTTCACCTCTCTCCCTCT 58.524 52.381 0.00 0.00 0.00 3.69
497 538 2.433970 CCATTTCACCTCTCTCCCTCTC 59.566 54.545 0.00 0.00 0.00 3.20
498 539 2.239681 TTTCACCTCTCTCCCTCTCC 57.760 55.000 0.00 0.00 0.00 3.71
499 540 0.336737 TTCACCTCTCTCCCTCTCCC 59.663 60.000 0.00 0.00 0.00 4.30
500 541 0.553862 TCACCTCTCTCCCTCTCCCT 60.554 60.000 0.00 0.00 0.00 4.20
501 542 0.106217 CACCTCTCTCCCTCTCCCTC 60.106 65.000 0.00 0.00 0.00 4.30
502 543 1.150536 CCTCTCTCCCTCTCCCTCG 59.849 68.421 0.00 0.00 0.00 4.63
503 544 1.528309 CTCTCTCCCTCTCCCTCGC 60.528 68.421 0.00 0.00 0.00 5.03
521 562 1.825281 GCCCTGCGCCATCTCTATCT 61.825 60.000 4.18 0.00 0.00 1.98
528 569 1.336332 CGCCATCTCTATCTTGGGACG 60.336 57.143 0.00 0.00 0.00 4.79
529 570 1.606737 GCCATCTCTATCTTGGGACGC 60.607 57.143 0.00 0.00 0.00 5.19
530 571 1.001406 CCATCTCTATCTTGGGACGCC 59.999 57.143 0.00 0.00 0.00 5.68
533 574 2.280186 CTATCTTGGGACGCCGGC 60.280 66.667 19.07 19.07 0.00 6.13
534 575 4.215742 TATCTTGGGACGCCGGCG 62.216 66.667 44.88 44.88 46.03 6.46
545 586 4.803426 GCCGGCGTCCTGAGACTG 62.803 72.222 12.58 0.00 41.16 3.51
546 587 3.062466 CCGGCGTCCTGAGACTGA 61.062 66.667 6.01 0.00 41.16 3.41
629 713 2.884207 GCCGCGAGTTCCTTACCG 60.884 66.667 8.23 0.00 0.00 4.02
680 764 1.376037 GCCAGGTTCTTCCTCGGTG 60.376 63.158 0.00 0.00 46.24 4.94
683 767 1.608283 CCAGGTTCTTCCTCGGTGAAC 60.608 57.143 12.53 12.53 46.24 3.18
694 778 2.135933 CTCGGTGAACTTCGCTTTCTT 58.864 47.619 2.43 0.00 0.00 2.52
695 779 1.864711 TCGGTGAACTTCGCTTTCTTG 59.135 47.619 2.43 0.00 0.00 3.02
711 795 5.174579 GCTTTCTTGATGTGCTCTGTTTTTC 59.825 40.000 0.00 0.00 0.00 2.29
714 798 4.276678 TCTTGATGTGCTCTGTTTTTCCTG 59.723 41.667 0.00 0.00 0.00 3.86
736 820 3.119291 CTCCGAATGTCATACTCTGCAC 58.881 50.000 0.00 0.00 0.00 4.57
743 827 4.558226 TGTCATACTCTGCACCTCATTT 57.442 40.909 0.00 0.00 0.00 2.32
763 854 9.217278 CTCATTTCGATATCATTTCTTCTGGAT 57.783 33.333 3.12 0.00 0.00 3.41
768 859 7.433680 TCGATATCATTTCTTCTGGATCGAAA 58.566 34.615 3.12 0.00 40.48 3.46
778 869 5.598417 TCTTCTGGATCGAAACCTCATATCA 59.402 40.000 12.11 0.00 0.00 2.15
779 870 6.268617 TCTTCTGGATCGAAACCTCATATCAT 59.731 38.462 12.11 0.00 0.00 2.45
780 871 7.451566 TCTTCTGGATCGAAACCTCATATCATA 59.548 37.037 12.11 0.00 0.00 2.15
781 872 7.724490 TCTGGATCGAAACCTCATATCATAT 57.276 36.000 12.11 0.00 0.00 1.78
783 874 8.253810 TCTGGATCGAAACCTCATATCATATTC 58.746 37.037 12.11 0.00 0.00 1.75
784 875 7.906327 TGGATCGAAACCTCATATCATATTCA 58.094 34.615 12.11 0.00 0.00 2.57
785 876 8.542926 TGGATCGAAACCTCATATCATATTCAT 58.457 33.333 12.11 0.00 0.00 2.57
808 899 8.094548 TCATATACATAGGTGCCTGTTAATGAC 58.905 37.037 0.12 0.00 0.00 3.06
814 905 7.499232 ACATAGGTGCCTGTTAATGACTAATTC 59.501 37.037 0.12 0.00 0.00 2.17
828 924 3.836949 ACTAATTCACTGCAATTTGGCG 58.163 40.909 0.00 0.00 36.28 5.69
844 940 3.918102 GCGCAAAGCCACCTATAAC 57.082 52.632 0.30 0.00 40.81 1.89
845 941 1.091537 GCGCAAAGCCACCTATAACA 58.908 50.000 0.30 0.00 40.81 2.41
846 942 1.676006 GCGCAAAGCCACCTATAACAT 59.324 47.619 0.30 0.00 40.81 2.71
847 943 2.099098 GCGCAAAGCCACCTATAACATT 59.901 45.455 0.30 0.00 40.81 2.71
865 961 5.375417 ACATTCATTCGTTCAGCAAATCA 57.625 34.783 0.00 0.00 0.00 2.57
867 963 4.424061 TTCATTCGTTCAGCAAATCAGG 57.576 40.909 0.00 0.00 0.00 3.86
868 964 3.673902 TCATTCGTTCAGCAAATCAGGA 58.326 40.909 0.00 0.00 0.00 3.86
869 965 3.436704 TCATTCGTTCAGCAAATCAGGAC 59.563 43.478 0.00 0.00 0.00 3.85
870 966 2.542020 TCGTTCAGCAAATCAGGACA 57.458 45.000 0.00 0.00 0.00 4.02
876 991 3.159472 TCAGCAAATCAGGACAGCAATT 58.841 40.909 0.00 0.00 0.00 2.32
897 1020 4.574674 TGGGCAGTCAGAATCAGTTTAT 57.425 40.909 0.00 0.00 0.00 1.40
912 1040 8.480643 AATCAGTTTATAAGTTTCTGTCCTCG 57.519 34.615 0.00 0.00 0.00 4.63
922 1050 3.896648 TTCTGTCCTCGTGCATTTTTC 57.103 42.857 0.00 0.00 0.00 2.29
925 1053 2.807967 CTGTCCTCGTGCATTTTTCAGA 59.192 45.455 0.00 0.00 0.00 3.27
926 1054 3.411446 TGTCCTCGTGCATTTTTCAGAT 58.589 40.909 0.00 0.00 0.00 2.90
928 1056 5.000591 TGTCCTCGTGCATTTTTCAGATAA 58.999 37.500 0.00 0.00 0.00 1.75
929 1057 5.106712 TGTCCTCGTGCATTTTTCAGATAAC 60.107 40.000 0.00 0.00 0.00 1.89
931 1059 5.122239 TCCTCGTGCATTTTTCAGATAACAG 59.878 40.000 0.00 0.00 0.00 3.16
932 1060 5.122239 CCTCGTGCATTTTTCAGATAACAGA 59.878 40.000 0.00 0.00 0.00 3.41
1035 1168 2.999928 TCCTCTAGTTTCCAGGGGTTT 58.000 47.619 0.00 0.00 34.97 3.27
1074 1207 2.107141 GCGGTGCTTATCGGAGCT 59.893 61.111 0.00 0.00 43.11 4.09
1327 1464 3.199677 GTTTATGGTGCCTGTATACGCA 58.800 45.455 1.76 1.76 0.00 5.24
1617 1761 3.482156 TGCCTGCCTGAAGATTCTATC 57.518 47.619 0.00 0.00 0.00 2.08
1625 1769 6.197168 TGCCTGAAGATTCTATCCCATTTTT 58.803 36.000 0.00 0.00 0.00 1.94
1837 1983 0.405585 ACCACAGGAATGGACCCAAG 59.594 55.000 0.00 0.00 43.02 3.61
1868 2014 6.585702 TGTGAGAAATCATTGTAAATTTGCCG 59.414 34.615 0.00 0.00 0.00 5.69
1952 2098 4.389687 CAGTGTTATGGAGCAAATTTTGGC 59.610 41.667 10.96 3.82 0.00 4.52
1997 2143 2.109774 CTCCAGCACCTCTCTGATTCT 58.890 52.381 0.00 0.00 33.54 2.40
2004 2150 3.306641 GCACCTCTCTGATTCTGTTGTCT 60.307 47.826 0.00 0.00 0.00 3.41
2207 2360 0.758734 CGATCCTAATGCACTGGGGA 59.241 55.000 0.00 0.00 0.00 4.81
2221 2374 2.431057 ACTGGGGAAGAGCTTATACACG 59.569 50.000 0.00 0.00 0.00 4.49
2293 2448 4.008074 TCTCACCTGAAACTGGTCAATC 57.992 45.455 0.00 0.00 33.44 2.67
2310 2465 5.458015 GTCAATCACGACGTGGATGATATA 58.542 41.667 27.28 10.86 33.71 0.86
2319 2474 5.449314 CGACGTGGATGATATATCCTTCCTC 60.449 48.000 22.72 19.57 38.95 3.71
2324 2479 6.876257 GTGGATGATATATCCTTCCTCAACAC 59.124 42.308 22.72 13.74 38.95 3.32
2325 2480 6.102663 GGATGATATATCCTTCCTCAACACG 58.897 44.000 18.23 0.00 35.36 4.49
2341 2497 6.758416 CCTCAACACGATTTCAGATGATTCTA 59.242 38.462 0.00 0.00 0.00 2.10
2348 2504 8.113062 CACGATTTCAGATGATTCTAAAGACAC 58.887 37.037 0.00 0.00 0.00 3.67
2525 2681 3.261897 AGCTGATAGGTGCAGTGTACTTT 59.738 43.478 11.32 3.12 35.81 2.66
2546 2702 7.224297 ACTTTTACACATTAGAGAAGCTTGGA 58.776 34.615 2.10 0.00 0.00 3.53
2549 2705 5.234466 ACACATTAGAGAAGCTTGGAACT 57.766 39.130 2.10 0.00 0.00 3.01
2551 2707 6.769512 ACACATTAGAGAAGCTTGGAACTTA 58.230 36.000 2.10 0.00 0.00 2.24
2586 2742 9.429109 AAAAGATTACCTTCAAAAGTTAGGGAA 57.571 29.630 0.00 0.00 36.36 3.97
2600 2756 6.128138 AGTTAGGGAAAGAACATTAGCAGT 57.872 37.500 0.00 0.00 0.00 4.40
2609 2765 9.331282 GGAAAGAACATTAGCAGTCACTATTAT 57.669 33.333 0.00 0.00 0.00 1.28
2629 2785 7.787725 ATTATGAAAATCCGAGTACTTCCAC 57.212 36.000 0.00 0.00 0.00 4.02
2645 2801 8.537016 AGTACTTCCACTATGCATTTAACTACA 58.463 33.333 3.54 0.00 0.00 2.74
2716 2875 3.055094 ACCCTTACATCGCTCTTGTCATT 60.055 43.478 0.00 0.00 0.00 2.57
2764 2923 7.699566 TGTACTGTCTGGTGAAATTTTACAAC 58.300 34.615 14.30 9.56 0.00 3.32
2782 2941 1.890876 ACGCAACACATGAAAGGCTA 58.109 45.000 0.00 0.00 0.00 3.93
2963 3122 6.093495 CGAGGTAAATAGGCAAATCTTGTGAA 59.907 38.462 0.00 0.00 0.00 3.18
2975 3134 7.063074 GGCAAATCTTGTGAATTTGATTGAGAG 59.937 37.037 11.62 0.00 37.44 3.20
3082 3241 2.584608 GTGGAGCCGTACCAGCAT 59.415 61.111 5.42 0.00 38.14 3.79
3120 3279 4.436998 GCACGAGGAGGTGACCCG 62.437 72.222 0.00 0.00 40.38 5.28
3140 3299 3.786635 CGTGAGGAGAGTAAAATGGAGG 58.213 50.000 0.00 0.00 0.00 4.30
3144 3303 4.223032 TGAGGAGAGTAAAATGGAGGTGAC 59.777 45.833 0.00 0.00 0.00 3.67
3155 3314 1.218316 GAGGTGACGGTGGATGTCC 59.782 63.158 0.00 0.00 35.46 4.02
3167 3326 1.683790 GGATGTCCACGACGAAAGCG 61.684 60.000 0.00 0.00 38.71 4.68
3442 3605 2.200955 GGGAAGATCCAGGAGACCTTT 58.799 52.381 0.00 0.00 38.64 3.11
3445 3608 3.457749 GGAAGATCCAGGAGACCTTTCAT 59.542 47.826 0.00 0.00 36.28 2.57
3476 3639 0.322906 GAAGCCAGGGGACAAGAAGG 60.323 60.000 0.00 0.00 0.00 3.46
3501 3664 3.062466 CGTCGAGGTGGAGGAGCA 61.062 66.667 0.00 0.00 0.00 4.26
3532 3695 0.250295 ATGTGGTGGACAACGGTGAG 60.250 55.000 7.88 0.00 38.36 3.51
3538 3701 1.227853 GGACAACGGTGAGGCTGTT 60.228 57.895 7.88 0.00 46.91 3.16
3559 3722 2.577059 GTCGATGCGGAGGTGGAA 59.423 61.111 0.00 0.00 0.00 3.53
3577 3740 3.699038 TGGAAGTTGAAACAAGGGTGAAG 59.301 43.478 0.00 0.00 0.00 3.02
3584 3747 3.053991 TGAAACAAGGGTGAAGGACAAGA 60.054 43.478 0.00 0.00 0.00 3.02
3619 3782 3.777465 TCTACGGAGAGGTTGAAATCG 57.223 47.619 0.00 0.00 0.00 3.34
3676 3839 2.158813 GGAACTGGTCCTTGAGAACACA 60.159 50.000 3.98 0.00 43.98 3.72
3689 3858 0.942410 GAACACAGTACGCTTCCGCA 60.942 55.000 0.00 0.00 38.22 5.69
3717 3886 6.313411 TCGAAAAAGGAAACTGAGTAAAACGA 59.687 34.615 0.00 0.00 42.68 3.85
3723 3895 6.464222 AGGAAACTGAGTAAAACGATGATGA 58.536 36.000 0.00 0.00 41.13 2.92
3726 3898 8.879759 GGAAACTGAGTAAAACGATGATGAATA 58.120 33.333 0.00 0.00 0.00 1.75
3729 3901 8.370493 ACTGAGTAAAACGATGATGAATATGG 57.630 34.615 0.00 0.00 0.00 2.74
3790 3962 4.569719 AACTAGTGGTTGGATGGTTAGG 57.430 45.455 0.00 0.00 36.70 2.69
3791 3963 3.798515 ACTAGTGGTTGGATGGTTAGGA 58.201 45.455 0.00 0.00 0.00 2.94
3792 3964 4.172807 ACTAGTGGTTGGATGGTTAGGAA 58.827 43.478 0.00 0.00 0.00 3.36
3793 3965 4.788617 ACTAGTGGTTGGATGGTTAGGAAT 59.211 41.667 0.00 0.00 0.00 3.01
3794 3966 4.675063 AGTGGTTGGATGGTTAGGAATT 57.325 40.909 0.00 0.00 0.00 2.17
3795 3967 5.010708 AGTGGTTGGATGGTTAGGAATTT 57.989 39.130 0.00 0.00 0.00 1.82
3796 3968 5.402630 AGTGGTTGGATGGTTAGGAATTTT 58.597 37.500 0.00 0.00 0.00 1.82
3797 3969 5.480422 AGTGGTTGGATGGTTAGGAATTTTC 59.520 40.000 0.00 0.00 0.00 2.29
3798 3970 5.245075 GTGGTTGGATGGTTAGGAATTTTCA 59.755 40.000 0.00 0.00 0.00 2.69
3799 3971 6.022315 TGGTTGGATGGTTAGGAATTTTCAT 58.978 36.000 0.00 0.00 0.00 2.57
3800 3972 7.123547 GTGGTTGGATGGTTAGGAATTTTCATA 59.876 37.037 0.00 0.00 0.00 2.15
3801 3973 7.676043 TGGTTGGATGGTTAGGAATTTTCATAA 59.324 33.333 0.00 0.00 31.81 1.90
3821 3993 4.569719 AACTAACTAGGTGTTGGATGGG 57.430 45.455 0.00 0.00 39.15 4.00
3829 4001 0.546598 GTGTTGGATGGGTAGGAGGG 59.453 60.000 0.00 0.00 0.00 4.30
3838 4010 1.519246 GGTAGGAGGGCGGTTGTAC 59.481 63.158 0.00 0.00 0.00 2.90
3850 4022 2.527123 TTGTACCCCGGGCTCACA 60.527 61.111 17.73 15.49 0.00 3.58
3867 4039 1.194781 ACACAGGGATCAAGCCTCGT 61.195 55.000 0.00 0.00 0.00 4.18
3883 4055 2.267426 CTCGTGTCGATATTGTTGCCA 58.733 47.619 0.00 0.00 34.61 4.92
3970 4142 2.433868 TGCTACGTGTCTTTGGTCTC 57.566 50.000 0.00 0.00 0.00 3.36
3987 4159 0.879765 CTCTGCTTTCCCTGCACAAG 59.120 55.000 0.00 0.00 36.37 3.16
4021 4193 9.391227 AGTTCCTTTGATCATATATTCTCTCCT 57.609 33.333 0.00 0.00 0.00 3.69
4237 4426 4.154918 GTGGCAAAGACTAATCCAAGTCAG 59.845 45.833 6.76 0.00 46.89 3.51
4281 4472 0.615331 GAGACCCATCAGTCAGCCAA 59.385 55.000 0.00 0.00 39.34 4.52
4562 6858 2.526545 GCTAAGCAGCTAGATGGCG 58.473 57.895 10.52 0.00 44.93 5.69
4595 6891 2.172505 CCATGGTCCCAATACAGTGCTA 59.827 50.000 2.57 0.00 0.00 3.49
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.043200 GGCTGTTGCGGAAGGTGC 62.043 66.667 0.00 0.00 40.82 5.01
1 2 2.281761 AGGCTGTTGCGGAAGGTG 60.282 61.111 0.00 0.00 40.82 4.00
2 3 2.281761 CAGGCTGTTGCGGAAGGT 60.282 61.111 6.28 0.00 40.82 3.50
3 4 3.741476 GCAGGCTGTTGCGGAAGG 61.741 66.667 17.16 0.00 40.82 3.46
9 10 1.138247 GCACATAGCAGGCTGTTGC 59.862 57.895 17.16 12.84 44.79 4.17
19 20 8.822652 TGCTCATATATATACATGCACATAGC 57.177 34.615 9.79 5.21 45.96 2.97
22 23 9.490379 CAGATGCTCATATATATACATGCACAT 57.510 33.333 13.87 7.78 31.92 3.21
23 24 7.440255 GCAGATGCTCATATATATACATGCACA 59.560 37.037 13.87 0.00 38.21 4.57
24 25 7.359014 CGCAGATGCTCATATATATACATGCAC 60.359 40.741 13.87 9.96 39.32 4.57
28 29 8.175925 AGACGCAGATGCTCATATATATACAT 57.824 34.615 2.95 0.40 39.32 2.29
40 41 1.403679 ACAGTAGAGACGCAGATGCTC 59.596 52.381 2.95 0.27 39.32 4.26
44 45 5.386958 TTTAACACAGTAGAGACGCAGAT 57.613 39.130 0.00 0.00 0.00 2.90
46 47 5.900339 TTTTTAACACAGTAGAGACGCAG 57.100 39.130 0.00 0.00 0.00 5.18
105 111 3.978687 TCTCTTCGTCAGTCAAAACCTC 58.021 45.455 0.00 0.00 0.00 3.85
117 123 1.468395 CGCTTCCCTCTTCTCTTCGTC 60.468 57.143 0.00 0.00 0.00 4.20
118 124 0.528470 CGCTTCCCTCTTCTCTTCGT 59.472 55.000 0.00 0.00 0.00 3.85
170 176 3.160269 CCATGTGCTTCCCTTTCTTTCT 58.840 45.455 0.00 0.00 0.00 2.52
171 177 3.157087 TCCATGTGCTTCCCTTTCTTTC 58.843 45.455 0.00 0.00 0.00 2.62
172 178 3.160269 CTCCATGTGCTTCCCTTTCTTT 58.840 45.455 0.00 0.00 0.00 2.52
173 179 2.800250 CTCCATGTGCTTCCCTTTCTT 58.200 47.619 0.00 0.00 0.00 2.52
179 185 1.751927 CCTGCTCCATGTGCTTCCC 60.752 63.158 8.95 0.00 0.00 3.97
215 223 4.353437 GTGGTCGGACGCTTCGGT 62.353 66.667 1.43 0.00 0.00 4.69
253 261 2.437281 AGAACCATCTGATTCATCCGCT 59.563 45.455 0.00 0.00 33.59 5.52
463 504 4.141251 AGGTGAAATGGGTAACTCAACTGT 60.141 41.667 0.00 0.00 34.57 3.55
464 505 4.398319 AGGTGAAATGGGTAACTCAACTG 58.602 43.478 0.00 0.00 34.57 3.16
466 507 4.652822 AGAGGTGAAATGGGTAACTCAAC 58.347 43.478 0.00 0.00 0.00 3.18
467 508 4.597507 AGAGAGGTGAAATGGGTAACTCAA 59.402 41.667 0.00 0.00 0.00 3.02
472 513 2.844348 GGGAGAGAGGTGAAATGGGTAA 59.156 50.000 0.00 0.00 0.00 2.85
477 518 2.433970 GGAGAGGGAGAGAGGTGAAATG 59.566 54.545 0.00 0.00 0.00 2.32
479 520 1.273324 GGGAGAGGGAGAGAGGTGAAA 60.273 57.143 0.00 0.00 0.00 2.69
484 525 1.150536 CGAGGGAGAGGGAGAGAGG 59.849 68.421 0.00 0.00 0.00 3.69
490 531 4.465446 CAGGGCGAGGGAGAGGGA 62.465 72.222 0.00 0.00 0.00 4.20
502 543 1.375268 GATAGAGATGGCGCAGGGC 60.375 63.158 10.83 0.00 42.51 5.19
503 544 0.683973 AAGATAGAGATGGCGCAGGG 59.316 55.000 10.83 0.00 0.00 4.45
528 569 4.803426 CAGTCTCAGGACGCCGGC 62.803 72.222 19.07 19.07 46.29 6.13
529 570 3.057547 CTCAGTCTCAGGACGCCGG 62.058 68.421 0.00 0.00 46.29 6.13
530 571 2.487428 CTCAGTCTCAGGACGCCG 59.513 66.667 0.00 0.00 46.29 6.46
533 574 0.884514 TCAAGCTCAGTCTCAGGACG 59.115 55.000 0.00 0.00 46.29 4.79
534 575 1.204467 CCTCAAGCTCAGTCTCAGGAC 59.796 57.143 0.00 0.00 42.41 3.85
535 576 1.554836 CCTCAAGCTCAGTCTCAGGA 58.445 55.000 0.00 0.00 0.00 3.86
536 577 0.536260 CCCTCAAGCTCAGTCTCAGG 59.464 60.000 0.00 0.00 0.00 3.86
537 578 0.108233 GCCCTCAAGCTCAGTCTCAG 60.108 60.000 0.00 0.00 0.00 3.35
538 579 1.881903 CGCCCTCAAGCTCAGTCTCA 61.882 60.000 0.00 0.00 0.00 3.27
539 580 1.153667 CGCCCTCAAGCTCAGTCTC 60.154 63.158 0.00 0.00 0.00 3.36
540 581 2.977178 CGCCCTCAAGCTCAGTCT 59.023 61.111 0.00 0.00 0.00 3.24
542 583 4.749310 CGCGCCCTCAAGCTCAGT 62.749 66.667 0.00 0.00 0.00 3.41
571 638 2.027625 CTTGCCGTCGAAGTCACCC 61.028 63.158 0.00 0.00 0.00 4.61
651 735 0.951040 GAACCTGGCAGACAGTTCCG 60.951 60.000 17.94 0.00 46.06 4.30
680 764 3.058639 AGCACATCAAGAAAGCGAAGTTC 60.059 43.478 0.00 0.00 0.00 3.01
683 767 2.740981 AGAGCACATCAAGAAAGCGAAG 59.259 45.455 0.00 0.00 0.00 3.79
694 778 2.294233 GCAGGAAAAACAGAGCACATCA 59.706 45.455 0.00 0.00 0.00 3.07
695 779 2.555757 AGCAGGAAAAACAGAGCACATC 59.444 45.455 0.00 0.00 0.00 3.06
711 795 2.363680 AGAGTATGACATTCGGAGCAGG 59.636 50.000 0.00 0.00 0.00 4.85
714 798 2.131183 GCAGAGTATGACATTCGGAGC 58.869 52.381 0.00 0.00 0.00 4.70
736 820 7.658982 TCCAGAAGAAATGATATCGAAATGAGG 59.341 37.037 0.00 0.00 0.00 3.86
743 827 6.575162 TCGATCCAGAAGAAATGATATCGA 57.425 37.500 0.00 0.00 38.68 3.59
780 871 9.453572 CATTAACAGGCACCTATGTATATGAAT 57.546 33.333 0.00 0.00 0.00 2.57
781 872 8.655901 TCATTAACAGGCACCTATGTATATGAA 58.344 33.333 0.00 0.00 31.71 2.57
783 874 8.097038 AGTCATTAACAGGCACCTATGTATATG 58.903 37.037 0.00 0.00 0.00 1.78
784 875 8.207350 AGTCATTAACAGGCACCTATGTATAT 57.793 34.615 0.00 0.00 0.00 0.86
785 876 7.612065 AGTCATTAACAGGCACCTATGTATA 57.388 36.000 0.00 0.00 0.00 1.47
786 877 6.500589 AGTCATTAACAGGCACCTATGTAT 57.499 37.500 0.00 0.00 0.00 2.29
787 878 5.950544 AGTCATTAACAGGCACCTATGTA 57.049 39.130 0.00 0.00 0.00 2.29
788 879 4.844349 AGTCATTAACAGGCACCTATGT 57.156 40.909 0.00 0.00 0.00 2.29
789 880 7.498900 TGAATTAGTCATTAACAGGCACCTATG 59.501 37.037 0.00 0.00 0.00 2.23
790 881 7.499232 GTGAATTAGTCATTAACAGGCACCTAT 59.501 37.037 0.00 0.00 38.90 2.57
791 882 6.821665 GTGAATTAGTCATTAACAGGCACCTA 59.178 38.462 0.00 0.00 38.90 3.08
792 883 5.648092 GTGAATTAGTCATTAACAGGCACCT 59.352 40.000 0.00 0.00 38.90 4.00
793 884 5.648092 AGTGAATTAGTCATTAACAGGCACC 59.352 40.000 0.00 0.00 38.90 5.01
794 885 6.546395 CAGTGAATTAGTCATTAACAGGCAC 58.454 40.000 0.00 0.00 38.90 5.01
795 886 5.123820 GCAGTGAATTAGTCATTAACAGGCA 59.876 40.000 0.00 0.00 38.90 4.75
796 887 5.123820 TGCAGTGAATTAGTCATTAACAGGC 59.876 40.000 0.00 0.00 38.90 4.85
797 888 6.741992 TGCAGTGAATTAGTCATTAACAGG 57.258 37.500 0.00 0.00 38.90 4.00
798 889 9.630098 AAATTGCAGTGAATTAGTCATTAACAG 57.370 29.630 0.00 0.00 38.90 3.16
799 890 9.409312 CAAATTGCAGTGAATTAGTCATTAACA 57.591 29.630 0.00 0.00 38.90 2.41
800 891 8.863049 CCAAATTGCAGTGAATTAGTCATTAAC 58.137 33.333 0.00 0.00 38.90 2.01
804 895 5.413499 GCCAAATTGCAGTGAATTAGTCAT 58.587 37.500 0.00 0.00 38.90 3.06
808 899 2.599973 GCGCCAAATTGCAGTGAATTAG 59.400 45.455 0.00 0.00 0.00 1.73
814 905 0.509499 CTTTGCGCCAAATTGCAGTG 59.491 50.000 4.18 0.00 42.89 3.66
828 924 4.981806 TGAATGTTATAGGTGGCTTTGC 57.018 40.909 0.00 0.00 0.00 3.68
842 938 5.771469 TGATTTGCTGAACGAATGAATGTT 58.229 33.333 0.00 0.00 32.10 2.71
843 939 5.375417 TGATTTGCTGAACGAATGAATGT 57.625 34.783 0.00 0.00 32.10 2.71
844 940 4.796830 CCTGATTTGCTGAACGAATGAATG 59.203 41.667 0.00 0.00 32.10 2.67
845 941 4.701651 TCCTGATTTGCTGAACGAATGAAT 59.298 37.500 0.00 0.00 32.10 2.57
846 942 4.071423 TCCTGATTTGCTGAACGAATGAA 58.929 39.130 0.00 0.00 32.10 2.57
847 943 3.436704 GTCCTGATTTGCTGAACGAATGA 59.563 43.478 0.00 0.00 32.10 2.57
865 961 1.462035 ACTGCCCAATTGCTGTCCT 59.538 52.632 0.00 0.00 38.85 3.85
868 964 0.111061 TCTGACTGCCCAATTGCTGT 59.889 50.000 0.00 0.00 44.72 4.40
869 965 1.250328 TTCTGACTGCCCAATTGCTG 58.750 50.000 0.00 0.00 36.39 4.41
870 966 2.097825 GATTCTGACTGCCCAATTGCT 58.902 47.619 0.00 0.00 0.00 3.91
876 991 2.957402 AAACTGATTCTGACTGCCCA 57.043 45.000 0.00 0.00 0.00 5.36
897 1020 3.678056 ATGCACGAGGACAGAAACTTA 57.322 42.857 0.00 0.00 0.00 2.24
906 1029 5.106712 TGTTATCTGAAAAATGCACGAGGAC 60.107 40.000 0.00 0.00 0.00 3.85
912 1040 8.239314 TCAGAATCTGTTATCTGAAAAATGCAC 58.761 33.333 10.36 0.00 46.67 4.57
1035 1168 1.061546 GGGTGTGGAGGTTCCTGTAA 58.938 55.000 0.00 0.00 37.46 2.41
1065 1198 1.813859 CACGAACCCAGCTCCGATA 59.186 57.895 0.00 0.00 0.00 2.92
1327 1464 5.189180 GGGCTCAAACTTACAGATTCAGAT 58.811 41.667 0.00 0.00 0.00 2.90
1477 1620 8.571461 TTTGATATGAAAATGAGAGAAGCTGT 57.429 30.769 0.00 0.00 0.00 4.40
1547 1691 9.802039 ATGATAAGGTGGTTTTTCTTACAAGTA 57.198 29.630 0.00 0.00 0.00 2.24
1617 1761 8.531146 AGGTCAACAGTTCAATATAAAAATGGG 58.469 33.333 3.47 0.00 0.00 4.00
1675 1821 5.707298 CACAGCGATATTATCTGGGGAAAAT 59.293 40.000 2.36 0.00 32.42 1.82
1876 2022 5.679382 GCAATGTCCATGCAATTTACTGCTA 60.679 40.000 0.00 0.00 43.07 3.49
1927 2073 3.492421 AATTTGCTCCATAACACTGCG 57.508 42.857 0.00 0.00 0.00 5.18
1932 2078 4.888326 AGCCAAAATTTGCTCCATAACA 57.112 36.364 0.00 0.00 30.33 2.41
1969 2115 4.633565 CAGAGAGGTGCTGGAGTTAATTTC 59.366 45.833 0.00 0.00 0.00 2.17
1979 2125 1.554160 ACAGAATCAGAGAGGTGCTGG 59.446 52.381 0.00 0.00 34.20 4.85
2053 2206 1.348036 CGTTCTCCCCCTGAAAGAGTT 59.652 52.381 0.00 0.00 34.07 3.01
2174 2327 0.097150 GGATCGCAAAAGAAGTCGCC 59.903 55.000 0.00 0.00 0.00 5.54
2221 2374 5.587289 TGCACAAGGCCGAATTTTATAATC 58.413 37.500 0.00 0.00 43.89 1.75
2293 2448 4.703645 AGGATATATCATCCACGTCGTG 57.296 45.455 18.54 18.54 40.61 4.35
2310 2465 4.020218 TCTGAAATCGTGTTGAGGAAGGAT 60.020 41.667 0.00 0.00 0.00 3.24
2319 2474 8.659491 TCTTTAGAATCATCTGAAATCGTGTTG 58.341 33.333 0.00 0.00 37.10 3.33
2324 2479 8.417780 AGTGTCTTTAGAATCATCTGAAATCG 57.582 34.615 0.00 0.00 37.10 3.34
2325 2480 9.598517 AGAGTGTCTTTAGAATCATCTGAAATC 57.401 33.333 0.00 0.00 37.10 2.17
2341 2497 3.629398 CCAAGAAAGCACAGAGTGTCTTT 59.371 43.478 14.66 14.66 40.03 2.52
2348 2504 2.555325 TGAATGCCAAGAAAGCACAGAG 59.445 45.455 0.00 0.00 44.40 3.35
2525 2681 6.769512 AGTTCCAAGCTTCTCTAATGTGTAA 58.230 36.000 0.00 0.00 0.00 2.41
2586 2742 9.890629 TTCATAATAGTGACTGCTAATGTTCTT 57.109 29.630 0.00 0.00 0.00 2.52
2600 2756 9.745880 GAAGTACTCGGATTTTCATAATAGTGA 57.254 33.333 0.00 0.00 0.00 3.41
2609 2765 4.884668 AGTGGAAGTACTCGGATTTTCA 57.115 40.909 0.00 0.00 0.00 2.69
2629 2785 6.752351 ACGAGTCACTGTAGTTAAATGCATAG 59.248 38.462 0.00 0.00 0.00 2.23
2716 2875 2.378038 GCCCATGTCTGGCTGAAATTA 58.622 47.619 4.37 0.00 45.70 1.40
2764 2923 1.535028 TGTAGCCTTTCATGTGTTGCG 59.465 47.619 0.00 0.00 0.00 4.85
2797 2956 6.431234 CCTTGAAACTTATGAACTTGGCTAGT 59.569 38.462 0.00 0.00 39.32 2.57
2963 3122 3.958798 CCAAGGATGGCTCTCAATCAAAT 59.041 43.478 0.00 0.00 40.58 2.32
3108 3267 2.283966 CCTCACGGGTCACCTCCT 60.284 66.667 0.00 0.00 33.28 3.69
3120 3279 4.223032 TCACCTCCATTTTACTCTCCTCAC 59.777 45.833 0.00 0.00 0.00 3.51
3130 3289 1.979308 TCCACCGTCACCTCCATTTTA 59.021 47.619 0.00 0.00 0.00 1.52
3155 3314 2.018670 CGCATCGCTTTCGTCGTG 59.981 61.111 0.00 0.00 36.96 4.35
3157 3316 3.179265 ACCGCATCGCTTTCGTCG 61.179 61.111 0.00 0.00 36.96 5.12
3184 3343 3.558931 TTTGTCTCTTTCTGCTCCACA 57.441 42.857 0.00 0.00 0.00 4.17
3193 3352 5.760253 TGGAGTCTTGACATTTGTCTCTTTC 59.240 40.000 11.67 4.07 44.99 2.62
3442 3605 1.008875 GCTTCAGCGACACGTGATGA 61.009 55.000 25.01 16.64 0.00 2.92
3445 3608 2.355837 GGCTTCAGCGACACGTGA 60.356 61.111 25.01 0.00 43.26 4.35
3476 3639 2.126580 CACCTCGACGTCGGGTTC 60.127 66.667 33.99 4.19 39.62 3.62
3532 3695 4.166011 GCATCGACCGCAACAGCC 62.166 66.667 3.85 0.00 0.00 4.85
3559 3722 3.288092 GTCCTTCACCCTTGTTTCAACT 58.712 45.455 0.00 0.00 0.00 3.16
3577 3740 2.109126 GCCACCATCGCTCTTGTCC 61.109 63.158 0.00 0.00 0.00 4.02
3584 3747 0.249489 GTAGATTCGCCACCATCGCT 60.249 55.000 0.00 0.00 0.00 4.93
3629 3792 7.665690 TCTTGCACTCCTCTTATTATCATCTC 58.334 38.462 0.00 0.00 0.00 2.75
3689 3858 9.297586 GTTTTACTCAGTTTCCTTTTTCGAATT 57.702 29.630 0.00 0.00 0.00 2.17
3717 3886 4.391683 TCATGGTGCCCATATTCATCAT 57.608 40.909 6.42 0.00 43.15 2.45
3723 3895 4.140947 ACTTGGTATCATGGTGCCCATATT 60.141 41.667 10.93 1.30 43.15 1.28
3726 3898 1.570501 ACTTGGTATCATGGTGCCCAT 59.429 47.619 10.93 1.21 46.37 4.00
3729 3901 2.128771 ACACTTGGTATCATGGTGCC 57.871 50.000 6.07 6.07 33.46 5.01
3745 3917 7.214467 TGGTTCTTGATTTTCAGGATAACAC 57.786 36.000 0.00 0.00 32.38 3.32
3778 3950 8.893563 AGTTATGAAAATTCCTAACCATCCAA 57.106 30.769 14.00 0.00 38.34 3.53
3779 3951 9.983024 TTAGTTATGAAAATTCCTAACCATCCA 57.017 29.630 14.00 0.00 38.34 3.41
3791 3963 9.802039 TCCAACACCTAGTTAGTTATGAAAATT 57.198 29.630 0.00 0.00 38.74 1.82
3792 3964 9.975218 ATCCAACACCTAGTTAGTTATGAAAAT 57.025 29.630 0.00 0.00 38.74 1.82
3793 3965 9.226606 CATCCAACACCTAGTTAGTTATGAAAA 57.773 33.333 0.00 0.00 38.74 2.29
3794 3966 7.827236 CCATCCAACACCTAGTTAGTTATGAAA 59.173 37.037 0.00 0.00 38.74 2.69
3795 3967 7.335627 CCATCCAACACCTAGTTAGTTATGAA 58.664 38.462 0.00 0.00 38.74 2.57
3796 3968 6.126883 CCCATCCAACACCTAGTTAGTTATGA 60.127 42.308 0.00 0.00 38.74 2.15
3797 3969 6.055588 CCCATCCAACACCTAGTTAGTTATG 58.944 44.000 0.00 0.00 38.74 1.90
3798 3970 5.729718 ACCCATCCAACACCTAGTTAGTTAT 59.270 40.000 0.00 0.00 38.74 1.89
3799 3971 5.095809 ACCCATCCAACACCTAGTTAGTTA 58.904 41.667 0.00 0.00 38.74 2.24
3800 3972 3.914435 ACCCATCCAACACCTAGTTAGTT 59.086 43.478 0.00 0.00 38.74 2.24
3801 3973 3.527937 ACCCATCCAACACCTAGTTAGT 58.472 45.455 0.00 0.00 38.74 2.24
3802 3974 4.101119 CCTACCCATCCAACACCTAGTTAG 59.899 50.000 0.00 0.00 38.74 2.34
3803 3975 4.035112 CCTACCCATCCAACACCTAGTTA 58.965 47.826 0.00 0.00 38.74 2.24
3804 3976 2.844348 CCTACCCATCCAACACCTAGTT 59.156 50.000 0.00 0.00 42.42 2.24
3805 3977 2.045326 TCCTACCCATCCAACACCTAGT 59.955 50.000 0.00 0.00 0.00 2.57
3806 3978 2.700897 CTCCTACCCATCCAACACCTAG 59.299 54.545 0.00 0.00 0.00 3.02
3807 3979 2.628559 CCTCCTACCCATCCAACACCTA 60.629 54.545 0.00 0.00 0.00 3.08
3808 3980 1.584724 CTCCTACCCATCCAACACCT 58.415 55.000 0.00 0.00 0.00 4.00
3809 3981 0.546598 CCTCCTACCCATCCAACACC 59.453 60.000 0.00 0.00 0.00 4.16
3810 3982 0.546598 CCCTCCTACCCATCCAACAC 59.453 60.000 0.00 0.00 0.00 3.32
3811 3983 1.279025 GCCCTCCTACCCATCCAACA 61.279 60.000 0.00 0.00 0.00 3.33
3812 3984 1.532238 GCCCTCCTACCCATCCAAC 59.468 63.158 0.00 0.00 0.00 3.77
3813 3985 2.070039 CGCCCTCCTACCCATCCAA 61.070 63.158 0.00 0.00 0.00 3.53
3821 3993 1.519246 GGTACAACCGCCCTCCTAC 59.481 63.158 0.00 0.00 0.00 3.18
3850 4022 1.194781 ACACGAGGCTTGATCCCTGT 61.195 55.000 9.20 0.00 31.41 4.00
3901 4073 1.881973 GCTTCATGGCTTCAACACTCA 59.118 47.619 0.00 0.00 0.00 3.41
3970 4142 1.537202 GTACTTGTGCAGGGAAAGCAG 59.463 52.381 0.00 0.00 43.63 4.24
4020 4192 5.138125 ACATTACAACATTGCCTCCAAAG 57.862 39.130 0.00 0.00 34.05 2.77
4021 4193 5.772672 ACTACATTACAACATTGCCTCCAAA 59.227 36.000 0.00 0.00 34.05 3.28
4022 4194 5.182950 CACTACATTACAACATTGCCTCCAA 59.817 40.000 0.00 0.00 35.01 3.53
4024 4196 4.941263 TCACTACATTACAACATTGCCTCC 59.059 41.667 0.00 0.00 0.00 4.30
4028 4207 9.840427 AAATAACTCACTACATTACAACATTGC 57.160 29.630 0.00 0.00 0.00 3.56
4499 6795 2.124983 GCTCATGCAAGCCCGAGA 60.125 61.111 10.82 0.00 39.41 4.04



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

AutoCloner maintained by Alex Coulton.