Multiple sequence alignment - TraesCS4B01G361500

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 TraesCS4B01G361500 chr4B 100.000 4814 0 0 1 4814 650881029 650885842 0.000000e+00 8890.0
1 TraesCS4B01G361500 chr4B 87.632 663 37 18 1 650 5173377 5174007 0.000000e+00 728.0
2 TraesCS4B01G361500 chr4B 96.386 83 3 0 4395 4477 44252106 44252024 2.340000e-28 137.0
3 TraesCS4B01G361500 chr4B 96.386 83 3 0 4395 4477 116796940 116797022 2.340000e-28 137.0
4 TraesCS4B01G361500 chr4B 96.386 83 3 0 4395 4477 421804423 421804341 2.340000e-28 137.0
5 TraesCS4B01G361500 chr4B 96.386 83 3 0 4395 4477 508232073 508232155 2.340000e-28 137.0
6 TraesCS4B01G361500 chr4B 96.386 83 3 0 4395 4477 511105764 511105682 2.340000e-28 137.0
7 TraesCS4B01G361500 chr4B 100.000 45 0 0 4768 4812 650885675 650885719 3.090000e-12 84.2
8 TraesCS4B01G361500 chr4B 100.000 45 0 0 4647 4691 650885796 650885840 3.090000e-12 84.2
9 TraesCS4B01G361500 chr4D 93.349 3729 210 15 690 4405 504261884 504265587 0.000000e+00 5478.0
10 TraesCS4B01G361500 chr4D 98.498 333 4 1 4482 4814 504265585 504265916 1.930000e-163 586.0
11 TraesCS4B01G361500 chr4D 89.941 338 25 8 325 657 740925 740592 1.240000e-115 427.0
12 TraesCS4B01G361500 chr4D 100.000 45 0 0 4768 4812 504265749 504265793 3.090000e-12 84.2
13 TraesCS4B01G361500 chr4D 97.778 45 1 0 4647 4691 504265870 504265914 1.440000e-10 78.7
14 TraesCS4B01G361500 chr4D 100.000 28 0 0 4372 4399 504265587 504265614 9.000000e-03 52.8
15 TraesCS4B01G361500 chr5A 88.359 2706 198 50 1655 4320 688936477 688939105 0.000000e+00 3144.0
16 TraesCS4B01G361500 chr5A 89.925 665 52 11 690 1350 688935828 688936481 0.000000e+00 843.0
17 TraesCS4B01G361500 chr5A 77.567 263 36 6 4571 4814 688939249 688939507 2.340000e-28 137.0
18 TraesCS4B01G361500 chr5A 97.826 46 1 0 4769 4814 688939326 688939371 3.990000e-11 80.5
19 TraesCS4B01G361500 chr5A 100.000 28 0 0 852 879 688935852 688935879 9.000000e-03 52.8
20 TraesCS4B01G361500 chr2B 92.436 661 38 6 1 650 756569815 756569156 0.000000e+00 933.0
21 TraesCS4B01G361500 chr7A 89.072 668 55 13 1 655 547108608 547107946 0.000000e+00 813.0
22 TraesCS4B01G361500 chr7A 88.042 669 66 11 1 657 646084692 646084026 0.000000e+00 780.0
23 TraesCS4B01G361500 chr1D 88.244 672 56 17 1 657 270634947 270635610 0.000000e+00 782.0
24 TraesCS4B01G361500 chr5B 87.500 672 66 13 1 657 471383071 471383739 0.000000e+00 760.0
25 TraesCS4B01G361500 chr5B 90.432 533 42 8 34 562 457985295 457985822 0.000000e+00 693.0
26 TraesCS4B01G361500 chr5B 100.000 28 0 0 664 691 349377306 349377333 9.000000e-03 52.8
27 TraesCS4B01G361500 chr4A 87.519 673 65 16 1 657 702725773 702725104 0.000000e+00 760.0
28 TraesCS4B01G361500 chr4A 86.000 250 31 4 410 657 728346642 728346889 1.030000e-66 265.0
29 TraesCS4B01G361500 chr6D 87.556 675 58 21 1 657 441373570 441372904 0.000000e+00 758.0
30 TraesCS4B01G361500 chr6D 77.249 189 43 0 2746 2934 463848893 463849081 1.420000e-20 111.0
31 TraesCS4B01G361500 chr2A 87.860 659 59 14 1 639 20506359 20507016 0.000000e+00 754.0
32 TraesCS4B01G361500 chr6A 87.481 671 59 14 1 655 419773477 419772816 0.000000e+00 750.0
33 TraesCS4B01G361500 chrUn 86.736 671 71 12 1 657 263450797 263450131 0.000000e+00 730.0
34 TraesCS4B01G361500 chrUn 86.822 645 67 8 27 657 434583449 434584089 0.000000e+00 704.0
35 TraesCS4B01G361500 chrUn 89.091 110 4 6 4400 4503 35713252 35713359 3.910000e-26 130.0
36 TraesCS4B01G361500 chr1A 83.568 639 82 19 34 654 549617119 549617752 1.160000e-160 577.0
37 TraesCS4B01G361500 chr7B 97.590 83 2 0 4395 4477 689651743 689651825 5.020000e-30 143.0
38 TraesCS4B01G361500 chr6B 94.382 89 5 0 4389 4477 3836171 3836083 2.340000e-28 137.0
39 TraesCS4B01G361500 chr1B 96.386 83 3 0 4395 4477 407261547 407261629 2.340000e-28 137.0


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 TraesCS4B01G361500 chr4B 650881029 650885842 4813 False 3019.466667 8890 100.0000 1 4814 3 chr4B.!!$F4 4813
1 TraesCS4B01G361500 chr4B 5173377 5174007 630 False 728.000000 728 87.6320 1 650 1 chr4B.!!$F1 649
2 TraesCS4B01G361500 chr4D 504261884 504265916 4032 False 1255.940000 5478 97.9250 690 4814 5 chr4D.!!$F1 4124
3 TraesCS4B01G361500 chr5A 688935828 688939507 3679 False 851.460000 3144 90.7354 690 4814 5 chr5A.!!$F1 4124
4 TraesCS4B01G361500 chr2B 756569156 756569815 659 True 933.000000 933 92.4360 1 650 1 chr2B.!!$R1 649
5 TraesCS4B01G361500 chr7A 547107946 547108608 662 True 813.000000 813 89.0720 1 655 1 chr7A.!!$R1 654
6 TraesCS4B01G361500 chr7A 646084026 646084692 666 True 780.000000 780 88.0420 1 657 1 chr7A.!!$R2 656
7 TraesCS4B01G361500 chr1D 270634947 270635610 663 False 782.000000 782 88.2440 1 657 1 chr1D.!!$F1 656
8 TraesCS4B01G361500 chr5B 471383071 471383739 668 False 760.000000 760 87.5000 1 657 1 chr5B.!!$F3 656
9 TraesCS4B01G361500 chr5B 457985295 457985822 527 False 693.000000 693 90.4320 34 562 1 chr5B.!!$F2 528
10 TraesCS4B01G361500 chr4A 702725104 702725773 669 True 760.000000 760 87.5190 1 657 1 chr4A.!!$R1 656
11 TraesCS4B01G361500 chr6D 441372904 441373570 666 True 758.000000 758 87.5560 1 657 1 chr6D.!!$R1 656
12 TraesCS4B01G361500 chr2A 20506359 20507016 657 False 754.000000 754 87.8600 1 639 1 chr2A.!!$F1 638
13 TraesCS4B01G361500 chr6A 419772816 419773477 661 True 750.000000 750 87.4810 1 655 1 chr6A.!!$R1 654
14 TraesCS4B01G361500 chrUn 263450131 263450797 666 True 730.000000 730 86.7360 1 657 1 chrUn.!!$R1 656
15 TraesCS4B01G361500 chrUn 434583449 434584089 640 False 704.000000 704 86.8220 27 657 1 chrUn.!!$F2 630
16 TraesCS4B01G361500 chr1A 549617119 549617752 633 False 577.000000 577 83.5680 34 654 1 chr1A.!!$F1 620

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
668 706 0.245539 CGGGTCGCCTACTCAAAGAA 59.754 55.0 0.0 0.0 0.00 2.52 F
1519 1568 0.534427 CATGGCGATGGTCAGCAGAT 60.534 55.0 0.0 0.0 34.54 2.90 F
2598 2663 0.098200 CTGCTGACATTGGTGATGCG 59.902 55.0 0.0 0.0 39.47 4.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1656 1705 0.035458 CACCGTCTCCTTTCTTGCCT 59.965 55.0 0.00 0.00 0.0 4.75 R
2804 2869 0.099436 GATGTTGTTCAGATGGCGCC 59.901 55.0 22.73 22.73 0.0 6.53 R
4346 4456 0.533755 GCCTCCTACAATGCATCGCT 60.534 55.0 0.00 0.00 0.0 4.93 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
71 72 3.723922 GGGCCCGTAAAGCTCCCA 61.724 66.667 5.69 0.00 36.96 4.37
666 704 4.496670 CGGGTCGCCTACTCAAAG 57.503 61.111 0.00 0.00 0.00 2.77
667 705 1.888018 CGGGTCGCCTACTCAAAGA 59.112 57.895 0.00 0.00 0.00 2.52
668 706 0.245539 CGGGTCGCCTACTCAAAGAA 59.754 55.000 0.00 0.00 0.00 2.52
669 707 1.337447 CGGGTCGCCTACTCAAAGAAA 60.337 52.381 0.00 0.00 0.00 2.52
670 708 2.347731 GGGTCGCCTACTCAAAGAAAG 58.652 52.381 0.00 0.00 0.00 2.62
671 709 1.732809 GGTCGCCTACTCAAAGAAAGC 59.267 52.381 0.00 0.00 0.00 3.51
672 710 2.613223 GGTCGCCTACTCAAAGAAAGCT 60.613 50.000 0.00 0.00 0.00 3.74
673 711 3.067833 GTCGCCTACTCAAAGAAAGCTT 58.932 45.455 0.00 0.00 35.37 3.74
674 712 3.123790 GTCGCCTACTCAAAGAAAGCTTC 59.876 47.826 0.00 0.00 31.82 3.86
675 713 3.006967 TCGCCTACTCAAAGAAAGCTTCT 59.993 43.478 0.00 0.00 43.15 2.85
687 725 5.690997 AGAAAGCTTCTTTCCTAAAACCG 57.309 39.130 13.77 0.00 36.36 4.44
688 726 5.131067 AGAAAGCTTCTTTCCTAAAACCGT 58.869 37.500 13.77 0.00 36.36 4.83
706 744 5.184340 ACCGTAACTAGAGACATATGCAC 57.816 43.478 1.58 0.00 0.00 4.57
707 745 4.643334 ACCGTAACTAGAGACATATGCACA 59.357 41.667 1.58 0.00 0.00 4.57
738 776 6.689669 ACACGAAACGAACAAGGAAATTAAAG 59.310 34.615 0.00 0.00 0.00 1.85
740 778 7.111593 CACGAAACGAACAAGGAAATTAAAGAG 59.888 37.037 0.00 0.00 0.00 2.85
744 782 9.863845 AAACGAACAAGGAAATTAAAGAGAAAA 57.136 25.926 0.00 0.00 0.00 2.29
745 783 9.863845 AACGAACAAGGAAATTAAAGAGAAAAA 57.136 25.926 0.00 0.00 0.00 1.94
775 813 2.272074 AGAAGTAGCTAGGCCCCTTT 57.728 50.000 0.00 0.00 0.00 3.11
786 824 1.080569 GCCCCTTTGCACAATCACG 60.081 57.895 0.00 0.00 0.00 4.35
792 830 2.487762 CCTTTGCACAATCACGGTACAT 59.512 45.455 0.00 0.00 0.00 2.29
800 838 3.684788 ACAATCACGGTACATGCTCTTTC 59.315 43.478 0.00 0.00 0.00 2.62
804 842 1.066143 ACGGTACATGCTCTTTCCCTG 60.066 52.381 0.00 0.00 0.00 4.45
822 860 2.092968 CCTGCATGCACCCTAAACTAGA 60.093 50.000 18.46 0.00 0.00 2.43
823 861 3.201290 CTGCATGCACCCTAAACTAGAG 58.799 50.000 18.46 0.00 0.00 2.43
824 862 2.837591 TGCATGCACCCTAAACTAGAGA 59.162 45.455 18.46 0.00 0.00 3.10
825 863 3.198872 GCATGCACCCTAAACTAGAGAC 58.801 50.000 14.21 0.00 0.00 3.36
826 864 3.369471 GCATGCACCCTAAACTAGAGACA 60.369 47.826 14.21 0.00 0.00 3.41
830 869 3.258622 GCACCCTAAACTAGAGACACAGT 59.741 47.826 0.00 0.00 0.00 3.55
940 982 3.704800 TGTTTCCGTCCATCACCATTA 57.295 42.857 0.00 0.00 0.00 1.90
1041 1083 3.474570 GGCGGCTCATCCTCAGGT 61.475 66.667 0.00 0.00 0.00 4.00
1117 1160 3.459027 GCGACGCGAACTTCATCA 58.541 55.556 15.93 0.00 0.00 3.07
1227 1270 1.300620 CAACGACGAGGTTCAGGCA 60.301 57.895 0.00 0.00 0.00 4.75
1394 1437 3.057548 CAGCACCATCGCCAAGCA 61.058 61.111 0.00 0.00 0.00 3.91
1422 1465 2.046892 CTCAAGGTCCGGGTGCAG 60.047 66.667 0.00 0.00 0.00 4.41
1519 1568 0.534427 CATGGCGATGGTCAGCAGAT 60.534 55.000 0.00 0.00 34.54 2.90
1521 1570 1.890979 GGCGATGGTCAGCAGATGG 60.891 63.158 0.00 0.00 34.54 3.51
1527 1576 4.783621 GTCAGCAGATGGCCGCCA 62.784 66.667 16.17 16.17 46.50 5.69
1549 1598 2.749076 CTCCGCAATGTCCAAGAATCAA 59.251 45.455 0.00 0.00 0.00 2.57
1555 1604 4.925646 GCAATGTCCAAGAATCAAAAGACC 59.074 41.667 0.00 0.00 0.00 3.85
1556 1605 5.509501 GCAATGTCCAAGAATCAAAAGACCA 60.510 40.000 0.00 0.00 0.00 4.02
1557 1606 5.712152 ATGTCCAAGAATCAAAAGACCAC 57.288 39.130 0.00 0.00 0.00 4.16
1559 1608 3.813166 GTCCAAGAATCAAAAGACCACGA 59.187 43.478 0.00 0.00 0.00 4.35
1560 1609 4.274950 GTCCAAGAATCAAAAGACCACGAA 59.725 41.667 0.00 0.00 0.00 3.85
1564 1613 3.741344 AGAATCAAAAGACCACGAAGACG 59.259 43.478 0.00 0.00 45.75 4.18
1583 1632 2.098680 CGACGACGAGAGAGGTGC 59.901 66.667 0.00 0.00 42.66 5.01
1590 1639 1.542030 GACGAGAGAGGTGCTTTCAGA 59.458 52.381 0.00 0.00 0.00 3.27
1608 1657 0.662970 GACGAGCTCTGATCGATGCC 60.663 60.000 12.85 0.00 42.76 4.40
1656 1705 1.117994 CAGAGCTGATCACCTGGCTA 58.882 55.000 7.13 0.00 35.01 3.93
1743 1792 0.179045 ATGATGCAGAAGGTACCGGC 60.179 55.000 6.18 9.88 0.00 6.13
1797 1846 2.785258 GGCGGCTTCGACATCAAC 59.215 61.111 0.00 0.00 42.51 3.18
1858 1907 0.622136 ATTCCATGACCTGCTCTGCA 59.378 50.000 0.00 0.00 36.92 4.41
1920 1969 4.395231 ACATCATCAGACAACATGAAGCTG 59.605 41.667 0.00 1.51 32.76 4.24
2042 2091 2.912956 TCAACTTCATAAGCCTCCCTGT 59.087 45.455 0.00 0.00 0.00 4.00
2138 2187 6.830838 ACATATTCCCTTGTGGATTTCTTCTC 59.169 38.462 0.00 0.00 44.66 2.87
2257 2306 5.688500 GCTTCCATGAAGATGTTCCTCCATA 60.689 44.000 7.98 0.00 41.71 2.74
2271 2320 3.118038 TCCTCCATACCTTGTATGGCAAC 60.118 47.826 22.69 0.00 43.12 4.17
2335 2396 2.137528 TGTTCAGAGGCCGACCACA 61.138 57.895 0.00 0.00 39.06 4.17
2404 2465 0.829333 CATGCCTAGAGAGTGCCAGT 59.171 55.000 0.00 0.00 0.00 4.00
2523 2588 2.359850 GGCGGTCATGGTTCAGCA 60.360 61.111 0.00 0.00 0.00 4.41
2568 2633 2.334946 TGCATTTGTCAGCCGAGGC 61.335 57.895 5.89 5.89 42.33 4.70
2598 2663 0.098200 CTGCTGACATTGGTGATGCG 59.902 55.000 0.00 0.00 39.47 4.73
2619 2684 2.227388 GGGCAAGATCAAGACTTGTGTG 59.773 50.000 14.75 9.61 44.25 3.82
2629 2694 0.886490 GACTTGTGTGGTGCCTCCTG 60.886 60.000 0.00 0.00 37.07 3.86
2631 2696 4.624364 TGTGTGGTGCCTCCTGCG 62.624 66.667 0.00 0.00 45.60 5.18
2674 2739 3.124297 GGTTGCAGAAGAAGAGAATGTCG 59.876 47.826 0.00 0.00 0.00 4.35
2677 2742 2.926838 GCAGAAGAAGAGAATGTCGTCC 59.073 50.000 0.00 0.00 34.40 4.79
2748 2813 2.662596 GGATCACTGCCCGTGTCA 59.337 61.111 0.00 0.00 44.16 3.58
2830 2895 3.499048 CATCTGAACAACATCTGCAAGC 58.501 45.455 0.00 0.00 0.00 4.01
3009 3074 3.426568 GCAGGGCGCACAGACTTC 61.427 66.667 14.57 0.00 41.79 3.01
3010 3075 2.345244 CAGGGCGCACAGACTTCT 59.655 61.111 14.57 0.00 0.00 2.85
3011 3076 1.739562 CAGGGCGCACAGACTTCTC 60.740 63.158 14.57 0.00 0.00 2.87
3114 3179 3.452627 GGAACCTGGAGATACTGTCACAT 59.547 47.826 0.00 0.00 0.00 3.21
3179 3244 0.902531 GGGCAGCTAGTCAAGGTACA 59.097 55.000 0.00 0.00 33.59 2.90
3218 3283 1.074775 ATGGCAAGAAGGTCGGCAA 59.925 52.632 0.00 0.00 38.82 4.52
3288 3353 1.518929 CGCTCTTTGTCGATCCGAATC 59.481 52.381 0.00 0.00 37.72 2.52
3384 3449 2.106566 CTCCAGAGCCTGTACATCAGT 58.893 52.381 0.00 0.00 42.19 3.41
3437 3502 2.082231 CACAGAGCTCCATCAACTTGG 58.918 52.381 10.93 0.00 38.18 3.61
3444 3509 3.054139 AGCTCCATCAACTTGGCAAGATA 60.054 43.478 32.50 17.09 36.66 1.98
3450 3515 4.919774 TCAACTTGGCAAGATAACCCTA 57.080 40.909 32.50 6.91 0.00 3.53
3467 3532 1.475403 CTACGTGACACCTCCCTGAT 58.525 55.000 0.00 0.00 0.00 2.90
3476 3541 2.052468 CACCTCCCTGATGGATCATGA 58.948 52.381 0.00 0.00 44.07 3.07
3483 3548 3.593096 CCTGATGGATCATGACATACGG 58.407 50.000 0.00 0.00 36.02 4.02
3519 3584 4.473520 GGCCTGCGCTGCCTTAGA 62.474 66.667 27.35 0.00 45.70 2.10
3528 3593 0.461961 GCTGCCTTAGACTCCGACAT 59.538 55.000 0.00 0.00 0.00 3.06
3540 3605 1.880675 CTCCGACATATGTCCTACGCT 59.119 52.381 26.33 0.00 41.86 5.07
3566 3631 5.990120 ATGAAGATCACTTTTGGGAAAGG 57.010 39.130 0.00 0.00 45.24 3.11
3569 3634 4.039603 AGATCACTTTTGGGAAAGGAGG 57.960 45.455 0.00 0.00 45.24 4.30
3587 3652 1.005215 AGGATTCCCAAGCCTCAAGTG 59.995 52.381 0.00 0.00 46.19 3.16
3591 3656 0.397941 TCCCAAGCCTCAAGTGTCTG 59.602 55.000 0.00 0.00 0.00 3.51
3600 3665 3.677148 GCCTCAAGTGTCTGATCATCGAA 60.677 47.826 0.00 0.00 0.00 3.71
3606 3671 2.100584 GTGTCTGATCATCGAAGGCTCT 59.899 50.000 0.00 0.00 0.00 4.09
3627 3692 5.563592 TCTGACATCACCAACATCATCTTT 58.436 37.500 0.00 0.00 0.00 2.52
3785 3850 3.716006 CGTCGCAGCACACCCAAG 61.716 66.667 0.00 0.00 0.00 3.61
3869 3941 2.006056 GCATGCTCTGGAGTGAGTGAC 61.006 57.143 11.37 0.00 36.51 3.67
3897 3969 3.056962 TGTTGTGTGAGTGTTTGCAATGT 60.057 39.130 0.00 0.00 0.00 2.71
3902 3974 2.853594 GTGAGTGTTTGCAATGTGTGTG 59.146 45.455 0.00 0.00 0.00 3.82
4010 4085 5.617528 TGTACCGTGTGGGATTGTTATAT 57.382 39.130 0.00 0.00 40.75 0.86
4011 4086 6.728089 TGTACCGTGTGGGATTGTTATATA 57.272 37.500 0.00 0.00 40.75 0.86
4012 4087 6.751157 TGTACCGTGTGGGATTGTTATATAG 58.249 40.000 0.00 0.00 40.75 1.31
4055 4131 9.116067 TGCAATAAGACTTGTACTTTTACTGTT 57.884 29.630 0.00 0.00 0.00 3.16
4129 4205 3.118408 TGTTTGAGTACCTTCAGTGCTGT 60.118 43.478 0.00 0.00 42.10 4.40
4232 4329 9.903682 GATACATTGTGGGAATGAAATATGAAG 57.096 33.333 0.00 0.00 0.00 3.02
4233 4330 7.116075 ACATTGTGGGAATGAAATATGAAGG 57.884 36.000 0.00 0.00 0.00 3.46
4346 4456 2.492012 GGCATGTTTGTGGCAAATGAA 58.508 42.857 0.00 0.00 43.52 2.57
4370 4480 2.113860 TGCATTGTAGGAGGCACTTC 57.886 50.000 0.00 0.00 41.55 3.01
4380 4490 2.042162 AGGAGGCACTTCATTGGACAAT 59.958 45.455 0.00 0.00 41.55 2.71
4410 4520 9.747898 TGTAAAAATAATTCACATGTACTCCCT 57.252 29.630 0.00 0.00 0.00 4.20
4412 4522 7.881775 AAAATAATTCACATGTACTCCCTCC 57.118 36.000 0.00 0.00 0.00 4.30
4413 4523 3.543680 AATTCACATGTACTCCCTCCG 57.456 47.619 0.00 0.00 0.00 4.63
4414 4524 1.933021 TTCACATGTACTCCCTCCGT 58.067 50.000 0.00 0.00 0.00 4.69
4415 4525 1.933021 TCACATGTACTCCCTCCGTT 58.067 50.000 0.00 0.00 0.00 4.44
4416 4526 1.822990 TCACATGTACTCCCTCCGTTC 59.177 52.381 0.00 0.00 0.00 3.95
4417 4527 1.134788 CACATGTACTCCCTCCGTTCC 60.135 57.143 0.00 0.00 0.00 3.62
4418 4528 1.191535 CATGTACTCCCTCCGTTCCA 58.808 55.000 0.00 0.00 0.00 3.53
4419 4529 1.553248 CATGTACTCCCTCCGTTCCAA 59.447 52.381 0.00 0.00 0.00 3.53
4420 4530 1.719529 TGTACTCCCTCCGTTCCAAA 58.280 50.000 0.00 0.00 0.00 3.28
4421 4531 2.048601 TGTACTCCCTCCGTTCCAAAA 58.951 47.619 0.00 0.00 0.00 2.44
4422 4532 2.640826 TGTACTCCCTCCGTTCCAAAAT 59.359 45.455 0.00 0.00 0.00 1.82
4423 4533 3.839490 TGTACTCCCTCCGTTCCAAAATA 59.161 43.478 0.00 0.00 0.00 1.40
4424 4534 3.629142 ACTCCCTCCGTTCCAAAATAG 57.371 47.619 0.00 0.00 0.00 1.73
4425 4535 3.178865 ACTCCCTCCGTTCCAAAATAGA 58.821 45.455 0.00 0.00 0.00 1.98
4426 4536 3.780850 ACTCCCTCCGTTCCAAAATAGAT 59.219 43.478 0.00 0.00 0.00 1.98
4427 4537 4.130118 CTCCCTCCGTTCCAAAATAGATG 58.870 47.826 0.00 0.00 0.00 2.90
4428 4538 3.778075 TCCCTCCGTTCCAAAATAGATGA 59.222 43.478 0.00 0.00 0.00 2.92
4429 4539 3.877508 CCCTCCGTTCCAAAATAGATGAC 59.122 47.826 0.00 0.00 0.00 3.06
4430 4540 3.877508 CCTCCGTTCCAAAATAGATGACC 59.122 47.826 0.00 0.00 0.00 4.02
4431 4541 3.877508 CTCCGTTCCAAAATAGATGACCC 59.122 47.826 0.00 0.00 0.00 4.46
4432 4542 2.612212 CCGTTCCAAAATAGATGACCCG 59.388 50.000 0.00 0.00 0.00 5.28
4433 4543 3.527533 CGTTCCAAAATAGATGACCCGA 58.472 45.455 0.00 0.00 0.00 5.14
4434 4544 3.308866 CGTTCCAAAATAGATGACCCGAC 59.691 47.826 0.00 0.00 0.00 4.79
4435 4545 4.514401 GTTCCAAAATAGATGACCCGACT 58.486 43.478 0.00 0.00 0.00 4.18
4436 4546 4.837093 TCCAAAATAGATGACCCGACTT 57.163 40.909 0.00 0.00 0.00 3.01
4437 4547 5.174037 TCCAAAATAGATGACCCGACTTT 57.826 39.130 0.00 0.00 0.00 2.66
4438 4548 6.302535 TCCAAAATAGATGACCCGACTTTA 57.697 37.500 0.00 0.00 0.00 1.85
4439 4549 6.895782 TCCAAAATAGATGACCCGACTTTAT 58.104 36.000 0.00 0.00 0.00 1.40
4440 4550 8.025270 TCCAAAATAGATGACCCGACTTTATA 57.975 34.615 0.00 0.00 0.00 0.98
4441 4551 7.929785 TCCAAAATAGATGACCCGACTTTATAC 59.070 37.037 0.00 0.00 0.00 1.47
4442 4552 7.931948 CCAAAATAGATGACCCGACTTTATACT 59.068 37.037 0.00 0.00 0.00 2.12
4443 4553 9.976511 CAAAATAGATGACCCGACTTTATACTA 57.023 33.333 0.00 0.00 0.00 1.82
4447 4557 7.657023 AGATGACCCGACTTTATACTAAAGT 57.343 36.000 11.09 11.09 42.62 2.66
4448 4558 8.075761 AGATGACCCGACTTTATACTAAAGTT 57.924 34.615 12.22 0.00 40.27 2.66
4449 4559 9.193806 AGATGACCCGACTTTATACTAAAGTTA 57.806 33.333 12.22 0.00 40.27 2.24
4450 4560 9.460906 GATGACCCGACTTTATACTAAAGTTAG 57.539 37.037 12.22 9.92 40.27 2.34
4451 4561 8.353423 TGACCCGACTTTATACTAAAGTTAGT 57.647 34.615 12.22 8.67 45.39 2.24
4452 4562 9.461312 TGACCCGACTTTATACTAAAGTTAGTA 57.539 33.333 12.18 12.18 46.74 1.82
4453 4563 9.723447 GACCCGACTTTATACTAAAGTTAGTAC 57.277 37.037 12.07 0.00 45.86 2.73
4454 4564 9.243105 ACCCGACTTTATACTAAAGTTAGTACA 57.757 33.333 12.07 0.00 45.86 2.90
4475 4585 9.003658 AGTACAAAGTTGAGTCATCTATTTTGG 57.996 33.333 14.35 0.00 40.00 3.28
4476 4586 8.999431 GTACAAAGTTGAGTCATCTATTTTGGA 58.001 33.333 14.35 6.88 40.00 3.53
4477 4587 8.103948 ACAAAGTTGAGTCATCTATTTTGGAG 57.896 34.615 14.35 1.25 40.00 3.86
4478 4588 7.175641 ACAAAGTTGAGTCATCTATTTTGGAGG 59.824 37.037 14.35 0.00 40.00 4.30
4479 4589 5.749462 AGTTGAGTCATCTATTTTGGAGGG 58.251 41.667 1.70 0.00 0.00 4.30
4480 4590 5.488919 AGTTGAGTCATCTATTTTGGAGGGA 59.511 40.000 1.70 0.00 0.00 4.20
4497 4607 5.071788 TGGAGGGAGTATTGGACAATGTATC 59.928 44.000 7.76 3.39 32.50 2.24
4612 4729 4.535526 AAATGGCCCTACATTGTGAAAC 57.464 40.909 0.00 0.00 40.71 2.78
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
52 53 2.595655 GGAGCTTTACGGGCCCAT 59.404 61.111 24.92 10.00 0.00 4.00
176 190 1.455959 CCTAGCTGGGTCCTAGCGT 60.456 63.158 20.45 11.95 45.61 5.07
236 250 2.845317 ACGTGGTGGTGCTGGGTA 60.845 61.111 0.00 0.00 0.00 3.69
650 688 2.347731 CTTTCTTTGAGTAGGCGACCC 58.652 52.381 0.00 0.00 0.00 4.46
651 689 1.732809 GCTTTCTTTGAGTAGGCGACC 59.267 52.381 0.00 0.00 0.00 4.79
652 690 2.689646 AGCTTTCTTTGAGTAGGCGAC 58.310 47.619 0.00 0.00 0.00 5.19
653 691 3.006967 AGAAGCTTTCTTTGAGTAGGCGA 59.993 43.478 0.00 0.00 36.36 5.54
654 692 3.330267 AGAAGCTTTCTTTGAGTAGGCG 58.670 45.455 0.00 0.00 36.36 5.52
665 703 5.131067 ACGGTTTTAGGAAAGAAGCTTTCT 58.869 37.500 16.66 0.00 43.15 2.52
666 704 5.434352 ACGGTTTTAGGAAAGAAGCTTTC 57.566 39.130 0.00 10.60 0.00 2.62
667 705 6.544931 AGTTACGGTTTTAGGAAAGAAGCTTT 59.455 34.615 0.00 0.00 0.00 3.51
668 706 6.060136 AGTTACGGTTTTAGGAAAGAAGCTT 58.940 36.000 0.00 0.00 0.00 3.74
669 707 5.618236 AGTTACGGTTTTAGGAAAGAAGCT 58.382 37.500 0.00 0.00 0.00 3.74
670 708 5.936686 AGTTACGGTTTTAGGAAAGAAGC 57.063 39.130 0.00 0.00 0.00 3.86
671 709 8.302438 TCTCTAGTTACGGTTTTAGGAAAGAAG 58.698 37.037 0.00 0.00 0.00 2.85
672 710 8.084684 GTCTCTAGTTACGGTTTTAGGAAAGAA 58.915 37.037 0.00 0.00 0.00 2.52
673 711 7.231317 TGTCTCTAGTTACGGTTTTAGGAAAGA 59.769 37.037 0.00 0.00 0.00 2.52
674 712 7.373493 TGTCTCTAGTTACGGTTTTAGGAAAG 58.627 38.462 0.00 0.00 0.00 2.62
675 713 7.288810 TGTCTCTAGTTACGGTTTTAGGAAA 57.711 36.000 0.00 0.00 0.00 3.13
676 714 6.899393 TGTCTCTAGTTACGGTTTTAGGAA 57.101 37.500 0.00 0.00 0.00 3.36
677 715 8.627403 CATATGTCTCTAGTTACGGTTTTAGGA 58.373 37.037 0.00 0.00 0.00 2.94
678 716 7.381678 GCATATGTCTCTAGTTACGGTTTTAGG 59.618 40.741 4.29 0.00 0.00 2.69
679 717 7.919091 TGCATATGTCTCTAGTTACGGTTTTAG 59.081 37.037 4.29 0.00 0.00 1.85
680 718 7.703621 GTGCATATGTCTCTAGTTACGGTTTTA 59.296 37.037 4.29 0.00 0.00 1.52
681 719 6.534079 GTGCATATGTCTCTAGTTACGGTTTT 59.466 38.462 4.29 0.00 0.00 2.43
682 720 6.040878 GTGCATATGTCTCTAGTTACGGTTT 58.959 40.000 4.29 0.00 0.00 3.27
683 721 5.126545 TGTGCATATGTCTCTAGTTACGGTT 59.873 40.000 4.29 0.00 0.00 4.44
684 722 4.643334 TGTGCATATGTCTCTAGTTACGGT 59.357 41.667 4.29 0.00 0.00 4.83
685 723 4.976731 GTGTGCATATGTCTCTAGTTACGG 59.023 45.833 4.29 0.00 0.00 4.02
686 724 5.822278 AGTGTGCATATGTCTCTAGTTACG 58.178 41.667 4.29 0.00 0.00 3.18
687 725 7.036220 ACAAGTGTGCATATGTCTCTAGTTAC 58.964 38.462 4.29 0.00 0.00 2.50
688 726 7.170393 ACAAGTGTGCATATGTCTCTAGTTA 57.830 36.000 4.29 0.00 0.00 2.24
706 744 3.910862 TGTTCGTTTCGTGTACAAGTG 57.089 42.857 8.68 0.00 0.00 3.16
707 745 3.307782 CCTTGTTCGTTTCGTGTACAAGT 59.692 43.478 8.68 0.00 38.58 3.16
744 782 7.093902 GGCCTAGCTACTTCTTTTGGTTAATTT 60.094 37.037 0.00 0.00 0.00 1.82
745 783 6.377429 GGCCTAGCTACTTCTTTTGGTTAATT 59.623 38.462 0.00 0.00 0.00 1.40
746 784 5.886474 GGCCTAGCTACTTCTTTTGGTTAAT 59.114 40.000 0.00 0.00 0.00 1.40
747 785 5.250982 GGCCTAGCTACTTCTTTTGGTTAA 58.749 41.667 0.00 0.00 0.00 2.01
752 790 2.239907 AGGGGCCTAGCTACTTCTTTTG 59.760 50.000 0.84 0.00 0.00 2.44
759 797 0.914417 TGCAAAGGGGCCTAGCTACT 60.914 55.000 0.84 0.00 0.00 2.57
775 813 0.801872 GCATGTACCGTGATTGTGCA 59.198 50.000 0.00 0.00 32.88 4.57
786 824 1.340017 TGCAGGGAAAGAGCATGTACC 60.340 52.381 0.00 0.00 32.55 3.34
792 830 1.075305 TGCATGCAGGGAAAGAGCA 59.925 52.632 18.46 0.00 43.14 4.26
800 838 0.323725 AGTTTAGGGTGCATGCAGGG 60.324 55.000 23.41 0.00 0.00 4.45
804 842 3.198872 GTCTCTAGTTTAGGGTGCATGC 58.801 50.000 11.82 11.82 0.00 4.06
822 860 3.641906 GGGGTGCATATAGTACTGTGTCT 59.358 47.826 5.39 0.00 32.88 3.41
823 861 3.641906 AGGGGTGCATATAGTACTGTGTC 59.358 47.826 5.39 0.12 32.88 3.67
824 862 3.641906 GAGGGGTGCATATAGTACTGTGT 59.358 47.826 5.39 0.00 32.88 3.72
825 863 3.898123 AGAGGGGTGCATATAGTACTGTG 59.102 47.826 5.39 3.09 32.88 3.66
826 864 4.200447 AGAGGGGTGCATATAGTACTGT 57.800 45.455 5.39 0.39 32.88 3.55
830 869 5.303589 GTGTTGTAGAGGGGTGCATATAGTA 59.696 44.000 0.00 0.00 0.00 1.82
940 982 2.184167 CGGTTGTGGCAGGAAACGT 61.184 57.895 8.16 0.00 0.00 3.99
1117 1160 1.759445 CATGACCTCCATCTCGTCCTT 59.241 52.381 0.00 0.00 31.94 3.36
1196 1239 1.644295 CGTCGTTGTCTTCGTCATCAG 59.356 52.381 0.00 0.00 0.00 2.90
1197 1240 1.264826 TCGTCGTTGTCTTCGTCATCA 59.735 47.619 0.00 0.00 0.00 3.07
1200 1243 0.040692 CCTCGTCGTTGTCTTCGTCA 60.041 55.000 0.00 0.00 0.00 4.35
1227 1270 2.074948 CCTGACCTGCCTAGCCCAT 61.075 63.158 0.00 0.00 0.00 4.00
1331 1374 1.753073 CTCCAAGGAACCATGGCATTC 59.247 52.381 13.04 9.19 35.99 2.67
1394 1437 1.343069 GACCTTGAGCTCCCGGATAT 58.657 55.000 21.35 3.16 0.00 1.63
1422 1465 4.200283 CGTCTCTCGCCTGCCTCC 62.200 72.222 0.00 0.00 0.00 4.30
1428 1471 3.137459 CTCAGCCGTCTCTCGCCT 61.137 66.667 0.00 0.00 38.35 5.52
1527 1576 2.290260 TGATTCTTGGACATTGCGGAGT 60.290 45.455 0.00 0.00 0.00 3.85
1531 1580 4.618489 GTCTTTTGATTCTTGGACATTGCG 59.382 41.667 0.00 0.00 0.00 4.85
1532 1581 4.925646 GGTCTTTTGATTCTTGGACATTGC 59.074 41.667 0.00 0.00 0.00 3.56
1537 1586 3.813166 TCGTGGTCTTTTGATTCTTGGAC 59.187 43.478 0.00 0.00 0.00 4.02
1549 1598 0.664761 TCGTCGTCTTCGTGGTCTTT 59.335 50.000 0.00 0.00 38.33 2.52
1555 1604 2.130219 CGTCGTCGTCGTCTTCGTG 61.130 63.158 3.67 0.00 38.33 4.35
1556 1605 2.169563 CGTCGTCGTCGTCTTCGT 59.830 61.111 3.67 0.00 38.33 3.85
1557 1606 1.574639 CTCGTCGTCGTCGTCTTCG 60.575 63.158 11.41 4.14 38.33 3.79
1559 1608 0.665670 TCTCTCGTCGTCGTCGTCTT 60.666 55.000 11.41 0.00 38.33 3.01
1560 1609 1.072116 CTCTCTCGTCGTCGTCGTCT 61.072 60.000 11.41 0.00 38.33 4.18
1564 1613 1.420702 CACCTCTCTCGTCGTCGTC 59.579 63.158 1.33 0.00 38.33 4.20
1590 1639 1.361993 GGCATCGATCAGAGCTCGT 59.638 57.895 8.37 0.00 37.40 4.18
1608 1657 1.089920 CCTCCAAGATGTTTGGCTCG 58.910 55.000 1.06 0.00 39.38 5.03
1614 1663 2.158475 TGCACCTTCCTCCAAGATGTTT 60.158 45.455 0.00 0.00 33.29 2.83
1648 1697 0.329596 CCTTTCTTGCCTAGCCAGGT 59.670 55.000 0.00 0.00 44.68 4.00
1656 1705 0.035458 CACCGTCTCCTTTCTTGCCT 59.965 55.000 0.00 0.00 0.00 4.75
1743 1792 1.550524 TGGTACACTTGCTGAGCTAGG 59.449 52.381 19.31 10.91 35.86 3.02
1789 1838 3.792401 TGGTGATCCATACGTTGATGTC 58.208 45.455 0.00 0.00 39.03 3.06
1858 1907 2.587522 GTTTTGGTCAGGAAGGAGCTT 58.412 47.619 0.00 0.00 36.30 3.74
2138 2187 2.045536 GGGCCACTGCTCTCTTGG 60.046 66.667 4.39 0.00 34.08 3.61
2195 2244 1.139989 CTTGAGTATGCCGCGTATGG 58.860 55.000 4.92 0.00 0.00 2.74
2203 2252 2.131183 GTCGCATCTCTTGAGTATGCC 58.869 52.381 19.27 9.95 42.37 4.40
2257 2306 2.377193 TGTTAGGGTTGCCATACAAGGT 59.623 45.455 0.00 0.00 39.50 3.50
2271 2320 3.253432 GCTCTTGTTTTGTCCTGTTAGGG 59.747 47.826 0.00 0.00 35.59 3.53
2335 2396 5.463724 GCTTGAAGTTATAGCTGCTATCGTT 59.536 40.000 24.39 15.90 32.26 3.85
2510 2575 0.445436 CGCTTCTGCTGAACCATGAC 59.555 55.000 1.33 0.00 36.97 3.06
2548 2613 0.957395 CCTCGGCTGACAAATGCACT 60.957 55.000 0.00 0.00 0.00 4.40
2568 2633 0.609957 TGTCAGCAGGGCAAATGAGG 60.610 55.000 0.00 0.00 0.00 3.86
2598 2663 2.227388 CACACAAGTCTTGATCTTGCCC 59.773 50.000 19.53 0.00 43.97 5.36
2631 2696 1.153289 AGTGATGAGGCGATGCACC 60.153 57.895 0.00 0.00 0.00 5.01
2744 2809 1.804601 CAGCAGCAGTTGAGATGACA 58.195 50.000 0.00 0.00 0.00 3.58
2748 2813 0.323957 TCAGCAGCAGCAGTTGAGAT 59.676 50.000 3.17 0.00 45.49 2.75
2804 2869 0.099436 GATGTTGTTCAGATGGCGCC 59.901 55.000 22.73 22.73 0.00 6.53
2910 2975 1.519455 CCGAATGTCCAGCGTCTCC 60.519 63.158 0.00 0.00 0.00 3.71
2997 3062 1.446966 GGAGGAGAAGTCTGTGCGC 60.447 63.158 0.00 0.00 0.00 6.09
3000 3065 1.608717 CCGGGGAGGAGAAGTCTGTG 61.609 65.000 0.00 0.00 45.00 3.66
3001 3066 1.305381 CCGGGGAGGAGAAGTCTGT 60.305 63.158 0.00 0.00 45.00 3.41
3009 3074 2.038975 TCCTTGACCGGGGAGGAG 59.961 66.667 16.10 2.80 45.00 3.69
3010 3075 2.284405 GTCCTTGACCGGGGAGGA 60.284 66.667 16.10 16.10 45.00 3.71
3069 3134 1.076777 CATGGCCCCGATTCCTTGT 60.077 57.895 0.00 0.00 0.00 3.16
3072 3137 2.455565 CCTCATGGCCCCGATTCCT 61.456 63.158 0.00 0.00 0.00 3.36
3114 3179 0.611062 CACTCCCGGAGACCTGTACA 60.611 60.000 21.89 0.00 33.32 2.90
3256 3321 0.321653 AAAGAGCGAAGGCATCCGTT 60.322 50.000 0.00 0.00 43.41 4.44
3259 3324 0.729690 GACAAAGAGCGAAGGCATCC 59.270 55.000 0.00 0.00 43.41 3.51
3260 3325 0.371645 CGACAAAGAGCGAAGGCATC 59.628 55.000 0.00 0.00 43.41 3.91
3305 3370 3.181475 GCTGAATGTAAGAGGATCGGTCA 60.181 47.826 0.00 0.00 42.67 4.02
3429 3494 3.806949 AGGGTTATCTTGCCAAGTTGA 57.193 42.857 3.87 0.00 0.00 3.18
3437 3502 2.928116 GTGTCACGTAGGGTTATCTTGC 59.072 50.000 0.00 0.00 0.00 4.01
3444 3509 1.190178 GGGAGGTGTCACGTAGGGTT 61.190 60.000 0.00 0.00 0.00 4.11
3450 3515 1.544825 CCATCAGGGAGGTGTCACGT 61.545 60.000 0.00 0.00 40.01 4.49
3467 3532 1.344438 GGAGCCGTATGTCATGATCCA 59.656 52.381 0.00 0.00 0.00 3.41
3476 3541 3.900892 CGCCGAGGAGCCGTATGT 61.901 66.667 0.00 0.00 0.00 2.29
3483 3548 4.856607 CCGAGTTCGCCGAGGAGC 62.857 72.222 0.00 0.00 38.18 4.70
3519 3584 1.607628 GCGTAGGACATATGTCGGAGT 59.392 52.381 25.65 14.46 45.65 3.85
3528 3593 5.592104 TCTTCATTTCAGCGTAGGACATA 57.408 39.130 0.00 0.00 0.00 2.29
3540 3605 6.975196 TTCCCAAAAGTGATCTTCATTTCA 57.025 33.333 0.00 0.00 32.90 2.69
3566 3631 1.283321 ACTTGAGGCTTGGGAATCCTC 59.717 52.381 0.00 0.00 45.02 3.71
3569 3634 2.087646 GACACTTGAGGCTTGGGAATC 58.912 52.381 0.00 0.00 0.00 2.52
3587 3652 2.360483 TCAGAGCCTTCGATGATCAGAC 59.640 50.000 0.09 0.00 0.00 3.51
3591 3656 2.879002 TGTCAGAGCCTTCGATGATC 57.121 50.000 0.00 0.00 0.00 2.92
3600 3665 1.059098 TGTTGGTGATGTCAGAGCCT 58.941 50.000 0.00 0.00 0.00 4.58
3606 3671 5.315348 TCAAAGATGATGTTGGTGATGTCA 58.685 37.500 0.00 0.00 0.00 3.58
3785 3850 1.377202 TGCTTGAAGACGGGATGGC 60.377 57.895 0.00 0.00 0.00 4.40
3833 3898 1.114627 ATGCAGGCTCGTACTGATCA 58.885 50.000 0.00 0.00 38.20 2.92
3869 3941 3.673746 AACACTCACACAACACAATCG 57.326 42.857 0.00 0.00 0.00 3.34
3897 3969 4.221482 ACACTGAGATCAATAGAGCACACA 59.779 41.667 0.00 0.00 30.99 3.72
3902 3974 4.753233 ACACACACTGAGATCAATAGAGC 58.247 43.478 0.00 0.00 0.00 4.09
4010 4085 3.334691 GCATAGGCAACACACAAGTCTA 58.665 45.455 0.00 0.00 40.72 2.59
4011 4086 2.154462 GCATAGGCAACACACAAGTCT 58.846 47.619 0.00 0.00 40.72 3.24
4012 4087 2.619013 GCATAGGCAACACACAAGTC 57.381 50.000 0.00 0.00 40.72 3.01
4055 4131 6.803807 GCAAAACCAAACAAAAATTGTAGCAA 59.196 30.769 0.00 0.00 44.59 3.91
4069 4145 1.566404 CGGTTCCAGCAAAACCAAAC 58.434 50.000 13.30 0.00 45.35 2.93
4129 4205 3.525609 TCCATTTAGACATGGCCAAGGTA 59.474 43.478 10.96 0.00 43.31 3.08
4346 4456 0.533755 GCCTCCTACAATGCATCGCT 60.534 55.000 0.00 0.00 0.00 4.93
4402 4512 2.845363 TTTTGGAACGGAGGGAGTAC 57.155 50.000 0.00 0.00 0.00 2.73
4403 4513 4.355549 TCTATTTTGGAACGGAGGGAGTA 58.644 43.478 0.00 0.00 0.00 2.59
4404 4514 3.178865 TCTATTTTGGAACGGAGGGAGT 58.821 45.455 0.00 0.00 0.00 3.85
4405 4515 3.906720 TCTATTTTGGAACGGAGGGAG 57.093 47.619 0.00 0.00 0.00 4.30
4406 4516 3.778075 TCATCTATTTTGGAACGGAGGGA 59.222 43.478 0.00 0.00 0.00 4.20
4407 4517 3.877508 GTCATCTATTTTGGAACGGAGGG 59.122 47.826 0.00 0.00 0.00 4.30
4408 4518 3.877508 GGTCATCTATTTTGGAACGGAGG 59.122 47.826 0.00 0.00 0.00 4.30
4409 4519 3.877508 GGGTCATCTATTTTGGAACGGAG 59.122 47.826 0.00 0.00 0.00 4.63
4410 4520 3.680475 CGGGTCATCTATTTTGGAACGGA 60.680 47.826 0.00 0.00 0.00 4.69
4411 4521 2.612212 CGGGTCATCTATTTTGGAACGG 59.388 50.000 0.00 0.00 0.00 4.44
4412 4522 3.308866 GTCGGGTCATCTATTTTGGAACG 59.691 47.826 0.00 0.00 0.00 3.95
4413 4523 4.514401 AGTCGGGTCATCTATTTTGGAAC 58.486 43.478 0.00 0.00 0.00 3.62
4414 4524 4.837093 AGTCGGGTCATCTATTTTGGAA 57.163 40.909 0.00 0.00 0.00 3.53
4415 4525 4.837093 AAGTCGGGTCATCTATTTTGGA 57.163 40.909 0.00 0.00 0.00 3.53
4416 4526 7.931948 AGTATAAAGTCGGGTCATCTATTTTGG 59.068 37.037 0.00 0.00 0.00 3.28
4417 4527 8.888579 AGTATAAAGTCGGGTCATCTATTTTG 57.111 34.615 0.00 0.00 0.00 2.44
4421 4531 9.364653 ACTTTAGTATAAAGTCGGGTCATCTAT 57.635 33.333 8.72 0.00 35.76 1.98
4422 4532 8.757982 ACTTTAGTATAAAGTCGGGTCATCTA 57.242 34.615 8.72 0.00 35.76 1.98
4423 4533 7.657023 ACTTTAGTATAAAGTCGGGTCATCT 57.343 36.000 8.72 0.00 35.76 2.90
4424 4534 9.460906 CTAACTTTAGTATAAAGTCGGGTCATC 57.539 37.037 13.67 0.00 39.36 2.92
4425 4535 8.975295 ACTAACTTTAGTATAAAGTCGGGTCAT 58.025 33.333 13.67 1.94 41.92 3.06
4426 4536 8.353423 ACTAACTTTAGTATAAAGTCGGGTCA 57.647 34.615 13.67 0.00 41.92 4.02
4427 4537 9.723447 GTACTAACTTTAGTATAAAGTCGGGTC 57.277 37.037 13.67 4.27 45.11 4.46
4428 4538 9.243105 TGTACTAACTTTAGTATAAAGTCGGGT 57.757 33.333 13.67 13.72 45.11 5.28
4449 4559 9.003658 CCAAAATAGATGACTCAACTTTGTACT 57.996 33.333 0.00 0.00 0.00 2.73
4450 4560 8.999431 TCCAAAATAGATGACTCAACTTTGTAC 58.001 33.333 0.00 0.00 0.00 2.90
4451 4561 9.219603 CTCCAAAATAGATGACTCAACTTTGTA 57.780 33.333 0.00 0.00 0.00 2.41
4452 4562 7.175641 CCTCCAAAATAGATGACTCAACTTTGT 59.824 37.037 0.00 0.00 0.00 2.83
4453 4563 7.362401 CCCTCCAAAATAGATGACTCAACTTTG 60.362 40.741 0.00 0.00 0.00 2.77
4454 4564 6.660949 CCCTCCAAAATAGATGACTCAACTTT 59.339 38.462 0.00 0.00 0.00 2.66
4455 4565 6.012508 TCCCTCCAAAATAGATGACTCAACTT 60.013 38.462 0.00 0.00 0.00 2.66
4456 4566 5.488919 TCCCTCCAAAATAGATGACTCAACT 59.511 40.000 0.00 0.00 0.00 3.16
4457 4567 5.745227 TCCCTCCAAAATAGATGACTCAAC 58.255 41.667 0.00 0.00 0.00 3.18
4458 4568 5.488919 ACTCCCTCCAAAATAGATGACTCAA 59.511 40.000 0.00 0.00 0.00 3.02
4459 4569 5.032846 ACTCCCTCCAAAATAGATGACTCA 58.967 41.667 0.00 0.00 0.00 3.41
4460 4570 5.622346 ACTCCCTCCAAAATAGATGACTC 57.378 43.478 0.00 0.00 0.00 3.36
4461 4571 7.420680 CCAATACTCCCTCCAAAATAGATGACT 60.421 40.741 0.00 0.00 0.00 3.41
4462 4572 6.712547 CCAATACTCCCTCCAAAATAGATGAC 59.287 42.308 0.00 0.00 0.00 3.06
4463 4573 6.619437 TCCAATACTCCCTCCAAAATAGATGA 59.381 38.462 0.00 0.00 0.00 2.92
4464 4574 6.712547 GTCCAATACTCCCTCCAAAATAGATG 59.287 42.308 0.00 0.00 0.00 2.90
4465 4575 6.389869 TGTCCAATACTCCCTCCAAAATAGAT 59.610 38.462 0.00 0.00 0.00 1.98
4466 4576 5.729229 TGTCCAATACTCCCTCCAAAATAGA 59.271 40.000 0.00 0.00 0.00 1.98
4467 4577 6.001449 TGTCCAATACTCCCTCCAAAATAG 57.999 41.667 0.00 0.00 0.00 1.73
4468 4578 6.395780 TTGTCCAATACTCCCTCCAAAATA 57.604 37.500 0.00 0.00 0.00 1.40
4469 4579 4.946160 TGTCCAATACTCCCTCCAAAAT 57.054 40.909 0.00 0.00 0.00 1.82
4470 4580 4.733077 TTGTCCAATACTCCCTCCAAAA 57.267 40.909 0.00 0.00 0.00 2.44
4471 4581 4.044065 ACATTGTCCAATACTCCCTCCAAA 59.956 41.667 0.00 0.00 0.00 3.28
4472 4582 3.591527 ACATTGTCCAATACTCCCTCCAA 59.408 43.478 0.00 0.00 0.00 3.53
4473 4583 3.189606 ACATTGTCCAATACTCCCTCCA 58.810 45.455 0.00 0.00 0.00 3.86
4474 4584 3.933861 ACATTGTCCAATACTCCCTCC 57.066 47.619 0.00 0.00 0.00 4.30
4475 4585 6.426646 AGATACATTGTCCAATACTCCCTC 57.573 41.667 0.00 0.00 0.00 4.30
4476 4586 7.931015 TTAGATACATTGTCCAATACTCCCT 57.069 36.000 0.00 0.00 0.00 4.20
4477 4587 8.974060 TTTTAGATACATTGTCCAATACTCCC 57.026 34.615 0.00 0.00 0.00 4.30
4561 4671 3.135414 ACGGATTTTGTGCATCAATCG 57.865 42.857 0.00 2.22 35.84 3.34
4612 4729 9.128107 CACAAACTAATGCAATTACTACCTTTG 57.872 33.333 0.00 0.00 37.87 2.77


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

AutoCloner maintained by Alex Coulton.