Multiple sequence alignment - TraesCS4B01G093000

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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 TraesCS4B01G093000 chr4B 100.000 3281 0 0 1 3281 95448802 95445522 0.000000e+00 6059.0
1 TraesCS4B01G093000 chr4B 84.552 1340 180 17 923 2255 95434690 95433371 0.000000e+00 1303.0
2 TraesCS4B01G093000 chr4D 95.256 780 37 0 1539 2318 65102538 65101759 0.000000e+00 1236.0
3 TraesCS4B01G093000 chr4D 95.095 632 29 1 896 1527 65103936 65103307 0.000000e+00 994.0
4 TraesCS4B01G093000 chr4D 82.892 830 120 16 1468 2293 65096153 65095342 0.000000e+00 726.0
5 TraesCS4B01G093000 chr4D 98.561 139 2 0 2416 2554 65101298 65101160 2.530000e-61 246.0
6 TraesCS4B01G093000 chr4D 97.959 49 0 1 2373 2421 65101503 65101456 2.100000e-12 84.2
7 TraesCS4B01G093000 chr7B 98.563 696 10 0 2586 3281 246511541 246510846 0.000000e+00 1230.0
8 TraesCS4B01G093000 chr7B 76.154 520 116 7 137 652 479996494 479997009 1.940000e-67 267.0
9 TraesCS4B01G093000 chr3A 98.626 655 9 0 1 655 607104159 607103505 0.000000e+00 1160.0
10 TraesCS4B01G093000 chr3A 72.254 346 76 15 1765 2097 701915329 701915667 4.510000e-14 89.8
11 TraesCS4B01G093000 chr3A 84.286 70 10 1 1111 1180 57193082 57193014 2.110000e-07 67.6
12 TraesCS4B01G093000 chr3A 88.000 50 4 2 3232 3280 453305634 453305586 1.270000e-04 58.4
13 TraesCS4B01G093000 chr5A 98.321 655 10 1 1 654 206545162 206545816 0.000000e+00 1147.0
14 TraesCS4B01G093000 chr5A 79.412 680 83 16 2605 3280 438784724 438784098 8.410000e-116 427.0
15 TraesCS4B01G093000 chr5B 97.710 655 14 1 1 654 570854460 570855114 0.000000e+00 1125.0
16 TraesCS4B01G093000 chr5B 94.179 481 15 4 2802 3281 387367961 387368429 0.000000e+00 721.0
17 TraesCS4B01G093000 chr5B 92.181 243 10 2 653 886 543286504 543286746 5.250000e-88 335.0
18 TraesCS4B01G093000 chr5B 88.800 125 4 3 2589 2712 387367842 387367957 9.490000e-31 145.0
19 TraesCS4B01G093000 chr5B 100.000 28 0 0 1758 1785 588921793 588921820 6.000000e-03 52.8
20 TraesCS4B01G093000 chr6B 92.486 692 22 4 2591 3281 172243061 172243723 0.000000e+00 963.0
21 TraesCS4B01G093000 chr6B 89.384 292 28 3 366 655 172013688 172013978 6.690000e-97 364.0
22 TraesCS4B01G093000 chr2D 78.498 1265 235 29 1019 2261 114541084 114539835 0.000000e+00 795.0
23 TraesCS4B01G093000 chr2D 74.436 665 148 20 1 653 533970556 533971210 1.940000e-67 267.0
24 TraesCS4B01G093000 chr7D 93.661 489 19 3 2594 3081 608477712 608478189 0.000000e+00 721.0
25 TraesCS4B01G093000 chr7D 88.591 149 6 1 3133 3281 608478191 608478328 1.570000e-38 171.0
26 TraesCS4B01G093000 chr3B 84.692 699 69 10 2594 3280 47475109 47474437 0.000000e+00 664.0
27 TraesCS4B01G093000 chr3B 93.030 330 17 2 2795 3124 566637674 566637997 8.240000e-131 477.0
28 TraesCS4B01G093000 chr3B 90.141 142 3 3 3140 3281 566637674 566637544 1.210000e-39 174.0
29 TraesCS4B01G093000 chr3B 84.810 158 12 5 653 810 744599621 744599476 7.340000e-32 148.0
30 TraesCS4B01G093000 chr3B 74.400 250 50 14 1090 1333 70981712 70981471 9.690000e-16 95.3
31 TraesCS4B01G093000 chr1A 83.213 554 77 5 2726 3275 319448605 319449146 8.180000e-136 494.0
32 TraesCS4B01G093000 chr2B 87.391 230 18 4 653 882 601433365 601433583 1.510000e-63 254.0
33 TraesCS4B01G093000 chr2A 75.000 536 118 15 1113 1640 619209232 619209759 1.970000e-57 233.0
34 TraesCS4B01G093000 chr2A 85.294 204 25 5 2598 2797 774829115 774829317 4.290000e-49 206.0
35 TraesCS4B01G093000 chr7A 85.294 204 25 5 2598 2797 534329216 534329418 4.290000e-49 206.0
36 TraesCS4B01G093000 chrUn 87.349 166 18 3 491 654 95643753 95643917 1.550000e-43 187.0
37 TraesCS4B01G093000 chr1B 82.353 204 23 8 2598 2797 394676661 394676855 7.280000e-37 165.0
38 TraesCS4B01G093000 chr1B 75.177 282 55 10 2598 2876 90888616 90888347 5.750000e-23 119.0
39 TraesCS4B01G093000 chr3D 74.775 333 78 6 1080 1409 568521786 568521457 9.490000e-31 145.0
40 TraesCS4B01G093000 chr3D 78.899 109 17 5 1050 1155 66735112 66735217 5.870000e-08 69.4
41 TraesCS4B01G093000 chr6D 89.815 108 10 1 2598 2704 463581142 463581249 1.590000e-28 137.0
42 TraesCS4B01G093000 chr6D 78.882 161 30 4 497 654 453694923 453695082 4.480000e-19 106.0
43 TraesCS4B01G093000 chr5D 78.750 160 28 6 497 653 508116555 508116711 5.790000e-18 102.0
44 TraesCS4B01G093000 chr5D 100.000 28 0 0 1758 1785 480556240 480556267 6.000000e-03 52.8


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4B01G093000 chr4B 95445522 95448802 3280 True 6059.00 6059 100.00000 1 3281 1 chr4B.!!$R2 3280
1 TraesCS4B01G093000 chr4B 95433371 95434690 1319 True 1303.00 1303 84.55200 923 2255 1 chr4B.!!$R1 1332
2 TraesCS4B01G093000 chr4D 65095342 65096153 811 True 726.00 726 82.89200 1468 2293 1 chr4D.!!$R1 825
3 TraesCS4B01G093000 chr4D 65101160 65103936 2776 True 640.05 1236 96.71775 896 2554 4 chr4D.!!$R2 1658
4 TraesCS4B01G093000 chr7B 246510846 246511541 695 True 1230.00 1230 98.56300 2586 3281 1 chr7B.!!$R1 695
5 TraesCS4B01G093000 chr7B 479996494 479997009 515 False 267.00 267 76.15400 137 652 1 chr7B.!!$F1 515
6 TraesCS4B01G093000 chr3A 607103505 607104159 654 True 1160.00 1160 98.62600 1 655 1 chr3A.!!$R3 654
7 TraesCS4B01G093000 chr5A 206545162 206545816 654 False 1147.00 1147 98.32100 1 654 1 chr5A.!!$F1 653
8 TraesCS4B01G093000 chr5A 438784098 438784724 626 True 427.00 427 79.41200 2605 3280 1 chr5A.!!$R1 675
9 TraesCS4B01G093000 chr5B 570854460 570855114 654 False 1125.00 1125 97.71000 1 654 1 chr5B.!!$F2 653
10 TraesCS4B01G093000 chr5B 387367842 387368429 587 False 433.00 721 91.48950 2589 3281 2 chr5B.!!$F4 692
11 TraesCS4B01G093000 chr6B 172243061 172243723 662 False 963.00 963 92.48600 2591 3281 1 chr6B.!!$F2 690
12 TraesCS4B01G093000 chr2D 114539835 114541084 1249 True 795.00 795 78.49800 1019 2261 1 chr2D.!!$R1 1242
13 TraesCS4B01G093000 chr2D 533970556 533971210 654 False 267.00 267 74.43600 1 653 1 chr2D.!!$F1 652
14 TraesCS4B01G093000 chr7D 608477712 608478328 616 False 446.00 721 91.12600 2594 3281 2 chr7D.!!$F1 687
15 TraesCS4B01G093000 chr3B 47474437 47475109 672 True 664.00 664 84.69200 2594 3280 1 chr3B.!!$R1 686
16 TraesCS4B01G093000 chr1A 319448605 319449146 541 False 494.00 494 83.21300 2726 3275 1 chr1A.!!$F1 549
17 TraesCS4B01G093000 chr2A 619209232 619209759 527 False 233.00 233 75.00000 1113 1640 1 chr2A.!!$F1 527

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
870 873 0.035881 TAGAGACGTGAGGGTGTCGT 59.964 55.0 0.0 0.0 40.05 4.34 F
1483 1489 0.391927 CGGAAACCTTATCACCGCCA 60.392 55.0 0.0 0.0 37.32 5.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1758 2527 0.249073 AGATGCACATCGAGTACCGC 60.249 55.000 5.04 0.0 42.48 5.68 R
2579 3723 1.004560 ATGTCCGTGTGTGCCTCAG 60.005 57.895 0.00 0.0 0.00 3.35 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
153 154 1.150081 GCCAGATGAGGGGTGGATG 59.850 63.158 0.00 0.00 32.60 3.51
177 178 1.502231 CGAATTCCGATGGAGCGATT 58.498 50.000 0.00 0.00 41.76 3.34
244 245 0.749454 GAATGATGGCTTCCTGGCGT 60.749 55.000 0.00 0.00 45.14 5.68
452 453 1.686052 GGAGATCAAGACGATGCTCCT 59.314 52.381 0.00 0.00 41.04 3.69
481 482 7.467267 CGTTTGAAGATTTCAGAGTTTCTTGGA 60.467 37.037 0.00 0.00 41.38 3.53
668 671 2.774439 AAAAAGTCGTGGTGCATGTC 57.226 45.000 0.00 0.00 0.00 3.06
669 672 1.674359 AAAAGTCGTGGTGCATGTCA 58.326 45.000 0.00 0.00 0.00 3.58
670 673 0.944386 AAAGTCGTGGTGCATGTCAC 59.056 50.000 10.63 10.63 44.90 3.67
675 678 1.574428 GTGGTGCATGTCACGAACC 59.426 57.895 12.18 0.00 46.56 3.62
676 679 1.147153 TGGTGCATGTCACGAACCA 59.853 52.632 0.00 0.00 46.56 3.67
677 680 0.464554 TGGTGCATGTCACGAACCAA 60.465 50.000 0.00 0.00 46.56 3.67
678 681 0.040425 GGTGCATGTCACGAACCAAC 60.040 55.000 12.18 0.00 46.56 3.77
679 682 0.384230 GTGCATGTCACGAACCAACG 60.384 55.000 0.00 0.00 35.76 4.10
680 683 0.530870 TGCATGTCACGAACCAACGA 60.531 50.000 0.00 0.00 37.03 3.85
681 684 0.584396 GCATGTCACGAACCAACGAA 59.416 50.000 0.00 0.00 37.03 3.85
682 685 1.003331 GCATGTCACGAACCAACGAAA 60.003 47.619 0.00 0.00 37.03 3.46
683 686 2.350388 GCATGTCACGAACCAACGAAAT 60.350 45.455 0.00 0.00 37.03 2.17
684 687 3.479006 CATGTCACGAACCAACGAAATC 58.521 45.455 0.00 0.00 37.03 2.17
685 688 1.523515 TGTCACGAACCAACGAAATCG 59.476 47.619 0.48 0.48 46.33 3.34
686 689 1.788308 GTCACGAACCAACGAAATCGA 59.212 47.619 10.16 0.00 43.02 3.59
687 690 2.219216 GTCACGAACCAACGAAATCGAA 59.781 45.455 10.16 0.00 43.02 3.71
688 691 2.219216 TCACGAACCAACGAAATCGAAC 59.781 45.455 10.16 0.00 43.02 3.95
689 692 2.033577 CACGAACCAACGAAATCGAACA 60.034 45.455 10.16 0.00 43.02 3.18
690 693 2.803956 ACGAACCAACGAAATCGAACAT 59.196 40.909 10.16 0.00 43.02 2.71
691 694 3.152983 CGAACCAACGAAATCGAACATG 58.847 45.455 10.16 0.00 43.02 3.21
692 695 2.611974 ACCAACGAAATCGAACATGC 57.388 45.000 10.16 0.00 43.02 4.06
693 696 1.199097 ACCAACGAAATCGAACATGCC 59.801 47.619 10.16 0.00 43.02 4.40
694 697 1.467374 CCAACGAAATCGAACATGCCC 60.467 52.381 10.16 0.00 43.02 5.36
695 698 0.808755 AACGAAATCGAACATGCCCC 59.191 50.000 10.16 0.00 43.02 5.80
696 699 1.029947 ACGAAATCGAACATGCCCCC 61.030 55.000 10.16 0.00 43.02 5.40
697 700 1.029408 CGAAATCGAACATGCCCCCA 61.029 55.000 0.00 0.00 43.02 4.96
698 701 1.181786 GAAATCGAACATGCCCCCAA 58.818 50.000 0.00 0.00 0.00 4.12
699 702 0.894835 AAATCGAACATGCCCCCAAC 59.105 50.000 0.00 0.00 0.00 3.77
700 703 0.251564 AATCGAACATGCCCCCAACA 60.252 50.000 0.00 0.00 0.00 3.33
701 704 0.680921 ATCGAACATGCCCCCAACAG 60.681 55.000 0.00 0.00 0.00 3.16
702 705 2.342650 CGAACATGCCCCCAACAGG 61.343 63.158 0.00 0.00 0.00 4.00
703 706 1.076549 GAACATGCCCCCAACAGGA 59.923 57.895 0.00 0.00 38.24 3.86
704 707 0.541764 GAACATGCCCCCAACAGGAA 60.542 55.000 0.00 0.00 38.24 3.36
705 708 0.105246 AACATGCCCCCAACAGGAAA 60.105 50.000 0.00 0.00 38.24 3.13
706 709 0.105246 ACATGCCCCCAACAGGAAAA 60.105 50.000 0.00 0.00 38.24 2.29
707 710 0.321346 CATGCCCCCAACAGGAAAAC 59.679 55.000 0.00 0.00 38.24 2.43
708 711 1.184970 ATGCCCCCAACAGGAAAACG 61.185 55.000 0.00 0.00 38.24 3.60
709 712 2.570284 GCCCCCAACAGGAAAACGG 61.570 63.158 0.00 0.00 38.24 4.44
710 713 1.152631 CCCCCAACAGGAAAACGGT 60.153 57.895 0.00 0.00 38.24 4.83
711 714 1.176619 CCCCCAACAGGAAAACGGTC 61.177 60.000 0.00 0.00 38.24 4.79
712 715 1.176619 CCCCAACAGGAAAACGGTCC 61.177 60.000 0.00 0.00 38.24 4.46
713 716 1.176619 CCCAACAGGAAAACGGTCCC 61.177 60.000 0.00 0.00 38.59 4.46
714 717 0.466555 CCAACAGGAAAACGGTCCCA 60.467 55.000 0.00 0.00 38.59 4.37
715 718 0.666374 CAACAGGAAAACGGTCCCAC 59.334 55.000 0.00 0.00 38.59 4.61
716 719 0.549469 AACAGGAAAACGGTCCCACT 59.451 50.000 0.00 0.00 38.59 4.00
717 720 1.426751 ACAGGAAAACGGTCCCACTA 58.573 50.000 0.00 0.00 38.59 2.74
718 721 1.346722 ACAGGAAAACGGTCCCACTAG 59.653 52.381 0.00 0.00 38.59 2.57
719 722 1.346722 CAGGAAAACGGTCCCACTAGT 59.653 52.381 0.00 0.00 38.59 2.57
720 723 1.346722 AGGAAAACGGTCCCACTAGTG 59.653 52.381 16.34 16.34 38.59 2.74
729 732 3.987404 CCACTAGTGGCCAGTTGC 58.013 61.111 28.48 0.00 44.73 4.17
730 733 2.034879 CCACTAGTGGCCAGTTGCG 61.035 63.158 28.48 10.87 44.73 4.85
731 734 1.005037 CACTAGTGGCCAGTTGCGA 60.005 57.895 20.55 0.00 42.61 5.10
732 735 0.602638 CACTAGTGGCCAGTTGCGAA 60.603 55.000 20.55 0.00 42.61 4.70
733 736 0.107831 ACTAGTGGCCAGTTGCGAAA 59.892 50.000 20.55 0.00 42.61 3.46
734 737 0.798776 CTAGTGGCCAGTTGCGAAAG 59.201 55.000 20.55 4.74 42.61 2.62
735 738 0.605319 TAGTGGCCAGTTGCGAAAGG 60.605 55.000 20.55 0.00 42.61 3.11
736 739 2.597217 TGGCCAGTTGCGAAAGGG 60.597 61.111 0.00 0.00 42.61 3.95
737 740 4.056125 GGCCAGTTGCGAAAGGGC 62.056 66.667 9.82 9.82 42.61 5.19
738 741 4.056125 GCCAGTTGCGAAAGGGCC 62.056 66.667 7.41 0.00 38.70 5.80
739 742 2.282462 CCAGTTGCGAAAGGGCCT 60.282 61.111 0.00 0.00 0.00 5.19
740 743 1.903404 CCAGTTGCGAAAGGGCCTT 60.903 57.895 14.48 14.48 0.00 4.35
741 744 1.286880 CAGTTGCGAAAGGGCCTTG 59.713 57.895 21.72 9.60 0.00 3.61
742 745 2.049156 GTTGCGAAAGGGCCTTGC 60.049 61.111 21.72 18.18 0.00 4.01
756 759 2.930950 GCCTTGCCAGGATATACAACA 58.069 47.619 8.31 0.00 44.19 3.33
757 760 3.490348 GCCTTGCCAGGATATACAACAT 58.510 45.455 8.31 0.00 44.19 2.71
758 761 3.254166 GCCTTGCCAGGATATACAACATG 59.746 47.826 8.31 0.00 44.19 3.21
759 762 3.254166 CCTTGCCAGGATATACAACATGC 59.746 47.826 0.00 0.00 44.19 4.06
760 763 3.574354 TGCCAGGATATACAACATGCA 57.426 42.857 0.00 0.00 0.00 3.96
761 764 4.103013 TGCCAGGATATACAACATGCAT 57.897 40.909 0.00 0.00 0.00 3.96
762 765 5.240013 TGCCAGGATATACAACATGCATA 57.760 39.130 0.00 0.00 0.00 3.14
763 766 5.818887 TGCCAGGATATACAACATGCATAT 58.181 37.500 0.00 0.00 0.00 1.78
764 767 6.956497 TGCCAGGATATACAACATGCATATA 58.044 36.000 0.00 0.00 0.00 0.86
765 768 6.823182 TGCCAGGATATACAACATGCATATAC 59.177 38.462 0.00 0.00 0.00 1.47
766 769 6.018751 GCCAGGATATACAACATGCATATACG 60.019 42.308 0.00 0.00 25.14 3.06
767 770 6.018751 CCAGGATATACAACATGCATATACGC 60.019 42.308 0.00 0.00 25.14 4.42
768 771 6.018751 CAGGATATACAACATGCATATACGCC 60.019 42.308 0.00 0.00 25.14 5.68
769 772 5.051039 GGATATACAACATGCATATACGCCG 60.051 44.000 0.00 0.00 0.00 6.46
770 773 2.232756 ACAACATGCATATACGCCGA 57.767 45.000 0.00 0.00 0.00 5.54
771 774 2.135139 ACAACATGCATATACGCCGAG 58.865 47.619 0.00 0.00 0.00 4.63
772 775 1.460743 CAACATGCATATACGCCGAGG 59.539 52.381 0.00 0.00 0.00 4.63
773 776 0.037326 ACATGCATATACGCCGAGGG 60.037 55.000 0.00 0.00 0.00 4.30
774 777 0.246360 CATGCATATACGCCGAGGGA 59.754 55.000 0.00 0.00 0.00 4.20
775 778 1.134699 CATGCATATACGCCGAGGGAT 60.135 52.381 0.00 0.00 0.00 3.85
776 779 1.842052 TGCATATACGCCGAGGGATA 58.158 50.000 0.00 0.00 0.00 2.59
777 780 2.172679 TGCATATACGCCGAGGGATAA 58.827 47.619 0.00 0.00 0.00 1.75
778 781 2.764010 TGCATATACGCCGAGGGATAAT 59.236 45.455 0.00 0.00 0.00 1.28
779 782 3.123804 GCATATACGCCGAGGGATAATG 58.876 50.000 0.00 0.00 0.00 1.90
780 783 3.181479 GCATATACGCCGAGGGATAATGA 60.181 47.826 0.00 0.00 0.00 2.57
781 784 4.360563 CATATACGCCGAGGGATAATGAC 58.639 47.826 0.00 0.00 0.00 3.06
782 785 1.991121 TACGCCGAGGGATAATGACT 58.009 50.000 0.00 0.00 0.00 3.41
783 786 1.120530 ACGCCGAGGGATAATGACTT 58.879 50.000 0.00 0.00 0.00 3.01
784 787 1.485066 ACGCCGAGGGATAATGACTTT 59.515 47.619 0.00 0.00 0.00 2.66
785 788 2.093128 ACGCCGAGGGATAATGACTTTT 60.093 45.455 0.00 0.00 0.00 2.27
786 789 3.133362 ACGCCGAGGGATAATGACTTTTA 59.867 43.478 0.00 0.00 0.00 1.52
787 790 4.202326 ACGCCGAGGGATAATGACTTTTAT 60.202 41.667 0.00 0.00 0.00 1.40
788 791 4.755123 CGCCGAGGGATAATGACTTTTATT 59.245 41.667 0.00 0.00 0.00 1.40
789 792 5.929992 CGCCGAGGGATAATGACTTTTATTA 59.070 40.000 0.00 0.00 0.00 0.98
790 793 6.090898 CGCCGAGGGATAATGACTTTTATTAG 59.909 42.308 0.00 0.00 0.00 1.73
791 794 6.371825 GCCGAGGGATAATGACTTTTATTAGG 59.628 42.308 0.00 0.00 0.00 2.69
792 795 7.676947 CCGAGGGATAATGACTTTTATTAGGA 58.323 38.462 0.00 0.00 0.00 2.94
793 796 8.154856 CCGAGGGATAATGACTTTTATTAGGAA 58.845 37.037 0.00 0.00 0.00 3.36
794 797 9.555727 CGAGGGATAATGACTTTTATTAGGAAA 57.444 33.333 0.00 0.00 0.00 3.13
814 817 8.951787 AGGAAATACTACGTGTAATAAATGCA 57.048 30.769 0.00 0.00 34.45 3.96
815 818 9.042008 AGGAAATACTACGTGTAATAAATGCAG 57.958 33.333 0.00 0.00 34.45 4.41
816 819 8.823818 GGAAATACTACGTGTAATAAATGCAGT 58.176 33.333 0.00 0.00 34.45 4.40
819 822 9.982291 AATACTACGTGTAATAAATGCAGTTTG 57.018 29.630 4.05 0.00 34.45 2.93
820 823 7.429636 ACTACGTGTAATAAATGCAGTTTGT 57.570 32.000 4.05 0.00 0.00 2.83
821 824 7.295201 ACTACGTGTAATAAATGCAGTTTGTG 58.705 34.615 4.05 0.00 0.00 3.33
822 825 5.457140 ACGTGTAATAAATGCAGTTTGTGG 58.543 37.500 4.05 0.00 0.00 4.17
823 826 5.239744 ACGTGTAATAAATGCAGTTTGTGGA 59.760 36.000 4.05 0.00 0.00 4.02
824 827 6.072175 ACGTGTAATAAATGCAGTTTGTGGAT 60.072 34.615 4.05 0.00 39.29 3.41
825 828 6.468956 CGTGTAATAAATGCAGTTTGTGGATC 59.531 38.462 4.05 0.00 35.87 3.36
826 829 6.751888 GTGTAATAAATGCAGTTTGTGGATCC 59.248 38.462 4.05 4.20 35.87 3.36
827 830 5.999205 AATAAATGCAGTTTGTGGATCCA 57.001 34.783 11.44 11.44 35.87 3.41
828 831 3.947910 AAATGCAGTTTGTGGATCCAG 57.052 42.857 16.81 2.98 35.87 3.86
829 832 2.885135 ATGCAGTTTGTGGATCCAGA 57.115 45.000 16.81 12.14 29.52 3.86
830 833 2.189594 TGCAGTTTGTGGATCCAGAG 57.810 50.000 16.81 2.78 0.00 3.35
831 834 1.271543 TGCAGTTTGTGGATCCAGAGG 60.272 52.381 16.81 6.15 0.00 3.69
832 835 1.952367 GCAGTTTGTGGATCCAGAGGG 60.952 57.143 16.81 5.79 0.00 4.30
842 845 3.533697 TCCAGAGGGAGGATAACGG 57.466 57.895 0.00 0.00 38.64 4.44
843 846 0.635009 TCCAGAGGGAGGATAACGGT 59.365 55.000 0.00 0.00 38.64 4.83
844 847 0.753262 CCAGAGGGAGGATAACGGTG 59.247 60.000 0.00 0.00 35.59 4.94
845 848 0.753262 CAGAGGGAGGATAACGGTGG 59.247 60.000 0.00 0.00 0.00 4.61
846 849 0.398664 AGAGGGAGGATAACGGTGGG 60.399 60.000 0.00 0.00 0.00 4.61
847 850 1.384082 AGGGAGGATAACGGTGGGG 60.384 63.158 0.00 0.00 0.00 4.96
848 851 1.383525 GGGAGGATAACGGTGGGGA 60.384 63.158 0.00 0.00 0.00 4.81
849 852 0.767060 GGGAGGATAACGGTGGGGAT 60.767 60.000 0.00 0.00 0.00 3.85
850 853 1.483686 GGGAGGATAACGGTGGGGATA 60.484 57.143 0.00 0.00 0.00 2.59
851 854 2.547990 GGAGGATAACGGTGGGGATAT 58.452 52.381 0.00 0.00 0.00 1.63
852 855 3.567219 GGGAGGATAACGGTGGGGATATA 60.567 52.174 0.00 0.00 0.00 0.86
853 856 3.705072 GGAGGATAACGGTGGGGATATAG 59.295 52.174 0.00 0.00 0.00 1.31
854 857 4.571362 GGAGGATAACGGTGGGGATATAGA 60.571 50.000 0.00 0.00 0.00 1.98
855 858 4.611367 AGGATAACGGTGGGGATATAGAG 58.389 47.826 0.00 0.00 0.00 2.43
856 859 4.294168 AGGATAACGGTGGGGATATAGAGA 59.706 45.833 0.00 0.00 0.00 3.10
857 860 4.401837 GGATAACGGTGGGGATATAGAGAC 59.598 50.000 0.00 0.00 0.00 3.36
858 861 1.906990 ACGGTGGGGATATAGAGACG 58.093 55.000 0.00 0.00 0.00 4.18
859 862 1.144503 ACGGTGGGGATATAGAGACGT 59.855 52.381 0.00 0.00 0.00 4.34
860 863 1.540267 CGGTGGGGATATAGAGACGTG 59.460 57.143 0.00 0.00 0.00 4.49
861 864 2.812983 CGGTGGGGATATAGAGACGTGA 60.813 54.545 0.00 0.00 0.00 4.35
862 865 2.820787 GGTGGGGATATAGAGACGTGAG 59.179 54.545 0.00 0.00 0.00 3.51
863 866 2.820787 GTGGGGATATAGAGACGTGAGG 59.179 54.545 0.00 0.00 0.00 3.86
864 867 2.225041 TGGGGATATAGAGACGTGAGGG 60.225 54.545 0.00 0.00 0.00 4.30
865 868 2.225066 GGGGATATAGAGACGTGAGGGT 60.225 54.545 0.00 0.00 0.00 4.34
866 869 2.820787 GGGATATAGAGACGTGAGGGTG 59.179 54.545 0.00 0.00 0.00 4.61
867 870 3.488363 GGATATAGAGACGTGAGGGTGT 58.512 50.000 0.00 0.00 0.00 4.16
868 871 3.502979 GGATATAGAGACGTGAGGGTGTC 59.497 52.174 0.00 0.00 35.33 3.67
869 872 1.380524 ATAGAGACGTGAGGGTGTCG 58.619 55.000 0.00 0.00 40.05 4.35
870 873 0.035881 TAGAGACGTGAGGGTGTCGT 59.964 55.000 0.00 0.00 40.05 4.34
872 875 2.257676 GACGTGAGGGTGTCGTCC 59.742 66.667 0.00 0.00 45.08 4.79
873 876 2.520020 ACGTGAGGGTGTCGTCCA 60.520 61.111 0.00 0.00 32.26 4.02
874 877 2.049433 CGTGAGGGTGTCGTCCAC 60.049 66.667 0.25 0.25 43.74 4.02
882 885 2.680429 GTGTCGTCCACCAAAACGA 58.320 52.632 0.00 0.00 44.91 3.85
887 890 3.389925 TCGTCCACCAAAACGACTATT 57.610 42.857 0.00 0.00 42.49 1.73
888 891 3.731089 TCGTCCACCAAAACGACTATTT 58.269 40.909 0.00 0.00 42.49 1.40
889 892 3.495377 TCGTCCACCAAAACGACTATTTG 59.505 43.478 0.00 0.00 42.49 2.32
890 893 3.561503 GTCCACCAAAACGACTATTTGC 58.438 45.455 0.00 0.00 36.64 3.68
891 894 3.252458 GTCCACCAAAACGACTATTTGCT 59.748 43.478 0.00 0.00 36.64 3.91
892 895 3.500680 TCCACCAAAACGACTATTTGCTC 59.499 43.478 0.00 0.00 36.64 4.26
893 896 3.365969 CCACCAAAACGACTATTTGCTCC 60.366 47.826 0.00 0.00 36.64 4.70
894 897 3.252215 CACCAAAACGACTATTTGCTCCA 59.748 43.478 0.00 0.00 36.64 3.86
914 917 3.378112 CCATTGTCCAATGTGCGTCTATT 59.622 43.478 16.48 0.00 44.97 1.73
927 930 3.243168 TGCGTCTATTTATACGAGGCGTT 60.243 43.478 0.00 0.00 40.36 4.84
952 955 3.996150 TCGTCGAGAAACCTACTTGTT 57.004 42.857 0.00 0.00 0.00 2.83
953 956 3.893720 TCGTCGAGAAACCTACTTGTTC 58.106 45.455 0.00 0.00 0.00 3.18
958 961 6.238022 CGTCGAGAAACCTACTTGTTCTTTTT 60.238 38.462 0.00 0.00 0.00 1.94
989 992 5.300752 AGAGAATCGATCTGTGTTTTGTGT 58.699 37.500 0.00 0.00 42.67 3.72
1070 1076 3.061848 CGGCCTGGCGGAATTTGT 61.062 61.111 20.42 0.00 0.00 2.83
1282 1288 2.811317 CGCTCAAGGACCAGTCGC 60.811 66.667 0.00 0.00 0.00 5.19
1483 1489 0.391927 CGGAAACCTTATCACCGCCA 60.392 55.000 0.00 0.00 37.32 5.69
1491 1497 2.276201 CTTATCACCGCCATCGTTTCA 58.724 47.619 0.00 0.00 0.00 2.69
1573 2336 1.623542 ATGGGACCTGCCGTTCTACC 61.624 60.000 0.00 0.00 37.63 3.18
1722 2485 4.349503 ATGCCACGAGCCAAGCCA 62.350 61.111 0.00 0.00 42.71 4.75
1884 2653 4.135153 CAGGTCAGGGTCGGCGAG 62.135 72.222 11.20 0.00 0.00 5.03
2114 2886 6.053005 ACACCACGACGAAAATATATGGATT 58.947 36.000 0.00 0.00 0.00 3.01
2179 2960 5.147330 TCATCCCTTCGCGTATTTCATAT 57.853 39.130 5.77 0.00 0.00 1.78
2295 3076 1.743394 GGGTGAAAACTAATGAGCGGG 59.257 52.381 0.00 0.00 0.00 6.13
2349 3171 5.183228 ACGGGAGTAACAATAAGATGGTTG 58.817 41.667 0.00 0.00 44.60 3.77
2357 3179 8.932791 AGTAACAATAAGATGGTTGTTCTTACG 58.067 33.333 6.74 0.00 44.73 3.18
2527 3671 8.044908 TGAACAAGTATATAGTTTCTTGGGACC 58.955 37.037 12.78 0.00 40.74 4.46
2560 3704 2.335316 GGTATTTACCATGGTCCGCA 57.665 50.000 23.76 0.00 45.73 5.69
2561 3705 2.645802 GGTATTTACCATGGTCCGCAA 58.354 47.619 23.76 7.26 45.73 4.85
2562 3706 3.018149 GGTATTTACCATGGTCCGCAAA 58.982 45.455 23.76 16.72 45.73 3.68
2563 3707 3.444388 GGTATTTACCATGGTCCGCAAAA 59.556 43.478 23.76 16.32 45.73 2.44
2564 3708 4.098807 GGTATTTACCATGGTCCGCAAAAT 59.901 41.667 23.76 21.87 45.73 1.82
2565 3709 4.817318 ATTTACCATGGTCCGCAAAATT 57.183 36.364 23.76 2.45 0.00 1.82
2566 3710 4.608948 TTTACCATGGTCCGCAAAATTT 57.391 36.364 23.76 0.00 0.00 1.82
2567 3711 2.453983 ACCATGGTCCGCAAAATTTG 57.546 45.000 13.00 0.57 0.00 2.32
2568 3712 1.001860 ACCATGGTCCGCAAAATTTGG 59.998 47.619 13.00 0.00 0.00 3.28
2569 3713 1.001860 CCATGGTCCGCAAAATTTGGT 59.998 47.619 2.57 0.00 0.00 3.67
2570 3714 2.549778 CCATGGTCCGCAAAATTTGGTT 60.550 45.455 2.57 0.00 0.00 3.67
2571 3715 2.517650 TGGTCCGCAAAATTTGGTTC 57.482 45.000 7.89 0.00 0.00 3.62
2572 3716 1.069358 TGGTCCGCAAAATTTGGTTCC 59.931 47.619 7.89 3.80 0.00 3.62
2573 3717 1.606994 GGTCCGCAAAATTTGGTTCCC 60.607 52.381 7.89 0.00 0.00 3.97
2574 3718 0.682292 TCCGCAAAATTTGGTTCCCC 59.318 50.000 7.89 0.00 0.00 4.81
2575 3719 0.669012 CCGCAAAATTTGGTTCCCCG 60.669 55.000 7.89 1.43 0.00 5.73
2576 3720 1.288419 CGCAAAATTTGGTTCCCCGC 61.288 55.000 7.89 0.00 0.00 6.13
2577 3721 0.250081 GCAAAATTTGGTTCCCCGCA 60.250 50.000 7.89 0.00 0.00 5.69
2578 3722 1.811941 GCAAAATTTGGTTCCCCGCAA 60.812 47.619 7.89 0.00 0.00 4.85
2579 3723 1.870402 CAAAATTTGGTTCCCCGCAAC 59.130 47.619 0.00 0.00 0.00 4.17
2580 3724 1.419381 AAATTTGGTTCCCCGCAACT 58.581 45.000 0.00 0.00 0.00 3.16
2581 3725 0.678950 AATTTGGTTCCCCGCAACTG 59.321 50.000 0.00 0.00 0.00 3.16
2582 3726 0.178975 ATTTGGTTCCCCGCAACTGA 60.179 50.000 0.00 0.00 0.00 3.41
2583 3727 0.821711 TTTGGTTCCCCGCAACTGAG 60.822 55.000 0.00 0.00 0.00 3.35
2584 3728 2.359975 GGTTCCCCGCAACTGAGG 60.360 66.667 0.00 0.00 34.56 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
153 154 1.003438 GCTCCATCGGAATTCGCTTTC 60.003 52.381 0.00 0.00 39.05 2.62
177 178 1.540363 GCTCTTCCACCGTGTCTTGAA 60.540 52.381 0.00 0.00 0.00 2.69
230 231 2.360350 CACACGCCAGGAAGCCAT 60.360 61.111 0.00 0.00 0.00 4.40
452 453 7.985476 AGAAACTCTGAAATCTTCAAACGAAA 58.015 30.769 0.00 0.00 39.58 3.46
481 482 3.836949 CAACATTTGCTGAACGCCTAAT 58.163 40.909 0.00 0.00 38.05 1.73
657 660 1.163420 TGGTTCGTGACATGCACCAC 61.163 55.000 14.31 8.49 44.85 4.16
658 661 0.464554 TTGGTTCGTGACATGCACCA 60.465 50.000 14.31 14.31 44.85 4.17
659 662 0.040425 GTTGGTTCGTGACATGCACC 60.040 55.000 9.32 9.32 44.85 5.01
660 663 0.384230 CGTTGGTTCGTGACATGCAC 60.384 55.000 9.41 9.41 44.21 4.57
661 664 0.530870 TCGTTGGTTCGTGACATGCA 60.531 50.000 0.00 0.00 0.00 3.96
662 665 0.584396 TTCGTTGGTTCGTGACATGC 59.416 50.000 0.00 0.00 0.00 4.06
663 666 3.479006 GATTTCGTTGGTTCGTGACATG 58.521 45.455 0.00 0.00 0.00 3.21
664 667 2.156891 CGATTTCGTTGGTTCGTGACAT 59.843 45.455 0.00 0.00 34.11 3.06
665 668 1.523515 CGATTTCGTTGGTTCGTGACA 59.476 47.619 0.00 0.00 34.11 3.58
666 669 1.788308 TCGATTTCGTTGGTTCGTGAC 59.212 47.619 0.00 0.00 40.80 3.67
667 670 2.137129 TCGATTTCGTTGGTTCGTGA 57.863 45.000 0.00 0.00 40.80 4.35
668 671 2.033577 TGTTCGATTTCGTTGGTTCGTG 60.034 45.455 0.00 0.00 40.80 4.35
669 672 2.203401 TGTTCGATTTCGTTGGTTCGT 58.797 42.857 0.00 0.00 40.80 3.85
670 673 2.934107 TGTTCGATTTCGTTGGTTCG 57.066 45.000 0.00 0.00 40.80 3.95
671 674 2.908626 GCATGTTCGATTTCGTTGGTTC 59.091 45.455 0.00 0.00 40.80 3.62
672 675 2.351350 GGCATGTTCGATTTCGTTGGTT 60.351 45.455 0.00 0.00 40.80 3.67
673 676 1.199097 GGCATGTTCGATTTCGTTGGT 59.801 47.619 0.00 0.00 40.80 3.67
674 677 1.467374 GGGCATGTTCGATTTCGTTGG 60.467 52.381 0.00 0.00 40.80 3.77
675 678 1.467374 GGGGCATGTTCGATTTCGTTG 60.467 52.381 0.00 0.00 40.80 4.10
676 679 0.808755 GGGGCATGTTCGATTTCGTT 59.191 50.000 0.00 0.00 40.80 3.85
677 680 1.029947 GGGGGCATGTTCGATTTCGT 61.030 55.000 0.00 0.00 40.80 3.85
678 681 1.029408 TGGGGGCATGTTCGATTTCG 61.029 55.000 0.00 0.00 41.45 3.46
679 682 1.135112 GTTGGGGGCATGTTCGATTTC 60.135 52.381 0.00 0.00 0.00 2.17
680 683 0.894835 GTTGGGGGCATGTTCGATTT 59.105 50.000 0.00 0.00 0.00 2.17
681 684 0.251564 TGTTGGGGGCATGTTCGATT 60.252 50.000 0.00 0.00 0.00 3.34
682 685 0.680921 CTGTTGGGGGCATGTTCGAT 60.681 55.000 0.00 0.00 0.00 3.59
683 686 1.303236 CTGTTGGGGGCATGTTCGA 60.303 57.895 0.00 0.00 0.00 3.71
684 687 2.342650 CCTGTTGGGGGCATGTTCG 61.343 63.158 0.00 0.00 0.00 3.95
685 688 0.541764 TTCCTGTTGGGGGCATGTTC 60.542 55.000 0.00 0.00 35.33 3.18
686 689 0.105246 TTTCCTGTTGGGGGCATGTT 60.105 50.000 0.00 0.00 35.33 2.71
687 690 0.105246 TTTTCCTGTTGGGGGCATGT 60.105 50.000 0.00 0.00 35.33 3.21
688 691 0.321346 GTTTTCCTGTTGGGGGCATG 59.679 55.000 0.00 0.00 35.33 4.06
689 692 1.184970 CGTTTTCCTGTTGGGGGCAT 61.185 55.000 0.00 0.00 35.33 4.40
690 693 1.830408 CGTTTTCCTGTTGGGGGCA 60.830 57.895 0.00 0.00 35.33 5.36
691 694 2.570284 CCGTTTTCCTGTTGGGGGC 61.570 63.158 0.00 0.00 35.33 5.80
692 695 1.152631 ACCGTTTTCCTGTTGGGGG 60.153 57.895 0.00 0.00 35.33 5.40
693 696 1.176619 GGACCGTTTTCCTGTTGGGG 61.177 60.000 0.00 0.00 35.33 4.96
694 697 1.176619 GGGACCGTTTTCCTGTTGGG 61.177 60.000 0.00 0.00 35.76 4.12
695 698 0.466555 TGGGACCGTTTTCCTGTTGG 60.467 55.000 0.00 0.00 35.76 3.77
696 699 0.666374 GTGGGACCGTTTTCCTGTTG 59.334 55.000 0.00 0.00 35.76 3.33
697 700 0.549469 AGTGGGACCGTTTTCCTGTT 59.451 50.000 0.00 0.00 35.76 3.16
698 701 1.346722 CTAGTGGGACCGTTTTCCTGT 59.653 52.381 0.00 0.00 35.76 4.00
699 702 1.346722 ACTAGTGGGACCGTTTTCCTG 59.653 52.381 0.00 0.00 35.76 3.86
700 703 1.346722 CACTAGTGGGACCGTTTTCCT 59.653 52.381 15.49 0.00 35.76 3.36
701 704 1.609841 CCACTAGTGGGACCGTTTTCC 60.610 57.143 31.15 0.00 46.81 3.13
702 705 1.804601 CCACTAGTGGGACCGTTTTC 58.195 55.000 31.15 0.00 46.81 2.29
713 716 0.602638 TTCGCAACTGGCCACTAGTG 60.603 55.000 16.34 16.34 40.31 2.74
714 717 0.107831 TTTCGCAACTGGCCACTAGT 59.892 50.000 0.00 0.00 40.31 2.57
715 718 0.798776 CTTTCGCAACTGGCCACTAG 59.201 55.000 0.00 0.00 40.31 2.57
716 719 0.605319 CCTTTCGCAACTGGCCACTA 60.605 55.000 0.00 0.00 40.31 2.74
717 720 1.898574 CCTTTCGCAACTGGCCACT 60.899 57.895 0.00 0.00 40.31 4.00
718 721 2.644992 CCTTTCGCAACTGGCCAC 59.355 61.111 0.00 0.00 40.31 5.01
719 722 2.597217 CCCTTTCGCAACTGGCCA 60.597 61.111 4.71 4.71 40.31 5.36
720 723 4.056125 GCCCTTTCGCAACTGGCC 62.056 66.667 0.00 0.00 40.31 5.36
721 724 4.056125 GGCCCTTTCGCAACTGGC 62.056 66.667 0.00 0.00 41.42 4.85
722 725 1.903404 AAGGCCCTTTCGCAACTGG 60.903 57.895 0.00 0.00 0.00 4.00
723 726 1.286880 CAAGGCCCTTTCGCAACTG 59.713 57.895 0.00 0.00 0.00 3.16
724 727 2.564721 GCAAGGCCCTTTCGCAACT 61.565 57.895 0.00 0.00 0.00 3.16
725 728 2.049156 GCAAGGCCCTTTCGCAAC 60.049 61.111 0.00 0.00 0.00 4.17
726 729 3.302344 GGCAAGGCCCTTTCGCAA 61.302 61.111 7.96 0.00 44.06 4.85
736 739 2.930950 TGTTGTATATCCTGGCAAGGC 58.069 47.619 0.56 0.00 44.11 4.35
737 740 3.254166 GCATGTTGTATATCCTGGCAAGG 59.746 47.826 0.00 0.00 46.06 3.61
738 741 3.884693 TGCATGTTGTATATCCTGGCAAG 59.115 43.478 0.00 0.00 0.00 4.01
739 742 3.895998 TGCATGTTGTATATCCTGGCAA 58.104 40.909 0.00 0.00 0.00 4.52
740 743 3.574354 TGCATGTTGTATATCCTGGCA 57.426 42.857 0.00 0.00 0.00 4.92
741 744 6.018751 CGTATATGCATGTTGTATATCCTGGC 60.019 42.308 10.16 0.00 37.03 4.85
742 745 6.018751 GCGTATATGCATGTTGTATATCCTGG 60.019 42.308 10.16 0.00 37.03 4.45
743 746 6.018751 GGCGTATATGCATGTTGTATATCCTG 60.019 42.308 18.41 0.00 37.03 3.86
744 747 6.049149 GGCGTATATGCATGTTGTATATCCT 58.951 40.000 18.41 0.00 37.03 3.24
745 748 5.051039 CGGCGTATATGCATGTTGTATATCC 60.051 44.000 18.41 4.02 37.03 2.59
746 749 5.746721 TCGGCGTATATGCATGTTGTATATC 59.253 40.000 18.41 0.00 37.03 1.63
747 750 5.656480 TCGGCGTATATGCATGTTGTATAT 58.344 37.500 18.41 0.00 38.77 0.86
748 751 5.061920 TCGGCGTATATGCATGTTGTATA 57.938 39.130 18.41 0.00 36.28 1.47
749 752 3.920446 TCGGCGTATATGCATGTTGTAT 58.080 40.909 18.41 0.00 36.28 2.29
750 753 3.313690 CTCGGCGTATATGCATGTTGTA 58.686 45.455 18.41 0.00 36.28 2.41
751 754 2.135139 CTCGGCGTATATGCATGTTGT 58.865 47.619 18.41 0.00 36.28 3.32
752 755 1.460743 CCTCGGCGTATATGCATGTTG 59.539 52.381 18.41 0.00 36.28 3.33
753 756 1.608025 CCCTCGGCGTATATGCATGTT 60.608 52.381 18.41 0.00 36.28 2.71
754 757 0.037326 CCCTCGGCGTATATGCATGT 60.037 55.000 18.41 5.06 36.28 3.21
755 758 0.246360 TCCCTCGGCGTATATGCATG 59.754 55.000 18.41 10.20 36.28 4.06
756 759 1.195115 ATCCCTCGGCGTATATGCAT 58.805 50.000 18.41 3.79 36.28 3.96
757 760 1.842052 TATCCCTCGGCGTATATGCA 58.158 50.000 18.41 0.00 36.28 3.96
758 761 2.953466 TTATCCCTCGGCGTATATGC 57.047 50.000 6.85 8.51 0.00 3.14
759 762 4.098044 AGTCATTATCCCTCGGCGTATATG 59.902 45.833 6.85 3.03 0.00 1.78
760 763 4.279145 AGTCATTATCCCTCGGCGTATAT 58.721 43.478 6.85 0.00 0.00 0.86
761 764 3.693807 AGTCATTATCCCTCGGCGTATA 58.306 45.455 6.85 0.00 0.00 1.47
762 765 2.526432 AGTCATTATCCCTCGGCGTAT 58.474 47.619 6.85 0.00 0.00 3.06
763 766 1.991121 AGTCATTATCCCTCGGCGTA 58.009 50.000 6.85 0.00 0.00 4.42
764 767 1.120530 AAGTCATTATCCCTCGGCGT 58.879 50.000 6.85 0.00 0.00 5.68
765 768 2.240493 AAAGTCATTATCCCTCGGCG 57.760 50.000 0.00 0.00 0.00 6.46
766 769 6.371825 CCTAATAAAAGTCATTATCCCTCGGC 59.628 42.308 0.00 0.00 0.00 5.54
767 770 7.676947 TCCTAATAAAAGTCATTATCCCTCGG 58.323 38.462 0.00 0.00 0.00 4.63
768 771 9.555727 TTTCCTAATAAAAGTCATTATCCCTCG 57.444 33.333 0.00 0.00 0.00 4.63
789 792 8.951787 TGCATTTATTACACGTAGTATTTCCT 57.048 30.769 0.00 0.00 41.61 3.36
790 793 8.823818 ACTGCATTTATTACACGTAGTATTTCC 58.176 33.333 0.00 0.00 41.61 3.13
793 796 9.982291 CAAACTGCATTTATTACACGTAGTATT 57.018 29.630 0.00 0.00 41.61 1.89
794 797 9.158233 ACAAACTGCATTTATTACACGTAGTAT 57.842 29.630 0.00 0.00 41.61 2.12
795 798 8.436970 CACAAACTGCATTTATTACACGTAGTA 58.563 33.333 0.00 0.00 41.61 1.82
797 800 6.740905 CCACAAACTGCATTTATTACACGTAG 59.259 38.462 0.00 0.00 0.00 3.51
798 801 6.427242 TCCACAAACTGCATTTATTACACGTA 59.573 34.615 0.00 0.00 0.00 3.57
799 802 5.239744 TCCACAAACTGCATTTATTACACGT 59.760 36.000 0.00 0.00 0.00 4.49
800 803 5.694816 TCCACAAACTGCATTTATTACACG 58.305 37.500 0.00 0.00 0.00 4.49
801 804 6.751888 GGATCCACAAACTGCATTTATTACAC 59.248 38.462 6.95 0.00 0.00 2.90
802 805 6.435591 TGGATCCACAAACTGCATTTATTACA 59.564 34.615 11.44 0.00 0.00 2.41
803 806 6.862209 TGGATCCACAAACTGCATTTATTAC 58.138 36.000 11.44 0.00 0.00 1.89
804 807 6.889177 TCTGGATCCACAAACTGCATTTATTA 59.111 34.615 11.44 0.00 0.00 0.98
805 808 5.716228 TCTGGATCCACAAACTGCATTTATT 59.284 36.000 11.44 0.00 0.00 1.40
806 809 5.263599 TCTGGATCCACAAACTGCATTTAT 58.736 37.500 11.44 0.00 0.00 1.40
807 810 4.661222 TCTGGATCCACAAACTGCATTTA 58.339 39.130 11.44 0.00 0.00 1.40
808 811 3.499338 TCTGGATCCACAAACTGCATTT 58.501 40.909 11.44 0.00 0.00 2.32
809 812 3.087031 CTCTGGATCCACAAACTGCATT 58.913 45.455 11.44 0.00 0.00 3.56
810 813 2.619849 CCTCTGGATCCACAAACTGCAT 60.620 50.000 11.44 0.00 0.00 3.96
811 814 1.271543 CCTCTGGATCCACAAACTGCA 60.272 52.381 11.44 0.00 0.00 4.41
812 815 1.457346 CCTCTGGATCCACAAACTGC 58.543 55.000 11.44 0.00 0.00 4.40
813 816 1.630369 TCCCTCTGGATCCACAAACTG 59.370 52.381 11.44 0.00 35.03 3.16
814 817 1.912043 CTCCCTCTGGATCCACAAACT 59.088 52.381 11.44 0.00 40.80 2.66
815 818 1.065126 CCTCCCTCTGGATCCACAAAC 60.065 57.143 11.44 0.00 40.80 2.93
816 819 1.203428 TCCTCCCTCTGGATCCACAAA 60.203 52.381 11.44 0.00 40.80 2.83
817 820 0.417437 TCCTCCCTCTGGATCCACAA 59.583 55.000 11.44 0.59 40.80 3.33
818 821 0.644380 ATCCTCCCTCTGGATCCACA 59.356 55.000 11.44 0.00 39.96 4.17
819 822 2.635427 GTTATCCTCCCTCTGGATCCAC 59.365 54.545 11.44 0.00 42.74 4.02
820 823 2.756576 CGTTATCCTCCCTCTGGATCCA 60.757 54.545 15.27 15.27 42.74 3.41
821 824 1.896465 CGTTATCCTCCCTCTGGATCC 59.104 57.143 4.20 4.20 42.74 3.36
822 825 1.896465 CCGTTATCCTCCCTCTGGATC 59.104 57.143 0.00 0.00 42.74 3.36
823 826 1.220750 ACCGTTATCCTCCCTCTGGAT 59.779 52.381 0.00 0.00 45.37 3.41
824 827 0.635009 ACCGTTATCCTCCCTCTGGA 59.365 55.000 0.00 0.00 38.75 3.86
825 828 0.753262 CACCGTTATCCTCCCTCTGG 59.247 60.000 0.00 0.00 0.00 3.86
826 829 0.753262 CCACCGTTATCCTCCCTCTG 59.247 60.000 0.00 0.00 0.00 3.35
827 830 0.398664 CCCACCGTTATCCTCCCTCT 60.399 60.000 0.00 0.00 0.00 3.69
828 831 1.408453 CCCCACCGTTATCCTCCCTC 61.408 65.000 0.00 0.00 0.00 4.30
829 832 1.384082 CCCCACCGTTATCCTCCCT 60.384 63.158 0.00 0.00 0.00 4.20
830 833 0.767060 ATCCCCACCGTTATCCTCCC 60.767 60.000 0.00 0.00 0.00 4.30
831 834 2.019807 TATCCCCACCGTTATCCTCC 57.980 55.000 0.00 0.00 0.00 4.30
832 835 4.607239 TCTATATCCCCACCGTTATCCTC 58.393 47.826 0.00 0.00 0.00 3.71
833 836 4.294168 TCTCTATATCCCCACCGTTATCCT 59.706 45.833 0.00 0.00 0.00 3.24
834 837 4.401837 GTCTCTATATCCCCACCGTTATCC 59.598 50.000 0.00 0.00 0.00 2.59
835 838 4.096081 CGTCTCTATATCCCCACCGTTATC 59.904 50.000 0.00 0.00 0.00 1.75
836 839 4.015084 CGTCTCTATATCCCCACCGTTAT 58.985 47.826 0.00 0.00 0.00 1.89
837 840 3.181440 ACGTCTCTATATCCCCACCGTTA 60.181 47.826 0.00 0.00 0.00 3.18
838 841 2.236766 CGTCTCTATATCCCCACCGTT 58.763 52.381 0.00 0.00 0.00 4.44
839 842 1.144503 ACGTCTCTATATCCCCACCGT 59.855 52.381 0.00 0.00 0.00 4.83
840 843 1.540267 CACGTCTCTATATCCCCACCG 59.460 57.143 0.00 0.00 0.00 4.94
841 844 2.820787 CTCACGTCTCTATATCCCCACC 59.179 54.545 0.00 0.00 0.00 4.61
842 845 2.820787 CCTCACGTCTCTATATCCCCAC 59.179 54.545 0.00 0.00 0.00 4.61
843 846 2.225041 CCCTCACGTCTCTATATCCCCA 60.225 54.545 0.00 0.00 0.00 4.96
844 847 2.225066 ACCCTCACGTCTCTATATCCCC 60.225 54.545 0.00 0.00 0.00 4.81
845 848 2.820787 CACCCTCACGTCTCTATATCCC 59.179 54.545 0.00 0.00 0.00 3.85
846 849 3.488363 ACACCCTCACGTCTCTATATCC 58.512 50.000 0.00 0.00 0.00 2.59
847 850 3.186817 CGACACCCTCACGTCTCTATATC 59.813 52.174 0.00 0.00 0.00 1.63
848 851 3.139850 CGACACCCTCACGTCTCTATAT 58.860 50.000 0.00 0.00 0.00 0.86
849 852 2.093288 ACGACACCCTCACGTCTCTATA 60.093 50.000 0.00 0.00 35.33 1.31
850 853 1.339824 ACGACACCCTCACGTCTCTAT 60.340 52.381 0.00 0.00 35.33 1.98
851 854 0.035881 ACGACACCCTCACGTCTCTA 59.964 55.000 0.00 0.00 35.33 2.43
852 855 1.228184 ACGACACCCTCACGTCTCT 60.228 57.895 0.00 0.00 35.33 3.10
853 856 3.352524 ACGACACCCTCACGTCTC 58.647 61.111 0.00 0.00 35.33 3.36
856 859 2.520020 TGGACGACACCCTCACGT 60.520 61.111 0.00 0.00 42.84 4.49
857 860 2.049433 GTGGACGACACCCTCACG 60.049 66.667 0.00 0.00 44.49 4.35
867 870 3.389925 AATAGTCGTTTTGGTGGACGA 57.610 42.857 0.00 0.00 45.01 4.20
868 871 3.805823 CAAATAGTCGTTTTGGTGGACG 58.194 45.455 0.00 0.00 40.43 4.79
869 872 3.252458 AGCAAATAGTCGTTTTGGTGGAC 59.748 43.478 0.57 0.00 41.69 4.02
870 873 3.482436 AGCAAATAGTCGTTTTGGTGGA 58.518 40.909 0.57 0.00 41.69 4.02
871 874 3.365969 GGAGCAAATAGTCGTTTTGGTGG 60.366 47.826 5.67 0.00 42.87 4.61
872 875 3.252215 TGGAGCAAATAGTCGTTTTGGTG 59.748 43.478 5.67 0.00 42.87 4.17
873 876 3.482436 TGGAGCAAATAGTCGTTTTGGT 58.518 40.909 0.95 0.95 44.80 3.67
874 877 4.701956 ATGGAGCAAATAGTCGTTTTGG 57.298 40.909 0.00 0.00 35.18 3.28
875 878 5.460646 ACAATGGAGCAAATAGTCGTTTTG 58.539 37.500 0.00 0.00 37.18 2.44
876 879 5.335661 GGACAATGGAGCAAATAGTCGTTTT 60.336 40.000 0.00 0.00 0.00 2.43
877 880 4.156008 GGACAATGGAGCAAATAGTCGTTT 59.844 41.667 0.00 0.00 0.00 3.60
878 881 3.689649 GGACAATGGAGCAAATAGTCGTT 59.310 43.478 0.00 0.00 0.00 3.85
879 882 3.270877 GGACAATGGAGCAAATAGTCGT 58.729 45.455 0.00 0.00 0.00 4.34
880 883 3.270027 TGGACAATGGAGCAAATAGTCG 58.730 45.455 0.00 0.00 0.00 4.18
881 884 5.585390 CATTGGACAATGGAGCAAATAGTC 58.415 41.667 15.46 0.00 43.25 2.59
882 885 5.587388 CATTGGACAATGGAGCAAATAGT 57.413 39.130 15.46 0.00 43.25 2.12
894 897 6.942532 ATAAATAGACGCACATTGGACAAT 57.057 33.333 0.00 0.00 0.00 2.71
914 917 4.342772 GACGAAACTAACGCCTCGTATAA 58.657 43.478 0.00 0.00 44.05 0.98
958 961 4.026744 ACAGATCGATTCTCTTCCTCCAA 58.973 43.478 0.00 0.00 29.93 3.53
989 992 2.264480 CCGTCATCGCAACCTCCA 59.736 61.111 0.00 0.00 35.54 3.86
1070 1076 1.301322 TGCTTGGTGATTCGCGTGA 60.301 52.632 5.77 0.00 0.00 4.35
1217 1223 4.554363 CGAGCTCGTCGCGGGAAT 62.554 66.667 27.79 0.00 43.03 3.01
1483 1489 3.190535 CCAAAGGATTTCGGTGAAACGAT 59.809 43.478 0.00 0.00 43.11 3.73
1491 1497 1.677633 CGGGCCAAAGGATTTCGGT 60.678 57.895 4.39 0.00 35.03 4.69
1573 2336 1.209019 CCTGTCCTTGGTCATCCTCTG 59.791 57.143 0.00 0.00 34.23 3.35
1722 2485 3.009695 TGAAGTTAACCGTCCATCCCAAT 59.990 43.478 0.88 0.00 0.00 3.16
1726 2489 5.441709 TTTTTGAAGTTAACCGTCCATCC 57.558 39.130 0.88 0.00 0.00 3.51
1755 2524 2.278596 CACATCGAGTACCGCGGG 60.279 66.667 31.76 11.50 38.37 6.13
1758 2527 0.249073 AGATGCACATCGAGTACCGC 60.249 55.000 5.04 0.00 42.48 5.68
1981 2750 0.834261 TCCTCCACCATGTCCGACAA 60.834 55.000 5.07 0.00 0.00 3.18
2090 2859 5.013568 TCCATATATTTTCGTCGTGGTGT 57.986 39.130 0.00 0.00 0.00 4.16
2179 2960 1.289066 CACCTGACGCCTCTTCGAA 59.711 57.895 0.00 0.00 0.00 3.71
2322 3144 4.361451 TCTTATTGTTACTCCCGTCGAC 57.639 45.455 5.18 5.18 0.00 4.20
2328 3150 6.884836 AGAACAACCATCTTATTGTTACTCCC 59.115 38.462 2.54 0.00 46.40 4.30
2329 3151 7.923414 AGAACAACCATCTTATTGTTACTCC 57.077 36.000 2.54 0.00 46.40 3.85
2357 3179 6.738832 AAGCGGGTAGAAGATAAACTTTTC 57.261 37.500 0.00 0.00 39.13 2.29
2568 3712 3.056328 GCCTCAGTTGCGGGGAAC 61.056 66.667 0.00 0.00 0.00 3.62
2569 3713 3.565214 TGCCTCAGTTGCGGGGAA 61.565 61.111 0.00 0.00 0.00 3.97
2570 3714 4.329545 GTGCCTCAGTTGCGGGGA 62.330 66.667 0.00 0.00 0.00 4.81
2571 3715 4.641645 TGTGCCTCAGTTGCGGGG 62.642 66.667 0.00 0.00 0.00 5.73
2572 3716 3.357079 GTGTGCCTCAGTTGCGGG 61.357 66.667 0.00 0.00 0.00 6.13
2573 3717 2.591429 TGTGTGCCTCAGTTGCGG 60.591 61.111 0.00 0.00 0.00 5.69
2574 3718 2.633657 GTGTGTGCCTCAGTTGCG 59.366 61.111 0.00 0.00 0.00 4.85
2575 3719 2.633657 CGTGTGTGCCTCAGTTGC 59.366 61.111 0.00 0.00 0.00 4.17
2576 3720 1.227527 TCCGTGTGTGCCTCAGTTG 60.228 57.895 0.00 0.00 0.00 3.16
2577 3721 1.227556 GTCCGTGTGTGCCTCAGTT 60.228 57.895 0.00 0.00 0.00 3.16
2578 3722 1.758440 ATGTCCGTGTGTGCCTCAGT 61.758 55.000 0.00 0.00 0.00 3.41
2579 3723 1.004560 ATGTCCGTGTGTGCCTCAG 60.005 57.895 0.00 0.00 0.00 3.35
2580 3724 1.005037 GATGTCCGTGTGTGCCTCA 60.005 57.895 0.00 0.00 0.00 3.86
2581 3725 2.094659 CGATGTCCGTGTGTGCCTC 61.095 63.158 0.00 0.00 0.00 4.70
2582 3726 2.048222 CGATGTCCGTGTGTGCCT 60.048 61.111 0.00 0.00 0.00 4.75
2583 3727 3.788766 GCGATGTCCGTGTGTGCC 61.789 66.667 0.00 0.00 41.15 5.01
2584 3728 2.730672 GAGCGATGTCCGTGTGTGC 61.731 63.158 0.00 0.00 41.15 4.57
2992 4144 4.019312 TGCAGCTCCACATGGCGA 62.019 61.111 0.00 0.00 34.44 5.54
3236 4393 3.406200 AGCCGCCAAGCCAGATCT 61.406 61.111 0.00 0.00 0.00 2.75


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

AutoCloner maintained by Alex Coulton.