Multiple sequence alignment - TraesCS2A01G378700

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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 TraesCS2A01G378700 chr2A 100.000 2754 0 0 1 2754 621483668 621480915 0.000000e+00 5086
1 TraesCS2A01G378700 chr2A 94.586 314 17 0 556 869 776394362 776394049 1.150000e-133 486
2 TraesCS2A01G378700 chr2A 94.025 318 16 3 555 870 215118495 215118811 1.920000e-131 479
3 TraesCS2A01G378700 chr2B 93.027 1893 89 17 882 2754 561230047 561228178 0.000000e+00 2724
4 TraesCS2A01G378700 chr2B 85.947 491 60 5 1 489 561231321 561230838 1.460000e-142 516
5 TraesCS2A01G378700 chr2D 94.826 1063 43 8 882 1943 478702733 478703784 0.000000e+00 1648
6 TraesCS2A01G378700 chr2D 96.687 815 24 2 1943 2754 478703823 478704637 0.000000e+00 1352
7 TraesCS2A01G378700 chr2D 87.045 494 55 8 1 489 478702127 478702616 1.440000e-152 549
8 TraesCS2A01G378700 chr2D 93.750 80 3 1 483 560 478702635 478702714 4.820000e-23 119
9 TraesCS2A01G378700 chr6A 96.508 315 9 2 557 870 124436005 124435692 1.130000e-143 520
10 TraesCS2A01G378700 chr6A 96.486 313 10 1 555 866 1890613 1890301 1.460000e-142 516
11 TraesCS2A01G378700 chr6A 94.637 317 13 4 554 869 115322980 115322667 3.190000e-134 488
12 TraesCS2A01G378700 chr6A 93.458 321 19 2 555 875 436120156 436119838 2.480000e-130 475
13 TraesCS2A01G378700 chr7A 95.765 307 10 3 562 867 630041040 630041344 2.460000e-135 492
14 TraesCS2A01G378700 chr7A 94.551 312 17 0 558 869 122913250 122912939 1.480000e-132 483
15 TraesCS2A01G378700 chr4A 94.855 311 15 1 557 866 578150272 578150582 4.120000e-133 484


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 TraesCS2A01G378700 chr2A 621480915 621483668 2753 True 5086 5086 100.000 1 2754 1 chr2A.!!$R1 2753
1 TraesCS2A01G378700 chr2B 561228178 561231321 3143 True 1620 2724 89.487 1 2754 2 chr2B.!!$R1 2753
2 TraesCS2A01G378700 chr2D 478702127 478704637 2510 False 917 1648 93.077 1 2754 4 chr2D.!!$F1 2753

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
246 250 0.031449 GCTTCCTTCCCGAGAGATCG 59.969 60.0 0.0 0.0 0.0 3.69 F
1018 1724 0.863799 CATGGCTACTATGCTGTGCG 59.136 55.0 0.0 0.0 0.0 5.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1624 2339 0.323957 AGAGCAGAGCAATGTCAGCA 59.676 50.0 0.00 0.00 31.61 4.41 R
2162 2939 0.527113 TTCATCGGTAGTTCGGCGAA 59.473 50.0 19.83 19.83 0.00 4.70 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
77 79 4.129380 CCATTGTCAGATTTAGGCATCGA 58.871 43.478 0.00 0.00 0.00 3.59
96 98 1.732259 GAAAGCCCATCACTACACACG 59.268 52.381 0.00 0.00 0.00 4.49
124 126 0.557238 TGCCATCCATTGCTACCCAT 59.443 50.000 0.00 0.00 0.00 4.00
204 207 1.210155 GTGTCGCACCATTTGAGGC 59.790 57.895 0.00 0.00 0.00 4.70
205 208 1.971167 TGTCGCACCATTTGAGGCC 60.971 57.895 0.00 0.00 0.00 5.19
230 233 1.028868 GCCTTGCGATTGGAGAGCTT 61.029 55.000 0.00 0.00 0.00 3.74
234 238 0.615331 TGCGATTGGAGAGCTTCCTT 59.385 50.000 13.76 4.43 46.92 3.36
246 250 0.031449 GCTTCCTTCCCGAGAGATCG 59.969 60.000 0.00 0.00 0.00 3.69
252 256 3.983494 CCCGAGAGATCGCCGCAT 61.983 66.667 0.00 0.00 0.00 4.73
275 279 4.937431 GGCATCCCTACCAGCGGC 62.937 72.222 0.00 0.00 0.00 6.53
311 315 0.966920 GAGGAGACGACCAGGTTTCA 59.033 55.000 0.00 0.00 0.00 2.69
355 359 4.523083 TGTTTCCCTCCATTGCATACTAC 58.477 43.478 0.00 0.00 0.00 2.73
413 417 2.614259 AGACCATATCCGGAGATGCTT 58.386 47.619 29.70 19.79 33.67 3.91
428 432 5.106791 GGAGATGCTTTGATGGAATATGACG 60.107 44.000 0.00 0.00 0.00 4.35
430 434 3.277715 TGCTTTGATGGAATATGACGCA 58.722 40.909 0.00 0.00 0.00 5.24
432 436 3.065233 GCTTTGATGGAATATGACGCACA 59.935 43.478 0.00 0.00 0.00 4.57
479 485 1.249407 GGAACCACAACGGGCAATTA 58.751 50.000 0.00 0.00 40.22 1.40
483 489 1.822371 ACCACAACGGGCAATTAATCC 59.178 47.619 0.00 0.00 40.22 3.01
489 495 4.082245 ACAACGGGCAATTAATCCTCTTTG 60.082 41.667 0.00 0.00 0.00 2.77
491 497 3.694566 ACGGGCAATTAATCCTCTTTGTC 59.305 43.478 0.00 0.00 0.00 3.18
492 498 3.242739 CGGGCAATTAATCCTCTTTGTCG 60.243 47.826 0.00 0.00 0.00 4.35
493 499 3.945285 GGGCAATTAATCCTCTTTGTCGA 59.055 43.478 0.00 0.00 0.00 4.20
508 541 8.507249 CCTCTTTGTCGATTCATTAAAGAAACT 58.493 33.333 0.00 0.00 37.05 2.66
550 585 6.016555 AGGTTATAGCAAAACAGGGAAACAT 58.983 36.000 0.00 0.00 0.00 2.71
571 606 1.839424 CCCAACTAAGGGCTCCTTTG 58.161 55.000 11.15 11.48 41.69 2.77
573 608 2.024941 CCCAACTAAGGGCTCCTTTGAT 60.025 50.000 17.52 7.18 41.69 2.57
574 609 3.564352 CCCAACTAAGGGCTCCTTTGATT 60.564 47.826 17.52 8.71 41.69 2.57
575 610 3.696548 CCAACTAAGGGCTCCTTTGATTC 59.303 47.826 17.52 0.00 41.69 2.52
577 612 4.657814 ACTAAGGGCTCCTTTGATTCAA 57.342 40.909 17.52 0.00 41.69 2.69
578 613 4.998051 ACTAAGGGCTCCTTTGATTCAAA 58.002 39.130 17.52 11.19 41.69 2.69
646 681 8.731275 TTTTTCTATATCGGCTCTTTGATTCA 57.269 30.769 0.00 0.00 0.00 2.57
647 682 8.908786 TTTTCTATATCGGCTCTTTGATTCAT 57.091 30.769 0.00 0.00 0.00 2.57
648 683 9.996554 TTTTCTATATCGGCTCTTTGATTCATA 57.003 29.630 0.00 0.00 0.00 2.15
649 684 9.645059 TTTCTATATCGGCTCTTTGATTCATAG 57.355 33.333 0.00 0.00 0.00 2.23
650 685 7.776107 TCTATATCGGCTCTTTGATTCATAGG 58.224 38.462 4.57 0.00 0.00 2.57
651 686 4.963318 ATCGGCTCTTTGATTCATAGGA 57.037 40.909 4.57 0.00 0.00 2.94
652 687 4.963318 TCGGCTCTTTGATTCATAGGAT 57.037 40.909 4.57 0.00 0.00 3.24
653 688 5.296151 TCGGCTCTTTGATTCATAGGATT 57.704 39.130 4.57 0.00 0.00 3.01
654 689 5.059161 TCGGCTCTTTGATTCATAGGATTG 58.941 41.667 4.57 0.00 0.00 2.67
655 690 4.214971 CGGCTCTTTGATTCATAGGATTGG 59.785 45.833 4.57 0.00 0.00 3.16
656 691 5.380043 GGCTCTTTGATTCATAGGATTGGA 58.620 41.667 4.57 0.00 0.00 3.53
657 692 6.008960 GGCTCTTTGATTCATAGGATTGGAT 58.991 40.000 4.57 0.00 0.00 3.41
658 693 6.150809 GGCTCTTTGATTCATAGGATTGGATC 59.849 42.308 4.57 0.00 32.97 3.36
722 757 9.847224 TTTTATAGGAAATCTAACATCCACTCC 57.153 33.333 0.00 0.00 35.62 3.85
723 758 8.561536 TTATAGGAAATCTAACATCCACTCCA 57.438 34.615 0.00 0.00 35.62 3.86
724 759 5.779241 AGGAAATCTAACATCCACTCCAA 57.221 39.130 0.00 0.00 35.62 3.53
725 760 5.501156 AGGAAATCTAACATCCACTCCAAC 58.499 41.667 0.00 0.00 35.62 3.77
726 761 4.640647 GGAAATCTAACATCCACTCCAACC 59.359 45.833 0.00 0.00 33.30 3.77
727 762 5.501156 GAAATCTAACATCCACTCCAACCT 58.499 41.667 0.00 0.00 0.00 3.50
728 763 4.762289 ATCTAACATCCACTCCAACCTC 57.238 45.455 0.00 0.00 0.00 3.85
729 764 3.791320 TCTAACATCCACTCCAACCTCT 58.209 45.455 0.00 0.00 0.00 3.69
730 765 4.168101 TCTAACATCCACTCCAACCTCTT 58.832 43.478 0.00 0.00 0.00 2.85
731 766 3.884037 AACATCCACTCCAACCTCTTT 57.116 42.857 0.00 0.00 0.00 2.52
732 767 3.884037 ACATCCACTCCAACCTCTTTT 57.116 42.857 0.00 0.00 0.00 2.27
733 768 4.184649 ACATCCACTCCAACCTCTTTTT 57.815 40.909 0.00 0.00 0.00 1.94
734 769 5.319043 ACATCCACTCCAACCTCTTTTTA 57.681 39.130 0.00 0.00 0.00 1.52
735 770 5.070685 ACATCCACTCCAACCTCTTTTTAC 58.929 41.667 0.00 0.00 0.00 2.01
736 771 4.781775 TCCACTCCAACCTCTTTTTACA 57.218 40.909 0.00 0.00 0.00 2.41
737 772 5.118729 TCCACTCCAACCTCTTTTTACAA 57.881 39.130 0.00 0.00 0.00 2.41
738 773 5.701224 TCCACTCCAACCTCTTTTTACAAT 58.299 37.500 0.00 0.00 0.00 2.71
739 774 6.133356 TCCACTCCAACCTCTTTTTACAATT 58.867 36.000 0.00 0.00 0.00 2.32
740 775 6.264518 TCCACTCCAACCTCTTTTTACAATTC 59.735 38.462 0.00 0.00 0.00 2.17
741 776 6.447162 CACTCCAACCTCTTTTTACAATTCC 58.553 40.000 0.00 0.00 0.00 3.01
742 777 6.265422 CACTCCAACCTCTTTTTACAATTCCT 59.735 38.462 0.00 0.00 0.00 3.36
743 778 6.839134 ACTCCAACCTCTTTTTACAATTCCTT 59.161 34.615 0.00 0.00 0.00 3.36
744 779 7.344612 ACTCCAACCTCTTTTTACAATTCCTTT 59.655 33.333 0.00 0.00 0.00 3.11
745 780 7.496747 TCCAACCTCTTTTTACAATTCCTTTG 58.503 34.615 0.00 0.00 41.36 2.77
747 782 7.768582 CCAACCTCTTTTTACAATTCCTTTGTT 59.231 33.333 0.00 0.00 46.51 2.83
748 783 9.161629 CAACCTCTTTTTACAATTCCTTTGTTT 57.838 29.630 0.00 0.00 46.51 2.83
749 784 9.733556 AACCTCTTTTTACAATTCCTTTGTTTT 57.266 25.926 0.00 0.00 46.51 2.43
750 785 9.733556 ACCTCTTTTTACAATTCCTTTGTTTTT 57.266 25.926 0.00 0.00 46.51 1.94
757 792 9.658799 TTTACAATTCCTTTGTTTTTCATGTGA 57.341 25.926 0.00 0.00 46.51 3.58
758 793 7.538303 ACAATTCCTTTGTTTTTCATGTGAC 57.462 32.000 0.00 0.00 46.51 3.67
759 794 7.102346 ACAATTCCTTTGTTTTTCATGTGACA 58.898 30.769 0.00 0.00 46.51 3.58
760 795 7.769970 ACAATTCCTTTGTTTTTCATGTGACAT 59.230 29.630 0.00 0.00 46.51 3.06
761 796 7.951530 ATTCCTTTGTTTTTCATGTGACATC 57.048 32.000 0.00 0.00 0.00 3.06
762 797 6.462552 TCCTTTGTTTTTCATGTGACATCA 57.537 33.333 0.00 0.00 0.00 3.07
763 798 6.871844 TCCTTTGTTTTTCATGTGACATCAA 58.128 32.000 0.00 0.00 0.00 2.57
764 799 7.326454 TCCTTTGTTTTTCATGTGACATCAAA 58.674 30.769 0.00 0.00 0.00 2.69
765 800 7.277539 TCCTTTGTTTTTCATGTGACATCAAAC 59.722 33.333 13.64 13.64 0.00 2.93
766 801 7.064371 CCTTTGTTTTTCATGTGACATCAAACA 59.936 33.333 17.03 17.03 0.00 2.83
767 802 6.884096 TGTTTTTCATGTGACATCAAACAC 57.116 33.333 17.03 11.80 37.51 3.32
768 803 6.629128 TGTTTTTCATGTGACATCAAACACT 58.371 32.000 17.03 0.00 37.81 3.55
769 804 6.751425 TGTTTTTCATGTGACATCAAACACTC 59.249 34.615 17.03 2.37 37.81 3.51
770 805 6.698008 TTTTCATGTGACATCAAACACTCT 57.302 33.333 0.00 0.00 37.81 3.24
771 806 6.698008 TTTCATGTGACATCAAACACTCTT 57.302 33.333 0.00 0.00 37.81 2.85
772 807 6.698008 TTCATGTGACATCAAACACTCTTT 57.302 33.333 0.00 0.00 37.81 2.52
773 808 6.063640 TCATGTGACATCAAACACTCTTTG 57.936 37.500 0.00 0.00 37.81 2.77
774 809 4.291540 TGTGACATCAAACACTCTTTGC 57.708 40.909 0.00 0.00 37.81 3.68
775 810 3.947196 TGTGACATCAAACACTCTTTGCT 59.053 39.130 0.00 0.00 37.81 3.91
776 811 5.122519 TGTGACATCAAACACTCTTTGCTA 58.877 37.500 0.00 0.00 37.81 3.49
777 812 5.588246 TGTGACATCAAACACTCTTTGCTAA 59.412 36.000 0.00 0.00 37.81 3.09
778 813 6.262944 TGTGACATCAAACACTCTTTGCTAAT 59.737 34.615 0.00 0.00 37.81 1.73
779 814 6.798959 GTGACATCAAACACTCTTTGCTAATC 59.201 38.462 0.00 0.00 34.65 1.75
780 815 6.072508 TGACATCAAACACTCTTTGCTAATCC 60.073 38.462 0.00 0.00 0.00 3.01
781 816 6.006449 ACATCAAACACTCTTTGCTAATCCT 58.994 36.000 0.00 0.00 0.00 3.24
782 817 7.168219 ACATCAAACACTCTTTGCTAATCCTA 58.832 34.615 0.00 0.00 0.00 2.94
783 818 7.831193 ACATCAAACACTCTTTGCTAATCCTAT 59.169 33.333 0.00 0.00 0.00 2.57
784 819 9.330063 CATCAAACACTCTTTGCTAATCCTATA 57.670 33.333 0.00 0.00 0.00 1.31
785 820 8.948631 TCAAACACTCTTTGCTAATCCTATAG 57.051 34.615 0.00 0.00 0.00 1.31
786 821 7.987458 TCAAACACTCTTTGCTAATCCTATAGG 59.013 37.037 13.07 13.07 0.00 2.57
802 837 6.291377 TCCTATAGGATTCAAGTTGACATGC 58.709 40.000 18.00 8.02 39.78 4.06
803 838 5.471456 CCTATAGGATTCAAGTTGACATGCC 59.529 44.000 14.11 4.86 37.39 4.40
804 839 3.159213 AGGATTCAAGTTGACATGCCA 57.841 42.857 4.68 0.00 0.00 4.92
805 840 2.821969 AGGATTCAAGTTGACATGCCAC 59.178 45.455 4.68 0.00 0.00 5.01
806 841 2.821969 GGATTCAAGTTGACATGCCACT 59.178 45.455 4.68 0.00 0.00 4.00
807 842 3.366679 GGATTCAAGTTGACATGCCACTG 60.367 47.826 4.68 0.00 0.00 3.66
808 843 0.953727 TCAAGTTGACATGCCACTGC 59.046 50.000 0.08 0.00 38.26 4.40
820 855 3.931907 TGCCACTGCAATCCTATACTT 57.068 42.857 0.00 0.00 46.66 2.24
821 856 4.235079 TGCCACTGCAATCCTATACTTT 57.765 40.909 0.00 0.00 46.66 2.66
822 857 4.599041 TGCCACTGCAATCCTATACTTTT 58.401 39.130 0.00 0.00 46.66 2.27
823 858 4.640201 TGCCACTGCAATCCTATACTTTTC 59.360 41.667 0.00 0.00 46.66 2.29
824 859 4.640201 GCCACTGCAATCCTATACTTTTCA 59.360 41.667 0.00 0.00 37.47 2.69
825 860 5.300286 GCCACTGCAATCCTATACTTTTCAT 59.700 40.000 0.00 0.00 37.47 2.57
826 861 6.486657 GCCACTGCAATCCTATACTTTTCATA 59.513 38.462 0.00 0.00 37.47 2.15
827 862 7.175641 GCCACTGCAATCCTATACTTTTCATAT 59.824 37.037 0.00 0.00 37.47 1.78
828 863 9.071276 CCACTGCAATCCTATACTTTTCATATT 57.929 33.333 0.00 0.00 0.00 1.28
830 865 9.289782 ACTGCAATCCTATACTTTTCATATTCC 57.710 33.333 0.00 0.00 0.00 3.01
831 866 9.512588 CTGCAATCCTATACTTTTCATATTCCT 57.487 33.333 0.00 0.00 0.00 3.36
851 886 7.831691 TTCCTACATTTTCAAAATCCTGTGA 57.168 32.000 0.00 0.00 0.00 3.58
852 887 7.831691 TCCTACATTTTCAAAATCCTGTGAA 57.168 32.000 0.00 0.00 31.99 3.18
853 888 8.421249 TCCTACATTTTCAAAATCCTGTGAAT 57.579 30.769 0.00 0.00 33.90 2.57
854 889 8.522830 TCCTACATTTTCAAAATCCTGTGAATC 58.477 33.333 0.00 0.00 33.90 2.52
855 890 8.306038 CCTACATTTTCAAAATCCTGTGAATCA 58.694 33.333 0.00 0.00 33.90 2.57
856 891 9.695526 CTACATTTTCAAAATCCTGTGAATCAA 57.304 29.630 0.00 0.00 33.90 2.57
857 892 8.961294 ACATTTTCAAAATCCTGTGAATCAAA 57.039 26.923 0.00 0.00 33.90 2.69
858 893 9.048446 ACATTTTCAAAATCCTGTGAATCAAAG 57.952 29.630 0.00 0.00 33.90 2.77
859 894 9.263538 CATTTTCAAAATCCTGTGAATCAAAGA 57.736 29.630 1.15 0.00 33.90 2.52
860 895 8.876275 TTTTCAAAATCCTGTGAATCAAAGAG 57.124 30.769 1.15 0.00 33.90 2.85
861 896 6.579666 TCAAAATCCTGTGAATCAAAGAGG 57.420 37.500 1.15 0.05 0.00 3.69
862 897 5.047802 TCAAAATCCTGTGAATCAAAGAGGC 60.048 40.000 1.15 0.00 0.00 4.70
863 898 2.496899 TCCTGTGAATCAAAGAGGCC 57.503 50.000 1.15 0.00 0.00 5.19
864 899 1.004745 TCCTGTGAATCAAAGAGGCCC 59.995 52.381 1.15 0.00 0.00 5.80
865 900 1.005215 CCTGTGAATCAAAGAGGCCCT 59.995 52.381 1.15 0.00 0.00 5.19
866 901 2.239654 CCTGTGAATCAAAGAGGCCCTA 59.760 50.000 1.15 0.00 0.00 3.53
867 902 3.308402 CCTGTGAATCAAAGAGGCCCTAA 60.308 47.826 1.15 0.00 0.00 2.69
868 903 4.335416 CTGTGAATCAAAGAGGCCCTAAA 58.665 43.478 0.00 0.00 0.00 1.85
869 904 4.079253 TGTGAATCAAAGAGGCCCTAAAC 58.921 43.478 0.00 0.00 0.00 2.01
870 905 3.444034 GTGAATCAAAGAGGCCCTAAACC 59.556 47.826 0.00 0.00 0.00 3.27
871 906 3.333680 TGAATCAAAGAGGCCCTAAACCT 59.666 43.478 0.00 0.00 41.41 3.50
872 907 4.538490 TGAATCAAAGAGGCCCTAAACCTA 59.462 41.667 0.00 0.00 37.77 3.08
873 908 5.014755 TGAATCAAAGAGGCCCTAAACCTAA 59.985 40.000 0.00 0.00 37.77 2.69
874 909 5.530176 ATCAAAGAGGCCCTAAACCTAAA 57.470 39.130 0.00 0.00 37.77 1.85
875 910 4.659115 TCAAAGAGGCCCTAAACCTAAAC 58.341 43.478 0.00 0.00 37.77 2.01
876 911 3.733883 AAGAGGCCCTAAACCTAAACC 57.266 47.619 0.00 0.00 37.77 3.27
877 912 1.921049 AGAGGCCCTAAACCTAAACCC 59.079 52.381 0.00 0.00 37.77 4.11
878 913 1.637035 GAGGCCCTAAACCTAAACCCA 59.363 52.381 0.00 0.00 37.77 4.51
879 914 2.243994 GAGGCCCTAAACCTAAACCCAT 59.756 50.000 0.00 0.00 37.77 4.00
880 915 2.024369 AGGCCCTAAACCTAAACCCATG 60.024 50.000 0.00 0.00 35.10 3.66
892 927 2.307496 AACCCATGGCAATTCAGTCA 57.693 45.000 6.09 0.00 0.00 3.41
934 1640 3.182887 ACCTAAACCCATGGCAATTCA 57.817 42.857 6.09 0.00 0.00 2.57
998 1704 3.181479 TGACGAACCTTATCCTCGGAATG 60.181 47.826 0.00 0.00 36.90 2.67
1018 1724 0.863799 CATGGCTACTATGCTGTGCG 59.136 55.000 0.00 0.00 0.00 5.34
1124 1830 4.008933 ACTCGCCGCAAGCCTCTT 62.009 61.111 0.00 0.00 38.78 2.85
1164 1870 4.660938 ACCAAGCCCCCGAGCAAC 62.661 66.667 0.00 0.00 34.23 4.17
1624 2339 0.036105 TCTGACATTGCTCATGGCGT 60.036 50.000 0.00 0.00 45.35 5.68
1648 2363 2.149578 GACATTGCTCTGCTCTTGTGT 58.850 47.619 0.00 0.00 0.00 3.72
1686 2401 0.463474 GCCAGAGACAAGGATGAGCC 60.463 60.000 0.00 0.00 0.00 4.70
1708 2423 0.324943 AAGTGCAGGAATGCTACGGT 59.675 50.000 1.53 0.00 35.49 4.83
1744 2459 3.592059 CATTGACCAGATTTTTGCCAGG 58.408 45.455 0.00 0.00 0.00 4.45
1763 2478 4.380867 CCAGGATCATGTAGTTTTTGCACC 60.381 45.833 6.62 0.00 0.00 5.01
1821 2536 5.012328 AGACAAACTAGACATCCGGATTC 57.988 43.478 16.19 15.41 0.00 2.52
1842 2557 4.323417 TCACGTTTGCATACAAGGAGAAT 58.677 39.130 8.06 0.00 37.04 2.40
1912 2649 8.257830 GCTAGTTCTTATTAGCTTCTTGTTGT 57.742 34.615 0.00 0.00 39.30 3.32
1913 2650 8.722394 GCTAGTTCTTATTAGCTTCTTGTTGTT 58.278 33.333 0.00 0.00 39.30 2.83
1915 2652 7.363431 AGTTCTTATTAGCTTCTTGTTGTTGC 58.637 34.615 0.00 0.00 0.00 4.17
1916 2653 7.229506 AGTTCTTATTAGCTTCTTGTTGTTGCT 59.770 33.333 0.00 0.00 37.72 3.91
1917 2654 8.504005 GTTCTTATTAGCTTCTTGTTGTTGCTA 58.496 33.333 0.00 0.00 35.47 3.49
1918 2655 8.029642 TCTTATTAGCTTCTTGTTGTTGCTAC 57.970 34.615 0.00 0.00 36.19 3.58
1919 2656 7.659799 TCTTATTAGCTTCTTGTTGTTGCTACA 59.340 33.333 0.00 0.00 36.19 2.74
1920 2657 6.824305 ATTAGCTTCTTGTTGTTGCTACAT 57.176 33.333 0.81 0.00 36.19 2.29
1921 2658 4.756084 AGCTTCTTGTTGTTGCTACATC 57.244 40.909 0.81 1.97 33.44 3.06
1922 2659 4.392940 AGCTTCTTGTTGTTGCTACATCT 58.607 39.130 0.81 0.00 33.44 2.90
1923 2660 4.823989 AGCTTCTTGTTGTTGCTACATCTT 59.176 37.500 0.81 0.00 33.44 2.40
1924 2661 5.049129 AGCTTCTTGTTGTTGCTACATCTTC 60.049 40.000 0.81 0.00 33.44 2.87
1925 2662 5.049129 GCTTCTTGTTGTTGCTACATCTTCT 60.049 40.000 0.81 0.00 33.44 2.85
1926 2663 6.147821 GCTTCTTGTTGTTGCTACATCTTCTA 59.852 38.462 0.81 0.00 33.44 2.10
1927 2664 7.421530 TTCTTGTTGTTGCTACATCTTCTAC 57.578 36.000 0.81 0.00 33.44 2.59
1928 2665 6.759272 TCTTGTTGTTGCTACATCTTCTACT 58.241 36.000 0.81 0.00 33.44 2.57
1929 2666 7.892609 TCTTGTTGTTGCTACATCTTCTACTA 58.107 34.615 0.81 0.00 33.44 1.82
1930 2667 8.029522 TCTTGTTGTTGCTACATCTTCTACTAG 58.970 37.037 0.81 3.19 33.44 2.57
1931 2668 7.228314 TGTTGTTGCTACATCTTCTACTAGT 57.772 36.000 0.81 0.00 33.44 2.57
1995 2771 1.728971 CTGAAACCATCACTGCTCGAC 59.271 52.381 0.00 0.00 33.47 4.20
2220 2997 0.820891 CTGTGACCTGCTTTGGCTGT 60.821 55.000 0.00 0.00 39.59 4.40
2277 3054 4.616835 GCTATTTCCAAGAACTTGTGCCTG 60.617 45.833 12.54 0.00 38.85 4.85
2306 3083 6.544931 AGAAAGGTTACTTGGTAAGTTGGTTC 59.455 38.462 0.00 0.00 42.81 3.62
2319 3096 6.814146 GGTAAGTTGGTTCACTAGATCAAGAG 59.186 42.308 0.00 0.00 0.00 2.85
2320 3097 6.672266 AAGTTGGTTCACTAGATCAAGAGA 57.328 37.500 0.00 0.00 0.00 3.10
2481 3259 5.955959 TGTAAGATCTGGGAGCAAGTAACTA 59.044 40.000 0.00 0.00 0.00 2.24
2522 3300 0.908198 ACTCCCAACTGAGGCATCTC 59.092 55.000 0.00 0.00 40.36 2.75
2523 3301 0.179089 CTCCCAACTGAGGCATCTCG 60.179 60.000 0.00 0.00 42.79 4.04
2535 3313 1.745087 GGCATCTCGCTCATTTTTCCA 59.255 47.619 0.00 0.00 41.91 3.53
2556 3334 1.636988 GCATTTGGCTCATGCTGTTC 58.363 50.000 12.51 0.00 43.26 3.18
2642 3422 4.224433 GCAACTGAATTATGCATGGATCG 58.776 43.478 10.16 4.13 39.81 3.69
2712 3492 0.848942 CACGCGATTGAAGAGATCGG 59.151 55.000 15.93 2.20 44.80 4.18
2740 3520 5.982890 TTTTGAGCCTGGAAGAAATAAGG 57.017 39.130 0.00 0.00 34.07 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
35 36 4.043200 GCTTGGCGGCTGGTTGAC 62.043 66.667 11.43 0.00 0.00 3.18
77 79 1.346395 TCGTGTGTAGTGATGGGCTTT 59.654 47.619 0.00 0.00 0.00 3.51
96 98 2.837031 AATGGATGGCACGGGTGGTC 62.837 60.000 0.43 0.00 0.00 4.02
109 111 1.991121 CTGCATGGGTAGCAATGGAT 58.009 50.000 11.23 0.00 42.17 3.41
124 126 4.927782 GGTGGTGGTCGTGCTGCA 62.928 66.667 0.00 0.00 0.00 4.41
204 207 3.118454 AATCGCAAGGCACGACGG 61.118 61.111 0.00 0.00 43.23 4.79
205 208 2.096406 CAATCGCAAGGCACGACG 59.904 61.111 0.00 0.00 43.23 5.12
215 218 4.941609 GGAAGCTCTCCAATCGCA 57.058 55.556 9.31 0.00 44.67 5.10
230 233 1.828660 GGCGATCTCTCGGGAAGGA 60.829 63.158 0.00 0.00 45.15 3.36
246 250 2.550101 GGATGCCTTCTCATGCGGC 61.550 63.158 0.00 0.00 44.02 6.53
252 256 1.500474 CTGGTAGGGATGCCTTCTCA 58.500 55.000 12.53 6.89 0.00 3.27
275 279 1.379176 TCCTCTCCCTCAGCTGTCG 60.379 63.158 14.67 6.20 0.00 4.35
284 288 1.610873 GTCGTCTCCTCCTCTCCCT 59.389 63.158 0.00 0.00 0.00 4.20
311 315 1.424302 CCCATCTTCTGCATCTCCCAT 59.576 52.381 0.00 0.00 0.00 4.00
379 383 8.148351 CCGGATATGGTCTAATTGTTCTTAAGA 58.852 37.037 0.00 0.00 0.00 2.10
380 384 8.148351 TCCGGATATGGTCTAATTGTTCTTAAG 58.852 37.037 0.00 0.00 0.00 1.85
381 385 8.025270 TCCGGATATGGTCTAATTGTTCTTAA 57.975 34.615 0.00 0.00 0.00 1.85
382 386 7.507956 TCTCCGGATATGGTCTAATTGTTCTTA 59.492 37.037 3.57 0.00 0.00 2.10
400 404 1.770658 TCCATCAAAGCATCTCCGGAT 59.229 47.619 3.57 0.00 0.00 4.18
401 405 1.203237 TCCATCAAAGCATCTCCGGA 58.797 50.000 2.93 2.93 0.00 5.14
413 417 5.125356 AGAATGTGCGTCATATTCCATCAA 58.875 37.500 18.40 0.00 40.97 2.57
430 434 4.533815 TCCTCGGATACACACTAGAATGT 58.466 43.478 0.00 2.64 0.00 2.71
432 436 6.380274 TCTTTTCCTCGGATACACACTAGAAT 59.620 38.462 0.00 0.00 0.00 2.40
465 471 3.016736 AGAGGATTAATTGCCCGTTGTG 58.983 45.455 0.00 0.00 0.00 3.33
469 475 3.694566 GACAAAGAGGATTAATTGCCCGT 59.305 43.478 0.00 0.00 0.00 5.28
479 485 8.792830 TCTTTAATGAATCGACAAAGAGGATT 57.207 30.769 0.00 0.00 31.96 3.01
483 489 9.322776 CAGTTTCTTTAATGAATCGACAAAGAG 57.677 33.333 4.77 0.00 36.78 2.85
489 495 5.938322 TGGCAGTTTCTTTAATGAATCGAC 58.062 37.500 4.77 1.52 0.00 4.20
491 497 6.554419 TGATGGCAGTTTCTTTAATGAATCG 58.446 36.000 4.77 3.40 0.00 3.34
492 498 8.031277 ACTTGATGGCAGTTTCTTTAATGAATC 58.969 33.333 4.77 4.73 0.00 2.52
493 499 7.899973 ACTTGATGGCAGTTTCTTTAATGAAT 58.100 30.769 4.77 0.00 0.00 2.57
508 541 5.606348 AACCTTTGTAAAACTTGATGGCA 57.394 34.783 0.00 0.00 0.00 4.92
550 585 2.307686 CAAAGGAGCCCTTAGTTGGGTA 59.692 50.000 6.88 0.00 43.92 3.69
621 656 8.731275 TGAATCAAAGAGCCGATATAGAAAAA 57.269 30.769 0.00 0.00 0.00 1.94
622 657 8.908786 ATGAATCAAAGAGCCGATATAGAAAA 57.091 30.769 0.00 0.00 0.00 2.29
623 658 9.645059 CTATGAATCAAAGAGCCGATATAGAAA 57.355 33.333 0.00 0.00 0.00 2.52
624 659 8.253810 CCTATGAATCAAAGAGCCGATATAGAA 58.746 37.037 0.00 0.00 0.00 2.10
625 660 7.615757 TCCTATGAATCAAAGAGCCGATATAGA 59.384 37.037 0.00 0.00 0.00 1.98
626 661 7.776107 TCCTATGAATCAAAGAGCCGATATAG 58.224 38.462 0.00 0.00 0.00 1.31
627 662 7.718334 TCCTATGAATCAAAGAGCCGATATA 57.282 36.000 0.00 0.00 0.00 0.86
628 663 6.611613 TCCTATGAATCAAAGAGCCGATAT 57.388 37.500 0.00 0.00 0.00 1.63
629 664 6.611613 ATCCTATGAATCAAAGAGCCGATA 57.388 37.500 0.00 0.00 0.00 2.92
630 665 4.963318 TCCTATGAATCAAAGAGCCGAT 57.037 40.909 0.00 0.00 0.00 4.18
631 666 4.963318 ATCCTATGAATCAAAGAGCCGA 57.037 40.909 0.00 0.00 0.00 5.54
632 667 4.214971 CCAATCCTATGAATCAAAGAGCCG 59.785 45.833 0.00 0.00 0.00 5.52
633 668 5.380043 TCCAATCCTATGAATCAAAGAGCC 58.620 41.667 0.00 0.00 0.00 4.70
634 669 6.150809 GGATCCAATCCTATGAATCAAAGAGC 59.849 42.308 6.95 0.00 46.19 4.09
635 670 7.684937 GGATCCAATCCTATGAATCAAAGAG 57.315 40.000 6.95 0.00 46.19 2.85
648 683 7.312824 GGATAAATTCCTATGGGATCCAATCCT 60.313 40.741 15.23 0.00 44.18 3.24
649 684 6.836007 GGATAAATTCCTATGGGATCCAATCC 59.164 42.308 15.23 10.62 44.09 3.01
650 685 7.888250 GGATAAATTCCTATGGGATCCAATC 57.112 40.000 15.23 6.26 41.87 2.67
696 731 9.847224 GGAGTGGATGTTAGATTTCCTATAAAA 57.153 33.333 0.00 0.00 0.00 1.52
697 732 8.998814 TGGAGTGGATGTTAGATTTCCTATAAA 58.001 33.333 0.00 0.00 0.00 1.40
698 733 8.561536 TGGAGTGGATGTTAGATTTCCTATAA 57.438 34.615 0.00 0.00 0.00 0.98
699 734 8.429641 GTTGGAGTGGATGTTAGATTTCCTATA 58.570 37.037 0.00 0.00 0.00 1.31
700 735 7.283329 GTTGGAGTGGATGTTAGATTTCCTAT 58.717 38.462 0.00 0.00 0.00 2.57
701 736 6.352737 GGTTGGAGTGGATGTTAGATTTCCTA 60.353 42.308 0.00 0.00 0.00 2.94
702 737 5.501156 GTTGGAGTGGATGTTAGATTTCCT 58.499 41.667 0.00 0.00 0.00 3.36
703 738 4.640647 GGTTGGAGTGGATGTTAGATTTCC 59.359 45.833 0.00 0.00 0.00 3.13
704 739 5.501156 AGGTTGGAGTGGATGTTAGATTTC 58.499 41.667 0.00 0.00 0.00 2.17
705 740 5.251700 AGAGGTTGGAGTGGATGTTAGATTT 59.748 40.000 0.00 0.00 0.00 2.17
706 741 4.785376 AGAGGTTGGAGTGGATGTTAGATT 59.215 41.667 0.00 0.00 0.00 2.40
707 742 4.366267 AGAGGTTGGAGTGGATGTTAGAT 58.634 43.478 0.00 0.00 0.00 1.98
708 743 3.791320 AGAGGTTGGAGTGGATGTTAGA 58.209 45.455 0.00 0.00 0.00 2.10
709 744 4.559862 AAGAGGTTGGAGTGGATGTTAG 57.440 45.455 0.00 0.00 0.00 2.34
710 745 4.993705 AAAGAGGTTGGAGTGGATGTTA 57.006 40.909 0.00 0.00 0.00 2.41
711 746 3.884037 AAAGAGGTTGGAGTGGATGTT 57.116 42.857 0.00 0.00 0.00 2.71
712 747 3.884037 AAAAGAGGTTGGAGTGGATGT 57.116 42.857 0.00 0.00 0.00 3.06
713 748 5.070001 TGTAAAAAGAGGTTGGAGTGGATG 58.930 41.667 0.00 0.00 0.00 3.51
714 749 5.319043 TGTAAAAAGAGGTTGGAGTGGAT 57.681 39.130 0.00 0.00 0.00 3.41
715 750 4.781775 TGTAAAAAGAGGTTGGAGTGGA 57.218 40.909 0.00 0.00 0.00 4.02
716 751 6.405278 AATTGTAAAAAGAGGTTGGAGTGG 57.595 37.500 0.00 0.00 0.00 4.00
717 752 6.265422 AGGAATTGTAAAAAGAGGTTGGAGTG 59.735 38.462 0.00 0.00 0.00 3.51
718 753 6.373759 AGGAATTGTAAAAAGAGGTTGGAGT 58.626 36.000 0.00 0.00 0.00 3.85
719 754 6.901081 AGGAATTGTAAAAAGAGGTTGGAG 57.099 37.500 0.00 0.00 0.00 3.86
720 755 7.496747 CAAAGGAATTGTAAAAAGAGGTTGGA 58.503 34.615 0.00 0.00 34.16 3.53
721 756 7.713764 CAAAGGAATTGTAAAAAGAGGTTGG 57.286 36.000 0.00 0.00 34.16 3.77
735 770 7.536895 TGTCACATGAAAAACAAAGGAATTG 57.463 32.000 0.00 0.00 44.95 2.32
736 771 7.986320 TGATGTCACATGAAAAACAAAGGAATT 59.014 29.630 0.00 0.00 0.00 2.17
737 772 7.499292 TGATGTCACATGAAAAACAAAGGAAT 58.501 30.769 0.00 0.00 0.00 3.01
738 773 6.871844 TGATGTCACATGAAAAACAAAGGAA 58.128 32.000 0.00 0.00 0.00 3.36
739 774 6.462552 TGATGTCACATGAAAAACAAAGGA 57.537 33.333 0.00 0.00 0.00 3.36
740 775 7.064371 TGTTTGATGTCACATGAAAAACAAAGG 59.936 33.333 15.68 0.00 34.22 3.11
741 776 7.899330 GTGTTTGATGTCACATGAAAAACAAAG 59.101 33.333 15.90 0.00 37.67 2.77
742 777 7.601886 AGTGTTTGATGTCACATGAAAAACAAA 59.398 29.630 21.06 10.02 37.67 2.83
743 778 7.095910 AGTGTTTGATGTCACATGAAAAACAA 58.904 30.769 21.06 4.80 37.67 2.83
744 779 6.629128 AGTGTTTGATGTCACATGAAAAACA 58.371 32.000 21.06 17.64 37.07 2.83
745 780 6.974622 AGAGTGTTTGATGTCACATGAAAAAC 59.025 34.615 13.61 13.61 37.07 2.43
746 781 7.099266 AGAGTGTTTGATGTCACATGAAAAA 57.901 32.000 3.77 0.00 37.07 1.94
747 782 6.698008 AGAGTGTTTGATGTCACATGAAAA 57.302 33.333 3.77 0.00 37.07 2.29
748 783 6.698008 AAGAGTGTTTGATGTCACATGAAA 57.302 33.333 0.00 0.00 37.07 2.69
749 784 6.497437 CAAAGAGTGTTTGATGTCACATGAA 58.503 36.000 6.93 0.00 37.07 2.57
750 785 5.506151 GCAAAGAGTGTTTGATGTCACATGA 60.506 40.000 16.41 0.00 37.07 3.07
751 786 4.678287 GCAAAGAGTGTTTGATGTCACATG 59.322 41.667 16.41 0.00 37.07 3.21
752 787 4.581824 AGCAAAGAGTGTTTGATGTCACAT 59.418 37.500 16.41 0.00 37.07 3.21
753 788 3.947196 AGCAAAGAGTGTTTGATGTCACA 59.053 39.130 16.41 0.00 37.07 3.58
754 789 4.558538 AGCAAAGAGTGTTTGATGTCAC 57.441 40.909 16.41 0.00 35.13 3.67
755 790 6.072508 GGATTAGCAAAGAGTGTTTGATGTCA 60.073 38.462 16.41 0.08 30.16 3.58
756 791 6.150140 AGGATTAGCAAAGAGTGTTTGATGTC 59.850 38.462 16.41 11.87 30.16 3.06
757 792 6.006449 AGGATTAGCAAAGAGTGTTTGATGT 58.994 36.000 16.41 3.97 30.16 3.06
758 793 6.506500 AGGATTAGCAAAGAGTGTTTGATG 57.493 37.500 16.41 0.00 30.16 3.07
759 794 9.553064 CTATAGGATTAGCAAAGAGTGTTTGAT 57.447 33.333 16.41 12.54 32.41 2.57
760 795 7.987458 CCTATAGGATTAGCAAAGAGTGTTTGA 59.013 37.037 14.11 0.00 37.39 2.69
761 796 7.987458 TCCTATAGGATTAGCAAAGAGTGTTTG 59.013 37.037 18.00 8.35 39.78 2.93
762 797 8.090788 TCCTATAGGATTAGCAAAGAGTGTTT 57.909 34.615 18.00 0.00 39.78 2.83
763 798 7.676683 TCCTATAGGATTAGCAAAGAGTGTT 57.323 36.000 18.00 0.00 39.78 3.32
779 814 5.471456 GGCATGTCAACTTGAATCCTATAGG 59.529 44.000 13.07 13.07 0.00 2.57
780 815 6.017605 GTGGCATGTCAACTTGAATCCTATAG 60.018 42.308 0.00 0.00 0.00 1.31
781 816 5.822519 GTGGCATGTCAACTTGAATCCTATA 59.177 40.000 0.00 0.00 0.00 1.31
782 817 4.641989 GTGGCATGTCAACTTGAATCCTAT 59.358 41.667 0.00 0.00 0.00 2.57
783 818 4.009675 GTGGCATGTCAACTTGAATCCTA 58.990 43.478 0.00 0.00 0.00 2.94
784 819 2.821969 GTGGCATGTCAACTTGAATCCT 59.178 45.455 0.00 0.00 0.00 3.24
785 820 2.821969 AGTGGCATGTCAACTTGAATCC 59.178 45.455 0.00 0.00 0.00 3.01
786 821 3.829948 CAGTGGCATGTCAACTTGAATC 58.170 45.455 0.00 0.00 0.00 2.52
787 822 2.029649 GCAGTGGCATGTCAACTTGAAT 60.030 45.455 0.00 0.00 40.72 2.57
788 823 1.337703 GCAGTGGCATGTCAACTTGAA 59.662 47.619 0.00 0.00 40.72 2.69
789 824 0.953727 GCAGTGGCATGTCAACTTGA 59.046 50.000 0.00 0.00 40.72 3.02
790 825 3.484524 GCAGTGGCATGTCAACTTG 57.515 52.632 0.00 2.23 40.72 3.16
801 836 4.640201 TGAAAAGTATAGGATTGCAGTGGC 59.360 41.667 0.00 0.00 41.68 5.01
802 837 6.949352 ATGAAAAGTATAGGATTGCAGTGG 57.051 37.500 0.00 0.00 0.00 4.00
804 839 9.289782 GGAATATGAAAAGTATAGGATTGCAGT 57.710 33.333 0.00 0.00 0.00 4.40
805 840 9.512588 AGGAATATGAAAAGTATAGGATTGCAG 57.487 33.333 0.00 0.00 0.00 4.41
825 860 9.527157 TCACAGGATTTTGAAAATGTAGGAATA 57.473 29.630 8.03 0.00 0.00 1.75
826 861 8.421249 TCACAGGATTTTGAAAATGTAGGAAT 57.579 30.769 8.03 0.00 0.00 3.01
827 862 7.831691 TCACAGGATTTTGAAAATGTAGGAA 57.168 32.000 8.03 0.00 0.00 3.36
828 863 7.831691 TTCACAGGATTTTGAAAATGTAGGA 57.168 32.000 8.03 0.00 0.00 2.94
829 864 8.306038 TGATTCACAGGATTTTGAAAATGTAGG 58.694 33.333 8.03 0.00 35.42 3.18
830 865 9.695526 TTGATTCACAGGATTTTGAAAATGTAG 57.304 29.630 8.03 0.18 35.42 2.74
832 867 8.961294 TTTGATTCACAGGATTTTGAAAATGT 57.039 26.923 8.03 0.00 35.42 2.71
833 868 9.263538 TCTTTGATTCACAGGATTTTGAAAATG 57.736 29.630 8.03 0.00 35.42 2.32
834 869 9.485206 CTCTTTGATTCACAGGATTTTGAAAAT 57.515 29.630 2.27 2.27 35.42 1.82
835 870 7.927629 CCTCTTTGATTCACAGGATTTTGAAAA 59.072 33.333 0.00 0.00 35.42 2.29
836 871 7.436118 CCTCTTTGATTCACAGGATTTTGAAA 58.564 34.615 0.19 0.00 35.42 2.69
837 872 6.517194 GCCTCTTTGATTCACAGGATTTTGAA 60.517 38.462 8.94 0.00 36.21 2.69
838 873 5.047802 GCCTCTTTGATTCACAGGATTTTGA 60.048 40.000 8.94 0.00 0.00 2.69
839 874 5.166398 GCCTCTTTGATTCACAGGATTTTG 58.834 41.667 8.94 0.00 0.00 2.44
840 875 4.221482 GGCCTCTTTGATTCACAGGATTTT 59.779 41.667 0.00 0.00 0.00 1.82
841 876 3.766051 GGCCTCTTTGATTCACAGGATTT 59.234 43.478 0.00 0.00 0.00 2.17
842 877 3.359950 GGCCTCTTTGATTCACAGGATT 58.640 45.455 0.00 0.00 0.00 3.01
843 878 2.357569 GGGCCTCTTTGATTCACAGGAT 60.358 50.000 0.84 0.00 0.00 3.24
844 879 1.004745 GGGCCTCTTTGATTCACAGGA 59.995 52.381 0.84 0.00 0.00 3.86
845 880 1.005215 AGGGCCTCTTTGATTCACAGG 59.995 52.381 0.00 1.39 0.00 4.00
846 881 2.503895 AGGGCCTCTTTGATTCACAG 57.496 50.000 0.00 0.00 0.00 3.66
847 882 4.079253 GTTTAGGGCCTCTTTGATTCACA 58.921 43.478 10.74 0.00 0.00 3.58
848 883 3.444034 GGTTTAGGGCCTCTTTGATTCAC 59.556 47.826 10.74 0.00 0.00 3.18
849 884 3.333680 AGGTTTAGGGCCTCTTTGATTCA 59.666 43.478 10.74 0.00 0.00 2.57
850 885 3.969553 AGGTTTAGGGCCTCTTTGATTC 58.030 45.455 10.74 0.00 0.00 2.52
851 886 5.530176 TTAGGTTTAGGGCCTCTTTGATT 57.470 39.130 10.74 0.00 37.54 2.57
852 887 5.262009 GTTTAGGTTTAGGGCCTCTTTGAT 58.738 41.667 10.74 0.00 37.54 2.57
853 888 4.507869 GGTTTAGGTTTAGGGCCTCTTTGA 60.508 45.833 10.74 0.00 37.54 2.69
854 889 3.762288 GGTTTAGGTTTAGGGCCTCTTTG 59.238 47.826 10.74 0.00 37.54 2.77
855 890 3.245514 GGGTTTAGGTTTAGGGCCTCTTT 60.246 47.826 10.74 0.00 37.54 2.52
856 891 2.310945 GGGTTTAGGTTTAGGGCCTCTT 59.689 50.000 10.74 0.00 37.54 2.85
857 892 1.921049 GGGTTTAGGTTTAGGGCCTCT 59.079 52.381 10.74 2.88 37.54 3.69
858 893 1.637035 TGGGTTTAGGTTTAGGGCCTC 59.363 52.381 10.74 0.00 37.54 4.70
859 894 1.763018 TGGGTTTAGGTTTAGGGCCT 58.237 50.000 12.58 12.58 40.00 5.19
860 895 2.384828 CATGGGTTTAGGTTTAGGGCC 58.615 52.381 0.00 0.00 0.00 5.80
861 896 2.384828 CCATGGGTTTAGGTTTAGGGC 58.615 52.381 2.85 0.00 0.00 5.19
862 897 2.291930 TGCCATGGGTTTAGGTTTAGGG 60.292 50.000 15.13 0.00 0.00 3.53
863 898 3.094484 TGCCATGGGTTTAGGTTTAGG 57.906 47.619 15.13 0.00 0.00 2.69
864 899 5.186797 TGAATTGCCATGGGTTTAGGTTTAG 59.813 40.000 15.13 0.00 0.00 1.85
865 900 5.087323 TGAATTGCCATGGGTTTAGGTTTA 58.913 37.500 15.13 0.00 0.00 2.01
866 901 3.906846 TGAATTGCCATGGGTTTAGGTTT 59.093 39.130 15.13 0.00 0.00 3.27
867 902 3.515104 CTGAATTGCCATGGGTTTAGGTT 59.485 43.478 15.13 0.00 0.00 3.50
868 903 3.099141 CTGAATTGCCATGGGTTTAGGT 58.901 45.455 15.13 0.00 0.00 3.08
869 904 3.099141 ACTGAATTGCCATGGGTTTAGG 58.901 45.455 15.13 0.00 0.00 2.69
870 905 3.763360 TGACTGAATTGCCATGGGTTTAG 59.237 43.478 15.13 0.00 0.00 1.85
871 906 3.509575 GTGACTGAATTGCCATGGGTTTA 59.490 43.478 15.13 0.00 0.00 2.01
872 907 2.299867 GTGACTGAATTGCCATGGGTTT 59.700 45.455 15.13 0.00 0.00 3.27
873 908 1.895131 GTGACTGAATTGCCATGGGTT 59.105 47.619 15.13 0.00 0.00 4.11
874 909 1.203038 TGTGACTGAATTGCCATGGGT 60.203 47.619 15.13 0.00 0.00 4.51
875 910 1.548081 TGTGACTGAATTGCCATGGG 58.452 50.000 15.13 0.00 0.00 4.00
876 911 3.663995 TTTGTGACTGAATTGCCATGG 57.336 42.857 7.63 7.63 0.00 3.66
903 1609 4.173290 TGGGTTTAGGTTTAGTTGCTGT 57.827 40.909 0.00 0.00 0.00 4.40
934 1640 1.736032 GCGGTCGTCTGCTGTTTAGAT 60.736 52.381 6.20 0.00 42.20 1.98
1018 1724 2.355818 GGTTCTCCATGGGTTCAGGTAC 60.356 54.545 13.02 4.19 0.00 3.34
1124 1830 0.611714 GGGTTTGTTAGGAGAGCGGA 59.388 55.000 0.00 0.00 0.00 5.54
1172 1878 4.966787 TTGGTTCCTGCGGGTGGC 62.967 66.667 12.43 2.84 43.96 5.01
1203 1909 3.123620 CTCCTTCTGCCGCTGCAC 61.124 66.667 0.00 0.00 44.23 4.57
1624 2339 0.323957 AGAGCAGAGCAATGTCAGCA 59.676 50.000 0.00 0.00 31.61 4.41
1648 2363 2.512286 GCATAGTCCAGCTGCGCA 60.512 61.111 10.98 10.98 0.00 6.09
1666 2381 0.540923 GCTCATCCTTGTCTCTGGCT 59.459 55.000 0.00 0.00 0.00 4.75
1708 2423 0.529833 CAATGGCGGCCACAATGTTA 59.470 50.000 26.48 0.00 35.80 2.41
1744 2459 3.758300 CCGGTGCAAAAACTACATGATC 58.242 45.455 0.00 0.00 0.00 2.92
1763 2478 1.661617 CTATCCTAGACGATCGAGCCG 59.338 57.143 24.34 7.16 0.00 5.52
1821 2536 4.154015 TGATTCTCCTTGTATGCAAACGTG 59.846 41.667 0.00 0.00 33.73 4.49
1842 2557 6.531503 TTTTGCCGGTCCATATTTATTTGA 57.468 33.333 1.90 0.00 0.00 2.69
1922 2659 9.118300 GCACCTGTAGAGTAAATACTAGTAGAA 57.882 37.037 8.85 0.00 36.50 2.10
1923 2660 8.270030 TGCACCTGTAGAGTAAATACTAGTAGA 58.730 37.037 8.85 0.00 36.50 2.59
1924 2661 8.447924 TGCACCTGTAGAGTAAATACTAGTAG 57.552 38.462 8.85 0.00 36.50 2.57
1925 2662 7.013083 GCTGCACCTGTAGAGTAAATACTAGTA 59.987 40.741 4.77 4.77 36.50 1.82
1926 2663 6.183360 GCTGCACCTGTAGAGTAAATACTAGT 60.183 42.308 0.00 0.00 36.50 2.57
1927 2664 6.183360 TGCTGCACCTGTAGAGTAAATACTAG 60.183 42.308 0.00 0.00 36.50 2.57
1928 2665 5.655090 TGCTGCACCTGTAGAGTAAATACTA 59.345 40.000 0.00 0.00 36.50 1.82
1929 2666 4.466370 TGCTGCACCTGTAGAGTAAATACT 59.534 41.667 0.00 0.00 39.71 2.12
1930 2667 4.755411 TGCTGCACCTGTAGAGTAAATAC 58.245 43.478 0.00 0.00 0.00 1.89
1931 2668 4.141937 CCTGCTGCACCTGTAGAGTAAATA 60.142 45.833 0.00 0.00 0.00 1.40
1995 2771 4.644234 TGTATATTGGTGGCTGAACATTGG 59.356 41.667 0.00 0.00 0.00 3.16
2144 2921 9.582431 TTCGGCGAATTATAGGAAGATAAATAG 57.418 33.333 19.83 0.00 0.00 1.73
2162 2939 0.527113 TTCATCGGTAGTTCGGCGAA 59.473 50.000 19.83 19.83 0.00 4.70
2220 2997 0.615331 GCCAAGAGGATGGTGAGTCA 59.385 55.000 0.00 0.00 42.75 3.41
2277 3054 6.111669 ACTTACCAAGTAACCTTTCTCTCC 57.888 41.667 0.00 0.00 40.69 3.71
2306 3083 9.390795 CAATTTTGTGTTTCTCTTGATCTAGTG 57.609 33.333 4.06 2.20 0.00 2.74
2481 3259 1.000274 GCGGTGAATGAAAACCTTGCT 60.000 47.619 0.00 0.00 34.06 3.91
2522 3300 2.660189 AATGCCTGGAAAAATGAGCG 57.340 45.000 0.00 0.00 0.00 5.03
2523 3301 3.004862 CCAAATGCCTGGAAAAATGAGC 58.995 45.455 0.00 0.00 38.96 4.26
2556 3334 6.228995 TGCCTCTAATGATGCTTCTTCTATG 58.771 40.000 0.88 0.00 35.35 2.23
2712 3492 5.705609 TTCTTCCAGGCTCAAAATAACAC 57.294 39.130 0.00 0.00 0.00 3.32


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

AutoCloner maintained by Alex Coulton.