Multiple sequence alignment - TraesCS7B01G319000

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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 TraesCS7B01G319000 chr7B 100.000 4025 0 0 1 4025 568672495 568676519 0.000000e+00 7433.0
1 TraesCS7B01G319000 chr7B 89.666 329 30 4 305 630 502651751 502651424 2.240000e-112 416.0
2 TraesCS7B01G319000 chr7B 97.183 71 2 0 3955 4025 522721481 522721411 1.960000e-23 121.0
3 TraesCS7B01G319000 chr7B 97.015 67 2 0 3959 4025 373075412 373075478 3.290000e-21 113.0
4 TraesCS7B01G319000 chr7A 95.120 3238 116 17 805 4025 610443879 610447091 0.000000e+00 5066.0
5 TraesCS7B01G319000 chr7A 96.970 66 2 0 3960 4025 426576227 426576292 1.180000e-20 111.0
6 TraesCS7B01G319000 chr7A 94.366 71 4 0 3955 4025 560306161 560306091 4.250000e-20 110.0
7 TraesCS7B01G319000 chr7D 95.907 3127 95 8 919 4025 530120792 530123905 0.000000e+00 5035.0
8 TraesCS7B01G319000 chr7D 97.183 71 2 0 3955 4025 494749952 494749882 1.960000e-23 121.0
9 TraesCS7B01G319000 chr7D 86.066 122 6 7 805 924 530113733 530113845 1.960000e-23 121.0
10 TraesCS7B01G319000 chr7D 95.522 67 3 0 3959 4025 378322127 378322193 1.530000e-19 108.0
11 TraesCS7B01G319000 chr7D 81.481 108 17 3 221 326 263951021 263951127 7.170000e-13 86.1
12 TraesCS7B01G319000 chr7D 85.526 76 9 2 680 754 530113654 530113728 1.200000e-10 78.7
13 TraesCS7B01G319000 chr3D 89.382 631 37 12 1 627 445862940 445862336 0.000000e+00 767.0
14 TraesCS7B01G319000 chr6B 84.505 626 47 14 35 635 109132900 109133500 1.250000e-159 573.0
15 TraesCS7B01G319000 chr6B 84.272 604 70 22 35 627 691952928 691953517 2.100000e-157 566.0
16 TraesCS7B01G319000 chr6B 95.918 49 2 0 165 213 97375296 97375248 3.330000e-11 80.5
17 TraesCS7B01G319000 chr4A 84.641 612 44 12 35 627 648260314 648259734 7.550000e-157 564.0
18 TraesCS7B01G319000 chr4A 86.957 207 9 3 136 326 699179237 699179033 2.440000e-52 217.0
19 TraesCS7B01G319000 chr3B 85.178 533 36 16 114 627 27497196 27496688 1.290000e-139 507.0
20 TraesCS7B01G319000 chr5D 89.571 326 30 4 305 627 285477060 285476736 1.040000e-110 411.0
21 TraesCS7B01G319000 chr1B 88.473 347 20 6 1 329 543090858 543090514 6.270000e-108 401.0
22 TraesCS7B01G319000 chr1D 89.198 324 30 4 305 627 379878796 379879115 2.250000e-107 399.0
23 TraesCS7B01G319000 chr4D 88.037 326 35 4 305 627 454817190 454816866 2.270000e-102 383.0
24 TraesCS7B01G319000 chr3A 95.652 69 3 0 3957 4025 34532615 34532547 1.180000e-20 111.0
25 TraesCS7B01G319000 chr2D 86.792 53 7 0 111 163 579481943 579481891 4.340000e-05 60.2


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 TraesCS7B01G319000 chr7B 568672495 568676519 4024 False 7433 7433 100.000 1 4025 1 chr7B.!!$F2 4024
1 TraesCS7B01G319000 chr7A 610443879 610447091 3212 False 5066 5066 95.120 805 4025 1 chr7A.!!$F2 3220
2 TraesCS7B01G319000 chr7D 530120792 530123905 3113 False 5035 5035 95.907 919 4025 1 chr7D.!!$F3 3106
3 TraesCS7B01G319000 chr3D 445862336 445862940 604 True 767 767 89.382 1 627 1 chr3D.!!$R1 626
4 TraesCS7B01G319000 chr6B 109132900 109133500 600 False 573 573 84.505 35 635 1 chr6B.!!$F1 600
5 TraesCS7B01G319000 chr6B 691952928 691953517 589 False 566 566 84.272 35 627 1 chr6B.!!$F2 592
6 TraesCS7B01G319000 chr4A 648259734 648260314 580 True 564 564 84.641 35 627 1 chr4A.!!$R1 592
7 TraesCS7B01G319000 chr3B 27496688 27497196 508 True 507 507 85.178 114 627 1 chr3B.!!$R1 513

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
670 718 0.040067 GCACTCCAGAGCCAAAAACG 60.040 55.0 0.00 0.0 0.00 3.60 F
1512 1562 0.035630 GTGACATGGAGGCTGCTCTT 60.036 55.0 7.74 0.0 0.00 2.85 F
1539 1589 0.322098 TTGATGAAATCCCGCACCGT 60.322 50.0 0.00 0.0 44.73 4.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1572 1622 1.654220 GCAATTCGCACGGGCATAT 59.346 52.632 11.77 0.0 41.79 1.78 R
2923 2979 0.325671 TCCCTTCTCCCAAGCGAGAT 60.326 55.000 0.00 0.0 38.66 2.75 R
3265 3321 4.278419 GTGCTTAAGGTCAGTGGTTTGAAT 59.722 41.667 4.29 0.0 0.00 2.57 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
94 96 4.082571 CGAGCAATGGAGAAGGAAAATGTT 60.083 41.667 0.00 0.00 0.00 2.71
104 106 4.583073 AGAAGGAAAATGTTGTGGTGTACC 59.417 41.667 0.00 0.00 0.00 3.34
112 114 1.349688 GTTGTGGTGTACCTGATGGGA 59.650 52.381 2.32 0.00 38.76 4.37
153 155 1.972795 GGTGCCCGTGAACCCTATATA 59.027 52.381 0.00 0.00 0.00 0.86
189 191 9.434559 GTTTACGGTCAAGATAATTTAATCTGC 57.565 33.333 0.00 0.00 36.34 4.26
190 192 8.725405 TTACGGTCAAGATAATTTAATCTGCA 57.275 30.769 0.00 0.00 36.34 4.41
213 215 4.598022 TGGATGAATGTGATGGCTTGTTA 58.402 39.130 0.00 0.00 0.00 2.41
267 305 4.696877 TCATGCACATGAACCTAAAGACAG 59.303 41.667 10.82 0.00 44.14 3.51
282 320 5.499004 AAAGACAGCATTCCTACCTTGTA 57.501 39.130 0.00 0.00 0.00 2.41
283 321 5.499004 AAGACAGCATTCCTACCTTGTAA 57.501 39.130 0.00 0.00 0.00 2.41
284 322 5.700402 AGACAGCATTCCTACCTTGTAAT 57.300 39.130 0.00 0.00 0.00 1.89
285 323 6.808321 AGACAGCATTCCTACCTTGTAATA 57.192 37.500 0.00 0.00 0.00 0.98
286 324 6.821388 AGACAGCATTCCTACCTTGTAATAG 58.179 40.000 0.00 0.00 0.00 1.73
287 325 6.611642 AGACAGCATTCCTACCTTGTAATAGA 59.388 38.462 0.00 0.00 0.00 1.98
288 326 7.125811 AGACAGCATTCCTACCTTGTAATAGAA 59.874 37.037 0.00 0.00 0.00 2.10
289 327 7.806180 ACAGCATTCCTACCTTGTAATAGAAT 58.194 34.615 0.00 0.00 0.00 2.40
290 328 8.934697 ACAGCATTCCTACCTTGTAATAGAATA 58.065 33.333 0.00 0.00 0.00 1.75
291 329 9.950496 CAGCATTCCTACCTTGTAATAGAATAT 57.050 33.333 0.00 0.00 0.00 1.28
300 338 8.535690 ACCTTGTAATAGAATATCTTAAGCGC 57.464 34.615 0.00 0.00 0.00 5.92
301 339 8.148351 ACCTTGTAATAGAATATCTTAAGCGCA 58.852 33.333 11.47 0.00 0.00 6.09
302 340 9.155975 CCTTGTAATAGAATATCTTAAGCGCAT 57.844 33.333 11.47 0.00 0.00 4.73
364 402 6.623767 GCGCATCATGTCTCTCTGTGTATATA 60.624 42.308 0.30 0.00 0.00 0.86
632 680 5.051133 GCACGAGCGTTCTACTAATTTAC 57.949 43.478 0.00 0.00 0.00 2.01
633 681 4.797349 GCACGAGCGTTCTACTAATTTACT 59.203 41.667 0.00 0.00 0.00 2.24
634 682 5.967674 GCACGAGCGTTCTACTAATTTACTA 59.032 40.000 0.00 0.00 0.00 1.82
635 683 6.636044 GCACGAGCGTTCTACTAATTTACTAT 59.364 38.462 0.00 0.00 0.00 2.12
636 684 7.800380 GCACGAGCGTTCTACTAATTTACTATA 59.200 37.037 0.00 0.00 0.00 1.31
637 685 9.655769 CACGAGCGTTCTACTAATTTACTATAA 57.344 33.333 0.00 0.00 0.00 0.98
660 708 6.737720 ATCAAGAAGTATATGCACTCCAGA 57.262 37.500 0.00 0.00 0.00 3.86
661 709 6.154203 TCAAGAAGTATATGCACTCCAGAG 57.846 41.667 0.00 0.00 0.00 3.35
662 710 4.599047 AGAAGTATATGCACTCCAGAGC 57.401 45.455 0.00 0.00 0.00 4.09
663 711 3.323403 AGAAGTATATGCACTCCAGAGCC 59.677 47.826 0.00 0.00 0.00 4.70
664 712 2.682594 AGTATATGCACTCCAGAGCCA 58.317 47.619 0.00 0.00 0.00 4.75
665 713 3.041211 AGTATATGCACTCCAGAGCCAA 58.959 45.455 0.00 0.00 0.00 4.52
666 714 3.455910 AGTATATGCACTCCAGAGCCAAA 59.544 43.478 0.00 0.00 0.00 3.28
667 715 2.877097 TATGCACTCCAGAGCCAAAA 57.123 45.000 0.00 0.00 0.00 2.44
668 716 1.999648 ATGCACTCCAGAGCCAAAAA 58.000 45.000 0.00 0.00 0.00 1.94
669 717 1.032014 TGCACTCCAGAGCCAAAAAC 58.968 50.000 0.00 0.00 0.00 2.43
670 718 0.040067 GCACTCCAGAGCCAAAAACG 60.040 55.000 0.00 0.00 0.00 3.60
671 719 0.593128 CACTCCAGAGCCAAAAACGG 59.407 55.000 0.00 0.00 0.00 4.44
680 728 2.425562 CCAAAAACGGCTGTTCCCT 58.574 52.632 12.25 0.00 37.31 4.20
681 729 0.313987 CCAAAAACGGCTGTTCCCTC 59.686 55.000 12.25 0.00 37.31 4.30
682 730 1.318576 CAAAAACGGCTGTTCCCTCT 58.681 50.000 12.25 0.00 37.31 3.69
683 731 2.500229 CAAAAACGGCTGTTCCCTCTA 58.500 47.619 12.25 0.00 37.31 2.43
684 732 2.882137 CAAAAACGGCTGTTCCCTCTAA 59.118 45.455 12.25 0.00 37.31 2.10
685 733 2.180432 AAACGGCTGTTCCCTCTAAC 57.820 50.000 12.25 0.00 37.31 2.34
686 734 1.349067 AACGGCTGTTCCCTCTAACT 58.651 50.000 4.68 0.00 30.83 2.24
687 735 2.226962 ACGGCTGTTCCCTCTAACTA 57.773 50.000 0.00 0.00 0.00 2.24
688 736 2.100989 ACGGCTGTTCCCTCTAACTAG 58.899 52.381 0.00 0.00 0.00 2.57
689 737 2.100989 CGGCTGTTCCCTCTAACTAGT 58.899 52.381 0.00 0.00 0.00 2.57
690 738 2.496470 CGGCTGTTCCCTCTAACTAGTT 59.504 50.000 13.68 13.68 0.00 2.24
691 739 3.676324 CGGCTGTTCCCTCTAACTAGTTG 60.676 52.174 18.56 8.35 0.00 3.16
692 740 3.263261 GCTGTTCCCTCTAACTAGTTGC 58.737 50.000 18.56 5.02 0.00 4.17
693 741 3.055747 GCTGTTCCCTCTAACTAGTTGCT 60.056 47.826 18.56 0.00 0.00 3.91
694 742 4.563786 GCTGTTCCCTCTAACTAGTTGCTT 60.564 45.833 18.56 0.00 0.00 3.91
695 743 5.148651 TGTTCCCTCTAACTAGTTGCTTC 57.851 43.478 18.56 1.88 0.00 3.86
696 744 4.020485 TGTTCCCTCTAACTAGTTGCTTCC 60.020 45.833 18.56 0.00 0.00 3.46
697 745 4.062490 TCCCTCTAACTAGTTGCTTCCT 57.938 45.455 18.56 0.00 0.00 3.36
698 746 4.426704 TCCCTCTAACTAGTTGCTTCCTT 58.573 43.478 18.56 0.00 0.00 3.36
699 747 4.223032 TCCCTCTAACTAGTTGCTTCCTTG 59.777 45.833 18.56 0.00 0.00 3.61
700 748 4.508662 CCTCTAACTAGTTGCTTCCTTGG 58.491 47.826 18.56 5.36 0.00 3.61
701 749 4.223032 CCTCTAACTAGTTGCTTCCTTGGA 59.777 45.833 18.56 0.00 0.00 3.53
702 750 5.280011 CCTCTAACTAGTTGCTTCCTTGGAA 60.280 44.000 18.56 1.86 0.00 3.53
703 751 6.374417 TCTAACTAGTTGCTTCCTTGGAAT 57.626 37.500 18.56 0.00 0.00 3.01
704 752 6.173339 TCTAACTAGTTGCTTCCTTGGAATG 58.827 40.000 18.56 0.00 0.00 2.67
705 753 3.690460 ACTAGTTGCTTCCTTGGAATGG 58.310 45.455 2.24 0.00 0.00 3.16
706 754 1.260544 AGTTGCTTCCTTGGAATGGC 58.739 50.000 2.24 4.82 0.00 4.40
707 755 0.247460 GTTGCTTCCTTGGAATGGCC 59.753 55.000 0.00 0.00 37.10 5.36
716 764 3.782366 TGGAATGGCCATGTTTCCA 57.218 47.368 28.10 28.10 45.00 3.53
717 765 2.021262 TGGAATGGCCATGTTTCCAA 57.979 45.000 29.16 16.77 44.41 3.53
718 766 1.622811 TGGAATGGCCATGTTTCCAAC 59.377 47.619 29.16 10.11 44.41 3.77
719 767 1.901833 GGAATGGCCATGTTTCCAACT 59.098 47.619 25.49 6.13 39.00 3.16
720 768 2.354003 GGAATGGCCATGTTTCCAACTG 60.354 50.000 25.49 0.00 39.00 3.16
721 769 0.609662 ATGGCCATGTTTCCAACTGC 59.390 50.000 20.04 0.00 35.75 4.40
722 770 1.293179 GGCCATGTTTCCAACTGCC 59.707 57.895 0.00 0.00 35.37 4.85
723 771 1.470996 GGCCATGTTTCCAACTGCCA 61.471 55.000 0.00 0.00 39.44 4.92
724 772 0.609662 GCCATGTTTCCAACTGCCAT 59.390 50.000 0.00 0.00 0.00 4.40
725 773 1.673626 GCCATGTTTCCAACTGCCATG 60.674 52.381 0.00 0.00 34.18 3.66
726 774 1.673626 CCATGTTTCCAACTGCCATGC 60.674 52.381 0.00 0.00 33.29 4.06
727 775 0.609662 ATGTTTCCAACTGCCATGCC 59.390 50.000 0.00 0.00 0.00 4.40
728 776 0.469705 TGTTTCCAACTGCCATGCCT 60.470 50.000 0.00 0.00 0.00 4.75
729 777 0.681175 GTTTCCAACTGCCATGCCTT 59.319 50.000 0.00 0.00 0.00 4.35
730 778 0.968405 TTTCCAACTGCCATGCCTTC 59.032 50.000 0.00 0.00 0.00 3.46
731 779 0.178967 TTCCAACTGCCATGCCTTCA 60.179 50.000 0.00 0.00 0.00 3.02
732 780 0.895100 TCCAACTGCCATGCCTTCAC 60.895 55.000 0.00 0.00 0.00 3.18
733 781 0.896940 CCAACTGCCATGCCTTCACT 60.897 55.000 0.00 0.00 0.00 3.41
734 782 0.242825 CAACTGCCATGCCTTCACTG 59.757 55.000 0.00 0.00 0.00 3.66
735 783 0.111061 AACTGCCATGCCTTCACTGA 59.889 50.000 0.00 0.00 0.00 3.41
736 784 0.111061 ACTGCCATGCCTTCACTGAA 59.889 50.000 0.00 0.00 0.00 3.02
737 785 1.250328 CTGCCATGCCTTCACTGAAA 58.750 50.000 0.00 0.00 0.00 2.69
738 786 1.201647 CTGCCATGCCTTCACTGAAAG 59.798 52.381 0.00 0.00 42.29 2.62
739 787 0.108945 GCCATGCCTTCACTGAAAGC 60.109 55.000 5.53 5.53 37.60 3.51
740 788 0.529378 CCATGCCTTCACTGAAAGCC 59.471 55.000 9.44 0.00 37.60 4.35
741 789 1.542492 CATGCCTTCACTGAAAGCCT 58.458 50.000 9.44 0.00 37.60 4.58
742 790 1.471684 CATGCCTTCACTGAAAGCCTC 59.528 52.381 9.44 0.00 37.60 4.70
743 791 0.473755 TGCCTTCACTGAAAGCCTCA 59.526 50.000 9.44 0.00 37.60 3.86
744 792 1.133823 TGCCTTCACTGAAAGCCTCAA 60.134 47.619 9.44 0.00 37.60 3.02
745 793 1.956477 GCCTTCACTGAAAGCCTCAAA 59.044 47.619 1.36 0.00 37.60 2.69
746 794 2.030451 GCCTTCACTGAAAGCCTCAAAG 60.030 50.000 1.36 0.00 37.60 2.77
747 795 3.217626 CCTTCACTGAAAGCCTCAAAGT 58.782 45.455 0.00 0.00 37.60 2.66
748 796 4.389374 CCTTCACTGAAAGCCTCAAAGTA 58.611 43.478 0.00 0.00 37.60 2.24
749 797 4.821805 CCTTCACTGAAAGCCTCAAAGTAA 59.178 41.667 0.00 0.00 37.60 2.24
750 798 5.299279 CCTTCACTGAAAGCCTCAAAGTAAA 59.701 40.000 0.00 0.00 37.60 2.01
751 799 6.183360 CCTTCACTGAAAGCCTCAAAGTAAAA 60.183 38.462 0.00 0.00 37.60 1.52
752 800 6.959639 TCACTGAAAGCCTCAAAGTAAAAT 57.040 33.333 0.00 0.00 37.60 1.82
753 801 7.346751 TCACTGAAAGCCTCAAAGTAAAATT 57.653 32.000 0.00 0.00 37.60 1.82
754 802 7.425606 TCACTGAAAGCCTCAAAGTAAAATTC 58.574 34.615 0.00 0.00 37.60 2.17
755 803 7.285401 TCACTGAAAGCCTCAAAGTAAAATTCT 59.715 33.333 0.00 0.00 37.60 2.40
756 804 7.592903 CACTGAAAGCCTCAAAGTAAAATTCTC 59.407 37.037 0.00 0.00 37.60 2.87
757 805 7.503902 ACTGAAAGCCTCAAAGTAAAATTCTCT 59.496 33.333 0.00 0.00 37.60 3.10
758 806 8.237811 TGAAAGCCTCAAAGTAAAATTCTCTT 57.762 30.769 0.00 0.00 0.00 2.85
759 807 9.349713 TGAAAGCCTCAAAGTAAAATTCTCTTA 57.650 29.630 0.00 0.00 0.00 2.10
763 811 9.746457 AGCCTCAAAGTAAAATTCTCTTAATCT 57.254 29.630 0.00 0.00 0.00 2.40
764 812 9.995957 GCCTCAAAGTAAAATTCTCTTAATCTC 57.004 33.333 0.00 0.00 0.00 2.75
769 817 9.688091 AAAGTAAAATTCTCTTAATCTCTCCCC 57.312 33.333 0.00 0.00 0.00 4.81
770 818 8.631275 AGTAAAATTCTCTTAATCTCTCCCCT 57.369 34.615 0.00 0.00 0.00 4.79
771 819 8.490311 AGTAAAATTCTCTTAATCTCTCCCCTG 58.510 37.037 0.00 0.00 0.00 4.45
772 820 7.516450 AAAATTCTCTTAATCTCTCCCCTGA 57.484 36.000 0.00 0.00 0.00 3.86
773 821 7.516450 AAATTCTCTTAATCTCTCCCCTGAA 57.484 36.000 0.00 0.00 0.00 3.02
774 822 6.745794 ATTCTCTTAATCTCTCCCCTGAAG 57.254 41.667 0.00 0.00 0.00 3.02
775 823 4.551671 TCTCTTAATCTCTCCCCTGAAGG 58.448 47.826 0.00 0.00 0.00 3.46
776 824 4.233053 TCTCTTAATCTCTCCCCTGAAGGA 59.767 45.833 0.00 0.00 38.24 3.36
777 825 4.290942 TCTTAATCTCTCCCCTGAAGGAC 58.709 47.826 0.00 0.00 38.24 3.85
778 826 2.959421 AATCTCTCCCCTGAAGGACT 57.041 50.000 0.00 0.00 38.24 3.85
779 827 2.173126 ATCTCTCCCCTGAAGGACTG 57.827 55.000 0.00 0.00 38.24 3.51
780 828 0.787084 TCTCTCCCCTGAAGGACTGT 59.213 55.000 0.00 0.00 38.24 3.55
781 829 1.190643 CTCTCCCCTGAAGGACTGTC 58.809 60.000 0.00 0.00 38.24 3.51
782 830 0.487325 TCTCCCCTGAAGGACTGTCA 59.513 55.000 10.38 0.00 38.24 3.58
783 831 1.132849 TCTCCCCTGAAGGACTGTCAA 60.133 52.381 10.38 0.00 38.24 3.18
784 832 1.912043 CTCCCCTGAAGGACTGTCAAT 59.088 52.381 10.38 0.00 38.24 2.57
785 833 2.307098 CTCCCCTGAAGGACTGTCAATT 59.693 50.000 10.38 3.70 38.24 2.32
786 834 3.519510 CTCCCCTGAAGGACTGTCAATTA 59.480 47.826 10.38 0.00 38.24 1.40
787 835 3.913799 TCCCCTGAAGGACTGTCAATTAA 59.086 43.478 10.38 0.00 38.24 1.40
788 836 4.540099 TCCCCTGAAGGACTGTCAATTAAT 59.460 41.667 10.38 0.00 38.24 1.40
789 837 5.015178 TCCCCTGAAGGACTGTCAATTAATT 59.985 40.000 10.38 0.00 38.24 1.40
790 838 5.716703 CCCCTGAAGGACTGTCAATTAATTT 59.283 40.000 10.38 0.00 38.24 1.82
791 839 6.350445 CCCCTGAAGGACTGTCAATTAATTTG 60.350 42.308 10.38 0.00 38.24 2.32
792 840 6.434028 CCCTGAAGGACTGTCAATTAATTTGA 59.566 38.462 10.38 0.00 39.03 2.69
793 841 7.039784 CCCTGAAGGACTGTCAATTAATTTGAA 60.040 37.037 10.38 0.00 41.57 2.69
794 842 7.809806 CCTGAAGGACTGTCAATTAATTTGAAC 59.190 37.037 10.38 0.00 40.98 3.18
795 843 8.231692 TGAAGGACTGTCAATTAATTTGAACA 57.768 30.769 10.38 3.24 45.71 3.18
796 844 8.352201 TGAAGGACTGTCAATTAATTTGAACAG 58.648 33.333 22.04 22.04 45.71 3.16
797 845 7.219484 AGGACTGTCAATTAATTTGAACAGG 57.781 36.000 24.77 14.69 45.71 4.00
798 846 7.004086 AGGACTGTCAATTAATTTGAACAGGA 58.996 34.615 24.77 8.32 45.71 3.86
799 847 7.175641 AGGACTGTCAATTAATTTGAACAGGAG 59.824 37.037 24.77 11.89 45.71 3.69
800 848 7.219484 ACTGTCAATTAATTTGAACAGGAGG 57.781 36.000 24.77 11.67 45.71 4.30
801 849 6.209391 ACTGTCAATTAATTTGAACAGGAGGG 59.791 38.462 24.77 11.44 45.71 4.30
802 850 6.310941 TGTCAATTAATTTGAACAGGAGGGA 58.689 36.000 0.00 0.00 45.71 4.20
803 851 6.434028 TGTCAATTAATTTGAACAGGAGGGAG 59.566 38.462 0.00 0.00 45.71 4.30
809 857 2.409064 TGAACAGGAGGGAGTACCAA 57.591 50.000 0.00 0.00 43.89 3.67
820 868 4.407365 AGGGAGTACCAAATTTCCAACTG 58.593 43.478 0.00 0.00 43.89 3.16
825 873 2.114616 ACCAAATTTCCAACTGCCACA 58.885 42.857 0.00 0.00 0.00 4.17
826 874 2.503356 ACCAAATTTCCAACTGCCACAA 59.497 40.909 0.00 0.00 0.00 3.33
829 877 2.888834 ATTTCCAACTGCCACAACAC 57.111 45.000 0.00 0.00 0.00 3.32
840 889 3.466836 TGCCACAACACTCTTGTCTAAG 58.533 45.455 0.00 0.00 33.55 2.18
859 908 8.921205 TGTCTAAGTATTCCCCTTATTACACTC 58.079 37.037 0.00 0.00 0.00 3.51
860 909 8.921205 GTCTAAGTATTCCCCTTATTACACTCA 58.079 37.037 0.00 0.00 0.00 3.41
864 913 9.816787 AAGTATTCCCCTTATTACACTCAAAAA 57.183 29.630 0.00 0.00 0.00 1.94
1060 1110 4.207281 TCGCCGCTTCCATCTCCG 62.207 66.667 0.00 0.00 0.00 4.63
1162 1212 3.458163 CCCGCTACTTCCGCCTCA 61.458 66.667 0.00 0.00 0.00 3.86
1407 1457 2.048127 GAGTTTGAGCTCGGCCGT 60.048 61.111 27.15 5.51 0.00 5.68
1480 1530 2.508439 CGGCGCTGGTCGTAATGT 60.508 61.111 8.83 0.00 41.07 2.71
1512 1562 0.035630 GTGACATGGAGGCTGCTCTT 60.036 55.000 7.74 0.00 0.00 2.85
1530 1580 5.106712 TGCTCTTACGGTGTTTGATGAAATC 60.107 40.000 0.00 0.00 45.83 2.17
1539 1589 0.322098 TTGATGAAATCCCGCACCGT 60.322 50.000 0.00 0.00 44.73 4.83
1572 1622 0.396139 GGAATGCCCTCATTGCTGGA 60.396 55.000 2.89 0.00 44.50 3.86
1616 1666 3.202097 GAGAGGCTCTCAGGTTATTTGC 58.798 50.000 33.95 7.59 42.90 3.68
1688 1738 1.069978 CTTGGTTTCCGGGTTTGCAAT 59.930 47.619 0.00 0.00 0.00 3.56
1908 1958 2.941210 TGGACGACCAAATTCTGCC 58.059 52.632 3.49 0.00 43.91 4.85
2008 2058 2.284921 CTGAGCTGGGGGAGTGGA 60.285 66.667 0.00 0.00 0.00 4.02
2109 2159 8.534496 ACTGCACTGATATATATGTATGCAAGA 58.466 33.333 18.16 4.27 40.97 3.02
2119 2169 2.989909 TGTATGCAAGATGTGGACAGG 58.010 47.619 0.00 0.00 0.00 4.00
2287 2337 2.408271 TCCAGATGCTGTCACATTCC 57.592 50.000 0.00 0.00 0.00 3.01
2309 2359 5.782331 TCCTGGAGATCCTACCTATGATTTG 59.218 44.000 0.00 0.00 36.82 2.32
2548 2598 4.016444 TGAAGTTGTCCAGCTTTTTGAGT 58.984 39.130 0.00 0.00 31.89 3.41
2578 2628 4.941873 AGAAAACAGAAGTGAAACCGAACT 59.058 37.500 0.00 0.00 37.80 3.01
2767 2823 8.437360 TGCATATGACCTGATAAAAAGTACTG 57.563 34.615 6.97 0.00 0.00 2.74
3053 3109 5.706833 TGCAAATACATGCTAGATGGTATGG 59.293 40.000 0.00 0.00 46.54 2.74
3246 3302 2.057137 ACAGCTCTTTGCCTTGTTGA 57.943 45.000 0.00 0.00 44.23 3.18
3247 3303 2.378038 ACAGCTCTTTGCCTTGTTGAA 58.622 42.857 0.00 0.00 44.23 2.69
3248 3304 2.760092 ACAGCTCTTTGCCTTGTTGAAA 59.240 40.909 0.00 0.00 44.23 2.69
3249 3305 3.385755 ACAGCTCTTTGCCTTGTTGAAAT 59.614 39.130 0.00 0.00 44.23 2.17
3250 3306 4.141869 ACAGCTCTTTGCCTTGTTGAAATT 60.142 37.500 0.00 0.00 44.23 1.82
3276 3332 8.217131 AGTTTTACTTTCGTATTCAAACCACT 57.783 30.769 0.00 0.00 29.96 4.00
3461 3517 4.773149 AGTTGTGAACCCAACAAAACCTTA 59.227 37.500 6.79 0.00 45.66 2.69
3537 3594 6.559810 TCTTTTGCATCTTCTCGAAAAACAA 58.440 32.000 0.00 0.00 0.00 2.83
3538 3595 6.472163 TCTTTTGCATCTTCTCGAAAAACAAC 59.528 34.615 0.00 0.00 0.00 3.32
3539 3596 4.891627 TGCATCTTCTCGAAAAACAACA 57.108 36.364 0.00 0.00 0.00 3.33
3547 3604 7.702386 TCTTCTCGAAAAACAACATCAAATGA 58.298 30.769 0.00 0.00 0.00 2.57
3589 3646 8.526147 GTTGAGTGTTAATAGTTAGTCCAGGTA 58.474 37.037 0.00 0.00 0.00 3.08
3659 3716 0.392998 CAAGAGGGGGATTGGTCGTG 60.393 60.000 0.00 0.00 0.00 4.35
3678 3735 6.037610 GGTCGTGATGCTAAAATCTCAAGATT 59.962 38.462 0.00 0.00 45.91 2.40
3679 3736 6.904011 GTCGTGATGCTAAAATCTCAAGATTG 59.096 38.462 6.03 0.00 43.41 2.67
3794 3851 2.125233 AGCATGACCACCATCTCAGAT 58.875 47.619 0.00 0.00 31.94 2.90
3800 3857 3.072915 TGACCACCATCTCAGATGTTTGT 59.927 43.478 13.82 0.95 0.00 2.83
3820 3877 7.388224 TGTTTGTAATAGATTAACGGCTCACAA 59.612 33.333 0.00 0.00 0.00 3.33
3821 3878 8.395633 GTTTGTAATAGATTAACGGCTCACAAT 58.604 33.333 0.00 0.00 0.00 2.71
3843 3900 2.026449 AGAAAGGAGCCAGAAGGTGATG 60.026 50.000 0.00 0.00 37.19 3.07
3919 3989 6.054295 TGTTTATTTGCACTTTGGCATTTCT 58.946 32.000 0.00 0.00 44.48 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
94 96 1.735926 TTCCCATCAGGTACACCACA 58.264 50.000 0.38 0.00 38.89 4.17
104 106 6.302269 AGCTCCTATGTATTTTTCCCATCAG 58.698 40.000 0.00 0.00 0.00 2.90
112 114 4.478686 ACCCAGGAGCTCCTATGTATTTTT 59.521 41.667 34.67 6.47 46.65 1.94
189 191 3.383505 ACAAGCCATCACATTCATCCATG 59.616 43.478 0.00 0.00 0.00 3.66
190 192 3.638860 ACAAGCCATCACATTCATCCAT 58.361 40.909 0.00 0.00 0.00 3.41
244 282 4.650734 TGTCTTTAGGTTCATGTGCATGA 58.349 39.130 10.48 10.48 45.30 3.07
282 320 8.839310 ACTTGATGCGCTTAAGATATTCTATT 57.161 30.769 20.19 0.00 0.00 1.73
283 321 9.929180 TTACTTGATGCGCTTAAGATATTCTAT 57.071 29.630 20.19 0.00 0.00 1.98
284 322 9.758651 TTTACTTGATGCGCTTAAGATATTCTA 57.241 29.630 20.19 4.20 0.00 2.10
285 323 8.662781 TTTACTTGATGCGCTTAAGATATTCT 57.337 30.769 20.19 4.93 0.00 2.40
286 324 9.535270 GATTTACTTGATGCGCTTAAGATATTC 57.465 33.333 20.19 10.79 0.00 1.75
287 325 9.277783 AGATTTACTTGATGCGCTTAAGATATT 57.722 29.630 20.19 5.75 0.00 1.28
288 326 8.839310 AGATTTACTTGATGCGCTTAAGATAT 57.161 30.769 20.19 12.10 0.00 1.63
289 327 8.662781 AAGATTTACTTGATGCGCTTAAGATA 57.337 30.769 20.19 9.75 37.45 1.98
290 328 7.559590 AAGATTTACTTGATGCGCTTAAGAT 57.440 32.000 20.19 1.61 37.45 2.40
291 329 6.985188 AAGATTTACTTGATGCGCTTAAGA 57.015 33.333 20.19 0.00 37.45 2.10
292 330 7.910304 ACTAAGATTTACTTGATGCGCTTAAG 58.090 34.615 9.73 12.72 39.38 1.85
293 331 7.843490 ACTAAGATTTACTTGATGCGCTTAA 57.157 32.000 9.73 0.00 39.38 1.85
294 332 7.843490 AACTAAGATTTACTTGATGCGCTTA 57.157 32.000 9.73 0.00 39.38 3.09
295 333 6.743575 AACTAAGATTTACTTGATGCGCTT 57.256 33.333 9.73 0.55 39.38 4.68
296 334 6.149474 ACAAACTAAGATTTACTTGATGCGCT 59.851 34.615 9.73 0.00 39.38 5.92
297 335 6.314784 ACAAACTAAGATTTACTTGATGCGC 58.685 36.000 0.00 0.00 39.38 6.09
298 336 9.988350 ATTACAAACTAAGATTTACTTGATGCG 57.012 29.630 0.00 0.00 39.38 4.73
416 455 7.812690 TTTCACATGCATAGAAATGATAGCT 57.187 32.000 17.69 0.00 34.84 3.32
584 632 7.537991 CGTTGTCACGGGCTTTTAATTTATTTA 59.462 33.333 0.00 0.00 43.16 1.40
585 633 6.363896 CGTTGTCACGGGCTTTTAATTTATTT 59.636 34.615 0.00 0.00 43.16 1.40
634 682 8.874156 TCTGGAGTGCATATACTTCTTGATTAT 58.126 33.333 0.00 0.00 0.00 1.28
635 683 8.250143 TCTGGAGTGCATATACTTCTTGATTA 57.750 34.615 0.00 0.00 0.00 1.75
636 684 7.129457 TCTGGAGTGCATATACTTCTTGATT 57.871 36.000 0.00 0.00 0.00 2.57
637 685 6.737720 TCTGGAGTGCATATACTTCTTGAT 57.262 37.500 0.00 0.00 0.00 2.57
638 686 5.452496 GCTCTGGAGTGCATATACTTCTTGA 60.452 44.000 0.00 0.00 34.92 3.02
639 687 4.749099 GCTCTGGAGTGCATATACTTCTTG 59.251 45.833 0.00 0.00 34.92 3.02
640 688 4.202305 GGCTCTGGAGTGCATATACTTCTT 60.202 45.833 0.00 0.00 36.36 2.52
641 689 3.323403 GGCTCTGGAGTGCATATACTTCT 59.677 47.826 0.00 0.00 36.36 2.85
642 690 3.070159 TGGCTCTGGAGTGCATATACTTC 59.930 47.826 0.00 0.00 36.36 3.01
643 691 3.041211 TGGCTCTGGAGTGCATATACTT 58.959 45.455 0.00 0.00 36.36 2.24
644 692 2.682594 TGGCTCTGGAGTGCATATACT 58.317 47.619 0.00 0.00 36.36 2.12
645 693 3.475566 TTGGCTCTGGAGTGCATATAC 57.524 47.619 0.00 0.00 36.36 1.47
646 694 4.502105 TTTTGGCTCTGGAGTGCATATA 57.498 40.909 0.00 0.00 36.36 0.86
647 695 3.370840 TTTTGGCTCTGGAGTGCATAT 57.629 42.857 0.00 0.00 36.36 1.78
648 696 2.819608 GTTTTTGGCTCTGGAGTGCATA 59.180 45.455 0.00 0.00 36.36 3.14
649 697 1.615392 GTTTTTGGCTCTGGAGTGCAT 59.385 47.619 0.00 0.00 36.36 3.96
650 698 1.032014 GTTTTTGGCTCTGGAGTGCA 58.968 50.000 3.33 0.00 36.36 4.57
651 699 0.040067 CGTTTTTGGCTCTGGAGTGC 60.040 55.000 0.00 0.00 0.00 4.40
652 700 0.593128 CCGTTTTTGGCTCTGGAGTG 59.407 55.000 0.00 0.00 0.00 3.51
653 701 3.021451 CCGTTTTTGGCTCTGGAGT 57.979 52.632 0.00 0.00 0.00 3.85
662 710 0.313987 GAGGGAACAGCCGTTTTTGG 59.686 55.000 0.00 0.00 34.75 3.28
663 711 1.318576 AGAGGGAACAGCCGTTTTTG 58.681 50.000 0.00 0.00 34.75 2.44
664 712 2.882761 GTTAGAGGGAACAGCCGTTTTT 59.117 45.455 0.00 0.00 34.75 1.94
665 713 2.105993 AGTTAGAGGGAACAGCCGTTTT 59.894 45.455 0.00 0.00 34.75 2.43
666 714 1.697982 AGTTAGAGGGAACAGCCGTTT 59.302 47.619 0.00 0.00 34.75 3.60
667 715 1.349067 AGTTAGAGGGAACAGCCGTT 58.651 50.000 0.00 0.00 38.33 4.44
668 716 2.100989 CTAGTTAGAGGGAACAGCCGT 58.899 52.381 0.00 0.00 37.63 5.68
669 717 2.100989 ACTAGTTAGAGGGAACAGCCG 58.899 52.381 0.00 0.00 37.63 5.52
670 718 3.863041 CAACTAGTTAGAGGGAACAGCC 58.137 50.000 8.04 0.00 0.00 4.85
671 719 3.055747 AGCAACTAGTTAGAGGGAACAGC 60.056 47.826 8.04 3.53 0.00 4.40
672 720 4.810191 AGCAACTAGTTAGAGGGAACAG 57.190 45.455 8.04 0.00 0.00 3.16
673 721 4.020485 GGAAGCAACTAGTTAGAGGGAACA 60.020 45.833 8.04 0.00 0.00 3.18
674 722 4.223255 AGGAAGCAACTAGTTAGAGGGAAC 59.777 45.833 8.04 0.00 0.00 3.62
675 723 4.426704 AGGAAGCAACTAGTTAGAGGGAA 58.573 43.478 8.04 0.00 0.00 3.97
676 724 4.062490 AGGAAGCAACTAGTTAGAGGGA 57.938 45.455 8.04 0.00 0.00 4.20
677 725 4.508662 CAAGGAAGCAACTAGTTAGAGGG 58.491 47.826 8.04 0.00 0.00 4.30
678 726 4.223032 TCCAAGGAAGCAACTAGTTAGAGG 59.777 45.833 8.04 0.00 0.00 3.69
679 727 5.407407 TCCAAGGAAGCAACTAGTTAGAG 57.593 43.478 8.04 0.00 0.00 2.43
680 728 5.818678 TTCCAAGGAAGCAACTAGTTAGA 57.181 39.130 8.04 0.00 0.00 2.10
681 729 5.355350 CCATTCCAAGGAAGCAACTAGTTAG 59.645 44.000 8.04 4.36 37.56 2.34
682 730 5.253330 CCATTCCAAGGAAGCAACTAGTTA 58.747 41.667 8.04 0.00 37.56 2.24
683 731 4.082125 CCATTCCAAGGAAGCAACTAGTT 58.918 43.478 1.12 1.12 37.56 2.24
684 732 3.690460 CCATTCCAAGGAAGCAACTAGT 58.310 45.455 7.69 0.00 37.56 2.57
685 733 2.424956 GCCATTCCAAGGAAGCAACTAG 59.575 50.000 7.69 0.00 37.56 2.57
686 734 2.446435 GCCATTCCAAGGAAGCAACTA 58.554 47.619 7.69 0.00 37.56 2.24
687 735 1.260544 GCCATTCCAAGGAAGCAACT 58.739 50.000 7.69 0.00 37.56 3.16
688 736 0.247460 GGCCATTCCAAGGAAGCAAC 59.753 55.000 13.12 1.79 37.56 4.17
689 737 0.178938 TGGCCATTCCAAGGAAGCAA 60.179 50.000 0.00 1.67 43.21 3.91
690 738 1.464273 TGGCCATTCCAAGGAAGCA 59.536 52.632 0.00 0.48 43.21 3.91
691 739 4.440145 TGGCCATTCCAAGGAAGC 57.560 55.556 0.00 6.16 43.21 3.86
711 759 0.968405 GAAGGCATGGCAGTTGGAAA 59.032 50.000 22.64 0.00 0.00 3.13
712 760 0.178967 TGAAGGCATGGCAGTTGGAA 60.179 50.000 22.64 0.00 0.00 3.53
713 761 0.895100 GTGAAGGCATGGCAGTTGGA 60.895 55.000 22.64 0.00 0.00 3.53
714 762 0.896940 AGTGAAGGCATGGCAGTTGG 60.897 55.000 22.64 0.00 0.00 3.77
715 763 0.242825 CAGTGAAGGCATGGCAGTTG 59.757 55.000 22.64 8.27 0.00 3.16
716 764 0.111061 TCAGTGAAGGCATGGCAGTT 59.889 50.000 22.64 7.83 0.00 3.16
717 765 0.111061 TTCAGTGAAGGCATGGCAGT 59.889 50.000 22.64 8.73 0.00 4.40
718 766 1.201647 CTTTCAGTGAAGGCATGGCAG 59.798 52.381 22.64 2.43 0.00 4.85
719 767 1.250328 CTTTCAGTGAAGGCATGGCA 58.750 50.000 22.64 0.00 0.00 4.92
720 768 0.108945 GCTTTCAGTGAAGGCATGGC 60.109 55.000 29.14 12.14 42.81 4.40
721 769 0.529378 GGCTTTCAGTGAAGGCATGG 59.471 55.000 32.92 11.29 44.62 3.66
726 774 3.217626 ACTTTGAGGCTTTCAGTGAAGG 58.782 45.455 10.51 10.51 37.07 3.46
727 775 6.377327 TTTACTTTGAGGCTTTCAGTGAAG 57.623 37.500 5.56 2.17 37.07 3.02
728 776 6.767524 TTTTACTTTGAGGCTTTCAGTGAA 57.232 33.333 0.08 0.08 37.07 3.18
729 777 6.959639 ATTTTACTTTGAGGCTTTCAGTGA 57.040 33.333 0.00 0.00 37.07 3.41
730 778 7.428826 AGAATTTTACTTTGAGGCTTTCAGTG 58.571 34.615 0.00 0.00 37.07 3.66
731 779 7.503902 AGAGAATTTTACTTTGAGGCTTTCAGT 59.496 33.333 0.00 0.00 37.07 3.41
732 780 7.880105 AGAGAATTTTACTTTGAGGCTTTCAG 58.120 34.615 0.00 0.00 37.07 3.02
733 781 7.823745 AGAGAATTTTACTTTGAGGCTTTCA 57.176 32.000 0.00 0.00 0.00 2.69
737 785 9.746457 AGATTAAGAGAATTTTACTTTGAGGCT 57.254 29.630 0.00 0.00 0.00 4.58
738 786 9.995957 GAGATTAAGAGAATTTTACTTTGAGGC 57.004 33.333 0.00 0.00 0.00 4.70
743 791 9.688091 GGGGAGAGATTAAGAGAATTTTACTTT 57.312 33.333 0.00 0.00 0.00 2.66
744 792 9.063484 AGGGGAGAGATTAAGAGAATTTTACTT 57.937 33.333 0.00 0.00 0.00 2.24
745 793 8.490311 CAGGGGAGAGATTAAGAGAATTTTACT 58.510 37.037 0.00 0.00 0.00 2.24
746 794 8.487028 TCAGGGGAGAGATTAAGAGAATTTTAC 58.513 37.037 0.00 0.00 0.00 2.01
747 795 8.624019 TCAGGGGAGAGATTAAGAGAATTTTA 57.376 34.615 0.00 0.00 0.00 1.52
748 796 7.516450 TCAGGGGAGAGATTAAGAGAATTTT 57.484 36.000 0.00 0.00 0.00 1.82
749 797 7.366371 CCTTCAGGGGAGAGATTAAGAGAATTT 60.366 40.741 0.00 0.00 0.00 1.82
750 798 6.101005 CCTTCAGGGGAGAGATTAAGAGAATT 59.899 42.308 0.00 0.00 0.00 2.17
751 799 5.606329 CCTTCAGGGGAGAGATTAAGAGAAT 59.394 44.000 0.00 0.00 0.00 2.40
752 800 4.965532 CCTTCAGGGGAGAGATTAAGAGAA 59.034 45.833 0.00 0.00 0.00 2.87
753 801 4.233053 TCCTTCAGGGGAGAGATTAAGAGA 59.767 45.833 0.00 0.00 35.41 3.10
754 802 4.343814 GTCCTTCAGGGGAGAGATTAAGAG 59.656 50.000 0.00 0.00 35.87 2.85
755 803 4.016105 AGTCCTTCAGGGGAGAGATTAAGA 60.016 45.833 0.00 0.00 35.87 2.10
756 804 4.100808 CAGTCCTTCAGGGGAGAGATTAAG 59.899 50.000 0.00 0.00 35.87 1.85
757 805 4.033709 CAGTCCTTCAGGGGAGAGATTAA 58.966 47.826 0.00 0.00 35.87 1.40
758 806 3.012959 ACAGTCCTTCAGGGGAGAGATTA 59.987 47.826 0.00 0.00 35.87 1.75
759 807 2.225753 ACAGTCCTTCAGGGGAGAGATT 60.226 50.000 0.00 0.00 35.87 2.40
760 808 1.364328 ACAGTCCTTCAGGGGAGAGAT 59.636 52.381 0.00 0.00 35.87 2.75
761 809 0.787084 ACAGTCCTTCAGGGGAGAGA 59.213 55.000 0.00 0.00 35.87 3.10
762 810 1.190643 GACAGTCCTTCAGGGGAGAG 58.809 60.000 0.00 0.00 35.87 3.20
763 811 0.487325 TGACAGTCCTTCAGGGGAGA 59.513 55.000 0.00 0.00 35.87 3.71
764 812 1.352083 TTGACAGTCCTTCAGGGGAG 58.648 55.000 0.00 0.00 35.87 4.30
765 813 2.044793 ATTGACAGTCCTTCAGGGGA 57.955 50.000 0.00 0.00 35.41 4.81
766 814 2.887151 AATTGACAGTCCTTCAGGGG 57.113 50.000 0.00 0.00 35.41 4.79
767 815 6.434028 TCAAATTAATTGACAGTCCTTCAGGG 59.566 38.462 0.39 0.00 43.08 4.45
768 816 7.452880 TCAAATTAATTGACAGTCCTTCAGG 57.547 36.000 0.39 0.00 43.08 3.86
780 828 6.552008 ACTCCCTCCTGTTCAAATTAATTGA 58.448 36.000 0.39 0.00 46.22 2.57
781 829 6.840780 ACTCCCTCCTGTTCAAATTAATTG 57.159 37.500 0.39 0.00 40.58 2.32
782 830 6.890268 GGTACTCCCTCCTGTTCAAATTAATT 59.110 38.462 0.00 0.00 0.00 1.40
783 831 6.011981 TGGTACTCCCTCCTGTTCAAATTAAT 60.012 38.462 0.00 0.00 0.00 1.40
784 832 5.311121 TGGTACTCCCTCCTGTTCAAATTAA 59.689 40.000 0.00 0.00 0.00 1.40
785 833 4.847512 TGGTACTCCCTCCTGTTCAAATTA 59.152 41.667 0.00 0.00 0.00 1.40
786 834 3.655777 TGGTACTCCCTCCTGTTCAAATT 59.344 43.478 0.00 0.00 0.00 1.82
787 835 3.256704 TGGTACTCCCTCCTGTTCAAAT 58.743 45.455 0.00 0.00 0.00 2.32
788 836 2.696775 TGGTACTCCCTCCTGTTCAAA 58.303 47.619 0.00 0.00 0.00 2.69
789 837 2.409064 TGGTACTCCCTCCTGTTCAA 57.591 50.000 0.00 0.00 0.00 2.69
790 838 2.409064 TTGGTACTCCCTCCTGTTCA 57.591 50.000 0.00 0.00 0.00 3.18
791 839 4.302559 AATTTGGTACTCCCTCCTGTTC 57.697 45.455 0.00 0.00 0.00 3.18
792 840 4.508584 GGAAATTTGGTACTCCCTCCTGTT 60.509 45.833 0.00 0.00 0.00 3.16
793 841 3.010250 GGAAATTTGGTACTCCCTCCTGT 59.990 47.826 0.00 0.00 0.00 4.00
794 842 3.010138 TGGAAATTTGGTACTCCCTCCTG 59.990 47.826 0.00 0.00 0.00 3.86
795 843 3.265489 TGGAAATTTGGTACTCCCTCCT 58.735 45.455 0.00 0.00 0.00 3.69
796 844 3.732048 TGGAAATTTGGTACTCCCTCC 57.268 47.619 0.00 0.00 0.00 4.30
797 845 4.459337 CAGTTGGAAATTTGGTACTCCCTC 59.541 45.833 0.00 0.00 0.00 4.30
798 846 4.407365 CAGTTGGAAATTTGGTACTCCCT 58.593 43.478 0.00 0.00 0.00 4.20
799 847 3.056821 GCAGTTGGAAATTTGGTACTCCC 60.057 47.826 0.00 0.00 0.00 4.30
800 848 3.056821 GGCAGTTGGAAATTTGGTACTCC 60.057 47.826 0.00 0.00 0.00 3.85
801 849 3.572255 TGGCAGTTGGAAATTTGGTACTC 59.428 43.478 0.00 0.00 0.00 2.59
802 850 3.320826 GTGGCAGTTGGAAATTTGGTACT 59.679 43.478 0.00 0.00 0.00 2.73
803 851 3.068873 TGTGGCAGTTGGAAATTTGGTAC 59.931 43.478 0.00 0.00 0.00 3.34
809 857 2.765699 AGTGTTGTGGCAGTTGGAAATT 59.234 40.909 0.00 0.00 0.00 1.82
820 868 3.467803 ACTTAGACAAGAGTGTTGTGGC 58.532 45.455 10.86 0.00 38.41 5.01
825 873 5.785940 AGGGGAATACTTAGACAAGAGTGTT 59.214 40.000 0.00 0.00 38.41 3.32
826 874 5.342866 AGGGGAATACTTAGACAAGAGTGT 58.657 41.667 0.00 0.00 42.10 3.55
829 877 9.984190 GTAATAAGGGGAATACTTAGACAAGAG 57.016 37.037 0.00 0.00 34.25 2.85
955 1005 8.639761 GCAGGGAGATTACTTTCTTAGTGTATA 58.360 37.037 0.00 0.00 37.73 1.47
956 1006 7.345914 AGCAGGGAGATTACTTTCTTAGTGTAT 59.654 37.037 0.00 0.00 37.73 2.29
957 1007 6.668283 AGCAGGGAGATTACTTTCTTAGTGTA 59.332 38.462 0.00 0.00 37.73 2.90
972 1022 2.646798 ACAGGAAAGAAAGCAGGGAGAT 59.353 45.455 0.00 0.00 0.00 2.75
1245 1295 0.108138 CGTTGTAGAGGAGGGGCTTG 60.108 60.000 0.00 0.00 0.00 4.01
1407 1457 1.028330 ACGCTTCACTCCCGATACGA 61.028 55.000 0.00 0.00 0.00 3.43
1419 1469 2.659016 CCTCTGGAGCACGCTTCA 59.341 61.111 0.00 0.00 0.00 3.02
1480 1530 3.519107 TCCATGTCACCTGCTTCAGAATA 59.481 43.478 0.00 0.00 32.44 1.75
1512 1562 3.004171 CGGGATTTCATCAAACACCGTA 58.996 45.455 0.00 0.00 38.44 4.02
1530 1580 2.125147 ACATCATCACGGTGCGGG 60.125 61.111 2.51 0.00 0.00 6.13
1539 1589 2.093890 GCATTCCACACCACATCATCA 58.906 47.619 0.00 0.00 0.00 3.07
1572 1622 1.654220 GCAATTCGCACGGGCATAT 59.346 52.632 11.77 0.00 41.79 1.78
1616 1666 2.488528 CCATCCACCATCCTCATCCTTG 60.489 54.545 0.00 0.00 0.00 3.61
1688 1738 3.055094 GCAGACCTTCCAAGAACCATAGA 60.055 47.826 0.00 0.00 0.00 1.98
1899 1949 4.904853 TGGAAAAGGTTAAGGGCAGAATTT 59.095 37.500 0.00 0.00 0.00 1.82
1908 1958 3.193479 GCATCCAGTGGAAAAGGTTAAGG 59.807 47.826 17.71 0.00 34.34 2.69
2008 2058 6.729690 TTGTTCAATCCATCTTCCTTGTTT 57.270 33.333 0.00 0.00 0.00 2.83
2109 2159 5.762179 TTGAAGAATCTACCTGTCCACAT 57.238 39.130 0.00 0.00 0.00 3.21
2119 2169 8.709386 TGTAGAAGAGCAATTGAAGAATCTAC 57.291 34.615 10.34 17.29 38.01 2.59
2287 2337 6.678568 ACAAATCATAGGTAGGATCTCCAG 57.321 41.667 0.00 0.00 38.89 3.86
2548 2598 7.257722 GGTTTCACTTCTGTTTTCTTCATCAA 58.742 34.615 0.00 0.00 0.00 2.57
2767 2823 5.900339 TGATTGTCTACACGTTCAGAAAC 57.100 39.130 0.00 0.00 0.00 2.78
2923 2979 0.325671 TCCCTTCTCCCAAGCGAGAT 60.326 55.000 0.00 0.00 38.66 2.75
3053 3109 6.483640 AGAGGACGATTTAACCATATTTGAGC 59.516 38.462 0.00 0.00 0.00 4.26
3180 3236 9.290988 TGGTTATGCTAAAAGAACTATGAAACA 57.709 29.630 0.00 0.00 0.00 2.83
3265 3321 4.278419 GTGCTTAAGGTCAGTGGTTTGAAT 59.722 41.667 4.29 0.00 0.00 2.57
3276 3332 6.993308 TGTACAAATAACTGTGCTTAAGGTCA 59.007 34.615 4.29 0.00 33.53 4.02
3461 3517 6.875972 AGGGTTAATCTTATGTCACACTCT 57.124 37.500 0.00 0.00 0.00 3.24
3512 3569 6.559810 TGTTTTTCGAGAAGATGCAAAAGAA 58.440 32.000 0.00 0.00 0.00 2.52
3523 3580 7.912949 TCATTTGATGTTGTTTTTCGAGAAG 57.087 32.000 0.00 0.00 0.00 2.85
3537 3594 7.066645 CACATGGTCTAGTCATTCATTTGATGT 59.933 37.037 0.00 0.00 0.00 3.06
3538 3595 7.066645 ACACATGGTCTAGTCATTCATTTGATG 59.933 37.037 0.00 0.00 0.00 3.07
3539 3596 7.114754 ACACATGGTCTAGTCATTCATTTGAT 58.885 34.615 0.00 0.00 0.00 2.57
3547 3604 5.221722 ACACTCAACACATGGTCTAGTCATT 60.222 40.000 0.00 0.00 0.00 2.57
3707 3764 7.502120 ACTTGATTCATCCATAGTAATGCAC 57.498 36.000 0.00 0.00 0.00 4.57
3714 3771 7.202047 GGTCCTCTAACTTGATTCATCCATAGT 60.202 40.741 0.00 0.00 0.00 2.12
3736 3793 2.908688 AAAAGCAACATGTTGGGTCC 57.091 45.000 33.56 19.96 40.74 4.46
3794 3851 6.874664 TGTGAGCCGTTAATCTATTACAAACA 59.125 34.615 0.00 0.00 0.00 2.83
3820 3877 3.454858 TCACCTTCTGGCTCCTTTCTAT 58.545 45.455 0.00 0.00 36.63 1.98
3821 3878 2.902608 TCACCTTCTGGCTCCTTTCTA 58.097 47.619 0.00 0.00 36.63 2.10
3934 4004 4.466370 TCGTCCATTCCAGTTACTTGAGAT 59.534 41.667 0.00 0.00 0.00 2.75
3953 4023 2.266055 CCAGGCCTGTCCTTCGTC 59.734 66.667 30.63 0.00 44.75 4.20
3996 4066 0.111253 AAACCAGGACCTCTTGGCAG 59.889 55.000 3.40 0.00 45.96 4.85


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

AutoCloner maintained by Alex Coulton.