Multiple sequence alignment - TraesCS4A01G471600

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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 TraesCS4A01G471600 chr4A 100.000 2297 0 0 1 2297 732071847 732069551 0.000000e+00 4242
1 TraesCS4A01G471600 chr3B 96.084 1481 56 2 818 2297 144803687 144805166 0.000000e+00 2412
2 TraesCS4A01G471600 chr3B 91.081 1480 119 1 818 2297 646286906 646285440 0.000000e+00 1989
3 TraesCS4A01G471600 chr3B 83.536 1482 238 6 818 2297 105447673 105449150 0.000000e+00 1380
4 TraesCS4A01G471600 chr3B 91.901 284 21 2 538 819 41061806 41061523 1.650000e-106 396
5 TraesCS4A01G471600 chr3B 91.579 285 24 0 535 819 758773807 758774091 5.950000e-106 394
6 TraesCS4A01G471600 chr3B 91.901 284 20 2 535 816 760699774 760700056 5.950000e-106 394
7 TraesCS4A01G471600 chr5B 92.556 1424 99 1 874 2297 384578962 384580378 0.000000e+00 2036
8 TraesCS4A01G471600 chr5B 78.926 1452 266 28 866 2297 136424781 136426212 0.000000e+00 950
9 TraesCS4A01G471600 chr5B 93.555 481 28 3 1 481 37405380 37404903 0.000000e+00 713
10 TraesCS4A01G471600 chr5B 93.640 283 17 1 535 816 536813536 536813254 2.730000e-114 422
11 TraesCS4A01G471600 chr5B 92.226 283 21 1 535 816 665580312 665580594 1.280000e-107 399
12 TraesCS4A01G471600 chr5B 92.171 281 19 2 535 813 689039092 689038813 5.950000e-106 394
13 TraesCS4A01G471600 chr5B 79.231 260 34 13 227 481 37505501 37505257 1.830000e-36 163
14 TraesCS4A01G471600 chr5B 98.305 59 1 0 482 540 37404842 37404784 1.120000e-18 104
15 TraesCS4A01G471600 chr7D 89.332 1481 137 5 818 2297 538866046 538864586 0.000000e+00 1840
16 TraesCS4A01G471600 chr2D 88.837 1487 156 9 818 2297 546423576 546422093 0.000000e+00 1818
17 TraesCS4A01G471600 chr5D 87.685 1486 174 7 818 2297 553918962 553917480 0.000000e+00 1722
18 TraesCS4A01G471600 chr2A 83.300 1485 236 12 818 2297 699591697 699590220 0.000000e+00 1358
19 TraesCS4A01G471600 chr6D 82.278 1484 254 8 818 2297 240122328 240120850 0.000000e+00 1275
20 TraesCS4A01G471600 chr2B 93.310 284 17 1 535 816 2315325 2315042 3.530000e-113 418
21 TraesCS4A01G471600 chr7B 92.281 285 21 1 535 819 20686234 20686517 9.880000e-109 403
22 TraesCS4A01G471600 chr6B 91.958 286 22 1 535 819 690412167 690411882 1.280000e-107 399
23 TraesCS4A01G471600 chr1A 78.398 412 79 8 1888 2297 550227115 550226712 2.260000e-65 259


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 TraesCS4A01G471600 chr4A 732069551 732071847 2296 True 4242.0 4242 100.000 1 2297 1 chr4A.!!$R1 2296
1 TraesCS4A01G471600 chr3B 144803687 144805166 1479 False 2412.0 2412 96.084 818 2297 1 chr3B.!!$F2 1479
2 TraesCS4A01G471600 chr3B 646285440 646286906 1466 True 1989.0 1989 91.081 818 2297 1 chr3B.!!$R2 1479
3 TraesCS4A01G471600 chr3B 105447673 105449150 1477 False 1380.0 1380 83.536 818 2297 1 chr3B.!!$F1 1479
4 TraesCS4A01G471600 chr5B 384578962 384580378 1416 False 2036.0 2036 92.556 874 2297 1 chr5B.!!$F2 1423
5 TraesCS4A01G471600 chr5B 136424781 136426212 1431 False 950.0 950 78.926 866 2297 1 chr5B.!!$F1 1431
6 TraesCS4A01G471600 chr5B 37404784 37405380 596 True 408.5 713 95.930 1 540 2 chr5B.!!$R4 539
7 TraesCS4A01G471600 chr7D 538864586 538866046 1460 True 1840.0 1840 89.332 818 2297 1 chr7D.!!$R1 1479
8 TraesCS4A01G471600 chr2D 546422093 546423576 1483 True 1818.0 1818 88.837 818 2297 1 chr2D.!!$R1 1479
9 TraesCS4A01G471600 chr5D 553917480 553918962 1482 True 1722.0 1722 87.685 818 2297 1 chr5D.!!$R1 1479
10 TraesCS4A01G471600 chr2A 699590220 699591697 1477 True 1358.0 1358 83.300 818 2297 1 chr2A.!!$R1 1479
11 TraesCS4A01G471600 chr6D 240120850 240122328 1478 True 1275.0 1275 82.278 818 2297 1 chr6D.!!$R1 1479

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
807 868 0.033405 TTAGTCCCACCTCGCTAGCT 60.033 55.0 13.93 0.0 0.0 3.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2066 2164 0.914551 CATCACGGTAGCTTTCGTCG 59.085 55.0 10.43 7.5 37.53 5.12 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
75 76 4.832266 AGATGATGTAACAAAACTGGCCAA 59.168 37.500 7.01 0.00 0.00 4.52
105 106 8.925161 AAACGATCAAAGAAAAAGAATCACAA 57.075 26.923 0.00 0.00 0.00 3.33
124 125 2.332654 GGGTTGGCTTACACTGGCG 61.333 63.158 0.00 0.00 0.00 5.69
153 154 2.444766 GAGGAAGGATGGATGGGTTCAT 59.555 50.000 0.00 0.00 36.09 2.57
225 226 4.738998 CGGGCACTTGGGCATGGA 62.739 66.667 0.00 0.00 45.66 3.41
240 241 2.033602 GGAACCTTCCACCCCACG 59.966 66.667 0.00 0.00 46.76 4.94
285 286 0.245539 CTCTTTAGGTTCACCGCCGA 59.754 55.000 0.00 0.00 42.08 5.54
331 332 6.030228 GGAAACTTTGCACATGTATAGAAGC 58.970 40.000 0.00 0.00 0.00 3.86
333 334 5.551760 ACTTTGCACATGTATAGAAGCAC 57.448 39.130 5.83 0.00 0.00 4.40
353 354 6.347270 GCACTGAGCATGCATAATAGATAG 57.653 41.667 21.98 6.53 44.79 2.08
358 359 8.985922 ACTGAGCATGCATAATAGATAGGATTA 58.014 33.333 21.98 0.00 0.00 1.75
391 392 7.982371 AGATTAGTAGATTACGGTTGAAACG 57.018 36.000 0.00 0.00 37.36 3.60
472 473 9.829507 AAAAACAGAACAAATAATGATCCAACA 57.170 25.926 0.00 0.00 31.49 3.33
478 479 5.018809 ACAAATAATGATCCAACACAGCCT 58.981 37.500 0.00 0.00 0.00 4.58
548 609 3.030652 CACTTCGTGGCACCAACC 58.969 61.111 12.86 0.00 0.00 3.77
549 610 2.590575 ACTTCGTGGCACCAACCG 60.591 61.111 12.86 0.00 0.00 4.44
550 611 3.353836 CTTCGTGGCACCAACCGG 61.354 66.667 12.86 0.00 38.77 5.28
551 612 4.939368 TTCGTGGCACCAACCGGG 62.939 66.667 12.86 0.00 44.81 5.73
556 617 4.589675 GGCACCAACCGGGACCAA 62.590 66.667 6.32 0.00 41.15 3.67
557 618 2.282887 GCACCAACCGGGACCAAT 60.283 61.111 6.32 0.00 41.15 3.16
558 619 2.635443 GCACCAACCGGGACCAATG 61.635 63.158 6.32 0.00 41.15 2.82
559 620 2.282887 ACCAACCGGGACCAATGC 60.283 61.111 6.32 0.00 41.15 3.56
560 621 3.068064 CCAACCGGGACCAATGCC 61.068 66.667 6.32 0.00 40.01 4.40
561 622 3.068064 CAACCGGGACCAATGCCC 61.068 66.667 6.32 0.00 42.41 5.36
562 623 4.376170 AACCGGGACCAATGCCCC 62.376 66.667 6.32 0.00 42.92 5.80
565 626 4.060667 CGGGACCAATGCCCCCTT 62.061 66.667 6.61 0.00 42.92 3.95
566 627 2.449777 GGGACCAATGCCCCCTTT 59.550 61.111 0.00 0.00 39.81 3.11
567 628 1.700985 GGGACCAATGCCCCCTTTA 59.299 57.895 0.00 0.00 39.81 1.85
568 629 0.397114 GGGACCAATGCCCCCTTTAG 60.397 60.000 0.00 0.00 39.81 1.85
569 630 0.335019 GGACCAATGCCCCCTTTAGT 59.665 55.000 0.00 0.00 0.00 2.24
570 631 1.685180 GGACCAATGCCCCCTTTAGTC 60.685 57.143 0.00 0.00 0.00 2.59
571 632 0.335019 ACCAATGCCCCCTTTAGTCC 59.665 55.000 0.00 0.00 0.00 3.85
572 633 0.397114 CCAATGCCCCCTTTAGTCCC 60.397 60.000 0.00 0.00 0.00 4.46
573 634 0.751643 CAATGCCCCCTTTAGTCCCG 60.752 60.000 0.00 0.00 0.00 5.14
574 635 1.933307 AATGCCCCCTTTAGTCCCGG 61.933 60.000 0.00 0.00 0.00 5.73
575 636 3.013327 GCCCCCTTTAGTCCCGGT 61.013 66.667 0.00 0.00 0.00 5.28
576 637 2.609534 GCCCCCTTTAGTCCCGGTT 61.610 63.158 0.00 0.00 0.00 4.44
577 638 1.301954 CCCCCTTTAGTCCCGGTTG 59.698 63.158 0.00 0.00 0.00 3.77
578 639 1.301954 CCCCTTTAGTCCCGGTTGG 59.698 63.158 0.00 0.00 0.00 3.77
579 640 1.494716 CCCCTTTAGTCCCGGTTGGT 61.495 60.000 0.00 0.00 34.77 3.67
580 641 0.322187 CCCTTTAGTCCCGGTTGGTG 60.322 60.000 0.00 0.00 34.77 4.17
581 642 0.958876 CCTTTAGTCCCGGTTGGTGC 60.959 60.000 0.00 0.00 34.77 5.01
582 643 0.958876 CTTTAGTCCCGGTTGGTGCC 60.959 60.000 0.00 0.00 34.77 5.01
583 644 1.706995 TTTAGTCCCGGTTGGTGCCA 61.707 55.000 0.00 0.00 34.77 4.92
584 645 2.400269 TTAGTCCCGGTTGGTGCCAC 62.400 60.000 0.00 0.00 34.77 5.01
585 646 4.265056 GTCCCGGTTGGTGCCACT 62.265 66.667 0.00 0.00 34.77 4.00
586 647 2.527123 TCCCGGTTGGTGCCACTA 60.527 61.111 0.00 0.00 34.77 2.74
587 648 2.148052 TCCCGGTTGGTGCCACTAA 61.148 57.895 0.00 0.00 34.77 2.24
588 649 1.969589 CCCGGTTGGTGCCACTAAC 60.970 63.158 14.96 14.96 38.63 2.34
591 652 3.663202 GTTGGTGCCACTAACCGG 58.337 61.111 12.58 0.00 40.86 5.28
592 653 1.969589 GTTGGTGCCACTAACCGGG 60.970 63.158 12.58 0.00 40.86 5.73
593 654 2.148052 TTGGTGCCACTAACCGGGA 61.148 57.895 6.32 0.00 40.86 5.14
594 655 2.046604 GGTGCCACTAACCGGGAC 60.047 66.667 6.32 0.00 43.66 4.46
595 656 2.046604 GTGCCACTAACCGGGACC 60.047 66.667 6.32 0.00 38.84 4.46
596 657 2.527123 TGCCACTAACCGGGACCA 60.527 61.111 6.32 0.00 0.00 4.02
597 658 2.148052 TGCCACTAACCGGGACCAA 61.148 57.895 6.32 0.00 0.00 3.67
598 659 1.073548 GCCACTAACCGGGACCAAA 59.926 57.895 6.32 0.00 0.00 3.28
599 660 0.958876 GCCACTAACCGGGACCAAAG 60.959 60.000 6.32 0.00 0.00 2.77
600 661 0.322187 CCACTAACCGGGACCAAAGG 60.322 60.000 6.32 0.00 0.00 3.11
601 662 0.958876 CACTAACCGGGACCAAAGGC 60.959 60.000 6.32 0.00 0.00 4.35
602 663 1.378119 CTAACCGGGACCAAAGGCC 60.378 63.158 6.32 0.00 0.00 5.19
603 664 2.132089 CTAACCGGGACCAAAGGCCA 62.132 60.000 6.32 0.00 0.00 5.36
604 665 2.132089 TAACCGGGACCAAAGGCCAG 62.132 60.000 6.32 0.00 0.00 4.85
605 666 3.966543 CCGGGACCAAAGGCCAGT 61.967 66.667 5.01 0.00 0.00 4.00
606 667 2.115266 CGGGACCAAAGGCCAGTT 59.885 61.111 5.01 0.00 0.00 3.16
607 668 1.530655 CGGGACCAAAGGCCAGTTT 60.531 57.895 5.01 0.00 0.00 2.66
608 669 1.112916 CGGGACCAAAGGCCAGTTTT 61.113 55.000 5.01 0.00 0.00 2.43
609 670 1.128200 GGGACCAAAGGCCAGTTTTT 58.872 50.000 5.01 0.00 0.00 1.94
610 671 1.202639 GGGACCAAAGGCCAGTTTTTG 60.203 52.381 5.01 6.88 34.79 2.44
618 679 3.548488 CCAGTTTTTGGCAGCCCA 58.452 55.556 9.64 0.00 40.87 5.36
633 694 2.676471 CCAAAGGGTGGGAAGCGG 60.676 66.667 0.00 0.00 44.64 5.52
634 695 3.373565 CAAAGGGTGGGAAGCGGC 61.374 66.667 0.00 0.00 0.00 6.53
651 712 4.653888 CGGCCTTTGGTCCCGGTT 62.654 66.667 0.00 0.00 38.42 4.44
652 713 2.989253 GGCCTTTGGTCCCGGTTG 60.989 66.667 0.00 0.00 0.00 3.77
653 714 2.989253 GCCTTTGGTCCCGGTTGG 60.989 66.667 0.00 0.00 0.00 3.77
654 715 2.518933 CCTTTGGTCCCGGTTGGT 59.481 61.111 0.00 0.00 34.77 3.67
655 716 1.901464 CCTTTGGTCCCGGTTGGTG 60.901 63.158 0.00 0.00 34.77 4.17
656 717 1.901464 CTTTGGTCCCGGTTGGTGG 60.901 63.158 0.00 0.00 34.77 4.61
657 718 4.589675 TTGGTCCCGGTTGGTGGC 62.590 66.667 0.00 0.00 34.77 5.01
670 731 4.265056 GTGGCACCAACCCGGACT 62.265 66.667 6.29 0.00 38.63 3.85
671 732 2.527123 TGGCACCAACCCGGACTA 60.527 61.111 0.73 0.00 38.63 2.59
672 733 2.148052 TGGCACCAACCCGGACTAA 61.148 57.895 0.73 0.00 38.63 2.24
673 734 1.073548 GGCACCAACCCGGACTAAA 59.926 57.895 0.73 0.00 38.63 1.85
674 735 0.958876 GGCACCAACCCGGACTAAAG 60.959 60.000 0.73 0.00 38.63 1.85
675 736 0.958876 GCACCAACCCGGACTAAAGG 60.959 60.000 0.73 0.00 38.63 3.11
680 741 3.012722 CCCGGACTAAAGGGGGCA 61.013 66.667 0.73 0.00 43.90 5.36
681 742 2.383601 CCCGGACTAAAGGGGGCAT 61.384 63.158 0.73 0.00 43.90 4.40
682 743 1.613061 CCGGACTAAAGGGGGCATT 59.387 57.895 0.00 0.00 0.00 3.56
683 744 0.751643 CCGGACTAAAGGGGGCATTG 60.752 60.000 0.00 0.00 0.00 2.82
684 745 0.751643 CGGACTAAAGGGGGCATTGG 60.752 60.000 0.00 0.00 0.00 3.16
685 746 0.335019 GGACTAAAGGGGGCATTGGT 59.665 55.000 0.00 0.00 0.00 3.67
686 747 1.685180 GGACTAAAGGGGGCATTGGTC 60.685 57.143 0.00 0.00 36.60 4.02
687 748 0.335019 ACTAAAGGGGGCATTGGTCC 59.665 55.000 0.00 0.00 38.40 4.46
693 754 3.068064 GGGCATTGGTCCCGGTTG 61.068 66.667 0.00 0.00 33.43 3.77
694 755 3.068064 GGCATTGGTCCCGGTTGG 61.068 66.667 0.00 0.00 0.00 3.77
695 756 2.282887 GCATTGGTCCCGGTTGGT 60.283 61.111 0.00 0.00 34.77 3.67
696 757 2.635443 GCATTGGTCCCGGTTGGTG 61.635 63.158 0.00 0.00 34.77 4.17
697 758 2.282887 ATTGGTCCCGGTTGGTGC 60.283 61.111 0.00 0.00 34.77 5.01
698 759 3.879180 ATTGGTCCCGGTTGGTGCC 62.879 63.158 0.00 0.00 34.77 5.01
701 762 4.265056 GTCCCGGTTGGTGCCACT 62.265 66.667 0.00 0.00 34.77 4.00
702 763 2.527123 TCCCGGTTGGTGCCACTA 60.527 61.111 0.00 0.00 34.77 2.74
703 764 2.148052 TCCCGGTTGGTGCCACTAA 61.148 57.895 0.00 0.00 34.77 2.24
704 765 1.969589 CCCGGTTGGTGCCACTAAC 60.970 63.158 14.96 14.96 38.63 2.34
705 766 1.072505 CCGGTTGGTGCCACTAACT 59.927 57.895 21.19 0.00 39.22 2.24
706 767 1.234615 CCGGTTGGTGCCACTAACTG 61.235 60.000 22.00 22.00 43.11 3.16
707 768 1.234615 CGGTTGGTGCCACTAACTGG 61.235 60.000 21.41 11.72 40.79 4.00
708 769 0.893727 GGTTGGTGCCACTAACTGGG 60.894 60.000 21.19 0.00 39.22 4.45
709 770 0.109723 GTTGGTGCCACTAACTGGGA 59.890 55.000 15.88 0.00 41.02 4.37
715 776 3.627395 TGCCACTAACTGGGACTAATG 57.373 47.619 0.00 0.00 41.02 1.90
716 777 2.289565 GCCACTAACTGGGACTAATGC 58.710 52.381 0.00 0.00 41.02 3.56
717 778 2.355716 GCCACTAACTGGGACTAATGCA 60.356 50.000 0.00 0.00 41.02 3.96
718 779 3.270877 CCACTAACTGGGACTAATGCAC 58.729 50.000 0.00 0.00 36.18 4.57
719 780 3.055094 CCACTAACTGGGACTAATGCACT 60.055 47.826 0.00 0.00 36.18 4.40
720 781 4.184629 CACTAACTGGGACTAATGCACTC 58.815 47.826 0.00 0.00 0.00 3.51
721 782 2.789409 AACTGGGACTAATGCACTCC 57.211 50.000 0.00 0.00 0.00 3.85
722 783 1.958288 ACTGGGACTAATGCACTCCT 58.042 50.000 0.00 0.00 0.00 3.69
723 784 1.556911 ACTGGGACTAATGCACTCCTG 59.443 52.381 0.00 0.00 0.00 3.86
724 785 1.556911 CTGGGACTAATGCACTCCTGT 59.443 52.381 0.00 0.00 0.00 4.00
725 786 2.766263 CTGGGACTAATGCACTCCTGTA 59.234 50.000 0.00 0.00 0.00 2.74
726 787 2.766263 TGGGACTAATGCACTCCTGTAG 59.234 50.000 0.00 0.00 0.00 2.74
727 788 2.766828 GGGACTAATGCACTCCTGTAGT 59.233 50.000 0.00 0.00 39.81 2.73
728 789 3.181474 GGGACTAATGCACTCCTGTAGTC 60.181 52.174 0.00 0.00 39.85 2.59
729 790 4.048241 GACTAATGCACTCCTGTAGTCC 57.952 50.000 0.00 0.00 35.76 3.85
730 791 2.766828 ACTAATGCACTCCTGTAGTCCC 59.233 50.000 0.00 0.00 35.76 4.46
731 792 0.537188 AATGCACTCCTGTAGTCCCG 59.463 55.000 0.00 0.00 35.76 5.14
732 793 1.330655 ATGCACTCCTGTAGTCCCGG 61.331 60.000 0.00 0.00 35.76 5.73
733 794 1.982938 GCACTCCTGTAGTCCCGGT 60.983 63.158 0.00 0.00 35.76 5.28
734 795 1.542187 GCACTCCTGTAGTCCCGGTT 61.542 60.000 0.00 0.00 35.76 4.44
735 796 0.246635 CACTCCTGTAGTCCCGGTTG 59.753 60.000 0.00 0.00 35.76 3.77
736 797 0.903454 ACTCCTGTAGTCCCGGTTGG 60.903 60.000 0.00 0.00 30.33 3.77
737 798 0.903454 CTCCTGTAGTCCCGGTTGGT 60.903 60.000 0.00 0.00 34.77 3.67
738 799 1.189524 TCCTGTAGTCCCGGTTGGTG 61.190 60.000 0.00 0.00 34.77 4.17
739 800 1.375523 CTGTAGTCCCGGTTGGTGC 60.376 63.158 0.00 0.00 34.77 5.01
740 801 2.046604 GTAGTCCCGGTTGGTGCC 60.047 66.667 0.00 0.00 34.77 5.01
741 802 2.527123 TAGTCCCGGTTGGTGCCA 60.527 61.111 0.00 0.00 34.77 4.92
742 803 2.886134 TAGTCCCGGTTGGTGCCAC 61.886 63.158 0.00 0.00 34.77 5.01
755 816 4.589675 GCCACCAACCGGGACCAA 62.590 66.667 6.32 0.00 41.15 3.67
756 817 2.438795 CCACCAACCGGGACCAAT 59.561 61.111 6.32 0.00 41.15 3.16
757 818 1.976474 CCACCAACCGGGACCAATG 60.976 63.158 6.32 0.00 41.15 2.82
758 819 1.976474 CACCAACCGGGACCAATGG 60.976 63.158 6.32 0.00 41.15 3.16
759 820 2.362375 CCAACCGGGACCAATGGG 60.362 66.667 6.32 0.00 40.01 4.00
760 821 3.068064 CAACCGGGACCAATGGGC 61.068 66.667 6.32 0.00 37.90 5.36
767 828 2.973082 GACCAATGGGCCTTGCAC 59.027 61.111 4.53 0.71 37.90 4.57
773 834 3.312718 TGGGCCTTGCACAATGGC 61.313 61.111 4.53 12.59 39.83 4.40
774 835 4.440127 GGGCCTTGCACAATGGCG 62.440 66.667 0.84 0.00 46.97 5.69
775 836 3.683937 GGCCTTGCACAATGGCGT 61.684 61.111 13.85 0.00 46.97 5.68
776 837 2.431260 GCCTTGCACAATGGCGTG 60.431 61.111 7.70 0.00 40.00 5.34
777 838 2.259204 CCTTGCACAATGGCGTGG 59.741 61.111 0.00 0.00 37.37 4.94
778 839 2.563798 CCTTGCACAATGGCGTGGT 61.564 57.895 0.00 0.00 37.37 4.16
779 840 1.372004 CTTGCACAATGGCGTGGTG 60.372 57.895 9.99 9.99 37.37 4.17
780 841 2.752322 CTTGCACAATGGCGTGGTGG 62.752 60.000 15.82 0.00 37.37 4.61
781 842 3.294493 GCACAATGGCGTGGTGGT 61.294 61.111 15.82 0.00 37.37 4.16
782 843 1.969064 GCACAATGGCGTGGTGGTA 60.969 57.895 15.82 0.00 37.37 3.25
783 844 1.922135 GCACAATGGCGTGGTGGTAG 61.922 60.000 15.82 0.00 37.37 3.18
784 845 1.002624 ACAATGGCGTGGTGGTAGG 60.003 57.895 0.00 0.00 0.00 3.18
785 846 1.298340 CAATGGCGTGGTGGTAGGA 59.702 57.895 0.00 0.00 0.00 2.94
786 847 0.744414 CAATGGCGTGGTGGTAGGAG 60.744 60.000 0.00 0.00 0.00 3.69
787 848 1.198759 AATGGCGTGGTGGTAGGAGT 61.199 55.000 0.00 0.00 0.00 3.85
788 849 1.198759 ATGGCGTGGTGGTAGGAGTT 61.199 55.000 0.00 0.00 0.00 3.01
789 850 1.373812 GGCGTGGTGGTAGGAGTTT 59.626 57.895 0.00 0.00 0.00 2.66
790 851 0.609662 GGCGTGGTGGTAGGAGTTTA 59.390 55.000 0.00 0.00 0.00 2.01
791 852 1.405121 GGCGTGGTGGTAGGAGTTTAG 60.405 57.143 0.00 0.00 0.00 1.85
792 853 1.274447 GCGTGGTGGTAGGAGTTTAGT 59.726 52.381 0.00 0.00 0.00 2.24
793 854 2.673326 GCGTGGTGGTAGGAGTTTAGTC 60.673 54.545 0.00 0.00 0.00 2.59
794 855 2.094338 CGTGGTGGTAGGAGTTTAGTCC 60.094 54.545 0.00 0.00 36.79 3.85
795 856 2.235650 GTGGTGGTAGGAGTTTAGTCCC 59.764 54.545 0.00 0.00 37.31 4.46
796 857 2.158127 TGGTGGTAGGAGTTTAGTCCCA 60.158 50.000 0.00 0.00 37.31 4.37
797 858 2.235650 GGTGGTAGGAGTTTAGTCCCAC 59.764 54.545 0.00 0.00 37.31 4.61
798 859 2.235650 GTGGTAGGAGTTTAGTCCCACC 59.764 54.545 12.64 12.64 45.88 4.61
799 860 2.113052 TGGTAGGAGTTTAGTCCCACCT 59.887 50.000 18.19 0.00 45.87 4.00
800 861 2.765135 GGTAGGAGTTTAGTCCCACCTC 59.235 54.545 12.36 0.00 43.21 3.85
801 862 1.558233 AGGAGTTTAGTCCCACCTCG 58.442 55.000 0.00 0.00 37.31 4.63
802 863 0.108281 GGAGTTTAGTCCCACCTCGC 60.108 60.000 0.00 0.00 0.00 5.03
803 864 0.896226 GAGTTTAGTCCCACCTCGCT 59.104 55.000 0.00 0.00 0.00 4.93
804 865 2.097825 GAGTTTAGTCCCACCTCGCTA 58.902 52.381 0.00 0.00 0.00 4.26
805 866 2.099427 GAGTTTAGTCCCACCTCGCTAG 59.901 54.545 0.00 0.00 0.00 3.42
806 867 0.822164 TTTAGTCCCACCTCGCTAGC 59.178 55.000 4.06 4.06 0.00 3.42
807 868 0.033405 TTAGTCCCACCTCGCTAGCT 60.033 55.000 13.93 0.00 0.00 3.32
808 869 0.752009 TAGTCCCACCTCGCTAGCTG 60.752 60.000 13.93 6.69 0.00 4.24
809 870 2.052690 GTCCCACCTCGCTAGCTGA 61.053 63.158 13.93 10.81 0.00 4.26
810 871 1.754621 TCCCACCTCGCTAGCTGAG 60.755 63.158 21.98 21.98 0.00 3.35
811 872 1.754621 CCCACCTCGCTAGCTGAGA 60.755 63.158 27.24 12.76 35.43 3.27
812 873 1.732917 CCACCTCGCTAGCTGAGAG 59.267 63.158 27.24 19.63 41.40 3.20
813 874 0.749818 CCACCTCGCTAGCTGAGAGA 60.750 60.000 27.24 12.14 43.90 3.10
872 935 1.443407 CTCGCCCGACATGGAGATT 59.557 57.895 0.00 0.00 42.00 2.40
1029 1099 2.601666 ACGTCTGCCTCTGGAGCA 60.602 61.111 0.00 0.00 38.82 4.26
1294 1365 1.580066 TTGCCTCGGGGATTGGGAAT 61.580 55.000 4.80 0.00 33.58 3.01
1533 1604 3.849064 TTTTTCAGGGTGCGGGTG 58.151 55.556 0.00 0.00 0.00 4.61
1572 1643 1.581934 CTTTGAGGAACGCTGTGTCA 58.418 50.000 0.00 0.00 0.00 3.58
1691 1762 2.832643 TGTGGCAATGGGATTCATCT 57.167 45.000 0.00 0.00 34.44 2.90
1730 1808 6.808008 TTTCAAGAATCTTCGAGCTGATTT 57.192 33.333 0.00 1.82 33.60 2.17
1803 1887 3.715097 GGCAGAGGCAGAGCTGGT 61.715 66.667 0.00 0.00 43.71 4.00
2005 2102 1.858739 AAATAGCCCGGGTCAAGCCA 61.859 55.000 24.63 0.00 39.65 4.75
2008 2105 2.808761 TAGCCCGGGTCAAGCCACTA 62.809 60.000 24.63 9.31 39.65 2.74
2011 2108 1.622607 CCCGGGTCAAGCCACTATGA 61.623 60.000 14.18 0.00 39.65 2.15
2066 2164 7.116805 CCCAACATCTAAGCAAGAATCAAAAAC 59.883 37.037 0.00 0.00 37.89 2.43
2088 2186 2.789893 GACGAAAGCTACCGTGATGATC 59.210 50.000 16.48 0.00 39.30 2.92
2106 2204 7.596621 GTGATGATCTTTGAAAAAGGAACCTTC 59.403 37.037 6.56 0.00 34.84 3.46
2133 2231 0.032540 CAAGCAGCAACAACCCTTCC 59.967 55.000 0.00 0.00 0.00 3.46
2194 2292 1.950216 CGCAGTGAGTCTCCTATGCTA 59.050 52.381 15.13 0.00 0.00 3.49
2277 2375 2.047844 CCCCCTCTATCGCATGCG 60.048 66.667 33.61 33.61 41.35 4.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
83 84 6.583806 CCCTTGTGATTCTTTTTCTTTGATCG 59.416 38.462 0.00 0.00 0.00 3.69
88 89 6.348498 CCAACCCTTGTGATTCTTTTTCTTT 58.652 36.000 0.00 0.00 0.00 2.52
100 101 1.493022 AGTGTAAGCCAACCCTTGTGA 59.507 47.619 0.00 0.00 0.00 3.58
105 106 1.074951 GCCAGTGTAAGCCAACCCT 59.925 57.895 0.00 0.00 0.00 4.34
124 125 4.162690 ATCCTTCCTCCCGCACGC 62.163 66.667 0.00 0.00 0.00 5.34
153 154 3.295093 TGCCACTTCTTTCATGAAACCA 58.705 40.909 16.91 4.00 0.00 3.67
215 216 4.863415 GGAAGGTTCCATGCCCAA 57.137 55.556 3.73 0.00 46.76 4.12
225 226 0.753848 CAAACGTGGGGTGGAAGGTT 60.754 55.000 0.00 0.00 0.00 3.50
240 241 1.133869 CGGATTCGGGCGTTCAAAC 59.866 57.895 0.00 0.00 0.00 2.93
303 304 1.066908 ACATGTGCAAAGTTTCCGTGG 59.933 47.619 0.00 0.00 0.00 4.94
331 332 6.637657 TCCTATCTATTATGCATGCTCAGTG 58.362 40.000 20.33 5.13 0.00 3.66
333 334 9.999660 ATAATCCTATCTATTATGCATGCTCAG 57.000 33.333 20.33 8.53 30.22 3.35
453 454 5.807011 GGCTGTGTTGGATCATTATTTGTTC 59.193 40.000 0.00 0.00 0.00 3.18
495 556 2.171237 TGTGGATGGATGGACTCATGTC 59.829 50.000 0.00 0.00 42.22 3.06
540 601 2.282887 ATTGGTCCCGGTTGGTGC 60.283 61.111 0.00 0.00 34.77 5.01
541 602 2.635443 GCATTGGTCCCGGTTGGTG 61.635 63.158 0.00 0.00 34.77 4.17
542 603 2.282887 GCATTGGTCCCGGTTGGT 60.283 61.111 0.00 0.00 34.77 3.67
543 604 3.068064 GGCATTGGTCCCGGTTGG 61.068 66.667 0.00 0.00 0.00 3.77
544 605 3.068064 GGGCATTGGTCCCGGTTG 61.068 66.667 0.00 0.00 33.43 3.77
550 611 0.335019 ACTAAAGGGGGCATTGGTCC 59.665 55.000 0.00 0.00 38.40 4.46
551 612 1.685180 GGACTAAAGGGGGCATTGGTC 60.685 57.143 0.00 0.00 36.60 4.02
552 613 0.335019 GGACTAAAGGGGGCATTGGT 59.665 55.000 0.00 0.00 0.00 3.67
553 614 0.397114 GGGACTAAAGGGGGCATTGG 60.397 60.000 0.00 0.00 0.00 3.16
554 615 0.751643 CGGGACTAAAGGGGGCATTG 60.752 60.000 0.00 0.00 0.00 2.82
555 616 1.613061 CGGGACTAAAGGGGGCATT 59.387 57.895 0.00 0.00 0.00 3.56
556 617 2.383601 CCGGGACTAAAGGGGGCAT 61.384 63.158 0.00 0.00 0.00 4.40
557 618 3.012722 CCGGGACTAAAGGGGGCA 61.013 66.667 0.00 0.00 0.00 5.36
558 619 2.609534 AACCGGGACTAAAGGGGGC 61.610 63.158 6.32 0.00 0.00 5.80
559 620 1.301954 CAACCGGGACTAAAGGGGG 59.698 63.158 6.32 0.00 0.00 5.40
560 621 1.301954 CCAACCGGGACTAAAGGGG 59.698 63.158 6.32 0.00 40.01 4.79
561 622 0.322187 CACCAACCGGGACTAAAGGG 60.322 60.000 6.32 0.00 41.15 3.95
562 623 0.958876 GCACCAACCGGGACTAAAGG 60.959 60.000 6.32 0.00 41.15 3.11
563 624 0.958876 GGCACCAACCGGGACTAAAG 60.959 60.000 6.32 0.00 41.15 1.85
564 625 1.073548 GGCACCAACCGGGACTAAA 59.926 57.895 6.32 0.00 41.15 1.85
565 626 2.148052 TGGCACCAACCGGGACTAA 61.148 57.895 6.32 0.00 41.15 2.24
566 627 2.527123 TGGCACCAACCGGGACTA 60.527 61.111 6.32 0.00 41.15 2.59
567 628 4.265056 GTGGCACCAACCGGGACT 62.265 66.667 6.32 0.00 41.15 3.85
568 629 2.400269 TTAGTGGCACCAACCGGGAC 62.400 60.000 15.27 0.00 41.15 4.46
569 630 2.148052 TTAGTGGCACCAACCGGGA 61.148 57.895 15.27 0.00 41.15 5.14
570 631 1.969589 GTTAGTGGCACCAACCGGG 60.970 63.158 16.64 0.00 44.81 5.73
571 632 1.969589 GGTTAGTGGCACCAACCGG 60.970 63.158 27.71 0.00 32.96 5.28
572 633 3.663202 GGTTAGTGGCACCAACCG 58.337 61.111 27.71 0.00 32.96 4.44
573 634 1.969589 CCGGTTAGTGGCACCAACC 60.970 63.158 30.41 30.41 38.68 3.77
574 635 1.969589 CCCGGTTAGTGGCACCAAC 60.970 63.158 18.78 18.78 33.36 3.77
575 636 2.148052 TCCCGGTTAGTGGCACCAA 61.148 57.895 15.27 3.68 33.36 3.67
576 637 2.527123 TCCCGGTTAGTGGCACCA 60.527 61.111 15.27 0.00 33.36 4.17
577 638 2.046604 GTCCCGGTTAGTGGCACC 60.047 66.667 15.27 0.00 0.00 5.01
578 639 2.046604 GGTCCCGGTTAGTGGCAC 60.047 66.667 10.29 10.29 0.00 5.01
579 640 1.706995 TTTGGTCCCGGTTAGTGGCA 61.707 55.000 0.00 0.00 0.00 4.92
580 641 0.958876 CTTTGGTCCCGGTTAGTGGC 60.959 60.000 0.00 0.00 0.00 5.01
581 642 0.322187 CCTTTGGTCCCGGTTAGTGG 60.322 60.000 0.00 0.00 0.00 4.00
582 643 0.958876 GCCTTTGGTCCCGGTTAGTG 60.959 60.000 0.00 0.00 0.00 2.74
583 644 1.377612 GCCTTTGGTCCCGGTTAGT 59.622 57.895 0.00 0.00 0.00 2.24
584 645 1.378119 GGCCTTTGGTCCCGGTTAG 60.378 63.158 0.00 0.00 0.00 2.34
585 646 2.132089 CTGGCCTTTGGTCCCGGTTA 62.132 60.000 3.32 0.00 0.00 2.85
586 647 3.503839 TGGCCTTTGGTCCCGGTT 61.504 61.111 3.32 0.00 0.00 4.44
587 648 3.966543 CTGGCCTTTGGTCCCGGT 61.967 66.667 3.32 0.00 0.00 5.28
588 649 2.994643 AAACTGGCCTTTGGTCCCGG 62.995 60.000 3.32 0.00 0.00 5.73
589 650 1.112916 AAAACTGGCCTTTGGTCCCG 61.113 55.000 3.32 0.00 0.00 5.14
590 651 1.128200 AAAAACTGGCCTTTGGTCCC 58.872 50.000 3.32 0.00 0.00 4.46
591 652 1.202639 CCAAAAACTGGCCTTTGGTCC 60.203 52.381 20.88 0.00 44.37 4.46
592 653 2.238942 CCAAAAACTGGCCTTTGGTC 57.761 50.000 20.88 0.00 44.37 4.02
602 663 1.585297 CTTTGGGCTGCCAAAAACTG 58.415 50.000 21.07 7.22 38.88 3.16
603 664 0.469494 CCTTTGGGCTGCCAAAAACT 59.531 50.000 21.07 0.00 38.88 2.66
604 665 0.534877 CCCTTTGGGCTGCCAAAAAC 60.535 55.000 21.07 3.85 38.88 2.43
605 666 1.835693 CCCTTTGGGCTGCCAAAAA 59.164 52.632 21.07 17.92 38.88 1.94
606 667 3.560989 CCCTTTGGGCTGCCAAAA 58.439 55.556 19.72 19.72 38.88 2.44
616 677 2.676471 CCGCTTCCCACCCTTTGG 60.676 66.667 0.00 0.00 46.47 3.28
617 678 3.373565 GCCGCTTCCCACCCTTTG 61.374 66.667 0.00 0.00 0.00 2.77
634 695 4.653888 AACCGGGACCAAAGGCCG 62.654 66.667 6.32 0.00 0.00 6.13
635 696 2.989253 CAACCGGGACCAAAGGCC 60.989 66.667 6.32 0.00 0.00 5.19
636 697 2.989253 CCAACCGGGACCAAAGGC 60.989 66.667 6.32 0.00 40.01 4.35
637 698 1.901464 CACCAACCGGGACCAAAGG 60.901 63.158 6.32 0.00 41.15 3.11
638 699 1.901464 CCACCAACCGGGACCAAAG 60.901 63.158 6.32 0.00 41.15 2.77
639 700 2.196229 CCACCAACCGGGACCAAA 59.804 61.111 6.32 0.00 41.15 3.28
640 701 4.589675 GCCACCAACCGGGACCAA 62.590 66.667 6.32 0.00 41.15 3.67
653 714 2.400269 TTAGTCCGGGTTGGTGCCAC 62.400 60.000 0.00 0.00 39.52 5.01
654 715 1.706995 TTTAGTCCGGGTTGGTGCCA 61.707 55.000 0.00 0.00 39.52 4.92
655 716 0.958876 CTTTAGTCCGGGTTGGTGCC 60.959 60.000 0.00 0.00 39.52 5.01
656 717 0.958876 CCTTTAGTCCGGGTTGGTGC 60.959 60.000 0.00 0.00 39.52 5.01
657 718 0.322187 CCCTTTAGTCCGGGTTGGTG 60.322 60.000 0.00 0.00 39.52 4.17
658 719 1.494716 CCCCTTTAGTCCGGGTTGGT 61.495 60.000 0.00 0.00 38.88 3.67
659 720 1.301954 CCCCTTTAGTCCGGGTTGG 59.698 63.158 0.00 0.00 38.88 3.77
660 721 1.301954 CCCCCTTTAGTCCGGGTTG 59.698 63.158 0.00 0.00 38.88 3.77
661 722 2.609534 GCCCCCTTTAGTCCGGGTT 61.610 63.158 0.00 0.00 38.88 4.11
662 723 3.013327 GCCCCCTTTAGTCCGGGT 61.013 66.667 0.00 0.00 38.88 5.28
663 724 1.933307 AATGCCCCCTTTAGTCCGGG 61.933 60.000 0.00 0.00 40.29 5.73
664 725 0.751643 CAATGCCCCCTTTAGTCCGG 60.752 60.000 0.00 0.00 0.00 5.14
665 726 0.751643 CCAATGCCCCCTTTAGTCCG 60.752 60.000 0.00 0.00 0.00 4.79
666 727 0.335019 ACCAATGCCCCCTTTAGTCC 59.665 55.000 0.00 0.00 0.00 3.85
667 728 1.685180 GGACCAATGCCCCCTTTAGTC 60.685 57.143 0.00 0.00 0.00 2.59
668 729 0.335019 GGACCAATGCCCCCTTTAGT 59.665 55.000 0.00 0.00 0.00 2.24
669 730 0.397114 GGGACCAATGCCCCCTTTAG 60.397 60.000 0.00 0.00 39.81 1.85
670 731 1.700985 GGGACCAATGCCCCCTTTA 59.299 57.895 0.00 0.00 39.81 1.85
671 732 2.449777 GGGACCAATGCCCCCTTT 59.550 61.111 0.00 0.00 39.81 3.11
672 733 4.060667 CGGGACCAATGCCCCCTT 62.061 66.667 6.61 0.00 42.92 3.95
675 736 4.376170 AACCGGGACCAATGCCCC 62.376 66.667 6.32 0.00 42.92 5.80
676 737 3.068064 CAACCGGGACCAATGCCC 61.068 66.667 6.32 0.00 42.41 5.36
677 738 3.068064 CCAACCGGGACCAATGCC 61.068 66.667 6.32 0.00 40.01 4.40
678 739 2.282887 ACCAACCGGGACCAATGC 60.283 61.111 6.32 0.00 41.15 3.56
679 740 2.635443 GCACCAACCGGGACCAATG 61.635 63.158 6.32 0.00 41.15 2.82
680 741 2.282887 GCACCAACCGGGACCAAT 60.283 61.111 6.32 0.00 41.15 3.16
681 742 4.589675 GGCACCAACCGGGACCAA 62.590 66.667 6.32 0.00 41.15 3.67
684 745 2.400269 TTAGTGGCACCAACCGGGAC 62.400 60.000 15.27 0.00 41.15 4.46
685 746 2.148052 TTAGTGGCACCAACCGGGA 61.148 57.895 15.27 0.00 41.15 5.14
686 747 1.969589 GTTAGTGGCACCAACCGGG 60.970 63.158 16.64 0.00 44.81 5.73
687 748 1.072505 AGTTAGTGGCACCAACCGG 59.927 57.895 22.37 0.00 38.77 5.28
688 749 1.234615 CCAGTTAGTGGCACCAACCG 61.235 60.000 22.37 14.08 40.39 4.44
689 750 0.893727 CCCAGTTAGTGGCACCAACC 60.894 60.000 22.37 7.59 46.45 3.77
690 751 0.109723 TCCCAGTTAGTGGCACCAAC 59.890 55.000 19.26 19.26 46.45 3.77
691 752 0.109723 GTCCCAGTTAGTGGCACCAA 59.890 55.000 15.27 3.68 46.45 3.67
692 753 0.766674 AGTCCCAGTTAGTGGCACCA 60.767 55.000 15.27 0.00 46.45 4.17
693 754 1.272807 TAGTCCCAGTTAGTGGCACC 58.727 55.000 15.27 0.00 46.45 5.01
694 755 3.270877 CATTAGTCCCAGTTAGTGGCAC 58.729 50.000 10.29 10.29 46.45 5.01
695 756 2.355716 GCATTAGTCCCAGTTAGTGGCA 60.356 50.000 0.00 0.00 46.45 4.92
696 757 2.289565 GCATTAGTCCCAGTTAGTGGC 58.710 52.381 0.00 0.00 46.45 5.01
698 759 4.184629 GAGTGCATTAGTCCCAGTTAGTG 58.815 47.826 0.00 0.00 0.00 2.74
699 760 3.197983 GGAGTGCATTAGTCCCAGTTAGT 59.802 47.826 0.00 0.00 42.22 2.24
700 761 3.798202 GGAGTGCATTAGTCCCAGTTAG 58.202 50.000 0.00 0.00 42.22 2.34
701 762 3.906720 GGAGTGCATTAGTCCCAGTTA 57.093 47.619 0.00 0.00 42.22 2.24
702 763 2.789409 GGAGTGCATTAGTCCCAGTT 57.211 50.000 0.00 0.00 42.22 3.16
708 769 4.048241 GGACTACAGGAGTGCATTAGTC 57.952 50.000 0.00 11.87 45.51 2.59
715 776 1.542187 AACCGGGACTACAGGAGTGC 61.542 60.000 6.32 0.00 45.47 4.40
716 777 0.246635 CAACCGGGACTACAGGAGTG 59.753 60.000 6.32 0.00 39.06 3.51
717 778 0.903454 CCAACCGGGACTACAGGAGT 60.903 60.000 6.32 0.00 42.90 3.85
718 779 0.903454 ACCAACCGGGACTACAGGAG 60.903 60.000 6.32 0.00 41.15 3.69
719 780 1.156803 ACCAACCGGGACTACAGGA 59.843 57.895 6.32 0.00 41.15 3.86
720 781 1.295423 CACCAACCGGGACTACAGG 59.705 63.158 6.32 0.00 41.15 4.00
721 782 1.375523 GCACCAACCGGGACTACAG 60.376 63.158 6.32 0.00 41.15 2.74
722 783 2.745037 GCACCAACCGGGACTACA 59.255 61.111 6.32 0.00 41.15 2.74
723 784 2.046604 GGCACCAACCGGGACTAC 60.047 66.667 6.32 0.00 41.15 2.73
724 785 2.527123 TGGCACCAACCGGGACTA 60.527 61.111 6.32 0.00 41.15 2.59
725 786 4.265056 GTGGCACCAACCGGGACT 62.265 66.667 6.32 0.00 41.15 3.85
738 799 3.879180 ATTGGTCCCGGTTGGTGGC 62.879 63.158 0.00 0.00 34.77 5.01
739 800 1.976474 CATTGGTCCCGGTTGGTGG 60.976 63.158 0.00 0.00 34.77 4.61
740 801 1.976474 CCATTGGTCCCGGTTGGTG 60.976 63.158 0.00 0.00 34.77 4.17
741 802 2.438795 CCATTGGTCCCGGTTGGT 59.561 61.111 0.00 0.00 34.77 3.67
742 803 2.362375 CCCATTGGTCCCGGTTGG 60.362 66.667 0.00 0.00 0.00 3.77
743 804 3.068064 GCCCATTGGTCCCGGTTG 61.068 66.667 0.00 0.00 0.00 3.77
744 805 4.376170 GGCCCATTGGTCCCGGTT 62.376 66.667 0.00 0.00 0.00 4.44
746 807 4.060667 AAGGCCCATTGGTCCCGG 62.061 66.667 0.00 0.00 36.69 5.73
747 808 2.755469 CAAGGCCCATTGGTCCCG 60.755 66.667 0.00 0.00 36.69 5.14
748 809 3.076916 GCAAGGCCCATTGGTCCC 61.077 66.667 0.00 0.25 36.69 4.46
749 810 2.283821 TGCAAGGCCCATTGGTCC 60.284 61.111 0.00 0.00 36.69 4.46
750 811 1.470996 TTGTGCAAGGCCCATTGGTC 61.471 55.000 0.00 0.00 36.05 4.02
751 812 0.837260 ATTGTGCAAGGCCCATTGGT 60.837 50.000 0.00 0.00 0.00 3.67
752 813 0.391927 CATTGTGCAAGGCCCATTGG 60.392 55.000 0.00 0.00 0.00 3.16
753 814 0.391927 CCATTGTGCAAGGCCCATTG 60.392 55.000 0.00 0.00 0.00 2.82
754 815 1.984817 CCATTGTGCAAGGCCCATT 59.015 52.632 0.00 0.00 0.00 3.16
755 816 2.662070 GCCATTGTGCAAGGCCCAT 61.662 57.895 0.00 0.00 42.58 4.00
756 817 3.312718 GCCATTGTGCAAGGCCCA 61.313 61.111 0.00 0.00 42.58 5.36
757 818 4.440127 CGCCATTGTGCAAGGCCC 62.440 66.667 13.18 0.00 45.56 5.80
758 819 3.683937 ACGCCATTGTGCAAGGCC 61.684 61.111 13.18 0.00 45.56 5.19
759 820 2.431260 CACGCCATTGTGCAAGGC 60.431 61.111 9.88 9.88 44.89 4.35
760 821 2.259204 CCACGCCATTGTGCAAGG 59.741 61.111 0.00 0.00 38.55 3.61
761 822 1.372004 CACCACGCCATTGTGCAAG 60.372 57.895 0.00 0.00 38.55 4.01
762 823 2.726909 CACCACGCCATTGTGCAA 59.273 55.556 0.00 0.00 38.55 4.08
763 824 2.682582 TACCACCACGCCATTGTGCA 62.683 55.000 0.00 0.00 38.55 4.57
764 825 1.922135 CTACCACCACGCCATTGTGC 61.922 60.000 0.00 0.00 38.55 4.57
765 826 1.305219 CCTACCACCACGCCATTGTG 61.305 60.000 0.00 0.00 39.60 3.33
766 827 1.002624 CCTACCACCACGCCATTGT 60.003 57.895 0.00 0.00 0.00 2.71
767 828 0.744414 CTCCTACCACCACGCCATTG 60.744 60.000 0.00 0.00 0.00 2.82
768 829 1.198759 ACTCCTACCACCACGCCATT 61.199 55.000 0.00 0.00 0.00 3.16
769 830 1.198759 AACTCCTACCACCACGCCAT 61.199 55.000 0.00 0.00 0.00 4.40
770 831 1.412453 AAACTCCTACCACCACGCCA 61.412 55.000 0.00 0.00 0.00 5.69
771 832 0.609662 TAAACTCCTACCACCACGCC 59.390 55.000 0.00 0.00 0.00 5.68
772 833 1.274447 ACTAAACTCCTACCACCACGC 59.726 52.381 0.00 0.00 0.00 5.34
773 834 2.094338 GGACTAAACTCCTACCACCACG 60.094 54.545 0.00 0.00 0.00 4.94
774 835 2.235650 GGGACTAAACTCCTACCACCAC 59.764 54.545 0.00 0.00 0.00 4.16
775 836 2.158127 TGGGACTAAACTCCTACCACCA 60.158 50.000 0.00 0.00 0.00 4.17
776 837 2.235650 GTGGGACTAAACTCCTACCACC 59.764 54.545 0.00 0.00 40.64 4.61
777 838 3.606595 GTGGGACTAAACTCCTACCAC 57.393 52.381 0.00 0.00 36.11 4.16
780 841 2.426381 CGAGGTGGGACTAAACTCCTAC 59.574 54.545 0.00 0.00 40.32 3.18
781 842 2.731572 CGAGGTGGGACTAAACTCCTA 58.268 52.381 0.00 0.00 0.00 2.94
782 843 1.558233 CGAGGTGGGACTAAACTCCT 58.442 55.000 0.00 0.00 0.00 3.69
783 844 0.108281 GCGAGGTGGGACTAAACTCC 60.108 60.000 0.00 0.00 0.00 3.85
784 845 0.896226 AGCGAGGTGGGACTAAACTC 59.104 55.000 0.00 0.00 0.00 3.01
785 846 2.100989 CTAGCGAGGTGGGACTAAACT 58.899 52.381 0.00 0.00 0.00 2.66
786 847 1.471153 GCTAGCGAGGTGGGACTAAAC 60.471 57.143 0.00 0.00 0.00 2.01
787 848 0.822164 GCTAGCGAGGTGGGACTAAA 59.178 55.000 0.00 0.00 0.00 1.85
788 849 0.033405 AGCTAGCGAGGTGGGACTAA 60.033 55.000 9.55 0.00 30.28 2.24
789 850 0.752009 CAGCTAGCGAGGTGGGACTA 60.752 60.000 17.16 0.00 45.66 2.59
790 851 2.055042 CAGCTAGCGAGGTGGGACT 61.055 63.158 17.16 0.00 45.66 3.85
791 852 2.496817 CAGCTAGCGAGGTGGGAC 59.503 66.667 17.16 0.00 45.66 4.46
796 857 0.544223 TCTCTCTCAGCTAGCGAGGT 59.456 55.000 25.72 2.96 37.60 3.85
797 858 1.333619 GTTCTCTCTCAGCTAGCGAGG 59.666 57.143 25.72 19.25 37.60 4.63
798 859 1.333619 GGTTCTCTCTCAGCTAGCGAG 59.666 57.143 22.56 22.56 38.24 5.03
799 860 1.384525 GGTTCTCTCTCAGCTAGCGA 58.615 55.000 9.55 8.97 0.00 4.93
800 861 0.383949 GGGTTCTCTCTCAGCTAGCG 59.616 60.000 9.55 4.60 0.00 4.26
801 862 0.750249 GGGGTTCTCTCTCAGCTAGC 59.250 60.000 6.62 6.62 0.00 3.42
802 863 2.306847 GAGGGGTTCTCTCTCAGCTAG 58.693 57.143 0.00 0.00 39.38 3.42
803 864 2.445682 GAGGGGTTCTCTCTCAGCTA 57.554 55.000 0.00 0.00 39.38 3.32
804 865 3.298320 GAGGGGTTCTCTCTCAGCT 57.702 57.895 0.00 0.00 39.38 4.24
1029 1099 0.529337 CTTCCATGTCGCTCATCGCT 60.529 55.000 0.00 0.00 38.27 4.93
1294 1365 1.335132 GGCCCGTCCTCCATTACTCA 61.335 60.000 0.00 0.00 0.00 3.41
1533 1604 3.222603 AGGTTTTGTGACATCCACCTTC 58.777 45.455 5.33 0.00 45.09 3.46
1572 1643 3.328050 CCCTCTTCTTCTTTACCACCAGT 59.672 47.826 0.00 0.00 0.00 4.00
1691 1762 2.274542 TGAAAACTAGGGCAGATGGGA 58.725 47.619 0.00 0.00 0.00 4.37
1730 1808 4.369837 GCCCCGGCCCCTTAAACA 62.370 66.667 0.00 0.00 34.56 2.83
2005 2102 1.485066 CGCAGGGGGTAAAGTCATAGT 59.515 52.381 0.00 0.00 0.00 2.12
2066 2164 0.914551 CATCACGGTAGCTTTCGTCG 59.085 55.000 10.43 7.50 37.53 5.12
2088 2186 5.816777 TGCATTGAAGGTTCCTTTTTCAAAG 59.183 36.000 5.53 4.56 42.20 2.77
2178 2276 4.642885 ACAGTTCTAGCATAGGAGACTCAC 59.357 45.833 4.53 0.00 43.67 3.51
2194 2292 4.379243 CAGCCCCGCGACAGTTCT 62.379 66.667 8.23 0.00 0.00 3.01


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

AutoCloner maintained by Alex Coulton.