Multiple sequence alignment - TraesCS3A01G219500

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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 TraesCS3A01G219500 chr3A 100.000 3950 0 0 1 3950 403408530 403412479 0.000000e+00 7295.0
1 TraesCS3A01G219500 chr3D 96.167 2844 83 8 733 3557 320841005 320838169 0.000000e+00 4625.0
2 TraesCS3A01G219500 chr3D 96.154 234 8 1 3637 3870 320838172 320837940 8.010000e-102 381.0
3 TraesCS3A01G219500 chr3B 96.147 2829 74 5 762 3557 398853018 398850192 0.000000e+00 4588.0
4 TraesCS3A01G219500 chr3B 95.726 234 10 0 3637 3870 398850195 398849962 1.040000e-100 377.0
5 TraesCS3A01G219500 chr3B 94.382 178 9 1 589 765 774810232 774810409 5.030000e-69 272.0
6 TraesCS3A01G219500 chr6B 99.496 595 3 0 1 595 37954318 37953724 0.000000e+00 1083.0
7 TraesCS3A01G219500 chr6B 81.429 70 12 1 527 595 27338538 27338469 5.510000e-04 56.5
8 TraesCS3A01G219500 chr2A 94.684 602 22 5 1 595 633256757 633257355 0.000000e+00 926.0
9 TraesCS3A01G219500 chr2A 93.878 98 4 2 3548 3644 686840772 686840868 3.180000e-31 147.0
10 TraesCS3A01G219500 chr5A 94.050 605 26 5 1 598 624727698 624727097 0.000000e+00 909.0
11 TraesCS3A01G219500 chr5A 97.619 168 3 1 595 761 426722806 426722639 1.800000e-73 287.0
12 TraesCS3A01G219500 chr5A 83.929 168 15 6 606 761 658339913 658340080 2.460000e-32 150.0
13 TraesCS3A01G219500 chr6A 93.234 606 29 4 1 595 167058914 167059518 0.000000e+00 881.0
14 TraesCS3A01G219500 chr6A 100.000 28 0 0 830 857 614959857 614959884 7.000000e-03 52.8
15 TraesCS3A01G219500 chr4B 94.706 170 8 1 595 763 534515946 534515777 3.030000e-66 263.0
16 TraesCS3A01G219500 chr4B 94.706 170 8 1 595 763 534523338 534523169 3.030000e-66 263.0
17 TraesCS3A01G219500 chr4B 97.959 49 1 0 713 761 641670488 641670440 7.030000e-13 86.1
18 TraesCS3A01G219500 chr5D 89.937 159 12 3 607 761 274901640 274901482 6.690000e-48 202.0
19 TraesCS3A01G219500 chr5D 83.333 168 16 6 606 761 530165058 530165225 1.140000e-30 145.0
20 TraesCS3A01G219500 chr5D 88.571 70 7 1 527 595 35589334 35589403 2.530000e-12 84.2
21 TraesCS3A01G219500 chr7A 94.059 101 4 2 3546 3645 608509223 608509124 6.840000e-33 152.0
22 TraesCS3A01G219500 chr7A 93.000 100 5 2 3544 3641 942233 942332 1.140000e-30 145.0
23 TraesCS3A01G219500 chr7A 92.105 38 3 0 558 595 724006027 724006064 2.000000e-03 54.7
24 TraesCS3A01G219500 chr1A 96.667 90 3 0 3555 3644 133417462 133417551 2.460000e-32 150.0
25 TraesCS3A01G219500 chr5B 95.652 92 4 0 3553 3644 345770295 345770204 8.840000e-32 148.0
26 TraesCS3A01G219500 chr5B 93.814 97 5 1 3549 3645 600647491 600647586 1.140000e-30 145.0
27 TraesCS3A01G219500 chr1B 93.000 100 5 2 3547 3645 28500411 28500509 1.140000e-30 145.0
28 TraesCS3A01G219500 chr7B 90.476 105 10 0 3542 3646 427291968 427291864 5.320000e-29 139.0
29 TraesCS3A01G219500 chr7B 87.097 62 8 0 797 858 35091976 35091915 1.970000e-08 71.3
30 TraesCS3A01G219500 chr7B 94.444 36 2 0 825 860 86177171 86177136 5.510000e-04 56.5
31 TraesCS3A01G219500 chr4A 87.097 124 12 4 3546 3666 616405405 616405283 1.910000e-28 137.0
32 TraesCS3A01G219500 chrUn 97.959 49 1 0 713 761 314723866 314723914 7.030000e-13 86.1
33 TraesCS3A01G219500 chr6D 85.897 78 10 1 785 861 74904875 74904798 9.100000e-12 82.4
34 TraesCS3A01G219500 chr2B 85.507 69 9 1 531 598 214527772 214527704 1.970000e-08 71.3
35 TraesCS3A01G219500 chr1D 93.182 44 2 1 566 609 156779993 156780035 3.300000e-06 63.9


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 TraesCS3A01G219500 chr3A 403408530 403412479 3949 False 7295.0 7295 100.0000 1 3950 1 chr3A.!!$F1 3949
1 TraesCS3A01G219500 chr3D 320837940 320841005 3065 True 2503.0 4625 96.1605 733 3870 2 chr3D.!!$R1 3137
2 TraesCS3A01G219500 chr3B 398849962 398853018 3056 True 2482.5 4588 95.9365 762 3870 2 chr3B.!!$R1 3108
3 TraesCS3A01G219500 chr6B 37953724 37954318 594 True 1083.0 1083 99.4960 1 595 1 chr6B.!!$R2 594
4 TraesCS3A01G219500 chr2A 633256757 633257355 598 False 926.0 926 94.6840 1 595 1 chr2A.!!$F1 594
5 TraesCS3A01G219500 chr5A 624727097 624727698 601 True 909.0 909 94.0500 1 598 1 chr5A.!!$R2 597
6 TraesCS3A01G219500 chr6A 167058914 167059518 604 False 881.0 881 93.2340 1 595 1 chr6A.!!$F1 594

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
755 767 0.040514 CATAGAGCGCTGACGAGGAG 60.041 60.0 18.48 0.0 43.93 3.69 F
1075 1121 0.541863 ACCACTATTCCCTTCCGCAG 59.458 55.0 0.00 0.0 0.00 5.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2410 2456 0.613777 ATCTCCGGTGAACAAGGACC 59.386 55.0 10.77 0.0 0.00 4.46 R
3055 3101 0.766674 TGACTACCCCAGTGGCAACT 60.767 55.0 2.61 0.0 37.72 3.16 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
595 607 1.798813 GCACGTGCAAGCTTACTAGTT 59.201 47.619 34.52 0.00 41.59 2.24
598 610 4.788521 GCACGTGCAAGCTTACTAGTTTTT 60.789 41.667 34.52 0.00 41.59 1.94
620 632 7.739498 TTTTTAGAAAAGAGCGAACATACCT 57.261 32.000 0.00 0.00 0.00 3.08
621 633 6.721571 TTTAGAAAAGAGCGAACATACCTG 57.278 37.500 0.00 0.00 0.00 4.00
622 634 3.003480 AGAAAAGAGCGAACATACCTGC 58.997 45.455 0.00 0.00 0.00 4.85
623 635 1.359848 AAAGAGCGAACATACCTGCG 58.640 50.000 0.00 0.00 0.00 5.18
626 638 4.575245 GCGAACATACCTGCGCGC 62.575 66.667 27.26 27.26 40.06 6.86
627 639 4.265630 CGAACATACCTGCGCGCG 62.266 66.667 28.44 28.44 0.00 6.86
628 640 2.883730 GAACATACCTGCGCGCGA 60.884 61.111 37.18 17.91 0.00 5.87
629 641 2.202878 AACATACCTGCGCGCGAT 60.203 55.556 37.18 15.45 0.00 4.58
630 642 2.416372 GAACATACCTGCGCGCGATG 62.416 60.000 37.18 28.28 0.00 3.84
631 643 3.705638 CATACCTGCGCGCGATGG 61.706 66.667 37.18 33.02 0.00 3.51
632 644 3.911698 ATACCTGCGCGCGATGGA 61.912 61.111 35.76 21.47 0.00 3.41
633 645 3.848347 ATACCTGCGCGCGATGGAG 62.848 63.158 35.76 22.63 0.00 3.86
642 654 2.496817 GCGATGGAGAGCGGTCTT 59.503 61.111 19.66 2.22 30.97 3.01
643 655 1.153549 GCGATGGAGAGCGGTCTTT 60.154 57.895 19.66 6.97 30.97 2.52
644 656 0.741221 GCGATGGAGAGCGGTCTTTT 60.741 55.000 19.66 6.60 30.97 2.27
645 657 1.281899 CGATGGAGAGCGGTCTTTTC 58.718 55.000 19.66 14.09 30.97 2.29
646 658 1.134965 CGATGGAGAGCGGTCTTTTCT 60.135 52.381 19.66 4.16 30.97 2.52
647 659 2.675317 CGATGGAGAGCGGTCTTTTCTT 60.675 50.000 19.66 9.62 30.97 2.52
648 660 2.930826 TGGAGAGCGGTCTTTTCTTT 57.069 45.000 19.66 0.00 30.97 2.52
649 661 3.208747 TGGAGAGCGGTCTTTTCTTTT 57.791 42.857 19.66 0.00 30.97 2.27
650 662 3.139077 TGGAGAGCGGTCTTTTCTTTTC 58.861 45.455 19.66 3.07 30.97 2.29
651 663 2.484651 GGAGAGCGGTCTTTTCTTTTCC 59.515 50.000 19.66 8.99 30.97 3.13
652 664 2.143925 AGAGCGGTCTTTTCTTTTCCG 58.856 47.619 12.24 0.00 43.37 4.30
653 665 2.140717 GAGCGGTCTTTTCTTTTCCGA 58.859 47.619 7.51 0.00 43.22 4.55
654 666 2.143925 AGCGGTCTTTTCTTTTCCGAG 58.856 47.619 6.09 0.00 43.22 4.63
655 667 1.399855 GCGGTCTTTTCTTTTCCGAGC 60.400 52.381 6.09 0.00 43.22 5.03
656 668 1.136336 CGGTCTTTTCTTTTCCGAGCG 60.136 52.381 0.00 0.00 43.22 5.03
657 669 2.140717 GGTCTTTTCTTTTCCGAGCGA 58.859 47.619 0.00 0.00 0.00 4.93
658 670 2.157863 GGTCTTTTCTTTTCCGAGCGAG 59.842 50.000 0.00 0.00 0.00 5.03
659 671 2.801111 GTCTTTTCTTTTCCGAGCGAGT 59.199 45.455 0.00 0.00 0.00 4.18
660 672 3.247886 GTCTTTTCTTTTCCGAGCGAGTT 59.752 43.478 0.00 0.00 0.00 3.01
661 673 3.247648 TCTTTTCTTTTCCGAGCGAGTTG 59.752 43.478 0.00 0.00 0.00 3.16
662 674 0.865769 TTCTTTTCCGAGCGAGTTGC 59.134 50.000 0.00 0.00 46.98 4.17
671 683 2.401195 GCGAGTTGCGAAGGATGC 59.599 61.111 0.00 0.00 44.57 3.91
672 684 2.103042 GCGAGTTGCGAAGGATGCT 61.103 57.895 0.00 0.00 44.57 3.79
673 685 1.712081 CGAGTTGCGAAGGATGCTG 59.288 57.895 0.00 0.00 44.57 4.41
674 686 1.427020 GAGTTGCGAAGGATGCTGC 59.573 57.895 0.00 0.00 0.00 5.25
675 687 2.099062 GTTGCGAAGGATGCTGCG 59.901 61.111 10.81 10.81 0.00 5.18
678 690 3.503363 GCGAAGGATGCTGCGCTT 61.503 61.111 30.30 0.00 45.41 4.68
679 691 3.044059 GCGAAGGATGCTGCGCTTT 62.044 57.895 30.30 0.00 45.41 3.51
680 692 1.503542 CGAAGGATGCTGCGCTTTT 59.496 52.632 9.73 0.00 0.00 2.27
681 693 0.109597 CGAAGGATGCTGCGCTTTTT 60.110 50.000 9.73 0.00 0.00 1.94
704 716 3.518068 GGCCGGCCCAATTTCTCG 61.518 66.667 36.64 0.00 0.00 4.04
705 717 2.750237 GCCGGCCCAATTTCTCGT 60.750 61.111 18.11 0.00 0.00 4.18
706 718 3.051392 GCCGGCCCAATTTCTCGTG 62.051 63.158 18.11 0.00 0.00 4.35
707 719 2.485122 CGGCCCAATTTCTCGTGC 59.515 61.111 0.00 0.00 0.00 5.34
708 720 2.485122 GGCCCAATTTCTCGTGCG 59.515 61.111 0.00 0.00 0.00 5.34
709 721 2.332654 GGCCCAATTTCTCGTGCGT 61.333 57.895 0.00 0.00 0.00 5.24
710 722 1.154225 GCCCAATTTCTCGTGCGTG 60.154 57.895 0.00 0.00 0.00 5.34
711 723 1.852067 GCCCAATTTCTCGTGCGTGT 61.852 55.000 0.00 0.00 0.00 4.49
712 724 1.434555 CCCAATTTCTCGTGCGTGTA 58.565 50.000 0.00 0.00 0.00 2.90
713 725 1.393539 CCCAATTTCTCGTGCGTGTAG 59.606 52.381 0.00 0.00 0.00 2.74
714 726 1.393539 CCAATTTCTCGTGCGTGTAGG 59.606 52.381 0.00 0.00 0.00 3.18
715 727 1.076332 AATTTCTCGTGCGTGTAGGC 58.924 50.000 0.00 0.00 0.00 3.93
716 728 1.076533 ATTTCTCGTGCGTGTAGGCG 61.077 55.000 0.00 0.00 35.06 5.52
739 751 3.542676 AACGGGATCGGGCGCATA 61.543 61.111 10.83 0.00 41.39 3.14
740 752 3.515316 AACGGGATCGGGCGCATAG 62.515 63.158 10.83 0.00 41.39 2.23
741 753 3.680786 CGGGATCGGGCGCATAGA 61.681 66.667 10.83 5.30 0.00 1.98
742 754 2.262915 GGGATCGGGCGCATAGAG 59.737 66.667 10.83 0.00 0.00 2.43
743 755 2.433318 GGATCGGGCGCATAGAGC 60.433 66.667 10.83 7.78 40.87 4.09
755 767 0.040514 CATAGAGCGCTGACGAGGAG 60.041 60.000 18.48 0.00 43.93 3.69
759 771 3.444805 GCGCTGACGAGGAGGTCT 61.445 66.667 0.00 0.00 43.93 3.85
793 805 2.906897 CACAACCTTGGCGTGCCT 60.907 61.111 12.84 0.00 36.94 4.75
958 1004 0.955919 GCTACCAGGCTGAGCGTTTT 60.956 55.000 17.94 0.00 0.00 2.43
1061 1107 1.950484 GCCGATGATTTCACCACCACT 60.950 52.381 0.00 0.00 0.00 4.00
1075 1121 0.541863 ACCACTATTCCCTTCCGCAG 59.458 55.000 0.00 0.00 0.00 5.18
1298 1344 1.578206 GCTCTCGAAGCCACCAAACC 61.578 60.000 7.98 0.00 45.92 3.27
1440 1486 1.523938 GCCGTCAACCCCATCTAGC 60.524 63.158 0.00 0.00 0.00 3.42
1480 1526 2.903357 CCCTGTCGGATGGGTCAG 59.097 66.667 9.92 0.00 38.65 3.51
1948 1994 1.127567 CCCTCCCAACCTGTCAGTCA 61.128 60.000 0.00 0.00 0.00 3.41
2037 2083 3.073062 AGACTATGGACACAAAGGCAGTT 59.927 43.478 0.00 0.00 0.00 3.16
2223 2269 5.015515 TCCAATGAAAACACATATGCCTCA 58.984 37.500 1.58 0.00 0.00 3.86
2235 2281 2.945080 ATGCCTCATCCGATGTGATT 57.055 45.000 11.26 0.00 0.00 2.57
2239 2285 0.863799 CTCATCCGATGTGATTGCCG 59.136 55.000 8.24 0.00 0.00 5.69
2257 2303 2.987547 CCAAGGCAGTGGCAGTGG 60.988 66.667 22.98 20.27 43.71 4.00
2293 2339 2.621055 GTGTTACCAGTGCCAACATTGA 59.379 45.455 9.99 0.00 35.63 2.57
2378 2424 4.142160 GGAAGGGTTATTGAAACAGCCATC 60.142 45.833 0.00 0.00 0.00 3.51
2410 2456 2.560542 ACTACTCCAGTTGCAGAGTCTG 59.439 50.000 16.21 16.21 42.31 3.51
2411 2457 0.683973 ACTCCAGTTGCAGAGTCTGG 59.316 55.000 21.54 17.36 46.94 3.86
2474 2520 5.581126 TTTAGATTGTCATGGCAACCATC 57.419 39.130 16.33 9.48 43.15 3.51
2616 2662 5.109500 TGAATGCCATACATCCACTAACA 57.891 39.130 0.00 0.00 38.34 2.41
2619 2665 4.568072 TGCCATACATCCACTAACAGTT 57.432 40.909 0.00 0.00 0.00 3.16
2667 2713 2.633509 GCAAGAGCCACAGCCAAGG 61.634 63.158 0.00 0.00 41.25 3.61
2684 2730 3.564352 CCAAGGCCACCTTCTCCTATTTT 60.564 47.826 5.01 0.00 42.67 1.82
2747 2793 6.801862 GGGTTTGAGAATTTTAAGTCATCACG 59.198 38.462 0.00 0.00 0.00 4.35
2760 2806 0.747255 CATCACGGCTACTGCTACCT 59.253 55.000 0.00 0.00 39.59 3.08
2863 2909 4.953667 TCAGCTATCACCTGCATTAGAAG 58.046 43.478 0.00 0.00 0.00 2.85
3037 3083 5.195940 CCATATCCTGCTTTTCTTCCTCAA 58.804 41.667 0.00 0.00 0.00 3.02
3055 3101 1.833630 CAAGCTCAGACCCCAGATGTA 59.166 52.381 0.00 0.00 0.00 2.29
3069 3115 0.328258 GATGTAGTTGCCACTGGGGT 59.672 55.000 0.00 0.00 39.65 4.95
3096 3142 2.568090 GGCATTGGACCAAGTGCG 59.432 61.111 23.55 11.34 38.43 5.34
3231 3277 1.072505 ATGTTGTGGACACCCCGAC 59.927 57.895 0.00 0.00 42.04 4.79
3242 3288 1.380246 ACCCCGACGCATGTACCTA 60.380 57.895 0.00 0.00 0.00 3.08
3244 3290 1.389609 CCCCGACGCATGTACCTACT 61.390 60.000 0.00 0.00 0.00 2.57
3433 3479 1.176527 CCGCACCTTGTTCATTGGAT 58.823 50.000 0.00 0.00 0.00 3.41
3490 3536 8.562052 CCTTTCGTTAACAAAGGTTACTAATGT 58.438 33.333 25.69 0.00 43.50 2.71
3557 3603 9.741647 AAAATTACCGTGTATCTTAGCTAGTAC 57.258 33.333 0.00 0.24 0.00 2.73
3558 3604 6.867662 TTACCGTGTATCTTAGCTAGTACC 57.132 41.667 0.00 0.00 0.00 3.34
3559 3605 4.140536 ACCGTGTATCTTAGCTAGTACCC 58.859 47.826 0.00 0.00 0.00 3.69
3560 3606 3.505293 CCGTGTATCTTAGCTAGTACCCC 59.495 52.174 0.00 0.00 0.00 4.95
3561 3607 3.505293 CGTGTATCTTAGCTAGTACCCCC 59.495 52.174 0.00 0.00 0.00 5.40
3562 3608 4.738685 GTGTATCTTAGCTAGTACCCCCT 58.261 47.826 0.00 0.00 0.00 4.79
3563 3609 4.766373 GTGTATCTTAGCTAGTACCCCCTC 59.234 50.000 0.00 0.00 0.00 4.30
3564 3610 4.668812 TGTATCTTAGCTAGTACCCCCTCT 59.331 45.833 0.00 0.00 0.00 3.69
3565 3611 3.596940 TCTTAGCTAGTACCCCCTCTG 57.403 52.381 0.00 0.00 0.00 3.35
3566 3612 2.857498 TCTTAGCTAGTACCCCCTCTGT 59.143 50.000 0.00 0.00 0.00 3.41
3567 3613 4.050037 TCTTAGCTAGTACCCCCTCTGTA 58.950 47.826 0.00 0.00 0.00 2.74
3568 3614 4.479796 TCTTAGCTAGTACCCCCTCTGTAA 59.520 45.833 0.00 0.00 0.00 2.41
3569 3615 3.771071 AGCTAGTACCCCCTCTGTAAA 57.229 47.619 0.00 0.00 0.00 2.01
3570 3616 3.372897 AGCTAGTACCCCCTCTGTAAAC 58.627 50.000 0.00 0.00 0.00 2.01
3571 3617 3.012616 AGCTAGTACCCCCTCTGTAAACT 59.987 47.826 0.00 0.00 0.00 2.66
3572 3618 4.231426 AGCTAGTACCCCCTCTGTAAACTA 59.769 45.833 0.00 0.00 0.00 2.24
3573 3619 4.958581 GCTAGTACCCCCTCTGTAAACTAA 59.041 45.833 0.00 0.00 0.00 2.24
3574 3620 5.601729 GCTAGTACCCCCTCTGTAAACTAAT 59.398 44.000 0.00 0.00 0.00 1.73
3575 3621 6.779539 GCTAGTACCCCCTCTGTAAACTAATA 59.220 42.308 0.00 0.00 0.00 0.98
3576 3622 7.454066 GCTAGTACCCCCTCTGTAAACTAATAT 59.546 40.741 0.00 0.00 0.00 1.28
3578 3624 8.953223 AGTACCCCCTCTGTAAACTAATATAG 57.047 38.462 0.00 0.00 0.00 1.31
3579 3625 7.954620 AGTACCCCCTCTGTAAACTAATATAGG 59.045 40.741 0.00 0.00 0.00 2.57
3580 3626 6.941915 ACCCCCTCTGTAAACTAATATAGGA 58.058 40.000 0.00 0.00 0.00 2.94
3581 3627 7.017531 ACCCCCTCTGTAAACTAATATAGGAG 58.982 42.308 0.00 0.00 0.00 3.69
3582 3628 6.070710 CCCCCTCTGTAAACTAATATAGGAGC 60.071 46.154 0.00 0.00 0.00 4.70
3583 3629 6.350277 CCCCTCTGTAAACTAATATAGGAGCG 60.350 46.154 0.00 0.00 0.00 5.03
3584 3630 6.208994 CCCTCTGTAAACTAATATAGGAGCGT 59.791 42.308 0.00 0.00 0.00 5.07
3585 3631 7.255871 CCCTCTGTAAACTAATATAGGAGCGTT 60.256 40.741 0.00 0.00 0.00 4.84
3586 3632 8.142551 CCTCTGTAAACTAATATAGGAGCGTTT 58.857 37.037 0.00 0.00 0.00 3.60
3593 3639 9.694137 AAACTAATATAGGAGCGTTTAGATCAC 57.306 33.333 0.00 0.00 36.90 3.06
3594 3640 8.638629 ACTAATATAGGAGCGTTTAGATCACT 57.361 34.615 0.00 0.00 36.90 3.41
3595 3641 9.736414 ACTAATATAGGAGCGTTTAGATCACTA 57.264 33.333 0.00 0.00 36.90 2.74
3596 3642 9.991388 CTAATATAGGAGCGTTTAGATCACTAC 57.009 37.037 0.00 0.00 36.90 2.73
3597 3643 8.638629 AATATAGGAGCGTTTAGATCACTACT 57.361 34.615 0.00 0.00 36.90 2.57
3598 3644 6.963083 ATAGGAGCGTTTAGATCACTACTT 57.037 37.500 0.00 0.00 36.90 2.24
3599 3645 5.662674 AGGAGCGTTTAGATCACTACTTT 57.337 39.130 0.00 0.00 36.90 2.66
3600 3646 6.770746 AGGAGCGTTTAGATCACTACTTTA 57.229 37.500 0.00 0.00 36.90 1.85
3601 3647 6.797454 AGGAGCGTTTAGATCACTACTTTAG 58.203 40.000 0.00 0.00 36.90 1.85
3602 3648 6.377712 AGGAGCGTTTAGATCACTACTTTAGT 59.622 38.462 0.00 0.00 40.28 2.24
3616 3662 7.393841 ACTACTTTAGTGATCTAAACGCTCT 57.606 36.000 0.00 0.00 40.05 4.09
3617 3663 7.828712 ACTACTTTAGTGATCTAAACGCTCTT 58.171 34.615 0.00 0.00 40.05 2.85
3618 3664 8.954350 ACTACTTTAGTGATCTAAACGCTCTTA 58.046 33.333 0.00 0.00 40.05 2.10
3619 3665 9.953697 CTACTTTAGTGATCTAAACGCTCTTAT 57.046 33.333 0.00 0.00 40.05 1.73
3634 3680 9.530633 AAACGCTCTTATATTAGTTTACAGAGG 57.469 33.333 0.00 0.00 31.14 3.69
3635 3681 7.659186 ACGCTCTTATATTAGTTTACAGAGGG 58.341 38.462 8.36 8.36 42.53 4.30
3636 3682 7.504911 ACGCTCTTATATTAGTTTACAGAGGGA 59.495 37.037 14.96 0.00 40.49 4.20
3637 3683 8.024285 CGCTCTTATATTAGTTTACAGAGGGAG 58.976 40.741 4.76 0.00 40.49 4.30
3638 3684 8.862085 GCTCTTATATTAGTTTACAGAGGGAGT 58.138 37.037 0.00 0.00 0.00 3.85
3746 3792 3.629855 TGAACACGATGAAAAGCTCCAAA 59.370 39.130 0.00 0.00 0.00 3.28
3747 3793 4.097135 TGAACACGATGAAAAGCTCCAAAA 59.903 37.500 0.00 0.00 0.00 2.44
3748 3794 4.647424 ACACGATGAAAAGCTCCAAAAA 57.353 36.364 0.00 0.00 0.00 1.94
3799 3845 6.270000 TCGGGTTCCACTATCAATCAGATAAT 59.730 38.462 0.00 0.00 38.69 1.28
3870 3916 1.928868 AAGGCCCCAGAGAAAACATG 58.071 50.000 0.00 0.00 0.00 3.21
3871 3917 1.075601 AGGCCCCAGAGAAAACATGA 58.924 50.000 0.00 0.00 0.00 3.07
3872 3918 1.642762 AGGCCCCAGAGAAAACATGAT 59.357 47.619 0.00 0.00 0.00 2.45
3873 3919 2.043526 AGGCCCCAGAGAAAACATGATT 59.956 45.455 0.00 0.00 0.00 2.57
3874 3920 2.428530 GGCCCCAGAGAAAACATGATTC 59.571 50.000 0.00 3.71 0.00 2.52
3875 3921 3.359950 GCCCCAGAGAAAACATGATTCT 58.640 45.455 15.22 15.22 39.76 2.40
3885 3931 6.179040 AGAAAACATGATTCTCAGAAGGAGG 58.821 40.000 0.00 0.00 44.19 4.30
3886 3932 3.557228 ACATGATTCTCAGAAGGAGGC 57.443 47.619 0.00 0.00 44.19 4.70
3887 3933 2.172293 ACATGATTCTCAGAAGGAGGCC 59.828 50.000 0.00 0.00 44.19 5.19
3888 3934 1.956869 TGATTCTCAGAAGGAGGCCA 58.043 50.000 5.01 0.00 44.19 5.36
3889 3935 2.269023 TGATTCTCAGAAGGAGGCCAA 58.731 47.619 5.01 0.00 44.19 4.52
3890 3936 2.644299 TGATTCTCAGAAGGAGGCCAAA 59.356 45.455 5.01 0.00 44.19 3.28
3891 3937 2.568623 TTCTCAGAAGGAGGCCAAAC 57.431 50.000 5.01 0.00 44.19 2.93
3892 3938 1.734655 TCTCAGAAGGAGGCCAAACT 58.265 50.000 5.01 0.00 44.19 2.66
3893 3939 1.349026 TCTCAGAAGGAGGCCAAACTG 59.651 52.381 5.01 7.29 44.19 3.16
3894 3940 0.250901 TCAGAAGGAGGCCAAACTGC 60.251 55.000 5.01 0.00 0.00 4.40
3895 3941 0.251077 CAGAAGGAGGCCAAACTGCT 60.251 55.000 5.01 0.00 41.20 4.24
3896 3942 0.251077 AGAAGGAGGCCAAACTGCTG 60.251 55.000 5.01 0.00 39.24 4.41
3897 3943 1.871126 GAAGGAGGCCAAACTGCTGC 61.871 60.000 5.01 0.00 39.24 5.25
3898 3944 2.598394 GGAGGCCAAACTGCTGCA 60.598 61.111 5.01 0.88 0.00 4.41
3899 3945 2.202395 GGAGGCCAAACTGCTGCAA 61.202 57.895 5.01 0.00 0.00 4.08
3900 3946 1.288127 GAGGCCAAACTGCTGCAAG 59.712 57.895 5.01 0.51 0.00 4.01
3911 3957 2.821366 CTGCAAGCACCGCTAGGG 60.821 66.667 0.00 0.00 43.47 3.53
3912 3958 3.315142 CTGCAAGCACCGCTAGGGA 62.315 63.158 8.65 0.00 43.47 4.20
3913 3959 2.512515 GCAAGCACCGCTAGGGAG 60.513 66.667 8.65 1.64 43.47 4.30
3914 3960 2.187946 CAAGCACCGCTAGGGAGG 59.812 66.667 8.65 0.86 43.47 4.30
3915 3961 3.083997 AAGCACCGCTAGGGAGGG 61.084 66.667 8.65 0.73 43.47 4.30
3916 3962 3.618855 AAGCACCGCTAGGGAGGGA 62.619 63.158 8.65 0.00 43.47 4.20
3917 3963 3.541713 GCACCGCTAGGGAGGGAG 61.542 72.222 8.65 0.00 43.47 4.30
3918 3964 2.840102 CACCGCTAGGGAGGGAGG 60.840 72.222 8.65 0.00 43.47 4.30
3919 3965 4.159108 ACCGCTAGGGAGGGAGGG 62.159 72.222 8.65 0.00 43.47 4.30
3920 3966 4.944069 CCGCTAGGGAGGGAGGGG 62.944 77.778 8.65 0.00 39.18 4.79
3921 3967 4.944069 CGCTAGGGAGGGAGGGGG 62.944 77.778 0.00 0.00 37.85 5.40
3923 3969 4.944069 CTAGGGAGGGAGGGGGCG 62.944 77.778 0.00 0.00 0.00 6.13
3944 3990 3.359695 GGGGGTACAAGTTCATAGCAA 57.640 47.619 0.00 0.00 0.00 3.91
3945 3991 3.692690 GGGGGTACAAGTTCATAGCAAA 58.307 45.455 0.00 0.00 0.00 3.68
3946 3992 3.442625 GGGGGTACAAGTTCATAGCAAAC 59.557 47.826 0.00 0.00 0.00 2.93
3947 3993 4.332828 GGGGTACAAGTTCATAGCAAACT 58.667 43.478 0.00 0.00 38.59 2.66
3948 3994 5.493809 GGGGTACAAGTTCATAGCAAACTA 58.506 41.667 0.00 0.00 35.96 2.24
3949 3995 5.941647 GGGGTACAAGTTCATAGCAAACTAA 59.058 40.000 0.00 0.00 35.96 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
598 610 5.121768 GCAGGTATGTTCGCTCTTTTCTAAA 59.878 40.000 0.00 0.00 0.00 1.85
599 611 4.630069 GCAGGTATGTTCGCTCTTTTCTAA 59.370 41.667 0.00 0.00 0.00 2.10
600 612 4.181578 GCAGGTATGTTCGCTCTTTTCTA 58.818 43.478 0.00 0.00 0.00 2.10
601 613 3.003480 GCAGGTATGTTCGCTCTTTTCT 58.997 45.455 0.00 0.00 0.00 2.52
602 614 2.222819 CGCAGGTATGTTCGCTCTTTTC 60.223 50.000 0.00 0.00 0.00 2.29
603 615 1.732259 CGCAGGTATGTTCGCTCTTTT 59.268 47.619 0.00 0.00 0.00 2.27
604 616 1.359848 CGCAGGTATGTTCGCTCTTT 58.640 50.000 0.00 0.00 0.00 2.52
605 617 1.084370 GCGCAGGTATGTTCGCTCTT 61.084 55.000 0.30 0.00 43.70 2.85
606 618 1.519455 GCGCAGGTATGTTCGCTCT 60.519 57.895 0.30 0.00 43.70 4.09
607 619 2.860628 CGCGCAGGTATGTTCGCTC 61.861 63.158 8.75 0.00 44.72 5.03
608 620 2.885644 CGCGCAGGTATGTTCGCT 60.886 61.111 8.75 0.00 44.72 4.93
609 621 4.575245 GCGCGCAGGTATGTTCGC 62.575 66.667 29.10 0.00 43.62 4.70
610 622 4.265630 CGCGCGCAGGTATGTTCG 62.266 66.667 32.61 6.38 0.00 3.95
611 623 2.237751 ATCGCGCGCAGGTATGTTC 61.238 57.895 32.61 0.00 0.00 3.18
612 624 2.202878 ATCGCGCGCAGGTATGTT 60.203 55.556 32.61 5.49 0.00 2.71
613 625 2.961721 CATCGCGCGCAGGTATGT 60.962 61.111 32.61 4.91 0.00 2.29
614 626 3.705638 CCATCGCGCGCAGGTATG 61.706 66.667 32.61 24.88 0.00 2.39
615 627 3.848347 CTCCATCGCGCGCAGGTAT 62.848 63.158 32.61 15.36 0.00 2.73
616 628 4.569023 CTCCATCGCGCGCAGGTA 62.569 66.667 32.61 19.67 0.00 3.08
625 637 0.741221 AAAAGACCGCTCTCCATCGC 60.741 55.000 0.00 0.00 0.00 4.58
626 638 1.134965 AGAAAAGACCGCTCTCCATCG 60.135 52.381 0.00 0.00 0.00 3.84
627 639 2.682155 AGAAAAGACCGCTCTCCATC 57.318 50.000 0.00 0.00 0.00 3.51
628 640 3.425162 AAAGAAAAGACCGCTCTCCAT 57.575 42.857 0.00 0.00 0.00 3.41
629 641 2.930826 AAAGAAAAGACCGCTCTCCA 57.069 45.000 0.00 0.00 0.00 3.86
630 642 2.484651 GGAAAAGAAAAGACCGCTCTCC 59.515 50.000 0.00 0.00 0.00 3.71
631 643 2.157863 CGGAAAAGAAAAGACCGCTCTC 59.842 50.000 0.00 0.00 37.32 3.20
632 644 2.143925 CGGAAAAGAAAAGACCGCTCT 58.856 47.619 0.00 0.00 37.32 4.09
633 645 2.140717 TCGGAAAAGAAAAGACCGCTC 58.859 47.619 0.00 0.00 42.73 5.03
634 646 2.143925 CTCGGAAAAGAAAAGACCGCT 58.856 47.619 0.00 0.00 42.73 5.52
635 647 1.399855 GCTCGGAAAAGAAAAGACCGC 60.400 52.381 0.00 0.00 42.73 5.68
636 648 1.136336 CGCTCGGAAAAGAAAAGACCG 60.136 52.381 0.00 0.00 44.09 4.79
637 649 2.140717 TCGCTCGGAAAAGAAAAGACC 58.859 47.619 0.00 0.00 0.00 3.85
638 650 2.801111 ACTCGCTCGGAAAAGAAAAGAC 59.199 45.455 0.00 0.00 0.00 3.01
639 651 3.107642 ACTCGCTCGGAAAAGAAAAGA 57.892 42.857 0.00 0.00 0.00 2.52
640 652 3.545633 CAACTCGCTCGGAAAAGAAAAG 58.454 45.455 0.00 0.00 0.00 2.27
641 653 2.286772 GCAACTCGCTCGGAAAAGAAAA 60.287 45.455 0.00 0.00 37.77 2.29
642 654 1.263217 GCAACTCGCTCGGAAAAGAAA 59.737 47.619 0.00 0.00 37.77 2.52
643 655 0.865769 GCAACTCGCTCGGAAAAGAA 59.134 50.000 0.00 0.00 37.77 2.52
644 656 1.282248 CGCAACTCGCTCGGAAAAGA 61.282 55.000 0.00 0.00 39.08 2.52
645 657 1.130613 CGCAACTCGCTCGGAAAAG 59.869 57.895 0.00 0.00 39.08 2.27
646 658 0.876777 TTCGCAACTCGCTCGGAAAA 60.877 50.000 0.00 0.00 39.08 2.29
647 659 1.282248 CTTCGCAACTCGCTCGGAAA 61.282 55.000 0.00 0.00 39.08 3.13
648 660 1.733041 CTTCGCAACTCGCTCGGAA 60.733 57.895 0.00 0.00 39.08 4.30
649 661 2.126463 CTTCGCAACTCGCTCGGA 60.126 61.111 0.00 0.00 39.08 4.55
650 662 2.890847 ATCCTTCGCAACTCGCTCGG 62.891 60.000 0.00 0.00 39.08 4.63
651 663 1.517257 ATCCTTCGCAACTCGCTCG 60.517 57.895 0.00 0.00 39.08 5.03
652 664 2.002127 CATCCTTCGCAACTCGCTC 58.998 57.895 0.00 0.00 39.08 5.03
653 665 2.103042 GCATCCTTCGCAACTCGCT 61.103 57.895 0.00 0.00 39.08 4.93
654 666 2.103042 AGCATCCTTCGCAACTCGC 61.103 57.895 0.00 0.00 38.27 5.03
655 667 1.712081 CAGCATCCTTCGCAACTCG 59.288 57.895 0.00 0.00 40.15 4.18
656 668 1.427020 GCAGCATCCTTCGCAACTC 59.573 57.895 0.00 0.00 0.00 3.01
657 669 2.393768 CGCAGCATCCTTCGCAACT 61.394 57.895 0.00 0.00 0.00 3.16
658 670 2.099062 CGCAGCATCCTTCGCAAC 59.901 61.111 0.00 0.00 0.00 4.17
687 699 3.518068 CGAGAAATTGGGCCGGCC 61.518 66.667 38.57 38.57 0.00 6.13
688 700 2.750237 ACGAGAAATTGGGCCGGC 60.750 61.111 21.18 21.18 0.00 6.13
689 701 3.051392 GCACGAGAAATTGGGCCGG 62.051 63.158 0.00 0.00 0.00 6.13
690 702 2.485122 GCACGAGAAATTGGGCCG 59.515 61.111 0.00 0.00 0.00 6.13
691 703 2.332654 ACGCACGAGAAATTGGGCC 61.333 57.895 0.00 0.00 0.00 5.80
692 704 1.154225 CACGCACGAGAAATTGGGC 60.154 57.895 0.00 0.00 0.00 5.36
693 705 1.393539 CTACACGCACGAGAAATTGGG 59.606 52.381 0.00 0.00 0.00 4.12
694 706 1.393539 CCTACACGCACGAGAAATTGG 59.606 52.381 0.00 0.00 0.00 3.16
695 707 1.201921 GCCTACACGCACGAGAAATTG 60.202 52.381 0.00 0.00 0.00 2.32
696 708 1.076332 GCCTACACGCACGAGAAATT 58.924 50.000 0.00 0.00 0.00 1.82
697 709 1.076533 CGCCTACACGCACGAGAAAT 61.077 55.000 0.00 0.00 0.00 2.17
698 710 1.731613 CGCCTACACGCACGAGAAA 60.732 57.895 0.00 0.00 0.00 2.52
699 711 2.126618 CGCCTACACGCACGAGAA 60.127 61.111 0.00 0.00 0.00 2.87
707 719 3.788766 GTTGCTGGCGCCTACACG 61.789 66.667 29.70 11.64 34.43 4.49
708 720 3.788766 CGTTGCTGGCGCCTACAC 61.789 66.667 29.70 17.23 34.43 2.90
721 733 3.800685 TATGCGCCCGATCCCGTTG 62.801 63.158 4.18 0.00 0.00 4.10
722 734 3.515316 CTATGCGCCCGATCCCGTT 62.515 63.158 4.18 0.00 0.00 4.44
723 735 3.991051 CTATGCGCCCGATCCCGT 61.991 66.667 4.18 0.00 0.00 5.28
724 736 3.633094 CTCTATGCGCCCGATCCCG 62.633 68.421 4.18 0.00 0.00 5.14
725 737 2.262915 CTCTATGCGCCCGATCCC 59.737 66.667 4.18 0.00 0.00 3.85
726 738 2.433318 GCTCTATGCGCCCGATCC 60.433 66.667 4.18 0.00 0.00 3.36
735 747 1.659954 CCTCGTCAGCGCTCTATGC 60.660 63.158 7.13 0.00 38.14 3.14
736 748 0.040514 CTCCTCGTCAGCGCTCTATG 60.041 60.000 7.13 4.28 38.14 2.23
737 749 1.169661 CCTCCTCGTCAGCGCTCTAT 61.170 60.000 7.13 0.00 38.14 1.98
738 750 1.820056 CCTCCTCGTCAGCGCTCTA 60.820 63.158 7.13 0.00 38.14 2.43
739 751 3.137459 CCTCCTCGTCAGCGCTCT 61.137 66.667 7.13 0.00 38.14 4.09
740 752 3.404141 GACCTCCTCGTCAGCGCTC 62.404 68.421 7.13 0.00 38.14 5.03
741 753 3.444805 GACCTCCTCGTCAGCGCT 61.445 66.667 2.64 2.64 38.14 5.92
742 754 3.404141 GAGACCTCCTCGTCAGCGC 62.404 68.421 0.00 0.00 38.14 5.92
743 755 2.766400 GGAGACCTCCTCGTCAGCG 61.766 68.421 8.76 0.00 46.16 5.18
744 756 3.202467 GGAGACCTCCTCGTCAGC 58.798 66.667 8.76 0.00 46.16 4.26
793 805 2.508928 GCTATACCGGCCAGGCAA 59.491 61.111 15.19 0.00 46.52 4.52
1061 1107 1.223487 GGTGCTGCGGAAGGGAATA 59.777 57.895 0.00 0.00 0.00 1.75
1075 1121 1.606601 GGGTTTCTTGGGGAGGTGC 60.607 63.158 0.00 0.00 0.00 5.01
1419 1465 1.952102 TAGATGGGGTTGACGGCGAC 61.952 60.000 16.62 8.59 0.00 5.19
1440 1486 4.821589 GCGGTCGAAGCTGGAGGG 62.822 72.222 6.86 0.00 0.00 4.30
1794 1840 1.822371 GACCCCTCAGAGTCACTCTTC 59.178 57.143 3.92 0.00 38.99 2.87
1948 1994 4.916983 TTAGCAATGAGTGTGCAGTTTT 57.083 36.364 0.00 0.00 44.74 2.43
1998 2044 1.279271 GTCTCCAATACAGGCAGTGGT 59.721 52.381 0.00 0.00 35.19 4.16
2037 2083 2.668212 GGCAGGTTACGTGCAGCA 60.668 61.111 27.27 0.00 45.49 4.41
2223 2269 1.893808 GGCGGCAATCACATCGGAT 60.894 57.895 3.07 0.00 0.00 4.18
2293 2339 3.701542 TCTGTCTCGACATCTATTGCCTT 59.298 43.478 0.00 0.00 41.01 4.35
2410 2456 0.613777 ATCTCCGGTGAACAAGGACC 59.386 55.000 10.77 0.00 0.00 4.46
2411 2457 2.076863 CAATCTCCGGTGAACAAGGAC 58.923 52.381 10.77 0.00 0.00 3.85
2474 2520 2.202797 CAGACGGAGGCGTGGATG 60.203 66.667 0.00 0.00 0.00 3.51
2619 2665 3.827817 TCCACTCCACTCTCTAAAGGA 57.172 47.619 0.00 0.00 0.00 3.36
2667 2713 2.446435 TGCAAAATAGGAGAAGGTGGC 58.554 47.619 0.00 0.00 0.00 5.01
2703 2749 3.340064 TGGAGGTGCCATATCTGGT 57.660 52.632 0.00 0.00 43.33 4.00
2747 2793 1.410882 CTGGAGAAGGTAGCAGTAGCC 59.589 57.143 0.00 0.00 43.56 3.93
2863 2909 5.472148 TGTCTCCATTTTCACATCAATTGC 58.528 37.500 0.00 0.00 0.00 3.56
2927 2973 4.790962 AGATGGCCGCCAGTGCAG 62.791 66.667 18.96 0.00 36.75 4.41
3037 3083 1.007721 ACTACATCTGGGGTCTGAGCT 59.992 52.381 6.83 0.00 0.00 4.09
3055 3101 0.766674 TGACTACCCCAGTGGCAACT 60.767 55.000 2.61 0.00 37.72 3.16
3069 3115 2.054799 GGTCCAATGCCCCTATGACTA 58.945 52.381 0.00 0.00 0.00 2.59
3096 3142 0.807667 CAGTACAGGCGCTGGATGAC 60.808 60.000 7.64 0.00 35.51 3.06
3231 3277 4.740205 CACAATCTGTAGTAGGTACATGCG 59.260 45.833 0.00 0.00 40.99 4.73
3242 3288 6.055588 AGTTAACTGCAACACAATCTGTAGT 58.944 36.000 7.48 0.00 39.77 2.73
3244 3290 6.052360 TGAGTTAACTGCAACACAATCTGTA 58.948 36.000 14.14 0.00 30.51 2.74
3349 3395 0.985490 ACCCCTCTGCTCCATTCTCC 60.985 60.000 0.00 0.00 0.00 3.71
3433 3479 2.281484 GGCAGAAGTTCCACCGCA 60.281 61.111 0.00 0.00 0.00 5.69
3542 3588 5.011586 CAGAGGGGGTACTAGCTAAGATAC 58.988 50.000 0.00 0.00 0.00 2.24
3546 3592 3.315880 ACAGAGGGGGTACTAGCTAAG 57.684 52.381 0.00 0.00 0.00 2.18
3557 3603 6.070710 GCTCCTATATTAGTTTACAGAGGGGG 60.071 46.154 0.00 0.00 0.00 5.40
3558 3604 6.350277 CGCTCCTATATTAGTTTACAGAGGGG 60.350 46.154 0.00 0.00 0.00 4.79
3559 3605 6.208994 ACGCTCCTATATTAGTTTACAGAGGG 59.791 42.308 0.00 0.00 37.67 4.30
3560 3606 7.216973 ACGCTCCTATATTAGTTTACAGAGG 57.783 40.000 0.00 0.00 0.00 3.69
3567 3613 9.694137 GTGATCTAAACGCTCCTATATTAGTTT 57.306 33.333 0.00 0.00 36.11 2.66
3568 3614 9.080097 AGTGATCTAAACGCTCCTATATTAGTT 57.920 33.333 0.00 0.00 0.00 2.24
3569 3615 8.638629 AGTGATCTAAACGCTCCTATATTAGT 57.361 34.615 0.00 0.00 0.00 2.24
3570 3616 9.991388 GTAGTGATCTAAACGCTCCTATATTAG 57.009 37.037 0.00 0.00 0.00 1.73
3571 3617 9.736414 AGTAGTGATCTAAACGCTCCTATATTA 57.264 33.333 0.00 0.00 0.00 0.98
3572 3618 8.638629 AGTAGTGATCTAAACGCTCCTATATT 57.361 34.615 0.00 0.00 0.00 1.28
3573 3619 8.638629 AAGTAGTGATCTAAACGCTCCTATAT 57.361 34.615 0.00 0.00 0.00 0.86
3574 3620 8.461249 AAAGTAGTGATCTAAACGCTCCTATA 57.539 34.615 0.00 0.00 0.00 1.31
3575 3621 6.963083 AAGTAGTGATCTAAACGCTCCTAT 57.037 37.500 0.00 0.00 0.00 2.57
3576 3622 6.770746 AAAGTAGTGATCTAAACGCTCCTA 57.229 37.500 0.00 0.00 0.00 2.94
3577 3623 5.662674 AAAGTAGTGATCTAAACGCTCCT 57.337 39.130 0.00 0.00 0.00 3.69
3578 3624 6.562518 ACTAAAGTAGTGATCTAAACGCTCC 58.437 40.000 0.00 0.00 37.69 4.70
3592 3638 7.393841 AGAGCGTTTAGATCACTAAAGTAGT 57.606 36.000 0.00 0.00 45.42 2.73
3593 3639 9.953697 ATAAGAGCGTTTAGATCACTAAAGTAG 57.046 33.333 0.00 0.00 45.42 2.57
3608 3654 9.530633 CCTCTGTAAACTAATATAAGAGCGTTT 57.469 33.333 0.00 0.00 0.00 3.60
3609 3655 8.142551 CCCTCTGTAAACTAATATAAGAGCGTT 58.857 37.037 0.00 0.00 0.00 4.84
3610 3656 7.504911 TCCCTCTGTAAACTAATATAAGAGCGT 59.495 37.037 0.00 0.00 0.00 5.07
3611 3657 7.883217 TCCCTCTGTAAACTAATATAAGAGCG 58.117 38.462 0.00 0.00 0.00 5.03
3612 3658 8.862085 ACTCCCTCTGTAAACTAATATAAGAGC 58.138 37.037 0.00 0.00 0.00 4.09
3622 3668 9.275572 ACCATTAAATACTCCCTCTGTAAACTA 57.724 33.333 0.00 0.00 0.00 2.24
3623 3669 8.159229 ACCATTAAATACTCCCTCTGTAAACT 57.841 34.615 0.00 0.00 0.00 2.66
3624 3670 8.044908 TGACCATTAAATACTCCCTCTGTAAAC 58.955 37.037 0.00 0.00 0.00 2.01
3625 3671 8.153221 TGACCATTAAATACTCCCTCTGTAAA 57.847 34.615 0.00 0.00 0.00 2.01
3626 3672 7.743116 TGACCATTAAATACTCCCTCTGTAA 57.257 36.000 0.00 0.00 0.00 2.41
3627 3673 7.789831 AGATGACCATTAAATACTCCCTCTGTA 59.210 37.037 0.00 0.00 0.00 2.74
3628 3674 6.617371 AGATGACCATTAAATACTCCCTCTGT 59.383 38.462 0.00 0.00 0.00 3.41
3629 3675 7.072263 AGATGACCATTAAATACTCCCTCTG 57.928 40.000 0.00 0.00 0.00 3.35
3630 3676 8.820831 CATAGATGACCATTAAATACTCCCTCT 58.179 37.037 0.00 0.00 0.00 3.69
3631 3677 8.043710 CCATAGATGACCATTAAATACTCCCTC 58.956 40.741 0.00 0.00 0.00 4.30
3632 3678 7.739444 TCCATAGATGACCATTAAATACTCCCT 59.261 37.037 0.00 0.00 0.00 4.20
3633 3679 7.918076 TCCATAGATGACCATTAAATACTCCC 58.082 38.462 0.00 0.00 0.00 4.30
3634 3680 8.598041 ACTCCATAGATGACCATTAAATACTCC 58.402 37.037 0.00 0.00 0.00 3.85
3639 3685 9.347240 CAAGAACTCCATAGATGACCATTAAAT 57.653 33.333 0.00 0.00 0.00 1.40
3640 3686 7.775093 CCAAGAACTCCATAGATGACCATTAAA 59.225 37.037 0.00 0.00 0.00 1.52
3799 3845 2.226330 CGATGGACCTTGTTTGTTCCA 58.774 47.619 0.00 0.00 0.00 3.53
3835 3881 1.470805 GCCTTTTCGTTTGTTGCCTGT 60.471 47.619 0.00 0.00 0.00 4.00
3870 3916 3.013219 GTTTGGCCTCCTTCTGAGAATC 58.987 50.000 3.32 0.00 44.42 2.52
3871 3917 2.646798 AGTTTGGCCTCCTTCTGAGAAT 59.353 45.455 3.32 0.00 44.42 2.40
3872 3918 2.057922 AGTTTGGCCTCCTTCTGAGAA 58.942 47.619 3.32 0.00 44.42 2.87
3873 3919 1.349026 CAGTTTGGCCTCCTTCTGAGA 59.651 52.381 3.32 0.00 44.42 3.27
3874 3920 1.818642 CAGTTTGGCCTCCTTCTGAG 58.181 55.000 3.32 0.00 41.07 3.35
3875 3921 0.250901 GCAGTTTGGCCTCCTTCTGA 60.251 55.000 3.32 0.00 0.00 3.27
3876 3922 0.251077 AGCAGTTTGGCCTCCTTCTG 60.251 55.000 3.32 6.94 0.00 3.02
3877 3923 0.251077 CAGCAGTTTGGCCTCCTTCT 60.251 55.000 3.32 0.00 0.00 2.85
3878 3924 1.871126 GCAGCAGTTTGGCCTCCTTC 61.871 60.000 3.32 0.00 0.00 3.46
3879 3925 1.905354 GCAGCAGTTTGGCCTCCTT 60.905 57.895 3.32 0.00 0.00 3.36
3880 3926 2.282745 GCAGCAGTTTGGCCTCCT 60.283 61.111 3.32 0.00 0.00 3.69
3881 3927 2.151049 CTTGCAGCAGTTTGGCCTCC 62.151 60.000 3.32 0.00 0.00 4.30
3882 3928 1.288127 CTTGCAGCAGTTTGGCCTC 59.712 57.895 3.32 0.00 0.00 4.70
3883 3929 2.864471 GCTTGCAGCAGTTTGGCCT 61.864 57.895 3.32 0.00 41.89 5.19
3884 3930 2.356673 GCTTGCAGCAGTTTGGCC 60.357 61.111 0.00 0.00 41.89 5.36
3893 3939 3.503363 CCTAGCGGTGCTTGCAGC 61.503 66.667 13.97 13.97 40.44 5.25
3894 3940 2.821366 CCCTAGCGGTGCTTGCAG 60.821 66.667 0.00 0.00 40.44 4.41
3895 3941 3.315142 CTCCCTAGCGGTGCTTGCA 62.315 63.158 0.00 0.00 40.44 4.08
3896 3942 2.512515 CTCCCTAGCGGTGCTTGC 60.513 66.667 0.00 0.00 40.44 4.01
3897 3943 2.187946 CCTCCCTAGCGGTGCTTG 59.812 66.667 0.00 0.00 40.44 4.01
3898 3944 3.083997 CCCTCCCTAGCGGTGCTT 61.084 66.667 0.00 0.00 40.44 3.91
3899 3945 4.075793 TCCCTCCCTAGCGGTGCT 62.076 66.667 0.00 0.00 43.41 4.40
3900 3946 3.541713 CTCCCTCCCTAGCGGTGC 61.542 72.222 0.00 0.00 0.00 5.01
3901 3947 2.840102 CCTCCCTCCCTAGCGGTG 60.840 72.222 0.00 0.00 0.00 4.94
3902 3948 4.159108 CCCTCCCTCCCTAGCGGT 62.159 72.222 0.00 0.00 0.00 5.68
3903 3949 4.944069 CCCCTCCCTCCCTAGCGG 62.944 77.778 0.00 0.00 0.00 5.52
3904 3950 4.944069 CCCCCTCCCTCCCTAGCG 62.944 77.778 0.00 0.00 0.00 4.26
3906 3952 4.944069 CGCCCCCTCCCTCCCTAG 62.944 77.778 0.00 0.00 0.00 3.02
3924 3970 3.359695 TTGCTATGAACTTGTACCCCC 57.640 47.619 0.00 0.00 0.00 5.40
3925 3971 4.332828 AGTTTGCTATGAACTTGTACCCC 58.667 43.478 0.00 0.00 33.76 4.95


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

AutoCloner maintained by Alex Coulton.