Multiple sequence alignment - TraesCS7B01G181100

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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 TraesCS7B01G181100 chr7B 100.000 3854 0 0 1 3854 272717675 272721528 0.000000e+00 7118.0
1 TraesCS7B01G181100 chr7D 95.788 3039 79 18 598 3620 269050989 269047984 0.000000e+00 4857.0
2 TraesCS7B01G181100 chr7D 92.276 246 19 0 347 592 562201817 562202062 2.200000e-92 350.0
3 TraesCS7B01G181100 chr7A 95.685 3036 81 14 598 3611 296590821 296587814 0.000000e+00 4835.0
4 TraesCS7B01G181100 chr7A 86.891 595 74 1 4 594 62032584 62031990 0.000000e+00 664.0
5 TraesCS7B01G181100 chr7A 92.958 71 5 0 3621 3691 51834373 51834443 1.890000e-18 104.0
6 TraesCS7B01G181100 chr2B 94.631 596 28 1 1 592 104959259 104958664 0.000000e+00 920.0
7 TraesCS7B01G181100 chr2B 91.898 469 25 5 129 593 726555168 726554709 0.000000e+00 643.0
8 TraesCS7B01G181100 chr2B 85.593 236 31 1 3619 3854 128029263 128029031 1.070000e-60 244.0
9 TraesCS7B01G181100 chr2B 95.420 131 6 0 1 131 726578731 726578601 3.900000e-50 209.0
10 TraesCS7B01G181100 chr1B 94.472 597 29 1 1 593 536704548 536705144 0.000000e+00 917.0
11 TraesCS7B01G181100 chr6D 86.242 596 78 1 1 592 73814233 73814828 0.000000e+00 643.0
12 TraesCS7B01G181100 chr6D 84.370 595 86 5 5 593 422297696 422298289 9.280000e-161 577.0
13 TraesCS7B01G181100 chr6D 86.522 230 29 2 3620 3849 273047247 273047020 6.390000e-63 252.0
14 TraesCS7B01G181100 chr5A 85.092 597 85 1 4 596 387390916 387390320 1.180000e-169 606.0
15 TraesCS7B01G181100 chr5B 83.220 590 93 4 4 588 482490769 482491357 1.580000e-148 536.0
16 TraesCS7B01G181100 chr5B 76.667 240 40 13 3285 3520 273070315 273070088 6.760000e-23 119.0
17 TraesCS7B01G181100 chr5B 87.654 81 9 1 3611 3690 81213590 81213670 4.100000e-15 93.5
18 TraesCS7B01G181100 chr6A 84.783 230 31 3 3620 3849 390728214 390727989 1.080000e-55 228.0
19 TraesCS7B01G181100 chr3B 84.647 241 24 10 3620 3849 741683458 741683220 1.080000e-55 228.0
20 TraesCS7B01G181100 chr3D 89.024 82 9 0 3611 3692 497898965 497899046 6.810000e-18 102.0
21 TraesCS7B01G181100 chr3D 90.541 74 5 2 3620 3692 392963867 392963939 3.170000e-16 97.1
22 TraesCS7B01G181100 chr1D 91.549 71 6 0 3620 3690 226832645 226832715 8.810000e-17 99.0
23 TraesCS7B01G181100 chr6B 88.608 79 9 0 3442 3520 73597396 73597318 3.170000e-16 97.1


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 TraesCS7B01G181100 chr7B 272717675 272721528 3853 False 7118 7118 100.000 1 3854 1 chr7B.!!$F1 3853
1 TraesCS7B01G181100 chr7D 269047984 269050989 3005 True 4857 4857 95.788 598 3620 1 chr7D.!!$R1 3022
2 TraesCS7B01G181100 chr7A 296587814 296590821 3007 True 4835 4835 95.685 598 3611 1 chr7A.!!$R2 3013
3 TraesCS7B01G181100 chr7A 62031990 62032584 594 True 664 664 86.891 4 594 1 chr7A.!!$R1 590
4 TraesCS7B01G181100 chr2B 104958664 104959259 595 True 920 920 94.631 1 592 1 chr2B.!!$R1 591
5 TraesCS7B01G181100 chr1B 536704548 536705144 596 False 917 917 94.472 1 593 1 chr1B.!!$F1 592
6 TraesCS7B01G181100 chr6D 73814233 73814828 595 False 643 643 86.242 1 592 1 chr6D.!!$F1 591
7 TraesCS7B01G181100 chr6D 422297696 422298289 593 False 577 577 84.370 5 593 1 chr6D.!!$F2 588
8 TraesCS7B01G181100 chr5A 387390320 387390916 596 True 606 606 85.092 4 596 1 chr5A.!!$R1 592
9 TraesCS7B01G181100 chr5B 482490769 482491357 588 False 536 536 83.220 4 588 1 chr5B.!!$F2 584

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
236 237 0.111061 ATCCACTTGTGGCAGAAGCA 59.889 50.000 22.83 8.77 44.61 3.91 F
555 561 0.389391 GATAGTGCTGGCGCCTTCTA 59.611 55.000 29.70 22.00 34.43 2.10 F
1023 1047 0.464735 ACGGTGGTAGCAAGCAAACA 60.465 50.000 0.00 0.00 34.25 2.83 F
1283 1307 1.007734 GTCAGTGTCGCTCGAACCA 60.008 57.895 0.00 0.00 0.00 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1083 1107 1.236616 CGATGGTGCTGAAGTTGCCA 61.237 55.000 0.00 0.00 0.00 4.92 R
1981 2016 2.223688 TGCACAAAAGCGCATGTTACTT 60.224 40.909 11.47 0.00 37.31 2.24 R
2836 2872 0.615331 CTCTAGCACTTGAAGCCCCA 59.385 55.000 0.00 0.00 0.00 4.96 R
3230 3267 1.590932 AATTGCTGATAGGCGCTCAG 58.409 50.000 18.09 18.09 42.47 3.35 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
51 52 2.597217 TTCCACCAAAGCAGGCCG 60.597 61.111 0.00 0.00 0.00 6.13
52 53 3.126703 TTCCACCAAAGCAGGCCGA 62.127 57.895 0.00 0.00 0.00 5.54
57 58 0.827507 ACCAAAGCAGGCCGACATTT 60.828 50.000 0.00 0.00 0.00 2.32
128 129 8.962884 TTAATACTGATGCTGCAATTTCTCTA 57.037 30.769 6.36 0.00 0.00 2.43
236 237 0.111061 ATCCACTTGTGGCAGAAGCA 59.889 50.000 22.83 8.77 44.61 3.91
263 264 2.030490 TACGTGAAGGCGTGGTGGTT 62.030 55.000 0.00 0.00 45.33 3.67
302 307 3.732471 GCGAGTACAGATTGAGACTGACC 60.732 52.174 0.00 0.00 38.55 4.02
305 310 3.440872 AGTACAGATTGAGACTGACCGTC 59.559 47.826 0.00 0.00 43.17 4.79
324 330 4.398358 CCGTCTGAATGTAGTGAACCTCTA 59.602 45.833 0.00 0.00 0.00 2.43
371 377 3.628942 TCTGATAGCGCCGTTACTCTTAA 59.371 43.478 2.29 0.00 0.00 1.85
475 481 1.464608 GCGAGACAAGCAAGCACATTA 59.535 47.619 0.00 0.00 34.19 1.90
553 559 1.153369 TGATAGTGCTGGCGCCTTC 60.153 57.895 29.70 19.23 34.43 3.46
555 561 0.389391 GATAGTGCTGGCGCCTTCTA 59.611 55.000 29.70 22.00 34.43 2.10
697 706 3.151022 GAGGAGGAGGACGGCCAG 61.151 72.222 11.69 0.00 36.29 4.85
797 806 3.164269 CCCCACCCCGAGATCTGG 61.164 72.222 0.00 0.00 0.00 3.86
809 833 3.445450 CCGAGATCTGGTCCGATTCATAT 59.555 47.826 0.00 0.00 0.00 1.78
810 834 4.081972 CCGAGATCTGGTCCGATTCATATT 60.082 45.833 0.00 0.00 0.00 1.28
811 835 5.473931 CGAGATCTGGTCCGATTCATATTT 58.526 41.667 0.00 0.00 0.00 1.40
812 836 5.928839 CGAGATCTGGTCCGATTCATATTTT 59.071 40.000 0.00 0.00 0.00 1.82
813 837 6.128715 CGAGATCTGGTCCGATTCATATTTTG 60.129 42.308 0.00 0.00 0.00 2.44
814 838 6.000219 AGATCTGGTCCGATTCATATTTTGG 59.000 40.000 0.00 0.00 0.00 3.28
815 839 5.110814 TCTGGTCCGATTCATATTTTGGT 57.889 39.130 0.00 0.00 0.00 3.67
816 840 5.505780 TCTGGTCCGATTCATATTTTGGTT 58.494 37.500 0.00 0.00 0.00 3.67
817 841 5.949354 TCTGGTCCGATTCATATTTTGGTTT 59.051 36.000 0.00 0.00 0.00 3.27
818 842 5.960113 TGGTCCGATTCATATTTTGGTTTG 58.040 37.500 0.00 0.00 0.00 2.93
819 843 5.712446 TGGTCCGATTCATATTTTGGTTTGA 59.288 36.000 0.00 0.00 0.00 2.69
820 844 6.379703 TGGTCCGATTCATATTTTGGTTTGAT 59.620 34.615 0.00 0.00 0.00 2.57
821 845 7.093552 TGGTCCGATTCATATTTTGGTTTGATT 60.094 33.333 0.00 0.00 0.00 2.57
822 846 7.222611 GGTCCGATTCATATTTTGGTTTGATTG 59.777 37.037 0.00 0.00 0.00 2.67
823 847 7.973388 GTCCGATTCATATTTTGGTTTGATTGA 59.027 33.333 0.00 0.00 0.00 2.57
866 890 1.486310 TCAATCTGGGTCAATCGAGGG 59.514 52.381 0.00 0.00 0.00 4.30
913 937 7.931578 ACCAAATTATACGATTCCTGTTTCA 57.068 32.000 0.00 0.00 0.00 2.69
1023 1047 0.464735 ACGGTGGTAGCAAGCAAACA 60.465 50.000 0.00 0.00 34.25 2.83
1083 1107 2.659610 GAGCACACGGCCTTCTCT 59.340 61.111 0.00 0.00 46.50 3.10
1140 1164 2.113774 CTGCCCTCCAACAGCACA 59.886 61.111 0.00 0.00 32.06 4.57
1193 1217 1.168407 AACTTCCTCGTCGACCGTGA 61.168 55.000 10.58 0.30 37.94 4.35
1283 1307 1.007734 GTCAGTGTCGCTCGAACCA 60.008 57.895 0.00 0.00 0.00 3.67
1733 1757 2.535984 GACAACATCGAGAAGGTATGCG 59.464 50.000 0.00 0.00 0.00 4.73
1738 1762 4.360563 ACATCGAGAAGGTATGCGTTTAG 58.639 43.478 0.00 0.00 0.00 1.85
1774 1798 2.456119 GGAGCGATGGTCTGTTGCG 61.456 63.158 0.00 0.00 0.00 4.85
1779 1803 1.840630 CGATGGTCTGTTGCGCACAA 61.841 55.000 11.12 0.00 33.87 3.33
1980 2015 9.802039 TTTTAAGTACATGGGTCTCATAAAAGT 57.198 29.630 0.00 0.00 34.12 2.66
2243 2278 7.477494 ACAAAGTTACGCTGTGTTCTTTAATT 58.523 30.769 17.17 7.93 42.84 1.40
2283 2318 6.748132 TGCCTTTCTTTGAGGTTTCTTAATG 58.252 36.000 0.00 0.00 36.63 1.90
2346 2381 1.380246 TGCATTGTCCTGGGGCATC 60.380 57.895 0.00 0.00 0.00 3.91
2383 2418 4.943705 GGATGTGCAAAGATCCAAGTCTAA 59.056 41.667 13.41 0.00 38.46 2.10
2390 2426 3.205784 AGATCCAAGTCTAATGCCTGC 57.794 47.619 0.00 0.00 0.00 4.85
2399 2435 2.093764 GTCTAATGCCTGCTCAGTCACT 60.094 50.000 0.00 0.00 0.00 3.41
2453 2489 6.430451 GGAAAATAGCCACAACTTCATATCG 58.570 40.000 0.00 0.00 0.00 2.92
2483 2519 9.603921 AACTGAAATCATCAATTCAACAGTTTT 57.396 25.926 0.00 0.00 39.81 2.43
2585 2621 4.803452 AGAAGATTGAACTTTTGGTGGGA 58.197 39.130 0.00 0.00 0.00 4.37
2836 2872 1.635487 TCCTCTGGCTAATGGTTTGCT 59.365 47.619 0.00 0.00 0.00 3.91
2878 2914 1.561643 TCAGAGTCTTCATTCGCCCT 58.438 50.000 0.00 0.00 0.00 5.19
2910 2946 6.578545 CCTTGTCATTTGATGTTCTGTTTACG 59.421 38.462 0.00 0.00 0.00 3.18
2963 3000 1.730064 GCTTCGCTATGTTCCGAACAA 59.270 47.619 17.64 6.94 45.86 2.83
2964 3001 2.158841 GCTTCGCTATGTTCCGAACAAA 59.841 45.455 17.64 6.60 45.86 2.83
3041 3078 4.083565 GACCATAGGGATCTGGAGTACTC 58.916 52.174 14.87 14.87 38.05 2.59
3095 3132 7.915923 TCAGTCGATTATCTGTACATTCTGAAC 59.084 37.037 0.00 0.00 33.89 3.18
3300 3337 4.408276 TGCTGTCTACCTACCATATCTCC 58.592 47.826 0.00 0.00 0.00 3.71
3431 3468 4.647564 TTCTGCAATCTCTTCTTCCCTT 57.352 40.909 0.00 0.00 0.00 3.95
3440 3477 3.392616 TCTCTTCTTCCCTTTTCAGCTGT 59.607 43.478 14.67 0.00 0.00 4.40
3503 3540 1.269448 GAAACTTTGGCGCTTGATGGA 59.731 47.619 7.64 0.00 0.00 3.41
3636 3682 8.074474 TCTTATATACTAGAGTGATATCGCGC 57.926 38.462 11.59 11.59 0.00 6.86
3637 3683 5.676532 ATATACTAGAGTGATATCGCGCC 57.323 43.478 15.30 9.42 0.00 6.53
3638 3684 1.898902 ACTAGAGTGATATCGCGCCT 58.101 50.000 15.30 15.25 0.00 5.52
3639 3685 2.231529 ACTAGAGTGATATCGCGCCTT 58.768 47.619 15.30 2.22 0.00 4.35
3640 3686 2.030717 ACTAGAGTGATATCGCGCCTTG 60.031 50.000 15.30 15.44 0.00 3.61
3641 3687 0.032678 AGAGTGATATCGCGCCTTGG 59.967 55.000 15.30 0.00 0.00 3.61
3642 3688 1.560860 GAGTGATATCGCGCCTTGGC 61.561 60.000 10.53 0.75 0.00 4.52
3662 3708 4.717313 GAGGGTGCCGGTCCCAAC 62.717 72.222 29.22 21.14 46.82 3.77
3665 3711 4.941309 GGTGCCGGTCCCAACGTT 62.941 66.667 1.90 0.00 0.00 3.99
3666 3712 2.903350 GTGCCGGTCCCAACGTTT 60.903 61.111 1.90 0.00 0.00 3.60
3667 3713 2.124236 TGCCGGTCCCAACGTTTT 60.124 55.556 1.90 0.00 0.00 2.43
3668 3714 1.753463 TGCCGGTCCCAACGTTTTT 60.753 52.632 1.90 0.00 0.00 1.94
3669 3715 1.299544 GCCGGTCCCAACGTTTTTG 60.300 57.895 1.90 0.00 0.00 2.44
3670 3716 2.007113 GCCGGTCCCAACGTTTTTGT 62.007 55.000 1.90 0.00 0.00 2.83
3671 3717 0.029700 CCGGTCCCAACGTTTTTGTC 59.970 55.000 0.00 0.00 0.00 3.18
3672 3718 0.733729 CGGTCCCAACGTTTTTGTCA 59.266 50.000 0.00 0.00 0.00 3.58
3673 3719 1.132643 CGGTCCCAACGTTTTTGTCAA 59.867 47.619 0.00 0.00 0.00 3.18
3674 3720 2.793237 CGGTCCCAACGTTTTTGTCAAG 60.793 50.000 0.00 0.00 0.00 3.02
3675 3721 2.190161 GTCCCAACGTTTTTGTCAAGC 58.810 47.619 0.00 0.00 0.00 4.01
3676 3722 1.819288 TCCCAACGTTTTTGTCAAGCA 59.181 42.857 0.00 0.00 0.00 3.91
3677 3723 2.159310 TCCCAACGTTTTTGTCAAGCAG 60.159 45.455 0.00 0.00 0.00 4.24
3678 3724 2.192624 CCAACGTTTTTGTCAAGCAGG 58.807 47.619 0.00 0.00 0.00 4.85
3679 3725 2.416701 CCAACGTTTTTGTCAAGCAGGT 60.417 45.455 0.00 0.00 0.00 4.00
3680 3726 3.181495 CCAACGTTTTTGTCAAGCAGGTA 60.181 43.478 0.00 0.00 0.00 3.08
3681 3727 4.416620 CAACGTTTTTGTCAAGCAGGTAA 58.583 39.130 0.00 0.00 0.00 2.85
3682 3728 4.911514 ACGTTTTTGTCAAGCAGGTAAT 57.088 36.364 0.00 0.00 0.00 1.89
3683 3729 4.606961 ACGTTTTTGTCAAGCAGGTAATG 58.393 39.130 0.00 0.00 0.00 1.90
3708 3754 9.811995 TGCTAAGTTAAGATCTTAATAAAGCGA 57.188 29.630 29.50 22.72 37.84 4.93
3727 3773 6.436843 AGCGAAAAAGGAATATTCGATTGT 57.563 33.333 9.32 2.27 46.50 2.71
3728 3774 7.548196 AGCGAAAAAGGAATATTCGATTGTA 57.452 32.000 9.32 0.00 46.50 2.41
3729 3775 7.981142 AGCGAAAAAGGAATATTCGATTGTAA 58.019 30.769 9.32 0.00 46.50 2.41
3730 3776 8.621286 AGCGAAAAAGGAATATTCGATTGTAAT 58.379 29.630 9.32 0.00 46.50 1.89
3731 3777 9.872757 GCGAAAAAGGAATATTCGATTGTAATA 57.127 29.630 9.32 0.00 46.50 0.98
3736 3782 7.602517 AGGAATATTCGATTGTAATAGCAGC 57.397 36.000 9.32 0.00 0.00 5.25
3737 3783 7.161404 AGGAATATTCGATTGTAATAGCAGCA 58.839 34.615 9.32 0.00 0.00 4.41
3738 3784 7.661437 AGGAATATTCGATTGTAATAGCAGCAA 59.339 33.333 9.32 0.00 0.00 3.91
3739 3785 7.959651 GGAATATTCGATTGTAATAGCAGCAAG 59.040 37.037 9.32 0.00 0.00 4.01
3740 3786 8.607441 AATATTCGATTGTAATAGCAGCAAGA 57.393 30.769 0.00 0.00 0.00 3.02
3741 3787 5.718649 TTCGATTGTAATAGCAGCAAGAC 57.281 39.130 0.00 0.00 0.00 3.01
3742 3788 4.754322 TCGATTGTAATAGCAGCAAGACA 58.246 39.130 0.00 0.00 0.00 3.41
3743 3789 5.359756 TCGATTGTAATAGCAGCAAGACAT 58.640 37.500 0.00 0.00 0.00 3.06
3744 3790 6.512297 TCGATTGTAATAGCAGCAAGACATA 58.488 36.000 0.00 0.00 0.00 2.29
3745 3791 6.642540 TCGATTGTAATAGCAGCAAGACATAG 59.357 38.462 0.00 0.00 0.00 2.23
3746 3792 5.991328 TTGTAATAGCAGCAAGACATAGC 57.009 39.130 0.00 0.00 0.00 2.97
3747 3793 4.051237 TGTAATAGCAGCAAGACATAGCG 58.949 43.478 0.00 0.00 35.48 4.26
3748 3794 2.898729 ATAGCAGCAAGACATAGCGT 57.101 45.000 0.00 0.00 35.48 5.07
3749 3795 2.672961 TAGCAGCAAGACATAGCGTT 57.327 45.000 0.00 0.00 35.48 4.84
3750 3796 1.081892 AGCAGCAAGACATAGCGTTG 58.918 50.000 0.00 0.00 35.48 4.10
3751 3797 0.522076 GCAGCAAGACATAGCGTTGC 60.522 55.000 0.00 0.00 45.68 4.17
3753 3799 3.593247 GCAAGACATAGCGTTGCTG 57.407 52.632 0.70 0.00 42.70 4.41
3754 3800 1.078709 GCAAGACATAGCGTTGCTGA 58.921 50.000 0.70 0.00 42.70 4.26
3755 3801 1.201965 GCAAGACATAGCGTTGCTGAC 60.202 52.381 0.70 0.00 42.70 3.51
3756 3802 2.068519 CAAGACATAGCGTTGCTGACA 58.931 47.619 0.70 0.00 40.10 3.58
3757 3803 2.674852 CAAGACATAGCGTTGCTGACAT 59.325 45.455 0.70 0.00 40.10 3.06
3758 3804 3.801114 AGACATAGCGTTGCTGACATA 57.199 42.857 0.70 0.00 40.10 2.29
3759 3805 4.123497 AGACATAGCGTTGCTGACATAA 57.877 40.909 0.70 0.00 40.10 1.90
3760 3806 3.865745 AGACATAGCGTTGCTGACATAAC 59.134 43.478 0.70 0.00 40.10 1.89
3764 3810 3.568181 CGTTGCTGACATAACGCTG 57.432 52.632 10.80 0.00 42.35 5.18
3765 3811 0.519175 CGTTGCTGACATAACGCTGC 60.519 55.000 10.80 0.00 42.35 5.25
3766 3812 0.798776 GTTGCTGACATAACGCTGCT 59.201 50.000 0.00 0.00 0.00 4.24
3767 3813 1.078709 TTGCTGACATAACGCTGCTC 58.921 50.000 0.00 0.00 0.00 4.26
3768 3814 0.037419 TGCTGACATAACGCTGCTCA 60.037 50.000 0.00 0.00 0.00 4.26
3769 3815 1.078709 GCTGACATAACGCTGCTCAA 58.921 50.000 0.00 0.00 0.00 3.02
3770 3816 1.667724 GCTGACATAACGCTGCTCAAT 59.332 47.619 0.00 0.00 0.00 2.57
3771 3817 2.866156 GCTGACATAACGCTGCTCAATA 59.134 45.455 0.00 0.00 0.00 1.90
3772 3818 3.496130 GCTGACATAACGCTGCTCAATAT 59.504 43.478 0.00 0.00 0.00 1.28
3773 3819 4.376819 GCTGACATAACGCTGCTCAATATC 60.377 45.833 0.00 0.00 0.00 1.63
3774 3820 4.692228 TGACATAACGCTGCTCAATATCA 58.308 39.130 0.00 0.00 0.00 2.15
3775 3821 5.299949 TGACATAACGCTGCTCAATATCAT 58.700 37.500 0.00 0.00 0.00 2.45
3776 3822 5.406477 TGACATAACGCTGCTCAATATCATC 59.594 40.000 0.00 0.00 0.00 2.92
3777 3823 4.386954 ACATAACGCTGCTCAATATCATCG 59.613 41.667 0.00 0.00 0.00 3.84
3778 3824 1.143305 ACGCTGCTCAATATCATCGC 58.857 50.000 0.00 0.00 0.00 4.58
3779 3825 1.142474 CGCTGCTCAATATCATCGCA 58.858 50.000 0.00 0.00 0.00 5.10
3780 3826 1.528161 CGCTGCTCAATATCATCGCAA 59.472 47.619 0.00 0.00 0.00 4.85
3781 3827 2.032636 CGCTGCTCAATATCATCGCAAA 60.033 45.455 0.00 0.00 0.00 3.68
3782 3828 3.546616 CGCTGCTCAATATCATCGCAAAA 60.547 43.478 0.00 0.00 0.00 2.44
3783 3829 4.353737 GCTGCTCAATATCATCGCAAAAA 58.646 39.130 0.00 0.00 0.00 1.94
3784 3830 4.440103 GCTGCTCAATATCATCGCAAAAAG 59.560 41.667 0.00 0.00 0.00 2.27
3785 3831 5.731406 GCTGCTCAATATCATCGCAAAAAGA 60.731 40.000 0.00 0.00 0.00 2.52
3786 3832 6.381481 TGCTCAATATCATCGCAAAAAGAT 57.619 33.333 0.00 0.00 0.00 2.40
3787 3833 7.495135 TGCTCAATATCATCGCAAAAAGATA 57.505 32.000 0.00 0.00 0.00 1.98
3788 3834 7.355017 TGCTCAATATCATCGCAAAAAGATAC 58.645 34.615 0.00 0.00 0.00 2.24
3789 3835 6.798959 GCTCAATATCATCGCAAAAAGATACC 59.201 38.462 0.00 0.00 0.00 2.73
3790 3836 7.308229 GCTCAATATCATCGCAAAAAGATACCT 60.308 37.037 0.00 0.00 0.00 3.08
3791 3837 9.208022 CTCAATATCATCGCAAAAAGATACCTA 57.792 33.333 0.00 0.00 0.00 3.08
3792 3838 9.208022 TCAATATCATCGCAAAAAGATACCTAG 57.792 33.333 0.00 0.00 0.00 3.02
3793 3839 9.208022 CAATATCATCGCAAAAAGATACCTAGA 57.792 33.333 0.00 0.00 0.00 2.43
3794 3840 8.994429 ATATCATCGCAAAAAGATACCTAGAG 57.006 34.615 0.00 0.00 0.00 2.43
3795 3841 5.601662 TCATCGCAAAAAGATACCTAGAGG 58.398 41.667 0.00 0.00 42.17 3.69
3796 3842 3.793559 TCGCAAAAAGATACCTAGAGGC 58.206 45.455 0.00 0.00 39.32 4.70
3797 3843 3.196901 TCGCAAAAAGATACCTAGAGGCA 59.803 43.478 0.00 0.00 39.32 4.75
3798 3844 3.557595 CGCAAAAAGATACCTAGAGGCAG 59.442 47.826 0.00 0.00 39.32 4.85
3799 3845 4.680708 CGCAAAAAGATACCTAGAGGCAGA 60.681 45.833 0.00 0.00 39.32 4.26
3800 3846 5.186198 GCAAAAAGATACCTAGAGGCAGAA 58.814 41.667 0.00 0.00 39.32 3.02
3801 3847 5.065346 GCAAAAAGATACCTAGAGGCAGAAC 59.935 44.000 0.00 0.00 39.32 3.01
3802 3848 6.410540 CAAAAAGATACCTAGAGGCAGAACT 58.589 40.000 0.00 0.00 39.32 3.01
3803 3849 5.606348 AAAGATACCTAGAGGCAGAACTG 57.394 43.478 0.00 0.00 39.32 3.16
3804 3850 4.528076 AGATACCTAGAGGCAGAACTGA 57.472 45.455 5.97 0.00 39.32 3.41
3805 3851 5.073437 AGATACCTAGAGGCAGAACTGAT 57.927 43.478 5.97 0.00 39.32 2.90
3806 3852 5.463154 AGATACCTAGAGGCAGAACTGATT 58.537 41.667 5.97 0.00 39.32 2.57
3807 3853 5.902431 AGATACCTAGAGGCAGAACTGATTT 59.098 40.000 5.97 0.00 39.32 2.17
3808 3854 4.479786 ACCTAGAGGCAGAACTGATTTC 57.520 45.455 5.97 0.29 39.32 2.17
3809 3855 3.840666 ACCTAGAGGCAGAACTGATTTCA 59.159 43.478 5.97 0.00 39.32 2.69
3810 3856 4.081198 ACCTAGAGGCAGAACTGATTTCAG 60.081 45.833 6.03 6.03 43.68 3.02
3822 3868 4.910746 CTGATTTCAGTGTGTCCGTAAG 57.089 45.455 0.00 0.00 39.09 2.34
3823 3869 4.556233 CTGATTTCAGTGTGTCCGTAAGA 58.444 43.478 0.00 0.00 39.09 2.10
3824 3870 5.147330 TGATTTCAGTGTGTCCGTAAGAT 57.853 39.130 0.00 0.00 43.02 2.40
3825 3871 5.168569 TGATTTCAGTGTGTCCGTAAGATC 58.831 41.667 0.00 0.00 43.02 2.75
3826 3872 4.594123 TTTCAGTGTGTCCGTAAGATCA 57.406 40.909 0.00 0.00 43.02 2.92
3827 3873 3.570926 TCAGTGTGTCCGTAAGATCAC 57.429 47.619 0.00 0.00 43.02 3.06
3828 3874 2.888414 TCAGTGTGTCCGTAAGATCACA 59.112 45.455 0.00 0.00 43.85 3.58
3829 3875 3.319689 TCAGTGTGTCCGTAAGATCACAA 59.680 43.478 0.00 0.00 45.93 3.33
3830 3876 4.055360 CAGTGTGTCCGTAAGATCACAAA 58.945 43.478 0.00 0.00 45.93 2.83
3831 3877 4.509970 CAGTGTGTCCGTAAGATCACAAAA 59.490 41.667 0.00 0.00 45.93 2.44
3832 3878 4.750098 AGTGTGTCCGTAAGATCACAAAAG 59.250 41.667 0.00 0.00 45.93 2.27
3833 3879 4.748102 GTGTGTCCGTAAGATCACAAAAGA 59.252 41.667 0.00 0.00 45.93 2.52
3834 3880 4.748102 TGTGTCCGTAAGATCACAAAAGAC 59.252 41.667 0.00 0.00 43.42 3.01
3835 3881 4.748102 GTGTCCGTAAGATCACAAAAGACA 59.252 41.667 0.00 0.00 39.31 3.41
3836 3882 4.988540 TGTCCGTAAGATCACAAAAGACAG 59.011 41.667 0.00 0.00 43.02 3.51
3837 3883 3.994392 TCCGTAAGATCACAAAAGACAGC 59.006 43.478 0.00 0.00 43.02 4.40
3838 3884 3.125316 CCGTAAGATCACAAAAGACAGCC 59.875 47.826 0.00 0.00 43.02 4.85
3839 3885 3.745975 CGTAAGATCACAAAAGACAGCCA 59.254 43.478 0.00 0.00 43.02 4.75
3840 3886 4.377431 CGTAAGATCACAAAAGACAGCCAC 60.377 45.833 0.00 0.00 43.02 5.01
3841 3887 3.498774 AGATCACAAAAGACAGCCACT 57.501 42.857 0.00 0.00 0.00 4.00
3842 3888 3.406764 AGATCACAAAAGACAGCCACTC 58.593 45.455 0.00 0.00 0.00 3.51
3843 3889 1.581934 TCACAAAAGACAGCCACTCG 58.418 50.000 0.00 0.00 0.00 4.18
3844 3890 1.138069 TCACAAAAGACAGCCACTCGA 59.862 47.619 0.00 0.00 0.00 4.04
3845 3891 1.261619 CACAAAAGACAGCCACTCGAC 59.738 52.381 0.00 0.00 0.00 4.20
3846 3892 1.134521 ACAAAAGACAGCCACTCGACA 60.135 47.619 0.00 0.00 0.00 4.35
3847 3893 2.146342 CAAAAGACAGCCACTCGACAT 58.854 47.619 0.00 0.00 0.00 3.06
3848 3894 1.800805 AAAGACAGCCACTCGACATG 58.199 50.000 0.00 0.00 0.00 3.21
3849 3895 0.969149 AAGACAGCCACTCGACATGA 59.031 50.000 0.00 0.00 0.00 3.07
3850 3896 0.969149 AGACAGCCACTCGACATGAA 59.031 50.000 0.00 0.00 0.00 2.57
3851 3897 1.344438 AGACAGCCACTCGACATGAAA 59.656 47.619 0.00 0.00 0.00 2.69
3852 3898 2.143122 GACAGCCACTCGACATGAAAA 58.857 47.619 0.00 0.00 0.00 2.29
3853 3899 2.744202 GACAGCCACTCGACATGAAAAT 59.256 45.455 0.00 0.00 0.00 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
47 48 1.092348 GACCTGGTAAAATGTCGGCC 58.908 55.000 0.00 0.00 0.00 6.13
51 52 3.443681 CACCCATGACCTGGTAAAATGTC 59.556 47.826 0.00 0.00 44.30 3.06
52 53 3.430453 CACCCATGACCTGGTAAAATGT 58.570 45.455 0.00 0.00 44.30 2.71
57 58 1.688811 GCCACCCATGACCTGGTAA 59.311 57.895 0.00 0.00 44.30 2.85
128 129 0.841961 TGCCTGCTCTATGCTCCAAT 59.158 50.000 0.00 0.00 43.37 3.16
263 264 0.440758 CGCGTAAATCCACGAAAGCA 59.559 50.000 0.00 0.00 44.69 3.91
302 307 4.442375 AGAGGTTCACTACATTCAGACG 57.558 45.455 0.00 0.00 0.00 4.18
305 310 7.094162 TGAGTTCTAGAGGTTCACTACATTCAG 60.094 40.741 0.00 0.00 0.00 3.02
324 330 1.625616 CGAAATACGGCGTGAGTTCT 58.374 50.000 24.86 0.30 38.46 3.01
475 481 0.469331 TCCAACACTCCGACACCTCT 60.469 55.000 0.00 0.00 0.00 3.69
555 561 7.890655 AGGGTAATGAAGAGCTTTATTCAAACT 59.109 33.333 12.24 5.24 38.80 2.66
596 602 2.685897 TCTTGTTGCGTTGCCTTAGTTT 59.314 40.909 0.00 0.00 0.00 2.66
732 741 3.145551 GCTTCGAGGCGGGGTAGA 61.146 66.667 2.91 0.00 0.00 2.59
797 806 7.973388 TCAATCAAACCAAAATATGAATCGGAC 59.027 33.333 0.00 0.00 0.00 4.79
809 833 6.648192 ACACAGGATTTCAATCAAACCAAAA 58.352 32.000 2.04 0.00 37.15 2.44
810 834 6.232581 ACACAGGATTTCAATCAAACCAAA 57.767 33.333 2.04 0.00 37.15 3.28
811 835 5.867903 ACACAGGATTTCAATCAAACCAA 57.132 34.783 2.04 0.00 37.15 3.67
812 836 5.867903 AACACAGGATTTCAATCAAACCA 57.132 34.783 2.04 0.00 37.15 3.67
813 837 6.981722 ACTAACACAGGATTTCAATCAAACC 58.018 36.000 2.04 0.00 37.15 3.27
816 840 8.956426 GGAATACTAACACAGGATTTCAATCAA 58.044 33.333 2.04 0.00 37.98 2.57
817 841 7.556275 GGGAATACTAACACAGGATTTCAATCA 59.444 37.037 2.04 0.00 37.98 2.57
818 842 7.013369 GGGGAATACTAACACAGGATTTCAATC 59.987 40.741 0.00 0.00 37.98 2.67
819 843 6.833933 GGGGAATACTAACACAGGATTTCAAT 59.166 38.462 0.00 0.00 37.98 2.57
820 844 6.184789 GGGGAATACTAACACAGGATTTCAA 58.815 40.000 0.00 0.00 37.98 2.69
821 845 5.251932 TGGGGAATACTAACACAGGATTTCA 59.748 40.000 0.00 0.00 37.98 2.69
822 846 5.751586 TGGGGAATACTAACACAGGATTTC 58.248 41.667 0.00 0.00 37.98 2.17
823 847 5.789574 TGGGGAATACTAACACAGGATTT 57.210 39.130 0.00 0.00 37.98 2.17
866 890 1.574702 GCGTGGCACCCAGAAACTAC 61.575 60.000 12.86 0.00 32.34 2.73
913 937 4.708421 ACTAATCAGCACAAAGATTGGCAT 59.292 37.500 0.00 0.00 36.53 4.40
1023 1047 2.224066 GGCCACGAAGCTGTATATCAGT 60.224 50.000 0.00 0.00 45.23 3.41
1083 1107 1.236616 CGATGGTGCTGAAGTTGCCA 61.237 55.000 0.00 0.00 0.00 4.92
1140 1164 1.258445 CGCAGGAGTAGGTGGACCTT 61.258 60.000 3.03 0.00 46.09 3.50
1193 1217 3.632145 GGGATTCGTGAGCATACCAAAAT 59.368 43.478 0.00 0.00 37.70 1.82
1283 1307 3.181465 ACACATCCGAAGTCAACTCAACT 60.181 43.478 0.00 0.00 0.00 3.16
1557 1581 3.788227 AGAAGCACTTCCATGGTAACA 57.212 42.857 12.58 0.00 46.26 2.41
1733 1757 5.231568 CCGGATAGAACATGTTCGTCTAAAC 59.768 44.000 29.38 19.31 43.97 2.01
1738 1762 3.372954 CTCCGGATAGAACATGTTCGTC 58.627 50.000 28.18 26.91 43.97 4.20
1835 1859 9.436957 ACAGTACAGATTAAAATTCCAGTGTAG 57.563 33.333 0.00 0.00 0.00 2.74
1894 1918 7.225145 AGCAAACTGTACATAAAAGAACGTGTA 59.775 33.333 0.00 0.00 0.00 2.90
1898 1922 6.888430 AGAGCAAACTGTACATAAAAGAACG 58.112 36.000 0.00 0.00 0.00 3.95
1978 2013 4.783242 CACAAAAGCGCATGTTACTTACT 58.217 39.130 11.47 0.00 0.00 2.24
1979 2014 3.360758 GCACAAAAGCGCATGTTACTTAC 59.639 43.478 11.47 0.00 0.00 2.34
1980 2015 3.003793 TGCACAAAAGCGCATGTTACTTA 59.996 39.130 11.47 0.00 37.31 2.24
1981 2016 2.223688 TGCACAAAAGCGCATGTTACTT 60.224 40.909 11.47 0.00 37.31 2.24
2332 2367 6.045459 ACATAATAATAGATGCCCCAGGACAA 59.955 38.462 0.00 0.00 0.00 3.18
2346 2381 8.839343 TCTTTGCACATCCACACATAATAATAG 58.161 33.333 0.00 0.00 0.00 1.73
2390 2426 3.873361 TCTCTTGCAAAACAGTGACTGAG 59.127 43.478 20.97 4.18 35.18 3.35
2399 2435 4.652421 TTGCTTGATCTCTTGCAAAACA 57.348 36.364 0.00 0.00 41.58 2.83
2585 2621 3.387397 CGACTGTAAGGTTTCGGTCTTT 58.613 45.455 6.71 0.00 39.30 2.52
2663 2699 3.059597 CCTCAGTCAAAGTTGCTTACACG 60.060 47.826 0.00 0.00 0.00 4.49
2836 2872 0.615331 CTCTAGCACTTGAAGCCCCA 59.385 55.000 0.00 0.00 0.00 4.96
2910 2946 4.821260 TGGTCATTATATGCACATGACACC 59.179 41.667 22.18 10.85 45.88 4.16
3041 3078 4.363999 CCCTCTCTCATAAAGCTTACACG 58.636 47.826 0.00 0.00 0.00 4.49
3072 3109 7.306283 GCAGTTCAGAATGTACAGATAATCGAC 60.306 40.741 0.33 0.00 39.02 4.20
3230 3267 1.590932 AATTGCTGATAGGCGCTCAG 58.409 50.000 18.09 18.09 42.47 3.35
3231 3268 2.042686 AAATTGCTGATAGGCGCTCA 57.957 45.000 7.64 1.81 34.52 4.26
3431 3468 6.995686 TGAATTACAAAGTCCTACAGCTGAAA 59.004 34.615 23.35 7.06 0.00 2.69
3440 3477 9.109393 GAATACAGCATGAATTACAAAGTCCTA 57.891 33.333 0.00 0.00 39.69 2.94
3503 3540 4.400529 AAAAATGAACGCAAGGAAGGTT 57.599 36.364 0.00 0.00 46.39 3.50
3564 3604 6.238593 CCTCTGTTCACTTTCTTTTTGAGAGG 60.239 42.308 0.00 0.00 35.37 3.69
3620 3666 2.590073 CAAGGCGCGATATCACTCTAG 58.410 52.381 12.10 0.00 0.00 2.43
3621 3667 1.269723 CCAAGGCGCGATATCACTCTA 59.730 52.381 12.10 0.00 0.00 2.43
3622 3668 0.032678 CCAAGGCGCGATATCACTCT 59.967 55.000 12.10 0.00 0.00 3.24
3623 3669 1.560860 GCCAAGGCGCGATATCACTC 61.561 60.000 12.10 0.00 0.00 3.51
3624 3670 1.595382 GCCAAGGCGCGATATCACT 60.595 57.895 12.10 0.00 0.00 3.41
3625 3671 2.939022 GCCAAGGCGCGATATCAC 59.061 61.111 12.10 0.00 0.00 3.06
3645 3691 4.717313 GTTGGGACCGGCACCCTC 62.717 72.222 29.42 20.89 46.82 4.30
3648 3694 4.941309 AACGTTGGGACCGGCACC 62.941 66.667 0.00 4.30 0.00 5.01
3649 3695 2.007113 AAAAACGTTGGGACCGGCAC 62.007 55.000 0.00 0.00 0.00 5.01
3650 3696 1.753463 AAAAACGTTGGGACCGGCA 60.753 52.632 0.00 0.00 0.00 5.69
3651 3697 1.299544 CAAAAACGTTGGGACCGGC 60.300 57.895 0.00 0.00 0.00 6.13
3652 3698 0.029700 GACAAAAACGTTGGGACCGG 59.970 55.000 0.00 0.00 0.00 5.28
3653 3699 0.733729 TGACAAAAACGTTGGGACCG 59.266 50.000 0.00 0.00 0.00 4.79
3654 3700 2.804647 CTTGACAAAAACGTTGGGACC 58.195 47.619 0.00 0.00 0.00 4.46
3655 3701 2.190161 GCTTGACAAAAACGTTGGGAC 58.810 47.619 0.00 0.00 0.00 4.46
3656 3702 1.819288 TGCTTGACAAAAACGTTGGGA 59.181 42.857 0.00 0.00 0.00 4.37
3657 3703 2.192624 CTGCTTGACAAAAACGTTGGG 58.807 47.619 0.00 0.00 0.00 4.12
3658 3704 2.192624 CCTGCTTGACAAAAACGTTGG 58.807 47.619 0.00 0.00 0.00 3.77
3659 3705 2.874849 ACCTGCTTGACAAAAACGTTG 58.125 42.857 0.00 0.00 0.00 4.10
3660 3706 4.705337 TTACCTGCTTGACAAAAACGTT 57.295 36.364 0.00 0.00 0.00 3.99
3661 3707 4.606961 CATTACCTGCTTGACAAAAACGT 58.393 39.130 0.00 0.00 0.00 3.99
3674 3720 9.326413 TTAAGATCTTAACTTAGCATTACCTGC 57.674 33.333 21.46 0.00 39.30 4.85
3682 3728 9.811995 TCGCTTTATTAAGATCTTAACTTAGCA 57.188 29.630 31.27 23.39 37.80 3.49
3700 3746 9.450807 CAATCGAATATTCCTTTTTCGCTTTAT 57.549 29.630 9.87 0.00 41.38 1.40
3701 3747 8.455682 ACAATCGAATATTCCTTTTTCGCTTTA 58.544 29.630 9.87 0.00 41.38 1.85
3702 3748 7.312899 ACAATCGAATATTCCTTTTTCGCTTT 58.687 30.769 9.87 0.00 41.38 3.51
3703 3749 6.852664 ACAATCGAATATTCCTTTTTCGCTT 58.147 32.000 9.87 0.00 41.38 4.68
3704 3750 6.436843 ACAATCGAATATTCCTTTTTCGCT 57.563 33.333 9.87 0.00 41.38 4.93
3705 3751 8.782533 ATTACAATCGAATATTCCTTTTTCGC 57.217 30.769 9.87 0.00 41.38 4.70
3710 3756 8.507249 GCTGCTATTACAATCGAATATTCCTTT 58.493 33.333 9.87 1.26 0.00 3.11
3711 3757 7.661437 TGCTGCTATTACAATCGAATATTCCTT 59.339 33.333 9.87 1.43 0.00 3.36
3712 3758 7.161404 TGCTGCTATTACAATCGAATATTCCT 58.839 34.615 9.87 0.00 0.00 3.36
3713 3759 7.364522 TGCTGCTATTACAATCGAATATTCC 57.635 36.000 9.87 0.00 0.00 3.01
3714 3760 8.712363 TCTTGCTGCTATTACAATCGAATATTC 58.288 33.333 5.30 5.30 0.00 1.75
3715 3761 8.499162 GTCTTGCTGCTATTACAATCGAATATT 58.501 33.333 0.00 0.00 0.00 1.28
3716 3762 7.657354 TGTCTTGCTGCTATTACAATCGAATAT 59.343 33.333 0.00 0.00 0.00 1.28
3717 3763 6.983890 TGTCTTGCTGCTATTACAATCGAATA 59.016 34.615 0.00 0.00 0.00 1.75
3718 3764 5.817296 TGTCTTGCTGCTATTACAATCGAAT 59.183 36.000 0.00 0.00 0.00 3.34
3719 3765 5.175127 TGTCTTGCTGCTATTACAATCGAA 58.825 37.500 0.00 0.00 0.00 3.71
3720 3766 4.754322 TGTCTTGCTGCTATTACAATCGA 58.246 39.130 0.00 0.00 0.00 3.59
3721 3767 5.663795 ATGTCTTGCTGCTATTACAATCG 57.336 39.130 0.00 0.00 0.00 3.34
3722 3768 6.597614 GCTATGTCTTGCTGCTATTACAATC 58.402 40.000 0.00 0.00 0.00 2.67
3723 3769 5.178252 CGCTATGTCTTGCTGCTATTACAAT 59.822 40.000 0.00 0.00 0.00 2.71
3724 3770 4.507756 CGCTATGTCTTGCTGCTATTACAA 59.492 41.667 0.00 0.00 0.00 2.41
3725 3771 4.051237 CGCTATGTCTTGCTGCTATTACA 58.949 43.478 0.00 1.68 0.00 2.41
3726 3772 4.051922 ACGCTATGTCTTGCTGCTATTAC 58.948 43.478 0.00 0.00 0.00 1.89
3727 3773 4.322080 ACGCTATGTCTTGCTGCTATTA 57.678 40.909 0.00 0.00 0.00 0.98
3728 3774 3.185246 ACGCTATGTCTTGCTGCTATT 57.815 42.857 0.00 0.00 0.00 1.73
3729 3775 2.868583 CAACGCTATGTCTTGCTGCTAT 59.131 45.455 0.00 0.00 0.00 2.97
3730 3776 2.270923 CAACGCTATGTCTTGCTGCTA 58.729 47.619 0.00 0.00 0.00 3.49
3731 3777 1.081892 CAACGCTATGTCTTGCTGCT 58.918 50.000 0.00 0.00 0.00 4.24
3732 3778 0.522076 GCAACGCTATGTCTTGCTGC 60.522 55.000 0.00 0.00 37.82 5.25
3733 3779 1.081892 AGCAACGCTATGTCTTGCTG 58.918 50.000 6.39 0.00 46.93 4.41
3734 3780 3.540211 AGCAACGCTATGTCTTGCT 57.460 47.368 1.71 1.71 44.59 3.91
3735 3781 1.078709 TCAGCAACGCTATGTCTTGC 58.921 50.000 0.00 0.00 36.40 4.01
3736 3782 2.068519 TGTCAGCAACGCTATGTCTTG 58.931 47.619 0.00 0.00 36.40 3.02
3737 3783 2.455674 TGTCAGCAACGCTATGTCTT 57.544 45.000 0.00 0.00 36.40 3.01
3738 3784 2.680312 ATGTCAGCAACGCTATGTCT 57.320 45.000 0.00 0.00 36.40 3.41
3739 3785 3.301835 CGTTATGTCAGCAACGCTATGTC 60.302 47.826 8.92 0.00 40.76 3.06
3740 3786 2.603110 CGTTATGTCAGCAACGCTATGT 59.397 45.455 8.92 0.00 40.76 2.29
3741 3787 3.224606 CGTTATGTCAGCAACGCTATG 57.775 47.619 8.92 0.00 40.76 2.23
3747 3793 0.798776 AGCAGCGTTATGTCAGCAAC 59.201 50.000 0.00 0.00 0.00 4.17
3748 3794 1.078709 GAGCAGCGTTATGTCAGCAA 58.921 50.000 0.00 0.00 0.00 3.91
3749 3795 0.037419 TGAGCAGCGTTATGTCAGCA 60.037 50.000 0.00 0.00 0.00 4.41
3750 3796 1.078709 TTGAGCAGCGTTATGTCAGC 58.921 50.000 0.00 0.00 0.00 4.26
3751 3797 4.746611 TGATATTGAGCAGCGTTATGTCAG 59.253 41.667 0.00 0.00 0.00 3.51
3752 3798 4.692228 TGATATTGAGCAGCGTTATGTCA 58.308 39.130 0.00 0.00 0.00 3.58
3753 3799 5.443824 CGATGATATTGAGCAGCGTTATGTC 60.444 44.000 0.00 0.00 45.29 3.06
3754 3800 4.386954 CGATGATATTGAGCAGCGTTATGT 59.613 41.667 0.00 0.00 45.29 2.29
3755 3801 4.879067 CGATGATATTGAGCAGCGTTATG 58.121 43.478 0.00 0.00 45.29 1.90
3761 3807 3.614159 TTTGCGATGATATTGAGCAGC 57.386 42.857 0.00 0.00 39.11 5.25
3762 3808 5.813717 TCTTTTTGCGATGATATTGAGCAG 58.186 37.500 0.00 0.00 39.11 4.24
3763 3809 5.816449 TCTTTTTGCGATGATATTGAGCA 57.184 34.783 0.00 0.00 35.90 4.26
3764 3810 6.798959 GGTATCTTTTTGCGATGATATTGAGC 59.201 38.462 0.00 0.00 0.00 4.26
3765 3811 8.092521 AGGTATCTTTTTGCGATGATATTGAG 57.907 34.615 0.00 0.00 0.00 3.02
3766 3812 9.208022 CTAGGTATCTTTTTGCGATGATATTGA 57.792 33.333 0.00 0.00 0.00 2.57
3767 3813 9.208022 TCTAGGTATCTTTTTGCGATGATATTG 57.792 33.333 0.00 0.00 0.00 1.90
3768 3814 9.429359 CTCTAGGTATCTTTTTGCGATGATATT 57.571 33.333 0.00 0.00 0.00 1.28
3769 3815 8.037758 CCTCTAGGTATCTTTTTGCGATGATAT 58.962 37.037 0.00 0.00 0.00 1.63
3770 3816 7.378966 CCTCTAGGTATCTTTTTGCGATGATA 58.621 38.462 0.00 0.00 0.00 2.15
3771 3817 6.226787 CCTCTAGGTATCTTTTTGCGATGAT 58.773 40.000 0.00 0.00 0.00 2.45
3772 3818 5.601662 CCTCTAGGTATCTTTTTGCGATGA 58.398 41.667 0.00 0.00 0.00 2.92
3773 3819 4.212214 GCCTCTAGGTATCTTTTTGCGATG 59.788 45.833 0.00 0.00 37.57 3.84
3774 3820 4.141711 TGCCTCTAGGTATCTTTTTGCGAT 60.142 41.667 0.00 0.00 37.57 4.58
3775 3821 3.196901 TGCCTCTAGGTATCTTTTTGCGA 59.803 43.478 0.00 0.00 37.57 5.10
3776 3822 3.531538 TGCCTCTAGGTATCTTTTTGCG 58.468 45.455 0.00 0.00 37.57 4.85
3777 3823 4.770795 TCTGCCTCTAGGTATCTTTTTGC 58.229 43.478 0.00 0.00 37.57 3.68
3778 3824 6.314896 CAGTTCTGCCTCTAGGTATCTTTTTG 59.685 42.308 0.00 0.00 37.57 2.44
3779 3825 6.213600 TCAGTTCTGCCTCTAGGTATCTTTTT 59.786 38.462 0.00 0.00 37.57 1.94
3780 3826 5.721960 TCAGTTCTGCCTCTAGGTATCTTTT 59.278 40.000 0.00 0.00 37.57 2.27
3781 3827 5.273208 TCAGTTCTGCCTCTAGGTATCTTT 58.727 41.667 0.00 0.00 37.57 2.52
3782 3828 4.873010 TCAGTTCTGCCTCTAGGTATCTT 58.127 43.478 0.00 0.00 37.57 2.40
3783 3829 4.528076 TCAGTTCTGCCTCTAGGTATCT 57.472 45.455 0.00 0.00 37.57 1.98
3784 3830 5.799827 AATCAGTTCTGCCTCTAGGTATC 57.200 43.478 0.00 0.00 37.57 2.24
3785 3831 5.663106 TGAAATCAGTTCTGCCTCTAGGTAT 59.337 40.000 0.00 0.00 37.13 2.73
3786 3832 5.023452 TGAAATCAGTTCTGCCTCTAGGTA 58.977 41.667 0.00 0.00 37.13 3.08
3787 3833 3.840666 TGAAATCAGTTCTGCCTCTAGGT 59.159 43.478 0.00 0.00 37.13 3.08
3788 3834 4.440880 CTGAAATCAGTTCTGCCTCTAGG 58.559 47.826 2.18 0.00 39.09 3.02
3802 3848 4.594123 TCTTACGGACACACTGAAATCA 57.406 40.909 0.00 0.00 0.00 2.57
3803 3849 5.062308 GTGATCTTACGGACACACTGAAATC 59.938 44.000 0.00 0.00 34.33 2.17
3804 3850 4.929808 GTGATCTTACGGACACACTGAAAT 59.070 41.667 0.00 0.00 34.33 2.17
3805 3851 4.202172 TGTGATCTTACGGACACACTGAAA 60.202 41.667 0.00 0.00 38.14 2.69
3806 3852 3.319689 TGTGATCTTACGGACACACTGAA 59.680 43.478 0.00 0.00 38.14 3.02
3807 3853 2.888414 TGTGATCTTACGGACACACTGA 59.112 45.455 0.00 0.00 38.14 3.41
3808 3854 3.297830 TGTGATCTTACGGACACACTG 57.702 47.619 0.00 0.00 38.14 3.66
3809 3855 4.330944 TTTGTGATCTTACGGACACACT 57.669 40.909 0.00 0.00 41.78 3.55
3810 3856 4.748102 TCTTTTGTGATCTTACGGACACAC 59.252 41.667 0.00 0.00 41.78 3.82
3811 3857 4.748102 GTCTTTTGTGATCTTACGGACACA 59.252 41.667 0.00 0.00 40.66 3.72
3812 3858 4.748102 TGTCTTTTGTGATCTTACGGACAC 59.252 41.667 0.00 0.00 0.00 3.67
3813 3859 4.951254 TGTCTTTTGTGATCTTACGGACA 58.049 39.130 0.00 0.00 0.00 4.02
3814 3860 4.143094 GCTGTCTTTTGTGATCTTACGGAC 60.143 45.833 0.00 0.00 0.00 4.79
3815 3861 3.994392 GCTGTCTTTTGTGATCTTACGGA 59.006 43.478 0.00 0.00 0.00 4.69
3816 3862 3.125316 GGCTGTCTTTTGTGATCTTACGG 59.875 47.826 0.00 0.00 0.00 4.02
3817 3863 3.745975 TGGCTGTCTTTTGTGATCTTACG 59.254 43.478 0.00 0.00 0.00 3.18
3818 3864 4.757149 AGTGGCTGTCTTTTGTGATCTTAC 59.243 41.667 0.00 0.00 0.00 2.34
3819 3865 4.973168 AGTGGCTGTCTTTTGTGATCTTA 58.027 39.130 0.00 0.00 0.00 2.10
3820 3866 3.817647 GAGTGGCTGTCTTTTGTGATCTT 59.182 43.478 0.00 0.00 0.00 2.40
3821 3867 3.406764 GAGTGGCTGTCTTTTGTGATCT 58.593 45.455 0.00 0.00 0.00 2.75
3822 3868 2.158449 CGAGTGGCTGTCTTTTGTGATC 59.842 50.000 0.00 0.00 0.00 2.92
3823 3869 2.146342 CGAGTGGCTGTCTTTTGTGAT 58.854 47.619 0.00 0.00 0.00 3.06
3824 3870 1.138069 TCGAGTGGCTGTCTTTTGTGA 59.862 47.619 0.00 0.00 0.00 3.58
3825 3871 1.261619 GTCGAGTGGCTGTCTTTTGTG 59.738 52.381 0.00 0.00 0.00 3.33
3826 3872 1.134521 TGTCGAGTGGCTGTCTTTTGT 60.135 47.619 0.00 0.00 0.00 2.83
3827 3873 1.581934 TGTCGAGTGGCTGTCTTTTG 58.418 50.000 0.00 0.00 0.00 2.44
3828 3874 2.146342 CATGTCGAGTGGCTGTCTTTT 58.854 47.619 0.00 0.00 0.00 2.27
3829 3875 1.344438 TCATGTCGAGTGGCTGTCTTT 59.656 47.619 0.00 0.00 0.00 2.52
3830 3876 0.969149 TCATGTCGAGTGGCTGTCTT 59.031 50.000 0.00 0.00 0.00 3.01
3831 3877 0.969149 TTCATGTCGAGTGGCTGTCT 59.031 50.000 0.00 0.00 0.00 3.41
3832 3878 1.795768 TTTCATGTCGAGTGGCTGTC 58.204 50.000 0.00 0.00 0.00 3.51
3833 3879 2.254546 TTTTCATGTCGAGTGGCTGT 57.745 45.000 0.00 0.00 0.00 4.40


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

AutoCloner maintained by Alex Coulton.