Multiple sequence alignment - TraesCS3B01G289700

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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 TraesCS3B01G289700 chr3B 100.000 4204 0 0 1 4204 465068413 465064210 0.000000e+00 7764
1 TraesCS3B01G289700 chr3B 97.710 131 3 0 3490 3620 173656549 173656419 4.230000e-55 226
2 TraesCS3B01G289700 chr3D 96.367 3523 75 14 1 3495 359092030 359088533 0.000000e+00 5747
3 TraesCS3B01G289700 chr3D 93.201 353 16 1 3852 4204 359088282 359087938 2.900000e-141 512
4 TraesCS3B01G289700 chr3D 96.667 90 3 0 3617 3706 359088536 359088447 2.620000e-32 150
5 TraesCS3B01G289700 chr3A 95.188 3512 93 21 1 3482 478665358 478661893 0.000000e+00 5480
6 TraesCS3B01G289700 chr3A 92.857 392 13 3 3813 4204 478661795 478661419 4.750000e-154 555
7 TraesCS3B01G289700 chr3A 96.512 86 3 0 3617 3702 478661878 478661793 4.380000e-30 143
8 TraesCS3B01G289700 chr3A 87.603 121 13 1 3698 3816 454166840 454166960 5.670000e-29 139
9 TraesCS3B01G289700 chr1B 96.970 132 4 0 3490 3621 591352144 591352275 5.470000e-54 222
10 TraesCS3B01G289700 chr1B 95.556 135 6 0 3494 3628 364117339 364117473 2.550000e-52 217
11 TraesCS3B01G289700 chr1B 84.892 139 16 5 3687 3822 473555744 473555608 7.330000e-28 135
12 TraesCS3B01G289700 chr4B 96.947 131 4 0 3490 3620 75505493 75505363 1.970000e-53 220
13 TraesCS3B01G289700 chr4B 96.947 131 4 0 3490 3620 540035882 540035752 1.970000e-53 220
14 TraesCS3B01G289700 chr6B 96.183 131 4 1 3490 3620 157359264 157359135 3.290000e-51 213
15 TraesCS3B01G289700 chr6B 88.000 125 13 1 3694 3816 119980258 119980382 3.390000e-31 147
16 TraesCS3B01G289700 chr6B 86.331 139 13 6 3698 3833 173526591 173526456 3.390000e-31 147
17 TraesCS3B01G289700 chr6B 88.333 120 12 1 3700 3817 708785427 708785308 4.380000e-30 143
18 TraesCS3B01G289700 chr5B 93.056 144 7 3 3490 3631 345346726 345346868 1.530000e-49 207
19 TraesCS3B01G289700 chr5B 92.000 150 8 4 3490 3636 496129217 496129365 1.530000e-49 207
20 TraesCS3B01G289700 chr5B 92.414 145 9 2 3477 3621 360418428 360418570 5.510000e-49 206
21 TraesCS3B01G289700 chr7B 90.598 117 9 1 3701 3815 174046303 174046419 2.020000e-33 154
22 TraesCS3B01G289700 chr4A 88.430 121 12 1 3701 3819 650851930 650851810 1.220000e-30 145
23 TraesCS3B01G289700 chr4A 88.430 121 12 1 3701 3819 650862094 650861974 1.220000e-30 145
24 TraesCS3B01G289700 chr1D 88.235 119 12 1 3701 3817 1026857 1026739 1.580000e-29 141


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 TraesCS3B01G289700 chr3B 465064210 465068413 4203 True 7764.000000 7764 100.000000 1 4204 1 chr3B.!!$R2 4203
1 TraesCS3B01G289700 chr3D 359087938 359092030 4092 True 2136.333333 5747 95.411667 1 4204 3 chr3D.!!$R1 4203
2 TraesCS3B01G289700 chr3A 478661419 478665358 3939 True 2059.333333 5480 94.852333 1 4204 3 chr3A.!!$R1 4203

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
558 561 0.394565 GTCCCTGGATTCCCGAGATG 59.605 60.0 0.00 0.00 34.29 2.9 F
1398 1411 0.254178 ATCAAGAACTCAGCCGGCAT 59.746 50.0 31.54 11.31 0.00 4.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1821 1834 0.240145 CAATGTCACCAGCAGTGCAG 59.760 55.00 19.2 9.58 46.81 4.41 R
3397 3435 3.634910 AGCCCTGTTTCGTTTTACACAAT 59.365 39.13 0.0 0.00 0.00 2.71 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
25 26 1.002792 GTTTCGTTTGTGGTCTCTGCC 60.003 52.381 0.00 0.00 0.00 4.85
234 236 1.000993 AAAACCACCACCCTGCACA 59.999 52.632 0.00 0.00 0.00 4.57
443 445 0.541863 CCACTTACCCGAGCCAGAAT 59.458 55.000 0.00 0.00 0.00 2.40
469 471 4.858680 GTAGCTGAAGCCCCGGCC 62.859 72.222 1.02 0.00 43.38 6.13
558 561 0.394565 GTCCCTGGATTCCCGAGATG 59.605 60.000 0.00 0.00 34.29 2.90
638 641 4.576330 AGGTGAAGGGGATTTAGTGAAG 57.424 45.455 0.00 0.00 0.00 3.02
643 646 3.222394 AGGGGATTTAGTGAAGGGAGT 57.778 47.619 0.00 0.00 0.00 3.85
659 662 2.684881 GGGAGTTCGTTCAGTCCGTATA 59.315 50.000 0.00 0.00 37.16 1.47
670 673 6.804783 CGTTCAGTCCGTATATTGCATATACA 59.195 38.462 18.29 5.42 44.95 2.29
695 699 2.012673 CCATGGTAGCTTTCAGCACTC 58.987 52.381 2.57 0.00 45.56 3.51
723 727 4.616181 AATTTTAGCGGTCATGTAGTGC 57.384 40.909 0.00 0.00 0.00 4.40
759 763 9.334693 CTTAACACATGAGCAATCTTTAAGTTC 57.665 33.333 0.00 0.00 0.00 3.01
808 814 4.167502 ACTGGGAAGTCATCATCCATTGAT 59.832 41.667 0.00 0.00 46.27 2.57
809 815 5.370584 ACTGGGAAGTCATCATCCATTGATA 59.629 40.000 0.00 0.00 43.40 2.15
810 816 6.045224 ACTGGGAAGTCATCATCCATTGATAT 59.955 38.462 0.00 0.00 43.40 1.63
811 817 6.855667 TGGGAAGTCATCATCCATTGATATT 58.144 36.000 0.00 0.00 43.40 1.28
812 818 6.717997 TGGGAAGTCATCATCCATTGATATTG 59.282 38.462 0.00 0.00 43.40 1.90
813 819 6.718454 GGGAAGTCATCATCCATTGATATTGT 59.282 38.462 0.00 0.00 43.40 2.71
830 842 0.534203 TGTTTCCCAGTTCGTCAGGC 60.534 55.000 0.00 0.00 0.00 4.85
898 911 5.420104 AGAAACATGGAGCCATTTCCTTTAG 59.580 40.000 10.46 0.00 38.12 1.85
937 950 8.255206 TCAAAATGTGTAGTACTACCCACTATG 58.745 37.037 26.41 19.54 35.26 2.23
942 955 6.158520 TGTGTAGTACTACCCACTATGGACTA 59.841 42.308 26.41 4.00 37.58 2.59
970 983 6.644347 TCATGATACTTCTTCTTTGGACCTC 58.356 40.000 0.00 0.00 0.00 3.85
1155 1168 4.847255 GCTGACGGCAATTGTGTC 57.153 55.556 19.74 19.74 41.35 3.67
1398 1411 0.254178 ATCAAGAACTCAGCCGGCAT 59.746 50.000 31.54 11.31 0.00 4.40
1553 1566 6.071221 AGCATGGCAATTTATGAAAGTGAGAA 60.071 34.615 3.75 0.00 38.65 2.87
1659 1672 2.071778 ACTTGTGTTTGACCTGCCAT 57.928 45.000 0.00 0.00 0.00 4.40
1776 1789 3.935315 TCTCATTCTGGAGAAGTTGCAG 58.065 45.455 0.00 0.00 45.81 4.41
1798 1811 2.755103 CAGTGGGGTATTGAAAGGAAGC 59.245 50.000 0.00 0.00 0.00 3.86
1804 1817 3.879892 GGGTATTGAAAGGAAGCTAGCTG 59.120 47.826 20.16 0.00 0.00 4.24
1977 1990 6.763135 GCTTGGAACAGACATCTGACATAATA 59.237 38.462 15.76 0.00 46.59 0.98
2019 2032 6.426025 TGATTCAGAATGTCAAGTTCTCACAG 59.574 38.462 0.00 0.00 37.40 3.66
2040 2053 5.163509 ACAGGAAAGGCTTCAAAAGTTTCTC 60.164 40.000 0.00 0.00 32.75 2.87
2179 2192 0.595095 CCTTGCAGAACAGGAAGCAC 59.405 55.000 0.00 0.00 35.85 4.40
2808 2821 4.499183 AGGAAGCTGTCTATCGTCAAAAG 58.501 43.478 0.00 0.00 0.00 2.27
3154 3167 3.301794 TGCTAATTCAGATGGCCATGT 57.698 42.857 26.56 18.30 0.00 3.21
3300 3334 7.221452 CCATAGCACTAATTCAACTTGAAATGC 59.779 37.037 17.42 17.42 40.12 3.56
3414 3452 5.199000 CACGCTATTGTGTAAAACGAAACA 58.801 37.500 0.00 0.00 34.82 2.83
3417 3455 5.151389 GCTATTGTGTAAAACGAAACAGGG 58.849 41.667 0.00 0.00 0.00 4.45
3429 3467 3.181448 ACGAAACAGGGCTCTTTTTCCTA 60.181 43.478 17.51 0.00 36.72 2.94
3501 3544 3.350219 TGGATTGCCAAGTACTTCCTC 57.650 47.619 4.77 0.00 42.49 3.71
3502 3545 2.026262 TGGATTGCCAAGTACTTCCTCC 60.026 50.000 4.77 8.07 42.49 4.30
3503 3546 2.280628 GATTGCCAAGTACTTCCTCCG 58.719 52.381 4.77 0.00 0.00 4.63
3504 3547 1.053424 TTGCCAAGTACTTCCTCCGT 58.947 50.000 4.77 0.00 0.00 4.69
3505 3548 0.606604 TGCCAAGTACTTCCTCCGTC 59.393 55.000 4.77 0.00 0.00 4.79
3506 3549 0.108281 GCCAAGTACTTCCTCCGTCC 60.108 60.000 4.77 0.00 0.00 4.79
3507 3550 0.172803 CCAAGTACTTCCTCCGTCCG 59.827 60.000 4.77 0.00 0.00 4.79
3508 3551 1.171308 CAAGTACTTCCTCCGTCCGA 58.829 55.000 4.77 0.00 0.00 4.55
3509 3552 1.542915 CAAGTACTTCCTCCGTCCGAA 59.457 52.381 4.77 0.00 0.00 4.30
3510 3553 1.915141 AGTACTTCCTCCGTCCGAAA 58.085 50.000 0.00 0.00 0.00 3.46
3511 3554 2.242043 AGTACTTCCTCCGTCCGAAAA 58.758 47.619 0.00 0.00 0.00 2.29
3512 3555 2.830321 AGTACTTCCTCCGTCCGAAAAT 59.170 45.455 0.00 0.00 0.00 1.82
3513 3556 4.019174 AGTACTTCCTCCGTCCGAAAATA 58.981 43.478 0.00 0.00 0.00 1.40
3514 3557 3.242549 ACTTCCTCCGTCCGAAAATAC 57.757 47.619 0.00 0.00 0.00 1.89
3515 3558 2.830321 ACTTCCTCCGTCCGAAAATACT 59.170 45.455 0.00 0.00 0.00 2.12
3516 3559 3.260128 ACTTCCTCCGTCCGAAAATACTT 59.740 43.478 0.00 0.00 0.00 2.24
3517 3560 3.241067 TCCTCCGTCCGAAAATACTTG 57.759 47.619 0.00 0.00 0.00 3.16
3518 3561 2.564062 TCCTCCGTCCGAAAATACTTGT 59.436 45.455 0.00 0.00 0.00 3.16
3519 3562 2.928116 CCTCCGTCCGAAAATACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
3520 3563 3.581755 CTCCGTCCGAAAATACTTGTCA 58.418 45.455 0.00 0.00 0.00 3.58
3521 3564 4.181578 CTCCGTCCGAAAATACTTGTCAT 58.818 43.478 0.00 0.00 0.00 3.06
3522 3565 4.178540 TCCGTCCGAAAATACTTGTCATC 58.821 43.478 0.00 0.00 0.00 2.92
3523 3566 3.930229 CCGTCCGAAAATACTTGTCATCA 59.070 43.478 0.00 0.00 0.00 3.07
3524 3567 4.390603 CCGTCCGAAAATACTTGTCATCAA 59.609 41.667 0.00 0.00 0.00 2.57
3525 3568 5.106869 CCGTCCGAAAATACTTGTCATCAAA 60.107 40.000 0.00 0.00 32.87 2.69
3526 3569 6.367421 CGTCCGAAAATACTTGTCATCAAAA 58.633 36.000 0.00 0.00 32.87 2.44
3527 3570 6.853872 CGTCCGAAAATACTTGTCATCAAAAA 59.146 34.615 0.00 0.00 32.87 1.94
3528 3571 7.059488 CGTCCGAAAATACTTGTCATCAAAAAG 59.941 37.037 0.00 0.00 32.87 2.27
3529 3572 8.073768 GTCCGAAAATACTTGTCATCAAAAAGA 58.926 33.333 0.00 0.00 32.87 2.52
3530 3573 8.625651 TCCGAAAATACTTGTCATCAAAAAGAA 58.374 29.630 0.00 0.00 32.87 2.52
3531 3574 9.410556 CCGAAAATACTTGTCATCAAAAAGAAT 57.589 29.630 0.00 0.00 32.87 2.40
3539 3582 9.546428 ACTTGTCATCAAAAAGAATAAAAAGGG 57.454 29.630 0.00 0.00 32.87 3.95
3540 3583 9.762933 CTTGTCATCAAAAAGAATAAAAAGGGA 57.237 29.630 0.00 0.00 32.87 4.20
3542 3585 9.709495 TGTCATCAAAAAGAATAAAAAGGGATG 57.291 29.630 0.00 0.00 0.00 3.51
3543 3586 9.710900 GTCATCAAAAAGAATAAAAAGGGATGT 57.289 29.630 0.00 0.00 32.47 3.06
3574 3617 9.717942 AGATGTATTTTAGTTCTAGATGCATCC 57.282 33.333 23.06 7.42 39.26 3.51
3575 3618 8.854614 ATGTATTTTAGTTCTAGATGCATCCC 57.145 34.615 23.06 6.46 0.00 3.85
3576 3619 8.034313 TGTATTTTAGTTCTAGATGCATCCCT 57.966 34.615 23.06 13.01 0.00 4.20
3577 3620 8.494433 TGTATTTTAGTTCTAGATGCATCCCTT 58.506 33.333 23.06 7.62 0.00 3.95
3578 3621 9.343539 GTATTTTAGTTCTAGATGCATCCCTTT 57.656 33.333 23.06 7.24 0.00 3.11
3579 3622 8.829373 ATTTTAGTTCTAGATGCATCCCTTTT 57.171 30.769 23.06 6.85 0.00 2.27
3580 3623 7.865706 TTTAGTTCTAGATGCATCCCTTTTC 57.134 36.000 23.06 9.68 0.00 2.29
3581 3624 5.441718 AGTTCTAGATGCATCCCTTTTCA 57.558 39.130 23.06 0.00 0.00 2.69
3582 3625 6.011122 AGTTCTAGATGCATCCCTTTTCAT 57.989 37.500 23.06 4.58 0.00 2.57
3583 3626 6.060788 AGTTCTAGATGCATCCCTTTTCATC 58.939 40.000 23.06 5.56 36.49 2.92
3584 3627 4.978099 TCTAGATGCATCCCTTTTCATCC 58.022 43.478 23.06 0.00 36.81 3.51
3585 3628 3.675348 AGATGCATCCCTTTTCATCCA 57.325 42.857 23.06 0.00 36.81 3.41
3586 3629 4.194678 AGATGCATCCCTTTTCATCCAT 57.805 40.909 23.06 0.00 36.81 3.41
3587 3630 4.553678 AGATGCATCCCTTTTCATCCATT 58.446 39.130 23.06 0.00 36.81 3.16
3588 3631 4.966805 AGATGCATCCCTTTTCATCCATTT 59.033 37.500 23.06 0.00 36.81 2.32
3589 3632 5.427481 AGATGCATCCCTTTTCATCCATTTT 59.573 36.000 23.06 0.00 36.81 1.82
3590 3633 4.834534 TGCATCCCTTTTCATCCATTTTG 58.165 39.130 0.00 0.00 0.00 2.44
3591 3634 4.531339 TGCATCCCTTTTCATCCATTTTGA 59.469 37.500 0.00 0.00 0.00 2.69
3592 3635 5.190132 TGCATCCCTTTTCATCCATTTTGAT 59.810 36.000 0.00 0.00 0.00 2.57
3593 3636 5.526111 GCATCCCTTTTCATCCATTTTGATG 59.474 40.000 0.00 0.00 42.84 3.07
3605 3648 9.859427 TCATCCATTTTGATGACAAGTATTTTC 57.141 29.630 0.00 0.00 44.65 2.29
3606 3649 8.800972 CATCCATTTTGATGACAAGTATTTTCG 58.199 33.333 0.00 0.00 43.94 3.46
3607 3650 7.312154 TCCATTTTGATGACAAGTATTTTCGG 58.688 34.615 0.00 0.00 37.32 4.30
3608 3651 7.175816 TCCATTTTGATGACAAGTATTTTCGGA 59.824 33.333 0.00 0.00 37.32 4.55
3609 3652 7.273381 CCATTTTGATGACAAGTATTTTCGGAC 59.727 37.037 0.00 0.00 37.32 4.79
3610 3653 5.524511 TTGATGACAAGTATTTTCGGACG 57.475 39.130 0.00 0.00 0.00 4.79
3611 3654 3.930229 TGATGACAAGTATTTTCGGACGG 59.070 43.478 0.00 0.00 0.00 4.79
3612 3655 3.663995 TGACAAGTATTTTCGGACGGA 57.336 42.857 0.00 0.00 0.00 4.69
3613 3656 3.581755 TGACAAGTATTTTCGGACGGAG 58.418 45.455 0.00 0.00 0.00 4.63
3614 3657 2.928116 GACAAGTATTTTCGGACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
3615 3658 2.277084 CAAGTATTTTCGGACGGAGGG 58.723 52.381 0.00 0.00 0.00 4.30
3616 3659 1.856629 AGTATTTTCGGACGGAGGGA 58.143 50.000 0.00 0.00 0.00 4.20
3617 3660 1.755380 AGTATTTTCGGACGGAGGGAG 59.245 52.381 0.00 0.00 0.00 4.30
3618 3661 1.479730 GTATTTTCGGACGGAGGGAGT 59.520 52.381 0.00 0.00 0.00 3.85
3619 3662 1.856629 ATTTTCGGACGGAGGGAGTA 58.143 50.000 0.00 0.00 0.00 2.59
3706 3749 9.938280 TTAATTGTGTATATAGCATGTACTCCC 57.062 33.333 0.00 0.00 0.00 4.30
3707 3750 7.798710 ATTGTGTATATAGCATGTACTCCCT 57.201 36.000 0.00 0.00 0.00 4.20
3708 3751 6.835819 TGTGTATATAGCATGTACTCCCTC 57.164 41.667 0.00 0.00 0.00 4.30
3709 3752 5.715279 TGTGTATATAGCATGTACTCCCTCC 59.285 44.000 0.00 0.00 0.00 4.30
3710 3753 4.948004 TGTATATAGCATGTACTCCCTCCG 59.052 45.833 0.00 0.00 0.00 4.63
3711 3754 2.383442 ATAGCATGTACTCCCTCCGT 57.617 50.000 0.00 0.00 0.00 4.69
3712 3755 1.688772 TAGCATGTACTCCCTCCGTC 58.311 55.000 0.00 0.00 0.00 4.79
3713 3756 1.043673 AGCATGTACTCCCTCCGTCC 61.044 60.000 0.00 0.00 0.00 4.79
3714 3757 1.734137 CATGTACTCCCTCCGTCCG 59.266 63.158 0.00 0.00 0.00 4.79
3715 3758 0.750546 CATGTACTCCCTCCGTCCGA 60.751 60.000 0.00 0.00 0.00 4.55
3716 3759 0.033796 ATGTACTCCCTCCGTCCGAA 60.034 55.000 0.00 0.00 0.00 4.30
3717 3760 0.033796 TGTACTCCCTCCGTCCGAAT 60.034 55.000 0.00 0.00 0.00 3.34
3718 3761 1.212688 TGTACTCCCTCCGTCCGAATA 59.787 52.381 0.00 0.00 0.00 1.75
3719 3762 2.158564 TGTACTCCCTCCGTCCGAATAT 60.159 50.000 0.00 0.00 0.00 1.28
3720 3763 2.965671 ACTCCCTCCGTCCGAATATA 57.034 50.000 0.00 0.00 0.00 0.86
3721 3764 2.512705 ACTCCCTCCGTCCGAATATAC 58.487 52.381 0.00 0.00 0.00 1.47
3722 3765 2.107901 ACTCCCTCCGTCCGAATATACT 59.892 50.000 0.00 0.00 0.00 2.12
3723 3766 3.155501 CTCCCTCCGTCCGAATATACTT 58.844 50.000 0.00 0.00 0.00 2.24
3724 3767 2.889045 TCCCTCCGTCCGAATATACTTG 59.111 50.000 0.00 0.00 0.00 3.16
3725 3768 2.626743 CCCTCCGTCCGAATATACTTGT 59.373 50.000 0.00 0.00 0.00 3.16
3726 3769 3.305199 CCCTCCGTCCGAATATACTTGTC 60.305 52.174 0.00 0.00 0.00 3.18
3727 3770 3.552541 CTCCGTCCGAATATACTTGTCG 58.447 50.000 0.00 0.00 34.58 4.35
3728 3771 3.205338 TCCGTCCGAATATACTTGTCGA 58.795 45.455 0.00 0.00 36.92 4.20
3729 3772 3.627123 TCCGTCCGAATATACTTGTCGAA 59.373 43.478 0.00 0.00 36.92 3.71
3730 3773 3.973135 CCGTCCGAATATACTTGTCGAAG 59.027 47.826 0.00 0.00 36.92 3.79
3731 3774 4.260907 CCGTCCGAATATACTTGTCGAAGA 60.261 45.833 0.00 0.00 36.92 2.87
3732 3775 5.268544 CGTCCGAATATACTTGTCGAAGAA 58.731 41.667 0.00 0.00 39.69 2.52
3733 3776 5.740569 CGTCCGAATATACTTGTCGAAGAAA 59.259 40.000 0.00 0.00 39.69 2.52
3734 3777 6.417044 CGTCCGAATATACTTGTCGAAGAAAT 59.583 38.462 0.00 0.00 39.69 2.17
3735 3778 7.556433 GTCCGAATATACTTGTCGAAGAAATG 58.444 38.462 0.00 0.00 39.69 2.32
3736 3779 6.700081 TCCGAATATACTTGTCGAAGAAATGG 59.300 38.462 0.00 0.00 39.69 3.16
3737 3780 6.700081 CCGAATATACTTGTCGAAGAAATGGA 59.300 38.462 0.00 0.00 39.69 3.41
3738 3781 7.385205 CCGAATATACTTGTCGAAGAAATGGAT 59.615 37.037 0.00 0.00 39.69 3.41
3739 3782 8.217115 CGAATATACTTGTCGAAGAAATGGATG 58.783 37.037 0.00 0.00 39.69 3.51
3740 3783 8.964476 AATATACTTGTCGAAGAAATGGATGT 57.036 30.769 0.00 0.00 39.69 3.06
3743 3786 6.910536 ACTTGTCGAAGAAATGGATGTATC 57.089 37.500 0.00 0.00 39.69 2.24
3744 3787 6.644347 ACTTGTCGAAGAAATGGATGTATCT 58.356 36.000 0.00 0.00 39.69 1.98
3745 3788 7.782049 ACTTGTCGAAGAAATGGATGTATCTA 58.218 34.615 0.00 0.00 39.69 1.98
3746 3789 7.923344 ACTTGTCGAAGAAATGGATGTATCTAG 59.077 37.037 0.00 0.00 39.69 2.43
3747 3790 7.582667 TGTCGAAGAAATGGATGTATCTAGA 57.417 36.000 0.00 0.00 39.69 2.43
3748 3791 8.183104 TGTCGAAGAAATGGATGTATCTAGAT 57.817 34.615 10.73 10.73 39.69 1.98
3749 3792 9.297037 TGTCGAAGAAATGGATGTATCTAGATA 57.703 33.333 8.44 8.44 39.69 1.98
3788 3831 7.910441 ACATTCATTTTTAGCCATTTCCTTG 57.090 32.000 0.00 0.00 0.00 3.61
3789 3832 7.678837 ACATTCATTTTTAGCCATTTCCTTGA 58.321 30.769 0.00 0.00 0.00 3.02
3790 3833 7.603784 ACATTCATTTTTAGCCATTTCCTTGAC 59.396 33.333 0.00 0.00 0.00 3.18
3791 3834 6.662865 TCATTTTTAGCCATTTCCTTGACA 57.337 33.333 0.00 0.00 0.00 3.58
3792 3835 7.060383 TCATTTTTAGCCATTTCCTTGACAA 57.940 32.000 0.00 0.00 0.00 3.18
3793 3836 7.153985 TCATTTTTAGCCATTTCCTTGACAAG 58.846 34.615 8.31 8.31 0.00 3.16
3794 3837 6.478512 TTTTTAGCCATTTCCTTGACAAGT 57.521 33.333 14.03 0.00 0.00 3.16
3795 3838 7.589958 TTTTTAGCCATTTCCTTGACAAGTA 57.410 32.000 14.03 0.00 0.00 2.24
3796 3839 7.775053 TTTTAGCCATTTCCTTGACAAGTAT 57.225 32.000 14.03 2.26 0.00 2.12
3797 3840 7.775053 TTTAGCCATTTCCTTGACAAGTATT 57.225 32.000 14.03 0.00 0.00 1.89
3798 3841 7.775053 TTAGCCATTTCCTTGACAAGTATTT 57.225 32.000 14.03 0.00 0.00 1.40
3799 3842 6.670695 AGCCATTTCCTTGACAAGTATTTT 57.329 33.333 14.03 0.00 0.00 1.82
3800 3843 6.458210 AGCCATTTCCTTGACAAGTATTTTG 58.542 36.000 14.03 5.25 0.00 2.44
3801 3844 5.639082 GCCATTTCCTTGACAAGTATTTTGG 59.361 40.000 14.03 13.50 0.00 3.28
3802 3845 6.165577 CCATTTCCTTGACAAGTATTTTGGG 58.834 40.000 14.03 3.41 0.00 4.12
3803 3846 6.014669 CCATTTCCTTGACAAGTATTTTGGGA 60.015 38.462 14.03 0.00 0.00 4.37
3804 3847 6.399639 TTTCCTTGACAAGTATTTTGGGAC 57.600 37.500 14.03 0.00 0.00 4.46
3805 3848 4.069304 TCCTTGACAAGTATTTTGGGACG 58.931 43.478 14.03 0.00 0.00 4.79
3806 3849 3.190535 CCTTGACAAGTATTTTGGGACGG 59.809 47.826 14.03 0.00 0.00 4.79
3807 3850 3.773418 TGACAAGTATTTTGGGACGGA 57.227 42.857 0.00 0.00 0.00 4.69
3808 3851 3.670625 TGACAAGTATTTTGGGACGGAG 58.329 45.455 0.00 0.00 0.00 4.63
3809 3852 3.007635 GACAAGTATTTTGGGACGGAGG 58.992 50.000 0.00 0.00 0.00 4.30
3810 3853 2.290705 ACAAGTATTTTGGGACGGAGGG 60.291 50.000 0.00 0.00 0.00 4.30
3811 3854 1.961133 AGTATTTTGGGACGGAGGGA 58.039 50.000 0.00 0.00 0.00 4.20
3834 3877 2.919666 TTTGCCTTCTTATTCTGCGC 57.080 45.000 0.00 0.00 0.00 6.09
3858 4026 6.653183 CGGTGAGCTCAAATTGATACAATAG 58.347 40.000 20.19 0.00 0.00 1.73
3956 4124 7.794349 CAGACGTTGAAGAATGAAGACTAAAAC 59.206 37.037 0.00 0.00 0.00 2.43
3979 4147 9.635520 AAACTTAGATGTACTATACACACACAC 57.364 33.333 0.00 0.00 42.23 3.82
3998 4166 2.068519 ACACACACACGTATCAGCATG 58.931 47.619 0.00 0.00 37.54 4.06
4038 4206 7.915397 GTGCATTTTTATCCACCATAGTACAAG 59.085 37.037 0.00 0.00 0.00 3.16
4179 4347 6.183360 GCTTGAAATTTCACGATCCATCAAAC 60.183 38.462 24.36 3.17 36.83 2.93
4189 4357 6.983307 TCACGATCCATCAAACAAACAAAAAT 59.017 30.769 0.00 0.00 0.00 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
392 394 1.529713 GAGGAGGCGGAGAGGTAGG 60.530 68.421 0.00 0.00 0.00 3.18
426 428 0.460311 CGATTCTGGCTCGGGTAAGT 59.540 55.000 0.00 0.00 32.58 2.24
638 641 0.883833 TACGGACTGAACGAACTCCC 59.116 55.000 0.00 0.00 34.93 4.30
643 646 4.112716 TGCAATATACGGACTGAACGAA 57.887 40.909 0.00 0.00 34.93 3.85
703 707 2.607635 CGCACTACATGACCGCTAAAAT 59.392 45.455 0.00 0.00 0.00 1.82
711 715 2.128035 GCATACTCGCACTACATGACC 58.872 52.381 0.00 0.00 0.00 4.02
723 727 2.857748 TCATGTGTTAAGCGCATACTCG 59.142 45.455 11.47 0.00 45.64 4.18
759 763 6.608610 ACTGTCCGAATAAAAATTCCTTTCG 58.391 36.000 0.00 0.00 39.00 3.46
808 814 3.670625 CCTGACGAACTGGGAAACAATA 58.329 45.455 0.00 0.00 34.55 1.90
809 815 2.504367 CCTGACGAACTGGGAAACAAT 58.496 47.619 0.00 0.00 34.55 2.71
810 816 1.961793 CCTGACGAACTGGGAAACAA 58.038 50.000 0.00 0.00 34.55 2.83
811 817 0.534203 GCCTGACGAACTGGGAAACA 60.534 55.000 0.00 0.00 37.94 2.83
812 818 2.244946 GCCTGACGAACTGGGAAAC 58.755 57.895 0.00 0.00 37.94 2.78
813 819 4.792087 GCCTGACGAACTGGGAAA 57.208 55.556 0.00 0.00 37.94 3.13
898 911 5.640732 ACACATTTTGATCCAATACGAAGC 58.359 37.500 0.00 0.00 0.00 3.86
929 942 6.617782 ATCATGAGAATAGTCCATAGTGGG 57.382 41.667 0.09 0.00 38.32 4.61
942 955 7.772757 GGTCCAAAGAAGAAGTATCATGAGAAT 59.227 37.037 0.09 0.00 0.00 2.40
970 983 1.550524 TGTAGGCTTACTCACTGCAGG 59.449 52.381 19.93 7.28 0.00 4.85
1155 1168 2.293677 TGCAGTGGTTACAGATAGCG 57.706 50.000 0.00 0.00 0.00 4.26
1398 1411 1.280710 ACAATCATACGGGCAAGGTCA 59.719 47.619 0.00 0.00 0.00 4.02
1659 1672 3.186702 TCGCCGGAATGATCAATGTAA 57.813 42.857 5.05 0.00 0.00 2.41
1776 1789 2.507407 TCCTTTCAATACCCCACTGC 57.493 50.000 0.00 0.00 0.00 4.40
1821 1834 0.240145 CAATGTCACCAGCAGTGCAG 59.760 55.000 19.20 9.58 46.81 4.41
1827 1840 2.040330 GGCAACAATGTCACCAGCA 58.960 52.632 0.36 0.00 0.00 4.41
1828 1841 4.972591 GGCAACAATGTCACCAGC 57.027 55.556 0.36 0.00 0.00 4.85
1977 1990 6.322456 TCTGAATCATCTCACGGACTCTATTT 59.678 38.462 0.00 0.00 0.00 1.40
2019 2032 4.036380 TCGAGAAACTTTTGAAGCCTTTCC 59.964 41.667 0.00 0.00 32.09 3.13
2040 2053 1.349627 CAGCAGCTTTGCGGTATCG 59.650 57.895 0.00 0.00 40.27 2.92
2179 2192 3.688272 CGGTCAAGAAAGCAGCATAATG 58.312 45.455 0.00 0.00 0.00 1.90
2286 2299 6.183360 TGTCATTGAAATATAGGTTTGCGGTC 60.183 38.462 0.00 0.00 0.00 4.79
2808 2821 8.066612 TGTCAAAATTATCTTGATTCCCTTCC 57.933 34.615 0.00 0.00 35.36 3.46
3154 3167 3.792401 CCACGTGGCACTTTATCATCTA 58.208 45.455 24.02 0.00 0.00 1.98
3279 3313 5.574443 GGAGCATTTCAAGTTGAATTAGTGC 59.426 40.000 23.78 23.78 36.11 4.40
3300 3334 4.576463 GTGCATTATGACCTAAAGTGGGAG 59.424 45.833 0.00 0.00 0.00 4.30
3397 3435 3.634910 AGCCCTGTTTCGTTTTACACAAT 59.365 39.130 0.00 0.00 0.00 2.71
3414 3452 2.026729 GCTCACTAGGAAAAAGAGCCCT 60.027 50.000 0.00 0.00 44.37 5.19
3429 3467 8.776061 AAGATTACTTATAGGAGAAGCTCACT 57.224 34.615 0.00 0.00 34.28 3.41
3495 3538 3.521947 AGTATTTTCGGACGGAGGAAG 57.478 47.619 0.00 0.00 0.00 3.46
3496 3539 3.007182 ACAAGTATTTTCGGACGGAGGAA 59.993 43.478 0.00 0.00 0.00 3.36
3497 3540 2.564062 ACAAGTATTTTCGGACGGAGGA 59.436 45.455 0.00 0.00 0.00 3.71
3498 3541 2.928116 GACAAGTATTTTCGGACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
3499 3542 3.581755 TGACAAGTATTTTCGGACGGAG 58.418 45.455 0.00 0.00 0.00 4.63
3500 3543 3.663995 TGACAAGTATTTTCGGACGGA 57.336 42.857 0.00 0.00 0.00 4.69
3501 3544 3.930229 TGATGACAAGTATTTTCGGACGG 59.070 43.478 0.00 0.00 0.00 4.79
3502 3545 5.524511 TTGATGACAAGTATTTTCGGACG 57.475 39.130 0.00 0.00 0.00 4.79
3503 3546 8.073768 TCTTTTTGATGACAAGTATTTTCGGAC 58.926 33.333 0.00 0.00 37.32 4.79
3504 3547 8.160521 TCTTTTTGATGACAAGTATTTTCGGA 57.839 30.769 0.00 0.00 37.32 4.55
3505 3548 8.795786 TTCTTTTTGATGACAAGTATTTTCGG 57.204 30.769 0.00 0.00 37.32 4.30
3513 3556 9.546428 CCCTTTTTATTCTTTTTGATGACAAGT 57.454 29.630 0.00 0.00 37.32 3.16
3514 3557 9.762933 TCCCTTTTTATTCTTTTTGATGACAAG 57.237 29.630 0.00 0.00 37.32 3.16
3516 3559 9.709495 CATCCCTTTTTATTCTTTTTGATGACA 57.291 29.630 0.00 0.00 0.00 3.58
3517 3560 9.710900 ACATCCCTTTTTATTCTTTTTGATGAC 57.289 29.630 0.00 0.00 32.39 3.06
3548 3591 9.717942 GGATGCATCTAGAACTAAAATACATCT 57.282 33.333 25.28 0.00 31.89 2.90
3549 3592 8.940952 GGGATGCATCTAGAACTAAAATACATC 58.059 37.037 25.28 2.81 0.00 3.06
3550 3593 8.664079 AGGGATGCATCTAGAACTAAAATACAT 58.336 33.333 25.28 0.00 0.00 2.29
3551 3594 8.034313 AGGGATGCATCTAGAACTAAAATACA 57.966 34.615 25.28 0.00 0.00 2.29
3552 3595 8.910351 AAGGGATGCATCTAGAACTAAAATAC 57.090 34.615 25.28 4.15 0.00 1.89
3553 3596 9.920946 AAAAGGGATGCATCTAGAACTAAAATA 57.079 29.630 25.28 0.00 0.00 1.40
3554 3597 8.829373 AAAAGGGATGCATCTAGAACTAAAAT 57.171 30.769 25.28 0.64 0.00 1.82
3555 3598 7.888021 TGAAAAGGGATGCATCTAGAACTAAAA 59.112 33.333 25.28 1.45 0.00 1.52
3556 3599 7.402054 TGAAAAGGGATGCATCTAGAACTAAA 58.598 34.615 25.28 2.75 0.00 1.85
3557 3600 6.957631 TGAAAAGGGATGCATCTAGAACTAA 58.042 36.000 25.28 4.09 0.00 2.24
3558 3601 6.560003 TGAAAAGGGATGCATCTAGAACTA 57.440 37.500 25.28 6.17 0.00 2.24
3559 3602 5.441718 TGAAAAGGGATGCATCTAGAACT 57.558 39.130 25.28 13.10 0.00 3.01
3560 3603 5.240403 GGATGAAAAGGGATGCATCTAGAAC 59.760 44.000 25.28 8.87 37.77 3.01
3561 3604 5.103982 TGGATGAAAAGGGATGCATCTAGAA 60.104 40.000 25.28 6.54 37.77 2.10
3562 3605 4.413189 TGGATGAAAAGGGATGCATCTAGA 59.587 41.667 25.28 0.00 37.77 2.43
3563 3606 4.722220 TGGATGAAAAGGGATGCATCTAG 58.278 43.478 25.28 0.00 37.77 2.43
3564 3607 4.794311 TGGATGAAAAGGGATGCATCTA 57.206 40.909 25.28 5.08 37.77 1.98
3565 3608 3.675348 TGGATGAAAAGGGATGCATCT 57.325 42.857 25.28 5.84 37.77 2.90
3566 3609 4.950205 AATGGATGAAAAGGGATGCATC 57.050 40.909 18.81 18.81 37.11 3.91
3567 3610 5.190132 TCAAAATGGATGAAAAGGGATGCAT 59.810 36.000 0.00 0.00 32.53 3.96
3568 3611 4.531339 TCAAAATGGATGAAAAGGGATGCA 59.469 37.500 0.00 0.00 0.00 3.96
3569 3612 5.088680 TCAAAATGGATGAAAAGGGATGC 57.911 39.130 0.00 0.00 0.00 3.91
3580 3623 8.800972 CGAAAATACTTGTCATCAAAATGGATG 58.199 33.333 0.00 0.00 44.78 3.51
3581 3624 7.975616 CCGAAAATACTTGTCATCAAAATGGAT 59.024 33.333 0.00 0.00 33.42 3.41
3582 3625 7.175816 TCCGAAAATACTTGTCATCAAAATGGA 59.824 33.333 0.00 0.00 33.42 3.41
3583 3626 7.273381 GTCCGAAAATACTTGTCATCAAAATGG 59.727 37.037 0.00 0.00 33.42 3.16
3584 3627 7.007367 CGTCCGAAAATACTTGTCATCAAAATG 59.993 37.037 0.00 0.00 32.87 2.32
3585 3628 7.021196 CGTCCGAAAATACTTGTCATCAAAAT 58.979 34.615 0.00 0.00 32.87 1.82
3586 3629 6.367421 CGTCCGAAAATACTTGTCATCAAAA 58.633 36.000 0.00 0.00 32.87 2.44
3587 3630 5.106869 CCGTCCGAAAATACTTGTCATCAAA 60.107 40.000 0.00 0.00 32.87 2.69
3588 3631 4.390603 CCGTCCGAAAATACTTGTCATCAA 59.609 41.667 0.00 0.00 0.00 2.57
3589 3632 3.930229 CCGTCCGAAAATACTTGTCATCA 59.070 43.478 0.00 0.00 0.00 3.07
3590 3633 4.178540 TCCGTCCGAAAATACTTGTCATC 58.821 43.478 0.00 0.00 0.00 2.92
3591 3634 4.181578 CTCCGTCCGAAAATACTTGTCAT 58.818 43.478 0.00 0.00 0.00 3.06
3592 3635 3.581755 CTCCGTCCGAAAATACTTGTCA 58.418 45.455 0.00 0.00 0.00 3.58
3593 3636 2.928116 CCTCCGTCCGAAAATACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
3594 3637 2.354403 CCCTCCGTCCGAAAATACTTGT 60.354 50.000 0.00 0.00 0.00 3.16
3595 3638 2.093869 TCCCTCCGTCCGAAAATACTTG 60.094 50.000 0.00 0.00 0.00 3.16
3596 3639 2.167900 CTCCCTCCGTCCGAAAATACTT 59.832 50.000 0.00 0.00 0.00 2.24
3597 3640 1.755380 CTCCCTCCGTCCGAAAATACT 59.245 52.381 0.00 0.00 0.00 2.12
3598 3641 1.479730 ACTCCCTCCGTCCGAAAATAC 59.520 52.381 0.00 0.00 0.00 1.89
3599 3642 1.856629 ACTCCCTCCGTCCGAAAATA 58.143 50.000 0.00 0.00 0.00 1.40
3600 3643 1.856629 TACTCCCTCCGTCCGAAAAT 58.143 50.000 0.00 0.00 0.00 1.82
3601 3644 1.479323 CATACTCCCTCCGTCCGAAAA 59.521 52.381 0.00 0.00 0.00 2.29
3602 3645 1.108776 CATACTCCCTCCGTCCGAAA 58.891 55.000 0.00 0.00 0.00 3.46
3603 3646 0.033796 ACATACTCCCTCCGTCCGAA 60.034 55.000 0.00 0.00 0.00 4.30
3604 3647 0.750546 CACATACTCCCTCCGTCCGA 60.751 60.000 0.00 0.00 0.00 4.55
3605 3648 1.035932 ACACATACTCCCTCCGTCCG 61.036 60.000 0.00 0.00 0.00 4.79
3606 3649 1.192428 AACACATACTCCCTCCGTCC 58.808 55.000 0.00 0.00 0.00 4.79
3607 3650 3.000727 CAAAACACATACTCCCTCCGTC 58.999 50.000 0.00 0.00 0.00 4.79
3608 3651 2.290071 CCAAAACACATACTCCCTCCGT 60.290 50.000 0.00 0.00 0.00 4.69
3609 3652 2.027561 TCCAAAACACATACTCCCTCCG 60.028 50.000 0.00 0.00 0.00 4.63
3610 3653 3.244770 TGTCCAAAACACATACTCCCTCC 60.245 47.826 0.00 0.00 31.20 4.30
3611 3654 4.003648 CTGTCCAAAACACATACTCCCTC 58.996 47.826 0.00 0.00 33.24 4.30
3612 3655 3.394606 ACTGTCCAAAACACATACTCCCT 59.605 43.478 0.00 0.00 33.24 4.20
3613 3656 3.751518 ACTGTCCAAAACACATACTCCC 58.248 45.455 0.00 0.00 33.24 4.30
3614 3657 4.023193 CCAACTGTCCAAAACACATACTCC 60.023 45.833 0.00 0.00 33.24 3.85
3615 3658 4.578928 ACCAACTGTCCAAAACACATACTC 59.421 41.667 0.00 0.00 33.24 2.59
3616 3659 4.338118 CACCAACTGTCCAAAACACATACT 59.662 41.667 0.00 0.00 33.24 2.12
3617 3660 4.097286 ACACCAACTGTCCAAAACACATAC 59.903 41.667 0.00 0.00 33.24 2.39
3618 3661 4.274147 ACACCAACTGTCCAAAACACATA 58.726 39.130 0.00 0.00 33.24 2.29
3619 3662 3.096092 ACACCAACTGTCCAAAACACAT 58.904 40.909 0.00 0.00 33.24 3.21
3680 3723 9.938280 GGGAGTACATGCTATATACACAATTAA 57.062 33.333 0.00 0.00 0.00 1.40
3706 3749 3.249320 TCGACAAGTATATTCGGACGGAG 59.751 47.826 0.00 0.00 33.50 4.63
3707 3750 3.205338 TCGACAAGTATATTCGGACGGA 58.795 45.455 0.00 0.00 33.50 4.69
3708 3751 3.614159 TCGACAAGTATATTCGGACGG 57.386 47.619 0.00 0.00 33.50 4.79
3709 3752 4.840911 TCTTCGACAAGTATATTCGGACG 58.159 43.478 0.00 0.00 33.50 4.79
3710 3753 7.306632 CCATTTCTTCGACAAGTATATTCGGAC 60.307 40.741 0.00 0.00 33.50 4.79
3711 3754 6.700081 CCATTTCTTCGACAAGTATATTCGGA 59.300 38.462 0.00 0.00 33.50 4.55
3712 3755 6.700081 TCCATTTCTTCGACAAGTATATTCGG 59.300 38.462 0.00 0.00 33.50 4.30
3713 3756 7.694388 TCCATTTCTTCGACAAGTATATTCG 57.306 36.000 0.00 0.00 0.00 3.34
3714 3757 9.046296 ACATCCATTTCTTCGACAAGTATATTC 57.954 33.333 0.00 0.00 0.00 1.75
3715 3758 8.964476 ACATCCATTTCTTCGACAAGTATATT 57.036 30.769 0.00 0.00 0.00 1.28
3717 3760 9.692749 GATACATCCATTTCTTCGACAAGTATA 57.307 33.333 0.00 0.00 0.00 1.47
3718 3761 8.424918 AGATACATCCATTTCTTCGACAAGTAT 58.575 33.333 0.00 0.00 0.00 2.12
3719 3762 7.782049 AGATACATCCATTTCTTCGACAAGTA 58.218 34.615 0.00 0.00 0.00 2.24
3720 3763 6.644347 AGATACATCCATTTCTTCGACAAGT 58.356 36.000 0.00 0.00 0.00 3.16
3721 3764 8.138074 TCTAGATACATCCATTTCTTCGACAAG 58.862 37.037 0.00 0.00 0.00 3.16
3722 3765 8.007405 TCTAGATACATCCATTTCTTCGACAA 57.993 34.615 0.00 0.00 0.00 3.18
3723 3766 7.582667 TCTAGATACATCCATTTCTTCGACA 57.417 36.000 0.00 0.00 0.00 4.35
3762 3805 9.603921 CAAGGAAATGGCTAAAAATGAATGTAT 57.396 29.630 0.00 0.00 0.00 2.29
3763 3806 8.811017 TCAAGGAAATGGCTAAAAATGAATGTA 58.189 29.630 0.00 0.00 0.00 2.29
3764 3807 7.603784 GTCAAGGAAATGGCTAAAAATGAATGT 59.396 33.333 0.00 0.00 0.00 2.71
3765 3808 7.603404 TGTCAAGGAAATGGCTAAAAATGAATG 59.397 33.333 0.00 0.00 0.00 2.67
3766 3809 7.678837 TGTCAAGGAAATGGCTAAAAATGAAT 58.321 30.769 0.00 0.00 0.00 2.57
3767 3810 7.060383 TGTCAAGGAAATGGCTAAAAATGAA 57.940 32.000 0.00 0.00 0.00 2.57
3768 3811 6.662865 TGTCAAGGAAATGGCTAAAAATGA 57.337 33.333 0.00 0.00 0.00 2.57
3769 3812 6.930722 ACTTGTCAAGGAAATGGCTAAAAATG 59.069 34.615 16.85 0.00 0.00 2.32
3770 3813 7.066307 ACTTGTCAAGGAAATGGCTAAAAAT 57.934 32.000 16.85 0.00 0.00 1.82
3771 3814 6.478512 ACTTGTCAAGGAAATGGCTAAAAA 57.521 33.333 16.85 0.00 0.00 1.94
3772 3815 7.775053 ATACTTGTCAAGGAAATGGCTAAAA 57.225 32.000 16.85 0.00 0.00 1.52
3773 3816 7.775053 AATACTTGTCAAGGAAATGGCTAAA 57.225 32.000 16.85 0.00 0.00 1.85
3774 3817 7.775053 AAATACTTGTCAAGGAAATGGCTAA 57.225 32.000 16.85 0.00 0.00 3.09
3775 3818 7.309744 CCAAAATACTTGTCAAGGAAATGGCTA 60.310 37.037 16.85 0.00 0.00 3.93
3776 3819 6.458210 CAAAATACTTGTCAAGGAAATGGCT 58.542 36.000 16.85 0.00 0.00 4.75
3777 3820 5.639082 CCAAAATACTTGTCAAGGAAATGGC 59.361 40.000 16.85 0.00 0.00 4.40
3778 3821 6.014669 TCCCAAAATACTTGTCAAGGAAATGG 60.015 38.462 16.85 15.92 0.00 3.16
3779 3822 6.868339 GTCCCAAAATACTTGTCAAGGAAATG 59.132 38.462 16.85 8.75 0.00 2.32
3780 3823 6.294508 CGTCCCAAAATACTTGTCAAGGAAAT 60.295 38.462 16.85 4.78 0.00 2.17
3781 3824 5.009210 CGTCCCAAAATACTTGTCAAGGAAA 59.991 40.000 16.85 2.61 0.00 3.13
3782 3825 4.517453 CGTCCCAAAATACTTGTCAAGGAA 59.483 41.667 16.85 5.06 0.00 3.36
3783 3826 4.069304 CGTCCCAAAATACTTGTCAAGGA 58.931 43.478 16.85 8.89 0.00 3.36
3784 3827 3.190535 CCGTCCCAAAATACTTGTCAAGG 59.809 47.826 16.85 0.00 0.00 3.61
3785 3828 4.069304 TCCGTCCCAAAATACTTGTCAAG 58.931 43.478 11.17 11.17 0.00 3.02
3786 3829 4.069304 CTCCGTCCCAAAATACTTGTCAA 58.931 43.478 0.00 0.00 0.00 3.18
3787 3830 3.558321 CCTCCGTCCCAAAATACTTGTCA 60.558 47.826 0.00 0.00 0.00 3.58
3788 3831 3.007635 CCTCCGTCCCAAAATACTTGTC 58.992 50.000 0.00 0.00 0.00 3.18
3789 3832 2.290705 CCCTCCGTCCCAAAATACTTGT 60.291 50.000 0.00 0.00 0.00 3.16
3790 3833 2.026636 TCCCTCCGTCCCAAAATACTTG 60.027 50.000 0.00 0.00 0.00 3.16
3791 3834 2.238898 CTCCCTCCGTCCCAAAATACTT 59.761 50.000 0.00 0.00 0.00 2.24
3792 3835 1.838077 CTCCCTCCGTCCCAAAATACT 59.162 52.381 0.00 0.00 0.00 2.12
3793 3836 1.558294 ACTCCCTCCGTCCCAAAATAC 59.442 52.381 0.00 0.00 0.00 1.89
3794 3837 1.961133 ACTCCCTCCGTCCCAAAATA 58.039 50.000 0.00 0.00 0.00 1.40
3795 3838 1.961133 TACTCCCTCCGTCCCAAAAT 58.039 50.000 0.00 0.00 0.00 1.82
3796 3839 1.961133 ATACTCCCTCCGTCCCAAAA 58.039 50.000 0.00 0.00 0.00 2.44
3797 3840 1.961133 AATACTCCCTCCGTCCCAAA 58.039 50.000 0.00 0.00 0.00 3.28
3798 3841 1.557832 CAAATACTCCCTCCGTCCCAA 59.442 52.381 0.00 0.00 0.00 4.12
3799 3842 1.200519 CAAATACTCCCTCCGTCCCA 58.799 55.000 0.00 0.00 0.00 4.37
3800 3843 0.179054 GCAAATACTCCCTCCGTCCC 60.179 60.000 0.00 0.00 0.00 4.46
3801 3844 0.179054 GGCAAATACTCCCTCCGTCC 60.179 60.000 0.00 0.00 0.00 4.79
3802 3845 0.831307 AGGCAAATACTCCCTCCGTC 59.169 55.000 0.00 0.00 0.00 4.79
3803 3846 1.209747 GAAGGCAAATACTCCCTCCGT 59.790 52.381 0.00 0.00 0.00 4.69
3804 3847 1.486726 AGAAGGCAAATACTCCCTCCG 59.513 52.381 0.00 0.00 0.00 4.63
3805 3848 3.653835 AAGAAGGCAAATACTCCCTCC 57.346 47.619 0.00 0.00 0.00 4.30
3806 3849 6.484977 CAGAATAAGAAGGCAAATACTCCCTC 59.515 42.308 0.00 0.00 0.00 4.30
3807 3850 6.360618 CAGAATAAGAAGGCAAATACTCCCT 58.639 40.000 0.00 0.00 0.00 4.20
3808 3851 5.009110 GCAGAATAAGAAGGCAAATACTCCC 59.991 44.000 0.00 0.00 0.00 4.30
3809 3852 5.277538 CGCAGAATAAGAAGGCAAATACTCC 60.278 44.000 0.00 0.00 0.00 3.85
3810 3853 5.742446 CGCAGAATAAGAAGGCAAATACTC 58.258 41.667 0.00 0.00 0.00 2.59
3811 3854 4.035675 GCGCAGAATAAGAAGGCAAATACT 59.964 41.667 0.30 0.00 0.00 2.12
3834 3877 4.944962 TTGTATCAATTTGAGCTCACCG 57.055 40.909 18.03 5.20 0.00 4.94
3858 4026 4.323553 AGTCGCATCCTGGTAGAATTAC 57.676 45.455 0.00 0.00 0.00 1.89
3956 4124 8.241367 TGTGTGTGTGTGTATAGTACATCTAAG 58.759 37.037 0.00 0.00 41.34 2.18
3971 4139 1.351153 TACGTGTGTGTGTGTGTGTG 58.649 50.000 0.00 0.00 0.00 3.82
3972 4140 2.198406 GATACGTGTGTGTGTGTGTGT 58.802 47.619 0.00 0.00 0.00 3.72
3973 4141 2.197577 TGATACGTGTGTGTGTGTGTG 58.802 47.619 0.00 0.00 0.00 3.82
3974 4142 2.469826 CTGATACGTGTGTGTGTGTGT 58.530 47.619 0.00 0.00 0.00 3.72
3975 4143 1.192312 GCTGATACGTGTGTGTGTGTG 59.808 52.381 0.00 0.00 0.00 3.82
3976 4144 1.202475 TGCTGATACGTGTGTGTGTGT 60.202 47.619 0.00 0.00 0.00 3.72
3977 4145 1.496934 TGCTGATACGTGTGTGTGTG 58.503 50.000 0.00 0.00 0.00 3.82
3978 4146 2.068519 CATGCTGATACGTGTGTGTGT 58.931 47.619 0.00 0.00 0.00 3.72
3979 4147 1.201954 GCATGCTGATACGTGTGTGTG 60.202 52.381 11.37 0.00 0.00 3.82
4038 4206 7.254218 GGTGGTAATTAGTTATACGTGCAAGAC 60.254 40.741 6.65 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.