Multiple sequence alignment - TraesCS6A01G229300

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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 TraesCS6A01G229300 chr6A 100.000 4000 0 0 1 4000 432241986 432245985 0.000000e+00 7387
1 TraesCS6A01G229300 chr6D 96.496 3653 82 10 1 3622 291249344 291245707 0.000000e+00 5995
2 TraesCS6A01G229300 chr6D 96.269 134 4 1 3867 4000 291245717 291245585 6.730000e-53 219
3 TraesCS6A01G229300 chr6B 96.247 3544 85 10 1 3512 452191850 452188323 0.000000e+00 5764
4 TraesCS6A01G229300 chr6B 88.288 222 18 6 3613 3827 8670906 8671126 3.970000e-65 259
5 TraesCS6A01G229300 chr6B 88.288 222 18 6 3613 3827 8687222 8687442 3.970000e-65 259
6 TraesCS6A01G229300 chr6B 88.288 222 18 6 3613 3827 8700340 8700560 3.970000e-65 259
7 TraesCS6A01G229300 chr6B 88.288 222 18 6 3613 3827 8721443 8721663 3.970000e-65 259
8 TraesCS6A01G229300 chr6B 94.776 134 7 0 3867 4000 452188075 452187942 4.050000e-50 209
9 TraesCS6A01G229300 chr6B 87.156 109 3 1 3514 3622 452188162 452188065 3.270000e-21 113
10 TraesCS6A01G229300 chr2D 77.713 516 95 17 1228 1728 460207265 460206755 8.400000e-77 298
11 TraesCS6A01G229300 chr2D 86.364 176 17 2 968 1142 460208120 460207951 6.830000e-43 185
12 TraesCS6A01G229300 chr2A 77.713 516 95 15 1228 1728 603085361 603084851 8.400000e-77 298
13 TraesCS6A01G229300 chr2A 86.932 176 16 2 968 1142 603086227 603086058 1.470000e-44 191
14 TraesCS6A01G229300 chr2B 77.476 515 98 14 1228 1728 541203134 541202624 3.910000e-75 292
15 TraesCS6A01G229300 chr2B 91.852 135 11 0 1008 1142 541203970 541203836 5.280000e-44 189
16 TraesCS6A01G229300 chr1A 91.262 206 16 2 3623 3827 551528256 551528460 3.040000e-71 279
17 TraesCS6A01G229300 chr1D 89.352 216 13 8 3619 3827 18864770 18864558 3.070000e-66 263
18 TraesCS6A01G229300 chrUn 89.202 213 15 6 3622 3827 200670238 200670027 3.970000e-65 259
19 TraesCS6A01G229300 chrUn 89.202 213 15 6 3622 3827 300146315 300146104 3.970000e-65 259
20 TraesCS6A01G229300 chrUn 89.202 213 15 6 3622 3827 413842631 413842420 3.970000e-65 259


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6A01G229300 chr6A 432241986 432245985 3999 False 7387.000000 7387 100.000000 1 4000 1 chr6A.!!$F1 3999
1 TraesCS6A01G229300 chr6D 291245585 291249344 3759 True 3107.000000 5995 96.382500 1 4000 2 chr6D.!!$R1 3999
2 TraesCS6A01G229300 chr6B 452187942 452191850 3908 True 2028.666667 5764 92.726333 1 4000 3 chr6B.!!$R1 3999
3 TraesCS6A01G229300 chr2D 460206755 460208120 1365 True 241.500000 298 82.038500 968 1728 2 chr2D.!!$R1 760
4 TraesCS6A01G229300 chr2A 603084851 603086227 1376 True 244.500000 298 82.322500 968 1728 2 chr2A.!!$R1 760
5 TraesCS6A01G229300 chr2B 541202624 541203970 1346 True 240.500000 292 84.664000 1008 1728 2 chr2B.!!$R1 720

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
117 118 0.179108 GCGTGGAGCGGAAATCTACT 60.179 55.000 0.00 0.0 41.69 2.57 F
493 495 0.447801 ATCGTCTTGAATTGGCGTGC 59.552 50.000 0.00 0.0 0.00 5.34 F
1038 1041 1.073603 AGCAAGGCAGAGAGAAAAGCT 59.926 47.619 0.00 0.0 0.00 3.74 F
1916 2548 1.997606 AGGCAGCGTCGTTGTTAATAC 59.002 47.619 10.87 0.0 0.00 1.89 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1761 2393 0.394899 ACAAGGCCTGCTAGGAATGC 60.395 55.000 5.69 0.0 37.67 3.56 R
2119 2751 5.215252 ACAGACATGTTATCCTAATCCCG 57.785 43.478 0.00 0.0 35.63 5.14 R
2886 3541 0.390603 CCTGGTTTGGACGACGCATA 60.391 55.000 0.00 0.0 0.00 3.14 R
3772 4597 0.036388 TTCGTGCTCCCACTTCATCC 60.036 55.000 0.00 0.0 39.86 3.51 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
117 118 0.179108 GCGTGGAGCGGAAATCTACT 60.179 55.000 0.00 0.00 41.69 2.57
171 172 5.221864 ACGAACCCTAACTTTCTTTCTGGAT 60.222 40.000 0.00 0.00 0.00 3.41
179 180 2.978156 TTCTTTCTGGATTGGGCACT 57.022 45.000 0.00 0.00 0.00 4.40
188 189 0.815615 GATTGGGCACTCCGATCCAC 60.816 60.000 1.69 0.00 46.39 4.02
464 466 8.743099 GCTGCCGAAAAAGTATATTTTTGTATC 58.257 33.333 6.71 1.35 33.60 2.24
490 492 4.051237 TCATCTATCGTCTTGAATTGGCG 58.949 43.478 0.00 0.00 0.00 5.69
493 495 0.447801 ATCGTCTTGAATTGGCGTGC 59.552 50.000 0.00 0.00 0.00 5.34
555 558 2.949644 CCTCCTGGTTTTCTTTTGTCGT 59.050 45.455 0.00 0.00 0.00 4.34
594 597 6.147821 TGTGCAGTTCACTTATTTTAGCTCTC 59.852 38.462 0.00 0.00 45.81 3.20
598 601 7.670916 CAGTTCACTTATTTTAGCTCTCTTCG 58.329 38.462 0.00 0.00 0.00 3.79
760 763 2.644798 AGGCCTCACTTGTGGTCTTAAT 59.355 45.455 0.00 0.00 40.36 1.40
765 768 5.880332 GCCTCACTTGTGGTCTTAATATCAA 59.120 40.000 0.64 0.00 0.00 2.57
810 813 4.943705 ACTCCATTTCACATACACCACATC 59.056 41.667 0.00 0.00 0.00 3.06
819 822 1.656587 TACACCACATCAGGGAGCTT 58.343 50.000 0.00 0.00 0.00 3.74
958 961 1.895798 CTACTGAAGGTGCACTCTCCA 59.104 52.381 17.98 5.45 0.00 3.86
991 994 7.339466 AGAAAATTGGATTACACCCTACATGAC 59.661 37.037 0.00 0.00 0.00 3.06
1038 1041 1.073603 AGCAAGGCAGAGAGAAAAGCT 59.926 47.619 0.00 0.00 0.00 3.74
1627 2258 5.237344 CAGTATAATGCTTGTCCTAGTTGGC 59.763 44.000 0.00 0.00 35.26 4.52
1745 2377 4.263905 TGAGTATCCTGGGTGCTTGAATTT 60.264 41.667 0.00 0.00 0.00 1.82
1761 2393 4.355437 TGAATTTGTACCTTGTTTGTGCG 58.645 39.130 0.00 0.00 0.00 5.34
1916 2548 1.997606 AGGCAGCGTCGTTGTTAATAC 59.002 47.619 10.87 0.00 0.00 1.89
2119 2751 5.466728 TCTGTAGGCTTTTAATGATCATCGC 59.533 40.000 9.06 6.95 0.00 4.58
2125 2757 4.320494 GCTTTTAATGATCATCGCGGGATT 60.320 41.667 12.94 0.00 0.00 3.01
2199 2831 6.994421 TGATATGAGGGTAACTGCAATCTA 57.006 37.500 0.00 0.00 0.00 1.98
2341 2973 7.918033 CAGATCTTACAGAAACAGATCGTACAT 59.082 37.037 0.00 0.00 45.25 2.29
2507 3141 5.939764 TCTACTGTCAATGGCAGAGTAAT 57.060 39.130 22.74 0.58 37.40 1.89
2561 3215 6.273026 TGAAATTCTAGGATATGAGCATGGGA 59.727 38.462 0.00 0.00 0.00 4.37
2882 3537 5.599656 AGCTGTTATTGGCATGATTTGGTAT 59.400 36.000 0.00 0.00 0.00 2.73
2886 3541 2.844654 TGGCATGATTTGGTATGGGT 57.155 45.000 0.00 0.00 0.00 4.51
3043 3698 3.694566 GGTTGTTGAACTAATAGCAGGGG 59.305 47.826 0.00 0.00 32.15 4.79
3101 3756 8.520835 TCCGATTTATTCTCTTCATTCATACG 57.479 34.615 0.00 0.00 0.00 3.06
3545 4370 0.746659 GCCTGTGTCCTGCAAAAACT 59.253 50.000 0.00 0.00 0.00 2.66
3546 4371 1.136891 GCCTGTGTCCTGCAAAAACTT 59.863 47.619 0.00 0.00 0.00 2.66
3547 4372 2.813061 CCTGTGTCCTGCAAAAACTTG 58.187 47.619 0.00 0.00 0.00 3.16
3548 4373 2.166254 CCTGTGTCCTGCAAAAACTTGT 59.834 45.455 0.00 0.00 0.00 3.16
3549 4374 3.380004 CCTGTGTCCTGCAAAAACTTGTA 59.620 43.478 0.00 0.00 0.00 2.41
3550 4375 4.142271 CCTGTGTCCTGCAAAAACTTGTAA 60.142 41.667 0.00 0.00 0.00 2.41
3551 4376 5.451798 CCTGTGTCCTGCAAAAACTTGTAAT 60.452 40.000 0.00 0.00 0.00 1.89
3552 4377 6.238897 CCTGTGTCCTGCAAAAACTTGTAATA 60.239 38.462 0.00 0.00 0.00 0.98
3553 4378 6.734137 TGTGTCCTGCAAAAACTTGTAATAG 58.266 36.000 0.00 0.00 0.00 1.73
3554 4379 5.629435 GTGTCCTGCAAAAACTTGTAATAGC 59.371 40.000 0.00 0.00 0.00 2.97
3555 4380 5.534654 TGTCCTGCAAAAACTTGTAATAGCT 59.465 36.000 0.00 0.00 0.00 3.32
3624 4449 4.371975 GCAACCTGCAAGTACGGA 57.628 55.556 0.00 0.00 44.26 4.69
3625 4450 1.866925 GCAACCTGCAAGTACGGAC 59.133 57.895 0.00 0.00 44.26 4.79
3626 4451 0.882927 GCAACCTGCAAGTACGGACA 60.883 55.000 0.00 0.00 44.26 4.02
3627 4452 1.588674 CAACCTGCAAGTACGGACAA 58.411 50.000 0.00 0.00 0.00 3.18
3628 4453 1.531149 CAACCTGCAAGTACGGACAAG 59.469 52.381 0.00 0.00 0.00 3.16
3629 4454 1.045407 ACCTGCAAGTACGGACAAGA 58.955 50.000 0.00 0.00 0.00 3.02
3630 4455 1.270147 ACCTGCAAGTACGGACAAGAC 60.270 52.381 0.00 0.00 0.00 3.01
3631 4456 1.000955 CCTGCAAGTACGGACAAGACT 59.999 52.381 0.00 0.00 0.00 3.24
3632 4457 2.548067 CCTGCAAGTACGGACAAGACTT 60.548 50.000 0.00 0.00 33.71 3.01
3643 4468 0.398318 ACAAGACTTGTCTGCTCCCC 59.602 55.000 15.23 0.00 40.56 4.81
3644 4469 0.671781 CAAGACTTGTCTGCTCCCCG 60.672 60.000 7.05 0.00 0.00 5.73
3645 4470 1.122019 AAGACTTGTCTGCTCCCCGT 61.122 55.000 3.87 0.00 0.00 5.28
3646 4471 1.079750 GACTTGTCTGCTCCCCGTC 60.080 63.158 0.00 0.00 0.00 4.79
3647 4472 2.125912 CTTGTCTGCTCCCCGTCG 60.126 66.667 0.00 0.00 0.00 5.12
3648 4473 2.915659 TTGTCTGCTCCCCGTCGT 60.916 61.111 0.00 0.00 0.00 4.34
3649 4474 3.220999 TTGTCTGCTCCCCGTCGTG 62.221 63.158 0.00 0.00 0.00 4.35
3650 4475 3.681835 GTCTGCTCCCCGTCGTGT 61.682 66.667 0.00 0.00 0.00 4.49
3651 4476 3.680786 TCTGCTCCCCGTCGTGTG 61.681 66.667 0.00 0.00 0.00 3.82
3660 4485 4.735132 CGTCGTGTGCCCATCCGT 62.735 66.667 0.00 0.00 0.00 4.69
3661 4486 3.118454 GTCGTGTGCCCATCCGTG 61.118 66.667 0.00 0.00 0.00 4.94
3664 4489 3.127533 GTGTGCCCATCCGTGCTC 61.128 66.667 0.00 0.00 0.00 4.26
3665 4490 4.408821 TGTGCCCATCCGTGCTCC 62.409 66.667 0.00 0.00 0.00 4.70
3669 4494 4.530857 CCCATCCGTGCTCCCGTC 62.531 72.222 0.00 0.00 0.00 4.79
3670 4495 3.461773 CCATCCGTGCTCCCGTCT 61.462 66.667 0.00 0.00 0.00 4.18
3671 4496 2.125326 CCATCCGTGCTCCCGTCTA 61.125 63.158 0.00 0.00 0.00 2.59
3672 4497 1.065928 CATCCGTGCTCCCGTCTAC 59.934 63.158 0.00 0.00 0.00 2.59
3673 4498 2.478890 ATCCGTGCTCCCGTCTACG 61.479 63.158 0.00 0.00 39.44 3.51
3674 4499 3.437795 CCGTGCTCCCGTCTACGT 61.438 66.667 1.41 0.00 37.74 3.57
3675 4500 2.202440 CGTGCTCCCGTCTACGTG 60.202 66.667 0.00 0.00 37.74 4.49
3676 4501 2.181021 GTGCTCCCGTCTACGTGG 59.819 66.667 0.00 0.00 37.74 4.94
3677 4502 3.755628 TGCTCCCGTCTACGTGGC 61.756 66.667 0.00 3.68 37.74 5.01
3678 4503 3.450115 GCTCCCGTCTACGTGGCT 61.450 66.667 0.00 0.00 37.74 4.75
3679 4504 3.003113 GCTCCCGTCTACGTGGCTT 62.003 63.158 0.00 0.00 37.74 4.35
3680 4505 1.590147 CTCCCGTCTACGTGGCTTT 59.410 57.895 0.00 0.00 37.74 3.51
3681 4506 0.813184 CTCCCGTCTACGTGGCTTTA 59.187 55.000 0.00 0.00 37.74 1.85
3682 4507 1.407979 CTCCCGTCTACGTGGCTTTAT 59.592 52.381 0.00 0.00 37.74 1.40
3683 4508 1.826720 TCCCGTCTACGTGGCTTTATT 59.173 47.619 0.00 0.00 37.74 1.40
3684 4509 2.234414 TCCCGTCTACGTGGCTTTATTT 59.766 45.455 0.00 0.00 37.74 1.40
3685 4510 3.446873 TCCCGTCTACGTGGCTTTATTTA 59.553 43.478 0.00 0.00 37.74 1.40
3686 4511 4.081752 TCCCGTCTACGTGGCTTTATTTAA 60.082 41.667 0.00 0.00 37.74 1.52
3687 4512 4.812626 CCCGTCTACGTGGCTTTATTTAAT 59.187 41.667 0.00 0.00 37.74 1.40
3688 4513 5.295045 CCCGTCTACGTGGCTTTATTTAATT 59.705 40.000 0.00 0.00 37.74 1.40
3689 4514 6.189567 CCGTCTACGTGGCTTTATTTAATTG 58.810 40.000 0.00 0.00 37.74 2.32
3690 4515 6.189567 CGTCTACGTGGCTTTATTTAATTGG 58.810 40.000 0.00 0.00 34.11 3.16
3691 4516 6.036300 CGTCTACGTGGCTTTATTTAATTGGA 59.964 38.462 0.00 0.00 34.11 3.53
3692 4517 7.413219 CGTCTACGTGGCTTTATTTAATTGGAA 60.413 37.037 0.00 0.00 34.11 3.53
3693 4518 7.695201 GTCTACGTGGCTTTATTTAATTGGAAC 59.305 37.037 0.00 0.00 0.00 3.62
3694 4519 6.334102 ACGTGGCTTTATTTAATTGGAACA 57.666 33.333 0.00 0.00 0.00 3.18
3708 4533 2.164338 TGGAACAAAATAAGGTCCGGC 58.836 47.619 0.00 0.00 31.92 6.13
3709 4534 1.475280 GGAACAAAATAAGGTCCGGCC 59.525 52.381 0.00 0.59 37.58 6.13
3710 4535 1.475280 GAACAAAATAAGGTCCGGCCC 59.525 52.381 10.82 1.57 38.26 5.80
3711 4536 0.323999 ACAAAATAAGGTCCGGCCCC 60.324 55.000 0.00 0.00 38.26 5.80
3712 4537 0.323908 CAAAATAAGGTCCGGCCCCA 60.324 55.000 0.00 0.00 38.26 4.96
3713 4538 0.323999 AAAATAAGGTCCGGCCCCAC 60.324 55.000 0.00 0.00 38.26 4.61
3714 4539 2.219449 AAATAAGGTCCGGCCCCACC 62.219 60.000 9.45 9.45 38.26 4.61
3722 4547 3.663806 CGGCCCCACCCCCTTAAA 61.664 66.667 0.00 0.00 33.26 1.52
3723 4548 2.863275 GGCCCCACCCCCTTAAAA 59.137 61.111 0.00 0.00 0.00 1.52
3724 4549 1.394557 GGCCCCACCCCCTTAAAAT 59.605 57.895 0.00 0.00 0.00 1.82
3725 4550 0.689745 GGCCCCACCCCCTTAAAATC 60.690 60.000 0.00 0.00 0.00 2.17
3726 4551 0.041982 GCCCCACCCCCTTAAAATCA 59.958 55.000 0.00 0.00 0.00 2.57
3727 4552 1.964830 GCCCCACCCCCTTAAAATCAG 60.965 57.143 0.00 0.00 0.00 2.90
3728 4553 1.342975 CCCCACCCCCTTAAAATCAGG 60.343 57.143 0.00 0.00 0.00 3.86
3729 4554 1.643811 CCCACCCCCTTAAAATCAGGA 59.356 52.381 0.00 0.00 32.41 3.86
3730 4555 2.358195 CCCACCCCCTTAAAATCAGGAG 60.358 54.545 0.00 0.00 32.41 3.69
3731 4556 2.358195 CCACCCCCTTAAAATCAGGAGG 60.358 54.545 0.00 0.00 35.35 4.30
3732 4557 2.580783 CACCCCCTTAAAATCAGGAGGA 59.419 50.000 0.00 0.00 32.84 3.71
3733 4558 3.011257 CACCCCCTTAAAATCAGGAGGAA 59.989 47.826 0.00 0.00 32.84 3.36
3734 4559 3.665618 ACCCCCTTAAAATCAGGAGGAAA 59.334 43.478 0.00 0.00 32.84 3.13
3735 4560 4.264397 ACCCCCTTAAAATCAGGAGGAAAG 60.264 45.833 0.00 0.00 32.84 2.62
3736 4561 4.017499 CCCCCTTAAAATCAGGAGGAAAGA 60.017 45.833 0.00 0.00 30.49 2.52
3737 4562 5.341200 CCCCCTTAAAATCAGGAGGAAAGAT 60.341 44.000 0.00 0.00 30.49 2.40
3738 4563 5.595952 CCCCTTAAAATCAGGAGGAAAGATG 59.404 44.000 0.00 0.00 32.41 2.90
3739 4564 6.426587 CCCTTAAAATCAGGAGGAAAGATGA 58.573 40.000 0.00 0.00 32.41 2.92
3740 4565 7.065504 CCCTTAAAATCAGGAGGAAAGATGAT 58.934 38.462 0.00 0.00 32.41 2.45
3741 4566 7.562821 CCCTTAAAATCAGGAGGAAAGATGATT 59.437 37.037 0.00 0.00 42.61 2.57
3742 4567 9.632638 CCTTAAAATCAGGAGGAAAGATGATTA 57.367 33.333 0.15 0.00 40.54 1.75
3746 4571 9.933240 AAAATCAGGAGGAAAGATGATTAGATT 57.067 29.630 0.15 0.00 40.54 2.40
3749 4574 9.612879 ATCAGGAGGAAAGATGATTAGATTAGA 57.387 33.333 0.00 0.00 0.00 2.10
3750 4575 9.439461 TCAGGAGGAAAGATGATTAGATTAGAA 57.561 33.333 0.00 0.00 0.00 2.10
3780 4605 5.470047 AAAAGACAGTCGTAGGATGAAGT 57.530 39.130 0.00 0.00 0.00 3.01
3781 4606 4.442375 AAGACAGTCGTAGGATGAAGTG 57.558 45.455 0.00 0.00 0.00 3.16
3782 4607 2.755655 AGACAGTCGTAGGATGAAGTGG 59.244 50.000 0.00 0.00 0.00 4.00
3783 4608 1.825474 ACAGTCGTAGGATGAAGTGGG 59.175 52.381 0.00 0.00 0.00 4.61
3784 4609 2.100197 CAGTCGTAGGATGAAGTGGGA 58.900 52.381 0.00 0.00 0.00 4.37
3785 4610 2.099921 CAGTCGTAGGATGAAGTGGGAG 59.900 54.545 0.00 0.00 0.00 4.30
3786 4611 1.112113 TCGTAGGATGAAGTGGGAGC 58.888 55.000 0.00 0.00 0.00 4.70
3787 4612 0.824109 CGTAGGATGAAGTGGGAGCA 59.176 55.000 0.00 0.00 0.00 4.26
3788 4613 1.471676 CGTAGGATGAAGTGGGAGCAC 60.472 57.143 0.00 0.00 0.00 4.40
3789 4614 0.824109 TAGGATGAAGTGGGAGCACG 59.176 55.000 0.00 0.00 0.00 5.34
3790 4615 0.904865 AGGATGAAGTGGGAGCACGA 60.905 55.000 0.00 0.00 0.00 4.35
3791 4616 0.036388 GGATGAAGTGGGAGCACGAA 60.036 55.000 0.00 0.00 0.00 3.85
3792 4617 1.407437 GGATGAAGTGGGAGCACGAAT 60.407 52.381 0.00 0.00 0.00 3.34
3793 4618 1.667724 GATGAAGTGGGAGCACGAATG 59.332 52.381 0.00 0.00 0.00 2.67
3794 4619 0.321564 TGAAGTGGGAGCACGAATGG 60.322 55.000 0.00 0.00 0.00 3.16
3795 4620 1.002134 AAGTGGGAGCACGAATGGG 60.002 57.895 0.00 0.00 0.00 4.00
3796 4621 1.488705 AAGTGGGAGCACGAATGGGA 61.489 55.000 0.00 0.00 0.00 4.37
3797 4622 1.450312 GTGGGAGCACGAATGGGAG 60.450 63.158 0.00 0.00 0.00 4.30
3798 4623 2.514824 GGGAGCACGAATGGGAGC 60.515 66.667 0.00 0.00 0.00 4.70
3799 4624 2.268920 GGAGCACGAATGGGAGCA 59.731 61.111 0.00 0.00 0.00 4.26
3800 4625 2.109126 GGAGCACGAATGGGAGCAC 61.109 63.158 0.00 0.00 0.00 4.40
3801 4626 1.375908 GAGCACGAATGGGAGCACA 60.376 57.895 0.00 0.00 0.00 4.57
3802 4627 1.364626 GAGCACGAATGGGAGCACAG 61.365 60.000 0.00 0.00 0.00 3.66
3803 4628 2.401766 GCACGAATGGGAGCACAGG 61.402 63.158 0.00 0.00 0.00 4.00
3804 4629 1.746615 CACGAATGGGAGCACAGGG 60.747 63.158 0.00 0.00 0.00 4.45
3805 4630 1.918293 ACGAATGGGAGCACAGGGA 60.918 57.895 0.00 0.00 0.00 4.20
3806 4631 1.153289 CGAATGGGAGCACAGGGAG 60.153 63.158 0.00 0.00 0.00 4.30
3807 4632 1.225704 GAATGGGAGCACAGGGAGG 59.774 63.158 0.00 0.00 0.00 4.30
3808 4633 1.229951 AATGGGAGCACAGGGAGGA 60.230 57.895 0.00 0.00 0.00 3.71
3809 4634 0.846427 AATGGGAGCACAGGGAGGAA 60.846 55.000 0.00 0.00 0.00 3.36
3810 4635 1.277580 ATGGGAGCACAGGGAGGAAG 61.278 60.000 0.00 0.00 0.00 3.46
3811 4636 2.270527 GGAGCACAGGGAGGAAGC 59.729 66.667 0.00 0.00 0.00 3.86
3812 4637 2.596851 GGAGCACAGGGAGGAAGCA 61.597 63.158 0.00 0.00 0.00 3.91
3813 4638 1.078567 GAGCACAGGGAGGAAGCAG 60.079 63.158 0.00 0.00 0.00 4.24
3814 4639 2.045536 GCACAGGGAGGAAGCAGG 60.046 66.667 0.00 0.00 0.00 4.85
3815 4640 2.045536 CACAGGGAGGAAGCAGGC 60.046 66.667 0.00 0.00 0.00 4.85
3816 4641 2.530151 ACAGGGAGGAAGCAGGCA 60.530 61.111 0.00 0.00 0.00 4.75
3817 4642 2.156098 ACAGGGAGGAAGCAGGCAA 61.156 57.895 0.00 0.00 0.00 4.52
3818 4643 1.378250 CAGGGAGGAAGCAGGCAAG 60.378 63.158 0.00 0.00 0.00 4.01
3819 4644 2.753446 GGGAGGAAGCAGGCAAGC 60.753 66.667 0.00 0.00 0.00 4.01
3820 4645 2.753446 GGAGGAAGCAGGCAAGCC 60.753 66.667 2.02 2.02 34.23 4.35
3821 4646 3.130160 GAGGAAGCAGGCAAGCCG 61.130 66.667 5.28 2.12 41.95 5.52
3822 4647 4.729918 AGGAAGCAGGCAAGCCGG 62.730 66.667 6.88 6.88 41.95 6.13
3823 4648 4.722700 GGAAGCAGGCAAGCCGGA 62.723 66.667 15.46 0.00 41.95 5.14
3824 4649 2.439156 GAAGCAGGCAAGCCGGAT 60.439 61.111 15.46 5.71 41.95 4.18
3825 4650 2.439156 AAGCAGGCAAGCCGGATC 60.439 61.111 15.46 0.00 41.95 3.36
3826 4651 4.496336 AGCAGGCAAGCCGGATCC 62.496 66.667 15.46 0.00 41.95 3.36
3827 4652 4.802051 GCAGGCAAGCCGGATCCA 62.802 66.667 15.46 0.00 41.95 3.41
3828 4653 2.515523 CAGGCAAGCCGGATCCAG 60.516 66.667 13.41 0.36 41.95 3.86
3829 4654 3.011517 AGGCAAGCCGGATCCAGT 61.012 61.111 13.41 0.00 41.95 4.00
3830 4655 1.689233 AGGCAAGCCGGATCCAGTA 60.689 57.895 13.41 0.00 41.95 2.74
3831 4656 1.223487 GGCAAGCCGGATCCAGTAA 59.777 57.895 13.41 0.00 0.00 2.24
3832 4657 0.179018 GGCAAGCCGGATCCAGTAAT 60.179 55.000 13.41 0.00 0.00 1.89
3833 4658 1.680338 GCAAGCCGGATCCAGTAATT 58.320 50.000 13.41 0.00 0.00 1.40
3834 4659 2.486548 GGCAAGCCGGATCCAGTAATTA 60.487 50.000 13.41 0.00 0.00 1.40
3835 4660 3.412386 GCAAGCCGGATCCAGTAATTAT 58.588 45.455 13.41 0.00 0.00 1.28
3836 4661 3.189287 GCAAGCCGGATCCAGTAATTATG 59.811 47.826 13.41 0.00 0.00 1.90
3837 4662 4.641396 CAAGCCGGATCCAGTAATTATGA 58.359 43.478 13.41 0.00 0.00 2.15
3838 4663 4.273148 AGCCGGATCCAGTAATTATGAC 57.727 45.455 13.41 0.00 0.00 3.06
3839 4664 3.646162 AGCCGGATCCAGTAATTATGACA 59.354 43.478 13.41 0.00 0.00 3.58
3840 4665 3.746492 GCCGGATCCAGTAATTATGACAC 59.254 47.826 13.41 0.00 0.00 3.67
3841 4666 4.503296 GCCGGATCCAGTAATTATGACACT 60.503 45.833 13.41 0.00 0.00 3.55
3842 4667 5.611374 CCGGATCCAGTAATTATGACACTT 58.389 41.667 13.41 0.00 0.00 3.16
3843 4668 6.055588 CCGGATCCAGTAATTATGACACTTT 58.944 40.000 13.41 0.00 0.00 2.66
3844 4669 6.202954 CCGGATCCAGTAATTATGACACTTTC 59.797 42.308 13.41 0.00 0.00 2.62
3845 4670 6.202954 CGGATCCAGTAATTATGACACTTTCC 59.797 42.308 13.41 0.00 0.00 3.13
3846 4671 7.283329 GGATCCAGTAATTATGACACTTTCCT 58.717 38.462 6.95 0.00 0.00 3.36
3847 4672 7.442666 GGATCCAGTAATTATGACACTTTCCTC 59.557 40.741 6.95 0.00 0.00 3.71
3848 4673 6.650120 TCCAGTAATTATGACACTTTCCTCC 58.350 40.000 0.00 0.00 0.00 4.30
3849 4674 6.214615 TCCAGTAATTATGACACTTTCCTCCA 59.785 38.462 0.00 0.00 0.00 3.86
3850 4675 6.540189 CCAGTAATTATGACACTTTCCTCCAG 59.460 42.308 0.00 0.00 0.00 3.86
3851 4676 7.106239 CAGTAATTATGACACTTTCCTCCAGT 58.894 38.462 0.00 0.00 0.00 4.00
3852 4677 8.258007 CAGTAATTATGACACTTTCCTCCAGTA 58.742 37.037 0.00 0.00 0.00 2.74
3853 4678 8.822805 AGTAATTATGACACTTTCCTCCAGTAA 58.177 33.333 0.00 0.00 0.00 2.24
3854 4679 7.923414 AATTATGACACTTTCCTCCAGTAAC 57.077 36.000 0.00 0.00 0.00 2.50
3855 4680 6.681729 TTATGACACTTTCCTCCAGTAACT 57.318 37.500 0.00 0.00 0.00 2.24
3856 4681 4.336889 TGACACTTTCCTCCAGTAACTG 57.663 45.455 0.00 0.00 0.00 3.16
3867 4692 3.477210 CCAGTAACTGGCTTAGATCCC 57.523 52.381 0.00 0.00 45.13 3.85
3868 4693 3.041946 CCAGTAACTGGCTTAGATCCCT 58.958 50.000 0.00 0.00 45.13 4.20
3869 4694 3.181461 CCAGTAACTGGCTTAGATCCCTG 60.181 52.174 0.00 0.00 45.13 4.45
3870 4695 2.436173 AGTAACTGGCTTAGATCCCTGC 59.564 50.000 0.00 0.00 0.00 4.85
3871 4696 1.289160 AACTGGCTTAGATCCCTGCA 58.711 50.000 0.00 0.00 0.00 4.41
3872 4697 1.289160 ACTGGCTTAGATCCCTGCAA 58.711 50.000 0.00 0.00 0.00 4.08
3873 4698 1.211457 ACTGGCTTAGATCCCTGCAAG 59.789 52.381 4.79 4.79 33.06 4.01
3874 4699 1.211457 CTGGCTTAGATCCCTGCAAGT 59.789 52.381 0.00 0.00 0.00 3.16
3875 4700 2.435805 CTGGCTTAGATCCCTGCAAGTA 59.564 50.000 0.00 0.00 0.00 2.24
3876 4701 2.170607 TGGCTTAGATCCCTGCAAGTAC 59.829 50.000 0.00 0.00 0.00 2.73
3981 4806 3.242739 CCATAGTGAACGGCTTAACATGC 60.243 47.826 0.00 0.00 0.00 4.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 1.987855 CTACGGTGGAAGGAGGCCA 60.988 63.158 5.01 0.00 0.00 5.36
36 37 0.253327 AGAATTCCTTCGAGGTGGCC 59.747 55.000 0.65 0.00 36.53 5.36
117 118 6.991938 ACAAAAGAAATCAATCCATTTCCGA 58.008 32.000 2.92 0.00 41.82 4.55
171 172 2.668632 GTGGATCGGAGTGCCCAA 59.331 61.111 0.00 0.00 34.14 4.12
188 189 1.167851 AACACATCTGCACCGAATGG 58.832 50.000 0.00 0.00 42.84 3.16
217 218 7.493367 AGGATGAACTGCAATTAGTACTCTAC 58.507 38.462 0.00 0.00 0.00 2.59
418 420 3.118000 AGCAGAGCTGATCCAATTCATGA 60.118 43.478 0.85 0.00 37.57 3.07
464 466 5.400782 CCAATTCAAGACGATAGATGACTCG 59.599 44.000 0.00 0.00 40.62 4.18
493 495 5.706916 GCAACATATGGATTATTGCTCCAG 58.293 41.667 16.59 0.00 45.64 3.86
629 632 7.401204 TCCATATCATATTGTAGCTGGATCTGT 59.599 37.037 0.00 0.00 0.00 3.41
760 763 7.339976 TCAAGAATGGATGCATGAACTTTGATA 59.660 33.333 2.46 0.00 0.00 2.15
765 768 5.717119 GTTCAAGAATGGATGCATGAACTT 58.283 37.500 18.65 13.42 41.92 2.66
958 961 8.612145 AGGGTGTAATCCAATTTTCTAAGTAGT 58.388 33.333 0.00 0.00 0.00 2.73
991 994 2.228822 GTGCCACACCCATACTTTCTTG 59.771 50.000 0.00 0.00 0.00 3.02
1627 2258 3.060540 CAGTTACAGTACACACAGCAACG 60.061 47.826 0.00 0.00 0.00 4.10
1745 2377 1.313772 ATGCGCACAAACAAGGTACA 58.686 45.000 14.90 0.00 0.00 2.90
1761 2393 0.394899 ACAAGGCCTGCTAGGAATGC 60.395 55.000 5.69 0.00 37.67 3.56
1916 2548 5.245977 ACCATAAATCCACAAAAGGACCAAG 59.754 40.000 0.00 0.00 41.30 3.61
2119 2751 5.215252 ACAGACATGTTATCCTAATCCCG 57.785 43.478 0.00 0.00 35.63 5.14
2125 2757 8.533569 TTCATAGTGACAGACATGTTATCCTA 57.466 34.615 0.00 3.40 40.68 2.94
2816 3471 4.711846 ACATGGAAATTAAGGCCCTCTTTC 59.288 41.667 0.00 4.11 36.93 2.62
2882 3537 0.671163 GTTTGGACGACGCATACCCA 60.671 55.000 0.00 0.00 0.00 4.51
2886 3541 0.390603 CCTGGTTTGGACGACGCATA 60.391 55.000 0.00 0.00 0.00 3.14
3452 4118 6.982141 GTGTATTAATCTGGACCGTACATCAA 59.018 38.462 0.00 0.00 0.00 2.57
3553 4378 0.732571 TGCCGCAGCTAATACAAAGC 59.267 50.000 0.00 0.00 40.80 3.51
3554 4379 2.279741 TCTGCCGCAGCTAATACAAAG 58.720 47.619 15.98 0.00 40.80 2.77
3555 4380 2.394930 TCTGCCGCAGCTAATACAAA 57.605 45.000 15.98 0.00 40.80 2.83
3584 4409 1.633774 TTTTGCCGCCCCTTAAATGA 58.366 45.000 0.00 0.00 0.00 2.57
3625 4450 0.671781 CGGGGAGCAGACAAGTCTTG 60.672 60.000 11.17 11.17 37.98 3.02
3626 4451 1.122019 ACGGGGAGCAGACAAGTCTT 61.122 55.000 0.00 0.00 37.98 3.01
3627 4452 1.534235 ACGGGGAGCAGACAAGTCT 60.534 57.895 0.00 0.00 41.37 3.24
3628 4453 1.079750 GACGGGGAGCAGACAAGTC 60.080 63.158 0.00 0.00 0.00 3.01
3629 4454 2.932234 CGACGGGGAGCAGACAAGT 61.932 63.158 0.00 0.00 0.00 3.16
3630 4455 2.125912 CGACGGGGAGCAGACAAG 60.126 66.667 0.00 0.00 0.00 3.16
3631 4456 2.915659 ACGACGGGGAGCAGACAA 60.916 61.111 0.00 0.00 0.00 3.18
3632 4457 3.680786 CACGACGGGGAGCAGACA 61.681 66.667 0.00 0.00 0.00 3.41
3633 4458 3.681835 ACACGACGGGGAGCAGAC 61.682 66.667 0.43 0.00 0.00 3.51
3634 4459 3.680786 CACACGACGGGGAGCAGA 61.681 66.667 0.43 0.00 0.00 4.26
3643 4468 4.735132 ACGGATGGGCACACGACG 62.735 66.667 5.92 6.60 0.00 5.12
3644 4469 3.118454 CACGGATGGGCACACGAC 61.118 66.667 5.92 0.00 0.00 4.34
3647 4472 3.127533 GAGCACGGATGGGCACAC 61.128 66.667 0.00 0.00 0.00 3.82
3648 4473 4.408821 GGAGCACGGATGGGCACA 62.409 66.667 0.00 0.00 0.00 4.57
3652 4477 4.530857 GACGGGAGCACGGATGGG 62.531 72.222 0.00 0.00 38.39 4.00
3653 4478 2.125326 TAGACGGGAGCACGGATGG 61.125 63.158 0.00 0.00 38.39 3.51
3654 4479 1.065928 GTAGACGGGAGCACGGATG 59.934 63.158 0.00 0.00 38.39 3.51
3655 4480 2.478890 CGTAGACGGGAGCACGGAT 61.479 63.158 0.00 0.00 38.39 4.18
3656 4481 3.129502 CGTAGACGGGAGCACGGA 61.130 66.667 0.00 0.00 38.39 4.69
3657 4482 3.437795 ACGTAGACGGGAGCACGG 61.438 66.667 7.04 0.00 44.95 4.94
3664 4489 2.304751 AATAAAGCCACGTAGACGGG 57.695 50.000 7.04 1.53 44.95 5.28
3665 4490 5.978934 ATTAAATAAAGCCACGTAGACGG 57.021 39.130 7.04 0.00 44.95 4.79
3666 4491 6.036300 TCCAATTAAATAAAGCCACGTAGACG 59.964 38.462 0.00 0.00 46.33 4.18
3667 4492 7.311364 TCCAATTAAATAAAGCCACGTAGAC 57.689 36.000 0.00 0.00 0.00 2.59
3668 4493 7.390996 TGTTCCAATTAAATAAAGCCACGTAGA 59.609 33.333 0.00 0.00 0.00 2.59
3669 4494 7.531716 TGTTCCAATTAAATAAAGCCACGTAG 58.468 34.615 0.00 0.00 0.00 3.51
3670 4495 7.450124 TGTTCCAATTAAATAAAGCCACGTA 57.550 32.000 0.00 0.00 0.00 3.57
3671 4496 6.334102 TGTTCCAATTAAATAAAGCCACGT 57.666 33.333 0.00 0.00 0.00 4.49
3672 4497 7.644986 TTTGTTCCAATTAAATAAAGCCACG 57.355 32.000 0.00 0.00 0.00 4.94
3681 4506 8.038351 CCGGACCTTATTTTGTTCCAATTAAAT 58.962 33.333 0.00 0.00 0.00 1.40
3682 4507 7.379750 CCGGACCTTATTTTGTTCCAATTAAA 58.620 34.615 0.00 0.00 0.00 1.52
3683 4508 6.572703 GCCGGACCTTATTTTGTTCCAATTAA 60.573 38.462 5.05 0.00 0.00 1.40
3684 4509 5.105675 GCCGGACCTTATTTTGTTCCAATTA 60.106 40.000 5.05 0.00 0.00 1.40
3685 4510 4.322424 GCCGGACCTTATTTTGTTCCAATT 60.322 41.667 5.05 0.00 0.00 2.32
3686 4511 3.194755 GCCGGACCTTATTTTGTTCCAAT 59.805 43.478 5.05 0.00 0.00 3.16
3687 4512 2.559231 GCCGGACCTTATTTTGTTCCAA 59.441 45.455 5.05 0.00 0.00 3.53
3688 4513 2.164338 GCCGGACCTTATTTTGTTCCA 58.836 47.619 5.05 0.00 0.00 3.53
3689 4514 1.475280 GGCCGGACCTTATTTTGTTCC 59.525 52.381 5.05 0.00 34.51 3.62
3690 4515 1.475280 GGGCCGGACCTTATTTTGTTC 59.525 52.381 23.07 0.00 39.10 3.18
3691 4516 1.552578 GGGCCGGACCTTATTTTGTT 58.447 50.000 23.07 0.00 39.10 2.83
3692 4517 0.323999 GGGGCCGGACCTTATTTTGT 60.324 55.000 29.76 0.00 39.10 2.83
3693 4518 0.323908 TGGGGCCGGACCTTATTTTG 60.324 55.000 29.76 0.00 39.10 2.44
3694 4519 0.323999 GTGGGGCCGGACCTTATTTT 60.324 55.000 29.76 0.00 39.10 1.82
3695 4520 1.305287 GTGGGGCCGGACCTTATTT 59.695 57.895 29.76 0.00 39.10 1.40
3696 4521 2.686572 GGTGGGGCCGGACCTTATT 61.687 63.158 29.76 0.00 39.10 1.40
3697 4522 3.094498 GGTGGGGCCGGACCTTAT 61.094 66.667 29.76 0.00 39.10 1.73
3705 4530 2.523740 ATTTTAAGGGGGTGGGGCCG 62.524 60.000 0.00 0.00 38.44 6.13
3706 4531 0.689745 GATTTTAAGGGGGTGGGGCC 60.690 60.000 0.00 0.00 0.00 5.80
3707 4532 0.041982 TGATTTTAAGGGGGTGGGGC 59.958 55.000 0.00 0.00 0.00 5.80
3708 4533 1.342975 CCTGATTTTAAGGGGGTGGGG 60.343 57.143 0.00 0.00 0.00 4.96
3709 4534 1.643811 TCCTGATTTTAAGGGGGTGGG 59.356 52.381 0.00 0.00 35.35 4.61
3710 4535 3.018423 CTCCTGATTTTAAGGGGGTGG 57.982 52.381 0.00 0.00 35.35 4.61
3714 4539 5.193099 TCTTTCCTCCTGATTTTAAGGGG 57.807 43.478 0.00 0.00 35.35 4.79
3715 4540 6.426587 TCATCTTTCCTCCTGATTTTAAGGG 58.573 40.000 0.00 0.00 35.35 3.95
3716 4541 8.530804 AATCATCTTTCCTCCTGATTTTAAGG 57.469 34.615 0.00 0.00 35.38 2.69
3720 4545 9.933240 AATCTAATCATCTTTCCTCCTGATTTT 57.067 29.630 2.37 0.00 38.77 1.82
3723 4548 9.612879 TCTAATCTAATCATCTTTCCTCCTGAT 57.387 33.333 0.00 0.00 0.00 2.90
3724 4549 9.439461 TTCTAATCTAATCATCTTTCCTCCTGA 57.561 33.333 0.00 0.00 0.00 3.86
3757 4582 5.696724 CACTTCATCCTACGACTGTCTTTTT 59.303 40.000 6.21 0.00 0.00 1.94
3758 4583 5.230942 CACTTCATCCTACGACTGTCTTTT 58.769 41.667 6.21 0.00 0.00 2.27
3759 4584 4.322049 CCACTTCATCCTACGACTGTCTTT 60.322 45.833 6.21 0.00 0.00 2.52
3760 4585 3.193691 CCACTTCATCCTACGACTGTCTT 59.806 47.826 6.21 0.00 0.00 3.01
3761 4586 2.755655 CCACTTCATCCTACGACTGTCT 59.244 50.000 6.21 0.00 0.00 3.41
3762 4587 2.159226 CCCACTTCATCCTACGACTGTC 60.159 54.545 0.00 0.00 0.00 3.51
3763 4588 1.825474 CCCACTTCATCCTACGACTGT 59.175 52.381 0.00 0.00 0.00 3.55
3764 4589 2.099921 CTCCCACTTCATCCTACGACTG 59.900 54.545 0.00 0.00 0.00 3.51
3765 4590 2.379972 CTCCCACTTCATCCTACGACT 58.620 52.381 0.00 0.00 0.00 4.18
3766 4591 1.202428 GCTCCCACTTCATCCTACGAC 60.202 57.143 0.00 0.00 0.00 4.34
3767 4592 1.112113 GCTCCCACTTCATCCTACGA 58.888 55.000 0.00 0.00 0.00 3.43
3768 4593 0.824109 TGCTCCCACTTCATCCTACG 59.176 55.000 0.00 0.00 0.00 3.51
3769 4594 1.471676 CGTGCTCCCACTTCATCCTAC 60.472 57.143 0.00 0.00 39.86 3.18
3770 4595 0.824109 CGTGCTCCCACTTCATCCTA 59.176 55.000 0.00 0.00 39.86 2.94
3771 4596 0.904865 TCGTGCTCCCACTTCATCCT 60.905 55.000 0.00 0.00 39.86 3.24
3772 4597 0.036388 TTCGTGCTCCCACTTCATCC 60.036 55.000 0.00 0.00 39.86 3.51
3773 4598 1.667724 CATTCGTGCTCCCACTTCATC 59.332 52.381 0.00 0.00 39.86 2.92
3774 4599 1.679944 CCATTCGTGCTCCCACTTCAT 60.680 52.381 0.00 0.00 39.86 2.57
3775 4600 0.321564 CCATTCGTGCTCCCACTTCA 60.322 55.000 0.00 0.00 39.86 3.02
3776 4601 1.026718 CCCATTCGTGCTCCCACTTC 61.027 60.000 0.00 0.00 39.86 3.01
3777 4602 1.002134 CCCATTCGTGCTCCCACTT 60.002 57.895 0.00 0.00 39.86 3.16
3778 4603 1.903877 CTCCCATTCGTGCTCCCACT 61.904 60.000 0.00 0.00 39.86 4.00
3779 4604 1.450312 CTCCCATTCGTGCTCCCAC 60.450 63.158 0.00 0.00 38.62 4.61
3780 4605 2.989639 CTCCCATTCGTGCTCCCA 59.010 61.111 0.00 0.00 0.00 4.37
3781 4606 2.514824 GCTCCCATTCGTGCTCCC 60.515 66.667 0.00 0.00 0.00 4.30
3782 4607 2.109126 GTGCTCCCATTCGTGCTCC 61.109 63.158 0.00 0.00 0.00 4.70
3783 4608 1.364626 CTGTGCTCCCATTCGTGCTC 61.365 60.000 0.00 0.00 0.00 4.26
3784 4609 1.376424 CTGTGCTCCCATTCGTGCT 60.376 57.895 0.00 0.00 0.00 4.40
3785 4610 2.401766 CCTGTGCTCCCATTCGTGC 61.402 63.158 0.00 0.00 0.00 5.34
3786 4611 1.746615 CCCTGTGCTCCCATTCGTG 60.747 63.158 0.00 0.00 0.00 4.35
3787 4612 1.903877 CTCCCTGTGCTCCCATTCGT 61.904 60.000 0.00 0.00 0.00 3.85
3788 4613 1.153289 CTCCCTGTGCTCCCATTCG 60.153 63.158 0.00 0.00 0.00 3.34
3789 4614 1.225704 CCTCCCTGTGCTCCCATTC 59.774 63.158 0.00 0.00 0.00 2.67
3790 4615 0.846427 TTCCTCCCTGTGCTCCCATT 60.846 55.000 0.00 0.00 0.00 3.16
3791 4616 1.229951 TTCCTCCCTGTGCTCCCAT 60.230 57.895 0.00 0.00 0.00 4.00
3792 4617 1.920325 CTTCCTCCCTGTGCTCCCA 60.920 63.158 0.00 0.00 0.00 4.37
3793 4618 2.993853 CTTCCTCCCTGTGCTCCC 59.006 66.667 0.00 0.00 0.00 4.30
3794 4619 2.270527 GCTTCCTCCCTGTGCTCC 59.729 66.667 0.00 0.00 0.00 4.70
3795 4620 1.078567 CTGCTTCCTCCCTGTGCTC 60.079 63.158 0.00 0.00 0.00 4.26
3796 4621 2.600729 CCTGCTTCCTCCCTGTGCT 61.601 63.158 0.00 0.00 0.00 4.40
3797 4622 2.045536 CCTGCTTCCTCCCTGTGC 60.046 66.667 0.00 0.00 0.00 4.57
3798 4623 2.045536 GCCTGCTTCCTCCCTGTG 60.046 66.667 0.00 0.00 0.00 3.66
3799 4624 2.134630 CTTGCCTGCTTCCTCCCTGT 62.135 60.000 0.00 0.00 0.00 4.00
3800 4625 1.378250 CTTGCCTGCTTCCTCCCTG 60.378 63.158 0.00 0.00 0.00 4.45
3801 4626 3.085223 CTTGCCTGCTTCCTCCCT 58.915 61.111 0.00 0.00 0.00 4.20
3802 4627 2.753446 GCTTGCCTGCTTCCTCCC 60.753 66.667 0.00 0.00 0.00 4.30
3803 4628 2.753446 GGCTTGCCTGCTTCCTCC 60.753 66.667 4.11 0.00 0.00 4.30
3804 4629 3.130160 CGGCTTGCCTGCTTCCTC 61.130 66.667 10.12 0.00 0.00 3.71
3805 4630 4.729918 CCGGCTTGCCTGCTTCCT 62.730 66.667 10.12 0.00 0.00 3.36
3806 4631 4.722700 TCCGGCTTGCCTGCTTCC 62.723 66.667 10.12 0.00 0.00 3.46
3807 4632 2.439156 ATCCGGCTTGCCTGCTTC 60.439 61.111 10.12 0.00 0.00 3.86
3808 4633 2.439156 GATCCGGCTTGCCTGCTT 60.439 61.111 10.12 0.00 0.00 3.91
3809 4634 4.496336 GGATCCGGCTTGCCTGCT 62.496 66.667 10.12 0.00 0.00 4.24
3810 4635 4.802051 TGGATCCGGCTTGCCTGC 62.802 66.667 7.39 0.00 0.00 4.85
3811 4636 1.971505 TACTGGATCCGGCTTGCCTG 61.972 60.000 21.17 3.29 0.00 4.85
3812 4637 1.271840 TTACTGGATCCGGCTTGCCT 61.272 55.000 21.17 2.23 0.00 4.75
3813 4638 0.179018 ATTACTGGATCCGGCTTGCC 60.179 55.000 21.17 0.75 0.00 4.52
3814 4639 1.680338 AATTACTGGATCCGGCTTGC 58.320 50.000 21.17 0.00 0.00 4.01
3815 4640 4.452455 GTCATAATTACTGGATCCGGCTTG 59.548 45.833 21.17 9.15 0.00 4.01
3816 4641 4.102524 TGTCATAATTACTGGATCCGGCTT 59.897 41.667 21.17 13.63 0.00 4.35
3817 4642 3.646162 TGTCATAATTACTGGATCCGGCT 59.354 43.478 21.17 10.36 0.00 5.52
3818 4643 3.746492 GTGTCATAATTACTGGATCCGGC 59.254 47.826 21.17 1.28 0.00 6.13
3819 4644 5.215252 AGTGTCATAATTACTGGATCCGG 57.785 43.478 19.66 19.66 0.00 5.14
3820 4645 6.202954 GGAAAGTGTCATAATTACTGGATCCG 59.797 42.308 7.39 4.62 0.00 4.18
3821 4646 7.283329 AGGAAAGTGTCATAATTACTGGATCC 58.717 38.462 4.20 4.20 0.00 3.36
3822 4647 7.442666 GGAGGAAAGTGTCATAATTACTGGATC 59.557 40.741 0.00 0.00 0.00 3.36
3823 4648 7.092444 TGGAGGAAAGTGTCATAATTACTGGAT 60.092 37.037 0.00 0.00 0.00 3.41
3824 4649 6.214615 TGGAGGAAAGTGTCATAATTACTGGA 59.785 38.462 0.00 0.00 0.00 3.86
3825 4650 6.414732 TGGAGGAAAGTGTCATAATTACTGG 58.585 40.000 0.00 0.00 0.00 4.00
3826 4651 7.106239 ACTGGAGGAAAGTGTCATAATTACTG 58.894 38.462 0.00 0.00 0.00 2.74
3827 4652 7.259088 ACTGGAGGAAAGTGTCATAATTACT 57.741 36.000 0.00 0.00 0.00 2.24
3828 4653 8.880750 GTTACTGGAGGAAAGTGTCATAATTAC 58.119 37.037 0.00 0.00 0.00 1.89
3829 4654 8.822805 AGTTACTGGAGGAAAGTGTCATAATTA 58.177 33.333 0.00 0.00 0.00 1.40
3830 4655 7.607991 CAGTTACTGGAGGAAAGTGTCATAATT 59.392 37.037 4.14 0.00 0.00 1.40
3831 4656 7.106239 CAGTTACTGGAGGAAAGTGTCATAAT 58.894 38.462 4.14 0.00 0.00 1.28
3832 4657 6.464222 CAGTTACTGGAGGAAAGTGTCATAA 58.536 40.000 4.14 0.00 0.00 1.90
3833 4658 6.037786 CAGTTACTGGAGGAAAGTGTCATA 57.962 41.667 4.14 0.00 0.00 2.15
3834 4659 4.899502 CAGTTACTGGAGGAAAGTGTCAT 58.100 43.478 4.14 0.00 0.00 3.06
3835 4660 4.336889 CAGTTACTGGAGGAAAGTGTCA 57.663 45.455 4.14 0.00 0.00 3.58
3848 4673 3.742640 GCAGGGATCTAAGCCAGTTACTG 60.743 52.174 5.22 5.22 0.00 2.74
3849 4674 2.436173 GCAGGGATCTAAGCCAGTTACT 59.564 50.000 0.00 0.00 0.00 2.24
3850 4675 2.170607 TGCAGGGATCTAAGCCAGTTAC 59.829 50.000 0.00 0.00 0.00 2.50
3851 4676 2.477245 TGCAGGGATCTAAGCCAGTTA 58.523 47.619 0.00 0.00 0.00 2.24
3852 4677 1.289160 TGCAGGGATCTAAGCCAGTT 58.711 50.000 0.00 0.00 0.00 3.16
3853 4678 1.211457 CTTGCAGGGATCTAAGCCAGT 59.789 52.381 0.00 0.00 0.00 4.00
3854 4679 1.211457 ACTTGCAGGGATCTAAGCCAG 59.789 52.381 0.00 0.00 0.00 4.85
3855 4680 1.289160 ACTTGCAGGGATCTAAGCCA 58.711 50.000 0.00 0.00 0.00 4.75
3856 4681 2.170607 TGTACTTGCAGGGATCTAAGCC 59.829 50.000 0.00 0.00 0.00 4.35
3857 4682 3.198872 GTGTACTTGCAGGGATCTAAGC 58.801 50.000 0.00 0.00 0.00 3.09
3858 4683 3.452627 AGGTGTACTTGCAGGGATCTAAG 59.547 47.826 0.00 0.00 0.00 2.18
3859 4684 3.450904 AGGTGTACTTGCAGGGATCTAA 58.549 45.455 0.00 0.00 0.00 2.10
3860 4685 3.116096 AGGTGTACTTGCAGGGATCTA 57.884 47.619 0.00 0.00 0.00 1.98
3861 4686 1.958288 AGGTGTACTTGCAGGGATCT 58.042 50.000 0.00 0.00 0.00 2.75
3862 4687 2.027192 TGAAGGTGTACTTGCAGGGATC 60.027 50.000 0.00 0.00 40.21 3.36
3863 4688 1.985159 TGAAGGTGTACTTGCAGGGAT 59.015 47.619 0.00 0.00 40.21 3.85
3864 4689 1.071699 GTGAAGGTGTACTTGCAGGGA 59.928 52.381 0.00 0.00 40.21 4.20
3865 4690 1.523758 GTGAAGGTGTACTTGCAGGG 58.476 55.000 0.00 0.00 40.21 4.45
3866 4691 1.072331 AGGTGAAGGTGTACTTGCAGG 59.928 52.381 0.00 0.00 40.21 4.85
3867 4692 2.037772 AGAGGTGAAGGTGTACTTGCAG 59.962 50.000 0.00 0.00 40.21 4.41
3868 4693 2.047061 AGAGGTGAAGGTGTACTTGCA 58.953 47.619 0.00 0.00 40.21 4.08
3869 4694 2.841442 AGAGGTGAAGGTGTACTTGC 57.159 50.000 0.00 0.00 40.21 4.01
3870 4695 4.523173 TCAGTAGAGGTGAAGGTGTACTTG 59.477 45.833 0.00 0.00 40.21 3.16
3871 4696 4.737578 TCAGTAGAGGTGAAGGTGTACTT 58.262 43.478 0.00 0.00 43.65 2.24
3872 4697 4.383931 TCAGTAGAGGTGAAGGTGTACT 57.616 45.455 0.00 0.00 0.00 2.73
3873 4698 5.662674 AATCAGTAGAGGTGAAGGTGTAC 57.337 43.478 0.00 0.00 0.00 2.90
3874 4699 6.152323 GTGTAATCAGTAGAGGTGAAGGTGTA 59.848 42.308 0.00 0.00 0.00 2.90
3875 4700 5.047235 GTGTAATCAGTAGAGGTGAAGGTGT 60.047 44.000 0.00 0.00 0.00 4.16
3876 4701 5.186021 AGTGTAATCAGTAGAGGTGAAGGTG 59.814 44.000 0.00 0.00 0.00 4.00
3963 4788 1.165270 GGCATGTTAAGCCGTTCACT 58.835 50.000 0.00 0.00 43.15 3.41


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

AutoCloner maintained by Alex Coulton.