Multiple sequence alignment - TraesCS3B01G156900

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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 TraesCS3B01G156900 chr3B 100.000 2975 0 0 957 3931 150156947 150153973 0.000000e+00 5494
1 TraesCS3B01G156900 chr3B 100.000 688 0 0 1 688 150157903 150157216 0.000000e+00 1271
2 TraesCS3B01G156900 chr3D 94.482 1323 68 5 960 2279 99750924 99749604 0.000000e+00 2034
3 TraesCS3B01G156900 chr3D 94.752 1029 44 4 2260 3287 99749591 99748572 0.000000e+00 1592
4 TraesCS3B01G156900 chr3D 91.053 693 25 14 1 688 99751620 99750960 0.000000e+00 902
5 TraesCS3B01G156900 chr3D 93.931 346 19 2 3588 3931 562173110 562172765 4.500000e-144 521
6 TraesCS3B01G156900 chr3D 92.171 281 12 5 3291 3566 99748492 99748217 4.760000e-104 388
7 TraesCS3B01G156900 chr3A 92.465 1075 63 10 958 2027 117230100 117229039 0.000000e+00 1520
8 TraesCS3B01G156900 chr3A 84.897 1258 100 37 2020 3231 117228951 117227738 0.000000e+00 1188
9 TraesCS3B01G156900 chr3A 84.987 373 26 11 319 688 117230465 117230120 6.250000e-93 351
10 TraesCS3B01G156900 chr3A 85.833 120 11 5 1 115 117234332 117234214 5.330000e-24 122
11 TraesCS3B01G156900 chr2D 93.460 367 21 2 3568 3931 602013638 602014004 3.460000e-150 542
12 TraesCS3B01G156900 chr7D 92.643 367 23 3 3568 3931 188583181 188582816 3.480000e-145 525
13 TraesCS3B01G156900 chr6D 92.663 368 22 4 3568 3931 81775820 81775454 3.480000e-145 525
14 TraesCS3B01G156900 chr6D 91.870 369 24 5 3568 3931 436673030 436672663 9.740000e-141 510
15 TraesCS3B01G156900 chr6A 92.562 363 26 1 3569 3931 594830760 594831121 1.620000e-143 520
16 TraesCS3B01G156900 chr1D 92.371 367 22 5 3568 3931 408542938 408542575 5.820000e-143 518
17 TraesCS3B01G156900 chr1A 92.077 366 26 3 3568 3931 3544564 3544928 2.710000e-141 512
18 TraesCS3B01G156900 chr4D 91.153 373 29 3 3561 3931 461222188 461221818 1.630000e-138 503


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 TraesCS3B01G156900 chr3B 150153973 150157903 3930 True 3382.50 5494 100.0000 1 3931 2 chr3B.!!$R1 3930
1 TraesCS3B01G156900 chr3D 99748217 99751620 3403 True 1229.00 2034 93.1145 1 3566 4 chr3D.!!$R2 3565
2 TraesCS3B01G156900 chr3A 117227738 117234332 6594 True 795.25 1520 87.0455 1 3231 4 chr3A.!!$R1 3230

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
285 3825 1.005394 CCGTGTAGAGCGGTTTGGT 60.005 57.895 0.00 0.00 43.84 3.67 F
1271 4834 2.036346 AGGTGCTTGAATTTGTTGCTCC 59.964 45.455 0.00 0.00 37.51 4.70 F
1311 4875 0.821517 GCCCATCTTTTTAACCCGGG 59.178 55.000 22.25 22.25 35.18 5.73 F
2687 6389 0.878086 GGGACTAGATTGCAGCTCGC 60.878 60.000 0.00 1.70 42.89 5.03 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1311 4875 0.589229 CGTACTCGTCAGATCACCGC 60.589 60.0 0.00 0.0 0.00 5.68 R
2382 6080 0.387565 AAATCTTGCGCGTTTTGGGT 59.612 45.0 8.43 0.0 0.00 4.51 R
2689 6391 1.363744 CTAGTTTCAGCTTCCAGGCG 58.636 55.0 0.00 0.0 37.29 5.52 R
3582 7397 0.038166 TTGAATTTGGAGGCCGAGCT 59.962 50.0 0.00 0.0 0.00 4.09 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
68 69 8.855110 CCAAGATCTAGGATTATACGATGCTAT 58.145 37.037 0.00 0.00 30.91 2.97
73 74 8.139521 TCTAGGATTATACGATGCTATACGTG 57.860 38.462 0.00 0.00 42.61 4.49
74 75 6.132791 AGGATTATACGATGCTATACGTGG 57.867 41.667 0.00 0.00 42.61 4.94
78 79 6.799926 TTATACGATGCTATACGTGGTACA 57.200 37.500 0.00 0.00 42.61 2.90
102 107 5.829924 ACTCCAGTTTATAGCATGGATTTGG 59.170 40.000 0.00 0.00 40.91 3.28
111 116 1.832998 GCATGGATTTGGGTGGAACAT 59.167 47.619 0.00 0.00 44.52 2.71
119 129 2.649531 TGGGTGGAACATCGTTTCTT 57.350 45.000 0.00 0.00 42.93 2.52
121 131 4.088056 TGGGTGGAACATCGTTTCTTTA 57.912 40.909 0.00 0.00 42.93 1.85
122 132 3.816523 TGGGTGGAACATCGTTTCTTTAC 59.183 43.478 0.00 0.00 42.93 2.01
123 133 3.189910 GGGTGGAACATCGTTTCTTTACC 59.810 47.826 0.00 0.00 42.93 2.85
124 134 3.189910 GGTGGAACATCGTTTCTTTACCC 59.810 47.826 0.00 0.00 44.52 3.69
131 141 4.583073 ACATCGTTTCTTTACCCTTTTGCT 59.417 37.500 0.00 0.00 0.00 3.91
135 145 5.824097 TCGTTTCTTTACCCTTTTGCTTACT 59.176 36.000 0.00 0.00 0.00 2.24
171 181 3.846360 GCAGTTAGCCGTCTTTCTCTTA 58.154 45.455 0.00 0.00 37.23 2.10
186 3570 9.818796 GTCTTTCTCTTATTGTTTCATCAAGAC 57.181 33.333 0.00 0.00 31.34 3.01
284 3824 3.870606 CCGTGTAGAGCGGTTTGG 58.129 61.111 0.00 0.00 43.84 3.28
285 3825 1.005394 CCGTGTAGAGCGGTTTGGT 60.005 57.895 0.00 0.00 43.84 3.67
1031 4594 2.580470 CTGCACGCGGATGATCGTC 61.580 63.158 12.47 6.36 36.73 4.20
1239 4802 3.276846 GTGTCCGCGCCAAACTGT 61.277 61.111 0.00 0.00 0.00 3.55
1271 4834 2.036346 AGGTGCTTGAATTTGTTGCTCC 59.964 45.455 0.00 0.00 37.51 4.70
1276 4839 2.270352 TGAATTTGTTGCTCCCTCGT 57.730 45.000 0.00 0.00 0.00 4.18
1279 4843 2.100605 ATTTGTTGCTCCCTCGTCTC 57.899 50.000 0.00 0.00 0.00 3.36
1304 4868 4.620332 CGCAAATCTTGGCCCATCTTTTTA 60.620 41.667 0.00 0.00 0.00 1.52
1305 4869 5.244755 GCAAATCTTGGCCCATCTTTTTAA 58.755 37.500 0.00 0.00 0.00 1.52
1311 4875 0.821517 GCCCATCTTTTTAACCCGGG 59.178 55.000 22.25 22.25 35.18 5.73
1345 4909 1.272769 AGTACGTCCTCTGTTTCTGCC 59.727 52.381 0.00 0.00 0.00 4.85
1625 5189 2.026522 GCTCTACAGCGACGGAGAT 58.973 57.895 0.00 0.00 35.39 2.75
1759 5323 1.475213 GGTAATCAAAGCCCCTCCGAG 60.475 57.143 0.00 0.00 0.00 4.63
1766 5330 2.364448 GCCCCTCCGAGGAAGAGT 60.364 66.667 16.69 0.00 37.67 3.24
1936 5500 6.325028 TCACCCAGAACCAAATTTGAATTACA 59.675 34.615 19.86 0.00 0.00 2.41
2144 5810 2.817258 TCTTACTTCCACCGGCAATTTG 59.183 45.455 0.00 0.00 0.00 2.32
2192 5858 6.183360 GCATCACACAAGGTATTTCACGATTA 60.183 38.462 0.00 0.00 0.00 1.75
2670 6368 4.873129 CGATCAGGTCGTGCCGGG 62.873 72.222 2.18 0.00 45.19 5.73
2683 6381 1.889573 GCCGGGACTAGATTGCAGC 60.890 63.158 2.18 0.00 0.00 5.25
2687 6389 0.878086 GGGACTAGATTGCAGCTCGC 60.878 60.000 0.00 1.70 42.89 5.03
2689 6391 1.816214 GACTAGATTGCAGCTCGCGC 61.816 60.000 0.00 0.00 46.97 6.86
2740 6442 4.711355 AGAGAAGACTGAAGAAGGAGATGG 59.289 45.833 0.00 0.00 0.00 3.51
2780 6487 6.718454 TGGGCTAGTGGTTAGTATGATACTAC 59.282 42.308 11.65 3.74 40.74 2.73
2787 6494 7.889073 AGTGGTTAGTATGATACTACGATCCAT 59.111 37.037 11.65 6.63 40.74 3.41
2922 6643 7.642586 CGAAAACAGTGGTAAAAACTAAGGAAG 59.357 37.037 0.00 0.00 0.00 3.46
2950 6672 8.579850 AATAAAAATAGTGAGAGTGCAATGGA 57.420 30.769 0.00 0.00 0.00 3.41
2973 6695 1.804748 GCACTAGAAGTTTGGAACGGG 59.195 52.381 0.00 0.00 36.23 5.28
3090 6825 5.526111 TGTACCTTCTGCTGACTTTGTTAAC 59.474 40.000 0.00 0.00 0.00 2.01
3104 6839 3.728076 TGTTAACTGAGAGCGTTGAGT 57.272 42.857 7.22 0.00 0.00 3.41
3116 6851 1.267832 GCGTTGAGTTCTGTTTTGCGA 60.268 47.619 0.00 0.00 0.00 5.10
3124 6859 6.370593 TGAGTTCTGTTTTGCGATAATTGTC 58.629 36.000 0.00 0.00 0.00 3.18
3202 6937 8.474025 GGTTGTTATGATTGGATCAAATGGTAA 58.526 33.333 0.00 0.00 43.50 2.85
3247 6982 8.087982 TGCTAATTAACTCTGTTCTGACTTTG 57.912 34.615 0.00 0.00 0.00 2.77
3276 7011 4.588528 AGTGCAAGTGTAAATGTTGGGAAT 59.411 37.500 0.00 0.00 0.00 3.01
3317 7128 2.512515 GTGGAGCGACCCTCATGC 60.513 66.667 0.00 0.00 42.62 4.06
3318 7129 3.002583 TGGAGCGACCCTCATGCA 61.003 61.111 0.00 0.00 42.62 3.96
3319 7130 2.369633 TGGAGCGACCCTCATGCAT 61.370 57.895 0.00 0.00 42.62 3.96
3320 7131 1.890979 GGAGCGACCCTCATGCATG 60.891 63.158 21.07 21.07 42.62 4.06
3321 7132 1.153289 GAGCGACCCTCATGCATGT 60.153 57.895 25.43 6.92 40.45 3.21
3322 7133 1.153289 AGCGACCCTCATGCATGTC 60.153 57.895 25.43 14.76 0.00 3.06
3323 7134 1.153289 GCGACCCTCATGCATGTCT 60.153 57.895 25.43 7.17 0.00 3.41
3382 7197 4.749310 AGGCGTCTCTTGCTGCGG 62.749 66.667 0.00 0.00 0.00 5.69
3429 7244 7.093322 AGTATCAGAACAATTTCATTGCTCC 57.907 36.000 0.00 0.00 43.98 4.70
3464 7279 1.133199 TGCTTCCCCATTGAACAACCT 60.133 47.619 0.00 0.00 0.00 3.50
3466 7281 3.161866 GCTTCCCCATTGAACAACCTTA 58.838 45.455 0.00 0.00 0.00 2.69
3468 7283 4.560716 GCTTCCCCATTGAACAACCTTAAC 60.561 45.833 0.00 0.00 0.00 2.01
3469 7284 4.463050 TCCCCATTGAACAACCTTAACT 57.537 40.909 0.00 0.00 0.00 2.24
3470 7285 4.403734 TCCCCATTGAACAACCTTAACTC 58.596 43.478 0.00 0.00 0.00 3.01
3478 7293 4.354387 TGAACAACCTTAACTCCCCCATAA 59.646 41.667 0.00 0.00 0.00 1.90
3480 7295 3.010920 ACAACCTTAACTCCCCCATAACC 59.989 47.826 0.00 0.00 0.00 2.85
3488 7303 5.546035 AACTCCCCCATAACCTAACAAAT 57.454 39.130 0.00 0.00 0.00 2.32
3544 7359 2.831333 CACCATGCTCCTGTTAGCTAG 58.169 52.381 0.00 0.00 43.19 3.42
3589 7404 2.351276 TCCCTTTTGGAGCTCGGC 59.649 61.111 7.83 0.00 44.07 5.54
3590 7405 2.751837 CCCTTTTGGAGCTCGGCC 60.752 66.667 7.83 0.00 44.07 6.13
3591 7406 2.352805 CCTTTTGGAGCTCGGCCT 59.647 61.111 7.83 0.00 44.07 5.19
3592 7407 1.746991 CCTTTTGGAGCTCGGCCTC 60.747 63.158 7.83 0.00 44.07 4.70
3598 7413 4.645809 GAGCTCGGCCTCCAAATT 57.354 55.556 0.00 0.00 0.00 1.82
3599 7414 2.398803 GAGCTCGGCCTCCAAATTC 58.601 57.895 0.00 0.00 0.00 2.17
3600 7415 0.392998 GAGCTCGGCCTCCAAATTCA 60.393 55.000 0.00 0.00 0.00 2.57
3601 7416 0.038166 AGCTCGGCCTCCAAATTCAA 59.962 50.000 0.00 0.00 0.00 2.69
3602 7417 0.887933 GCTCGGCCTCCAAATTCAAA 59.112 50.000 0.00 0.00 0.00 2.69
3603 7418 1.478105 GCTCGGCCTCCAAATTCAAAT 59.522 47.619 0.00 0.00 0.00 2.32
3604 7419 2.094026 GCTCGGCCTCCAAATTCAAATT 60.094 45.455 0.00 0.00 0.00 1.82
3605 7420 3.617288 GCTCGGCCTCCAAATTCAAATTT 60.617 43.478 0.00 0.00 39.07 1.82
3675 7490 7.701539 AAAAATACAGATGTACATGAAGGCA 57.298 32.000 14.43 0.00 32.72 4.75
3676 7491 7.886629 AAAATACAGATGTACATGAAGGCAT 57.113 32.000 14.43 0.00 32.72 4.40
3677 7492 8.978874 AAAATACAGATGTACATGAAGGCATA 57.021 30.769 14.43 0.00 32.72 3.14
3678 7493 8.978874 AAATACAGATGTACATGAAGGCATAA 57.021 30.769 14.43 0.00 32.72 1.90
3679 7494 7.969536 ATACAGATGTACATGAAGGCATAAC 57.030 36.000 14.43 0.00 32.72 1.89
3680 7495 5.744171 ACAGATGTACATGAAGGCATAACA 58.256 37.500 14.43 0.00 35.39 2.41
3681 7496 5.586243 ACAGATGTACATGAAGGCATAACAC 59.414 40.000 14.43 0.00 34.40 3.32
3682 7497 5.585844 CAGATGTACATGAAGGCATAACACA 59.414 40.000 14.43 0.00 34.40 3.72
3683 7498 5.586243 AGATGTACATGAAGGCATAACACAC 59.414 40.000 14.43 0.00 34.40 3.82
3684 7499 4.646572 TGTACATGAAGGCATAACACACA 58.353 39.130 0.00 0.00 32.27 3.72
3685 7500 5.252547 TGTACATGAAGGCATAACACACAT 58.747 37.500 0.00 0.00 32.27 3.21
3686 7501 4.707030 ACATGAAGGCATAACACACATG 57.293 40.909 0.00 0.00 39.27 3.21
3687 7502 4.081406 ACATGAAGGCATAACACACATGT 58.919 39.130 0.00 0.00 40.84 3.21
3688 7503 4.082625 ACATGAAGGCATAACACACATGTG 60.083 41.667 24.25 24.25 42.90 3.21
3689 7504 4.082625 CATGAAGGCATAACACACATGTGT 60.083 41.667 25.76 25.76 46.35 3.72
3690 7505 6.126914 CATGAAGGCATAACACACATGTGTG 61.127 44.000 43.01 43.01 44.88 3.82
3705 7520 7.984002 CACATGTGTGTAAAATTTCAGTTCA 57.016 32.000 18.03 0.00 40.96 3.18
3706 7521 8.404889 CACATGTGTGTAAAATTTCAGTTCAA 57.595 30.769 18.03 0.00 40.96 2.69
3707 7522 8.867935 CACATGTGTGTAAAATTTCAGTTCAAA 58.132 29.630 18.03 0.00 40.96 2.69
3708 7523 9.429359 ACATGTGTGTAAAATTTCAGTTCAAAA 57.571 25.926 0.00 0.00 36.63 2.44
3726 7541 6.855763 TCAAAATACATTGAAATGAGGGCT 57.144 33.333 9.94 0.00 39.67 5.19
3727 7542 6.632909 TCAAAATACATTGAAATGAGGGCTG 58.367 36.000 9.94 2.52 39.67 4.85
3728 7543 6.211184 TCAAAATACATTGAAATGAGGGCTGT 59.789 34.615 9.94 0.00 39.67 4.40
3729 7544 5.587388 AATACATTGAAATGAGGGCTGTG 57.413 39.130 9.94 0.00 39.67 3.66
3730 7545 1.547372 ACATTGAAATGAGGGCTGTGC 59.453 47.619 9.94 0.00 39.67 4.57
3731 7546 1.546923 CATTGAAATGAGGGCTGTGCA 59.453 47.619 0.00 0.00 38.70 4.57
3732 7547 1.702182 TTGAAATGAGGGCTGTGCAA 58.298 45.000 0.00 0.00 0.00 4.08
3733 7548 1.702182 TGAAATGAGGGCTGTGCAAA 58.298 45.000 0.00 0.00 0.00 3.68
3734 7549 2.037901 TGAAATGAGGGCTGTGCAAAA 58.962 42.857 0.00 0.00 0.00 2.44
3735 7550 2.433604 TGAAATGAGGGCTGTGCAAAAA 59.566 40.909 0.00 0.00 0.00 1.94
3736 7551 2.531522 AATGAGGGCTGTGCAAAAAC 57.468 45.000 0.00 0.00 0.00 2.43
3737 7552 0.314935 ATGAGGGCTGTGCAAAAACG 59.685 50.000 0.00 0.00 0.00 3.60
3738 7553 0.749818 TGAGGGCTGTGCAAAAACGA 60.750 50.000 0.00 0.00 0.00 3.85
3739 7554 0.317854 GAGGGCTGTGCAAAAACGAC 60.318 55.000 0.00 0.00 0.00 4.34
3740 7555 1.034838 AGGGCTGTGCAAAAACGACA 61.035 50.000 0.00 0.00 0.00 4.35
3741 7556 0.179124 GGGCTGTGCAAAAACGACAA 60.179 50.000 0.00 0.00 0.00 3.18
3742 7557 1.634702 GGCTGTGCAAAAACGACAAA 58.365 45.000 0.00 0.00 0.00 2.83
3743 7558 2.200899 GGCTGTGCAAAAACGACAAAT 58.799 42.857 0.00 0.00 0.00 2.32
3744 7559 2.218530 GGCTGTGCAAAAACGACAAATC 59.781 45.455 0.00 0.00 0.00 2.17
3745 7560 3.115554 GCTGTGCAAAAACGACAAATCT 58.884 40.909 0.00 0.00 0.00 2.40
3746 7561 3.061006 GCTGTGCAAAAACGACAAATCTG 60.061 43.478 0.00 0.00 0.00 2.90
3747 7562 3.443037 TGTGCAAAAACGACAAATCTGG 58.557 40.909 0.00 0.00 0.00 3.86
3748 7563 2.794350 GTGCAAAAACGACAAATCTGGG 59.206 45.455 0.00 0.00 0.00 4.45
3749 7564 2.223923 TGCAAAAACGACAAATCTGGGG 60.224 45.455 0.00 0.00 0.00 4.96
3750 7565 2.403259 CAAAAACGACAAATCTGGGGC 58.597 47.619 0.00 0.00 0.00 5.80
3751 7566 1.995376 AAAACGACAAATCTGGGGCT 58.005 45.000 0.00 0.00 0.00 5.19
3752 7567 1.247567 AAACGACAAATCTGGGGCTG 58.752 50.000 0.00 0.00 0.00 4.85
3753 7568 0.110486 AACGACAAATCTGGGGCTGT 59.890 50.000 0.00 0.00 0.00 4.40
3754 7569 0.110486 ACGACAAATCTGGGGCTGTT 59.890 50.000 0.00 0.00 0.00 3.16
3755 7570 1.247567 CGACAAATCTGGGGCTGTTT 58.752 50.000 0.00 0.00 0.00 2.83
3756 7571 2.224670 ACGACAAATCTGGGGCTGTTTA 60.225 45.455 0.00 0.00 0.00 2.01
3757 7572 2.817258 CGACAAATCTGGGGCTGTTTAA 59.183 45.455 0.00 0.00 0.00 1.52
3758 7573 3.443681 CGACAAATCTGGGGCTGTTTAAT 59.556 43.478 0.00 0.00 0.00 1.40
3759 7574 4.638421 CGACAAATCTGGGGCTGTTTAATA 59.362 41.667 0.00 0.00 0.00 0.98
3760 7575 5.448632 CGACAAATCTGGGGCTGTTTAATAC 60.449 44.000 0.00 0.00 0.00 1.89
3761 7576 5.329399 ACAAATCTGGGGCTGTTTAATACA 58.671 37.500 0.00 0.00 34.95 2.29
3762 7577 5.957774 ACAAATCTGGGGCTGTTTAATACAT 59.042 36.000 0.00 0.00 35.85 2.29
3763 7578 6.127366 ACAAATCTGGGGCTGTTTAATACATG 60.127 38.462 0.00 0.00 35.85 3.21
3764 7579 4.853468 TCTGGGGCTGTTTAATACATGA 57.147 40.909 0.00 0.00 35.85 3.07
3765 7580 5.387113 TCTGGGGCTGTTTAATACATGAT 57.613 39.130 0.00 0.00 35.85 2.45
3766 7581 6.508030 TCTGGGGCTGTTTAATACATGATA 57.492 37.500 0.00 0.00 35.85 2.15
3767 7582 6.296026 TCTGGGGCTGTTTAATACATGATAC 58.704 40.000 0.00 0.00 35.85 2.24
3768 7583 6.101150 TCTGGGGCTGTTTAATACATGATACT 59.899 38.462 0.00 0.00 35.85 2.12
3769 7584 7.291416 TCTGGGGCTGTTTAATACATGATACTA 59.709 37.037 0.00 0.00 35.85 1.82
3770 7585 7.984475 TGGGGCTGTTTAATACATGATACTAT 58.016 34.615 0.00 0.00 35.85 2.12
3771 7586 8.444783 TGGGGCTGTTTAATACATGATACTATT 58.555 33.333 0.00 0.00 35.85 1.73
3772 7587 8.947115 GGGGCTGTTTAATACATGATACTATTC 58.053 37.037 0.00 0.00 35.85 1.75
3773 7588 9.502091 GGGCTGTTTAATACATGATACTATTCA 57.498 33.333 0.00 0.00 35.85 2.57
3780 7595 9.944376 TTAATACATGATACTATTCAGCTTCCC 57.056 33.333 0.00 0.00 0.00 3.97
3781 7596 5.894298 ACATGATACTATTCAGCTTCCCA 57.106 39.130 0.00 0.00 0.00 4.37
3782 7597 5.862845 ACATGATACTATTCAGCTTCCCAG 58.137 41.667 0.00 0.00 0.00 4.45
3783 7598 4.963318 TGATACTATTCAGCTTCCCAGG 57.037 45.455 0.00 0.00 0.00 4.45
3784 7599 3.071602 TGATACTATTCAGCTTCCCAGGC 59.928 47.826 0.00 0.00 0.00 4.85
3785 7600 0.548510 ACTATTCAGCTTCCCAGGCC 59.451 55.000 0.00 0.00 0.00 5.19
3786 7601 0.548031 CTATTCAGCTTCCCAGGCCA 59.452 55.000 5.01 0.00 0.00 5.36
3787 7602 1.144503 CTATTCAGCTTCCCAGGCCAT 59.855 52.381 5.01 0.00 0.00 4.40
3788 7603 0.396695 ATTCAGCTTCCCAGGCCATG 60.397 55.000 5.01 0.00 0.00 3.66
3789 7604 1.499913 TTCAGCTTCCCAGGCCATGA 61.500 55.000 5.01 0.00 0.00 3.07
3790 7605 1.000521 CAGCTTCCCAGGCCATGAA 60.001 57.895 5.01 3.24 0.00 2.57
3791 7606 0.396695 CAGCTTCCCAGGCCATGAAT 60.397 55.000 5.01 0.00 0.00 2.57
3792 7607 0.337428 AGCTTCCCAGGCCATGAATT 59.663 50.000 5.01 0.00 0.00 2.17
3793 7608 1.197812 GCTTCCCAGGCCATGAATTT 58.802 50.000 5.01 0.00 0.00 1.82
3794 7609 1.134610 GCTTCCCAGGCCATGAATTTG 60.135 52.381 5.01 0.00 0.00 2.32
3795 7610 2.181975 CTTCCCAGGCCATGAATTTGT 58.818 47.619 5.01 0.00 0.00 2.83
3796 7611 1.851304 TCCCAGGCCATGAATTTGTC 58.149 50.000 5.01 0.00 0.00 3.18
3797 7612 1.358787 TCCCAGGCCATGAATTTGTCT 59.641 47.619 5.01 0.00 0.00 3.41
3798 7613 2.181975 CCCAGGCCATGAATTTGTCTT 58.818 47.619 5.01 0.00 0.00 3.01
3799 7614 2.568509 CCCAGGCCATGAATTTGTCTTT 59.431 45.455 5.01 0.00 0.00 2.52
3800 7615 3.008266 CCCAGGCCATGAATTTGTCTTTT 59.992 43.478 5.01 0.00 0.00 2.27
3801 7616 4.505390 CCCAGGCCATGAATTTGTCTTTTT 60.505 41.667 5.01 0.00 0.00 1.94
3818 7633 3.955771 TTTTTGTACAGGTCGCAACTC 57.044 42.857 0.00 0.00 0.00 3.01
3819 7634 2.605837 TTTGTACAGGTCGCAACTCA 57.394 45.000 0.00 0.00 0.00 3.41
3820 7635 2.605837 TTGTACAGGTCGCAACTCAA 57.394 45.000 0.00 0.00 0.00 3.02
3821 7636 2.605837 TGTACAGGTCGCAACTCAAA 57.394 45.000 0.00 0.00 0.00 2.69
3822 7637 2.479837 TGTACAGGTCGCAACTCAAAG 58.520 47.619 0.00 0.00 0.00 2.77
3823 7638 2.159014 TGTACAGGTCGCAACTCAAAGT 60.159 45.455 0.00 0.00 0.00 2.66
3824 7639 2.902705 ACAGGTCGCAACTCAAAGTA 57.097 45.000 0.00 0.00 0.00 2.24
3825 7640 3.402628 ACAGGTCGCAACTCAAAGTAT 57.597 42.857 0.00 0.00 0.00 2.12
3826 7641 3.740115 ACAGGTCGCAACTCAAAGTATT 58.260 40.909 0.00 0.00 0.00 1.89
3827 7642 4.134563 ACAGGTCGCAACTCAAAGTATTT 58.865 39.130 0.00 0.00 40.26 1.40
3828 7643 4.213482 ACAGGTCGCAACTCAAAGTATTTC 59.787 41.667 0.00 0.00 35.03 2.17
3829 7644 4.213270 CAGGTCGCAACTCAAAGTATTTCA 59.787 41.667 0.00 0.00 35.03 2.69
3830 7645 5.003804 AGGTCGCAACTCAAAGTATTTCAT 58.996 37.500 0.00 0.00 35.03 2.57
3831 7646 5.122396 AGGTCGCAACTCAAAGTATTTCATC 59.878 40.000 0.00 0.00 35.03 2.92
3832 7647 5.106712 GGTCGCAACTCAAAGTATTTCATCA 60.107 40.000 0.00 0.00 35.03 3.07
3833 7648 6.403636 GGTCGCAACTCAAAGTATTTCATCAT 60.404 38.462 0.00 0.00 35.03 2.45
3834 7649 6.467047 GTCGCAACTCAAAGTATTTCATCATG 59.533 38.462 0.00 0.00 35.03 3.07
3835 7650 6.371271 TCGCAACTCAAAGTATTTCATCATGA 59.629 34.615 0.00 0.00 35.03 3.07
3836 7651 7.022979 CGCAACTCAAAGTATTTCATCATGAA 58.977 34.615 0.00 0.00 35.03 2.57
3837 7652 7.699391 CGCAACTCAAAGTATTTCATCATGAAT 59.301 33.333 0.00 0.00 35.03 2.57
3838 7653 9.362539 GCAACTCAAAGTATTTCATCATGAATT 57.637 29.630 0.00 0.16 35.03 2.17
3851 7666 9.761504 TTTCATCATGAATTTTTACACACATGT 57.238 25.926 0.00 0.00 38.32 3.21
3852 7667 9.194271 TTCATCATGAATTTTTACACACATGTG 57.806 29.630 24.25 24.25 40.52 3.21
3874 7689 3.732721 GGATTACGTCCTTACATACACGC 59.267 47.826 0.00 0.00 44.16 5.34
3875 7690 3.846423 TTACGTCCTTACATACACGCA 57.154 42.857 0.00 0.00 35.64 5.24
3876 7691 2.953466 ACGTCCTTACATACACGCAT 57.047 45.000 0.00 0.00 35.64 4.73
3877 7692 5.497635 TTACGTCCTTACATACACGCATA 57.502 39.130 0.00 0.00 35.64 3.14
3878 7693 4.579454 ACGTCCTTACATACACGCATAT 57.421 40.909 0.00 0.00 35.64 1.78
3879 7694 4.940463 ACGTCCTTACATACACGCATATT 58.060 39.130 0.00 0.00 35.64 1.28
3880 7695 5.353938 ACGTCCTTACATACACGCATATTT 58.646 37.500 0.00 0.00 35.64 1.40
3881 7696 5.813672 ACGTCCTTACATACACGCATATTTT 59.186 36.000 0.00 0.00 35.64 1.82
3882 7697 6.314400 ACGTCCTTACATACACGCATATTTTT 59.686 34.615 0.00 0.00 35.64 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
68 69 5.163622 GCTATAAACTGGAGTGTACCACGTA 60.164 44.000 0.00 0.00 39.64 3.57
69 70 4.381292 GCTATAAACTGGAGTGTACCACGT 60.381 45.833 0.00 0.00 39.64 4.49
70 71 4.110482 GCTATAAACTGGAGTGTACCACG 58.890 47.826 0.00 0.00 39.64 4.94
73 74 5.057149 CCATGCTATAAACTGGAGTGTACC 58.943 45.833 0.00 0.00 0.00 3.34
74 75 5.914033 TCCATGCTATAAACTGGAGTGTAC 58.086 41.667 0.00 0.00 32.92 2.90
78 79 5.829924 CCAAATCCATGCTATAAACTGGAGT 59.170 40.000 0.00 0.00 40.91 3.85
80 81 5.139727 CCCAAATCCATGCTATAAACTGGA 58.860 41.667 0.00 0.00 41.76 3.86
90 95 1.203162 TGTTCCACCCAAATCCATGCT 60.203 47.619 0.00 0.00 0.00 3.79
91 96 1.265236 TGTTCCACCCAAATCCATGC 58.735 50.000 0.00 0.00 0.00 4.06
102 107 3.189910 GGGTAAAGAAACGATGTTCCACC 59.810 47.826 0.00 0.00 0.00 4.61
111 116 5.824097 AGTAAGCAAAAGGGTAAAGAAACGA 59.176 36.000 0.00 0.00 0.00 3.85
119 129 5.043737 ACTGACAGTAAGCAAAAGGGTAA 57.956 39.130 6.24 0.00 0.00 2.85
121 131 3.577805 ACTGACAGTAAGCAAAAGGGT 57.422 42.857 6.24 0.00 0.00 4.34
122 132 4.215613 GGTAACTGACAGTAAGCAAAAGGG 59.784 45.833 8.91 0.00 0.00 3.95
123 133 4.819630 TGGTAACTGACAGTAAGCAAAAGG 59.180 41.667 8.91 0.00 37.61 3.11
124 134 5.560953 GCTGGTAACTGACAGTAAGCAAAAG 60.561 44.000 19.60 9.77 37.07 2.27
131 141 2.367241 TGCTGCTGGTAACTGACAGTAA 59.633 45.455 8.91 0.00 39.77 2.24
135 145 0.758734 ACTGCTGCTGGTAACTGACA 59.241 50.000 11.29 0.00 37.83 3.58
186 3570 2.287915 CGCCCTCGGTTCATTTATCTTG 59.712 50.000 0.00 0.00 0.00 3.02
304 3844 2.409651 CTCGCTCTACGCCTCACC 59.590 66.667 0.00 0.00 43.23 4.02
312 3852 0.028374 GACTTCTCCGCTCGCTCTAC 59.972 60.000 0.00 0.00 0.00 2.59
314 3854 1.244697 TTGACTTCTCCGCTCGCTCT 61.245 55.000 0.00 0.00 0.00 4.09
315 3855 0.800300 CTTGACTTCTCCGCTCGCTC 60.800 60.000 0.00 0.00 0.00 5.03
316 3856 1.214062 CTTGACTTCTCCGCTCGCT 59.786 57.895 0.00 0.00 0.00 4.93
449 4003 1.583054 CGGGAAGATCGGAATTGACC 58.417 55.000 0.00 0.00 0.00 4.02
956 4519 3.209410 GCAGTGAGGTTATGAATGGGAG 58.791 50.000 0.00 0.00 0.00 4.30
957 4520 2.092429 GGCAGTGAGGTTATGAATGGGA 60.092 50.000 0.00 0.00 0.00 4.37
958 4521 2.301346 GGCAGTGAGGTTATGAATGGG 58.699 52.381 0.00 0.00 0.00 4.00
959 4522 3.003394 TGGCAGTGAGGTTATGAATGG 57.997 47.619 0.00 0.00 0.00 3.16
960 4523 3.181493 GCTTGGCAGTGAGGTTATGAATG 60.181 47.826 0.00 0.00 0.00 2.67
961 4524 3.019564 GCTTGGCAGTGAGGTTATGAAT 58.980 45.455 0.00 0.00 0.00 2.57
962 4525 2.436417 GCTTGGCAGTGAGGTTATGAA 58.564 47.619 0.00 0.00 0.00 2.57
963 4526 1.340017 GGCTTGGCAGTGAGGTTATGA 60.340 52.381 0.00 0.00 0.00 2.15
964 4527 1.098050 GGCTTGGCAGTGAGGTTATG 58.902 55.000 0.00 0.00 0.00 1.90
965 4528 0.034089 GGGCTTGGCAGTGAGGTTAT 60.034 55.000 0.00 0.00 0.00 1.89
966 4529 1.378762 GGGCTTGGCAGTGAGGTTA 59.621 57.895 0.00 0.00 0.00 2.85
1233 4796 3.084039 CACCTGGCATATGTCACAGTTT 58.916 45.455 5.74 0.00 0.00 2.66
1276 4839 1.378514 GGCCAAGATTTGCGGGAGA 60.379 57.895 0.00 0.00 0.00 3.71
1279 4843 2.019897 GATGGGCCAAGATTTGCGGG 62.020 60.000 11.89 0.00 0.00 6.13
1284 4848 5.280470 GGGTTAAAAAGATGGGCCAAGATTT 60.280 40.000 11.89 12.30 0.00 2.17
1311 4875 0.589229 CGTACTCGTCAGATCACCGC 60.589 60.000 0.00 0.00 0.00 5.68
1345 4909 4.742201 CGTGGCCCTCCTGTCGTG 62.742 72.222 0.00 0.00 0.00 4.35
1482 5046 2.359602 TTCGTCGGGCTCGAGACT 60.360 61.111 19.83 0.00 46.91 3.24
1484 5048 2.196382 CTTGTTCGTCGGGCTCGAGA 62.196 60.000 18.75 6.47 46.91 4.04
1759 5323 3.400054 CCACCCGGGGACTCTTCC 61.400 72.222 27.92 0.00 41.95 3.46
1967 5531 9.537852 TTCCCTGATAAAGTAACTAGAGTAACA 57.462 33.333 0.00 0.00 0.00 2.41
2008 5576 9.392259 GGTTGCCAGAATTACTATTTTAGTACT 57.608 33.333 0.00 0.00 40.74 2.73
2144 5810 1.068541 CACTTCAGGTTTTAAGCCGGC 60.069 52.381 21.89 21.89 0.00 6.13
2215 5881 6.442952 GCATAGATAGATCGTTCAGTCACTT 58.557 40.000 0.00 0.00 0.00 3.16
2216 5883 5.048364 GGCATAGATAGATCGTTCAGTCACT 60.048 44.000 0.00 0.00 0.00 3.41
2382 6080 0.387565 AAATCTTGCGCGTTTTGGGT 59.612 45.000 8.43 0.00 0.00 4.51
2387 6085 1.399727 CCGAAGAAATCTTGCGCGTTT 60.400 47.619 8.43 0.00 36.11 3.60
2540 6238 3.144120 CTCCGGGGAGCAGATGTCG 62.144 68.421 0.00 0.00 35.31 4.35
2670 6368 2.211675 CGCGAGCTGCAATCTAGTC 58.788 57.895 0.00 0.00 46.97 2.59
2687 6389 3.049674 TTTCAGCTTCCAGGCGCG 61.050 61.111 0.00 0.00 37.29 6.86
2689 6391 1.363744 CTAGTTTCAGCTTCCAGGCG 58.636 55.000 0.00 0.00 37.29 5.52
2692 6394 1.728971 CACGCTAGTTTCAGCTTCCAG 59.271 52.381 0.00 0.00 39.51 3.86
2740 6442 6.159988 CACTAGCCCATCTATTAGTAGCAAC 58.840 44.000 0.00 0.00 0.00 4.17
2780 6487 3.716601 TGCGGTATATGCATATGGATCG 58.283 45.455 26.21 20.21 37.44 3.69
2933 6655 2.420547 GCCATCCATTGCACTCTCACTA 60.421 50.000 0.00 0.00 0.00 2.74
2950 6672 3.074412 CGTTCCAAACTTCTAGTGCCAT 58.926 45.455 0.00 0.00 0.00 4.40
2985 6707 1.490490 AGACCAGCTGAAAACACTCCA 59.510 47.619 17.39 0.00 0.00 3.86
3037 6769 7.687941 TTACAGATCGAGCTGATACATCATA 57.312 36.000 35.32 12.95 37.47 2.15
3038 6770 6.581171 TTACAGATCGAGCTGATACATCAT 57.419 37.500 35.32 13.98 37.47 2.45
3039 6771 6.209361 GTTTACAGATCGAGCTGATACATCA 58.791 40.000 35.32 10.01 37.47 3.07
3040 6772 5.340932 CGTTTACAGATCGAGCTGATACATC 59.659 44.000 35.32 17.99 37.47 3.06
3041 6773 5.215903 CGTTTACAGATCGAGCTGATACAT 58.784 41.667 35.32 16.18 37.47 2.29
3042 6774 4.598062 CGTTTACAGATCGAGCTGATACA 58.402 43.478 35.32 14.68 37.47 2.29
3043 6775 3.422546 GCGTTTACAGATCGAGCTGATAC 59.577 47.826 35.32 24.94 37.47 2.24
3090 6825 2.430546 ACAGAACTCAACGCTCTCAG 57.569 50.000 0.00 0.00 0.00 3.35
3104 6839 5.471797 TCAGGACAATTATCGCAAAACAGAA 59.528 36.000 0.00 0.00 0.00 3.02
3202 6937 3.243535 GCAGGAGTTTTAACTTGCAAGCT 60.244 43.478 26.27 17.12 40.65 3.74
3247 6982 3.815401 ACATTTACACTTGCACTGAGACC 59.185 43.478 0.00 0.00 0.00 3.85
3317 7128 3.125316 GTCAGCCGAAAAAGGTAGACATG 59.875 47.826 0.00 0.00 37.25 3.21
3318 7129 3.244422 TGTCAGCCGAAAAAGGTAGACAT 60.244 43.478 8.00 0.00 39.98 3.06
3319 7130 2.103432 TGTCAGCCGAAAAAGGTAGACA 59.897 45.455 8.00 8.00 41.37 3.41
3320 7131 2.762745 TGTCAGCCGAAAAAGGTAGAC 58.237 47.619 0.00 0.00 37.55 2.59
3321 7132 3.695830 ATGTCAGCCGAAAAAGGTAGA 57.304 42.857 0.00 0.00 0.00 2.59
3322 7133 4.475944 CAAATGTCAGCCGAAAAAGGTAG 58.524 43.478 0.00 0.00 0.00 3.18
3323 7134 3.254657 CCAAATGTCAGCCGAAAAAGGTA 59.745 43.478 0.00 0.00 0.00 3.08
3370 7184 1.444119 AAAAACGCCGCAGCAAGAGA 61.444 50.000 0.00 0.00 39.83 3.10
3371 7185 0.998727 GAAAAACGCCGCAGCAAGAG 60.999 55.000 0.00 0.00 39.83 2.85
3427 7242 4.021192 GGAAGCAAAGGTTTGATGATTGGA 60.021 41.667 6.63 0.00 40.55 3.53
3429 7244 4.248058 GGGAAGCAAAGGTTTGATGATTG 58.752 43.478 6.63 0.00 40.55 2.67
3464 7279 6.466009 TTTGTTAGGTTATGGGGGAGTTAA 57.534 37.500 0.00 0.00 0.00 2.01
3466 7281 5.546035 ATTTGTTAGGTTATGGGGGAGTT 57.454 39.130 0.00 0.00 0.00 3.01
3468 7283 9.462606 GAATATATTTGTTAGGTTATGGGGGAG 57.537 37.037 0.00 0.00 0.00 4.30
3469 7284 8.961134 TGAATATATTTGTTAGGTTATGGGGGA 58.039 33.333 0.00 0.00 0.00 4.81
3470 7285 9.020731 GTGAATATATTTGTTAGGTTATGGGGG 57.979 37.037 0.00 0.00 0.00 5.40
3572 7387 2.351276 GCCGAGCTCCAAAAGGGA 59.649 61.111 8.47 0.00 45.89 4.20
3573 7388 2.751837 GGCCGAGCTCCAAAAGGG 60.752 66.667 8.47 3.22 38.37 3.95
3574 7389 1.746991 GAGGCCGAGCTCCAAAAGG 60.747 63.158 8.47 4.02 0.00 3.11
3575 7390 1.746991 GGAGGCCGAGCTCCAAAAG 60.747 63.158 8.47 0.00 39.45 2.27
3576 7391 2.351276 GGAGGCCGAGCTCCAAAA 59.649 61.111 8.47 0.00 39.45 2.44
3577 7392 2.927856 TGGAGGCCGAGCTCCAAA 60.928 61.111 8.96 0.00 45.68 3.28
3579 7394 1.852157 AATTTGGAGGCCGAGCTCCA 61.852 55.000 8.47 7.35 46.84 3.86
3580 7395 1.077429 AATTTGGAGGCCGAGCTCC 60.077 57.895 8.47 0.00 40.05 4.70
3581 7396 0.392998 TGAATTTGGAGGCCGAGCTC 60.393 55.000 2.73 2.73 0.00 4.09
3582 7397 0.038166 TTGAATTTGGAGGCCGAGCT 59.962 50.000 0.00 0.00 0.00 4.09
3583 7398 0.887933 TTTGAATTTGGAGGCCGAGC 59.112 50.000 0.00 0.00 0.00 5.03
3584 7399 3.874392 AATTTGAATTTGGAGGCCGAG 57.126 42.857 0.00 0.00 0.00 4.63
3651 7466 7.701539 TGCCTTCATGTACATCTGTATTTTT 57.298 32.000 5.07 0.00 32.54 1.94
3652 7467 7.886629 ATGCCTTCATGTACATCTGTATTTT 57.113 32.000 5.07 0.00 32.54 1.82
3653 7468 8.840321 GTTATGCCTTCATGTACATCTGTATTT 58.160 33.333 5.07 0.00 34.22 1.40
3654 7469 7.992608 TGTTATGCCTTCATGTACATCTGTATT 59.007 33.333 5.07 0.00 34.22 1.89
3655 7470 7.442364 GTGTTATGCCTTCATGTACATCTGTAT 59.558 37.037 5.07 2.83 33.90 2.29
3656 7471 6.761242 GTGTTATGCCTTCATGTACATCTGTA 59.239 38.462 5.07 0.00 33.90 2.74
3657 7472 5.586243 GTGTTATGCCTTCATGTACATCTGT 59.414 40.000 5.07 0.00 33.90 3.41
3658 7473 5.585844 TGTGTTATGCCTTCATGTACATCTG 59.414 40.000 5.07 0.00 33.90 2.90
3659 7474 5.586243 GTGTGTTATGCCTTCATGTACATCT 59.414 40.000 5.07 0.00 33.90 2.90
3660 7475 5.353956 TGTGTGTTATGCCTTCATGTACATC 59.646 40.000 5.07 0.00 33.90 3.06
3661 7476 5.252547 TGTGTGTTATGCCTTCATGTACAT 58.747 37.500 1.41 1.41 33.90 2.29
3662 7477 4.646572 TGTGTGTTATGCCTTCATGTACA 58.353 39.130 0.00 0.00 34.22 2.90
3663 7478 5.123820 ACATGTGTGTTATGCCTTCATGTAC 59.876 40.000 0.00 0.00 41.23 2.90
3664 7479 5.123661 CACATGTGTGTTATGCCTTCATGTA 59.876 40.000 18.03 0.00 41.14 2.29
3665 7480 4.081406 ACATGTGTGTTATGCCTTCATGT 58.919 39.130 0.00 0.00 39.25 3.21
3666 7481 4.417506 CACATGTGTGTTATGCCTTCATG 58.582 43.478 18.03 0.00 40.96 3.07
3667 7482 4.707030 CACATGTGTGTTATGCCTTCAT 57.293 40.909 18.03 0.00 40.96 2.57
3682 7497 8.994429 TTTGAACTGAAATTTTACACACATGT 57.006 26.923 0.00 0.00 43.30 3.21
3697 7512 9.695526 CCTCATTTCAATGTATTTTGAACTGAA 57.304 29.630 15.90 5.83 46.03 3.02
3698 7513 8.306038 CCCTCATTTCAATGTATTTTGAACTGA 58.694 33.333 14.93 14.93 45.33 3.41
3699 7514 7.063780 GCCCTCATTTCAATGTATTTTGAACTG 59.936 37.037 9.63 9.63 43.38 3.16
3700 7515 7.038799 AGCCCTCATTTCAATGTATTTTGAACT 60.039 33.333 0.00 0.00 43.38 3.01
3701 7516 7.063780 CAGCCCTCATTTCAATGTATTTTGAAC 59.936 37.037 0.00 0.00 43.38 3.18
3702 7517 7.098477 CAGCCCTCATTTCAATGTATTTTGAA 58.902 34.615 0.00 0.00 42.33 2.69
3703 7518 6.211184 ACAGCCCTCATTTCAATGTATTTTGA 59.789 34.615 0.00 0.00 37.65 2.69
3704 7519 6.311935 CACAGCCCTCATTTCAATGTATTTTG 59.688 38.462 0.00 0.00 37.65 2.44
3705 7520 6.400568 CACAGCCCTCATTTCAATGTATTTT 58.599 36.000 0.00 0.00 37.65 1.82
3706 7521 5.625197 GCACAGCCCTCATTTCAATGTATTT 60.625 40.000 0.00 0.00 37.65 1.40
3707 7522 4.142093 GCACAGCCCTCATTTCAATGTATT 60.142 41.667 0.00 0.00 37.65 1.89
3708 7523 3.382546 GCACAGCCCTCATTTCAATGTAT 59.617 43.478 0.00 0.00 37.65 2.29
3709 7524 2.754552 GCACAGCCCTCATTTCAATGTA 59.245 45.455 0.00 0.00 37.65 2.29
3710 7525 1.547372 GCACAGCCCTCATTTCAATGT 59.453 47.619 0.00 0.00 37.65 2.71
3711 7526 1.546923 TGCACAGCCCTCATTTCAATG 59.453 47.619 0.00 0.00 37.75 2.82
3712 7527 1.927487 TGCACAGCCCTCATTTCAAT 58.073 45.000 0.00 0.00 0.00 2.57
3713 7528 1.702182 TTGCACAGCCCTCATTTCAA 58.298 45.000 0.00 0.00 0.00 2.69
3714 7529 1.702182 TTTGCACAGCCCTCATTTCA 58.298 45.000 0.00 0.00 0.00 2.69
3715 7530 2.802247 GTTTTTGCACAGCCCTCATTTC 59.198 45.455 0.00 0.00 0.00 2.17
3716 7531 2.802774 CGTTTTTGCACAGCCCTCATTT 60.803 45.455 0.00 0.00 0.00 2.32
3717 7532 1.269726 CGTTTTTGCACAGCCCTCATT 60.270 47.619 0.00 0.00 0.00 2.57
3718 7533 0.314935 CGTTTTTGCACAGCCCTCAT 59.685 50.000 0.00 0.00 0.00 2.90
3719 7534 0.749818 TCGTTTTTGCACAGCCCTCA 60.750 50.000 0.00 0.00 0.00 3.86
3720 7535 0.317854 GTCGTTTTTGCACAGCCCTC 60.318 55.000 0.00 0.00 0.00 4.30
3721 7536 1.034838 TGTCGTTTTTGCACAGCCCT 61.035 50.000 0.00 0.00 0.00 5.19
3722 7537 0.179124 TTGTCGTTTTTGCACAGCCC 60.179 50.000 0.00 0.00 0.00 5.19
3723 7538 1.634702 TTTGTCGTTTTTGCACAGCC 58.365 45.000 0.00 0.00 0.00 4.85
3724 7539 3.061006 CAGATTTGTCGTTTTTGCACAGC 60.061 43.478 0.00 0.00 0.00 4.40
3725 7540 3.486841 CCAGATTTGTCGTTTTTGCACAG 59.513 43.478 0.00 0.00 0.00 3.66
3726 7541 3.443037 CCAGATTTGTCGTTTTTGCACA 58.557 40.909 0.00 0.00 0.00 4.57
3727 7542 2.794350 CCCAGATTTGTCGTTTTTGCAC 59.206 45.455 0.00 0.00 0.00 4.57
3728 7543 2.223923 CCCCAGATTTGTCGTTTTTGCA 60.224 45.455 0.00 0.00 0.00 4.08
3729 7544 2.403259 CCCCAGATTTGTCGTTTTTGC 58.597 47.619 0.00 0.00 0.00 3.68
3730 7545 2.035832 AGCCCCAGATTTGTCGTTTTTG 59.964 45.455 0.00 0.00 0.00 2.44
3731 7546 2.035832 CAGCCCCAGATTTGTCGTTTTT 59.964 45.455 0.00 0.00 0.00 1.94
3732 7547 1.613437 CAGCCCCAGATTTGTCGTTTT 59.387 47.619 0.00 0.00 0.00 2.43
3733 7548 1.247567 CAGCCCCAGATTTGTCGTTT 58.752 50.000 0.00 0.00 0.00 3.60
3734 7549 0.110486 ACAGCCCCAGATTTGTCGTT 59.890 50.000 0.00 0.00 0.00 3.85
3735 7550 0.110486 AACAGCCCCAGATTTGTCGT 59.890 50.000 0.00 0.00 0.00 4.34
3736 7551 1.247567 AAACAGCCCCAGATTTGTCG 58.752 50.000 0.00 0.00 0.00 4.35
3737 7552 5.417580 TGTATTAAACAGCCCCAGATTTGTC 59.582 40.000 0.00 0.00 33.01 3.18
3738 7553 5.329399 TGTATTAAACAGCCCCAGATTTGT 58.671 37.500 0.00 0.00 33.01 2.83
3739 7554 5.913137 TGTATTAAACAGCCCCAGATTTG 57.087 39.130 0.00 0.00 33.01 2.32
3740 7555 6.194235 TCATGTATTAAACAGCCCCAGATTT 58.806 36.000 0.00 0.00 42.70 2.17
3741 7556 5.765510 TCATGTATTAAACAGCCCCAGATT 58.234 37.500 0.00 0.00 42.70 2.40
3742 7557 5.387113 TCATGTATTAAACAGCCCCAGAT 57.613 39.130 0.00 0.00 42.70 2.90
3743 7558 4.853468 TCATGTATTAAACAGCCCCAGA 57.147 40.909 0.00 0.00 42.70 3.86
3744 7559 6.299141 AGTATCATGTATTAAACAGCCCCAG 58.701 40.000 0.00 0.00 42.70 4.45
3745 7560 6.260700 AGTATCATGTATTAAACAGCCCCA 57.739 37.500 0.00 0.00 42.70 4.96
3746 7561 8.863872 AATAGTATCATGTATTAAACAGCCCC 57.136 34.615 0.00 0.00 42.70 5.80
3747 7562 9.502091 TGAATAGTATCATGTATTAAACAGCCC 57.498 33.333 0.00 0.00 42.70 5.19
3754 7569 9.944376 GGGAAGCTGAATAGTATCATGTATTAA 57.056 33.333 0.00 0.00 0.00 1.40
3755 7570 9.100197 TGGGAAGCTGAATAGTATCATGTATTA 57.900 33.333 0.00 0.00 0.00 0.98
3756 7571 7.977818 TGGGAAGCTGAATAGTATCATGTATT 58.022 34.615 0.00 0.00 0.00 1.89
3757 7572 7.310921 CCTGGGAAGCTGAATAGTATCATGTAT 60.311 40.741 0.00 0.00 0.00 2.29
3758 7573 6.014242 CCTGGGAAGCTGAATAGTATCATGTA 60.014 42.308 0.00 0.00 0.00 2.29
3759 7574 5.221803 CCTGGGAAGCTGAATAGTATCATGT 60.222 44.000 0.00 0.00 0.00 3.21
3760 7575 5.243981 CCTGGGAAGCTGAATAGTATCATG 58.756 45.833 0.00 0.00 0.00 3.07
3761 7576 4.263243 GCCTGGGAAGCTGAATAGTATCAT 60.263 45.833 0.00 0.00 0.00 2.45
3762 7577 3.071602 GCCTGGGAAGCTGAATAGTATCA 59.928 47.826 0.00 0.00 0.00 2.15
3763 7578 3.558109 GGCCTGGGAAGCTGAATAGTATC 60.558 52.174 0.00 0.00 0.00 2.24
3764 7579 2.373502 GGCCTGGGAAGCTGAATAGTAT 59.626 50.000 0.00 0.00 0.00 2.12
3765 7580 1.768870 GGCCTGGGAAGCTGAATAGTA 59.231 52.381 0.00 0.00 0.00 1.82
3766 7581 0.548510 GGCCTGGGAAGCTGAATAGT 59.451 55.000 0.00 0.00 0.00 2.12
3767 7582 0.548031 TGGCCTGGGAAGCTGAATAG 59.452 55.000 3.32 0.00 0.00 1.73
3768 7583 1.133699 CATGGCCTGGGAAGCTGAATA 60.134 52.381 3.32 0.00 0.00 1.75
3769 7584 0.396695 CATGGCCTGGGAAGCTGAAT 60.397 55.000 3.32 0.00 0.00 2.57
3770 7585 1.000521 CATGGCCTGGGAAGCTGAA 60.001 57.895 3.32 0.00 0.00 3.02
3771 7586 1.499913 TTCATGGCCTGGGAAGCTGA 61.500 55.000 3.32 0.00 0.00 4.26
3772 7587 0.396695 ATTCATGGCCTGGGAAGCTG 60.397 55.000 3.32 0.00 0.00 4.24
3773 7588 0.337428 AATTCATGGCCTGGGAAGCT 59.663 50.000 3.32 0.00 0.00 3.74
3774 7589 1.134610 CAAATTCATGGCCTGGGAAGC 60.135 52.381 3.32 0.00 0.00 3.86
3775 7590 2.167075 GACAAATTCATGGCCTGGGAAG 59.833 50.000 3.32 0.00 0.00 3.46
3776 7591 2.178580 GACAAATTCATGGCCTGGGAA 58.821 47.619 3.32 5.48 0.00 3.97
3777 7592 1.358787 AGACAAATTCATGGCCTGGGA 59.641 47.619 3.32 0.00 0.00 4.37
3778 7593 1.856629 AGACAAATTCATGGCCTGGG 58.143 50.000 3.32 0.00 0.00 4.45
3779 7594 3.967332 AAAGACAAATTCATGGCCTGG 57.033 42.857 3.32 0.00 0.00 4.45
3798 7613 3.271729 TGAGTTGCGACCTGTACAAAAA 58.728 40.909 0.00 0.00 0.00 1.94
3799 7614 2.907634 TGAGTTGCGACCTGTACAAAA 58.092 42.857 0.00 0.00 0.00 2.44
3800 7615 2.605837 TGAGTTGCGACCTGTACAAA 57.394 45.000 0.00 0.00 0.00 2.83
3801 7616 2.605837 TTGAGTTGCGACCTGTACAA 57.394 45.000 0.00 0.00 0.00 2.41
3802 7617 2.159014 ACTTTGAGTTGCGACCTGTACA 60.159 45.455 0.00 0.00 0.00 2.90
3803 7618 2.480845 ACTTTGAGTTGCGACCTGTAC 58.519 47.619 0.00 0.00 0.00 2.90
3804 7619 2.902705 ACTTTGAGTTGCGACCTGTA 57.097 45.000 0.00 0.00 0.00 2.74
3805 7620 2.902705 TACTTTGAGTTGCGACCTGT 57.097 45.000 0.00 0.00 0.00 4.00
3806 7621 4.213270 TGAAATACTTTGAGTTGCGACCTG 59.787 41.667 0.00 0.00 0.00 4.00
3807 7622 4.385825 TGAAATACTTTGAGTTGCGACCT 58.614 39.130 0.00 0.00 0.00 3.85
3808 7623 4.742438 TGAAATACTTTGAGTTGCGACC 57.258 40.909 0.00 0.00 0.00 4.79
3809 7624 5.927030 TGATGAAATACTTTGAGTTGCGAC 58.073 37.500 0.00 0.00 0.00 5.19
3810 7625 6.371271 TCATGATGAAATACTTTGAGTTGCGA 59.629 34.615 0.00 0.00 0.00 5.10
3811 7626 6.545508 TCATGATGAAATACTTTGAGTTGCG 58.454 36.000 0.00 0.00 0.00 4.85
3812 7627 8.922058 ATTCATGATGAAATACTTTGAGTTGC 57.078 30.769 12.36 0.00 40.12 4.17
3825 7640 9.761504 ACATGTGTGTAAAAATTCATGATGAAA 57.238 25.926 12.36 0.00 37.02 2.69
3826 7641 9.194271 CACATGTGTGTAAAAATTCATGATGAA 57.806 29.630 18.03 10.65 39.72 2.57
3827 7642 7.813627 CCACATGTGTGTAAAAATTCATGATGA 59.186 33.333 23.79 0.00 44.21 2.92
3828 7643 7.813627 TCCACATGTGTGTAAAAATTCATGATG 59.186 33.333 23.79 2.73 44.21 3.07
3829 7644 7.894708 TCCACATGTGTGTAAAAATTCATGAT 58.105 30.769 23.79 0.00 44.21 2.45
3830 7645 7.282332 TCCACATGTGTGTAAAAATTCATGA 57.718 32.000 23.79 6.36 44.21 3.07
3831 7646 8.537049 AATCCACATGTGTGTAAAAATTCATG 57.463 30.769 23.79 4.06 44.21 3.07
3832 7647 9.638239 GTAATCCACATGTGTGTAAAAATTCAT 57.362 29.630 23.79 0.52 44.21 2.57
3833 7648 7.805542 CGTAATCCACATGTGTGTAAAAATTCA 59.194 33.333 23.79 0.00 44.21 2.57
3834 7649 7.806014 ACGTAATCCACATGTGTGTAAAAATTC 59.194 33.333 23.79 3.90 44.21 2.17
3835 7650 7.653647 ACGTAATCCACATGTGTGTAAAAATT 58.346 30.769 23.79 12.88 44.21 1.82
3836 7651 7.209471 ACGTAATCCACATGTGTGTAAAAAT 57.791 32.000 23.79 4.58 44.21 1.82
3837 7652 6.621316 ACGTAATCCACATGTGTGTAAAAA 57.379 33.333 23.79 0.70 44.21 1.94
3838 7653 6.230849 GACGTAATCCACATGTGTGTAAAA 57.769 37.500 23.79 2.25 44.21 1.52
3839 7654 5.849357 GACGTAATCCACATGTGTGTAAA 57.151 39.130 23.79 5.01 44.21 2.01
3853 7668 4.353737 TGCGTGTATGTAAGGACGTAATC 58.646 43.478 0.00 0.00 34.32 1.75
3854 7669 4.374843 TGCGTGTATGTAAGGACGTAAT 57.625 40.909 0.00 0.00 34.32 1.89
3855 7670 3.846423 TGCGTGTATGTAAGGACGTAA 57.154 42.857 0.00 0.00 34.32 3.18
3856 7671 5.694231 ATATGCGTGTATGTAAGGACGTA 57.306 39.130 0.00 0.00 34.32 3.57
3857 7672 2.953466 ATGCGTGTATGTAAGGACGT 57.047 45.000 0.00 0.00 34.32 4.34
3858 7673 5.900339 AAATATGCGTGTATGTAAGGACG 57.100 39.130 0.00 0.00 34.93 4.79


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

AutoCloner maintained by Alex Coulton.