Multiple sequence alignment - TraesCS4B01G180500

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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 TraesCS4B01G180500 chr4B 100.000 7094 0 0 1 7094 395244967 395252060 0.000000e+00 13101.0
1 TraesCS4B01G180500 chr4A 95.051 3718 129 23 4 3677 156804372 156800666 0.000000e+00 5795.0
2 TraesCS4B01G180500 chr4A 94.747 3255 100 25 3731 6941 156800680 156797453 0.000000e+00 4998.0
3 TraesCS4B01G180500 chr4D 94.732 3512 111 27 220 3677 317948739 317952230 0.000000e+00 5393.0
4 TraesCS4B01G180500 chr4D 95.022 3395 118 29 3731 7094 317952216 317955590 0.000000e+00 5286.0
5 TraesCS4B01G180500 chr4D 92.373 236 17 1 1 236 317948491 317948725 1.140000e-87 335.0
6 TraesCS4B01G180500 chr4D 87.719 114 7 6 423 534 317948999 317949107 7.470000e-25 126.0
7 TraesCS4B01G180500 chr7B 98.438 64 1 0 3668 3731 712096154 712096091 5.820000e-21 113.0
8 TraesCS4B01G180500 chr7B 100.000 60 0 0 3675 3734 305604537 305604596 2.090000e-20 111.0
9 TraesCS4B01G180500 chr7B 96.491 57 2 0 3675 3731 518411998 518411942 2.110000e-15 95.3
10 TraesCS4B01G180500 chrUn 93.333 75 3 2 3675 3748 11849438 11849365 7.520000e-20 110.0
11 TraesCS4B01G180500 chrUn 93.333 75 3 2 3675 3748 351755916 351755989 7.520000e-20 110.0
12 TraesCS4B01G180500 chrUn 93.333 75 3 2 3675 3748 361811455 361811382 7.520000e-20 110.0
13 TraesCS4B01G180500 chrUn 93.333 75 3 2 3675 3748 380526822 380526895 7.520000e-20 110.0
14 TraesCS4B01G180500 chr3A 98.387 62 1 0 3670 3731 303833263 303833202 7.520000e-20 110.0
15 TraesCS4B01G180500 chr5A 94.286 70 2 1 3664 3731 416223583 416223652 9.730000e-19 106.0


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 TraesCS4B01G180500 chr4B 395244967 395252060 7093 False 13101.0 13101 100.0000 1 7094 1 chr4B.!!$F1 7093
1 TraesCS4B01G180500 chr4A 156797453 156804372 6919 True 5396.5 5795 94.8990 4 6941 2 chr4A.!!$R1 6937
2 TraesCS4B01G180500 chr4D 317948491 317955590 7099 False 2785.0 5393 92.4615 1 7094 4 chr4D.!!$F1 7093

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
383 416 0.517316 AGTGGCGCGAAAGAAATGAC 59.483 50.000 12.1 0.0 0.00 3.06 F
385 418 1.225376 TGGCGCGAAAGAAATGACGT 61.225 50.000 12.1 0.0 0.00 4.34 F
663 701 2.369394 CTGTCTGGGATTTAAGGGCAC 58.631 52.381 0.0 0.0 0.00 5.01 F
1474 1521 0.896923 TTGCAATGTGGGCTGGAATC 59.103 50.000 0.0 0.0 0.00 2.52 F
2040 2088 0.680618 TTTGGTGCTTGGCAGAATGG 59.319 50.000 0.0 0.0 40.08 3.16 F
3683 3779 1.032014 TGCTGAAAGAAACCTGGTGC 58.968 50.000 0.0 0.0 34.07 5.01 F
3684 3780 1.032014 GCTGAAAGAAACCTGGTGCA 58.968 50.000 0.0 0.0 34.07 4.57 F
5293 5415 1.265905 GTCCAACTTTAACTGGCGTGG 59.734 52.381 0.0 0.0 32.33 4.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1185 1229 0.179018 TCATCCTGGCGAGATCGAGA 60.179 55.000 6.39 0.00 43.02 4.04 R
1474 1521 0.248289 ACAACCGGATTACAGGTCGG 59.752 55.000 9.46 0.00 43.29 4.79 R
1652 1700 1.139654 TCAGCCTAGCATCACACCATC 59.860 52.381 0.00 0.00 0.00 3.51 R
3327 3402 2.607180 AGCAACGCAAAAATGAAACCAC 59.393 40.909 0.00 0.00 0.00 4.16 R
3712 3808 0.109913 AAAAGTGGTCGGACCCTTCC 59.890 55.000 23.81 9.51 37.50 3.46 R
5419 5556 1.639298 AAGCTGAAGTCCGCAATCGC 61.639 55.000 0.00 0.00 0.00 4.58 R
5540 5677 1.832883 TTGCAGCATATGGAAACGGT 58.167 45.000 4.56 0.00 36.14 4.83 R
6825 6966 0.035458 CCCCGGGCTTCACATATCTC 59.965 60.000 17.73 0.00 0.00 2.75 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
107 108 6.851222 ACTAAAAGATATGAAGACATGGCG 57.149 37.500 0.00 0.00 37.87 5.69
127 129 2.285220 CGTGGAGCAATGTTAATCTCGG 59.715 50.000 0.00 0.00 0.00 4.63
129 131 3.309954 GTGGAGCAATGTTAATCTCGGTC 59.690 47.826 0.00 0.00 0.00 4.79
159 162 6.155393 ACAGTAAGAAATGTTTTCACCCCAAA 59.845 34.615 3.11 0.00 0.00 3.28
186 189 7.515528 CGACAGAACACATTTACGACTAAAACA 60.516 37.037 0.00 0.00 0.00 2.83
187 190 8.149973 ACAGAACACATTTACGACTAAAACAT 57.850 30.769 0.00 0.00 0.00 2.71
193 196 5.177881 ACATTTACGACTAAAACATGTGCGA 59.822 36.000 0.00 0.00 0.00 5.10
199 202 2.220133 ACTAAAACATGTGCGACGTGAC 59.780 45.455 0.00 0.00 37.29 3.67
203 206 2.430244 ATGTGCGACGTGACGACC 60.430 61.111 13.70 1.66 35.09 4.79
272 305 7.076362 GCACGAAAGATATGACGTAGAAGATA 58.924 38.462 0.00 0.00 37.22 1.98
273 306 7.590322 GCACGAAAGATATGACGTAGAAGATAA 59.410 37.037 0.00 0.00 37.22 1.75
274 307 8.893884 CACGAAAGATATGACGTAGAAGATAAC 58.106 37.037 0.00 0.00 37.22 1.89
313 346 0.523519 TACATGCAAAATGGCGCGAA 59.476 45.000 12.10 0.00 36.28 4.70
320 353 5.363979 TGCAAAATGGCGCGAAATATATA 57.636 34.783 12.10 0.00 36.28 0.86
341 374 6.920569 ATAACATAGAAGGCAACGGTAAAG 57.079 37.500 0.00 0.00 46.39 1.85
376 409 3.944422 ATATGTAAAGTGGCGCGAAAG 57.056 42.857 12.10 0.00 0.00 2.62
377 410 1.803334 ATGTAAAGTGGCGCGAAAGA 58.197 45.000 12.10 0.00 0.00 2.52
378 411 1.584175 TGTAAAGTGGCGCGAAAGAA 58.416 45.000 12.10 0.00 0.00 2.52
379 412 1.941294 TGTAAAGTGGCGCGAAAGAAA 59.059 42.857 12.10 0.00 0.00 2.52
383 416 0.517316 AGTGGCGCGAAAGAAATGAC 59.483 50.000 12.10 0.00 0.00 3.06
385 418 1.225376 TGGCGCGAAAGAAATGACGT 61.225 50.000 12.10 0.00 0.00 4.34
395 428 7.111768 GCGAAAGAAATGACGTAGAAGATAAC 58.888 38.462 0.00 0.00 0.00 1.89
505 540 6.640907 AGAAAAATGGCGTGAAAAATACTGAC 59.359 34.615 0.00 0.00 0.00 3.51
508 543 3.472652 TGGCGTGAAAAATACTGACAGT 58.527 40.909 13.68 13.68 0.00 3.55
509 544 3.880490 TGGCGTGAAAAATACTGACAGTT 59.120 39.130 14.50 0.00 0.00 3.16
516 551 7.141363 GTGAAAAATACTGACAGTTTGCATCT 58.859 34.615 14.50 0.00 0.00 2.90
517 552 7.324616 GTGAAAAATACTGACAGTTTGCATCTC 59.675 37.037 14.50 5.31 0.00 2.75
518 553 6.882610 AAAATACTGACAGTTTGCATCTCA 57.117 33.333 14.50 0.00 0.00 3.27
519 554 7.458409 AAAATACTGACAGTTTGCATCTCAT 57.542 32.000 14.50 0.00 0.00 2.90
520 555 6.674694 AATACTGACAGTTTGCATCTCATC 57.325 37.500 14.50 0.00 0.00 2.92
523 558 3.603532 TGACAGTTTGCATCTCATCCTC 58.396 45.455 0.00 0.00 0.00 3.71
534 569 5.472478 TGCATCTCATCCTCATTTGCTATTC 59.528 40.000 0.00 0.00 0.00 1.75
545 580 8.956426 TCCTCATTTGCTATTCGTTAAGAAAAT 58.044 29.630 0.00 0.00 42.91 1.82
548 583 7.487829 TCATTTGCTATTCGTTAAGAAAATGGC 59.512 33.333 18.47 8.76 44.11 4.40
549 584 4.904116 TGCTATTCGTTAAGAAAATGGCG 58.096 39.130 7.67 0.00 42.91 5.69
550 585 4.393680 TGCTATTCGTTAAGAAAATGGCGT 59.606 37.500 7.67 0.00 42.91 5.68
551 586 4.728608 GCTATTCGTTAAGAAAATGGCGTG 59.271 41.667 0.00 0.00 42.91 5.34
552 587 5.446741 GCTATTCGTTAAGAAAATGGCGTGA 60.447 40.000 0.00 0.00 42.91 4.35
627 665 6.680148 ACCATGCTAAAAAGGGTGTTAAAT 57.320 33.333 0.00 0.00 0.00 1.40
649 687 8.816640 AAATACATAAAACTTTTGGCTGTCTG 57.183 30.769 0.00 0.00 0.00 3.51
663 701 2.369394 CTGTCTGGGATTTAAGGGCAC 58.631 52.381 0.00 0.00 0.00 5.01
1185 1229 4.175489 CGCCCGATCGTCGTCTGT 62.175 66.667 15.09 0.00 38.40 3.41
1474 1521 0.896923 TTGCAATGTGGGCTGGAATC 59.103 50.000 0.00 0.00 0.00 2.52
1830 1878 0.911769 ATTTCAGCGATGGGTCCTGA 59.088 50.000 0.00 0.00 33.02 3.86
1871 1919 2.418060 GCTACTGGAGAGCCTTGACTTC 60.418 54.545 0.00 0.00 33.60 3.01
1888 1936 5.885881 TGACTTCGTTTGTTTGCAACTTAT 58.114 33.333 0.00 0.00 33.82 1.73
1936 1984 1.636148 TGTTAGGTTAGGGTCAGCGT 58.364 50.000 0.00 0.00 0.00 5.07
2040 2088 0.680618 TTTGGTGCTTGGCAGAATGG 59.319 50.000 0.00 0.00 40.08 3.16
2111 2159 5.594317 AGAAACAATTACTGGTGAAGCAGTT 59.406 36.000 19.23 0.98 33.26 3.16
2511 2585 2.369668 TCCCCAATTCCCTAAGGTGA 57.630 50.000 0.00 0.00 0.00 4.02
2682 2756 7.548427 GGTAAACTTAAGGACTGTAACTGGATC 59.452 40.741 7.53 0.00 0.00 3.36
2697 2771 6.764308 AACTGGATCTCCATGTTTACAATG 57.236 37.500 0.00 0.00 46.46 2.82
2702 2776 5.126061 GGATCTCCATGTTTACAATGTTGCT 59.874 40.000 0.00 0.00 35.64 3.91
2728 2802 4.892934 TGTATCCAATGCATTTCCCCTTAC 59.107 41.667 9.83 6.92 0.00 2.34
3010 3084 3.806949 ATTGAAAGTGCTAGGGTTCCA 57.193 42.857 0.00 0.00 0.00 3.53
3055 3129 5.123820 CGGTGTGTCAGTTGATTTTCCATAT 59.876 40.000 0.00 0.00 0.00 1.78
3124 3198 4.430007 TGTGATGATTACACGTCTTAGGC 58.570 43.478 0.00 0.00 40.61 3.93
3134 3208 4.741342 ACACGTCTTAGGCTACATGTTAC 58.259 43.478 2.30 0.00 0.00 2.50
3228 3303 5.741388 TCAACTTCTTTCTCAAACAGCTC 57.259 39.130 0.00 0.00 0.00 4.09
3410 3485 5.241403 TGGTGTCATTTCATCTAACCAGT 57.759 39.130 0.00 0.00 32.62 4.00
3445 3520 3.838244 AAGCAGTGAACAGTGACCTAA 57.162 42.857 12.97 0.00 33.67 2.69
3476 3551 3.193479 CCCAAGTTTTTCTCAGGCCATAC 59.807 47.826 5.01 0.00 0.00 2.39
3477 3552 3.193479 CCAAGTTTTTCTCAGGCCATACC 59.807 47.826 5.01 0.00 39.61 2.73
3553 3649 7.740346 CACTTAAACGAGTCAAATGTGATACAC 59.260 37.037 0.00 0.00 35.80 2.90
3680 3776 3.062042 GCATTTGCTGAAAGAAACCTGG 58.938 45.455 0.00 0.00 38.21 4.45
3681 3777 3.493176 GCATTTGCTGAAAGAAACCTGGT 60.493 43.478 0.00 0.00 38.21 4.00
3682 3778 3.799281 TTTGCTGAAAGAAACCTGGTG 57.201 42.857 0.00 0.00 34.07 4.17
3683 3779 1.032014 TGCTGAAAGAAACCTGGTGC 58.968 50.000 0.00 0.00 34.07 5.01
3684 3780 1.032014 GCTGAAAGAAACCTGGTGCA 58.968 50.000 0.00 0.00 34.07 4.57
3685 3781 1.615392 GCTGAAAGAAACCTGGTGCAT 59.385 47.619 0.00 0.00 34.07 3.96
3686 3782 2.608752 GCTGAAAGAAACCTGGTGCATG 60.609 50.000 0.00 0.00 34.07 4.06
3687 3783 2.624838 CTGAAAGAAACCTGGTGCATGT 59.375 45.455 0.00 0.00 34.07 3.21
3688 3784 3.820467 CTGAAAGAAACCTGGTGCATGTA 59.180 43.478 0.00 0.00 34.07 2.29
3689 3785 3.820467 TGAAAGAAACCTGGTGCATGTAG 59.180 43.478 0.00 0.00 0.00 2.74
3690 3786 1.826385 AGAAACCTGGTGCATGTAGC 58.174 50.000 6.00 6.00 45.96 3.58
3691 3787 1.352352 AGAAACCTGGTGCATGTAGCT 59.648 47.619 14.15 0.00 45.94 3.32
3692 3788 1.740025 GAAACCTGGTGCATGTAGCTC 59.260 52.381 14.15 0.00 45.94 4.09
3698 3794 1.450312 GTGCATGTAGCTCCCGCTT 60.450 57.895 0.00 0.00 46.47 4.68
3699 3795 1.450134 TGCATGTAGCTCCCGCTTG 60.450 57.895 0.00 0.00 46.47 4.01
3700 3796 2.828128 GCATGTAGCTCCCGCTTGC 61.828 63.158 0.00 0.00 46.47 4.01
3701 3797 2.202932 ATGTAGCTCCCGCTTGCG 60.203 61.111 8.14 8.14 46.47 4.85
3704 3800 4.819761 TAGCTCCCGCTTGCGCAG 62.820 66.667 11.31 6.32 46.47 5.18
3716 3812 4.785453 GCGCAGGGTCCAGGGAAG 62.785 72.222 0.30 0.00 0.00 3.46
3717 3813 4.101448 CGCAGGGTCCAGGGAAGG 62.101 72.222 0.00 0.00 0.00 3.46
3718 3814 3.732849 GCAGGGTCCAGGGAAGGG 61.733 72.222 0.00 0.00 0.00 3.95
3719 3815 2.204151 CAGGGTCCAGGGAAGGGT 60.204 66.667 0.00 0.00 0.00 4.34
3720 3816 2.125225 AGGGTCCAGGGAAGGGTC 59.875 66.667 0.00 0.00 0.00 4.46
3721 3817 3.015753 GGGTCCAGGGAAGGGTCC 61.016 72.222 0.00 0.00 44.10 4.46
3722 3818 3.400054 GGTCCAGGGAAGGGTCCG 61.400 72.222 0.00 0.00 46.04 4.79
3723 3819 2.284405 GTCCAGGGAAGGGTCCGA 60.284 66.667 0.00 0.00 46.04 4.55
3724 3820 2.284405 TCCAGGGAAGGGTCCGAC 60.284 66.667 0.00 0.00 46.04 4.79
3725 3821 3.400054 CCAGGGAAGGGTCCGACC 61.400 72.222 9.30 9.30 46.04 4.79
3726 3822 2.606519 CAGGGAAGGGTCCGACCA 60.607 66.667 19.43 0.00 46.04 4.02
3727 3823 2.606826 AGGGAAGGGTCCGACCAC 60.607 66.667 19.43 8.70 46.04 4.16
3728 3824 2.606826 GGGAAGGGTCCGACCACT 60.607 66.667 19.43 10.80 46.04 4.00
3729 3825 2.222013 GGGAAGGGTCCGACCACTT 61.222 63.158 19.43 17.88 46.04 3.16
3845 3941 3.661936 CGTTTGCTAGAGAAAGTTGACGC 60.662 47.826 0.00 0.00 0.00 5.19
3873 3969 3.255642 GCTGGAGATGTCTATCTGGAGTC 59.744 52.174 0.00 0.00 43.63 3.36
3977 4081 9.421806 CATCATTGTTGCCATTCTTTACTTTTA 57.578 29.630 0.00 0.00 0.00 1.52
4051 4155 1.712977 GCTGATAGTGGCTGTGCTGC 61.713 60.000 0.00 0.00 0.00 5.25
4153 4258 9.967451 TTTCCAAAACCCTTCTTTCTTATTTTT 57.033 25.926 0.00 0.00 0.00 1.94
4286 4391 8.455682 CGTGGTTTGCCTTTTCTCTATTTATAA 58.544 33.333 0.00 0.00 35.27 0.98
4529 4636 1.694696 ACACCTCTTTGGAGTCCTGAC 59.305 52.381 11.33 0.00 34.48 3.51
4706 4813 6.010219 ACCTAATTTATGCCACACTGTTCTT 58.990 36.000 0.00 0.00 0.00 2.52
4800 4907 7.385205 GCAACTAAGTTGTAGAAGAGTCATGAA 59.615 37.037 0.00 0.00 44.40 2.57
4933 5042 2.908626 GCTTTTATGCGTCAAGGTTTCG 59.091 45.455 1.09 0.00 0.00 3.46
4954 5063 4.631377 TCGAATAAGCAATTGACTCACCTG 59.369 41.667 10.34 0.00 0.00 4.00
5005 5123 3.011257 CCTTTTCTATTCCCCTGTTCCCA 59.989 47.826 0.00 0.00 0.00 4.37
5132 5254 5.126061 CAGCAACTTAAATAGGCCATGTTCT 59.874 40.000 5.01 0.00 0.00 3.01
5293 5415 1.265905 GTCCAACTTTAACTGGCGTGG 59.734 52.381 0.00 0.00 32.33 4.94
5315 5437 4.514066 GGTTAGTTCTGTGTAGGTGGTTTG 59.486 45.833 0.00 0.00 0.00 2.93
5337 5459 9.548208 GTTTGCTTATTGAACTGTAGAAAGATC 57.452 33.333 0.00 0.00 0.00 2.75
5399 5521 2.337583 TGTTGTAAGATCTGCGCTGAC 58.662 47.619 19.81 12.95 0.00 3.51
5419 5556 1.854743 CGCATCCATGACACGTCTAAG 59.145 52.381 0.00 0.00 0.00 2.18
5436 5573 2.401195 GCGATTGCGGACTTCAGC 59.599 61.111 0.00 0.00 38.16 4.26
5540 5677 3.571828 TCGACTGGAATTGGATTTTTGCA 59.428 39.130 0.00 0.00 0.00 4.08
5792 5929 1.219213 TGGTTGTGACCCAAATCCCTT 59.781 47.619 0.00 0.00 45.92 3.95
5810 5947 4.590647 TCCCTTAGAGCAAGTGGATCATAG 59.409 45.833 0.00 0.00 33.23 2.23
5949 6086 4.037923 GGAAAGGAAAAGTGTGCTCATTCA 59.962 41.667 0.00 0.00 0.00 2.57
6006 6143 4.156556 GTGCCTAAAAGCATGTCTGATCAA 59.843 41.667 0.00 0.00 46.24 2.57
6075 6212 3.083349 CCACCGATGAGGCAGGGA 61.083 66.667 0.00 0.00 46.52 4.20
6161 6300 5.552870 AGAACCTGAGTTTCTTCAGCTTA 57.447 39.130 0.00 0.00 42.58 3.09
6167 6306 4.319177 TGAGTTTCTTCAGCTTAGAAGGC 58.681 43.478 12.48 8.22 44.01 4.35
6168 6307 4.040952 TGAGTTTCTTCAGCTTAGAAGGCT 59.959 41.667 12.48 11.72 44.01 4.58
6177 6316 2.154462 GCTTAGAAGGCTGTTTGCAGA 58.846 47.619 0.00 0.00 45.28 4.26
6178 6317 2.751806 GCTTAGAAGGCTGTTTGCAGAT 59.248 45.455 0.00 0.00 45.28 2.90
6184 6323 2.157738 AGGCTGTTTGCAGATTCAGAC 58.842 47.619 11.64 9.43 45.28 3.51
6205 6344 2.482839 CGGCATTTCTGGTGGTTTTTGT 60.483 45.455 0.00 0.00 0.00 2.83
6224 6363 0.821711 TTGGAGTTGGGGCTTGTTCG 60.822 55.000 0.00 0.00 0.00 3.95
6367 6506 3.517901 AGGCTTGTAGCAGGTACATGTAA 59.482 43.478 20.78 5.03 44.75 2.41
6375 6514 5.505173 AGCAGGTACATGTAAATTCATGC 57.495 39.130 17.96 17.96 46.15 4.06
6401 6541 6.376864 ACACAGCATAGCAATTGGTATACAAA 59.623 34.615 25.42 4.05 43.46 2.83
6402 6542 7.068593 ACACAGCATAGCAATTGGTATACAAAT 59.931 33.333 25.42 10.15 43.46 2.32
6403 6543 7.380333 CACAGCATAGCAATTGGTATACAAATG 59.620 37.037 25.42 20.20 43.46 2.32
6435 6575 3.057734 GCAGTGTAGGAAGTGTGTGTAC 58.942 50.000 0.00 0.00 0.00 2.90
6457 6597 4.277423 ACAACTGTAGGTGTAATGTTTGGC 59.723 41.667 0.00 0.00 0.00 4.52
6479 6619 2.697751 ACCCAGCAGCAAAATGTGTAAA 59.302 40.909 0.00 0.00 0.00 2.01
6513 6653 0.313043 CAGAGCTGTTTTGCTGGGTG 59.687 55.000 0.00 0.00 44.17 4.61
6537 6677 0.105760 AAATGCAGGGGGTGTTGTGA 60.106 50.000 0.00 0.00 0.00 3.58
6551 6691 0.887247 TTGTGAAATGTGGATGGCGG 59.113 50.000 0.00 0.00 0.00 6.13
6663 6804 6.203338 GGATGAATGAATGTTTGCTGTTGTTT 59.797 34.615 0.00 0.00 0.00 2.83
6701 6842 3.118038 TCTTGGGCTTACTGTTCAGTGTT 60.118 43.478 14.69 0.00 0.00 3.32
6791 6932 3.446873 GGCATTGGGTGTCACATTGATAA 59.553 43.478 5.12 0.00 30.99 1.75
6801 6942 7.412853 GGTGTCACATTGATAATGATCTTGTC 58.587 38.462 5.12 0.00 41.46 3.18
6809 6950 6.932356 TGATAATGATCTTGTCCAGCTTTC 57.068 37.500 0.00 0.00 32.79 2.62
6810 6951 5.525012 TGATAATGATCTTGTCCAGCTTTCG 59.475 40.000 0.00 0.00 32.79 3.46
6811 6952 1.442769 TGATCTTGTCCAGCTTTCGC 58.557 50.000 0.00 0.00 0.00 4.70
6812 6953 9.940798 TGATAATGATCTTGTCCAGCTTTCGCT 62.941 40.741 0.00 0.00 38.93 4.93
6825 6966 2.466205 GCTTTCGCTGGTTTTGTAAACG 59.534 45.455 0.00 0.00 0.00 3.60
6843 6984 0.319900 CGAGATATGTGAAGCCCGGG 60.320 60.000 19.09 19.09 0.00 5.73
6857 6998 2.189521 CGGGGGAAGATTGGACCG 59.810 66.667 0.00 0.00 35.01 4.79
6899 7040 1.895131 TGAGCATTTCTTCTTTGGCCC 59.105 47.619 0.00 0.00 0.00 5.80
6968 7109 7.961326 AATCTTATTTTTACATGCCCACTCT 57.039 32.000 0.00 0.00 0.00 3.24
6969 7110 7.573968 ATCTTATTTTTACATGCCCACTCTC 57.426 36.000 0.00 0.00 0.00 3.20
6974 7115 3.350219 TTACATGCCCACTCTCCTTTC 57.650 47.619 0.00 0.00 0.00 2.62
6988 7129 5.103771 ACTCTCCTTTCAATAGCATGGGATT 60.104 40.000 0.00 0.00 0.00 3.01
6996 7137 7.514784 TTCAATAGCATGGGATTACAAGATG 57.485 36.000 0.00 0.00 0.00 2.90
6997 7138 5.474532 TCAATAGCATGGGATTACAAGATGC 59.525 40.000 0.00 0.00 39.80 3.91
6998 7139 3.301794 AGCATGGGATTACAAGATGCA 57.698 42.857 0.00 0.00 41.56 3.96
7008 7149 5.470098 GGATTACAAGATGCACCATATCGTT 59.530 40.000 0.00 0.00 0.00 3.85
7009 7150 5.733226 TTACAAGATGCACCATATCGTTG 57.267 39.130 0.00 0.00 0.00 4.10
7010 7151 2.355756 ACAAGATGCACCATATCGTTGC 59.644 45.455 0.00 0.00 0.00 4.17
7011 7152 1.597742 AGATGCACCATATCGTTGCC 58.402 50.000 0.00 0.00 0.00 4.52
7012 7153 1.134128 AGATGCACCATATCGTTGCCA 60.134 47.619 0.00 0.00 0.00 4.92
7013 7154 1.881973 GATGCACCATATCGTTGCCAT 59.118 47.619 0.00 0.00 0.00 4.40
7014 7155 1.308047 TGCACCATATCGTTGCCATC 58.692 50.000 0.00 0.00 0.00 3.51
7015 7156 0.235665 GCACCATATCGTTGCCATCG 59.764 55.000 0.00 0.00 0.00 3.84
7018 7159 0.884259 CCATATCGTTGCCATCGCCA 60.884 55.000 0.00 0.00 0.00 5.69
7022 7163 0.882042 ATCGTTGCCATCGCCATCTC 60.882 55.000 0.00 0.00 0.00 2.75
7050 7191 4.515567 GTGTTTGGTTTGAGGAACTAGGAG 59.484 45.833 0.00 0.00 41.55 3.69
7052 7193 2.334977 TGGTTTGAGGAACTAGGAGCA 58.665 47.619 0.00 0.00 41.55 4.26
7085 7226 5.395103 CCAAAATGTTCCTGGTTTGACTTCA 60.395 40.000 7.95 0.00 33.70 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
48 49 6.893583 AGTTTGAGCATATAGATTGTGGTCT 58.106 36.000 5.55 0.00 40.13 3.85
84 85 6.258727 CACGCCATGTCTTCATATCTTTTAGT 59.741 38.462 0.00 0.00 32.47 2.24
103 104 1.742831 GATTAACATTGCTCCACGCCA 59.257 47.619 0.00 0.00 38.05 5.69
105 106 2.285834 CGAGATTAACATTGCTCCACGC 60.286 50.000 0.00 0.00 39.77 5.34
107 108 3.270877 ACCGAGATTAACATTGCTCCAC 58.729 45.455 0.00 0.00 0.00 4.02
120 122 5.661056 TCTTACTGTTGATGACCGAGATT 57.339 39.130 0.00 0.00 0.00 2.40
127 129 8.958043 GTGAAAACATTTCTTACTGTTGATGAC 58.042 33.333 4.65 0.00 35.82 3.06
129 131 7.382218 GGGTGAAAACATTTCTTACTGTTGATG 59.618 37.037 4.65 0.00 35.82 3.07
159 162 3.973657 AGTCGTAAATGTGTTCTGTCGT 58.026 40.909 0.00 0.00 0.00 4.34
186 189 2.430244 GGTCGTCACGTCGCACAT 60.430 61.111 0.00 0.00 0.00 3.21
187 190 4.634133 GGGTCGTCACGTCGCACA 62.634 66.667 6.62 0.00 0.00 4.57
193 196 0.456221 GAGATGATGGGTCGTCACGT 59.544 55.000 0.00 0.00 41.85 4.49
199 202 2.028420 TTGCAAGAGATGATGGGTCG 57.972 50.000 0.00 0.00 0.00 4.79
240 273 4.565166 CGTCATATCTTTCGTGCCACTTAA 59.435 41.667 0.00 0.00 0.00 1.85
249 282 7.797587 CGTTATCTTCTACGTCATATCTTTCGT 59.202 37.037 0.00 0.00 39.74 3.85
282 315 9.778993 GCCATTTTGCATGTAAGTATATGATAG 57.221 33.333 0.00 0.00 0.00 2.08
284 317 7.307694 CGCCATTTTGCATGTAAGTATATGAT 58.692 34.615 0.00 0.00 0.00 2.45
303 336 8.487313 TTCTATGTTATATATTTCGCGCCATT 57.513 30.769 0.00 0.00 0.00 3.16
304 337 7.224753 CCTTCTATGTTATATATTTCGCGCCAT 59.775 37.037 0.00 0.00 0.00 4.40
320 353 3.439129 GCTTTACCGTTGCCTTCTATGTT 59.561 43.478 0.00 0.00 0.00 2.71
376 409 4.802039 TGCCGTTATCTTCTACGTCATTTC 59.198 41.667 0.00 0.00 36.09 2.17
377 410 4.751060 TGCCGTTATCTTCTACGTCATTT 58.249 39.130 0.00 0.00 36.09 2.32
378 411 4.380841 TGCCGTTATCTTCTACGTCATT 57.619 40.909 0.00 0.00 36.09 2.57
379 412 4.380841 TTGCCGTTATCTTCTACGTCAT 57.619 40.909 0.00 0.00 36.09 3.06
383 416 2.284417 GGCTTTGCCGTTATCTTCTACG 59.716 50.000 0.00 0.00 39.62 3.51
395 428 9.601217 AGTTTATATATATAAGAGGCTTTGCCG 57.399 33.333 13.55 0.00 40.23 5.69
415 448 5.554822 TTCGCGCCATTTTTCTAGTTTAT 57.445 34.783 0.00 0.00 0.00 1.40
420 453 6.021468 CAGTATTTTTCGCGCCATTTTTCTAG 60.021 38.462 0.00 0.00 0.00 2.43
452 485 7.341256 ACAAATAGCAAATGAGGATGAGATGTT 59.659 33.333 0.00 0.00 0.00 2.71
492 527 7.013178 TGAGATGCAAACTGTCAGTATTTTTCA 59.987 33.333 5.77 0.00 0.00 2.69
505 540 5.340803 CAAATGAGGATGAGATGCAAACTG 58.659 41.667 0.00 0.00 0.00 3.16
508 543 4.021229 AGCAAATGAGGATGAGATGCAAA 58.979 39.130 0.00 0.00 34.89 3.68
509 544 3.628008 AGCAAATGAGGATGAGATGCAA 58.372 40.909 0.00 0.00 34.89 4.08
516 551 7.272244 TCTTAACGAATAGCAAATGAGGATGA 58.728 34.615 0.00 0.00 0.00 2.92
517 552 7.482654 TCTTAACGAATAGCAAATGAGGATG 57.517 36.000 0.00 0.00 0.00 3.51
518 553 8.506168 TTTCTTAACGAATAGCAAATGAGGAT 57.494 30.769 0.00 0.00 0.00 3.24
519 554 7.915293 TTTCTTAACGAATAGCAAATGAGGA 57.085 32.000 0.00 0.00 0.00 3.71
520 555 9.013490 CATTTTCTTAACGAATAGCAAATGAGG 57.987 33.333 11.59 0.00 31.26 3.86
523 558 7.513505 CGCCATTTTCTTAACGAATAGCAAATG 60.514 37.037 0.00 1.89 30.24 2.32
534 569 5.874892 TTTTTCACGCCATTTTCTTAACG 57.125 34.783 0.00 0.00 0.00 3.18
571 606 8.234136 ACAAATAGCAAATGATGATGAGATGT 57.766 30.769 0.00 0.00 0.00 3.06
627 665 5.242838 CCCAGACAGCCAAAAGTTTTATGTA 59.757 40.000 0.00 0.00 0.00 2.29
632 670 2.745968 TCCCAGACAGCCAAAAGTTTT 58.254 42.857 0.00 0.00 0.00 2.43
649 687 2.094906 GTCAAACGTGCCCTTAAATCCC 60.095 50.000 0.00 0.00 0.00 3.85
663 701 5.454232 GTCAACAACCTGTTTATGTCAAACG 59.546 40.000 0.00 0.00 38.77 3.60
1185 1229 0.179018 TCATCCTGGCGAGATCGAGA 60.179 55.000 6.39 0.00 43.02 4.04
1474 1521 0.248289 ACAACCGGATTACAGGTCGG 59.752 55.000 9.46 0.00 43.29 4.79
1652 1700 1.139654 TCAGCCTAGCATCACACCATC 59.860 52.381 0.00 0.00 0.00 3.51
1750 1798 9.474313 AGGTAACAATGCTAGGATTTTAAATCA 57.526 29.630 17.92 0.00 41.41 2.57
1801 1849 3.567530 CATCGCTGAAATGTTTGAGCAA 58.432 40.909 15.33 0.00 45.81 3.91
1830 1878 4.953667 AGCAACTCACATACGATGATCAT 58.046 39.130 8.25 8.25 0.00 2.45
1888 1936 5.356751 ACAGATGCAGTTTACAAGTCAACAA 59.643 36.000 0.00 0.00 0.00 2.83
1936 1984 2.500098 GGATGTAGCAACACCCACTCTA 59.500 50.000 0.00 0.00 39.42 2.43
2040 2088 1.303309 ACTGCAGTCAAACAGAGCAC 58.697 50.000 15.25 0.00 37.35 4.40
2495 2569 4.316025 TCCTTTCACCTTAGGGAATTGG 57.684 45.455 2.32 8.82 36.25 3.16
2511 2585 9.525826 AGATTTAATCACTTCACTGATTCCTTT 57.474 29.630 7.74 0.00 40.60 3.11
2580 2654 5.292101 ACTTAACACAAGAGATATTGCTCGC 59.708 40.000 0.00 0.00 39.87 5.03
2682 2756 4.460382 AGGAGCAACATTGTAAACATGGAG 59.540 41.667 0.00 0.00 0.00 3.86
2855 2929 7.322938 GCTCAAAACTGTTAGATAAACGGAAAC 59.677 37.037 3.82 0.00 45.89 2.78
3010 3084 4.562394 CCGTTGAATTTAAAGCGCATCAAT 59.438 37.500 11.47 0.00 0.00 2.57
3202 3276 7.643579 AGCTGTTTGAGAAAGAAGTTGAATAC 58.356 34.615 0.00 0.00 0.00 1.89
3228 3303 3.119101 AGTTACGCCAGAGATGTTACAGG 60.119 47.826 0.00 0.00 0.00 4.00
3327 3402 2.607180 AGCAACGCAAAAATGAAACCAC 59.393 40.909 0.00 0.00 0.00 4.16
3410 3485 9.665719 TGTTCACTGCTTTAGTCAAATATATGA 57.334 29.630 0.00 0.00 37.60 2.15
3445 3520 6.665248 CCTGAGAAAAACTTGGGGAGAATATT 59.335 38.462 0.00 0.00 0.00 1.28
3553 3649 7.086376 ACATAAACATAGCAGCTTTCACAAAG 58.914 34.615 0.00 0.00 41.46 2.77
3662 3758 2.159114 GCACCAGGTTTCTTTCAGCAAA 60.159 45.455 0.00 0.00 0.00 3.68
3663 3759 1.408702 GCACCAGGTTTCTTTCAGCAA 59.591 47.619 0.00 0.00 0.00 3.91
3664 3760 1.032014 GCACCAGGTTTCTTTCAGCA 58.968 50.000 0.00 0.00 0.00 4.41
3665 3761 1.032014 TGCACCAGGTTTCTTTCAGC 58.968 50.000 0.00 0.00 0.00 4.26
3666 3762 2.624838 ACATGCACCAGGTTTCTTTCAG 59.375 45.455 0.00 0.00 0.00 3.02
3667 3763 2.665165 ACATGCACCAGGTTTCTTTCA 58.335 42.857 0.00 0.00 0.00 2.69
3668 3764 3.366374 GCTACATGCACCAGGTTTCTTTC 60.366 47.826 0.00 0.00 42.31 2.62
3669 3765 2.558359 GCTACATGCACCAGGTTTCTTT 59.442 45.455 0.00 0.00 42.31 2.52
3670 3766 2.162681 GCTACATGCACCAGGTTTCTT 58.837 47.619 0.00 0.00 42.31 2.52
3671 3767 1.352352 AGCTACATGCACCAGGTTTCT 59.648 47.619 0.00 0.00 45.94 2.52
3672 3768 1.740025 GAGCTACATGCACCAGGTTTC 59.260 52.381 0.00 0.00 45.94 2.78
3673 3769 1.826385 GAGCTACATGCACCAGGTTT 58.174 50.000 0.00 0.00 45.94 3.27
3674 3770 3.558674 GAGCTACATGCACCAGGTT 57.441 52.632 0.00 0.00 45.94 3.50
3699 3795 4.785453 CTTCCCTGGACCCTGCGC 62.785 72.222 0.00 0.00 0.00 6.09
3700 3796 4.101448 CCTTCCCTGGACCCTGCG 62.101 72.222 0.00 0.00 0.00 5.18
3701 3797 3.732849 CCCTTCCCTGGACCCTGC 61.733 72.222 0.00 0.00 0.00 4.85
3702 3798 2.204151 ACCCTTCCCTGGACCCTG 60.204 66.667 0.00 0.00 0.00 4.45
3703 3799 2.125225 GACCCTTCCCTGGACCCT 59.875 66.667 0.00 0.00 0.00 4.34
3704 3800 3.015753 GGACCCTTCCCTGGACCC 61.016 72.222 0.00 0.00 35.57 4.46
3705 3801 3.400054 CGGACCCTTCCCTGGACC 61.400 72.222 0.00 0.00 38.99 4.46
3706 3802 2.284405 TCGGACCCTTCCCTGGAC 60.284 66.667 0.00 0.00 38.99 4.02
3707 3803 2.284405 GTCGGACCCTTCCCTGGA 60.284 66.667 0.00 0.00 38.99 3.86
3708 3804 3.400054 GGTCGGACCCTTCCCTGG 61.400 72.222 16.55 0.00 38.99 4.45
3709 3805 2.606519 TGGTCGGACCCTTCCCTG 60.607 66.667 23.81 0.00 38.99 4.45
3710 3806 2.606826 GTGGTCGGACCCTTCCCT 60.607 66.667 23.81 0.00 38.99 4.20
3711 3807 1.775934 AAAGTGGTCGGACCCTTCCC 61.776 60.000 23.81 7.17 38.99 3.97
3712 3808 0.109913 AAAAGTGGTCGGACCCTTCC 59.890 55.000 23.81 9.51 37.50 3.46
3713 3809 1.607148 CAAAAAGTGGTCGGACCCTTC 59.393 52.381 23.81 13.97 37.50 3.46
3714 3810 1.687563 CAAAAAGTGGTCGGACCCTT 58.312 50.000 23.81 21.08 37.50 3.95
3715 3811 0.822121 GCAAAAAGTGGTCGGACCCT 60.822 55.000 23.81 16.82 37.50 4.34
3716 3812 0.822121 AGCAAAAAGTGGTCGGACCC 60.822 55.000 23.81 14.91 37.50 4.46
3717 3813 0.310854 CAGCAAAAAGTGGTCGGACC 59.689 55.000 20.36 20.36 35.13 4.46
3718 3814 1.305201 TCAGCAAAAAGTGGTCGGAC 58.695 50.000 0.00 0.00 35.13 4.79
3719 3815 2.045561 TTCAGCAAAAAGTGGTCGGA 57.954 45.000 0.00 0.00 35.13 4.55
3720 3816 2.357637 TCTTTCAGCAAAAAGTGGTCGG 59.642 45.455 9.75 0.00 37.49 4.79
3721 3817 3.691049 TCTTTCAGCAAAAAGTGGTCG 57.309 42.857 9.75 0.00 37.49 4.79
3722 3818 5.167845 TGTTTCTTTCAGCAAAAAGTGGTC 58.832 37.500 9.75 2.86 37.49 4.02
3723 3819 5.146010 TGTTTCTTTCAGCAAAAAGTGGT 57.854 34.783 9.75 0.00 37.49 4.16
3724 3820 6.667007 ATTGTTTCTTTCAGCAAAAAGTGG 57.333 33.333 9.75 0.00 37.49 4.00
3725 3821 7.741198 TCAATTGTTTCTTTCAGCAAAAAGTG 58.259 30.769 5.13 1.72 37.49 3.16
3726 3822 7.413328 GCTCAATTGTTTCTTTCAGCAAAAAGT 60.413 33.333 5.13 0.00 37.49 2.66
3727 3823 6.903479 GCTCAATTGTTTCTTTCAGCAAAAAG 59.097 34.615 5.13 4.85 37.55 2.27
3728 3824 6.370994 TGCTCAATTGTTTCTTTCAGCAAAAA 59.629 30.769 10.68 0.00 0.00 1.94
3729 3825 5.873712 TGCTCAATTGTTTCTTTCAGCAAAA 59.126 32.000 10.68 0.00 0.00 2.44
3845 3941 0.461548 TAGACATCTCCAGCTTGCCG 59.538 55.000 0.00 0.00 0.00 5.69
3873 3969 6.117911 TGCATGATTTGTCTATTAACACGG 57.882 37.500 0.00 0.00 0.00 4.94
4529 4636 2.202987 GGCATGAGAGAGCACCCG 60.203 66.667 0.00 0.00 0.00 5.28
4706 4813 5.596836 AACAGGCAATCAACTTCTTTTGA 57.403 34.783 0.00 0.00 39.79 2.69
4800 4907 4.202770 TGGGGCATACCAGGCATATTAAAT 60.203 41.667 0.00 0.00 42.91 1.40
4933 5042 5.886960 ACAGGTGAGTCAATTGCTTATTC 57.113 39.130 0.00 0.00 0.00 1.75
4979 5097 2.238898 ACAGGGGAATAGAAAAGGACCG 59.761 50.000 0.00 0.00 0.00 4.79
5101 5223 4.380550 GCCTATTTAAGTTGCTGGGAACAC 60.381 45.833 7.64 0.00 35.60 3.32
5132 5254 4.878971 CGATGGGTGTGGTGAAACAATATA 59.121 41.667 0.00 0.00 39.98 0.86
5202 5324 7.307870 GCCAACAAATCAAATGAAGCAAACATA 60.308 33.333 0.00 0.00 0.00 2.29
5268 5390 3.219281 GCCAGTTAAAGTTGGACTTCCA 58.781 45.455 0.00 0.00 45.94 3.53
5293 5415 4.024302 GCAAACCACCTACACAGAACTAAC 60.024 45.833 0.00 0.00 0.00 2.34
5354 5476 9.457436 CATACATCATCAATTCCTATCAATCCA 57.543 33.333 0.00 0.00 0.00 3.41
5399 5521 1.854743 CTTAGACGTGTCATGGATGCG 59.145 52.381 0.00 0.00 0.00 4.73
5419 5556 1.639298 AAGCTGAAGTCCGCAATCGC 61.639 55.000 0.00 0.00 0.00 4.58
5436 5573 3.916761 TGAATGCAAGCAAGCCTTAAAG 58.083 40.909 0.00 0.00 31.00 1.85
5540 5677 1.832883 TTGCAGCATATGGAAACGGT 58.167 45.000 4.56 0.00 36.14 4.83
5792 5929 4.321527 CGATGCTATGATCCACTTGCTCTA 60.322 45.833 0.00 0.00 0.00 2.43
5810 5947 1.226773 GCATTTGGCTCACCGATGC 60.227 57.895 7.28 7.28 45.22 3.91
6006 6143 3.679083 GCAGTTTCTGTAAGTAGGCCGAT 60.679 47.826 0.00 0.00 33.43 4.18
6089 6226 6.708054 AGGTTTGAGATGACAACAGTCTTAAG 59.292 38.462 0.00 0.00 33.41 1.85
6161 6300 2.818432 CTGAATCTGCAAACAGCCTTCT 59.182 45.455 0.00 0.00 44.10 2.85
6167 6306 1.135859 GCCGTCTGAATCTGCAAACAG 60.136 52.381 0.00 0.00 45.95 3.16
6168 6307 0.874390 GCCGTCTGAATCTGCAAACA 59.126 50.000 0.00 0.00 0.00 2.83
6177 6316 2.086869 CACCAGAAATGCCGTCTGAAT 58.913 47.619 9.34 0.00 44.44 2.57
6178 6317 1.522668 CACCAGAAATGCCGTCTGAA 58.477 50.000 9.34 0.00 44.44 3.02
6184 6323 2.134346 CAAAAACCACCAGAAATGCCG 58.866 47.619 0.00 0.00 0.00 5.69
6205 6344 0.821711 CGAACAAGCCCCAACTCCAA 60.822 55.000 0.00 0.00 0.00 3.53
6224 6363 4.379174 TTCCTTGCGCTGAGGAAC 57.621 55.556 29.69 0.00 45.81 3.62
6375 6514 4.906065 ATACCAATTGCTATGCTGTGTG 57.094 40.909 0.00 0.00 0.00 3.82
6401 6541 6.146140 TCCTACACTGCTATATCTCTCCAT 57.854 41.667 0.00 0.00 0.00 3.41
6402 6542 5.584551 TCCTACACTGCTATATCTCTCCA 57.415 43.478 0.00 0.00 0.00 3.86
6403 6543 6.007703 ACTTCCTACACTGCTATATCTCTCC 58.992 44.000 0.00 0.00 0.00 3.71
6435 6575 4.277174 TGCCAAACATTACACCTACAGTTG 59.723 41.667 0.00 0.00 0.00 3.16
6457 6597 0.390124 ACACATTTTGCTGCTGGGTG 59.610 50.000 0.00 5.22 0.00 4.61
6479 6619 1.202580 GCTCTGACCATACAAGGCGAT 60.203 52.381 0.00 0.00 0.00 4.58
6517 6657 0.758123 CACAACACCCCCTGCATTTT 59.242 50.000 0.00 0.00 0.00 1.82
6523 6663 1.340889 CACATTTCACAACACCCCCTG 59.659 52.381 0.00 0.00 0.00 4.45
6537 6677 2.026641 CATTCTCCGCCATCCACATTT 58.973 47.619 0.00 0.00 0.00 2.32
6551 6691 5.128919 ACAGTAAGAATGGATGGCATTCTC 58.871 41.667 7.41 0.00 45.48 2.87
6613 6754 5.986135 GGATGATTCGCTACATAACAACTCT 59.014 40.000 0.00 0.00 0.00 3.24
6663 6804 5.951747 AGCCCAAGATAATGCAAGAGTAAAA 59.048 36.000 0.00 0.00 0.00 1.52
6720 6861 6.759497 CCCCCTTAAACTCATTTAGAAGTG 57.241 41.667 0.00 0.00 31.90 3.16
6760 6901 0.748450 CACCCAATGCCATCCACATC 59.252 55.000 0.00 0.00 0.00 3.06
6809 6950 3.806316 ATCTCGTTTACAAAACCAGCG 57.194 42.857 0.00 0.00 0.00 5.18
6810 6951 6.021596 CACATATCTCGTTTACAAAACCAGC 58.978 40.000 0.00 0.00 0.00 4.85
6811 6952 7.359262 TCACATATCTCGTTTACAAAACCAG 57.641 36.000 0.00 0.00 0.00 4.00
6812 6953 7.572353 GCTTCACATATCTCGTTTACAAAACCA 60.572 37.037 0.00 0.00 0.00 3.67
6814 6955 6.741358 GGCTTCACATATCTCGTTTACAAAAC 59.259 38.462 0.00 0.00 0.00 2.43
6816 6957 5.353123 GGGCTTCACATATCTCGTTTACAAA 59.647 40.000 0.00 0.00 0.00 2.83
6817 6958 4.873827 GGGCTTCACATATCTCGTTTACAA 59.126 41.667 0.00 0.00 0.00 2.41
6821 6962 2.550978 CGGGCTTCACATATCTCGTTT 58.449 47.619 0.00 0.00 0.00 3.60
6825 6966 0.035458 CCCCGGGCTTCACATATCTC 59.965 60.000 17.73 0.00 0.00 2.75
6843 6984 1.668419 CATGTCGGTCCAATCTTCCC 58.332 55.000 0.00 0.00 0.00 3.97
6857 6998 6.913170 TCAAAGATTAAGCAAAGACCATGTC 58.087 36.000 0.00 0.00 0.00 3.06
6899 7040 5.149273 CACCGTTTCACATTCAAGATTCTG 58.851 41.667 0.00 0.00 0.00 3.02
6947 7088 5.888161 AGGAGAGTGGGCATGTAAAAATAAG 59.112 40.000 0.00 0.00 0.00 1.73
6961 7102 3.634397 TGCTATTGAAAGGAGAGTGGG 57.366 47.619 0.00 0.00 0.00 4.61
6968 7109 6.012337 TGTAATCCCATGCTATTGAAAGGA 57.988 37.500 0.00 0.00 0.00 3.36
6969 7110 6.547141 TCTTGTAATCCCATGCTATTGAAAGG 59.453 38.462 0.00 0.00 0.00 3.11
6974 7115 5.242171 TGCATCTTGTAATCCCATGCTATTG 59.758 40.000 4.03 0.00 40.48 1.90
6988 7129 3.559655 GCAACGATATGGTGCATCTTGTA 59.440 43.478 0.00 0.00 0.00 2.41
6996 7137 0.235665 CGATGGCAACGATATGGTGC 59.764 55.000 12.11 6.63 42.51 5.01
6997 7138 0.235665 GCGATGGCAACGATATGGTG 59.764 55.000 21.73 0.00 39.62 4.17
6998 7139 0.884704 GGCGATGGCAACGATATGGT 60.885 55.000 21.73 0.00 42.47 3.55
7008 7149 0.745486 CAAGTGAGATGGCGATGGCA 60.745 55.000 1.01 0.00 43.52 4.92
7009 7150 0.745845 ACAAGTGAGATGGCGATGGC 60.746 55.000 0.00 0.00 38.90 4.40
7010 7151 1.012086 CACAAGTGAGATGGCGATGG 58.988 55.000 0.00 0.00 0.00 3.51
7011 7152 1.730501 ACACAAGTGAGATGGCGATG 58.269 50.000 7.28 0.00 0.00 3.84
7012 7153 2.479566 AACACAAGTGAGATGGCGAT 57.520 45.000 7.28 0.00 0.00 4.58
7013 7154 1.872952 CAAACACAAGTGAGATGGCGA 59.127 47.619 7.28 0.00 0.00 5.54
7014 7155 1.069022 CCAAACACAAGTGAGATGGCG 60.069 52.381 7.28 0.00 0.00 5.69
7015 7156 1.956477 ACCAAACACAAGTGAGATGGC 59.044 47.619 7.28 0.00 35.85 4.40
7018 7159 4.339247 CCTCAAACCAAACACAAGTGAGAT 59.661 41.667 7.28 0.00 34.30 2.75
7022 7163 4.082245 AGTTCCTCAAACCAAACACAAGTG 60.082 41.667 0.00 0.00 38.76 3.16
7050 7191 4.646492 AGGAACATTTTGGGATCATAGTGC 59.354 41.667 0.00 0.00 0.00 4.40
7052 7193 5.203528 CCAGGAACATTTTGGGATCATAGT 58.796 41.667 0.00 0.00 0.00 2.12


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

AutoCloner maintained by Alex Coulton.