Multiple sequence alignment - TraesCS5B01G494900

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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 TraesCS5B01G494900 chr5B 100.000 3747 0 0 1 3747 662643455 662647201 0.000000e+00 6920.0
1 TraesCS5B01G494900 chr5D 92.420 2612 137 26 794 3364 526864407 526866998 0.000000e+00 3670.0
2 TraesCS5B01G494900 chr5D 90.722 485 35 4 176 652 526862108 526862590 4.080000e-179 638.0
3 TraesCS5B01G494900 chr5D 90.873 252 14 3 1 244 526854864 526855114 2.790000e-86 329.0
4 TraesCS5B01G494900 chr5D 88.444 225 21 4 3363 3584 526867288 526867510 2.220000e-67 267.0
5 TraesCS5B01G494900 chr5D 87.013 154 6 9 665 804 526862572 526862725 1.080000e-35 161.0
6 TraesCS5B01G494900 chr5A 96.184 1258 46 2 1864 3120 654065285 654066541 0.000000e+00 2056.0
7 TraesCS5B01G494900 chr5A 96.218 1084 36 3 794 1877 654064188 654065266 0.000000e+00 1770.0
8 TraesCS5B01G494900 chr5A 89.366 489 43 5 171 652 654061260 654061746 1.150000e-169 606.0
9 TraesCS5B01G494900 chr5A 84.842 442 51 10 3158 3586 654066698 654067136 7.430000e-117 431.0
10 TraesCS5B01G494900 chr5A 87.170 265 23 6 1 256 654060997 654061259 1.320000e-74 291.0
11 TraesCS5B01G494900 chr7D 79.903 617 109 13 11 619 405877289 405877898 4.440000e-119 438.0
12 TraesCS5B01G494900 chr7D 77.796 617 112 16 15 619 475154795 475155398 1.280000e-94 357.0
13 TraesCS5B01G494900 chr7D 77.444 133 28 2 3233 3364 102546324 102546455 1.120000e-10 78.7
14 TraesCS5B01G494900 chr7D 100.000 32 0 0 15 46 106127115 106127146 4.040000e-05 60.2
15 TraesCS5B01G494900 chr7B 78.998 619 114 14 11 619 413931216 413931828 3.480000e-110 409.0
16 TraesCS5B01G494900 chr2D 80.443 542 98 6 76 611 469369510 469368971 1.250000e-109 407.0
17 TraesCS5B01G494900 chr2D 81.061 132 23 2 3234 3364 13121572 13121702 1.840000e-18 104.0
18 TraesCS5B01G494900 chr3B 78.584 579 101 17 49 616 144483120 144483686 9.890000e-96 361.0
19 TraesCS5B01G494900 chr3B 81.481 189 31 4 12 197 654306695 654306508 6.480000e-33 152.0
20 TraesCS5B01G494900 chr3B 80.645 124 23 1 3237 3359 736943761 736943638 1.110000e-15 95.3
21 TraesCS5B01G494900 chr3A 77.340 609 115 17 23 624 691957758 691957166 4.640000e-89 339.0
22 TraesCS5B01G494900 chr3A 79.389 131 25 2 3234 3363 451154762 451154891 1.430000e-14 91.6
23 TraesCS5B01G494900 chr2A 78.812 505 98 6 7 502 759321768 759322272 7.760000e-87 331.0
24 TraesCS5B01G494900 chr2A 77.318 604 105 17 23 621 66767769 66767193 1.000000e-85 327.0
25 TraesCS5B01G494900 chr2A 75.850 588 103 24 23 602 661581317 661581873 2.870000e-66 263.0
26 TraesCS5B01G494900 chr6A 80.769 130 23 2 3237 3364 3768865 3768994 2.380000e-17 100.0
27 TraesCS5B01G494900 chrUn 82.524 103 17 1 3257 3359 28730558 28730457 5.150000e-14 89.8
28 TraesCS5B01G494900 chr7A 80.342 117 20 3 3238 3352 516155923 516155808 6.670000e-13 86.1
29 TraesCS5B01G494900 chr1B 77.698 139 25 6 3237 3370 148220788 148220925 3.100000e-11 80.5


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 TraesCS5B01G494900 chr5B 662643455 662647201 3746 False 6920.0 6920 100.00000 1 3747 1 chr5B.!!$F1 3746
1 TraesCS5B01G494900 chr5D 526862108 526867510 5402 False 1184.0 3670 89.64975 176 3584 4 chr5D.!!$F2 3408
2 TraesCS5B01G494900 chr5A 654060997 654067136 6139 False 1030.8 2056 90.75600 1 3586 5 chr5A.!!$F1 3585
3 TraesCS5B01G494900 chr7D 405877289 405877898 609 False 438.0 438 79.90300 11 619 1 chr7D.!!$F3 608
4 TraesCS5B01G494900 chr7D 475154795 475155398 603 False 357.0 357 77.79600 15 619 1 chr7D.!!$F4 604
5 TraesCS5B01G494900 chr7B 413931216 413931828 612 False 409.0 409 78.99800 11 619 1 chr7B.!!$F1 608
6 TraesCS5B01G494900 chr2D 469368971 469369510 539 True 407.0 407 80.44300 76 611 1 chr2D.!!$R1 535
7 TraesCS5B01G494900 chr3B 144483120 144483686 566 False 361.0 361 78.58400 49 616 1 chr3B.!!$F1 567
8 TraesCS5B01G494900 chr3A 691957166 691957758 592 True 339.0 339 77.34000 23 624 1 chr3A.!!$R1 601
9 TraesCS5B01G494900 chr2A 759321768 759322272 504 False 331.0 331 78.81200 7 502 1 chr2A.!!$F2 495
10 TraesCS5B01G494900 chr2A 66767193 66767769 576 True 327.0 327 77.31800 23 621 1 chr2A.!!$R1 598
11 TraesCS5B01G494900 chr2A 661581317 661581873 556 False 263.0 263 75.85000 23 602 1 chr2A.!!$F1 579

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
267 374 0.105039 GGCGGATCTCGTGGAATTCT 59.895 55.0 5.23 0.0 41.72 2.40 F
699 821 0.107993 ACATGCCAGATCGGTCACAG 60.108 55.0 0.00 0.0 36.97 3.66 F
1423 3899 0.193574 AGAAGGTGAAGGTCCCCTCA 59.806 55.0 0.00 0.0 30.89 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1386 3862 0.601046 CTGCTCTGCAACAACCGAGA 60.601 55.0 2.78 0.0 38.41 4.04 R
2469 4981 0.767446 CCTCATCAGGATCTGGGCCT 60.767 60.0 4.53 0.0 43.65 5.19 R
2962 5475 0.165079 ACGAACGCAAAGCCAATACG 59.835 50.0 0.00 0.0 0.00 3.06 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
138 144 1.212935 AGGGTTTGTGTCTTGCTCAGT 59.787 47.619 0.00 0.00 0.00 3.41
173 179 1.617357 ACGACTCCCTGTAGTTGGAAC 59.383 52.381 0.00 0.00 35.50 3.62
262 369 2.752640 TTCGGCGGATCTCGTGGA 60.753 61.111 7.21 1.64 41.72 4.02
267 374 0.105039 GGCGGATCTCGTGGAATTCT 59.895 55.000 5.23 0.00 41.72 2.40
269 376 1.212616 CGGATCTCGTGGAATTCTGC 58.787 55.000 5.23 0.00 0.00 4.26
325 444 2.028045 GTGCGTCTATGTTCATGTGTCG 59.972 50.000 0.00 0.82 0.00 4.35
511 630 0.244994 CGCTCCAGTGCTTGTAGTCT 59.755 55.000 0.00 0.00 0.00 3.24
699 821 0.107993 ACATGCCAGATCGGTCACAG 60.108 55.000 0.00 0.00 36.97 3.66
719 841 2.094494 AGAGTGACTACAATGGTGCTCG 60.094 50.000 0.00 0.00 0.00 5.03
769 891 5.924254 TCGATTTGATGTGTTTCGAGTAAGT 59.076 36.000 0.00 0.00 34.24 2.24
810 3286 4.536489 AGTAAGGTTTTCTAGGGCATCTGT 59.464 41.667 0.00 0.00 0.00 3.41
1365 3841 1.451927 GCTGTGATTGATGGGCGGA 60.452 57.895 0.00 0.00 0.00 5.54
1386 3862 2.158667 AGTGTCGGGTCTGATTTTGGTT 60.159 45.455 0.00 0.00 0.00 3.67
1423 3899 0.193574 AGAAGGTGAAGGTCCCCTCA 59.806 55.000 0.00 0.00 30.89 3.86
1472 3948 1.002257 TGCACCGATGTGATGGCTT 60.002 52.632 0.00 0.00 45.76 4.35
1524 4000 2.545952 CGCAGGTTCGATAATAGCCTGT 60.546 50.000 10.11 0.00 46.07 4.00
1525 4001 3.467803 GCAGGTTCGATAATAGCCTGTT 58.532 45.455 10.11 0.00 46.07 3.16
1526 4002 3.877508 GCAGGTTCGATAATAGCCTGTTT 59.122 43.478 10.11 0.00 46.07 2.83
1585 4061 7.466725 GCTGGATGTGTATTTTGCGTAGATTAA 60.467 37.037 0.00 0.00 0.00 1.40
1645 4125 2.487762 TCGAAATGTGGCTTGATTGGTC 59.512 45.455 0.00 0.00 0.00 4.02
1736 4216 2.959465 AGAGTTCTCCCAAAAGGGTG 57.041 50.000 0.00 0.00 35.67 4.61
1789 4269 7.920738 AGTGCTTGTTAGAAAAGAACTGTTAG 58.079 34.615 0.00 0.00 41.21 2.34
1868 4348 8.565780 TTATCCATCAGCCATCATATATGGTA 57.434 34.615 12.78 0.00 41.17 3.25
1892 4404 5.066893 ACATAACAGATGGCAAAGCACATAG 59.933 40.000 0.00 0.00 0.00 2.23
1915 4427 9.998106 ATAGCTACAAGGTCGAACAATATTTAT 57.002 29.630 1.87 0.00 0.00 1.40
1982 4494 4.980339 TGATGCTGCCTATTATGAAGGA 57.020 40.909 0.00 0.00 36.08 3.36
2067 4579 6.874134 TGATTACTAGAACTTTTGAGACTGGC 59.126 38.462 0.00 0.00 0.00 4.85
2075 4587 3.131046 ACTTTTGAGACTGGCCTGTTTTG 59.869 43.478 17.25 6.12 0.00 2.44
2139 4651 5.946377 ACCCCTTAAAACTATGAAGCTTCAG 59.054 40.000 31.14 21.75 41.08 3.02
2153 4665 7.750229 TGAAGCTTCAGTAATCTCAACATTT 57.250 32.000 25.16 0.00 32.50 2.32
2157 4669 9.899226 AAGCTTCAGTAATCTCAACATTTAAAC 57.101 29.630 0.00 0.00 0.00 2.01
2160 4672 7.972832 TCAGTAATCTCAACATTTAAACCGT 57.027 32.000 0.00 0.00 0.00 4.83
2295 4807 2.814280 ACTCTGTTGTACAGGAACGG 57.186 50.000 6.96 0.00 45.94 4.44
2430 4942 4.200092 AGATAAAGGTCAAAGAATCGGCC 58.800 43.478 0.00 0.00 0.00 6.13
2737 5250 3.583806 GATCTACATGATCTGCGAAGGG 58.416 50.000 0.00 0.00 46.05 3.95
2779 5292 2.396608 CACTCACCTCCCATGAGATCT 58.603 52.381 8.92 0.00 45.46 2.75
2833 5346 4.475944 CAAGAACTCTACAAATTTGCCGG 58.524 43.478 18.12 0.00 0.00 6.13
2962 5475 3.381045 GTGCCTTTGTTAAAGAACAGCC 58.619 45.455 3.02 0.00 46.11 4.85
3063 5576 4.498241 TGTGTGCTGTATCATCTGTCTTC 58.502 43.478 0.00 0.00 0.00 2.87
3085 5598 6.371809 TCCAAGGCATCGTGTTTTAATATC 57.628 37.500 0.00 0.00 0.00 1.63
3086 5599 5.883115 TCCAAGGCATCGTGTTTTAATATCA 59.117 36.000 0.00 0.00 0.00 2.15
3173 5855 5.793952 CAGAACGATTGCTCTGAAATTTCTG 59.206 40.000 18.64 17.57 40.09 3.02
3203 5885 3.370978 CGTGTGGAAATCGTGCTTAGAAT 59.629 43.478 0.00 0.00 0.00 2.40
3204 5886 4.651994 GTGTGGAAATCGTGCTTAGAATG 58.348 43.478 0.00 0.00 0.00 2.67
3205 5887 4.391830 GTGTGGAAATCGTGCTTAGAATGA 59.608 41.667 0.00 0.00 0.00 2.57
3206 5888 4.391830 TGTGGAAATCGTGCTTAGAATGAC 59.608 41.667 0.00 0.00 0.00 3.06
3219 5907 2.198304 GAATGACGGTGCCCCCTTCT 62.198 60.000 0.00 0.00 32.70 2.85
3232 5920 0.610232 CCCTTCTGGTTGCTTGGAGG 60.610 60.000 0.00 0.00 0.00 4.30
3235 5923 1.003580 CTTCTGGTTGCTTGGAGGCTA 59.996 52.381 0.00 0.00 0.00 3.93
3307 5998 6.444816 ACTCACCCCTATGAATATATGCATGA 59.555 38.462 15.55 4.65 0.00 3.07
3308 5999 6.892485 TCACCCCTATGAATATATGCATGAG 58.108 40.000 15.55 7.04 0.00 2.90
3324 6015 2.030027 TGAGCATCCTACCCCTATGG 57.970 55.000 0.00 0.00 41.37 2.74
3339 6030 2.441001 CCTATGGGTGCTTCCAAGAGAT 59.559 50.000 2.88 0.00 40.62 2.75
3340 6031 2.725221 ATGGGTGCTTCCAAGAGATC 57.275 50.000 2.88 0.00 40.62 2.75
3345 6036 0.176680 TGCTTCCAAGAGATCGAGCC 59.823 55.000 0.00 0.00 0.00 4.70
3356 6047 0.671781 GATCGAGCCGGCATAGCATT 60.672 55.000 31.54 5.22 0.00 3.56
3371 6354 9.630098 CGGCATAGCATTTTGAGATAATAAAAT 57.370 29.630 0.00 0.00 37.06 1.82
3417 6402 8.170553 CAGCGATTTTCCCTAATTTTGAAATTG 58.829 33.333 11.02 3.05 38.90 2.32
3418 6403 7.877612 AGCGATTTTCCCTAATTTTGAAATTGT 59.122 29.630 11.02 0.00 38.90 2.71
3453 6438 3.181453 TGACAATTTACCGGGAGACAACA 60.181 43.478 6.32 0.00 0.00 3.33
3483 6468 7.474474 AATTAGGGATCCTATTGGGTAAACA 57.526 36.000 12.58 0.00 35.87 2.83
3497 6482 2.157305 TAAACATCCGCGTGTCCCGT 62.157 55.000 4.92 0.00 39.32 5.28
3537 6523 0.666374 GGACGTTTCACAAACTGGGG 59.334 55.000 0.00 0.00 39.23 4.96
3562 6548 2.663196 CCTCTCCCCACCGTGTTC 59.337 66.667 0.00 0.00 0.00 3.18
3580 6566 4.693095 GTGTTCTGCCTTTTCTTCCTCTAG 59.307 45.833 0.00 0.00 0.00 2.43
3586 6572 5.552178 TGCCTTTTCTTCCTCTAGAAAGAC 58.448 41.667 6.40 0.00 43.05 3.01
3587 6573 4.627900 GCCTTTTCTTCCTCTAGAAAGACG 59.372 45.833 6.40 0.00 43.05 4.18
3588 6574 4.627900 CCTTTTCTTCCTCTAGAAAGACGC 59.372 45.833 6.40 0.00 43.05 5.19
3589 6575 3.870633 TTCTTCCTCTAGAAAGACGCC 57.129 47.619 6.40 0.00 32.88 5.68
3590 6576 3.088789 TCTTCCTCTAGAAAGACGCCT 57.911 47.619 3.21 0.00 32.88 5.52
3591 6577 2.755655 TCTTCCTCTAGAAAGACGCCTG 59.244 50.000 3.21 0.00 32.88 4.85
3592 6578 2.509166 TCCTCTAGAAAGACGCCTGA 57.491 50.000 0.00 0.00 0.00 3.86
3593 6579 2.803956 TCCTCTAGAAAGACGCCTGAA 58.196 47.619 0.00 0.00 0.00 3.02
3594 6580 3.162666 TCCTCTAGAAAGACGCCTGAAA 58.837 45.455 0.00 0.00 0.00 2.69
3595 6581 3.056749 TCCTCTAGAAAGACGCCTGAAAC 60.057 47.826 0.00 0.00 0.00 2.78
3596 6582 3.056465 CCTCTAGAAAGACGCCTGAAACT 60.056 47.826 0.00 0.00 0.00 2.66
3597 6583 3.914312 TCTAGAAAGACGCCTGAAACTG 58.086 45.455 0.00 0.00 0.00 3.16
3598 6584 2.910688 AGAAAGACGCCTGAAACTGA 57.089 45.000 0.00 0.00 0.00 3.41
3599 6585 3.194005 AGAAAGACGCCTGAAACTGAA 57.806 42.857 0.00 0.00 0.00 3.02
3600 6586 3.541632 AGAAAGACGCCTGAAACTGAAA 58.458 40.909 0.00 0.00 0.00 2.69
3601 6587 3.561725 AGAAAGACGCCTGAAACTGAAAG 59.438 43.478 0.00 0.00 42.29 2.62
3602 6588 1.230324 AGACGCCTGAAACTGAAAGC 58.770 50.000 0.00 0.00 37.60 3.51
3603 6589 0.238553 GACGCCTGAAACTGAAAGCC 59.761 55.000 0.00 0.00 37.60 4.35
3604 6590 0.465460 ACGCCTGAAACTGAAAGCCA 60.465 50.000 0.00 0.00 37.60 4.75
3606 6592 0.038801 GCCTGAAACTGAAAGCCAGC 60.039 55.000 0.00 0.00 46.81 4.85
3607 6593 0.239347 CCTGAAACTGAAAGCCAGCG 59.761 55.000 0.00 0.00 46.81 5.18
3608 6594 0.239347 CTGAAACTGAAAGCCAGCGG 59.761 55.000 0.00 0.00 46.81 5.52
3609 6595 0.465460 TGAAACTGAAAGCCAGCGGT 60.465 50.000 0.00 0.00 46.81 5.68
3610 6596 0.238553 GAAACTGAAAGCCAGCGGTC 59.761 55.000 0.00 0.00 46.81 4.79
3611 6597 0.465460 AAACTGAAAGCCAGCGGTCA 60.465 50.000 0.00 0.00 46.81 4.02
3612 6598 0.886490 AACTGAAAGCCAGCGGTCAG 60.886 55.000 18.36 18.36 46.81 3.51
3613 6599 1.302033 CTGAAAGCCAGCGGTCAGT 60.302 57.895 14.08 0.00 35.89 3.41
3614 6600 1.294659 CTGAAAGCCAGCGGTCAGTC 61.295 60.000 14.08 0.00 35.89 3.51
3615 6601 2.357517 AAAGCCAGCGGTCAGTCG 60.358 61.111 0.00 0.00 0.00 4.18
3616 6602 3.883744 AAAGCCAGCGGTCAGTCGG 62.884 63.158 0.00 0.00 0.00 4.79
3619 6605 4.436998 CCAGCGGTCAGTCGGTCC 62.437 72.222 0.00 0.00 38.91 4.46
3620 6606 3.680786 CAGCGGTCAGTCGGTCCA 61.681 66.667 0.00 0.00 38.91 4.02
3621 6607 2.915659 AGCGGTCAGTCGGTCCAA 60.916 61.111 0.00 0.00 35.95 3.53
3622 6608 2.432628 GCGGTCAGTCGGTCCAAG 60.433 66.667 0.00 0.00 0.00 3.61
3623 6609 2.927580 GCGGTCAGTCGGTCCAAGA 61.928 63.158 0.00 0.00 0.00 3.02
3624 6610 1.663739 CGGTCAGTCGGTCCAAGAA 59.336 57.895 0.00 0.00 0.00 2.52
3625 6611 0.666577 CGGTCAGTCGGTCCAAGAAC 60.667 60.000 0.00 0.00 0.00 3.01
3626 6612 0.320508 GGTCAGTCGGTCCAAGAACC 60.321 60.000 0.00 0.00 35.86 3.62
3627 6613 0.391597 GTCAGTCGGTCCAAGAACCA 59.608 55.000 0.00 0.00 39.43 3.67
3628 6614 1.124780 TCAGTCGGTCCAAGAACCAA 58.875 50.000 0.00 0.00 39.43 3.67
3629 6615 1.202604 TCAGTCGGTCCAAGAACCAAC 60.203 52.381 0.00 0.00 39.43 3.77
3630 6616 0.108019 AGTCGGTCCAAGAACCAACC 59.892 55.000 0.00 0.00 39.43 3.77
3631 6617 0.887836 GTCGGTCCAAGAACCAACCC 60.888 60.000 0.00 0.00 39.43 4.11
3632 6618 1.057851 TCGGTCCAAGAACCAACCCT 61.058 55.000 0.00 0.00 39.43 4.34
3633 6619 0.688487 CGGTCCAAGAACCAACCCTA 59.312 55.000 0.00 0.00 39.43 3.53
3634 6620 1.338769 CGGTCCAAGAACCAACCCTAG 60.339 57.143 0.00 0.00 39.43 3.02
3635 6621 1.982958 GGTCCAAGAACCAACCCTAGA 59.017 52.381 0.00 0.00 39.27 2.43
3636 6622 2.027100 GGTCCAAGAACCAACCCTAGAG 60.027 54.545 0.00 0.00 39.27 2.43
3637 6623 1.628846 TCCAAGAACCAACCCTAGAGC 59.371 52.381 0.00 0.00 0.00 4.09
3638 6624 1.340114 CCAAGAACCAACCCTAGAGCC 60.340 57.143 0.00 0.00 0.00 4.70
3639 6625 0.613777 AAGAACCAACCCTAGAGCCG 59.386 55.000 0.00 0.00 0.00 5.52
3640 6626 1.221021 GAACCAACCCTAGAGCCGG 59.779 63.158 0.00 0.00 0.00 6.13
3641 6627 1.538135 AACCAACCCTAGAGCCGGT 60.538 57.895 1.90 0.00 0.00 5.28
3642 6628 1.838073 AACCAACCCTAGAGCCGGTG 61.838 60.000 1.90 0.00 30.96 4.94
3643 6629 2.584608 CAACCCTAGAGCCGGTGG 59.415 66.667 1.90 0.00 30.96 4.61
3644 6630 2.122056 AACCCTAGAGCCGGTGGT 59.878 61.111 1.90 0.00 30.96 4.16
3645 6631 2.291043 AACCCTAGAGCCGGTGGTG 61.291 63.158 1.90 0.00 30.96 4.17
3646 6632 3.470888 CCCTAGAGCCGGTGGTGG 61.471 72.222 1.90 0.00 0.00 4.61
3647 6633 3.470888 CCTAGAGCCGGTGGTGGG 61.471 72.222 1.90 0.00 0.00 4.61
3654 6640 3.465701 CCGGTGGTGGGCAAATTT 58.534 55.556 0.00 0.00 0.00 1.82
3655 6641 1.291906 CCGGTGGTGGGCAAATTTC 59.708 57.895 0.00 0.00 0.00 2.17
3656 6642 1.291906 CGGTGGTGGGCAAATTTCC 59.708 57.895 0.00 0.00 0.00 3.13
3657 6643 1.467678 CGGTGGTGGGCAAATTTCCA 61.468 55.000 8.36 2.49 0.00 3.53
3658 6644 0.321346 GGTGGTGGGCAAATTTCCAG 59.679 55.000 0.00 0.00 33.13 3.86
3664 6650 2.365410 GGCAAATTTCCAGCCCTGT 58.635 52.632 6.74 0.00 42.58 4.00
3665 6651 0.247460 GGCAAATTTCCAGCCCTGTC 59.753 55.000 6.74 0.00 42.58 3.51
3666 6652 0.109132 GCAAATTTCCAGCCCTGTCG 60.109 55.000 0.00 0.00 0.00 4.35
3667 6653 1.247567 CAAATTTCCAGCCCTGTCGT 58.752 50.000 0.00 0.00 0.00 4.34
3668 6654 1.068333 CAAATTTCCAGCCCTGTCGTG 60.068 52.381 0.00 0.00 0.00 4.35
3669 6655 0.110486 AATTTCCAGCCCTGTCGTGT 59.890 50.000 0.00 0.00 0.00 4.49
3670 6656 0.110486 ATTTCCAGCCCTGTCGTGTT 59.890 50.000 0.00 0.00 0.00 3.32
3671 6657 0.534203 TTTCCAGCCCTGTCGTGTTC 60.534 55.000 0.00 0.00 0.00 3.18
3672 6658 2.358737 CCAGCCCTGTCGTGTTCC 60.359 66.667 0.00 0.00 0.00 3.62
3673 6659 2.358737 CAGCCCTGTCGTGTTCCC 60.359 66.667 0.00 0.00 0.00 3.97
3674 6660 3.637273 AGCCCTGTCGTGTTCCCC 61.637 66.667 0.00 0.00 0.00 4.81
3675 6661 3.637273 GCCCTGTCGTGTTCCCCT 61.637 66.667 0.00 0.00 0.00 4.79
3676 6662 3.157680 CCCTGTCGTGTTCCCCTT 58.842 61.111 0.00 0.00 0.00 3.95
3677 6663 1.454539 CCCTGTCGTGTTCCCCTTT 59.545 57.895 0.00 0.00 0.00 3.11
3678 6664 0.179001 CCCTGTCGTGTTCCCCTTTT 60.179 55.000 0.00 0.00 0.00 2.27
3679 6665 0.951558 CCTGTCGTGTTCCCCTTTTG 59.048 55.000 0.00 0.00 0.00 2.44
3680 6666 1.675552 CTGTCGTGTTCCCCTTTTGT 58.324 50.000 0.00 0.00 0.00 2.83
3681 6667 2.021457 CTGTCGTGTTCCCCTTTTGTT 58.979 47.619 0.00 0.00 0.00 2.83
3682 6668 3.207778 CTGTCGTGTTCCCCTTTTGTTA 58.792 45.455 0.00 0.00 0.00 2.41
3683 6669 3.207778 TGTCGTGTTCCCCTTTTGTTAG 58.792 45.455 0.00 0.00 0.00 2.34
3684 6670 3.208594 GTCGTGTTCCCCTTTTGTTAGT 58.791 45.455 0.00 0.00 0.00 2.24
3685 6671 3.628942 GTCGTGTTCCCCTTTTGTTAGTT 59.371 43.478 0.00 0.00 0.00 2.24
3686 6672 3.878699 TCGTGTTCCCCTTTTGTTAGTTC 59.121 43.478 0.00 0.00 0.00 3.01
3687 6673 3.881089 CGTGTTCCCCTTTTGTTAGTTCT 59.119 43.478 0.00 0.00 0.00 3.01
3688 6674 4.337274 CGTGTTCCCCTTTTGTTAGTTCTT 59.663 41.667 0.00 0.00 0.00 2.52
3689 6675 5.163591 CGTGTTCCCCTTTTGTTAGTTCTTT 60.164 40.000 0.00 0.00 0.00 2.52
3690 6676 6.626402 CGTGTTCCCCTTTTGTTAGTTCTTTT 60.626 38.462 0.00 0.00 0.00 2.27
3691 6677 7.101054 GTGTTCCCCTTTTGTTAGTTCTTTTT 58.899 34.615 0.00 0.00 0.00 1.94
3692 6678 8.252417 GTGTTCCCCTTTTGTTAGTTCTTTTTA 58.748 33.333 0.00 0.00 0.00 1.52
3693 6679 8.983789 TGTTCCCCTTTTGTTAGTTCTTTTTAT 58.016 29.630 0.00 0.00 0.00 1.40
3694 6680 9.826574 GTTCCCCTTTTGTTAGTTCTTTTTATT 57.173 29.630 0.00 0.00 0.00 1.40
3695 6681 9.825109 TTCCCCTTTTGTTAGTTCTTTTTATTG 57.175 29.630 0.00 0.00 0.00 1.90
3696 6682 9.203163 TCCCCTTTTGTTAGTTCTTTTTATTGA 57.797 29.630 0.00 0.00 0.00 2.57
3697 6683 9.256477 CCCCTTTTGTTAGTTCTTTTTATTGAC 57.744 33.333 0.00 0.00 0.00 3.18
3698 6684 9.256477 CCCTTTTGTTAGTTCTTTTTATTGACC 57.744 33.333 0.00 0.00 0.00 4.02
3699 6685 9.810545 CCTTTTGTTAGTTCTTTTTATTGACCA 57.189 29.630 0.00 0.00 0.00 4.02
3701 6687 8.865590 TTTGTTAGTTCTTTTTATTGACCAGC 57.134 30.769 0.00 0.00 0.00 4.85
3702 6688 6.664515 TGTTAGTTCTTTTTATTGACCAGCG 58.335 36.000 0.00 0.00 0.00 5.18
3703 6689 6.483974 TGTTAGTTCTTTTTATTGACCAGCGA 59.516 34.615 0.00 0.00 0.00 4.93
3704 6690 7.012515 TGTTAGTTCTTTTTATTGACCAGCGAA 59.987 33.333 0.00 0.00 0.00 4.70
3705 6691 5.758924 AGTTCTTTTTATTGACCAGCGAAC 58.241 37.500 0.00 0.00 0.00 3.95
3706 6692 5.298276 AGTTCTTTTTATTGACCAGCGAACA 59.702 36.000 0.00 0.00 32.84 3.18
3707 6693 5.759506 TCTTTTTATTGACCAGCGAACAA 57.240 34.783 0.00 0.00 0.00 2.83
3708 6694 6.137794 TCTTTTTATTGACCAGCGAACAAA 57.862 33.333 0.00 0.00 0.00 2.83
3709 6695 6.744112 TCTTTTTATTGACCAGCGAACAAAT 58.256 32.000 0.00 0.00 0.00 2.32
3710 6696 7.206687 TCTTTTTATTGACCAGCGAACAAATT 58.793 30.769 0.00 0.00 0.00 1.82
3711 6697 6.761731 TTTTATTGACCAGCGAACAAATTG 57.238 33.333 0.00 0.00 0.00 2.32
3712 6698 5.697473 TTATTGACCAGCGAACAAATTGA 57.303 34.783 0.00 0.00 0.00 2.57
3713 6699 4.789012 ATTGACCAGCGAACAAATTGAT 57.211 36.364 0.00 0.00 0.00 2.57
3714 6700 4.582701 TTGACCAGCGAACAAATTGATT 57.417 36.364 0.00 0.00 0.00 2.57
3715 6701 5.697473 TTGACCAGCGAACAAATTGATTA 57.303 34.783 0.00 0.00 0.00 1.75
3716 6702 5.697473 TGACCAGCGAACAAATTGATTAA 57.303 34.783 0.00 0.00 0.00 1.40
3717 6703 5.457140 TGACCAGCGAACAAATTGATTAAC 58.543 37.500 0.00 0.00 0.00 2.01
3718 6704 5.009110 TGACCAGCGAACAAATTGATTAACA 59.991 36.000 0.00 0.00 0.00 2.41
3719 6705 5.837437 ACCAGCGAACAAATTGATTAACAA 58.163 33.333 0.00 0.00 42.95 2.83
3720 6706 6.276847 ACCAGCGAACAAATTGATTAACAAA 58.723 32.000 0.00 0.00 42.03 2.83
3721 6707 6.200097 ACCAGCGAACAAATTGATTAACAAAC 59.800 34.615 0.00 0.00 42.03 2.93
3722 6708 6.420604 CCAGCGAACAAATTGATTAACAAACT 59.579 34.615 0.00 0.00 42.03 2.66
3723 6709 7.275785 CAGCGAACAAATTGATTAACAAACTG 58.724 34.615 0.00 0.00 42.03 3.16
3724 6710 6.064525 GCGAACAAATTGATTAACAAACTGC 58.935 36.000 0.00 0.00 42.03 4.40
3725 6711 6.580476 CGAACAAATTGATTAACAAACTGCC 58.420 36.000 0.00 0.00 42.03 4.85
3726 6712 6.523676 AACAAATTGATTAACAAACTGCCG 57.476 33.333 0.00 0.00 42.03 5.69
3727 6713 5.596845 ACAAATTGATTAACAAACTGCCGT 58.403 33.333 0.00 0.00 42.03 5.68
3728 6714 6.045955 ACAAATTGATTAACAAACTGCCGTT 58.954 32.000 0.00 0.00 42.03 4.44
3729 6715 6.200097 ACAAATTGATTAACAAACTGCCGTTC 59.800 34.615 0.00 0.00 42.03 3.95
3730 6716 5.705609 ATTGATTAACAAACTGCCGTTCT 57.294 34.783 0.00 0.00 42.03 3.01
3731 6717 4.481930 TGATTAACAAACTGCCGTTCTG 57.518 40.909 0.00 0.00 31.66 3.02
3732 6718 3.880490 TGATTAACAAACTGCCGTTCTGT 59.120 39.130 0.00 0.00 31.66 3.41
3733 6719 4.336993 TGATTAACAAACTGCCGTTCTGTT 59.663 37.500 18.02 18.02 38.30 3.16
3734 6720 5.527951 TGATTAACAAACTGCCGTTCTGTTA 59.472 36.000 16.73 16.73 36.07 2.41
3735 6721 3.963383 AACAAACTGCCGTTCTGTTAG 57.037 42.857 14.80 0.00 36.07 2.34
3736 6722 2.914059 ACAAACTGCCGTTCTGTTAGT 58.086 42.857 0.00 0.00 36.07 2.24
3737 6723 3.275999 ACAAACTGCCGTTCTGTTAGTT 58.724 40.909 0.00 0.00 36.07 2.24
3738 6724 3.311596 ACAAACTGCCGTTCTGTTAGTTC 59.688 43.478 0.00 0.00 36.07 3.01
3739 6725 3.470645 AACTGCCGTTCTGTTAGTTCT 57.529 42.857 0.00 0.00 35.46 3.01
3740 6726 3.470645 ACTGCCGTTCTGTTAGTTCTT 57.529 42.857 0.00 0.00 0.00 2.52
3741 6727 3.805207 ACTGCCGTTCTGTTAGTTCTTT 58.195 40.909 0.00 0.00 0.00 2.52
3742 6728 3.808174 ACTGCCGTTCTGTTAGTTCTTTC 59.192 43.478 0.00 0.00 0.00 2.62
3743 6729 4.058817 CTGCCGTTCTGTTAGTTCTTTCT 58.941 43.478 0.00 0.00 0.00 2.52
3744 6730 4.448210 TGCCGTTCTGTTAGTTCTTTCTT 58.552 39.130 0.00 0.00 0.00 2.52
3745 6731 5.603596 TGCCGTTCTGTTAGTTCTTTCTTA 58.396 37.500 0.00 0.00 0.00 2.10
3746 6732 6.228258 TGCCGTTCTGTTAGTTCTTTCTTAT 58.772 36.000 0.00 0.00 0.00 1.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 1.067821 GGAGACAAGGCGGATCAGTAG 59.932 57.143 0.00 0.00 0.00 2.57
8 9 1.112113 GGAGACAAGGCGGATCAGTA 58.888 55.000 0.00 0.00 0.00 2.74
138 144 2.740981 GAGTCGTCCTTGTCTCGTCTTA 59.259 50.000 0.00 0.00 0.00 2.10
173 179 2.432510 GGACTAGGTGAGGAGGACATTG 59.567 54.545 0.00 0.00 0.00 2.82
262 369 1.247567 CAACCAAGACCGGCAGAATT 58.752 50.000 0.00 0.00 0.00 2.17
267 374 1.002624 GATCCAACCAAGACCGGCA 60.003 57.895 0.00 0.00 0.00 5.69
269 376 1.679032 GGAAGATCCAACCAAGACCGG 60.679 57.143 0.00 0.00 36.28 5.28
325 444 7.489757 GCGTAGATCAGAATATTCCAACCTATC 59.510 40.741 11.92 6.53 0.00 2.08
511 630 2.695359 GTCAATCGACCACCTAGCAAA 58.305 47.619 0.00 0.00 36.02 3.68
562 682 8.120140 TCATCAATGGTCATGACAATACAAAA 57.880 30.769 26.47 5.90 0.00 2.44
675 797 3.438781 GTGACCGATCTGGCATGTAAAAA 59.561 43.478 0.00 0.00 43.94 1.94
676 798 3.006940 GTGACCGATCTGGCATGTAAAA 58.993 45.455 0.00 0.00 43.94 1.52
677 799 2.027653 TGTGACCGATCTGGCATGTAAA 60.028 45.455 0.00 0.00 43.94 2.01
678 800 1.552792 TGTGACCGATCTGGCATGTAA 59.447 47.619 0.00 0.00 43.94 2.41
679 801 1.136891 CTGTGACCGATCTGGCATGTA 59.863 52.381 0.00 0.00 43.94 2.29
699 821 2.094700 TCGAGCACCATTGTAGTCACTC 60.095 50.000 0.00 0.00 0.00 3.51
777 908 7.284944 CCCTAGAAAACCTTACTCGATTCTCTA 59.715 40.741 0.00 0.00 0.00 2.43
783 915 3.773119 TGCCCTAGAAAACCTTACTCGAT 59.227 43.478 0.00 0.00 0.00 3.59
810 3286 2.025981 ACATGCCAAACCAGATGAGCTA 60.026 45.455 0.00 0.00 0.00 3.32
988 3464 1.226974 CGCTCATGTTCCCGACGAT 60.227 57.895 0.00 0.00 0.00 3.73
989 3465 2.180769 CGCTCATGTTCCCGACGA 59.819 61.111 0.00 0.00 0.00 4.20
1071 3547 1.228245 GGTGCTGACCTTGAAGGCA 60.228 57.895 11.96 9.49 39.63 4.75
1365 3841 1.420138 ACCAAAATCAGACCCGACACT 59.580 47.619 0.00 0.00 0.00 3.55
1386 3862 0.601046 CTGCTCTGCAACAACCGAGA 60.601 55.000 2.78 0.00 38.41 4.04
1472 3948 0.885879 CTGGCTTGCTGCTTCATCAA 59.114 50.000 0.00 0.00 42.39 2.57
1495 3971 3.554692 CGAACCTGCGGCGACATC 61.555 66.667 12.98 2.29 0.00 3.06
1585 4061 8.956426 ACAAATTTGATCAGTACGTAATTCCAT 58.044 29.630 24.64 0.00 0.00 3.41
1594 4070 9.265938 CAGAATAACACAAATTTGATCAGTACG 57.734 33.333 24.64 2.64 0.00 3.67
1645 4125 5.475719 AGTGCAAAGATGTCATGAATTTGG 58.524 37.500 18.17 4.04 32.74 3.28
1681 4161 4.072131 TCTGCTGTGAAAATAGTCCCAAC 58.928 43.478 0.00 0.00 0.00 3.77
1736 4216 1.092348 GTCAGCCAATAAACCCCGAC 58.908 55.000 0.00 0.00 0.00 4.79
1789 4269 7.102993 ACTCATGGCATTAAATTTGGTTTACC 58.897 34.615 0.00 0.00 32.17 2.85
1868 4348 3.156293 TGTGCTTTGCCATCTGTTATGT 58.844 40.909 0.00 0.00 0.00 2.29
1885 4397 2.579207 TCGACCTTGTAGCTATGTGC 57.421 50.000 0.00 0.00 43.29 4.57
1892 4404 8.138365 TGATAAATATTGTTCGACCTTGTAGC 57.862 34.615 0.00 0.00 0.00 3.58
1915 4427 4.019950 TCCAACTGATGCTTCATTCTCTGA 60.020 41.667 2.33 0.00 0.00 3.27
1982 4494 7.094118 ACTGCCGTTTAATTAATACATGTTGGT 60.094 33.333 2.30 0.00 0.00 3.67
2067 4579 8.489559 CAAATATGTGATGACAAACAAAACAGG 58.510 33.333 0.00 0.00 35.11 4.00
2075 4587 4.081752 TGGGCCAAATATGTGATGACAAAC 60.082 41.667 2.13 0.00 35.11 2.93
2139 4651 7.744715 CACTGACGGTTTAAATGTTGAGATTAC 59.255 37.037 0.00 0.00 0.00 1.89
2295 4807 6.934645 TGTCGGATAATATCACAGAAAATCCC 59.065 38.462 2.41 0.00 0.00 3.85
2469 4981 0.767446 CCTCATCAGGATCTGGGCCT 60.767 60.000 4.53 0.00 43.65 5.19
2582 5094 7.121020 TGTTGCTATGATATCAACTGCAGAAAA 59.879 33.333 23.35 4.83 40.34 2.29
2585 5097 5.673514 TGTTGCTATGATATCAACTGCAGA 58.326 37.500 23.35 14.10 40.34 4.26
2737 5250 0.733150 GGCCAATCTTCTACCGCAAC 59.267 55.000 0.00 0.00 0.00 4.17
2812 5325 4.023193 CACCGGCAAATTTGTAGAGTTCTT 60.023 41.667 19.03 0.00 0.00 2.52
2833 5346 0.179134 CCTACACGCCTACAGCTCAC 60.179 60.000 0.00 0.00 40.39 3.51
2907 5420 2.166829 CTCCAGGAGAGATACCATCGG 58.833 57.143 11.62 0.00 46.50 4.18
2913 5426 4.202305 CCAAATCACCTCCAGGAGAGATAC 60.202 50.000 19.21 0.00 46.50 2.24
2962 5475 0.165079 ACGAACGCAAAGCCAATACG 59.835 50.000 0.00 0.00 0.00 3.06
3007 5520 5.444613 CGAATCAACACGGTTATCAAGACAG 60.445 44.000 0.00 0.00 0.00 3.51
3011 5524 4.625742 AGACGAATCAACACGGTTATCAAG 59.374 41.667 0.00 0.00 0.00 3.02
3063 5576 6.130298 TGATATTAAAACACGATGCCTTGG 57.870 37.500 0.00 0.00 0.00 3.61
3085 5598 6.546395 ACTGTAGCAAATTCGCTAAGAAATG 58.454 36.000 0.00 0.00 45.72 2.32
3086 5599 6.743575 ACTGTAGCAAATTCGCTAAGAAAT 57.256 33.333 0.00 0.00 45.72 2.17
3173 5855 0.452784 GATTTCCACACGCGCTCAAC 60.453 55.000 5.73 0.00 0.00 3.18
3219 5907 2.603075 AAATAGCCTCCAAGCAACCA 57.397 45.000 0.00 0.00 34.23 3.67
3243 5931 6.537301 TGTGATCGACTTCTTTGTACTGTTTT 59.463 34.615 0.00 0.00 0.00 2.43
3249 5937 6.237227 CGTGTATGTGATCGACTTCTTTGTAC 60.237 42.308 0.00 0.00 0.00 2.90
3250 5938 5.798434 CGTGTATGTGATCGACTTCTTTGTA 59.202 40.000 0.00 0.00 0.00 2.41
3251 5939 4.621460 CGTGTATGTGATCGACTTCTTTGT 59.379 41.667 0.00 0.00 0.00 2.83
3252 5940 4.857037 TCGTGTATGTGATCGACTTCTTTG 59.143 41.667 0.00 0.00 0.00 2.77
3254 5942 4.663166 CTCGTGTATGTGATCGACTTCTT 58.337 43.478 0.00 0.00 0.00 2.52
3318 6009 1.839994 TCTCTTGGAAGCACCCATAGG 59.160 52.381 0.00 0.00 35.87 2.57
3324 6015 1.933247 CTCGATCTCTTGGAAGCACC 58.067 55.000 0.00 0.00 39.54 5.01
3326 6017 0.176680 GGCTCGATCTCTTGGAAGCA 59.823 55.000 0.00 0.00 29.53 3.91
3327 6018 0.873743 CGGCTCGATCTCTTGGAAGC 60.874 60.000 0.00 0.00 0.00 3.86
3333 6024 0.600557 CTATGCCGGCTCGATCTCTT 59.399 55.000 29.70 3.51 0.00 2.85
3339 6030 0.463654 AAAATGCTATGCCGGCTCGA 60.464 50.000 29.70 7.94 0.00 4.04
3340 6031 0.317269 CAAAATGCTATGCCGGCTCG 60.317 55.000 29.70 16.50 0.00 5.03
3345 6036 9.630098 ATTTTATTATCTCAAAATGCTATGCCG 57.370 29.630 0.00 0.00 34.04 5.69
3385 6368 7.839680 AAATTAGGGAAAATCGCTGGATTAT 57.160 32.000 7.14 0.00 41.99 1.28
3389 6372 5.013547 TCAAAATTAGGGAAAATCGCTGGA 58.986 37.500 7.14 0.00 40.10 3.86
3417 6402 7.344441 GGTAAATTGTCATTGCAAGTGAAAAC 58.656 34.615 4.94 0.34 0.00 2.43
3418 6403 6.199908 CGGTAAATTGTCATTGCAAGTGAAAA 59.800 34.615 4.94 10.51 0.00 2.29
3453 6438 5.012768 CCCAATAGGATCCCTAATTACACGT 59.987 44.000 8.55 0.00 39.77 4.49
3562 6548 5.641636 GTCTTTCTAGAGGAAGAAAAGGCAG 59.358 44.000 8.19 0.00 43.13 4.85
3580 6566 3.850010 GCTTTCAGTTTCAGGCGTCTTTC 60.850 47.826 0.00 0.00 0.00 2.62
3586 6572 0.239347 CTGGCTTTCAGTTTCAGGCG 59.761 55.000 0.00 0.00 38.64 5.52
3587 6573 0.038801 GCTGGCTTTCAGTTTCAGGC 60.039 55.000 0.00 0.00 45.08 4.85
3588 6574 0.239347 CGCTGGCTTTCAGTTTCAGG 59.761 55.000 0.00 0.00 45.08 3.86
3589 6575 0.239347 CCGCTGGCTTTCAGTTTCAG 59.761 55.000 0.00 0.00 45.08 3.02
3590 6576 0.465460 ACCGCTGGCTTTCAGTTTCA 60.465 50.000 0.00 0.00 45.08 2.69
3591 6577 0.238553 GACCGCTGGCTTTCAGTTTC 59.761 55.000 0.00 0.00 45.08 2.78
3592 6578 0.465460 TGACCGCTGGCTTTCAGTTT 60.465 50.000 0.00 0.00 45.08 2.66
3593 6579 0.886490 CTGACCGCTGGCTTTCAGTT 60.886 55.000 10.31 0.00 45.08 3.16
3594 6580 1.302033 CTGACCGCTGGCTTTCAGT 60.302 57.895 10.31 0.00 45.08 3.41
3595 6581 1.294659 GACTGACCGCTGGCTTTCAG 61.295 60.000 14.56 14.56 46.03 3.02
3596 6582 1.301716 GACTGACCGCTGGCTTTCA 60.302 57.895 0.00 0.00 0.00 2.69
3597 6583 2.383527 CGACTGACCGCTGGCTTTC 61.384 63.158 0.00 0.00 0.00 2.62
3598 6584 2.357517 CGACTGACCGCTGGCTTT 60.358 61.111 0.00 0.00 0.00 3.51
3599 6585 4.379243 CCGACTGACCGCTGGCTT 62.379 66.667 0.00 0.00 0.00 4.35
3602 6588 4.436998 GGACCGACTGACCGCTGG 62.437 72.222 0.00 0.00 0.00 4.85
3603 6589 3.220999 TTGGACCGACTGACCGCTG 62.221 63.158 0.00 0.00 0.00 5.18
3604 6590 2.915659 TTGGACCGACTGACCGCT 60.916 61.111 0.00 0.00 0.00 5.52
3605 6591 2.430382 TTCTTGGACCGACTGACCGC 62.430 60.000 0.00 0.00 0.00 5.68
3606 6592 0.666577 GTTCTTGGACCGACTGACCG 60.667 60.000 0.00 0.00 0.00 4.79
3607 6593 0.320508 GGTTCTTGGACCGACTGACC 60.321 60.000 0.00 0.00 0.00 4.02
3608 6594 0.391597 TGGTTCTTGGACCGACTGAC 59.608 55.000 0.00 0.00 42.83 3.51
3609 6595 1.124780 TTGGTTCTTGGACCGACTGA 58.875 50.000 0.00 0.00 42.83 3.41
3610 6596 1.226746 GTTGGTTCTTGGACCGACTG 58.773 55.000 10.52 0.00 46.38 3.51
3611 6597 3.700198 GTTGGTTCTTGGACCGACT 57.300 52.632 10.52 0.00 46.38 4.18
3613 6599 1.057851 AGGGTTGGTTCTTGGACCGA 61.058 55.000 0.00 0.00 42.83 4.69
3614 6600 0.688487 TAGGGTTGGTTCTTGGACCG 59.312 55.000 0.00 0.00 42.83 4.79
3615 6601 1.982958 TCTAGGGTTGGTTCTTGGACC 59.017 52.381 0.00 0.00 40.23 4.46
3616 6602 2.615747 GCTCTAGGGTTGGTTCTTGGAC 60.616 54.545 0.00 0.00 0.00 4.02
3617 6603 1.628846 GCTCTAGGGTTGGTTCTTGGA 59.371 52.381 0.00 0.00 0.00 3.53
3618 6604 1.340114 GGCTCTAGGGTTGGTTCTTGG 60.340 57.143 0.00 0.00 0.00 3.61
3619 6605 1.676014 CGGCTCTAGGGTTGGTTCTTG 60.676 57.143 0.00 0.00 0.00 3.02
3620 6606 0.613777 CGGCTCTAGGGTTGGTTCTT 59.386 55.000 0.00 0.00 0.00 2.52
3621 6607 1.265454 CCGGCTCTAGGGTTGGTTCT 61.265 60.000 0.00 0.00 0.00 3.01
3622 6608 1.221021 CCGGCTCTAGGGTTGGTTC 59.779 63.158 0.00 0.00 0.00 3.62
3623 6609 1.538135 ACCGGCTCTAGGGTTGGTT 60.538 57.895 0.00 0.00 30.73 3.67
3624 6610 2.122056 ACCGGCTCTAGGGTTGGT 59.878 61.111 0.00 2.37 30.73 3.67
3625 6611 2.584608 CACCGGCTCTAGGGTTGG 59.415 66.667 0.00 1.13 33.23 3.77
3626 6612 2.291043 ACCACCGGCTCTAGGGTTG 61.291 63.158 0.00 0.00 33.23 3.77
3627 6613 2.122056 ACCACCGGCTCTAGGGTT 59.878 61.111 0.00 0.00 33.23 4.11
3628 6614 2.683933 CACCACCGGCTCTAGGGT 60.684 66.667 0.00 0.00 36.87 4.34
3629 6615 3.470888 CCACCACCGGCTCTAGGG 61.471 72.222 0.00 0.00 0.00 3.53
3630 6616 3.470888 CCCACCACCGGCTCTAGG 61.471 72.222 0.00 0.00 0.00 3.02
3631 6617 4.162690 GCCCACCACCGGCTCTAG 62.163 72.222 0.00 0.00 43.48 2.43
3637 6623 1.291906 GAAATTTGCCCACCACCGG 59.708 57.895 0.00 0.00 0.00 5.28
3638 6624 1.291906 GGAAATTTGCCCACCACCG 59.708 57.895 0.00 0.00 0.00 4.94
3639 6625 0.321346 CTGGAAATTTGCCCACCACC 59.679 55.000 7.27 0.00 0.00 4.61
3640 6626 0.320683 GCTGGAAATTTGCCCACCAC 60.321 55.000 7.27 0.00 0.00 4.16
3641 6627 1.479368 GGCTGGAAATTTGCCCACCA 61.479 55.000 7.27 1.46 40.71 4.17
3642 6628 1.296392 GGCTGGAAATTTGCCCACC 59.704 57.895 7.27 2.39 40.71 4.61
3646 6632 0.247460 GACAGGGCTGGAAATTTGCC 59.753 55.000 7.27 8.26 45.42 4.52
3647 6633 0.109132 CGACAGGGCTGGAAATTTGC 60.109 55.000 2.22 2.22 34.19 3.68
3648 6634 1.068333 CACGACAGGGCTGGAAATTTG 60.068 52.381 0.00 0.00 34.19 2.32
3649 6635 1.247567 CACGACAGGGCTGGAAATTT 58.752 50.000 0.00 0.00 34.19 1.82
3650 6636 0.110486 ACACGACAGGGCTGGAAATT 59.890 50.000 0.00 0.00 34.19 1.82
3651 6637 0.110486 AACACGACAGGGCTGGAAAT 59.890 50.000 0.00 0.00 34.19 2.17
3652 6638 0.534203 GAACACGACAGGGCTGGAAA 60.534 55.000 0.00 0.00 34.19 3.13
3653 6639 1.070786 GAACACGACAGGGCTGGAA 59.929 57.895 0.00 0.00 34.19 3.53
3654 6640 2.741092 GAACACGACAGGGCTGGA 59.259 61.111 0.00 0.00 34.19 3.86
3655 6641 2.358737 GGAACACGACAGGGCTGG 60.359 66.667 0.00 0.00 34.19 4.85
3656 6642 2.358737 GGGAACACGACAGGGCTG 60.359 66.667 0.00 0.00 0.00 4.85
3657 6643 3.637273 GGGGAACACGACAGGGCT 61.637 66.667 0.00 0.00 0.00 5.19
3658 6644 2.692273 AAAGGGGAACACGACAGGGC 62.692 60.000 0.00 0.00 0.00 5.19
3659 6645 0.179001 AAAAGGGGAACACGACAGGG 60.179 55.000 0.00 0.00 0.00 4.45
3660 6646 0.951558 CAAAAGGGGAACACGACAGG 59.048 55.000 0.00 0.00 0.00 4.00
3661 6647 1.675552 ACAAAAGGGGAACACGACAG 58.324 50.000 0.00 0.00 0.00 3.51
3662 6648 2.131776 AACAAAAGGGGAACACGACA 57.868 45.000 0.00 0.00 0.00 4.35
3663 6649 3.208594 ACTAACAAAAGGGGAACACGAC 58.791 45.455 0.00 0.00 0.00 4.34
3664 6650 3.564053 ACTAACAAAAGGGGAACACGA 57.436 42.857 0.00 0.00 0.00 4.35
3665 6651 3.881089 AGAACTAACAAAAGGGGAACACG 59.119 43.478 0.00 0.00 0.00 4.49
3666 6652 5.847111 AAGAACTAACAAAAGGGGAACAC 57.153 39.130 0.00 0.00 0.00 3.32
3667 6653 6.860790 AAAAGAACTAACAAAAGGGGAACA 57.139 33.333 0.00 0.00 0.00 3.18
3668 6654 9.826574 AATAAAAAGAACTAACAAAAGGGGAAC 57.173 29.630 0.00 0.00 0.00 3.62
3669 6655 9.825109 CAATAAAAAGAACTAACAAAAGGGGAA 57.175 29.630 0.00 0.00 0.00 3.97
3670 6656 9.203163 TCAATAAAAAGAACTAACAAAAGGGGA 57.797 29.630 0.00 0.00 0.00 4.81
3671 6657 9.256477 GTCAATAAAAAGAACTAACAAAAGGGG 57.744 33.333 0.00 0.00 0.00 4.79
3672 6658 9.256477 GGTCAATAAAAAGAACTAACAAAAGGG 57.744 33.333 0.00 0.00 0.00 3.95
3673 6659 9.810545 TGGTCAATAAAAAGAACTAACAAAAGG 57.189 29.630 0.00 0.00 0.00 3.11
3675 6661 9.308318 GCTGGTCAATAAAAAGAACTAACAAAA 57.692 29.630 0.00 0.00 0.00 2.44
3676 6662 7.646130 CGCTGGTCAATAAAAAGAACTAACAAA 59.354 33.333 0.00 0.00 0.00 2.83
3677 6663 7.012515 TCGCTGGTCAATAAAAAGAACTAACAA 59.987 33.333 0.00 0.00 0.00 2.83
3678 6664 6.483974 TCGCTGGTCAATAAAAAGAACTAACA 59.516 34.615 0.00 0.00 0.00 2.41
3679 6665 6.894828 TCGCTGGTCAATAAAAAGAACTAAC 58.105 36.000 0.00 0.00 0.00 2.34
3680 6666 7.012515 TGTTCGCTGGTCAATAAAAAGAACTAA 59.987 33.333 6.16 0.00 37.11 2.24
3681 6667 6.483974 TGTTCGCTGGTCAATAAAAAGAACTA 59.516 34.615 6.16 0.00 37.11 2.24
3682 6668 5.298276 TGTTCGCTGGTCAATAAAAAGAACT 59.702 36.000 6.16 0.00 37.11 3.01
3683 6669 5.516090 TGTTCGCTGGTCAATAAAAAGAAC 58.484 37.500 0.00 0.00 36.83 3.01
3684 6670 5.759506 TGTTCGCTGGTCAATAAAAAGAA 57.240 34.783 0.00 0.00 0.00 2.52
3685 6671 5.759506 TTGTTCGCTGGTCAATAAAAAGA 57.240 34.783 0.00 0.00 0.00 2.52
3686 6672 7.168972 TCAATTTGTTCGCTGGTCAATAAAAAG 59.831 33.333 0.00 0.00 0.00 2.27
3687 6673 6.980978 TCAATTTGTTCGCTGGTCAATAAAAA 59.019 30.769 0.00 0.00 0.00 1.94
3688 6674 6.507900 TCAATTTGTTCGCTGGTCAATAAAA 58.492 32.000 0.00 0.00 0.00 1.52
3689 6675 6.078202 TCAATTTGTTCGCTGGTCAATAAA 57.922 33.333 0.00 0.00 0.00 1.40
3690 6676 5.697473 TCAATTTGTTCGCTGGTCAATAA 57.303 34.783 0.00 0.00 0.00 1.40
3691 6677 5.895636 ATCAATTTGTTCGCTGGTCAATA 57.104 34.783 0.00 0.00 0.00 1.90
3692 6678 4.789012 ATCAATTTGTTCGCTGGTCAAT 57.211 36.364 0.00 0.00 0.00 2.57
3693 6679 4.582701 AATCAATTTGTTCGCTGGTCAA 57.417 36.364 0.00 0.00 0.00 3.18
3694 6680 5.009110 TGTTAATCAATTTGTTCGCTGGTCA 59.991 36.000 0.00 0.00 0.00 4.02
3695 6681 5.457140 TGTTAATCAATTTGTTCGCTGGTC 58.543 37.500 0.00 0.00 0.00 4.02
3696 6682 5.446143 TGTTAATCAATTTGTTCGCTGGT 57.554 34.783 0.00 0.00 0.00 4.00
3697 6683 6.420604 AGTTTGTTAATCAATTTGTTCGCTGG 59.579 34.615 0.00 0.00 35.84 4.85
3698 6684 7.275785 CAGTTTGTTAATCAATTTGTTCGCTG 58.724 34.615 0.00 0.00 35.84 5.18
3699 6685 6.074356 GCAGTTTGTTAATCAATTTGTTCGCT 60.074 34.615 0.00 0.00 35.84 4.93
3700 6686 6.064525 GCAGTTTGTTAATCAATTTGTTCGC 58.935 36.000 0.00 0.00 35.84 4.70
3701 6687 6.580476 GGCAGTTTGTTAATCAATTTGTTCG 58.420 36.000 0.00 0.00 35.84 3.95
3702 6688 6.200097 ACGGCAGTTTGTTAATCAATTTGTTC 59.800 34.615 0.00 0.00 35.84 3.18
3703 6689 6.045955 ACGGCAGTTTGTTAATCAATTTGTT 58.954 32.000 0.00 0.00 35.84 2.83
3704 6690 5.596845 ACGGCAGTTTGTTAATCAATTTGT 58.403 33.333 0.00 0.00 35.84 2.83
3705 6691 6.420604 AGAACGGCAGTTTGTTAATCAATTTG 59.579 34.615 3.10 0.00 41.34 2.32
3706 6692 6.420604 CAGAACGGCAGTTTGTTAATCAATTT 59.579 34.615 3.10 0.00 41.34 1.82
3707 6693 5.920273 CAGAACGGCAGTTTGTTAATCAATT 59.080 36.000 3.10 0.00 41.34 2.32
3708 6694 5.009610 ACAGAACGGCAGTTTGTTAATCAAT 59.990 36.000 3.10 0.00 41.34 2.57
3709 6695 4.336993 ACAGAACGGCAGTTTGTTAATCAA 59.663 37.500 3.10 0.00 41.34 2.57
3710 6696 3.880490 ACAGAACGGCAGTTTGTTAATCA 59.120 39.130 3.10 0.00 41.34 2.57
3711 6697 4.483476 ACAGAACGGCAGTTTGTTAATC 57.517 40.909 3.10 0.00 41.34 1.75
3712 6698 4.911514 AACAGAACGGCAGTTTGTTAAT 57.088 36.364 19.89 5.69 41.34 1.40
3713 6699 4.877251 ACTAACAGAACGGCAGTTTGTTAA 59.123 37.500 23.22 14.75 41.34 2.01
3714 6700 4.444536 ACTAACAGAACGGCAGTTTGTTA 58.555 39.130 22.46 22.46 41.34 2.41
3715 6701 3.275999 ACTAACAGAACGGCAGTTTGTT 58.724 40.909 22.57 22.57 41.34 2.83
3716 6702 2.914059 ACTAACAGAACGGCAGTTTGT 58.086 42.857 3.10 7.57 41.34 2.83
3717 6703 3.560068 AGAACTAACAGAACGGCAGTTTG 59.440 43.478 3.10 6.97 41.34 2.93
3718 6704 3.805207 AGAACTAACAGAACGGCAGTTT 58.195 40.909 3.10 0.00 41.34 2.66
3719 6705 3.470645 AGAACTAACAGAACGGCAGTT 57.529 42.857 0.50 0.50 44.47 3.16
3720 6706 3.470645 AAGAACTAACAGAACGGCAGT 57.529 42.857 0.00 0.00 0.00 4.40
3721 6707 4.058817 AGAAAGAACTAACAGAACGGCAG 58.941 43.478 0.00 0.00 0.00 4.85
3722 6708 4.067972 AGAAAGAACTAACAGAACGGCA 57.932 40.909 0.00 0.00 0.00 5.69
3723 6709 6.723131 ATAAGAAAGAACTAACAGAACGGC 57.277 37.500 0.00 0.00 0.00 5.68


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

AutoCloner maintained by Alex Coulton.