Multiple sequence alignment - TraesCS6B01G251500

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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 TraesCS6B01G251500 chr6B 100.000 4364 0 0 1 4364 450895743 450900106 0.000000e+00 8059.0
1 TraesCS6B01G251500 chr6B 99.286 140 1 0 3746 3885 450899354 450899493 2.010000e-63 254.0
2 TraesCS6B01G251500 chr6B 99.286 140 1 0 3612 3751 450899488 450899627 2.010000e-63 254.0
3 TraesCS6B01G251500 chr6D 97.068 2490 58 6 1 2486 290315986 290318464 0.000000e+00 4180.0
4 TraesCS6B01G251500 chr6D 91.847 417 25 5 2715 3128 290319064 290319474 1.360000e-159 573.0
5 TraesCS6B01G251500 chr6D 87.124 466 26 16 3746 4209 290320138 290320571 8.430000e-137 497.0
6 TraesCS6B01G251500 chr6D 90.879 307 15 4 3445 3751 290319984 290320277 2.450000e-107 399.0
7 TraesCS6B01G251500 chr6D 91.228 228 11 3 2483 2710 290318793 290319011 7.090000e-78 302.0
8 TraesCS6B01G251500 chr6D 87.552 241 12 9 3121 3344 290319538 290319777 3.350000e-66 263.0
9 TraesCS6B01G251500 chr6D 82.099 162 14 13 2495 2647 342549977 342549822 1.650000e-24 124.0
10 TraesCS6B01G251500 chr6D 82.099 162 14 13 2495 2647 357921190 357921345 1.650000e-24 124.0
11 TraesCS6B01G251500 chr6D 94.737 76 1 1 4206 4278 290320607 290320682 9.920000e-22 115.0
12 TraesCS6B01G251500 chr6D 76.786 224 37 14 2495 2710 138106416 138106632 1.280000e-20 111.0
13 TraesCS6B01G251500 chr6D 92.000 50 4 0 4315 4364 290320790 290320839 2.180000e-08 71.3
14 TraesCS6B01G251500 chr6A 95.727 1334 40 12 2016 3334 433965465 433964134 0.000000e+00 2132.0
15 TraesCS6B01G251500 chr6A 95.524 782 20 3 707 1487 433968841 433968074 0.000000e+00 1236.0
16 TraesCS6B01G251500 chr6A 94.522 712 35 4 1 709 433969633 433968923 0.000000e+00 1096.0
17 TraesCS6B01G251500 chr6A 96.296 540 16 2 1493 2031 433967768 433967232 0.000000e+00 883.0
18 TraesCS6B01G251500 chr6A 94.710 397 13 4 3363 3751 433964136 433963740 1.040000e-170 610.0
19 TraesCS6B01G251500 chr6A 90.708 226 10 6 3746 3960 433963886 433963661 1.540000e-74 291.0
20 TraesCS6B01G251500 chr6A 92.593 54 0 1 4315 4364 433963231 433963178 1.680000e-09 75.0
21 TraesCS6B01G251500 chr4A 81.560 282 43 9 1517 1796 199298746 199299020 1.580000e-54 224.0
22 TraesCS6B01G251500 chr4D 85.492 193 23 5 1607 1797 388249316 388249127 3.440000e-46 196.0
23 TraesCS6B01G251500 chr2D 82.609 161 15 12 2495 2647 508367892 508367737 3.540000e-26 130.0
24 TraesCS6B01G251500 chr3D 81.988 161 16 12 2495 2647 428574608 428574453 1.650000e-24 124.0
25 TraesCS6B01G251500 chr1D 81.988 161 16 12 2495 2647 12474052 12473897 1.650000e-24 124.0
26 TraesCS6B01G251500 chr1D 81.065 169 17 14 2487 2647 316089564 316089725 2.130000e-23 121.0


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 TraesCS6B01G251500 chr6B 450895743 450900106 4363 False 2855.666667 8059 99.524000 1 4364 3 chr6B.!!$F1 4363
1 TraesCS6B01G251500 chr6D 290315986 290320839 4853 False 800.037500 4180 91.554375 1 4364 8 chr6D.!!$F3 4363
2 TraesCS6B01G251500 chr6A 433963178 433969633 6455 True 903.285714 2132 94.297143 1 4364 7 chr6A.!!$R1 4363

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
257 259 0.037877 AGCTCTCTTTGTGCAGGCAT 59.962 50.000 0.00 0.0 37.61 4.40 F
1230 1319 2.158711 ACTGATGGAATCCACGATGCAT 60.159 45.455 3.09 0.0 44.73 3.96 F
2541 5052 0.112995 ATGGTGGTGTGTCTGCCATT 59.887 50.000 0.00 0.0 36.64 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1338 1427 0.316841 GCTCGAGATGGGATGGACTC 59.683 60.0 18.75 0.0 0.00 3.36 R
2652 5170 0.179097 GGGACGAAGATGGTCTCTGC 60.179 60.0 0.00 0.0 33.29 4.26 R
3795 6601 0.107456 CTGGTCTGTTGCAGTGTCCT 59.893 55.0 0.00 0.0 32.61 3.85 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
66 68 3.651423 GGGGGTTACTTAGCCATGTAGAT 59.349 47.826 0.00 0.00 46.65 1.98
85 87 8.657387 TGTAGATTTTATGTTCCCCAAAATCA 57.343 30.769 16.81 5.15 45.03 2.57
165 167 4.039973 AGTGTAAAGTCGGAAGTCATTGGA 59.960 41.667 0.00 0.00 0.00 3.53
205 207 4.500545 CCATCAACTCGTAGATCCCTTCAG 60.501 50.000 0.00 0.00 33.89 3.02
247 249 6.239036 GGTGTTCACCAATTTTAGCTCTCTTT 60.239 38.462 16.01 0.00 0.00 2.52
257 259 0.037877 AGCTCTCTTTGTGCAGGCAT 59.962 50.000 0.00 0.00 37.61 4.40
267 269 2.250031 TGTGCAGGCATCCAAAAAGAT 58.750 42.857 0.00 0.00 0.00 2.40
355 358 9.367444 CCTGACAGATTAGTTAAAGAATAACGT 57.633 33.333 3.32 0.00 33.00 3.99
472 476 2.753055 GCTAGGCAGCTAAGGGTATC 57.247 55.000 0.00 0.00 44.93 2.24
657 662 6.151985 ACATAAGCCAAATGTTTCGTGGATAA 59.848 34.615 0.00 0.00 33.83 1.75
686 691 8.573035 TGAATTGAATTGTCTAAACCCTGTAAC 58.427 33.333 0.00 0.00 0.00 2.50
842 931 9.875691 TGTCTTGATGTATAATAGTATCATGGC 57.124 33.333 0.00 0.00 32.91 4.40
850 939 7.832685 TGTATAATAGTATCATGGCGAGGTAGT 59.167 37.037 0.00 0.00 0.00 2.73
928 1017 5.089970 TGCTTTAGCTGTGTAGTCATGAT 57.910 39.130 0.00 0.00 42.66 2.45
946 1035 7.445096 AGTCATGATATTTGTGTTTCAGTGTCA 59.555 33.333 0.00 0.00 0.00 3.58
1099 1188 7.359595 TCCAAAAGTATGATTCGTTCAGTTTG 58.640 34.615 0.00 0.00 37.89 2.93
1230 1319 2.158711 ACTGATGGAATCCACGATGCAT 60.159 45.455 3.09 0.00 44.73 3.96
1248 1337 6.090493 CGATGCATGTAATCTTGTATCTGGAG 59.910 42.308 2.46 0.00 38.06 3.86
1457 1552 6.942532 AAACTTGCAACTCTTGTGATCTTA 57.057 33.333 0.00 0.00 0.00 2.10
1512 1908 1.166989 AACCTCTTCGTCTCGAGACC 58.833 55.000 33.85 19.31 41.86 3.85
1537 1933 6.702282 CCGAGGTGGACTCTTAAATTCTATTC 59.298 42.308 0.00 0.00 44.33 1.75
2031 4210 1.633432 ACCTTGCATGGGCTACAAGTA 59.367 47.619 21.67 0.00 39.30 2.24
2287 4466 0.953727 TTGTGTGATGTCTTGGCAGC 59.046 50.000 0.00 0.00 0.00 5.25
2372 4551 7.097192 TCTGTCTGCAAACGACTTAAGATATT 58.903 34.615 10.09 0.00 32.70 1.28
2441 4620 5.417894 TGTGAGAGTGATAACTCATAACCGT 59.582 40.000 12.98 0.00 43.46 4.83
2541 5052 0.112995 ATGGTGGTGTGTCTGCCATT 59.887 50.000 0.00 0.00 36.64 3.16
2555 5066 1.278985 TGCCATTCGTCATTCTGACCT 59.721 47.619 1.90 0.00 44.20 3.85
2556 5067 2.290260 TGCCATTCGTCATTCTGACCTT 60.290 45.455 1.90 0.00 44.20 3.50
2557 5068 3.055458 TGCCATTCGTCATTCTGACCTTA 60.055 43.478 1.90 0.00 44.20 2.69
2558 5069 3.309954 GCCATTCGTCATTCTGACCTTAC 59.690 47.826 1.90 0.00 44.20 2.34
2559 5070 4.503910 CCATTCGTCATTCTGACCTTACA 58.496 43.478 1.90 0.00 44.20 2.41
2560 5071 4.935205 CCATTCGTCATTCTGACCTTACAA 59.065 41.667 1.90 0.00 44.20 2.41
2561 5072 5.586243 CCATTCGTCATTCTGACCTTACAAT 59.414 40.000 1.90 0.00 44.20 2.71
2562 5073 6.238211 CCATTCGTCATTCTGACCTTACAATC 60.238 42.308 1.90 0.00 44.20 2.67
2567 5085 4.937620 TCATTCTGACCTTACAATCTGCAC 59.062 41.667 0.00 0.00 0.00 4.57
2627 5145 3.915073 AGGATATGACCATTCTGCTCCAT 59.085 43.478 0.00 0.00 0.00 3.41
2652 5170 1.949079 GCAGAAAACCCCTTAGTCCCG 60.949 57.143 0.00 0.00 0.00 5.14
2657 5175 1.265454 AACCCCTTAGTCCCGCAGAG 61.265 60.000 0.00 0.00 0.00 3.35
2658 5176 1.381327 CCCCTTAGTCCCGCAGAGA 60.381 63.158 0.00 0.00 0.00 3.10
2659 5177 1.677637 CCCCTTAGTCCCGCAGAGAC 61.678 65.000 0.00 0.00 34.62 3.36
2660 5178 1.677637 CCCTTAGTCCCGCAGAGACC 61.678 65.000 0.00 0.00 35.14 3.85
2661 5179 0.970937 CCTTAGTCCCGCAGAGACCA 60.971 60.000 0.00 0.00 35.14 4.02
2664 5182 0.259065 TAGTCCCGCAGAGACCATCT 59.741 55.000 0.00 0.00 35.14 2.90
2705 5226 8.526147 CCTCATTCAAACAAACAAGAGGAATAT 58.474 33.333 0.00 0.00 43.07 1.28
2766 5336 9.986157 AGCATGTATTATCTATTTTGGATCCAT 57.014 29.630 17.06 2.96 0.00 3.41
3131 5774 6.425114 CCTTTTTATACGTGATAGAGCTGCAT 59.575 38.462 1.02 0.00 0.00 3.96
3206 5854 8.006590 GTCGTGCTAGATTTCTGCTTATATTTG 58.993 37.037 0.00 0.00 0.00 2.32
3297 5950 6.074648 TCATTTCAATACCAAGGTCAGGTTT 58.925 36.000 0.00 0.00 40.54 3.27
3334 6077 2.234908 AGCATACACTCAGGTGGAAGAC 59.765 50.000 1.29 0.00 46.85 3.01
3335 6078 2.678190 GCATACACTCAGGTGGAAGACC 60.678 54.545 1.29 0.00 46.85 3.85
3346 6089 2.380084 TGGAAGACCATGTAAGCGAC 57.620 50.000 0.00 0.00 41.77 5.19
3347 6090 1.066430 TGGAAGACCATGTAAGCGACC 60.066 52.381 0.00 0.00 41.77 4.79
3348 6091 1.066430 GGAAGACCATGTAAGCGACCA 60.066 52.381 0.00 0.00 35.97 4.02
3349 6092 2.420129 GGAAGACCATGTAAGCGACCAT 60.420 50.000 0.00 0.00 35.97 3.55
3350 6093 3.270877 GAAGACCATGTAAGCGACCATT 58.729 45.455 0.00 0.00 0.00 3.16
3351 6094 2.632377 AGACCATGTAAGCGACCATTG 58.368 47.619 0.00 0.00 0.00 2.82
3352 6095 2.236146 AGACCATGTAAGCGACCATTGA 59.764 45.455 0.00 0.00 0.00 2.57
3353 6096 3.006940 GACCATGTAAGCGACCATTGAA 58.993 45.455 0.00 0.00 0.00 2.69
3354 6097 3.620488 ACCATGTAAGCGACCATTGAAT 58.380 40.909 0.00 0.00 0.00 2.57
3355 6098 3.378112 ACCATGTAAGCGACCATTGAATG 59.622 43.478 0.00 0.00 0.00 2.67
3356 6099 3.627123 CCATGTAAGCGACCATTGAATGA 59.373 43.478 6.76 0.00 0.00 2.57
3357 6100 4.496341 CCATGTAAGCGACCATTGAATGAC 60.496 45.833 6.76 0.00 0.00 3.06
3358 6101 3.006940 TGTAAGCGACCATTGAATGACC 58.993 45.455 6.76 0.00 0.00 4.02
3359 6102 2.198827 AAGCGACCATTGAATGACCA 57.801 45.000 6.76 0.00 0.00 4.02
3360 6103 1.742761 AGCGACCATTGAATGACCAG 58.257 50.000 6.76 0.00 0.00 4.00
3361 6104 1.003580 AGCGACCATTGAATGACCAGT 59.996 47.619 6.76 0.00 0.00 4.00
3362 6105 2.236146 AGCGACCATTGAATGACCAGTA 59.764 45.455 6.76 0.00 0.00 2.74
3363 6106 2.609459 GCGACCATTGAATGACCAGTAG 59.391 50.000 6.76 0.00 0.00 2.57
3364 6107 3.678806 GCGACCATTGAATGACCAGTAGA 60.679 47.826 6.76 0.00 0.00 2.59
3382 6125 5.695816 CAGTAGATCCTGAAAATGAGCTAGC 59.304 44.000 6.62 6.62 30.77 3.42
3417 6160 0.687354 AATGGTGCTCAACGGAGAGT 59.313 50.000 7.98 0.00 44.26 3.24
3461 6259 0.178975 TTCCCCTGCCAACGTTTCAT 60.179 50.000 0.00 0.00 0.00 2.57
3520 6319 3.690139 TGTCTTGAGATACTCGAGTGTCC 59.310 47.826 31.30 23.90 41.44 4.02
3729 6535 1.529309 GACCCCTGCAGAATCTCCC 59.471 63.158 17.39 0.00 0.00 4.30
3730 6536 2.317149 GACCCCTGCAGAATCTCCCG 62.317 65.000 17.39 0.00 0.00 5.14
3731 6537 2.066393 CCCCTGCAGAATCTCCCGA 61.066 63.158 17.39 0.00 0.00 5.14
3732 6538 1.445095 CCCTGCAGAATCTCCCGAG 59.555 63.158 17.39 0.00 0.00 4.63
3733 6539 1.045350 CCCTGCAGAATCTCCCGAGA 61.045 60.000 17.39 0.00 42.37 4.04
3734 6540 0.826715 CCTGCAGAATCTCCCGAGAA 59.173 55.000 17.39 0.00 41.36 2.87
3735 6541 1.208052 CCTGCAGAATCTCCCGAGAAA 59.792 52.381 17.39 0.00 41.36 2.52
3736 6542 2.548875 CTGCAGAATCTCCCGAGAAAG 58.451 52.381 8.42 0.00 41.36 2.62
3737 6543 1.208052 TGCAGAATCTCCCGAGAAAGG 59.792 52.381 0.00 0.00 41.36 3.11
3738 6544 1.208293 GCAGAATCTCCCGAGAAAGGT 59.792 52.381 0.00 0.00 41.36 3.50
3739 6545 2.740256 GCAGAATCTCCCGAGAAAGGTC 60.740 54.545 0.00 0.00 41.36 3.85
3740 6546 2.763448 CAGAATCTCCCGAGAAAGGTCT 59.237 50.000 0.00 0.00 41.36 3.85
3741 6547 3.196685 CAGAATCTCCCGAGAAAGGTCTT 59.803 47.826 0.00 0.00 41.36 3.01
3742 6548 3.449377 AGAATCTCCCGAGAAAGGTCTTC 59.551 47.826 0.00 0.00 41.36 2.87
3743 6549 1.174783 TCTCCCGAGAAAGGTCTTCG 58.825 55.000 0.00 0.00 32.80 3.79
3744 6550 0.458716 CTCCCGAGAAAGGTCTTCGC 60.459 60.000 0.00 0.00 32.80 4.70
3745 6551 0.898789 TCCCGAGAAAGGTCTTCGCT 60.899 55.000 0.00 0.00 32.80 4.93
3746 6552 0.458716 CCCGAGAAAGGTCTTCGCTC 60.459 60.000 0.00 0.00 32.80 5.03
3747 6553 0.243907 CCGAGAAAGGTCTTCGCTCA 59.756 55.000 11.41 0.00 32.80 4.26
3748 6554 1.134965 CCGAGAAAGGTCTTCGCTCAT 60.135 52.381 11.41 0.00 32.80 2.90
3749 6555 2.189342 CGAGAAAGGTCTTCGCTCATC 58.811 52.381 11.41 0.00 32.80 2.92
3750 6556 2.416027 CGAGAAAGGTCTTCGCTCATCA 60.416 50.000 11.41 0.00 32.80 3.07
3751 6557 2.926838 GAGAAAGGTCTTCGCTCATCAC 59.073 50.000 7.97 0.00 32.80 3.06
3752 6558 1.656095 GAAAGGTCTTCGCTCATCACG 59.344 52.381 0.00 0.00 0.00 4.35
3753 6559 0.888619 AAGGTCTTCGCTCATCACGA 59.111 50.000 0.00 0.00 37.86 4.35
3754 6560 0.453793 AGGTCTTCGCTCATCACGAG 59.546 55.000 0.00 0.00 45.37 4.18
3765 6571 2.793790 CTCATCACGAGCTGTATGAAGC 59.206 50.000 0.00 0.00 43.88 3.86
3766 6572 2.166254 TCATCACGAGCTGTATGAAGCA 59.834 45.455 0.00 0.00 46.08 3.91
3767 6573 2.967599 TCACGAGCTGTATGAAGCAT 57.032 45.000 0.00 0.00 46.08 3.79
3768 6574 2.543641 TCACGAGCTGTATGAAGCATG 58.456 47.619 0.00 0.00 46.08 4.06
3769 6575 1.596260 CACGAGCTGTATGAAGCATGG 59.404 52.381 0.00 0.00 46.08 3.66
3770 6576 1.224075 CGAGCTGTATGAAGCATGGG 58.776 55.000 0.00 0.00 46.08 4.00
3771 6577 1.202568 CGAGCTGTATGAAGCATGGGA 60.203 52.381 0.00 0.00 46.08 4.37
3772 6578 2.216898 GAGCTGTATGAAGCATGGGAC 58.783 52.381 0.00 0.00 46.08 4.46
3773 6579 1.133976 AGCTGTATGAAGCATGGGACC 60.134 52.381 0.00 0.00 46.08 4.46
3774 6580 1.408683 GCTGTATGAAGCATGGGACCA 60.409 52.381 0.00 0.00 43.01 4.02
3775 6581 2.292267 CTGTATGAAGCATGGGACCAC 58.708 52.381 0.00 0.00 0.00 4.16
3776 6582 1.299541 GTATGAAGCATGGGACCACG 58.700 55.000 0.00 0.00 0.00 4.94
3777 6583 0.463654 TATGAAGCATGGGACCACGC 60.464 55.000 0.32 0.32 35.15 5.34
3778 6584 2.359850 GAAGCATGGGACCACGCA 60.360 61.111 12.25 0.00 37.63 5.24
3779 6585 2.360350 AAGCATGGGACCACGCAG 60.360 61.111 12.25 0.00 41.94 5.18
3787 6593 2.817834 GACCACGCAGCGGCATTA 60.818 61.111 21.15 0.00 41.24 1.90
3788 6594 2.359354 ACCACGCAGCGGCATTAA 60.359 55.556 21.15 0.00 41.24 1.40
3789 6595 1.714899 GACCACGCAGCGGCATTAAT 61.715 55.000 21.15 0.00 41.24 1.40
3790 6596 0.462937 ACCACGCAGCGGCATTAATA 60.463 50.000 21.15 0.00 41.24 0.98
3791 6597 0.874390 CCACGCAGCGGCATTAATAT 59.126 50.000 21.15 0.00 41.24 1.28
3792 6598 1.266718 CCACGCAGCGGCATTAATATT 59.733 47.619 21.15 0.00 41.24 1.28
3793 6599 2.482336 CCACGCAGCGGCATTAATATTA 59.518 45.455 21.15 0.00 41.24 0.98
3794 6600 3.479006 CACGCAGCGGCATTAATATTAC 58.521 45.455 21.15 0.00 41.24 1.89
3795 6601 3.059257 CACGCAGCGGCATTAATATTACA 60.059 43.478 21.15 0.00 41.24 2.41
3796 6602 3.186409 ACGCAGCGGCATTAATATTACAG 59.814 43.478 21.15 0.00 41.24 2.74
3797 6603 3.424829 CGCAGCGGCATTAATATTACAGG 60.425 47.826 7.00 0.00 41.24 4.00
3798 6604 3.751175 GCAGCGGCATTAATATTACAGGA 59.249 43.478 3.18 0.00 40.72 3.86
3799 6605 4.378459 GCAGCGGCATTAATATTACAGGAC 60.378 45.833 3.18 0.00 40.72 3.85
3800 6606 4.754618 CAGCGGCATTAATATTACAGGACA 59.245 41.667 1.45 0.00 0.00 4.02
3801 6607 4.755123 AGCGGCATTAATATTACAGGACAC 59.245 41.667 1.45 0.00 0.00 3.67
3802 6608 4.755123 GCGGCATTAATATTACAGGACACT 59.245 41.667 0.00 0.00 0.00 3.55
3812 6618 2.621763 CAGGACACTGCAACAGACC 58.378 57.895 0.78 2.48 38.01 3.85
3813 6619 0.179048 CAGGACACTGCAACAGACCA 60.179 55.000 0.78 0.00 38.01 4.02
3814 6620 0.107456 AGGACACTGCAACAGACCAG 59.893 55.000 0.78 0.00 35.18 4.00
3815 6621 1.510480 GGACACTGCAACAGACCAGC 61.510 60.000 0.78 0.00 35.18 4.85
3816 6622 0.533755 GACACTGCAACAGACCAGCT 60.534 55.000 0.78 0.00 35.18 4.24
3830 6636 1.267121 CCAGCTGGTAGTGGTACTGT 58.733 55.000 25.53 0.00 0.00 3.55
3831 6637 2.453521 CCAGCTGGTAGTGGTACTGTA 58.546 52.381 25.53 0.00 0.00 2.74
3832 6638 2.427453 CCAGCTGGTAGTGGTACTGTAG 59.573 54.545 25.53 0.00 0.00 2.74
3833 6639 2.100989 AGCTGGTAGTGGTACTGTAGC 58.899 52.381 9.96 9.96 34.05 3.58
3834 6640 2.100989 GCTGGTAGTGGTACTGTAGCT 58.899 52.381 16.93 0.00 32.58 3.32
3835 6641 2.099427 GCTGGTAGTGGTACTGTAGCTC 59.901 54.545 16.93 13.50 32.58 4.09
3836 6642 2.688958 CTGGTAGTGGTACTGTAGCTCC 59.311 54.545 16.93 13.51 0.00 4.70
3837 6643 2.042026 TGGTAGTGGTACTGTAGCTCCA 59.958 50.000 16.93 15.40 0.00 3.86
3842 6648 4.796038 GTGGTACTGTAGCTCCACTAAA 57.204 45.455 16.93 0.00 44.57 1.85
3843 6649 5.143376 GTGGTACTGTAGCTCCACTAAAA 57.857 43.478 16.93 0.00 44.57 1.52
3844 6650 5.169295 GTGGTACTGTAGCTCCACTAAAAG 58.831 45.833 16.93 0.00 44.57 2.27
3845 6651 4.222145 TGGTACTGTAGCTCCACTAAAAGG 59.778 45.833 16.93 0.00 30.90 3.11
3846 6652 4.465305 GGTACTGTAGCTCCACTAAAAGGA 59.535 45.833 9.64 0.00 30.90 3.36
3847 6653 4.538746 ACTGTAGCTCCACTAAAAGGAC 57.461 45.455 0.00 0.00 30.90 3.85
3848 6654 3.261137 ACTGTAGCTCCACTAAAAGGACC 59.739 47.826 0.00 0.00 30.90 4.46
3849 6655 2.570302 TGTAGCTCCACTAAAAGGACCC 59.430 50.000 0.00 0.00 30.90 4.46
3850 6656 0.992695 AGCTCCACTAAAAGGACCCC 59.007 55.000 0.00 0.00 0.00 4.95
3851 6657 0.992695 GCTCCACTAAAAGGACCCCT 59.007 55.000 0.00 0.00 33.87 4.79
3852 6658 1.340114 GCTCCACTAAAAGGACCCCTG 60.340 57.143 0.00 0.00 32.13 4.45
3853 6659 0.696501 TCCACTAAAAGGACCCCTGC 59.303 55.000 0.00 0.00 32.13 4.85
3854 6660 0.404040 CCACTAAAAGGACCCCTGCA 59.596 55.000 0.00 0.00 32.13 4.41
3855 6661 1.614317 CCACTAAAAGGACCCCTGCAG 60.614 57.143 6.78 6.78 32.13 4.41
3856 6662 1.351017 CACTAAAAGGACCCCTGCAGA 59.649 52.381 17.39 0.00 32.13 4.26
3857 6663 2.062636 ACTAAAAGGACCCCTGCAGAA 58.937 47.619 17.39 0.00 32.13 3.02
3858 6664 2.649816 ACTAAAAGGACCCCTGCAGAAT 59.350 45.455 17.39 0.00 32.13 2.40
3859 6665 2.222227 AAAAGGACCCCTGCAGAATC 57.778 50.000 17.39 9.25 32.13 2.52
3860 6666 1.376649 AAAGGACCCCTGCAGAATCT 58.623 50.000 17.39 2.24 32.13 2.40
3861 6667 0.915364 AAGGACCCCTGCAGAATCTC 59.085 55.000 17.39 3.72 32.13 2.75
3862 6668 0.985490 AGGACCCCTGCAGAATCTCC 60.985 60.000 17.39 12.86 29.57 3.71
3863 6669 1.529309 GACCCCTGCAGAATCTCCC 59.471 63.158 17.39 0.00 0.00 4.30
3894 6700 4.210955 GTCTTCGCTCATCAGATGAATTCC 59.789 45.833 14.25 2.96 39.11 3.01
3898 6704 5.857268 TCGCTCATCAGATGAATTCCATTA 58.143 37.500 14.25 0.00 39.11 1.90
3960 6770 0.183492 AGCTGTCACTTGGCTGGAAA 59.817 50.000 0.00 0.00 34.82 3.13
3962 6772 0.954452 CTGTCACTTGGCTGGAAACC 59.046 55.000 0.00 0.00 0.00 3.27
3964 6774 0.178990 GTCACTTGGCTGGAAACCCT 60.179 55.000 0.00 0.00 0.00 4.34
3965 6775 0.110486 TCACTTGGCTGGAAACCCTC 59.890 55.000 0.00 0.00 0.00 4.30
3966 6776 1.073199 ACTTGGCTGGAAACCCTCG 59.927 57.895 0.00 0.00 0.00 4.63
3967 6777 1.374947 CTTGGCTGGAAACCCTCGA 59.625 57.895 0.00 0.00 0.00 4.04
3968 6778 0.250727 CTTGGCTGGAAACCCTCGAA 60.251 55.000 0.00 0.00 0.00 3.71
3969 6779 0.183971 TTGGCTGGAAACCCTCGAAA 59.816 50.000 0.00 0.00 0.00 3.46
3970 6780 0.404040 TGGCTGGAAACCCTCGAAAT 59.596 50.000 0.00 0.00 0.00 2.17
3971 6781 0.811281 GGCTGGAAACCCTCGAAATG 59.189 55.000 0.00 0.00 0.00 2.32
3972 6782 1.534729 GCTGGAAACCCTCGAAATGT 58.465 50.000 0.00 0.00 0.00 2.71
3973 6783 2.617021 GGCTGGAAACCCTCGAAATGTA 60.617 50.000 0.00 0.00 0.00 2.29
3974 6784 2.678336 GCTGGAAACCCTCGAAATGTAG 59.322 50.000 0.00 0.00 0.00 2.74
3975 6785 3.868754 GCTGGAAACCCTCGAAATGTAGT 60.869 47.826 0.00 0.00 0.00 2.73
3976 6786 3.933332 CTGGAAACCCTCGAAATGTAGTC 59.067 47.826 0.00 0.00 0.00 2.59
3977 6787 3.325425 TGGAAACCCTCGAAATGTAGTCA 59.675 43.478 0.00 0.00 0.00 3.41
3978 6788 3.683340 GGAAACCCTCGAAATGTAGTCAC 59.317 47.826 0.00 0.00 0.00 3.67
3979 6789 3.329929 AACCCTCGAAATGTAGTCACC 57.670 47.619 0.00 0.00 0.00 4.02
3980 6790 2.537143 ACCCTCGAAATGTAGTCACCT 58.463 47.619 0.00 0.00 0.00 4.00
3981 6791 2.904434 ACCCTCGAAATGTAGTCACCTT 59.096 45.455 0.00 0.00 0.00 3.50
3982 6792 3.326880 ACCCTCGAAATGTAGTCACCTTT 59.673 43.478 0.00 0.00 0.00 3.11
4007 6817 7.552458 TTTTCTTTTGGAGATTTGCCTTTTC 57.448 32.000 0.00 0.00 33.49 2.29
4031 6841 2.210116 TCGTGAAGACAAGACTTTGGC 58.790 47.619 0.00 0.00 43.02 4.52
4032 6842 1.264288 CGTGAAGACAAGACTTTGGCC 59.736 52.381 0.00 0.00 43.78 5.36
4053 6863 6.071896 TGGCCGATGATTATTTAACACAAACA 60.072 34.615 0.00 0.00 0.00 2.83
4078 6888 7.765360 CAGGTGTTTATGTGCCATGAAATTTAT 59.235 33.333 0.00 0.00 0.00 1.40
4084 6894 5.718724 TGTGCCATGAAATTTATGTCACA 57.281 34.783 9.92 9.92 40.72 3.58
4086 6896 6.699366 TGTGCCATGAAATTTATGTCACAAT 58.301 32.000 11.26 0.00 40.24 2.71
4087 6897 7.834803 TGTGCCATGAAATTTATGTCACAATA 58.165 30.769 11.26 0.00 40.24 1.90
4088 6898 8.476447 TGTGCCATGAAATTTATGTCACAATAT 58.524 29.630 11.26 0.00 40.24 1.28
4089 6899 9.964303 GTGCCATGAAATTTATGTCACAATATA 57.036 29.630 6.98 0.00 35.24 0.86
4118 6928 4.207841 CGTTTCCGAAAGTACTTTTCTCGT 59.792 41.667 21.40 0.00 42.47 4.18
4128 6938 4.631813 AGTACTTTTCTCGTGATTGCCATC 59.368 41.667 0.00 0.00 0.00 3.51
4315 7253 5.269459 GTAGATAACCATATGCGTGCTTG 57.731 43.478 0.00 0.00 0.00 4.01
4316 7254 2.549754 AGATAACCATATGCGTGCTTGC 59.450 45.455 0.00 0.00 0.00 4.01
4317 7255 0.655208 TAACCATATGCGTGCTTGCG 59.345 50.000 0.00 0.00 37.81 4.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
66 68 4.021016 CCGGTGATTTTGGGGAACATAAAA 60.021 41.667 0.00 0.00 34.10 1.52
165 167 4.032310 TGATGGATGGCTAAAATTGGCTT 58.968 39.130 1.50 0.00 34.79 4.35
205 207 1.945394 CACCAGGATGCATTCACTAGC 59.055 52.381 7.96 0.00 31.97 3.42
247 249 1.702182 TCTTTTTGGATGCCTGCACA 58.298 45.000 0.00 0.00 0.00 4.57
257 259 3.071479 GGCGACTACACATCTTTTTGGA 58.929 45.455 0.00 0.00 0.00 3.53
267 269 0.317160 CACTTCTGGGCGACTACACA 59.683 55.000 0.00 0.00 0.00 3.72
309 311 6.324770 GTCAGGTGAAAATTCCCCAATCATAT 59.675 38.462 0.00 0.00 0.00 1.78
355 358 5.047590 TGCCGACTTAGTAAGAATGACAAGA 60.048 40.000 16.89 0.00 0.00 3.02
565 570 3.160269 AGCAAAAATCAGGGAAGGACAG 58.840 45.455 0.00 0.00 0.00 3.51
657 662 8.650490 ACAGGGTTTAGACAATTCAATTCATTT 58.350 29.630 0.00 0.00 0.00 2.32
686 691 6.903883 ATACATGCCAAGTAAGTAAGAACG 57.096 37.500 0.00 0.00 0.00 3.95
755 844 9.482627 GTCATAATAGTAAGTAGCAGCAAGATT 57.517 33.333 0.00 0.00 0.00 2.40
842 931 4.929808 ACATGAGTAAAGCAAACTACCTCG 59.070 41.667 0.00 0.00 0.00 4.63
850 939 5.005740 AGCATGAGACATGAGTAAAGCAAA 58.994 37.500 14.65 0.00 0.00 3.68
928 1017 4.025229 GTCGCTGACACTGAAACACAAATA 60.025 41.667 4.20 0.00 32.09 1.40
946 1035 8.149973 TCTGAAAGTAGTTTAAAATTGTCGCT 57.850 30.769 0.00 0.00 33.76 4.93
1230 1319 8.004801 TGATCTACCTCCAGATACAAGATTACA 58.995 37.037 0.00 0.00 35.37 2.41
1248 1337 7.728847 TGTGCACATTAATACATGATCTACC 57.271 36.000 17.42 0.00 0.00 3.18
1332 1421 2.911636 GAGATGGGATGGACTCATGGAT 59.088 50.000 0.00 0.00 40.16 3.41
1333 1422 2.333069 GAGATGGGATGGACTCATGGA 58.667 52.381 0.00 0.00 40.16 3.41
1334 1423 1.001746 CGAGATGGGATGGACTCATGG 59.998 57.143 0.00 0.00 40.16 3.66
1335 1424 1.966354 TCGAGATGGGATGGACTCATG 59.034 52.381 0.00 0.00 40.16 3.07
1336 1425 2.246469 CTCGAGATGGGATGGACTCAT 58.754 52.381 6.58 0.00 43.15 2.90
1337 1426 1.697284 CTCGAGATGGGATGGACTCA 58.303 55.000 6.58 0.00 0.00 3.41
1338 1427 0.316841 GCTCGAGATGGGATGGACTC 59.683 60.000 18.75 0.00 0.00 3.36
1339 1428 0.397675 TGCTCGAGATGGGATGGACT 60.398 55.000 18.75 0.00 0.00 3.85
1457 1552 6.012157 CCTCTATGAGGGGGAAATAATGTGAT 60.012 42.308 5.75 0.00 45.43 3.06
1512 1908 4.473477 AGAATTTAAGAGTCCACCTCGG 57.527 45.455 0.00 0.00 45.44 4.63
2031 4210 5.105392 ACAAATCAACAACCACTCACATTGT 60.105 36.000 0.00 0.00 38.18 2.71
2287 4466 9.565213 AAATTCTCGCATTTCTAGATTCTTTTG 57.435 29.630 0.00 0.00 0.00 2.44
2372 4551 2.820787 CCCAAATTTACCTGTTACGGCA 59.179 45.455 0.00 0.00 0.00 5.69
2441 4620 3.700538 AGAAATGTAGCAAGGGCAATCA 58.299 40.909 0.00 0.00 44.61 2.57
2555 5066 7.013750 TCACAATGTTTTAGGTGCAGATTGTAA 59.986 33.333 0.00 0.00 32.66 2.41
2556 5067 6.488344 TCACAATGTTTTAGGTGCAGATTGTA 59.512 34.615 0.00 0.00 32.66 2.41
2557 5068 5.301551 TCACAATGTTTTAGGTGCAGATTGT 59.698 36.000 0.00 0.00 33.85 2.71
2558 5069 5.771469 TCACAATGTTTTAGGTGCAGATTG 58.229 37.500 0.00 0.00 0.00 2.67
2559 5070 5.047802 CCTCACAATGTTTTAGGTGCAGATT 60.048 40.000 0.00 0.00 0.00 2.40
2560 5071 4.460382 CCTCACAATGTTTTAGGTGCAGAT 59.540 41.667 0.00 0.00 0.00 2.90
2561 5072 3.820467 CCTCACAATGTTTTAGGTGCAGA 59.180 43.478 0.00 0.00 0.00 4.26
2562 5073 3.612479 GCCTCACAATGTTTTAGGTGCAG 60.612 47.826 7.69 0.00 0.00 4.41
2567 5085 3.256631 AGCTTGCCTCACAATGTTTTAGG 59.743 43.478 2.68 2.68 37.72 2.69
2627 5145 5.014202 GGACTAAGGGGTTTTCTGCAAATA 58.986 41.667 0.00 0.00 0.00 1.40
2652 5170 0.179097 GGGACGAAGATGGTCTCTGC 60.179 60.000 0.00 0.00 33.29 4.26
2657 5175 1.687297 GGGGAGGGACGAAGATGGTC 61.687 65.000 0.00 0.00 0.00 4.02
2658 5176 1.689582 GGGGAGGGACGAAGATGGT 60.690 63.158 0.00 0.00 0.00 3.55
2659 5177 1.383248 AGGGGAGGGACGAAGATGG 60.383 63.158 0.00 0.00 0.00 3.51
2660 5178 1.826024 CAGGGGAGGGACGAAGATG 59.174 63.158 0.00 0.00 0.00 2.90
2661 5179 2.066999 GCAGGGGAGGGACGAAGAT 61.067 63.158 0.00 0.00 0.00 2.40
2664 5182 4.332543 AGGCAGGGGAGGGACGAA 62.333 66.667 0.00 0.00 0.00 3.85
2716 5285 7.467557 TCAGAAACTTGAAACAAAATCATGC 57.532 32.000 0.00 0.00 0.00 4.06
2719 5288 6.629128 TGCTCAGAAACTTGAAACAAAATCA 58.371 32.000 0.00 0.00 0.00 2.57
2766 5336 1.402259 CAAAGTGCCCGTGTGTTACAA 59.598 47.619 0.00 0.00 0.00 2.41
3035 5607 8.372877 AGGATATGGACATAGAACATAGGAAG 57.627 38.462 0.00 0.00 31.35 3.46
3106 5679 5.753438 TGCAGCTCTATCACGTATAAAAAGG 59.247 40.000 0.00 0.00 0.00 3.11
3131 5774 4.080413 TGCATGACAACATCCTGATCCTTA 60.080 41.667 0.00 0.00 34.15 2.69
3297 5950 6.156256 AGTGTATGCTACAGGTATTTCCTTGA 59.844 38.462 0.00 0.00 45.67 3.02
3334 6077 3.627123 TCATTCAATGGTCGCTTACATGG 59.373 43.478 0.00 0.00 0.00 3.66
3335 6078 4.496341 GGTCATTCAATGGTCGCTTACATG 60.496 45.833 0.00 0.00 0.00 3.21
3336 6079 3.627577 GGTCATTCAATGGTCGCTTACAT 59.372 43.478 0.00 0.00 0.00 2.29
3337 6080 3.006940 GGTCATTCAATGGTCGCTTACA 58.993 45.455 0.00 0.00 0.00 2.41
3338 6081 3.006940 TGGTCATTCAATGGTCGCTTAC 58.993 45.455 0.00 0.00 0.00 2.34
3339 6082 3.270027 CTGGTCATTCAATGGTCGCTTA 58.730 45.455 0.00 0.00 0.00 3.09
3340 6083 2.086869 CTGGTCATTCAATGGTCGCTT 58.913 47.619 0.00 0.00 0.00 4.68
3341 6084 1.003580 ACTGGTCATTCAATGGTCGCT 59.996 47.619 0.00 0.00 0.00 4.93
3342 6085 1.453155 ACTGGTCATTCAATGGTCGC 58.547 50.000 0.00 0.00 0.00 5.19
3343 6086 4.123497 TCTACTGGTCATTCAATGGTCG 57.877 45.455 0.00 0.00 0.00 4.79
3344 6087 5.059833 GGATCTACTGGTCATTCAATGGTC 58.940 45.833 0.00 0.00 0.00 4.02
3345 6088 4.723789 AGGATCTACTGGTCATTCAATGGT 59.276 41.667 0.00 0.00 0.00 3.55
3346 6089 5.061853 CAGGATCTACTGGTCATTCAATGG 58.938 45.833 0.00 0.00 34.84 3.16
3347 6090 5.922053 TCAGGATCTACTGGTCATTCAATG 58.078 41.667 0.00 0.00 38.98 2.82
3348 6091 6.566079 TTCAGGATCTACTGGTCATTCAAT 57.434 37.500 0.00 0.00 38.98 2.57
3349 6092 6.373005 TTTCAGGATCTACTGGTCATTCAA 57.627 37.500 0.00 0.00 38.98 2.69
3350 6093 6.373005 TTTTCAGGATCTACTGGTCATTCA 57.627 37.500 0.00 0.00 38.98 2.57
3351 6094 7.050377 TCATTTTCAGGATCTACTGGTCATTC 58.950 38.462 0.00 0.00 38.98 2.67
3352 6095 6.962182 TCATTTTCAGGATCTACTGGTCATT 58.038 36.000 0.00 0.00 38.98 2.57
3353 6096 6.566079 TCATTTTCAGGATCTACTGGTCAT 57.434 37.500 0.00 0.00 38.98 3.06
3354 6097 5.627735 GCTCATTTTCAGGATCTACTGGTCA 60.628 44.000 0.00 0.00 38.98 4.02
3355 6098 4.813697 GCTCATTTTCAGGATCTACTGGTC 59.186 45.833 0.00 0.00 38.98 4.02
3356 6099 4.472833 AGCTCATTTTCAGGATCTACTGGT 59.527 41.667 0.00 0.00 38.98 4.00
3357 6100 5.033589 AGCTCATTTTCAGGATCTACTGG 57.966 43.478 0.00 0.00 38.98 4.00
3358 6101 5.695816 GCTAGCTCATTTTCAGGATCTACTG 59.304 44.000 7.70 0.00 39.84 2.74
3359 6102 5.365025 TGCTAGCTCATTTTCAGGATCTACT 59.635 40.000 17.23 0.00 0.00 2.57
3360 6103 5.465056 GTGCTAGCTCATTTTCAGGATCTAC 59.535 44.000 17.23 0.00 0.00 2.59
3361 6104 5.365025 AGTGCTAGCTCATTTTCAGGATCTA 59.635 40.000 17.23 0.00 0.00 1.98
3362 6105 4.163839 AGTGCTAGCTCATTTTCAGGATCT 59.836 41.667 17.23 0.00 0.00 2.75
3363 6106 4.450053 AGTGCTAGCTCATTTTCAGGATC 58.550 43.478 17.23 0.00 0.00 3.36
3364 6107 4.500499 AGTGCTAGCTCATTTTCAGGAT 57.500 40.909 17.23 0.00 0.00 3.24
3382 6125 4.426416 CACCATTTTGGCACATCATAGTG 58.574 43.478 0.00 0.00 42.67 2.74
3417 6160 6.403866 TGCCTCAGAAATAAGCAAAGAAAA 57.596 33.333 0.00 0.00 0.00 2.29
3461 6259 8.395605 ACAGGGGTAAGGAGATAAACATAAAAA 58.604 33.333 0.00 0.00 0.00 1.94
3520 6319 5.904362 AAATTTAACAGGGCTCAGCTTAG 57.096 39.130 0.00 0.00 0.00 2.18
3729 6535 2.189342 GATGAGCGAAGACCTTTCTCG 58.811 52.381 0.00 0.00 0.00 4.04
3730 6536 2.926838 GTGATGAGCGAAGACCTTTCTC 59.073 50.000 0.00 0.00 0.00 2.87
3731 6537 2.672478 CGTGATGAGCGAAGACCTTTCT 60.672 50.000 0.00 0.00 0.00 2.52
3732 6538 1.656095 CGTGATGAGCGAAGACCTTTC 59.344 52.381 0.00 0.00 0.00 2.62
3733 6539 1.272490 TCGTGATGAGCGAAGACCTTT 59.728 47.619 0.00 0.00 35.28 3.11
3734 6540 0.888619 TCGTGATGAGCGAAGACCTT 59.111 50.000 0.00 0.00 35.28 3.50
3735 6541 0.453793 CTCGTGATGAGCGAAGACCT 59.546 55.000 0.00 0.00 38.03 3.85
3736 6542 2.950877 CTCGTGATGAGCGAAGACC 58.049 57.895 0.00 0.00 38.03 3.85
3745 6551 2.166254 TGCTTCATACAGCTCGTGATGA 59.834 45.455 10.02 0.00 40.79 2.92
3746 6552 2.543641 TGCTTCATACAGCTCGTGATG 58.456 47.619 0.47 0.47 40.79 3.07
3747 6553 2.967599 TGCTTCATACAGCTCGTGAT 57.032 45.000 0.00 0.00 40.79 3.06
3748 6554 2.543641 CATGCTTCATACAGCTCGTGA 58.456 47.619 0.00 0.00 40.79 4.35
3749 6555 1.596260 CCATGCTTCATACAGCTCGTG 59.404 52.381 0.00 0.00 40.79 4.35
3750 6556 1.473965 CCCATGCTTCATACAGCTCGT 60.474 52.381 0.00 0.00 40.79 4.18
3751 6557 1.202568 TCCCATGCTTCATACAGCTCG 60.203 52.381 0.00 0.00 40.79 5.03
3752 6558 2.216898 GTCCCATGCTTCATACAGCTC 58.783 52.381 0.00 0.00 40.79 4.09
3753 6559 1.133976 GGTCCCATGCTTCATACAGCT 60.134 52.381 0.00 0.00 40.79 4.24
3754 6560 1.312815 GGTCCCATGCTTCATACAGC 58.687 55.000 0.00 0.00 40.55 4.40
3755 6561 2.292267 GTGGTCCCATGCTTCATACAG 58.708 52.381 0.00 0.00 0.00 2.74
3756 6562 1.406751 CGTGGTCCCATGCTTCATACA 60.407 52.381 0.00 0.00 0.00 2.29
3757 6563 1.299541 CGTGGTCCCATGCTTCATAC 58.700 55.000 0.00 0.00 0.00 2.39
3758 6564 3.778619 CGTGGTCCCATGCTTCATA 57.221 52.632 0.00 0.00 0.00 2.15
3759 6565 4.643795 CGTGGTCCCATGCTTCAT 57.356 55.556 0.00 0.00 0.00 2.57
3770 6576 1.714899 ATTAATGCCGCTGCGTGGTC 61.715 55.000 21.59 7.51 41.78 4.02
3771 6577 0.462937 TATTAATGCCGCTGCGTGGT 60.463 50.000 21.59 5.69 41.78 4.16
3772 6578 0.874390 ATATTAATGCCGCTGCGTGG 59.126 50.000 21.59 7.64 41.78 4.94
3773 6579 2.686558 AATATTAATGCCGCTGCGTG 57.313 45.000 21.59 13.25 41.78 5.34
3774 6580 3.135225 TGTAATATTAATGCCGCTGCGT 58.865 40.909 21.59 4.60 41.78 5.24
3775 6581 3.424829 CCTGTAATATTAATGCCGCTGCG 60.425 47.826 16.34 16.34 41.78 5.18
3776 6582 3.751175 TCCTGTAATATTAATGCCGCTGC 59.249 43.478 0.00 0.00 38.26 5.25
3777 6583 4.754618 TGTCCTGTAATATTAATGCCGCTG 59.245 41.667 0.00 0.00 0.00 5.18
3778 6584 4.755123 GTGTCCTGTAATATTAATGCCGCT 59.245 41.667 0.00 0.00 0.00 5.52
3779 6585 4.755123 AGTGTCCTGTAATATTAATGCCGC 59.245 41.667 0.00 0.00 0.00 6.53
3780 6586 5.334105 GCAGTGTCCTGTAATATTAATGCCG 60.334 44.000 0.00 0.00 41.02 5.69
3781 6587 5.530915 TGCAGTGTCCTGTAATATTAATGCC 59.469 40.000 0.00 0.00 41.02 4.40
3782 6588 6.618287 TGCAGTGTCCTGTAATATTAATGC 57.382 37.500 0.00 0.00 41.02 3.56
3783 6589 7.984391 TGTTGCAGTGTCCTGTAATATTAATG 58.016 34.615 0.00 0.00 43.72 1.90
3784 6590 8.046708 TCTGTTGCAGTGTCCTGTAATATTAAT 58.953 33.333 0.00 0.00 43.72 1.40
3785 6591 7.333423 GTCTGTTGCAGTGTCCTGTAATATTAA 59.667 37.037 0.00 0.00 43.72 1.40
3786 6592 6.816640 GTCTGTTGCAGTGTCCTGTAATATTA 59.183 38.462 0.00 0.00 43.72 0.98
3787 6593 5.643777 GTCTGTTGCAGTGTCCTGTAATATT 59.356 40.000 0.00 0.00 43.72 1.28
3788 6594 5.178797 GTCTGTTGCAGTGTCCTGTAATAT 58.821 41.667 0.00 0.00 43.72 1.28
3789 6595 4.562757 GGTCTGTTGCAGTGTCCTGTAATA 60.563 45.833 0.00 0.00 43.72 0.98
3790 6596 3.403038 GTCTGTTGCAGTGTCCTGTAAT 58.597 45.455 0.00 0.00 43.72 1.89
3791 6597 2.484770 GGTCTGTTGCAGTGTCCTGTAA 60.485 50.000 0.00 0.00 40.42 2.41
3792 6598 1.070134 GGTCTGTTGCAGTGTCCTGTA 59.930 52.381 0.00 0.00 41.02 2.74
3793 6599 0.179045 GGTCTGTTGCAGTGTCCTGT 60.179 55.000 0.00 0.00 41.02 4.00
3794 6600 0.179048 TGGTCTGTTGCAGTGTCCTG 60.179 55.000 0.00 0.00 41.91 3.86
3795 6601 0.107456 CTGGTCTGTTGCAGTGTCCT 59.893 55.000 0.00 0.00 32.61 3.85
3796 6602 1.510480 GCTGGTCTGTTGCAGTGTCC 61.510 60.000 0.00 0.00 32.61 4.02
3797 6603 0.533755 AGCTGGTCTGTTGCAGTGTC 60.534 55.000 0.00 0.00 32.61 3.67
3798 6604 0.816825 CAGCTGGTCTGTTGCAGTGT 60.817 55.000 5.57 0.00 38.02 3.55
3799 6605 1.512996 CCAGCTGGTCTGTTGCAGTG 61.513 60.000 25.53 0.00 41.25 3.66
3800 6606 1.228063 CCAGCTGGTCTGTTGCAGT 60.228 57.895 25.53 0.00 41.25 4.40
3801 6607 3.664495 CCAGCTGGTCTGTTGCAG 58.336 61.111 25.53 0.00 41.25 4.41
3811 6617 1.267121 ACAGTACCACTACCAGCTGG 58.733 55.000 31.60 31.60 42.17 4.85
3812 6618 2.159226 GCTACAGTACCACTACCAGCTG 60.159 54.545 6.78 6.78 0.00 4.24
3813 6619 2.100989 GCTACAGTACCACTACCAGCT 58.899 52.381 0.00 0.00 0.00 4.24
3814 6620 2.099427 GAGCTACAGTACCACTACCAGC 59.901 54.545 0.00 0.00 0.00 4.85
3815 6621 2.688958 GGAGCTACAGTACCACTACCAG 59.311 54.545 0.00 0.00 0.00 4.00
3816 6622 2.042026 TGGAGCTACAGTACCACTACCA 59.958 50.000 0.00 0.00 0.00 3.25
3817 6623 2.426381 GTGGAGCTACAGTACCACTACC 59.574 54.545 0.00 0.00 46.14 3.18
3818 6624 3.779271 GTGGAGCTACAGTACCACTAC 57.221 52.381 0.00 0.00 46.14 2.73
3822 6628 4.222145 CCTTTTAGTGGAGCTACAGTACCA 59.778 45.833 13.35 0.00 0.00 3.25
3823 6629 4.465305 TCCTTTTAGTGGAGCTACAGTACC 59.535 45.833 13.35 0.00 0.00 3.34
3824 6630 5.409211 GTCCTTTTAGTGGAGCTACAGTAC 58.591 45.833 13.35 0.00 33.78 2.73
3825 6631 4.465305 GGTCCTTTTAGTGGAGCTACAGTA 59.535 45.833 9.60 9.60 45.56 2.74
3826 6632 3.261137 GGTCCTTTTAGTGGAGCTACAGT 59.739 47.826 11.97 11.97 45.56 3.55
3827 6633 3.863041 GGTCCTTTTAGTGGAGCTACAG 58.137 50.000 0.00 0.00 45.56 2.74
3828 6634 3.975168 GGTCCTTTTAGTGGAGCTACA 57.025 47.619 0.00 0.00 45.56 2.74
3833 6639 1.340114 GCAGGGGTCCTTTTAGTGGAG 60.340 57.143 0.00 0.00 33.78 3.86
3834 6640 0.696501 GCAGGGGTCCTTTTAGTGGA 59.303 55.000 0.00 0.00 0.00 4.02
3835 6641 0.404040 TGCAGGGGTCCTTTTAGTGG 59.596 55.000 0.00 0.00 0.00 4.00
3836 6642 1.351017 TCTGCAGGGGTCCTTTTAGTG 59.649 52.381 15.13 0.00 0.00 2.74
3837 6643 1.742308 TCTGCAGGGGTCCTTTTAGT 58.258 50.000 15.13 0.00 0.00 2.24
3838 6644 2.879103 TTCTGCAGGGGTCCTTTTAG 57.121 50.000 15.13 0.00 0.00 1.85
3839 6645 2.919602 AGATTCTGCAGGGGTCCTTTTA 59.080 45.455 15.13 0.00 0.00 1.52
3840 6646 1.713078 AGATTCTGCAGGGGTCCTTTT 59.287 47.619 15.13 0.00 0.00 2.27
3841 6647 1.283321 GAGATTCTGCAGGGGTCCTTT 59.717 52.381 15.13 0.00 0.00 3.11
3842 6648 0.915364 GAGATTCTGCAGGGGTCCTT 59.085 55.000 15.13 0.00 0.00 3.36
3843 6649 0.985490 GGAGATTCTGCAGGGGTCCT 60.985 60.000 15.13 4.37 0.00 3.85
3844 6650 1.529309 GGAGATTCTGCAGGGGTCC 59.471 63.158 15.13 11.30 0.00 4.46
3845 6651 1.529309 GGGAGATTCTGCAGGGGTC 59.471 63.158 15.13 9.64 0.00 4.46
3846 6652 2.370445 CGGGAGATTCTGCAGGGGT 61.370 63.158 15.13 0.00 0.00 4.95
3847 6653 2.037620 CTCGGGAGATTCTGCAGGGG 62.038 65.000 15.13 0.00 38.80 4.79
3848 6654 1.045350 TCTCGGGAGATTCTGCAGGG 61.045 60.000 15.13 3.13 38.80 4.45
3849 6655 0.826715 TTCTCGGGAGATTCTGCAGG 59.173 55.000 15.13 0.00 37.29 4.85
3850 6656 2.548875 CTTTCTCGGGAGATTCTGCAG 58.451 52.381 7.63 7.63 37.29 4.41
3851 6657 1.208052 CCTTTCTCGGGAGATTCTGCA 59.792 52.381 7.53 0.00 37.29 4.41
3852 6658 1.208293 ACCTTTCTCGGGAGATTCTGC 59.792 52.381 0.00 0.00 37.29 4.26
3853 6659 2.763448 AGACCTTTCTCGGGAGATTCTG 59.237 50.000 0.00 0.00 37.29 3.02
3854 6660 3.108847 AGACCTTTCTCGGGAGATTCT 57.891 47.619 0.00 0.00 37.29 2.40
3855 6661 3.735514 CGAAGACCTTTCTCGGGAGATTC 60.736 52.174 0.00 0.00 37.29 2.52
3856 6662 2.166664 CGAAGACCTTTCTCGGGAGATT 59.833 50.000 0.00 0.00 37.29 2.40
3857 6663 1.751924 CGAAGACCTTTCTCGGGAGAT 59.248 52.381 0.00 0.00 37.29 2.75
3858 6664 1.174783 CGAAGACCTTTCTCGGGAGA 58.825 55.000 0.00 0.00 35.27 3.71
3859 6665 0.458716 GCGAAGACCTTTCTCGGGAG 60.459 60.000 0.00 0.00 0.00 4.30
3860 6666 0.898789 AGCGAAGACCTTTCTCGGGA 60.899 55.000 0.00 0.00 0.00 5.14
3861 6667 0.458716 GAGCGAAGACCTTTCTCGGG 60.459 60.000 0.00 0.00 0.00 5.14
3862 6668 0.243907 TGAGCGAAGACCTTTCTCGG 59.756 55.000 0.00 0.00 0.00 4.63
3863 6669 2.189342 GATGAGCGAAGACCTTTCTCG 58.811 52.381 0.00 0.00 0.00 4.04
3914 6720 6.969043 TCCTTGTACAATCCCAAGTGATAAT 58.031 36.000 9.13 0.00 37.05 1.28
3960 6770 2.537143 AGGTGACTACATTTCGAGGGT 58.463 47.619 0.00 0.00 40.61 4.34
3962 6772 5.941948 AAAAAGGTGACTACATTTCGAGG 57.058 39.130 0.00 0.00 39.63 4.63
3982 6792 7.201600 CGAAAAGGCAAATCTCCAAAAGAAAAA 60.202 33.333 0.00 0.00 37.61 1.94
3987 6797 4.620982 ACGAAAAGGCAAATCTCCAAAAG 58.379 39.130 0.00 0.00 0.00 2.27
3997 6807 3.127203 TCTTCACGAAACGAAAAGGCAAA 59.873 39.130 0.00 0.00 0.00 3.68
3998 6808 2.678836 TCTTCACGAAACGAAAAGGCAA 59.321 40.909 0.00 0.00 0.00 4.52
4000 6810 2.031191 TGTCTTCACGAAACGAAAAGGC 59.969 45.455 0.00 0.00 31.51 4.35
4001 6811 3.936902 TGTCTTCACGAAACGAAAAGG 57.063 42.857 0.00 0.00 0.00 3.11
4002 6812 4.956184 GTCTTGTCTTCACGAAACGAAAAG 59.044 41.667 0.00 0.00 0.00 2.27
4007 6817 4.263800 CAAAGTCTTGTCTTCACGAAACG 58.736 43.478 0.00 0.00 0.00 3.60
4031 6841 7.484641 CACCTGTTTGTGTTAAATAATCATCGG 59.515 37.037 0.00 0.00 0.00 4.18
4032 6842 8.380743 CACCTGTTTGTGTTAAATAATCATCG 57.619 34.615 0.00 0.00 0.00 3.84
4304 7242 4.146000 CGCACGCAAGCACGCATA 62.146 61.111 3.99 0.00 45.62 3.14


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

AutoCloner maintained by Alex Coulton.