Multiple sequence alignment - TraesCS7D01G204000

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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 TraesCS7D01G204000 chr7D 100.000 7212 0 0 1 7212 161850214 161843003 0.000000e+00 13319.0
1 TraesCS7D01G204000 chr7D 87.352 253 29 3 320 571 548022626 548022376 3.290000e-73 287.0
2 TraesCS7D01G204000 chr7A 96.472 3486 90 15 2175 5643 162930268 162926799 0.000000e+00 5725.0
3 TraesCS7D01G204000 chr7A 94.132 1602 51 26 564 2145 162932174 162930596 0.000000e+00 2398.0
4 TraesCS7D01G204000 chr7A 96.264 1392 43 7 5824 7212 162926803 162925418 0.000000e+00 2274.0
5 TraesCS7D01G204000 chr7B 95.977 2933 57 19 2703 5621 123865583 123862698 0.000000e+00 4706.0
6 TraesCS7D01G204000 chr7B 96.137 1786 54 7 929 2711 123867551 123865778 0.000000e+00 2902.0
7 TraesCS7D01G204000 chr7B 93.291 1401 64 19 5824 7212 123862690 123861308 0.000000e+00 2039.0
8 TraesCS7D01G204000 chr7B 91.768 328 9 7 575 900 123867858 123867547 2.390000e-119 440.0
9 TraesCS7D01G204000 chr7B 84.539 401 37 12 5122 5514 68840388 68840771 2.460000e-99 374.0
10 TraesCS7D01G204000 chrUn 100.000 731 0 0 1 731 301194227 301194957 0.000000e+00 1351.0
11 TraesCS7D01G204000 chrUn 100.000 731 0 0 1 731 414086496 414085766 0.000000e+00 1351.0
12 TraesCS7D01G204000 chr6A 79.272 714 111 24 3644 4334 532023865 532024564 1.420000e-126 464.0
13 TraesCS7D01G204000 chr6A 88.095 252 28 2 319 570 46549096 46548847 1.520000e-76 298.0
14 TraesCS7D01G204000 chr6A 88.525 244 26 2 319 562 80803137 80803378 1.970000e-75 294.0
15 TraesCS7D01G204000 chr6A 92.500 40 3 0 3387 3426 611926286 611926247 2.810000e-04 58.4
16 TraesCS7D01G204000 chr6B 79.291 705 110 23 3652 4334 578097063 578097753 1.830000e-125 460.0
17 TraesCS7D01G204000 chr6B 85.211 426 49 7 5045 5469 67114369 67113957 6.690000e-115 425.0
18 TraesCS7D01G204000 chr6B 85.116 430 47 8 5045 5473 67319320 67318907 2.410000e-114 424.0
19 TraesCS7D01G204000 chr6D 79.197 697 109 23 3660 4334 386928557 386929239 1.100000e-122 451.0
20 TraesCS7D01G204000 chr6D 97.938 194 4 0 5640 5833 394929952 394929759 3.220000e-88 337.0
21 TraesCS7D01G204000 chr2D 97.512 201 4 1 5640 5840 516410812 516411011 6.930000e-90 342.0
22 TraesCS7D01G204000 chr2D 98.947 190 2 0 5639 5828 20189304 20189493 2.490000e-89 340.0
23 TraesCS7D01G204000 chr1D 99.468 188 1 0 5640 5827 93500982 93501169 6.930000e-90 342.0
24 TraesCS7D01G204000 chr4D 98.947 190 2 0 5640 5829 118518428 118518617 2.490000e-89 340.0
25 TraesCS7D01G204000 chr4D 97.949 195 4 0 5638 5832 503922211 503922017 8.960000e-89 339.0
26 TraesCS7D01G204000 chr4D 97.938 194 3 1 5640 5833 218122843 218123035 1.160000e-87 335.0
27 TraesCS7D01G204000 chr3D 98.454 194 2 1 5636 5829 71527740 71527548 2.490000e-89 340.0
28 TraesCS7D01G204000 chr5D 97.949 195 4 0 5635 5829 139129460 139129654 8.960000e-89 339.0
29 TraesCS7D01G204000 chr3B 88.664 247 24 4 319 564 820354834 820355077 1.520000e-76 298.0
30 TraesCS7D01G204000 chr3B 97.222 36 0 1 3331 3365 640661176 640661141 7.810000e-05 60.2
31 TraesCS7D01G204000 chr2A 88.618 246 24 4 319 562 780720812 780721055 5.470000e-76 296.0
32 TraesCS7D01G204000 chr2A 87.649 251 27 4 319 568 497695840 497695593 9.150000e-74 289.0
33 TraesCS7D01G204000 chr5A 86.891 267 30 5 319 583 525151568 525151305 1.970000e-75 294.0


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 TraesCS7D01G204000 chr7D 161843003 161850214 7211 True 13319.000000 13319 100.000000 1 7212 1 chr7D.!!$R1 7211
1 TraesCS7D01G204000 chr7A 162925418 162932174 6756 True 3465.666667 5725 95.622667 564 7212 3 chr7A.!!$R1 6648
2 TraesCS7D01G204000 chr7B 123861308 123867858 6550 True 2521.750000 4706 94.293250 575 7212 4 chr7B.!!$R1 6637
3 TraesCS7D01G204000 chrUn 301194227 301194957 730 False 1351.000000 1351 100.000000 1 731 1 chrUn.!!$F1 730
4 TraesCS7D01G204000 chrUn 414085766 414086496 730 True 1351.000000 1351 100.000000 1 731 1 chrUn.!!$R1 730
5 TraesCS7D01G204000 chr6A 532023865 532024564 699 False 464.000000 464 79.272000 3644 4334 1 chr6A.!!$F2 690
6 TraesCS7D01G204000 chr6B 578097063 578097753 690 False 460.000000 460 79.291000 3652 4334 1 chr6B.!!$F1 682
7 TraesCS7D01G204000 chr6D 386928557 386929239 682 False 451.000000 451 79.197000 3660 4334 1 chr6D.!!$F1 674

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
826 836 2.602676 CGGGGGAAGGAGGAGCAAA 61.603 63.158 0.00 0.0 0.00 3.68 F
1210 1220 0.179215 CGCTCTGGTGTTTTCGATGC 60.179 55.000 0.00 0.0 0.00 3.91 F
1507 1518 1.147153 GCATCGCCCTAGCCTCTTT 59.853 57.895 0.00 0.0 34.57 2.52 F
2097 2118 1.485066 CTAACCGGGGACTTATGCTGT 59.515 52.381 6.32 0.0 0.00 4.40 F
2335 2660 1.961793 TGCACCTGAATAATACCGCC 58.038 50.000 0.00 0.0 0.00 6.13 F
2370 2695 2.159296 GGGTTTCAATACATTCCGTGGC 60.159 50.000 0.00 0.0 0.00 5.01 F
2387 2712 3.769844 CGTGGCCCATAGATAAGGTAGAT 59.230 47.826 0.00 0.0 0.00 1.98 F
4761 5325 4.077822 CTGAAGGGAAGAGTTTCAGCAAT 58.922 43.478 1.09 0.0 40.71 3.56 F
5648 6212 0.106519 CCCAGCAATCTTAGGGGGTG 60.107 60.000 0.00 0.0 37.66 4.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2025 2040 1.963515 ACCCATTCAGTCCTTGCAAAC 59.036 47.619 0.00 0.00 0.00 2.93 R
3071 3606 1.001181 GCCATTGCAGCCTTTTTCTCA 59.999 47.619 0.00 0.00 37.47 3.27 R
3285 3822 1.064166 AGGATGAAGATTGTGGGCTGG 60.064 52.381 0.00 0.00 0.00 4.85 R
3570 4113 4.689612 TGCAATTAGATACTCCCTCCAC 57.310 45.455 0.00 0.00 0.00 4.02 R
3925 4470 7.408756 TCTTCCTGCAATGCATAAAGTAAAT 57.591 32.000 21.26 0.00 38.13 1.40 R
4579 5143 7.516198 AGCTCACACTGAATTAAAACAGAAT 57.484 32.000 15.75 4.25 37.54 2.40 R
4773 5337 2.279252 CCGCCGAGTGATAACCGG 60.279 66.667 0.00 0.00 45.51 5.28 R
5699 6263 0.035725 CCCGTTTGGTTCCTAGGGAC 60.036 60.000 12.35 12.35 41.26 4.46 R
6857 7435 0.316204 ACAGGTGCAAAGCTTGATGC 59.684 50.000 14.88 14.88 42.86 3.91 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
816 823 4.003788 ACAGTGACGCGGGGGAAG 62.004 66.667 12.47 0.00 0.00 3.46
826 836 2.602676 CGGGGGAAGGAGGAGCAAA 61.603 63.158 0.00 0.00 0.00 3.68
1146 1156 4.070552 GTCGAGCTCACCCGCCTT 62.071 66.667 15.40 0.00 0.00 4.35
1210 1220 0.179215 CGCTCTGGTGTTTTCGATGC 60.179 55.000 0.00 0.00 0.00 3.91
1237 1247 3.075641 GTCGGGAGGGGTCTGACC 61.076 72.222 18.65 18.65 35.18 4.02
1238 1248 3.273654 TCGGGAGGGGTCTGACCT 61.274 66.667 25.01 7.57 42.18 3.85
1241 1251 1.685820 GGGAGGGGTCTGACCTTTG 59.314 63.158 25.01 0.00 38.79 2.77
1298 1308 2.887568 GAGGCGCACACGGAGATG 60.888 66.667 10.83 0.00 40.57 2.90
1375 1386 3.432782 CCGATTGCTCTTGAGATTTTGC 58.567 45.455 1.30 0.00 0.00 3.68
1429 1440 4.275810 CTGGAATTGATGTCAGGGATTGT 58.724 43.478 0.00 0.00 0.00 2.71
1507 1518 1.147153 GCATCGCCCTAGCCTCTTT 59.853 57.895 0.00 0.00 34.57 2.52
1833 1845 3.056821 GCCCAACTCTACCAAATTTCCAC 60.057 47.826 0.00 0.00 0.00 4.02
2097 2118 1.485066 CTAACCGGGGACTTATGCTGT 59.515 52.381 6.32 0.00 0.00 4.40
2241 2566 7.451281 TTCGCTCTCTGTTATTCTTTTATCG 57.549 36.000 0.00 0.00 0.00 2.92
2321 2646 6.072112 TGAATTAAGTTCTTGAGTTGCACC 57.928 37.500 0.00 0.00 37.72 5.01
2335 2660 1.961793 TGCACCTGAATAATACCGCC 58.038 50.000 0.00 0.00 0.00 6.13
2366 2691 4.700213 ACTCTTGGGTTTCAATACATTCCG 59.300 41.667 0.00 0.00 34.45 4.30
2370 2695 2.159296 GGGTTTCAATACATTCCGTGGC 60.159 50.000 0.00 0.00 0.00 5.01
2387 2712 3.769844 CGTGGCCCATAGATAAGGTAGAT 59.230 47.826 0.00 0.00 0.00 1.98
2690 3015 8.278639 TCATTATGGATTGAAACTTAGGGCTTA 58.721 33.333 0.00 0.00 0.00 3.09
2865 3393 5.696724 CCATAAACCTGACGATGATTACCTC 59.303 44.000 0.00 0.00 0.00 3.85
3233 3770 6.073167 GGCAAGAGGTTCTACTTTTACTTCAC 60.073 42.308 0.00 0.00 0.00 3.18
3242 3779 7.989947 TCTACTTTTACTTCACATATCCCCT 57.010 36.000 0.00 0.00 0.00 4.79
3284 3821 9.699410 TTGTCATGAATTTATAATGTCTCCCTT 57.301 29.630 0.00 0.00 0.00 3.95
3285 3822 9.342308 TGTCATGAATTTATAATGTCTCCCTTC 57.658 33.333 0.00 0.00 0.00 3.46
3362 3899 5.176407 TCACAAATAAGTGACGTTTTGGG 57.824 39.130 11.59 8.21 43.18 4.12
3570 4113 7.060979 CGTCCAAAATGTCACTTATTTGTGATG 59.939 37.037 0.64 0.00 46.77 3.07
3894 4437 6.966021 TGGAGTAAACAACTTTCAACATAGC 58.034 36.000 0.00 0.00 39.07 2.97
3902 4447 6.846350 ACAACTTTCAACATAGCAATAGAGC 58.154 36.000 0.00 0.00 0.00 4.09
3905 4450 6.409704 ACTTTCAACATAGCAATAGAGCTCA 58.590 36.000 17.77 2.09 45.26 4.26
3906 4451 6.881065 ACTTTCAACATAGCAATAGAGCTCAA 59.119 34.615 17.77 0.00 45.26 3.02
3925 4470 8.284945 AGCTCAACTATGAAAATGCTGAATTA 57.715 30.769 0.00 0.00 33.54 1.40
4761 5325 4.077822 CTGAAGGGAAGAGTTTCAGCAAT 58.922 43.478 1.09 0.00 40.71 3.56
4773 5337 2.044946 AGCAATGGTCCTTCCCGC 60.045 61.111 0.00 0.00 34.77 6.13
5275 5839 1.888512 AGTTTGTGTGGACATGATGCC 59.111 47.619 0.00 0.00 30.13 4.40
5276 5840 1.612950 GTTTGTGTGGACATGATGCCA 59.387 47.619 0.00 4.79 30.13 4.92
5634 6198 8.232913 TCTGTTTAATATTTCCATTACCCAGC 57.767 34.615 0.00 0.00 0.00 4.85
5635 6199 7.836685 TCTGTTTAATATTTCCATTACCCAGCA 59.163 33.333 0.00 0.00 0.00 4.41
5638 6202 9.476202 GTTTAATATTTCCATTACCCAGCAATC 57.524 33.333 0.00 0.00 0.00 2.67
5639 6203 9.432982 TTTAATATTTCCATTACCCAGCAATCT 57.567 29.630 0.00 0.00 0.00 2.40
5640 6204 7.919385 AATATTTCCATTACCCAGCAATCTT 57.081 32.000 0.00 0.00 0.00 2.40
5642 6206 6.966534 ATTTCCATTACCCAGCAATCTTAG 57.033 37.500 0.00 0.00 0.00 2.18
5643 6207 4.437682 TCCATTACCCAGCAATCTTAGG 57.562 45.455 0.00 0.00 0.00 2.69
5644 6208 3.138283 TCCATTACCCAGCAATCTTAGGG 59.862 47.826 0.00 0.00 46.96 3.53
5645 6209 3.490348 CATTACCCAGCAATCTTAGGGG 58.510 50.000 0.00 0.00 45.83 4.79
5646 6210 1.518367 TACCCAGCAATCTTAGGGGG 58.482 55.000 0.00 0.00 45.83 5.40
5647 6211 0.552615 ACCCAGCAATCTTAGGGGGT 60.553 55.000 0.00 0.00 45.83 4.95
5648 6212 0.106519 CCCAGCAATCTTAGGGGGTG 60.107 60.000 0.00 0.00 37.66 4.61
5649 6213 0.625849 CCAGCAATCTTAGGGGGTGT 59.374 55.000 0.00 0.00 0.00 4.16
5650 6214 1.005924 CCAGCAATCTTAGGGGGTGTT 59.994 52.381 0.00 0.00 0.00 3.32
5651 6215 2.557452 CCAGCAATCTTAGGGGGTGTTT 60.557 50.000 0.00 0.00 0.00 2.83
5652 6216 2.493278 CAGCAATCTTAGGGGGTGTTTG 59.507 50.000 0.00 0.00 0.00 2.93
5653 6217 1.824852 GCAATCTTAGGGGGTGTTTGG 59.175 52.381 0.00 0.00 0.00 3.28
5654 6218 2.821625 GCAATCTTAGGGGGTGTTTGGT 60.822 50.000 0.00 0.00 0.00 3.67
5655 6219 3.506398 CAATCTTAGGGGGTGTTTGGTT 58.494 45.455 0.00 0.00 0.00 3.67
5656 6220 2.963599 TCTTAGGGGGTGTTTGGTTC 57.036 50.000 0.00 0.00 0.00 3.62
5657 6221 2.136863 TCTTAGGGGGTGTTTGGTTCA 58.863 47.619 0.00 0.00 0.00 3.18
5658 6222 2.107552 TCTTAGGGGGTGTTTGGTTCAG 59.892 50.000 0.00 0.00 0.00 3.02
5659 6223 0.774908 TAGGGGGTGTTTGGTTCAGG 59.225 55.000 0.00 0.00 0.00 3.86
5660 6224 1.533033 GGGGGTGTTTGGTTCAGGG 60.533 63.158 0.00 0.00 0.00 4.45
5661 6225 1.539665 GGGGTGTTTGGTTCAGGGA 59.460 57.895 0.00 0.00 0.00 4.20
5662 6226 0.826256 GGGGTGTTTGGTTCAGGGAC 60.826 60.000 0.00 0.00 0.00 4.46
5663 6227 0.185175 GGGTGTTTGGTTCAGGGACT 59.815 55.000 0.00 0.00 43.88 3.85
5664 6228 1.411074 GGGTGTTTGGTTCAGGGACTT 60.411 52.381 0.00 0.00 34.60 3.01
5665 6229 2.384828 GGTGTTTGGTTCAGGGACTTT 58.615 47.619 0.00 0.00 34.60 2.66
5666 6230 2.764010 GGTGTTTGGTTCAGGGACTTTT 59.236 45.455 0.00 0.00 34.60 2.27
5667 6231 3.196901 GGTGTTTGGTTCAGGGACTTTTT 59.803 43.478 0.00 0.00 34.60 1.94
5668 6232 4.403113 GGTGTTTGGTTCAGGGACTTTTTA 59.597 41.667 0.00 0.00 34.60 1.52
5669 6233 5.451381 GGTGTTTGGTTCAGGGACTTTTTAG 60.451 44.000 0.00 0.00 34.60 1.85
5670 6234 5.126545 GTGTTTGGTTCAGGGACTTTTTAGT 59.873 40.000 0.00 0.00 34.60 2.24
5671 6235 5.358725 TGTTTGGTTCAGGGACTTTTTAGTC 59.641 40.000 0.00 0.00 34.60 2.59
5691 6255 4.823157 GTCCCAGAGACTAGAAAAAGTCC 58.177 47.826 0.00 0.00 45.86 3.85
5692 6256 3.838903 TCCCAGAGACTAGAAAAAGTCCC 59.161 47.826 0.00 0.00 45.86 4.46
5693 6257 3.841255 CCCAGAGACTAGAAAAAGTCCCT 59.159 47.826 0.00 0.00 45.86 4.20
5694 6258 5.024118 CCCAGAGACTAGAAAAAGTCCCTA 58.976 45.833 0.00 0.00 45.86 3.53
5695 6259 5.484290 CCCAGAGACTAGAAAAAGTCCCTAA 59.516 44.000 0.00 0.00 45.86 2.69
5696 6260 6.013639 CCCAGAGACTAGAAAAAGTCCCTAAA 60.014 42.308 0.00 0.00 45.86 1.85
5697 6261 7.450903 CCAGAGACTAGAAAAAGTCCCTAAAA 58.549 38.462 0.00 0.00 45.86 1.52
5698 6262 7.937394 CCAGAGACTAGAAAAAGTCCCTAAAAA 59.063 37.037 0.00 0.00 45.86 1.94
5699 6263 8.994170 CAGAGACTAGAAAAAGTCCCTAAAAAG 58.006 37.037 0.00 0.00 45.86 2.27
5700 6264 8.715842 AGAGACTAGAAAAAGTCCCTAAAAAGT 58.284 33.333 0.00 0.00 45.86 2.66
5701 6265 8.905660 AGACTAGAAAAAGTCCCTAAAAAGTC 57.094 34.615 0.00 0.00 45.86 3.01
5702 6266 7.937942 AGACTAGAAAAAGTCCCTAAAAAGTCC 59.062 37.037 0.00 0.00 45.86 3.85
5703 6267 7.002879 ACTAGAAAAAGTCCCTAAAAAGTCCC 58.997 38.462 0.00 0.00 0.00 4.46
5704 6268 6.027025 AGAAAAAGTCCCTAAAAAGTCCCT 57.973 37.500 0.00 0.00 0.00 4.20
5705 6269 7.157947 AGAAAAAGTCCCTAAAAAGTCCCTA 57.842 36.000 0.00 0.00 0.00 3.53
5706 6270 7.232188 AGAAAAAGTCCCTAAAAAGTCCCTAG 58.768 38.462 0.00 0.00 0.00 3.02
5707 6271 5.516059 AAAGTCCCTAAAAAGTCCCTAGG 57.484 43.478 0.06 0.06 33.30 3.02
5708 6272 4.431158 AGTCCCTAAAAAGTCCCTAGGA 57.569 45.455 11.48 0.00 35.17 2.94
5709 6273 4.771338 AGTCCCTAAAAAGTCCCTAGGAA 58.229 43.478 11.48 0.00 35.17 3.36
5710 6274 4.535294 AGTCCCTAAAAAGTCCCTAGGAAC 59.465 45.833 11.48 0.00 35.17 3.62
5711 6275 3.848377 TCCCTAAAAAGTCCCTAGGAACC 59.152 47.826 11.48 0.00 35.17 3.62
5712 6276 3.590182 CCCTAAAAAGTCCCTAGGAACCA 59.410 47.826 11.48 0.00 35.17 3.67
5713 6277 4.043686 CCCTAAAAAGTCCCTAGGAACCAA 59.956 45.833 11.48 0.00 35.17 3.67
5714 6278 5.458508 CCCTAAAAAGTCCCTAGGAACCAAA 60.459 44.000 11.48 0.00 35.17 3.28
5715 6279 5.475909 CCTAAAAAGTCCCTAGGAACCAAAC 59.524 44.000 11.48 0.00 35.17 2.93
5716 6280 2.853235 AAGTCCCTAGGAACCAAACG 57.147 50.000 11.48 0.00 31.38 3.60
5717 6281 0.981943 AGTCCCTAGGAACCAAACGG 59.018 55.000 11.48 0.00 31.38 4.44
5718 6282 0.035725 GTCCCTAGGAACCAAACGGG 60.036 60.000 11.48 0.00 44.81 5.28
5719 6283 0.178897 TCCCTAGGAACCAAACGGGA 60.179 55.000 11.48 0.00 41.15 5.14
5720 6284 0.252197 CCCTAGGAACCAAACGGGAG 59.748 60.000 11.48 0.00 41.15 4.30
5721 6285 0.252197 CCTAGGAACCAAACGGGAGG 59.748 60.000 1.05 0.00 41.15 4.30
5722 6286 0.252197 CTAGGAACCAAACGGGAGGG 59.748 60.000 0.00 0.00 41.15 4.30
5723 6287 0.178897 TAGGAACCAAACGGGAGGGA 60.179 55.000 0.00 0.00 41.15 4.20
5724 6288 1.303074 GGAACCAAACGGGAGGGAC 60.303 63.158 0.00 0.00 41.15 4.46
5726 6290 0.109913 GAACCAAACGGGAGGGACTT 59.890 55.000 0.00 0.00 41.55 3.01
5727 6291 0.554305 AACCAAACGGGAGGGACTTT 59.446 50.000 0.00 0.00 41.55 2.66
5728 6292 0.554305 ACCAAACGGGAGGGACTTTT 59.446 50.000 0.00 0.00 41.55 2.27
5729 6293 1.063492 ACCAAACGGGAGGGACTTTTT 60.063 47.619 0.00 0.00 41.55 1.94
5730 6294 1.611977 CCAAACGGGAGGGACTTTTTC 59.388 52.381 0.00 0.00 41.55 2.29
5731 6295 2.583143 CAAACGGGAGGGACTTTTTCT 58.417 47.619 0.00 0.00 41.55 2.52
5732 6296 3.497227 CCAAACGGGAGGGACTTTTTCTA 60.497 47.826 0.00 0.00 41.55 2.10
5733 6297 3.413846 AACGGGAGGGACTTTTTCTAC 57.586 47.619 0.00 0.00 41.55 2.59
5734 6298 2.332117 ACGGGAGGGACTTTTTCTACA 58.668 47.619 0.00 0.00 41.55 2.74
5735 6299 2.302157 ACGGGAGGGACTTTTTCTACAG 59.698 50.000 0.00 0.00 41.55 2.74
5736 6300 2.354805 CGGGAGGGACTTTTTCTACAGG 60.355 54.545 0.00 0.00 41.55 4.00
5737 6301 2.026169 GGGAGGGACTTTTTCTACAGGG 60.026 54.545 0.00 0.00 41.55 4.45
5738 6302 2.910977 GGAGGGACTTTTTCTACAGGGA 59.089 50.000 0.00 0.00 41.55 4.20
5739 6303 3.307550 GGAGGGACTTTTTCTACAGGGAC 60.308 52.174 0.00 0.00 41.55 4.46
5740 6304 3.583526 GAGGGACTTTTTCTACAGGGACT 59.416 47.826 0.00 0.00 41.55 3.85
5741 6305 4.759953 AGGGACTTTTTCTACAGGGACTA 58.240 43.478 0.00 0.00 28.08 2.59
5742 6306 4.778427 AGGGACTTTTTCTACAGGGACTAG 59.222 45.833 0.00 0.00 28.08 2.57
5743 6307 4.776308 GGGACTTTTTCTACAGGGACTAGA 59.224 45.833 0.00 0.00 36.02 2.43
5744 6308 5.247792 GGGACTTTTTCTACAGGGACTAGAA 59.752 44.000 0.00 0.00 36.02 2.10
5745 6309 6.239800 GGGACTTTTTCTACAGGGACTAGAAA 60.240 42.308 0.00 0.00 38.08 2.52
5746 6310 7.222161 GGACTTTTTCTACAGGGACTAGAAAA 58.778 38.462 0.00 8.58 43.60 2.29
5750 6314 8.672823 TTTTTCTACAGGGACTAGAAAAAGAC 57.327 34.615 16.61 0.00 46.05 3.01
5751 6315 7.613551 TTTCTACAGGGACTAGAAAAAGACT 57.386 36.000 0.00 0.00 37.31 3.24
5752 6316 6.837471 TCTACAGGGACTAGAAAAAGACTC 57.163 41.667 0.00 0.00 36.02 3.36
5753 6317 6.553857 TCTACAGGGACTAGAAAAAGACTCT 58.446 40.000 0.00 0.00 36.02 3.24
5754 6318 7.696981 TCTACAGGGACTAGAAAAAGACTCTA 58.303 38.462 0.00 0.00 36.02 2.43
5755 6319 6.593268 ACAGGGACTAGAAAAAGACTCTAC 57.407 41.667 0.00 0.00 36.02 2.59
5756 6320 6.316513 ACAGGGACTAGAAAAAGACTCTACT 58.683 40.000 0.00 0.00 36.02 2.57
5757 6321 7.468496 ACAGGGACTAGAAAAAGACTCTACTA 58.532 38.462 0.00 0.00 36.02 1.82
5758 6322 7.394077 ACAGGGACTAGAAAAAGACTCTACTAC 59.606 40.741 0.00 0.00 36.02 2.73
5759 6323 7.393796 CAGGGACTAGAAAAAGACTCTACTACA 59.606 40.741 0.00 0.00 36.02 2.74
5760 6324 7.612633 AGGGACTAGAAAAAGACTCTACTACAG 59.387 40.741 0.00 0.00 36.02 2.74
5761 6325 7.611079 GGGACTAGAAAAAGACTCTACTACAGA 59.389 40.741 0.00 0.00 0.00 3.41
5816 6380 4.618920 GTCCTAGGACTTCTGAACCAAA 57.381 45.455 31.12 0.00 41.57 3.28
5817 6381 4.316645 GTCCTAGGACTTCTGAACCAAAC 58.683 47.826 31.12 3.26 41.57 2.93
5818 6382 3.971305 TCCTAGGACTTCTGAACCAAACA 59.029 43.478 7.62 0.00 0.00 2.83
5819 6383 4.065789 CCTAGGACTTCTGAACCAAACAC 58.934 47.826 1.05 0.00 0.00 3.32
5820 6384 2.932261 AGGACTTCTGAACCAAACACC 58.068 47.619 0.58 0.00 0.00 4.16
5821 6385 1.954382 GGACTTCTGAACCAAACACCC 59.046 52.381 0.00 0.00 0.00 4.61
5822 6386 1.954382 GACTTCTGAACCAAACACCCC 59.046 52.381 0.00 0.00 0.00 4.95
5870 6434 7.784037 TGCAATTTAATGTCCATATTTGCTCT 58.216 30.769 0.00 0.00 0.00 4.09
5903 6467 5.938279 AGTTCTCTTATGATGTCATGCCAT 58.062 37.500 5.78 0.00 37.15 4.40
5910 6474 9.976511 CTCTTATGATGTCATGCCATTAAAAAT 57.023 29.630 5.78 0.00 37.15 1.82
5923 6488 7.936584 TGCCATTAAAAATTATACGAGGAAGG 58.063 34.615 0.00 0.00 0.00 3.46
5995 6561 5.573337 AGCTTAGAATGATTTTGCCACTC 57.427 39.130 0.00 0.00 0.00 3.51
6016 6582 7.493971 CCACTCAGTAATTTTGATACTGGAGAG 59.506 40.741 12.31 6.60 46.56 3.20
6042 6608 6.095720 AGCTCTCAAGTCTGTTGTACCTATAC 59.904 42.308 0.00 0.00 0.00 1.47
6284 6855 7.472543 GCTCTGTATTTGTTTCGTTCCATTAT 58.527 34.615 0.00 0.00 0.00 1.28
6285 6856 7.968405 GCTCTGTATTTGTTTCGTTCCATTATT 59.032 33.333 0.00 0.00 0.00 1.40
6700 7272 2.293122 TCAGAAACAGAAATGTTGCCCG 59.707 45.455 0.00 0.00 31.64 6.13
6857 7435 1.410882 GTGAGATCTTCCCCTTCTCGG 59.589 57.143 0.00 0.00 38.97 4.63
6888 7466 1.598962 CACCTGTGACCAGCCAGTG 60.599 63.158 0.00 0.00 37.38 3.66
6897 7475 2.930019 CAGCCAGTGTCCAGGGGA 60.930 66.667 0.00 0.00 0.00 4.81
7069 7647 1.447314 CGCCACCCCTAACGACTTC 60.447 63.158 0.00 0.00 0.00 3.01
7093 7671 1.687014 GAAGCCCCCTTTACCCGAA 59.313 57.895 0.00 0.00 0.00 4.30
7100 7678 0.393944 CCCTTTACCCGAAAGCCTCC 60.394 60.000 0.00 0.00 42.91 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
787 794 2.173020 TCACTGTGCGTGTGCTGTG 61.173 57.895 2.12 0.00 44.16 3.66
814 821 2.358737 CGGCGTTTGCTCCTCCTT 60.359 61.111 0.00 0.00 42.25 3.36
816 823 4.388499 TCCGGCGTTTGCTCCTCC 62.388 66.667 6.01 0.00 42.25 4.30
881 891 2.501610 CCCTAAGTGGCGAGCTCC 59.498 66.667 8.47 0.47 0.00 4.70
1146 1156 1.228894 ACCCCTGAGCTCGTTCTCA 60.229 57.895 9.64 8.57 40.50 3.27
1222 1232 1.918800 AAAGGTCAGACCCCTCCCG 60.919 63.158 16.72 0.00 39.75 5.14
1237 1247 1.925229 CACCACAAACCAGCACAAAG 58.075 50.000 0.00 0.00 0.00 2.77
1238 1248 0.108424 GCACCACAAACCAGCACAAA 60.108 50.000 0.00 0.00 0.00 2.83
1241 1251 0.593128 CTAGCACCACAAACCAGCAC 59.407 55.000 0.00 0.00 0.00 4.40
1375 1386 0.383231 GATACCACACCTCCGTACCG 59.617 60.000 0.00 0.00 0.00 4.02
1429 1440 1.055040 CCAAATTTGGCACTTCCCCA 58.945 50.000 23.81 0.00 42.21 4.96
1507 1518 0.470766 AGGTACCTCAACACCGCAAA 59.529 50.000 9.21 0.00 39.94 3.68
2025 2040 1.963515 ACCCATTCAGTCCTTGCAAAC 59.036 47.619 0.00 0.00 0.00 2.93
2097 2118 4.564821 GGCACCTCCTATACAACAGTTTGA 60.565 45.833 0.00 0.00 36.48 2.69
2167 2492 7.728981 CCCAGTCATAGTAATCCTAACTCCTAA 59.271 40.741 0.00 0.00 0.00 2.69
2168 2493 7.146997 ACCCAGTCATAGTAATCCTAACTCCTA 60.147 40.741 0.00 0.00 0.00 2.94
2169 2494 6.078664 CCCAGTCATAGTAATCCTAACTCCT 58.921 44.000 0.00 0.00 0.00 3.69
2170 2495 5.839606 ACCCAGTCATAGTAATCCTAACTCC 59.160 44.000 0.00 0.00 0.00 3.85
2171 2496 6.980416 ACCCAGTCATAGTAATCCTAACTC 57.020 41.667 0.00 0.00 0.00 3.01
2172 2497 8.066247 AGTAACCCAGTCATAGTAATCCTAACT 58.934 37.037 0.00 0.00 0.00 2.24
2173 2498 8.142551 CAGTAACCCAGTCATAGTAATCCTAAC 58.857 40.741 0.00 0.00 0.00 2.34
2250 2575 6.653320 TGACCAATTAACTCTTGACGCTAAAT 59.347 34.615 0.00 0.00 0.00 1.40
2254 2579 4.002906 TGACCAATTAACTCTTGACGCT 57.997 40.909 0.00 0.00 0.00 5.07
2321 2646 5.817816 AGTTGAAGAAGGCGGTATTATTCAG 59.182 40.000 5.15 0.00 38.62 3.02
2335 2660 5.835113 TTGAAACCCAAGAGTTGAAGAAG 57.165 39.130 0.00 0.00 0.00 2.85
2366 2691 4.777896 TCATCTACCTTATCTATGGGCCAC 59.222 45.833 9.28 0.00 0.00 5.01
2370 2695 6.865834 AAGCTCATCTACCTTATCTATGGG 57.134 41.667 0.00 0.00 0.00 4.00
2387 2712 5.679382 GCCAATGCACAAATACATAAGCTCA 60.679 40.000 0.00 0.00 37.47 4.26
2833 3361 7.279615 TCATCGTCAGGTTTATGGTTAATGAT 58.720 34.615 0.00 0.00 0.00 2.45
2835 3363 6.918892 TCATCGTCAGGTTTATGGTTAATG 57.081 37.500 0.00 0.00 0.00 1.90
3071 3606 1.001181 GCCATTGCAGCCTTTTTCTCA 59.999 47.619 0.00 0.00 37.47 3.27
3233 3770 8.525290 AACACAAAAATAGAAGAGGGGATATG 57.475 34.615 0.00 0.00 0.00 1.78
3284 3821 1.064463 GGATGAAGATTGTGGGCTGGA 60.064 52.381 0.00 0.00 0.00 3.86
3285 3822 1.064166 AGGATGAAGATTGTGGGCTGG 60.064 52.381 0.00 0.00 0.00 4.85
3329 3866 7.500992 GTCACTTATTTGTGATATGGAGGAGA 58.499 38.462 0.64 0.00 46.77 3.71
3330 3867 6.422100 CGTCACTTATTTGTGATATGGAGGAG 59.578 42.308 0.64 0.00 46.77 3.69
3332 3869 6.049149 ACGTCACTTATTTGTGATATGGAGG 58.951 40.000 0.64 0.00 46.77 4.30
3445 3982 9.601217 GCTCTAGAAATACCTTTTGAGACAATA 57.399 33.333 0.00 0.00 0.00 1.90
3570 4113 4.689612 TGCAATTAGATACTCCCTCCAC 57.310 45.455 0.00 0.00 0.00 4.02
3894 4437 7.856398 CAGCATTTTCATAGTTGAGCTCTATTG 59.144 37.037 16.19 7.25 29.86 1.90
3925 4470 7.408756 TCTTCCTGCAATGCATAAAGTAAAT 57.591 32.000 21.26 0.00 38.13 1.40
4579 5143 7.516198 AGCTCACACTGAATTAAAACAGAAT 57.484 32.000 15.75 4.25 37.54 2.40
4773 5337 2.279252 CCGCCGAGTGATAACCGG 60.279 66.667 0.00 0.00 45.51 5.28
5299 5863 2.508526 ACATCTGCAGGACAAAAGGAC 58.491 47.619 15.13 0.00 0.00 3.85
5627 6191 1.274767 ACCCCCTAAGATTGCTGGGTA 60.275 52.381 0.00 0.00 44.30 3.69
5631 6195 2.493278 CAAACACCCCCTAAGATTGCTG 59.507 50.000 0.00 0.00 0.00 4.41
5634 6198 3.169512 ACCAAACACCCCCTAAGATTG 57.830 47.619 0.00 0.00 0.00 2.67
5635 6199 3.141272 TGAACCAAACACCCCCTAAGATT 59.859 43.478 0.00 0.00 0.00 2.40
5638 6202 2.514803 CTGAACCAAACACCCCCTAAG 58.485 52.381 0.00 0.00 0.00 2.18
5639 6203 1.146152 CCTGAACCAAACACCCCCTAA 59.854 52.381 0.00 0.00 0.00 2.69
5640 6204 0.774908 CCTGAACCAAACACCCCCTA 59.225 55.000 0.00 0.00 0.00 3.53
5641 6205 1.541672 CCTGAACCAAACACCCCCT 59.458 57.895 0.00 0.00 0.00 4.79
5642 6206 1.533033 CCCTGAACCAAACACCCCC 60.533 63.158 0.00 0.00 0.00 5.40
5643 6207 0.826256 GTCCCTGAACCAAACACCCC 60.826 60.000 0.00 0.00 0.00 4.95
5644 6208 0.185175 AGTCCCTGAACCAAACACCC 59.815 55.000 0.00 0.00 0.00 4.61
5645 6209 2.067365 AAGTCCCTGAACCAAACACC 57.933 50.000 0.00 0.00 0.00 4.16
5646 6210 4.465632 AAAAAGTCCCTGAACCAAACAC 57.534 40.909 0.00 0.00 0.00 3.32
5647 6211 5.265989 ACTAAAAAGTCCCTGAACCAAACA 58.734 37.500 0.00 0.00 0.00 2.83
5648 6212 5.828747 GACTAAAAAGTCCCTGAACCAAAC 58.171 41.667 0.00 0.00 32.97 2.93
5669 6233 4.322877 GGGACTTTTTCTAGTCTCTGGGAC 60.323 50.000 0.00 0.00 41.50 4.46
5670 6234 3.838903 GGGACTTTTTCTAGTCTCTGGGA 59.161 47.826 0.00 0.00 41.50 4.37
5671 6235 4.209307 GGGACTTTTTCTAGTCTCTGGG 57.791 50.000 0.00 0.00 41.50 4.45
5675 6239 8.905660 ACTTTTTAGGGACTTTTTCTAGTCTC 57.094 34.615 0.00 0.00 44.42 3.36
5676 6240 7.937942 GGACTTTTTAGGGACTTTTTCTAGTCT 59.062 37.037 0.00 0.00 43.26 3.24
5677 6241 7.174599 GGGACTTTTTAGGGACTTTTTCTAGTC 59.825 40.741 0.00 0.00 43.05 2.59
5678 6242 7.002879 GGGACTTTTTAGGGACTTTTTCTAGT 58.997 38.462 0.00 0.00 41.75 2.57
5679 6243 7.232188 AGGGACTTTTTAGGGACTTTTTCTAG 58.768 38.462 0.00 0.00 34.75 2.43
5680 6244 7.157947 AGGGACTTTTTAGGGACTTTTTCTA 57.842 36.000 0.00 0.00 34.75 2.10
5681 6245 6.027025 AGGGACTTTTTAGGGACTTTTTCT 57.973 37.500 0.00 0.00 34.75 2.52
5682 6246 6.433404 CCTAGGGACTTTTTAGGGACTTTTTC 59.567 42.308 0.00 0.00 39.49 2.29
5683 6247 6.103649 TCCTAGGGACTTTTTAGGGACTTTTT 59.896 38.462 9.46 0.00 39.49 1.94
5684 6248 5.613973 TCCTAGGGACTTTTTAGGGACTTTT 59.386 40.000 9.46 0.00 39.49 2.27
5685 6249 5.167921 TCCTAGGGACTTTTTAGGGACTTT 58.832 41.667 9.46 0.00 39.49 2.66
5686 6250 4.771338 TCCTAGGGACTTTTTAGGGACTT 58.229 43.478 9.46 0.00 39.49 3.01
5687 6251 4.431158 TCCTAGGGACTTTTTAGGGACT 57.569 45.455 9.46 0.00 41.75 3.85
5688 6252 4.324099 GGTTCCTAGGGACTTTTTAGGGAC 60.324 50.000 20.08 0.45 40.79 4.46
5689 6253 3.848377 GGTTCCTAGGGACTTTTTAGGGA 59.152 47.826 20.08 0.00 41.75 4.20
5690 6254 3.590182 TGGTTCCTAGGGACTTTTTAGGG 59.410 47.826 20.08 0.00 41.75 3.53
5691 6255 4.921644 TGGTTCCTAGGGACTTTTTAGG 57.078 45.455 20.08 0.00 41.75 2.69
5692 6256 5.180680 CGTTTGGTTCCTAGGGACTTTTTAG 59.819 44.000 20.08 4.22 41.75 1.85
5693 6257 5.065235 CGTTTGGTTCCTAGGGACTTTTTA 58.935 41.667 20.08 0.00 41.75 1.52
5694 6258 3.887110 CGTTTGGTTCCTAGGGACTTTTT 59.113 43.478 20.08 0.00 41.75 1.94
5695 6259 3.483421 CGTTTGGTTCCTAGGGACTTTT 58.517 45.455 20.08 0.00 41.75 2.27
5696 6260 2.224695 CCGTTTGGTTCCTAGGGACTTT 60.225 50.000 20.08 0.00 41.75 2.66
5697 6261 1.350019 CCGTTTGGTTCCTAGGGACTT 59.650 52.381 20.08 0.00 41.75 3.01
5698 6262 0.981943 CCGTTTGGTTCCTAGGGACT 59.018 55.000 20.08 0.00 46.37 3.85
5699 6263 0.035725 CCCGTTTGGTTCCTAGGGAC 60.036 60.000 12.35 12.35 41.26 4.46
5700 6264 0.178897 TCCCGTTTGGTTCCTAGGGA 60.179 55.000 9.46 0.00 44.85 4.20
5701 6265 0.252197 CTCCCGTTTGGTTCCTAGGG 59.748 60.000 9.46 0.00 40.16 3.53
5702 6266 0.252197 CCTCCCGTTTGGTTCCTAGG 59.748 60.000 0.82 0.82 34.77 3.02
5703 6267 0.252197 CCCTCCCGTTTGGTTCCTAG 59.748 60.000 0.00 0.00 34.77 3.02
5704 6268 0.178897 TCCCTCCCGTTTGGTTCCTA 60.179 55.000 0.00 0.00 34.77 2.94
5705 6269 1.462627 TCCCTCCCGTTTGGTTCCT 60.463 57.895 0.00 0.00 34.77 3.36
5706 6270 1.303074 GTCCCTCCCGTTTGGTTCC 60.303 63.158 0.00 0.00 34.77 3.62
5707 6271 0.109913 AAGTCCCTCCCGTTTGGTTC 59.890 55.000 0.00 0.00 34.77 3.62
5708 6272 0.554305 AAAGTCCCTCCCGTTTGGTT 59.446 50.000 0.00 0.00 34.77 3.67
5709 6273 0.554305 AAAAGTCCCTCCCGTTTGGT 59.446 50.000 0.00 0.00 34.77 3.67
5710 6274 1.611977 GAAAAAGTCCCTCCCGTTTGG 59.388 52.381 0.00 0.00 0.00 3.28
5711 6275 2.583143 AGAAAAAGTCCCTCCCGTTTG 58.417 47.619 0.00 0.00 0.00 2.93
5712 6276 3.136992 TGTAGAAAAAGTCCCTCCCGTTT 59.863 43.478 0.00 0.00 0.00 3.60
5713 6277 2.707257 TGTAGAAAAAGTCCCTCCCGTT 59.293 45.455 0.00 0.00 0.00 4.44
5714 6278 2.302157 CTGTAGAAAAAGTCCCTCCCGT 59.698 50.000 0.00 0.00 0.00 5.28
5715 6279 2.354805 CCTGTAGAAAAAGTCCCTCCCG 60.355 54.545 0.00 0.00 0.00 5.14
5716 6280 2.026169 CCCTGTAGAAAAAGTCCCTCCC 60.026 54.545 0.00 0.00 0.00 4.30
5717 6281 2.910977 TCCCTGTAGAAAAAGTCCCTCC 59.089 50.000 0.00 0.00 0.00 4.30
5718 6282 3.583526 AGTCCCTGTAGAAAAAGTCCCTC 59.416 47.826 0.00 0.00 0.00 4.30
5719 6283 3.599348 AGTCCCTGTAGAAAAAGTCCCT 58.401 45.455 0.00 0.00 0.00 4.20
5720 6284 4.776308 TCTAGTCCCTGTAGAAAAAGTCCC 59.224 45.833 0.00 0.00 0.00 4.46
5721 6285 5.997384 TCTAGTCCCTGTAGAAAAAGTCC 57.003 43.478 0.00 0.00 0.00 3.85
5727 6291 7.509659 AGAGTCTTTTTCTAGTCCCTGTAGAAA 59.490 37.037 1.96 1.96 42.24 2.52
5728 6292 7.011382 AGAGTCTTTTTCTAGTCCCTGTAGAA 58.989 38.462 0.00 0.00 35.21 2.10
5729 6293 6.553857 AGAGTCTTTTTCTAGTCCCTGTAGA 58.446 40.000 0.00 0.00 0.00 2.59
5730 6294 6.844097 AGAGTCTTTTTCTAGTCCCTGTAG 57.156 41.667 0.00 0.00 0.00 2.74
5731 6295 7.468496 AGTAGAGTCTTTTTCTAGTCCCTGTA 58.532 38.462 0.00 0.00 0.00 2.74
5732 6296 6.316513 AGTAGAGTCTTTTTCTAGTCCCTGT 58.683 40.000 0.00 0.00 0.00 4.00
5733 6297 6.844097 AGTAGAGTCTTTTTCTAGTCCCTG 57.156 41.667 0.00 0.00 0.00 4.45
5734 6298 7.468496 TGTAGTAGAGTCTTTTTCTAGTCCCT 58.532 38.462 0.00 0.00 33.84 4.20
5735 6299 7.611079 TCTGTAGTAGAGTCTTTTTCTAGTCCC 59.389 40.741 0.00 0.00 33.84 4.46
5736 6300 8.564509 TCTGTAGTAGAGTCTTTTTCTAGTCC 57.435 38.462 0.00 0.00 33.84 3.85
5795 6359 4.202326 TGTTTGGTTCAGAAGTCCTAGGAC 60.202 45.833 31.29 31.29 44.86 3.85
5796 6360 3.971305 TGTTTGGTTCAGAAGTCCTAGGA 59.029 43.478 7.62 7.62 0.00 2.94
5797 6361 4.065789 GTGTTTGGTTCAGAAGTCCTAGG 58.934 47.826 0.82 0.82 0.00 3.02
5798 6362 4.065789 GGTGTTTGGTTCAGAAGTCCTAG 58.934 47.826 0.00 0.00 0.00 3.02
5799 6363 3.181448 GGGTGTTTGGTTCAGAAGTCCTA 60.181 47.826 0.00 0.00 0.00 2.94
5800 6364 2.422945 GGGTGTTTGGTTCAGAAGTCCT 60.423 50.000 0.00 0.00 0.00 3.85
5801 6365 1.954382 GGGTGTTTGGTTCAGAAGTCC 59.046 52.381 0.00 0.00 0.00 3.85
5802 6366 1.954382 GGGGTGTTTGGTTCAGAAGTC 59.046 52.381 0.00 0.00 0.00 3.01
5803 6367 1.411074 GGGGGTGTTTGGTTCAGAAGT 60.411 52.381 0.00 0.00 0.00 3.01
5804 6368 1.133482 AGGGGGTGTTTGGTTCAGAAG 60.133 52.381 0.00 0.00 0.00 2.85
5805 6369 0.930726 AGGGGGTGTTTGGTTCAGAA 59.069 50.000 0.00 0.00 0.00 3.02
5806 6370 0.930726 AAGGGGGTGTTTGGTTCAGA 59.069 50.000 0.00 0.00 0.00 3.27
5807 6371 2.158519 ACTAAGGGGGTGTTTGGTTCAG 60.159 50.000 0.00 0.00 0.00 3.02
5808 6372 1.854280 ACTAAGGGGGTGTTTGGTTCA 59.146 47.619 0.00 0.00 0.00 3.18
5809 6373 2.670019 ACTAAGGGGGTGTTTGGTTC 57.330 50.000 0.00 0.00 0.00 3.62
5810 6374 3.408157 AAACTAAGGGGGTGTTTGGTT 57.592 42.857 0.00 0.00 33.36 3.67
5811 6375 3.035363 CAAAACTAAGGGGGTGTTTGGT 58.965 45.455 0.00 0.00 34.63 3.67
5812 6376 3.035363 ACAAAACTAAGGGGGTGTTTGG 58.965 45.455 0.00 0.00 34.63 3.28
5813 6377 4.746535 AACAAAACTAAGGGGGTGTTTG 57.253 40.909 0.00 0.00 34.63 2.93
5814 6378 5.305902 CCATAACAAAACTAAGGGGGTGTTT 59.694 40.000 0.00 0.00 35.71 2.83
5815 6379 4.836175 CCATAACAAAACTAAGGGGGTGTT 59.164 41.667 0.00 0.00 33.94 3.32
5816 6380 4.140876 ACCATAACAAAACTAAGGGGGTGT 60.141 41.667 0.00 0.00 0.00 4.16
5817 6381 4.219725 CACCATAACAAAACTAAGGGGGTG 59.780 45.833 0.00 0.00 36.49 4.61
5818 6382 4.412843 CACCATAACAAAACTAAGGGGGT 58.587 43.478 0.00 0.00 0.00 4.95
5819 6383 3.194755 GCACCATAACAAAACTAAGGGGG 59.805 47.826 0.00 0.00 0.00 5.40
5820 6384 3.829601 TGCACCATAACAAAACTAAGGGG 59.170 43.478 0.00 0.00 0.00 4.79
5821 6385 4.321675 GGTGCACCATAACAAAACTAAGGG 60.322 45.833 31.23 0.00 35.64 3.95
5822 6386 4.522789 AGGTGCACCATAACAAAACTAAGG 59.477 41.667 36.39 0.00 38.89 2.69
5853 6417 8.757982 ATCACTAAAGAGCAAATATGGACATT 57.242 30.769 0.00 0.00 0.00 2.71
5903 6467 8.402472 CACATGCCTTCCTCGTATAATTTTTAA 58.598 33.333 0.00 0.00 0.00 1.52
5910 6474 4.746535 TTCACATGCCTTCCTCGTATAA 57.253 40.909 0.00 0.00 0.00 0.98
5923 6488 7.009815 CACCTGAATAATCACAATTTCACATGC 59.990 37.037 0.00 0.00 0.00 4.06
5983 6549 9.076596 GTATCAAAATTACTGAGTGGCAAAATC 57.923 33.333 0.00 0.00 0.00 2.17
5995 6561 7.271511 AGCTCTCTCCAGTATCAAAATTACTG 58.728 38.462 4.29 4.29 40.47 2.74
6016 6582 3.257127 AGGTACAACAGACTTGAGAGCTC 59.743 47.826 5.27 5.27 0.00 4.09
6032 6598 6.994496 ACATAGTAGTTGAGCGTATAGGTACA 59.006 38.462 0.00 0.00 0.00 2.90
6042 6608 3.503827 TCACCACATAGTAGTTGAGCG 57.496 47.619 0.00 0.00 0.00 5.03
6077 6643 5.823045 GGGTGGTAAAAGATAATGTCTCCTG 59.177 44.000 0.00 0.00 35.67 3.86
6284 6855 9.226606 CATCTCAACCACAAAACTAATAGGTAA 57.773 33.333 0.00 0.00 0.00 2.85
6285 6856 8.598916 TCATCTCAACCACAAAACTAATAGGTA 58.401 33.333 0.00 0.00 0.00 3.08
6286 6857 7.458397 TCATCTCAACCACAAAACTAATAGGT 58.542 34.615 0.00 0.00 0.00 3.08
6333 6904 1.506028 TTCCCCGGCTCCCAAGATTT 61.506 55.000 0.00 0.00 0.00 2.17
6700 7272 1.354368 TCAGACCCAGGGAAATCCAAC 59.646 52.381 14.54 0.00 38.24 3.77
6748 7326 7.066307 TCAGACTTGCTATATCTTTGCCATA 57.934 36.000 0.00 0.00 0.00 2.74
6752 7330 7.655328 ACAGTATCAGACTTGCTATATCTTTGC 59.345 37.037 0.00 0.00 35.64 3.68
6857 7435 0.316204 ACAGGTGCAAAGCTTGATGC 59.684 50.000 14.88 14.88 42.86 3.91
7055 7633 0.886563 CTGTCGAAGTCGTTAGGGGT 59.113 55.000 0.00 0.00 40.80 4.95
7069 7647 0.392595 GTAAAGGGGGCTTCCTGTCG 60.393 60.000 1.02 0.00 37.20 4.35
7080 7658 0.393944 GAGGCTTTCGGGTAAAGGGG 60.394 60.000 0.00 0.00 44.13 4.79
7093 7671 2.113139 CACAACACGGGGAGGCTT 59.887 61.111 0.00 0.00 0.00 4.35


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

AutoCloner maintained by Alex Coulton.