Multiple sequence alignment - TraesCS2D01G059300

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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 TraesCS2D01G059300 chr2D 100.000 5406 0 0 1 5406 24563484 24558079 0.000000e+00 9984
1 TraesCS2D01G059300 chr2D 84.780 1406 142 31 3186 4556 24703336 24701968 0.000000e+00 1345
2 TraesCS2D01G059300 chr2D 89.604 606 48 9 2184 2789 24704338 24703748 0.000000e+00 756
3 TraesCS2D01G059300 chr2D 85.996 557 63 8 1180 1726 24705116 24704565 2.810000e-162 582
4 TraesCS2D01G059300 chr2D 89.646 367 24 7 2830 3186 24703746 24703384 6.380000e-124 455
5 TraesCS2D01G059300 chr2D 81.876 469 60 16 24 484 24706721 24706270 6.610000e-99 372
6 TraesCS2D01G059300 chr2D 82.238 411 55 9 679 1072 24705663 24705254 6.710000e-89 339
7 TraesCS2D01G059300 chr2D 87.190 242 23 5 1785 2022 24704566 24704329 8.930000e-68 268
8 TraesCS2D01G059300 chr2A 95.414 4339 126 20 690 4988 27339748 27344053 0.000000e+00 6842
9 TraesCS2D01G059300 chr2A 90.774 607 56 0 2184 2790 27329379 27329985 0.000000e+00 811
10 TraesCS2D01G059300 chr2A 87.267 589 52 16 3183 3764 27330394 27330966 0.000000e+00 651
11 TraesCS2D01G059300 chr2A 85.971 556 64 7 1181 1726 27328598 27329149 2.810000e-162 582
12 TraesCS2D01G059300 chr2A 85.841 565 52 10 3995 4556 27331091 27331630 4.700000e-160 575
13 TraesCS2D01G059300 chr2A 88.949 371 26 7 2827 3186 27329983 27330349 1.380000e-120 444
14 TraesCS2D01G059300 chr2A 83.827 439 46 19 56 481 27327353 27327779 1.410000e-105 394
15 TraesCS2D01G059300 chr2A 89.508 305 15 5 64 367 27338812 27339100 2.380000e-98 370
16 TraesCS2D01G059300 chr2A 88.797 241 24 2 1785 2022 27329148 27329388 5.300000e-75 292
17 TraesCS2D01G059300 chr2A 93.333 75 5 0 5332 5406 36671699 36671773 1.590000e-20 111
18 TraesCS2D01G059300 chr2B 91.306 3646 205 55 1298 4879 40275717 40279314 0.000000e+00 4874
19 TraesCS2D01G059300 chr2B 83.310 1432 142 43 3183 4556 40068958 40070350 0.000000e+00 1230
20 TraesCS2D01G059300 chr2B 87.581 620 52 17 1 608 40274625 40275231 0.000000e+00 695
21 TraesCS2D01G059300 chr2B 90.964 498 45 0 2184 2681 40067994 40068491 0.000000e+00 671
22 TraesCS2D01G059300 chr2B 91.962 423 25 7 718 1135 40275301 40275719 7.800000e-163 584
23 TraesCS2D01G059300 chr2B 84.865 555 64 8 1180 1725 40067220 40067763 4.760000e-150 542
24 TraesCS2D01G059300 chr2B 85.529 463 40 14 43 481 40065907 40066366 4.930000e-125 459
25 TraesCS2D01G059300 chr2B 88.172 372 27 8 2827 3186 40068547 40068913 1.390000e-115 427
26 TraesCS2D01G059300 chr2B 82.353 442 57 12 644 1069 40066610 40067046 1.110000e-96 364
27 TraesCS2D01G059300 chr2B 95.187 187 5 3 5222 5406 40279374 40279558 5.300000e-75 292
28 TraesCS2D01G059300 chr2B 88.750 240 22 4 1787 2022 40067765 40068003 6.850000e-74 289
29 TraesCS2D01G059300 chr2B 91.139 79 4 3 5120 5197 40279365 40279289 2.660000e-18 104
30 TraesCS2D01G059300 chr5B 91.611 298 15 5 4422 4717 49007518 49007229 2.340000e-108 403


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 TraesCS2D01G059300 chr2D 24558079 24563484 5405 True 9984.000000 9984 100.000000 1 5406 1 chr2D.!!$R1 5405
1 TraesCS2D01G059300 chr2D 24701968 24706721 4753 True 588.142857 1345 85.904286 24 4556 7 chr2D.!!$R2 4532
2 TraesCS2D01G059300 chr2A 27338812 27344053 5241 False 3606.000000 6842 92.461000 64 4988 2 chr2A.!!$F3 4924
3 TraesCS2D01G059300 chr2A 27327353 27331630 4277 False 535.571429 811 87.346571 56 4556 7 chr2A.!!$F2 4500
4 TraesCS2D01G059300 chr2B 40274625 40279558 4933 False 1611.250000 4874 91.509000 1 5406 4 chr2B.!!$F2 5405
5 TraesCS2D01G059300 chr2B 40065907 40070350 4443 False 568.857143 1230 86.277571 43 4556 7 chr2B.!!$F1 4513

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
587 836 0.248843 GTAACAGCAGGCTCAGAGCT 59.751 55.0 21.99 5.50 41.99 4.09 F
590 840 0.324183 ACAGCAGGCTCAGAGCTAGA 60.324 55.0 21.99 0.00 41.99 2.43 F
1758 2566 0.104671 GCTGGAGAGGACATCTGCTC 59.895 60.0 10.05 0.00 46.10 4.26 F
1873 2681 0.881118 CTGGTTTCATCACCCAACCG 59.119 55.0 0.00 0.00 42.65 4.44 F
2600 3408 1.180029 ACTTGCCAACATGGATGAGC 58.820 50.0 0.00 2.92 40.96 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1744 2552 1.674764 CGGCAGAGCAGATGTCCTCT 61.675 60.000 0.00 0.0 38.91 3.69 R
2467 3275 2.231964 ACAATTCCGCTGCACATGATTT 59.768 40.909 0.00 0.0 0.00 2.17 R
2991 3800 3.324846 ACAAGCTGGTGACATAGTCTGAA 59.675 43.478 0.00 0.0 41.51 3.02 R
3765 4648 4.846779 ACCGCAAATGTAAATCAACTGT 57.153 36.364 0.00 0.0 0.00 3.55 R
4502 5473 1.792026 AGGGCCATCCATCTCTCTCTA 59.208 52.381 6.18 0.0 38.24 2.43 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
20 21 0.456221 TCCTGAATCCGAAGTCGAGC 59.544 55.000 1.43 0.00 43.02 5.03
35 36 1.303643 GAGCCCAAACCCTGTCCAG 60.304 63.158 0.00 0.00 0.00 3.86
81 82 3.427638 GCTACAAAATTTCGCTCCCCTTC 60.428 47.826 0.00 0.00 0.00 3.46
114 127 3.284449 AACCGTGGCGCCAACTTC 61.284 61.111 34.66 18.44 0.00 3.01
358 566 1.483424 CGCGGCTCTTCCTCGATTTC 61.483 60.000 0.00 0.00 45.46 2.17
443 661 3.303857 GCATCTCAAGCCGATGAAATGAG 60.304 47.826 4.35 0.00 40.47 2.90
454 676 4.201753 CCGATGAAATGAGTTGTAGCACTG 60.202 45.833 0.00 0.00 0.00 3.66
484 718 1.971167 TGTGGGCTGCGTTGAATCC 60.971 57.895 0.00 0.00 0.00 3.01
515 749 3.630312 TGGGACTCTTGTAAAGTTGCAAC 59.370 43.478 22.17 22.17 46.34 4.17
533 767 3.498397 GCAACTTTTGTGAGCTAGTAGCA 59.502 43.478 23.77 1.17 45.56 3.49
534 768 4.611581 GCAACTTTTGTGAGCTAGTAGCAC 60.612 45.833 23.77 17.92 45.56 4.40
549 783 1.819632 GCACATTCTAGGCCGGTGG 60.820 63.158 1.90 0.00 0.00 4.61
571 805 3.958798 GGTGGGTCATAGACTAGCAGTAA 59.041 47.826 0.00 0.00 32.47 2.24
587 836 0.248843 GTAACAGCAGGCTCAGAGCT 59.751 55.000 21.99 5.50 41.99 4.09
590 840 0.324183 ACAGCAGGCTCAGAGCTAGA 60.324 55.000 21.99 0.00 41.99 2.43
609 860 2.832129 AGAGCTTGTTGAGGGATTCGTA 59.168 45.455 0.00 0.00 0.00 3.43
610 861 2.930682 GAGCTTGTTGAGGGATTCGTAC 59.069 50.000 0.00 0.00 0.00 3.67
613 864 3.125316 GCTTGTTGAGGGATTCGTACTTG 59.875 47.826 0.00 0.00 0.00 3.16
660 1039 1.078143 CCCCTACTGGAAGCACAGC 60.078 63.158 3.37 0.00 42.21 4.40
670 1052 4.455877 ACTGGAAGCACAGCTGTTTATTAC 59.544 41.667 18.94 13.21 42.21 1.89
671 1053 4.651778 TGGAAGCACAGCTGTTTATTACT 58.348 39.130 18.94 5.07 39.62 2.24
805 1493 5.536554 TTGTGATTCTTCGAAGATGCTTC 57.463 39.130 27.51 20.23 35.04 3.86
883 1584 1.609208 ATTGATGCTTATCCGCACCC 58.391 50.000 0.00 0.00 43.61 4.61
893 1594 1.762708 ATCCGCACCCATTTACTTGG 58.237 50.000 0.00 0.00 36.46 3.61
1028 1736 6.653320 TCTTGCGTGGTTAACAGAATAGATTT 59.347 34.615 8.10 0.00 0.00 2.17
1228 2026 6.887002 ACCTAAGAATAAGAAGGCTCCAAAAG 59.113 38.462 0.00 0.00 31.98 2.27
1369 2167 6.349363 GGAAAAGATACCACCTTGTAAAGCAG 60.349 42.308 0.00 0.00 44.44 4.24
1407 2205 3.443099 TCATCTTCTCCACATGCTACG 57.557 47.619 0.00 0.00 0.00 3.51
1459 2257 6.493802 AGATGAAGTCAGTCCTGTACAAACTA 59.506 38.462 9.57 0.00 0.00 2.24
1501 2299 2.566833 TGACCCAATGACAGTGAAGG 57.433 50.000 4.07 0.40 0.00 3.46
1560 2358 7.784550 AGAATTGCTATTGGTGGGTATTGTTAT 59.215 33.333 0.00 0.00 0.00 1.89
1744 2552 7.012704 GCAGAACATAATGAAGAAATAGCTGGA 59.987 37.037 0.00 0.00 0.00 3.86
1758 2566 0.104671 GCTGGAGAGGACATCTGCTC 59.895 60.000 10.05 0.00 46.10 4.26
1790 2598 6.489127 TGGAAAATACAGTATTTCACACCG 57.511 37.500 17.26 0.00 37.39 4.94
1873 2681 0.881118 CTGGTTTCATCACCCAACCG 59.119 55.000 0.00 0.00 42.65 4.44
2122 2930 4.899502 ACAGGTATCCAGAAGTTGTTCAG 58.100 43.478 0.00 0.00 34.82 3.02
2324 3132 3.254166 AGTCTGCCATGATGTGAAAACAC 59.746 43.478 0.00 0.00 0.00 3.32
2413 3221 4.197750 CTCTTGATTTGGCTCATACTGCT 58.802 43.478 0.00 0.00 0.00 4.24
2600 3408 1.180029 ACTTGCCAACATGGATGAGC 58.820 50.000 0.00 2.92 40.96 4.26
2853 3661 1.666189 GCAAACTAGGGCGTCTGATTC 59.334 52.381 0.00 0.00 0.00 2.52
3196 4068 9.790344 AGATTAATCTTGAAGACCAATCTATGG 57.210 33.333 22.01 0.00 44.52 2.74
3224 4096 4.035558 CACAGACAGCAAACTTAAGAGCAA 59.964 41.667 10.09 0.00 0.00 3.91
3232 4104 6.197842 CAGCAAACTTAAGAGCAAAACTTCTG 59.802 38.462 10.09 0.00 0.00 3.02
3764 4647 7.100458 AGTTTCTTGTTGTACAGCAGAATTT 57.900 32.000 12.38 7.36 0.00 1.82
3765 4648 8.220755 AGTTTCTTGTTGTACAGCAGAATTTA 57.779 30.769 12.38 0.00 0.00 1.40
3766 4649 8.129211 AGTTTCTTGTTGTACAGCAGAATTTAC 58.871 33.333 12.38 12.22 0.00 2.01
3768 4651 7.189693 TCTTGTTGTACAGCAGAATTTACAG 57.810 36.000 12.38 5.16 0.00 2.74
3791 4674 5.240623 AGTTGATTTACATTTGCGGTTCTGA 59.759 36.000 0.00 0.00 0.00 3.27
3875 4788 1.394917 GTGCTTTATCCTGTCTGTGCG 59.605 52.381 0.00 0.00 0.00 5.34
3913 4826 8.164057 AGTCTACCTTCTTTCCTTGGAATTAT 57.836 34.615 2.65 0.00 0.00 1.28
3915 4828 8.047310 GTCTACCTTCTTTCCTTGGAATTATGA 58.953 37.037 2.65 0.00 0.00 2.15
4362 5324 4.152580 GCTCTGCTCTGTTAAGGTGTTTAC 59.847 45.833 0.00 0.00 0.00 2.01
4595 5572 9.726438 ATACTTGTTTTTCTTCTAGCAGTGTAT 57.274 29.630 0.00 0.00 0.00 2.29
4596 5573 8.451908 ACTTGTTTTTCTTCTAGCAGTGTATT 57.548 30.769 0.00 0.00 0.00 1.89
4597 5574 9.555727 ACTTGTTTTTCTTCTAGCAGTGTATTA 57.444 29.630 0.00 0.00 0.00 0.98
4623 5600 3.834489 AGATGCTTAGAGTCCATGTGG 57.166 47.619 0.00 0.00 0.00 4.17
4758 5735 0.324645 ATGTGGGCTTGTGGATTCCC 60.325 55.000 0.00 0.00 39.22 3.97
4888 5882 6.741992 ATTTGTCAGGTGTACATATGTGTG 57.258 37.500 18.81 7.89 39.39 3.82
4985 5979 3.191735 GCAACATCTGCCAAAATTTGC 57.808 42.857 0.00 0.00 46.13 3.68
4986 5980 2.809696 GCAACATCTGCCAAAATTTGCT 59.190 40.909 0.00 0.00 46.13 3.91
4987 5981 3.364565 GCAACATCTGCCAAAATTTGCTG 60.365 43.478 0.00 0.00 46.13 4.41
4988 5982 4.059511 CAACATCTGCCAAAATTTGCTGA 58.940 39.130 10.96 10.96 39.32 4.26
4989 5983 4.546829 ACATCTGCCAAAATTTGCTGAT 57.453 36.364 13.67 13.67 43.98 2.90
4990 5984 4.901868 ACATCTGCCAAAATTTGCTGATT 58.098 34.783 15.69 8.49 42.11 2.57
4991 5985 6.040209 ACATCTGCCAAAATTTGCTGATTA 57.960 33.333 15.69 0.00 42.11 1.75
4992 5986 6.103997 ACATCTGCCAAAATTTGCTGATTAG 58.896 36.000 15.69 10.70 42.11 1.73
5001 5995 4.844420 GCTGATTAGCCGCTGAGT 57.156 55.556 2.16 0.00 44.33 3.41
5002 5996 3.071580 GCTGATTAGCCGCTGAGTT 57.928 52.632 2.16 0.00 44.33 3.01
5003 5997 1.373570 GCTGATTAGCCGCTGAGTTT 58.626 50.000 2.16 0.00 44.33 2.66
5004 5998 1.063174 GCTGATTAGCCGCTGAGTTTG 59.937 52.381 2.16 0.00 44.33 2.93
5005 5999 1.063174 CTGATTAGCCGCTGAGTTTGC 59.937 52.381 2.16 0.00 0.00 3.68
5006 6000 1.086696 GATTAGCCGCTGAGTTTGCA 58.913 50.000 2.16 0.00 0.00 4.08
5007 6001 0.804989 ATTAGCCGCTGAGTTTGCAC 59.195 50.000 2.16 0.00 0.00 4.57
5008 6002 1.565156 TTAGCCGCTGAGTTTGCACG 61.565 55.000 2.16 0.00 0.00 5.34
5009 6003 4.389576 GCCGCTGAGTTTGCACGG 62.390 66.667 5.37 5.37 46.50 4.94
5010 6004 3.726517 CCGCTGAGTTTGCACGGG 61.727 66.667 1.93 0.00 40.18 5.28
5011 6005 3.726517 CGCTGAGTTTGCACGGGG 61.727 66.667 0.00 0.00 0.00 5.73
5012 6006 4.043200 GCTGAGTTTGCACGGGGC 62.043 66.667 0.00 0.00 45.13 5.80
5036 6030 7.919313 CGAAACGCCTAACTATGATTAGTAA 57.081 36.000 0.00 0.00 37.70 2.24
5037 6031 8.516811 CGAAACGCCTAACTATGATTAGTAAT 57.483 34.615 0.00 0.00 37.70 1.89
5038 6032 9.616634 CGAAACGCCTAACTATGATTAGTAATA 57.383 33.333 0.00 0.00 37.70 0.98
5042 6036 9.420551 ACGCCTAACTATGATTAGTAATAAAGC 57.579 33.333 0.00 0.00 37.70 3.51
5043 6037 8.870879 CGCCTAACTATGATTAGTAATAAAGCC 58.129 37.037 0.00 0.00 37.70 4.35
5044 6038 9.945904 GCCTAACTATGATTAGTAATAAAGCCT 57.054 33.333 0.00 0.00 37.70 4.58
5048 6042 9.853177 AACTATGATTAGTAATAAAGCCTTGCT 57.147 29.630 0.00 0.00 37.92 3.91
5049 6043 9.853177 ACTATGATTAGTAATAAAGCCTTGCTT 57.147 29.630 0.00 0.00 42.74 3.91
5085 6079 7.540474 AAAAACTAATTTTCCCTCTCTTCCC 57.460 36.000 0.00 0.00 36.49 3.97
5086 6080 5.860648 AACTAATTTTCCCTCTCTTCCCA 57.139 39.130 0.00 0.00 0.00 4.37
5087 6081 5.180810 ACTAATTTTCCCTCTCTTCCCAC 57.819 43.478 0.00 0.00 0.00 4.61
5088 6082 3.458044 AATTTTCCCTCTCTTCCCACC 57.542 47.619 0.00 0.00 0.00 4.61
5089 6083 1.073098 TTTTCCCTCTCTTCCCACCC 58.927 55.000 0.00 0.00 0.00 4.61
5090 6084 0.196118 TTTCCCTCTCTTCCCACCCT 59.804 55.000 0.00 0.00 0.00 4.34
5091 6085 0.252742 TTCCCTCTCTTCCCACCCTC 60.253 60.000 0.00 0.00 0.00 4.30
5092 6086 1.081092 CCCTCTCTTCCCACCCTCA 59.919 63.158 0.00 0.00 0.00 3.86
5093 6087 0.547712 CCCTCTCTTCCCACCCTCAA 60.548 60.000 0.00 0.00 0.00 3.02
5094 6088 0.615850 CCTCTCTTCCCACCCTCAAC 59.384 60.000 0.00 0.00 0.00 3.18
5095 6089 0.615850 CTCTCTTCCCACCCTCAACC 59.384 60.000 0.00 0.00 0.00 3.77
5096 6090 0.840722 TCTCTTCCCACCCTCAACCC 60.841 60.000 0.00 0.00 0.00 4.11
5097 6091 1.850755 TCTTCCCACCCTCAACCCC 60.851 63.158 0.00 0.00 0.00 4.95
5098 6092 2.861974 TTCCCACCCTCAACCCCC 60.862 66.667 0.00 0.00 0.00 5.40
5099 6093 3.452141 TTCCCACCCTCAACCCCCT 62.452 63.158 0.00 0.00 0.00 4.79
5100 6094 2.863988 CCCACCCTCAACCCCCTT 60.864 66.667 0.00 0.00 0.00 3.95
5101 6095 2.478803 CCCACCCTCAACCCCCTTT 61.479 63.158 0.00 0.00 0.00 3.11
5102 6096 1.076727 CCACCCTCAACCCCCTTTC 59.923 63.158 0.00 0.00 0.00 2.62
5103 6097 1.435346 CCACCCTCAACCCCCTTTCT 61.435 60.000 0.00 0.00 0.00 2.52
5104 6098 1.368374 CACCCTCAACCCCCTTTCTA 58.632 55.000 0.00 0.00 0.00 2.10
5105 6099 1.004394 CACCCTCAACCCCCTTTCTAC 59.996 57.143 0.00 0.00 0.00 2.59
5106 6100 1.368374 CCCTCAACCCCCTTTCTACA 58.632 55.000 0.00 0.00 0.00 2.74
5107 6101 1.708551 CCCTCAACCCCCTTTCTACAA 59.291 52.381 0.00 0.00 0.00 2.41
5108 6102 2.109304 CCCTCAACCCCCTTTCTACAAA 59.891 50.000 0.00 0.00 0.00 2.83
5109 6103 3.437344 CCCTCAACCCCCTTTCTACAAAA 60.437 47.826 0.00 0.00 0.00 2.44
5110 6104 4.219919 CCTCAACCCCCTTTCTACAAAAA 58.780 43.478 0.00 0.00 0.00 1.94
5130 6124 3.915437 AAGTTGTTGTTTGATAGGCGG 57.085 42.857 0.00 0.00 0.00 6.13
5131 6125 2.858745 AGTTGTTGTTTGATAGGCGGT 58.141 42.857 0.00 0.00 0.00 5.68
5132 6126 2.552315 AGTTGTTGTTTGATAGGCGGTG 59.448 45.455 0.00 0.00 0.00 4.94
5133 6127 1.529226 TGTTGTTTGATAGGCGGTGG 58.471 50.000 0.00 0.00 0.00 4.61
5134 6128 1.202830 TGTTGTTTGATAGGCGGTGGT 60.203 47.619 0.00 0.00 0.00 4.16
5135 6129 1.883926 GTTGTTTGATAGGCGGTGGTT 59.116 47.619 0.00 0.00 0.00 3.67
5136 6130 1.529226 TGTTTGATAGGCGGTGGTTG 58.471 50.000 0.00 0.00 0.00 3.77
5137 6131 0.170339 GTTTGATAGGCGGTGGTTGC 59.830 55.000 0.00 0.00 0.00 4.17
5138 6132 0.037590 TTTGATAGGCGGTGGTTGCT 59.962 50.000 0.00 0.00 0.00 3.91
5139 6133 0.906066 TTGATAGGCGGTGGTTGCTA 59.094 50.000 0.00 0.00 0.00 3.49
5140 6134 1.128200 TGATAGGCGGTGGTTGCTAT 58.872 50.000 0.00 0.00 0.00 2.97
5141 6135 2.321719 TGATAGGCGGTGGTTGCTATA 58.678 47.619 0.00 0.00 0.00 1.31
5142 6136 2.903784 TGATAGGCGGTGGTTGCTATAT 59.096 45.455 0.00 0.00 0.00 0.86
5143 6137 3.326588 TGATAGGCGGTGGTTGCTATATT 59.673 43.478 0.00 0.00 0.00 1.28
5144 6138 1.967319 AGGCGGTGGTTGCTATATTG 58.033 50.000 0.00 0.00 0.00 1.90
5145 6139 1.488812 AGGCGGTGGTTGCTATATTGA 59.511 47.619 0.00 0.00 0.00 2.57
5146 6140 1.873591 GGCGGTGGTTGCTATATTGAG 59.126 52.381 0.00 0.00 0.00 3.02
5147 6141 2.484770 GGCGGTGGTTGCTATATTGAGA 60.485 50.000 0.00 0.00 0.00 3.27
5148 6142 3.403038 GCGGTGGTTGCTATATTGAGAT 58.597 45.455 0.00 0.00 0.00 2.75
5149 6143 4.562757 GGCGGTGGTTGCTATATTGAGATA 60.563 45.833 0.00 0.00 0.00 1.98
5150 6144 4.994852 GCGGTGGTTGCTATATTGAGATAA 59.005 41.667 0.00 0.00 0.00 1.75
5151 6145 5.120830 GCGGTGGTTGCTATATTGAGATAAG 59.879 44.000 0.00 0.00 0.00 1.73
5152 6146 6.455647 CGGTGGTTGCTATATTGAGATAAGA 58.544 40.000 0.00 0.00 0.00 2.10
5153 6147 7.099764 CGGTGGTTGCTATATTGAGATAAGAT 58.900 38.462 0.00 0.00 0.00 2.40
5154 6148 7.063898 CGGTGGTTGCTATATTGAGATAAGATG 59.936 40.741 0.00 0.00 0.00 2.90
5155 6149 7.335422 GGTGGTTGCTATATTGAGATAAGATGG 59.665 40.741 0.00 0.00 0.00 3.51
5156 6150 7.880195 GTGGTTGCTATATTGAGATAAGATGGT 59.120 37.037 0.00 0.00 0.00 3.55
5157 6151 7.879677 TGGTTGCTATATTGAGATAAGATGGTG 59.120 37.037 0.00 0.00 0.00 4.17
5158 6152 7.148340 GGTTGCTATATTGAGATAAGATGGTGC 60.148 40.741 0.00 0.00 0.00 5.01
5159 6153 6.101997 TGCTATATTGAGATAAGATGGTGCG 58.898 40.000 0.00 0.00 0.00 5.34
5160 6154 6.071391 TGCTATATTGAGATAAGATGGTGCGA 60.071 38.462 0.00 0.00 0.00 5.10
5161 6155 6.813649 GCTATATTGAGATAAGATGGTGCGAA 59.186 38.462 0.00 0.00 0.00 4.70
5162 6156 7.493971 GCTATATTGAGATAAGATGGTGCGAAT 59.506 37.037 0.00 0.00 0.00 3.34
5164 6158 8.939201 ATATTGAGATAAGATGGTGCGAATAG 57.061 34.615 0.00 0.00 0.00 1.73
5189 6183 9.857957 AGCAGTACTACACTTAAAAATCTACTC 57.142 33.333 0.00 0.00 34.26 2.59
5190 6184 9.635520 GCAGTACTACACTTAAAAATCTACTCA 57.364 33.333 0.00 0.00 34.26 3.41
5223 6217 9.511144 GTATAATTTGCTACAAAACCCATACAC 57.489 33.333 0.00 0.00 0.00 2.90
5292 6286 2.273538 TAAGGCGTTAAAACCCAGCA 57.726 45.000 0.00 0.00 0.00 4.41
5301 6296 4.295870 GTTAAAACCCAGCAGTAAGTTGC 58.704 43.478 0.00 0.00 44.41 4.17
5312 6307 3.368531 GCAGTAAGTTGCAGGTAGCTAGT 60.369 47.826 0.00 0.00 45.94 2.57
5313 6308 4.142227 GCAGTAAGTTGCAGGTAGCTAGTA 60.142 45.833 0.00 0.00 45.94 1.82
5376 6371 0.464373 CTGGTTCAGCTGGTGTGTGT 60.464 55.000 15.13 0.00 0.00 3.72
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 1.254975 TGGGCTCGACTTCGGATTCA 61.255 55.000 0.00 0.00 40.29 2.57
11 12 0.955919 CAGGGTTTGGGCTCGACTTC 60.956 60.000 0.00 0.00 0.00 3.01
15 16 2.747686 GACAGGGTTTGGGCTCGA 59.252 61.111 0.00 0.00 0.00 4.04
81 82 2.835431 TTGGTGTTGGTTGGCGGG 60.835 61.111 0.00 0.00 0.00 6.13
370 578 2.370849 GGTACCTGAACCTGAAGAACCA 59.629 50.000 4.06 0.00 36.53 3.67
443 661 4.177026 CACAGATCTACCAGTGCTACAAC 58.823 47.826 0.00 0.00 0.00 3.32
454 676 0.905357 AGCCCACACACAGATCTACC 59.095 55.000 0.00 0.00 0.00 3.18
484 718 3.335356 AAGAGTCCCAGCCATGGCG 62.335 63.158 30.50 23.56 46.19 5.69
515 749 5.641209 AGAATGTGCTACTAGCTCACAAAAG 59.359 40.000 13.68 0.00 45.84 2.27
533 767 1.615424 ACCCACCGGCCTAGAATGT 60.615 57.895 0.00 0.00 0.00 2.71
534 768 1.153168 CACCCACCGGCCTAGAATG 60.153 63.158 0.00 0.00 0.00 2.67
549 783 2.389715 ACTGCTAGTCTATGACCCACC 58.610 52.381 0.00 0.00 32.18 4.61
556 790 4.615949 CCTGCTGTTACTGCTAGTCTATG 58.384 47.826 14.81 0.00 0.00 2.23
571 805 0.324183 TCTAGCTCTGAGCCTGCTGT 60.324 55.000 25.09 8.93 43.77 4.40
587 836 2.832129 ACGAATCCCTCAACAAGCTCTA 59.168 45.455 0.00 0.00 0.00 2.43
590 840 2.567615 AGTACGAATCCCTCAACAAGCT 59.432 45.455 0.00 0.00 0.00 3.74
609 860 9.903682 CTCAAATTTGTCATCAATCTTACAAGT 57.096 29.630 17.47 0.00 33.70 3.16
610 861 9.350357 CCTCAAATTTGTCATCAATCTTACAAG 57.650 33.333 17.47 2.33 33.70 3.16
613 864 6.753744 GCCCTCAAATTTGTCATCAATCTTAC 59.246 38.462 17.47 0.00 33.32 2.34
805 1493 9.676861 ACAGACACCATATTATGATATTCATGG 57.323 33.333 5.21 0.00 37.70 3.66
1028 1736 2.283529 GCGGGTCTTCTGAGGGTCA 61.284 63.158 0.00 0.00 0.00 4.02
1119 1827 4.081254 TCAATCATCTCAGTCTTGACAGGG 60.081 45.833 3.49 0.00 0.00 4.45
1154 1895 2.303022 TCTGAGGGTGAAGTTAAGGCAG 59.697 50.000 0.00 0.00 0.00 4.85
1228 2026 4.880696 AGTGCCAGATTCTTCAGAAATAGC 59.119 41.667 0.00 0.00 37.61 2.97
1369 2167 6.636562 AGATGATGCATCCATCTTTCTTTC 57.363 37.500 23.67 4.59 46.03 2.62
1407 2205 5.957842 TTGGTGATGTATCAACTGGTTTC 57.042 39.130 10.90 0.00 44.70 2.78
1501 2299 6.425114 TCTTGATCTACAGCTCTTGTTTCAAC 59.575 38.462 0.00 0.00 41.29 3.18
1600 2404 7.798596 AGTCATGTGGATTGATCTTCAATAC 57.201 36.000 5.65 5.65 46.20 1.89
1744 2552 1.674764 CGGCAGAGCAGATGTCCTCT 61.675 60.000 0.00 0.00 38.91 3.69
1758 2566 4.701956 ACTGTATTTTCCATTTCGGCAG 57.298 40.909 0.00 0.00 33.14 4.85
1790 2598 2.939103 GCACAACAGATAGATGGTCACC 59.061 50.000 0.00 0.00 0.00 4.02
1873 2681 5.335191 GGTGTCAGAAACATCCTGTTCAATC 60.335 44.000 0.00 0.00 40.14 2.67
2122 2930 7.702348 GGTTTTATGCTTTCTGATGTATTGACC 59.298 37.037 0.00 0.00 0.00 4.02
2413 3221 2.749076 CCCATCTTGAGCGTCAAAATGA 59.251 45.455 12.62 4.21 37.07 2.57
2467 3275 2.231964 ACAATTCCGCTGCACATGATTT 59.768 40.909 0.00 0.00 0.00 2.17
2600 3408 7.664731 ACTTAGCTGATTCATATCCTTTGATGG 59.335 37.037 0.00 0.00 32.18 3.51
2991 3800 3.324846 ACAAGCTGGTGACATAGTCTGAA 59.675 43.478 0.00 0.00 41.51 3.02
3196 4068 5.526111 TCTTAAGTTTGCTGTCTGTGGTTAC 59.474 40.000 1.63 0.00 0.00 2.50
3764 4647 5.950758 ACCGCAAATGTAAATCAACTGTA 57.049 34.783 0.00 0.00 0.00 2.74
3765 4648 4.846779 ACCGCAAATGTAAATCAACTGT 57.153 36.364 0.00 0.00 0.00 3.55
3766 4649 5.343058 CAGAACCGCAAATGTAAATCAACTG 59.657 40.000 0.00 0.00 0.00 3.16
3768 4651 5.457140 TCAGAACCGCAAATGTAAATCAAC 58.543 37.500 0.00 0.00 0.00 3.18
3862 4775 4.870426 CACTAATTAACGCACAGACAGGAT 59.130 41.667 0.00 0.00 0.00 3.24
3875 4788 8.549338 AAGAAGGTAGACTTGCACTAATTAAC 57.451 34.615 0.00 0.00 40.21 2.01
3913 4826 3.008704 GGTAAGCCTAAACAAGTCCCTCA 59.991 47.826 0.00 0.00 0.00 3.86
3915 4828 2.983898 TGGTAAGCCTAAACAAGTCCCT 59.016 45.455 0.00 0.00 35.27 4.20
3990 4924 4.168101 TGACCAGATTAGAGTTGGGAAGT 58.832 43.478 0.00 0.00 36.28 3.01
4362 5324 2.157640 AGGAGAGGTCTGTCCATCAG 57.842 55.000 15.24 0.00 44.75 2.90
4502 5473 1.792026 AGGGCCATCCATCTCTCTCTA 59.208 52.381 6.18 0.00 38.24 2.43
4595 5572 8.486210 ACATGGACTCTAAGCATCTAAACATAA 58.514 33.333 0.00 0.00 0.00 1.90
4596 5573 7.928167 CACATGGACTCTAAGCATCTAAACATA 59.072 37.037 0.00 0.00 0.00 2.29
4597 5574 6.765036 CACATGGACTCTAAGCATCTAAACAT 59.235 38.462 0.00 0.00 0.00 2.71
4623 5600 2.550180 GGAACAGTTTCAGAAGCCACTC 59.450 50.000 0.00 0.00 32.80 3.51
4706 5683 8.632679 ACAATCAGTTGTACAATCAAATCAACT 58.367 29.630 12.26 0.00 46.37 3.16
4737 5714 1.616725 GGAATCCACAAGCCCACATCA 60.617 52.381 0.00 0.00 0.00 3.07
4758 5735 8.682936 AGATATTTAGTCATGGCTAAAACAGG 57.317 34.615 30.44 0.00 42.15 4.00
4888 5882 5.163343 TGCACAACCCTTAGACTATGGATAC 60.163 44.000 14.56 1.24 0.00 2.24
4985 5979 1.063174 GCAAACTCAGCGGCTAATCAG 59.937 52.381 0.26 0.00 0.00 2.90
4986 5980 1.086696 GCAAACTCAGCGGCTAATCA 58.913 50.000 0.26 0.00 0.00 2.57
4987 5981 1.086696 TGCAAACTCAGCGGCTAATC 58.913 50.000 0.26 0.00 33.85 1.75
4988 5982 0.804989 GTGCAAACTCAGCGGCTAAT 59.195 50.000 0.26 0.00 33.85 1.73
4989 5983 1.565156 CGTGCAAACTCAGCGGCTAA 61.565 55.000 0.26 0.00 33.85 3.09
4990 5984 2.027073 CGTGCAAACTCAGCGGCTA 61.027 57.895 0.26 0.00 33.85 3.93
4991 5985 3.349006 CGTGCAAACTCAGCGGCT 61.349 61.111 0.00 0.00 33.85 5.52
4992 5986 4.389576 CCGTGCAAACTCAGCGGC 62.390 66.667 0.00 0.00 35.90 6.53
4993 5987 3.726517 CCCGTGCAAACTCAGCGG 61.727 66.667 2.86 2.86 41.82 5.52
4994 5988 3.726517 CCCCGTGCAAACTCAGCG 61.727 66.667 0.00 0.00 33.85 5.18
4995 5989 4.043200 GCCCCGTGCAAACTCAGC 62.043 66.667 0.00 0.00 40.77 4.26
4996 5990 3.726517 CGCCCCGTGCAAACTCAG 61.727 66.667 0.00 0.00 41.33 3.35
4997 5991 3.758973 TTCGCCCCGTGCAAACTCA 62.759 57.895 0.00 0.00 41.33 3.41
4998 5992 2.548295 TTTCGCCCCGTGCAAACTC 61.548 57.895 0.00 0.00 41.33 3.01
4999 5993 2.517402 TTTCGCCCCGTGCAAACT 60.517 55.556 0.00 0.00 41.33 2.66
5000 5994 2.354188 GTTTCGCCCCGTGCAAAC 60.354 61.111 0.00 2.11 41.33 2.93
5001 5995 3.955101 CGTTTCGCCCCGTGCAAA 61.955 61.111 0.00 0.00 41.33 3.68
5011 6005 4.743644 ACTAATCATAGTTAGGCGTTTCGC 59.256 41.667 5.55 5.55 45.12 4.70
5012 6006 7.919313 TTACTAATCATAGTTAGGCGTTTCG 57.081 36.000 0.00 0.00 42.39 3.46
5016 6010 9.420551 GCTTTATTACTAATCATAGTTAGGCGT 57.579 33.333 0.00 0.00 42.39 5.68
5017 6011 8.870879 GGCTTTATTACTAATCATAGTTAGGCG 58.129 37.037 0.00 0.00 42.39 5.52
5018 6012 9.945904 AGGCTTTATTACTAATCATAGTTAGGC 57.054 33.333 0.00 0.00 42.39 3.93
5022 6016 9.853177 AGCAAGGCTTTATTACTAATCATAGTT 57.147 29.630 0.00 0.00 38.43 2.24
5061 6055 7.015292 GTGGGAAGAGAGGGAAAATTAGTTTTT 59.985 37.037 0.00 0.00 40.25 1.94
5062 6056 6.493802 GTGGGAAGAGAGGGAAAATTAGTTTT 59.506 38.462 0.00 0.00 40.13 2.43
5063 6057 6.010850 GTGGGAAGAGAGGGAAAATTAGTTT 58.989 40.000 0.00 0.00 0.00 2.66
5064 6058 5.516768 GGTGGGAAGAGAGGGAAAATTAGTT 60.517 44.000 0.00 0.00 0.00 2.24
5065 6059 4.018324 GGTGGGAAGAGAGGGAAAATTAGT 60.018 45.833 0.00 0.00 0.00 2.24
5066 6060 4.527944 GGTGGGAAGAGAGGGAAAATTAG 58.472 47.826 0.00 0.00 0.00 1.73
5067 6061 3.268595 GGGTGGGAAGAGAGGGAAAATTA 59.731 47.826 0.00 0.00 0.00 1.40
5068 6062 2.043115 GGGTGGGAAGAGAGGGAAAATT 59.957 50.000 0.00 0.00 0.00 1.82
5069 6063 1.641192 GGGTGGGAAGAGAGGGAAAAT 59.359 52.381 0.00 0.00 0.00 1.82
5070 6064 1.073098 GGGTGGGAAGAGAGGGAAAA 58.927 55.000 0.00 0.00 0.00 2.29
5071 6065 0.196118 AGGGTGGGAAGAGAGGGAAA 59.804 55.000 0.00 0.00 0.00 3.13
5072 6066 0.252742 GAGGGTGGGAAGAGAGGGAA 60.253 60.000 0.00 0.00 0.00 3.97
5073 6067 1.392534 GAGGGTGGGAAGAGAGGGA 59.607 63.158 0.00 0.00 0.00 4.20
5074 6068 0.547712 TTGAGGGTGGGAAGAGAGGG 60.548 60.000 0.00 0.00 0.00 4.30
5075 6069 0.615850 GTTGAGGGTGGGAAGAGAGG 59.384 60.000 0.00 0.00 0.00 3.69
5076 6070 0.615850 GGTTGAGGGTGGGAAGAGAG 59.384 60.000 0.00 0.00 0.00 3.20
5077 6071 0.840722 GGGTTGAGGGTGGGAAGAGA 60.841 60.000 0.00 0.00 0.00 3.10
5078 6072 1.685820 GGGTTGAGGGTGGGAAGAG 59.314 63.158 0.00 0.00 0.00 2.85
5079 6073 1.850755 GGGGTTGAGGGTGGGAAGA 60.851 63.158 0.00 0.00 0.00 2.87
5080 6074 2.763902 GGGGTTGAGGGTGGGAAG 59.236 66.667 0.00 0.00 0.00 3.46
5081 6075 2.861974 GGGGGTTGAGGGTGGGAA 60.862 66.667 0.00 0.00 0.00 3.97
5082 6076 2.962825 AAAGGGGGTTGAGGGTGGGA 62.963 60.000 0.00 0.00 0.00 4.37
5083 6077 2.441035 GAAAGGGGGTTGAGGGTGGG 62.441 65.000 0.00 0.00 0.00 4.61
5084 6078 1.076727 GAAAGGGGGTTGAGGGTGG 59.923 63.158 0.00 0.00 0.00 4.61
5085 6079 1.004394 GTAGAAAGGGGGTTGAGGGTG 59.996 57.143 0.00 0.00 0.00 4.61
5086 6080 1.369403 GTAGAAAGGGGGTTGAGGGT 58.631 55.000 0.00 0.00 0.00 4.34
5087 6081 1.368374 TGTAGAAAGGGGGTTGAGGG 58.632 55.000 0.00 0.00 0.00 4.30
5088 6082 3.518992 TTTGTAGAAAGGGGGTTGAGG 57.481 47.619 0.00 0.00 0.00 3.86
5107 6101 5.047188 CCGCCTATCAAACAACAACTTTTT 58.953 37.500 0.00 0.00 0.00 1.94
5108 6102 4.098807 ACCGCCTATCAAACAACAACTTTT 59.901 37.500 0.00 0.00 0.00 2.27
5109 6103 3.634910 ACCGCCTATCAAACAACAACTTT 59.365 39.130 0.00 0.00 0.00 2.66
5110 6104 3.004315 CACCGCCTATCAAACAACAACTT 59.996 43.478 0.00 0.00 0.00 2.66
5111 6105 2.552315 CACCGCCTATCAAACAACAACT 59.448 45.455 0.00 0.00 0.00 3.16
5112 6106 2.351350 CCACCGCCTATCAAACAACAAC 60.351 50.000 0.00 0.00 0.00 3.32
5113 6107 1.883275 CCACCGCCTATCAAACAACAA 59.117 47.619 0.00 0.00 0.00 2.83
5114 6108 1.202830 ACCACCGCCTATCAAACAACA 60.203 47.619 0.00 0.00 0.00 3.33
5115 6109 1.530323 ACCACCGCCTATCAAACAAC 58.470 50.000 0.00 0.00 0.00 3.32
5116 6110 1.883275 CAACCACCGCCTATCAAACAA 59.117 47.619 0.00 0.00 0.00 2.83
5117 6111 1.529226 CAACCACCGCCTATCAAACA 58.471 50.000 0.00 0.00 0.00 2.83
5118 6112 0.170339 GCAACCACCGCCTATCAAAC 59.830 55.000 0.00 0.00 0.00 2.93
5119 6113 0.037590 AGCAACCACCGCCTATCAAA 59.962 50.000 0.00 0.00 0.00 2.69
5120 6114 0.906066 TAGCAACCACCGCCTATCAA 59.094 50.000 0.00 0.00 0.00 2.57
5121 6115 1.128200 ATAGCAACCACCGCCTATCA 58.872 50.000 0.00 0.00 0.00 2.15
5122 6116 3.611766 ATATAGCAACCACCGCCTATC 57.388 47.619 0.00 0.00 0.00 2.08
5123 6117 3.326588 TCAATATAGCAACCACCGCCTAT 59.673 43.478 0.00 0.00 0.00 2.57
5124 6118 2.701423 TCAATATAGCAACCACCGCCTA 59.299 45.455 0.00 0.00 0.00 3.93
5125 6119 1.488812 TCAATATAGCAACCACCGCCT 59.511 47.619 0.00 0.00 0.00 5.52
5126 6120 1.873591 CTCAATATAGCAACCACCGCC 59.126 52.381 0.00 0.00 0.00 6.13
5127 6121 2.833794 TCTCAATATAGCAACCACCGC 58.166 47.619 0.00 0.00 0.00 5.68
5128 6122 6.455647 TCTTATCTCAATATAGCAACCACCG 58.544 40.000 0.00 0.00 0.00 4.94
5129 6123 7.335422 CCATCTTATCTCAATATAGCAACCACC 59.665 40.741 0.00 0.00 0.00 4.61
5130 6124 7.880195 ACCATCTTATCTCAATATAGCAACCAC 59.120 37.037 0.00 0.00 0.00 4.16
5131 6125 7.879677 CACCATCTTATCTCAATATAGCAACCA 59.120 37.037 0.00 0.00 0.00 3.67
5132 6126 7.148340 GCACCATCTTATCTCAATATAGCAACC 60.148 40.741 0.00 0.00 0.00 3.77
5133 6127 7.412346 CGCACCATCTTATCTCAATATAGCAAC 60.412 40.741 0.00 0.00 0.00 4.17
5134 6128 6.591448 CGCACCATCTTATCTCAATATAGCAA 59.409 38.462 0.00 0.00 0.00 3.91
5135 6129 6.071391 TCGCACCATCTTATCTCAATATAGCA 60.071 38.462 0.00 0.00 0.00 3.49
5136 6130 6.333416 TCGCACCATCTTATCTCAATATAGC 58.667 40.000 0.00 0.00 0.00 2.97
5137 6131 8.939201 ATTCGCACCATCTTATCTCAATATAG 57.061 34.615 0.00 0.00 0.00 1.31
5139 6133 7.493971 GCTATTCGCACCATCTTATCTCAATAT 59.506 37.037 0.00 0.00 38.92 1.28
5140 6134 6.813649 GCTATTCGCACCATCTTATCTCAATA 59.186 38.462 0.00 0.00 38.92 1.90
5141 6135 5.641209 GCTATTCGCACCATCTTATCTCAAT 59.359 40.000 0.00 0.00 38.92 2.57
5142 6136 4.991056 GCTATTCGCACCATCTTATCTCAA 59.009 41.667 0.00 0.00 38.92 3.02
5143 6137 4.039124 TGCTATTCGCACCATCTTATCTCA 59.961 41.667 0.00 0.00 45.47 3.27
5144 6138 4.560128 TGCTATTCGCACCATCTTATCTC 58.440 43.478 0.00 0.00 45.47 2.75
5145 6139 4.039730 ACTGCTATTCGCACCATCTTATCT 59.960 41.667 0.00 0.00 45.47 1.98
5146 6140 4.310769 ACTGCTATTCGCACCATCTTATC 58.689 43.478 0.00 0.00 45.47 1.75
5147 6141 4.342862 ACTGCTATTCGCACCATCTTAT 57.657 40.909 0.00 0.00 45.47 1.73
5148 6142 3.819564 ACTGCTATTCGCACCATCTTA 57.180 42.857 0.00 0.00 45.47 2.10
5149 6143 2.698855 ACTGCTATTCGCACCATCTT 57.301 45.000 0.00 0.00 45.47 2.40
5150 6144 2.695666 AGTACTGCTATTCGCACCATCT 59.304 45.455 0.00 0.00 45.47 2.90
5151 6145 3.099267 AGTACTGCTATTCGCACCATC 57.901 47.619 0.00 0.00 45.47 3.51
5152 6146 3.383505 TGTAGTACTGCTATTCGCACCAT 59.616 43.478 12.42 0.00 45.47 3.55
5153 6147 2.756207 TGTAGTACTGCTATTCGCACCA 59.244 45.455 12.42 0.00 45.47 4.17
5154 6148 3.114065 GTGTAGTACTGCTATTCGCACC 58.886 50.000 12.42 0.00 45.47 5.01
5155 6149 4.030134 AGTGTAGTACTGCTATTCGCAC 57.970 45.455 12.42 0.26 45.47 5.34
5157 6151 7.515957 TTTTAAGTGTAGTACTGCTATTCGC 57.484 36.000 12.42 0.26 40.26 4.70
5163 6157 9.857957 GAGTAGATTTTTAAGTGTAGTACTGCT 57.142 33.333 12.42 1.90 40.26 4.24
5164 6158 9.635520 TGAGTAGATTTTTAAGTGTAGTACTGC 57.364 33.333 5.39 4.49 40.26 4.40
5196 6190 9.469097 TGTATGGGTTTTGTAGCAAATTATACT 57.531 29.630 0.00 0.00 0.00 2.12
5197 6191 9.511144 GTGTATGGGTTTTGTAGCAAATTATAC 57.489 33.333 0.00 0.00 0.00 1.47
5198 6192 9.244292 TGTGTATGGGTTTTGTAGCAAATTATA 57.756 29.630 0.00 0.00 0.00 0.98
5199 6193 8.128322 TGTGTATGGGTTTTGTAGCAAATTAT 57.872 30.769 0.00 0.00 0.00 1.28
5200 6194 7.526142 TGTGTATGGGTTTTGTAGCAAATTA 57.474 32.000 0.00 0.00 0.00 1.40
5201 6195 6.412362 TGTGTATGGGTTTTGTAGCAAATT 57.588 33.333 0.00 0.00 0.00 1.82
5202 6196 6.266558 TCTTGTGTATGGGTTTTGTAGCAAAT 59.733 34.615 0.00 0.00 0.00 2.32
5203 6197 5.594725 TCTTGTGTATGGGTTTTGTAGCAAA 59.405 36.000 0.00 0.00 0.00 3.68
5204 6198 5.009210 GTCTTGTGTATGGGTTTTGTAGCAA 59.991 40.000 0.00 0.00 0.00 3.91
5205 6199 4.517453 GTCTTGTGTATGGGTTTTGTAGCA 59.483 41.667 0.00 0.00 0.00 3.49
5206 6200 4.082949 GGTCTTGTGTATGGGTTTTGTAGC 60.083 45.833 0.00 0.00 0.00 3.58
5207 6201 4.457949 GGGTCTTGTGTATGGGTTTTGTAG 59.542 45.833 0.00 0.00 0.00 2.74
5208 6202 4.105057 AGGGTCTTGTGTATGGGTTTTGTA 59.895 41.667 0.00 0.00 0.00 2.41
5209 6203 3.117284 AGGGTCTTGTGTATGGGTTTTGT 60.117 43.478 0.00 0.00 0.00 2.83
5210 6204 3.255642 CAGGGTCTTGTGTATGGGTTTTG 59.744 47.826 0.00 0.00 0.00 2.44
5211 6205 3.496331 CAGGGTCTTGTGTATGGGTTTT 58.504 45.455 0.00 0.00 0.00 2.43
5212 6206 2.817839 GCAGGGTCTTGTGTATGGGTTT 60.818 50.000 0.00 0.00 0.00 3.27
5213 6207 1.271926 GCAGGGTCTTGTGTATGGGTT 60.272 52.381 0.00 0.00 0.00 4.11
5214 6208 0.328258 GCAGGGTCTTGTGTATGGGT 59.672 55.000 0.00 0.00 0.00 4.51
5215 6209 0.327924 TGCAGGGTCTTGTGTATGGG 59.672 55.000 0.00 0.00 0.00 4.00
5216 6210 2.425143 ATGCAGGGTCTTGTGTATGG 57.575 50.000 0.00 0.00 0.00 2.74
5217 6211 3.119388 CCAAATGCAGGGTCTTGTGTATG 60.119 47.826 0.00 0.00 0.00 2.39
5218 6212 3.091545 CCAAATGCAGGGTCTTGTGTAT 58.908 45.455 0.00 0.00 0.00 2.29
5219 6213 2.513753 CCAAATGCAGGGTCTTGTGTA 58.486 47.619 0.00 0.00 0.00 2.90
5220 6214 1.331214 CCAAATGCAGGGTCTTGTGT 58.669 50.000 0.00 0.00 0.00 3.72
5246 6240 6.215431 TCATCCCAGGAATCTTTTGAGAGTAA 59.785 38.462 0.00 0.00 0.00 2.24
5292 6286 6.832384 TGTATACTAGCTACCTGCAACTTACT 59.168 38.462 4.17 0.00 45.94 2.24
5301 6296 9.765795 ATTTAAGCTTTGTATACTAGCTACCTG 57.234 33.333 24.05 0.00 44.05 4.00
5376 6371 1.071542 TGAAAGCGATGACCCAAGTGA 59.928 47.619 0.00 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.