Multiple sequence alignment - TraesCS6A01G301400

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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 TraesCS6A01G301400 chr6A 100.000 5212 0 0 1 5212 534939813 534945024 0.000000e+00 9625.0
1 TraesCS6A01G301400 chr6D 93.036 2757 94 46 846 3541 388229158 388231877 0.000000e+00 3938.0
2 TraesCS6A01G301400 chr6D 91.467 1254 53 24 3593 4817 388231891 388233119 0.000000e+00 1674.0
3 TraesCS6A01G301400 chr6D 89.105 257 18 7 4876 5129 388233126 388233375 1.410000e-80 311.0
4 TraesCS6A01G301400 chr6D 80.905 199 20 6 663 843 388226440 388226638 1.960000e-29 141.0
5 TraesCS6A01G301400 chr6B 90.077 2328 136 44 2921 5202 580088234 580090512 0.000000e+00 2931.0
6 TraesCS6A01G301400 chr6B 91.486 1656 73 24 645 2252 580085811 580087446 0.000000e+00 2215.0
7 TraesCS6A01G301400 chr6B 90.941 563 36 10 2315 2863 580087464 580088025 0.000000e+00 743.0
8 TraesCS6A01G301400 chr6B 86.533 646 68 12 1 636 580083956 580084592 0.000000e+00 693.0
9 TraesCS6A01G301400 chr4D 81.384 419 62 14 280 689 475921355 475920944 1.400000e-85 327.0
10 TraesCS6A01G301400 chr3B 79.518 415 72 12 282 688 93899766 93899357 3.070000e-72 283.0
11 TraesCS6A01G301400 chr3D 80.556 360 56 12 282 634 58598000 58597648 1.110000e-66 265.0
12 TraesCS6A01G301400 chr3D 75.610 205 34 8 1492 1696 19206580 19206392 2.590000e-13 87.9
13 TraesCS6A01G301400 chr7B 81.287 171 16 6 1525 1694 613569361 613569206 1.970000e-24 124.0
14 TraesCS6A01G301400 chr1A 76.210 248 35 14 282 521 29612529 29612760 5.520000e-20 110.0
15 TraesCS6A01G301400 chr1D 73.731 335 59 24 320 645 28506091 28506405 2.570000e-18 104.0


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 TraesCS6A01G301400 chr6A 534939813 534945024 5211 False 9625.0 9625 100.00000 1 5212 1 chr6A.!!$F1 5211
1 TraesCS6A01G301400 chr6D 388226440 388233375 6935 False 1516.0 3938 88.62825 663 5129 4 chr6D.!!$F1 4466
2 TraesCS6A01G301400 chr6B 580083956 580090512 6556 False 1645.5 2931 89.75925 1 5202 4 chr6B.!!$F1 5201

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
165 167 0.036765 CGGTTCATCAAGTCCCCGAA 60.037 55.000 0.00 0.00 37.66 4.30 F
212 214 0.788391 GGTTTGTAGGCTTGTCGACG 59.212 55.000 11.62 0.00 0.00 5.12 F
782 2018 1.227943 GCCTCTTGTGTGTGCAGGA 60.228 57.895 0.00 0.00 0.00 3.86 F
2084 5867 0.165944 AGGTACGTACGTTCGTTCGG 59.834 55.000 27.92 9.57 43.80 4.30 F
2587 6408 0.178978 GGGCCTGGATTCCTTGATCC 60.179 60.000 0.84 0.00 44.83 3.36 F
2924 6916 0.956633 TTCTCAGTTACTCGCACGGT 59.043 50.000 0.00 0.00 0.00 4.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1518 5301 1.809619 CATGCCGGTGTACTCCACG 60.810 63.158 14.09 4.50 45.52 4.94 R
1734 5517 4.078516 GCGTACCCGTTGCTCCCT 62.079 66.667 0.00 0.00 36.15 4.20 R
2663 6485 0.250727 TTGAGGAGGGAGGTTTTGCG 60.251 55.000 0.00 0.00 0.00 4.85 R
3342 7343 0.034059 GCCATCACCTGTCGGATAGG 59.966 60.000 18.13 18.13 41.22 2.57 R
3442 7443 0.666577 GAACTTGGTGGACTCGTCGG 60.667 60.000 0.00 0.00 0.00 4.79 R
4843 8896 0.169009 GGAGTCGCTTTGTTCATGCC 59.831 55.000 0.00 0.00 0.00 4.40 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
21 22 2.490148 TAGGGATGCAGAGCGGACG 61.490 63.158 0.00 0.00 0.00 4.79
25 26 4.148825 ATGCAGAGCGGACGGGTC 62.149 66.667 4.17 4.17 43.56 4.46
53 54 5.116882 GGCTACAACCTAGTACAAATCCAG 58.883 45.833 0.00 0.00 0.00 3.86
68 70 4.640789 AATCCAGCTCTAGTTAGTGTCG 57.359 45.455 0.00 0.00 0.00 4.35
74 76 5.504994 CCAGCTCTAGTTAGTGTCGATCTTC 60.505 48.000 0.00 0.00 0.00 2.87
77 79 3.875727 TCTAGTTAGTGTCGATCTTCCGG 59.124 47.826 0.00 0.00 0.00 5.14
84 86 0.806492 GTCGATCTTCCGGCCAGAAC 60.806 60.000 2.24 4.35 0.00 3.01
123 125 5.453339 GCTTGCATCCCTAGTGTCAAGTATA 60.453 44.000 12.83 0.00 35.30 1.47
137 139 5.071250 TGTCAAGTATAGTGAGTTGGGTGTT 59.929 40.000 0.00 0.00 31.72 3.32
141 143 7.876068 TCAAGTATAGTGAGTTGGGTGTTAAAG 59.124 37.037 0.00 0.00 31.72 1.85
144 146 4.772886 AGTGAGTTGGGTGTTAAAGTCT 57.227 40.909 0.00 0.00 0.00 3.24
146 148 5.123936 AGTGAGTTGGGTGTTAAAGTCTTC 58.876 41.667 0.00 0.00 0.00 2.87
152 154 3.118334 TGGGTGTTAAAGTCTTCGGTTCA 60.118 43.478 0.00 0.00 0.00 3.18
155 157 4.753107 GGTGTTAAAGTCTTCGGTTCATCA 59.247 41.667 0.00 0.00 0.00 3.07
159 161 6.202188 TGTTAAAGTCTTCGGTTCATCAAGTC 59.798 38.462 0.00 0.00 0.00 3.01
164 166 0.901114 TCGGTTCATCAAGTCCCCGA 60.901 55.000 0.00 0.00 41.73 5.14
165 167 0.036765 CGGTTCATCAAGTCCCCGAA 60.037 55.000 0.00 0.00 37.66 4.30
170 172 2.257207 TCATCAAGTCCCCGAACTCTT 58.743 47.619 0.00 0.00 0.00 2.85
171 173 3.437213 TCATCAAGTCCCCGAACTCTTA 58.563 45.455 0.00 0.00 0.00 2.10
172 174 4.030913 TCATCAAGTCCCCGAACTCTTAT 58.969 43.478 0.00 0.00 0.00 1.73
175 177 2.140839 AGTCCCCGAACTCTTATCGT 57.859 50.000 0.00 0.00 38.60 3.73
182 184 3.314553 CCGAACTCTTATCGTTGTGTGT 58.685 45.455 0.00 0.00 38.60 3.72
185 187 3.106242 ACTCTTATCGTTGTGTGTGCA 57.894 42.857 0.00 0.00 0.00 4.57
193 195 1.762419 GTTGTGTGTGCATTGCTGAG 58.238 50.000 10.49 0.00 0.00 3.35
198 200 1.067364 TGTGTGCATTGCTGAGGTTTG 59.933 47.619 10.49 0.00 0.00 2.93
205 207 2.656947 TTGCTGAGGTTTGTAGGCTT 57.343 45.000 0.00 0.00 0.00 4.35
208 210 1.807142 GCTGAGGTTTGTAGGCTTGTC 59.193 52.381 0.00 0.00 0.00 3.18
212 214 0.788391 GGTTTGTAGGCTTGTCGACG 59.212 55.000 11.62 0.00 0.00 5.12
276 278 8.560374 GCCTTCCACACTATAGTCAATATTTTC 58.440 37.037 1.26 0.00 0.00 2.29
331 333 8.778059 TGTAGATGAACCCCATAAACTATTTCT 58.222 33.333 0.00 0.00 35.17 2.52
333 335 7.062957 AGATGAACCCCATAAACTATTTCTGG 58.937 38.462 0.00 0.00 36.84 3.86
372 376 8.159344 AGTTCAGGAAAGAGTTAACAATCTTG 57.841 34.615 8.61 6.98 35.95 3.02
374 378 6.003950 TCAGGAAAGAGTTAACAATCTTGGG 58.996 40.000 8.61 1.38 35.95 4.12
382 386 8.306313 AGAGTTAACAATCTTGGGAACTTTTT 57.694 30.769 8.61 2.25 37.35 1.94
383 387 8.414003 AGAGTTAACAATCTTGGGAACTTTTTC 58.586 33.333 8.61 0.00 37.35 2.29
384 388 8.073467 AGTTAACAATCTTGGGAACTTTTTCA 57.927 30.769 8.61 0.00 35.19 2.69
392 396 7.181569 TCTTGGGAACTTTTTCAGAACAAAT 57.818 32.000 0.00 0.00 32.80 2.32
411 415 5.163513 CAAATTTGACATGTTGGCCTACTC 58.836 41.667 18.31 8.33 0.00 2.59
413 417 3.719268 TTGACATGTTGGCCTACTCAT 57.281 42.857 18.31 7.65 0.00 2.90
489 495 6.471233 TTGTCCAGGACAATATAGAGTGAG 57.529 41.667 28.47 0.00 45.88 3.51
508 514 9.635404 AGAGTGAGTATTAGCTCTAATAGTGTT 57.365 33.333 17.23 6.67 40.10 3.32
509 515 9.672086 GAGTGAGTATTAGCTCTAATAGTGTTG 57.328 37.037 17.23 0.00 40.10 3.33
510 516 9.409918 AGTGAGTATTAGCTCTAATAGTGTTGA 57.590 33.333 17.23 2.10 40.10 3.18
553 559 9.787532 ACCAATAGTACAATGAATTTCATTTCG 57.212 29.630 19.55 13.03 44.03 3.46
559 565 4.526262 ACAATGAATTTCATTTCGTCCCCA 59.474 37.500 19.55 0.00 44.03 4.96
562 568 5.537300 TGAATTTCATTTCGTCCCCAAAA 57.463 34.783 0.00 0.00 0.00 2.44
563 569 5.918608 TGAATTTCATTTCGTCCCCAAAAA 58.081 33.333 0.00 0.00 0.00 1.94
588 594 8.649810 AATTTACGCAAGAGTAACGTTTTATG 57.350 30.769 5.91 0.51 40.99 1.90
592 598 5.693104 ACGCAAGAGTAACGTTTTATGAAGA 59.307 36.000 5.91 0.00 36.46 2.87
597 603 9.878599 CAAGAGTAACGTTTTATGAAGATTGTT 57.121 29.630 5.91 0.00 0.00 2.83
598 604 9.878599 AAGAGTAACGTTTTATGAAGATTGTTG 57.121 29.630 5.91 0.00 0.00 3.33
617 623 6.301687 TGTTGCCAACAAATTTCATGATTG 57.698 33.333 8.02 0.58 38.72 2.67
618 624 5.148568 GTTGCCAACAAATTTCATGATTGC 58.851 37.500 1.91 1.38 37.58 3.56
625 631 7.254829 CCAACAAATTTCATGATTGCTTTGACA 60.255 33.333 18.68 0.00 0.00 3.58
626 632 7.972832 ACAAATTTCATGATTGCTTTGACAT 57.027 28.000 18.68 0.00 0.00 3.06
746 1978 9.430838 CTCATATAACATTCTCTTTTCGCAAAG 57.569 33.333 0.69 0.69 40.91 2.77
782 2018 1.227943 GCCTCTTGTGTGTGCAGGA 60.228 57.895 0.00 0.00 0.00 3.86
830 2066 3.335183 TCCTCTCCCTCTCTTTCTCTTCA 59.665 47.826 0.00 0.00 0.00 3.02
843 2079 9.224267 TCTCTTTCTCTTCACTATTTTCCATTG 57.776 33.333 0.00 0.00 0.00 2.82
887 4640 6.976349 TGCTTATATGAAACAGGTGTAGTACG 59.024 38.462 0.00 0.00 0.00 3.67
954 4707 2.186903 CCCACGAGATGAACCCCG 59.813 66.667 0.00 0.00 0.00 5.73
1466 5246 2.357034 GTCGGGCGACAAGAGCAA 60.357 61.111 0.00 0.00 44.02 3.91
1693 5476 2.046023 TGGATCGCAGCACCAAGG 60.046 61.111 0.00 0.00 30.91 3.61
1694 5477 3.512516 GGATCGCAGCACCAAGGC 61.513 66.667 0.00 0.00 0.00 4.35
1911 5694 1.000283 CTCTACGACCAGGCCATCATC 60.000 57.143 5.01 0.00 0.00 2.92
2084 5867 0.165944 AGGTACGTACGTTCGTTCGG 59.834 55.000 27.92 9.57 43.80 4.30
2200 6004 3.945285 CTCCCGTAATTTGCCATAACTGT 59.055 43.478 0.00 0.00 0.00 3.55
2224 6028 5.525012 TCATCAAATGGTGACTTGATCGATC 59.475 40.000 18.72 18.72 39.66 3.69
2259 6067 4.062293 TCTACAGAAATTTCACCGTGGTG 58.938 43.478 19.99 12.91 46.64 4.17
2263 6071 0.757188 AAATTTCACCGTGGTGGCCA 60.757 50.000 18.47 0.00 45.43 5.36
2271 6079 1.580942 CGTGGTGGCCAATTGACTG 59.419 57.895 7.24 0.00 34.18 3.51
2274 6082 1.000274 GTGGTGGCCAATTGACTGAAC 60.000 52.381 7.24 0.00 34.18 3.18
2279 6087 4.009675 GTGGCCAATTGACTGAACTGATA 58.990 43.478 7.24 0.00 0.00 2.15
2480 6288 1.875262 CGTGGCTGCTTTGCATACA 59.125 52.632 0.00 0.00 38.13 2.29
2490 6298 5.347012 TGCTTTGCATACACATATCATCG 57.653 39.130 0.00 0.00 31.71 3.84
2492 6300 4.715896 CTTTGCATACACATATCATCGGC 58.284 43.478 0.00 0.00 0.00 5.54
2587 6408 0.178978 GGGCCTGGATTCCTTGATCC 60.179 60.000 0.84 0.00 44.83 3.36
2611 6432 5.401033 CAGTCTACATGTGCTGCTTAATC 57.599 43.478 9.11 0.00 0.00 1.75
2663 6485 9.209175 CTGGTTTATTTATCAGGTCTAGCATAC 57.791 37.037 0.00 0.00 0.00 2.39
2691 6513 2.170187 CCTCCCTCCTCAAATCACTCTG 59.830 54.545 0.00 0.00 0.00 3.35
2693 6515 1.211457 CCCTCCTCAAATCACTCTGGG 59.789 57.143 0.00 0.00 0.00 4.45
2817 6641 8.635765 TTCTAGTTAAAACCTTGCAAGATGAT 57.364 30.769 28.05 13.09 0.00 2.45
2826 6650 9.466497 AAAACCTTGCAAGATGATAGAGAATAA 57.534 29.630 28.05 0.00 0.00 1.40
2872 6696 2.094026 CACTGCACTCTACCATGCTACA 60.094 50.000 0.00 0.00 42.55 2.74
2924 6916 0.956633 TTCTCAGTTACTCGCACGGT 59.043 50.000 0.00 0.00 0.00 4.83
2956 6948 4.280436 ACGGACCAAGAATTGTGATGTA 57.720 40.909 0.00 0.00 46.99 2.29
2957 6949 4.000988 ACGGACCAAGAATTGTGATGTAC 58.999 43.478 0.00 0.00 46.99 2.90
2958 6950 4.253685 CGGACCAAGAATTGTGATGTACT 58.746 43.478 0.00 0.00 46.99 2.73
2959 6951 5.046878 ACGGACCAAGAATTGTGATGTACTA 60.047 40.000 0.00 0.00 46.99 1.82
3290 7282 2.304401 TAGTGGCGTCAACGTTGCG 61.304 57.895 28.51 28.51 42.22 4.85
3342 7343 1.705559 GACACGACGTACGAACTTGAC 59.294 52.381 24.41 14.43 45.77 3.18
3345 7346 2.096268 CACGACGTACGAACTTGACCTA 60.096 50.000 24.41 0.00 45.77 3.08
3505 7506 2.765807 CCTCATGGTCCGAGCCCT 60.766 66.667 0.00 0.00 0.00 5.19
3558 7559 2.379972 TGTGACCCCGTGAACATTTTT 58.620 42.857 0.00 0.00 0.00 1.94
3563 7564 1.335506 CCCCGTGAACATTTTTCACCG 60.336 52.381 9.49 4.19 44.29 4.94
4005 8025 0.878523 TGCAACGTCAAGGTCTTCCG 60.879 55.000 0.00 0.00 39.05 4.30
4065 8087 5.870444 TCGTTTTTCGTCAGATTTGTTGAA 58.130 33.333 0.00 0.00 40.80 2.69
4070 8103 9.753669 GTTTTTCGTCAGATTTGTTGAATTTTT 57.246 25.926 0.00 0.00 0.00 1.94
4076 8109 7.201427 CGTCAGATTTGTTGAATTTTTGTGTGT 60.201 33.333 0.00 0.00 0.00 3.72
4084 8117 5.431420 TGAATTTTTGTGTGTATGCTCGT 57.569 34.783 0.00 0.00 0.00 4.18
4175 8208 1.214062 CGTGAAGAAGGCTCTCGCT 59.786 57.895 0.00 0.00 36.09 4.93
4265 8299 1.761449 TGCTCTCAGCTACTCCTCAG 58.239 55.000 0.00 0.00 42.97 3.35
4320 8362 6.116126 ACTTCACCATAGTCCTAATGAAAGC 58.884 40.000 0.00 0.00 0.00 3.51
4324 8366 3.809832 CCATAGTCCTAATGAAAGCGTGG 59.190 47.826 0.00 0.00 0.00 4.94
4389 8438 3.882888 TGCTCTTTCAAGTTGACGGAATT 59.117 39.130 4.68 0.00 0.00 2.17
4412 8461 6.633500 TTGTCTTACAAAATTCAGACCCTG 57.367 37.500 0.00 0.00 34.76 4.45
4420 8469 3.446442 AATTCAGACCCTGCACAGAAT 57.554 42.857 0.00 0.00 0.00 2.40
4437 8490 5.179045 CAGAATGTTGAACAGACTTGCTT 57.821 39.130 3.74 0.00 0.00 3.91
4446 8499 4.214119 TGAACAGACTTGCTTGATGCTTAC 59.786 41.667 0.00 0.00 43.37 2.34
4519 8572 4.610333 TGGTAGCATCAAGGTCTCTTCTA 58.390 43.478 0.00 0.00 0.00 2.10
4522 8575 6.839134 TGGTAGCATCAAGGTCTCTTCTATAA 59.161 38.462 0.00 0.00 0.00 0.98
4523 8576 7.014711 TGGTAGCATCAAGGTCTCTTCTATAAG 59.985 40.741 0.00 0.00 0.00 1.73
4524 8577 7.014808 GGTAGCATCAAGGTCTCTTCTATAAGT 59.985 40.741 0.00 0.00 34.13 2.24
4525 8578 7.430760 AGCATCAAGGTCTCTTCTATAAGTT 57.569 36.000 0.00 0.00 34.13 2.66
4526 8579 7.496747 AGCATCAAGGTCTCTTCTATAAGTTC 58.503 38.462 0.00 0.00 34.13 3.01
4527 8580 7.344352 AGCATCAAGGTCTCTTCTATAAGTTCT 59.656 37.037 0.00 0.00 34.13 3.01
4646 8699 2.438021 GGTAGGTGTTAGGGCATCATCA 59.562 50.000 0.00 0.00 0.00 3.07
4665 8718 1.519234 GATGACCACGCGCAGATGA 60.519 57.895 5.73 0.00 0.00 2.92
4718 8771 4.807039 TTCCTCGCCCGCGCTTAC 62.807 66.667 5.56 0.00 39.59 2.34
4720 8773 4.891727 CCTCGCCCGCGCTTACAT 62.892 66.667 5.56 0.00 39.59 2.29
4721 8774 2.027024 CTCGCCCGCGCTTACATA 59.973 61.111 5.56 0.00 39.59 2.29
4724 8777 0.942410 TCGCCCGCGCTTACATATTC 60.942 55.000 5.56 0.00 39.59 1.75
4725 8778 0.944311 CGCCCGCGCTTACATATTCT 60.944 55.000 5.56 0.00 0.00 2.40
4726 8779 1.226746 GCCCGCGCTTACATATTCTT 58.773 50.000 5.56 0.00 0.00 2.52
4727 8780 1.602377 GCCCGCGCTTACATATTCTTT 59.398 47.619 5.56 0.00 0.00 2.52
4728 8781 2.803956 GCCCGCGCTTACATATTCTTTA 59.196 45.455 5.56 0.00 0.00 1.85
4729 8782 3.120649 GCCCGCGCTTACATATTCTTTAG 60.121 47.826 5.56 0.00 0.00 1.85
4730 8783 4.304110 CCCGCGCTTACATATTCTTTAGA 58.696 43.478 5.56 0.00 0.00 2.10
4731 8784 4.748102 CCCGCGCTTACATATTCTTTAGAA 59.252 41.667 5.56 0.00 38.56 2.10
4732 8785 5.333111 CCCGCGCTTACATATTCTTTAGAAC 60.333 44.000 5.56 0.00 36.80 3.01
4733 8786 5.233476 CCGCGCTTACATATTCTTTAGAACA 59.767 40.000 5.56 0.00 36.80 3.18
4734 8787 6.237996 CCGCGCTTACATATTCTTTAGAACAA 60.238 38.462 5.56 0.00 36.80 2.83
4776 8829 3.944015 AGTCGTCGTAGCACTAACCTATT 59.056 43.478 0.00 0.00 0.00 1.73
4777 8830 4.034975 AGTCGTCGTAGCACTAACCTATTC 59.965 45.833 0.00 0.00 0.00 1.75
4780 8833 4.968788 CGTCGTAGCACTAACCTATTCTTC 59.031 45.833 0.00 0.00 0.00 2.87
4783 8836 5.298777 TCGTAGCACTAACCTATTCTTCTCC 59.701 44.000 0.00 0.00 0.00 3.71
4834 8887 3.330267 GAGAAATCAGCACCGAAGTTCT 58.670 45.455 0.56 0.00 0.00 3.01
4837 8890 2.839486 ATCAGCACCGAAGTTCTGAA 57.161 45.000 0.85 0.00 46.98 3.02
4841 8894 1.964223 AGCACCGAAGTTCTGAAGAGA 59.036 47.619 0.85 0.00 0.00 3.10
4843 8896 2.928731 GCACCGAAGTTCTGAAGAGAGG 60.929 54.545 0.85 0.00 0.00 3.69
4844 8897 1.896465 ACCGAAGTTCTGAAGAGAGGG 59.104 52.381 0.85 0.00 0.00 4.30
4846 8899 1.273606 CGAAGTTCTGAAGAGAGGGCA 59.726 52.381 0.56 0.00 0.00 5.36
4850 8903 2.909006 AGTTCTGAAGAGAGGGCATGAA 59.091 45.455 0.00 0.00 0.00 2.57
4851 8904 3.006247 GTTCTGAAGAGAGGGCATGAAC 58.994 50.000 0.00 0.00 0.00 3.18
4852 8905 2.259917 TCTGAAGAGAGGGCATGAACA 58.740 47.619 0.00 0.00 0.00 3.18
4853 8906 2.639347 TCTGAAGAGAGGGCATGAACAA 59.361 45.455 0.00 0.00 0.00 2.83
4854 8907 3.072915 TCTGAAGAGAGGGCATGAACAAA 59.927 43.478 0.00 0.00 0.00 2.83
4855 8908 3.415212 TGAAGAGAGGGCATGAACAAAG 58.585 45.455 0.00 0.00 0.00 2.77
4856 8909 1.831580 AGAGAGGGCATGAACAAAGC 58.168 50.000 0.00 0.00 0.00 3.51
4857 8910 0.449388 GAGAGGGCATGAACAAAGCG 59.551 55.000 0.00 0.00 0.00 4.68
4898 8952 5.555190 CGCAGCTTGTTTAAGTTAAAACC 57.445 39.130 9.62 0.00 38.35 3.27
4899 8953 5.278604 CGCAGCTTGTTTAAGTTAAAACCT 58.721 37.500 9.62 2.05 38.35 3.50
4900 8954 5.173131 CGCAGCTTGTTTAAGTTAAAACCTG 59.827 40.000 9.62 12.98 38.35 4.00
4901 8955 6.040247 GCAGCTTGTTTAAGTTAAAACCTGT 58.960 36.000 9.62 0.00 38.35 4.00
4902 8956 6.019881 GCAGCTTGTTTAAGTTAAAACCTGTG 60.020 38.462 9.62 6.74 38.35 3.66
4903 8957 7.033185 CAGCTTGTTTAAGTTAAAACCTGTGT 58.967 34.615 9.62 0.00 38.35 3.72
4904 8958 7.009174 CAGCTTGTTTAAGTTAAAACCTGTGTG 59.991 37.037 9.62 0.00 38.35 3.82
4906 8960 5.652518 TGTTTAAGTTAAAACCTGTGTGCC 58.347 37.500 9.62 0.00 38.35 5.01
4907 8961 5.419471 TGTTTAAGTTAAAACCTGTGTGCCT 59.581 36.000 9.62 0.00 38.35 4.75
4939 8993 9.469807 TGCCTTGTTGTTAATTTAAACATACAG 57.530 29.630 0.00 0.00 39.04 2.74
4985 9042 8.948631 AAGTGATGGAACTGTACATAATACTG 57.051 34.615 0.00 0.00 0.00 2.74
5017 9074 6.426633 CCATTGTTGTGATGTGTAGTTAGTGA 59.573 38.462 0.00 0.00 0.00 3.41
5024 9081 9.549078 TTGTGATGTGTAGTTAGTGAATTTGTA 57.451 29.630 0.00 0.00 0.00 2.41
5025 9082 9.719355 TGTGATGTGTAGTTAGTGAATTTGTAT 57.281 29.630 0.00 0.00 0.00 2.29
5027 9084 9.936759 TGATGTGTAGTTAGTGAATTTGTATGA 57.063 29.630 0.00 0.00 0.00 2.15
5036 9093 4.079253 GTGAATTTGTATGAGTGTGGGGT 58.921 43.478 0.00 0.00 0.00 4.95
5085 9142 1.069636 GCTTGCCTCTGAAACAGAACG 60.070 52.381 0.00 0.00 40.18 3.95
5086 9143 2.213499 CTTGCCTCTGAAACAGAACGT 58.787 47.619 0.00 0.00 40.18 3.99
5111 9168 4.319477 CGGAACAACTGTACACTGAAATGG 60.319 45.833 7.12 0.00 0.00 3.16
5120 9177 6.372659 ACTGTACACTGAAATGGATGTTCATC 59.627 38.462 4.41 4.41 34.59 2.92
5132 9189 5.128205 TGGATGTTCATCCTAAGCAGAATG 58.872 41.667 25.77 0.00 41.29 2.67
5152 9209 7.112122 AGAATGTCTGAATGTGTTTGGCTATA 58.888 34.615 0.00 0.00 0.00 1.31
5160 9217 3.478509 TGTGTTTGGCTATACGTTTGGT 58.521 40.909 0.00 0.00 0.00 3.67
5167 9224 1.813786 GCTATACGTTTGGTTTGGGCA 59.186 47.619 0.00 0.00 0.00 5.36
5194 9251 5.278957 GCTCCCTTTTGCTGAAATTAGAACA 60.279 40.000 0.00 0.00 0.00 3.18
5202 9259 5.065914 TGCTGAAATTAGAACAGACAGCTT 58.934 37.500 1.33 0.00 45.91 3.74
5203 9260 5.532406 TGCTGAAATTAGAACAGACAGCTTT 59.468 36.000 1.33 0.00 45.91 3.51
5204 9261 5.855395 GCTGAAATTAGAACAGACAGCTTTG 59.145 40.000 0.00 0.00 43.54 2.77
5205 9262 6.514048 GCTGAAATTAGAACAGACAGCTTTGT 60.514 38.462 0.00 0.00 43.54 2.83
5206 9263 7.333528 TGAAATTAGAACAGACAGCTTTGTT 57.666 32.000 7.52 7.52 40.04 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 14 2.105128 CATCAGACCCGTCCGCTC 59.895 66.667 0.00 0.00 0.00 5.03
16 17 2.125326 TAGCCATCAGACCCGTCCG 61.125 63.158 0.00 0.00 0.00 4.79
21 22 0.912486 AGGTTGTAGCCATCAGACCC 59.088 55.000 0.00 0.00 0.00 4.46
25 26 5.339008 TTGTACTAGGTTGTAGCCATCAG 57.661 43.478 0.00 0.00 0.00 2.90
28 29 5.190925 TGGATTTGTACTAGGTTGTAGCCAT 59.809 40.000 0.00 0.00 0.00 4.40
53 54 4.553156 CGGAAGATCGACACTAACTAGAGC 60.553 50.000 0.00 0.00 0.00 4.09
68 70 2.937149 GTTTAGTTCTGGCCGGAAGATC 59.063 50.000 27.73 15.76 0.00 2.75
74 76 3.329929 AACTAGTTTAGTTCTGGCCGG 57.670 47.619 4.71 4.71 45.38 6.13
84 86 2.851534 GCAAGCGGCAAACTAGTTTAG 58.148 47.619 20.15 14.90 43.97 1.85
112 114 4.929808 CACCCAACTCACTATACTTGACAC 59.070 45.833 0.00 0.00 0.00 3.67
123 125 4.772886 AGACTTTAACACCCAACTCACT 57.227 40.909 0.00 0.00 0.00 3.41
137 139 5.235516 GGACTTGATGAACCGAAGACTTTA 58.764 41.667 0.00 0.00 0.00 1.85
141 143 2.347731 GGGACTTGATGAACCGAAGAC 58.652 52.381 0.00 0.00 0.00 3.01
144 146 0.036765 CGGGGACTTGATGAACCGAA 60.037 55.000 0.00 0.00 43.69 4.30
146 148 0.036765 TTCGGGGACTTGATGAACCG 60.037 55.000 0.00 0.00 42.45 4.44
152 154 3.068307 CGATAAGAGTTCGGGGACTTGAT 59.932 47.826 0.00 0.00 33.05 2.57
155 157 2.454538 ACGATAAGAGTTCGGGGACTT 58.545 47.619 0.00 0.00 40.83 3.01
159 161 2.268298 CACAACGATAAGAGTTCGGGG 58.732 52.381 0.00 0.00 40.83 5.73
164 166 3.462982 TGCACACACAACGATAAGAGTT 58.537 40.909 0.00 0.00 0.00 3.01
165 167 3.106242 TGCACACACAACGATAAGAGT 57.894 42.857 0.00 0.00 0.00 3.24
170 172 2.095819 CAGCAATGCACACACAACGATA 60.096 45.455 8.35 0.00 0.00 2.92
171 173 0.953727 AGCAATGCACACACAACGAT 59.046 45.000 8.35 0.00 0.00 3.73
172 174 0.029167 CAGCAATGCACACACAACGA 59.971 50.000 8.35 0.00 0.00 3.85
175 177 0.669619 CCTCAGCAATGCACACACAA 59.330 50.000 8.35 0.00 0.00 3.33
182 184 2.161855 CCTACAAACCTCAGCAATGCA 58.838 47.619 8.35 0.00 0.00 3.96
185 187 2.821969 CAAGCCTACAAACCTCAGCAAT 59.178 45.455 0.00 0.00 0.00 3.56
193 195 0.788391 CGTCGACAAGCCTACAAACC 59.212 55.000 17.16 0.00 0.00 3.27
198 200 0.038892 TGAACCGTCGACAAGCCTAC 60.039 55.000 17.16 0.64 0.00 3.18
230 232 2.666619 GCACAAGACGAGGCAATCTTTG 60.667 50.000 0.00 0.00 32.77 2.77
276 278 8.122472 AGTTGTATCCTGGTATTTTCCAAAAG 57.878 34.615 0.00 0.00 37.01 2.27
331 333 7.801893 TCCTGAACTACTAAAAAGTATCCCA 57.198 36.000 0.00 0.00 0.00 4.37
333 335 9.939802 TCTTTCCTGAACTACTAAAAAGTATCC 57.060 33.333 0.00 0.00 0.00 2.59
346 350 9.273016 CAAGATTGTTAACTCTTTCCTGAACTA 57.727 33.333 7.22 0.00 29.34 2.24
348 352 7.363431 CCAAGATTGTTAACTCTTTCCTGAAC 58.637 38.462 7.22 0.00 29.34 3.18
362 366 7.889873 TCTGAAAAAGTTCCCAAGATTGTTA 57.110 32.000 0.00 0.00 32.28 2.41
372 376 7.333174 TGTCAAATTTGTTCTGAAAAAGTTCCC 59.667 33.333 17.47 0.00 32.28 3.97
374 378 9.693157 CATGTCAAATTTGTTCTGAAAAAGTTC 57.307 29.630 17.47 0.00 0.00 3.01
382 386 5.049167 GCCAACATGTCAAATTTGTTCTGA 58.951 37.500 17.47 0.00 31.48 3.27
383 387 4.211794 GGCCAACATGTCAAATTTGTTCTG 59.788 41.667 17.47 14.25 31.48 3.02
384 388 4.101430 AGGCCAACATGTCAAATTTGTTCT 59.899 37.500 17.47 1.25 31.48 3.01
392 396 3.500448 TGAGTAGGCCAACATGTCAAA 57.500 42.857 5.01 0.00 0.00 2.69
428 432 9.298774 GCTCAGATTTTCTATGGAGAATTTTTG 57.701 33.333 0.00 0.00 41.40 2.44
448 454 7.048629 TGGACAATTTGTTTTTATGCTCAGA 57.951 32.000 3.08 0.00 0.00 3.27
450 456 6.041409 TCCTGGACAATTTGTTTTTATGCTCA 59.959 34.615 3.08 0.00 0.00 4.26
532 538 7.066525 GGGGACGAAATGAAATTCATTGTACTA 59.933 37.037 20.40 0.00 45.57 1.82
540 546 5.537300 TTTTGGGGACGAAATGAAATTCA 57.463 34.783 0.00 0.00 38.81 2.57
562 568 9.109533 CATAAAACGTTACTCTTGCGTAAATTT 57.890 29.630 0.00 0.00 37.92 1.82
563 569 8.497554 TCATAAAACGTTACTCTTGCGTAAATT 58.502 29.630 0.00 0.00 37.92 1.82
564 570 8.020861 TCATAAAACGTTACTCTTGCGTAAAT 57.979 30.769 0.00 0.00 37.92 1.40
575 581 7.081976 GGCAACAATCTTCATAAAACGTTACT 58.918 34.615 0.00 0.00 0.00 2.24
597 603 4.643463 AGCAATCATGAAATTTGTTGGCA 58.357 34.783 0.00 0.00 0.00 4.92
598 604 5.616488 AAGCAATCATGAAATTTGTTGGC 57.384 34.783 0.00 0.00 0.00 4.52
651 1389 4.052518 ATGGAGGCAGGTGCACCC 62.053 66.667 32.29 17.77 44.36 4.61
710 1928 9.319143 AGAGAATGTTATATGAGTTAGTTGCAC 57.681 33.333 0.00 0.00 0.00 4.57
764 2000 1.227943 TCCTGCACACACAAGAGGC 60.228 57.895 0.00 0.00 0.00 4.70
782 2018 2.310538 CCCTTTGGTGAAGAGTTTGCT 58.689 47.619 0.00 0.00 37.57 3.91
855 4608 8.462016 ACACCTGTTTCATATAAGCATTTCTTC 58.538 33.333 0.00 0.00 36.25 2.87
887 4640 3.565902 CCTTTTTCTCCTCCAACTCACAC 59.434 47.826 0.00 0.00 0.00 3.82
954 4707 3.568430 ACACGAATCCCCTTGTCTTTTTC 59.432 43.478 0.00 0.00 0.00 2.29
1040 4808 3.782244 CTGCGCGCAGTCTTGGTC 61.782 66.667 44.44 9.54 39.10 4.02
1071 4839 2.537714 GAAGGGCAGGAGGAGAGGGA 62.538 65.000 0.00 0.00 0.00 4.20
1221 4989 3.883462 CGGAACATGCCGCTGTAA 58.117 55.556 0.00 0.00 45.38 2.41
1518 5301 1.809619 CATGCCGGTGTACTCCACG 60.810 63.158 14.09 4.50 45.52 4.94
1734 5517 4.078516 GCGTACCCGTTGCTCCCT 62.079 66.667 0.00 0.00 36.15 4.20
2200 6004 4.831107 TCGATCAAGTCACCATTTGATGA 58.169 39.130 4.60 1.44 42.43 2.92
2224 6028 3.466712 TCTGTAGAAACTACTCGCGTG 57.533 47.619 5.77 6.24 0.00 5.34
2259 6067 5.357878 TGATTATCAGTTCAGTCAATTGGCC 59.642 40.000 6.39 0.00 0.00 5.36
2263 6071 8.868522 TTCCTTGATTATCAGTTCAGTCAATT 57.131 30.769 0.00 0.00 0.00 2.32
2279 6087 9.405587 CACGTTTACACATAAATTTCCTTGATT 57.594 29.630 0.00 0.00 32.91 2.57
2294 6102 4.561105 TCATATCACTGCACGTTTACACA 58.439 39.130 0.00 0.00 0.00 3.72
2295 6103 5.718649 ATCATATCACTGCACGTTTACAC 57.281 39.130 0.00 0.00 0.00 2.90
2419 6227 8.440833 CAACCTGTTCGTTAAGGAATTAACTAG 58.559 37.037 13.28 6.22 37.01 2.57
2427 6235 2.487625 CCCCAACCTGTTCGTTAAGGAA 60.488 50.000 6.50 6.50 37.01 3.36
2429 6237 1.072648 TCCCCAACCTGTTCGTTAAGG 59.927 52.381 0.00 0.00 39.65 2.69
2439 6247 4.524328 GCCATTATCTAATTCCCCAACCTG 59.476 45.833 0.00 0.00 0.00 4.00
2480 6288 1.067565 CCAGCTACGCCGATGATATGT 60.068 52.381 0.00 0.00 0.00 2.29
2490 6298 4.003648 AGCAATAATAATCCAGCTACGCC 58.996 43.478 0.00 0.00 0.00 5.68
2492 6300 8.414003 TCCTATAGCAATAATAATCCAGCTACG 58.586 37.037 0.00 0.00 37.40 3.51
2504 6325 8.516811 CGTTAGTCGTTTCCTATAGCAATAAT 57.483 34.615 0.00 0.00 34.52 1.28
2526 6347 1.530323 CATTTCTTCCGGGGAACGTT 58.470 50.000 0.00 0.00 42.24 3.99
2587 6408 1.712081 GCAGCACATGTAGACTGCG 59.288 57.895 23.67 10.61 45.23 5.18
2611 6432 6.146184 CCAGTAACCGAATGTTGATAGCATAG 59.854 42.308 0.00 0.00 37.83 2.23
2663 6485 0.250727 TTGAGGAGGGAGGTTTTGCG 60.251 55.000 0.00 0.00 0.00 4.85
2691 6513 3.888930 TGGATGAAAGTTCACAAAGTCCC 59.111 43.478 7.74 0.00 40.49 4.46
2693 6515 6.317789 TCATGGATGAAAGTTCACAAAGTC 57.682 37.500 0.00 0.00 40.49 3.01
2807 6631 7.212976 GTGGACTTATTCTCTATCATCTTGCA 58.787 38.462 0.00 0.00 0.00 4.08
2817 6641 8.146053 TGAAATGAAGGTGGACTTATTCTCTA 57.854 34.615 0.00 0.00 40.21 2.43
2826 6650 5.242393 CAGACAAATGAAATGAAGGTGGACT 59.758 40.000 0.00 0.00 0.00 3.85
2872 6696 9.170890 TGGATTATTATGGAACTCTTGGTAGAT 57.829 33.333 0.00 0.00 0.00 1.98
2896 6888 4.033358 GCGAGTAACTGAGAATTGACATGG 59.967 45.833 0.00 0.00 0.00 3.66
2914 6906 3.581024 TTAATAGTTCACCGTGCGAGT 57.419 42.857 0.00 0.00 0.00 4.18
2924 6916 7.446013 ACAATTCTTGGTCCGTTTAATAGTTCA 59.554 33.333 0.00 0.00 34.12 3.18
3223 7215 1.229400 GGGTACTGACCTGTGGGGA 60.229 63.158 0.00 0.00 46.09 4.81
3290 7282 1.005294 ACGTACGTCATGTTGGTCGC 61.005 55.000 16.72 0.00 0.00 5.19
3342 7343 0.034059 GCCATCACCTGTCGGATAGG 59.966 60.000 18.13 18.13 41.22 2.57
3345 7346 2.501128 CGCCATCACCTGTCGGAT 59.499 61.111 0.00 0.00 0.00 4.18
3442 7443 0.666577 GAACTTGGTGGACTCGTCGG 60.667 60.000 0.00 0.00 0.00 4.79
3558 7559 2.882324 GGAAAACAAGTTTTGCGGTGA 58.118 42.857 14.97 0.00 42.26 4.02
3563 7564 2.100087 TCGGGAGGAAAACAAGTTTTGC 59.900 45.455 18.39 18.39 46.71 3.68
3617 7626 3.371102 TCAGAACAGAAGACCAAGACG 57.629 47.619 0.00 0.00 0.00 4.18
3623 7632 2.924290 GCGTACATCAGAACAGAAGACC 59.076 50.000 0.00 0.00 0.00 3.85
4065 8087 5.431420 TGAACGAGCATACACACAAAAAT 57.569 34.783 0.00 0.00 0.00 1.82
4084 8117 0.906756 CTCCCACCTCTCCAGCTGAA 60.907 60.000 17.39 0.00 0.00 3.02
4175 8208 1.376466 GAGCTTGGCCTCAACCTCA 59.624 57.895 3.32 0.00 36.25 3.86
4265 8299 3.691118 TGGCAGTTGAAGCATGAATAGTC 59.309 43.478 0.00 0.00 0.00 2.59
4304 8346 3.454812 ACCCACGCTTTCATTAGGACTAT 59.545 43.478 0.00 0.00 0.00 2.12
4353 8402 0.897401 AGAGCAGCCCTTCCTTTTGC 60.897 55.000 0.00 0.00 35.09 3.68
4389 8438 5.009610 GCAGGGTCTGAATTTTGTAAGACAA 59.990 40.000 4.27 0.00 40.67 3.18
4412 8461 4.285292 CAAGTCTGTTCAACATTCTGTGC 58.715 43.478 0.00 0.00 0.00 4.57
4420 8469 3.243168 GCATCAAGCAAGTCTGTTCAACA 60.243 43.478 0.00 0.00 44.79 3.33
4498 8551 5.799827 ATAGAAGAGACCTTGATGCTACC 57.200 43.478 0.00 0.00 31.62 3.18
4519 8572 8.822805 TGGTGTTGAAGGAGTAATAGAACTTAT 58.177 33.333 0.00 0.00 0.00 1.73
4522 8575 6.681729 TGGTGTTGAAGGAGTAATAGAACT 57.318 37.500 0.00 0.00 0.00 3.01
4523 8576 7.606456 TGATTGGTGTTGAAGGAGTAATAGAAC 59.394 37.037 0.00 0.00 0.00 3.01
4524 8577 7.685481 TGATTGGTGTTGAAGGAGTAATAGAA 58.315 34.615 0.00 0.00 0.00 2.10
4525 8578 7.252612 TGATTGGTGTTGAAGGAGTAATAGA 57.747 36.000 0.00 0.00 0.00 1.98
4526 8579 7.227512 GGATGATTGGTGTTGAAGGAGTAATAG 59.772 40.741 0.00 0.00 0.00 1.73
4527 8580 7.054124 GGATGATTGGTGTTGAAGGAGTAATA 58.946 38.462 0.00 0.00 0.00 0.98
4534 8587 4.870123 TTTGGATGATTGGTGTTGAAGG 57.130 40.909 0.00 0.00 0.00 3.46
4622 8675 1.483415 GATGCCCTAACACCTACCGAA 59.517 52.381 0.00 0.00 0.00 4.30
4623 8676 1.117150 GATGCCCTAACACCTACCGA 58.883 55.000 0.00 0.00 0.00 4.69
4624 8677 0.828022 TGATGCCCTAACACCTACCG 59.172 55.000 0.00 0.00 0.00 4.02
4646 8699 1.520120 CATCTGCGCGTGGTCATCT 60.520 57.895 8.43 0.00 0.00 2.90
4710 8763 6.268797 TGTTCTAAAGAATATGTAAGCGCG 57.731 37.500 0.00 0.00 36.33 6.86
4712 8765 8.175069 TGCTTTGTTCTAAAGAATATGTAAGCG 58.825 33.333 14.36 0.00 35.23 4.68
4718 8771 8.746922 TGCTTTGCTTTGTTCTAAAGAATATG 57.253 30.769 3.75 0.00 36.33 1.78
4719 8772 9.578439 GATGCTTTGCTTTGTTCTAAAGAATAT 57.422 29.630 3.75 0.00 36.33 1.28
4720 8773 7.750458 CGATGCTTTGCTTTGTTCTAAAGAATA 59.250 33.333 3.75 0.00 36.33 1.75
4721 8774 6.583806 CGATGCTTTGCTTTGTTCTAAAGAAT 59.416 34.615 3.75 0.00 36.33 2.40
4724 8777 4.618489 CCGATGCTTTGCTTTGTTCTAAAG 59.382 41.667 0.00 0.00 34.22 1.85
4725 8778 4.545610 CCGATGCTTTGCTTTGTTCTAAA 58.454 39.130 0.00 0.00 0.00 1.85
4726 8779 3.611530 GCCGATGCTTTGCTTTGTTCTAA 60.612 43.478 0.00 0.00 33.53 2.10
4727 8780 2.095263 GCCGATGCTTTGCTTTGTTCTA 60.095 45.455 0.00 0.00 33.53 2.10
4728 8781 1.336240 GCCGATGCTTTGCTTTGTTCT 60.336 47.619 0.00 0.00 33.53 3.01
4729 8782 1.063031 GCCGATGCTTTGCTTTGTTC 58.937 50.000 0.00 0.00 33.53 3.18
4730 8783 0.388659 TGCCGATGCTTTGCTTTGTT 59.611 45.000 0.00 0.00 38.71 2.83
4731 8784 0.604578 ATGCCGATGCTTTGCTTTGT 59.395 45.000 0.00 0.00 38.71 2.83
4732 8785 0.996462 CATGCCGATGCTTTGCTTTG 59.004 50.000 0.00 0.00 38.71 2.77
4733 8786 3.429043 CATGCCGATGCTTTGCTTT 57.571 47.368 0.00 0.00 38.71 3.51
4776 8829 0.391597 AAACGAACCTGCGGAGAAGA 59.608 50.000 5.10 0.00 35.12 2.87
4777 8830 0.512952 CAAACGAACCTGCGGAGAAG 59.487 55.000 5.10 0.00 35.12 2.85
4780 8833 0.661020 AAACAAACGAACCTGCGGAG 59.339 50.000 0.00 0.00 35.12 4.63
4783 8836 1.063469 ACAGAAACAAACGAACCTGCG 59.937 47.619 0.00 0.00 37.29 5.18
4791 8844 1.193874 GGTAGCCGACAGAAACAAACG 59.806 52.381 0.00 0.00 0.00 3.60
4834 8887 3.415212 CTTTGTTCATGCCCTCTCTTCA 58.585 45.455 0.00 0.00 0.00 3.02
4837 8890 1.831580 GCTTTGTTCATGCCCTCTCT 58.168 50.000 0.00 0.00 0.00 3.10
4841 8894 0.250901 AGTCGCTTTGTTCATGCCCT 60.251 50.000 0.00 0.00 0.00 5.19
4843 8896 0.169009 GGAGTCGCTTTGTTCATGCC 59.831 55.000 0.00 0.00 0.00 4.40
4844 8897 0.179215 CGGAGTCGCTTTGTTCATGC 60.179 55.000 0.00 0.00 0.00 4.06
4874 8927 2.587612 TAACTTAAACAAGCTGCGCG 57.412 45.000 0.00 0.00 0.00 6.86
4939 8993 4.207891 TCATCCTCTTCCTGTAGTTTGC 57.792 45.455 0.00 0.00 0.00 3.68
4985 9042 1.089920 ATCACAACAATGGAGCGAGC 58.910 50.000 0.00 0.00 0.00 5.03
5017 9074 2.825532 GCACCCCACACTCATACAAATT 59.174 45.455 0.00 0.00 0.00 1.82
5024 9081 4.033776 CCGGCACCCCACACTCAT 62.034 66.667 0.00 0.00 0.00 2.90
5066 9123 2.213499 ACGTTCTGTTTCAGAGGCAAG 58.787 47.619 0.00 0.00 41.75 4.01
5085 9142 3.968649 TCAGTGTACAGTTGTTCCGTAC 58.031 45.455 0.00 0.00 36.79 3.67
5086 9143 4.652421 TTCAGTGTACAGTTGTTCCGTA 57.348 40.909 0.00 0.00 0.00 4.02
5111 9168 6.018098 CAGACATTCTGCTTAGGATGAACATC 60.018 42.308 6.28 6.28 37.72 3.06
5120 9177 4.940046 ACACATTCAGACATTCTGCTTAGG 59.060 41.667 0.00 0.00 43.95 2.69
5132 9189 4.630069 ACGTATAGCCAAACACATTCAGAC 59.370 41.667 0.00 0.00 0.00 3.51
5144 9201 2.820787 CCCAAACCAAACGTATAGCCAA 59.179 45.455 0.00 0.00 0.00 4.52
5152 9209 1.819905 CCTTGCCCAAACCAAACGT 59.180 52.632 0.00 0.00 0.00 3.99


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

AutoCloner maintained by Alex Coulton.