Multiple sequence alignment - TraesCS6D01G291900

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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 TraesCS6D01G291900 chr6D 100.000 7907 0 0 1 7907 402497838 402489932 0.000000e+00 14602
1 TraesCS6D01G291900 chr6B 95.362 6576 157 56 10 6546 603363113 603356647 0.000000e+00 10318
2 TraesCS6D01G291900 chr6B 88.618 984 63 19 6555 7518 603356590 603355636 0.000000e+00 1151
3 TraesCS6D01G291900 chr6B 92.308 377 13 6 7536 7907 603355559 603355194 9.090000e-144 521
4 TraesCS6D01G291900 chr6A 93.805 5795 181 53 23 5764 549236176 549230507 0.000000e+00 8549
5 TraesCS6D01G291900 chr6A 97.452 785 19 1 5763 6546 549230341 549229557 0.000000e+00 1338
6 TraesCS6D01G291900 chr6A 88.855 996 57 20 6554 7525 549229503 549228538 0.000000e+00 1175
7 TraesCS6D01G291900 chr6A 87.843 255 14 10 7661 7907 549228428 549228183 4.670000e-72 283
8 TraesCS6D01G291900 chr7A 89.655 87 8 1 3921 4007 470791899 470791984 8.390000e-20 110
9 TraesCS6D01G291900 chr7D 88.506 87 9 1 3921 4007 409518121 409518206 3.900000e-18 104


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 TraesCS6D01G291900 chr6D 402489932 402497838 7906 True 14602.000000 14602 100.00000 1 7907 1 chr6D.!!$R1 7906
1 TraesCS6D01G291900 chr6B 603355194 603363113 7919 True 3996.666667 10318 92.09600 10 7907 3 chr6B.!!$R1 7897
2 TraesCS6D01G291900 chr6A 549228183 549236176 7993 True 2836.250000 8549 91.98875 23 7907 4 chr6A.!!$R1 7884

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
178 188 0.106918 ACCCGTAGCTCTCTCTCCAG 60.107 60.000 0.00 0.00 0.00 3.86 F
1609 1670 0.109597 CATTCTTGGAGCGGTTGTGC 60.110 55.000 0.00 0.00 0.00 4.57 F
2240 2307 0.302890 CAAGGACATCATTCGAGCGC 59.697 55.000 0.00 0.00 0.00 5.92 F
2501 2568 0.920763 TCATTGAGGGCAGGGGACAT 60.921 55.000 0.00 0.00 0.00 3.06 F
2504 2572 1.852157 TTGAGGGCAGGGGACATGTC 61.852 60.000 17.91 17.91 0.00 3.06 F
3333 3401 2.951642 CCATGACACTGACTTTGTTGGT 59.048 45.455 0.00 0.00 0.00 3.67 F
4680 4749 0.820226 TTCTGATGAGCTCGAGGGTG 59.180 55.000 15.58 0.00 0.00 4.61 F
4889 4958 1.343069 TGGGCGGGCAAATAAGTTTT 58.657 45.000 3.27 0.00 0.00 2.43 F
6660 6964 1.030488 TCAGGTTCGAGGCGACTAGG 61.030 60.000 0.00 0.00 44.43 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2151 2218 1.448922 GGTAAAACACACCAGCGGCA 61.449 55.000 1.45 0.00 36.01 5.69 R
2501 2568 3.011119 ACTTAAAACTGGCAACACGACA 58.989 40.909 0.00 0.00 46.17 4.35 R
3731 3799 1.486211 TGGCCTAGTCCTTAGAGTGC 58.514 55.000 3.32 0.00 0.00 4.40 R
3940 4008 2.279584 TCCGTCAGCGTTCGCAAA 60.280 55.556 18.95 3.88 36.15 3.68 R
4329 4397 5.761234 AGTTGCAAAGTATCGGTAAACAGAA 59.239 36.000 0.00 0.00 0.00 3.02 R
5033 5102 0.250124 CACTACGCACAGGTTTCCCA 60.250 55.000 0.00 0.00 0.00 4.37 R
6040 6295 0.755698 TATCTGTCTCGGGCCTCCAC 60.756 60.000 0.84 0.00 0.00 4.02 R
6762 7066 1.480219 GAATGACGTCGGCGGTCATC 61.480 60.000 24.90 16.91 43.45 2.92 R
7480 7810 0.543883 AGAGCACCTGAGCAAGAGGA 60.544 55.000 2.89 0.00 36.85 3.71 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
65 70 2.736826 CCGGCTTCTTCCTCTCCCC 61.737 68.421 0.00 0.00 0.00 4.81
174 184 1.755008 GCCACCCGTAGCTCTCTCT 60.755 63.158 0.00 0.00 0.00 3.10
175 185 1.730451 GCCACCCGTAGCTCTCTCTC 61.730 65.000 0.00 0.00 0.00 3.20
176 186 1.104577 CCACCCGTAGCTCTCTCTCC 61.105 65.000 0.00 0.00 0.00 3.71
177 187 0.394488 CACCCGTAGCTCTCTCTCCA 60.394 60.000 0.00 0.00 0.00 3.86
178 188 0.106918 ACCCGTAGCTCTCTCTCCAG 60.107 60.000 0.00 0.00 0.00 3.86
179 189 1.452145 CCCGTAGCTCTCTCTCCAGC 61.452 65.000 0.00 0.00 35.73 4.85
180 190 1.452145 CCGTAGCTCTCTCTCCAGCC 61.452 65.000 0.00 0.00 36.17 4.85
181 191 0.465460 CGTAGCTCTCTCTCCAGCCT 60.465 60.000 0.00 0.00 36.17 4.58
182 192 1.318576 GTAGCTCTCTCTCCAGCCTC 58.681 60.000 0.00 0.00 36.17 4.70
183 193 0.184933 TAGCTCTCTCTCCAGCCTCC 59.815 60.000 0.00 0.00 36.17 4.30
184 194 1.381056 GCTCTCTCTCCAGCCTCCA 60.381 63.158 0.00 0.00 0.00 3.86
261 288 2.352457 CTTCCGCCGTCGATCTCG 60.352 66.667 0.00 0.00 38.10 4.04
271 298 2.279784 CGATCTCGGCCAGCCTTC 60.280 66.667 2.24 0.00 35.37 3.46
287 314 4.750695 TCCGCCCCCTCCATTCCA 62.751 66.667 0.00 0.00 0.00 3.53
288 315 4.506255 CCGCCCCCTCCATTCCAC 62.506 72.222 0.00 0.00 0.00 4.02
289 316 4.506255 CGCCCCCTCCATTCCACC 62.506 72.222 0.00 0.00 0.00 4.61
290 317 4.506255 GCCCCCTCCATTCCACCG 62.506 72.222 0.00 0.00 0.00 4.94
499 528 2.358898 CGGGCCTTGTCCAGAATATTTG 59.641 50.000 0.84 0.00 0.00 2.32
515 544 2.010582 TTTGCCGCACGGAAAAAGCT 62.011 50.000 12.83 0.00 39.71 3.74
516 545 1.167155 TTGCCGCACGGAAAAAGCTA 61.167 50.000 14.43 0.00 37.50 3.32
517 546 1.134694 GCCGCACGGAAAAAGCTAG 59.865 57.895 14.43 0.00 37.50 3.42
558 597 2.190578 GGTGCGATTCCTCCCCAG 59.809 66.667 0.00 0.00 0.00 4.45
652 704 0.741221 CACTGGAGTAAAGAGGCGCC 60.741 60.000 21.89 21.89 0.00 6.53
655 707 3.255379 GAGTAAAGAGGCGCCGCG 61.255 66.667 24.88 8.83 0.00 6.46
756 813 0.398318 AAGCTCGGCTCTTTTGAGGT 59.602 50.000 0.00 0.00 46.30 3.85
828 885 3.522731 CGCACTCTCTCCCTCCCG 61.523 72.222 0.00 0.00 0.00 5.14
829 886 3.844090 GCACTCTCTCCCTCCCGC 61.844 72.222 0.00 0.00 0.00 6.13
830 887 2.043450 CACTCTCTCCCTCCCGCT 60.043 66.667 0.00 0.00 0.00 5.52
831 888 2.043450 ACTCTCTCCCTCCCGCTG 60.043 66.667 0.00 0.00 0.00 5.18
833 890 4.465446 TCTCTCCCTCCCGCTGGG 62.465 72.222 7.24 7.24 46.11 4.45
939 996 0.595567 GCATATGGTGCGCATTGTGG 60.596 55.000 15.91 3.23 45.23 4.17
1272 1329 1.079543 CCTCGACCAGGTGAGCAAG 60.080 63.158 0.00 0.00 37.53 4.01
1287 1345 0.525242 GCAAGCAACACAAACGAGCA 60.525 50.000 0.00 0.00 0.00 4.26
1288 1346 1.906757 CAAGCAACACAAACGAGCAA 58.093 45.000 0.00 0.00 0.00 3.91
1289 1347 1.583404 CAAGCAACACAAACGAGCAAC 59.417 47.619 0.00 0.00 0.00 4.17
1290 1348 0.808125 AGCAACACAAACGAGCAACA 59.192 45.000 0.00 0.00 0.00 3.33
1291 1349 1.405105 AGCAACACAAACGAGCAACAT 59.595 42.857 0.00 0.00 0.00 2.71
1292 1350 2.616376 AGCAACACAAACGAGCAACATA 59.384 40.909 0.00 0.00 0.00 2.29
1293 1351 3.066064 AGCAACACAAACGAGCAACATAA 59.934 39.130 0.00 0.00 0.00 1.90
1294 1352 3.980775 GCAACACAAACGAGCAACATAAT 59.019 39.130 0.00 0.00 0.00 1.28
1295 1353 5.049060 AGCAACACAAACGAGCAACATAATA 60.049 36.000 0.00 0.00 0.00 0.98
1296 1354 5.283717 GCAACACAAACGAGCAACATAATAG 59.716 40.000 0.00 0.00 0.00 1.73
1297 1355 5.545658 ACACAAACGAGCAACATAATAGG 57.454 39.130 0.00 0.00 0.00 2.57
1298 1356 4.394920 ACACAAACGAGCAACATAATAGGG 59.605 41.667 0.00 0.00 0.00 3.53
1299 1357 4.634004 CACAAACGAGCAACATAATAGGGA 59.366 41.667 0.00 0.00 0.00 4.20
1300 1358 5.296780 CACAAACGAGCAACATAATAGGGAT 59.703 40.000 0.00 0.00 0.00 3.85
1349 1407 3.961477 CGATGCATTCGTTAATTCCCA 57.039 42.857 0.00 0.00 43.01 4.37
1350 1408 3.877064 CGATGCATTCGTTAATTCCCAG 58.123 45.455 0.00 0.00 43.01 4.45
1351 1409 3.303990 CGATGCATTCGTTAATTCCCAGG 60.304 47.826 0.00 0.00 43.01 4.45
1352 1410 3.358111 TGCATTCGTTAATTCCCAGGA 57.642 42.857 0.00 0.00 0.00 3.86
1353 1411 3.897239 TGCATTCGTTAATTCCCAGGAT 58.103 40.909 0.00 0.00 0.00 3.24
1354 1412 3.631686 TGCATTCGTTAATTCCCAGGATG 59.368 43.478 0.00 0.00 0.00 3.51
1355 1413 3.550842 GCATTCGTTAATTCCCAGGATGC 60.551 47.826 0.00 0.00 31.97 3.91
1356 1414 3.358111 TTCGTTAATTCCCAGGATGCA 57.642 42.857 0.00 0.00 31.97 3.96
1459 1520 5.592688 AGTACTAGCAAAACATGGTTGTTGT 59.407 36.000 0.00 4.50 45.30 3.32
1460 1521 5.337578 ACTAGCAAAACATGGTTGTTGTT 57.662 34.783 0.00 0.00 45.30 2.83
1461 1522 5.108517 ACTAGCAAAACATGGTTGTTGTTG 58.891 37.500 0.00 0.00 45.30 3.33
1549 1610 5.219951 CGTTTAGCGGCACATTATTTGTTTC 60.220 40.000 1.45 0.00 34.75 2.78
1609 1670 0.109597 CATTCTTGGAGCGGTTGTGC 60.110 55.000 0.00 0.00 0.00 4.57
1730 1791 0.969894 TTAATGGTTGGGTTTGGCCG 59.030 50.000 0.00 0.00 38.44 6.13
1824 1885 6.659242 TGATGGGTTCTTGATCCTACTTTTTC 59.341 38.462 0.00 0.00 0.00 2.29
1841 1903 7.973048 ACTTTTTCCTCCTAAAATATTCCCC 57.027 36.000 0.00 0.00 0.00 4.81
1842 1904 7.719424 ACTTTTTCCTCCTAAAATATTCCCCT 58.281 34.615 0.00 0.00 0.00 4.79
1847 1909 6.849151 TCCTCCTAAAATATTCCCCTAAAGC 58.151 40.000 0.00 0.00 0.00 3.51
1925 1987 3.056035 AGACTTTTAGGAGTACCTTGGCG 60.056 47.826 0.00 0.00 45.36 5.69
2012 2074 1.357272 TGGTTGGTGGCCCTAGTTGT 61.357 55.000 0.00 0.00 0.00 3.32
2017 2079 1.562475 TGGTGGCCCTAGTTGTTATCC 59.438 52.381 0.00 0.00 0.00 2.59
2052 2119 5.258216 ACTGACCCTAGTTGAGTCTCTTA 57.742 43.478 0.65 0.00 0.00 2.10
2053 2120 5.642165 ACTGACCCTAGTTGAGTCTCTTAA 58.358 41.667 0.65 0.00 0.00 1.85
2099 2166 6.569179 TTAGGTGCAGTTTAAACTTGATCC 57.431 37.500 18.25 16.33 37.08 3.36
2127 2194 3.416156 ACTTTCTTGGATGCTCTTGGTC 58.584 45.455 0.00 0.00 0.00 4.02
2154 2221 6.913170 TCAGTCTTAAATCTGTCAATTTGCC 58.087 36.000 6.49 0.00 33.89 4.52
2164 2231 1.106351 TCAATTTGCCGCTGGTGTGT 61.106 50.000 0.00 0.00 0.00 3.72
2191 2258 5.842907 ACCCTACATTTTGCTGAAACTTTC 58.157 37.500 0.00 0.00 0.00 2.62
2240 2307 0.302890 CAAGGACATCATTCGAGCGC 59.697 55.000 0.00 0.00 0.00 5.92
2344 2411 3.491342 TGAGGACTATGAATCGAGAGGG 58.509 50.000 0.00 0.00 0.00 4.30
2438 2505 1.200760 TGATGTCTGGGGAGGTGTGG 61.201 60.000 0.00 0.00 0.00 4.17
2501 2568 0.920763 TCATTGAGGGCAGGGGACAT 60.921 55.000 0.00 0.00 0.00 3.06
2504 2572 1.852157 TTGAGGGCAGGGGACATGTC 61.852 60.000 17.91 17.91 0.00 3.06
2842 2910 3.628008 AGGCATCAAAGCAGATGATTCA 58.372 40.909 15.32 0.00 46.51 2.57
3009 3077 8.192068 TGTACCAGAAATATAACACGAACATG 57.808 34.615 0.00 0.00 0.00 3.21
3333 3401 2.951642 CCATGACACTGACTTTGTTGGT 59.048 45.455 0.00 0.00 0.00 3.67
3605 3673 4.390297 GCTACTTGGCTTTCTTCTGTACAG 59.610 45.833 17.17 17.17 0.00 2.74
3633 3701 8.462016 AGAATTGTATACTGATGCAAGTTTTCC 58.538 33.333 4.17 0.00 40.44 3.13
3731 3799 8.731275 TTCCTTTCTGGTACATACATAATGTG 57.269 34.615 0.00 0.00 41.19 3.21
4329 4397 6.823689 AGTCAACTTTCGGTATCATAGCATTT 59.176 34.615 0.00 0.00 0.00 2.32
4338 4406 8.138365 TCGGTATCATAGCATTTTCTGTTTAC 57.862 34.615 0.00 0.00 0.00 2.01
4339 4407 7.225931 TCGGTATCATAGCATTTTCTGTTTACC 59.774 37.037 0.00 0.00 0.00 2.85
4627 4696 4.023707 GGATGAACGAAATAGCTGGGAATG 60.024 45.833 0.00 0.00 0.00 2.67
4680 4749 0.820226 TTCTGATGAGCTCGAGGGTG 59.180 55.000 15.58 0.00 0.00 4.61
4751 4820 5.772393 TTGAGGATACAGGTGTTGGTATT 57.228 39.130 0.00 0.00 41.41 1.89
4889 4958 1.343069 TGGGCGGGCAAATAAGTTTT 58.657 45.000 3.27 0.00 0.00 2.43
4904 4973 3.983044 AGTTTTATCAGCCGTCCTTCT 57.017 42.857 0.00 0.00 0.00 2.85
5033 5102 4.580580 GGAATGAAGGCGATTTTGGTAGAT 59.419 41.667 0.00 0.00 0.00 1.98
5166 5235 3.728845 GCAACAGAGTCAAGGTGAGTTA 58.271 45.455 4.97 0.00 28.50 2.24
5252 5322 4.796038 ACCGCTTAACTGTTTCTAGCTA 57.204 40.909 15.25 0.00 0.00 3.32
5319 5390 3.769300 TGTGCTCTGAGAGGCTAATGTTA 59.231 43.478 12.01 0.00 0.00 2.41
5386 5460 9.856162 ACTTTCAGGTAATAGTTTTGTAGGAAA 57.144 29.630 0.00 0.00 0.00 3.13
5565 5642 3.376546 GGAATGTCTCTGTGAGCCAAATC 59.623 47.826 0.00 0.00 0.00 2.17
5703 5788 6.716628 AGAGATAGAAGAGGCTGAGATTACAG 59.283 42.308 0.00 0.00 40.43 2.74
5704 5789 6.372931 AGATAGAAGAGGCTGAGATTACAGT 58.627 40.000 0.00 0.00 39.73 3.55
5840 6092 1.450312 GCATGCGGTAGACTTGGCT 60.450 57.895 0.00 0.00 0.00 4.75
5925 6177 7.927092 GGACCAGAACTAATCCTCAATACTAAC 59.073 40.741 0.00 0.00 0.00 2.34
6040 6295 7.911727 TCGATGCTTTTTATTGAGAATGACATG 59.088 33.333 0.00 0.00 0.00 3.21
6070 6325 5.279006 GCCCGAGACAGATATTCAGTTATCA 60.279 44.000 0.00 0.00 32.10 2.15
6535 6791 6.668323 TGCTGCAACTGTTATTTCTAACTTC 58.332 36.000 0.00 0.00 38.44 3.01
6551 6807 9.838339 TTTCTAACTTCATCTCTTCTTCAAACT 57.162 29.630 0.00 0.00 0.00 2.66
6552 6808 8.824159 TCTAACTTCATCTCTTCTTCAAACTG 57.176 34.615 0.00 0.00 0.00 3.16
6563 6867 7.382488 TCTCTTCTTCAAACTGTTATGTTCTCG 59.618 37.037 0.00 0.00 0.00 4.04
6579 6883 4.184629 GTTCTCGAGGCTTTATGTGTCAT 58.815 43.478 13.56 0.00 0.00 3.06
6608 6912 6.519382 TGTTGCTTGATAGTATCTCATCCTG 58.481 40.000 11.40 0.00 0.00 3.86
6636 6940 6.037830 TGACTGCTGATTATCAATGTGATGTG 59.962 38.462 0.00 0.00 37.70 3.21
6660 6964 1.030488 TCAGGTTCGAGGCGACTAGG 61.030 60.000 0.00 0.00 44.43 3.02
6694 6998 1.611977 TGGAGAAGAAAGCGAACGAGA 59.388 47.619 0.00 0.00 0.00 4.04
6695 6999 2.231478 TGGAGAAGAAAGCGAACGAGAT 59.769 45.455 0.00 0.00 0.00 2.75
6762 7066 2.437850 GCATTTGCCTGTTCTTGCG 58.562 52.632 0.00 0.00 34.31 4.85
6768 7072 0.955428 TGCCTGTTCTTGCGATGACC 60.955 55.000 0.00 0.00 0.00 4.02
6840 7144 0.939419 GCTACGTGTCCAAACCGTTT 59.061 50.000 0.00 0.00 35.13 3.60
6974 7280 2.549778 GCCAAGCTGACTCTGACTCTTT 60.550 50.000 0.00 0.00 0.00 2.52
7115 7421 1.214589 GCATTTCTGCTGGTGCTGG 59.785 57.895 8.48 0.00 45.32 4.85
7119 7425 2.629424 TTTCTGCTGGTGCTGGTGCT 62.629 55.000 0.00 0.00 40.48 4.40
7123 7429 3.362797 CTGGTGCTGGTGCTGCTG 61.363 66.667 0.00 0.00 40.48 4.41
7129 7435 3.738246 CTGGTGCTGCTGCTGCTG 61.738 66.667 27.67 16.73 40.48 4.41
7287 7594 2.224257 TGTAACATCTCTGTGCTGTGCA 60.224 45.455 0.00 0.00 35.22 4.57
7288 7595 1.971481 AACATCTCTGTGCTGTGCAA 58.029 45.000 0.00 0.00 41.47 4.08
7299 7606 1.733041 CTGTGCAATGCTGTGCTGC 60.733 57.895 6.82 0.00 45.17 5.25
7303 7610 2.202440 CAATGCTGTGCTGCGCTC 60.202 61.111 14.92 6.89 35.36 5.03
7320 7627 4.321515 CCCCCAAGGCCCAAGCTT 62.322 66.667 0.00 0.00 39.73 3.74
7330 7637 1.975327 CCCAAGCTTCAGAGTCCGA 59.025 57.895 0.00 0.00 0.00 4.55
7334 7641 2.354103 CCAAGCTTCAGAGTCCGATGAA 60.354 50.000 0.00 0.00 34.41 2.57
7338 7645 2.675348 GCTTCAGAGTCCGATGAAAAGG 59.325 50.000 0.00 0.00 35.14 3.11
7342 7649 4.569943 TCAGAGTCCGATGAAAAGGAAAG 58.430 43.478 0.00 0.00 38.41 2.62
7362 7670 0.399806 ATGTGGTGGGCTTTTGGGTT 60.400 50.000 0.00 0.00 0.00 4.11
7370 7683 0.961753 GGCTTTTGGGTTGTCTCCTG 59.038 55.000 0.00 0.00 0.00 3.86
7373 7686 2.749800 GCTTTTGGGTTGTCTCCTGTCT 60.750 50.000 0.00 0.00 0.00 3.41
7480 7810 2.611292 GCGAGATGCTGAATTTGCTAGT 59.389 45.455 6.07 0.00 41.73 2.57
7493 7823 1.189752 TGCTAGTCCTCTTGCTCAGG 58.810 55.000 0.00 0.00 41.55 3.86
7523 7853 3.986970 CCCCCTCTGCAAAAACAAC 57.013 52.632 0.00 0.00 0.00 3.32
7524 7854 1.118838 CCCCCTCTGCAAAAACAACA 58.881 50.000 0.00 0.00 0.00 3.33
7525 7855 1.069049 CCCCCTCTGCAAAAACAACAG 59.931 52.381 0.00 0.00 0.00 3.16
7528 7858 3.189285 CCCTCTGCAAAAACAACAGTTG 58.811 45.455 12.03 12.03 33.12 3.16
7530 7860 3.119173 CCTCTGCAAAAACAACAGTTGGA 60.119 43.478 17.76 1.83 32.22 3.53
7532 7862 5.083533 TCTGCAAAAACAACAGTTGGATT 57.916 34.783 17.76 9.19 33.12 3.01
7533 7863 5.486526 TCTGCAAAAACAACAGTTGGATTT 58.513 33.333 17.76 14.21 33.12 2.17
7534 7864 5.350914 TCTGCAAAAACAACAGTTGGATTTG 59.649 36.000 26.39 26.39 40.35 2.32
7554 7943 4.173036 TGAATTGGACGGCTCAAAATTC 57.827 40.909 10.39 10.39 37.62 2.17
7565 7954 4.142687 CGGCTCAAAATTCCGATTTACACT 60.143 41.667 0.00 0.00 45.53 3.55
7646 8036 0.390124 CATTGTGTGTTTGCTGGGCT 59.610 50.000 0.00 0.00 0.00 5.19
7672 8066 8.135529 TGATGATAACGAAATACAGTCGATCTT 58.864 33.333 0.18 0.00 41.02 2.40
7692 8086 4.529769 TCTTCTTGGATGTCTCATGTCTGT 59.470 41.667 0.00 0.00 0.00 3.41
7699 8093 5.363580 TGGATGTCTCATGTCTGTATTGCTA 59.636 40.000 0.00 0.00 0.00 3.49
7705 8113 7.503902 TGTCTCATGTCTGTATTGCTACTAGAT 59.496 37.037 0.00 0.00 0.00 1.98
7706 8114 9.004717 GTCTCATGTCTGTATTGCTACTAGATA 57.995 37.037 0.00 0.00 0.00 1.98
7707 8115 9.004717 TCTCATGTCTGTATTGCTACTAGATAC 57.995 37.037 0.00 0.00 0.00 2.24
7708 8116 8.926092 TCATGTCTGTATTGCTACTAGATACT 57.074 34.615 0.00 0.00 0.00 2.12
7774 8182 0.883833 CTGCCATGGTGTTTGACTCC 59.116 55.000 14.67 0.00 32.62 3.85
7775 8183 0.539438 TGCCATGGTGTTTGACTCCC 60.539 55.000 14.67 0.00 31.02 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.076995 TGCTAGCGAGGTAGAGCCA 60.077 57.895 10.77 0.00 40.61 4.75
1 2 1.657556 CTGCTAGCGAGGTAGAGCC 59.342 63.158 10.77 0.00 33.87 4.70
2 3 1.007849 GCTGCTAGCGAGGTAGAGC 60.008 63.158 10.77 7.73 35.43 4.09
3 4 1.657556 GGCTGCTAGCGAGGTAGAG 59.342 63.158 10.77 0.59 43.62 2.43
4 5 2.187493 CGGCTGCTAGCGAGGTAGA 61.187 63.158 10.77 0.00 43.62 2.59
5 6 2.333225 CGGCTGCTAGCGAGGTAG 59.667 66.667 10.77 2.17 43.62 3.18
6 7 3.900892 GCGGCTGCTAGCGAGGTA 61.901 66.667 11.21 0.00 43.62 3.08
156 165 1.730451 GAGAGAGAGCTACGGGTGGC 61.730 65.000 0.00 0.00 37.33 5.01
178 188 2.663423 GATCTGCTGGAGCTGGAGGC 62.663 65.000 0.00 0.00 42.66 4.70
179 189 1.335882 TGATCTGCTGGAGCTGGAGG 61.336 60.000 0.00 0.00 42.66 4.30
180 190 0.105224 CTGATCTGCTGGAGCTGGAG 59.895 60.000 0.00 0.00 42.66 3.86
181 191 1.969200 GCTGATCTGCTGGAGCTGGA 61.969 60.000 16.60 2.29 42.66 3.86
182 192 1.524165 GCTGATCTGCTGGAGCTGG 60.524 63.158 16.60 0.00 42.66 4.85
183 193 0.812014 CTGCTGATCTGCTGGAGCTG 60.812 60.000 23.02 9.10 42.66 4.24
184 194 1.523046 CTGCTGATCTGCTGGAGCT 59.477 57.895 23.02 0.00 42.66 4.09
271 298 4.506255 GTGGAATGGAGGGGGCGG 62.506 72.222 0.00 0.00 0.00 6.13
277 304 2.297895 TGGGTCGGTGGAATGGAGG 61.298 63.158 0.00 0.00 0.00 4.30
279 306 2.598787 GGTGGGTCGGTGGAATGGA 61.599 63.158 0.00 0.00 0.00 3.41
281 308 2.045340 GGGTGGGTCGGTGGAATG 60.045 66.667 0.00 0.00 0.00 2.67
287 314 2.226149 TTTTTGGTGGGTGGGTCGGT 62.226 55.000 0.00 0.00 0.00 4.69
288 315 1.455959 TTTTTGGTGGGTGGGTCGG 60.456 57.895 0.00 0.00 0.00 4.79
289 316 0.466555 TCTTTTTGGTGGGTGGGTCG 60.467 55.000 0.00 0.00 0.00 4.79
290 317 1.328279 CTCTTTTTGGTGGGTGGGTC 58.672 55.000 0.00 0.00 0.00 4.46
476 505 2.265467 TATTCTGGACAAGGCCCGCC 62.265 60.000 0.00 0.00 0.00 6.13
477 506 0.179018 ATATTCTGGACAAGGCCCGC 60.179 55.000 0.00 0.00 0.00 6.13
478 507 2.348411 AATATTCTGGACAAGGCCCG 57.652 50.000 0.00 0.00 0.00 6.13
481 510 2.223572 CGGCAAATATTCTGGACAAGGC 60.224 50.000 0.00 0.00 0.00 4.35
483 512 2.423185 TGCGGCAAATATTCTGGACAAG 59.577 45.455 0.00 0.00 0.00 3.16
499 528 1.134694 CTAGCTTTTTCCGTGCGGC 59.865 57.895 5.64 0.00 34.68 6.53
539 578 2.196997 CTGGGGAGGAATCGCACCAA 62.197 60.000 0.00 0.00 45.53 3.67
652 704 4.860562 TAAAATCCCCGGGCCGCG 62.861 66.667 23.20 13.14 0.00 6.46
655 707 2.028476 GCATTAATAAAATCCCCGGGCC 60.028 50.000 17.73 0.00 0.00 5.80
814 871 2.043450 CAGCGGGAGGGAGAGAGT 60.043 66.667 0.00 0.00 0.00 3.24
828 885 2.900106 AAGTGCTCCCAGTCCCAGC 61.900 63.158 0.00 0.00 0.00 4.85
829 886 1.002868 CAAGTGCTCCCAGTCCCAG 60.003 63.158 0.00 0.00 0.00 4.45
830 887 1.352622 AACAAGTGCTCCCAGTCCCA 61.353 55.000 0.00 0.00 0.00 4.37
831 888 0.178990 AAACAAGTGCTCCCAGTCCC 60.179 55.000 0.00 0.00 0.00 4.46
833 890 2.576615 AGAAAACAAGTGCTCCCAGTC 58.423 47.619 0.00 0.00 0.00 3.51
834 891 2.736670 AGAAAACAAGTGCTCCCAGT 57.263 45.000 0.00 0.00 0.00 4.00
939 996 3.625252 TTACTACTACTCCCCATCCCC 57.375 52.381 0.00 0.00 0.00 4.81
1272 1329 1.838913 ATGTTGCTCGTTTGTGTTGC 58.161 45.000 0.00 0.00 0.00 4.17
1287 1345 5.833131 ACAAATCGGCAATCCCTATTATGTT 59.167 36.000 0.00 0.00 29.47 2.71
1288 1346 5.385198 ACAAATCGGCAATCCCTATTATGT 58.615 37.500 0.00 0.00 29.47 2.29
1289 1347 5.964958 ACAAATCGGCAATCCCTATTATG 57.035 39.130 0.00 0.00 29.47 1.90
1290 1348 6.777580 AGAAACAAATCGGCAATCCCTATTAT 59.222 34.615 0.00 0.00 29.47 1.28
1291 1349 6.126409 AGAAACAAATCGGCAATCCCTATTA 58.874 36.000 0.00 0.00 29.47 0.98
1292 1350 4.956075 AGAAACAAATCGGCAATCCCTATT 59.044 37.500 0.00 0.00 30.74 1.73
1293 1351 4.536765 AGAAACAAATCGGCAATCCCTAT 58.463 39.130 0.00 0.00 0.00 2.57
1294 1352 3.963129 AGAAACAAATCGGCAATCCCTA 58.037 40.909 0.00 0.00 0.00 3.53
1295 1353 2.807676 AGAAACAAATCGGCAATCCCT 58.192 42.857 0.00 0.00 0.00 4.20
1296 1354 3.511699 GAAGAAACAAATCGGCAATCCC 58.488 45.455 0.00 0.00 0.00 3.85
1297 1355 3.193479 AGGAAGAAACAAATCGGCAATCC 59.807 43.478 0.00 0.00 0.00 3.01
1298 1356 4.156739 AGAGGAAGAAACAAATCGGCAATC 59.843 41.667 0.00 0.00 0.00 2.67
1299 1357 4.082125 AGAGGAAGAAACAAATCGGCAAT 58.918 39.130 0.00 0.00 0.00 3.56
1300 1358 3.486383 AGAGGAAGAAACAAATCGGCAA 58.514 40.909 0.00 0.00 0.00 4.52
1347 1405 2.684374 TGAACGAATGAATGCATCCTGG 59.316 45.455 0.00 0.00 32.35 4.45
1348 1406 4.563337 ATGAACGAATGAATGCATCCTG 57.437 40.909 0.00 0.00 32.35 3.86
1349 1407 4.037208 GGAATGAACGAATGAATGCATCCT 59.963 41.667 0.00 0.00 32.35 3.24
1350 1408 4.293415 GGAATGAACGAATGAATGCATCC 58.707 43.478 0.00 0.00 32.35 3.51
1351 1409 4.202040 TGGGAATGAACGAATGAATGCATC 60.202 41.667 0.00 0.00 32.35 3.91
1352 1410 3.700539 TGGGAATGAACGAATGAATGCAT 59.299 39.130 0.00 0.00 35.92 3.96
1353 1411 3.087781 TGGGAATGAACGAATGAATGCA 58.912 40.909 0.00 0.00 0.00 3.96
1354 1412 3.781079 TGGGAATGAACGAATGAATGC 57.219 42.857 0.00 0.00 0.00 3.56
1355 1413 5.252969 ACATGGGAATGAACGAATGAATG 57.747 39.130 0.00 0.00 0.00 2.67
1356 1414 4.035558 CGACATGGGAATGAACGAATGAAT 59.964 41.667 0.00 0.00 0.00 2.57
1542 1603 1.666700 CAACGGACCGACTGAAACAAA 59.333 47.619 23.38 0.00 0.00 2.83
1549 1610 2.357034 CCCACAACGGACCGACTG 60.357 66.667 23.38 18.86 36.56 3.51
1609 1670 5.124617 GGAGGTTTGGAGCATAGAAAAGAAG 59.875 44.000 0.00 0.00 0.00 2.85
1730 1791 2.029838 AATGGAGTCGGTCAAGCATC 57.970 50.000 0.00 0.00 0.00 3.91
1824 1885 6.717084 CAGCTTTAGGGGAATATTTTAGGAGG 59.283 42.308 0.00 0.00 0.00 4.30
1841 1903 4.021102 TCCCAAAAGAGGACAGCTTTAG 57.979 45.455 0.00 0.00 34.68 1.85
1842 1904 4.447138 TTCCCAAAAGAGGACAGCTTTA 57.553 40.909 0.00 0.00 34.68 1.85
1845 1907 3.425659 GAATTCCCAAAAGAGGACAGCT 58.574 45.455 0.00 0.00 31.50 4.24
1847 1909 2.749621 CGGAATTCCCAAAAGAGGACAG 59.250 50.000 19.01 0.00 31.50 3.51
1925 1987 4.584325 TGCCTTCAAATACCATATTGCCTC 59.416 41.667 0.00 0.00 0.00 4.70
2064 2131 3.949754 ACTGCACCTAATCCATGTGATTG 59.050 43.478 15.59 6.32 43.57 2.67
2099 2166 7.303998 CAAGAGCATCCAAGAAAGTAAGAAAG 58.696 38.462 0.00 0.00 33.66 2.62
2127 2194 8.857216 GCAAATTGACAGATTTAAGACTGAATG 58.143 33.333 14.78 7.45 37.54 2.67
2151 2218 1.448922 GGTAAAACACACCAGCGGCA 61.449 55.000 1.45 0.00 36.01 5.69
2154 2221 1.802365 GTAGGGTAAAACACACCAGCG 59.198 52.381 0.00 0.00 37.84 5.18
2164 2231 7.354751 AGTTTCAGCAAAATGTAGGGTAAAA 57.645 32.000 0.00 0.00 0.00 1.52
2191 2258 0.804364 TGCAAAAGTATCCTGCAGCG 59.196 50.000 8.66 1.56 41.01 5.18
2240 2307 2.120909 CACCCCATTTAGCAGCGGG 61.121 63.158 0.00 0.00 39.85 6.13
2297 2364 4.151121 TCCATCCATGCTGTCTTTCAAAA 58.849 39.130 0.00 0.00 0.00 2.44
2344 2411 1.277557 ACTCATCTTGGAGAGGTGCAC 59.722 52.381 8.80 8.80 36.38 4.57
2438 2505 6.259550 AGAAACCATCATGCAGTAAGAAAC 57.740 37.500 0.00 0.00 0.00 2.78
2501 2568 3.011119 ACTTAAAACTGGCAACACGACA 58.989 40.909 0.00 0.00 46.17 4.35
2504 2572 3.549873 CCAAACTTAAAACTGGCAACACG 59.450 43.478 0.00 0.00 46.17 4.49
2842 2910 7.603180 TCTCTAGGTCATTGTATGCTATGTT 57.397 36.000 5.28 0.00 0.00 2.71
3009 3077 7.295930 GCCACACTCACAAAATAGTTAAGTAC 58.704 38.462 0.00 0.00 0.00 2.73
3333 3401 5.476599 CCAACATTAGTGGAAGGACAATGAA 59.523 40.000 0.00 0.00 32.29 2.57
3599 3667 8.257306 TGCATCAGTATACAATTCTTCTGTACA 58.743 33.333 5.50 0.00 32.27 2.90
3605 3673 9.846248 AAAACTTGCATCAGTATACAATTCTTC 57.154 29.630 5.50 0.00 0.00 2.87
3633 3701 2.360165 AGTTGCCAGAAACTGCAAAGAG 59.640 45.455 0.00 0.00 38.95 2.85
3731 3799 1.486211 TGGCCTAGTCCTTAGAGTGC 58.514 55.000 3.32 0.00 0.00 4.40
3940 4008 2.279584 TCCGTCAGCGTTCGCAAA 60.280 55.556 18.95 3.88 36.15 3.68
4329 4397 5.761234 AGTTGCAAAGTATCGGTAAACAGAA 59.239 36.000 0.00 0.00 0.00 3.02
4338 4406 7.754924 ACATTATTCAAAGTTGCAAAGTATCGG 59.245 33.333 0.00 0.00 0.00 4.18
4339 4407 8.673626 ACATTATTCAAAGTTGCAAAGTATCG 57.326 30.769 0.00 0.00 0.00 2.92
4406 4475 7.773489 TGAATGGGTTCAGAACAATTTATGA 57.227 32.000 15.36 0.00 39.36 2.15
4423 4492 8.259411 TGAACTGGAAAATTGATAATGAATGGG 58.741 33.333 0.00 0.00 0.00 4.00
4627 4696 5.619625 ATCAGAGAGCAACAGCTTAAAAC 57.380 39.130 0.00 0.00 39.10 2.43
4680 4749 7.257722 TCGGAATCATTTTGGCTAGATTTTTC 58.742 34.615 0.00 0.00 31.35 2.29
4751 4820 1.456296 GATCTTGTGCATGCAGTGGA 58.544 50.000 23.41 18.50 0.00 4.02
4889 4958 2.632996 CCCAATAGAAGGACGGCTGATA 59.367 50.000 0.00 0.00 0.00 2.15
4904 4973 7.715249 GCTGAGAATGTAAATGTACTCCCAATA 59.285 37.037 0.00 0.00 0.00 1.90
5033 5102 0.250124 CACTACGCACAGGTTTCCCA 60.250 55.000 0.00 0.00 0.00 4.37
5166 5235 8.859090 TGTTAGGAATTGAAAATGACAACAGAT 58.141 29.630 0.00 0.00 0.00 2.90
5319 5390 6.036631 CCTCCCTACCCCTAATTAATATGGT 58.963 44.000 0.00 0.00 0.00 3.55
5565 5642 4.081752 AGTGCTTTATCTCTGTCTGTCTGG 60.082 45.833 0.00 0.00 0.00 3.86
5703 5788 6.846325 AAACTGAGCTTCTTACTAACACAC 57.154 37.500 0.00 0.00 0.00 3.82
5704 5789 7.948357 TCTAAACTGAGCTTCTTACTAACACA 58.052 34.615 0.00 0.00 0.00 3.72
5733 5818 4.766404 AACTGAGCCCGAAACAAATAAG 57.234 40.909 0.00 0.00 0.00 1.73
5799 6051 1.291877 GCAACTGCACCGTCCTAGTG 61.292 60.000 0.00 0.00 41.59 2.74
5840 6092 8.199490 TCTATTGTTAGACAAGCACCTGCTCA 62.199 42.308 0.00 0.00 41.94 4.26
6040 6295 0.755698 TATCTGTCTCGGGCCTCCAC 60.756 60.000 0.84 0.00 0.00 4.02
6070 6325 3.630769 TCCTGAGCGTATGTAGACGATTT 59.369 43.478 2.94 0.00 42.39 2.17
6535 6791 8.997323 AGAACATAACAGTTTGAAGAAGAGATG 58.003 33.333 0.00 0.00 0.00 2.90
6546 6802 3.997021 AGCCTCGAGAACATAACAGTTTG 59.003 43.478 15.71 0.00 0.00 2.93
6547 6803 4.273148 AGCCTCGAGAACATAACAGTTT 57.727 40.909 15.71 0.00 0.00 2.66
6550 6806 5.812642 ACATAAAGCCTCGAGAACATAACAG 59.187 40.000 15.71 0.00 0.00 3.16
6551 6807 5.580691 CACATAAAGCCTCGAGAACATAACA 59.419 40.000 15.71 0.00 0.00 2.41
6552 6808 5.581085 ACACATAAAGCCTCGAGAACATAAC 59.419 40.000 15.71 0.00 0.00 1.89
6563 6867 5.772521 ACAAAACATGACACATAAAGCCTC 58.227 37.500 0.00 0.00 0.00 4.70
6579 6883 7.977789 TGAGATACTATCAAGCAACAAAACA 57.022 32.000 0.00 0.00 0.00 2.83
6608 6912 7.255491 TCACATTGATAATCAGCAGTCAATC 57.745 36.000 0.00 0.00 38.77 2.67
6636 6940 1.807573 CGCCTCGAACCTGAAGAGC 60.808 63.158 0.00 0.00 0.00 4.09
6660 6964 6.422776 TTCTTCTCCATTTCTCGTATTTGC 57.577 37.500 0.00 0.00 0.00 3.68
6694 6998 4.702612 TGAACTCGACTGCTCTCTCTTTAT 59.297 41.667 0.00 0.00 0.00 1.40
6695 6999 4.072839 TGAACTCGACTGCTCTCTCTTTA 58.927 43.478 0.00 0.00 0.00 1.85
6762 7066 1.480219 GAATGACGTCGGCGGTCATC 61.480 60.000 24.90 16.91 43.45 2.92
6768 7072 3.554692 GCCTGAATGACGTCGGCG 61.555 66.667 8.42 8.42 44.93 6.46
6920 7224 2.413765 GAGGCGTCGGATCCTGTC 59.586 66.667 10.75 0.77 31.71 3.51
6974 7280 6.686378 GCAGAGATATCCATGTCAGGTTTGTA 60.686 42.308 0.00 0.00 0.00 2.41
7109 7415 4.039357 CAGCAGCAGCACCAGCAC 62.039 66.667 3.17 0.00 45.49 4.40
7143 7449 2.968574 GCCACCTCCTCATCTTCATCTA 59.031 50.000 0.00 0.00 0.00 1.98
7267 7574 2.416747 TGCACAGCACAGAGATGTTAC 58.583 47.619 0.00 0.00 46.49 2.50
7303 7610 4.321515 AAGCTTGGGCCTTGGGGG 62.322 66.667 4.53 0.00 39.73 5.40
7305 7612 1.980772 CTGAAGCTTGGGCCTTGGG 60.981 63.158 2.10 0.00 39.73 4.12
7307 7614 0.251077 ACTCTGAAGCTTGGGCCTTG 60.251 55.000 2.10 0.00 39.73 3.61
7308 7615 0.037447 GACTCTGAAGCTTGGGCCTT 59.963 55.000 2.10 0.00 39.73 4.35
7309 7616 1.682257 GACTCTGAAGCTTGGGCCT 59.318 57.895 2.10 0.00 39.73 5.19
7310 7617 1.377856 GGACTCTGAAGCTTGGGCC 60.378 63.158 2.10 0.00 39.73 5.80
7311 7618 1.743252 CGGACTCTGAAGCTTGGGC 60.743 63.158 2.10 0.00 39.06 5.36
7312 7619 0.539051 ATCGGACTCTGAAGCTTGGG 59.461 55.000 2.10 0.00 0.00 4.12
7313 7620 1.205655 TCATCGGACTCTGAAGCTTGG 59.794 52.381 2.10 0.00 0.00 3.61
7314 7621 2.662006 TCATCGGACTCTGAAGCTTG 57.338 50.000 2.10 0.00 0.00 4.01
7315 7622 3.685139 TTTCATCGGACTCTGAAGCTT 57.315 42.857 0.00 0.00 33.25 3.74
7320 7627 4.283467 TCTTTCCTTTTCATCGGACTCTGA 59.717 41.667 0.00 0.00 0.00 3.27
7330 7637 3.834231 CCCACCACATCTTTCCTTTTCAT 59.166 43.478 0.00 0.00 0.00 2.57
7334 7641 1.147817 AGCCCACCACATCTTTCCTTT 59.852 47.619 0.00 0.00 0.00 3.11
7338 7645 2.289010 CCAAAAGCCCACCACATCTTTC 60.289 50.000 0.00 0.00 0.00 2.62
7342 7649 0.831711 ACCCAAAAGCCCACCACATC 60.832 55.000 0.00 0.00 0.00 3.06
7362 7670 4.056125 CGCGGCAGACAGGAGACA 62.056 66.667 0.00 0.00 0.00 3.41
7370 7683 2.429571 TACGAACACGCGGCAGAC 60.430 61.111 12.47 0.00 35.12 3.51
7373 7686 2.480853 ATCAGTACGAACACGCGGCA 62.481 55.000 12.47 0.00 35.12 5.69
7416 7736 5.183140 CCAGTTTACCTACACCCAAATCAAG 59.817 44.000 0.00 0.00 0.00 3.02
7480 7810 0.543883 AGAGCACCTGAGCAAGAGGA 60.544 55.000 2.89 0.00 36.85 3.71
7514 7844 7.697291 CCAATTCAAATCCAACTGTTGTTTTTG 59.303 33.333 24.61 24.61 34.90 2.44
7518 7848 6.048509 GTCCAATTCAAATCCAACTGTTGTT 58.951 36.000 18.38 5.29 36.75 2.83
7519 7849 5.600696 GTCCAATTCAAATCCAACTGTTGT 58.399 37.500 18.38 0.00 0.00 3.32
7520 7850 4.681025 CGTCCAATTCAAATCCAACTGTTG 59.319 41.667 13.50 13.50 0.00 3.33
7522 7852 3.255642 CCGTCCAATTCAAATCCAACTGT 59.744 43.478 0.00 0.00 0.00 3.55
7523 7853 3.836949 CCGTCCAATTCAAATCCAACTG 58.163 45.455 0.00 0.00 0.00 3.16
7524 7854 2.231235 GCCGTCCAATTCAAATCCAACT 59.769 45.455 0.00 0.00 0.00 3.16
7525 7855 2.231235 AGCCGTCCAATTCAAATCCAAC 59.769 45.455 0.00 0.00 0.00 3.77
7528 7858 2.091541 TGAGCCGTCCAATTCAAATCC 58.908 47.619 0.00 0.00 0.00 3.01
7530 7860 4.599047 TTTTGAGCCGTCCAATTCAAAT 57.401 36.364 0.06 0.00 38.77 2.32
7532 7862 4.555262 GAATTTTGAGCCGTCCAATTCAA 58.445 39.130 0.00 0.00 34.40 2.69
7533 7863 3.056891 GGAATTTTGAGCCGTCCAATTCA 60.057 43.478 0.00 0.00 35.18 2.57
7534 7864 3.511699 GGAATTTTGAGCCGTCCAATTC 58.488 45.455 0.00 0.00 33.93 2.17
7573 7963 1.298859 GCGACAGGTAAGTTGGCTGG 61.299 60.000 0.00 0.00 0.00 4.85
7635 8025 2.223340 CGTTATCATCAGCCCAGCAAAC 60.223 50.000 0.00 0.00 0.00 2.93
7646 8036 7.649057 AGATCGACTGTATTTCGTTATCATCA 58.351 34.615 0.00 0.00 37.73 3.07
7672 8066 6.343703 CAATACAGACATGAGACATCCAAGA 58.656 40.000 0.00 0.00 0.00 3.02
7699 8093 7.310113 GCCCTGCATTTCATACTAGTATCTAGT 60.310 40.741 12.62 12.91 0.00 2.57
7705 8113 4.743651 GCTGCCCTGCATTTCATACTAGTA 60.744 45.833 4.77 4.77 38.13 1.82
7706 8114 3.813443 CTGCCCTGCATTTCATACTAGT 58.187 45.455 0.00 0.00 38.13 2.57
7707 8115 2.551459 GCTGCCCTGCATTTCATACTAG 59.449 50.000 0.00 0.00 38.13 2.57
7708 8116 2.092484 TGCTGCCCTGCATTTCATACTA 60.092 45.455 0.00 0.00 38.13 1.82
7709 8117 1.341285 TGCTGCCCTGCATTTCATACT 60.341 47.619 0.00 0.00 38.13 2.12
7710 8118 1.105457 TGCTGCCCTGCATTTCATAC 58.895 50.000 0.00 0.00 38.13 2.39
7813 8225 1.084289 GCTCGGACCAATTAAACGCT 58.916 50.000 0.00 0.00 0.00 5.07


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

AutoCloner maintained by Alex Coulton.