Multiple sequence alignment - TraesCS3B01G441700

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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 TraesCS3B01G441700 chr3B 100.000 6397 0 0 1 6397 681106186 681099790 0.000000e+00 11814.0
1 TraesCS3B01G441700 chr3A 95.574 2711 98 12 3704 6397 653245988 653243283 0.000000e+00 4322.0
2 TraesCS3B01G441700 chr3A 90.893 1120 65 16 728 1839 653248958 653247868 0.000000e+00 1469.0
3 TraesCS3B01G441700 chr3A 92.390 1025 39 18 2294 3314 653247284 653246295 0.000000e+00 1424.0
4 TraesCS3B01G441700 chr3A 91.160 724 55 7 1570 2285 653248045 653247323 0.000000e+00 974.0
5 TraesCS3B01G441700 chr3A 89.925 665 49 13 8 659 653249724 653249065 0.000000e+00 841.0
6 TraesCS3B01G441700 chr3A 98.452 323 5 0 3333 3655 653246309 653245987 2.590000e-158 569.0
7 TraesCS3B01G441700 chr3A 89.583 192 15 3 1649 1839 653248147 653247960 8.290000e-59 239.0
8 TraesCS3B01G441700 chr3A 91.892 74 6 0 1582 1655 653247842 653247769 3.150000e-18 104.0
9 TraesCS3B01G441700 chr3D 96.204 2081 70 5 3333 5406 517280652 517278574 0.000000e+00 3397.0
10 TraesCS3B01G441700 chr3D 90.420 1597 102 21 171 1751 517284838 517283277 0.000000e+00 2054.0
11 TraesCS3B01G441700 chr3D 96.000 875 29 2 5529 6397 517277310 517276436 0.000000e+00 1417.0
12 TraesCS3B01G441700 chr3D 92.639 883 18 11 2449 3314 517281490 517280638 0.000000e+00 1227.0
13 TraesCS3B01G441700 chr3D 90.498 642 50 8 1646 2285 517283475 517282843 0.000000e+00 837.0
14 TraesCS3B01G441700 chr3D 94.378 249 11 2 5277 5525 517278569 517278324 4.680000e-101 379.0
15 TraesCS3B01G441700 chr3D 92.529 174 8 4 2284 2453 517282813 517282641 1.780000e-60 244.0
16 TraesCS3B01G441700 chr2D 79.412 102 18 2 378 479 71961400 71961302 1.150000e-07 69.4


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 TraesCS3B01G441700 chr3B 681099790 681106186 6396 True 11814.00 11814 100.000000 1 6397 1 chr3B.!!$R1 6396
1 TraesCS3B01G441700 chr3A 653243283 653249724 6441 True 1242.75 4322 92.483625 8 6397 8 chr3A.!!$R1 6389
2 TraesCS3B01G441700 chr3D 517276436 517284838 8402 True 1365.00 3397 93.238286 171 6397 7 chr3D.!!$R1 6226

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
995 1083 0.889186 CGACCCAACCAACTCCCAAG 60.889 60.000 0.0 0.0 0.00 3.61 F
2069 2272 0.531974 TGACGCTCACCAGAAACACC 60.532 55.000 0.0 0.0 0.00 4.16 F
2244 2448 0.442699 GAGCCGTTTTCGCTACAAGG 59.557 55.000 0.0 0.0 42.58 3.61 F
3578 5000 0.108207 GCCCCTGAGATCATCACTGG 59.892 60.000 1.5 1.5 33.22 4.00 F
4696 6125 1.337167 GCTTCCCAACAAGATTGTGCC 60.337 52.381 0.0 0.0 41.31 5.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2224 2428 0.093026 CTTGTAGCGAAAACGGCTCG 59.907 55.000 0.00 0.00 41.80 5.03 R
3188 4610 0.473755 ATGTGCAGTCCAGGAACACA 59.526 50.000 18.81 18.81 44.56 3.72 R
4147 5576 1.890894 CTCCAACTCGTCACGGGAT 59.109 57.895 2.63 0.00 0.00 3.85 R
4895 6327 0.110192 CGAAGGCTTGAACTTTCGGC 60.110 55.000 3.46 0.00 0.00 5.54 R
5845 8423 0.175760 GTGGCAATAGGTCGAGCTCA 59.824 55.000 22.33 9.71 0.00 4.26 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
26 27 2.743183 GCTGATTGTCCGTATCTGCCTT 60.743 50.000 0.00 0.00 39.58 4.35
49 51 7.380602 CCTTGTTGATTTGTTTCTTGATGACTC 59.619 37.037 0.00 0.00 0.00 3.36
122 124 3.134985 AGCTATGAGACAGAGTACTCCGA 59.865 47.826 19.38 0.00 32.84 4.55
128 130 4.765339 TGAGACAGAGTACTCCGAAAATCA 59.235 41.667 19.38 12.82 32.84 2.57
129 131 5.243060 TGAGACAGAGTACTCCGAAAATCAA 59.757 40.000 19.38 0.00 32.84 2.57
130 132 5.715070 AGACAGAGTACTCCGAAAATCAAG 58.285 41.667 19.38 0.18 0.00 3.02
132 134 5.855045 ACAGAGTACTCCGAAAATCAAGTT 58.145 37.500 19.38 0.00 0.00 2.66
133 135 5.696724 ACAGAGTACTCCGAAAATCAAGTTG 59.303 40.000 19.38 8.57 0.00 3.16
135 137 6.866770 CAGAGTACTCCGAAAATCAAGTTGTA 59.133 38.462 19.38 0.00 0.00 2.41
137 139 7.760340 AGAGTACTCCGAAAATCAAGTTGTATC 59.240 37.037 19.38 0.00 0.00 2.24
145 150 5.940192 AAATCAAGTTGTATCGCAAGTGA 57.060 34.783 2.11 0.00 40.38 3.41
147 152 3.325870 TCAAGTTGTATCGCAAGTGAGG 58.674 45.455 2.11 0.00 40.38 3.86
240 245 6.738832 TTTCAGAATCTCAGAAGATGCTTG 57.261 37.500 0.00 0.00 44.39 4.01
264 269 6.529829 TGAAGACGAAAATTCAACTTGTTTGG 59.470 34.615 0.00 0.00 35.69 3.28
266 271 4.754322 ACGAAAATTCAACTTGTTTGGCT 58.246 34.783 0.00 0.00 35.69 4.75
402 414 2.649531 TCGGGGTGTTTGAACATTCT 57.350 45.000 0.00 0.00 41.59 2.40
494 506 8.531146 ACACCCGAAATTTATCTTTTTCATCAT 58.469 29.630 0.00 0.00 32.57 2.45
506 518 3.449528 TTTCATCATGAGCTCCTCGAG 57.550 47.619 12.15 5.13 32.35 4.04
528 540 3.559655 GTGCCCAAACTTCACCAAATTTC 59.440 43.478 0.00 0.00 0.00 2.17
622 637 1.412710 GTTCACATCCGGCCTCATCTA 59.587 52.381 0.00 0.00 0.00 1.98
623 638 1.788229 TCACATCCGGCCTCATCTAA 58.212 50.000 0.00 0.00 0.00 2.10
670 699 2.568509 CCATTCCATTGGGCTGAGTTTT 59.431 45.455 2.09 0.00 32.80 2.43
671 700 3.008266 CCATTCCATTGGGCTGAGTTTTT 59.992 43.478 2.09 0.00 32.80 1.94
693 722 5.529014 TTTTCTTTTCAACTTTGCACTGC 57.471 34.783 0.00 0.00 0.00 4.40
694 723 3.865011 TCTTTTCAACTTTGCACTGCA 57.135 38.095 0.00 0.00 36.47 4.41
807 895 1.001293 GACAGAGCACTGACATGTGGA 59.999 52.381 18.54 0.00 46.03 4.02
822 910 1.383943 TGGACCCACCTGTCAGTGT 60.384 57.895 0.00 0.00 39.86 3.55
834 922 3.062763 CTGTCAGTGTCAGCCAACTTAG 58.937 50.000 4.42 0.00 0.00 2.18
840 928 3.067833 GTGTCAGCCAACTTAGGAACTC 58.932 50.000 0.00 0.00 41.75 3.01
962 1050 2.573915 AGGAGAACACTCTTCCCATTCC 59.426 50.000 0.00 0.00 29.54 3.01
993 1081 2.824880 CCGACCCAACCAACTCCCA 61.825 63.158 0.00 0.00 0.00 4.37
994 1082 1.149627 CGACCCAACCAACTCCCAA 59.850 57.895 0.00 0.00 0.00 4.12
995 1083 0.889186 CGACCCAACCAACTCCCAAG 60.889 60.000 0.00 0.00 0.00 3.61
1006 1094 1.064825 ACTCCCAAGTCCCAACGAAT 58.935 50.000 0.00 0.00 0.00 3.34
1289 1385 2.741145 CAGGTACCTTAGCCTGTCTCT 58.259 52.381 13.15 0.00 45.28 3.10
1314 1410 1.735571 GAGCCGCGGTAGATTTTGAAA 59.264 47.619 28.70 0.00 0.00 2.69
1318 1414 4.396790 AGCCGCGGTAGATTTTGAAATTTA 59.603 37.500 28.70 0.00 0.00 1.40
1341 1437 1.943340 GCGGTGGATTGAGATTTCTCC 59.057 52.381 5.17 0.00 42.20 3.71
1344 1440 2.092914 GGTGGATTGAGATTTCTCCCGT 60.093 50.000 5.17 0.00 42.20 5.28
1345 1441 2.939103 GTGGATTGAGATTTCTCCCGTG 59.061 50.000 5.17 0.00 42.20 4.94
1350 1446 0.613777 GAGATTTCTCCCGTGGGTGT 59.386 55.000 4.53 0.00 37.02 4.16
1354 1450 4.954118 TCTCCCGTGGGTGTGGCT 62.954 66.667 4.53 0.00 36.47 4.75
1408 1504 2.663196 GAGGTGGGGAGGACGTTG 59.337 66.667 0.00 0.00 0.00 4.10
1506 1610 5.672321 GCTTGCTCTGCTTATCTTGTTACAC 60.672 44.000 0.00 0.00 0.00 2.90
1529 1633 5.183904 ACCAGTCTTTATGATTGAACTTGCC 59.816 40.000 0.00 0.00 34.77 4.52
1551 1655 5.471456 GCCAGTGGATAAATCAATCCTACTG 59.529 44.000 15.20 18.49 44.98 2.74
1562 1666 3.018856 CAATCCTACTGCTCCAAATGCA 58.981 45.455 0.00 0.00 38.81 3.96
1563 1667 3.589951 ATCCTACTGCTCCAAATGCAT 57.410 42.857 0.00 0.00 39.86 3.96
1565 1669 2.239402 TCCTACTGCTCCAAATGCATCA 59.761 45.455 0.00 0.00 39.86 3.07
1568 1672 5.008331 CCTACTGCTCCAAATGCATCATAT 58.992 41.667 0.00 0.00 39.86 1.78
1605 1709 4.101430 TGCTAGTGCATACATCAATCCTGA 59.899 41.667 0.00 0.00 45.31 3.86
1647 1751 5.353394 AAACAGTCAGGTGTCAAGTTCTA 57.647 39.130 0.00 0.00 0.00 2.10
1658 1762 5.106712 GGTGTCAAGTTCTAAAATGCATCGA 60.107 40.000 0.00 0.00 0.00 3.59
1711 1815 6.263516 TCAATCCTGCTTTCATTTCTGAAG 57.736 37.500 0.00 0.00 42.19 3.02
1717 1821 5.356190 CCTGCTTTCATTTCTGAAGCTGATA 59.644 40.000 13.42 1.95 42.19 2.15
1723 1827 7.750229 TTCATTTCTGAAGCTGATAAACAGT 57.250 32.000 0.00 0.00 41.08 3.55
1747 1851 3.565482 AGCTTCGAAGTTCTGAAATGCAA 59.435 39.130 25.24 0.00 0.00 4.08
1749 1853 4.789481 GCTTCGAAGTTCTGAAATGCAACA 60.789 41.667 25.24 0.00 0.00 3.33
1762 1866 7.828717 TCTGAAATGCAACATACCTAAGATTGA 59.171 33.333 0.00 0.00 0.00 2.57
1764 1868 8.461222 TGAAATGCAACATACCTAAGATTGAAG 58.539 33.333 0.00 0.00 0.00 3.02
1809 2012 7.088272 TCATGCTTTCATTTCTGAAACTGATG 58.912 34.615 4.73 0.15 44.46 3.07
1933 2136 2.095718 GCAGGCTCTCAACGTTTTTAGG 60.096 50.000 0.00 0.00 0.00 2.69
1954 2157 3.311322 GGCGCACAACAGTAGCATAATAA 59.689 43.478 10.83 0.00 0.00 1.40
2022 2225 1.239347 GCCTCAAAAGTGTCTCCACC 58.761 55.000 0.00 0.00 42.88 4.61
2023 2226 1.202818 GCCTCAAAAGTGTCTCCACCT 60.203 52.381 0.00 0.00 42.88 4.00
2037 2240 2.682494 ACCTACCACGGCCGACAT 60.682 61.111 35.90 18.44 0.00 3.06
2069 2272 0.531974 TGACGCTCACCAGAAACACC 60.532 55.000 0.00 0.00 0.00 4.16
2084 2287 0.690762 ACACCCAGTTACGGCAATCT 59.309 50.000 0.00 0.00 0.00 2.40
2086 2289 2.159382 CACCCAGTTACGGCAATCTTT 58.841 47.619 0.00 0.00 0.00 2.52
2102 2305 2.824071 CTTTGGCAACCATCAGCGCC 62.824 60.000 2.29 0.00 45.11 6.53
2118 2321 4.227134 CCGACCCCGCCTCTGATG 62.227 72.222 0.00 0.00 0.00 3.07
2127 2331 1.065854 CCGCCTCTGATGGAAGAACTT 60.066 52.381 0.00 0.00 0.00 2.66
2136 2340 2.450609 TGGAAGAACTTAGACGCCAC 57.549 50.000 0.00 0.00 0.00 5.01
2224 2428 6.635030 ATCCAGAGTAAAAGTTCAACCAAC 57.365 37.500 0.00 0.00 34.86 3.77
2244 2448 0.442699 GAGCCGTTTTCGCTACAAGG 59.557 55.000 0.00 0.00 42.58 3.61
2285 2489 3.138304 ACACATTACGAAAGCAAGCTGA 58.862 40.909 0.00 0.00 0.00 4.26
2286 2490 3.187227 ACACATTACGAAAGCAAGCTGAG 59.813 43.478 0.00 0.00 0.00 3.35
2287 2491 2.160417 ACATTACGAAAGCAAGCTGAGC 59.840 45.455 0.00 0.00 0.00 4.26
2291 2495 0.723981 CGAAAGCAAGCTGAGCTACC 59.276 55.000 7.68 1.19 42.53 3.18
2292 2496 1.090728 GAAAGCAAGCTGAGCTACCC 58.909 55.000 7.68 0.00 42.53 3.69
2351 2585 6.478673 GCAAATTTAGCACCCAACCATATAAC 59.521 38.462 7.47 0.00 0.00 1.89
2418 2653 1.153086 GCACCCCAGGCATGTCTAG 60.153 63.158 0.00 0.00 0.00 2.43
2444 2679 5.021033 TGGAACAATGCACAAAAAGATGT 57.979 34.783 0.00 0.00 31.92 3.06
2522 3916 4.350368 TGCCACAACAGTTTCTATCTGA 57.650 40.909 0.00 0.00 36.81 3.27
2605 4000 1.625818 TGGAGAGAAACTTCCTCTGCC 59.374 52.381 8.73 5.76 45.02 4.85
2663 4059 4.832823 TCTCTTCCAGTCACTATGTGTTGA 59.167 41.667 0.00 0.00 34.79 3.18
2664 4060 5.481824 TCTCTTCCAGTCACTATGTGTTGAT 59.518 40.000 0.00 0.00 34.79 2.57
2665 4061 5.724328 TCTTCCAGTCACTATGTGTTGATC 58.276 41.667 0.00 0.00 34.79 2.92
2704 4101 4.226168 ACCCCTAGATATTTCATAGGCAGC 59.774 45.833 0.00 0.00 35.68 5.25
2756 4153 4.464069 ACTGTTCTCTGTCCTGATTAGC 57.536 45.455 0.00 0.00 0.00 3.09
2757 4154 3.196685 ACTGTTCTCTGTCCTGATTAGCC 59.803 47.826 0.00 0.00 0.00 3.93
2815 4212 9.638176 AGAATATCTTAAAACCAGATGAATGCT 57.362 29.630 0.00 0.00 32.94 3.79
2816 4213 9.890352 GAATATCTTAAAACCAGATGAATGCTC 57.110 33.333 0.00 0.00 32.94 4.26
2930 4334 7.447545 ACACCTCTAATCAAGTTTCTTTAACCC 59.552 37.037 0.00 0.00 37.46 4.11
2931 4335 7.665974 CACCTCTAATCAAGTTTCTTTAACCCT 59.334 37.037 0.00 0.00 37.46 4.34
2932 4336 8.887393 ACCTCTAATCAAGTTTCTTTAACCCTA 58.113 33.333 0.00 0.00 37.46 3.53
2933 4337 9.907229 CCTCTAATCAAGTTTCTTTAACCCTAT 57.093 33.333 0.00 0.00 37.46 2.57
3251 4673 1.345415 CCAAGCAAGGAGTTGGCAATT 59.655 47.619 1.92 0.00 37.02 2.32
3299 4721 5.334028 GGTTTTAAATGTGCTTGTCATTGCC 60.334 40.000 0.00 0.00 35.95 4.52
3300 4722 4.870123 TTAAATGTGCTTGTCATTGCCT 57.130 36.364 0.00 0.00 35.95 4.75
3301 4723 2.736144 AATGTGCTTGTCATTGCCTG 57.264 45.000 0.00 0.00 34.74 4.85
3302 4724 0.892755 ATGTGCTTGTCATTGCCTGG 59.107 50.000 0.00 0.00 0.00 4.45
3303 4725 1.180456 TGTGCTTGTCATTGCCTGGG 61.180 55.000 0.00 0.00 0.00 4.45
3304 4726 1.607178 TGCTTGTCATTGCCTGGGG 60.607 57.895 0.00 0.00 0.00 4.96
3305 4727 2.353610 GCTTGTCATTGCCTGGGGG 61.354 63.158 0.00 0.00 0.00 5.40
3578 5000 0.108207 GCCCCTGAGATCATCACTGG 59.892 60.000 1.50 1.50 33.22 4.00
3655 5077 3.503827 TCACATACTGCTAACCTGTCG 57.496 47.619 0.00 0.00 0.00 4.35
3693 5115 7.168637 CACTTGTATGATTGAATAAATGCCAGC 59.831 37.037 0.00 0.00 0.00 4.85
3694 5116 5.761003 TGTATGATTGAATAAATGCCAGCG 58.239 37.500 0.00 0.00 0.00 5.18
3700 5122 2.028658 TGAATAAATGCCAGCGCCAAAA 60.029 40.909 2.29 0.00 0.00 2.44
4147 5576 4.687901 TGTCTGTTTCTCCATTCACTCA 57.312 40.909 0.00 0.00 0.00 3.41
4374 5803 1.958205 CGCCGCCAGATGAAGATCC 60.958 63.158 0.00 0.00 0.00 3.36
4440 5869 6.525578 AGAATGCACAGATTTTGATGTCAT 57.474 33.333 0.00 0.00 0.00 3.06
4441 5870 6.931838 AGAATGCACAGATTTTGATGTCATT 58.068 32.000 0.00 0.00 0.00 2.57
4695 6124 1.615392 AGCTTCCCAACAAGATTGTGC 59.385 47.619 0.00 0.00 41.31 4.57
4696 6125 1.337167 GCTTCCCAACAAGATTGTGCC 60.337 52.381 0.00 0.00 41.31 5.01
4743 6172 2.743928 GTGTGCCGAAGCTGGAGG 60.744 66.667 0.00 0.00 40.80 4.30
4748 6177 2.743928 CCGAAGCTGGAGGTGTGC 60.744 66.667 0.00 0.00 0.00 4.57
4831 6263 5.878332 TGCCTACTGTTCAACACAATATG 57.122 39.130 0.00 0.00 33.87 1.78
4842 6274 5.793817 TCAACACAATATGTCAGTAGTGCT 58.206 37.500 0.00 0.00 42.31 4.40
4851 6283 4.607293 TGTCAGTAGTGCTTGATCAACT 57.393 40.909 3.38 3.79 0.00 3.16
4897 6329 4.583871 AGCCAATATCTATAAGCACTGCC 58.416 43.478 0.00 0.00 0.00 4.85
4921 6353 0.598065 GTTCAAGCCTTCGCATGGTT 59.402 50.000 0.00 0.00 34.44 3.67
4924 6356 0.734889 CAAGCCTTCGCATGGTTAGG 59.265 55.000 0.00 0.00 37.52 2.69
4949 6381 4.910195 TGCAGAGGTAACAGATTGTCAAT 58.090 39.130 0.00 0.00 41.41 2.57
4956 6388 2.010145 ACAGATTGTCAATCGGACCG 57.990 50.000 26.23 7.84 46.38 4.79
4972 6404 2.334946 CCGCCTGTGTGTCATTGGG 61.335 63.158 0.00 0.00 0.00 4.12
5228 6660 4.819105 AGACAAATATGGTCCGTGAAGA 57.181 40.909 0.00 0.00 35.89 2.87
5275 6839 7.282224 AGTGTTGTCAGCTAAATTACTTCAACA 59.718 33.333 0.00 0.00 36.60 3.33
5458 7022 7.661847 GCTGCCAACTACTCTATTGGTTATAAT 59.338 37.037 5.01 0.00 46.07 1.28
5459 7023 9.561069 CTGCCAACTACTCTATTGGTTATAATT 57.439 33.333 5.01 0.00 46.07 1.40
5536 8110 6.959639 ACCTGTGGCCAAACTTATATATTG 57.040 37.500 7.24 0.00 0.00 1.90
5769 8347 2.831565 AGATCAGCCAAGAACTCCTCT 58.168 47.619 0.00 0.00 35.13 3.69
5771 8349 0.322975 TCAGCCAAGAACTCCTCTGC 59.677 55.000 0.00 0.00 33.37 4.26
5845 8423 2.162681 GCTAATGCAACCCAAGTCAGT 58.837 47.619 0.00 0.00 39.41 3.41
5927 8505 2.042762 CCCCCATGGTCCTCCTCA 59.957 66.667 11.73 0.00 34.23 3.86
5970 8548 2.437200 GCTCAGCAGCGATCTTATCT 57.563 50.000 0.00 0.00 35.39 1.98
5978 8556 3.375610 GCAGCGATCTTATCTCTCCGATA 59.624 47.826 0.00 0.00 33.48 2.92
6029 8607 0.529337 CAGCCATCGTCATTCTCGCT 60.529 55.000 0.00 0.00 0.00 4.93
6152 8739 4.084066 CGTATGAGTAGAGAGCAGCACTAG 60.084 50.000 0.00 0.00 0.00 2.57
6153 8740 3.636153 TGAGTAGAGAGCAGCACTAGA 57.364 47.619 0.00 0.00 0.00 2.43
6154 8741 3.956744 TGAGTAGAGAGCAGCACTAGAA 58.043 45.455 0.00 0.00 0.00 2.10
6167 8754 4.160439 CAGCACTAGAATTACCTCTCCACA 59.840 45.833 0.00 0.00 0.00 4.17
6278 8865 1.202639 AGTGTTGCGTCCAGTGAATCA 60.203 47.619 0.00 0.00 0.00 2.57
6366 8953 2.347490 GCTCGGCAGTGGGAAGAA 59.653 61.111 0.00 0.00 0.00 2.52
6371 8958 1.133915 TCGGCAGTGGGAAGAAAAACT 60.134 47.619 0.00 0.00 0.00 2.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.523095 GATACGGACAATCAGCTTCGC 59.477 52.381 0.00 0.00 0.00 4.70
1 2 2.791560 CAGATACGGACAATCAGCTTCG 59.208 50.000 0.00 0.00 0.00 3.79
2 3 2.541762 GCAGATACGGACAATCAGCTTC 59.458 50.000 0.00 0.00 34.19 3.86
3 4 2.555199 GCAGATACGGACAATCAGCTT 58.445 47.619 0.00 0.00 34.19 3.74
4 5 1.202580 GGCAGATACGGACAATCAGCT 60.203 52.381 0.00 0.00 36.45 4.24
6 7 2.868583 CAAGGCAGATACGGACAATCAG 59.131 50.000 0.00 0.00 0.00 2.90
10 11 2.037902 TCAACAAGGCAGATACGGACAA 59.962 45.455 0.00 0.00 0.00 3.18
15 16 4.685169 ACAAATCAACAAGGCAGATACG 57.315 40.909 0.00 0.00 0.00 3.06
26 27 7.067372 ACAGAGTCATCAAGAAACAAATCAACA 59.933 33.333 0.00 0.00 0.00 3.33
62 64 4.272100 GCTTGTGGCTGGCAAATG 57.728 55.556 5.14 4.02 38.06 2.32
85 87 0.902531 TAGCTCCCTCTTTGGTTCCG 59.097 55.000 0.00 0.00 0.00 4.30
96 98 3.461831 AGTACTCTGTCTCATAGCTCCCT 59.538 47.826 0.00 0.00 0.00 4.20
122 124 6.312399 TCACTTGCGATACAACTTGATTTT 57.688 33.333 0.00 0.00 33.68 1.82
128 130 3.678056 TCCTCACTTGCGATACAACTT 57.322 42.857 0.00 0.00 33.68 2.66
129 131 3.895232 ATCCTCACTTGCGATACAACT 57.105 42.857 0.00 0.00 33.68 3.16
130 132 3.684788 ACAATCCTCACTTGCGATACAAC 59.315 43.478 0.00 0.00 33.68 3.32
132 134 3.610040 ACAATCCTCACTTGCGATACA 57.390 42.857 0.00 0.00 0.00 2.29
133 135 4.437390 CCAAACAATCCTCACTTGCGATAC 60.437 45.833 0.00 0.00 0.00 2.24
135 137 2.489329 CCAAACAATCCTCACTTGCGAT 59.511 45.455 0.00 0.00 0.00 4.58
137 139 1.666888 GCCAAACAATCCTCACTTGCG 60.667 52.381 0.00 0.00 0.00 4.85
145 150 4.895297 TGAAGAAGAAAGCCAAACAATCCT 59.105 37.500 0.00 0.00 0.00 3.24
147 152 4.683320 GCTGAAGAAGAAAGCCAAACAATC 59.317 41.667 0.00 0.00 0.00 2.67
240 245 6.507929 GCCAAACAAGTTGAATTTTCGTCTTC 60.508 38.462 10.54 0.00 39.87 2.87
264 269 1.147153 GGGTGTAGATGAGCCCAGC 59.853 63.158 0.00 0.00 40.76 4.85
266 271 2.063979 CCGGGTGTAGATGAGCCCA 61.064 63.158 0.00 0.00 41.11 5.36
422 434 5.521010 CACTGTTCACATTTGCTTTTGACAT 59.479 36.000 0.00 0.00 0.00 3.06
423 435 4.863689 CACTGTTCACATTTGCTTTTGACA 59.136 37.500 0.00 0.00 0.00 3.58
431 443 5.119898 TGAAAACAACACTGTTCACATTTGC 59.880 36.000 0.00 0.00 45.25 3.68
434 446 7.440856 ACTTTTGAAAACAACACTGTTCACATT 59.559 29.630 0.00 0.00 45.25 2.71
463 475 7.519032 AAAAGATAAATTTCGGGTGTCTGAA 57.481 32.000 0.00 0.00 36.55 3.02
494 506 3.071206 GGGCACTCGAGGAGCTCA 61.071 66.667 24.90 0.00 32.04 4.26
506 518 2.908688 ATTTGGTGAAGTTTGGGCAC 57.091 45.000 0.00 0.00 0.00 5.01
528 540 1.771073 ATGTGCGTGTTGTCCGTGTG 61.771 55.000 0.00 0.00 0.00 3.82
582 594 8.085296 TGTGAACAGTAAAATGTTTGAAACAGT 58.915 29.630 16.43 11.12 45.95 3.55
583 595 8.459521 TGTGAACAGTAAAATGTTTGAAACAG 57.540 30.769 16.43 3.55 45.95 3.16
584 596 8.994429 ATGTGAACAGTAAAATGTTTGAAACA 57.006 26.923 13.66 13.66 43.32 2.83
585 597 8.539674 GGATGTGAACAGTAAAATGTTTGAAAC 58.460 33.333 0.14 0.14 43.32 2.78
587 599 6.915300 CGGATGTGAACAGTAAAATGTTTGAA 59.085 34.615 0.00 0.00 43.32 2.69
589 601 5.629020 CCGGATGTGAACAGTAAAATGTTTG 59.371 40.000 0.00 0.00 43.32 2.93
590 602 5.768317 CCGGATGTGAACAGTAAAATGTTT 58.232 37.500 0.00 0.00 43.32 2.83
591 603 4.320935 GCCGGATGTGAACAGTAAAATGTT 60.321 41.667 5.05 0.00 45.89 2.71
593 605 3.427503 GGCCGGATGTGAACAGTAAAATG 60.428 47.826 5.05 0.00 0.00 2.32
622 637 1.271840 TATTCTGCACCCGGGCTCTT 61.272 55.000 24.08 0.00 34.04 2.85
623 638 1.689233 TATTCTGCACCCGGGCTCT 60.689 57.895 24.08 0.00 34.04 4.09
670 699 5.468072 TGCAGTGCAAAGTTGAAAAGAAAAA 59.532 32.000 17.26 0.00 34.76 1.94
671 700 4.993584 TGCAGTGCAAAGTTGAAAAGAAAA 59.006 33.333 17.26 0.00 34.76 2.29
672 701 4.564041 TGCAGTGCAAAGTTGAAAAGAAA 58.436 34.783 17.26 0.00 34.76 2.52
673 702 4.185467 TGCAGTGCAAAGTTGAAAAGAA 57.815 36.364 17.26 0.00 34.76 2.52
674 703 3.865011 TGCAGTGCAAAGTTGAAAAGA 57.135 38.095 17.26 0.00 34.76 2.52
716 745 7.218204 GCCTAACAACTAACTATTGCAATTTCG 59.782 37.037 18.75 9.18 0.00 3.46
807 895 2.044806 GCTGACACTGACAGGTGGGT 62.045 60.000 7.51 0.00 41.09 4.51
822 910 2.038557 GGTGAGTTCCTAAGTTGGCTGA 59.961 50.000 0.00 0.00 0.00 4.26
834 922 2.626780 GCCGCCTTTGGTGAGTTCC 61.627 63.158 0.00 0.00 34.74 3.62
840 928 0.240945 CTAACTTGCCGCCTTTGGTG 59.759 55.000 0.00 0.00 0.00 4.17
875 963 0.320073 TCAGTTTTAGTGGCCGGACG 60.320 55.000 5.05 0.00 0.00 4.79
887 975 3.553828 TCGGGTTCTCACTTCAGTTTT 57.446 42.857 0.00 0.00 0.00 2.43
962 1050 4.337274 GGTTGGGTCGGTTTTATATTCCTG 59.663 45.833 0.00 0.00 0.00 3.86
993 1081 1.740296 CGCCGATTCGTTGGGACTT 60.740 57.895 5.20 0.00 0.00 3.01
994 1082 2.125673 CGCCGATTCGTTGGGACT 60.126 61.111 5.20 0.00 0.00 3.85
995 1083 3.861263 GCGCCGATTCGTTGGGAC 61.861 66.667 5.20 0.00 0.00 4.46
1038 1126 0.749649 ACTTTGTGAAATTGCGGCCA 59.250 45.000 2.24 0.00 0.00 5.36
1289 1385 0.752009 AATCTACCGCGGCTCTCTGA 60.752 55.000 28.58 14.51 0.00 3.27
1314 1410 3.627395 TCTCAATCCACCGCAGTAAAT 57.373 42.857 0.00 0.00 0.00 1.40
1318 1414 2.026822 AGAAATCTCAATCCACCGCAGT 60.027 45.455 0.00 0.00 0.00 4.40
1354 1450 1.376812 CTGATCCAGCTGCAGCACA 60.377 57.895 38.24 25.58 45.16 4.57
1358 1454 2.192443 CCCCTGATCCAGCTGCAG 59.808 66.667 10.11 10.11 0.00 4.41
1369 1465 1.609501 CTCCACGAACTCCCCCTGA 60.610 63.158 0.00 0.00 0.00 3.86
1408 1504 2.124695 GCGGGGTCATCCACCTTC 60.125 66.667 0.00 0.00 45.95 3.46
1506 1610 5.183713 TGGCAAGTTCAATCATAAAGACTGG 59.816 40.000 0.00 0.00 0.00 4.00
1529 1633 6.294473 AGCAGTAGGATTGATTTATCCACTG 58.706 40.000 19.54 19.54 45.45 3.66
1551 1655 7.627298 ATCTTAGATATGATGCATTTGGAGC 57.373 36.000 0.00 0.00 0.00 4.70
1563 1667 9.755804 CACTAGCAAGTTCAATCTTAGATATGA 57.244 33.333 0.00 0.00 31.97 2.15
1565 1669 8.600449 GCACTAGCAAGTTCAATCTTAGATAT 57.400 34.615 0.00 0.00 41.58 1.63
1594 1698 9.084164 GTTTCAGAAATGAAATCAGGATTGATG 57.916 33.333 6.69 0.00 43.20 3.07
1647 1751 6.757897 TCAATCTTAGGTTCGATGCATTTT 57.242 33.333 0.00 0.00 0.00 1.82
1658 1762 5.412904 GCACTAGCAACTTCAATCTTAGGTT 59.587 40.000 0.00 0.00 41.58 3.50
1717 1821 3.557595 CAGAACTTCGAAGCTGACTGTTT 59.442 43.478 24.86 8.99 0.00 2.83
1723 1827 3.187227 GCATTTCAGAACTTCGAAGCTGA 59.813 43.478 24.86 24.05 35.74 4.26
1729 1833 5.106712 GGTATGTTGCATTTCAGAACTTCGA 60.107 40.000 0.00 0.00 0.00 3.71
1731 1835 6.259550 AGGTATGTTGCATTTCAGAACTTC 57.740 37.500 0.00 0.00 0.00 3.01
1747 1851 7.766278 CACTAGCAACTTCAATCTTAGGTATGT 59.234 37.037 0.00 0.00 0.00 2.29
1749 1853 6.763610 GCACTAGCAACTTCAATCTTAGGTAT 59.236 38.462 0.00 0.00 41.58 2.73
1809 2012 2.147150 GAACTTGGGAGCTGACTGTTC 58.853 52.381 0.00 0.00 0.00 3.18
1901 2104 2.315176 GAGAGCCTGCTTAGATCTCCA 58.685 52.381 0.00 0.00 32.10 3.86
1933 2136 4.271687 GTTATTATGCTACTGTTGTGCGC 58.728 43.478 0.00 0.00 0.00 6.09
1954 2157 2.597510 GTGCTCTTTTGGCCCGGT 60.598 61.111 0.00 0.00 0.00 5.28
1996 2199 1.754226 GACACTTTTGAGGCAAACCCA 59.246 47.619 0.00 0.00 32.79 4.51
1998 2201 2.034685 GGAGACACTTTTGAGGCAAACC 59.965 50.000 0.00 0.00 32.79 3.27
2022 2225 1.087771 GGAAATGTCGGCCGTGGTAG 61.088 60.000 27.15 0.00 0.00 3.18
2023 2226 1.078988 GGAAATGTCGGCCGTGGTA 60.079 57.895 27.15 10.43 0.00 3.25
2037 2240 2.032528 CGTCAGGCAGCTGGGAAA 59.967 61.111 17.12 0.00 0.00 3.13
2069 2272 1.135402 GCCAAAGATTGCCGTAACTGG 60.135 52.381 0.00 0.00 0.00 4.00
2084 2287 2.650196 GCGCTGATGGTTGCCAAA 59.350 55.556 0.00 0.00 36.95 3.28
2102 2305 4.227134 CCATCAGAGGCGGGGTCG 62.227 72.222 0.00 0.00 39.81 4.79
2109 2312 4.438148 GTCTAAGTTCTTCCATCAGAGGC 58.562 47.826 0.00 0.00 0.00 4.70
2110 2313 4.677584 CGTCTAAGTTCTTCCATCAGAGG 58.322 47.826 0.00 0.00 0.00 3.69
2112 2315 3.119101 GGCGTCTAAGTTCTTCCATCAGA 60.119 47.826 0.00 0.00 0.00 3.27
2113 2316 3.190874 GGCGTCTAAGTTCTTCCATCAG 58.809 50.000 0.00 0.00 0.00 2.90
2114 2317 2.565391 TGGCGTCTAAGTTCTTCCATCA 59.435 45.455 0.00 0.00 0.00 3.07
2115 2318 2.930682 GTGGCGTCTAAGTTCTTCCATC 59.069 50.000 0.00 0.00 0.00 3.51
2116 2319 2.567615 AGTGGCGTCTAAGTTCTTCCAT 59.432 45.455 0.00 0.00 0.00 3.41
2117 2320 1.968493 AGTGGCGTCTAAGTTCTTCCA 59.032 47.619 0.00 0.00 0.00 3.53
2118 2321 2.737252 CAAGTGGCGTCTAAGTTCTTCC 59.263 50.000 0.00 0.00 0.00 3.46
2136 2340 2.417787 GGGGCAAGCTTATTTCTGCAAG 60.418 50.000 0.00 0.00 0.00 4.01
2224 2428 0.093026 CTTGTAGCGAAAACGGCTCG 59.907 55.000 0.00 0.00 41.80 5.03
2244 2448 4.395231 GTGTTTCCTTATGACCCAACTAGC 59.605 45.833 0.00 0.00 0.00 3.42
2285 2489 0.635009 TAGCTGTAGGGTGGGTAGCT 59.365 55.000 0.00 0.00 45.74 3.32
2286 2490 1.413077 CTTAGCTGTAGGGTGGGTAGC 59.587 57.143 0.00 0.00 34.71 3.58
2287 2491 1.413077 GCTTAGCTGTAGGGTGGGTAG 59.587 57.143 0.00 0.00 0.00 3.18
2291 2495 1.521681 GCGCTTAGCTGTAGGGTGG 60.522 63.158 0.00 0.00 44.04 4.61
2292 2496 4.110493 GCGCTTAGCTGTAGGGTG 57.890 61.111 0.00 1.17 44.04 4.61
2310 2544 1.059584 TTGCAAGGGTCTCACAGGGA 61.060 55.000 0.00 0.00 0.00 4.20
2351 2585 8.261492 ACATTGAGATAAGTTCAGTAGCAAAG 57.739 34.615 0.00 0.00 0.00 2.77
2418 2653 2.063156 TTTGTGCATTGTTCCATCGC 57.937 45.000 0.00 0.00 0.00 4.58
2578 3972 4.171234 AGGAAGTTTCTCTCCAATGAGGA 58.829 43.478 0.00 0.00 46.75 3.71
2605 4000 1.004745 AGAGGGTAAACTGGGCACATG 59.995 52.381 0.00 0.00 0.00 3.21
2663 4059 3.116174 GGGTCCCCTACTCAAGAAAGAT 58.884 50.000 0.00 0.00 0.00 2.40
2664 4060 2.547990 GGGTCCCCTACTCAAGAAAGA 58.452 52.381 0.00 0.00 0.00 2.52
2665 4061 1.560146 GGGGTCCCCTACTCAAGAAAG 59.440 57.143 21.13 0.00 41.34 2.62
2704 4101 0.250124 TTACTTGTGTGGAGGCGGTG 60.250 55.000 0.00 0.00 0.00 4.94
2742 4139 2.672098 GGAGAGGCTAATCAGGACAGA 58.328 52.381 0.00 0.00 0.00 3.41
2756 4153 5.711976 AGTGAAATATGTTGTTTGGGAGAGG 59.288 40.000 0.00 0.00 0.00 3.69
2757 4154 6.656693 AGAGTGAAATATGTTGTTTGGGAGAG 59.343 38.462 0.00 0.00 0.00 3.20
2789 4186 9.638176 AGCATTCATCTGGTTTTAAGATATTCT 57.362 29.630 0.00 0.00 33.03 2.40
2796 4193 6.587608 GGTTTGAGCATTCATCTGGTTTTAAG 59.412 38.462 0.00 0.00 32.27 1.85
2799 4196 4.344679 TGGTTTGAGCATTCATCTGGTTTT 59.655 37.500 0.00 0.00 32.27 2.43
2800 4197 3.896888 TGGTTTGAGCATTCATCTGGTTT 59.103 39.130 0.00 0.00 32.27 3.27
2801 4198 3.499338 TGGTTTGAGCATTCATCTGGTT 58.501 40.909 0.00 0.00 32.27 3.67
2802 4199 3.087031 CTGGTTTGAGCATTCATCTGGT 58.913 45.455 0.00 0.00 32.27 4.00
2803 4200 3.349927 TCTGGTTTGAGCATTCATCTGG 58.650 45.455 0.00 0.00 32.27 3.86
2804 4201 6.688637 TTATCTGGTTTGAGCATTCATCTG 57.311 37.500 0.00 0.00 32.27 2.90
2805 4202 7.558807 TGATTTATCTGGTTTGAGCATTCATCT 59.441 33.333 0.00 0.00 32.27 2.90
2806 4203 7.709947 TGATTTATCTGGTTTGAGCATTCATC 58.290 34.615 0.00 0.00 32.27 2.92
2807 4204 7.649533 TGATTTATCTGGTTTGAGCATTCAT 57.350 32.000 0.00 0.00 32.27 2.57
2808 4205 7.315142 GTTGATTTATCTGGTTTGAGCATTCA 58.685 34.615 0.00 0.00 0.00 2.57
2809 4206 6.753744 GGTTGATTTATCTGGTTTGAGCATTC 59.246 38.462 0.00 0.00 0.00 2.67
2810 4207 6.438425 AGGTTGATTTATCTGGTTTGAGCATT 59.562 34.615 0.00 0.00 0.00 3.56
2811 4208 5.954150 AGGTTGATTTATCTGGTTTGAGCAT 59.046 36.000 0.00 0.00 0.00 3.79
2812 4209 5.324409 AGGTTGATTTATCTGGTTTGAGCA 58.676 37.500 0.00 0.00 0.00 4.26
2813 4210 5.415701 TGAGGTTGATTTATCTGGTTTGAGC 59.584 40.000 0.00 0.00 0.00 4.26
2814 4211 7.452880 TTGAGGTTGATTTATCTGGTTTGAG 57.547 36.000 0.00 0.00 0.00 3.02
2815 4212 7.286546 TGTTTGAGGTTGATTTATCTGGTTTGA 59.713 33.333 0.00 0.00 0.00 2.69
2816 4213 7.432869 TGTTTGAGGTTGATTTATCTGGTTTG 58.567 34.615 0.00 0.00 0.00 2.93
2930 4334 9.144747 ACATATGCTCGAGCTTGTTATTAATAG 57.855 33.333 35.27 16.06 42.66 1.73
2931 4335 9.489084 AACATATGCTCGAGCTTGTTATTAATA 57.511 29.630 32.81 22.89 42.66 0.98
2932 4336 7.969536 ACATATGCTCGAGCTTGTTATTAAT 57.030 32.000 35.27 20.18 42.66 1.40
2933 4337 7.786178 AACATATGCTCGAGCTTGTTATTAA 57.214 32.000 32.81 17.66 42.66 1.40
2934 4338 7.786178 AAACATATGCTCGAGCTTGTTATTA 57.214 32.000 33.36 18.86 42.66 0.98
2935 4339 6.683974 AAACATATGCTCGAGCTTGTTATT 57.316 33.333 33.36 24.10 42.66 1.40
2936 4340 6.489675 CAAAACATATGCTCGAGCTTGTTAT 58.510 36.000 33.36 24.48 42.66 1.89
2937 4341 5.673568 GCAAAACATATGCTCGAGCTTGTTA 60.674 40.000 33.36 23.35 42.66 2.41
2938 4342 4.726416 CAAAACATATGCTCGAGCTTGTT 58.274 39.130 35.27 32.43 42.66 2.83
2939 4343 3.426695 GCAAAACATATGCTCGAGCTTGT 60.427 43.478 35.27 29.53 42.66 3.16
3188 4610 0.473755 ATGTGCAGTCCAGGAACACA 59.526 50.000 18.81 18.81 44.56 3.72
3346 4768 2.618053 GTGACTTCCCCGTTGTCATAG 58.382 52.381 0.00 0.00 41.78 2.23
3578 5000 3.002791 TGAAAGCGACAAGATGGATCAC 58.997 45.455 0.00 0.00 0.00 3.06
3643 5065 1.972198 CAGTCCCGACAGGTTAGCA 59.028 57.895 0.00 0.00 36.75 3.49
3655 5077 2.543777 TACAAGTGTTCAGCAGTCCC 57.456 50.000 0.00 0.00 0.00 4.46
3693 5115 4.425577 AACAGCTTTAGAGATTTTGGCG 57.574 40.909 0.00 0.00 0.00 5.69
3694 5116 7.538575 TCAATAACAGCTTTAGAGATTTTGGC 58.461 34.615 0.00 0.00 0.00 4.52
3770 5192 3.390135 ACACATAAGAACAGTGACACGG 58.610 45.455 4.02 4.02 37.05 4.94
3924 5353 8.286800 GTGGAAATAAAAATGGTTAAAGCCAAC 58.713 33.333 0.00 0.00 42.48 3.77
4024 5453 2.224793 GGGGCGGATAAATAAAGGCTCT 60.225 50.000 0.00 0.00 0.00 4.09
4147 5576 1.890894 CTCCAACTCGTCACGGGAT 59.109 57.895 2.63 0.00 0.00 3.85
4359 5788 0.755079 TGAGGGATCTTCATCTGGCG 59.245 55.000 0.00 0.00 0.00 5.69
4374 5803 6.916440 TGATCATCATCAACAAAAGTTGAGG 58.084 36.000 14.63 14.63 45.12 3.86
4695 6124 1.817099 GCCACATCTCCAGCTTCGG 60.817 63.158 0.00 0.00 0.00 4.30
4696 6125 1.817099 GGCCACATCTCCAGCTTCG 60.817 63.158 0.00 0.00 0.00 3.79
4831 6263 3.681897 CCAGTTGATCAAGCACTACTGAC 59.318 47.826 19.80 2.29 40.33 3.51
4842 6274 5.436175 TGTCAGACTTTTCCAGTTGATCAA 58.564 37.500 3.38 3.38 35.01 2.57
4851 6283 9.547753 GCTCTATTATAATGTCAGACTTTTCCA 57.452 33.333 8.28 0.00 0.00 3.53
4895 6327 0.110192 CGAAGGCTTGAACTTTCGGC 60.110 55.000 3.46 0.00 0.00 5.54
4897 6329 0.586319 TGCGAAGGCTTGAACTTTCG 59.414 50.000 3.46 0.42 40.82 3.46
4921 6353 5.189736 ACAATCTGTTACCTCTGCATTCCTA 59.810 40.000 0.00 0.00 0.00 2.94
4924 6356 4.937620 TGACAATCTGTTACCTCTGCATTC 59.062 41.667 0.00 0.00 0.00 2.67
4933 6365 3.621715 GGTCCGATTGACAATCTGTTACC 59.378 47.826 22.54 18.77 46.38 2.85
4949 6381 3.986006 GACACACAGGCGGTCCGA 61.986 66.667 17.49 0.00 37.47 4.55
4956 6388 0.537143 TGACCCAATGACACACAGGC 60.537 55.000 0.00 0.00 0.00 4.85
4972 6404 3.761657 TGCATGCAAAGATTTCGATGAC 58.238 40.909 20.30 0.00 0.00 3.06
5275 6839 8.600668 ACACACATATGCTCTCCAGATATATTT 58.399 33.333 1.58 0.00 0.00 1.40
5458 7022 6.662865 TGCAAAAGTCCATCCAGATTTTAA 57.337 33.333 0.00 0.00 0.00 1.52
5459 7023 6.267471 ACTTGCAAAAGTCCATCCAGATTTTA 59.733 34.615 0.00 0.00 0.00 1.52
5536 8110 2.113860 TGGGAACTAGAACATGCAGC 57.886 50.000 0.00 0.00 0.00 5.25
5769 8347 1.677052 GTAAAAAGGGTGTGAACCGCA 59.323 47.619 0.00 0.00 0.00 5.69
5771 8349 3.489568 GGTTGTAAAAAGGGTGTGAACCG 60.490 47.826 0.00 0.00 0.00 4.44
5845 8423 0.175760 GTGGCAATAGGTCGAGCTCA 59.824 55.000 22.33 9.71 0.00 4.26
5927 8505 2.614829 ACTGCGACAGGTACAAGTTT 57.385 45.000 10.80 0.00 35.51 2.66
5969 8547 0.924090 GCAGCAACGTTATCGGAGAG 59.076 55.000 0.00 0.00 43.63 3.20
5970 8548 0.530744 AGCAGCAACGTTATCGGAGA 59.469 50.000 0.00 0.00 45.75 3.71
5978 8556 0.243636 GCCCATTTAGCAGCAACGTT 59.756 50.000 0.00 0.00 0.00 3.99
6029 8607 2.813754 CGAAGTTGCTGGAAAATGGAGA 59.186 45.455 0.00 0.00 0.00 3.71
6111 8689 7.334421 ACTCATACGTCATGCAAATACTTCTTT 59.666 33.333 0.00 0.00 34.35 2.52
6118 8702 7.272037 TCTCTACTCATACGTCATGCAAATA 57.728 36.000 0.00 0.00 34.35 1.40
6152 8739 4.363999 CTGATCGTGTGGAGAGGTAATTC 58.636 47.826 0.00 0.00 0.00 2.17
6153 8740 3.133003 CCTGATCGTGTGGAGAGGTAATT 59.867 47.826 0.00 0.00 0.00 1.40
6154 8741 2.695666 CCTGATCGTGTGGAGAGGTAAT 59.304 50.000 0.00 0.00 0.00 1.89
6167 8754 2.859273 CTTGCGAAGGCCCTGATCGT 62.859 60.000 16.14 0.00 38.75 3.73
6278 8865 5.662674 ATGACTACTACTCCGCTCTTTTT 57.337 39.130 0.00 0.00 0.00 1.94


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

AutoCloner maintained by Alex Coulton.