Multiple sequence alignment - TraesCS4D01G243300

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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 TraesCS4D01G243300 chr4D 100.000 5493 0 0 994 6486 405783362 405777870 0.000000e+00 10144
1 TraesCS4D01G243300 chr4D 100.000 536 0 0 1 536 405784355 405783820 0.000000e+00 990
2 TraesCS4D01G243300 chr4D 97.758 223 4 1 6168 6389 258173152 258172930 3.670000e-102 383
3 TraesCS4D01G243300 chr4D 94.554 202 11 0 1764 1965 405782544 405782343 4.880000e-81 313
4 TraesCS4D01G243300 chr4D 94.554 202 11 0 1812 2013 405782592 405782391 4.880000e-81 313
5 TraesCS4D01G243300 chr4D 92.157 153 12 0 1764 1916 405782496 405782344 3.940000e-52 217
6 TraesCS4D01G243300 chr4B 96.000 5200 147 17 994 6163 505096535 505091367 0.000000e+00 8394
7 TraesCS4D01G243300 chr4B 87.238 572 23 14 1 532 505097136 505096575 2.000000e-169 606
8 TraesCS4D01G243300 chr4B 94.059 202 12 0 1812 2013 505095765 505095564 2.270000e-79 307
9 TraesCS4D01G243300 chr4B 91.089 202 18 0 1764 1965 505095717 505095516 2.300000e-69 274
10 TraesCS4D01G243300 chr4B 94.805 154 8 0 1860 2013 505095765 505095612 2.340000e-59 241
11 TraesCS4D01G243300 chr4B 97.727 88 2 0 6399 6486 505091365 505091278 1.130000e-32 152
12 TraesCS4D01G243300 chr4A 97.038 4929 106 10 994 5916 63552357 63547463 0.000000e+00 8257
13 TraesCS4D01G243300 chr4A 86.422 545 35 25 1 532 63552919 63552401 1.580000e-155 560
14 TraesCS4D01G243300 chr4A 95.312 192 9 0 5913 6104 63547282 63547091 8.170000e-79 305
15 TraesCS4D01G243300 chr4A 93.069 202 14 0 1812 2013 63551590 63551389 4.920000e-76 296
16 TraesCS4D01G243300 chr4A 91.089 202 18 0 1764 1965 63551542 63551341 2.300000e-69 274
17 TraesCS4D01G243300 chr4A 96.591 88 3 0 6399 6486 63546831 63546744 5.240000e-31 147
18 TraesCS4D01G243300 chr6D 97.817 229 4 1 6162 6389 289430778 289430550 1.700000e-105 394
19 TraesCS4D01G243300 chr6B 96.943 229 5 2 6162 6389 237702045 237702272 3.670000e-102 383
20 TraesCS4D01G243300 chr1D 97.758 223 2 3 6169 6389 154839666 154839445 1.320000e-101 381
21 TraesCS4D01G243300 chr3D 97.309 223 5 1 6168 6389 125555594 125555372 1.710000e-100 377
22 TraesCS4D01G243300 chr1A 97.321 224 3 3 6168 6389 228722399 228722177 1.710000e-100 377
23 TraesCS4D01G243300 chr1A 97.321 224 3 3 6168 6389 305626528 305626750 1.710000e-100 377
24 TraesCS4D01G243300 chr1A 97.321 224 3 3 6168 6389 430934973 430935195 1.710000e-100 377
25 TraesCS4D01G243300 chr7A 96.491 228 7 1 6163 6389 144860589 144860362 6.140000e-100 375


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 TraesCS4D01G243300 chr4D 405777870 405784355 6485 True 2395.400000 10144 96.253000 1 6486 5 chr4D.!!$R2 6485
1 TraesCS4D01G243300 chr4B 505091278 505097136 5858 True 1662.333333 8394 93.486333 1 6486 6 chr4B.!!$R1 6485
2 TraesCS4D01G243300 chr4A 63546744 63552919 6175 True 1639.833333 8257 93.253500 1 6486 6 chr4A.!!$R1 6485


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
532 583 0.106894 CACCCGCTCCTTCCTTATCC 59.893 60.000 0.00 0.0 0.00 2.59 F
534 585 1.755384 CCGCTCCTTCCTTATCCCC 59.245 63.158 0.00 0.0 0.00 4.81 F
1868 1925 0.036388 TCGGATGTCACAGGGAAAGC 60.036 55.000 0.00 0.0 0.00 3.51 F
1916 1973 0.036388 TCGGATGTCACAGGGAAAGC 60.036 55.000 0.00 0.0 0.00 3.51 F
1924 1981 0.746063 CACAGGGAAAGCAGCAAACA 59.254 50.000 0.00 0.0 0.00 2.83 F
2428 2506 1.258982 GATATTGCGCTTCGTCCAGTG 59.741 52.381 9.73 0.0 0.00 3.66 F
3339 3417 1.442184 CTCCCAGTTGTCGTCGTCG 60.442 63.158 0.00 0.0 38.55 5.12 F
3567 3645 3.224417 ATCTACCGAGAAAGGGAACCCC 61.224 54.545 6.23 0.0 43.09 4.95 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1754 1811 0.036388 TACTTTCCCTGCTTCTGCGG 60.036 55.000 0.00 0.00 44.81 5.69 R
1901 1958 0.111061 TGCTGCTTTCCCTGTGACAT 59.889 50.000 0.00 0.00 0.00 3.06 R
3304 3382 0.250640 GAGCATGGTCCATGGGCTAG 60.251 60.000 29.17 7.57 41.64 3.42 R
3324 3402 0.386858 ATGACGACGACGACAACTGG 60.387 55.000 15.32 0.00 45.19 4.00 R
3567 3645 1.002087 ACTTTCTGAAGTAGCGGGGTG 59.998 52.381 0.00 0.00 44.13 4.61 R
4202 4280 2.771089 TGCAAGAACTACAGAAGCCAG 58.229 47.619 0.00 0.00 0.00 4.85 R
4620 4698 2.476185 CGGCTTACCAGAAAAGAATGCG 60.476 50.000 0.00 0.00 34.57 4.73 R
5507 5593 2.558359 AGCAAGTTTGGTATCTGCAACC 59.442 45.455 0.00 0.00 37.09 3.77 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
50 51 2.093816 TGGCTCACACATCAGAGATCAC 60.094 50.000 0.00 0.00 33.74 3.06
51 52 2.168106 GGCTCACACATCAGAGATCACT 59.832 50.000 0.00 0.00 33.74 3.41
105 107 1.695893 GCACGACACGACCCATCATG 61.696 60.000 0.00 0.00 0.00 3.07
106 108 1.447838 ACGACACGACCCATCATGC 60.448 57.895 0.00 0.00 0.00 4.06
110 112 3.014538 ACGACCCATCATGCCCCA 61.015 61.111 0.00 0.00 0.00 4.96
111 113 2.203252 CGACCCATCATGCCCCAG 60.203 66.667 0.00 0.00 0.00 4.45
112 114 2.520260 GACCCATCATGCCCCAGC 60.520 66.667 0.00 0.00 40.48 4.85
113 115 4.147587 ACCCATCATGCCCCAGCC 62.148 66.667 0.00 0.00 38.69 4.85
532 583 0.106894 CACCCGCTCCTTCCTTATCC 59.893 60.000 0.00 0.00 0.00 2.59
534 585 1.755384 CCGCTCCTTCCTTATCCCC 59.245 63.158 0.00 0.00 0.00 4.81
1071 1122 2.694760 GCGGAGGTTCTACGACCGT 61.695 63.158 3.47 0.00 40.79 4.83
1405 1462 4.988598 ACGGCCACAAGTCTGCGG 62.989 66.667 2.24 0.00 0.00 5.69
1743 1800 3.118075 GGAAGGAGAAAGGGAAGATCAGG 60.118 52.174 0.00 0.00 0.00 3.86
1754 1811 2.152830 GAAGATCAGGGATGATGCAGC 58.847 52.381 0.00 0.00 0.00 5.25
1755 1812 0.400975 AGATCAGGGATGATGCAGCC 59.599 55.000 0.00 0.00 39.48 4.85
1775 1832 2.359900 CGCAGAAGCAGGGAAAGTAAT 58.640 47.619 0.00 0.00 42.27 1.89
1826 1883 3.126001 TGTCACAGGGAAAGTAGCAAG 57.874 47.619 0.00 0.00 0.00 4.01
1868 1925 0.036388 TCGGATGTCACAGGGAAAGC 60.036 55.000 0.00 0.00 0.00 3.51
1893 1950 3.818961 AACACACAGCATGAGAAATCG 57.181 42.857 0.00 0.00 39.69 3.34
1901 1958 1.869774 CATGAGAAATCGGCATCGGA 58.130 50.000 0.00 0.00 36.95 4.55
1910 1967 1.884464 CGGCATCGGATGTCACAGG 60.884 63.158 21.30 2.39 33.60 4.00
1916 1973 0.036388 TCGGATGTCACAGGGAAAGC 60.036 55.000 0.00 0.00 0.00 3.51
1924 1981 0.746063 CACAGGGAAAGCAGCAAACA 59.254 50.000 0.00 0.00 0.00 2.83
2241 2319 2.109834 TGTCAATGATGTTGGGAAGGGT 59.890 45.455 0.00 0.00 0.00 4.34
2428 2506 1.258982 GATATTGCGCTTCGTCCAGTG 59.741 52.381 9.73 0.00 0.00 3.66
2522 2600 2.307098 AGGCCAGTTCTTTCAGTATGCT 59.693 45.455 5.01 0.00 34.76 3.79
2900 2978 1.885233 AGAAGAAAAAGAGGCAGCAGC 59.115 47.619 0.00 0.00 41.10 5.25
3256 3334 4.632153 TCTTTCACTAAGCTTGTCAGGTC 58.368 43.478 9.86 0.00 33.66 3.85
3304 3382 2.834549 TCTGTTCCCAGACCTGATTCTC 59.165 50.000 0.00 0.00 42.80 2.87
3324 3402 1.708993 TAGCCCATGGACCATGCTCC 61.709 60.000 26.56 16.48 40.20 4.70
3339 3417 1.442184 CTCCCAGTTGTCGTCGTCG 60.442 63.158 0.00 0.00 38.55 5.12
3381 3459 6.705863 AATTCAGATGGAATAACAGCTTCC 57.294 37.500 0.00 0.00 45.46 3.46
3567 3645 3.224417 ATCTACCGAGAAAGGGAACCCC 61.224 54.545 6.23 0.00 43.09 4.95
3614 3692 7.451255 ACTCCAAAATGGTCATTTGTCAGATAA 59.549 33.333 9.37 0.00 40.57 1.75
4202 4280 9.677567 TGATTGTAAAATTTGTAAGCAGAAGAC 57.322 29.630 0.00 0.00 0.00 3.01
4206 4284 4.773323 AATTTGTAAGCAGAAGACTGGC 57.227 40.909 0.00 0.00 43.62 4.85
5100 5186 4.657039 AGGTGTTGTTTCTACTACTGGGAA 59.343 41.667 0.00 0.00 32.26 3.97
5177 5263 4.225942 AGCCAGTTTCTGATGAACTGGATA 59.774 41.667 31.31 0.00 44.64 2.59
5315 5401 8.791327 TGAAGAACATTATGCTACTCAAATGA 57.209 30.769 0.00 0.00 34.26 2.57
5470 5556 4.836825 TGAAAATGGAGGCAACAAAACAA 58.163 34.783 0.00 0.00 41.41 2.83
5507 5593 0.872388 GAGGTTACTGCCCGTGTTTG 59.128 55.000 0.00 0.00 0.00 2.93
5595 5681 7.815383 TCTTTCATGGTATATTCCCTTGATGT 58.185 34.615 9.25 0.00 36.41 3.06
5656 5742 9.753674 TCAAATGTTATCCAGTATCTTCCTTTT 57.246 29.630 0.00 0.00 0.00 2.27
6029 6299 4.805719 GCAGCTACTTTGCACTTTCTTTTT 59.194 37.500 0.00 0.00 41.17 1.94
6061 6331 2.548057 AGTTTACCACAATGCAGACACG 59.452 45.455 0.00 0.00 0.00 4.49
6079 6349 3.550275 ACACGCACACAATGTCGTATATC 59.450 43.478 0.00 0.00 34.31 1.63
6135 6607 4.764308 GGGGAATGAAATGATAAGCTCTCC 59.236 45.833 0.00 0.00 0.00 3.71
6156 6628 5.379187 TCCGCTAGACTAATGTGGTGTATA 58.621 41.667 0.00 0.00 33.50 1.47
6157 6629 5.829391 TCCGCTAGACTAATGTGGTGTATAA 59.171 40.000 0.00 0.00 33.50 0.98
6160 6632 7.656137 CCGCTAGACTAATGTGGTGTATAATTT 59.344 37.037 0.00 0.00 0.00 1.82
6161 6633 9.042008 CGCTAGACTAATGTGGTGTATAATTTT 57.958 33.333 0.00 0.00 0.00 1.82
6164 6636 8.519799 AGACTAATGTGGTGTATAATTTTGGG 57.480 34.615 0.00 0.00 0.00 4.12
6165 6637 8.113462 AGACTAATGTGGTGTATAATTTTGGGT 58.887 33.333 0.00 0.00 0.00 4.51
6166 6638 8.658840 ACTAATGTGGTGTATAATTTTGGGTT 57.341 30.769 0.00 0.00 0.00 4.11
6167 6639 9.756571 ACTAATGTGGTGTATAATTTTGGGTTA 57.243 29.630 0.00 0.00 0.00 2.85
6183 6655 9.830975 ATTTTGGGTTAATTAGATAAATGCCAC 57.169 29.630 0.00 0.00 0.00 5.01
6184 6656 8.602472 TTTGGGTTAATTAGATAAATGCCACT 57.398 30.769 0.00 0.00 0.00 4.00
6185 6657 7.817418 TGGGTTAATTAGATAAATGCCACTC 57.183 36.000 0.00 0.00 0.00 3.51
6186 6658 6.775629 TGGGTTAATTAGATAAATGCCACTCC 59.224 38.462 0.00 0.00 0.00 3.85
6187 6659 6.775629 GGGTTAATTAGATAAATGCCACTCCA 59.224 38.462 0.00 0.00 0.00 3.86
6188 6660 7.286775 GGGTTAATTAGATAAATGCCACTCCAA 59.713 37.037 0.00 0.00 0.00 3.53
6189 6661 8.860088 GGTTAATTAGATAAATGCCACTCCAAT 58.140 33.333 0.00 0.00 0.00 3.16
6210 6682 7.512297 CCAATTATGGCGATTCATAAAAATGC 58.488 34.615 9.27 0.00 41.26 3.56
6211 6683 7.360269 CCAATTATGGCGATTCATAAAAATGCC 60.360 37.037 9.27 0.00 41.26 4.40
6213 6685 3.779759 TGGCGATTCATAAAAATGCCAC 58.220 40.909 0.00 0.00 45.35 5.01
6214 6686 3.446873 TGGCGATTCATAAAAATGCCACT 59.553 39.130 0.00 0.00 45.35 4.00
6215 6687 3.798337 GGCGATTCATAAAAATGCCACTG 59.202 43.478 0.00 0.00 40.66 3.66
6216 6688 3.243643 GCGATTCATAAAAATGCCACTGC 59.756 43.478 0.00 0.00 38.26 4.40
6227 6699 2.237393 TGCCACTGCAATTTCCAAAC 57.763 45.000 0.00 0.00 46.66 2.93
6228 6700 1.761784 TGCCACTGCAATTTCCAAACT 59.238 42.857 0.00 0.00 46.66 2.66
6229 6701 2.170187 TGCCACTGCAATTTCCAAACTT 59.830 40.909 0.00 0.00 46.66 2.66
6230 6702 3.205338 GCCACTGCAATTTCCAAACTTT 58.795 40.909 0.00 0.00 37.47 2.66
6231 6703 3.002553 GCCACTGCAATTTCCAAACTTTG 59.997 43.478 0.00 0.00 37.47 2.77
6232 6704 4.440880 CCACTGCAATTTCCAAACTTTGA 58.559 39.130 2.87 0.00 0.00 2.69
6233 6705 4.874966 CCACTGCAATTTCCAAACTTTGAA 59.125 37.500 2.87 0.00 0.00 2.69
6234 6706 5.353678 CCACTGCAATTTCCAAACTTTGAAA 59.646 36.000 2.87 3.11 0.00 2.69
6235 6707 6.128063 CCACTGCAATTTCCAAACTTTGAAAA 60.128 34.615 2.87 0.00 0.00 2.29
6236 6708 7.303998 CACTGCAATTTCCAAACTTTGAAAAA 58.696 30.769 2.87 4.27 0.00 1.94
6237 6709 7.969508 CACTGCAATTTCCAAACTTTGAAAAAT 59.030 29.630 2.87 6.16 31.56 1.82
6238 6710 7.969508 ACTGCAATTTCCAAACTTTGAAAAATG 59.030 29.630 2.87 0.43 31.07 2.32
6239 6711 6.750963 TGCAATTTCCAAACTTTGAAAAATGC 59.249 30.769 15.62 15.62 31.07 3.56
6240 6712 6.198778 GCAATTTCCAAACTTTGAAAAATGCC 59.801 34.615 12.80 6.14 31.07 4.40
6241 6713 7.256286 CAATTTCCAAACTTTGAAAAATGCCA 58.744 30.769 2.87 0.00 31.07 4.92
6242 6714 5.809719 TTCCAAACTTTGAAAAATGCCAC 57.190 34.783 2.87 0.00 0.00 5.01
6243 6715 5.096443 TCCAAACTTTGAAAAATGCCACT 57.904 34.783 2.87 0.00 0.00 4.00
6244 6716 4.874966 TCCAAACTTTGAAAAATGCCACTG 59.125 37.500 2.87 0.00 0.00 3.66
6245 6717 4.496175 CCAAACTTTGAAAAATGCCACTGC 60.496 41.667 2.87 0.00 38.26 4.40
6270 6742 6.609907 ATTTTTGCAAACTTTGAAAAACGC 57.390 29.167 16.90 0.00 45.39 4.84
6271 6743 3.731274 TTGCAAACTTTGAAAAACGCC 57.269 38.095 5.65 0.00 0.00 5.68
6272 6744 2.688507 TGCAAACTTTGAAAAACGCCA 58.311 38.095 5.65 0.00 0.00 5.69
6273 6745 2.413453 TGCAAACTTTGAAAAACGCCAC 59.587 40.909 5.65 0.00 0.00 5.01
6274 6746 2.670905 GCAAACTTTGAAAAACGCCACT 59.329 40.909 5.65 0.00 0.00 4.00
6275 6747 3.241963 GCAAACTTTGAAAAACGCCACTC 60.242 43.478 5.65 0.00 0.00 3.51
6276 6748 2.863401 ACTTTGAAAAACGCCACTCC 57.137 45.000 0.00 0.00 0.00 3.85
6277 6749 2.096248 ACTTTGAAAAACGCCACTCCA 58.904 42.857 0.00 0.00 0.00 3.86
6278 6750 2.099098 ACTTTGAAAAACGCCACTCCAG 59.901 45.455 0.00 0.00 0.00 3.86
6279 6751 2.045561 TTGAAAAACGCCACTCCAGA 57.954 45.000 0.00 0.00 0.00 3.86
6280 6752 1.305201 TGAAAAACGCCACTCCAGAC 58.695 50.000 0.00 0.00 0.00 3.51
6281 6753 1.134220 TGAAAAACGCCACTCCAGACT 60.134 47.619 0.00 0.00 0.00 3.24
6282 6754 1.947456 GAAAAACGCCACTCCAGACTT 59.053 47.619 0.00 0.00 0.00 3.01
6283 6755 1.594331 AAAACGCCACTCCAGACTTC 58.406 50.000 0.00 0.00 0.00 3.01
6284 6756 0.600255 AAACGCCACTCCAGACTTCG 60.600 55.000 0.00 0.00 0.00 3.79
6285 6757 1.461091 AACGCCACTCCAGACTTCGA 61.461 55.000 0.00 0.00 0.00 3.71
6286 6758 1.289066 CGCCACTCCAGACTTCGAA 59.711 57.895 0.00 0.00 0.00 3.71
6287 6759 0.319555 CGCCACTCCAGACTTCGAAA 60.320 55.000 0.00 0.00 0.00 3.46
6288 6760 1.872237 CGCCACTCCAGACTTCGAAAA 60.872 52.381 0.00 0.00 0.00 2.29
6289 6761 2.218603 GCCACTCCAGACTTCGAAAAA 58.781 47.619 0.00 0.00 0.00 1.94
6290 6762 2.814336 GCCACTCCAGACTTCGAAAAAT 59.186 45.455 0.00 0.00 0.00 1.82
6291 6763 3.365364 GCCACTCCAGACTTCGAAAAATG 60.365 47.826 0.00 0.00 0.00 2.32
6292 6764 3.365364 CCACTCCAGACTTCGAAAAATGC 60.365 47.826 0.00 0.00 0.00 3.56
6293 6765 2.814336 ACTCCAGACTTCGAAAAATGCC 59.186 45.455 0.00 0.00 0.00 4.40
6294 6766 2.813754 CTCCAGACTTCGAAAAATGCCA 59.186 45.455 0.00 0.00 0.00 4.92
6295 6767 2.552315 TCCAGACTTCGAAAAATGCCAC 59.448 45.455 0.00 0.00 0.00 5.01
6296 6768 2.554032 CCAGACTTCGAAAAATGCCACT 59.446 45.455 0.00 0.00 0.00 4.00
6297 6769 3.558505 CAGACTTCGAAAAATGCCACTG 58.441 45.455 0.00 0.00 0.00 3.66
6298 6770 2.554032 AGACTTCGAAAAATGCCACTGG 59.446 45.455 0.00 0.00 0.00 4.00
6299 6771 2.552315 GACTTCGAAAAATGCCACTGGA 59.448 45.455 0.00 0.00 0.00 3.86
6300 6772 2.955660 ACTTCGAAAAATGCCACTGGAA 59.044 40.909 0.00 0.00 0.00 3.53
6301 6773 3.383185 ACTTCGAAAAATGCCACTGGAAA 59.617 39.130 0.00 0.00 0.00 3.13
6302 6774 4.039124 ACTTCGAAAAATGCCACTGGAAAT 59.961 37.500 0.00 0.00 0.00 2.17
6303 6775 3.911868 TCGAAAAATGCCACTGGAAATG 58.088 40.909 0.00 0.00 0.00 2.32
6304 6776 2.995258 CGAAAAATGCCACTGGAAATGG 59.005 45.455 0.00 0.00 40.50 3.16
6312 6784 3.899052 CCACTGGAAATGGCATGAAAT 57.101 42.857 0.00 0.00 0.00 2.17
6314 6786 3.527533 CACTGGAAATGGCATGAAATGG 58.472 45.455 0.00 0.00 46.86 3.16
6327 6799 6.004408 GCATGAAATGGCATTTTTCAAAGT 57.996 33.333 25.02 4.87 46.86 2.66
6328 6800 6.440436 GCATGAAATGGCATTTTTCAAAGTT 58.560 32.000 25.02 4.53 46.86 2.66
6329 6801 6.919115 GCATGAAATGGCATTTTTCAAAGTTT 59.081 30.769 25.02 4.19 46.86 2.66
6330 6802 7.096394 GCATGAAATGGCATTTTTCAAAGTTTG 60.096 33.333 25.02 15.43 46.86 2.93
6331 6803 6.793349 TGAAATGGCATTTTTCAAAGTTTGG 58.207 32.000 25.02 0.00 39.46 3.28
6332 6804 6.600822 TGAAATGGCATTTTTCAAAGTTTGGA 59.399 30.769 25.02 3.83 39.46 3.53
6333 6805 7.121759 TGAAATGGCATTTTTCAAAGTTTGGAA 59.878 29.630 25.02 10.54 39.46 3.53
6334 6806 7.585579 AATGGCATTTTTCAAAGTTTGGAAT 57.414 28.000 15.47 10.36 0.00 3.01
6335 6807 7.585579 ATGGCATTTTTCAAAGTTTGGAATT 57.414 28.000 15.47 1.73 0.00 2.17
6336 6808 6.793349 TGGCATTTTTCAAAGTTTGGAATTG 58.207 32.000 15.47 13.73 0.00 2.32
6337 6809 5.686841 GGCATTTTTCAAAGTTTGGAATTGC 59.313 36.000 24.04 24.04 35.40 3.56
6338 6810 6.264088 GCATTTTTCAAAGTTTGGAATTGCA 58.736 32.000 25.65 0.00 35.75 4.08
6339 6811 6.415573 GCATTTTTCAAAGTTTGGAATTGCAG 59.584 34.615 25.65 12.16 35.75 4.41
6340 6812 7.474190 CATTTTTCAAAGTTTGGAATTGCAGT 58.526 30.769 15.47 0.00 0.00 4.40
6341 6813 6.419980 TTTTCAAAGTTTGGAATTGCAGTG 57.580 33.333 15.47 0.00 0.00 3.66
6342 6814 4.057406 TCAAAGTTTGGAATTGCAGTGG 57.943 40.909 15.47 0.00 0.00 4.00
6343 6815 2.531522 AAGTTTGGAATTGCAGTGGC 57.468 45.000 0.00 0.00 41.68 5.01
6353 6825 3.190878 GCAGTGGCATTTCTCGGG 58.809 61.111 0.00 0.00 40.72 5.14
6354 6826 1.377202 GCAGTGGCATTTCTCGGGA 60.377 57.895 0.00 0.00 40.72 5.14
6355 6827 0.749454 GCAGTGGCATTTCTCGGGAT 60.749 55.000 0.00 0.00 40.72 3.85
6356 6828 1.303309 CAGTGGCATTTCTCGGGATC 58.697 55.000 0.00 0.00 0.00 3.36
6357 6829 0.179073 AGTGGCATTTCTCGGGATCG 60.179 55.000 0.00 0.00 37.82 3.69
6358 6830 1.523711 TGGCATTTCTCGGGATCGC 60.524 57.895 0.00 0.00 36.13 4.58
6359 6831 2.254464 GGCATTTCTCGGGATCGCC 61.254 63.158 3.90 4.56 36.13 5.54
6360 6832 1.523711 GCATTTCTCGGGATCGCCA 60.524 57.895 3.90 0.00 36.13 5.69
6361 6833 1.502163 GCATTTCTCGGGATCGCCAG 61.502 60.000 3.90 0.60 36.13 4.85
6362 6834 0.104855 CATTTCTCGGGATCGCCAGA 59.895 55.000 2.91 2.91 36.88 3.86
6363 6835 1.051812 ATTTCTCGGGATCGCCAGAT 58.948 50.000 7.89 0.00 37.75 2.90
6364 6836 0.830648 TTTCTCGGGATCGCCAGATT 59.169 50.000 7.89 0.00 37.75 2.40
6365 6837 0.830648 TTCTCGGGATCGCCAGATTT 59.169 50.000 7.89 0.00 37.75 2.17
6366 6838 0.104855 TCTCGGGATCGCCAGATTTG 59.895 55.000 2.91 0.00 37.75 2.32
6368 6840 1.334384 TCGGGATCGCCAGATTTGGA 61.334 55.000 6.43 0.00 46.80 3.53
6369 6841 3.242705 TCGGGATCGCCAGATTTGGAG 62.243 57.143 6.43 2.53 46.80 3.86
6381 6853 5.840243 CAGATTTGGAGTGGCATTTATCA 57.160 39.130 0.00 0.00 0.00 2.15
6382 6854 6.211587 CAGATTTGGAGTGGCATTTATCAA 57.788 37.500 0.00 0.00 0.00 2.57
6383 6855 6.632909 CAGATTTGGAGTGGCATTTATCAAA 58.367 36.000 0.00 0.16 0.00 2.69
6384 6856 7.270047 CAGATTTGGAGTGGCATTTATCAAAT 58.730 34.615 14.55 14.55 36.46 2.32
6385 6857 7.767198 CAGATTTGGAGTGGCATTTATCAAATT 59.233 33.333 15.25 7.82 34.71 1.82
6386 6858 8.980596 AGATTTGGAGTGGCATTTATCAAATTA 58.019 29.630 15.25 0.00 34.71 1.40
6387 6859 9.598517 GATTTGGAGTGGCATTTATCAAATTAA 57.401 29.630 15.25 0.00 34.71 1.40
6388 6860 8.770438 TTTGGAGTGGCATTTATCAAATTAAC 57.230 30.769 0.00 0.00 0.00 2.01
6389 6861 7.716799 TGGAGTGGCATTTATCAAATTAACT 57.283 32.000 0.00 0.00 0.00 2.24
6390 6862 7.546358 TGGAGTGGCATTTATCAAATTAACTG 58.454 34.615 0.00 0.00 0.00 3.16
6391 6863 6.980397 GGAGTGGCATTTATCAAATTAACTGG 59.020 38.462 0.00 0.00 0.00 4.00
6392 6864 7.147915 GGAGTGGCATTTATCAAATTAACTGGA 60.148 37.037 0.00 0.00 0.00 3.86
6393 6865 8.133024 AGTGGCATTTATCAAATTAACTGGAA 57.867 30.769 0.00 0.00 0.00 3.53
6394 6866 8.592809 AGTGGCATTTATCAAATTAACTGGAAA 58.407 29.630 0.00 0.00 0.00 3.13
6395 6867 9.382275 GTGGCATTTATCAAATTAACTGGAAAT 57.618 29.630 0.00 0.00 0.00 2.17
6396 6868 9.381033 TGGCATTTATCAAATTAACTGGAAATG 57.619 29.630 15.01 15.01 36.55 2.32
6397 6869 8.829612 GGCATTTATCAAATTAACTGGAAATGG 58.170 33.333 17.74 8.84 34.90 3.16
6398 6870 8.337532 GCATTTATCAAATTAACTGGAAATGGC 58.662 33.333 17.74 11.97 34.90 4.40
6399 6871 9.603921 CATTTATCAAATTAACTGGAAATGGCT 57.396 29.630 13.31 0.00 32.15 4.75
6446 6918 5.316987 CTCCAGAGTAAAGACAAATGGGTT 58.683 41.667 0.00 0.00 0.00 4.11
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
80 82 2.799916 GTCGTGTCGTGCGGAGTC 60.800 66.667 0.00 0.00 0.00 3.36
81 83 4.338539 GGTCGTGTCGTGCGGAGT 62.339 66.667 0.00 0.00 0.00 3.85
84 86 4.735132 ATGGGTCGTGTCGTGCGG 62.735 66.667 0.00 0.00 0.00 5.69
85 87 3.179265 GATGGGTCGTGTCGTGCG 61.179 66.667 0.00 0.00 0.00 5.34
86 88 1.447838 ATGATGGGTCGTGTCGTGC 60.448 57.895 0.00 0.00 0.00 5.34
87 89 1.695893 GCATGATGGGTCGTGTCGTG 61.696 60.000 0.00 0.00 42.25 4.35
153 157 4.873129 CGGCGATGGTGGACTCGG 62.873 72.222 0.00 0.00 35.48 4.63
286 300 4.760047 CGCTCCCGTGGGTTCTGG 62.760 72.222 4.53 0.00 36.47 3.86
323 351 1.404851 CCCTGCTTCCTCGTCTCTTTC 60.405 57.143 0.00 0.00 0.00 2.62
355 383 1.153429 GATTTGGACCCGGGTCTCG 60.153 63.158 44.11 13.47 44.04 4.04
409 437 4.332543 TTCCTCCCGGCCACTCCT 62.333 66.667 2.24 0.00 0.00 3.69
1452 1509 2.365586 CCTCCTCCTGGGCTCACTG 61.366 68.421 0.00 0.00 34.39 3.66
1754 1811 0.036388 TACTTTCCCTGCTTCTGCGG 60.036 55.000 0.00 0.00 44.81 5.69
1755 1812 1.808411 TTACTTTCCCTGCTTCTGCG 58.192 50.000 0.00 0.00 43.34 5.18
1775 1832 2.177394 TTTCTCATGCTGCGTGGTTA 57.823 45.000 20.78 5.00 0.00 2.85
1826 1883 2.731341 GCTGATTTCTCATGCTGTGTGC 60.731 50.000 0.00 0.00 43.25 4.57
1868 1925 1.605232 TCTCATGCTGTGTGTTTGCTG 59.395 47.619 0.00 0.00 0.00 4.41
1893 1950 1.524621 CCCTGTGACATCCGATGCC 60.525 63.158 8.36 0.00 0.00 4.40
1901 1958 0.111061 TGCTGCTTTCCCTGTGACAT 59.889 50.000 0.00 0.00 0.00 3.06
1910 1967 1.843992 CTGTGTGTTTGCTGCTTTCC 58.156 50.000 0.00 0.00 0.00 3.13
1916 1973 1.605232 TCTCATGCTGTGTGTTTGCTG 59.395 47.619 0.00 0.00 0.00 4.41
1924 1981 2.786777 TGCTGATTTCTCATGCTGTGT 58.213 42.857 0.00 0.00 31.13 3.72
2091 2148 2.028476 TCGTGTAACCACTTCCTCATGG 60.028 50.000 0.00 0.00 39.55 3.66
2175 2232 2.637382 TGTCACTTCTTCCATGGTAGCA 59.363 45.455 12.58 0.34 0.00 3.49
2241 2319 5.129634 TCTTTTTGTGTGCTGGATGAAGTA 58.870 37.500 0.00 0.00 0.00 2.24
2371 2449 4.082081 GGCATTGATGTTTCCATCTGTTGA 60.082 41.667 4.51 0.00 46.38 3.18
2405 2483 0.861837 GGACGAAGCGCAATATCCAG 59.138 55.000 11.47 0.00 0.00 3.86
2428 2506 4.864334 CATCGCCCCCTGCAGGAC 62.864 72.222 34.91 20.79 41.33 3.85
2522 2600 0.250684 TTCATGCACCGCTTCCTTCA 60.251 50.000 0.00 0.00 0.00 3.02
2557 2635 8.436778 TCCTAGCAAATTAATGGTATTAGCAGA 58.563 33.333 1.69 0.00 33.24 4.26
2592 2670 1.412710 TCCTCCAGCATAACGGATGAC 59.587 52.381 3.92 0.00 37.82 3.06
2620 2698 5.209818 TCTTTCGTGGTTACTGTCTCATT 57.790 39.130 0.00 0.00 0.00 2.57
2767 2845 7.718753 AGTTGTTTCATCAATCTTCTTGTCTCT 59.281 33.333 0.00 0.00 0.00 3.10
2892 2970 1.171308 TTTCATTCTCAGCTGCTGCC 58.829 50.000 24.38 0.00 40.80 4.85
2900 2978 3.997319 TCGCAACGATTTCATTCTCAG 57.003 42.857 0.00 0.00 0.00 3.35
3256 3334 6.494893 TTTGAATTCAGGATCCTGTAAACG 57.505 37.500 35.34 14.25 43.96 3.60
3304 3382 0.250640 GAGCATGGTCCATGGGCTAG 60.251 60.000 29.17 7.57 41.64 3.42
3324 3402 0.386858 ATGACGACGACGACAACTGG 60.387 55.000 15.32 0.00 45.19 4.00
3339 3417 6.327154 TGAATTTGTGCAGAATGATGATGAC 58.673 36.000 0.00 0.00 39.69 3.06
3381 3459 5.065090 TGCTTGAGAATTGGTCAATGATACG 59.935 40.000 0.00 0.00 33.49 3.06
3510 3588 2.432146 CTCTACTTGCCATCCTGTGCTA 59.568 50.000 0.00 0.00 0.00 3.49
3567 3645 1.002087 ACTTTCTGAAGTAGCGGGGTG 59.998 52.381 0.00 0.00 44.13 4.61
3587 3665 6.303054 TCTGACAAATGACCATTTTGGAGTA 58.697 36.000 5.32 0.00 40.96 2.59
4202 4280 2.771089 TGCAAGAACTACAGAAGCCAG 58.229 47.619 0.00 0.00 0.00 4.85
4206 4284 4.075763 GCACATGCAAGAACTACAGAAG 57.924 45.455 0.00 0.00 41.59 2.85
4620 4698 2.476185 CGGCTTACCAGAAAAGAATGCG 60.476 50.000 0.00 0.00 34.57 4.73
4660 4738 8.137437 ACAAGCATGGCAATGTTAACTATTATC 58.863 33.333 7.22 2.65 36.08 1.75
5100 5186 7.225538 CAGCTATTTTTCTAGACATCGATTGGT 59.774 37.037 0.00 0.00 0.00 3.67
5177 5263 3.055747 GCCTGCTTTAACCTCACTAGACT 60.056 47.826 0.00 0.00 0.00 3.24
5315 5401 5.182001 GCAACTCATTTATGTGGAGTTCAGT 59.818 40.000 3.48 0.00 45.94 3.41
5416 5502 8.107196 ACTCCCTAATGTTATCTTTCATCCTT 57.893 34.615 0.00 0.00 0.00 3.36
5470 5556 7.822822 AGTAACCTCGTTTATGTGCTTAGATTT 59.177 33.333 0.00 0.00 0.00 2.17
5507 5593 2.558359 AGCAAGTTTGGTATCTGCAACC 59.442 45.455 0.00 0.00 37.09 3.77
5595 5681 5.949952 TCTTACTGTATGGTAGTCTCAGCAA 59.050 40.000 1.46 0.00 0.00 3.91
5688 5774 9.453572 AGATATGTCAGCTTCAAAAACTGAATA 57.546 29.630 0.00 0.00 43.20 1.75
5734 5820 3.316308 GGTGCACAAAATATAGGAGCTGG 59.684 47.826 20.43 0.00 0.00 4.85
5833 5919 9.364989 CAGAAACTTACATCAGGAAAACAAAAA 57.635 29.630 0.00 0.00 0.00 1.94
5836 5922 7.338196 TCACAGAAACTTACATCAGGAAAACAA 59.662 33.333 0.00 0.00 0.00 2.83
6029 6299 7.013750 TGCATTGTGGTAAACTGTTCAAATAGA 59.986 33.333 0.00 0.00 0.00 1.98
6061 6331 8.017587 TGATAATGATATACGACATTGTGTGC 57.982 34.615 0.00 0.00 37.32 4.57
6135 6607 8.589335 AAATTATACACCACATTAGTCTAGCG 57.411 34.615 0.00 0.00 0.00 4.26
6157 6629 9.830975 GTGGCATTTATCTAATTAACCCAAAAT 57.169 29.630 0.00 0.00 0.00 1.82
6160 6632 7.286775 GGAGTGGCATTTATCTAATTAACCCAA 59.713 37.037 0.00 0.00 0.00 4.12
6161 6633 6.775629 GGAGTGGCATTTATCTAATTAACCCA 59.224 38.462 0.00 0.00 0.00 4.51
6162 6634 6.775629 TGGAGTGGCATTTATCTAATTAACCC 59.224 38.462 0.00 0.00 0.00 4.11
6163 6635 7.817418 TGGAGTGGCATTTATCTAATTAACC 57.183 36.000 0.00 0.00 0.00 2.85
6168 6640 9.028284 CCATAATTGGAGTGGCATTTATCTAAT 57.972 33.333 0.00 0.00 46.92 1.73
6169 6641 8.408043 CCATAATTGGAGTGGCATTTATCTAA 57.592 34.615 0.00 0.00 46.92 2.10
6171 6643 6.906157 CCATAATTGGAGTGGCATTTATCT 57.094 37.500 0.00 0.00 46.92 1.98
6180 6652 3.213506 TGAATCGCCATAATTGGAGTGG 58.786 45.455 0.00 0.00 46.92 4.00
6181 6653 6.558771 TTATGAATCGCCATAATTGGAGTG 57.441 37.500 0.00 0.00 46.92 3.51
6182 6654 7.581213 TTTTATGAATCGCCATAATTGGAGT 57.419 32.000 0.00 0.00 46.92 3.85
6183 6655 8.918658 CATTTTTATGAATCGCCATAATTGGAG 58.081 33.333 0.00 0.00 46.92 3.86
6184 6656 7.384660 GCATTTTTATGAATCGCCATAATTGGA 59.615 33.333 0.00 0.00 46.92 3.53
6185 6657 7.360269 GGCATTTTTATGAATCGCCATAATTGG 60.360 37.037 0.00 0.00 46.66 3.16
6186 6658 7.171167 TGGCATTTTTATGAATCGCCATAATTG 59.829 33.333 0.00 0.00 38.40 2.32
6187 6659 7.171337 GTGGCATTTTTATGAATCGCCATAATT 59.829 33.333 3.22 0.00 41.12 1.40
6188 6660 6.646240 GTGGCATTTTTATGAATCGCCATAAT 59.354 34.615 3.22 0.00 41.12 1.28
6189 6661 5.982516 GTGGCATTTTTATGAATCGCCATAA 59.017 36.000 3.22 0.00 41.12 1.90
6190 6662 5.301551 AGTGGCATTTTTATGAATCGCCATA 59.698 36.000 3.22 0.00 41.12 2.74
6191 6663 4.099881 AGTGGCATTTTTATGAATCGCCAT 59.900 37.500 3.22 0.00 41.12 4.40
6192 6664 3.446873 AGTGGCATTTTTATGAATCGCCA 59.553 39.130 0.00 0.00 39.07 5.69
6193 6665 3.798337 CAGTGGCATTTTTATGAATCGCC 59.202 43.478 0.00 0.00 35.56 5.54
6194 6666 3.243643 GCAGTGGCATTTTTATGAATCGC 59.756 43.478 0.00 0.00 40.72 4.58
6209 6681 2.531522 AGTTTGGAAATTGCAGTGGC 57.468 45.000 0.00 0.00 41.68 5.01
6210 6682 4.440880 TCAAAGTTTGGAAATTGCAGTGG 58.559 39.130 15.47 0.00 0.00 4.00
6211 6683 6.419980 TTTCAAAGTTTGGAAATTGCAGTG 57.580 33.333 15.47 0.00 0.00 3.66
6212 6684 7.446001 TTTTTCAAAGTTTGGAAATTGCAGT 57.554 28.000 20.26 0.00 37.93 4.40
6213 6685 8.330302 CATTTTTCAAAGTTTGGAAATTGCAG 57.670 30.769 22.21 10.09 37.93 4.41
6216 6688 7.220491 GTGGCATTTTTCAAAGTTTGGAAATTG 59.780 33.333 26.17 26.17 37.93 2.32
6217 6689 7.122501 AGTGGCATTTTTCAAAGTTTGGAAATT 59.877 29.630 20.26 14.79 37.93 1.82
6218 6690 6.602803 AGTGGCATTTTTCAAAGTTTGGAAAT 59.397 30.769 20.26 18.72 37.93 2.17
6219 6691 5.942826 AGTGGCATTTTTCAAAGTTTGGAAA 59.057 32.000 16.59 16.59 36.38 3.13
6220 6692 5.353678 CAGTGGCATTTTTCAAAGTTTGGAA 59.646 36.000 15.47 10.54 0.00 3.53
6221 6693 4.874966 CAGTGGCATTTTTCAAAGTTTGGA 59.125 37.500 15.47 3.83 0.00 3.53
6222 6694 4.496175 GCAGTGGCATTTTTCAAAGTTTGG 60.496 41.667 15.47 0.00 40.72 3.28
6223 6695 4.590226 GCAGTGGCATTTTTCAAAGTTTG 58.410 39.130 9.44 9.44 40.72 2.93
6224 6696 4.880886 GCAGTGGCATTTTTCAAAGTTT 57.119 36.364 0.00 0.00 40.72 2.66
6245 6717 6.941681 GCGTTTTTCAAAGTTTGCAAAAATTG 59.058 30.769 22.13 22.79 37.48 2.32
6246 6718 6.088749 GGCGTTTTTCAAAGTTTGCAAAAATT 59.911 30.769 22.13 9.21 37.48 1.82
6247 6719 5.570973 GGCGTTTTTCAAAGTTTGCAAAAAT 59.429 32.000 22.13 2.58 37.48 1.82
6248 6720 4.912187 GGCGTTTTTCAAAGTTTGCAAAAA 59.088 33.333 22.13 21.83 37.48 1.94
6249 6721 4.024048 TGGCGTTTTTCAAAGTTTGCAAAA 60.024 33.333 18.29 18.29 34.31 2.44
6250 6722 3.498397 TGGCGTTTTTCAAAGTTTGCAAA 59.502 34.783 8.05 8.05 0.00 3.68
6251 6723 3.067106 TGGCGTTTTTCAAAGTTTGCAA 58.933 36.364 10.90 3.49 0.00 4.08
6252 6724 2.413453 GTGGCGTTTTTCAAAGTTTGCA 59.587 40.909 10.90 0.00 0.00 4.08
6253 6725 2.670905 AGTGGCGTTTTTCAAAGTTTGC 59.329 40.909 10.90 0.00 0.00 3.68
6254 6726 3.305897 GGAGTGGCGTTTTTCAAAGTTTG 59.694 43.478 9.44 9.44 0.00 2.93
6255 6727 3.056465 TGGAGTGGCGTTTTTCAAAGTTT 60.056 39.130 0.00 0.00 0.00 2.66
6256 6728 2.494073 TGGAGTGGCGTTTTTCAAAGTT 59.506 40.909 0.00 0.00 0.00 2.66
6257 6729 2.096248 TGGAGTGGCGTTTTTCAAAGT 58.904 42.857 0.00 0.00 0.00 2.66
6258 6730 2.357637 TCTGGAGTGGCGTTTTTCAAAG 59.642 45.455 0.00 0.00 0.00 2.77
6259 6731 2.098443 GTCTGGAGTGGCGTTTTTCAAA 59.902 45.455 0.00 0.00 0.00 2.69
6260 6732 1.673920 GTCTGGAGTGGCGTTTTTCAA 59.326 47.619 0.00 0.00 0.00 2.69
6261 6733 1.134220 AGTCTGGAGTGGCGTTTTTCA 60.134 47.619 0.00 0.00 0.00 2.69
6262 6734 1.594331 AGTCTGGAGTGGCGTTTTTC 58.406 50.000 0.00 0.00 0.00 2.29
6263 6735 1.947456 GAAGTCTGGAGTGGCGTTTTT 59.053 47.619 0.00 0.00 0.00 1.94
6264 6736 1.594331 GAAGTCTGGAGTGGCGTTTT 58.406 50.000 0.00 0.00 0.00 2.43
6265 6737 0.600255 CGAAGTCTGGAGTGGCGTTT 60.600 55.000 0.00 0.00 0.00 3.60
6266 6738 1.006102 CGAAGTCTGGAGTGGCGTT 60.006 57.895 0.00 0.00 0.00 4.84
6267 6739 1.461091 TTCGAAGTCTGGAGTGGCGT 61.461 55.000 0.00 0.00 0.00 5.68
6268 6740 0.319555 TTTCGAAGTCTGGAGTGGCG 60.320 55.000 0.00 0.00 0.00 5.69
6269 6741 1.878953 TTTTCGAAGTCTGGAGTGGC 58.121 50.000 0.00 0.00 0.00 5.01
6270 6742 3.365364 GCATTTTTCGAAGTCTGGAGTGG 60.365 47.826 0.00 0.00 0.00 4.00
6271 6743 3.365364 GGCATTTTTCGAAGTCTGGAGTG 60.365 47.826 0.00 0.00 0.00 3.51
6272 6744 2.814336 GGCATTTTTCGAAGTCTGGAGT 59.186 45.455 0.00 0.00 0.00 3.85
6273 6745 2.813754 TGGCATTTTTCGAAGTCTGGAG 59.186 45.455 0.00 0.00 0.00 3.86
6274 6746 2.552315 GTGGCATTTTTCGAAGTCTGGA 59.448 45.455 0.00 0.00 0.00 3.86
6275 6747 2.554032 AGTGGCATTTTTCGAAGTCTGG 59.446 45.455 0.00 0.00 0.00 3.86
6276 6748 3.558505 CAGTGGCATTTTTCGAAGTCTG 58.441 45.455 0.00 0.00 0.00 3.51
6277 6749 2.554032 CCAGTGGCATTTTTCGAAGTCT 59.446 45.455 0.00 0.00 0.00 3.24
6278 6750 2.552315 TCCAGTGGCATTTTTCGAAGTC 59.448 45.455 3.51 0.00 0.00 3.01
6279 6751 2.582052 TCCAGTGGCATTTTTCGAAGT 58.418 42.857 3.51 0.00 0.00 3.01
6280 6752 3.641437 TTCCAGTGGCATTTTTCGAAG 57.359 42.857 3.51 0.00 0.00 3.79
6281 6753 4.305769 CATTTCCAGTGGCATTTTTCGAA 58.694 39.130 3.51 0.00 0.00 3.71
6282 6754 3.305950 CCATTTCCAGTGGCATTTTTCGA 60.306 43.478 3.51 0.00 0.00 3.71
6283 6755 2.995258 CCATTTCCAGTGGCATTTTTCG 59.005 45.455 3.51 0.00 0.00 3.46
6292 6764 3.527533 CATTTCATGCCATTTCCAGTGG 58.472 45.455 1.40 1.40 39.80 4.00
6293 6765 3.527533 CCATTTCATGCCATTTCCAGTG 58.472 45.455 0.00 0.00 0.00 3.66
6294 6766 2.093341 GCCATTTCATGCCATTTCCAGT 60.093 45.455 0.00 0.00 0.00 4.00
6295 6767 2.093394 TGCCATTTCATGCCATTTCCAG 60.093 45.455 0.00 0.00 0.00 3.86
6296 6768 1.907255 TGCCATTTCATGCCATTTCCA 59.093 42.857 0.00 0.00 0.00 3.53
6297 6769 2.695127 TGCCATTTCATGCCATTTCC 57.305 45.000 0.00 0.00 0.00 3.13
6298 6770 5.570234 AAAATGCCATTTCATGCCATTTC 57.430 34.783 2.61 0.00 0.00 2.17
6299 6771 5.477291 TGAAAAATGCCATTTCATGCCATTT 59.523 32.000 2.61 0.91 40.75 2.32
6300 6772 5.010933 TGAAAAATGCCATTTCATGCCATT 58.989 33.333 2.61 0.00 40.75 3.16
6301 6773 4.590918 TGAAAAATGCCATTTCATGCCAT 58.409 34.783 2.61 0.00 40.75 4.40
6302 6774 4.017177 TGAAAAATGCCATTTCATGCCA 57.983 36.364 2.61 0.00 40.75 4.92
6303 6775 5.048573 ACTTTGAAAAATGCCATTTCATGCC 60.049 36.000 2.61 0.00 43.94 4.40
6304 6776 6.004408 ACTTTGAAAAATGCCATTTCATGC 57.996 33.333 2.61 0.00 43.94 4.06
6305 6777 7.380065 CCAAACTTTGAAAAATGCCATTTCATG 59.620 33.333 2.61 0.00 43.94 3.07
6306 6778 7.284944 TCCAAACTTTGAAAAATGCCATTTCAT 59.715 29.630 2.61 0.00 43.94 2.57
6307 6779 6.600822 TCCAAACTTTGAAAAATGCCATTTCA 59.399 30.769 2.61 0.00 43.12 2.69
6308 6780 7.025485 TCCAAACTTTGAAAAATGCCATTTC 57.975 32.000 2.61 0.00 37.31 2.17
6309 6781 7.401955 TTCCAAACTTTGAAAAATGCCATTT 57.598 28.000 2.87 0.00 0.00 2.32
6310 6782 7.585579 ATTCCAAACTTTGAAAAATGCCATT 57.414 28.000 2.87 0.00 0.00 3.16
6311 6783 7.427214 CAATTCCAAACTTTGAAAAATGCCAT 58.573 30.769 2.87 0.00 0.00 4.40
6312 6784 6.679884 GCAATTCCAAACTTTGAAAAATGCCA 60.680 34.615 13.43 0.00 31.57 4.92
6313 6785 5.686841 GCAATTCCAAACTTTGAAAAATGCC 59.313 36.000 13.43 3.31 31.57 4.40
6314 6786 6.264088 TGCAATTCCAAACTTTGAAAAATGC 58.736 32.000 15.65 15.65 34.98 3.56
6315 6787 7.429920 CACTGCAATTCCAAACTTTGAAAAATG 59.570 33.333 2.87 2.69 0.00 2.32
6316 6788 7.415429 CCACTGCAATTCCAAACTTTGAAAAAT 60.415 33.333 2.87 0.00 0.00 1.82
6317 6789 6.128063 CCACTGCAATTCCAAACTTTGAAAAA 60.128 34.615 2.87 0.00 0.00 1.94
6318 6790 5.353678 CCACTGCAATTCCAAACTTTGAAAA 59.646 36.000 2.87 0.00 0.00 2.29
6319 6791 4.874966 CCACTGCAATTCCAAACTTTGAAA 59.125 37.500 2.87 0.00 0.00 2.69
6320 6792 4.440880 CCACTGCAATTCCAAACTTTGAA 58.559 39.130 2.87 0.00 0.00 2.69
6321 6793 3.740764 GCCACTGCAATTCCAAACTTTGA 60.741 43.478 2.87 0.00 37.47 2.69
6322 6794 2.545106 GCCACTGCAATTCCAAACTTTG 59.455 45.455 0.00 0.00 37.47 2.77
6323 6795 2.170187 TGCCACTGCAATTCCAAACTTT 59.830 40.909 0.00 0.00 46.66 2.66
6324 6796 1.761784 TGCCACTGCAATTCCAAACTT 59.238 42.857 0.00 0.00 46.66 2.66
6325 6797 1.412079 TGCCACTGCAATTCCAAACT 58.588 45.000 0.00 0.00 46.66 2.66
6326 6798 3.984838 TGCCACTGCAATTCCAAAC 57.015 47.368 0.00 0.00 46.66 2.93
6336 6808 0.749454 ATCCCGAGAAATGCCACTGC 60.749 55.000 0.00 0.00 38.26 4.40
6337 6809 1.303309 GATCCCGAGAAATGCCACTG 58.697 55.000 0.00 0.00 0.00 3.66
6338 6810 0.179073 CGATCCCGAGAAATGCCACT 60.179 55.000 0.00 0.00 38.22 4.00
6339 6811 1.776034 GCGATCCCGAGAAATGCCAC 61.776 60.000 0.00 0.00 38.22 5.01
6340 6812 1.523711 GCGATCCCGAGAAATGCCA 60.524 57.895 0.00 0.00 38.22 4.92
6341 6813 2.254464 GGCGATCCCGAGAAATGCC 61.254 63.158 0.00 0.00 38.22 4.40
6342 6814 1.502163 CTGGCGATCCCGAGAAATGC 61.502 60.000 0.00 0.00 38.22 3.56
6343 6815 0.104855 TCTGGCGATCCCGAGAAATG 59.895 55.000 0.00 0.00 38.22 2.32
6344 6816 1.051812 ATCTGGCGATCCCGAGAAAT 58.948 50.000 0.00 0.00 38.22 2.17
6345 6817 0.830648 AATCTGGCGATCCCGAGAAA 59.169 50.000 0.00 0.00 38.22 2.52
6346 6818 0.830648 AAATCTGGCGATCCCGAGAA 59.169 50.000 0.00 0.00 38.22 2.87
6347 6819 0.104855 CAAATCTGGCGATCCCGAGA 59.895 55.000 0.00 0.00 38.22 4.04
6348 6820 0.882042 CCAAATCTGGCGATCCCGAG 60.882 60.000 0.00 0.00 35.39 4.63
6349 6821 1.146041 CCAAATCTGGCGATCCCGA 59.854 57.895 0.00 0.00 35.39 5.14
6350 6822 0.882042 CTCCAAATCTGGCGATCCCG 60.882 60.000 0.00 0.00 43.17 5.14
6351 6823 0.181350 ACTCCAAATCTGGCGATCCC 59.819 55.000 0.00 0.00 43.17 3.85
6352 6824 1.303309 CACTCCAAATCTGGCGATCC 58.697 55.000 0.00 0.00 43.17 3.36
6353 6825 1.303309 CCACTCCAAATCTGGCGATC 58.697 55.000 0.00 0.00 43.17 3.69
6354 6826 0.749454 GCCACTCCAAATCTGGCGAT 60.749 55.000 0.00 0.00 43.17 4.58
6355 6827 1.377202 GCCACTCCAAATCTGGCGA 60.377 57.895 0.00 0.00 43.17 5.54
6356 6828 3.190878 GCCACTCCAAATCTGGCG 58.809 61.111 0.00 0.00 43.17 5.69
6358 6830 4.646040 TGATAAATGCCACTCCAAATCTGG 59.354 41.667 0.00 0.00 45.08 3.86
6359 6831 5.840243 TGATAAATGCCACTCCAAATCTG 57.160 39.130 0.00 0.00 0.00 2.90
6360 6832 6.855763 TTTGATAAATGCCACTCCAAATCT 57.144 33.333 0.00 0.00 0.00 2.40
6361 6833 9.598517 TTAATTTGATAAATGCCACTCCAAATC 57.401 29.630 0.00 0.00 33.33 2.17
6362 6834 9.382275 GTTAATTTGATAAATGCCACTCCAAAT 57.618 29.630 0.00 0.00 35.18 2.32
6363 6835 8.592809 AGTTAATTTGATAAATGCCACTCCAAA 58.407 29.630 0.00 0.00 0.00 3.28
6364 6836 8.034215 CAGTTAATTTGATAAATGCCACTCCAA 58.966 33.333 0.00 0.00 0.00 3.53
6365 6837 7.363705 CCAGTTAATTTGATAAATGCCACTCCA 60.364 37.037 0.00 0.00 31.38 3.86
6366 6838 6.980397 CCAGTTAATTTGATAAATGCCACTCC 59.020 38.462 0.00 0.00 31.38 3.85
6367 6839 7.771183 TCCAGTTAATTTGATAAATGCCACTC 58.229 34.615 0.00 0.00 31.38 3.51
6368 6840 7.716799 TCCAGTTAATTTGATAAATGCCACT 57.283 32.000 0.00 0.00 31.38 4.00
6369 6841 8.770438 TTTCCAGTTAATTTGATAAATGCCAC 57.230 30.769 0.00 0.00 31.38 5.01
6370 6842 9.381033 CATTTCCAGTTAATTTGATAAATGCCA 57.619 29.630 0.00 0.00 31.38 4.92
6371 6843 8.829612 CCATTTCCAGTTAATTTGATAAATGCC 58.170 33.333 15.63 0.00 32.88 4.40
6372 6844 8.337532 GCCATTTCCAGTTAATTTGATAAATGC 58.662 33.333 15.63 11.53 32.88 3.56
6373 6845 9.603921 AGCCATTTCCAGTTAATTTGATAAATG 57.396 29.630 14.92 14.92 33.39 2.32
6376 6848 9.474313 AGTAGCCATTTCCAGTTAATTTGATAA 57.526 29.630 0.00 0.00 0.00 1.75
6377 6849 8.902806 CAGTAGCCATTTCCAGTTAATTTGATA 58.097 33.333 0.00 0.00 0.00 2.15
6378 6850 7.615365 TCAGTAGCCATTTCCAGTTAATTTGAT 59.385 33.333 0.00 0.00 0.00 2.57
6379 6851 6.945435 TCAGTAGCCATTTCCAGTTAATTTGA 59.055 34.615 0.00 0.00 0.00 2.69
6380 6852 7.156876 TCAGTAGCCATTTCCAGTTAATTTG 57.843 36.000 0.00 0.00 0.00 2.32
6381 6853 7.574967 CGTTCAGTAGCCATTTCCAGTTAATTT 60.575 37.037 0.00 0.00 0.00 1.82
6382 6854 6.128007 CGTTCAGTAGCCATTTCCAGTTAATT 60.128 38.462 0.00 0.00 0.00 1.40
6383 6855 5.354234 CGTTCAGTAGCCATTTCCAGTTAAT 59.646 40.000 0.00 0.00 0.00 1.40
6384 6856 4.693566 CGTTCAGTAGCCATTTCCAGTTAA 59.306 41.667 0.00 0.00 0.00 2.01
6385 6857 4.250464 CGTTCAGTAGCCATTTCCAGTTA 58.750 43.478 0.00 0.00 0.00 2.24
6386 6858 3.074412 CGTTCAGTAGCCATTTCCAGTT 58.926 45.455 0.00 0.00 0.00 3.16
6387 6859 2.038557 ACGTTCAGTAGCCATTTCCAGT 59.961 45.455 0.00 0.00 0.00 4.00
6388 6860 2.699954 ACGTTCAGTAGCCATTTCCAG 58.300 47.619 0.00 0.00 0.00 3.86
6389 6861 2.851263 ACGTTCAGTAGCCATTTCCA 57.149 45.000 0.00 0.00 0.00 3.53
6390 6862 4.694037 AGTAAACGTTCAGTAGCCATTTCC 59.306 41.667 0.00 0.00 0.00 3.13
6391 6863 5.390567 CCAGTAAACGTTCAGTAGCCATTTC 60.391 44.000 0.00 0.00 0.00 2.17
6392 6864 4.454504 CCAGTAAACGTTCAGTAGCCATTT 59.545 41.667 0.00 0.00 0.00 2.32
6393 6865 4.000988 CCAGTAAACGTTCAGTAGCCATT 58.999 43.478 0.00 0.00 0.00 3.16
6394 6866 3.259876 TCCAGTAAACGTTCAGTAGCCAT 59.740 43.478 0.00 0.00 0.00 4.40
6395 6867 2.629137 TCCAGTAAACGTTCAGTAGCCA 59.371 45.455 0.00 0.00 0.00 4.75
6396 6868 3.308438 TCCAGTAAACGTTCAGTAGCC 57.692 47.619 0.00 0.00 0.00 3.93
6397 6869 4.927425 TCAATCCAGTAAACGTTCAGTAGC 59.073 41.667 0.00 0.00 0.00 3.58
6398 6870 5.577164 CCTCAATCCAGTAAACGTTCAGTAG 59.423 44.000 0.00 0.00 0.00 2.57
6399 6871 5.475719 CCTCAATCCAGTAAACGTTCAGTA 58.524 41.667 0.00 0.00 0.00 2.74
6400 6872 4.315803 CCTCAATCCAGTAAACGTTCAGT 58.684 43.478 0.00 0.00 0.00 3.41
6401 6873 3.125316 GCCTCAATCCAGTAAACGTTCAG 59.875 47.826 0.00 0.00 0.00 3.02



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

AutoCloner maintained by Alex Coulton.