Multiple sequence alignment - TraesCS1D01G335200

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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 TraesCS1D01G335200 chr1D 100.000 3864 0 0 1 3864 425053143 425057006 0.000000e+00 7136.0
1 TraesCS1D01G335200 chr1D 100.000 35 0 0 3753 3787 425056817 425056851 8.960000e-07 65.8
2 TraesCS1D01G335200 chr1D 100.000 35 0 0 3675 3709 425056895 425056929 8.960000e-07 65.8
3 TraesCS1D01G335200 chr1B 88.195 3778 221 113 18 3703 574462327 574465971 0.000000e+00 4298.0
4 TraesCS1D01G335200 chr1A 85.239 3245 172 117 505 3614 520819753 520822825 0.000000e+00 3055.0
5 TraesCS1D01G335200 chr1A 88.359 524 20 17 1 508 520818873 520819371 3.320000e-165 592.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS1D01G335200 chr1D 425053143 425057006 3863 False 2422.533333 7136 100.000 1 3864 3 chr1D.!!$F1 3863
1 TraesCS1D01G335200 chr1B 574462327 574465971 3644 False 4298.000000 4298 88.195 18 3703 1 chr1B.!!$F1 3685
2 TraesCS1D01G335200 chr1A 520818873 520822825 3952 False 1823.500000 3055 86.799 1 3614 2 chr1A.!!$F1 3613

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
141 157 0.107410 TGAAGGACACACCACACCAC 60.107 55.0 0.00 0.0 42.04 4.16 F
1707 2206 0.108804 CATGCTTGCTTGGCTTGGAG 60.109 55.0 1.19 0.0 33.22 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1824 2335 0.179045 GTCAGAGCCCATACCGCATT 60.179 55.0 0.0 0.0 0.0 3.56 R
2994 3539 0.233590 CGAACCATCAAAACGACGCA 59.766 50.0 0.0 0.0 0.0 5.24 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
41 45 6.313744 ACAAATAACTGTAGTGCCTTTGTC 57.686 37.500 11.12 0.00 33.43 3.18
43 47 6.017109 ACAAATAACTGTAGTGCCTTTGTCAG 60.017 38.462 11.12 0.00 33.43 3.51
140 156 2.302019 TGAAGGACACACCACACCA 58.698 52.632 0.00 0.00 42.04 4.17
141 157 0.107410 TGAAGGACACACCACACCAC 60.107 55.000 0.00 0.00 42.04 4.16
199 215 3.334272 GTGAGAAACACCCAGAAAACG 57.666 47.619 0.00 0.00 43.05 3.60
262 281 3.542629 AAGCGAGCGCAAAAGCACC 62.543 57.895 17.68 0.00 44.88 5.01
412 446 1.338769 GGCCGTCACCACTCACTTTAT 60.339 52.381 0.00 0.00 0.00 1.40
551 973 4.292178 CCGCATCGGCTCTCTCCC 62.292 72.222 0.00 0.00 41.17 4.30
552 974 3.531207 CGCATCGGCTCTCTCCCA 61.531 66.667 0.00 0.00 38.10 4.37
553 975 2.865598 CGCATCGGCTCTCTCCCAT 61.866 63.158 0.00 0.00 38.10 4.00
554 976 1.301558 GCATCGGCTCTCTCCCATG 60.302 63.158 0.00 0.00 36.96 3.66
815 1254 2.480555 CTCGATGCGGGTTTGTGC 59.519 61.111 0.00 0.00 0.00 4.57
918 1360 2.415608 CGCCGACTAGCTTCCTCCA 61.416 63.158 0.00 0.00 0.00 3.86
921 1363 1.687123 GCCGACTAGCTTCCTCCATTA 59.313 52.381 0.00 0.00 0.00 1.90
930 1372 2.050918 CTTCCTCCATTACCCTCCTCC 58.949 57.143 0.00 0.00 0.00 4.30
942 1387 1.075482 CTCCTCCTTTGCTTGCCCA 59.925 57.895 0.00 0.00 0.00 5.36
1071 1522 4.514577 CAGCGGCCCCGACTACTG 62.515 72.222 11.48 4.38 42.83 2.74
1136 1588 7.231519 AGTTCCTAGGTTTCTTTCTTTTCCATG 59.768 37.037 9.08 0.00 0.00 3.66
1223 1710 8.783833 TTGAAATCTTTTGTCTCTAGATCAGG 57.216 34.615 0.00 0.00 0.00 3.86
1230 1727 5.604758 TTGTCTCTAGATCAGGGATGTTG 57.395 43.478 0.00 0.00 35.73 3.33
1245 1742 2.810439 TGTTGTTGCTATTTGTGCCC 57.190 45.000 0.00 0.00 0.00 5.36
1251 1748 3.243704 TGTTGCTATTTGTGCCCAGTTTC 60.244 43.478 0.00 0.00 0.00 2.78
1259 1756 0.835971 GTGCCCAGTTTCCCCCATTT 60.836 55.000 0.00 0.00 0.00 2.32
1261 1758 1.064003 GCCCAGTTTCCCCCATTTTT 58.936 50.000 0.00 0.00 0.00 1.94
1263 1760 2.619931 CCCAGTTTCCCCCATTTTTCT 58.380 47.619 0.00 0.00 0.00 2.52
1264 1761 2.567169 CCCAGTTTCCCCCATTTTTCTC 59.433 50.000 0.00 0.00 0.00 2.87
1265 1762 2.567169 CCAGTTTCCCCCATTTTTCTCC 59.433 50.000 0.00 0.00 0.00 3.71
1267 1764 3.840078 CAGTTTCCCCCATTTTTCTCCAT 59.160 43.478 0.00 0.00 0.00 3.41
1268 1765 5.022787 CAGTTTCCCCCATTTTTCTCCATA 58.977 41.667 0.00 0.00 0.00 2.74
1270 1767 3.312736 TCCCCCATTTTTCTCCATAGC 57.687 47.619 0.00 0.00 0.00 2.97
1271 1768 2.858768 TCCCCCATTTTTCTCCATAGCT 59.141 45.455 0.00 0.00 0.00 3.32
1272 1769 2.961062 CCCCCATTTTTCTCCATAGCTG 59.039 50.000 0.00 0.00 0.00 4.24
1273 1770 3.628257 CCCCCATTTTTCTCCATAGCTGT 60.628 47.826 0.00 0.00 0.00 4.40
1274 1771 4.386312 CCCCCATTTTTCTCCATAGCTGTA 60.386 45.833 0.00 0.00 0.00 2.74
1275 1772 4.823989 CCCCATTTTTCTCCATAGCTGTAG 59.176 45.833 0.00 0.00 0.00 2.74
1276 1773 5.397899 CCCCATTTTTCTCCATAGCTGTAGA 60.398 44.000 0.00 0.00 0.00 2.59
1282 1779 9.995003 ATTTTTCTCCATAGCTGTAGATAGAAG 57.005 33.333 0.00 0.00 0.00 2.85
1344 1841 5.708230 TCGAGGGCTTATTATTGTTGTTTGT 59.292 36.000 0.00 0.00 0.00 2.83
1352 1849 7.114811 GCTTATTATTGTTGTTTGTGTGACTGG 59.885 37.037 0.00 0.00 0.00 4.00
1353 1850 5.906113 TTATTGTTGTTTGTGTGACTGGT 57.094 34.783 0.00 0.00 0.00 4.00
1354 1851 3.567576 TTGTTGTTTGTGTGACTGGTG 57.432 42.857 0.00 0.00 0.00 4.17
1355 1852 2.784347 TGTTGTTTGTGTGACTGGTGA 58.216 42.857 0.00 0.00 0.00 4.02
1356 1853 2.746904 TGTTGTTTGTGTGACTGGTGAG 59.253 45.455 0.00 0.00 0.00 3.51
1357 1854 2.036958 TGTTTGTGTGACTGGTGAGG 57.963 50.000 0.00 0.00 0.00 3.86
1642 2139 2.585247 CCGCCAGCGCTAGGTAAC 60.585 66.667 10.99 0.89 38.24 2.50
1657 2156 1.767088 GGTAACCACCCTCCCATCTAC 59.233 57.143 0.00 0.00 39.11 2.59
1658 2157 2.628829 GGTAACCACCCTCCCATCTACT 60.629 54.545 0.00 0.00 39.11 2.57
1659 2158 3.374540 GGTAACCACCCTCCCATCTACTA 60.375 52.174 0.00 0.00 39.11 1.82
1660 2159 2.473576 ACCACCCTCCCATCTACTAC 57.526 55.000 0.00 0.00 0.00 2.73
1661 2160 1.938069 ACCACCCTCCCATCTACTACT 59.062 52.381 0.00 0.00 0.00 2.57
1662 2161 3.136896 ACCACCCTCCCATCTACTACTA 58.863 50.000 0.00 0.00 0.00 1.82
1663 2162 3.117208 ACCACCCTCCCATCTACTACTAC 60.117 52.174 0.00 0.00 0.00 2.73
1664 2163 3.140519 CCACCCTCCCATCTACTACTACT 59.859 52.174 0.00 0.00 0.00 2.57
1665 2164 4.387664 CCACCCTCCCATCTACTACTACTT 60.388 50.000 0.00 0.00 0.00 2.24
1666 2165 4.585162 CACCCTCCCATCTACTACTACTTG 59.415 50.000 0.00 0.00 0.00 3.16
1667 2166 4.232354 ACCCTCCCATCTACTACTACTTGT 59.768 45.833 0.00 0.00 0.00 3.16
1668 2167 5.434376 ACCCTCCCATCTACTACTACTTGTA 59.566 44.000 0.00 0.00 0.00 2.41
1669 2168 5.769162 CCCTCCCATCTACTACTACTTGTAC 59.231 48.000 0.00 0.00 0.00 2.90
1670 2169 6.410621 CCCTCCCATCTACTACTACTTGTACT 60.411 46.154 0.00 0.00 0.00 2.73
1704 2203 0.315886 TCACATGCTTGCTTGGCTTG 59.684 50.000 12.06 9.19 39.62 4.01
1707 2206 0.108804 CATGCTTGCTTGGCTTGGAG 60.109 55.000 1.19 0.00 33.22 3.86
1737 2236 9.280174 GCTTACTACTCTACTAGATCAGTGAAT 57.720 37.037 0.00 0.00 38.24 2.57
1786 2285 8.138074 GCATTTCCCTTTTAATACTCCTGATTC 58.862 37.037 0.00 0.00 0.00 2.52
1788 2287 6.555463 TCCCTTTTAATACTCCTGATTCGT 57.445 37.500 0.00 0.00 0.00 3.85
1811 2315 6.334202 GTGTACTTGAATCTGGGAAGTAGAG 58.666 44.000 0.00 0.00 33.83 2.43
1812 2316 4.479786 ACTTGAATCTGGGAAGTAGAGC 57.520 45.455 0.00 0.00 0.00 4.09
1839 2350 1.941812 CGAAATGCGGTATGGGCTC 59.058 57.895 0.00 0.00 36.03 4.70
1840 2351 0.532862 CGAAATGCGGTATGGGCTCT 60.533 55.000 0.00 0.00 36.03 4.09
1841 2352 0.947244 GAAATGCGGTATGGGCTCTG 59.053 55.000 0.00 0.00 0.00 3.35
1842 2353 0.546122 AAATGCGGTATGGGCTCTGA 59.454 50.000 0.00 0.00 0.00 3.27
1876 2387 1.357258 CTGGTGTCATGAGTCGCTGC 61.357 60.000 0.00 0.00 0.00 5.25
1970 2486 7.072177 ACACACATGATAGTTAATTCAACGG 57.928 36.000 0.00 0.00 42.35 4.44
1974 2490 3.547746 TGATAGTTAATTCAACGGGGCC 58.452 45.455 0.00 0.00 42.35 5.80
1976 2492 2.597578 AGTTAATTCAACGGGGCCTT 57.402 45.000 0.84 0.00 42.35 4.35
1977 2493 2.167662 AGTTAATTCAACGGGGCCTTG 58.832 47.619 0.84 0.43 42.35 3.61
2013 2530 1.547372 TGGTTACCAGAGTTACCGAGC 59.453 52.381 0.00 0.00 46.58 5.03
2014 2531 1.468736 GGTTACCAGAGTTACCGAGCG 60.469 57.143 0.00 0.00 36.06 5.03
2036 2556 4.113354 GCTACCAGTATACTGAAGTGTGC 58.887 47.826 30.41 22.33 46.59 4.57
2038 2558 3.926616 ACCAGTATACTGAAGTGTGCAC 58.073 45.455 30.41 10.75 46.59 4.57
2052 2575 2.878406 GTGTGCACTACCATGTTTCAGT 59.122 45.455 19.41 0.00 0.00 3.41
2117 2640 5.385617 CAAAAGCTGTCAAAGTAGATTCGG 58.614 41.667 0.00 0.00 0.00 4.30
2231 2760 5.013547 ACTGATGAACACTCTAGTAGCTGT 58.986 41.667 0.00 0.00 0.00 4.40
2246 2779 0.954452 GCTGTGTGTTCTCCCTTTGG 59.046 55.000 0.00 0.00 0.00 3.28
2339 2874 4.324641 GCTTAAAGGGAGGTCCATCTTTCT 60.325 45.833 0.00 0.00 38.24 2.52
2448 2983 3.243068 TGGAAGCAACTTTCTCGCTTTTC 60.243 43.478 0.00 0.00 45.63 2.29
2467 3002 1.967779 TCTGAAGATGGGACGTGTGAA 59.032 47.619 0.00 0.00 0.00 3.18
2545 3085 2.387125 TTTCTTTGTGCAGCGGCGTC 62.387 55.000 9.37 0.13 45.35 5.19
2608 3148 4.954118 ACAGGGACAGGCACCGGA 62.954 66.667 9.46 0.00 0.00 5.14
2961 3502 4.038080 CCCCGCCGCTTTTGTGTC 62.038 66.667 0.00 0.00 0.00 3.67
2962 3503 4.038080 CCCGCCGCTTTTGTGTCC 62.038 66.667 0.00 0.00 0.00 4.02
2963 3504 4.383602 CCGCCGCTTTTGTGTCCG 62.384 66.667 0.00 0.00 0.00 4.79
2966 3507 2.978010 CCGCTTTTGTGTCCGGCT 60.978 61.111 0.00 0.00 33.77 5.52
2972 3517 2.377628 TTTTGTGTCCGGCTCGCTCT 62.378 55.000 0.00 0.00 0.00 4.09
2989 3534 4.082523 TCTCGCCTGCCTTTCCGG 62.083 66.667 0.00 0.00 0.00 5.14
3027 3575 2.935651 GTTCGATCGGACGTACCAC 58.064 57.895 16.41 0.00 38.90 4.16
3038 3607 3.030209 CGTACCACGTCCATGAGTG 57.970 57.895 0.00 1.46 36.74 3.51
3040 3609 0.246635 GTACCACGTCCATGAGTGCT 59.753 55.000 0.00 0.00 37.07 4.40
3041 3610 1.475280 GTACCACGTCCATGAGTGCTA 59.525 52.381 0.00 0.00 37.07 3.49
3042 3611 0.532573 ACCACGTCCATGAGTGCTAG 59.467 55.000 0.00 0.00 37.07 3.42
3207 3779 1.361668 CCTCGTCTGTTTCCATGCCG 61.362 60.000 0.00 0.00 0.00 5.69
3287 3866 2.107750 CACGGCCTCGCATCATCT 59.892 61.111 0.00 0.00 40.63 2.90
3290 3869 2.976903 GGCCTCGCATCATCTGGC 60.977 66.667 0.00 0.00 42.56 4.85
3293 3872 2.107750 CTCGCATCATCTGGCCGT 59.892 61.111 0.00 0.00 0.00 5.68
3316 3902 2.969238 CCGATGCCATGCTCCGTC 60.969 66.667 0.00 0.00 0.00 4.79
3428 4024 1.863662 AATATCGCGGCGATCGAGGT 61.864 55.000 37.58 19.13 43.45 3.85
3433 4029 2.593725 CGGCGATCGAGGTAGGGA 60.594 66.667 21.57 0.00 42.43 4.20
3436 4032 2.269529 GCGATCGAGGTAGGGAGGG 61.270 68.421 21.57 0.00 0.00 4.30
3437 4033 1.454976 CGATCGAGGTAGGGAGGGA 59.545 63.158 10.26 0.00 0.00 4.20
3438 4034 0.606944 CGATCGAGGTAGGGAGGGAG 60.607 65.000 10.26 0.00 0.00 4.30
3439 4035 0.251430 GATCGAGGTAGGGAGGGAGG 60.251 65.000 0.00 0.00 0.00 4.30
3440 4036 1.731324 ATCGAGGTAGGGAGGGAGGG 61.731 65.000 0.00 0.00 0.00 4.30
3441 4037 2.615773 GAGGTAGGGAGGGAGGGG 59.384 72.222 0.00 0.00 0.00 4.79
3514 4110 3.898640 GCGCGCGCACTACTGTAC 61.899 66.667 46.11 15.61 41.49 2.90
3515 4111 2.202440 CGCGCGCACTACTGTACT 60.202 61.111 32.61 0.00 0.00 2.73
3516 4112 2.215604 CGCGCGCACTACTGTACTC 61.216 63.158 32.61 0.00 0.00 2.59
3712 4309 2.891391 CAACGCATGGAAATATCGACG 58.109 47.619 0.00 0.00 0.00 5.12
3713 4310 1.497991 ACGCATGGAAATATCGACGG 58.502 50.000 0.00 0.00 0.00 4.79
3714 4311 0.790207 CGCATGGAAATATCGACGGG 59.210 55.000 0.00 0.00 0.00 5.28
3715 4312 0.517316 GCATGGAAATATCGACGGGC 59.483 55.000 0.00 0.00 0.00 6.13
3716 4313 1.877637 CATGGAAATATCGACGGGCA 58.122 50.000 0.00 0.00 0.00 5.36
3717 4314 2.426522 CATGGAAATATCGACGGGCAT 58.573 47.619 0.00 0.00 0.00 4.40
3718 4315 1.877637 TGGAAATATCGACGGGCATG 58.122 50.000 0.00 0.00 0.00 4.06
3719 4316 1.156736 GGAAATATCGACGGGCATGG 58.843 55.000 0.00 0.00 0.00 3.66
3720 4317 0.517316 GAAATATCGACGGGCATGGC 59.483 55.000 11.56 11.56 0.00 4.40
3721 4318 1.227999 AAATATCGACGGGCATGGCG 61.228 55.000 13.76 11.05 0.00 5.69
3722 4319 2.377628 AATATCGACGGGCATGGCGT 62.378 55.000 13.76 14.24 0.00 5.68
3723 4320 2.377628 ATATCGACGGGCATGGCGTT 62.378 55.000 13.76 1.59 0.00 4.84
3726 4323 4.101790 GACGGGCATGGCGTTGTG 62.102 66.667 13.76 3.07 0.00 3.33
3727 4324 4.947147 ACGGGCATGGCGTTGTGT 62.947 61.111 13.76 3.70 0.00 3.72
3728 4325 4.403137 CGGGCATGGCGTTGTGTG 62.403 66.667 13.76 0.00 0.00 3.82
3729 4326 4.722855 GGGCATGGCGTTGTGTGC 62.723 66.667 13.76 0.00 36.88 4.57
3736 4333 2.639286 GCGTTGTGTGCCTTGGAG 59.361 61.111 0.00 0.00 0.00 3.86
3737 4334 2.908073 GCGTTGTGTGCCTTGGAGG 61.908 63.158 0.00 0.00 38.80 4.30
3738 4335 1.525995 CGTTGTGTGCCTTGGAGGT 60.526 57.895 0.00 0.00 37.80 3.85
3739 4336 1.785041 CGTTGTGTGCCTTGGAGGTG 61.785 60.000 0.00 0.00 37.80 4.00
3740 4337 1.152777 TTGTGTGCCTTGGAGGTGG 60.153 57.895 0.00 0.00 37.80 4.61
3745 4342 3.971702 GCCTTGGAGGTGGCCTGT 61.972 66.667 3.32 0.00 43.11 4.00
3746 4343 2.846532 CCTTGGAGGTGGCCTGTT 59.153 61.111 3.32 0.00 31.76 3.16
3747 4344 1.604593 CCTTGGAGGTGGCCTGTTG 60.605 63.158 3.32 0.00 31.76 3.33
3748 4345 1.151450 CTTGGAGGTGGCCTGTTGT 59.849 57.895 3.32 0.00 31.76 3.32
3749 4346 0.468029 CTTGGAGGTGGCCTGTTGTT 60.468 55.000 3.32 0.00 31.76 2.83
3750 4347 0.754957 TTGGAGGTGGCCTGTTGTTG 60.755 55.000 3.32 0.00 31.76 3.33
3751 4348 2.564721 GGAGGTGGCCTGTTGTTGC 61.565 63.158 3.32 0.00 31.76 4.17
3756 4353 2.736531 GGCCTGTTGTTGCCTTGG 59.263 61.111 0.00 0.00 44.46 3.61
3757 4354 2.736531 GCCTGTTGTTGCCTTGGG 59.263 61.111 0.00 0.00 0.00 4.12
3790 4387 3.631145 CAACGCATGGAAATATCTGGG 57.369 47.619 0.00 0.00 0.00 4.45
3791 4388 2.951642 CAACGCATGGAAATATCTGGGT 59.048 45.455 0.00 0.00 36.48 4.51
3792 4389 2.851195 ACGCATGGAAATATCTGGGTC 58.149 47.619 0.00 0.00 29.97 4.46
3793 4390 2.439507 ACGCATGGAAATATCTGGGTCT 59.560 45.455 0.00 0.00 29.97 3.85
3794 4391 3.070018 CGCATGGAAATATCTGGGTCTC 58.930 50.000 0.00 0.00 0.00 3.36
3795 4392 3.244353 CGCATGGAAATATCTGGGTCTCT 60.244 47.826 0.00 0.00 0.00 3.10
3796 4393 4.322567 GCATGGAAATATCTGGGTCTCTC 58.677 47.826 0.00 0.00 0.00 3.20
3797 4394 4.564041 CATGGAAATATCTGGGTCTCTCG 58.436 47.826 0.00 0.00 0.00 4.04
3798 4395 2.965831 TGGAAATATCTGGGTCTCTCGG 59.034 50.000 0.00 0.00 0.00 4.63
3799 4396 2.300437 GGAAATATCTGGGTCTCTCGGG 59.700 54.545 0.00 0.00 0.00 5.14
3800 4397 1.343069 AATATCTGGGTCTCTCGGGC 58.657 55.000 0.00 0.00 0.00 6.13
3801 4398 0.543174 ATATCTGGGTCTCTCGGGCC 60.543 60.000 0.00 0.00 39.42 5.80
3806 4403 3.003763 GGTCTCTCGGGCCCTTGT 61.004 66.667 22.43 0.00 32.51 3.16
3807 4404 2.266055 GTCTCTCGGGCCCTTGTG 59.734 66.667 22.43 12.99 0.00 3.33
3808 4405 3.706373 TCTCTCGGGCCCTTGTGC 61.706 66.667 22.43 0.00 0.00 4.57
3809 4406 3.710722 CTCTCGGGCCCTTGTGCT 61.711 66.667 22.43 0.00 0.00 4.40
3810 4407 3.672295 CTCTCGGGCCCTTGTGCTC 62.672 68.421 22.43 0.00 0.00 4.26
3816 4413 4.400961 GCCCTTGTGCTCGCCTCT 62.401 66.667 0.00 0.00 0.00 3.69
3817 4414 2.125350 CCCTTGTGCTCGCCTCTC 60.125 66.667 0.00 0.00 0.00 3.20
3818 4415 2.507992 CCTTGTGCTCGCCTCTCG 60.508 66.667 0.00 0.00 40.15 4.04
3819 4416 2.259818 CTTGTGCTCGCCTCTCGT 59.740 61.111 0.00 0.00 39.67 4.18
3820 4417 1.373497 CTTGTGCTCGCCTCTCGTT 60.373 57.895 0.00 0.00 39.67 3.85
3821 4418 1.621301 CTTGTGCTCGCCTCTCGTTG 61.621 60.000 0.00 0.00 39.67 4.10
3822 4419 2.082629 TTGTGCTCGCCTCTCGTTGA 62.083 55.000 0.00 0.00 39.67 3.18
3823 4420 1.803519 GTGCTCGCCTCTCGTTGAG 60.804 63.158 2.13 2.13 42.30 3.02
3824 4421 2.883253 GCTCGCCTCTCGTTGAGC 60.883 66.667 0.00 0.00 45.95 4.26
3825 4422 2.578178 CTCGCCTCTCGTTGAGCG 60.578 66.667 6.37 6.37 41.35 5.03
3826 4423 3.329688 CTCGCCTCTCGTTGAGCGT 62.330 63.158 11.13 0.00 41.35 5.07
3827 4424 3.175240 CGCCTCTCGTTGAGCGTG 61.175 66.667 0.00 0.00 41.35 5.34
3828 4425 2.811317 GCCTCTCGTTGAGCGTGG 60.811 66.667 3.34 0.00 41.35 4.94
3829 4426 2.125912 CCTCTCGTTGAGCGTGGG 60.126 66.667 3.34 0.00 41.35 4.61
3830 4427 2.811317 CTCTCGTTGAGCGTGGGC 60.811 66.667 0.00 0.00 42.13 5.36
3844 4441 4.643387 GGGCTGGTGTCGTGCCTT 62.643 66.667 0.00 0.00 45.45 4.35
3845 4442 3.357079 GGCTGGTGTCGTGCCTTG 61.357 66.667 0.00 0.00 43.05 3.61
3846 4443 3.357079 GCTGGTGTCGTGCCTTGG 61.357 66.667 0.00 0.00 0.00 3.61
3847 4444 2.425592 CTGGTGTCGTGCCTTGGA 59.574 61.111 0.00 0.00 0.00 3.53
3848 4445 1.669115 CTGGTGTCGTGCCTTGGAG 60.669 63.158 0.00 0.00 0.00 3.86
3849 4446 2.358737 GGTGTCGTGCCTTGGAGG 60.359 66.667 0.00 0.00 38.80 4.30
3850 4447 2.426023 GTGTCGTGCCTTGGAGGT 59.574 61.111 0.00 0.00 37.80 3.85
3851 4448 1.961277 GTGTCGTGCCTTGGAGGTG 60.961 63.158 0.00 0.00 37.80 4.00
3852 4449 2.358737 GTCGTGCCTTGGAGGTGG 60.359 66.667 0.00 0.00 37.80 4.61
3857 4454 3.971702 GCCTTGGAGGTGGCCTGT 61.972 66.667 3.32 0.00 43.11 4.00
3858 4455 2.846532 CCTTGGAGGTGGCCTGTT 59.153 61.111 3.32 0.00 31.76 3.16
3859 4456 1.604593 CCTTGGAGGTGGCCTGTTG 60.605 63.158 3.32 0.00 31.76 3.33
3860 4457 1.455849 CTTGGAGGTGGCCTGTTGA 59.544 57.895 3.32 0.00 31.76 3.18
3861 4458 0.607489 CTTGGAGGTGGCCTGTTGAG 60.607 60.000 3.32 0.00 31.76 3.02
3862 4459 2.360475 GGAGGTGGCCTGTTGAGC 60.360 66.667 3.32 0.00 31.76 4.26
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 7.200455 AGGCACTACAGTTATTTGTTCAAAAC 58.800 34.615 2.11 0.00 36.02 2.43
41 45 6.127310 GGTAGGGACCTATATCTAACATGCTG 60.127 46.154 0.72 0.00 43.16 4.41
43 47 6.223351 GGTAGGGACCTATATCTAACATGC 57.777 45.833 0.72 0.00 43.16 4.06
136 152 0.249868 TGTCCTCTTGCTTCGTGGTG 60.250 55.000 0.00 0.00 0.00 4.17
137 153 0.249911 GTGTCCTCTTGCTTCGTGGT 60.250 55.000 0.00 0.00 0.00 4.16
138 154 0.249868 TGTGTCCTCTTGCTTCGTGG 60.250 55.000 0.00 0.00 0.00 4.94
139 155 1.143305 CTGTGTCCTCTTGCTTCGTG 58.857 55.000 0.00 0.00 0.00 4.35
140 156 0.034059 CCTGTGTCCTCTTGCTTCGT 59.966 55.000 0.00 0.00 0.00 3.85
141 157 0.318441 TCCTGTGTCCTCTTGCTTCG 59.682 55.000 0.00 0.00 0.00 3.79
199 215 4.760047 ACATGGCCTGCGTCGACC 62.760 66.667 10.58 3.43 0.00 4.79
206 225 2.045634 TGCTCTCACATGGCCTGC 60.046 61.111 3.32 0.00 0.00 4.85
262 281 0.179089 CGATCTTGCTGGGGAGTGAG 60.179 60.000 0.00 0.00 0.00 3.51
456 491 5.891198 TCCACCAAACCAGTACTACTACTA 58.109 41.667 0.00 0.00 31.46 1.82
544 966 2.921435 GGCATGGCATGGGAGAGA 59.079 61.111 27.48 0.00 0.00 3.10
545 967 2.593725 CGGCATGGCATGGGAGAG 60.594 66.667 27.48 2.65 0.00 3.20
546 968 4.881440 GCGGCATGGCATGGGAGA 62.881 66.667 27.48 0.00 0.00 3.71
764 1203 1.082206 CCCCCTGGAGGTGGAGTTA 59.918 63.158 0.00 0.00 0.00 2.24
918 1360 2.621668 GCAAGCAAAGGAGGAGGGTAAT 60.622 50.000 0.00 0.00 0.00 1.89
921 1363 1.075659 GCAAGCAAAGGAGGAGGGT 59.924 57.895 0.00 0.00 0.00 4.34
930 1372 1.580845 CGAGGTCTGGGCAAGCAAAG 61.581 60.000 0.00 0.00 0.00 2.77
957 1402 4.468689 TCTCGCTCTCTCGCCGGA 62.469 66.667 5.05 0.00 0.00 5.14
958 1403 3.947841 CTCTCGCTCTCTCGCCGG 61.948 72.222 0.00 0.00 0.00 6.13
1136 1588 2.595009 GATTCAGGTCCGGGGAGTGC 62.595 65.000 0.00 0.00 0.00 4.40
1223 1710 3.253230 GGCACAAATAGCAACAACATCC 58.747 45.455 0.00 0.00 0.00 3.51
1230 1727 3.317150 GAAACTGGGCACAAATAGCAAC 58.683 45.455 0.00 0.00 0.00 4.17
1245 1742 3.238597 TGGAGAAAAATGGGGGAAACTG 58.761 45.455 0.00 0.00 0.00 3.16
1251 1748 2.961062 CAGCTATGGAGAAAAATGGGGG 59.039 50.000 0.00 0.00 0.00 5.40
1263 1760 8.768501 TTTCTTCTTCTATCTACAGCTATGGA 57.231 34.615 0.00 0.00 0.00 3.41
1264 1761 8.855110 TCTTTCTTCTTCTATCTACAGCTATGG 58.145 37.037 0.00 0.00 0.00 2.74
1309 1806 5.923733 ATAAGCCCTCGAATCGAATCTAT 57.076 39.130 6.84 0.00 34.74 1.98
1310 1807 5.723672 AATAAGCCCTCGAATCGAATCTA 57.276 39.130 6.84 0.00 34.74 1.98
1311 1808 4.608948 AATAAGCCCTCGAATCGAATCT 57.391 40.909 6.84 1.08 34.74 2.40
1312 1809 6.369065 ACAATAATAAGCCCTCGAATCGAATC 59.631 38.462 6.84 0.00 34.74 2.52
1313 1810 6.231211 ACAATAATAAGCCCTCGAATCGAAT 58.769 36.000 6.84 0.00 34.74 3.34
1314 1811 5.607477 ACAATAATAAGCCCTCGAATCGAA 58.393 37.500 6.84 0.00 34.74 3.71
1315 1812 5.209818 ACAATAATAAGCCCTCGAATCGA 57.790 39.130 4.91 4.91 0.00 3.59
1344 1841 0.969149 CTGCTACCTCACCAGTCACA 59.031 55.000 0.00 0.00 0.00 3.58
1352 1849 1.202463 ACATCGCATCTGCTACCTCAC 60.202 52.381 0.09 0.00 39.32 3.51
1353 1850 1.114627 ACATCGCATCTGCTACCTCA 58.885 50.000 0.09 0.00 39.32 3.86
1354 1851 2.294791 AGTACATCGCATCTGCTACCTC 59.705 50.000 0.00 0.00 39.32 3.85
1355 1852 2.035193 CAGTACATCGCATCTGCTACCT 59.965 50.000 0.00 0.00 39.32 3.08
1356 1853 2.398498 CAGTACATCGCATCTGCTACC 58.602 52.381 0.00 0.00 39.32 3.18
1357 1854 1.789464 GCAGTACATCGCATCTGCTAC 59.211 52.381 8.46 0.00 46.35 3.58
1640 2137 2.318207 AGTAGTAGATGGGAGGGTGGTT 59.682 50.000 0.00 0.00 0.00 3.67
1642 2139 2.777459 AGTAGTAGATGGGAGGGTGG 57.223 55.000 0.00 0.00 0.00 4.61
1657 2156 4.441634 GGCATGTGGGAGTACAAGTAGTAG 60.442 50.000 0.00 0.00 33.69 2.57
1658 2157 3.449737 GGCATGTGGGAGTACAAGTAGTA 59.550 47.826 0.00 0.00 33.69 1.82
1659 2158 2.236395 GGCATGTGGGAGTACAAGTAGT 59.764 50.000 0.00 0.00 33.69 2.73
1660 2159 2.501723 AGGCATGTGGGAGTACAAGTAG 59.498 50.000 0.00 0.00 33.69 2.57
1661 2160 2.500098 GAGGCATGTGGGAGTACAAGTA 59.500 50.000 0.00 0.00 33.69 2.24
1662 2161 1.279271 GAGGCATGTGGGAGTACAAGT 59.721 52.381 0.00 0.00 33.69 3.16
1663 2162 1.407437 GGAGGCATGTGGGAGTACAAG 60.407 57.143 0.00 0.00 33.69 3.16
1664 2163 0.618458 GGAGGCATGTGGGAGTACAA 59.382 55.000 0.00 0.00 33.69 2.41
1665 2164 1.271840 GGGAGGCATGTGGGAGTACA 61.272 60.000 0.00 0.00 34.63 2.90
1666 2165 0.983378 AGGGAGGCATGTGGGAGTAC 60.983 60.000 0.00 0.00 0.00 2.73
1667 2166 0.691078 GAGGGAGGCATGTGGGAGTA 60.691 60.000 0.00 0.00 0.00 2.59
1668 2167 1.997874 GAGGGAGGCATGTGGGAGT 60.998 63.158 0.00 0.00 0.00 3.85
1669 2168 1.997311 TGAGGGAGGCATGTGGGAG 60.997 63.158 0.00 0.00 0.00 4.30
1670 2169 2.124768 TGAGGGAGGCATGTGGGA 59.875 61.111 0.00 0.00 0.00 4.37
1704 2203 5.998981 TCTAGTAGAGTAGTAAGCATGCTCC 59.001 44.000 22.93 14.81 0.00 4.70
1707 2206 7.174253 ACTGATCTAGTAGAGTAGTAAGCATGC 59.826 40.741 10.51 10.51 38.04 4.06
1737 2236 5.423931 GCCCCCAAATCCTTTAATAAACAGA 59.576 40.000 0.00 0.00 0.00 3.41
1745 2244 3.521531 GGAAATGCCCCCAAATCCTTTAA 59.478 43.478 0.00 0.00 30.93 1.52
1749 2248 3.322501 GGAAATGCCCCCAAATCCT 57.677 52.632 0.00 0.00 30.93 3.24
1786 2285 3.926616 ACTTCCCAGATTCAAGTACACG 58.073 45.455 0.00 0.00 0.00 4.49
1788 2287 5.105310 GCTCTACTTCCCAGATTCAAGTACA 60.105 44.000 0.00 0.00 32.56 2.90
1811 2315 1.064060 ACCGCATTTCGCTTAAGATGC 59.936 47.619 6.67 11.32 41.01 3.91
1812 2316 4.457810 CATACCGCATTTCGCTTAAGATG 58.542 43.478 6.67 2.04 39.08 2.90
1824 2335 0.179045 GTCAGAGCCCATACCGCATT 60.179 55.000 0.00 0.00 0.00 3.56
1829 2340 1.137872 CAGTCAGTCAGAGCCCATACC 59.862 57.143 0.00 0.00 0.00 2.73
1836 2347 2.267324 GGGGCAGTCAGTCAGAGC 59.733 66.667 0.00 0.00 0.00 4.09
1839 2350 1.190833 AGTCAGGGGCAGTCAGTCAG 61.191 60.000 0.00 0.00 0.00 3.51
1840 2351 1.152247 AGTCAGGGGCAGTCAGTCA 60.152 57.895 0.00 0.00 0.00 3.41
1841 2352 1.294780 CAGTCAGGGGCAGTCAGTC 59.705 63.158 0.00 0.00 0.00 3.51
1842 2353 2.219875 CCAGTCAGGGGCAGTCAGT 61.220 63.158 0.00 0.00 0.00 3.41
1876 2387 8.114290 CACTAATAACACCAAGTAAACTATGCG 58.886 37.037 0.00 0.00 0.00 4.73
1970 2486 1.077429 CCCTGAACTAGCAAGGCCC 60.077 63.158 0.00 0.00 0.00 5.80
1974 2490 3.012518 CCATGAACCCTGAACTAGCAAG 58.987 50.000 0.00 0.00 0.00 4.01
1976 2492 1.985159 ACCATGAACCCTGAACTAGCA 59.015 47.619 0.00 0.00 0.00 3.49
1977 2493 2.789409 ACCATGAACCCTGAACTAGC 57.211 50.000 0.00 0.00 0.00 3.42
2013 2530 4.352039 CACACTTCAGTATACTGGTAGCG 58.648 47.826 28.33 21.20 43.91 4.26
2014 2531 4.113354 GCACACTTCAGTATACTGGTAGC 58.887 47.826 28.33 21.02 43.91 3.58
2036 2556 4.566545 TGCAAACTGAAACATGGTAGTG 57.433 40.909 0.00 0.00 0.00 2.74
2038 2558 6.254157 GCATATTGCAAACTGAAACATGGTAG 59.746 38.462 1.71 0.00 44.26 3.18
2117 2640 2.193536 GGGCACGGCACATATTCCC 61.194 63.158 0.00 0.00 0.00 3.97
2231 2760 2.775384 ACAGTACCAAAGGGAGAACACA 59.225 45.455 0.00 0.00 38.05 3.72
2246 2779 5.993106 AAGCAAGAACTCAAGAACAGTAC 57.007 39.130 0.00 0.00 0.00 2.73
2316 2851 3.653835 AAGATGGACCTCCCTTTAAGC 57.346 47.619 0.00 0.00 35.38 3.09
2339 2874 2.046700 GAACGGGTGGCATTCGGA 60.047 61.111 14.86 0.00 0.00 4.55
2448 2983 2.455674 TTCACACGTCCCATCTTCAG 57.544 50.000 0.00 0.00 0.00 3.02
2467 3002 0.313672 ACATTGCACGGCGAAATGTT 59.686 45.000 23.88 14.18 0.00 2.71
2608 3148 4.740822 GTGCCGGTTCCCATGCCT 62.741 66.667 1.90 0.00 0.00 4.75
2626 3166 3.047877 GTTCCGGTGCTGGTTCCG 61.048 66.667 0.00 0.00 45.42 4.30
2761 3301 1.278985 CTGTAGTCCTGGTTCATGCCA 59.721 52.381 0.00 0.00 36.97 4.92
2959 3500 4.244802 CGAGAGAGCGAGCCGGAC 62.245 72.222 5.05 0.00 0.00 4.79
2972 3517 4.082523 CCGGAAAGGCAGGCGAGA 62.083 66.667 0.00 0.00 0.00 4.04
2991 3536 0.865769 ACCATCAAAACGACGCAGAC 59.134 50.000 0.00 0.00 0.00 3.51
2992 3537 1.529438 GAACCATCAAAACGACGCAGA 59.471 47.619 0.00 0.00 0.00 4.26
2993 3538 1.721489 CGAACCATCAAAACGACGCAG 60.721 52.381 0.00 0.00 0.00 5.18
2994 3539 0.233590 CGAACCATCAAAACGACGCA 59.766 50.000 0.00 0.00 0.00 5.24
3027 3575 2.946329 AGAGTACTAGCACTCATGGACG 59.054 50.000 22.39 0.00 46.15 4.79
3038 3607 6.919115 GTGGTCAGCTTAATAAGAGTACTAGC 59.081 42.308 3.88 0.00 0.00 3.42
3040 3609 6.323225 GGGTGGTCAGCTTAATAAGAGTACTA 59.677 42.308 3.88 0.00 0.00 1.82
3041 3610 5.128991 GGGTGGTCAGCTTAATAAGAGTACT 59.871 44.000 3.88 0.00 0.00 2.73
3042 3611 5.358090 GGGTGGTCAGCTTAATAAGAGTAC 58.642 45.833 3.88 0.00 0.00 2.73
3207 3779 0.877071 TGAGCTAGCAGCACAAAAGC 59.123 50.000 18.83 0.00 45.56 3.51
3293 3872 4.504596 GCATGGCATCGGGTGGGA 62.505 66.667 0.00 0.00 0.00 4.37
3316 3902 2.599973 GCACACACAAAACAAGCTCAAG 59.400 45.455 0.00 0.00 0.00 3.02
3325 3911 0.571661 CGTGCATGCACACACAAAAC 59.428 50.000 40.95 18.33 46.47 2.43
3428 4024 2.392816 CGAGACCCCTCCCTCCCTA 61.393 68.421 0.00 0.00 36.04 3.53
3433 4029 3.966930 GAGCACGAGACCCCTCCCT 62.967 68.421 0.00 0.00 36.04 4.20
3436 4032 3.827898 CCGAGCACGAGACCCCTC 61.828 72.222 4.70 0.00 42.66 4.30
3437 4033 4.361971 TCCGAGCACGAGACCCCT 62.362 66.667 4.70 0.00 42.66 4.79
3438 4034 3.827898 CTCCGAGCACGAGACCCC 61.828 72.222 4.70 0.00 42.66 4.95
3439 4035 4.500116 GCTCCGAGCACGAGACCC 62.500 72.222 15.78 0.00 41.89 4.46
3440 4036 4.500116 GGCTCCGAGCACGAGACC 62.500 72.222 21.76 0.00 44.75 3.85
3441 4037 3.691744 CTGGCTCCGAGCACGAGAC 62.692 68.421 21.76 3.53 44.75 3.36
3503 4099 1.064357 GCTCGAGGAGTACAGTAGTGC 59.936 57.143 15.58 0.00 31.39 4.40
3505 4101 1.206610 TCGCTCGAGGAGTACAGTAGT 59.793 52.381 15.58 0.00 31.39 2.73
3506 4102 1.862201 CTCGCTCGAGGAGTACAGTAG 59.138 57.143 15.58 0.00 38.51 2.57
3507 4103 1.937278 CTCGCTCGAGGAGTACAGTA 58.063 55.000 15.58 0.00 38.51 2.74
3508 4104 1.370587 GCTCGCTCGAGGAGTACAGT 61.371 60.000 23.36 0.00 42.19 3.55
3509 4105 1.353804 GCTCGCTCGAGGAGTACAG 59.646 63.158 23.36 7.41 42.19 2.74
3511 4107 2.325166 CGCTCGCTCGAGGAGTAC 59.675 66.667 23.36 12.46 42.19 2.73
3530 4126 4.634133 TGTCGGTGTCGGCGTGTC 62.634 66.667 6.85 0.00 45.11 3.67
3576 4172 1.390383 CGAGGAGATCAGAGGCAGCA 61.390 60.000 0.00 0.00 0.00 4.41
3577 4173 1.363443 CGAGGAGATCAGAGGCAGC 59.637 63.158 0.00 0.00 0.00 5.25
3578 4174 1.462731 CCCGAGGAGATCAGAGGCAG 61.463 65.000 0.00 0.00 0.00 4.85
3685 4282 4.738998 TCCATGCGTTGGCCCAGG 62.739 66.667 0.00 0.00 46.01 4.45
3703 4300 1.667830 CGCCATGCCCGTCGATATT 60.668 57.895 0.00 0.00 0.00 1.28
3704 4301 2.048222 CGCCATGCCCGTCGATAT 60.048 61.111 0.00 0.00 0.00 1.63
3705 4302 3.083848 AACGCCATGCCCGTCGATA 62.084 57.895 9.58 0.00 38.06 2.92
3706 4303 4.467084 AACGCCATGCCCGTCGAT 62.467 61.111 9.58 0.00 38.06 3.59
3709 4306 4.101790 CACAACGCCATGCCCGTC 62.102 66.667 9.58 0.00 38.06 4.79
3710 4307 4.947147 ACACAACGCCATGCCCGT 62.947 61.111 4.11 4.11 41.24 5.28
3711 4308 4.403137 CACACAACGCCATGCCCG 62.403 66.667 2.92 2.92 0.00 6.13
3712 4309 4.722855 GCACACAACGCCATGCCC 62.723 66.667 0.00 0.00 31.71 5.36
3719 4316 2.639286 CTCCAAGGCACACAACGC 59.361 61.111 0.00 0.00 0.00 4.84
3720 4317 1.525995 ACCTCCAAGGCACACAACG 60.526 57.895 0.00 0.00 39.63 4.10
3721 4318 1.455383 CCACCTCCAAGGCACACAAC 61.455 60.000 0.00 0.00 39.63 3.32
3722 4319 1.152777 CCACCTCCAAGGCACACAA 60.153 57.895 0.00 0.00 39.63 3.33
3723 4320 2.515398 CCACCTCCAAGGCACACA 59.485 61.111 0.00 0.00 39.63 3.72
3729 4326 1.604593 CAACAGGCCACCTCCAAGG 60.605 63.158 5.01 0.00 42.49 3.61
3730 4327 0.468029 AACAACAGGCCACCTCCAAG 60.468 55.000 5.01 0.00 0.00 3.61
3731 4328 0.754957 CAACAACAGGCCACCTCCAA 60.755 55.000 5.01 0.00 0.00 3.53
3732 4329 1.152777 CAACAACAGGCCACCTCCA 60.153 57.895 5.01 0.00 0.00 3.86
3733 4330 2.564721 GCAACAACAGGCCACCTCC 61.565 63.158 5.01 0.00 0.00 4.30
3734 4331 3.042560 GCAACAACAGGCCACCTC 58.957 61.111 5.01 0.00 0.00 3.85
3740 4337 2.736531 CCCAAGGCAACAACAGGC 59.263 61.111 0.00 0.00 41.41 4.85
3763 4360 4.738998 TCCATGCGTTGGCCCAGG 62.739 66.667 0.00 0.00 46.01 4.45
3764 4361 1.606885 ATTTCCATGCGTTGGCCCAG 61.607 55.000 0.00 0.00 46.01 4.45
3765 4362 0.323816 TATTTCCATGCGTTGGCCCA 60.324 50.000 0.00 0.00 46.01 5.36
3766 4363 1.000274 GATATTTCCATGCGTTGGCCC 60.000 52.381 0.00 0.00 46.01 5.80
3767 4364 1.956477 AGATATTTCCATGCGTTGGCC 59.044 47.619 0.00 0.00 46.01 5.36
3768 4365 2.287788 CCAGATATTTCCATGCGTTGGC 60.288 50.000 0.64 0.00 46.01 4.52
3770 4367 2.951642 ACCCAGATATTTCCATGCGTTG 59.048 45.455 0.00 0.00 0.00 4.10
3771 4368 3.117888 AGACCCAGATATTTCCATGCGTT 60.118 43.478 0.00 0.00 0.00 4.84
3772 4369 2.439507 AGACCCAGATATTTCCATGCGT 59.560 45.455 0.00 0.00 0.00 5.24
3773 4370 3.070018 GAGACCCAGATATTTCCATGCG 58.930 50.000 0.00 0.00 0.00 4.73
3774 4371 4.322567 GAGAGACCCAGATATTTCCATGC 58.677 47.826 0.00 0.00 0.00 4.06
3775 4372 4.562347 CCGAGAGACCCAGATATTTCCATG 60.562 50.000 0.00 0.00 0.00 3.66
3776 4373 3.580458 CCGAGAGACCCAGATATTTCCAT 59.420 47.826 0.00 0.00 0.00 3.41
3777 4374 2.965831 CCGAGAGACCCAGATATTTCCA 59.034 50.000 0.00 0.00 0.00 3.53
3778 4375 2.300437 CCCGAGAGACCCAGATATTTCC 59.700 54.545 0.00 0.00 0.00 3.13
3779 4376 2.289133 GCCCGAGAGACCCAGATATTTC 60.289 54.545 0.00 0.00 0.00 2.17
3780 4377 1.694696 GCCCGAGAGACCCAGATATTT 59.305 52.381 0.00 0.00 0.00 1.40
3781 4378 1.343069 GCCCGAGAGACCCAGATATT 58.657 55.000 0.00 0.00 0.00 1.28
3782 4379 0.543174 GGCCCGAGAGACCCAGATAT 60.543 60.000 0.00 0.00 0.00 1.63
3783 4380 1.152525 GGCCCGAGAGACCCAGATA 60.153 63.158 0.00 0.00 0.00 1.98
3784 4381 2.444895 GGCCCGAGAGACCCAGAT 60.445 66.667 0.00 0.00 0.00 2.90
3785 4382 4.779733 GGGCCCGAGAGACCCAGA 62.780 72.222 5.69 0.00 44.11 3.86
3786 4383 4.787280 AGGGCCCGAGAGACCCAG 62.787 72.222 18.44 0.00 46.26 4.45
3787 4384 4.332543 AAGGGCCCGAGAGACCCA 62.333 66.667 18.44 0.00 46.26 4.51
3788 4385 3.787001 CAAGGGCCCGAGAGACCC 61.787 72.222 18.44 0.00 44.78 4.46
3789 4386 3.003763 ACAAGGGCCCGAGAGACC 61.004 66.667 18.44 0.00 0.00 3.85
3790 4387 2.266055 CACAAGGGCCCGAGAGAC 59.734 66.667 18.44 0.00 0.00 3.36
3791 4388 3.706373 GCACAAGGGCCCGAGAGA 61.706 66.667 18.44 0.00 0.00 3.10
3792 4389 3.672295 GAGCACAAGGGCCCGAGAG 62.672 68.421 18.44 12.84 0.00 3.20
3793 4390 3.706373 GAGCACAAGGGCCCGAGA 61.706 66.667 18.44 0.00 0.00 4.04
3799 4396 4.400961 AGAGGCGAGCACAAGGGC 62.401 66.667 0.00 0.00 0.00 5.19
3800 4397 2.125350 GAGAGGCGAGCACAAGGG 60.125 66.667 0.00 0.00 0.00 3.95
3801 4398 2.507992 CGAGAGGCGAGCACAAGG 60.508 66.667 0.00 0.00 44.57 3.61
3802 4399 1.373497 AACGAGAGGCGAGCACAAG 60.373 57.895 0.00 0.00 44.57 3.16
3803 4400 1.664649 CAACGAGAGGCGAGCACAA 60.665 57.895 0.00 0.00 44.57 3.33
3804 4401 2.049156 CAACGAGAGGCGAGCACA 60.049 61.111 0.00 0.00 44.57 4.57
3805 4402 1.803519 CTCAACGAGAGGCGAGCAC 60.804 63.158 0.00 0.00 44.57 4.40
3806 4403 2.568612 CTCAACGAGAGGCGAGCA 59.431 61.111 0.00 0.00 44.57 4.26
3807 4404 2.883253 GCTCAACGAGAGGCGAGC 60.883 66.667 10.68 0.00 46.94 5.03
3813 4410 3.288308 AGCCCACGCTCAACGAGAG 62.288 63.158 0.00 0.00 43.95 3.20
3814 4411 3.303135 AGCCCACGCTCAACGAGA 61.303 61.111 0.00 0.00 43.95 4.04
3815 4412 3.114616 CAGCCCACGCTCAACGAG 61.115 66.667 0.00 0.00 43.95 4.18
3816 4413 4.680237 CCAGCCCACGCTCAACGA 62.680 66.667 0.00 0.00 43.95 3.85
3817 4414 4.988598 ACCAGCCCACGCTCAACG 62.989 66.667 0.00 0.00 43.95 4.10
3818 4415 3.357079 CACCAGCCCACGCTCAAC 61.357 66.667 0.00 0.00 43.95 3.18
3819 4416 3.825160 GACACCAGCCCACGCTCAA 62.825 63.158 0.00 0.00 43.95 3.02
3820 4417 4.314440 GACACCAGCCCACGCTCA 62.314 66.667 0.00 0.00 43.95 4.26
3829 4426 3.357079 CCAAGGCACGACACCAGC 61.357 66.667 0.00 0.00 0.00 4.85
3830 4427 1.669115 CTCCAAGGCACGACACCAG 60.669 63.158 0.00 0.00 0.00 4.00
3831 4428 2.425592 CTCCAAGGCACGACACCA 59.574 61.111 0.00 0.00 0.00 4.17
3832 4429 2.358737 CCTCCAAGGCACGACACC 60.359 66.667 0.00 0.00 0.00 4.16
3833 4430 1.961277 CACCTCCAAGGCACGACAC 60.961 63.158 0.00 0.00 39.63 3.67
3834 4431 2.425592 CACCTCCAAGGCACGACA 59.574 61.111 0.00 0.00 39.63 4.35
3835 4432 2.358737 CCACCTCCAAGGCACGAC 60.359 66.667 0.00 0.00 39.63 4.34
3841 4438 1.604593 CAACAGGCCACCTCCAAGG 60.605 63.158 5.01 0.00 42.49 3.61
3842 4439 0.607489 CTCAACAGGCCACCTCCAAG 60.607 60.000 5.01 0.00 0.00 3.61
3843 4440 1.455849 CTCAACAGGCCACCTCCAA 59.544 57.895 5.01 0.00 0.00 3.53
3844 4441 3.160585 CTCAACAGGCCACCTCCA 58.839 61.111 5.01 0.00 0.00 3.86
3845 4442 2.360475 GCTCAACAGGCCACCTCC 60.360 66.667 5.01 0.00 0.00 4.30


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

AutoCloner maintained by Alex Coulton.