Multiple sequence alignment - TraesCS6B01G051100

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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 TraesCS6B01G051100 chr6B 100.000 2222 0 0 1 2222 30323040 30325261 0.000000e+00 4104.0
1 TraesCS6B01G051100 chr6B 90.813 566 31 7 1 560 30312191 30312741 0.000000e+00 737.0
2 TraesCS6B01G051100 chr6B 86.957 161 17 4 54 211 513685157 513685316 6.300000e-41 178.0
3 TraesCS6B01G051100 chr6B 81.944 216 24 11 295 503 30251456 30251663 3.790000e-38 169.0
4 TraesCS6B01G051100 chr6A 83.375 806 65 40 618 1389 17942852 17943622 0.000000e+00 682.0
5 TraesCS6B01G051100 chr6A 91.040 346 14 7 1805 2141 17944454 17944791 3.360000e-123 451.0
6 TraesCS6B01G051100 chr6A 90.083 121 8 4 1689 1809 17944304 17944420 1.060000e-33 154.0
7 TraesCS6B01G051100 chr6A 89.000 100 8 1 462 558 17942430 17942529 1.080000e-23 121.0
8 TraesCS6B01G051100 chr6D 87.453 534 30 8 878 1390 17317528 17318045 4.110000e-162 580.0
9 TraesCS6B01G051100 chr6D 90.090 333 18 6 1813 2141 17318783 17319104 3.410000e-113 418.0
10 TraesCS6B01G051100 chr6D 86.751 317 23 9 618 919 17317216 17317528 3.540000e-88 335.0
11 TraesCS6B01G051100 chr6D 85.660 265 32 3 301 559 17316710 17316974 7.820000e-70 274.0
12 TraesCS6B01G051100 chr6D 86.335 161 18 4 54 211 69292642 69292801 2.930000e-39 172.0
13 TraesCS6B01G051100 chr6D 85.366 123 14 4 1687 1809 17318627 17318745 8.330000e-25 124.0
14 TraesCS6B01G051100 chr1A 88.293 205 18 3 991 1192 142101608 142101809 7.930000e-60 241.0
15 TraesCS6B01G051100 chr1B 87.317 205 20 3 991 1192 195102618 195102417 1.720000e-56 230.0
16 TraesCS6B01G051100 chr1B 89.888 89 7 2 202 288 615402339 615402427 1.800000e-21 113.0
17 TraesCS6B01G051100 chr1B 95.918 49 2 0 2174 2222 93968381 93968429 1.830000e-11 80.5
18 TraesCS6B01G051100 chr1D 86.829 205 21 3 991 1192 126972034 126972235 7.980000e-55 224.0
19 TraesCS6B01G051100 chr7B 81.224 245 39 6 59 299 730987555 730987314 8.100000e-45 191.0
20 TraesCS6B01G051100 chr7B 86.000 100 8 6 202 299 685222290 685222385 3.900000e-18 102.0
21 TraesCS6B01G051100 chr7B 94.643 56 3 0 2167 2222 38662713 38662768 1.090000e-13 87.9
22 TraesCS6B01G051100 chr7B 97.826 46 1 0 2175 2220 38673385 38673340 1.830000e-11 80.5
23 TraesCS6B01G051100 chr7A 86.957 161 19 2 56 214 556765722 556765562 1.750000e-41 180.0
24 TraesCS6B01G051100 chr3D 86.875 160 16 5 55 211 15411412 15411569 8.160000e-40 174.0
25 TraesCS6B01G051100 chr5D 84.906 159 22 2 55 211 497848994 497848836 2.280000e-35 159.0
26 TraesCS6B01G051100 chr4B 84.118 170 20 7 50 214 589029153 589028986 8.210000e-35 158.0
27 TraesCS6B01G051100 chr4B 97.917 48 1 0 2175 2222 47032294 47032341 1.410000e-12 84.2
28 TraesCS6B01G051100 chr2D 83.523 176 22 7 40 211 92732677 92732849 8.210000e-35 158.0
29 TraesCS6B01G051100 chr5A 88.889 90 10 0 210 299 281137563 281137474 6.490000e-21 111.0
30 TraesCS6B01G051100 chr5A 93.220 59 4 0 2164 2222 531293461 531293519 1.090000e-13 87.9
31 TraesCS6B01G051100 chr3B 88.764 89 8 2 202 288 584578009 584578097 8.390000e-20 108.0
32 TraesCS6B01G051100 chr3B 97.959 49 1 0 2174 2222 52703214 52703262 3.930000e-13 86.1
33 TraesCS6B01G051100 chr2A 86.000 100 12 2 210 309 180102063 180101966 3.020000e-19 106.0
34 TraesCS6B01G051100 chr2A 87.640 89 9 2 202 288 692706386 692706474 3.900000e-18 102.0
35 TraesCS6B01G051100 chr2A 95.918 49 2 0 2174 2222 102100669 102100621 1.830000e-11 80.5
36 TraesCS6B01G051100 chrUn 87.778 90 7 3 210 299 20103391 20103306 3.900000e-18 102.0
37 TraesCS6B01G051100 chr3A 95.918 49 2 0 2174 2222 184665348 184665396 1.830000e-11 80.5
38 TraesCS6B01G051100 chr2B 97.826 46 1 0 2177 2222 111687225 111687180 1.830000e-11 80.5


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 TraesCS6B01G051100 chr6B 30323040 30325261 2221 False 4104.0 4104 100.0000 1 2222 1 chr6B.!!$F3 2221
1 TraesCS6B01G051100 chr6B 30312191 30312741 550 False 737.0 737 90.8130 1 560 1 chr6B.!!$F2 559
2 TraesCS6B01G051100 chr6A 17942430 17944791 2361 False 352.0 682 88.3745 462 2141 4 chr6A.!!$F1 1679
3 TraesCS6B01G051100 chr6D 17316710 17319104 2394 False 346.2 580 87.0640 301 2141 5 chr6D.!!$F2 1840

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
102 103 0.179 GTGGGCAGTGGTATCCTCAG 59.821 60.0 0.0 0.0 0.0 3.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1458 2001 0.30776 AAACGCCGCAGTGAAGAAAG 59.692 50.0 0.0 0.0 0.0 2.62 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 3.102204 GGGGTACATATACATACCGGCT 58.898 50.000 0.00 0.00 41.65 5.52
37 38 6.659745 ATACATACCGGCTGTGAAGTAATA 57.340 37.500 18.02 0.00 0.00 0.98
70 71 2.552599 TATTGCGAACCAACCTGTGA 57.447 45.000 0.00 0.00 35.99 3.58
87 88 3.696045 TGTGATTGGATGGTTAAGTGGG 58.304 45.455 0.00 0.00 0.00 4.61
88 89 2.427095 GTGATTGGATGGTTAAGTGGGC 59.573 50.000 0.00 0.00 0.00 5.36
89 90 2.042297 TGATTGGATGGTTAAGTGGGCA 59.958 45.455 0.00 0.00 0.00 5.36
90 91 2.214376 TTGGATGGTTAAGTGGGCAG 57.786 50.000 0.00 0.00 0.00 4.85
91 92 1.072266 TGGATGGTTAAGTGGGCAGT 58.928 50.000 0.00 0.00 0.00 4.40
92 93 1.271871 TGGATGGTTAAGTGGGCAGTG 60.272 52.381 0.00 0.00 0.00 3.66
93 94 1.463674 GATGGTTAAGTGGGCAGTGG 58.536 55.000 0.00 0.00 0.00 4.00
94 95 0.777446 ATGGTTAAGTGGGCAGTGGT 59.223 50.000 0.00 0.00 0.00 4.16
95 96 1.436326 TGGTTAAGTGGGCAGTGGTA 58.564 50.000 0.00 0.00 0.00 3.25
96 97 1.989586 TGGTTAAGTGGGCAGTGGTAT 59.010 47.619 0.00 0.00 0.00 2.73
97 98 2.026636 TGGTTAAGTGGGCAGTGGTATC 60.027 50.000 0.00 0.00 0.00 2.24
98 99 2.640184 GTTAAGTGGGCAGTGGTATCC 58.360 52.381 0.00 0.00 0.00 2.59
99 100 2.238898 GTTAAGTGGGCAGTGGTATCCT 59.761 50.000 0.00 0.00 0.00 3.24
100 101 0.912486 AAGTGGGCAGTGGTATCCTC 59.088 55.000 0.00 0.00 0.00 3.71
101 102 0.252696 AGTGGGCAGTGGTATCCTCA 60.253 55.000 0.00 0.00 0.00 3.86
102 103 0.179000 GTGGGCAGTGGTATCCTCAG 59.821 60.000 0.00 0.00 0.00 3.35
107 108 0.179000 CAGTGGTATCCTCAGCCCAC 59.821 60.000 0.00 0.00 46.17 4.61
109 110 1.692749 TGGTATCCTCAGCCCACCC 60.693 63.158 0.00 0.00 0.00 4.61
220 221 2.767073 GGCGCCTAGGGGTAAGGT 60.767 66.667 25.32 0.00 36.43 3.50
232 233 2.107343 TAAGGTGTGTGTGCGCGT 59.893 55.556 8.43 0.00 0.00 6.01
245 246 1.295357 TGCGCGTGTTCATAAGGGTG 61.295 55.000 8.43 0.00 0.00 4.61
247 248 0.999406 CGCGTGTTCATAAGGGTGAG 59.001 55.000 0.00 0.00 0.00 3.51
285 286 4.776795 TGAGCGTTTATGTCTGTACTGA 57.223 40.909 0.00 0.00 0.00 3.41
291 292 6.015504 GCGTTTATGTCTGTACTGATGTTTG 58.984 40.000 5.69 0.00 0.00 2.93
425 426 2.620112 GCGGGCCCATGATTCATCG 61.620 63.158 24.92 4.24 0.00 3.84
432 437 4.321230 GGGCCCATGATTCATCGAAATAAC 60.321 45.833 19.95 0.00 0.00 1.89
498 505 0.319641 AGAGGAAACGGCGAGTCAAC 60.320 55.000 16.62 7.85 0.00 3.18
560 570 5.633830 ATTAATATGCTGGATTCCGCAAG 57.366 39.130 20.58 5.46 36.86 4.01
561 571 1.242076 ATATGCTGGATTCCGCAAGC 58.758 50.000 20.58 14.18 36.86 4.01
562 572 1.159713 TATGCTGGATTCCGCAAGCG 61.160 55.000 20.58 7.60 36.86 4.68
563 573 4.543084 GCTGGATTCCGCAAGCGC 62.543 66.667 9.26 0.00 38.24 5.92
564 574 3.126879 CTGGATTCCGCAAGCGCA 61.127 61.111 11.47 0.20 38.40 6.09
565 575 2.438254 TGGATTCCGCAAGCGCAT 60.438 55.556 11.47 0.00 38.40 4.73
570 876 2.543653 GGATTCCGCAAGCGCATAAAAT 60.544 45.455 11.47 0.96 38.40 1.82
571 877 2.645730 TTCCGCAAGCGCATAAAATT 57.354 40.000 11.47 0.00 38.40 1.82
574 880 4.300189 TCCGCAAGCGCATAAAATTAAT 57.700 36.364 11.47 0.00 38.40 1.40
576 882 6.007936 TCCGCAAGCGCATAAAATTAATAT 57.992 33.333 11.47 0.00 38.40 1.28
616 976 7.436673 TGAAAAACAACTAAATGTGATTTCCCG 59.563 33.333 12.47 0.00 38.20 5.14
641 1036 0.322546 GGGAAATGACTCGGCAAGGT 60.323 55.000 0.00 0.00 0.00 3.50
653 1048 1.447317 GGCAAGGTATCCATGTGCCG 61.447 60.000 5.59 0.00 44.82 5.69
695 1090 1.745489 GTTGGGATCCGTCCTGTGC 60.745 63.158 5.45 0.00 44.44 4.57
717 1116 0.319641 GTGTCCTCTTCCCACGTGAC 60.320 60.000 19.30 4.86 0.00 3.67
721 1120 2.915659 TCTTCCCACGTGACCGCT 60.916 61.111 19.30 0.00 37.70 5.52
722 1121 2.738521 CTTCCCACGTGACCGCTG 60.739 66.667 19.30 0.00 37.70 5.18
733 1135 1.070445 GACCGCTGCAGGCATATCT 59.930 57.895 17.12 0.00 41.91 1.98
811 1213 1.202903 GCCAGCAGATTCATCCATCCT 60.203 52.381 0.00 0.00 0.00 3.24
812 1214 2.752154 GCCAGCAGATTCATCCATCCTT 60.752 50.000 0.00 0.00 0.00 3.36
823 1226 2.286365 TCCATCCTTTCCAACACACC 57.714 50.000 0.00 0.00 0.00 4.16
828 1231 1.569493 CTTTCCAACACACCTCGCG 59.431 57.895 0.00 0.00 0.00 5.87
842 1245 3.349006 CGCGAAACAGCAGCACCT 61.349 61.111 0.00 0.00 36.85 4.00
907 1315 2.027561 TCCGATCCCCCATAAATAAGCG 60.028 50.000 0.00 0.00 0.00 4.68
959 1427 2.257207 TCCATCCCTTTCTCTCGTTGT 58.743 47.619 0.00 0.00 0.00 3.32
963 1431 4.081642 CCATCCCTTTCTCTCGTTGTTAGA 60.082 45.833 0.00 0.00 0.00 2.10
969 1437 5.746245 CCTTTCTCTCGTTGTTAGATAGCTG 59.254 44.000 0.00 0.00 0.00 4.24
1223 1694 1.002087 CGGCAACAAGAAGTCCTAGGT 59.998 52.381 9.08 0.00 0.00 3.08
1234 1725 1.003442 TCCTAGGTGGATGCCTGCT 59.997 57.895 9.08 0.00 40.56 4.24
1238 1729 4.479993 GGTGGATGCCTGCTCGCT 62.480 66.667 0.00 0.00 0.00 4.93
1272 1763 0.179161 CCGTCCGATCGATCCATAGC 60.179 60.000 18.66 5.16 0.00 2.97
1285 1776 4.384247 CGATCCATAGCTTTCTCAATCGTC 59.616 45.833 0.00 0.00 32.38 4.20
1293 1784 3.424170 GCTTTCTCAATCGTCTCAGTTGC 60.424 47.826 0.00 0.00 0.00 4.17
1294 1785 3.667497 TTCTCAATCGTCTCAGTTGCT 57.333 42.857 0.00 0.00 0.00 3.91
1295 1786 2.951726 TCTCAATCGTCTCAGTTGCTG 58.048 47.619 0.00 0.00 0.00 4.41
1304 1795 7.706281 ATCGTCTCAGTTGCTGAATAATTAG 57.294 36.000 0.37 0.00 40.18 1.73
1311 1810 6.422100 TCAGTTGCTGAATAATTAGATCGAGC 59.578 38.462 0.00 0.00 37.57 5.03
1343 1842 6.144080 GTCTTTGGCGTGTACATATGATCTAC 59.856 42.308 10.38 2.37 0.00 2.59
1344 1843 5.784578 TTGGCGTGTACATATGATCTACT 57.215 39.130 10.38 0.00 0.00 2.57
1345 1844 6.887626 TTGGCGTGTACATATGATCTACTA 57.112 37.500 10.38 0.00 0.00 1.82
1346 1845 6.496338 TGGCGTGTACATATGATCTACTAG 57.504 41.667 10.38 2.15 0.00 2.57
1347 1846 6.002082 TGGCGTGTACATATGATCTACTAGT 58.998 40.000 10.38 0.00 0.00 2.57
1348 1847 7.163441 TGGCGTGTACATATGATCTACTAGTA 58.837 38.462 10.38 1.89 0.00 1.82
1368 1870 3.733960 TCCAGTCGTGGACTCGCG 61.734 66.667 0.00 0.00 46.77 5.87
1394 1937 0.904649 TGTCTGGATCTCGCATGGTT 59.095 50.000 0.00 0.00 0.00 3.67
1402 1945 1.522668 TCTCGCATGGTTGTTCCTTG 58.477 50.000 0.00 0.00 42.22 3.61
1427 1970 4.558860 GCGTTGATTTCTGCTTAATTCACC 59.441 41.667 0.00 0.00 0.00 4.02
1436 1979 4.129380 CTGCTTAATTCACCGATCCATCA 58.871 43.478 0.00 0.00 0.00 3.07
1437 1980 4.717877 TGCTTAATTCACCGATCCATCAT 58.282 39.130 0.00 0.00 0.00 2.45
1438 1981 4.516321 TGCTTAATTCACCGATCCATCATG 59.484 41.667 0.00 0.00 0.00 3.07
1441 1984 6.204688 GCTTAATTCACCGATCCATCATGTTA 59.795 38.462 0.00 0.00 0.00 2.41
1442 1985 7.094634 GCTTAATTCACCGATCCATCATGTTAT 60.095 37.037 0.00 0.00 0.00 1.89
1443 1986 6.808008 AATTCACCGATCCATCATGTTATC 57.192 37.500 0.00 0.00 0.00 1.75
1444 1987 3.913089 TCACCGATCCATCATGTTATCG 58.087 45.455 11.07 11.07 40.60 2.92
1447 1990 2.413112 CCGATCCATCATGTTATCGCAC 59.587 50.000 12.14 0.00 39.81 5.34
1449 1992 2.880963 TCCATCATGTTATCGCACGA 57.119 45.000 0.00 0.00 0.00 4.35
1450 1993 3.385193 TCCATCATGTTATCGCACGAT 57.615 42.857 10.74 10.74 38.54 3.73
1451 1994 3.059166 TCCATCATGTTATCGCACGATG 58.941 45.455 15.45 0.12 36.17 3.84
1472 2015 1.061131 CGTATGCTTTCTTCACTGCGG 59.939 52.381 0.00 0.00 0.00 5.69
1473 2016 1.086696 TATGCTTTCTTCACTGCGGC 58.913 50.000 0.00 0.00 0.00 6.53
1474 2017 1.915614 ATGCTTTCTTCACTGCGGCG 61.916 55.000 0.51 0.51 0.00 6.46
1475 2018 2.607892 GCTTTCTTCACTGCGGCGT 61.608 57.895 9.37 0.00 0.00 5.68
1476 2019 1.941812 CTTTCTTCACTGCGGCGTT 59.058 52.632 9.37 0.00 0.00 4.84
1477 2020 0.307760 CTTTCTTCACTGCGGCGTTT 59.692 50.000 9.37 0.00 0.00 3.60
1478 2021 0.306533 TTTCTTCACTGCGGCGTTTC 59.693 50.000 9.37 0.00 0.00 2.78
1479 2022 0.812014 TTCTTCACTGCGGCGTTTCA 60.812 50.000 9.37 0.00 0.00 2.69
1480 2023 0.602638 TCTTCACTGCGGCGTTTCAT 60.603 50.000 9.37 0.00 0.00 2.57
1481 2024 0.179215 CTTCACTGCGGCGTTTCATC 60.179 55.000 9.37 0.00 0.00 2.92
1482 2025 1.573829 TTCACTGCGGCGTTTCATCC 61.574 55.000 9.37 0.00 0.00 3.51
1483 2026 2.034879 CACTGCGGCGTTTCATCCT 61.035 57.895 9.37 0.00 0.00 3.24
1484 2027 2.034879 ACTGCGGCGTTTCATCCTG 61.035 57.895 9.37 0.00 0.00 3.86
1485 2028 2.745884 TGCGGCGTTTCATCCTGG 60.746 61.111 9.37 0.00 0.00 4.45
1486 2029 4.179579 GCGGCGTTTCATCCTGGC 62.180 66.667 9.37 0.00 0.00 4.85
1487 2030 2.436646 CGGCGTTTCATCCTGGCT 60.437 61.111 0.00 0.00 0.00 4.75
1488 2031 2.040544 CGGCGTTTCATCCTGGCTT 61.041 57.895 0.00 0.00 0.00 4.35
1489 2032 1.586154 CGGCGTTTCATCCTGGCTTT 61.586 55.000 0.00 0.00 0.00 3.51
1490 2033 0.109132 GGCGTTTCATCCTGGCTTTG 60.109 55.000 0.00 0.00 0.00 2.77
1491 2034 0.733909 GCGTTTCATCCTGGCTTTGC 60.734 55.000 0.00 0.00 0.00 3.68
1492 2035 0.883833 CGTTTCATCCTGGCTTTGCT 59.116 50.000 0.00 0.00 0.00 3.91
1493 2036 1.270550 CGTTTCATCCTGGCTTTGCTT 59.729 47.619 0.00 0.00 0.00 3.91
1494 2037 2.487762 CGTTTCATCCTGGCTTTGCTTA 59.512 45.455 0.00 0.00 0.00 3.09
1495 2038 3.670627 CGTTTCATCCTGGCTTTGCTTAC 60.671 47.826 0.00 0.00 0.00 2.34
1496 2039 3.439857 TTCATCCTGGCTTTGCTTACT 57.560 42.857 0.00 0.00 0.00 2.24
1497 2040 2.991250 TCATCCTGGCTTTGCTTACTC 58.009 47.619 0.00 0.00 0.00 2.59
1498 2041 1.667724 CATCCTGGCTTTGCTTACTCG 59.332 52.381 0.00 0.00 0.00 4.18
1499 2042 0.685097 TCCTGGCTTTGCTTACTCGT 59.315 50.000 0.00 0.00 0.00 4.18
1500 2043 0.798776 CCTGGCTTTGCTTACTCGTG 59.201 55.000 0.00 0.00 0.00 4.35
1501 2044 1.608025 CCTGGCTTTGCTTACTCGTGA 60.608 52.381 0.00 0.00 0.00 4.35
1502 2045 2.350522 CTGGCTTTGCTTACTCGTGAT 58.649 47.619 0.00 0.00 0.00 3.06
1503 2046 2.744202 CTGGCTTTGCTTACTCGTGATT 59.256 45.455 0.00 0.00 0.00 2.57
1504 2047 3.146066 TGGCTTTGCTTACTCGTGATTT 58.854 40.909 0.00 0.00 0.00 2.17
1505 2048 3.188460 TGGCTTTGCTTACTCGTGATTTC 59.812 43.478 0.00 0.00 0.00 2.17
1506 2049 3.426292 GGCTTTGCTTACTCGTGATTTCC 60.426 47.826 0.00 0.00 0.00 3.13
1507 2050 3.437049 GCTTTGCTTACTCGTGATTTCCT 59.563 43.478 0.00 0.00 0.00 3.36
1512 2055 4.142227 TGCTTACTCGTGATTTCCTAGGAC 60.142 45.833 12.22 0.14 0.00 3.85
1516 2059 4.857679 ACTCGTGATTTCCTAGGACTACT 58.142 43.478 12.22 0.00 0.00 2.57
1522 2065 8.380867 TCGTGATTTCCTAGGACTACTATGATA 58.619 37.037 12.22 0.00 0.00 2.15
1540 2083 8.034215 ACTATGATATCTAAATCAGCTGAGCAC 58.966 37.037 22.96 6.33 39.18 4.40
1545 2088 5.095145 TCTAAATCAGCTGAGCACAAGAT 57.905 39.130 22.96 0.00 0.00 2.40
1583 2126 5.292815 AGGGAGGGATCACTTCTTTCTTAT 58.707 41.667 2.49 0.00 0.00 1.73
1595 2139 6.429385 CACTTCTTTCTTATCTTGTCTGCCTT 59.571 38.462 0.00 0.00 0.00 4.35
1618 2162 5.450453 TCCTAGGCTGATCCTATATGTAGC 58.550 45.833 2.96 0.00 45.99 3.58
1620 2164 3.828875 GGCTGATCCTATATGTAGCCC 57.171 52.381 5.36 0.00 43.68 5.19
1641 2185 2.525248 CGTGCGTGCTGTCTGTGTT 61.525 57.895 0.00 0.00 0.00 3.32
1642 2186 1.721487 GTGCGTGCTGTCTGTGTTT 59.279 52.632 0.00 0.00 0.00 2.83
1643 2187 0.589729 GTGCGTGCTGTCTGTGTTTG 60.590 55.000 0.00 0.00 0.00 2.93
1644 2188 1.024046 TGCGTGCTGTCTGTGTTTGT 61.024 50.000 0.00 0.00 0.00 2.83
1645 2189 0.098728 GCGTGCTGTCTGTGTTTGTT 59.901 50.000 0.00 0.00 0.00 2.83
1646 2190 1.813896 CGTGCTGTCTGTGTTTGTTG 58.186 50.000 0.00 0.00 0.00 3.33
1647 2191 1.130373 CGTGCTGTCTGTGTTTGTTGT 59.870 47.619 0.00 0.00 0.00 3.32
1656 2200 3.126858 TCTGTGTTTGTTGTTGTGAGAGC 59.873 43.478 0.00 0.00 0.00 4.09
1708 2745 1.676967 CAAACTCCCTGCTCCAGCC 60.677 63.158 0.00 0.00 41.18 4.85
1721 2758 1.406539 CTCCAGCCGCAATTAGCATTT 59.593 47.619 0.00 0.00 46.13 2.32
1723 2760 1.536709 CCAGCCGCAATTAGCATTTCC 60.537 52.381 0.00 0.00 46.13 3.13
1725 2762 2.618241 CAGCCGCAATTAGCATTTCCTA 59.382 45.455 0.00 0.00 46.13 2.94
1728 2765 4.342092 AGCCGCAATTAGCATTTCCTATTT 59.658 37.500 0.00 0.00 46.13 1.40
1770 2807 0.035343 GGAGTAGTCCACTTTGGGGC 60.035 60.000 12.02 0.00 43.31 5.80
1777 2814 1.457455 CCACTTTGGGGCACTGGTT 60.457 57.895 0.00 0.00 32.67 3.67
1819 2856 2.483876 GCACCGAGCATGTATGTATGT 58.516 47.619 0.00 0.00 44.79 2.29
1856 2930 5.756195 ATATGTCACATTGTTCCCGATTG 57.244 39.130 0.00 0.00 0.00 2.67
1867 2941 0.960364 TCCCGATTGTTGCTTGCCTC 60.960 55.000 0.00 0.00 0.00 4.70
1875 2949 0.328258 GTTGCTTGCCTCCCTTCCTA 59.672 55.000 0.00 0.00 0.00 2.94
1876 2950 0.328258 TTGCTTGCCTCCCTTCCTAC 59.672 55.000 0.00 0.00 0.00 3.18
1877 2951 0.840288 TGCTTGCCTCCCTTCCTACA 60.840 55.000 0.00 0.00 0.00 2.74
1878 2952 0.328258 GCTTGCCTCCCTTCCTACAA 59.672 55.000 0.00 0.00 0.00 2.41
1879 2953 1.271926 GCTTGCCTCCCTTCCTACAAA 60.272 52.381 0.00 0.00 0.00 2.83
1880 2954 2.437413 CTTGCCTCCCTTCCTACAAAC 58.563 52.381 0.00 0.00 0.00 2.93
1925 3000 7.424803 CGGATTTGCTTGATTATTGGTTGATA 58.575 34.615 0.00 0.00 0.00 2.15
1966 3049 1.165907 TGTGGCTTTGAACAGAGGCG 61.166 55.000 12.52 0.00 40.34 5.52
1976 3059 0.685097 AACAGAGGCGGAACAAGCTA 59.315 50.000 0.00 0.00 34.52 3.32
2042 3125 8.292448 ACGAAGATGATTGCACCAATATAAATC 58.708 33.333 0.00 0.00 33.90 2.17
2079 3165 2.949644 AGCCTGTTGTTGAAACACTACC 59.050 45.455 0.00 0.00 38.92 3.18
2125 3212 2.542411 GCAGAACAGAGGCAGTTTTGTG 60.542 50.000 8.83 0.00 34.60 3.33
2144 3231 3.972227 CCTTGAACAGAGGCGGTG 58.028 61.111 0.00 0.00 0.00 4.94
2145 3232 1.071471 CCTTGAACAGAGGCGGTGT 59.929 57.895 0.00 0.00 0.00 4.16
2146 3233 0.951040 CCTTGAACAGAGGCGGTGTC 60.951 60.000 0.00 0.00 0.00 3.67
2147 3234 0.034059 CTTGAACAGAGGCGGTGTCT 59.966 55.000 0.00 0.00 0.00 3.41
2148 3235 0.468226 TTGAACAGAGGCGGTGTCTT 59.532 50.000 0.00 0.00 0.00 3.01
2149 3236 0.249868 TGAACAGAGGCGGTGTCTTG 60.250 55.000 0.00 0.00 0.00 3.02
2150 3237 0.249911 GAACAGAGGCGGTGTCTTGT 60.250 55.000 0.00 0.00 0.00 3.16
2151 3238 0.532862 AACAGAGGCGGTGTCTTGTG 60.533 55.000 0.00 0.00 0.00 3.33
2152 3239 1.069765 CAGAGGCGGTGTCTTGTGT 59.930 57.895 0.00 0.00 0.00 3.72
2153 3240 0.532862 CAGAGGCGGTGTCTTGTGTT 60.533 55.000 0.00 0.00 0.00 3.32
2154 3241 0.532862 AGAGGCGGTGTCTTGTGTTG 60.533 55.000 0.00 0.00 0.00 3.33
2155 3242 2.117941 GAGGCGGTGTCTTGTGTTGC 62.118 60.000 0.00 0.00 0.00 4.17
2156 3243 2.186826 GGCGGTGTCTTGTGTTGCT 61.187 57.895 0.00 0.00 0.00 3.91
2157 3244 0.882927 GGCGGTGTCTTGTGTTGCTA 60.883 55.000 0.00 0.00 0.00 3.49
2158 3245 0.512952 GCGGTGTCTTGTGTTGCTAG 59.487 55.000 0.00 0.00 0.00 3.42
2159 3246 0.512952 CGGTGTCTTGTGTTGCTAGC 59.487 55.000 8.10 8.10 0.00 3.42
2160 3247 1.593196 GGTGTCTTGTGTTGCTAGCA 58.407 50.000 14.93 14.93 0.00 3.49
2161 3248 1.532868 GGTGTCTTGTGTTGCTAGCAG 59.467 52.381 18.45 5.23 0.00 4.24
2162 3249 2.213499 GTGTCTTGTGTTGCTAGCAGT 58.787 47.619 18.45 0.00 0.00 4.40
2163 3250 3.390135 GTGTCTTGTGTTGCTAGCAGTA 58.610 45.455 18.45 8.21 0.00 2.74
2164 3251 3.184581 GTGTCTTGTGTTGCTAGCAGTAC 59.815 47.826 18.45 19.63 0.00 2.73
2165 3252 2.408704 GTCTTGTGTTGCTAGCAGTACG 59.591 50.000 18.45 9.20 0.00 3.67
2166 3253 1.726791 CTTGTGTTGCTAGCAGTACGG 59.273 52.381 18.45 12.85 0.00 4.02
2167 3254 0.963225 TGTGTTGCTAGCAGTACGGA 59.037 50.000 18.45 0.00 0.00 4.69
2168 3255 1.548719 TGTGTTGCTAGCAGTACGGAT 59.451 47.619 18.45 0.00 0.00 4.18
2169 3256 2.756207 TGTGTTGCTAGCAGTACGGATA 59.244 45.455 18.45 0.00 0.00 2.59
2170 3257 3.193903 TGTGTTGCTAGCAGTACGGATAA 59.806 43.478 18.45 0.00 0.00 1.75
2171 3258 3.797256 GTGTTGCTAGCAGTACGGATAAG 59.203 47.826 18.45 0.00 0.00 1.73
2172 3259 3.697542 TGTTGCTAGCAGTACGGATAAGA 59.302 43.478 18.45 0.00 0.00 2.10
2173 3260 4.202020 TGTTGCTAGCAGTACGGATAAGAG 60.202 45.833 18.45 0.00 0.00 2.85
2174 3261 3.816994 TGCTAGCAGTACGGATAAGAGA 58.183 45.455 14.93 0.00 0.00 3.10
2175 3262 4.399219 TGCTAGCAGTACGGATAAGAGAT 58.601 43.478 14.93 0.00 0.00 2.75
2176 3263 4.827835 TGCTAGCAGTACGGATAAGAGATT 59.172 41.667 14.93 0.00 0.00 2.40
2177 3264 5.302059 TGCTAGCAGTACGGATAAGAGATTT 59.698 40.000 14.93 0.00 0.00 2.17
2178 3265 6.183360 TGCTAGCAGTACGGATAAGAGATTTT 60.183 38.462 14.93 0.00 0.00 1.82
2179 3266 6.702282 GCTAGCAGTACGGATAAGAGATTTTT 59.298 38.462 10.63 0.00 0.00 1.94
2200 3287 2.277858 TCGAAAGAGACCCTCTGCC 58.722 57.895 0.00 0.00 40.28 4.85
2201 3288 1.219393 CGAAAGAGACCCTCTGCCC 59.781 63.158 0.00 0.00 40.28 5.36
2202 3289 1.544825 CGAAAGAGACCCTCTGCCCA 61.545 60.000 0.00 0.00 40.28 5.36
2203 3290 0.035915 GAAAGAGACCCTCTGCCCAC 60.036 60.000 0.00 0.00 40.28 4.61
2204 3291 0.474660 AAAGAGACCCTCTGCCCACT 60.475 55.000 0.00 0.00 40.28 4.00
2205 3292 1.197430 AAGAGACCCTCTGCCCACTG 61.197 60.000 0.00 0.00 40.28 3.66
2206 3293 2.608988 AGACCCTCTGCCCACTGG 60.609 66.667 0.00 0.00 0.00 4.00
2207 3294 2.607750 GACCCTCTGCCCACTGGA 60.608 66.667 0.00 0.00 0.00 3.86
2208 3295 2.121963 ACCCTCTGCCCACTGGAA 60.122 61.111 0.00 0.00 0.00 3.53
2209 3296 1.542375 ACCCTCTGCCCACTGGAAT 60.542 57.895 0.00 0.00 0.00 3.01
2210 3297 1.142688 ACCCTCTGCCCACTGGAATT 61.143 55.000 0.00 0.00 0.00 2.17
2211 3298 0.682209 CCCTCTGCCCACTGGAATTG 60.682 60.000 0.00 0.00 0.00 2.32
2212 3299 0.329261 CCTCTGCCCACTGGAATTGA 59.671 55.000 0.00 0.00 0.00 2.57
2213 3300 1.457346 CTCTGCCCACTGGAATTGAC 58.543 55.000 0.00 0.00 0.00 3.18
2214 3301 0.770499 TCTGCCCACTGGAATTGACA 59.230 50.000 0.00 0.00 0.00 3.58
2215 3302 1.144708 TCTGCCCACTGGAATTGACAA 59.855 47.619 0.00 0.00 0.00 3.18
2216 3303 1.962807 CTGCCCACTGGAATTGACAAA 59.037 47.619 0.00 0.00 0.00 2.83
2217 3304 2.364970 CTGCCCACTGGAATTGACAAAA 59.635 45.455 0.00 0.00 0.00 2.44
2218 3305 2.364970 TGCCCACTGGAATTGACAAAAG 59.635 45.455 0.00 0.00 0.00 2.27
2219 3306 2.627699 GCCCACTGGAATTGACAAAAGA 59.372 45.455 0.00 0.00 0.00 2.52
2220 3307 3.305608 GCCCACTGGAATTGACAAAAGAG 60.306 47.826 0.00 0.00 0.00 2.85
2221 3308 4.144297 CCCACTGGAATTGACAAAAGAGA 58.856 43.478 0.00 0.00 0.00 3.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 14 6.659745 ATTACTTCACAGCCGGTATGTATA 57.340 37.500 13.19 3.73 0.00 1.47
21 22 7.431249 TCTAGTTTATATTACTTCACAGCCGG 58.569 38.462 0.00 0.00 0.00 6.13
52 53 1.909700 ATCACAGGTTGGTTCGCAAT 58.090 45.000 0.00 0.00 0.00 3.56
70 71 2.042979 ACTGCCCACTTAACCATCCAAT 59.957 45.455 0.00 0.00 0.00 3.16
87 88 1.147153 GGGCTGAGGATACCACTGC 59.853 63.158 0.00 0.00 37.51 4.40
88 89 2.607811 TGGGCTGAGGATACCACTG 58.392 57.895 0.00 0.00 37.17 3.66
91 92 1.692749 GGGTGGGCTGAGGATACCA 60.693 63.158 0.00 0.00 33.10 3.25
92 93 2.808206 CGGGTGGGCTGAGGATACC 61.808 68.421 0.00 0.00 37.17 2.73
93 94 2.808206 CCGGGTGGGCTGAGGATAC 61.808 68.421 0.00 0.00 0.00 2.24
94 95 2.445845 CCGGGTGGGCTGAGGATA 60.446 66.667 0.00 0.00 0.00 2.59
118 119 2.427095 GGATAAATGCAACCACCAGGAC 59.573 50.000 0.00 0.00 38.69 3.85
220 221 0.876342 TATGAACACGCGCACACACA 60.876 50.000 5.73 1.74 0.00 3.72
232 233 4.513442 GCATACACTCACCCTTATGAACA 58.487 43.478 0.00 0.00 0.00 3.18
245 246 4.438145 GCTCATATATACGCGCATACACTC 59.562 45.833 5.73 0.00 0.00 3.51
247 248 3.177838 CGCTCATATATACGCGCATACAC 59.822 47.826 5.73 0.00 39.11 2.90
304 305 1.383080 GTTGCGACGCACAATCAATTG 59.617 47.619 24.42 0.00 38.71 2.32
591 897 7.095816 CCGGGAAATCACATTTAGTTGTTTTTC 60.096 37.037 0.00 0.00 33.01 2.29
592 898 6.704050 CCGGGAAATCACATTTAGTTGTTTTT 59.296 34.615 0.00 0.00 31.47 1.94
594 900 5.536916 TCCGGGAAATCACATTTAGTTGTTT 59.463 36.000 0.00 0.00 31.47 2.83
599 959 6.003950 CCATATCCGGGAAATCACATTTAGT 58.996 40.000 0.00 0.00 31.47 2.24
614 974 2.612972 CCGAGTCATTTCCCATATCCGG 60.613 54.545 0.00 0.00 0.00 5.14
616 976 2.224523 TGCCGAGTCATTTCCCATATCC 60.225 50.000 0.00 0.00 0.00 2.59
624 1015 2.872858 GGATACCTTGCCGAGTCATTTC 59.127 50.000 0.00 0.00 0.00 2.17
627 1018 1.496060 TGGATACCTTGCCGAGTCAT 58.504 50.000 0.00 0.00 0.00 3.06
632 1023 0.463654 GCACATGGATACCTTGCCGA 60.464 55.000 0.00 0.00 32.73 5.54
641 1036 0.179048 CAGGCTTCGGCACATGGATA 60.179 55.000 0.00 0.00 43.96 2.59
695 1090 2.432628 GTGGGAAGAGGACACGCG 60.433 66.667 3.53 3.53 0.00 6.01
721 1120 1.227943 GCCGGAAGATATGCCTGCA 60.228 57.895 5.05 0.00 34.91 4.41
722 1121 1.072159 AGCCGGAAGATATGCCTGC 59.928 57.895 5.05 0.00 34.99 4.85
728 1127 1.338337 CGTGAGTCAGCCGGAAGATAT 59.662 52.381 5.05 0.00 0.00 1.63
733 1135 4.373116 GGCGTGAGTCAGCCGGAA 62.373 66.667 5.05 0.00 44.22 4.30
811 1213 0.462225 TTCGCGAGGTGTGTTGGAAA 60.462 50.000 9.59 0.00 0.00 3.13
812 1214 0.462225 TTTCGCGAGGTGTGTTGGAA 60.462 50.000 9.59 0.00 0.00 3.53
823 1226 2.171940 GTGCTGCTGTTTCGCGAG 59.828 61.111 9.59 0.00 0.00 5.03
828 1231 1.308783 GGGCTAGGTGCTGCTGTTTC 61.309 60.000 0.00 0.00 42.39 2.78
866 1274 1.230497 GAGATCTCACGGGGAGGGA 59.770 63.158 18.11 0.00 44.19 4.20
907 1315 3.862264 GCTTTGATTTCCTTCCTTGGTGC 60.862 47.826 0.00 0.00 0.00 5.01
959 1427 7.609097 ACAAGATCAAGATCCAGCTATCTAA 57.391 36.000 6.45 0.00 38.58 2.10
963 1431 5.999044 ACAACAAGATCAAGATCCAGCTAT 58.001 37.500 6.45 0.00 38.58 2.97
969 1437 4.380233 CCTGCAACAACAAGATCAAGATCC 60.380 45.833 6.45 0.00 38.58 3.36
1223 1694 4.519437 CGAGCGAGCAGGCATCCA 62.519 66.667 0.00 0.00 34.64 3.41
1248 1739 3.875875 GATCGATCGGACGGACGGC 62.876 68.421 16.41 0.00 0.00 5.68
1249 1740 2.251667 GATCGATCGGACGGACGG 59.748 66.667 16.41 0.00 0.00 4.79
1250 1741 1.853114 ATGGATCGATCGGACGGACG 61.853 60.000 18.81 0.00 0.00 4.79
1251 1742 1.130749 CTATGGATCGATCGGACGGAC 59.869 57.143 18.81 4.13 0.00 4.79
1252 1743 1.450025 CTATGGATCGATCGGACGGA 58.550 55.000 18.81 0.00 0.00 4.69
1272 1763 3.993081 AGCAACTGAGACGATTGAGAAAG 59.007 43.478 0.00 0.00 0.00 2.62
1285 1776 7.359097 GCTCGATCTAATTATTCAGCAACTGAG 60.359 40.741 0.00 0.00 41.75 3.35
1293 1784 4.623167 CCACGGCTCGATCTAATTATTCAG 59.377 45.833 1.50 0.00 0.00 3.02
1294 1785 4.556233 CCACGGCTCGATCTAATTATTCA 58.444 43.478 1.50 0.00 0.00 2.57
1295 1786 3.368236 GCCACGGCTCGATCTAATTATTC 59.632 47.826 0.00 0.00 38.26 1.75
1304 1795 3.701604 AAGACGCCACGGCTCGATC 62.702 63.158 6.48 0.00 44.38 3.69
1320 1819 6.216569 AGTAGATCATATGTACACGCCAAAG 58.783 40.000 0.00 0.00 31.92 2.77
1365 1867 1.338337 AGATCCAGACACCTATTCGCG 59.662 52.381 0.00 0.00 0.00 5.87
1368 1870 2.362397 TGCGAGATCCAGACACCTATTC 59.638 50.000 0.00 0.00 0.00 1.75
1394 1937 2.948979 AGAAATCAACGCACAAGGAACA 59.051 40.909 0.00 0.00 0.00 3.18
1402 1945 5.059710 GTGAATTAAGCAGAAATCAACGCAC 59.940 40.000 0.00 0.00 0.00 5.34
1427 1970 2.091122 CGTGCGATAACATGATGGATCG 59.909 50.000 20.71 20.71 39.08 3.69
1444 1987 0.652592 AGAAAGCATACGCATCGTGC 59.347 50.000 1.77 0.00 41.39 5.34
1447 1990 2.604914 AGTGAAGAAAGCATACGCATCG 59.395 45.455 0.00 0.00 42.27 3.84
1449 1992 2.096496 GCAGTGAAGAAAGCATACGCAT 59.904 45.455 0.00 0.00 42.27 4.73
1450 1993 1.464608 GCAGTGAAGAAAGCATACGCA 59.535 47.619 0.00 0.00 42.27 5.24
1451 1994 1.527793 CGCAGTGAAGAAAGCATACGC 60.528 52.381 0.00 0.00 38.99 4.42
1453 1996 1.202076 GCCGCAGTGAAGAAAGCATAC 60.202 52.381 0.00 0.00 0.00 2.39
1454 1997 1.086696 GCCGCAGTGAAGAAAGCATA 58.913 50.000 0.00 0.00 0.00 3.14
1455 1998 1.878775 GCCGCAGTGAAGAAAGCAT 59.121 52.632 0.00 0.00 0.00 3.79
1456 1999 2.606961 CGCCGCAGTGAAGAAAGCA 61.607 57.895 0.00 0.00 0.00 3.91
1457 2000 2.117941 AACGCCGCAGTGAAGAAAGC 62.118 55.000 0.00 0.00 0.00 3.51
1458 2001 0.307760 AAACGCCGCAGTGAAGAAAG 59.692 50.000 0.00 0.00 0.00 2.62
1472 2015 0.733909 GCAAAGCCAGGATGAAACGC 60.734 55.000 0.00 0.00 39.69 4.84
1473 2016 0.883833 AGCAAAGCCAGGATGAAACG 59.116 50.000 0.00 0.00 39.69 3.60
1474 2017 3.507622 AGTAAGCAAAGCCAGGATGAAAC 59.492 43.478 0.00 0.00 39.69 2.78
1475 2018 3.758554 GAGTAAGCAAAGCCAGGATGAAA 59.241 43.478 0.00 0.00 39.69 2.69
1476 2019 3.347216 GAGTAAGCAAAGCCAGGATGAA 58.653 45.455 0.00 0.00 39.69 2.57
1477 2020 2.677902 CGAGTAAGCAAAGCCAGGATGA 60.678 50.000 0.00 0.00 39.69 2.92
1478 2021 1.667724 CGAGTAAGCAAAGCCAGGATG 59.332 52.381 0.00 0.00 0.00 3.51
1479 2022 1.279271 ACGAGTAAGCAAAGCCAGGAT 59.721 47.619 0.00 0.00 0.00 3.24
1480 2023 0.685097 ACGAGTAAGCAAAGCCAGGA 59.315 50.000 0.00 0.00 0.00 3.86
1481 2024 0.798776 CACGAGTAAGCAAAGCCAGG 59.201 55.000 0.00 0.00 0.00 4.45
1482 2025 1.795768 TCACGAGTAAGCAAAGCCAG 58.204 50.000 0.00 0.00 0.00 4.85
1483 2026 2.472695 ATCACGAGTAAGCAAAGCCA 57.527 45.000 0.00 0.00 0.00 4.75
1484 2027 3.426292 GGAAATCACGAGTAAGCAAAGCC 60.426 47.826 0.00 0.00 0.00 4.35
1485 2028 3.437049 AGGAAATCACGAGTAAGCAAAGC 59.563 43.478 0.00 0.00 0.00 3.51
1486 2029 5.292101 CCTAGGAAATCACGAGTAAGCAAAG 59.708 44.000 1.05 0.00 0.00 2.77
1487 2030 5.046878 TCCTAGGAAATCACGAGTAAGCAAA 60.047 40.000 9.71 0.00 0.00 3.68
1488 2031 4.464951 TCCTAGGAAATCACGAGTAAGCAA 59.535 41.667 9.71 0.00 0.00 3.91
1489 2032 4.021229 TCCTAGGAAATCACGAGTAAGCA 58.979 43.478 9.71 0.00 0.00 3.91
1490 2033 4.098196 AGTCCTAGGAAATCACGAGTAAGC 59.902 45.833 14.65 0.00 0.00 3.09
1491 2034 5.838531 AGTCCTAGGAAATCACGAGTAAG 57.161 43.478 14.65 0.00 0.00 2.34
1492 2035 6.421485 AGTAGTCCTAGGAAATCACGAGTAA 58.579 40.000 14.65 0.00 0.00 2.24
1493 2036 5.999044 AGTAGTCCTAGGAAATCACGAGTA 58.001 41.667 14.65 0.00 0.00 2.59
1494 2037 4.857679 AGTAGTCCTAGGAAATCACGAGT 58.142 43.478 14.65 0.00 0.00 4.18
1495 2038 6.711194 TCATAGTAGTCCTAGGAAATCACGAG 59.289 42.308 14.65 0.81 33.71 4.18
1496 2039 6.598503 TCATAGTAGTCCTAGGAAATCACGA 58.401 40.000 14.65 5.87 33.71 4.35
1497 2040 6.879276 TCATAGTAGTCCTAGGAAATCACG 57.121 41.667 14.65 0.00 33.71 4.35
1512 2055 9.734620 GCTCAGCTGATTTAGATATCATAGTAG 57.265 37.037 18.63 0.00 34.24 2.57
1516 2059 7.899973 TGTGCTCAGCTGATTTAGATATCATA 58.100 34.615 18.63 0.60 34.24 2.15
1522 2065 5.095145 TCTTGTGCTCAGCTGATTTAGAT 57.905 39.130 18.63 0.00 0.00 1.98
1526 2069 4.077108 TCAATCTTGTGCTCAGCTGATTT 58.923 39.130 18.63 0.00 0.00 2.17
1529 2072 2.845363 TCAATCTTGTGCTCAGCTGA 57.155 45.000 17.19 17.19 0.00 4.26
1540 2083 6.835174 TCCCTATGGATCTTCTTCAATCTTG 58.165 40.000 0.00 0.00 35.03 3.02
1545 2088 3.976654 CCCTCCCTATGGATCTTCTTCAA 59.023 47.826 0.00 0.00 40.80 2.69
1620 2164 4.068282 CAGACAGCACGCACGCAG 62.068 66.667 0.00 0.00 0.00 5.18
1641 2185 1.942657 GAGCAGCTCTCACAACAACAA 59.057 47.619 15.78 0.00 41.51 2.83
1642 2186 1.586422 GAGCAGCTCTCACAACAACA 58.414 50.000 15.78 0.00 41.51 3.33
1643 2187 0.510359 CGAGCAGCTCTCACAACAAC 59.490 55.000 20.39 0.00 41.98 3.32
1644 2188 1.224069 GCGAGCAGCTCTCACAACAA 61.224 55.000 20.39 0.00 41.98 2.83
1645 2189 1.665916 GCGAGCAGCTCTCACAACA 60.666 57.895 20.39 0.00 41.98 3.33
1646 2190 2.724708 CGCGAGCAGCTCTCACAAC 61.725 63.158 20.39 2.18 45.59 3.32
1647 2191 2.431430 CGCGAGCAGCTCTCACAA 60.431 61.111 20.39 0.00 45.59 3.33
1680 2224 1.676967 GGGAGTTTGGAGCTGCTGG 60.677 63.158 7.01 0.00 0.00 4.85
1683 2227 2.338785 GCAGGGAGTTTGGAGCTGC 61.339 63.158 0.00 0.00 0.00 5.25
1684 2228 0.676151 GAGCAGGGAGTTTGGAGCTG 60.676 60.000 0.00 0.00 31.61 4.24
1708 2745 9.683069 AGAAATAAATAGGAAATGCTAATTGCG 57.317 29.630 0.00 0.00 46.63 4.85
1721 2758 7.453393 CCCAGCACTATCAGAAATAAATAGGA 58.547 38.462 0.00 0.00 0.00 2.94
1723 2760 6.656693 CCCCCAGCACTATCAGAAATAAATAG 59.343 42.308 0.00 0.00 0.00 1.73
1725 2762 5.388654 CCCCCAGCACTATCAGAAATAAAT 58.611 41.667 0.00 0.00 0.00 1.40
1750 2787 1.358152 CCCCAAAGTGGACTACTCCA 58.642 55.000 0.00 0.00 45.11 3.86
1752 2789 0.690762 TGCCCCAAAGTGGACTACTC 59.309 55.000 0.00 0.00 40.96 2.59
1753 2790 0.400594 GTGCCCCAAAGTGGACTACT 59.599 55.000 0.00 0.00 40.96 2.57
1754 2791 0.400594 AGTGCCCCAAAGTGGACTAC 59.599 55.000 0.00 0.00 40.96 2.73
1755 2792 0.400213 CAGTGCCCCAAAGTGGACTA 59.600 55.000 0.00 0.00 40.96 2.59
1770 2807 1.473080 CCCCTGTTTTGCAAACCAGTG 60.473 52.381 28.24 20.42 0.00 3.66
1777 2814 2.430332 CAACTCTTCCCCTGTTTTGCAA 59.570 45.455 0.00 0.00 0.00 4.08
1856 2930 0.328258 TAGGAAGGGAGGCAAGCAAC 59.672 55.000 0.00 0.00 0.00 4.17
1867 2941 4.099419 AGCTTGTTTTGTTTGTAGGAAGGG 59.901 41.667 0.00 0.00 0.00 3.95
1925 3000 5.598417 ACAAAAACTTCCCTCTGTTAATGCT 59.402 36.000 0.00 0.00 0.00 3.79
1966 3049 2.989166 GCAGCAAATGTTAGCTTGTTCC 59.011 45.455 0.00 0.00 39.50 3.62
1976 3059 1.693062 TGAACATGGGCAGCAAATGTT 59.307 42.857 19.64 19.64 44.91 2.71
2042 3125 3.941483 ACAGGCTCATTATTTCAACGGAG 59.059 43.478 0.00 0.00 0.00 4.63
2058 3141 2.949644 GGTAGTGTTTCAACAACAGGCT 59.050 45.455 0.00 0.00 41.21 4.58
2141 3228 1.532868 CTGCTAGCAACACAAGACACC 59.467 52.381 19.86 0.00 0.00 4.16
2142 3229 2.213499 ACTGCTAGCAACACAAGACAC 58.787 47.619 19.86 0.00 0.00 3.67
2143 3230 2.620251 ACTGCTAGCAACACAAGACA 57.380 45.000 19.86 0.00 0.00 3.41
2144 3231 2.408704 CGTACTGCTAGCAACACAAGAC 59.591 50.000 19.86 7.83 0.00 3.01
2145 3232 2.609491 CCGTACTGCTAGCAACACAAGA 60.609 50.000 19.86 0.00 0.00 3.02
2146 3233 1.726791 CCGTACTGCTAGCAACACAAG 59.273 52.381 19.86 8.38 0.00 3.16
2147 3234 1.341852 TCCGTACTGCTAGCAACACAA 59.658 47.619 19.86 7.47 0.00 3.33
2148 3235 0.963225 TCCGTACTGCTAGCAACACA 59.037 50.000 19.86 1.26 0.00 3.72
2149 3236 2.295253 ATCCGTACTGCTAGCAACAC 57.705 50.000 19.86 17.14 0.00 3.32
2150 3237 3.697542 TCTTATCCGTACTGCTAGCAACA 59.302 43.478 19.86 6.34 0.00 3.33
2151 3238 4.036498 TCTCTTATCCGTACTGCTAGCAAC 59.964 45.833 19.86 13.98 0.00 4.17
2152 3239 4.204799 TCTCTTATCCGTACTGCTAGCAA 58.795 43.478 19.86 1.11 0.00 3.91
2153 3240 3.816994 TCTCTTATCCGTACTGCTAGCA 58.183 45.455 18.22 18.22 0.00 3.49
2154 3241 5.379732 AATCTCTTATCCGTACTGCTAGC 57.620 43.478 8.10 8.10 0.00 3.42
2180 3267 1.178276 GCAGAGGGTCTCTTTCGAGA 58.822 55.000 0.00 0.00 43.82 4.04
2181 3268 0.174617 GGCAGAGGGTCTCTTTCGAG 59.825 60.000 0.00 0.00 38.99 4.04
2182 3269 1.258445 GGGCAGAGGGTCTCTTTCGA 61.258 60.000 0.00 0.00 38.99 3.71
2183 3270 1.219393 GGGCAGAGGGTCTCTTTCG 59.781 63.158 0.00 0.00 38.99 3.46
2184 3271 0.035915 GTGGGCAGAGGGTCTCTTTC 60.036 60.000 0.00 0.00 38.99 2.62
2185 3272 0.474660 AGTGGGCAGAGGGTCTCTTT 60.475 55.000 0.00 0.00 38.99 2.52
2186 3273 1.159664 AGTGGGCAGAGGGTCTCTT 59.840 57.895 0.00 0.00 38.99 2.85
2187 3274 1.611851 CAGTGGGCAGAGGGTCTCT 60.612 63.158 0.00 0.00 42.11 3.10
2188 3275 2.664081 CCAGTGGGCAGAGGGTCTC 61.664 68.421 0.00 0.00 0.00 3.36
2189 3276 2.608988 CCAGTGGGCAGAGGGTCT 60.609 66.667 0.00 0.00 0.00 3.85
2190 3277 1.566298 ATTCCAGTGGGCAGAGGGTC 61.566 60.000 9.92 0.00 0.00 4.46
2191 3278 1.142688 AATTCCAGTGGGCAGAGGGT 61.143 55.000 9.92 0.00 0.00 4.34
2192 3279 0.682209 CAATTCCAGTGGGCAGAGGG 60.682 60.000 9.92 0.00 0.00 4.30
2193 3280 0.329261 TCAATTCCAGTGGGCAGAGG 59.671 55.000 9.92 0.00 0.00 3.69
2194 3281 1.271543 TGTCAATTCCAGTGGGCAGAG 60.272 52.381 9.92 0.00 0.00 3.35
2195 3282 0.770499 TGTCAATTCCAGTGGGCAGA 59.230 50.000 9.92 0.00 0.00 4.26
2196 3283 1.619654 TTGTCAATTCCAGTGGGCAG 58.380 50.000 9.92 0.00 0.00 4.85
2197 3284 2.079170 TTTGTCAATTCCAGTGGGCA 57.921 45.000 9.92 0.00 0.00 5.36
2198 3285 2.627699 TCTTTTGTCAATTCCAGTGGGC 59.372 45.455 9.92 0.00 0.00 5.36
2199 3286 4.144297 TCTCTTTTGTCAATTCCAGTGGG 58.856 43.478 9.92 0.00 0.00 4.61


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

AutoCloner maintained by Alex Coulton.