Multiple sequence alignment - TraesCS3B01G341100

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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 TraesCS3B01G341100 chr3B 100.000 2612 0 0 1 2612 548040025 548037414 0.000000e+00 4824.0
1 TraesCS3B01G341100 chr3B 90.794 630 50 4 977 1598 548044824 548044195 0.000000e+00 835.0
2 TraesCS3B01G341100 chr3B 87.608 694 71 11 2 689 548045715 548045031 0.000000e+00 791.0
3 TraesCS3B01G341100 chr3B 95.302 149 7 0 2464 2612 665406486 665406338 1.210000e-58 237.0
4 TraesCS3B01G341100 chr3B 77.955 313 57 9 158 467 549427794 549427491 4.440000e-43 185.0
5 TraesCS3B01G341100 chr3B 77.170 311 59 9 160 467 549704687 549704386 1.240000e-38 171.0
6 TraesCS3B01G341100 chr3A 90.634 2509 158 19 1 2467 529842784 529845257 0.000000e+00 3260.0
7 TraesCS3B01G341100 chr3A 86.167 694 71 10 2 689 529776894 529777568 0.000000e+00 726.0
8 TraesCS3B01G341100 chr3A 89.544 526 39 5 995 1504 529779272 529779797 0.000000e+00 652.0
9 TraesCS3B01G341100 chr3A 94.000 100 6 0 1499 1598 529840267 529840366 4.500000e-33 152.0
10 TraesCS3B01G341100 chr3A 100.000 28 0 0 2068 2095 141975725 141975752 5.000000e-03 52.8
11 TraesCS3B01G341100 chr3D 95.337 1780 65 8 1 1774 421291815 421290048 0.000000e+00 2811.0
12 TraesCS3B01G341100 chr3D 93.860 570 34 1 1029 1598 421314077 421313509 0.000000e+00 857.0
13 TraesCS3B01G341100 chr3D 83.371 890 95 24 2 879 421315073 421314225 0.000000e+00 774.0
14 TraesCS3B01G341100 chr3D 92.350 183 14 0 1857 2039 421290034 421289852 7.170000e-66 261.0
15 TraesCS3B01G341100 chr3D 78.914 313 54 10 158 467 421704614 421704311 4.410000e-48 202.0
16 TraesCS3B01G341100 chr3D 77.636 313 54 12 158 467 422023175 422022876 2.670000e-40 176.0
17 TraesCS3B01G341100 chr4A 91.416 233 20 0 1180 1412 538833455 538833223 1.170000e-83 320.0
18 TraesCS3B01G341100 chr7B 95.973 149 6 0 2464 2612 637524462 637524314 2.600000e-60 243.0
19 TraesCS3B01G341100 chr1B 95.302 149 7 0 2464 2612 141831917 141831769 1.210000e-58 237.0
20 TraesCS3B01G341100 chr7D 95.890 146 5 1 2464 2609 534387804 534387948 4.350000e-58 235.0
21 TraesCS3B01G341100 chr5B 94.631 149 8 0 2464 2612 309452741 309452889 5.620000e-57 231.0
22 TraesCS3B01G341100 chr4B 94.631 149 8 0 2464 2612 449603842 449603694 5.620000e-57 231.0
23 TraesCS3B01G341100 chr4B 94.631 149 8 0 2464 2612 507278297 507278445 5.620000e-57 231.0
24 TraesCS3B01G341100 chr4B 94.631 149 8 0 2464 2612 613840567 613840715 5.620000e-57 231.0
25 TraesCS3B01G341100 chr1D 94.631 149 8 0 2464 2612 209639206 209639058 5.620000e-57 231.0
26 TraesCS3B01G341100 chr2B 97.222 72 2 0 1363 1434 380510085 380510014 3.530000e-24 122.0


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 TraesCS3B01G341100 chr3B 548037414 548040025 2611 True 4824.0 4824 100.0000 1 2612 1 chr3B.!!$R1 2611
1 TraesCS3B01G341100 chr3B 548044195 548045715 1520 True 813.0 835 89.2010 2 1598 2 chr3B.!!$R5 1596
2 TraesCS3B01G341100 chr3A 529840267 529845257 4990 False 1706.0 3260 92.3170 1 2467 2 chr3A.!!$F3 2466
3 TraesCS3B01G341100 chr3A 529776894 529779797 2903 False 689.0 726 87.8555 2 1504 2 chr3A.!!$F2 1502
4 TraesCS3B01G341100 chr3D 421289852 421291815 1963 True 1536.0 2811 93.8435 1 2039 2 chr3D.!!$R3 2038
5 TraesCS3B01G341100 chr3D 421313509 421315073 1564 True 815.5 857 88.6155 2 1598 2 chr3D.!!$R4 1596

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
809 3360 0.310854 GCAGTTCGTTTGGAGTTGGG 59.689 55.0 0.0 0.0 0.0 4.12 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2521 6660 0.03467 ACTGGCTGGCAATCTTCTCC 60.035 55.0 5.14 0.0 0.0 3.71 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
37 2555 3.244561 CCGTAGAGAATACCATGGGCAAT 60.245 47.826 18.09 3.55 0.00 3.56
47 2565 2.048023 ATGGGCAATGTGGCGACTG 61.048 57.895 0.00 0.00 44.78 3.51
117 2635 0.600782 GGGTGTTGTCGCCGAAGTAA 60.601 55.000 0.00 0.00 44.47 2.24
524 3052 0.530650 CCTAACATGAGCGCCGTCAT 60.531 55.000 2.29 4.78 37.68 3.06
682 3219 2.034879 AAGTCGACGGCCATGCTTG 61.035 57.895 10.46 0.00 0.00 4.01
809 3360 0.310854 GCAGTTCGTTTGGAGTTGGG 59.689 55.000 0.00 0.00 0.00 4.12
845 3399 5.731967 GCGATAGGATATCTGGATCTCAACG 60.732 48.000 2.05 0.00 0.00 4.10
948 3502 3.713826 TTTCTGGAGGATAAACGGCTT 57.286 42.857 0.00 0.00 0.00 4.35
1002 5048 0.034477 AAACCTCGGCCCCAACTATG 60.034 55.000 0.00 0.00 0.00 2.23
1023 5069 4.880537 CGGCGGCCTAGTCAGCTG 62.881 72.222 18.34 7.63 39.73 4.24
1053 5155 6.702716 TCCATGGAAGAACGTAAAACTTTT 57.297 33.333 13.46 0.00 0.00 2.27
1544 5654 4.575973 GGCGATGCTGGATGGGCT 62.576 66.667 10.10 0.00 33.11 5.19
1582 5692 2.288457 CGTTGTCTGCTCTTCTTCCTCA 60.288 50.000 0.00 0.00 0.00 3.86
1603 5713 1.113517 GGAGCCGGGTAGTATGAGCA 61.114 60.000 5.91 0.00 0.00 4.26
1604 5714 0.315568 GAGCCGGGTAGTATGAGCAG 59.684 60.000 5.91 0.00 0.00 4.24
1605 5715 1.301009 GCCGGGTAGTATGAGCAGC 60.301 63.158 2.18 0.00 0.00 5.25
1606 5716 1.007271 CCGGGTAGTATGAGCAGCG 60.007 63.158 0.00 0.00 0.00 5.18
1607 5717 1.734137 CGGGTAGTATGAGCAGCGT 59.266 57.895 0.00 0.00 0.00 5.07
1646 5756 2.048127 GCTCGCGGTGGACTTCTT 60.048 61.111 6.13 0.00 0.00 2.52
1647 5757 2.095252 GCTCGCGGTGGACTTCTTC 61.095 63.158 6.13 0.00 0.00 2.87
1648 5758 1.587054 CTCGCGGTGGACTTCTTCT 59.413 57.895 6.13 0.00 0.00 2.85
1704 5814 6.609237 ACCATGAAACGATGAACTCATATG 57.391 37.500 0.00 0.00 36.57 1.78
1802 5914 4.922471 TGCACACTACACACTAGTTACA 57.078 40.909 0.00 0.00 0.00 2.41
1807 5919 6.257193 GCACACTACACACTAGTTACAGTTTT 59.743 38.462 0.00 0.00 0.00 2.43
1845 5957 8.706035 CAGAAAGCATTTGAATTTCTACTTTGG 58.294 33.333 9.49 0.00 40.40 3.28
1881 6000 6.442952 TGCGGTGCAATATTTTTCATATACC 58.557 36.000 0.00 0.00 34.76 2.73
1953 6072 1.202114 CATGTTAGGTGCGTGGCATTT 59.798 47.619 0.00 0.00 41.91 2.32
1992 6111 2.987413 TGGCAATTTTAGTCACGCAG 57.013 45.000 0.00 0.00 0.00 5.18
2006 6125 0.532115 ACGCAGGGATGGCAATTTTC 59.468 50.000 0.00 0.00 0.00 2.29
2016 6135 1.336440 TGGCAATTTTCAGTGACACGG 59.664 47.619 0.00 0.00 28.41 4.94
2026 6145 1.597663 CAGTGACACGGGACAAGTTTC 59.402 52.381 0.00 0.00 0.00 2.78
2040 6159 8.512138 CGGGACAAGTTTCTGTAAAGAATAAAT 58.488 33.333 0.00 0.00 0.00 1.40
2055 6174 7.858052 AAGAATAAATGAAGCACGAAAGTTG 57.142 32.000 0.00 0.00 46.40 3.16
2060 6179 1.001487 TGAAGCACGAAAGTTGCCATG 60.001 47.619 0.00 0.00 46.40 3.66
2061 6180 1.266718 GAAGCACGAAAGTTGCCATGA 59.733 47.619 0.00 0.00 46.40 3.07
2065 6184 1.987770 CACGAAAGTTGCCATGATTGC 59.012 47.619 0.00 0.00 46.40 3.56
2068 6187 3.127548 ACGAAAGTTGCCATGATTGCTAG 59.872 43.478 0.00 0.00 46.40 3.42
2083 6202 2.643551 TGCTAGCTAAAGTTGCCATCC 58.356 47.619 17.23 0.00 0.00 3.51
2084 6203 2.239654 TGCTAGCTAAAGTTGCCATCCT 59.760 45.455 17.23 0.00 0.00 3.24
2085 6204 2.875317 GCTAGCTAAAGTTGCCATCCTC 59.125 50.000 7.70 0.00 0.00 3.71
2086 6205 2.029838 AGCTAAAGTTGCCATCCTCG 57.970 50.000 0.00 0.00 0.00 4.63
2087 6206 0.378610 GCTAAAGTTGCCATCCTCGC 59.621 55.000 0.00 0.00 0.00 5.03
2088 6207 0.652592 CTAAAGTTGCCATCCTCGCG 59.347 55.000 0.00 0.00 0.00 5.87
2090 6209 1.298859 AAAGTTGCCATCCTCGCGTC 61.299 55.000 5.77 0.00 0.00 5.19
2091 6210 2.434185 GTTGCCATCCTCGCGTCA 60.434 61.111 5.77 0.00 0.00 4.35
2093 6212 2.942796 TTGCCATCCTCGCGTCACT 61.943 57.895 5.77 0.00 0.00 3.41
2094 6213 1.600511 TTGCCATCCTCGCGTCACTA 61.601 55.000 5.77 0.00 0.00 2.74
2097 6216 0.029567 CCATCCTCGCGTCACTAGAC 59.970 60.000 5.77 0.00 41.46 2.59
2100 6219 0.803117 TCCTCGCGTCACTAGACTTG 59.197 55.000 5.77 0.00 42.73 3.16
2101 6220 0.798771 CCTCGCGTCACTAGACTTGC 60.799 60.000 5.77 0.00 42.73 4.01
2105 6224 1.202256 CGCGTCACTAGACTTGCCATA 60.202 52.381 0.00 0.00 42.73 2.74
2106 6225 2.734175 CGCGTCACTAGACTTGCCATAA 60.734 50.000 0.00 0.00 42.73 1.90
2107 6226 3.259064 GCGTCACTAGACTTGCCATAAA 58.741 45.455 0.00 0.00 42.73 1.40
2108 6227 3.682858 GCGTCACTAGACTTGCCATAAAA 59.317 43.478 0.00 0.00 42.73 1.52
2109 6228 4.153475 GCGTCACTAGACTTGCCATAAAAA 59.847 41.667 0.00 0.00 42.73 1.94
2137 6256 4.986645 TGCGTGCTCGTGCCACAT 62.987 61.111 10.18 0.00 39.49 3.21
2138 6257 4.450122 GCGTGCTCGTGCCACATG 62.450 66.667 10.18 0.00 39.49 3.21
2142 6261 1.003476 TGCTCGTGCCACATGTCAT 60.003 52.632 7.05 0.00 38.71 3.06
2146 6265 2.554142 CTCGTGCCACATGTCATGTAT 58.446 47.619 18.00 0.00 42.70 2.29
2174 6293 2.164279 TCCAAAATCCCACCCCCGT 61.164 57.895 0.00 0.00 0.00 5.28
2182 6301 2.188469 CCACCCCCGTCGGTATTG 59.812 66.667 11.06 3.48 33.67 1.90
2186 6305 2.188469 CCCCGTCGGTATTGGGTG 59.812 66.667 11.06 0.00 41.63 4.61
2192 6311 2.144730 CGTCGGTATTGGGTGAAAACA 58.855 47.619 0.00 0.00 0.00 2.83
2204 6323 1.064134 GAAAACATGGCCGATCCGC 59.936 57.895 0.00 0.00 37.80 5.54
2217 6336 2.588856 GATCCGCGTGGGTTTAGCCT 62.589 60.000 16.49 0.00 37.43 4.58
2218 6337 2.869503 ATCCGCGTGGGTTTAGCCTG 62.870 60.000 16.49 0.00 37.43 4.85
2220 6339 1.669760 CGCGTGGGTTTAGCCTGAA 60.670 57.895 0.00 0.00 37.43 3.02
2224 6343 1.534729 GTGGGTTTAGCCTGAACCAG 58.465 55.000 18.90 0.00 46.65 4.00
2247 6385 1.906105 CGGATCCCCTTCGGTTGGAA 61.906 60.000 6.06 0.00 0.00 3.53
2262 6400 1.287217 TGGAACTGGCCGGGTTATAA 58.713 50.000 18.00 1.79 0.00 0.98
2307 6445 1.455248 CAGGTTTTCGCCGGGATTTA 58.545 50.000 2.18 0.00 0.00 1.40
2320 6458 2.052782 GGATTTAACCCACATCGGCT 57.947 50.000 0.00 0.00 0.00 5.52
2325 6463 1.195442 TAACCCACATCGGCTCCACA 61.195 55.000 0.00 0.00 0.00 4.17
2343 6481 4.191662 CACACGTGGAACAAAACTACTC 57.808 45.455 21.57 0.00 44.16 2.59
2344 6482 3.619483 CACACGTGGAACAAAACTACTCA 59.381 43.478 21.57 0.00 44.16 3.41
2350 6488 3.745975 TGGAACAAAACTACTCATGCTCG 59.254 43.478 0.00 0.00 31.92 5.03
2360 6498 4.691216 ACTACTCATGCTCGAAGGAAAAAC 59.309 41.667 0.00 0.00 0.00 2.43
2371 6509 2.861147 AGGAAAAACGAGAAGGGGAG 57.139 50.000 0.00 0.00 0.00 4.30
2374 6512 1.073444 GAAAAACGAGAAGGGGAGGGT 59.927 52.381 0.00 0.00 0.00 4.34
2376 6514 1.489560 AAACGAGAAGGGGAGGGTGG 61.490 60.000 0.00 0.00 0.00 4.61
2380 6518 3.412408 GAAGGGGAGGGTGGGAGC 61.412 72.222 0.00 0.00 0.00 4.70
2394 6532 4.767255 GAGCGGTGGCAGTGGGAG 62.767 72.222 0.00 0.00 43.41 4.30
2406 6545 2.037367 TGGGAGGACTGGACGGAG 59.963 66.667 0.00 0.00 0.00 4.63
2407 6546 2.760385 GGGAGGACTGGACGGAGG 60.760 72.222 0.00 0.00 0.00 4.30
2412 6551 0.927767 AGGACTGGACGGAGGAGTAT 59.072 55.000 0.00 0.00 0.00 2.12
2415 6554 0.397254 ACTGGACGGAGGAGTATGGG 60.397 60.000 0.00 0.00 0.00 4.00
2422 6561 0.861155 GGAGGAGTATGGGAGGGAGA 59.139 60.000 0.00 0.00 0.00 3.71
2427 6566 1.074471 GTATGGGAGGGAGAGGCCA 60.074 63.158 5.01 0.00 38.95 5.36
2430 6569 0.628668 ATGGGAGGGAGAGGCCAAAT 60.629 55.000 5.01 0.00 38.95 2.32
2437 6576 0.545646 GGAGAGGCCAAATGCTCTCT 59.454 55.000 14.96 2.28 44.92 3.10
2438 6577 1.765314 GGAGAGGCCAAATGCTCTCTA 59.235 52.381 14.96 0.00 43.38 2.43
2440 6579 1.488393 AGAGGCCAAATGCTCTCTACC 59.512 52.381 5.01 0.00 42.31 3.18
2446 6585 3.420893 CCAAATGCTCTCTACCACCAAA 58.579 45.455 0.00 0.00 0.00 3.28
2447 6586 3.826157 CCAAATGCTCTCTACCACCAAAA 59.174 43.478 0.00 0.00 0.00 2.44
2451 6590 2.173782 TGCTCTCTACCACCAAAAACCA 59.826 45.455 0.00 0.00 0.00 3.67
2453 6592 3.747708 GCTCTCTACCACCAAAAACCAGT 60.748 47.826 0.00 0.00 0.00 4.00
2458 6597 1.206849 ACCACCAAAAACCAGTTGCTG 59.793 47.619 0.00 0.00 0.00 4.41
2473 6612 4.232878 CTGCCCTAGCCTGAGCCG 62.233 72.222 0.00 0.00 41.25 5.52
2476 6615 2.764128 CCCTAGCCTGAGCCGGAA 60.764 66.667 5.05 0.00 41.25 4.30
2477 6616 2.501610 CCTAGCCTGAGCCGGAAC 59.498 66.667 5.05 0.00 41.25 3.62
2478 6617 2.501610 CTAGCCTGAGCCGGAACC 59.498 66.667 5.05 0.00 41.25 3.62
2479 6618 2.284331 TAGCCTGAGCCGGAACCA 60.284 61.111 5.05 0.00 41.25 3.67
2480 6619 2.579684 CTAGCCTGAGCCGGAACCAC 62.580 65.000 5.05 0.00 41.25 4.16
2482 6621 3.636231 CCTGAGCCGGAACCACCA 61.636 66.667 5.05 0.00 38.90 4.17
2483 6622 2.358737 CTGAGCCGGAACCACCAC 60.359 66.667 5.05 0.00 38.90 4.16
2484 6623 2.847234 TGAGCCGGAACCACCACT 60.847 61.111 5.05 0.00 38.90 4.00
2485 6624 2.397413 CTGAGCCGGAACCACCACTT 62.397 60.000 5.05 0.00 38.90 3.16
2486 6625 1.966451 GAGCCGGAACCACCACTTG 60.966 63.158 5.05 0.00 38.90 3.16
2487 6626 2.112297 GCCGGAACCACCACTTGA 59.888 61.111 5.05 0.00 38.90 3.02
2488 6627 2.258726 GCCGGAACCACCACTTGAC 61.259 63.158 5.05 0.00 38.90 3.18
2489 6628 1.599797 CCGGAACCACCACTTGACC 60.600 63.158 0.00 0.00 38.90 4.02
2490 6629 1.599797 CGGAACCACCACTTGACCC 60.600 63.158 0.00 0.00 38.90 4.46
2491 6630 1.844130 GGAACCACCACTTGACCCT 59.156 57.895 0.00 0.00 38.79 4.34
2492 6631 0.185175 GGAACCACCACTTGACCCTT 59.815 55.000 0.00 0.00 38.79 3.95
2493 6632 1.422402 GGAACCACCACTTGACCCTTA 59.578 52.381 0.00 0.00 38.79 2.69
2494 6633 2.041216 GGAACCACCACTTGACCCTTAT 59.959 50.000 0.00 0.00 38.79 1.73
2495 6634 3.344515 GAACCACCACTTGACCCTTATC 58.655 50.000 0.00 0.00 0.00 1.75
2496 6635 1.278127 ACCACCACTTGACCCTTATCG 59.722 52.381 0.00 0.00 0.00 2.92
2497 6636 1.553248 CCACCACTTGACCCTTATCGA 59.447 52.381 0.00 0.00 0.00 3.59
2498 6637 2.618053 CACCACTTGACCCTTATCGAC 58.382 52.381 0.00 0.00 0.00 4.20
2499 6638 2.028476 CACCACTTGACCCTTATCGACA 60.028 50.000 0.00 0.00 0.00 4.35
2500 6639 2.635915 ACCACTTGACCCTTATCGACAA 59.364 45.455 0.00 0.00 0.00 3.18
2501 6640 3.263425 ACCACTTGACCCTTATCGACAAT 59.737 43.478 0.00 0.00 0.00 2.71
2502 6641 3.871594 CCACTTGACCCTTATCGACAATC 59.128 47.826 0.00 0.00 0.00 2.67
2503 6642 3.871594 CACTTGACCCTTATCGACAATCC 59.128 47.826 0.00 0.00 0.00 3.01
2504 6643 3.775316 ACTTGACCCTTATCGACAATCCT 59.225 43.478 0.00 0.00 0.00 3.24
2505 6644 4.225267 ACTTGACCCTTATCGACAATCCTT 59.775 41.667 0.00 0.00 0.00 3.36
2506 6645 4.837093 TGACCCTTATCGACAATCCTTT 57.163 40.909 0.00 0.00 0.00 3.11
2507 6646 5.174037 TGACCCTTATCGACAATCCTTTT 57.826 39.130 0.00 0.00 0.00 2.27
2508 6647 6.302535 TGACCCTTATCGACAATCCTTTTA 57.697 37.500 0.00 0.00 0.00 1.52
2509 6648 6.895782 TGACCCTTATCGACAATCCTTTTAT 58.104 36.000 0.00 0.00 0.00 1.40
2510 6649 6.990349 TGACCCTTATCGACAATCCTTTTATC 59.010 38.462 0.00 0.00 0.00 1.75
2511 6650 6.895782 ACCCTTATCGACAATCCTTTTATCA 58.104 36.000 0.00 0.00 0.00 2.15
2512 6651 6.992715 ACCCTTATCGACAATCCTTTTATCAG 59.007 38.462 0.00 0.00 0.00 2.90
2513 6652 6.992715 CCCTTATCGACAATCCTTTTATCAGT 59.007 38.462 0.00 0.00 0.00 3.41
2514 6653 7.041780 CCCTTATCGACAATCCTTTTATCAGTG 60.042 40.741 0.00 0.00 0.00 3.66
2515 6654 7.041780 CCTTATCGACAATCCTTTTATCAGTGG 60.042 40.741 0.00 0.00 0.00 4.00
2516 6655 4.513442 TCGACAATCCTTTTATCAGTGGG 58.487 43.478 0.00 0.00 0.00 4.61
2517 6656 4.224147 TCGACAATCCTTTTATCAGTGGGA 59.776 41.667 0.00 0.00 0.00 4.37
2518 6657 5.104527 TCGACAATCCTTTTATCAGTGGGAT 60.105 40.000 0.00 0.00 38.29 3.85
2519 6658 5.237344 CGACAATCCTTTTATCAGTGGGATC 59.763 44.000 0.00 0.00 35.97 3.36
2520 6659 5.449553 ACAATCCTTTTATCAGTGGGATCC 58.550 41.667 1.92 1.92 35.97 3.36
2521 6660 3.838244 TCCTTTTATCAGTGGGATCCG 57.162 47.619 5.45 0.00 37.44 4.18
2522 6661 2.438021 TCCTTTTATCAGTGGGATCCGG 59.562 50.000 5.45 0.00 37.44 5.14
2523 6662 2.438021 CCTTTTATCAGTGGGATCCGGA 59.562 50.000 6.61 6.61 37.44 5.14
2524 6663 3.495100 CCTTTTATCAGTGGGATCCGGAG 60.495 52.174 11.34 0.00 37.44 4.63
2525 6664 2.767644 TTATCAGTGGGATCCGGAGA 57.232 50.000 11.34 0.00 37.44 3.71
2526 6665 2.767644 TATCAGTGGGATCCGGAGAA 57.232 50.000 11.34 0.00 37.44 2.87
2527 6666 1.418334 ATCAGTGGGATCCGGAGAAG 58.582 55.000 11.34 0.00 0.00 2.85
2528 6667 0.335019 TCAGTGGGATCCGGAGAAGA 59.665 55.000 11.34 0.00 0.00 2.87
2529 6668 1.062886 TCAGTGGGATCCGGAGAAGAT 60.063 52.381 11.34 0.00 0.00 2.40
2530 6669 1.765314 CAGTGGGATCCGGAGAAGATT 59.235 52.381 11.34 0.00 0.00 2.40
2531 6670 1.765314 AGTGGGATCCGGAGAAGATTG 59.235 52.381 11.34 0.00 0.00 2.67
2532 6671 0.469917 TGGGATCCGGAGAAGATTGC 59.530 55.000 11.34 0.00 0.00 3.56
2533 6672 0.250510 GGGATCCGGAGAAGATTGCC 60.251 60.000 11.34 2.14 0.00 4.52
2534 6673 0.469917 GGATCCGGAGAAGATTGCCA 59.530 55.000 11.34 0.00 0.00 4.92
2535 6674 1.542108 GGATCCGGAGAAGATTGCCAG 60.542 57.143 11.34 0.00 0.00 4.85
2536 6675 0.179034 ATCCGGAGAAGATTGCCAGC 60.179 55.000 11.34 0.00 0.00 4.85
2537 6676 1.821332 CCGGAGAAGATTGCCAGCC 60.821 63.158 0.00 0.00 0.00 4.85
2538 6677 1.078214 CGGAGAAGATTGCCAGCCA 60.078 57.895 0.00 0.00 0.00 4.75
2539 6678 1.094073 CGGAGAAGATTGCCAGCCAG 61.094 60.000 0.00 0.00 0.00 4.85
2540 6679 0.034670 GGAGAAGATTGCCAGCCAGT 60.035 55.000 0.00 0.00 0.00 4.00
2541 6680 1.093159 GAGAAGATTGCCAGCCAGTG 58.907 55.000 0.00 0.00 0.00 3.66
2550 6689 2.671145 CCAGCCAGTGGTACTCAGA 58.329 57.895 11.74 0.00 42.17 3.27
2551 6690 1.198713 CCAGCCAGTGGTACTCAGAT 58.801 55.000 11.74 0.00 42.17 2.90
2552 6691 1.134580 CCAGCCAGTGGTACTCAGATG 60.135 57.143 11.74 0.00 42.17 2.90
2553 6692 1.827344 CAGCCAGTGGTACTCAGATGA 59.173 52.381 11.74 0.00 0.00 2.92
2554 6693 1.827969 AGCCAGTGGTACTCAGATGAC 59.172 52.381 11.74 0.00 0.00 3.06
2555 6694 1.827969 GCCAGTGGTACTCAGATGACT 59.172 52.381 11.74 0.00 0.00 3.41
2556 6695 2.159170 GCCAGTGGTACTCAGATGACTC 60.159 54.545 11.74 0.00 0.00 3.36
2557 6696 3.360867 CCAGTGGTACTCAGATGACTCT 58.639 50.000 0.00 0.00 0.00 3.24
2558 6697 3.380004 CCAGTGGTACTCAGATGACTCTC 59.620 52.174 0.00 0.00 0.00 3.20
2559 6698 3.380004 CAGTGGTACTCAGATGACTCTCC 59.620 52.174 0.00 0.00 0.00 3.71
2560 6699 3.268334 AGTGGTACTCAGATGACTCTCCT 59.732 47.826 0.00 0.00 0.00 3.69
2561 6700 3.630312 GTGGTACTCAGATGACTCTCCTC 59.370 52.174 0.00 0.00 0.00 3.71
2562 6701 3.267031 TGGTACTCAGATGACTCTCCTCA 59.733 47.826 0.00 0.00 0.00 3.86
2563 6702 3.882888 GGTACTCAGATGACTCTCCTCAG 59.117 52.174 0.00 0.00 0.00 3.35
2564 6703 3.737559 ACTCAGATGACTCTCCTCAGT 57.262 47.619 0.00 0.00 0.00 3.41
2565 6704 4.853468 ACTCAGATGACTCTCCTCAGTA 57.147 45.455 0.00 0.00 0.00 2.74
2566 6705 4.523083 ACTCAGATGACTCTCCTCAGTAC 58.477 47.826 0.00 0.00 0.00 2.73
2567 6706 4.018870 ACTCAGATGACTCTCCTCAGTACA 60.019 45.833 0.00 0.00 0.00 2.90
2568 6707 4.265893 TCAGATGACTCTCCTCAGTACAC 58.734 47.826 0.00 0.00 0.00 2.90
2569 6708 3.380004 CAGATGACTCTCCTCAGTACACC 59.620 52.174 0.00 0.00 0.00 4.16
2570 6709 1.822506 TGACTCTCCTCAGTACACCG 58.177 55.000 0.00 0.00 0.00 4.94
2571 6710 1.096416 GACTCTCCTCAGTACACCGG 58.904 60.000 0.00 0.00 0.00 5.28
2572 6711 0.697079 ACTCTCCTCAGTACACCGGA 59.303 55.000 9.46 0.00 0.00 5.14
2573 6712 1.340211 ACTCTCCTCAGTACACCGGAG 60.340 57.143 9.46 1.26 43.44 4.63
2574 6713 3.571748 CTCCTCAGTACACCGGAGA 57.428 57.895 9.46 0.00 44.56 3.71
2575 6714 1.065345 TCTCCTCAGTACACCGGAGAG 60.065 57.143 9.46 5.17 45.18 3.20
2576 6715 0.989602 TCCTCAGTACACCGGAGAGA 59.010 55.000 9.46 0.00 0.00 3.10
2577 6716 1.065345 TCCTCAGTACACCGGAGAGAG 60.065 57.143 9.46 8.32 0.00 3.20
2578 6717 1.340211 CCTCAGTACACCGGAGAGAGT 60.340 57.143 9.46 0.56 0.00 3.24
2579 6718 2.093075 CCTCAGTACACCGGAGAGAGTA 60.093 54.545 9.46 0.00 0.00 2.59
2580 6719 3.199677 CTCAGTACACCGGAGAGAGTAG 58.800 54.545 9.46 0.00 0.00 2.57
2581 6720 1.671845 CAGTACACCGGAGAGAGTAGC 59.328 57.143 9.46 0.00 0.00 3.58
2582 6721 1.560611 AGTACACCGGAGAGAGTAGCT 59.439 52.381 9.46 0.00 0.00 3.32
2583 6722 1.941975 GTACACCGGAGAGAGTAGCTC 59.058 57.143 9.46 0.00 44.29 4.09
2593 6732 3.907894 GAGAGTAGCTCTAATCCACGG 57.092 52.381 0.00 0.00 41.35 4.94
2594 6733 2.554893 GAGAGTAGCTCTAATCCACGGG 59.445 54.545 0.00 0.00 41.35 5.28
2595 6734 1.000052 GAGTAGCTCTAATCCACGGGC 60.000 57.143 0.00 0.00 0.00 6.13
2596 6735 0.750850 GTAGCTCTAATCCACGGGCA 59.249 55.000 0.00 0.00 0.00 5.36
2597 6736 1.344763 GTAGCTCTAATCCACGGGCAT 59.655 52.381 0.00 0.00 0.00 4.40
2598 6737 1.717032 AGCTCTAATCCACGGGCATA 58.283 50.000 0.00 0.00 0.00 3.14
2599 6738 1.620819 AGCTCTAATCCACGGGCATAG 59.379 52.381 0.00 0.00 0.00 2.23
2600 6739 1.618837 GCTCTAATCCACGGGCATAGA 59.381 52.381 0.00 0.00 0.00 1.98
2601 6740 2.610727 GCTCTAATCCACGGGCATAGAC 60.611 54.545 0.00 0.00 0.00 2.59
2602 6741 1.968493 TCTAATCCACGGGCATAGACC 59.032 52.381 0.00 0.00 0.00 3.85
2603 6742 1.691976 CTAATCCACGGGCATAGACCA 59.308 52.381 0.00 0.00 0.00 4.02
2604 6743 0.916086 AATCCACGGGCATAGACCAA 59.084 50.000 0.00 0.00 0.00 3.67
2605 6744 0.180406 ATCCACGGGCATAGACCAAC 59.820 55.000 0.00 0.00 0.00 3.77
2606 6745 0.907704 TCCACGGGCATAGACCAACT 60.908 55.000 0.00 0.00 0.00 3.16
2607 6746 0.035439 CCACGGGCATAGACCAACTT 60.035 55.000 0.00 0.00 0.00 2.66
2608 6747 1.208535 CCACGGGCATAGACCAACTTA 59.791 52.381 0.00 0.00 0.00 2.24
2609 6748 2.550978 CACGGGCATAGACCAACTTAG 58.449 52.381 0.00 0.00 0.00 2.18
2610 6749 1.485066 ACGGGCATAGACCAACTTAGG 59.515 52.381 0.00 0.00 0.00 2.69
2611 6750 1.810412 CGGGCATAGACCAACTTAGGC 60.810 57.143 0.00 0.00 0.00 3.93
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
37 2555 4.578898 AACGTCGCAGTCGCCACA 62.579 61.111 0.00 0.00 43.91 4.17
47 2565 1.429148 GGATGATGGACCAACGTCGC 61.429 60.000 15.56 7.12 40.17 5.19
524 3052 1.141254 TGGTGCTACTTTCGGTTGGAA 59.859 47.619 0.00 0.00 0.00 3.53
682 3219 5.038033 CAGCAAAGTAGTAGTCGAAGATCC 58.962 45.833 0.00 0.00 40.67 3.36
845 3399 1.067071 CCCTACACGTGAGGAAGTTCC 60.067 57.143 25.01 14.54 35.99 3.62
948 3502 4.461198 TGATAGCTTGAGTAGATGGACGA 58.539 43.478 0.00 0.00 0.00 4.20
1023 5069 1.685148 GTTCTTCCATGGATGCTCCC 58.315 55.000 17.06 2.98 35.03 4.30
1053 5155 3.487211 ACAGGATGGCTCTGTGCA 58.513 55.556 3.96 0.00 43.07 4.57
1582 5692 1.633774 CTCATACTACCCGGCTCCAT 58.366 55.000 0.00 0.00 0.00 3.41
1603 5713 1.366679 TTACGATCGAGTCAGACGCT 58.633 50.000 24.34 0.00 0.00 5.07
1604 5714 2.102633 CTTTACGATCGAGTCAGACGC 58.897 52.381 24.34 0.00 0.00 5.19
1605 5715 2.102633 GCTTTACGATCGAGTCAGACG 58.897 52.381 24.34 2.67 0.00 4.18
1606 5716 3.102276 CAGCTTTACGATCGAGTCAGAC 58.898 50.000 24.34 4.73 0.00 3.51
1607 5717 2.097629 CCAGCTTTACGATCGAGTCAGA 59.902 50.000 24.34 0.35 0.00 3.27
1795 5907 5.237779 GCACAGGCTTACAAAACTGTAACTA 59.762 40.000 0.00 0.00 41.85 2.24
1802 5914 2.930950 TCTGCACAGGCTTACAAAACT 58.069 42.857 0.00 0.00 41.91 2.66
1807 5919 1.238439 GCTTTCTGCACAGGCTTACA 58.762 50.000 0.00 0.00 42.31 2.41
1839 5951 4.202212 ACCGCAAAATTCTAAAGCCAAAGT 60.202 37.500 0.00 0.00 0.00 2.66
1845 5957 2.671596 TGCACCGCAAAATTCTAAAGC 58.328 42.857 0.00 0.00 34.76 3.51
1881 6000 3.051773 GGTCTAACGACGCCACTTATGG 61.052 54.545 0.00 0.00 41.90 2.74
1891 6010 2.042104 ACGAACAAGGTCTAACGACG 57.958 50.000 0.00 0.00 41.16 5.12
1953 6072 1.681538 TTGCAAAACGTCAGGGCTAA 58.318 45.000 0.00 0.00 0.00 3.09
1982 6101 1.549243 TTGCCATCCCTGCGTGACTA 61.549 55.000 0.00 0.00 0.00 2.59
1988 6107 0.531657 TGAAAATTGCCATCCCTGCG 59.468 50.000 0.00 0.00 0.00 5.18
1992 6111 2.562298 TGTCACTGAAAATTGCCATCCC 59.438 45.455 0.00 0.00 0.00 3.85
2006 6125 1.597663 GAAACTTGTCCCGTGTCACTG 59.402 52.381 0.65 0.00 0.00 3.66
2026 6145 8.948853 TTTCGTGCTTCATTTATTCTTTACAG 57.051 30.769 0.00 0.00 0.00 2.74
2040 6159 1.001487 CATGGCAACTTTCGTGCTTCA 60.001 47.619 0.00 0.00 37.61 3.02
2055 6174 4.604976 CAACTTTAGCTAGCAATCATGGC 58.395 43.478 18.83 0.00 0.00 4.40
2060 6179 4.261363 GGATGGCAACTTTAGCTAGCAATC 60.261 45.833 18.83 9.72 35.42 2.67
2061 6180 3.633986 GGATGGCAACTTTAGCTAGCAAT 59.366 43.478 18.83 0.00 29.98 3.56
2065 6184 3.126831 CGAGGATGGCAACTTTAGCTAG 58.873 50.000 0.00 0.00 37.61 3.42
2068 6187 0.378610 GCGAGGATGGCAACTTTAGC 59.621 55.000 0.00 0.00 40.68 3.09
2108 6227 2.349817 CGAGCACGCAACTCTGATTTTT 60.350 45.455 0.00 0.00 31.71 1.94
2109 6228 1.195448 CGAGCACGCAACTCTGATTTT 59.805 47.619 0.00 0.00 31.71 1.82
2110 6229 0.792640 CGAGCACGCAACTCTGATTT 59.207 50.000 0.00 0.00 31.71 2.17
2111 6230 0.319900 ACGAGCACGCAACTCTGATT 60.320 50.000 2.62 0.00 43.96 2.57
2112 6231 1.010935 CACGAGCACGCAACTCTGAT 61.011 55.000 2.62 0.00 43.96 2.90
2113 6232 1.661509 CACGAGCACGCAACTCTGA 60.662 57.895 2.62 0.00 43.96 3.27
2114 6233 2.849007 CACGAGCACGCAACTCTG 59.151 61.111 2.62 0.00 43.96 3.35
2115 6234 3.038417 GCACGAGCACGCAACTCT 61.038 61.111 2.62 0.00 43.96 3.24
2116 6235 4.077188 GGCACGAGCACGCAACTC 62.077 66.667 7.26 0.00 44.61 3.01
2117 6236 4.908687 TGGCACGAGCACGCAACT 62.909 61.111 7.26 0.00 44.61 3.16
2118 6237 4.666532 GTGGCACGAGCACGCAAC 62.667 66.667 7.26 0.00 44.61 4.17
2120 6239 4.986645 ATGTGGCACGAGCACGCA 62.987 61.111 13.77 9.33 44.61 5.24
2121 6240 4.450122 CATGTGGCACGAGCACGC 62.450 66.667 13.77 3.70 44.61 5.34
2122 6241 3.015293 GACATGTGGCACGAGCACG 62.015 63.158 13.77 0.76 44.61 5.34
2137 6256 5.966853 TGGACCCTGATAAATACATGACA 57.033 39.130 0.00 0.00 0.00 3.58
2138 6257 7.639113 TTTTGGACCCTGATAAATACATGAC 57.361 36.000 0.00 0.00 0.00 3.06
2142 6261 6.133356 GGGATTTTGGACCCTGATAAATACA 58.867 40.000 0.00 0.00 42.56 2.29
2146 6265 4.349365 GTGGGATTTTGGACCCTGATAAA 58.651 43.478 0.00 0.00 45.74 1.40
2174 6293 3.085533 CCATGTTTTCACCCAATACCGA 58.914 45.455 0.00 0.00 0.00 4.69
2182 6301 0.455815 GATCGGCCATGTTTTCACCC 59.544 55.000 2.24 0.00 0.00 4.61
2186 6305 1.064134 GCGGATCGGCCATGTTTTC 59.936 57.895 13.99 0.00 35.94 2.29
2204 6323 0.250553 TGGTTCAGGCTAAACCCACG 60.251 55.000 17.03 0.00 44.62 4.94
2217 6336 1.993391 GGGATCCGACCCTGGTTCA 60.993 63.158 5.45 0.00 45.90 3.18
2218 6337 2.908796 GGGATCCGACCCTGGTTC 59.091 66.667 5.45 0.00 45.90 3.62
2262 6400 4.280019 GGGTGGGTTTGCGAGGGT 62.280 66.667 0.00 0.00 0.00 4.34
2267 6405 2.333581 GTTTCGGGTGGGTTTGCG 59.666 61.111 0.00 0.00 0.00 4.85
2268 6406 2.128507 TGGTTTCGGGTGGGTTTGC 61.129 57.895 0.00 0.00 0.00 3.68
2273 6411 2.282180 CTGGTGGTTTCGGGTGGG 60.282 66.667 0.00 0.00 0.00 4.61
2325 6463 3.250040 GCATGAGTAGTTTTGTTCCACGT 59.750 43.478 0.00 0.00 0.00 4.49
2340 6478 2.480419 CGTTTTTCCTTCGAGCATGAGT 59.520 45.455 0.00 0.00 0.00 3.41
2343 6481 2.736721 TCTCGTTTTTCCTTCGAGCATG 59.263 45.455 8.60 0.00 46.76 4.06
2344 6482 3.040147 TCTCGTTTTTCCTTCGAGCAT 57.960 42.857 8.60 0.00 46.76 3.79
2350 6488 3.075148 CTCCCCTTCTCGTTTTTCCTTC 58.925 50.000 0.00 0.00 0.00 3.46
2360 6498 3.083997 CCCACCCTCCCCTTCTCG 61.084 72.222 0.00 0.00 0.00 4.04
2380 6518 4.394712 GTCCTCCCACTGCCACCG 62.395 72.222 0.00 0.00 0.00 4.94
2387 6525 2.283966 CCGTCCAGTCCTCCCACT 60.284 66.667 0.00 0.00 0.00 4.00
2394 6532 1.033574 CATACTCCTCCGTCCAGTCC 58.966 60.000 0.00 0.00 0.00 3.85
2406 6545 0.834261 GCCTCTCCCTCCCATACTCC 60.834 65.000 0.00 0.00 0.00 3.85
2407 6546 0.834261 GGCCTCTCCCTCCCATACTC 60.834 65.000 0.00 0.00 0.00 2.59
2412 6551 1.230281 ATTTGGCCTCTCCCTCCCA 60.230 57.895 3.32 0.00 0.00 4.37
2415 6554 0.465278 GAGCATTTGGCCTCTCCCTC 60.465 60.000 3.32 0.65 46.50 4.30
2422 6561 1.065126 GTGGTAGAGAGCATTTGGCCT 60.065 52.381 3.32 0.00 46.50 5.19
2427 6566 4.280929 GGTTTTTGGTGGTAGAGAGCATTT 59.719 41.667 0.00 0.00 35.06 2.32
2430 6569 2.173782 TGGTTTTTGGTGGTAGAGAGCA 59.826 45.455 0.00 0.00 0.00 4.26
2437 6576 2.428890 CAGCAACTGGTTTTTGGTGGTA 59.571 45.455 6.41 0.00 44.88 3.25
2438 6577 1.206849 CAGCAACTGGTTTTTGGTGGT 59.793 47.619 6.41 0.00 44.88 4.16
2446 6585 3.346426 CTAGGGCAGCAACTGGTTT 57.654 52.632 0.00 0.00 31.21 3.27
2467 6606 2.448582 AAGTGGTGGTTCCGGCTCA 61.449 57.895 0.00 0.00 39.52 4.26
2468 6607 1.966451 CAAGTGGTGGTTCCGGCTC 60.966 63.158 0.00 0.00 39.52 4.70
2469 6608 2.113139 CAAGTGGTGGTTCCGGCT 59.887 61.111 0.00 0.00 39.52 5.52
2470 6609 2.112297 TCAAGTGGTGGTTCCGGC 59.888 61.111 0.00 0.00 39.52 6.13
2471 6610 1.599797 GGTCAAGTGGTGGTTCCGG 60.600 63.158 0.00 0.00 39.52 5.14
2472 6611 1.599797 GGGTCAAGTGGTGGTTCCG 60.600 63.158 0.00 0.00 39.52 4.30
2473 6612 0.185175 AAGGGTCAAGTGGTGGTTCC 59.815 55.000 0.00 0.00 0.00 3.62
2474 6613 2.943036 TAAGGGTCAAGTGGTGGTTC 57.057 50.000 0.00 0.00 0.00 3.62
2475 6614 2.290071 CGATAAGGGTCAAGTGGTGGTT 60.290 50.000 0.00 0.00 0.00 3.67
2476 6615 1.278127 CGATAAGGGTCAAGTGGTGGT 59.722 52.381 0.00 0.00 0.00 4.16
2477 6616 1.553248 TCGATAAGGGTCAAGTGGTGG 59.447 52.381 0.00 0.00 0.00 4.61
2478 6617 2.028476 TGTCGATAAGGGTCAAGTGGTG 60.028 50.000 0.00 0.00 0.00 4.17
2479 6618 2.253610 TGTCGATAAGGGTCAAGTGGT 58.746 47.619 0.00 0.00 0.00 4.16
2480 6619 3.328382 TTGTCGATAAGGGTCAAGTGG 57.672 47.619 0.00 0.00 0.00 4.00
2481 6620 3.871594 GGATTGTCGATAAGGGTCAAGTG 59.128 47.826 0.02 0.00 0.00 3.16
2482 6621 3.775316 AGGATTGTCGATAAGGGTCAAGT 59.225 43.478 0.02 0.00 0.00 3.16
2483 6622 4.408182 AGGATTGTCGATAAGGGTCAAG 57.592 45.455 0.02 0.00 0.00 3.02
2484 6623 4.837093 AAGGATTGTCGATAAGGGTCAA 57.163 40.909 0.02 0.00 0.00 3.18
2485 6624 4.837093 AAAGGATTGTCGATAAGGGTCA 57.163 40.909 0.02 0.00 0.00 4.02
2486 6625 6.990349 TGATAAAAGGATTGTCGATAAGGGTC 59.010 38.462 0.02 0.00 0.00 4.46
2487 6626 6.895782 TGATAAAAGGATTGTCGATAAGGGT 58.104 36.000 0.02 0.00 0.00 4.34
2488 6627 6.992715 ACTGATAAAAGGATTGTCGATAAGGG 59.007 38.462 0.02 0.00 0.00 3.95
2489 6628 7.041780 CCACTGATAAAAGGATTGTCGATAAGG 60.042 40.741 0.02 0.00 0.00 2.69
2490 6629 7.041780 CCCACTGATAAAAGGATTGTCGATAAG 60.042 40.741 0.02 0.00 0.00 1.73
2491 6630 6.765989 CCCACTGATAAAAGGATTGTCGATAA 59.234 38.462 0.00 0.00 0.00 1.75
2492 6631 6.099125 TCCCACTGATAAAAGGATTGTCGATA 59.901 38.462 0.00 0.00 0.00 2.92
2493 6632 5.104527 TCCCACTGATAAAAGGATTGTCGAT 60.105 40.000 0.00 0.00 0.00 3.59
2494 6633 4.224147 TCCCACTGATAAAAGGATTGTCGA 59.776 41.667 0.00 0.00 0.00 4.20
2495 6634 4.513442 TCCCACTGATAAAAGGATTGTCG 58.487 43.478 0.00 0.00 0.00 4.35
2496 6635 5.532779 GGATCCCACTGATAAAAGGATTGTC 59.467 44.000 0.00 0.00 37.46 3.18
2497 6636 5.449553 GGATCCCACTGATAAAAGGATTGT 58.550 41.667 0.00 0.00 37.46 2.71
2498 6637 4.516698 CGGATCCCACTGATAAAAGGATTG 59.483 45.833 6.06 0.00 37.46 2.67
2499 6638 4.446311 CCGGATCCCACTGATAAAAGGATT 60.446 45.833 6.06 0.00 37.46 3.01
2500 6639 3.073062 CCGGATCCCACTGATAAAAGGAT 59.927 47.826 6.06 0.00 40.05 3.24
2501 6640 2.438021 CCGGATCCCACTGATAAAAGGA 59.562 50.000 6.06 0.00 32.41 3.36
2502 6641 2.438021 TCCGGATCCCACTGATAAAAGG 59.562 50.000 6.06 0.00 32.41 3.11
2503 6642 3.388024 TCTCCGGATCCCACTGATAAAAG 59.612 47.826 3.57 0.00 32.41 2.27
2504 6643 3.380393 TCTCCGGATCCCACTGATAAAA 58.620 45.455 3.57 0.00 32.41 1.52
2505 6644 3.040655 TCTCCGGATCCCACTGATAAA 57.959 47.619 3.57 0.00 32.41 1.40
2506 6645 2.767644 TCTCCGGATCCCACTGATAA 57.232 50.000 3.57 0.00 32.41 1.75
2507 6646 2.177016 TCTTCTCCGGATCCCACTGATA 59.823 50.000 3.57 0.00 32.41 2.15
2508 6647 1.062886 TCTTCTCCGGATCCCACTGAT 60.063 52.381 3.57 0.00 36.01 2.90
2509 6648 0.335019 TCTTCTCCGGATCCCACTGA 59.665 55.000 3.57 0.00 0.00 3.41
2510 6649 1.418334 ATCTTCTCCGGATCCCACTG 58.582 55.000 3.57 0.00 0.00 3.66
2511 6650 1.765314 CAATCTTCTCCGGATCCCACT 59.235 52.381 3.57 0.00 0.00 4.00
2512 6651 1.811941 GCAATCTTCTCCGGATCCCAC 60.812 57.143 3.57 0.00 0.00 4.61
2513 6652 0.469917 GCAATCTTCTCCGGATCCCA 59.530 55.000 3.57 0.00 0.00 4.37
2514 6653 0.250510 GGCAATCTTCTCCGGATCCC 60.251 60.000 3.57 0.00 0.00 3.85
2515 6654 0.469917 TGGCAATCTTCTCCGGATCC 59.530 55.000 3.57 0.00 0.00 3.36
2516 6655 1.876322 CTGGCAATCTTCTCCGGATC 58.124 55.000 3.57 0.00 0.00 3.36
2517 6656 0.179034 GCTGGCAATCTTCTCCGGAT 60.179 55.000 3.57 0.00 0.00 4.18
2518 6657 1.221840 GCTGGCAATCTTCTCCGGA 59.778 57.895 2.93 2.93 0.00 5.14
2519 6658 1.821332 GGCTGGCAATCTTCTCCGG 60.821 63.158 0.00 0.00 0.00 5.14
2520 6659 1.078214 TGGCTGGCAATCTTCTCCG 60.078 57.895 0.00 0.00 0.00 4.63
2521 6660 0.034670 ACTGGCTGGCAATCTTCTCC 60.035 55.000 5.14 0.00 0.00 3.71
2522 6661 1.093159 CACTGGCTGGCAATCTTCTC 58.907 55.000 5.14 0.00 0.00 2.87
2523 6662 0.323178 CCACTGGCTGGCAATCTTCT 60.323 55.000 5.14 0.00 31.36 2.85
2524 6663 0.610232 ACCACTGGCTGGCAATCTTC 60.610 55.000 5.14 0.00 45.32 2.87
2525 6664 0.698238 TACCACTGGCTGGCAATCTT 59.302 50.000 5.14 0.00 45.32 2.40
2526 6665 0.035056 GTACCACTGGCTGGCAATCT 60.035 55.000 5.14 0.00 45.32 2.40
2527 6666 0.035056 AGTACCACTGGCTGGCAATC 60.035 55.000 5.14 0.00 45.32 2.67
2528 6667 0.035056 GAGTACCACTGGCTGGCAAT 60.035 55.000 5.14 0.00 45.32 3.56
2529 6668 1.374947 GAGTACCACTGGCTGGCAA 59.625 57.895 5.14 0.00 45.32 4.52
2530 6669 1.830587 CTGAGTACCACTGGCTGGCA 61.831 60.000 3.18 3.18 45.32 4.92
2531 6670 1.078848 CTGAGTACCACTGGCTGGC 60.079 63.158 0.00 0.00 45.32 4.85
2533 6672 1.827344 TCATCTGAGTACCACTGGCTG 59.173 52.381 0.00 0.00 0.00 4.85
2534 6673 1.827969 GTCATCTGAGTACCACTGGCT 59.172 52.381 0.00 0.00 0.00 4.75
2535 6674 1.827969 AGTCATCTGAGTACCACTGGC 59.172 52.381 0.00 0.00 0.00 4.85
2536 6675 3.360867 AGAGTCATCTGAGTACCACTGG 58.639 50.000 0.00 0.00 33.30 4.00
2537 6676 3.380004 GGAGAGTCATCTGAGTACCACTG 59.620 52.174 0.00 0.00 35.30 3.66
2538 6677 3.268334 AGGAGAGTCATCTGAGTACCACT 59.732 47.826 10.99 0.00 35.30 4.00
2539 6678 3.626930 AGGAGAGTCATCTGAGTACCAC 58.373 50.000 10.99 0.00 35.30 4.16
2540 6679 3.267031 TGAGGAGAGTCATCTGAGTACCA 59.733 47.826 10.99 0.00 35.30 3.25
2541 6680 3.882888 CTGAGGAGAGTCATCTGAGTACC 59.117 52.174 0.00 0.00 35.30 3.34
2542 6681 4.523083 ACTGAGGAGAGTCATCTGAGTAC 58.477 47.826 3.76 0.00 35.30 2.73
2543 6682 4.853468 ACTGAGGAGAGTCATCTGAGTA 57.147 45.455 3.76 0.00 35.30 2.59
2544 6683 3.737559 ACTGAGGAGAGTCATCTGAGT 57.262 47.619 2.99 0.00 35.30 3.41
2545 6684 4.335315 GTGTACTGAGGAGAGTCATCTGAG 59.665 50.000 2.99 0.00 35.30 3.35
2546 6685 4.265893 GTGTACTGAGGAGAGTCATCTGA 58.734 47.826 2.99 0.00 35.30 3.27
2547 6686 3.380004 GGTGTACTGAGGAGAGTCATCTG 59.620 52.174 0.00 0.00 35.30 2.90
2548 6687 3.626930 GGTGTACTGAGGAGAGTCATCT 58.373 50.000 0.00 0.00 38.98 2.90
2549 6688 2.356382 CGGTGTACTGAGGAGAGTCATC 59.644 54.545 0.00 0.00 0.00 2.92
2550 6689 2.370349 CGGTGTACTGAGGAGAGTCAT 58.630 52.381 0.00 0.00 0.00 3.06
2551 6690 1.613520 CCGGTGTACTGAGGAGAGTCA 60.614 57.143 0.00 0.00 0.00 3.41
2552 6691 1.096416 CCGGTGTACTGAGGAGAGTC 58.904 60.000 0.00 0.00 0.00 3.36
2553 6692 0.697079 TCCGGTGTACTGAGGAGAGT 59.303 55.000 0.00 0.00 0.00 3.24
2554 6693 3.571748 TCCGGTGTACTGAGGAGAG 57.428 57.895 0.00 0.00 0.00 3.20
2557 6696 0.989602 TCTCTCCGGTGTACTGAGGA 59.010 55.000 0.00 0.00 0.00 3.71
2558 6697 1.340211 ACTCTCTCCGGTGTACTGAGG 60.340 57.143 0.00 0.00 0.00 3.86
2559 6698 2.116827 ACTCTCTCCGGTGTACTGAG 57.883 55.000 0.00 8.82 0.00 3.35
2560 6699 2.680221 GCTACTCTCTCCGGTGTACTGA 60.680 54.545 0.00 0.00 0.00 3.41
2561 6700 1.671845 GCTACTCTCTCCGGTGTACTG 59.328 57.143 0.00 0.00 0.00 2.74
2562 6701 1.560611 AGCTACTCTCTCCGGTGTACT 59.439 52.381 0.00 0.00 0.00 2.73
2563 6702 1.941975 GAGCTACTCTCTCCGGTGTAC 59.058 57.143 0.00 0.00 38.78 2.90
2564 6703 2.328819 GAGCTACTCTCTCCGGTGTA 57.671 55.000 0.00 0.00 38.78 2.90
2565 6704 3.178325 GAGCTACTCTCTCCGGTGT 57.822 57.895 0.00 0.00 38.78 4.16
2573 6712 2.554893 CCCGTGGATTAGAGCTACTCTC 59.445 54.545 0.00 0.00 40.34 3.20
2574 6713 2.588620 CCCGTGGATTAGAGCTACTCT 58.411 52.381 2.23 2.23 43.83 3.24
2575 6714 1.000052 GCCCGTGGATTAGAGCTACTC 60.000 57.143 0.00 0.00 0.00 2.59
2576 6715 1.041437 GCCCGTGGATTAGAGCTACT 58.959 55.000 0.00 0.00 0.00 2.57
2577 6716 0.750850 TGCCCGTGGATTAGAGCTAC 59.249 55.000 0.00 0.00 0.00 3.58
2578 6717 1.717032 ATGCCCGTGGATTAGAGCTA 58.283 50.000 0.00 0.00 0.00 3.32
2579 6718 1.620819 CTATGCCCGTGGATTAGAGCT 59.379 52.381 0.00 0.00 0.00 4.09
2580 6719 1.618837 TCTATGCCCGTGGATTAGAGC 59.381 52.381 0.00 0.00 0.00 4.09
2581 6720 2.028930 GGTCTATGCCCGTGGATTAGAG 60.029 54.545 0.00 0.00 0.00 2.43
2582 6721 1.968493 GGTCTATGCCCGTGGATTAGA 59.032 52.381 0.00 0.00 0.00 2.10
2583 6722 1.691976 TGGTCTATGCCCGTGGATTAG 59.308 52.381 0.00 0.00 0.00 1.73
2584 6723 1.796017 TGGTCTATGCCCGTGGATTA 58.204 50.000 0.00 0.00 0.00 1.75
2585 6724 0.916086 TTGGTCTATGCCCGTGGATT 59.084 50.000 0.00 0.00 0.00 3.01
2586 6725 0.180406 GTTGGTCTATGCCCGTGGAT 59.820 55.000 0.00 0.00 0.00 3.41
2587 6726 0.907704 AGTTGGTCTATGCCCGTGGA 60.908 55.000 0.00 0.00 0.00 4.02
2588 6727 0.035439 AAGTTGGTCTATGCCCGTGG 60.035 55.000 0.00 0.00 0.00 4.94
2589 6728 2.550978 CTAAGTTGGTCTATGCCCGTG 58.449 52.381 0.00 0.00 0.00 4.94
2590 6729 1.485066 CCTAAGTTGGTCTATGCCCGT 59.515 52.381 0.00 0.00 0.00 5.28
2591 6730 1.810412 GCCTAAGTTGGTCTATGCCCG 60.810 57.143 0.00 0.00 0.00 6.13
2592 6731 1.968704 GCCTAAGTTGGTCTATGCCC 58.031 55.000 0.00 0.00 0.00 5.36


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

AutoCloner maintained by Alex Coulton.