Multiple sequence alignment - TraesCS7B01G321000

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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 TraesCS7B01G321000 chr7B 100.000 2469 0 0 1 2469 571576538 571579006 0.000000e+00 4560
1 TraesCS7B01G321000 chr7D 90.756 1958 99 30 1 1888 531084890 531086835 0.000000e+00 2538
2 TraesCS7B01G321000 chr7D 91.824 159 10 2 1942 2100 531086842 531086997 4.130000e-53 219
3 TraesCS7B01G321000 chr7D 85.827 127 2 2 2151 2263 531087020 531087144 1.200000e-23 121
4 TraesCS7B01G321000 chr7A 92.787 1317 82 5 1 1305 611497181 611498496 0.000000e+00 1893
5 TraesCS7B01G321000 chr7A 92.517 147 11 0 1762 1908 611499640 611499786 6.920000e-51 211
6 TraesCS7B01G321000 chr7A 88.288 111 6 3 1597 1707 611499047 611499150 2.580000e-25 126


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 TraesCS7B01G321000 chr7B 571576538 571579006 2468 False 4560.000000 4560 100.000000 1 2469 1 chr7B.!!$F1 2468
1 TraesCS7B01G321000 chr7D 531084890 531087144 2254 False 959.333333 2538 89.469000 1 2263 3 chr7D.!!$F1 2262
2 TraesCS7B01G321000 chr7A 611497181 611499786 2605 False 743.333333 1893 91.197333 1 1908 3 chr7A.!!$F1 1907

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
888 908 0.24912 CCATAGCCGTTGTCCTCACA 59.751 55.0 0.0 0.0 0.0 3.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2349 3164 0.028902 GATTTGCGGCCGGTACATTC 59.971 55.0 29.38 12.28 0.0 2.67 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
31 32 2.242043 CCTGTTTCACATGAAGCCCTT 58.758 47.619 0.00 0.00 34.87 3.95
40 41 3.128242 CACATGAAGCCCTTGACAAGATC 59.872 47.826 16.99 9.41 0.00 2.75
44 45 3.181429 TGAAGCCCTTGACAAGATCCTTT 60.181 43.478 16.99 3.86 0.00 3.11
61 62 5.423704 TCCTTTTGTTCCCGATGTATACA 57.576 39.130 8.27 8.27 0.00 2.29
117 118 5.480073 CACCAGGGTAAATCTGAAATTCCAA 59.520 40.000 0.00 0.00 34.36 3.53
279 283 8.968242 GGCAACACATAAGAAACTTAAAGAAAG 58.032 33.333 0.00 0.00 41.33 2.62
303 307 5.502869 GCAAAAGTGCCAAAAGAAGTTGATG 60.503 40.000 0.00 0.00 45.68 3.07
355 368 1.001293 CACCAGTAGAGCAGCTGTTGA 59.999 52.381 16.64 0.00 28.34 3.18
357 370 2.093764 ACCAGTAGAGCAGCTGTTGATC 60.094 50.000 16.64 8.75 42.55 2.92
388 401 1.303888 TACGACTGCCCGGAACTCT 60.304 57.895 0.73 0.00 0.00 3.24
406 419 4.415332 GCGACGGCGAACTCTCCA 62.415 66.667 18.90 0.00 40.82 3.86
409 422 1.289380 GACGGCGAACTCTCCACTT 59.711 57.895 16.62 0.00 0.00 3.16
430 443 3.206964 TGTAATCGTGCCAGTTTTGTCA 58.793 40.909 0.00 0.00 0.00 3.58
466 479 4.148825 CCGGCCAAGGACTCGAGG 62.149 72.222 18.41 0.00 0.00 4.63
475 488 1.381327 GGACTCGAGGACATCCCCA 60.381 63.158 18.41 0.00 36.42 4.96
547 560 2.672307 ACCGGCGTCGAGAGAACT 60.672 61.111 12.93 0.00 45.01 3.01
549 562 1.062206 CCGGCGTCGAGAGAACTAC 59.938 63.158 12.93 0.00 45.01 2.73
556 569 1.095600 TCGAGAGAACTACAGCGCAT 58.904 50.000 11.47 0.00 37.03 4.73
628 641 1.444383 GTGCGCTCTCACGATCACA 60.444 57.895 9.73 0.00 34.06 3.58
792 812 2.434185 TTGGCGCAGGTGTCGATC 60.434 61.111 10.83 0.00 0.00 3.69
807 827 1.723608 CGATCAGCCTCTGCGTCTCT 61.724 60.000 0.00 0.00 44.33 3.10
888 908 0.249120 CCATAGCCGTTGTCCTCACA 59.751 55.000 0.00 0.00 0.00 3.58
906 926 5.416952 CCTCACAGAAATGTAGCCTGAAATT 59.583 40.000 0.00 0.00 0.00 1.82
940 960 6.694844 CAGTAATGTATACAGAGCACAGACAG 59.305 42.308 11.91 0.00 0.00 3.51
944 964 5.654497 TGTATACAGAGCACAGACAGATTG 58.346 41.667 0.08 0.00 0.00 2.67
945 965 4.815533 ATACAGAGCACAGACAGATTGT 57.184 40.909 0.00 0.00 0.00 2.71
985 1019 5.066505 GGACAAAACTGAGACAATGTCTGTT 59.933 40.000 21.81 15.95 43.53 3.16
1048 1082 2.203280 CCGTCTGTTTGGCCACCA 60.203 61.111 3.88 4.16 0.00 4.17
1154 1188 2.263077 CTTCACAGCTATCACCGTGTC 58.737 52.381 0.00 0.00 0.00 3.67
1174 1208 4.680237 CCTTCACGTCCTGCGCCA 62.680 66.667 4.18 0.00 46.11 5.69
1345 1444 9.706691 CCTTTAAGAACATGTAGTACAAAGAGA 57.293 33.333 7.16 0.00 0.00 3.10
1348 1447 7.602517 AAGAACATGTAGTACAAAGAGATGC 57.397 36.000 7.16 0.00 0.00 3.91
1409 1694 5.279256 GCATTTTACCTGCCAACCTTCTTTA 60.279 40.000 0.00 0.00 33.44 1.85
1410 1695 6.740122 GCATTTTACCTGCCAACCTTCTTTAA 60.740 38.462 0.00 0.00 33.44 1.52
1411 1696 6.987403 TTTTACCTGCCAACCTTCTTTAAT 57.013 33.333 0.00 0.00 0.00 1.40
1412 1697 6.987403 TTTACCTGCCAACCTTCTTTAATT 57.013 33.333 0.00 0.00 0.00 1.40
1413 1698 6.987403 TTACCTGCCAACCTTCTTTAATTT 57.013 33.333 0.00 0.00 0.00 1.82
1414 1699 5.468540 ACCTGCCAACCTTCTTTAATTTC 57.531 39.130 0.00 0.00 0.00 2.17
1415 1700 4.283467 ACCTGCCAACCTTCTTTAATTTCC 59.717 41.667 0.00 0.00 0.00 3.13
1416 1701 4.283212 CCTGCCAACCTTCTTTAATTTCCA 59.717 41.667 0.00 0.00 0.00 3.53
1417 1702 5.221621 CCTGCCAACCTTCTTTAATTTCCAA 60.222 40.000 0.00 0.00 0.00 3.53
1418 1703 5.852827 TGCCAACCTTCTTTAATTTCCAAG 58.147 37.500 0.00 0.00 0.00 3.61
1419 1704 5.600484 TGCCAACCTTCTTTAATTTCCAAGA 59.400 36.000 0.00 0.00 0.00 3.02
1420 1705 6.098982 TGCCAACCTTCTTTAATTTCCAAGAA 59.901 34.615 6.86 6.86 36.80 2.52
1421 1706 6.989759 GCCAACCTTCTTTAATTTCCAAGAAA 59.010 34.615 7.95 0.00 38.30 2.52
1422 1707 7.661437 GCCAACCTTCTTTAATTTCCAAGAAAT 59.339 33.333 7.95 0.00 38.30 2.17
1443 1760 9.828039 AGAAATAAGTAAATAACTAGGTTCCCG 57.172 33.333 0.00 0.00 37.50 5.14
1499 1816 2.807967 TGTCTCTTGGCTGACAATTTCG 59.192 45.455 0.00 0.00 39.82 3.46
1502 1819 1.073125 TCTTGGCTGACAATTTCGGGA 59.927 47.619 0.00 0.00 38.65 5.14
1506 1823 0.804989 GCTGACAATTTCGGGACAGG 59.195 55.000 0.00 0.00 0.00 4.00
1507 1824 0.804989 CTGACAATTTCGGGACAGGC 59.195 55.000 0.00 0.00 0.00 4.85
1555 1920 1.227089 CTGGCTAGCTAGTGCACGG 60.227 63.158 21.62 9.79 42.74 4.94
1560 1925 1.667154 CTAGCTAGTGCACGGCCAGA 61.667 60.000 25.95 15.21 42.74 3.86
1561 1926 1.043116 TAGCTAGTGCACGGCCAGAT 61.043 55.000 25.95 16.71 42.74 2.90
1572 1937 0.469917 CGGCCAGATATCCCACAAGT 59.530 55.000 2.24 0.00 0.00 3.16
1582 1947 7.419518 CCAGATATCCCACAAGTCTCTAATGTT 60.420 40.741 0.00 0.00 0.00 2.71
1594 1959 7.617041 AGTCTCTAATGTTGTAAAGGAATGC 57.383 36.000 0.00 0.00 0.00 3.56
1637 2002 3.133183 GTGGGTTCTAATGAGAGGACCTC 59.867 52.174 14.15 14.15 42.30 3.85
1638 2003 2.362717 GGGTTCTAATGAGAGGACCTCG 59.637 54.545 15.97 0.66 44.92 4.63
1639 2004 3.288964 GGTTCTAATGAGAGGACCTCGA 58.711 50.000 15.97 7.27 44.92 4.04
1640 2005 3.892588 GGTTCTAATGAGAGGACCTCGAT 59.107 47.826 15.97 9.31 44.92 3.59
1684 2049 5.707298 TCTTGTTTTGAGCCTAAAGATCCTG 59.293 40.000 0.00 0.00 0.00 3.86
1703 2068 6.575162 TCCTGCAACTATTCCTTTTTCTTC 57.425 37.500 0.00 0.00 0.00 2.87
1704 2069 6.306987 TCCTGCAACTATTCCTTTTTCTTCT 58.693 36.000 0.00 0.00 0.00 2.85
1706 2071 7.040409 TCCTGCAACTATTCCTTTTTCTTCTTC 60.040 37.037 0.00 0.00 0.00 2.87
1707 2072 7.040132 CCTGCAACTATTCCTTTTTCTTCTTCT 60.040 37.037 0.00 0.00 0.00 2.85
1708 2073 8.237811 TGCAACTATTCCTTTTTCTTCTTCTT 57.762 30.769 0.00 0.00 0.00 2.52
1710 2075 7.810282 GCAACTATTCCTTTTTCTTCTTCTTCC 59.190 37.037 0.00 0.00 0.00 3.46
1711 2076 8.300286 CAACTATTCCTTTTTCTTCTTCTTCCC 58.700 37.037 0.00 0.00 0.00 3.97
1714 2079 6.961360 TTCCTTTTTCTTCTTCTTCCCTTC 57.039 37.500 0.00 0.00 0.00 3.46
1715 2080 6.267492 TCCTTTTTCTTCTTCTTCCCTTCT 57.733 37.500 0.00 0.00 0.00 2.85
1716 2081 7.388638 TCCTTTTTCTTCTTCTTCCCTTCTA 57.611 36.000 0.00 0.00 0.00 2.10
1719 2084 8.518702 CCTTTTTCTTCTTCTTCCCTTCTAATG 58.481 37.037 0.00 0.00 0.00 1.90
1721 2086 8.622948 TTTTCTTCTTCTTCCCTTCTAATGAC 57.377 34.615 0.00 0.00 0.00 3.06
1731 2106 5.235516 TCCCTTCTAATGACGAAACTTGAC 58.764 41.667 0.00 0.00 0.00 3.18
1749 2124 6.116806 ACTTGACTTTGTGTATGTGTGGTTA 58.883 36.000 0.00 0.00 0.00 2.85
1751 2126 5.676552 TGACTTTGTGTATGTGTGGTTACT 58.323 37.500 0.00 0.00 0.00 2.24
1892 2693 0.609131 CTGCCCCACCGACTGAAAAT 60.609 55.000 0.00 0.00 0.00 1.82
1898 2699 0.950836 CACCGACTGAAAATGTGGCA 59.049 50.000 0.00 0.00 0.00 4.92
1900 2701 0.109597 CCGACTGAAAATGTGGCAGC 60.110 55.000 0.00 0.00 33.03 5.25
1908 2709 4.619973 TGAAAATGTGGCAGCAAAGTAAG 58.380 39.130 0.00 0.00 0.00 2.34
1909 2710 4.099266 TGAAAATGTGGCAGCAAAGTAAGT 59.901 37.500 0.00 0.00 0.00 2.24
1910 2711 5.300539 TGAAAATGTGGCAGCAAAGTAAGTA 59.699 36.000 0.00 0.00 0.00 2.24
1911 2712 5.982890 AAATGTGGCAGCAAAGTAAGTAT 57.017 34.783 0.00 0.00 0.00 2.12
1912 2713 5.982890 AATGTGGCAGCAAAGTAAGTATT 57.017 34.783 0.00 0.00 0.00 1.89
1913 2714 5.982890 ATGTGGCAGCAAAGTAAGTATTT 57.017 34.783 0.00 0.00 0.00 1.40
1914 2715 5.782893 TGTGGCAGCAAAGTAAGTATTTT 57.217 34.783 0.00 0.00 0.00 1.82
1915 2716 6.155475 TGTGGCAGCAAAGTAAGTATTTTT 57.845 33.333 0.00 0.00 0.00 1.94
1953 2754 4.385748 GGCAGCAAAGTAAGTAAAACATGC 59.614 41.667 0.00 0.00 34.22 4.06
1980 2781 2.565834 AGCCAGCTCTTTGCATTCATTT 59.434 40.909 0.00 0.00 45.94 2.32
1981 2782 3.007614 AGCCAGCTCTTTGCATTCATTTT 59.992 39.130 0.00 0.00 45.94 1.82
1982 2783 3.124636 GCCAGCTCTTTGCATTCATTTTG 59.875 43.478 0.00 0.00 45.94 2.44
1983 2784 3.682858 CCAGCTCTTTGCATTCATTTTGG 59.317 43.478 0.00 0.00 45.94 3.28
1984 2785 4.312443 CAGCTCTTTGCATTCATTTTGGT 58.688 39.130 0.00 0.00 45.94 3.67
1985 2786 4.753107 CAGCTCTTTGCATTCATTTTGGTT 59.247 37.500 0.00 0.00 45.94 3.67
2000 2801 0.534652 TGGTTGCCTGCCAAAATTGC 60.535 50.000 0.00 0.00 34.68 3.56
2020 2821 1.937899 CGGGTAAAGCATCTTAACGGG 59.062 52.381 0.00 0.00 0.00 5.28
2084 2885 3.359033 ACAACATCATTGGGTCATCCTG 58.641 45.455 0.00 0.00 36.20 3.86
2100 2901 1.423921 TCCTGGATGCATGCATGAGAT 59.576 47.619 36.73 19.68 36.70 2.75
2101 2902 2.158519 TCCTGGATGCATGCATGAGATT 60.159 45.455 36.73 13.96 36.70 2.40
2102 2903 2.628178 CCTGGATGCATGCATGAGATTT 59.372 45.455 36.73 13.12 36.70 2.17
2104 2905 4.442893 CCTGGATGCATGCATGAGATTTTT 60.443 41.667 36.73 11.45 36.70 1.94
2138 2939 4.660938 GTTTGCCCCGGCCTCTGT 62.661 66.667 0.00 0.00 41.09 3.41
2139 2940 4.659172 TTTGCCCCGGCCTCTGTG 62.659 66.667 0.00 0.00 41.09 3.66
2229 3044 5.620738 AGCTACAAATAGATGCCTTGAGA 57.379 39.130 0.00 0.00 0.00 3.27
2230 3045 5.609423 AGCTACAAATAGATGCCTTGAGAG 58.391 41.667 0.00 0.00 0.00 3.20
2231 3046 5.130145 AGCTACAAATAGATGCCTTGAGAGT 59.870 40.000 0.00 0.00 0.00 3.24
2263 3078 7.926674 TGTAAGATGTCATGACACAATCAAT 57.073 32.000 30.09 17.69 45.05 2.57
2264 3079 8.339344 TGTAAGATGTCATGACACAATCAATT 57.661 30.769 30.09 16.37 45.05 2.32
2265 3080 9.447157 TGTAAGATGTCATGACACAATCAATTA 57.553 29.630 30.09 15.49 45.05 1.40
2268 3083 8.741603 AGATGTCATGACACAATCAATTATCA 57.258 30.769 30.09 2.94 45.05 2.15
2269 3084 9.181061 AGATGTCATGACACAATCAATTATCAA 57.819 29.630 30.09 2.18 45.05 2.57
2270 3085 9.791820 GATGTCATGACACAATCAATTATCAAA 57.208 29.630 30.09 1.78 45.05 2.69
2277 3092 9.269453 TGACACAATCAATTATCAAAATTTGCA 57.731 25.926 0.00 0.00 33.02 4.08
2331 3146 8.964476 TTTCTTCTAAGAAAGAAAAGCAGAGA 57.036 30.769 12.68 0.00 46.77 3.10
2332 3147 9.566432 TTTCTTCTAAGAAAGAAAAGCAGAGAT 57.434 29.630 12.68 0.00 46.77 2.75
2333 3148 8.770438 TCTTCTAAGAAAGAAAAGCAGAGATC 57.230 34.615 0.00 0.00 43.66 2.75
2334 3149 7.821846 TCTTCTAAGAAAGAAAAGCAGAGATCC 59.178 37.037 0.00 0.00 43.66 3.36
2335 3150 7.251321 TCTAAGAAAGAAAAGCAGAGATCCT 57.749 36.000 0.00 0.00 0.00 3.24
2336 3151 8.367660 TCTAAGAAAGAAAAGCAGAGATCCTA 57.632 34.615 0.00 0.00 0.00 2.94
2337 3152 8.986991 TCTAAGAAAGAAAAGCAGAGATCCTAT 58.013 33.333 0.00 0.00 0.00 2.57
2338 3153 9.260002 CTAAGAAAGAAAAGCAGAGATCCTATC 57.740 37.037 0.00 0.00 0.00 2.08
2339 3154 6.591001 AGAAAGAAAAGCAGAGATCCTATCC 58.409 40.000 0.00 0.00 0.00 2.59
2340 3155 4.972751 AGAAAAGCAGAGATCCTATCCC 57.027 45.455 0.00 0.00 0.00 3.85
2341 3156 4.565817 AGAAAAGCAGAGATCCTATCCCT 58.434 43.478 0.00 0.00 0.00 4.20
2342 3157 4.974501 AGAAAAGCAGAGATCCTATCCCTT 59.025 41.667 0.00 0.00 0.00 3.95
2343 3158 5.431402 AGAAAAGCAGAGATCCTATCCCTTT 59.569 40.000 0.00 0.00 0.00 3.11
2344 3159 4.703379 AAGCAGAGATCCTATCCCTTTG 57.297 45.455 0.00 0.00 0.00 2.77
2345 3160 3.933886 AGCAGAGATCCTATCCCTTTGA 58.066 45.455 0.00 0.00 0.00 2.69
2346 3161 4.302067 AGCAGAGATCCTATCCCTTTGAA 58.698 43.478 0.00 0.00 0.00 2.69
2347 3162 4.723789 AGCAGAGATCCTATCCCTTTGAAA 59.276 41.667 0.00 0.00 0.00 2.69
2348 3163 5.062528 GCAGAGATCCTATCCCTTTGAAAG 58.937 45.833 0.00 0.00 0.00 2.62
2360 3175 3.487563 CTTTGAAAGGAATGTACCGGC 57.512 47.619 0.00 0.00 34.73 6.13
2361 3176 1.828979 TTGAAAGGAATGTACCGGCC 58.171 50.000 0.00 0.00 34.73 6.13
2362 3177 0.391927 TGAAAGGAATGTACCGGCCG 60.392 55.000 21.04 21.04 34.73 6.13
2363 3178 1.712018 GAAAGGAATGTACCGGCCGC 61.712 60.000 22.85 7.02 34.73 6.53
2364 3179 2.472414 AAAGGAATGTACCGGCCGCA 62.472 55.000 22.85 13.77 34.73 5.69
2365 3180 2.437002 GGAATGTACCGGCCGCAA 60.437 61.111 22.85 6.59 0.00 4.85
2366 3181 2.041686 GGAATGTACCGGCCGCAAA 61.042 57.895 22.85 4.68 0.00 3.68
2367 3182 1.381165 GGAATGTACCGGCCGCAAAT 61.381 55.000 22.85 7.29 0.00 2.32
2368 3183 0.028902 GAATGTACCGGCCGCAAATC 59.971 55.000 22.85 11.61 0.00 2.17
2369 3184 1.381165 AATGTACCGGCCGCAAATCC 61.381 55.000 22.85 3.98 0.00 3.01
2370 3185 3.206957 GTACCGGCCGCAAATCCC 61.207 66.667 22.85 0.00 0.00 3.85
2371 3186 3.404438 TACCGGCCGCAAATCCCT 61.404 61.111 22.85 0.00 0.00 4.20
2372 3187 2.065185 TACCGGCCGCAAATCCCTA 61.065 57.895 22.85 0.00 0.00 3.53
2373 3188 1.412453 TACCGGCCGCAAATCCCTAT 61.412 55.000 22.85 0.00 0.00 2.57
2374 3189 1.528309 CCGGCCGCAAATCCCTATT 60.528 57.895 22.85 0.00 0.00 1.73
2375 3190 1.106944 CCGGCCGCAAATCCCTATTT 61.107 55.000 22.85 0.00 35.65 1.40
2376 3191 0.744281 CGGCCGCAAATCCCTATTTT 59.256 50.000 14.67 0.00 32.87 1.82
2377 3192 1.136110 CGGCCGCAAATCCCTATTTTT 59.864 47.619 14.67 0.00 32.87 1.94
2378 3193 2.359531 CGGCCGCAAATCCCTATTTTTA 59.640 45.455 14.67 0.00 32.87 1.52
2379 3194 3.005367 CGGCCGCAAATCCCTATTTTTAT 59.995 43.478 14.67 0.00 32.87 1.40
2380 3195 4.500716 CGGCCGCAAATCCCTATTTTTATT 60.501 41.667 14.67 0.00 32.87 1.40
2381 3196 5.278561 CGGCCGCAAATCCCTATTTTTATTA 60.279 40.000 14.67 0.00 32.87 0.98
2382 3197 6.517605 GGCCGCAAATCCCTATTTTTATTAA 58.482 36.000 0.00 0.00 32.87 1.40
2383 3198 6.645003 GGCCGCAAATCCCTATTTTTATTAAG 59.355 38.462 0.00 0.00 32.87 1.85
2384 3199 7.430441 GCCGCAAATCCCTATTTTTATTAAGA 58.570 34.615 0.00 0.00 32.87 2.10
2385 3200 7.923878 GCCGCAAATCCCTATTTTTATTAAGAA 59.076 33.333 0.00 0.00 32.87 2.52
2386 3201 9.810545 CCGCAAATCCCTATTTTTATTAAGAAA 57.189 29.630 0.00 0.00 32.87 2.52
2392 3207 8.002984 TCCCTATTTTTATTAAGAAAAGCGGG 57.997 34.615 20.94 20.94 38.94 6.13
2393 3208 7.068962 TCCCTATTTTTATTAAGAAAAGCGGGG 59.931 37.037 23.67 22.82 38.55 5.73
2394 3209 7.068962 CCCTATTTTTATTAAGAAAAGCGGGGA 59.931 37.037 22.74 6.63 36.62 4.81
2395 3210 8.471609 CCTATTTTTATTAAGAAAAGCGGGGAA 58.528 33.333 7.94 0.00 30.30 3.97
2397 3212 8.716646 ATTTTTATTAAGAAAAGCGGGGAATG 57.283 30.769 7.94 0.00 30.30 2.67
2398 3213 6.844097 TTTATTAAGAAAAGCGGGGAATGT 57.156 33.333 0.00 0.00 0.00 2.71
2399 3214 6.844097 TTATTAAGAAAAGCGGGGAATGTT 57.156 33.333 0.00 0.00 0.00 2.71
2400 3215 4.776795 TTAAGAAAAGCGGGGAATGTTC 57.223 40.909 0.00 0.00 0.00 3.18
2401 3216 2.586648 AGAAAAGCGGGGAATGTTCT 57.413 45.000 0.00 0.00 0.00 3.01
2402 3217 2.437413 AGAAAAGCGGGGAATGTTCTC 58.563 47.619 0.00 0.00 0.00 2.87
2403 3218 1.130561 GAAAAGCGGGGAATGTTCTCG 59.869 52.381 0.00 0.00 0.00 4.04
2404 3219 0.676782 AAAGCGGGGAATGTTCTCGG 60.677 55.000 9.57 4.22 0.00 4.63
2405 3220 3.202706 GCGGGGAATGTTCTCGGC 61.203 66.667 9.03 9.03 44.84 5.54
2406 3221 2.513897 CGGGGAATGTTCTCGGCC 60.514 66.667 0.00 0.00 0.00 6.13
2407 3222 2.998949 GGGGAATGTTCTCGGCCT 59.001 61.111 0.00 0.00 0.00 5.19
2408 3223 1.153147 GGGGAATGTTCTCGGCCTC 60.153 63.158 0.00 0.00 0.00 4.70
2409 3224 1.521681 GGGAATGTTCTCGGCCTCG 60.522 63.158 0.00 0.00 37.82 4.63
2410 3225 1.515954 GGAATGTTCTCGGCCTCGA 59.484 57.895 0.00 0.00 43.86 4.04
2411 3226 0.105039 GGAATGTTCTCGGCCTCGAT 59.895 55.000 0.00 0.00 45.04 3.59
2412 3227 1.492720 GAATGTTCTCGGCCTCGATC 58.507 55.000 0.00 0.00 45.04 3.69
2413 3228 0.105039 AATGTTCTCGGCCTCGATCC 59.895 55.000 0.00 0.00 45.04 3.36
2414 3229 0.757188 ATGTTCTCGGCCTCGATCCT 60.757 55.000 0.00 0.00 45.04 3.24
2415 3230 1.360911 GTTCTCGGCCTCGATCCTC 59.639 63.158 0.00 0.00 45.04 3.71
2416 3231 1.104577 GTTCTCGGCCTCGATCCTCT 61.105 60.000 0.00 0.00 45.04 3.69
2417 3232 0.472898 TTCTCGGCCTCGATCCTCTA 59.527 55.000 0.00 0.00 45.04 2.43
2418 3233 0.250381 TCTCGGCCTCGATCCTCTAC 60.250 60.000 0.00 0.00 45.04 2.59
2419 3234 0.535328 CTCGGCCTCGATCCTCTACA 60.535 60.000 0.00 0.00 45.04 2.74
2420 3235 0.110678 TCGGCCTCGATCCTCTACAT 59.889 55.000 0.00 0.00 40.88 2.29
2421 3236 0.523966 CGGCCTCGATCCTCTACATC 59.476 60.000 0.00 0.00 39.00 3.06
2422 3237 0.523966 GGCCTCGATCCTCTACATCG 59.476 60.000 0.00 0.00 43.77 3.84
2427 3242 3.470645 TCGATCCTCTACATCGAGTGA 57.529 47.619 0.73 0.00 45.56 3.41
2428 3243 4.009370 TCGATCCTCTACATCGAGTGAT 57.991 45.455 0.73 0.00 45.56 3.06
2440 3255 4.807443 CATCGAGTGATGCACATAGATCT 58.193 43.478 0.00 0.00 45.06 2.75
2441 3256 4.926140 TCGAGTGATGCACATAGATCTT 57.074 40.909 0.00 0.00 36.74 2.40
2442 3257 5.268118 TCGAGTGATGCACATAGATCTTT 57.732 39.130 0.00 0.00 36.74 2.52
2443 3258 5.045872 TCGAGTGATGCACATAGATCTTTG 58.954 41.667 11.18 11.18 36.74 2.77
2444 3259 4.807834 CGAGTGATGCACATAGATCTTTGT 59.192 41.667 12.47 12.47 36.74 2.83
2445 3260 5.276726 CGAGTGATGCACATAGATCTTTGTG 60.277 44.000 30.74 30.74 42.70 3.33
2451 3266 4.926860 CACATAGATCTTTGTGCGTGAA 57.073 40.909 26.49 0.00 36.17 3.18
2452 3267 5.281693 CACATAGATCTTTGTGCGTGAAA 57.718 39.130 26.49 0.00 36.17 2.69
2453 3268 5.688823 CACATAGATCTTTGTGCGTGAAAA 58.311 37.500 26.49 0.00 36.17 2.29
2454 3269 6.142139 CACATAGATCTTTGTGCGTGAAAAA 58.858 36.000 26.49 0.00 36.17 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
31 32 3.146066 CGGGAACAAAAGGATCTTGTCA 58.854 45.455 0.00 0.00 35.98 3.58
40 41 4.334481 GGTGTATACATCGGGAACAAAAGG 59.666 45.833 9.18 0.00 0.00 3.11
44 45 4.020039 ACAAGGTGTATACATCGGGAACAA 60.020 41.667 9.18 0.00 30.81 2.83
61 62 1.607251 GGTGAAATCGACGGACAAGGT 60.607 52.381 0.00 0.00 0.00 3.50
117 118 4.010349 GGAACCAAAATCGGAGAATGTCT 58.990 43.478 0.00 0.00 43.58 3.41
262 266 9.083080 GCACTTTTGCTTTCTTTAAGTTTCTTA 57.917 29.630 0.00 0.00 46.17 2.10
291 295 4.274459 GTCACACTCTGCATCAACTTCTTT 59.726 41.667 0.00 0.00 0.00 2.52
303 307 2.341257 CCTGTACATGTCACACTCTGC 58.659 52.381 0.00 0.00 0.00 4.26
355 368 2.030185 AGTCGTAGAACGTGTTGCAGAT 60.030 45.455 0.00 0.00 43.14 2.90
357 370 1.452025 CAGTCGTAGAACGTGTTGCAG 59.548 52.381 0.00 0.00 43.14 4.41
360 373 0.782384 GGCAGTCGTAGAACGTGTTG 59.218 55.000 0.00 0.00 43.14 3.33
371 384 2.600769 AGAGTTCCGGGCAGTCGT 60.601 61.111 0.00 0.00 0.00 4.34
388 401 4.415332 GGAGAGTTCGCCGTCGCA 62.415 66.667 0.00 0.00 35.26 5.10
396 409 3.608506 CACGATTACAAGTGGAGAGTTCG 59.391 47.826 0.00 0.00 34.93 3.95
406 419 3.630312 ACAAAACTGGCACGATTACAAGT 59.370 39.130 0.00 0.00 0.00 3.16
409 422 3.206964 TGACAAAACTGGCACGATTACA 58.793 40.909 0.00 0.00 0.00 2.41
430 443 0.521735 GGATCAAAGTCGCGGCTTTT 59.478 50.000 34.19 22.25 36.64 2.27
466 479 2.648059 CTCATCAAAGGTGGGGATGTC 58.352 52.381 0.00 0.00 39.47 3.06
475 488 1.377725 CGGGCTGCTCATCAAAGGT 60.378 57.895 0.00 0.00 0.00 3.50
792 812 0.248990 GATCAGAGACGCAGAGGCTG 60.249 60.000 0.00 0.00 39.26 4.85
807 827 1.203441 AGGCCCAGAACAGCAGATCA 61.203 55.000 0.00 0.00 0.00 2.92
873 893 0.468226 TTTCTGTGAGGACAACGGCT 59.532 50.000 0.00 0.00 0.00 5.52
888 908 7.631377 GCAATGGTAATTTCAGGCTACATTTCT 60.631 37.037 0.00 0.00 0.00 2.52
906 926 7.368198 TCTGTATACATTACTGGCAATGGTA 57.632 36.000 5.91 0.00 39.71 3.25
1025 1059 2.668280 GCCAAACAGACGGACTCGC 61.668 63.158 0.00 0.00 40.63 5.03
1048 1082 0.323908 CTCACCGGAGAGTCCTTCCT 60.324 60.000 19.66 0.00 44.26 3.36
1154 1188 2.805353 CGCAGGACGTGAAGGTCG 60.805 66.667 0.00 0.00 37.82 4.79
1209 1243 0.251253 TGATGAGCATGGCACCACAA 60.251 50.000 0.00 0.00 0.00 3.33
1443 1760 6.613153 ATGCCTAGTGGAGTTAGATAATCC 57.387 41.667 0.00 0.00 34.57 3.01
1499 1816 0.393537 CAAGAGACCATGCCTGTCCC 60.394 60.000 0.00 0.00 33.09 4.46
1502 1819 1.656587 TACCAAGAGACCATGCCTGT 58.343 50.000 0.00 0.00 0.00 4.00
1506 1823 4.265073 ACATCTTTACCAAGAGACCATGC 58.735 43.478 0.00 0.00 42.53 4.06
1507 1824 6.484643 CCATACATCTTTACCAAGAGACCATG 59.515 42.308 0.00 0.00 42.53 3.66
1555 1920 2.703007 AGAGACTTGTGGGATATCTGGC 59.297 50.000 2.05 0.00 0.00 4.85
1560 1925 7.200434 ACAACATTAGAGACTTGTGGGATAT 57.800 36.000 0.00 0.00 0.00 1.63
1561 1926 6.620877 ACAACATTAGAGACTTGTGGGATA 57.379 37.500 0.00 0.00 0.00 2.59
1572 1937 7.067372 CCATGCATTCCTTTACAACATTAGAGA 59.933 37.037 0.00 0.00 0.00 3.10
1582 1947 2.622977 GGGGTCCATGCATTCCTTTACA 60.623 50.000 0.00 0.00 0.00 2.41
1594 1959 0.911769 TAGCAGTGAAGGGGTCCATG 59.088 55.000 0.00 0.00 0.00 3.66
1664 2029 3.758554 TGCAGGATCTTTAGGCTCAAAAC 59.241 43.478 0.00 0.00 0.00 2.43
1684 2049 7.810282 GGAAGAAGAAGAAAAAGGAATAGTTGC 59.190 37.037 0.00 0.00 0.00 4.17
1703 2068 6.166982 AGTTTCGTCATTAGAAGGGAAGAAG 58.833 40.000 0.00 0.00 32.28 2.85
1704 2069 6.110411 AGTTTCGTCATTAGAAGGGAAGAA 57.890 37.500 0.00 0.00 0.00 2.52
1706 2071 5.932303 TCAAGTTTCGTCATTAGAAGGGAAG 59.068 40.000 0.00 0.00 0.00 3.46
1707 2072 5.699458 GTCAAGTTTCGTCATTAGAAGGGAA 59.301 40.000 0.00 0.00 0.00 3.97
1708 2073 5.011738 AGTCAAGTTTCGTCATTAGAAGGGA 59.988 40.000 0.00 0.00 0.00 4.20
1710 2075 6.787085 AAGTCAAGTTTCGTCATTAGAAGG 57.213 37.500 0.00 0.00 0.00 3.46
1711 2076 7.584123 CACAAAGTCAAGTTTCGTCATTAGAAG 59.416 37.037 0.00 0.00 0.00 2.85
1714 2079 6.715464 ACACAAAGTCAAGTTTCGTCATTAG 58.285 36.000 0.00 0.00 0.00 1.73
1715 2080 6.671614 ACACAAAGTCAAGTTTCGTCATTA 57.328 33.333 0.00 0.00 0.00 1.90
1716 2081 5.560966 ACACAAAGTCAAGTTTCGTCATT 57.439 34.783 0.00 0.00 0.00 2.57
1719 2084 5.901884 CACATACACAAAGTCAAGTTTCGTC 59.098 40.000 0.00 0.00 0.00 4.20
1721 2086 5.676744 CACACATACACAAAGTCAAGTTTCG 59.323 40.000 0.00 0.00 0.00 3.46
1731 2106 6.481976 TCTCAAGTAACCACACATACACAAAG 59.518 38.462 0.00 0.00 0.00 2.77
1749 2124 1.548269 CTTTCCCTCTCGCTCTCAAGT 59.452 52.381 0.00 0.00 0.00 3.16
1751 2126 0.898320 CCTTTCCCTCTCGCTCTCAA 59.102 55.000 0.00 0.00 0.00 3.02
1883 2684 2.798976 TTGCTGCCACATTTTCAGTC 57.201 45.000 0.00 0.00 0.00 3.51
1892 2693 5.782893 AAAATACTTACTTTGCTGCCACA 57.217 34.783 0.00 0.00 0.00 4.17
1927 2728 6.554334 TGTTTTACTTACTTTGCTGCCTAG 57.446 37.500 0.00 0.00 0.00 3.02
1928 2729 6.569610 GCATGTTTTACTTACTTTGCTGCCTA 60.570 38.462 0.00 0.00 0.00 3.93
1929 2730 5.772521 CATGTTTTACTTACTTTGCTGCCT 58.227 37.500 0.00 0.00 0.00 4.75
1930 2731 4.385748 GCATGTTTTACTTACTTTGCTGCC 59.614 41.667 0.00 0.00 0.00 4.85
1931 2732 4.981674 TGCATGTTTTACTTACTTTGCTGC 59.018 37.500 0.00 0.00 0.00 5.25
1932 2733 6.917477 TCTTGCATGTTTTACTTACTTTGCTG 59.083 34.615 0.00 0.00 0.00 4.41
1933 2734 7.038154 TCTTGCATGTTTTACTTACTTTGCT 57.962 32.000 0.00 0.00 0.00 3.91
1934 2735 7.692908 TTCTTGCATGTTTTACTTACTTTGC 57.307 32.000 0.00 0.00 0.00 3.68
1935 2736 8.268738 GCTTTCTTGCATGTTTTACTTACTTTG 58.731 33.333 0.00 0.00 0.00 2.77
1936 2737 7.438160 GGCTTTCTTGCATGTTTTACTTACTTT 59.562 33.333 0.00 0.00 34.04 2.66
1937 2738 6.923508 GGCTTTCTTGCATGTTTTACTTACTT 59.076 34.615 0.00 0.00 34.04 2.24
1938 2739 6.040391 TGGCTTTCTTGCATGTTTTACTTACT 59.960 34.615 0.00 0.00 34.04 2.24
1939 2740 6.212955 TGGCTTTCTTGCATGTTTTACTTAC 58.787 36.000 0.00 0.00 34.04 2.34
1940 2741 6.398234 TGGCTTTCTTGCATGTTTTACTTA 57.602 33.333 0.00 0.00 34.04 2.24
1953 2754 1.338973 TGCAAAGAGCTGGCTTTCTTG 59.661 47.619 0.00 2.85 45.94 3.02
1980 2781 1.964552 CAATTTTGGCAGGCAACCAA 58.035 45.000 9.35 7.11 45.37 3.67
1981 2782 0.534652 GCAATTTTGGCAGGCAACCA 60.535 50.000 9.35 0.00 34.65 3.67
1982 2783 1.567746 CGCAATTTTGGCAGGCAACC 61.568 55.000 9.35 0.00 37.17 3.77
1983 2784 1.567746 CCGCAATTTTGGCAGGCAAC 61.568 55.000 9.35 0.00 0.00 4.17
1984 2785 1.301558 CCGCAATTTTGGCAGGCAA 60.302 52.632 5.03 5.03 0.00 4.52
1985 2786 2.343018 CCGCAATTTTGGCAGGCA 59.657 55.556 0.00 0.00 0.00 4.75
2000 2801 1.937899 CCCGTTAAGATGCTTTACCCG 59.062 52.381 0.00 0.00 0.00 5.28
2005 2806 2.081462 CCGTTCCCGTTAAGATGCTTT 58.919 47.619 0.00 0.00 0.00 3.51
2020 2821 4.586334 GATCGTACTACTCTCAACCGTTC 58.414 47.826 0.00 0.00 0.00 3.95
2031 2832 4.454847 CACATACCCATCGATCGTACTACT 59.545 45.833 15.94 0.00 0.00 2.57
2032 2833 4.453478 TCACATACCCATCGATCGTACTAC 59.547 45.833 15.94 0.00 0.00 2.73
2073 2874 2.636644 ATGCATCCAGGATGACCCA 58.363 52.632 30.90 19.75 42.09 4.51
2121 2922 4.660938 ACAGAGGCCGGGGCAAAC 62.661 66.667 23.67 13.12 44.11 2.93
2122 2923 4.659172 CACAGAGGCCGGGGCAAA 62.659 66.667 23.67 0.00 44.11 3.68
2131 2932 2.012673 CTCAGTTATTGGCACAGAGGC 58.987 52.381 0.00 0.00 42.39 4.70
2132 2933 3.340814 ACTCAGTTATTGGCACAGAGG 57.659 47.619 0.00 0.00 42.39 3.69
2133 2934 5.078411 ACTACTCAGTTATTGGCACAGAG 57.922 43.478 0.00 0.00 42.39 3.35
2134 2935 6.210784 ACTTACTACTCAGTTATTGGCACAGA 59.789 38.462 0.00 0.00 36.33 3.41
2135 2936 6.398918 ACTTACTACTCAGTTATTGGCACAG 58.601 40.000 0.00 0.00 36.33 3.66
2136 2937 6.354794 ACTTACTACTCAGTTATTGGCACA 57.645 37.500 0.00 0.00 36.14 4.57
2137 2938 8.654215 GTTTACTTACTACTCAGTTATTGGCAC 58.346 37.037 0.00 0.00 36.14 5.01
2138 2939 7.543172 CGTTTACTTACTACTCAGTTATTGGCA 59.457 37.037 0.00 0.00 36.14 4.92
2139 2940 7.756722 TCGTTTACTTACTACTCAGTTATTGGC 59.243 37.037 0.00 0.00 36.14 4.52
2140 2941 9.630098 TTCGTTTACTTACTACTCAGTTATTGG 57.370 33.333 0.00 0.00 36.14 3.16
2143 2944 9.837525 CAGTTCGTTTACTTACTACTCAGTTAT 57.162 33.333 0.00 0.00 36.14 1.89
2144 2945 9.056005 TCAGTTCGTTTACTTACTACTCAGTTA 57.944 33.333 0.00 0.00 36.14 2.24
2145 2946 7.934457 TCAGTTCGTTTACTTACTACTCAGTT 58.066 34.615 0.00 0.00 36.14 3.16
2146 2947 7.502120 TCAGTTCGTTTACTTACTACTCAGT 57.498 36.000 0.00 0.00 38.91 3.41
2147 2948 7.485277 CCATCAGTTCGTTTACTTACTACTCAG 59.515 40.741 0.00 0.00 0.00 3.35
2148 2949 7.310664 CCATCAGTTCGTTTACTTACTACTCA 58.689 38.462 0.00 0.00 0.00 3.41
2149 2950 6.253083 GCCATCAGTTCGTTTACTTACTACTC 59.747 42.308 0.00 0.00 0.00 2.59
2167 2968 7.615582 TGTAACTAGAATTTCTTGCCATCAG 57.384 36.000 3.86 0.00 0.00 2.90
2307 3122 9.213799 GATCTCTGCTTTTCTTTCTTAGAAGAA 57.786 33.333 0.46 0.46 43.52 2.52
2308 3123 7.821846 GGATCTCTGCTTTTCTTTCTTAGAAGA 59.178 37.037 0.00 0.00 43.52 2.87
2309 3124 7.823799 AGGATCTCTGCTTTTCTTTCTTAGAAG 59.176 37.037 0.00 0.00 43.52 2.85
2310 3125 7.684529 AGGATCTCTGCTTTTCTTTCTTAGAA 58.315 34.615 0.00 0.00 41.11 2.10
2311 3126 7.251321 AGGATCTCTGCTTTTCTTTCTTAGA 57.749 36.000 0.00 0.00 0.00 2.10
2312 3127 9.260002 GATAGGATCTCTGCTTTTCTTTCTTAG 57.740 37.037 0.00 0.00 0.00 2.18
2313 3128 8.207545 GGATAGGATCTCTGCTTTTCTTTCTTA 58.792 37.037 0.00 0.00 0.00 2.10
2314 3129 7.053498 GGATAGGATCTCTGCTTTTCTTTCTT 58.947 38.462 0.00 0.00 0.00 2.52
2315 3130 6.409120 GGGATAGGATCTCTGCTTTTCTTTCT 60.409 42.308 0.00 0.00 0.00 2.52
2316 3131 5.762711 GGGATAGGATCTCTGCTTTTCTTTC 59.237 44.000 0.00 0.00 0.00 2.62
2317 3132 5.431402 AGGGATAGGATCTCTGCTTTTCTTT 59.569 40.000 0.00 0.00 39.07 2.52
2318 3133 4.974501 AGGGATAGGATCTCTGCTTTTCTT 59.025 41.667 0.00 0.00 39.07 2.52
2319 3134 4.565817 AGGGATAGGATCTCTGCTTTTCT 58.434 43.478 0.00 0.00 39.07 2.52
2320 3135 4.972751 AGGGATAGGATCTCTGCTTTTC 57.027 45.455 0.00 0.00 39.07 2.29
2321 3136 5.192522 TCAAAGGGATAGGATCTCTGCTTTT 59.807 40.000 0.00 0.00 39.80 2.27
2322 3137 4.723789 TCAAAGGGATAGGATCTCTGCTTT 59.276 41.667 0.00 0.00 39.80 3.51
2323 3138 4.302067 TCAAAGGGATAGGATCTCTGCTT 58.698 43.478 0.00 0.00 39.80 3.91
2324 3139 3.933886 TCAAAGGGATAGGATCTCTGCT 58.066 45.455 0.00 0.00 39.80 4.24
2325 3140 4.696479 TTCAAAGGGATAGGATCTCTGC 57.304 45.455 0.00 0.00 39.80 4.26
2326 3141 5.367937 TCCTTTCAAAGGGATAGGATCTCTG 59.632 44.000 16.60 0.00 45.40 3.35
2327 3142 5.542743 TCCTTTCAAAGGGATAGGATCTCT 58.457 41.667 16.60 0.00 45.40 3.10
2328 3143 5.896073 TCCTTTCAAAGGGATAGGATCTC 57.104 43.478 16.60 0.00 45.40 2.75
2329 3144 6.161170 ACATTCCTTTCAAAGGGATAGGATCT 59.839 38.462 16.60 0.00 45.52 2.75
2330 3145 6.368805 ACATTCCTTTCAAAGGGATAGGATC 58.631 40.000 16.60 0.00 45.52 3.36
2331 3146 6.347061 ACATTCCTTTCAAAGGGATAGGAT 57.653 37.500 16.60 0.00 45.52 3.24
2332 3147 5.796502 ACATTCCTTTCAAAGGGATAGGA 57.203 39.130 16.60 4.14 45.52 2.94
2333 3148 5.828328 GGTACATTCCTTTCAAAGGGATAGG 59.172 44.000 16.60 4.85 45.52 2.57
2334 3149 5.527582 CGGTACATTCCTTTCAAAGGGATAG 59.472 44.000 16.60 10.21 45.52 2.08
2335 3150 5.433526 CGGTACATTCCTTTCAAAGGGATA 58.566 41.667 16.60 2.86 45.52 2.59
2340 3155 2.163613 GGCCGGTACATTCCTTTCAAAG 59.836 50.000 1.90 0.00 0.00 2.77
2341 3156 2.164338 GGCCGGTACATTCCTTTCAAA 58.836 47.619 1.90 0.00 0.00 2.69
2342 3157 1.828979 GGCCGGTACATTCCTTTCAA 58.171 50.000 1.90 0.00 0.00 2.69
2343 3158 0.391927 CGGCCGGTACATTCCTTTCA 60.392 55.000 20.10 0.00 0.00 2.69
2344 3159 1.712018 GCGGCCGGTACATTCCTTTC 61.712 60.000 29.38 0.17 0.00 2.62
2345 3160 1.747745 GCGGCCGGTACATTCCTTT 60.748 57.895 29.38 0.00 0.00 3.11
2346 3161 2.124860 GCGGCCGGTACATTCCTT 60.125 61.111 29.38 0.00 0.00 3.36
2347 3162 2.472414 TTTGCGGCCGGTACATTCCT 62.472 55.000 29.38 0.00 0.00 3.36
2348 3163 1.381165 ATTTGCGGCCGGTACATTCC 61.381 55.000 29.38 7.83 0.00 3.01
2349 3164 0.028902 GATTTGCGGCCGGTACATTC 59.971 55.000 29.38 12.28 0.00 2.67
2350 3165 1.381165 GGATTTGCGGCCGGTACATT 61.381 55.000 29.38 7.08 0.00 2.71
2351 3166 1.822186 GGATTTGCGGCCGGTACAT 60.822 57.895 29.38 5.64 0.00 2.29
2352 3167 2.437002 GGATTTGCGGCCGGTACA 60.437 61.111 29.38 14.20 0.00 2.90
2353 3168 2.314415 TAGGGATTTGCGGCCGGTAC 62.314 60.000 29.38 11.23 0.00 3.34
2354 3169 1.412453 ATAGGGATTTGCGGCCGGTA 61.412 55.000 29.38 3.98 0.00 4.02
2355 3170 2.279037 AATAGGGATTTGCGGCCGGT 62.279 55.000 29.38 0.00 0.00 5.28
2356 3171 1.106944 AAATAGGGATTTGCGGCCGG 61.107 55.000 29.38 8.95 33.86 6.13
2357 3172 0.744281 AAAATAGGGATTTGCGGCCG 59.256 50.000 24.05 24.05 35.38 6.13
2358 3173 2.979814 AAAAATAGGGATTTGCGGCC 57.020 45.000 0.00 0.00 35.38 6.13
2359 3174 7.430441 TCTTAATAAAAATAGGGATTTGCGGC 58.570 34.615 0.00 0.00 35.38 6.53
2360 3175 9.810545 TTTCTTAATAAAAATAGGGATTTGCGG 57.189 29.630 0.00 0.00 35.38 5.69
2366 3181 8.638873 CCCGCTTTTCTTAATAAAAATAGGGAT 58.361 33.333 18.32 0.00 40.70 3.85
2367 3182 7.068962 CCCCGCTTTTCTTAATAAAAATAGGGA 59.931 37.037 21.61 0.00 40.70 4.20
2368 3183 7.068962 TCCCCGCTTTTCTTAATAAAAATAGGG 59.931 37.037 17.24 17.24 39.44 3.53
2369 3184 8.002984 TCCCCGCTTTTCTTAATAAAAATAGG 57.997 34.615 1.09 4.53 0.00 2.57
2371 3186 9.810545 CATTCCCCGCTTTTCTTAATAAAAATA 57.189 29.630 1.09 0.00 0.00 1.40
2372 3187 8.318412 ACATTCCCCGCTTTTCTTAATAAAAAT 58.682 29.630 1.09 0.00 0.00 1.82
2373 3188 7.672240 ACATTCCCCGCTTTTCTTAATAAAAA 58.328 30.769 1.09 0.00 0.00 1.94
2374 3189 7.234661 ACATTCCCCGCTTTTCTTAATAAAA 57.765 32.000 0.00 0.00 0.00 1.52
2375 3190 6.844097 ACATTCCCCGCTTTTCTTAATAAA 57.156 33.333 0.00 0.00 0.00 1.40
2376 3191 6.661805 AGAACATTCCCCGCTTTTCTTAATAA 59.338 34.615 0.00 0.00 0.00 1.40
2377 3192 6.184789 AGAACATTCCCCGCTTTTCTTAATA 58.815 36.000 0.00 0.00 0.00 0.98
2378 3193 5.016831 AGAACATTCCCCGCTTTTCTTAAT 58.983 37.500 0.00 0.00 0.00 1.40
2379 3194 4.403734 AGAACATTCCCCGCTTTTCTTAA 58.596 39.130 0.00 0.00 0.00 1.85
2380 3195 4.007659 GAGAACATTCCCCGCTTTTCTTA 58.992 43.478 0.00 0.00 0.00 2.10
2381 3196 2.820197 GAGAACATTCCCCGCTTTTCTT 59.180 45.455 0.00 0.00 0.00 2.52
2382 3197 2.437413 GAGAACATTCCCCGCTTTTCT 58.563 47.619 0.00 0.00 0.00 2.52
2383 3198 1.130561 CGAGAACATTCCCCGCTTTTC 59.869 52.381 0.00 0.00 0.00 2.29
2384 3199 1.165270 CGAGAACATTCCCCGCTTTT 58.835 50.000 0.00 0.00 0.00 2.27
2385 3200 0.676782 CCGAGAACATTCCCCGCTTT 60.677 55.000 0.00 0.00 0.00 3.51
2386 3201 1.078426 CCGAGAACATTCCCCGCTT 60.078 57.895 0.00 0.00 0.00 4.68
2387 3202 2.584608 CCGAGAACATTCCCCGCT 59.415 61.111 0.00 0.00 0.00 5.52
2388 3203 3.202706 GCCGAGAACATTCCCCGC 61.203 66.667 0.00 0.00 0.00 6.13
2389 3204 2.513897 GGCCGAGAACATTCCCCG 60.514 66.667 0.00 0.00 0.00 5.73
2390 3205 1.153147 GAGGCCGAGAACATTCCCC 60.153 63.158 0.00 0.00 0.00 4.81
2391 3206 1.521681 CGAGGCCGAGAACATTCCC 60.522 63.158 0.00 0.00 38.22 3.97
2392 3207 1.515954 TCGAGGCCGAGAACATTCC 59.484 57.895 0.00 0.00 40.30 3.01
2402 3217 0.523966 GATGTAGAGGATCGAGGCCG 59.476 60.000 0.00 0.00 42.67 6.13
2403 3218 0.523966 CGATGTAGAGGATCGAGGCC 59.476 60.000 0.00 0.00 44.46 5.19
2404 3219 1.524848 TCGATGTAGAGGATCGAGGC 58.475 55.000 0.00 0.00 45.11 4.70
2408 3223 4.077063 CATCACTCGATGTAGAGGATCG 57.923 50.000 0.00 0.00 43.52 3.69
2419 3234 5.465532 AAGATCTATGTGCATCACTCGAT 57.534 39.130 0.00 0.00 35.11 3.59
2420 3235 4.926140 AAGATCTATGTGCATCACTCGA 57.074 40.909 0.00 0.00 35.11 4.04
2421 3236 4.807834 ACAAAGATCTATGTGCATCACTCG 59.192 41.667 0.00 0.00 35.11 4.18
2422 3237 6.045698 CACAAAGATCTATGTGCATCACTC 57.954 41.667 0.00 0.00 40.32 3.51
2431 3246 5.940192 TTTTCACGCACAAAGATCTATGT 57.060 34.783 0.00 0.00 0.00 2.29


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

AutoCloner maintained by Alex Coulton.