Multiple sequence alignment - TraesCS2D01G076700

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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 TraesCS2D01G076700 chr2D 100.000 6396 0 0 1 6396 32787822 32794217 0.000000e+00 11812.0
1 TraesCS2D01G076700 chr2D 86.283 226 28 3 2396 2621 5131783 5131561 6.410000e-60 243.0
2 TraesCS2D01G076700 chr2B 91.236 5625 290 77 2 5509 54527808 54533346 0.000000e+00 7468.0
3 TraesCS2D01G076700 chr2B 89.551 890 41 22 5509 6371 54533390 54534254 0.000000e+00 1081.0
4 TraesCS2D01G076700 chr2B 84.431 334 43 6 2 330 117996487 117996816 2.880000e-83 320.0
5 TraesCS2D01G076700 chr2B 85.202 223 30 3 2396 2618 43959122 43959341 6.450000e-55 226.0
6 TraesCS2D01G076700 chr2B 80.488 164 26 4 2345 2508 320514455 320514298 3.130000e-23 121.0
7 TraesCS2D01G076700 chr2A 89.919 2956 190 40 2324 5210 36038791 36041707 0.000000e+00 3709.0
8 TraesCS2D01G076700 chr2A 93.014 1231 41 20 5179 6396 36041706 36042904 0.000000e+00 1755.0
9 TraesCS2D01G076700 chr2A 88.179 1362 82 38 1018 2328 36037425 36038758 0.000000e+00 1550.0
10 TraesCS2D01G076700 chr2A 85.928 334 38 5 2 330 77242746 77243075 1.320000e-91 348.0
11 TraesCS2D01G076700 chr2A 85.762 302 13 11 541 829 36036567 36036851 6.270000e-75 292.0
12 TraesCS2D01G076700 chr2A 84.513 226 32 3 2396 2621 559846650 559846428 3.000000e-53 220.0
13 TraesCS2D01G076700 chr5B 80.517 503 79 16 2 494 614046182 614045689 1.010000e-97 368.0
14 TraesCS2D01G076700 chr7D 85.546 339 35 6 2 330 259300752 259301086 6.140000e-90 342.0
15 TraesCS2D01G076700 chr7B 84.894 331 42 7 2 330 238643799 238644123 1.720000e-85 327.0
16 TraesCS2D01G076700 chr7B 85.586 222 29 3 2396 2617 459351600 459351382 4.990000e-56 230.0
17 TraesCS2D01G076700 chr3A 91.597 238 19 1 1761 1997 411838646 411838409 1.720000e-85 327.0
18 TraesCS2D01G076700 chr3A 82.784 273 41 6 2345 2617 411838045 411837779 8.290000e-59 239.0
19 TraesCS2D01G076700 chr1B 84.431 334 43 5 2 330 575920793 575920464 2.880000e-83 320.0
20 TraesCS2D01G076700 chr1B 84.431 334 42 6 2 330 673629211 673628883 2.880000e-83 320.0
21 TraesCS2D01G076700 chr1A 79.592 441 76 9 3 437 445512228 445511796 2.900000e-78 303.0
22 TraesCS2D01G076700 chr4A 85.308 211 27 4 2396 2606 707655801 707656007 1.400000e-51 215.0
23 TraesCS2D01G076700 chr5A 83.000 100 15 2 339 437 570477407 570477309 8.830000e-14 89.8


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 TraesCS2D01G076700 chr2D 32787822 32794217 6395 False 11812.0 11812 100.0000 1 6396 1 chr2D.!!$F1 6395
1 TraesCS2D01G076700 chr2B 54527808 54534254 6446 False 4274.5 7468 90.3935 2 6371 2 chr2B.!!$F3 6369
2 TraesCS2D01G076700 chr2A 36036567 36042904 6337 False 1826.5 3709 89.2185 541 6396 4 chr2A.!!$F2 5855
3 TraesCS2D01G076700 chr3A 411837779 411838646 867 True 283.0 327 87.1905 1761 2617 2 chr3A.!!$R1 856

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
494 495 0.033504 GCGATCGGAGATGGCCTTAA 59.966 55.000 18.30 0.00 45.12 1.85 F
1603 2084 0.038067 TTCTTGCGCGTACCTAGCAA 60.038 50.000 8.43 14.02 46.91 3.91 F
2143 2675 0.107703 TATTCTGCCAACCTGCCTCG 60.108 55.000 0.00 0.00 0.00 4.63 F
2843 3451 0.616395 TGGCCTGATTCCTCCGTACA 60.616 55.000 3.32 0.00 0.00 2.90 F
3578 4188 0.469705 ACAGCCATTCCAAGTTGCCA 60.470 50.000 0.00 0.00 0.00 4.92 F
4589 5246 1.066858 GTGGCCTGAATCTCGAGAACA 60.067 52.381 20.91 19.98 0.00 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1614 2095 0.035630 CACTGGAGCAGGAAGGAAGG 60.036 60.000 0.0 0.0 35.51 3.46 R
2743 3351 0.178967 TGGTTGGCATCAGCTCCAAA 60.179 50.000 6.2 0.0 43.25 3.28 R
3070 3679 1.202348 GCATACCCTGACAAAAGCACC 59.798 52.381 0.0 0.0 0.00 5.01 R
4608 5265 0.107456 ATCGGCTATCTTGCAGTGGG 59.893 55.000 0.0 0.0 34.04 4.61 R
4798 5455 0.888619 AGATCGACGACAGCTTTCCA 59.111 50.000 0.0 0.0 0.00 3.53 R
6216 6976 0.036010 GAAGCAGGCAGGCAGAAGTA 60.036 55.000 0.0 0.0 35.83 2.24 R

All possible primers

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

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 1.300388 GTGCACGGTAGGTCGTTGT 60.300 57.895 0.00 0.00 41.86 3.32
23 24 0.877213 GTGCACGGTAGGTCGTTGTT 60.877 55.000 0.00 0.00 41.86 2.83
95 96 1.299468 GTAGGCTCAGCATCGACGG 60.299 63.158 0.00 0.00 0.00 4.79
96 97 1.753078 TAGGCTCAGCATCGACGGT 60.753 57.895 0.00 0.00 0.00 4.83
100 101 1.687494 GCTCAGCATCGACGGTCAAC 61.687 60.000 9.10 0.00 0.00 3.18
113 114 0.037232 GGTCAACTAGTCGCTTGGCT 60.037 55.000 0.00 0.00 0.00 4.75
144 145 1.226746 GTGGACAACTTCACTTCCCG 58.773 55.000 0.00 0.00 0.00 5.14
145 146 0.534203 TGGACAACTTCACTTCCCGC 60.534 55.000 0.00 0.00 0.00 6.13
147 148 0.599204 GACAACTTCACTTCCCGCGA 60.599 55.000 8.23 0.00 0.00 5.87
185 186 0.801251 CGGAAGCAGAGCTGGAAAAG 59.199 55.000 0.00 0.00 39.62 2.27
188 189 0.178981 AAGCAGAGCTGGAAAAGGCA 60.179 50.000 0.00 0.00 39.62 4.75
258 259 1.598130 GGCGATCATTTAGCCCGCT 60.598 57.895 0.00 0.00 44.80 5.52
293 294 9.236691 CTTTCATGTATTTGTAATGAAATCCGG 57.763 33.333 9.70 0.00 44.79 5.14
295 296 5.163302 TGTATTTGTAATGAAATCCGGCG 57.837 39.130 0.00 0.00 0.00 6.46
313 314 2.417239 GGCGTGTTTACATGAAATCCGA 59.583 45.455 0.00 0.00 34.90 4.55
334 335 6.756074 TCCGACGTGTTTATATAAAATTCGGT 59.244 34.615 27.03 16.15 42.28 4.69
372 373 8.575649 AGTTCCGTCCAGTTAATTTGAATTAT 57.424 30.769 0.00 0.00 31.47 1.28
406 407 0.647410 CGGCTAGCGTTGAATGACTG 59.353 55.000 9.00 0.00 0.00 3.51
425 426 2.278206 CTCTCGCATCCGTGTCCG 60.278 66.667 0.00 0.00 35.54 4.79
426 427 3.052620 CTCTCGCATCCGTGTCCGT 62.053 63.158 0.00 0.00 35.54 4.69
433 434 1.605451 ATCCGTGTCCGTGGACTGA 60.605 57.895 19.17 13.11 44.80 3.41
458 459 1.073125 TGTTCATGACCGGATGTGGTT 59.927 47.619 9.46 0.00 44.01 3.67
459 460 1.468520 GTTCATGACCGGATGTGGTTG 59.531 52.381 9.46 0.00 44.01 3.77
494 495 0.033504 GCGATCGGAGATGGCCTTAA 59.966 55.000 18.30 0.00 45.12 1.85
496 497 2.094182 GCGATCGGAGATGGCCTTAATA 60.094 50.000 18.30 0.00 45.12 0.98
548 562 1.464997 GTAGAAAGAAGGCAAGCACGG 59.535 52.381 0.00 0.00 0.00 4.94
640 659 1.136695 TCAACCCAGCAAGCAAACAAG 59.863 47.619 0.00 0.00 0.00 3.16
658 677 5.456921 ACAAGTGATCACCCTGGAATAAT 57.543 39.130 22.21 0.00 0.00 1.28
659 678 6.575244 ACAAGTGATCACCCTGGAATAATA 57.425 37.500 22.21 0.00 0.00 0.98
660 679 6.969043 ACAAGTGATCACCCTGGAATAATAA 58.031 36.000 22.21 0.00 0.00 1.40
713 733 2.335316 AAACAAGTAGCCAACCACGA 57.665 45.000 0.00 0.00 0.00 4.35
766 794 3.353836 GACACGCAACGGCATGGT 61.354 61.111 0.00 0.00 37.58 3.55
768 796 4.403137 CACGCAACGGCATGGTGG 62.403 66.667 0.00 0.00 41.24 4.61
769 797 4.634703 ACGCAACGGCATGGTGGA 62.635 61.111 0.00 0.00 41.24 4.02
770 798 3.803082 CGCAACGGCATGGTGGAG 61.803 66.667 0.00 0.00 41.24 3.86
829 866 3.251479 TCCATGTTGGATCGAGTCAAG 57.749 47.619 3.82 0.00 42.67 3.02
831 868 1.667724 CATGTTGGATCGAGTCAAGCC 59.332 52.381 3.82 0.00 0.00 4.35
832 869 0.389817 TGTTGGATCGAGTCAAGCCG 60.390 55.000 3.82 0.00 0.00 5.52
835 872 1.590259 GGATCGAGTCAAGCCGAGC 60.590 63.158 0.00 0.00 40.05 5.03
866 911 2.988010 TGCTCAATCCGCTGATTAGT 57.012 45.000 2.80 0.00 39.20 2.24
869 914 4.765273 TGCTCAATCCGCTGATTAGTAAA 58.235 39.130 2.80 0.00 39.20 2.01
871 916 4.024809 GCTCAATCCGCTGATTAGTAAACC 60.025 45.833 2.80 0.00 39.20 3.27
888 933 0.178873 ACCCCCATCACTGTACCAGT 60.179 55.000 0.00 0.00 46.51 4.00
897 942 1.060163 ACTGTACCAGTGGCAGGGTT 61.060 55.000 17.91 0.00 43.63 4.11
907 952 0.409092 TGGCAGGGTTCCACATCATT 59.591 50.000 0.00 0.00 0.00 2.57
933 978 5.239525 GCCACTTCTTTAGCGGATTGATTAT 59.760 40.000 0.00 0.00 0.00 1.28
935 980 6.708054 CCACTTCTTTAGCGGATTGATTATCT 59.292 38.462 0.00 0.00 33.53 1.98
948 993 7.448469 CGGATTGATTATCTATTTTCTGGGGTT 59.552 37.037 0.00 0.00 33.53 4.11
954 999 5.913946 ATCTATTTTCTGGGGTTAGAGGG 57.086 43.478 0.00 0.00 0.00 4.30
961 1006 1.009183 CTGGGGTTAGAGGGGGAAGTA 59.991 57.143 0.00 0.00 0.00 2.24
1011 1442 3.134879 AACCTCGCGTTGACTCCA 58.865 55.556 5.77 0.00 31.79 3.86
1012 1443 1.671742 AACCTCGCGTTGACTCCAT 59.328 52.632 5.77 0.00 31.79 3.41
1013 1444 0.670546 AACCTCGCGTTGACTCCATG 60.671 55.000 5.77 0.00 31.79 3.66
1014 1445 2.456119 CCTCGCGTTGACTCCATGC 61.456 63.158 5.77 0.00 0.00 4.06
1015 1446 2.434185 TCGCGTTGACTCCATGCC 60.434 61.111 5.77 0.00 0.00 4.40
1016 1447 2.741985 CGCGTTGACTCCATGCCA 60.742 61.111 0.00 0.00 0.00 4.92
1211 1655 0.251165 AGGGTTCGATTGGTTGGTGG 60.251 55.000 0.00 0.00 0.00 4.61
1350 1812 1.675219 GGCCAGGAACCAGTTCGTA 59.325 57.895 0.00 0.00 40.37 3.43
1547 2015 2.582436 CCTCCGTACGCCACCAAT 59.418 61.111 10.49 0.00 0.00 3.16
1551 2019 1.376166 CCGTACGCCACCAATTCCA 60.376 57.895 10.49 0.00 0.00 3.53
1554 2022 1.084289 GTACGCCACCAATTCCACTC 58.916 55.000 0.00 0.00 0.00 3.51
1555 2023 0.981183 TACGCCACCAATTCCACTCT 59.019 50.000 0.00 0.00 0.00 3.24
1556 2024 0.606401 ACGCCACCAATTCCACTCTG 60.606 55.000 0.00 0.00 0.00 3.35
1560 2028 0.967380 CACCAATTCCACTCTGCCCC 60.967 60.000 0.00 0.00 0.00 5.80
1562 2030 1.693640 CAATTCCACTCTGCCCCCT 59.306 57.895 0.00 0.00 0.00 4.79
1564 2032 0.551131 AATTCCACTCTGCCCCCTCT 60.551 55.000 0.00 0.00 0.00 3.69
1565 2033 1.277580 ATTCCACTCTGCCCCCTCTG 61.278 60.000 0.00 0.00 0.00 3.35
1566 2034 2.284921 CCACTCTGCCCCCTCTGA 60.285 66.667 0.00 0.00 0.00 3.27
1567 2035 1.692042 CCACTCTGCCCCCTCTGAT 60.692 63.158 0.00 0.00 0.00 2.90
1568 2036 1.277580 CCACTCTGCCCCCTCTGATT 61.278 60.000 0.00 0.00 0.00 2.57
1569 2037 0.622665 CACTCTGCCCCCTCTGATTT 59.377 55.000 0.00 0.00 0.00 2.17
1570 2038 1.005215 CACTCTGCCCCCTCTGATTTT 59.995 52.381 0.00 0.00 0.00 1.82
1574 2042 2.025887 TCTGCCCCCTCTGATTTTCTTC 60.026 50.000 0.00 0.00 0.00 2.87
1575 2043 1.995542 TGCCCCCTCTGATTTTCTTCT 59.004 47.619 0.00 0.00 0.00 2.85
1577 2045 2.025887 GCCCCCTCTGATTTTCTTCTCA 60.026 50.000 0.00 0.00 0.00 3.27
1591 2064 5.852738 TTCTTCTCATCTCTTTTCTTGCG 57.147 39.130 0.00 0.00 0.00 4.85
1594 2067 1.728971 CTCATCTCTTTTCTTGCGCGT 59.271 47.619 8.43 0.00 0.00 6.01
1599 2080 2.229543 TCTCTTTTCTTGCGCGTACCTA 59.770 45.455 8.43 0.00 0.00 3.08
1600 2081 2.599082 CTCTTTTCTTGCGCGTACCTAG 59.401 50.000 8.43 0.00 0.00 3.02
1603 2084 0.038067 TTCTTGCGCGTACCTAGCAA 60.038 50.000 8.43 14.02 46.91 3.91
1614 2095 3.124636 CGTACCTAGCAACAATTCACACC 59.875 47.826 0.00 0.00 0.00 4.16
1615 2096 2.514803 ACCTAGCAACAATTCACACCC 58.485 47.619 0.00 0.00 0.00 4.61
1616 2097 2.108250 ACCTAGCAACAATTCACACCCT 59.892 45.455 0.00 0.00 0.00 4.34
1617 2098 3.157087 CCTAGCAACAATTCACACCCTT 58.843 45.455 0.00 0.00 0.00 3.95
1618 2099 3.191371 CCTAGCAACAATTCACACCCTTC 59.809 47.826 0.00 0.00 0.00 3.46
1619 2100 1.963515 AGCAACAATTCACACCCTTCC 59.036 47.619 0.00 0.00 0.00 3.46
1620 2101 1.963515 GCAACAATTCACACCCTTCCT 59.036 47.619 0.00 0.00 0.00 3.36
1621 2102 2.365293 GCAACAATTCACACCCTTCCTT 59.635 45.455 0.00 0.00 0.00 3.36
1622 2103 3.552890 GCAACAATTCACACCCTTCCTTC 60.553 47.826 0.00 0.00 0.00 3.46
1623 2104 2.876581 ACAATTCACACCCTTCCTTCC 58.123 47.619 0.00 0.00 0.00 3.46
1624 2105 2.447047 ACAATTCACACCCTTCCTTCCT 59.553 45.455 0.00 0.00 0.00 3.36
1625 2106 2.821969 CAATTCACACCCTTCCTTCCTG 59.178 50.000 0.00 0.00 0.00 3.86
1626 2107 0.110486 TTCACACCCTTCCTTCCTGC 59.890 55.000 0.00 0.00 0.00 4.85
1636 2117 1.920325 CCTTCCTGCTCCAGTGGGA 60.920 63.158 9.92 0.00 42.29 4.37
1709 2190 0.677098 CGAGAGGGACGAGAGGAACA 60.677 60.000 0.00 0.00 0.00 3.18
1797 2281 3.008485 ACTTGCTCCTCCCTTTTACAGAG 59.992 47.826 0.00 0.00 0.00 3.35
1827 2317 4.781934 ACTACTCCAGTTTTCAGCAAGTT 58.218 39.130 0.00 0.00 31.59 2.66
1866 2371 3.153919 GCCCACCAAACTGAGTATTTCA 58.846 45.455 0.00 0.00 0.00 2.69
2143 2675 0.107703 TATTCTGCCAACCTGCCTCG 60.108 55.000 0.00 0.00 0.00 4.63
2163 2703 0.807496 GAGTCTTGGCCATGTTCAGC 59.193 55.000 17.54 3.59 0.00 4.26
2193 2733 7.756722 CCATGAAAAAGCACTGATAAAACTAGG 59.243 37.037 0.00 0.00 0.00 3.02
2221 2767 5.352569 AGCAAGTGATTACGGAGAAAATCAG 59.647 40.000 0.00 0.00 41.29 2.90
2294 2847 8.988934 TCAAACACAAGTTCATAGTAAGATGTC 58.011 33.333 0.00 0.00 36.84 3.06
2366 2955 4.555906 CGTTGTTATTGTTGTCTTGGGGTC 60.556 45.833 0.00 0.00 0.00 4.46
2383 2973 4.766891 TGGGGTCTTCTTCATCAAAATGTC 59.233 41.667 0.00 0.00 34.32 3.06
2385 2975 5.105997 GGGGTCTTCTTCATCAAAATGTCAG 60.106 44.000 0.00 0.00 34.32 3.51
2455 3045 0.954452 GTGGCCTCCTTTTGTCACTG 59.046 55.000 3.32 0.00 0.00 3.66
2460 3050 2.772287 CCTCCTTTTGTCACTGTCCTC 58.228 52.381 0.00 0.00 0.00 3.71
2477 3067 4.081972 TGTCCTCACTTCAATGCTCTCTAC 60.082 45.833 0.00 0.00 0.00 2.59
2643 3233 5.108187 ACAGCATCTCAATCTACAACCAT 57.892 39.130 0.00 0.00 0.00 3.55
2664 3254 7.344134 ACCATGATGATATTATGATGACCAGG 58.656 38.462 8.24 0.00 0.00 4.45
2696 3286 2.094545 GGTTCAGCCCAAATAGCAACAG 60.095 50.000 0.00 0.00 0.00 3.16
2715 3305 3.286751 GCTGAACCCGTGCTTGCA 61.287 61.111 0.00 0.00 0.00 4.08
2743 3351 5.303971 GCACTGTATCAGATTATGGAGCTT 58.696 41.667 3.70 0.00 35.18 3.74
2779 3387 6.318648 TGCCAACCATTTCTACAATATGAGAC 59.681 38.462 0.00 0.00 0.00 3.36
2843 3451 0.616395 TGGCCTGATTCCTCCGTACA 60.616 55.000 3.32 0.00 0.00 2.90
2899 3507 5.809051 GCCCTTCTGCTTCATTTCTATTTTG 59.191 40.000 0.00 0.00 0.00 2.44
2928 3536 7.444487 AGTTTTGTACTTGGAGTTGATCTTACC 59.556 37.037 0.00 0.00 31.29 2.85
3070 3679 4.003648 AGAAATAGAGTCAAAAGTGGCCG 58.996 43.478 0.00 0.00 0.00 6.13
3112 3721 3.091545 AGCCACCTATTGTCACCATTTG 58.908 45.455 0.00 0.00 0.00 2.32
3205 3815 7.112122 TGAATACTGTGAAGGAAACTATGCAT 58.888 34.615 3.79 3.79 42.68 3.96
3206 3816 7.611467 TGAATACTGTGAAGGAAACTATGCATT 59.389 33.333 3.54 0.00 42.68 3.56
3239 3849 2.626840 CTTACCTGGCTTCTGCTCTTC 58.373 52.381 0.00 0.00 39.59 2.87
3443 4053 0.755079 TGAGCCTTCGGATGGATGAG 59.245 55.000 13.68 0.00 0.00 2.90
3518 4128 6.950619 AGGAAAGAACAAAGGCTCATAAGAAT 59.049 34.615 0.00 0.00 0.00 2.40
3533 4143 9.071221 GCTCATAAGAATGAAGATAGACATACG 57.929 37.037 0.00 0.00 41.57 3.06
3578 4188 0.469705 ACAGCCATTCCAAGTTGCCA 60.470 50.000 0.00 0.00 0.00 4.92
3721 4331 5.934781 TGGGTGCATTTACAAAGGAAAAAT 58.065 33.333 0.00 0.00 0.00 1.82
3803 4413 1.987855 CCAGCGGAAGGTACTCCCA 60.988 63.158 0.00 0.00 22.84 4.37
3808 4419 1.483415 GCGGAAGGTACTCCCATTACA 59.517 52.381 0.00 0.00 22.84 2.41
3815 4426 3.055094 AGGTACTCCCATTACACTGCTTG 60.055 47.826 0.00 0.00 34.66 4.01
3860 4483 6.142798 GCATTAGTCAATTATTGAACATGGCG 59.857 38.462 9.39 0.00 42.15 5.69
3915 4539 9.996554 TGATATTCATGAAATGGAACTATACGT 57.003 29.630 13.09 0.00 46.73 3.57
4003 4634 7.752695 AGGTTGCGTTTTCTCTAGAATTTATG 58.247 34.615 0.00 0.00 33.54 1.90
4043 4675 6.036844 CCATGTCTGTTGTCATATGAACTGAG 59.963 42.308 7.07 2.15 32.64 3.35
4061 4693 6.190954 ACTGAGACAAACCAACAACTAAAC 57.809 37.500 0.00 0.00 0.00 2.01
4114 4746 6.428385 ACATAATCAAGCTTGAAGTACTGC 57.572 37.500 31.55 0.00 41.13 4.40
4172 4804 6.296026 TGAGCCATTTACTTAGTCTGTTGTT 58.704 36.000 0.00 0.00 0.00 2.83
4197 4844 2.016318 TGTTCTGCTTGTGAGTTGTGG 58.984 47.619 0.00 0.00 0.00 4.17
4239 4886 9.151471 GGAAATTCCTTTTAAAAGTGATTAGGC 57.849 33.333 23.04 14.67 34.20 3.93
4240 4887 9.705290 GAAATTCCTTTTAAAAGTGATTAGGCA 57.295 29.630 23.04 1.48 34.20 4.75
4260 4907 7.235935 AGGCATTTCAGATTTTCTTCAATGA 57.764 32.000 8.58 0.00 30.32 2.57
4417 5074 2.548875 GCACTCTGTCTTGCCTATGAG 58.451 52.381 0.00 0.00 32.21 2.90
4589 5246 1.066858 GTGGCCTGAATCTCGAGAACA 60.067 52.381 20.91 19.98 0.00 3.18
4608 5265 5.300792 AGAACATCCTTCTAGATTCCGACTC 59.699 44.000 0.00 0.00 0.00 3.36
4630 5287 2.684881 CCACTGCAAGATAGCCGATTTT 59.315 45.455 0.00 0.00 37.43 1.82
4644 5301 3.758300 CCGATTTTGGTACATTGACAGC 58.242 45.455 0.00 0.00 39.30 4.40
4663 5320 1.799548 GCGGAAGACTCGAAGGATCAC 60.800 57.143 0.00 0.00 0.00 3.06
4831 5488 1.160329 CGATCTTGGATCCAACGGCC 61.160 60.000 23.63 11.37 0.00 6.13
4984 5641 1.376037 GTCCTTCTTCCTGTGCCCG 60.376 63.158 0.00 0.00 0.00 6.13
4994 5651 0.745845 CCTGTGCCCGATTCTCAAGG 60.746 60.000 0.00 0.00 0.00 3.61
4998 5655 2.290896 TGTGCCCGATTCTCAAGGAAAT 60.291 45.455 0.00 0.00 37.49 2.17
5022 5679 1.690219 GATGATCCTCAGGTGGCCGT 61.690 60.000 0.00 0.00 0.00 5.68
5194 5887 7.121168 TGGTGAATGATGATGATGATGATGATG 59.879 37.037 0.00 0.00 0.00 3.07
5195 5888 7.415653 GGTGAATGATGATGATGATGATGATGG 60.416 40.741 0.00 0.00 0.00 3.51
5196 5889 6.095440 TGAATGATGATGATGATGATGATGGC 59.905 38.462 0.00 0.00 0.00 4.40
5204 5897 2.680577 TGATGATGATGGCGATTCTCG 58.319 47.619 0.00 0.00 43.89 4.04
5349 6043 9.838975 GAATGGAATTTTTGTTTTTGTTCAGTT 57.161 25.926 0.00 0.00 36.07 3.16
5350 6044 9.838975 AATGGAATTTTTGTTTTTGTTCAGTTC 57.161 25.926 0.00 0.00 26.74 3.01
5395 6089 4.320608 TTTTTCTCTGTTCATTGGTGGC 57.679 40.909 0.00 0.00 0.00 5.01
5413 6107 2.685388 TGGCATTTTTGTGTCGTCTGAA 59.315 40.909 0.00 0.00 0.00 3.02
5414 6108 3.317711 TGGCATTTTTGTGTCGTCTGAAT 59.682 39.130 0.00 0.00 0.00 2.57
5415 6109 4.517075 TGGCATTTTTGTGTCGTCTGAATA 59.483 37.500 0.00 0.00 0.00 1.75
5416 6110 5.182950 TGGCATTTTTGTGTCGTCTGAATAT 59.817 36.000 0.00 0.00 0.00 1.28
5417 6111 6.092748 GGCATTTTTGTGTCGTCTGAATATT 58.907 36.000 0.00 0.00 0.00 1.28
5418 6112 7.094592 TGGCATTTTTGTGTCGTCTGAATATTA 60.095 33.333 0.00 0.00 0.00 0.98
5419 6113 7.915397 GGCATTTTTGTGTCGTCTGAATATTAT 59.085 33.333 0.00 0.00 0.00 1.28
5420 6114 8.736742 GCATTTTTGTGTCGTCTGAATATTATG 58.263 33.333 0.00 0.00 0.00 1.90
5421 6115 9.986833 CATTTTTGTGTCGTCTGAATATTATGA 57.013 29.630 0.00 0.00 0.00 2.15
5589 6333 5.060506 TGAATATAAGTTACATGGGCCGTG 58.939 41.667 24.09 24.09 0.00 4.94
5594 6338 0.177141 GTTACATGGGCCGTGCTCTA 59.823 55.000 25.52 8.04 0.00 2.43
5595 6339 0.464036 TTACATGGGCCGTGCTCTAG 59.536 55.000 25.52 0.90 0.00 2.43
5684 6435 4.121669 GGACTGCTGCGAGCGAGA 62.122 66.667 0.00 0.00 46.26 4.04
5685 6436 2.103934 GACTGCTGCGAGCGAGAT 59.896 61.111 0.00 0.00 46.26 2.75
5686 6437 1.943693 GACTGCTGCGAGCGAGATC 60.944 63.158 0.00 0.00 46.26 2.75
5720 6471 2.746375 CCCCAATCCCACTCCTCCG 61.746 68.421 0.00 0.00 0.00 4.63
6209 6969 3.851976 CTCCCATCCCATTCCATACCATA 59.148 47.826 0.00 0.00 0.00 2.74
6211 6971 3.309121 CCCATCCCATTCCATACCATACC 60.309 52.174 0.00 0.00 0.00 2.73
6212 6972 3.593328 CCATCCCATTCCATACCATACCT 59.407 47.826 0.00 0.00 0.00 3.08
6213 6973 4.788075 CCATCCCATTCCATACCATACCTA 59.212 45.833 0.00 0.00 0.00 3.08
6214 6974 5.104360 CCATCCCATTCCATACCATACCTAG 60.104 48.000 0.00 0.00 0.00 3.02
6215 6975 5.363124 TCCCATTCCATACCATACCTAGA 57.637 43.478 0.00 0.00 0.00 2.43
6216 6976 5.927465 TCCCATTCCATACCATACCTAGAT 58.073 41.667 0.00 0.00 0.00 1.98
6217 6977 7.063801 TCCCATTCCATACCATACCTAGATA 57.936 40.000 0.00 0.00 0.00 1.98
6220 6980 7.403231 CCCATTCCATACCATACCTAGATACTT 59.597 40.741 0.00 0.00 0.00 2.24
6259 7034 1.918609 GGAACAATACACTCGTCTCGC 59.081 52.381 0.00 0.00 0.00 5.03
6289 7064 5.452078 TTTTTGTGGCGATGATTCTTCTT 57.548 34.783 0.00 0.00 0.00 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.890542 ACGACCTACCGTGCACTACA 60.891 55.000 16.19 0.00 41.70 2.74
7 8 0.599204 AGCAACAACGACCTACCGTG 60.599 55.000 0.00 0.00 42.54 4.94
22 23 1.374947 CTTCTTGGGACCCGAGCAA 59.625 57.895 21.99 15.29 35.08 3.91
23 24 2.592993 CCTTCTTGGGACCCGAGCA 61.593 63.158 21.99 11.40 35.08 4.26
95 96 1.071605 CAGCCAAGCGACTAGTTGAC 58.928 55.000 14.70 5.46 0.00 3.18
96 97 0.670546 GCAGCCAAGCGACTAGTTGA 60.671 55.000 14.70 0.00 0.00 3.18
113 114 4.034258 GTCCACCTCGACGTCGCA 62.034 66.667 32.19 19.50 39.60 5.10
126 127 0.534203 GCGGGAAGTGAAGTTGTCCA 60.534 55.000 0.00 0.00 31.30 4.02
258 259 5.250200 ACAAATACATGAAAGCGGTCCTAA 58.750 37.500 0.00 0.00 0.00 2.69
293 294 3.413558 GTCGGATTTCATGTAAACACGC 58.586 45.455 0.00 0.00 32.55 5.34
295 296 4.084223 ACACGTCGGATTTCATGTAAACAC 60.084 41.667 0.00 0.00 0.00 3.32
313 314 7.063308 ACACGACCGAATTTTATATAAACACGT 59.937 33.333 7.43 8.72 0.00 4.49
352 353 9.619316 TTCACAATAATTCAAATTAACTGGACG 57.381 29.630 0.00 0.00 34.79 4.79
372 373 4.084066 CGCTAGCCGCATATATTTTCACAA 60.084 41.667 9.66 0.00 39.08 3.33
386 387 1.084370 AGTCATTCAACGCTAGCCGC 61.084 55.000 9.66 0.00 41.76 6.53
394 395 1.651138 GCGAGAGACAGTCATTCAACG 59.349 52.381 2.66 4.59 0.00 4.10
406 407 1.226717 GGACACGGATGCGAGAGAC 60.227 63.158 15.49 3.13 0.00 3.36
433 434 2.173356 ACATCCGGTCATGAACATGGAT 59.827 45.455 12.13 12.58 42.35 3.41
437 438 1.281867 ACCACATCCGGTCATGAACAT 59.718 47.619 12.13 0.00 32.11 2.71
471 472 2.247437 GCCATCTCCGATCGCAACC 61.247 63.158 10.32 0.00 0.00 3.77
494 495 6.014070 GGGGTAAAAATTGGGTTGTCTGTTAT 60.014 38.462 0.00 0.00 0.00 1.89
496 497 4.101898 GGGGTAAAAATTGGGTTGTCTGTT 59.898 41.667 0.00 0.00 0.00 3.16
548 562 0.038892 TACGTGGAAGTTGCCTCGAC 60.039 55.000 17.03 0.00 45.07 4.20
640 659 7.012421 GTCTTGTTATTATTCCAGGGTGATCAC 59.988 40.741 17.91 17.91 0.00 3.06
658 677 4.654262 ACTCTCTCTTGGGTTGTCTTGTTA 59.346 41.667 0.00 0.00 0.00 2.41
659 678 3.456277 ACTCTCTCTTGGGTTGTCTTGTT 59.544 43.478 0.00 0.00 0.00 2.83
660 679 3.041946 ACTCTCTCTTGGGTTGTCTTGT 58.958 45.455 0.00 0.00 0.00 3.16
713 733 8.417106 ACGTGATCTATGATTCTAAATCTGTGT 58.583 33.333 0.00 0.00 0.00 3.72
831 868 2.895865 CATCTGGCTGGCTGCTCG 60.896 66.667 16.14 7.58 42.39 5.03
832 869 3.210528 GCATCTGGCTGGCTGCTC 61.211 66.667 16.14 7.06 42.39 4.26
854 891 1.487558 GGGGGTTTACTAATCAGCGGA 59.512 52.381 0.00 0.00 0.00 5.54
866 911 2.633692 TGGTACAGTGATGGGGGTTTA 58.366 47.619 0.00 0.00 0.00 2.01
888 933 0.409092 AATGATGTGGAACCCTGCCA 59.591 50.000 0.00 0.00 34.36 4.92
891 936 2.301346 GGCTAATGATGTGGAACCCTG 58.699 52.381 0.00 0.00 34.36 4.45
894 939 3.004752 AGTGGCTAATGATGTGGAACC 57.995 47.619 0.00 0.00 34.36 3.62
897 942 4.574674 AAGAAGTGGCTAATGATGTGGA 57.425 40.909 0.00 0.00 0.00 4.02
933 978 4.045022 CCCCTCTAACCCCAGAAAATAGA 58.955 47.826 0.00 0.00 0.00 1.98
935 980 3.128049 CCCCCTCTAACCCCAGAAAATA 58.872 50.000 0.00 0.00 0.00 1.40
948 993 0.398098 CCCGCTTACTTCCCCCTCTA 60.398 60.000 0.00 0.00 0.00 2.43
954 999 2.901839 TGATATACCCCGCTTACTTCCC 59.098 50.000 0.00 0.00 0.00 3.97
961 1006 1.671742 CGGCTGATATACCCCGCTT 59.328 57.895 0.00 0.00 33.77 4.68
1015 1446 3.664551 ATATGCTGGGATCCATGGATG 57.335 47.619 32.05 17.80 34.60 3.51
1016 1447 3.856813 AGAATATGCTGGGATCCATGGAT 59.143 43.478 27.66 27.66 37.59 3.41
1189 1629 1.144093 ACCAACCAATCGAACCCTCAA 59.856 47.619 0.00 0.00 0.00 3.02
1195 1635 1.804748 GAGACCACCAACCAATCGAAC 59.195 52.381 0.00 0.00 0.00 3.95
1228 1672 0.603975 CCCTTCCTTATAGCTGCGGC 60.604 60.000 10.33 10.33 39.06 6.53
1229 1673 0.035458 CCCCTTCCTTATAGCTGCGG 59.965 60.000 0.00 0.00 0.00 5.69
1230 1674 0.035458 CCCCCTTCCTTATAGCTGCG 59.965 60.000 0.00 0.00 0.00 5.18
1231 1675 0.250945 GCCCCCTTCCTTATAGCTGC 60.251 60.000 0.00 0.00 0.00 5.25
1232 1676 0.035458 CGCCCCCTTCCTTATAGCTG 59.965 60.000 0.00 0.00 0.00 4.24
1233 1677 1.769716 GCGCCCCCTTCCTTATAGCT 61.770 60.000 0.00 0.00 0.00 3.32
1234 1678 1.302591 GCGCCCCCTTCCTTATAGC 60.303 63.158 0.00 0.00 0.00 2.97
1542 2010 1.384191 GGGGCAGAGTGGAATTGGT 59.616 57.895 0.00 0.00 0.00 3.67
1545 2013 0.551131 AGAGGGGGCAGAGTGGAATT 60.551 55.000 0.00 0.00 0.00 2.17
1547 2015 1.920325 CAGAGGGGGCAGAGTGGAA 60.920 63.158 0.00 0.00 0.00 3.53
1551 2019 1.283321 GAAAATCAGAGGGGGCAGAGT 59.717 52.381 0.00 0.00 0.00 3.24
1554 2022 2.025510 AGAAGAAAATCAGAGGGGGCAG 60.026 50.000 0.00 0.00 0.00 4.85
1555 2023 1.995542 AGAAGAAAATCAGAGGGGGCA 59.004 47.619 0.00 0.00 0.00 5.36
1556 2024 2.025887 TGAGAAGAAAATCAGAGGGGGC 60.026 50.000 0.00 0.00 0.00 5.80
1560 2028 8.564509 AAAAGAGATGAGAAGAAAATCAGAGG 57.435 34.615 0.00 0.00 0.00 3.69
1562 2030 9.790344 AAGAAAAGAGATGAGAAGAAAATCAGA 57.210 29.630 0.00 0.00 0.00 3.27
1564 2032 8.295288 GCAAGAAAAGAGATGAGAAGAAAATCA 58.705 33.333 0.00 0.00 0.00 2.57
1565 2033 7.481169 CGCAAGAAAAGAGATGAGAAGAAAATC 59.519 37.037 0.00 0.00 43.02 2.17
1566 2034 7.303998 CGCAAGAAAAGAGATGAGAAGAAAAT 58.696 34.615 0.00 0.00 43.02 1.82
1567 2035 6.662616 CGCAAGAAAAGAGATGAGAAGAAAA 58.337 36.000 0.00 0.00 43.02 2.29
1568 2036 5.334414 GCGCAAGAAAAGAGATGAGAAGAAA 60.334 40.000 0.30 0.00 43.02 2.52
1569 2037 4.153117 GCGCAAGAAAAGAGATGAGAAGAA 59.847 41.667 0.30 0.00 43.02 2.52
1570 2038 3.681897 GCGCAAGAAAAGAGATGAGAAGA 59.318 43.478 0.30 0.00 43.02 2.87
1574 2042 1.728971 ACGCGCAAGAAAAGAGATGAG 59.271 47.619 5.73 0.00 43.02 2.90
1575 2043 1.795768 ACGCGCAAGAAAAGAGATGA 58.204 45.000 5.73 0.00 43.02 2.92
1577 2045 2.000447 GGTACGCGCAAGAAAAGAGAT 59.000 47.619 5.73 0.00 43.02 2.75
1591 2064 2.739913 TGTGAATTGTTGCTAGGTACGC 59.260 45.455 0.00 0.00 0.00 4.42
1594 2067 3.329520 AGGGTGTGAATTGTTGCTAGGTA 59.670 43.478 0.00 0.00 0.00 3.08
1599 2080 1.963515 GGAAGGGTGTGAATTGTTGCT 59.036 47.619 0.00 0.00 0.00 3.91
1600 2081 1.963515 AGGAAGGGTGTGAATTGTTGC 59.036 47.619 0.00 0.00 0.00 4.17
1603 2084 2.447047 AGGAAGGAAGGGTGTGAATTGT 59.553 45.455 0.00 0.00 0.00 2.71
1614 2095 0.035630 CACTGGAGCAGGAAGGAAGG 60.036 60.000 0.00 0.00 35.51 3.46
1615 2096 0.035630 CCACTGGAGCAGGAAGGAAG 60.036 60.000 0.00 0.00 35.51 3.46
1616 2097 1.492133 CCCACTGGAGCAGGAAGGAA 61.492 60.000 0.00 0.00 35.51 3.36
1617 2098 1.920325 CCCACTGGAGCAGGAAGGA 60.920 63.158 0.00 0.00 35.51 3.36
1618 2099 1.492133 TTCCCACTGGAGCAGGAAGG 61.492 60.000 0.00 0.00 43.07 3.46
1619 2100 0.401738 TTTCCCACTGGAGCAGGAAG 59.598 55.000 0.00 0.00 43.07 3.46
1620 2101 0.401738 CTTTCCCACTGGAGCAGGAA 59.598 55.000 0.00 0.00 43.07 3.36
1621 2102 0.473694 TCTTTCCCACTGGAGCAGGA 60.474 55.000 0.00 0.00 43.07 3.86
1622 2103 0.622665 ATCTTTCCCACTGGAGCAGG 59.377 55.000 0.00 0.00 43.07 4.85
1623 2104 2.363683 GAATCTTTCCCACTGGAGCAG 58.636 52.381 0.00 0.00 43.07 4.24
1624 2105 1.004745 GGAATCTTTCCCACTGGAGCA 59.995 52.381 0.00 0.00 44.30 4.26
1625 2106 1.756430 GGAATCTTTCCCACTGGAGC 58.244 55.000 0.00 0.00 44.30 4.70
1636 2117 1.450312 CTGAGCCGCCGGAATCTTT 60.450 57.895 7.68 0.00 0.00 2.52
1797 2281 7.764443 TGCTGAAAACTGGAGTAGTAATGATAC 59.236 37.037 0.00 0.00 39.18 2.24
1827 2317 2.823154 GGGCTAATTGGTTTGTACTGCA 59.177 45.455 0.00 0.00 0.00 4.41
1838 2328 2.493278 CTCAGTTTGGTGGGCTAATTGG 59.507 50.000 0.00 0.00 0.00 3.16
1866 2371 1.909781 CCTGCACCTGTGGCCAAAT 60.910 57.895 7.24 0.00 0.00 2.32
2068 2585 5.862924 AGTGATTAACATGTTTCGACAGG 57.137 39.130 17.78 0.00 0.00 4.00
2143 2675 1.457346 CTGAACATGGCCAAGACTCC 58.543 55.000 16.33 0.54 0.00 3.85
2163 2703 8.915654 GTTTTATCAGTGCTTTTTCATGGTTAG 58.084 33.333 0.00 0.00 0.00 2.34
2193 2733 6.903883 TTTCTCCGTAATCACTTGCTTATC 57.096 37.500 0.00 0.00 0.00 1.75
2221 2767 0.535797 AGGACTTAACTAGCCGGTGC 59.464 55.000 1.90 0.00 37.95 5.01
2294 2847 5.784750 TTAGTGAACAATGAAGCATCTCG 57.215 39.130 0.00 0.00 0.00 4.04
2366 2955 5.856986 CACTGCTGACATTTTGATGAAGAAG 59.143 40.000 0.00 0.00 0.00 2.85
2383 2973 3.272574 ACTGGATAATGGTCACTGCTG 57.727 47.619 0.00 0.00 0.00 4.41
2385 2975 2.098117 GCAACTGGATAATGGTCACTGC 59.902 50.000 0.00 0.00 0.00 4.40
2431 3021 0.555769 ACAAAAGGAGGCCACCAGAA 59.444 50.000 22.29 0.00 0.00 3.02
2440 3030 2.104792 TGAGGACAGTGACAAAAGGAGG 59.895 50.000 0.00 0.00 0.00 4.30
2455 3045 3.608316 AGAGAGCATTGAAGTGAGGAC 57.392 47.619 0.00 0.00 0.00 3.85
2460 3050 3.616956 TGGGTAGAGAGCATTGAAGTG 57.383 47.619 0.00 0.00 0.00 3.16
2477 3067 3.872511 TGAAGCAACTGCATTTATGGG 57.127 42.857 4.22 0.00 45.16 4.00
2643 3233 8.439964 TCTTCCTGGTCATCATAATATCATCA 57.560 34.615 0.00 0.00 0.00 3.07
2664 3254 1.483004 GGGCTGAACCTAGTCCTCTTC 59.517 57.143 0.00 0.00 39.40 2.87
2696 3286 4.389576 CAAGCACGGGTTCAGCGC 62.390 66.667 0.00 0.00 0.00 5.92
2715 3305 5.604231 TCCATAATCTGATACAGTGCCTTCT 59.396 40.000 0.00 0.00 32.61 2.85
2743 3351 0.178967 TGGTTGGCATCAGCTCCAAA 60.179 50.000 6.20 0.00 43.25 3.28
2779 3387 9.064706 AGATTCTGCATCCTGTAAATTTGATAG 57.935 33.333 0.00 0.00 31.20 2.08
2843 3451 0.630673 TAACTGCAATGCTCCCCCAT 59.369 50.000 6.82 0.00 0.00 4.00
2899 3507 6.651225 AGATCAACTCCAAGTACAAAACTAGC 59.349 38.462 0.00 0.00 37.50 3.42
2951 3560 6.712095 TGCATCCAACATTTCCTGATAGATAC 59.288 38.462 0.00 0.00 0.00 2.24
3038 3647 3.120199 TGACTCTATTTCTTTGCGCTTGC 60.120 43.478 9.73 0.00 39.78 4.01
3070 3679 1.202348 GCATACCCTGACAAAAGCACC 59.798 52.381 0.00 0.00 0.00 5.01
3205 3815 7.061566 AGCCAGGTAAGCAAAGAAATAAAAA 57.938 32.000 0.00 0.00 0.00 1.94
3206 3816 6.664428 AGCCAGGTAAGCAAAGAAATAAAA 57.336 33.333 0.00 0.00 0.00 1.52
3239 3849 6.872920 AGACTCAGAAGCTTTTACCTGATAG 58.127 40.000 14.06 7.87 35.42 2.08
3518 4128 6.465439 ACATGGTTCGTATGTCTATCTTCA 57.535 37.500 0.00 0.00 33.72 3.02
3533 4143 2.029918 GCACCCTTCTTTGACATGGTTC 60.030 50.000 0.00 0.00 0.00 3.62
3578 4188 4.365723 CAAGAGCAATTGAACTGCAGTTT 58.634 39.130 31.58 15.14 42.48 2.66
3721 4331 6.710278 TGAATCATCACACTCCTGTTCATAA 58.290 36.000 0.00 0.00 0.00 1.90
3803 4413 3.399330 ACAGCGTAACAAGCAGTGTAAT 58.601 40.909 0.00 0.00 40.60 1.89
3808 4419 6.370442 TCAAATATAACAGCGTAACAAGCAGT 59.630 34.615 0.00 0.00 35.87 4.40
3815 4426 9.318041 CTAATGCATCAAATATAACAGCGTAAC 57.682 33.333 0.00 0.00 0.00 2.50
4003 4634 5.182001 ACAGACATGGAACTACAAAATCTGC 59.818 40.000 0.00 0.00 34.02 4.26
4043 4675 5.099575 CACAGGTTTAGTTGTTGGTTTGTC 58.900 41.667 0.00 0.00 0.00 3.18
4114 4746 3.181524 CCAAACGTATTGCTTAGTGTCCG 60.182 47.826 0.00 0.00 0.00 4.79
4172 4804 6.149308 CCACAACTCACAAGCAGAACATATAA 59.851 38.462 0.00 0.00 0.00 0.98
4229 4876 7.951347 AGAAAATCTGAAATGCCTAATCACT 57.049 32.000 0.00 0.00 0.00 3.41
4230 4877 8.246180 TGAAGAAAATCTGAAATGCCTAATCAC 58.754 33.333 0.00 0.00 0.00 3.06
4231 4878 8.352137 TGAAGAAAATCTGAAATGCCTAATCA 57.648 30.769 0.00 0.00 0.00 2.57
4233 4880 9.595823 CATTGAAGAAAATCTGAAATGCCTAAT 57.404 29.630 3.68 0.00 29.33 1.73
4234 4881 8.805175 TCATTGAAGAAAATCTGAAATGCCTAA 58.195 29.630 9.02 0.00 33.54 2.69
4236 4883 7.235935 TCATTGAAGAAAATCTGAAATGCCT 57.764 32.000 9.02 0.00 33.54 4.75
4237 4884 8.388103 CAATCATTGAAGAAAATCTGAAATGCC 58.612 33.333 0.00 0.00 33.54 4.40
4238 4885 8.932791 ACAATCATTGAAGAAAATCTGAAATGC 58.067 29.630 3.79 0.00 33.54 3.56
4260 4907 7.663905 TGCTACACAAACCTAGTTCATTACAAT 59.336 33.333 0.00 0.00 0.00 2.71
4268 4915 6.221659 AGTTAGTGCTACACAAACCTAGTTC 58.778 40.000 0.00 0.00 36.74 3.01
4417 5074 2.932261 AGGCTCCCATTTTTCGGATAC 58.068 47.619 0.00 0.00 0.00 2.24
4589 5246 3.117093 TGGGAGTCGGAATCTAGAAGGAT 60.117 47.826 5.36 0.00 0.00 3.24
4608 5265 0.107456 ATCGGCTATCTTGCAGTGGG 59.893 55.000 0.00 0.00 34.04 4.61
4630 5287 1.621317 TCTTCCGCTGTCAATGTACCA 59.379 47.619 0.00 0.00 0.00 3.25
4644 5301 1.202313 GGTGATCCTTCGAGTCTTCCG 60.202 57.143 0.00 0.00 0.00 4.30
4679 5336 1.510480 GACTTGTGTGCCAGCAGTCC 61.510 60.000 0.00 0.00 0.00 3.85
4798 5455 0.888619 AGATCGACGACAGCTTTCCA 59.111 50.000 0.00 0.00 0.00 3.53
4831 5488 3.704231 CTCCATTGGCCACTCCCCG 62.704 68.421 3.88 0.00 0.00 5.73
4984 5641 7.094291 GGATCATCCATGATTTCCTTGAGAATC 60.094 40.741 0.00 0.00 46.84 2.52
5022 5679 3.364441 CGTACGTCACCCCGTCCA 61.364 66.667 7.22 0.00 42.00 4.02
5362 6056 9.778993 ATGAACAGAGAAAAATAATGATTCGTG 57.221 29.630 0.00 0.00 0.00 4.35
5395 6089 9.986833 TCATAATATTCAGACGACACAAAAATG 57.013 29.630 0.00 0.00 0.00 2.32
5589 6333 2.022240 CTCCCGGTTCAGCCTAGAGC 62.022 65.000 0.00 0.00 44.25 4.09
5610 6354 1.078918 GGCTTGGATGGGCTTTTGC 60.079 57.895 0.00 0.00 46.64 3.68
5684 6435 0.103208 GGATTGCCGTCTCGTCTGAT 59.897 55.000 0.00 0.00 0.00 2.90
5685 6436 1.511305 GGATTGCCGTCTCGTCTGA 59.489 57.895 0.00 0.00 0.00 3.27
5686 6437 1.519455 GGGATTGCCGTCTCGTCTG 60.519 63.158 0.00 0.00 33.83 3.51
6209 6969 2.043227 GGCAGGCAGAAGTATCTAGGT 58.957 52.381 0.00 0.00 33.50 3.08
6211 6971 2.547642 GCAGGCAGGCAGAAGTATCTAG 60.548 54.545 0.00 0.00 33.50 2.43
6212 6972 1.414181 GCAGGCAGGCAGAAGTATCTA 59.586 52.381 0.00 0.00 33.50 1.98
6213 6973 0.179936 GCAGGCAGGCAGAAGTATCT 59.820 55.000 0.00 0.00 35.88 1.98
6214 6974 0.179936 AGCAGGCAGGCAGAAGTATC 59.820 55.000 0.00 0.00 35.83 2.24
6215 6975 0.622665 AAGCAGGCAGGCAGAAGTAT 59.377 50.000 0.00 0.00 35.83 2.12
6216 6976 0.036010 GAAGCAGGCAGGCAGAAGTA 60.036 55.000 0.00 0.00 35.83 2.24
6217 6977 1.303155 GAAGCAGGCAGGCAGAAGT 60.303 57.895 0.00 0.00 35.83 3.01
6220 6980 1.077930 GATGAAGCAGGCAGGCAGA 60.078 57.895 0.00 0.00 35.83 4.26
6259 7034 3.125146 TCATCGCCACAAAAATTCTCTCG 59.875 43.478 0.00 0.00 0.00 4.04
6266 7041 5.649782 AGAAGAATCATCGCCACAAAAAT 57.350 34.783 0.00 0.00 0.00 1.82
6289 7064 3.460103 GGCGAATTTACGATCCCTAACA 58.540 45.455 0.00 0.00 35.09 2.41
6360 7135 5.201910 CAATTTTTGTTCAACAGCAGCATG 58.798 37.500 0.00 0.00 40.87 4.06


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

AutoCloner maintained by Alex Coulton.