Multiple sequence alignment - TraesCS2A01G370100

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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 TraesCS2A01G370100 chr2A 100.000 2761 0 0 1 2761 612842325 612845085 0.000000e+00 5099
1 TraesCS2A01G370100 chr2A 94.118 85 5 0 2286 2370 636911455 636911539 2.230000e-26 130
2 TraesCS2A01G370100 chr2A 94.118 85 5 0 2286 2370 690329336 690329420 2.230000e-26 130
3 TraesCS2A01G370100 chr2D 91.194 1374 82 22 547 1897 471062958 471064315 0.000000e+00 1831
4 TraesCS2A01G370100 chr2D 89.982 559 15 14 1 548 471062387 471062915 0.000000e+00 684
5 TraesCS2A01G370100 chr2D 84.450 418 38 13 2369 2761 471215104 471215519 1.200000e-103 387
6 TraesCS2A01G370100 chr2B 89.843 1398 112 22 547 1937 550396717 550398091 0.000000e+00 1768
7 TraesCS2A01G370100 chr2B 91.143 350 16 7 141 485 550396285 550396624 6.970000e-126 460
8 TraesCS2A01G370100 chr2B 84.058 414 42 12 2371 2761 550398713 550399125 7.220000e-101 377
9 TraesCS2A01G370100 chr2B 89.899 99 6 3 1 97 550396176 550396272 1.040000e-24 124
10 TraesCS2A01G370100 chrUn 82.655 934 142 15 998 1917 10644088 10645015 0.000000e+00 809
11 TraesCS2A01G370100 chrUn 80.142 1128 183 29 717 1835 10650721 10651816 0.000000e+00 804
12 TraesCS2A01G370100 chrUn 80.000 1130 184 29 717 1835 353543 354641 0.000000e+00 797
13 TraesCS2A01G370100 chrUn 79.807 1035 169 26 767 1795 10695574 10696574 0.000000e+00 717
14 TraesCS2A01G370100 chr1A 82.359 907 136 18 998 1886 34940233 34939333 0.000000e+00 767
15 TraesCS2A01G370100 chr1A 79.559 1042 168 27 767 1795 34891930 34890921 0.000000e+00 702
16 TraesCS2A01G370100 chr1A 94.118 85 5 0 2286 2370 511001594 511001510 2.230000e-26 130
17 TraesCS2A01G370100 chr1D 84.665 776 103 10 991 1762 35927174 35926411 0.000000e+00 760
18 TraesCS2A01G370100 chr1D 89.773 88 9 0 2286 2373 347215391 347215304 2.250000e-21 113
19 TraesCS2A01G370100 chr1B 78.462 1170 194 42 767 1917 55017382 55016252 0.000000e+00 712
20 TraesCS2A01G370100 chr1B 81.120 911 142 23 1016 1917 54978610 54977721 0.000000e+00 702
21 TraesCS2A01G370100 chr1B 78.040 1143 203 35 717 1840 55206459 55205346 0.000000e+00 676
22 TraesCS2A01G370100 chr1B 78.002 1141 207 31 717 1840 55242247 55241134 0.000000e+00 676
23 TraesCS2A01G370100 chr5D 92.941 85 6 0 2286 2370 231356277 231356361 1.040000e-24 124
24 TraesCS2A01G370100 chr5B 90.698 86 8 0 2286 2371 662596825 662596910 6.250000e-22 115
25 TraesCS2A01G370100 chr5B 90.698 86 8 0 2286 2371 696178929 696179014 6.250000e-22 115
26 TraesCS2A01G370100 chr5B 88.889 90 10 0 2281 2370 222593099 222593010 8.080000e-21 111
27 TraesCS2A01G370100 chr4D 90.588 85 8 0 2286 2370 423945314 423945398 2.250000e-21 113


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 TraesCS2A01G370100 chr2A 612842325 612845085 2760 False 5099.00 5099 100.00000 1 2761 1 chr2A.!!$F1 2760
1 TraesCS2A01G370100 chr2D 471062387 471064315 1928 False 1257.50 1831 90.58800 1 1897 2 chr2D.!!$F2 1896
2 TraesCS2A01G370100 chr2B 550396176 550399125 2949 False 682.25 1768 88.73575 1 2761 4 chr2B.!!$F1 2760
3 TraesCS2A01G370100 chrUn 10644088 10645015 927 False 809.00 809 82.65500 998 1917 1 chrUn.!!$F2 919
4 TraesCS2A01G370100 chrUn 10650721 10651816 1095 False 804.00 804 80.14200 717 1835 1 chrUn.!!$F3 1118
5 TraesCS2A01G370100 chrUn 353543 354641 1098 False 797.00 797 80.00000 717 1835 1 chrUn.!!$F1 1118
6 TraesCS2A01G370100 chrUn 10695574 10696574 1000 False 717.00 717 79.80700 767 1795 1 chrUn.!!$F4 1028
7 TraesCS2A01G370100 chr1A 34939333 34940233 900 True 767.00 767 82.35900 998 1886 1 chr1A.!!$R2 888
8 TraesCS2A01G370100 chr1A 34890921 34891930 1009 True 702.00 702 79.55900 767 1795 1 chr1A.!!$R1 1028
9 TraesCS2A01G370100 chr1D 35926411 35927174 763 True 760.00 760 84.66500 991 1762 1 chr1D.!!$R1 771
10 TraesCS2A01G370100 chr1B 55016252 55017382 1130 True 712.00 712 78.46200 767 1917 1 chr1B.!!$R2 1150
11 TraesCS2A01G370100 chr1B 54977721 54978610 889 True 702.00 702 81.12000 1016 1917 1 chr1B.!!$R1 901
12 TraesCS2A01G370100 chr1B 55205346 55206459 1113 True 676.00 676 78.04000 717 1840 1 chr1B.!!$R3 1123
13 TraesCS2A01G370100 chr1B 55241134 55242247 1113 True 676.00 676 78.00200 717 1840 1 chr1B.!!$R4 1123

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
569 636 0.040425 GTGGTGTTTGCCAGTTAGCG 60.04 55.0 0.0 0.0 39.53 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2256 2676 0.615331 GACAAGTGGGAGATGGCTGA 59.385 55.0 0.0 0.0 0.0 4.26 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
95 98 4.481112 GAGCATTTGGCCGGCGTG 62.481 66.667 22.54 17.03 46.50 5.34
97 100 4.049640 GCATTTGGCCGGCGTGAA 62.050 61.111 22.54 15.15 36.11 3.18
98 101 2.884367 CATTTGGCCGGCGTGAAT 59.116 55.556 22.54 16.80 0.00 2.57
99 102 1.226660 CATTTGGCCGGCGTGAATC 60.227 57.895 22.54 5.65 0.00 2.52
100 103 2.760159 ATTTGGCCGGCGTGAATCG 61.760 57.895 22.54 0.00 43.12 3.34
101 104 4.690719 TTGGCCGGCGTGAATCGT 62.691 61.111 22.54 0.00 42.13 3.73
113 116 1.396996 GTGAATCGTGATTGAACGGGG 59.603 52.381 0.00 0.00 43.73 5.73
182 185 2.105128 CGTGATGAGACCCTCCGC 59.895 66.667 0.00 0.00 0.00 5.54
183 186 2.105128 GTGATGAGACCCTCCGCG 59.895 66.667 0.00 0.00 0.00 6.46
184 187 2.362503 TGATGAGACCCTCCGCGT 60.363 61.111 4.92 0.00 0.00 6.01
185 188 2.413765 GATGAGACCCTCCGCGTC 59.586 66.667 4.92 0.00 0.00 5.19
186 189 2.043852 ATGAGACCCTCCGCGTCT 60.044 61.111 4.92 0.00 43.28 4.18
207 214 1.007038 TCTCCGTTTTGTCCCGTCG 60.007 57.895 0.00 0.00 0.00 5.12
261 273 3.712881 GTGCACCGGCTTCGTGAC 61.713 66.667 5.22 0.00 41.91 3.67
282 294 3.401411 CGAGATCGGCGATGCAGC 61.401 66.667 29.20 12.82 35.37 5.25
318 330 1.518572 GATGTCACGCGTGGGGTAG 60.519 63.158 36.41 12.69 0.00 3.18
319 331 2.221906 GATGTCACGCGTGGGGTAGT 62.222 60.000 36.41 17.85 0.00 2.73
320 332 0.966875 ATGTCACGCGTGGGGTAGTA 60.967 55.000 36.41 14.91 0.00 1.82
358 371 0.884704 GTCTTTTCACCGCAGCTGGA 60.885 55.000 17.12 0.36 0.00 3.86
506 519 6.441222 ACTACTCCTTAGAGAGAGAGAGAGA 58.559 44.000 5.06 0.00 43.39 3.10
535 558 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
569 636 0.040425 GTGGTGTTTGCCAGTTAGCG 60.040 55.000 0.00 0.00 39.53 4.26
583 650 2.029649 AGTTAGCGAAACCGAGCACTTA 60.030 45.455 0.00 0.00 39.03 2.24
589 656 4.086574 GCGAAACCGAGCACTTAAATAAC 58.913 43.478 0.00 0.00 0.00 1.89
619 687 1.679680 CCTAAGGTTGATGGCAGCATG 59.320 52.381 6.15 0.00 40.87 4.06
631 699 3.157252 AGCATGGCCTCGGACGAT 61.157 61.111 3.32 0.00 0.00 3.73
686 779 8.325421 ACTTGATCAAATCATGCATATCTCTC 57.675 34.615 9.88 0.00 39.39 3.20
812 914 7.379750 ACTAGTGAAGAACAGTTCCTTCATAC 58.620 38.462 21.24 14.13 46.89 2.39
813 915 6.174720 AGTGAAGAACAGTTCCTTCATACA 57.825 37.500 21.24 7.51 46.89 2.29
837 940 0.179004 TGCTCCCCGACACAACAAAT 60.179 50.000 0.00 0.00 0.00 2.32
871 979 3.126831 CGATCCTCCTTTTCTCCAATCG 58.873 50.000 0.00 0.00 0.00 3.34
920 1028 3.807538 GGCATCACCGTGCAGCAG 61.808 66.667 14.35 0.00 46.81 4.24
1053 1169 1.566018 CTCTGTCGTTTTCCCGTGCC 61.566 60.000 0.00 0.00 0.00 5.01
1174 1326 6.851837 TGGTGAAACGTTTGTGTTAATTATCG 59.148 34.615 20.10 0.00 38.12 2.92
1281 1443 1.692519 ACTGCCGTGGTAGAAGACTTT 59.307 47.619 11.16 0.00 0.00 2.66
1412 1574 1.475034 GGCTCGGGTTGATTATGCTCA 60.475 52.381 0.00 0.00 0.00 4.26
1457 1620 2.367202 ACCCCGTGCATCCGAGATT 61.367 57.895 0.00 0.00 0.00 2.40
1499 1662 2.092211 GCTCTATGTTGGTTTCGTCACG 59.908 50.000 0.00 0.00 0.00 4.35
1511 1674 2.305127 CGTCACGTCAAACCCCGAC 61.305 63.158 0.00 0.00 0.00 4.79
1514 1677 0.107081 TCACGTCAAACCCCGACAAT 59.893 50.000 0.00 0.00 32.72 2.71
1520 1683 3.995705 CGTCAAACCCCGACAATAAGTTA 59.004 43.478 0.00 0.00 32.72 2.24
1583 1746 3.057596 CGCAAGGGCTAATTCACTTTCAA 60.058 43.478 0.00 0.00 38.10 2.69
1682 1845 1.293179 GGTGTTTGCATCCAAGCCC 59.707 57.895 0.00 0.00 31.92 5.19
1701 1864 3.181477 GCCCTCCATCTCAGATGATATCG 60.181 52.174 16.90 0.00 0.00 2.92
1715 1878 3.088532 TGATATCGTTGCCAAAGCCTTT 58.911 40.909 0.00 0.00 38.69 3.11
1739 1902 4.214971 CAGGTGGACAAGAAGATTGTTGAG 59.785 45.833 9.20 0.00 35.27 3.02
1764 1927 6.073331 GCATATCCAAGCTCAATTCTAGACAC 60.073 42.308 0.00 0.00 0.00 3.67
1770 1938 4.764172 AGCTCAATTCTAGACACACATCC 58.236 43.478 0.00 0.00 0.00 3.51
1900 2073 8.296713 GTGGAAGAAAAGCAATTATGTACTCAA 58.703 33.333 0.00 0.00 0.00 3.02
1937 2110 9.717942 GATTATCATTTTGCTACTCTCCACTAT 57.282 33.333 0.00 0.00 0.00 2.12
1938 2111 9.717942 ATTATCATTTTGCTACTCTCCACTATC 57.282 33.333 0.00 0.00 0.00 2.08
1939 2112 6.798427 TCATTTTGCTACTCTCCACTATCT 57.202 37.500 0.00 0.00 0.00 1.98
1940 2113 7.187824 TCATTTTGCTACTCTCCACTATCTT 57.812 36.000 0.00 0.00 0.00 2.40
1941 2114 8.306313 TCATTTTGCTACTCTCCACTATCTTA 57.694 34.615 0.00 0.00 0.00 2.10
1942 2115 8.758829 TCATTTTGCTACTCTCCACTATCTTAA 58.241 33.333 0.00 0.00 0.00 1.85
1943 2116 9.383519 CATTTTGCTACTCTCCACTATCTTAAA 57.616 33.333 0.00 0.00 0.00 1.52
1944 2117 9.959721 ATTTTGCTACTCTCCACTATCTTAAAA 57.040 29.630 0.00 0.00 0.00 1.52
1945 2118 9.787435 TTTTGCTACTCTCCACTATCTTAAAAA 57.213 29.630 0.00 0.00 0.00 1.94
1946 2119 9.959721 TTTGCTACTCTCCACTATCTTAAAAAT 57.040 29.630 0.00 0.00 0.00 1.82
1968 2141 7.597288 AATATTATAAAGGGGAGTTTGTGGC 57.403 36.000 0.00 0.00 0.00 5.01
1973 2146 1.682344 GGGGAGTTTGTGGCCATCC 60.682 63.158 9.72 11.84 0.00 3.51
1975 2148 0.681243 GGGAGTTTGTGGCCATCCTC 60.681 60.000 19.43 15.88 0.00 3.71
1977 2150 1.648467 GAGTTTGTGGCCATCCTCGC 61.648 60.000 9.72 0.00 0.00 5.03
2001 2174 2.780010 CAATGGTGATACTTCCCCTCCT 59.220 50.000 0.00 0.00 0.00 3.69
2002 2175 2.661176 TGGTGATACTTCCCCTCCTT 57.339 50.000 0.00 0.00 0.00 3.36
2006 2195 3.459969 GGTGATACTTCCCCTCCTTGATT 59.540 47.826 0.00 0.00 0.00 2.57
2010 2199 5.492524 TGATACTTCCCCTCCTTGATTTTCT 59.507 40.000 0.00 0.00 0.00 2.52
2014 2203 1.827344 CCCCTCCTTGATTTTCTTGCC 59.173 52.381 0.00 0.00 0.00 4.52
2036 2225 5.258051 CCCTAAGCAACCTTGGTTATGTAA 58.742 41.667 9.50 0.00 46.26 2.41
2037 2226 5.124936 CCCTAAGCAACCTTGGTTATGTAAC 59.875 44.000 9.50 0.00 46.26 2.50
2041 2448 6.753107 AGCAACCTTGGTTATGTAACATAC 57.247 37.500 4.57 0.00 37.92 2.39
2045 2452 6.730960 ACCTTGGTTATGTAACATACGTTG 57.269 37.500 0.00 0.00 37.92 4.10
2047 2454 6.592607 ACCTTGGTTATGTAACATACGTTGAG 59.407 38.462 0.00 0.00 37.92 3.02
2048 2455 6.814644 CCTTGGTTATGTAACATACGTTGAGA 59.185 38.462 0.00 0.00 37.92 3.27
2049 2456 7.494625 CCTTGGTTATGTAACATACGTTGAGAT 59.505 37.037 0.00 0.00 37.92 2.75
2058 2465 8.875803 TGTAACATACGTTGAGATTATTTGTCC 58.124 33.333 0.00 0.00 36.52 4.02
2059 2466 7.915293 AACATACGTTGAGATTATTTGTCCA 57.085 32.000 0.00 0.00 32.81 4.02
2066 2473 7.145323 CGTTGAGATTATTTGTCCACCTTTTT 58.855 34.615 0.00 0.00 0.00 1.94
2070 2477 8.306038 TGAGATTATTTGTCCACCTTTTTCATG 58.694 33.333 0.00 0.00 0.00 3.07
2072 2479 8.526147 AGATTATTTGTCCACCTTTTTCATGAG 58.474 33.333 0.00 0.00 0.00 2.90
2074 2481 5.514274 TTTGTCCACCTTTTTCATGAGAC 57.486 39.130 0.00 0.00 0.00 3.36
2075 2482 4.163441 TGTCCACCTTTTTCATGAGACA 57.837 40.909 6.17 6.17 0.00 3.41
2076 2483 4.136796 TGTCCACCTTTTTCATGAGACAG 58.863 43.478 6.17 0.01 0.00 3.51
2078 2485 4.214332 GTCCACCTTTTTCATGAGACAGAC 59.786 45.833 1.10 0.00 0.00 3.51
2079 2486 4.103153 TCCACCTTTTTCATGAGACAGACT 59.897 41.667 1.10 0.00 0.00 3.24
2097 2505 6.758254 ACAGACTTTTGGATTAATTGGTTGG 58.242 36.000 0.00 0.00 0.00 3.77
2100 2508 6.782494 AGACTTTTGGATTAATTGGTTGGAGT 59.218 34.615 0.00 0.00 0.00 3.85
2116 2524 8.958119 TGGTTGGAGTATGAATTGAATACTAC 57.042 34.615 11.08 11.08 40.20 2.73
2123 2531 7.749666 AGTATGAATTGAATACTACATGCCCT 58.250 34.615 8.12 0.00 38.72 5.19
2135 2543 4.475016 ACTACATGCCCTGTCTCCTTTTAT 59.525 41.667 0.00 0.00 39.39 1.40
2140 2548 2.505819 GCCCTGTCTCCTTTTATCAGGA 59.494 50.000 10.54 0.00 45.76 3.86
2143 2551 5.163195 GCCCTGTCTCCTTTTATCAGGATTA 60.163 44.000 10.54 0.00 45.76 1.75
2148 2556 8.603898 TGTCTCCTTTTATCAGGATTACACTA 57.396 34.615 0.00 0.00 42.42 2.74
2154 2562 7.721399 CCTTTTATCAGGATTACACTAAGGCAT 59.279 37.037 0.00 0.00 35.71 4.40
2160 2568 2.889170 TTACACTAAGGCATGGGCAA 57.111 45.000 0.00 0.00 43.71 4.52
2167 2575 4.586001 CACTAAGGCATGGGCAAAGATTAT 59.414 41.667 0.00 0.00 43.71 1.28
2168 2576 5.769662 CACTAAGGCATGGGCAAAGATTATA 59.230 40.000 0.00 0.00 43.71 0.98
2169 2577 6.006449 ACTAAGGCATGGGCAAAGATTATAG 58.994 40.000 0.00 0.00 43.71 1.31
2172 2580 5.564550 AGGCATGGGCAAAGATTATAGTAG 58.435 41.667 0.00 0.00 43.71 2.57
2200 2608 5.964958 TTGTCAGAATTAAGGGAAAGCAG 57.035 39.130 0.00 0.00 0.00 4.24
2202 2610 3.009723 TCAGAATTAAGGGAAAGCAGCG 58.990 45.455 0.00 0.00 0.00 5.18
2209 2617 1.021390 AGGGAAAGCAGCGAACATCG 61.021 55.000 0.00 0.00 43.89 3.84
2221 2629 4.319115 CAGCGAACATCGAGAATTTGTTTG 59.681 41.667 10.46 10.46 43.74 2.93
2222 2630 4.789174 CGAACATCGAGAATTTGTTTGC 57.211 40.909 3.08 0.00 43.74 3.68
2251 2671 7.148086 GGATGGCAGACAAAACTTCATACATAA 60.148 37.037 0.00 0.00 0.00 1.90
2256 2676 9.793252 GCAGACAAAACTTCATACATAATCAAT 57.207 29.630 0.00 0.00 0.00 2.57
2270 2690 2.653234 ATCAATCAGCCATCTCCCAC 57.347 50.000 0.00 0.00 0.00 4.61
2273 2693 2.022195 CAATCAGCCATCTCCCACTTG 58.978 52.381 0.00 0.00 0.00 3.16
2274 2694 1.293062 ATCAGCCATCTCCCACTTGT 58.707 50.000 0.00 0.00 0.00 3.16
2275 2695 0.615331 TCAGCCATCTCCCACTTGTC 59.385 55.000 0.00 0.00 0.00 3.18
2276 2696 0.325933 CAGCCATCTCCCACTTGTCA 59.674 55.000 0.00 0.00 0.00 3.58
2278 2698 2.171237 CAGCCATCTCCCACTTGTCATA 59.829 50.000 0.00 0.00 0.00 2.15
2280 2700 3.461085 AGCCATCTCCCACTTGTCATATT 59.539 43.478 0.00 0.00 0.00 1.28
2281 2701 4.079558 AGCCATCTCCCACTTGTCATATTT 60.080 41.667 0.00 0.00 0.00 1.40
2282 2702 4.646492 GCCATCTCCCACTTGTCATATTTT 59.354 41.667 0.00 0.00 0.00 1.82
2283 2703 5.450965 GCCATCTCCCACTTGTCATATTTTG 60.451 44.000 0.00 0.00 0.00 2.44
2284 2704 5.887598 CCATCTCCCACTTGTCATATTTTGA 59.112 40.000 0.00 0.00 0.00 2.69
2286 2706 7.720957 CCATCTCCCACTTGTCATATTTTGATA 59.279 37.037 0.00 0.00 36.54 2.15
2287 2707 8.562892 CATCTCCCACTTGTCATATTTTGATAC 58.437 37.037 0.00 0.00 36.54 2.24
2288 2708 7.861629 TCTCCCACTTGTCATATTTTGATACT 58.138 34.615 0.00 0.00 36.54 2.12
2289 2709 7.987458 TCTCCCACTTGTCATATTTTGATACTC 59.013 37.037 0.00 0.00 36.54 2.59
2292 2712 7.056635 CCACTTGTCATATTTTGATACTCCCT 58.943 38.462 0.00 0.00 36.54 4.20
2294 2714 7.989741 CACTTGTCATATTTTGATACTCCCTCT 59.010 37.037 0.00 0.00 36.54 3.69
2295 2715 7.989741 ACTTGTCATATTTTGATACTCCCTCTG 59.010 37.037 0.00 0.00 36.54 3.35
2296 2716 7.437713 TGTCATATTTTGATACTCCCTCTGT 57.562 36.000 0.00 0.00 36.54 3.41
2297 2717 8.547481 TGTCATATTTTGATACTCCCTCTGTA 57.453 34.615 0.00 0.00 36.54 2.74
2299 2719 9.832445 GTCATATTTTGATACTCCCTCTGTAAA 57.168 33.333 0.00 0.00 36.54 2.01
2304 2724 7.554959 TTTGATACTCCCTCTGTAAAGAAGT 57.445 36.000 0.00 0.00 0.00 3.01
2306 2726 8.840200 TTGATACTCCCTCTGTAAAGAAGTAT 57.160 34.615 5.71 5.71 0.00 2.12
2307 2727 9.931698 TTGATACTCCCTCTGTAAAGAAGTATA 57.068 33.333 5.94 0.00 0.00 1.47
2308 2728 9.931698 TGATACTCCCTCTGTAAAGAAGTATAA 57.068 33.333 5.94 0.00 0.00 0.98
2311 2731 8.528044 ACTCCCTCTGTAAAGAAGTATAAGAG 57.472 38.462 0.00 0.00 0.00 2.85
2313 2733 8.294954 TCCCTCTGTAAAGAAGTATAAGAGTG 57.705 38.462 0.00 0.00 0.00 3.51
2314 2734 7.894364 TCCCTCTGTAAAGAAGTATAAGAGTGT 59.106 37.037 0.00 0.00 0.00 3.55
2316 2736 9.930693 CCTCTGTAAAGAAGTATAAGAGTGTTT 57.069 33.333 0.00 0.00 0.00 2.83
2366 2786 8.927675 TGCTCTTATAAAAGTTTACAAAGGGA 57.072 30.769 9.97 2.00 34.13 4.20
2367 2787 9.010029 TGCTCTTATAAAAGTTTACAAAGGGAG 57.990 33.333 9.97 0.00 34.13 4.30
2368 2788 9.011095 GCTCTTATAAAAGTTTACAAAGGGAGT 57.989 33.333 9.97 0.00 34.13 3.85
2378 2798 7.514721 AGTTTACAAAGGGAGTAGATCACAAA 58.485 34.615 0.00 0.00 31.63 2.83
2383 2803 4.785346 AGGGAGTAGATCACAAATGCAT 57.215 40.909 0.00 0.00 31.63 3.96
2386 2806 3.817647 GGAGTAGATCACAAATGCATCCC 59.182 47.826 0.00 0.00 0.00 3.85
2429 2849 5.390387 AGTTATGGTACTCTTGCCCAAAAA 58.610 37.500 0.00 0.00 0.00 1.94
2435 2855 5.221422 TGGTACTCTTGCCCAAAAAGAATTG 60.221 40.000 0.00 0.00 33.40 2.32
2443 2863 5.862845 TGCCCAAAAAGAATTGCTGAAATA 58.137 33.333 0.00 0.00 0.00 1.40
2445 2865 6.372103 TGCCCAAAAAGAATTGCTGAAATATG 59.628 34.615 0.00 0.00 0.00 1.78
2462 2882 8.473358 TGAAATATGATCATTGGAGAAGCATT 57.527 30.769 14.65 1.15 0.00 3.56
2467 2887 1.820519 TCATTGGAGAAGCATTGGCAC 59.179 47.619 0.00 0.00 44.61 5.01
2486 2906 7.744087 TGGCACATATATATTTCCACAGAAC 57.256 36.000 0.00 0.00 0.00 3.01
2489 2909 8.796475 GGCACATATATATTTCCACAGAACATT 58.204 33.333 0.00 0.00 0.00 2.71
2490 2910 9.616634 GCACATATATATTTCCACAGAACATTG 57.383 33.333 0.00 0.00 0.00 2.82
2513 2933 5.362430 TGAAGGTTCAACTTAAATTGCCAGT 59.638 36.000 0.00 0.00 33.55 4.00
2520 2940 5.123186 TCAACTTAAATTGCCAGTACATCCG 59.877 40.000 0.00 0.00 0.00 4.18
2525 2945 1.264749 TTGCCAGTACATCCGCCTCT 61.265 55.000 0.00 0.00 0.00 3.69
2532 2952 0.461548 TACATCCGCCTCTGCTTGAG 59.538 55.000 1.17 1.17 42.30 3.02
2563 2987 0.168788 AGAAAACATCGCATGGCACG 59.831 50.000 0.00 0.00 33.60 5.34
2590 3014 6.101650 TCATGTAGAGACTGAAGCAAAGAA 57.898 37.500 0.00 0.00 0.00 2.52
2601 3025 7.704047 AGACTGAAGCAAAGAAAAATCTTGAAC 59.296 33.333 0.00 0.00 0.00 3.18
2619 3043 1.021968 ACCGAACAAACACTCCTTGC 58.978 50.000 0.00 0.00 0.00 4.01
2630 3054 1.270550 CACTCCTTGCACACCAATTCC 59.729 52.381 0.00 0.00 31.91 3.01
2638 3062 2.754552 TGCACACCAATTCCAATCTAGC 59.245 45.455 0.00 0.00 0.00 3.42
2640 3064 3.181493 GCACACCAATTCCAATCTAGCAG 60.181 47.826 0.00 0.00 0.00 4.24
2649 3073 8.902806 CCAATTCCAATCTAGCAGTTACAAATA 58.097 33.333 0.00 0.00 0.00 1.40
2703 3130 7.953005 ATAATCAAAATGTGTGGTCCATACA 57.047 32.000 22.15 22.15 39.56 2.29
2712 3139 4.053469 TGTGGTCCATACACATACATCG 57.947 45.455 0.00 0.00 43.35 3.84
2713 3140 2.800544 GTGGTCCATACACATACATCGC 59.199 50.000 0.00 0.00 38.67 4.58
2734 3177 3.655211 AGCTTGGCCCAGGTGGAG 61.655 66.667 7.91 0.00 37.39 3.86
2750 3193 1.065926 TGGAGTGATCCATCTGTGCAC 60.066 52.381 10.75 10.75 34.33 4.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
43 45 0.027979 CCACCGCAGACGCATTTATG 59.972 55.000 0.00 0.00 38.40 1.90
95 98 0.377203 GCCCCGTTCAATCACGATTC 59.623 55.000 0.00 0.00 43.15 2.52
96 99 1.366111 CGCCCCGTTCAATCACGATT 61.366 55.000 0.00 0.00 43.15 3.34
97 100 1.813753 CGCCCCGTTCAATCACGAT 60.814 57.895 0.00 0.00 43.15 3.73
98 101 2.433491 CGCCCCGTTCAATCACGA 60.433 61.111 0.00 0.00 43.15 4.35
99 102 2.433491 TCGCCCCGTTCAATCACG 60.433 61.111 0.00 0.00 40.02 4.35
100 103 2.736682 CGTCGCCCCGTTCAATCAC 61.737 63.158 0.00 0.00 0.00 3.06
101 104 2.433491 CGTCGCCCCGTTCAATCA 60.433 61.111 0.00 0.00 0.00 2.57
318 330 5.703130 AGACAAGAGCTTCCTGTTCATTTAC 59.297 40.000 0.00 0.00 0.00 2.01
319 331 5.869579 AGACAAGAGCTTCCTGTTCATTTA 58.130 37.500 0.00 0.00 0.00 1.40
320 332 4.723309 AGACAAGAGCTTCCTGTTCATTT 58.277 39.130 0.00 0.00 0.00 2.32
358 371 2.610233 AGCAAGCTCCTCCAGGCT 60.610 61.111 0.00 0.00 40.85 4.58
506 519 3.051803 TCTCTCTCTCTCTCTCTCTCCCT 60.052 52.174 0.00 0.00 0.00 4.20
535 558 0.818296 ACCACTCTGCGATCTGGTAC 59.182 55.000 0.40 0.00 35.14 3.34
569 636 5.077424 CACGTTATTTAAGTGCTCGGTTTC 58.923 41.667 0.00 0.00 0.00 2.78
583 650 7.229106 TCAACCTTAGGCTTAAACACGTTATTT 59.771 33.333 0.00 0.00 0.00 1.40
589 656 4.142687 CCATCAACCTTAGGCTTAAACACG 60.143 45.833 0.00 0.00 0.00 4.49
619 687 0.605860 TAGCTCTATCGTCCGAGGCC 60.606 60.000 0.00 0.00 0.00 5.19
625 693 2.353889 TGTTGTCGTAGCTCTATCGTCC 59.646 50.000 0.00 0.00 0.00 4.79
631 699 4.543692 GTGTTTCTGTTGTCGTAGCTCTA 58.456 43.478 0.00 0.00 0.00 2.43
672 765 9.702494 CATTTGTACTTAGAGAGATATGCATGA 57.298 33.333 10.16 0.00 0.00 3.07
812 914 2.034879 GTGTCGGGGAGCATGTGTG 61.035 63.158 0.00 0.00 0.00 3.82
813 915 2.050836 TTGTGTCGGGGAGCATGTGT 62.051 55.000 0.00 0.00 0.00 3.72
871 979 6.183360 GGTTGGAGGAGGCTCTTATATATAGC 60.183 46.154 15.23 8.44 35.47 2.97
920 1028 0.098376 GCTAGTGATTGTGCTGCTGC 59.902 55.000 8.89 8.89 40.20 5.25
922 1030 1.002888 AGTGCTAGTGATTGTGCTGCT 59.997 47.619 0.00 0.00 0.00 4.24
923 1031 1.446907 AGTGCTAGTGATTGTGCTGC 58.553 50.000 0.00 0.00 0.00 5.25
984 1100 1.578618 CATTTGAACGCGAGCGAGC 60.579 57.895 24.72 14.71 42.83 5.03
985 1101 1.059369 CCATTTGAACGCGAGCGAG 59.941 57.895 24.72 5.93 42.83 5.03
986 1102 3.022401 GCCATTTGAACGCGAGCGA 62.022 57.895 24.72 0.00 42.83 4.93
994 1110 1.792367 GAACTTTGCCGCCATTTGAAC 59.208 47.619 0.00 0.00 0.00 3.18
1144 1290 2.293677 ACACAAACGTTTCACCACACAA 59.706 40.909 11.37 0.00 0.00 3.33
1174 1326 4.082245 AGTTAACAACTATGCATTGGCACC 60.082 41.667 3.54 0.00 43.50 5.01
1219 1379 3.077229 TCCATTGACAAAAACTGCACG 57.923 42.857 0.00 0.00 0.00 5.34
1281 1443 1.118965 TGTGAAGGCCCGAGAAGTGA 61.119 55.000 0.00 0.00 0.00 3.41
1412 1574 2.112691 TGGGGTGGGTTTTGACCATATT 59.887 45.455 0.00 0.00 40.70 1.28
1457 1620 1.527380 GCCTTCCACCACCGTCAAA 60.527 57.895 0.00 0.00 0.00 2.69
1499 1662 6.373495 AGAATAACTTATTGTCGGGGTTTGAC 59.627 38.462 0.00 0.00 36.88 3.18
1520 1683 7.563556 TCCCCTTTGTTAAGAACTTTTGAGAAT 59.436 33.333 0.00 0.00 32.92 2.40
1583 1746 4.278419 GCTTCTTTGGTTCCACAGTTGTAT 59.722 41.667 5.14 0.00 0.00 2.29
1682 1845 4.863689 GCAACGATATCATCTGAGATGGAG 59.136 45.833 21.27 11.05 0.00 3.86
1715 1878 4.136796 CAACAATCTTCTTGTCCACCTGA 58.863 43.478 0.00 0.00 0.00 3.86
1739 1902 5.994054 TGTCTAGAATTGAGCTTGGATATGC 59.006 40.000 0.00 0.00 0.00 3.14
1764 1927 7.012327 AGTCAAATAAACATATCACCGGATGTG 59.988 37.037 9.46 2.95 45.21 3.21
1770 1938 9.225201 CAAATGAGTCAAATAAACATATCACCG 57.775 33.333 0.00 0.00 0.00 4.94
1798 1971 8.419435 CACACAAACATGATCTTTAATCAAACG 58.581 33.333 0.00 0.00 0.00 3.60
1853 2026 9.995003 TTCCACAAAAGCTTGATTAACATAAAT 57.005 25.926 0.00 0.00 36.33 1.40
1856 2029 8.402798 TCTTCCACAAAAGCTTGATTAACATA 57.597 30.769 0.00 0.00 36.33 2.29
1857 2030 7.288810 TCTTCCACAAAAGCTTGATTAACAT 57.711 32.000 0.00 0.00 36.33 2.71
1858 2031 6.707440 TCTTCCACAAAAGCTTGATTAACA 57.293 33.333 0.00 0.00 36.33 2.41
1859 2032 8.419076 TTTTCTTCCACAAAAGCTTGATTAAC 57.581 30.769 0.00 0.00 36.33 2.01
1911 2084 9.717942 ATAGTGGAGAGTAGCAAAATGATAATC 57.282 33.333 0.00 0.00 34.06 1.75
1917 2090 8.948631 TTAAGATAGTGGAGAGTAGCAAAATG 57.051 34.615 0.00 0.00 0.00 2.32
1942 2115 8.482943 GCCACAAACTCCCCTTTATAATATTTT 58.517 33.333 0.00 0.00 0.00 1.82
1943 2116 7.070696 GGCCACAAACTCCCCTTTATAATATTT 59.929 37.037 0.00 0.00 0.00 1.40
1944 2117 6.553476 GGCCACAAACTCCCCTTTATAATATT 59.447 38.462 0.00 0.00 0.00 1.28
1945 2118 6.075315 GGCCACAAACTCCCCTTTATAATAT 58.925 40.000 0.00 0.00 0.00 1.28
1946 2119 5.044030 TGGCCACAAACTCCCCTTTATAATA 60.044 40.000 0.00 0.00 0.00 0.98
1947 2120 4.264623 TGGCCACAAACTCCCCTTTATAAT 60.265 41.667 0.00 0.00 0.00 1.28
1948 2121 3.076182 TGGCCACAAACTCCCCTTTATAA 59.924 43.478 0.00 0.00 0.00 0.98
1949 2122 2.650322 TGGCCACAAACTCCCCTTTATA 59.350 45.455 0.00 0.00 0.00 0.98
1950 2123 1.431243 TGGCCACAAACTCCCCTTTAT 59.569 47.619 0.00 0.00 0.00 1.40
1951 2124 0.854218 TGGCCACAAACTCCCCTTTA 59.146 50.000 0.00 0.00 0.00 1.85
1967 2140 2.484062 CCATTGTGGCGAGGATGGC 61.484 63.158 0.00 0.00 40.04 4.40
1968 2141 1.077501 ACCATTGTGGCGAGGATGG 60.078 57.895 8.26 8.26 42.67 3.51
1973 2146 2.315925 AGTATCACCATTGTGGCGAG 57.684 50.000 0.00 0.00 42.67 5.03
1975 2148 1.670811 GGAAGTATCACCATTGTGGCG 59.329 52.381 0.00 0.00 42.67 5.69
1996 2169 2.812658 AGGGCAAGAAAATCAAGGAGG 58.187 47.619 0.00 0.00 0.00 4.30
2014 2203 5.708230 TGTTACATAACCAAGGTTGCTTAGG 59.292 40.000 14.55 0.00 38.92 2.69
2021 2210 6.935771 TCAACGTATGTTACATAACCAAGGTT 59.064 34.615 6.64 9.74 38.09 3.50
2036 2225 6.315393 GGTGGACAAATAATCTCAACGTATGT 59.685 38.462 0.00 0.00 0.00 2.29
2037 2226 6.538742 AGGTGGACAAATAATCTCAACGTATG 59.461 38.462 0.00 0.00 0.00 2.39
2041 2448 5.880054 AAGGTGGACAAATAATCTCAACG 57.120 39.130 0.00 0.00 0.00 4.10
2045 2452 8.522830 TCATGAAAAAGGTGGACAAATAATCTC 58.477 33.333 0.00 0.00 0.00 2.75
2047 2454 8.522830 TCTCATGAAAAAGGTGGACAAATAATC 58.477 33.333 0.00 0.00 0.00 1.75
2048 2455 8.306761 GTCTCATGAAAAAGGTGGACAAATAAT 58.693 33.333 0.00 0.00 0.00 1.28
2049 2456 7.286546 TGTCTCATGAAAAAGGTGGACAAATAA 59.713 33.333 7.47 0.00 31.00 1.40
2054 2461 4.136796 CTGTCTCATGAAAAAGGTGGACA 58.863 43.478 9.11 9.11 0.00 4.02
2055 2462 4.214332 GTCTGTCTCATGAAAAAGGTGGAC 59.786 45.833 0.00 0.00 0.00 4.02
2056 2463 4.103153 AGTCTGTCTCATGAAAAAGGTGGA 59.897 41.667 0.00 0.00 0.00 4.02
2058 2465 6.382869 AAAGTCTGTCTCATGAAAAAGGTG 57.617 37.500 0.00 0.00 0.00 4.00
2059 2466 6.183360 CCAAAAGTCTGTCTCATGAAAAAGGT 60.183 38.462 0.00 0.00 0.00 3.50
2066 2473 8.733458 CAATTAATCCAAAAGTCTGTCTCATGA 58.267 33.333 0.00 0.00 0.00 3.07
2070 2477 7.454260 ACCAATTAATCCAAAAGTCTGTCTC 57.546 36.000 0.00 0.00 0.00 3.36
2072 2479 6.868339 CCAACCAATTAATCCAAAAGTCTGTC 59.132 38.462 0.00 0.00 0.00 3.51
2074 2481 6.991938 TCCAACCAATTAATCCAAAAGTCTG 58.008 36.000 0.00 0.00 0.00 3.51
2075 2482 6.782494 ACTCCAACCAATTAATCCAAAAGTCT 59.218 34.615 0.00 0.00 0.00 3.24
2076 2483 6.993079 ACTCCAACCAATTAATCCAAAAGTC 58.007 36.000 0.00 0.00 0.00 3.01
2078 2485 8.748412 TCATACTCCAACCAATTAATCCAAAAG 58.252 33.333 0.00 0.00 0.00 2.27
2079 2486 8.657387 TCATACTCCAACCAATTAATCCAAAA 57.343 30.769 0.00 0.00 0.00 2.44
2097 2505 7.880195 AGGGCATGTAGTATTCAATTCATACTC 59.120 37.037 9.27 4.55 38.26 2.59
2100 2508 7.517320 ACAGGGCATGTAGTATTCAATTCATA 58.483 34.615 1.47 0.00 41.60 2.15
2116 2524 3.881688 CTGATAAAAGGAGACAGGGCATG 59.118 47.826 0.00 0.00 0.00 4.06
2135 2543 3.136443 CCCATGCCTTAGTGTAATCCTGA 59.864 47.826 0.00 0.00 0.00 3.86
2140 2548 3.380471 TTGCCCATGCCTTAGTGTAAT 57.620 42.857 0.00 0.00 36.33 1.89
2143 2551 1.075374 TCTTTGCCCATGCCTTAGTGT 59.925 47.619 0.00 0.00 36.33 3.55
2148 2556 4.808042 ACTATAATCTTTGCCCATGCCTT 58.192 39.130 0.00 0.00 36.33 4.35
2172 2580 9.521503 GCTTTCCCTTAATTCTGACAAAATATC 57.478 33.333 0.00 0.00 0.00 1.63
2179 2587 3.758554 GCTGCTTTCCCTTAATTCTGACA 59.241 43.478 0.00 0.00 0.00 3.58
2181 2589 3.009723 CGCTGCTTTCCCTTAATTCTGA 58.990 45.455 0.00 0.00 0.00 3.27
2187 2595 2.264005 TGTTCGCTGCTTTCCCTTAA 57.736 45.000 0.00 0.00 0.00 1.85
2188 2596 2.356135 GATGTTCGCTGCTTTCCCTTA 58.644 47.619 0.00 0.00 0.00 2.69
2191 2599 1.019278 TCGATGTTCGCTGCTTTCCC 61.019 55.000 0.00 0.00 40.21 3.97
2193 2601 1.350193 TCTCGATGTTCGCTGCTTTC 58.650 50.000 0.00 0.00 40.21 2.62
2197 2605 2.159653 ACAAATTCTCGATGTTCGCTGC 60.160 45.455 0.00 0.00 40.21 5.25
2200 2608 3.058129 GCAAACAAATTCTCGATGTTCGC 59.942 43.478 2.06 0.00 40.21 4.70
2202 2610 5.117592 CCAAGCAAACAAATTCTCGATGTTC 59.882 40.000 2.06 0.00 36.33 3.18
2209 2617 3.681417 GCCATCCAAGCAAACAAATTCTC 59.319 43.478 0.00 0.00 0.00 2.87
2221 2629 1.615392 AGTTTTGTCTGCCATCCAAGC 59.385 47.619 0.00 0.00 0.00 4.01
2222 2630 3.318839 TGAAGTTTTGTCTGCCATCCAAG 59.681 43.478 0.00 0.00 0.00 3.61
2251 2671 2.133520 AGTGGGAGATGGCTGATTGAT 58.866 47.619 0.00 0.00 0.00 2.57
2256 2676 0.615331 GACAAGTGGGAGATGGCTGA 59.385 55.000 0.00 0.00 0.00 4.26
2270 2690 7.989741 ACAGAGGGAGTATCAAAATATGACAAG 59.010 37.037 0.00 0.00 41.93 3.16
2273 2693 9.832445 TTTACAGAGGGAGTATCAAAATATGAC 57.168 33.333 0.00 0.00 41.93 3.06
2278 2698 8.606830 ACTTCTTTACAGAGGGAGTATCAAAAT 58.393 33.333 0.00 0.00 36.25 1.82
2280 2700 7.554959 ACTTCTTTACAGAGGGAGTATCAAA 57.445 36.000 0.00 0.00 36.25 2.69
2281 2701 8.840200 ATACTTCTTTACAGAGGGAGTATCAA 57.160 34.615 0.00 0.00 36.25 2.57
2282 2702 9.931698 TTATACTTCTTTACAGAGGGAGTATCA 57.068 33.333 5.42 0.00 36.25 2.15
2286 2706 8.117312 ACTCTTATACTTCTTTACAGAGGGAGT 58.883 37.037 0.00 0.00 32.21 3.85
2287 2707 8.410141 CACTCTTATACTTCTTTACAGAGGGAG 58.590 40.741 0.00 0.00 32.92 4.30
2288 2708 7.894364 ACACTCTTATACTTCTTTACAGAGGGA 59.106 37.037 2.59 0.00 34.50 4.20
2289 2709 8.068892 ACACTCTTATACTTCTTTACAGAGGG 57.931 38.462 0.00 0.00 36.55 4.30
2340 2760 9.528489 TCCCTTTGTAAACTTTTATAAGAGCAT 57.472 29.630 3.00 0.00 35.30 3.79
2341 2761 8.927675 TCCCTTTGTAAACTTTTATAAGAGCA 57.072 30.769 3.00 0.00 35.30 4.26
2342 2762 9.011095 ACTCCCTTTGTAAACTTTTATAAGAGC 57.989 33.333 3.00 0.00 35.30 4.09
2349 2769 9.498176 GTGATCTACTCCCTTTGTAAACTTTTA 57.502 33.333 0.00 0.00 0.00 1.52
2350 2770 7.996644 TGTGATCTACTCCCTTTGTAAACTTTT 59.003 33.333 0.00 0.00 0.00 2.27
2351 2771 7.514721 TGTGATCTACTCCCTTTGTAAACTTT 58.485 34.615 0.00 0.00 0.00 2.66
2352 2772 7.074653 TGTGATCTACTCCCTTTGTAAACTT 57.925 36.000 0.00 0.00 0.00 2.66
2353 2773 6.681729 TGTGATCTACTCCCTTTGTAAACT 57.318 37.500 0.00 0.00 0.00 2.66
2354 2774 7.739498 TTTGTGATCTACTCCCTTTGTAAAC 57.261 36.000 0.00 0.00 0.00 2.01
2355 2775 7.094377 GCATTTGTGATCTACTCCCTTTGTAAA 60.094 37.037 0.00 0.00 0.00 2.01
2356 2776 6.374333 GCATTTGTGATCTACTCCCTTTGTAA 59.626 38.462 0.00 0.00 0.00 2.41
2357 2777 5.880332 GCATTTGTGATCTACTCCCTTTGTA 59.120 40.000 0.00 0.00 0.00 2.41
2358 2778 4.702131 GCATTTGTGATCTACTCCCTTTGT 59.298 41.667 0.00 0.00 0.00 2.83
2359 2779 4.701651 TGCATTTGTGATCTACTCCCTTTG 59.298 41.667 0.00 0.00 0.00 2.77
2360 2780 4.922206 TGCATTTGTGATCTACTCCCTTT 58.078 39.130 0.00 0.00 0.00 3.11
2361 2781 4.574674 TGCATTTGTGATCTACTCCCTT 57.425 40.909 0.00 0.00 0.00 3.95
2362 2782 4.445448 GGATGCATTTGTGATCTACTCCCT 60.445 45.833 0.00 0.00 0.00 4.20
2363 2783 3.817647 GGATGCATTTGTGATCTACTCCC 59.182 47.826 0.00 0.00 0.00 4.30
2364 2784 3.817647 GGGATGCATTTGTGATCTACTCC 59.182 47.826 0.00 0.00 0.00 3.85
2365 2785 3.496130 CGGGATGCATTTGTGATCTACTC 59.504 47.826 0.00 0.00 0.00 2.59
2366 2786 3.470709 CGGGATGCATTTGTGATCTACT 58.529 45.455 0.00 0.00 0.00 2.57
2367 2787 2.031682 GCGGGATGCATTTGTGATCTAC 60.032 50.000 0.00 0.00 45.45 2.59
2368 2788 2.221169 GCGGGATGCATTTGTGATCTA 58.779 47.619 0.00 0.00 45.45 1.98
2369 2789 1.027357 GCGGGATGCATTTGTGATCT 58.973 50.000 0.00 0.00 45.45 2.75
2383 2803 1.480789 TGCTACTATGTCTTGCGGGA 58.519 50.000 0.00 0.00 0.00 5.14
2386 2806 2.526077 TCGTTGCTACTATGTCTTGCG 58.474 47.619 0.00 0.00 0.00 4.85
2417 2837 3.387374 TCAGCAATTCTTTTTGGGCAAGA 59.613 39.130 0.00 0.00 0.00 3.02
2429 2849 8.473358 TCCAATGATCATATTTCAGCAATTCT 57.527 30.769 9.04 0.00 0.00 2.40
2435 2855 6.016527 TGCTTCTCCAATGATCATATTTCAGC 60.017 38.462 9.04 12.52 0.00 4.26
2443 2863 3.321111 GCCAATGCTTCTCCAATGATCAT 59.679 43.478 1.18 1.18 33.53 2.45
2445 2865 2.691526 TGCCAATGCTTCTCCAATGATC 59.308 45.455 0.00 0.00 38.71 2.92
2462 2882 7.286313 TGTTCTGTGGAAATATATATGTGCCA 58.714 34.615 2.24 5.02 32.81 4.92
2489 2909 5.362430 ACTGGCAATTTAAGTTGAACCTTCA 59.638 36.000 14.30 2.38 34.92 3.02
2490 2910 5.842907 ACTGGCAATTTAAGTTGAACCTTC 58.157 37.500 14.30 0.00 0.00 3.46
2513 2933 3.849020 CTCTCAAGCAGAGGCGGATGTA 61.849 54.545 6.38 0.00 44.75 2.29
2532 2952 1.081175 GTTTTCTGGCCGCTTGCTC 60.081 57.895 0.00 0.00 40.92 4.26
2578 3002 6.074676 CGGTTCAAGATTTTTCTTTGCTTCAG 60.075 38.462 0.00 0.00 0.00 3.02
2579 3003 5.748152 CGGTTCAAGATTTTTCTTTGCTTCA 59.252 36.000 0.00 0.00 0.00 3.02
2583 3007 5.518487 TGTTCGGTTCAAGATTTTTCTTTGC 59.482 36.000 0.00 0.00 0.00 3.68
2584 3008 7.518731 TTGTTCGGTTCAAGATTTTTCTTTG 57.481 32.000 0.00 0.00 0.00 2.77
2588 3012 6.530181 AGTGTTTGTTCGGTTCAAGATTTTTC 59.470 34.615 0.00 0.00 0.00 2.29
2590 3014 5.961272 AGTGTTTGTTCGGTTCAAGATTTT 58.039 33.333 0.00 0.00 0.00 1.82
2601 3025 1.021202 TGCAAGGAGTGTTTGTTCGG 58.979 50.000 0.00 0.00 0.00 4.30
2619 3043 4.012374 ACTGCTAGATTGGAATTGGTGTG 58.988 43.478 0.00 0.00 0.00 3.82
2630 3054 7.134815 GTGCCATATTTGTAACTGCTAGATTG 58.865 38.462 0.00 0.00 0.00 2.67
2638 3062 6.682423 TCTGATGTGCCATATTTGTAACTG 57.318 37.500 0.00 0.00 0.00 3.16
2640 3064 6.919662 CCATTCTGATGTGCCATATTTGTAAC 59.080 38.462 0.00 0.00 0.00 2.50
2649 3073 4.442401 TGTATCCATTCTGATGTGCCAT 57.558 40.909 0.00 0.00 0.00 4.40
2673 3097 8.642432 TGGACCACACATTTTGATTATTTTGTA 58.358 29.630 0.00 0.00 0.00 2.41
2674 3098 7.504403 TGGACCACACATTTTGATTATTTTGT 58.496 30.769 0.00 0.00 0.00 2.83
2675 3099 7.959689 TGGACCACACATTTTGATTATTTTG 57.040 32.000 0.00 0.00 0.00 2.44
2679 3106 7.771183 GTGTATGGACCACACATTTTGATTAT 58.229 34.615 9.22 0.00 44.58 1.28
2682 3109 5.643379 GTGTATGGACCACACATTTTGAT 57.357 39.130 9.22 0.00 44.58 2.57
2693 3120 2.544903 CGCGATGTATGTGTATGGACCA 60.545 50.000 0.00 0.00 0.00 4.02
2697 3124 2.726241 CTGTCGCGATGTATGTGTATGG 59.274 50.000 14.06 0.00 0.00 2.74
2703 3130 1.280982 CAAGCTGTCGCGATGTATGT 58.719 50.000 14.06 0.00 42.32 2.29
2705 3132 1.154205 GCCAAGCTGTCGCGATGTAT 61.154 55.000 14.06 0.00 42.32 2.29
2708 3135 3.869272 GGCCAAGCTGTCGCGATG 61.869 66.667 14.06 10.09 42.32 3.84
2713 3140 4.335647 ACCTGGGCCAAGCTGTCG 62.336 66.667 8.04 0.00 0.00 4.35
2734 3177 1.709147 GGCGTGCACAGATGGATCAC 61.709 60.000 18.64 0.00 0.00 3.06


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

AutoCloner maintained by Alex Coulton.