Multiple sequence alignment - TraesCS7A01G338400

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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 TraesCS7A01G338400 chr7A 100.000 2735 0 0 1 2735 495536393 495539127 0.000000e+00 5051.0
1 TraesCS7A01G338400 chr7A 91.304 115 10 0 1 115 478140717 478140831 1.010000e-34 158.0
2 TraesCS7A01G338400 chr7D 89.120 1728 110 24 127 1788 444349255 444350970 0.000000e+00 2078.0
3 TraesCS7A01G338400 chr7D 92.803 264 10 5 2478 2735 444352439 444352699 9.250000e-100 374.0
4 TraesCS7A01G338400 chr7D 85.379 383 24 12 2057 2413 444352037 444352413 4.300000e-98 368.0
5 TraesCS7A01G338400 chr7B 88.833 1003 84 11 805 1785 461203836 461204832 0.000000e+00 1206.0
6 TraesCS7A01G338400 chr7B 86.157 549 36 10 1885 2413 461205843 461206371 8.560000e-155 556.0
7 TraesCS7A01G338400 chr7B 94.758 248 10 1 2483 2727 461206405 461206652 1.540000e-102 383.0
8 TraesCS7A01G338400 chr7B 80.071 281 24 15 121 372 461203530 461203807 2.160000e-41 180.0
9 TraesCS7A01G338400 chr2D 79.965 579 61 27 2148 2715 588676395 588676929 2.570000e-100 375.0
10 TraesCS7A01G338400 chr2B 79.145 585 65 25 2146 2715 712319471 712318929 4.330000e-93 351.0
11 TraesCS7A01G338400 chr2B 91.228 114 10 0 4 117 38325996 38325883 3.650000e-34 156.0
12 TraesCS7A01G338400 chr2A 78.299 576 67 23 2148 2715 723358860 723359385 4.390000e-83 318.0
13 TraesCS7A01G338400 chr5D 92.920 113 8 0 1 113 521405706 521405594 6.060000e-37 165.0
14 TraesCS7A01G338400 chr5D 91.964 112 9 0 1 112 491407286 491407397 1.010000e-34 158.0
15 TraesCS7A01G338400 chr4B 93.519 108 7 0 1 108 670859886 670859993 7.840000e-36 161.0
16 TraesCS7A01G338400 chr1B 92.727 110 8 0 4 113 606839358 606839467 2.820000e-35 159.0
17 TraesCS7A01G338400 chr1B 88.312 77 7 2 1793 1868 327562881 327562956 1.040000e-14 91.6
18 TraesCS7A01G338400 chrUn 91.964 112 9 0 4 115 82255845 82255734 1.010000e-34 158.0
19 TraesCS7A01G338400 chrUn 91.964 112 9 0 4 115 395978770 395978881 1.010000e-34 158.0
20 TraesCS7A01G338400 chr3A 91.964 112 9 0 1 112 489052843 489052954 1.010000e-34 158.0
21 TraesCS7A01G338400 chr3A 85.227 88 10 2 1784 1868 719267061 719267148 1.350000e-13 87.9
22 TraesCS7A01G338400 chr4A 90.805 87 7 1 1785 1870 572640108 572640022 6.190000e-22 115.0
23 TraesCS7A01G338400 chr6D 82.857 105 16 2 481 584 462555406 462555303 2.900000e-15 93.5
24 TraesCS7A01G338400 chr6D 86.207 87 8 1 1784 1870 452723823 452723905 1.040000e-14 91.6
25 TraesCS7A01G338400 chr6D 83.516 91 10 2 1783 1870 36125518 36125606 2.260000e-11 80.5
26 TraesCS7A01G338400 chr6A 83.168 101 17 0 484 584 609427613 609427513 2.900000e-15 93.5
27 TraesCS7A01G338400 chr6A 81.731 104 19 0 481 584 609403144 609403041 1.350000e-13 87.9
28 TraesCS7A01G338400 chr6B 82.178 101 18 0 484 584 705316360 705316260 1.350000e-13 87.9
29 TraesCS7A01G338400 chr6B 88.136 59 7 0 481 539 705183689 705183631 1.360000e-08 71.3
30 TraesCS7A01G338400 chr3D 86.842 76 10 0 484 559 144478894 144478819 4.850000e-13 86.1
31 TraesCS7A01G338400 chr1D 86.842 76 7 3 1793 1867 208190045 208189972 6.280000e-12 82.4


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 TraesCS7A01G338400 chr7A 495536393 495539127 2734 False 5051.00 5051 100.000000 1 2735 1 chr7A.!!$F2 2734
1 TraesCS7A01G338400 chr7D 444349255 444352699 3444 False 940.00 2078 89.100667 127 2735 3 chr7D.!!$F1 2608
2 TraesCS7A01G338400 chr7B 461203530 461206652 3122 False 581.25 1206 87.454750 121 2727 4 chr7B.!!$F1 2606
3 TraesCS7A01G338400 chr2D 588676395 588676929 534 False 375.00 375 79.965000 2148 2715 1 chr2D.!!$F1 567
4 TraesCS7A01G338400 chr2B 712318929 712319471 542 True 351.00 351 79.145000 2146 2715 1 chr2B.!!$R2 569
5 TraesCS7A01G338400 chr2A 723358860 723359385 525 False 318.00 318 78.299000 2148 2715 1 chr2A.!!$F1 567

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
229 231 0.033699 GAGGATTGCTTCCCAGCCTT 60.034 55.0 3.00 0.00 46.81 4.35 F
454 490 0.041982 AGGAGAACCTGGAGTCCCTC 59.958 60.0 6.74 5.28 45.92 4.30 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1597 1664 0.250467 GGCAGAACAACAGAGCCTGA 60.25 55.0 8.91 0.0 42.01 3.86 R
2439 3952 0.109919 CACGACGACGATGACCTTGA 60.11 55.0 15.32 0.0 42.66 3.02 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
17 18 4.567195 TGAGGGGTCTGCATCTGT 57.433 55.556 0.00 0.00 0.00 3.41
18 19 1.985614 TGAGGGGTCTGCATCTGTG 59.014 57.895 0.00 0.00 0.00 3.66
27 28 3.589881 GCATCTGTGCCATCCCGC 61.590 66.667 0.00 0.00 45.76 6.13
28 29 3.274586 CATCTGTGCCATCCCGCG 61.275 66.667 0.00 0.00 0.00 6.46
43 44 4.764336 GCGCCGGCCCGTAAAAAC 62.764 66.667 23.46 0.00 0.00 2.43
44 45 4.448594 CGCCGGCCCGTAAAAACG 62.449 66.667 23.46 0.00 0.00 3.60
54 55 2.869478 CGTAAAAACGGTTTTGCACG 57.131 45.000 25.67 25.67 38.75 5.34
55 56 2.438583 CGTAAAAACGGTTTTGCACGA 58.561 42.857 30.19 1.33 40.98 4.35
56 57 2.844804 CGTAAAAACGGTTTTGCACGAA 59.155 40.909 30.19 0.62 40.98 3.85
57 58 3.300440 CGTAAAAACGGTTTTGCACGAAC 60.300 43.478 30.19 11.42 40.98 3.95
58 59 2.640346 AAAACGGTTTTGCACGAACT 57.360 40.000 17.42 0.00 0.00 3.01
59 60 1.902840 AAACGGTTTTGCACGAACTG 58.097 45.000 15.85 15.85 38.90 3.16
67 68 3.085010 GCACGAACTGCAAACGCG 61.085 61.111 3.53 3.53 46.29 6.01
68 69 2.323105 CACGAACTGCAAACGCGT 59.677 55.556 5.58 5.58 35.33 6.01
69 70 1.297304 CACGAACTGCAAACGCGTT 60.297 52.632 20.79 20.79 32.27 4.84
70 71 0.859788 CACGAACTGCAAACGCGTTT 60.860 50.000 30.36 30.36 32.27 3.60
71 72 0.179184 ACGAACTGCAAACGCGTTTT 60.179 45.000 33.05 19.44 0.00 2.43
72 73 0.223513 CGAACTGCAAACGCGTTTTG 59.776 50.000 33.05 26.38 46.57 2.44
97 98 4.603946 GCGGGATGCGGGGTCTAC 62.604 72.222 0.00 0.00 0.00 2.59
98 99 2.838225 CGGGATGCGGGGTCTACT 60.838 66.667 0.00 0.00 0.00 2.57
99 100 1.529948 CGGGATGCGGGGTCTACTA 60.530 63.158 0.00 0.00 0.00 1.82
100 101 1.524863 CGGGATGCGGGGTCTACTAG 61.525 65.000 0.00 0.00 0.00 2.57
101 102 0.178970 GGGATGCGGGGTCTACTAGA 60.179 60.000 0.00 0.00 0.00 2.43
102 103 1.249407 GGATGCGGGGTCTACTAGAG 58.751 60.000 0.00 0.00 0.00 2.43
103 104 1.479021 GGATGCGGGGTCTACTAGAGT 60.479 57.143 0.00 0.00 0.00 3.24
104 105 2.308690 GATGCGGGGTCTACTAGAGTT 58.691 52.381 0.00 0.00 0.00 3.01
105 106 1.471119 TGCGGGGTCTACTAGAGTTG 58.529 55.000 0.00 0.00 0.00 3.16
106 107 0.102663 GCGGGGTCTACTAGAGTTGC 59.897 60.000 0.00 0.00 0.00 4.17
107 108 1.765230 CGGGGTCTACTAGAGTTGCT 58.235 55.000 0.00 0.00 0.00 3.91
108 109 2.100989 CGGGGTCTACTAGAGTTGCTT 58.899 52.381 0.00 0.00 0.00 3.91
109 110 2.496470 CGGGGTCTACTAGAGTTGCTTT 59.504 50.000 0.00 0.00 0.00 3.51
110 111 3.056035 CGGGGTCTACTAGAGTTGCTTTT 60.056 47.826 0.00 0.00 0.00 2.27
111 112 4.159135 CGGGGTCTACTAGAGTTGCTTTTA 59.841 45.833 0.00 0.00 0.00 1.52
112 113 5.662456 GGGGTCTACTAGAGTTGCTTTTAG 58.338 45.833 0.00 0.00 0.00 1.85
113 114 5.395435 GGGGTCTACTAGAGTTGCTTTTAGG 60.395 48.000 0.00 0.00 0.00 2.69
114 115 5.395435 GGGTCTACTAGAGTTGCTTTTAGGG 60.395 48.000 0.00 0.00 0.00 3.53
115 116 5.395435 GGTCTACTAGAGTTGCTTTTAGGGG 60.395 48.000 0.00 0.00 0.00 4.79
116 117 5.421374 GTCTACTAGAGTTGCTTTTAGGGGA 59.579 44.000 0.00 0.00 0.00 4.81
117 118 6.098552 GTCTACTAGAGTTGCTTTTAGGGGAT 59.901 42.308 0.00 0.00 0.00 3.85
118 119 5.104259 ACTAGAGTTGCTTTTAGGGGATG 57.896 43.478 0.00 0.00 0.00 3.51
119 120 3.372440 AGAGTTGCTTTTAGGGGATGG 57.628 47.619 0.00 0.00 0.00 3.51
120 121 2.919602 AGAGTTGCTTTTAGGGGATGGA 59.080 45.455 0.00 0.00 0.00 3.41
121 122 3.054065 AGAGTTGCTTTTAGGGGATGGAG 60.054 47.826 0.00 0.00 0.00 3.86
122 123 2.024941 AGTTGCTTTTAGGGGATGGAGG 60.025 50.000 0.00 0.00 0.00 4.30
123 124 1.979809 TGCTTTTAGGGGATGGAGGA 58.020 50.000 0.00 0.00 0.00 3.71
124 125 2.283834 TGCTTTTAGGGGATGGAGGAA 58.716 47.619 0.00 0.00 0.00 3.36
125 126 2.242196 TGCTTTTAGGGGATGGAGGAAG 59.758 50.000 0.00 0.00 0.00 3.46
129 130 2.400467 TAGGGGATGGAGGAAGTAGC 57.600 55.000 0.00 0.00 0.00 3.58
134 135 0.107643 GATGGAGGAAGTAGCTGCCC 59.892 60.000 0.00 0.00 26.23 5.36
165 167 2.423577 GAGTAGACACGTGGGCAAAAT 58.576 47.619 21.57 3.36 0.00 1.82
186 188 2.033602 GGGGGTCAAGGGTCAACG 59.966 66.667 0.00 0.00 0.00 4.10
187 189 2.826003 GGGGGTCAAGGGTCAACGT 61.826 63.158 0.00 0.00 0.00 3.99
209 211 5.004061 CGTCGTTGAAGTCGAAGCAATAATA 59.996 40.000 0.00 0.00 39.01 0.98
217 219 7.439356 TGAAGTCGAAGCAATAATAGAGGATTG 59.561 37.037 0.00 0.00 36.35 2.67
225 227 6.814506 CAATAATAGAGGATTGCTTCCCAG 57.185 41.667 3.00 0.00 46.81 4.45
228 230 0.918310 AGAGGATTGCTTCCCAGCCT 60.918 55.000 3.00 0.00 46.81 4.58
229 231 0.033699 GAGGATTGCTTCCCAGCCTT 60.034 55.000 3.00 0.00 46.81 4.35
236 252 2.281484 TTCCCAGCCTTGCACGTC 60.281 61.111 0.00 0.00 0.00 4.34
244 260 1.374125 CCTTGCACGTCGATCACCA 60.374 57.895 0.00 0.00 0.00 4.17
269 285 2.659610 GCCACGTCTTGCCTCTCT 59.340 61.111 0.00 0.00 0.00 3.10
273 289 0.730834 CACGTCTTGCCTCTCTCACG 60.731 60.000 0.00 0.00 0.00 4.35
274 290 1.803519 CGTCTTGCCTCTCTCACGC 60.804 63.158 0.00 0.00 0.00 5.34
275 291 1.290324 GTCTTGCCTCTCTCACGCA 59.710 57.895 0.00 0.00 0.00 5.24
276 292 0.108424 GTCTTGCCTCTCTCACGCAT 60.108 55.000 0.00 0.00 31.44 4.73
277 293 0.108472 TCTTGCCTCTCTCACGCATG 60.108 55.000 0.00 0.00 31.44 4.06
280 315 1.402787 TGCCTCTCTCACGCATGATA 58.597 50.000 0.00 0.00 33.22 2.15
322 358 0.104120 TGACACACACACCTTCTCCG 59.896 55.000 0.00 0.00 0.00 4.63
323 359 0.387929 GACACACACACCTTCTCCGA 59.612 55.000 0.00 0.00 0.00 4.55
325 361 1.416401 ACACACACACCTTCTCCGAAT 59.584 47.619 0.00 0.00 0.00 3.34
336 372 5.239525 CACCTTCTCCGAATCAAGAAAAACT 59.760 40.000 0.00 0.00 31.45 2.66
454 490 0.041982 AGGAGAACCTGGAGTCCCTC 59.958 60.000 6.74 5.28 45.92 4.30
479 518 1.188219 GCTCCTCAGAGTCCACACCA 61.188 60.000 0.00 0.00 42.59 4.17
493 532 3.148279 ACCATCGTCGAGGAGGCC 61.148 66.667 13.89 0.00 0.00 5.19
545 584 1.373873 CTGCAGCTCAAGACGCTCA 60.374 57.895 0.00 0.00 35.07 4.26
550 589 1.372997 GCTCAAGACGCTCACGGAA 60.373 57.895 0.00 0.00 46.04 4.30
553 592 2.048127 AAGACGCTCACGGAAGCC 60.048 61.111 5.81 0.00 46.04 4.35
559 598 0.530650 CGCTCACGGAAGCCATGTAT 60.531 55.000 5.81 0.00 39.17 2.29
561 600 1.473257 GCTCACGGAAGCCATGTATCA 60.473 52.381 0.12 0.00 36.22 2.15
612 651 1.953231 CTGGAGCAGATCGGAGCACA 61.953 60.000 9.84 7.49 32.44 4.57
653 692 4.566278 CCTCACACTCCATGGATTTCAGAA 60.566 45.833 16.63 0.00 0.00 3.02
655 694 4.286808 TCACACTCCATGGATTTCAGAAGA 59.713 41.667 16.63 3.05 0.00 2.87
659 698 5.884232 CACTCCATGGATTTCAGAAGATTCA 59.116 40.000 16.63 0.00 0.00 2.57
660 699 6.038382 CACTCCATGGATTTCAGAAGATTCAG 59.962 42.308 16.63 0.00 0.00 3.02
668 707 6.183360 GGATTTCAGAAGATTCAGTAGCACAC 60.183 42.308 0.00 0.00 0.00 3.82
677 716 2.747855 GTAGCACACCTGCCAGCC 60.748 66.667 0.00 0.00 45.53 4.85
710 749 2.413963 GCGCTGAGAGCTCTGGAGA 61.414 63.158 23.91 0.81 39.60 3.71
719 758 3.074999 GCTCTGGAGACCGCCTCTG 62.075 68.421 1.35 0.00 41.66 3.35
817 856 1.790755 TCGACAACTTCATGTTCGGG 58.209 50.000 0.00 0.00 36.63 5.14
868 907 2.046023 TTGATGCAGGACGGCCAG 60.046 61.111 11.69 0.75 36.29 4.85
986 1025 0.249238 CTCTCGCTTCCCTTCCATCG 60.249 60.000 0.00 0.00 0.00 3.84
1015 1054 0.249238 ACGGATGCGAGATTCAGAGC 60.249 55.000 15.49 0.00 0.00 4.09
1064 1128 4.508128 CCGGTCGGACGTGGATGG 62.508 72.222 11.41 0.00 37.50 3.51
1068 1132 4.451150 TCGGACGTGGATGGCAGC 62.451 66.667 0.00 0.00 0.00 5.25
1097 1161 2.811317 GTTCCACTCGCTGCTCCG 60.811 66.667 0.00 0.00 0.00 4.63
1294 1358 2.105806 GATAGGGAAGGAGCTGGCGG 62.106 65.000 0.00 0.00 0.00 6.13
1311 1375 2.029666 GCGATGATGGAGGGGTCG 59.970 66.667 0.00 0.00 35.56 4.79
1320 1384 4.148825 GAGGGGTCGCTCGTGCAT 62.149 66.667 10.43 0.00 39.64 3.96
1323 1387 2.887568 GGGTCGCTCGTGCATCTG 60.888 66.667 10.43 0.00 39.64 2.90
1339 1403 3.838120 CATCTGAACGTCTACTCAAGCA 58.162 45.455 0.00 0.00 0.00 3.91
1379 1443 4.379243 CCAGTTCTGGAGCCGCGT 62.379 66.667 13.02 0.00 0.00 6.01
1393 1457 0.666274 CCGCGTTCTGAAGCTGTACA 60.666 55.000 4.92 0.00 0.00 2.90
1401 1465 2.030185 TCTGAAGCTGTACAGAACGGTC 60.030 50.000 27.08 14.21 39.68 4.79
1410 1474 1.811266 CAGAACGGTCATGGAGGCG 60.811 63.158 1.87 0.00 0.00 5.52
1454 1518 2.239400 TCCGAGAGCTCTTCTTGACAA 58.761 47.619 19.36 0.00 39.36 3.18
1467 1531 1.723608 TTGACAAAGGCAGCACCGTG 61.724 55.000 0.00 0.00 46.52 4.94
1470 1534 2.594592 AAAGGCAGCACCGTGGAC 60.595 61.111 0.00 0.00 46.52 4.02
1482 1546 0.250727 CCGTGGACATCACCAGGTTT 60.251 55.000 0.00 0.00 43.23 3.27
1519 1586 4.697756 CTGCCCCGCTTCGGTTCA 62.698 66.667 4.47 1.26 46.80 3.18
1522 1589 2.046314 CCCCGCTTCGGTTCATGT 60.046 61.111 4.47 0.00 46.80 3.21
1552 1619 2.585153 GAAGGGGCTCTTCCGGAC 59.415 66.667 16.52 0.00 44.60 4.79
1553 1620 3.009714 AAGGGGCTCTTCCGGACC 61.010 66.667 1.83 0.75 34.94 4.46
1554 1621 3.864983 AAGGGGCTCTTCCGGACCA 62.865 63.158 1.83 0.00 34.94 4.02
1555 1622 3.787001 GGGGCTCTTCCGGACCAG 61.787 72.222 1.83 3.64 34.94 4.00
1556 1623 3.787001 GGGCTCTTCCGGACCAGG 61.787 72.222 1.83 0.00 34.94 4.45
1557 1624 2.683933 GGCTCTTCCGGACCAGGA 60.684 66.667 1.83 0.00 38.79 3.86
1567 1634 1.536662 GGACCAGGACCAGGTGAGT 60.537 63.158 14.30 0.00 40.09 3.41
1617 1684 1.073897 AGGCTCTGTTGTTCTGCCC 59.926 57.895 0.00 0.00 44.19 5.36
1641 1708 0.109342 AGTTTGAGCTGGTGTGGGAG 59.891 55.000 0.00 0.00 0.00 4.30
1668 1735 1.221566 GCCCCCGTACACCGTTATT 59.778 57.895 0.00 0.00 33.66 1.40
1671 1738 1.207811 CCCCCGTACACCGTTATTTCT 59.792 52.381 0.00 0.00 33.66 2.52
1677 1744 1.530323 ACACCGTTATTTCTGGCACC 58.470 50.000 0.00 0.00 0.00 5.01
1747 1814 5.460748 CGCCGTACATAATGTATGTTTCTGA 59.539 40.000 8.47 0.00 46.69 3.27
1748 1815 6.561533 CGCCGTACATAATGTATGTTTCTGAC 60.562 42.308 8.47 1.11 46.69 3.51
1757 1824 4.580868 TGTATGTTTCTGACGGCCATTAA 58.419 39.130 2.24 0.00 0.00 1.40
1788 1855 2.349590 CATCTGCCTCGTGATGTGAAA 58.650 47.619 0.00 0.00 36.32 2.69
1789 1856 2.542020 TCTGCCTCGTGATGTGAAAA 57.458 45.000 0.00 0.00 0.00 2.29
1793 1860 2.743664 TGCCTCGTGATGTGAAAATCAG 59.256 45.455 0.00 0.00 37.24 2.90
1794 1861 2.096496 GCCTCGTGATGTGAAAATCAGG 59.904 50.000 1.46 1.46 41.59 3.86
1795 1862 2.679837 CCTCGTGATGTGAAAATCAGGG 59.320 50.000 6.94 0.00 40.94 4.45
1797 1864 1.745087 CGTGATGTGAAAATCAGGGGG 59.255 52.381 0.00 0.00 38.30 5.40
1799 1866 3.019564 GTGATGTGAAAATCAGGGGGAG 58.980 50.000 0.00 0.00 37.24 4.30
1802 1869 1.786441 TGTGAAAATCAGGGGGAGGTT 59.214 47.619 0.00 0.00 0.00 3.50
1803 1870 2.990284 TGTGAAAATCAGGGGGAGGTTA 59.010 45.455 0.00 0.00 0.00 2.85
1804 1871 3.010138 TGTGAAAATCAGGGGGAGGTTAG 59.990 47.826 0.00 0.00 0.00 2.34
1805 1872 3.010250 GTGAAAATCAGGGGGAGGTTAGT 59.990 47.826 0.00 0.00 0.00 2.24
1806 1873 3.660669 TGAAAATCAGGGGGAGGTTAGTT 59.339 43.478 0.00 0.00 0.00 2.24
1807 1874 4.853276 TGAAAATCAGGGGGAGGTTAGTTA 59.147 41.667 0.00 0.00 0.00 2.24
1808 1875 5.045140 TGAAAATCAGGGGGAGGTTAGTTAG 60.045 44.000 0.00 0.00 0.00 2.34
1809 1876 4.363546 AATCAGGGGGAGGTTAGTTAGA 57.636 45.455 0.00 0.00 0.00 2.10
1810 1877 3.858696 TCAGGGGGAGGTTAGTTAGAA 57.141 47.619 0.00 0.00 0.00 2.10
1811 1878 4.150516 TCAGGGGGAGGTTAGTTAGAAA 57.849 45.455 0.00 0.00 0.00 2.52
1813 1880 4.101856 CAGGGGGAGGTTAGTTAGAAAGA 58.898 47.826 0.00 0.00 0.00 2.52
1815 1882 5.013808 CAGGGGGAGGTTAGTTAGAAAGAAA 59.986 44.000 0.00 0.00 0.00 2.52
1816 1883 5.251005 AGGGGGAGGTTAGTTAGAAAGAAAG 59.749 44.000 0.00 0.00 0.00 2.62
1818 1885 6.240089 GGGGGAGGTTAGTTAGAAAGAAAGAA 60.240 42.308 0.00 0.00 0.00 2.52
1819 1886 7.403671 GGGGAGGTTAGTTAGAAAGAAAGAAT 58.596 38.462 0.00 0.00 0.00 2.40
1820 1887 7.553402 GGGGAGGTTAGTTAGAAAGAAAGAATC 59.447 40.741 0.00 0.00 0.00 2.52
1822 1889 8.322828 GGAGGTTAGTTAGAAAGAAAGAATCCT 58.677 37.037 0.00 0.00 0.00 3.24
1846 3221 7.493320 CCTAGTTAGGATGTAATTGCGTGTAAA 59.507 37.037 0.00 0.00 46.63 2.01
1848 3223 8.276252 AGTTAGGATGTAATTGCGTGTAAATT 57.724 30.769 0.00 0.00 0.00 1.82
1863 3238 9.841880 TGCGTGTAAATTTTTATATGTTTAGCA 57.158 25.926 0.00 0.00 0.00 3.49
1943 3374 2.811431 CGTGGAGTGGAGTGCAAAATAA 59.189 45.455 0.00 0.00 0.00 1.40
1947 3378 5.472137 GTGGAGTGGAGTGCAAAATAAACTA 59.528 40.000 0.00 0.00 0.00 2.24
1974 3406 4.576216 TCTGTTCACTTCTCAGTCACTC 57.424 45.455 0.00 0.00 0.00 3.51
1992 3424 0.608640 TCGGGAGAGACAAAAGCCTC 59.391 55.000 0.00 0.00 0.00 4.70
2019 3451 7.207383 GCTCAACTAAAACAATACCCAACTTT 58.793 34.615 0.00 0.00 0.00 2.66
2039 3471 7.375106 ACTTTCAGCTTCTAATTGTCATGAG 57.625 36.000 0.00 0.00 0.00 2.90
2072 3540 9.971922 ATAAACTGTACAAACTAAAGTACGACT 57.028 29.630 0.00 0.00 42.62 4.18
2094 3570 0.957395 CAGTGGTTGCCGCTCAAGAT 60.957 55.000 0.00 0.00 43.13 2.40
2101 3577 0.528466 TGCCGCTCAAGATGATCGAC 60.528 55.000 5.29 0.00 38.15 4.20
2109 3585 0.668535 AAGATGATCGACGATCCGCA 59.331 50.000 29.72 16.11 38.20 5.69
2123 3599 1.388547 TCCGCACAGCCATTATTTCC 58.611 50.000 0.00 0.00 0.00 3.13
2137 3613 5.447954 CCATTATTTCCATTTACACGCGACA 60.448 40.000 15.93 0.00 0.00 4.35
2139 3615 3.965292 TTTCCATTTACACGCGACAAA 57.035 38.095 15.93 10.10 0.00 2.83
2161 3656 2.791927 TCGATCCACAGCTCGACG 59.208 61.111 0.00 0.00 38.86 5.12
2176 3671 1.266989 TCGACGGATCAATGATCGAGG 59.733 52.381 16.10 10.65 39.72 4.63
2182 3677 3.668226 CGGATCAATGATCGAGGACGTAG 60.668 52.174 16.10 0.00 39.72 3.51
2231 3735 4.841246 AGTCATCAAGGTACTCTCCAAAGT 59.159 41.667 0.00 0.00 38.49 2.66
2244 3748 1.649815 CAAAGTTAACGGCGCCACA 59.350 52.632 28.98 7.48 0.00 4.17
2291 3795 4.785453 GGTCGGGCCAAGCAGGAG 62.785 72.222 4.39 0.00 41.22 3.69
2431 3944 3.173240 GCGTCTTCGTCGACCAGC 61.173 66.667 10.58 3.05 39.49 4.85
2436 3949 2.357034 TTCGTCGACCAGCTTGGC 60.357 61.111 10.58 0.00 42.67 4.52
2439 3952 2.665185 GTCGACCAGCTTGGCGTT 60.665 61.111 13.41 0.00 42.67 4.84
2440 3953 2.357034 TCGACCAGCTTGGCGTTC 60.357 61.111 13.41 0.00 42.67 3.95
2441 3954 2.664851 CGACCAGCTTGGCGTTCA 60.665 61.111 4.55 0.00 42.67 3.18
2442 3955 2.250939 CGACCAGCTTGGCGTTCAA 61.251 57.895 4.55 0.00 42.67 2.69
2450 3963 0.443869 CTTGGCGTTCAAGGTCATCG 59.556 55.000 11.20 0.00 46.81 3.84
2455 3968 0.982673 CGTTCAAGGTCATCGTCGTC 59.017 55.000 0.00 0.00 0.00 4.20
2556 4081 4.101448 GCCGGTGAGGTGGAGCAT 62.101 66.667 1.90 0.00 43.70 3.79
2730 4261 0.382636 CGGAAGAAACACGTTCACGC 60.383 55.000 0.00 0.00 44.43 5.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.985614 CACAGATGCAGACCCCTCA 59.014 57.895 0.00 0.00 0.00 3.86
26 27 4.764336 GTTTTTACGGGCCGGCGC 62.764 66.667 32.10 32.10 0.00 6.53
27 28 4.448594 CGTTTTTACGGGCCGGCG 62.449 66.667 31.78 18.86 0.00 6.46
35 36 2.438583 TCGTGCAAAACCGTTTTTACG 58.561 42.857 24.03 24.03 39.75 3.18
36 37 3.853103 AGTTCGTGCAAAACCGTTTTTAC 59.147 39.130 6.51 8.26 32.90 2.01
37 38 3.852536 CAGTTCGTGCAAAACCGTTTTTA 59.147 39.130 6.51 0.00 32.90 1.52
38 39 2.664085 CAGTTCGTGCAAAACCGTTTTT 59.336 40.909 6.51 0.00 35.15 1.94
39 40 2.255316 CAGTTCGTGCAAAACCGTTTT 58.745 42.857 3.29 3.29 0.00 2.43
40 41 1.902840 CAGTTCGTGCAAAACCGTTT 58.097 45.000 9.07 0.00 0.00 3.60
41 42 3.615099 CAGTTCGTGCAAAACCGTT 57.385 47.368 9.07 0.00 0.00 4.44
51 52 0.859788 AAACGCGTTTGCAGTTCGTG 60.860 50.000 34.36 15.35 42.97 4.35
52 53 0.179184 AAAACGCGTTTGCAGTTCGT 60.179 45.000 35.31 16.10 42.97 3.85
53 54 0.223513 CAAAACGCGTTTGCAGTTCG 59.776 50.000 35.31 15.11 40.25 3.95
80 81 4.603946 GTAGACCCCGCATCCCGC 62.604 72.222 0.00 0.00 35.03 6.13
81 82 1.524863 CTAGTAGACCCCGCATCCCG 61.525 65.000 0.00 0.00 0.00 5.14
82 83 0.178970 TCTAGTAGACCCCGCATCCC 60.179 60.000 0.00 0.00 0.00 3.85
83 84 1.249407 CTCTAGTAGACCCCGCATCC 58.751 60.000 0.00 0.00 0.00 3.51
84 85 1.984066 ACTCTAGTAGACCCCGCATC 58.016 55.000 0.00 0.00 0.00 3.91
85 86 2.032620 CAACTCTAGTAGACCCCGCAT 58.967 52.381 0.00 0.00 0.00 4.73
86 87 1.471119 CAACTCTAGTAGACCCCGCA 58.529 55.000 0.00 0.00 0.00 5.69
87 88 0.102663 GCAACTCTAGTAGACCCCGC 59.897 60.000 0.00 0.00 0.00 6.13
88 89 1.765230 AGCAACTCTAGTAGACCCCG 58.235 55.000 0.00 0.00 0.00 5.73
89 90 4.554960 AAAAGCAACTCTAGTAGACCCC 57.445 45.455 0.00 0.00 0.00 4.95
90 91 5.395435 CCCTAAAAGCAACTCTAGTAGACCC 60.395 48.000 0.00 0.00 0.00 4.46
91 92 5.395435 CCCCTAAAAGCAACTCTAGTAGACC 60.395 48.000 0.00 0.00 0.00 3.85
92 93 5.421374 TCCCCTAAAAGCAACTCTAGTAGAC 59.579 44.000 0.00 0.00 0.00 2.59
93 94 5.586877 TCCCCTAAAAGCAACTCTAGTAGA 58.413 41.667 0.00 0.00 0.00 2.59
94 95 5.934402 TCCCCTAAAAGCAACTCTAGTAG 57.066 43.478 0.00 0.00 0.00 2.57
95 96 5.130477 CCATCCCCTAAAAGCAACTCTAGTA 59.870 44.000 0.00 0.00 0.00 1.82
96 97 4.080299 CCATCCCCTAAAAGCAACTCTAGT 60.080 45.833 0.00 0.00 0.00 2.57
97 98 4.164221 TCCATCCCCTAAAAGCAACTCTAG 59.836 45.833 0.00 0.00 0.00 2.43
98 99 4.108570 TCCATCCCCTAAAAGCAACTCTA 58.891 43.478 0.00 0.00 0.00 2.43
99 100 2.919602 TCCATCCCCTAAAAGCAACTCT 59.080 45.455 0.00 0.00 0.00 3.24
100 101 3.282885 CTCCATCCCCTAAAAGCAACTC 58.717 50.000 0.00 0.00 0.00 3.01
101 102 2.024941 CCTCCATCCCCTAAAAGCAACT 60.025 50.000 0.00 0.00 0.00 3.16
102 103 2.025321 TCCTCCATCCCCTAAAAGCAAC 60.025 50.000 0.00 0.00 0.00 4.17
103 104 2.283834 TCCTCCATCCCCTAAAAGCAA 58.716 47.619 0.00 0.00 0.00 3.91
104 105 1.979809 TCCTCCATCCCCTAAAAGCA 58.020 50.000 0.00 0.00 0.00 3.91
105 106 2.242452 ACTTCCTCCATCCCCTAAAAGC 59.758 50.000 0.00 0.00 0.00 3.51
106 107 4.445019 GCTACTTCCTCCATCCCCTAAAAG 60.445 50.000 0.00 0.00 0.00 2.27
107 108 3.458487 GCTACTTCCTCCATCCCCTAAAA 59.542 47.826 0.00 0.00 0.00 1.52
108 109 3.046374 GCTACTTCCTCCATCCCCTAAA 58.954 50.000 0.00 0.00 0.00 1.85
109 110 2.250273 AGCTACTTCCTCCATCCCCTAA 59.750 50.000 0.00 0.00 0.00 2.69
110 111 1.866943 AGCTACTTCCTCCATCCCCTA 59.133 52.381 0.00 0.00 0.00 3.53
111 112 0.644937 AGCTACTTCCTCCATCCCCT 59.355 55.000 0.00 0.00 0.00 4.79
112 113 0.761802 CAGCTACTTCCTCCATCCCC 59.238 60.000 0.00 0.00 0.00 4.81
113 114 0.107643 GCAGCTACTTCCTCCATCCC 59.892 60.000 0.00 0.00 0.00 3.85
114 115 0.107643 GGCAGCTACTTCCTCCATCC 59.892 60.000 0.00 0.00 0.00 3.51
115 116 0.107643 GGGCAGCTACTTCCTCCATC 59.892 60.000 0.00 0.00 0.00 3.51
116 117 0.621571 TGGGCAGCTACTTCCTCCAT 60.622 55.000 0.00 0.00 0.00 3.41
117 118 1.229496 TGGGCAGCTACTTCCTCCA 60.229 57.895 0.00 0.00 0.00 3.86
118 119 1.524482 CTGGGCAGCTACTTCCTCC 59.476 63.158 0.00 0.00 0.00 4.30
119 120 1.268283 ACCTGGGCAGCTACTTCCTC 61.268 60.000 0.00 0.00 0.00 3.71
120 121 1.229658 ACCTGGGCAGCTACTTCCT 60.230 57.895 0.00 0.00 0.00 3.36
121 122 1.222113 GACCTGGGCAGCTACTTCC 59.778 63.158 0.00 0.00 0.00 3.46
122 123 0.543749 ATGACCTGGGCAGCTACTTC 59.456 55.000 8.85 0.00 0.00 3.01
123 124 0.995024 AATGACCTGGGCAGCTACTT 59.005 50.000 8.85 0.00 0.00 2.24
124 125 1.765314 CTAATGACCTGGGCAGCTACT 59.235 52.381 8.85 0.00 0.00 2.57
125 126 1.202698 CCTAATGACCTGGGCAGCTAC 60.203 57.143 8.85 0.00 0.00 3.58
129 130 1.207791 ACTCCTAATGACCTGGGCAG 58.792 55.000 8.85 0.00 0.00 4.85
134 135 3.695060 ACGTGTCTACTCCTAATGACCTG 59.305 47.826 0.00 0.00 0.00 4.00
186 188 4.640805 TTATTGCTTCGACTTCAACGAC 57.359 40.909 0.00 0.00 39.46 4.34
187 189 6.327154 TCTATTATTGCTTCGACTTCAACGA 58.673 36.000 0.00 0.00 37.99 3.85
217 219 3.741476 CGTGCAAGGCTGGGAAGC 61.741 66.667 0.00 0.00 0.00 3.86
219 221 2.281484 GACGTGCAAGGCTGGGAA 60.281 61.111 4.26 0.00 0.00 3.97
224 226 1.738099 GTGATCGACGTGCAAGGCT 60.738 57.895 3.38 0.00 0.00 4.58
225 227 2.740714 GGTGATCGACGTGCAAGGC 61.741 63.158 4.26 0.00 0.00 4.35
228 230 0.530870 TTGTGGTGATCGACGTGCAA 60.531 50.000 0.00 0.00 0.00 4.08
229 231 0.320334 ATTGTGGTGATCGACGTGCA 60.320 50.000 0.00 0.00 0.00 4.57
236 252 2.321060 GCGCGATTGTGGTGATCG 59.679 61.111 12.10 2.40 46.75 3.69
244 260 2.357034 AAGACGTGGCGCGATTGT 60.357 55.556 28.85 3.78 44.77 2.71
269 285 1.490621 CGCTCACATATCATGCGTGA 58.509 50.000 11.83 11.83 41.45 4.35
273 289 2.347939 CGAACACGCTCACATATCATGC 60.348 50.000 0.00 0.00 0.00 4.06
274 290 2.860136 ACGAACACGCTCACATATCATG 59.140 45.455 0.00 0.00 0.00 3.07
275 291 3.116300 GACGAACACGCTCACATATCAT 58.884 45.455 0.00 0.00 0.00 2.45
276 292 2.163613 AGACGAACACGCTCACATATCA 59.836 45.455 0.00 0.00 0.00 2.15
277 293 2.784380 GAGACGAACACGCTCACATATC 59.216 50.000 0.00 0.00 33.76 1.63
280 315 0.729478 CGAGACGAACACGCTCACAT 60.729 55.000 0.00 0.00 33.45 3.21
313 349 5.377478 AGTTTTTCTTGATTCGGAGAAGGT 58.623 37.500 3.50 0.00 45.90 3.50
314 350 5.470098 TGAGTTTTTCTTGATTCGGAGAAGG 59.530 40.000 3.50 0.00 45.90 3.46
315 351 6.545504 TGAGTTTTTCTTGATTCGGAGAAG 57.454 37.500 3.50 0.00 45.90 2.85
322 358 7.275123 GCAATCTCCATGAGTTTTTCTTGATTC 59.725 37.037 0.00 0.00 33.87 2.52
323 359 7.095270 GCAATCTCCATGAGTTTTTCTTGATT 58.905 34.615 0.00 0.00 33.87 2.57
325 361 5.047802 GGCAATCTCCATGAGTTTTTCTTGA 60.048 40.000 0.00 0.00 33.87 3.02
426 462 2.037251 TCCAGGTTCTCCTTCTTGTTCG 59.963 50.000 0.00 0.00 43.07 3.95
429 465 2.635427 GACTCCAGGTTCTCCTTCTTGT 59.365 50.000 0.00 0.00 43.07 3.16
479 518 2.902846 CTCGGCCTCCTCGACGAT 60.903 66.667 0.00 0.00 34.60 3.73
493 532 4.655527 GTGATGTATCGCCCCTCG 57.344 61.111 0.00 0.00 40.15 4.63
536 575 2.048127 GGCTTCCGTGAGCGTCTT 60.048 61.111 1.78 0.00 43.62 3.01
545 584 0.469917 CCCTGATACATGGCTTCCGT 59.530 55.000 0.00 0.00 0.00 4.69
550 589 1.048601 CGTACCCCTGATACATGGCT 58.951 55.000 0.00 0.00 0.00 4.75
553 592 1.602165 GCGTCGTACCCCTGATACATG 60.602 57.143 0.00 0.00 0.00 3.21
590 629 2.444706 TCCGATCTGCTCCAGGGG 60.445 66.667 0.00 0.00 31.51 4.79
635 674 5.884232 TGAATCTTCTGAAATCCATGGAGTG 59.116 40.000 21.33 6.12 0.00 3.51
668 707 2.360852 CACCTCTTGGCTGGCAGG 60.361 66.667 17.64 7.02 36.63 4.85
677 716 3.114616 CGCGGTCTGCACCTCTTG 61.115 66.667 4.16 0.00 46.97 3.02
694 733 1.815866 GGTCTCCAGAGCTCTCAGC 59.184 63.158 14.96 8.79 42.84 4.26
737 776 4.292178 GCCTGCTAGGAGCGCGAT 62.292 66.667 12.10 1.23 46.26 4.58
788 827 4.594123 TGAAGTTGTCGATGTGAAGGTA 57.406 40.909 0.00 0.00 0.00 3.08
986 1025 2.879462 GCATCCGTCGACGTGGAC 60.879 66.667 33.49 19.53 37.02 4.02
1015 1054 1.927174 GATCAAAGTCCACGGTCGATG 59.073 52.381 0.00 0.00 0.00 3.84
1079 1143 2.435059 GGAGCAGCGAGTGGAACC 60.435 66.667 0.00 0.00 37.80 3.62
1085 1149 3.821055 GAGCTCGGAGCAGCGAGT 61.821 66.667 29.88 9.79 45.56 4.18
1272 1336 1.055040 CCAGCTCCTTCCCTATCAGG 58.945 60.000 0.00 0.00 34.30 3.86
1294 1358 2.029666 CGACCCCTCCATCATCGC 59.970 66.667 0.00 0.00 0.00 4.58
1311 1375 0.734253 AGACGTTCAGATGCACGAGC 60.734 55.000 11.80 0.00 36.84 5.03
1320 1384 3.838120 CATGCTTGAGTAGACGTTCAGA 58.162 45.455 0.00 0.00 0.00 3.27
1323 1387 2.346847 CAGCATGCTTGAGTAGACGTTC 59.653 50.000 19.98 0.00 0.00 3.95
1339 1403 2.957402 TTCAGGTTGTTCCTCAGCAT 57.043 45.000 0.00 0.00 46.24 3.79
1379 1443 2.364324 ACCGTTCTGTACAGCTTCAGAA 59.636 45.455 18.45 16.73 44.80 3.02
1393 1457 1.541310 TTCGCCTCCATGACCGTTCT 61.541 55.000 0.00 0.00 0.00 3.01
1401 1465 1.450312 GGACAGGTTCGCCTCCATG 60.450 63.158 0.00 0.00 46.86 3.66
1434 1498 1.911057 TGTCAAGAAGAGCTCTCGGA 58.089 50.000 18.55 9.44 31.02 4.55
1454 1518 3.196207 ATGTCCACGGTGCTGCCTT 62.196 57.895 1.68 0.00 34.25 4.35
1467 1531 0.521735 GCGAAAACCTGGTGATGTCC 59.478 55.000 0.00 0.00 0.00 4.02
1470 1534 1.234615 ACGGCGAAAACCTGGTGATG 61.235 55.000 16.62 0.00 0.00 3.07
1515 1582 1.131126 CCACCGATCAGCAACATGAAC 59.869 52.381 0.00 0.00 31.76 3.18
1518 1585 1.399440 CTTCCACCGATCAGCAACATG 59.601 52.381 0.00 0.00 0.00 3.21
1519 1586 1.679944 CCTTCCACCGATCAGCAACAT 60.680 52.381 0.00 0.00 0.00 2.71
1522 1589 1.299648 CCCTTCCACCGATCAGCAA 59.700 57.895 0.00 0.00 0.00 3.91
1551 1618 1.128188 GGAACTCACCTGGTCCTGGT 61.128 60.000 14.54 14.54 36.11 4.00
1552 1619 1.679898 GGAACTCACCTGGTCCTGG 59.320 63.158 13.13 13.13 0.00 4.45
1553 1620 1.679898 GGGAACTCACCTGGTCCTG 59.320 63.158 0.00 0.00 0.00 3.86
1554 1621 1.539124 GGGGAACTCACCTGGTCCT 60.539 63.158 0.00 0.00 36.20 3.85
1555 1622 1.842381 CTGGGGAACTCACCTGGTCC 61.842 65.000 0.00 0.00 41.04 4.46
1556 1623 1.679898 CTGGGGAACTCACCTGGTC 59.320 63.158 0.00 0.00 41.04 4.02
1557 1624 3.906980 CTGGGGAACTCACCTGGT 58.093 61.111 0.00 0.00 41.04 4.00
1567 1634 1.999295 TCCAAATGTCATCCTGGGGAA 59.001 47.619 12.00 0.00 34.34 3.97
1597 1664 0.250467 GGCAGAACAACAGAGCCTGA 60.250 55.000 8.91 0.00 42.01 3.86
1617 1684 2.030540 CCACACCAGCTCAAACTTCATG 60.031 50.000 0.00 0.00 0.00 3.07
1656 1723 2.417586 GGTGCCAGAAATAACGGTGTAC 59.582 50.000 0.00 0.00 0.00 2.90
1668 1735 2.280797 GCGACACAGGTGCCAGAA 60.281 61.111 0.00 0.00 0.00 3.02
1747 1814 1.280710 TCCTGACACATTAATGGCCGT 59.719 47.619 19.37 12.73 0.00 5.68
1748 1815 1.670811 GTCCTGACACATTAATGGCCG 59.329 52.381 19.37 9.79 0.00 6.13
1788 1855 4.363546 TCTAACTAACCTCCCCCTGATT 57.636 45.455 0.00 0.00 0.00 2.57
1789 1856 4.363546 TTCTAACTAACCTCCCCCTGAT 57.636 45.455 0.00 0.00 0.00 2.90
1793 1860 5.250082 TCTTTCTTTCTAACTAACCTCCCCC 59.750 44.000 0.00 0.00 0.00 5.40
1794 1861 6.370186 TCTTTCTTTCTAACTAACCTCCCC 57.630 41.667 0.00 0.00 0.00 4.81
1795 1862 7.553402 GGATTCTTTCTTTCTAACTAACCTCCC 59.447 40.741 0.00 0.00 0.00 4.30
1820 1887 5.357257 ACACGCAATTACATCCTAACTAGG 58.643 41.667 0.00 0.00 45.02 3.02
1822 1889 8.951787 ATTTACACGCAATTACATCCTAACTA 57.048 30.769 0.00 0.00 0.00 2.24
1823 1890 7.859325 ATTTACACGCAATTACATCCTAACT 57.141 32.000 0.00 0.00 0.00 2.24
1824 1891 8.905103 AAATTTACACGCAATTACATCCTAAC 57.095 30.769 0.00 0.00 0.00 2.34
1837 1904 9.841880 TGCTAAACATATAAAAATTTACACGCA 57.158 25.926 0.00 0.00 0.00 5.24
1873 3248 8.615878 TGTTTCTGAATTTCCTTCTATTCGAA 57.384 30.769 0.00 0.00 34.29 3.71
1874 3249 8.668353 CATGTTTCTGAATTTCCTTCTATTCGA 58.332 33.333 0.00 0.00 34.29 3.71
1875 3250 8.668353 TCATGTTTCTGAATTTCCTTCTATTCG 58.332 33.333 0.00 0.00 34.29 3.34
1879 3254 7.667219 AGCTTCATGTTTCTGAATTTCCTTCTA 59.333 33.333 0.00 0.00 34.76 2.10
1881 3256 6.685657 AGCTTCATGTTTCTGAATTTCCTTC 58.314 36.000 0.00 0.00 34.76 3.46
1883 3258 7.765695 TTAGCTTCATGTTTCTGAATTTCCT 57.234 32.000 0.00 0.00 34.76 3.36
1912 3343 4.082408 CACTCCACTCCACGACTTTATGTA 60.082 45.833 0.00 0.00 0.00 2.29
1943 3374 9.178758 ACTGAGAAGTGAACAGAATTTTTAGTT 57.821 29.630 0.00 0.00 35.85 2.24
1947 3378 7.337942 AGTGACTGAGAAGTGAACAGAATTTTT 59.662 33.333 0.00 0.00 35.85 1.94
1974 3406 3.145228 GAGGCTTTTGTCTCTCCCG 57.855 57.895 0.00 0.00 46.98 5.14
1990 3422 4.094442 GGGTATTGTTTTAGTTGAGCCGAG 59.906 45.833 0.00 0.00 0.00 4.63
1992 3424 3.754323 TGGGTATTGTTTTAGTTGAGCCG 59.246 43.478 0.00 0.00 0.00 5.52
2004 3436 5.140454 AGAAGCTGAAAGTTGGGTATTGTT 58.860 37.500 0.00 0.00 35.30 2.83
2019 3451 5.105063 CGTCTCATGACAATTAGAAGCTGA 58.895 41.667 0.00 0.00 43.06 4.26
2065 3533 1.615107 GCAACCACTGCGAGTCGTAC 61.615 60.000 15.08 0.00 42.37 3.67
2094 3570 1.064134 CTGTGCGGATCGTCGATCA 59.936 57.895 30.69 13.23 40.50 2.92
2101 3577 1.229428 AATAATGGCTGTGCGGATCG 58.771 50.000 0.00 0.00 0.00 3.69
2109 3585 5.678616 GCGTGTAAATGGAAATAATGGCTGT 60.679 40.000 0.00 0.00 0.00 4.40
2123 3599 2.159761 ACCGATTTGTCGCGTGTAAATG 60.160 45.455 17.61 10.06 0.00 2.32
2137 3613 0.537188 AGCTGTGGATCGACCGATTT 59.463 50.000 5.33 0.00 42.61 2.17
2139 3615 1.736586 GAGCTGTGGATCGACCGAT 59.263 57.895 4.42 4.42 42.61 4.18
2161 3656 2.802787 ACGTCCTCGATCATTGATCC 57.197 50.000 18.67 5.64 35.83 3.36
2205 3700 4.930696 TGGAGAGTACCTTGATGACTACA 58.069 43.478 0.00 0.00 0.00 2.74
2231 3735 1.080298 CAATACTGTGGCGCCGTTAA 58.920 50.000 23.90 6.34 0.00 2.01
2244 3748 2.234913 GACGTCCACCCGGCAATACT 62.235 60.000 3.51 0.00 35.41 2.12
2419 3932 2.357034 GCCAAGCTGGTCGACGAA 60.357 61.111 9.92 0.00 40.46 3.85
2436 3949 0.982673 GACGACGATGACCTTGAACG 59.017 55.000 0.00 0.00 0.00 3.95
2439 3952 0.109919 CACGACGACGATGACCTTGA 60.110 55.000 15.32 0.00 42.66 3.02
2440 3953 1.071019 CCACGACGACGATGACCTTG 61.071 60.000 15.32 0.00 42.66 3.61
2441 3954 1.211969 CCACGACGACGATGACCTT 59.788 57.895 15.32 0.00 42.66 3.50
2442 3955 1.919956 GACCACGACGACGATGACCT 61.920 60.000 15.32 0.00 42.66 3.85
2443 3956 1.513586 GACCACGACGACGATGACC 60.514 63.158 15.32 1.16 42.66 4.02
2444 3957 1.862147 CGACCACGACGACGATGAC 60.862 63.158 15.32 4.03 42.66 3.06
2445 3958 2.319841 ACGACCACGACGACGATGA 61.320 57.895 15.32 0.00 42.66 2.92
2446 3959 2.144069 CACGACCACGACGACGATG 61.144 63.158 15.32 8.41 42.66 3.84
2447 3960 2.175078 CACGACCACGACGACGAT 59.825 61.111 15.32 0.00 42.66 3.73
2448 3961 4.671549 GCACGACCACGACGACGA 62.672 66.667 15.32 0.00 42.66 4.20
2449 3962 4.678269 AGCACGACCACGACGACG 62.678 66.667 5.58 5.58 42.66 5.12
2450 3963 3.097728 CAGCACGACCACGACGAC 61.098 66.667 0.00 0.00 42.66 4.34
2552 4077 4.986645 TGTGGCGTCGCACATGCT 62.987 61.111 20.50 0.00 37.18 3.79
2554 4079 4.450122 GCTGTGGCGTCGCACATG 62.450 66.667 20.50 14.34 0.00 3.21
2672 4203 1.372997 CGCACAAGTACGACCAGCT 60.373 57.895 0.00 0.00 0.00 4.24


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

AutoCloner maintained by Alex Coulton.