Multiple sequence alignment - TraesCS6A01G165600

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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 TraesCS6A01G165600 chr6A 100.000 4699 0 0 1 4699 166800232 166804930 0.000000e+00 8678.0
1 TraesCS6A01G165600 chr6A 100.000 2217 0 0 4991 7207 166805222 166807438 0.000000e+00 4095.0
2 TraesCS6A01G165600 chr6D 97.404 3929 68 18 790 4699 132653779 132657692 0.000000e+00 6660.0
3 TraesCS6A01G165600 chr6D 96.602 1589 44 7 2251 3834 132683375 132684958 0.000000e+00 2627.0
4 TraesCS6A01G165600 chr6D 96.711 1581 35 10 4992 6560 132657945 132659520 0.000000e+00 2615.0
5 TraesCS6A01G165600 chr6D 97.140 1049 30 0 2786 3834 132632327 132633375 0.000000e+00 1772.0
6 TraesCS6A01G165600 chr6D 92.359 903 28 23 3 874 132652909 132653801 0.000000e+00 1247.0
7 TraesCS6A01G165600 chr6D 96.801 719 20 3 2067 2783 132631517 132632234 0.000000e+00 1197.0
8 TraesCS6A01G165600 chr6D 97.280 478 13 0 905 1382 132631045 132631522 0.000000e+00 811.0
9 TraesCS6A01G165600 chr6D 85.974 549 22 16 6699 7207 132659516 132660049 2.960000e-148 536.0
10 TraesCS6A01G165600 chr6D 91.489 188 12 4 917 1104 132683196 132683379 9.280000e-64 255.0
11 TraesCS6A01G165600 chr6D 93.525 139 8 1 6561 6699 419029791 419029928 9.480000e-49 206.0
12 TraesCS6A01G165600 chr5B 97.861 2618 44 7 2070 4679 108193800 108191187 0.000000e+00 4514.0
13 TraesCS6A01G165600 chr5B 97.694 1561 31 3 5003 6560 108190945 108189387 0.000000e+00 2678.0
14 TraesCS6A01G165600 chr5B 96.287 1535 50 7 2070 3602 108124318 108122789 0.000000e+00 2512.0
15 TraesCS6A01G165600 chr5B 95.481 1549 65 5 2288 3834 108165823 108164278 0.000000e+00 2468.0
16 TraesCS6A01G165600 chr5B 98.520 473 7 0 905 1377 108194273 108193801 0.000000e+00 835.0
17 TraesCS6A01G165600 chr5B 93.366 407 25 2 905 1310 108129282 108128877 1.030000e-167 601.0
18 TraesCS6A01G165600 chr5B 96.774 248 8 0 1135 1382 108167839 108167592 1.450000e-111 414.0
19 TraesCS6A01G165600 chr5B 97.500 200 5 0 2070 2269 108167594 108167395 6.920000e-90 342.0
20 TraesCS6A01G165600 chr5B 96.535 202 7 0 3633 3834 108122786 108122585 1.160000e-87 335.0
21 TraesCS6A01G165600 chr5B 94.359 195 8 1 905 1099 108168023 108167832 5.470000e-76 296.0
22 TraesCS6A01G165600 chr5B 93.836 146 8 1 6554 6699 563604685 563604541 1.220000e-52 219.0
23 TraesCS6A01G165600 chr5B 92.958 142 9 1 6561 6702 704507637 704507497 9.480000e-49 206.0
24 TraesCS6A01G165600 chr5B 91.538 130 3 4 1 124 108200796 108200669 9.610000e-39 172.0
25 TraesCS6A01G165600 chr5B 97.000 100 3 0 6781 6880 108189270 108189171 1.240000e-37 169.0
26 TraesCS6A01G165600 chr5B 92.793 111 4 1 113 219 108194434 108194324 2.690000e-34 158.0
27 TraesCS6A01G165600 chr5B 98.462 65 1 0 250 314 623209247 623209183 1.640000e-21 115.0
28 TraesCS6A01G165600 chr5B 98.462 65 1 0 250 314 623219201 623219137 1.640000e-21 115.0
29 TraesCS6A01G165600 chr5B 98.462 65 1 0 250 314 626871502 626871438 1.640000e-21 115.0
30 TraesCS6A01G165600 chr5B 82.645 121 15 5 1384 1501 550345952 550345835 1.280000e-17 102.0
31 TraesCS6A01G165600 chr5B 96.667 60 2 0 1323 1382 108124375 108124316 4.600000e-17 100.0
32 TraesCS6A01G165600 chr5B 83.333 126 4 5 7032 7145 108189112 108188992 4.600000e-17 100.0
33 TraesCS6A01G165600 chr5B 96.491 57 2 0 6504 6560 108189369 108189313 2.140000e-15 95.3
34 TraesCS6A01G165600 chr5B 93.023 43 3 0 1445 1487 100021232 100021190 6.040000e-06 63.9
35 TraesCS6A01G165600 chr3B 89.939 825 52 16 2070 2874 275007189 275006376 0.000000e+00 1035.0
36 TraesCS6A01G165600 chr3B 83.036 336 42 7 1751 2073 727320365 727320032 2.540000e-74 291.0
37 TraesCS6A01G165600 chr3B 91.837 147 10 2 6553 6699 10110427 10110283 3.410000e-48 204.0
38 TraesCS6A01G165600 chr3B 82.308 130 15 7 1375 1500 647986273 647986398 9.890000e-19 106.0
39 TraesCS6A01G165600 chr2B 83.380 716 76 23 1380 2075 162542453 162543145 2.210000e-174 623.0
40 TraesCS6A01G165600 chr2B 93.007 143 9 1 6557 6699 250888827 250888686 2.640000e-49 207.0
41 TraesCS6A01G165600 chr2B 80.632 253 32 8 1711 1959 98282569 98282808 5.740000e-41 180.0
42 TraesCS6A01G165600 chr2B 95.161 62 3 0 251 312 579961123 579961184 1.650000e-16 99.0
43 TraesCS6A01G165600 chr2A 82.735 724 79 21 1380 2076 113413735 113414439 2.880000e-168 603.0
44 TraesCS6A01G165600 chr1D 82.081 346 52 9 1711 2051 422870098 422870438 3.290000e-73 287.0
45 TraesCS6A01G165600 chr1D 94.161 137 7 1 6563 6699 445080046 445080181 2.640000e-49 207.0
46 TraesCS6A01G165600 chr1D 82.938 211 25 5 1874 2077 60427235 60427029 5.740000e-41 180.0
47 TraesCS6A01G165600 chr1B 76.867 549 70 35 375 908 632007572 632007066 2.580000e-64 257.0
48 TraesCS6A01G165600 chr1B 93.525 139 8 1 6561 6699 598200142 598200005 9.480000e-49 206.0
49 TraesCS6A01G165600 chr1B 91.837 147 10 2 6553 6699 182184998 182184854 3.410000e-48 204.0
50 TraesCS6A01G165600 chr1B 87.500 120 14 1 790 908 173132735 173132616 3.510000e-28 137.0
51 TraesCS6A01G165600 chr1B 90.411 73 5 2 243 313 400344281 400344353 2.140000e-15 95.3
52 TraesCS6A01G165600 chr7A 84.436 257 22 10 659 908 670757391 670757146 3.360000e-58 237.0
53 TraesCS6A01G165600 chr1A 76.336 524 56 37 437 908 551611093 551610586 1.220000e-52 219.0
54 TraesCS6A01G165600 chr1A 94.118 68 3 1 252 319 121139491 121139425 1.280000e-17 102.0
55 TraesCS6A01G165600 chr6B 92.466 146 9 2 6554 6699 680405572 680405715 2.640000e-49 207.0
56 TraesCS6A01G165600 chr7B 86.391 169 17 6 733 897 642278206 642278040 5.740000e-41 180.0
57 TraesCS6A01G165600 chr3A 85.714 168 20 4 1378 1543 125756641 125756476 2.670000e-39 174.0
58 TraesCS6A01G165600 chr7D 93.478 92 6 0 1382 1473 614665384 614665475 3.510000e-28 137.0
59 TraesCS6A01G165600 chr7D 85.714 112 13 3 1382 1492 317662521 317662630 1.640000e-21 115.0
60 TraesCS6A01G165600 chrUn 98.462 65 1 0 250 314 358481210 358481146 1.640000e-21 115.0
61 TraesCS6A01G165600 chr5D 93.548 62 4 0 253 314 420017119 420017180 7.700000e-15 93.5


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 TraesCS6A01G165600 chr6A 166800232 166807438 7206 False 6386.500000 8678 100.000000 1 7207 2 chr6A.!!$F1 7206
1 TraesCS6A01G165600 chr6D 132652909 132660049 7140 False 2764.500000 6660 93.112000 3 7207 4 chr6D.!!$F3 7204
2 TraesCS6A01G165600 chr6D 132683196 132684958 1762 False 1441.000000 2627 94.045500 917 3834 2 chr6D.!!$F4 2917
3 TraesCS6A01G165600 chr6D 132631045 132633375 2330 False 1260.000000 1772 97.073667 905 3834 3 chr6D.!!$F2 2929
4 TraesCS6A01G165600 chr5B 108188992 108194434 5442 True 1221.328571 4514 94.813143 113 7145 7 chr5B.!!$R12 7032
5 TraesCS6A01G165600 chr5B 108122585 108124375 1790 True 982.333333 2512 96.496333 1323 3834 3 chr5B.!!$R10 2511
6 TraesCS6A01G165600 chr5B 108164278 108168023 3745 True 880.000000 2468 96.028500 905 3834 4 chr5B.!!$R11 2929
7 TraesCS6A01G165600 chr3B 275006376 275007189 813 True 1035.000000 1035 89.939000 2070 2874 1 chr3B.!!$R2 804
8 TraesCS6A01G165600 chr2B 162542453 162543145 692 False 623.000000 623 83.380000 1380 2075 1 chr2B.!!$F2 695
9 TraesCS6A01G165600 chr2A 113413735 113414439 704 False 603.000000 603 82.735000 1380 2076 1 chr2A.!!$F1 696
10 TraesCS6A01G165600 chr1B 632007066 632007572 506 True 257.000000 257 76.867000 375 908 1 chr1B.!!$R4 533
11 TraesCS6A01G165600 chr1A 551610586 551611093 507 True 219.000000 219 76.336000 437 908 1 chr1A.!!$R2 471

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
367 408 0.323957 GTACGAGCCCTTTCCCACTT 59.676 55.000 0.0 0.0 0.00 3.16 F
657 768 1.134175 CGCCGGTTTCCATTATTGCTT 59.866 47.619 1.9 0.0 0.00 3.91 F
921 1100 1.711375 TGATAGCCTATCCCTCCTCGT 59.289 52.381 9.2 0.0 34.26 4.18 F
1585 1767 3.222173 ACCTGTAACATGTGAAGCCAA 57.778 42.857 0.0 0.0 0.00 4.52 F
2973 4853 0.803117 TCAAGGTACGAGTCAGAGCG 59.197 55.000 0.0 0.0 0.00 5.03 F
3768 5651 0.034896 AAGGGTGGTTGCGTACTCTG 59.965 55.000 0.0 0.0 0.00 3.35 F
3771 5654 0.669625 GGTGGTTGCGTACTCTGTCC 60.670 60.000 0.0 0.0 0.00 4.02 F
3816 5699 1.736126 CATGCGAGCATCAACAAGTCT 59.264 47.619 7.7 0.0 33.90 3.24 F
4041 5927 5.581085 ACATTACGCTCCAAGACTGTAATTC 59.419 40.000 0.0 0.0 34.46 2.17 F
5727 7645 7.075741 GCAATTTCGTAACACTTGTATGTCTT 58.924 34.615 0.0 0.0 30.55 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1850 2048 0.178967 TGCAGATTTGTTGGCCCAGA 60.179 50.000 0.00 0.00 0.00 3.86 R
2345 4118 1.669265 CGTCAATCATCTGCACTGCAT 59.331 47.619 3.64 0.00 38.13 3.96 R
2796 4676 2.868583 ACATGAGCGAACATATGTGAGC 59.131 45.455 21.42 21.42 32.90 4.26 R
3043 4923 4.082125 CCAGTAGGCCAGATTTCTTTGTT 58.918 43.478 5.01 0.00 0.00 2.83 R
3801 5684 4.836125 TCCAAAAGACTTGTTGATGCTC 57.164 40.909 10.05 0.00 0.00 4.26 R
5542 7458 1.376942 CAGCCCTGGTGAGAGCAAG 60.377 63.158 0.00 0.00 32.22 4.01 R
5747 7665 9.081997 GTTCAACTCTGAATATAGTGAAGTCAG 57.918 37.037 0.00 0.00 43.39 3.51 R
5855 7773 1.484240 GAAGCAGTAGATCAGCCCACT 59.516 52.381 0.00 0.00 0.00 4.00 R
5990 7908 2.575279 AGGACCATCTTCATTCTGCTGT 59.425 45.455 0.00 0.00 0.00 4.40 R
6568 8560 0.032815 TCGGATTCACACGCAACTGA 59.967 50.000 0.00 0.00 0.00 3.41 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
43 45 5.758784 ACCTAAGTGATAGAAAAATAGCGGC 59.241 40.000 0.00 0.00 33.04 6.53
65 67 6.346096 GGCCACACTTGTTCTTATACTGATA 58.654 40.000 0.00 0.00 0.00 2.15
67 69 6.018669 GCCACACTTGTTCTTATACTGATAGC 60.019 42.308 0.00 0.00 0.00 2.97
87 89 2.996621 GCACTATGACCAGTCACAACTC 59.003 50.000 1.88 0.00 43.11 3.01
89 91 4.489810 CACTATGACCAGTCACAACTCTC 58.510 47.826 1.88 0.00 43.11 3.20
92 94 1.412710 TGACCAGTCACAACTCTCCAC 59.587 52.381 0.00 0.00 34.14 4.02
110 112 3.609103 CACTTGCTGTAGTGGTCAAAC 57.391 47.619 6.37 0.00 41.43 2.93
144 146 2.024414 AGACTTGGTGTTGCAAGTTCC 58.976 47.619 0.00 3.33 41.19 3.62
157 159 0.693049 AAGTTCCAATCCTGGCGAGT 59.307 50.000 0.00 0.00 43.17 4.18
235 241 3.849951 GCAGGCGCCAGCTACCTA 61.850 66.667 33.89 0.00 44.37 3.08
236 242 3.142393 CAGGCGCCAGCTACCTAT 58.858 61.111 31.54 0.00 44.37 2.57
237 243 1.301244 CAGGCGCCAGCTACCTATG 60.301 63.158 31.54 11.01 44.37 2.23
238 244 2.031163 GGCGCCAGCTACCTATGG 59.969 66.667 24.80 0.00 44.37 2.74
239 245 2.031163 GCGCCAGCTACCTATGGG 59.969 66.667 0.00 0.00 41.01 4.00
240 246 2.031163 CGCCAGCTACCTATGGGC 59.969 66.667 0.00 0.00 41.20 5.36
330 371 1.108776 CTCCACTCGACCCCGATAAA 58.891 55.000 0.00 0.00 44.62 1.40
331 372 1.479323 CTCCACTCGACCCCGATAAAA 59.521 52.381 0.00 0.00 44.62 1.52
332 373 2.102588 CTCCACTCGACCCCGATAAAAT 59.897 50.000 0.00 0.00 44.62 1.82
333 374 2.101917 TCCACTCGACCCCGATAAAATC 59.898 50.000 0.00 0.00 44.62 2.17
347 388 5.342806 GATAAAATCGATGGAATCACGCA 57.657 39.130 0.00 0.00 45.97 5.24
349 390 2.315925 AATCGATGGAATCACGCAGT 57.684 45.000 0.00 0.00 45.97 4.40
367 408 0.323957 GTACGAGCCCTTTCCCACTT 59.676 55.000 0.00 0.00 0.00 3.16
651 762 2.820479 CGCCGCCGGTTTCCATTA 60.820 61.111 4.45 0.00 0.00 1.90
657 768 1.134175 CGCCGGTTTCCATTATTGCTT 59.866 47.619 1.90 0.00 0.00 3.91
837 952 4.067896 CAACTTCTTGCTGTCCAGTACAT 58.932 43.478 0.00 0.00 37.50 2.29
921 1100 1.711375 TGATAGCCTATCCCTCCTCGT 59.289 52.381 9.20 0.00 34.26 4.18
1292 1474 5.828328 CCCTACCTCTCTGTTTGTTTTTCTT 59.172 40.000 0.00 0.00 0.00 2.52
1377 1559 4.443034 GGATCAAGTAGGGATGTGTACACC 60.443 50.000 22.91 7.99 0.00 4.16
1403 1585 4.638304 ACAGCGTGTTTGGTAGATTAAGT 58.362 39.130 0.00 0.00 0.00 2.24
1566 1748 5.151389 GGACACGTAAATGATGAAACCAAC 58.849 41.667 0.00 0.00 0.00 3.77
1585 1767 3.222173 ACCTGTAACATGTGAAGCCAA 57.778 42.857 0.00 0.00 0.00 4.52
1591 1774 6.403866 TGTAACATGTGAAGCCAAGAAAAT 57.596 33.333 0.00 0.00 0.00 1.82
1617 1800 8.680039 AATTTGAAAGGAAAATTGATCTGCAA 57.320 26.923 0.00 0.00 41.53 4.08
1618 1801 7.718272 TTTGAAAGGAAAATTGATCTGCAAG 57.282 32.000 0.00 0.00 40.42 4.01
1622 1805 4.934356 AGGAAAATTGATCTGCAAGGGTA 58.066 39.130 0.00 0.00 40.42 3.69
1792 1988 6.319152 TCGCCGATTTATTTGGAGGAAAAATA 59.681 34.615 0.00 0.00 29.86 1.40
1831 2029 9.478768 GTATTTAGTTAGGATTTCTGTAGAGCC 57.521 37.037 0.00 0.00 0.00 4.70
1840 2038 7.007116 AGGATTTCTGTAGAGCCTTTTCTTTT 58.993 34.615 0.00 0.00 0.00 2.27
1850 2048 3.821033 AGCCTTTTCTTTTGCTACGTGAT 59.179 39.130 0.00 0.00 30.97 3.06
2345 4118 9.952030 TTGAATTTGTTATACTGTCACAGGATA 57.048 29.630 10.28 7.85 36.33 2.59
2906 4786 1.068816 GGCAAGCGTAAACGACCAAAT 60.069 47.619 6.71 0.00 43.02 2.32
2973 4853 0.803117 TCAAGGTACGAGTCAGAGCG 59.197 55.000 0.00 0.00 0.00 5.03
3043 4923 7.098074 TGTCATTCAACTTTGCATGCATATA 57.902 32.000 23.37 3.27 32.88 0.86
3768 5651 0.034896 AAGGGTGGTTGCGTACTCTG 59.965 55.000 0.00 0.00 0.00 3.35
3771 5654 0.669625 GGTGGTTGCGTACTCTGTCC 60.670 60.000 0.00 0.00 0.00 4.02
3816 5699 1.736126 CATGCGAGCATCAACAAGTCT 59.264 47.619 7.70 0.00 33.90 3.24
4041 5927 5.581085 ACATTACGCTCCAAGACTGTAATTC 59.419 40.000 0.00 0.00 34.46 2.17
4354 6242 9.973661 TCATCTGTTTTTATCTTTCCCATCTTA 57.026 29.630 0.00 0.00 0.00 2.10
5727 7645 7.075741 GCAATTTCGTAACACTTGTATGTCTT 58.924 34.615 0.00 0.00 30.55 3.01
5728 7646 7.589954 GCAATTTCGTAACACTTGTATGTCTTT 59.410 33.333 0.00 0.00 30.55 2.52
6013 7931 3.377485 CAGCAGAATGAAGATGGTCCTTG 59.623 47.826 0.00 0.00 39.69 3.61
6119 8037 3.933155 ATTATCTCTTCGCAGCAAACG 57.067 42.857 0.00 0.00 0.00 3.60
6253 8171 1.138671 CCTGGTATTTTTGCCCGCG 59.861 57.895 0.00 0.00 0.00 6.46
6264 8182 1.573829 TTGCCCGCGAACATCTTCAC 61.574 55.000 8.23 0.00 0.00 3.18
6273 8191 1.461127 GAACATCTTCACGAGTGCCAC 59.539 52.381 0.00 0.00 0.00 5.01
6433 8351 8.262227 TCTTTTGTTCACCTCAAGTTCTAGTTA 58.738 33.333 0.00 0.00 0.00 2.24
6556 8548 1.876714 CGTGGATCTGCGTTACCCG 60.877 63.158 0.00 0.00 40.40 5.28
6559 8551 0.457035 TGGATCTGCGTTACCCGTAC 59.543 55.000 0.00 0.00 39.32 3.67
6560 8552 0.593263 GGATCTGCGTTACCCGTACG 60.593 60.000 8.69 8.69 41.71 3.67
6561 8553 0.593263 GATCTGCGTTACCCGTACGG 60.593 60.000 27.68 27.68 39.31 4.02
6562 8554 2.618312 ATCTGCGTTACCCGTACGGC 62.618 60.000 29.15 16.32 39.31 5.68
6563 8555 4.433877 TGCGTTACCCGTACGGCC 62.434 66.667 29.15 14.14 39.31 6.13
6564 8556 4.133796 GCGTTACCCGTACGGCCT 62.134 66.667 29.15 17.47 39.31 5.19
6565 8557 2.573340 CGTTACCCGTACGGCCTT 59.427 61.111 29.15 16.67 35.47 4.35
6566 8558 1.806758 CGTTACCCGTACGGCCTTG 60.807 63.158 29.15 17.24 35.47 3.61
6567 8559 1.293179 GTTACCCGTACGGCCTTGT 59.707 57.895 29.15 21.98 33.26 3.16
6568 8560 0.320683 GTTACCCGTACGGCCTTGTT 60.321 55.000 29.15 9.98 33.26 2.83
6569 8561 0.037419 TTACCCGTACGGCCTTGTTC 60.037 55.000 29.15 0.00 33.26 3.18
6570 8562 1.184322 TACCCGTACGGCCTTGTTCA 61.184 55.000 29.15 4.35 33.26 3.18
6571 8563 1.740296 CCCGTACGGCCTTGTTCAG 60.740 63.158 29.15 7.92 0.00 3.02
6572 8564 1.005394 CCGTACGGCCTTGTTCAGT 60.005 57.895 23.44 0.00 0.00 3.41
6573 8565 0.601841 CCGTACGGCCTTGTTCAGTT 60.602 55.000 23.44 0.00 0.00 3.16
6574 8566 0.511221 CGTACGGCCTTGTTCAGTTG 59.489 55.000 7.57 0.00 0.00 3.16
6575 8567 0.237498 GTACGGCCTTGTTCAGTTGC 59.763 55.000 0.00 0.00 0.00 4.17
6576 8568 1.225376 TACGGCCTTGTTCAGTTGCG 61.225 55.000 0.00 0.00 0.00 4.85
6577 8569 2.542907 CGGCCTTGTTCAGTTGCGT 61.543 57.895 0.00 0.00 0.00 5.24
6578 8570 1.008538 GGCCTTGTTCAGTTGCGTG 60.009 57.895 0.00 0.00 0.00 5.34
6579 8571 1.724582 GGCCTTGTTCAGTTGCGTGT 61.725 55.000 0.00 0.00 0.00 4.49
6580 8572 0.592247 GCCTTGTTCAGTTGCGTGTG 60.592 55.000 0.00 0.00 0.00 3.82
6581 8573 1.013596 CCTTGTTCAGTTGCGTGTGA 58.986 50.000 0.00 0.00 0.00 3.58
6582 8574 1.400142 CCTTGTTCAGTTGCGTGTGAA 59.600 47.619 0.00 0.00 0.00 3.18
6583 8575 2.033299 CCTTGTTCAGTTGCGTGTGAAT 59.967 45.455 0.00 0.00 35.22 2.57
6584 8576 3.291585 CTTGTTCAGTTGCGTGTGAATC 58.708 45.455 0.00 0.00 35.22 2.52
6585 8577 1.601903 TGTTCAGTTGCGTGTGAATCC 59.398 47.619 0.00 0.00 35.22 3.01
6586 8578 0.865111 TTCAGTTGCGTGTGAATCCG 59.135 50.000 0.00 0.00 0.00 4.18
6587 8579 0.032815 TCAGTTGCGTGTGAATCCGA 59.967 50.000 0.00 0.00 0.00 4.55
6588 8580 0.439985 CAGTTGCGTGTGAATCCGAG 59.560 55.000 0.00 0.00 0.00 4.63
6589 8581 0.033504 AGTTGCGTGTGAATCCGAGT 59.966 50.000 0.00 0.00 0.00 4.18
6590 8582 0.163788 GTTGCGTGTGAATCCGAGTG 59.836 55.000 0.00 0.00 0.00 3.51
6591 8583 0.948623 TTGCGTGTGAATCCGAGTGG 60.949 55.000 0.00 0.00 0.00 4.00
6602 8594 1.961133 TCCGAGTGGATTTAAGGGGT 58.039 50.000 0.00 0.00 40.17 4.95
6603 8595 2.271777 TCCGAGTGGATTTAAGGGGTT 58.728 47.619 0.00 0.00 40.17 4.11
6604 8596 2.645797 TCCGAGTGGATTTAAGGGGTTT 59.354 45.455 0.00 0.00 40.17 3.27
6605 8597 3.074836 TCCGAGTGGATTTAAGGGGTTTT 59.925 43.478 0.00 0.00 40.17 2.43
6606 8598 3.192633 CCGAGTGGATTTAAGGGGTTTTG 59.807 47.826 0.00 0.00 37.49 2.44
6607 8599 4.076394 CGAGTGGATTTAAGGGGTTTTGA 58.924 43.478 0.00 0.00 0.00 2.69
6608 8600 4.156008 CGAGTGGATTTAAGGGGTTTTGAG 59.844 45.833 0.00 0.00 0.00 3.02
6609 8601 4.416516 AGTGGATTTAAGGGGTTTTGAGG 58.583 43.478 0.00 0.00 0.00 3.86
6610 8602 3.513912 GTGGATTTAAGGGGTTTTGAGGG 59.486 47.826 0.00 0.00 0.00 4.30
6611 8603 3.104512 GGATTTAAGGGGTTTTGAGGGG 58.895 50.000 0.00 0.00 0.00 4.79
6612 8604 2.706112 TTTAAGGGGTTTTGAGGGGG 57.294 50.000 0.00 0.00 0.00 5.40
6613 8605 1.849548 TTAAGGGGTTTTGAGGGGGA 58.150 50.000 0.00 0.00 0.00 4.81
6614 8606 2.084121 TAAGGGGTTTTGAGGGGGAT 57.916 50.000 0.00 0.00 0.00 3.85
6615 8607 1.176182 AAGGGGTTTTGAGGGGGATT 58.824 50.000 0.00 0.00 0.00 3.01
6616 8608 1.176182 AGGGGTTTTGAGGGGGATTT 58.824 50.000 0.00 0.00 0.00 2.17
6617 8609 2.374179 AGGGGTTTTGAGGGGGATTTA 58.626 47.619 0.00 0.00 0.00 1.40
6618 8610 2.730816 AGGGGTTTTGAGGGGGATTTAA 59.269 45.455 0.00 0.00 0.00 1.52
6619 8611 3.145087 AGGGGTTTTGAGGGGGATTTAAA 59.855 43.478 0.00 0.00 0.00 1.52
6620 8612 3.262405 GGGGTTTTGAGGGGGATTTAAAC 59.738 47.826 0.00 0.00 0.00 2.01
6621 8613 3.262405 GGGTTTTGAGGGGGATTTAAACC 59.738 47.826 0.00 0.00 42.22 3.27
6622 8614 4.164981 GGTTTTGAGGGGGATTTAAACCT 58.835 43.478 0.00 0.00 40.65 3.50
6627 8619 4.864483 GAGGGGGATTTAAACCTCTTCT 57.136 45.455 12.97 0.00 44.74 2.85
6628 8620 5.970501 GAGGGGGATTTAAACCTCTTCTA 57.029 43.478 12.97 0.00 44.74 2.10
6629 8621 6.323210 GAGGGGGATTTAAACCTCTTCTAA 57.677 41.667 12.97 0.00 44.74 2.10
6630 8622 6.328782 AGGGGGATTTAAACCTCTTCTAAG 57.671 41.667 6.64 0.00 32.28 2.18
6631 8623 5.796399 AGGGGGATTTAAACCTCTTCTAAGT 59.204 40.000 6.64 0.00 32.28 2.24
6632 8624 6.069556 AGGGGGATTTAAACCTCTTCTAAGTC 60.070 42.308 6.64 0.00 32.28 3.01
6633 8625 5.816258 GGGGATTTAAACCTCTTCTAAGTCG 59.184 44.000 0.00 0.00 0.00 4.18
6634 8626 6.351626 GGGGATTTAAACCTCTTCTAAGTCGA 60.352 42.308 0.00 0.00 0.00 4.20
6635 8627 7.101700 GGGATTTAAACCTCTTCTAAGTCGAA 58.898 38.462 0.00 0.00 0.00 3.71
6636 8628 7.605309 GGGATTTAAACCTCTTCTAAGTCGAAA 59.395 37.037 0.00 0.00 0.00 3.46
6637 8629 9.163899 GGATTTAAACCTCTTCTAAGTCGAAAT 57.836 33.333 0.00 0.00 0.00 2.17
6640 8632 8.679288 TTAAACCTCTTCTAAGTCGAAATACG 57.321 34.615 0.00 0.00 44.09 3.06
6655 8647 6.344572 CGAAATACGAATCAATCCTTGTCA 57.655 37.500 0.00 0.00 45.77 3.58
6656 8648 6.771076 CGAAATACGAATCAATCCTTGTCAA 58.229 36.000 0.00 0.00 45.77 3.18
6657 8649 7.409697 CGAAATACGAATCAATCCTTGTCAAT 58.590 34.615 0.00 0.00 45.77 2.57
6658 8650 7.584123 CGAAATACGAATCAATCCTTGTCAATC 59.416 37.037 0.00 0.00 45.77 2.67
6659 8651 6.867662 ATACGAATCAATCCTTGTCAATCC 57.132 37.500 0.00 0.00 0.00 3.01
6660 8652 3.947834 ACGAATCAATCCTTGTCAATCCC 59.052 43.478 0.00 0.00 0.00 3.85
6661 8653 3.316308 CGAATCAATCCTTGTCAATCCCC 59.684 47.826 0.00 0.00 0.00 4.81
6662 8654 4.540715 GAATCAATCCTTGTCAATCCCCT 58.459 43.478 0.00 0.00 0.00 4.79
6663 8655 3.652057 TCAATCCTTGTCAATCCCCTC 57.348 47.619 0.00 0.00 0.00 4.30
6664 8656 2.242196 TCAATCCTTGTCAATCCCCTCC 59.758 50.000 0.00 0.00 0.00 4.30
6665 8657 1.985622 ATCCTTGTCAATCCCCTCCA 58.014 50.000 0.00 0.00 0.00 3.86
6666 8658 1.753903 TCCTTGTCAATCCCCTCCAA 58.246 50.000 0.00 0.00 0.00 3.53
6667 8659 2.287584 TCCTTGTCAATCCCCTCCAAT 58.712 47.619 0.00 0.00 0.00 3.16
6668 8660 2.242196 TCCTTGTCAATCCCCTCCAATC 59.758 50.000 0.00 0.00 0.00 2.67
6669 8661 2.243221 CCTTGTCAATCCCCTCCAATCT 59.757 50.000 0.00 0.00 0.00 2.40
6670 8662 3.309410 CCTTGTCAATCCCCTCCAATCTT 60.309 47.826 0.00 0.00 0.00 2.40
6671 8663 3.652057 TGTCAATCCCCTCCAATCTTC 57.348 47.619 0.00 0.00 0.00 2.87
6672 8664 3.192944 TGTCAATCCCCTCCAATCTTCT 58.807 45.455 0.00 0.00 0.00 2.85
6673 8665 3.593328 TGTCAATCCCCTCCAATCTTCTT 59.407 43.478 0.00 0.00 0.00 2.52
6674 8666 3.950395 GTCAATCCCCTCCAATCTTCTTG 59.050 47.826 0.00 0.00 0.00 3.02
6675 8667 3.053395 TCAATCCCCTCCAATCTTCTTGG 60.053 47.826 0.00 0.00 40.87 3.61
6676 8668 1.298953 TCCCCTCCAATCTTCTTGGG 58.701 55.000 4.28 0.00 39.96 4.12
6677 8669 0.259938 CCCCTCCAATCTTCTTGGGG 59.740 60.000 0.00 0.00 46.89 4.96
6678 8670 1.298953 CCCTCCAATCTTCTTGGGGA 58.701 55.000 5.43 0.00 42.70 4.81
6679 8671 1.213926 CCCTCCAATCTTCTTGGGGAG 59.786 57.143 5.43 0.00 42.70 4.30
6680 8672 2.200081 CCTCCAATCTTCTTGGGGAGA 58.800 52.381 5.43 0.00 46.38 3.71
6681 8673 2.172293 CCTCCAATCTTCTTGGGGAGAG 59.828 54.545 5.43 0.00 46.38 3.20
6682 8674 2.172293 CTCCAATCTTCTTGGGGAGAGG 59.828 54.545 0.00 0.00 46.38 3.69
6683 8675 2.200081 CCAATCTTCTTGGGGAGAGGA 58.800 52.381 0.00 0.00 43.67 3.71
6688 8680 5.638530 ATCTTCTTGGGGAGAGGATTAAC 57.361 43.478 0.00 0.00 45.87 2.01
6689 8681 3.780850 TCTTCTTGGGGAGAGGATTAACC 59.219 47.826 0.00 0.00 35.75 2.85
6690 8682 2.116238 TCTTGGGGAGAGGATTAACCG 58.884 52.381 0.00 0.00 44.74 4.44
6691 8683 2.116238 CTTGGGGAGAGGATTAACCGA 58.884 52.381 0.00 0.00 44.74 4.69
6692 8684 2.257391 TGGGGAGAGGATTAACCGAA 57.743 50.000 0.00 0.00 44.74 4.30
6693 8685 1.835531 TGGGGAGAGGATTAACCGAAC 59.164 52.381 0.00 0.00 44.74 3.95
6694 8686 1.835531 GGGGAGAGGATTAACCGAACA 59.164 52.381 0.00 0.00 44.74 3.18
6695 8687 2.237893 GGGGAGAGGATTAACCGAACAA 59.762 50.000 0.00 0.00 44.74 2.83
6696 8688 3.307904 GGGGAGAGGATTAACCGAACAAA 60.308 47.826 0.00 0.00 44.74 2.83
6697 8689 3.939592 GGGAGAGGATTAACCGAACAAAG 59.060 47.826 0.00 0.00 44.74 2.77
6698 8690 3.374367 GGAGAGGATTAACCGAACAAAGC 59.626 47.826 0.00 0.00 44.74 3.51
6699 8691 4.254492 GAGAGGATTAACCGAACAAAGCT 58.746 43.478 0.00 0.00 44.74 3.74
6700 8692 4.652822 AGAGGATTAACCGAACAAAGCTT 58.347 39.130 0.00 0.00 44.74 3.74
6815 8814 7.014711 TCTCTTTGTTGCTATCTACTATCCCTG 59.985 40.741 0.00 0.00 0.00 4.45
6830 8829 6.485171 ACTATCCCTGTAAAAGCATGAAAGT 58.515 36.000 0.00 0.00 0.00 2.66
6881 8880 8.934825 GCTCTCTAATCATCAATCTAATTGTCC 58.065 37.037 0.04 0.00 41.02 4.02
6911 8910 6.369340 TCTTTGTTAACGAAATGGATCGCTAA 59.631 34.615 9.55 0.00 46.51 3.09
6913 8912 4.502558 GTTAACGAAATGGATCGCTAACG 58.497 43.478 7.09 0.00 46.51 3.18
7051 9053 1.529948 CCATGCATCCTCCGCCATT 60.530 57.895 0.00 0.00 0.00 3.16
7057 9059 0.178767 CATCCTCCGCCATTGACTCA 59.821 55.000 0.00 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 5.179555 GGCCGCTATTTTTCTATCACTTAGG 59.820 44.000 0.00 0.00 0.00 2.69
22 23 5.526111 GTGGCCGCTATTTTTCTATCACTTA 59.474 40.000 9.68 0.00 0.00 2.24
23 24 4.335594 GTGGCCGCTATTTTTCTATCACTT 59.664 41.667 9.68 0.00 0.00 3.16
43 45 7.010552 GTGCTATCAGTATAAGAACAAGTGTGG 59.989 40.741 0.00 0.00 0.00 4.17
65 67 2.634940 AGTTGTGACTGGTCATAGTGCT 59.365 45.455 6.71 2.22 42.18 4.40
67 69 4.489810 GAGAGTTGTGACTGGTCATAGTG 58.510 47.826 6.71 0.00 42.18 2.74
92 94 5.057149 ACTTAGTTTGACCACTACAGCAAG 58.943 41.667 0.00 0.00 0.00 4.01
106 108 1.076332 CTCCGGCCGAACTTAGTTTG 58.924 55.000 30.73 5.39 0.00 2.93
108 110 0.245813 GTCTCCGGCCGAACTTAGTT 59.754 55.000 30.73 0.00 0.00 2.24
109 111 0.611340 AGTCTCCGGCCGAACTTAGT 60.611 55.000 30.73 7.09 0.00 2.24
110 112 0.531200 AAGTCTCCGGCCGAACTTAG 59.469 55.000 30.73 15.32 0.00 2.18
220 226 2.511452 CCATAGGTAGCTGGCGCCT 61.511 63.158 29.70 10.43 36.60 5.52
235 241 3.757248 CTAAGCGCCCGAAGCCCAT 62.757 63.158 2.29 0.00 38.78 4.00
236 242 4.467084 CTAAGCGCCCGAAGCCCA 62.467 66.667 2.29 0.00 38.78 5.36
239 245 4.468689 ACCCTAAGCGCCCGAAGC 62.469 66.667 2.29 0.00 38.52 3.86
240 246 2.511600 CACCCTAAGCGCCCGAAG 60.512 66.667 2.29 0.00 0.00 3.79
306 312 3.775654 GGGTCGAGTGGAGGCCTG 61.776 72.222 12.00 0.00 33.04 4.85
330 371 2.315925 ACTGCGTGATTCCATCGATT 57.684 45.000 0.00 0.00 0.00 3.34
331 372 2.743938 GTACTGCGTGATTCCATCGAT 58.256 47.619 0.00 0.00 0.00 3.59
332 373 1.533129 CGTACTGCGTGATTCCATCGA 60.533 52.381 0.00 0.00 35.54 3.59
333 374 0.846401 CGTACTGCGTGATTCCATCG 59.154 55.000 0.00 0.00 35.54 3.84
334 375 2.120232 CTCGTACTGCGTGATTCCATC 58.880 52.381 0.00 0.00 42.13 3.51
335 376 1.802880 GCTCGTACTGCGTGATTCCAT 60.803 52.381 0.00 0.00 42.13 3.41
336 377 0.457853 GCTCGTACTGCGTGATTCCA 60.458 55.000 0.00 0.00 42.13 3.53
337 378 1.146358 GGCTCGTACTGCGTGATTCC 61.146 60.000 0.00 0.00 42.13 3.01
338 379 1.146358 GGGCTCGTACTGCGTGATTC 61.146 60.000 0.00 0.00 42.13 2.52
339 380 1.153628 GGGCTCGTACTGCGTGATT 60.154 57.895 0.00 0.00 42.13 2.57
347 388 0.544595 AGTGGGAAAGGGCTCGTACT 60.545 55.000 0.00 0.00 0.00 2.73
349 390 0.611714 GAAGTGGGAAAGGGCTCGTA 59.388 55.000 0.00 0.00 0.00 3.43
367 408 2.499205 CAGCGATAGGGTTGCGGA 59.501 61.111 0.00 0.00 42.42 5.54
480 562 3.024356 AGAGAGCGGGAGGGAGGA 61.024 66.667 0.00 0.00 0.00 3.71
651 762 5.057819 TCGAGAGAGTACGAGATAAGCAAT 58.942 41.667 0.00 0.00 34.49 3.56
821 936 4.836125 AAAACATGTACTGGACAGCAAG 57.164 40.909 0.00 0.00 42.79 4.01
822 937 4.400884 ACAAAAACATGTACTGGACAGCAA 59.599 37.500 0.00 0.00 42.79 3.91
837 952 4.694509 ACAGCAGCAATTTGAACAAAAACA 59.305 33.333 0.00 0.00 33.56 2.83
910 1089 2.519780 GAGGCGACGAGGAGGGAT 60.520 66.667 0.00 0.00 0.00 3.85
921 1100 4.388499 GGCGGTTGAAGGAGGCGA 62.388 66.667 0.00 0.00 0.00 5.54
1292 1474 0.443478 CATCGATCAAGTGCGCAACA 59.557 50.000 14.00 0.00 0.00 3.33
1377 1559 5.607119 AATCTACCAAACACGCTGTAAAG 57.393 39.130 0.00 0.00 0.00 1.85
1403 1585 6.740693 TCTCATAAATTCCCATTCCCTTTCA 58.259 36.000 0.00 0.00 0.00 2.69
1474 1656 1.545582 GACCACACCAAACATGGGATG 59.454 52.381 0.00 0.00 37.86 3.51
1532 1714 4.703379 TTTACGTGTCCCCTTCCTTTAA 57.297 40.909 0.00 0.00 0.00 1.52
1533 1715 4.286549 TCATTTACGTGTCCCCTTCCTTTA 59.713 41.667 0.00 0.00 0.00 1.85
1566 1748 3.411446 TCTTGGCTTCACATGTTACAGG 58.589 45.455 0.00 0.00 0.00 4.00
1591 1774 9.775854 TTGCAGATCAATTTTCCTTTCAAATTA 57.224 25.926 0.00 0.00 33.05 1.40
1649 1832 6.152323 ACATTCAGATTTTGCTAGCAACAGAT 59.848 34.615 29.33 21.59 35.46 2.90
1798 1994 7.494625 CAGAAATCCTAACTAAATACTTGCGGA 59.505 37.037 0.00 0.00 0.00 5.54
1831 2029 5.385617 CCAGATCACGTAGCAAAAGAAAAG 58.614 41.667 0.00 0.00 0.00 2.27
1840 2038 1.549243 TTGGCCCAGATCACGTAGCA 61.549 55.000 0.00 0.00 0.00 3.49
1850 2048 0.178967 TGCAGATTTGTTGGCCCAGA 60.179 50.000 0.00 0.00 0.00 3.86
2314 4086 9.072375 TGTGACAGTATAACAAATTCAATCCAA 57.928 29.630 0.00 0.00 0.00 3.53
2345 4118 1.669265 CGTCAATCATCTGCACTGCAT 59.331 47.619 3.64 0.00 38.13 3.96
2784 4664 7.375280 CGAACATATGTGAGCAGAAAAATCATC 59.625 37.037 9.63 0.00 0.00 2.92
2796 4676 2.868583 ACATGAGCGAACATATGTGAGC 59.131 45.455 21.42 21.42 32.90 4.26
2906 4786 9.599056 AGAGATTCATAATCAAGACTGGATAGA 57.401 33.333 0.00 0.00 40.42 1.98
2973 4853 7.051000 ACTGGAGACCAATCTTAAAGCTAATC 58.949 38.462 0.00 0.00 34.34 1.75
3043 4923 4.082125 CCAGTAGGCCAGATTTCTTTGTT 58.918 43.478 5.01 0.00 0.00 2.83
3801 5684 4.836125 TCCAAAAGACTTGTTGATGCTC 57.164 40.909 10.05 0.00 0.00 4.26
4041 5927 9.277783 TCATCTAAAGGACAAGAAAGAAAAGAG 57.722 33.333 0.00 0.00 0.00 2.85
5542 7458 1.376942 CAGCCCTGGTGAGAGCAAG 60.377 63.158 0.00 0.00 32.22 4.01
5747 7665 9.081997 GTTCAACTCTGAATATAGTGAAGTCAG 57.918 37.037 0.00 0.00 43.39 3.51
5850 7768 2.045524 AGTAGATCAGCCCACTCATGG 58.954 52.381 0.00 0.00 46.81 3.66
5855 7773 1.484240 GAAGCAGTAGATCAGCCCACT 59.516 52.381 0.00 0.00 0.00 4.00
5990 7908 2.575279 AGGACCATCTTCATTCTGCTGT 59.425 45.455 0.00 0.00 0.00 4.40
6013 7931 5.420409 CCTCCACAGGTTCAGTAATCTTAC 58.580 45.833 0.00 0.00 34.60 2.34
6119 8037 0.548031 TCTGGCAGGGGACATTCATC 59.452 55.000 15.73 0.00 0.00 2.92
6253 8171 1.461127 GTGGCACTCGTGAAGATGTTC 59.539 52.381 11.13 0.00 0.00 3.18
6264 8182 1.659098 GAATAACTTCGGTGGCACTCG 59.341 52.381 18.45 18.43 0.00 4.18
6273 8191 3.252215 TGGCAAACAGTGAATAACTTCGG 59.748 43.478 0.00 0.00 36.83 4.30
6433 8351 9.396022 CTATGTATAAAACAGGGTGTGAAATCT 57.604 33.333 0.00 0.00 42.70 2.40
6496 8414 9.838339 TGGAAAACAAAAATTAGAAAGGCATAA 57.162 25.926 0.00 0.00 0.00 1.90
6556 8548 0.237498 GCAACTGAACAAGGCCGTAC 59.763 55.000 0.00 0.00 0.00 3.67
6559 8551 2.252260 CGCAACTGAACAAGGCCG 59.748 61.111 0.00 0.00 0.00 6.13
6560 8552 1.008538 CACGCAACTGAACAAGGCC 60.009 57.895 0.00 0.00 0.00 5.19
6561 8553 0.592247 CACACGCAACTGAACAAGGC 60.592 55.000 0.00 0.00 0.00 4.35
6562 8554 1.013596 TCACACGCAACTGAACAAGG 58.986 50.000 0.00 0.00 0.00 3.61
6563 8555 2.823196 TTCACACGCAACTGAACAAG 57.177 45.000 0.00 0.00 0.00 3.16
6564 8556 2.032799 GGATTCACACGCAACTGAACAA 59.967 45.455 0.00 0.00 0.00 2.83
6565 8557 1.601903 GGATTCACACGCAACTGAACA 59.398 47.619 0.00 0.00 0.00 3.18
6566 8558 1.398451 CGGATTCACACGCAACTGAAC 60.398 52.381 0.00 0.00 0.00 3.18
6567 8559 0.865111 CGGATTCACACGCAACTGAA 59.135 50.000 0.00 0.00 0.00 3.02
6568 8560 0.032815 TCGGATTCACACGCAACTGA 59.967 50.000 0.00 0.00 0.00 3.41
6569 8561 0.439985 CTCGGATTCACACGCAACTG 59.560 55.000 0.00 0.00 0.00 3.16
6570 8562 0.033504 ACTCGGATTCACACGCAACT 59.966 50.000 0.00 0.00 0.00 3.16
6571 8563 0.163788 CACTCGGATTCACACGCAAC 59.836 55.000 0.00 0.00 0.00 4.17
6572 8564 0.948623 CCACTCGGATTCACACGCAA 60.949 55.000 0.00 0.00 0.00 4.85
6573 8565 1.374125 CCACTCGGATTCACACGCA 60.374 57.895 0.00 0.00 0.00 5.24
6574 8566 1.080093 TCCACTCGGATTCACACGC 60.080 57.895 0.00 0.00 35.91 5.34
6584 8576 2.801077 AACCCCTTAAATCCACTCGG 57.199 50.000 0.00 0.00 0.00 4.63
6585 8577 4.076394 TCAAAACCCCTTAAATCCACTCG 58.924 43.478 0.00 0.00 0.00 4.18
6586 8578 4.462834 CCTCAAAACCCCTTAAATCCACTC 59.537 45.833 0.00 0.00 0.00 3.51
6587 8579 4.416516 CCTCAAAACCCCTTAAATCCACT 58.583 43.478 0.00 0.00 0.00 4.00
6588 8580 3.513912 CCCTCAAAACCCCTTAAATCCAC 59.486 47.826 0.00 0.00 0.00 4.02
6589 8581 3.503227 CCCCTCAAAACCCCTTAAATCCA 60.503 47.826 0.00 0.00 0.00 3.41
6590 8582 3.104512 CCCCTCAAAACCCCTTAAATCC 58.895 50.000 0.00 0.00 0.00 3.01
6591 8583 3.104512 CCCCCTCAAAACCCCTTAAATC 58.895 50.000 0.00 0.00 0.00 2.17
6592 8584 2.730816 TCCCCCTCAAAACCCCTTAAAT 59.269 45.455 0.00 0.00 0.00 1.40
6593 8585 2.153841 TCCCCCTCAAAACCCCTTAAA 58.846 47.619 0.00 0.00 0.00 1.52
6594 8586 1.849548 TCCCCCTCAAAACCCCTTAA 58.150 50.000 0.00 0.00 0.00 1.85
6595 8587 2.084121 ATCCCCCTCAAAACCCCTTA 57.916 50.000 0.00 0.00 0.00 2.69
6596 8588 1.176182 AATCCCCCTCAAAACCCCTT 58.824 50.000 0.00 0.00 0.00 3.95
6597 8589 1.176182 AAATCCCCCTCAAAACCCCT 58.824 50.000 0.00 0.00 0.00 4.79
6598 8590 2.932184 TAAATCCCCCTCAAAACCCC 57.068 50.000 0.00 0.00 0.00 4.95
6599 8591 3.262405 GGTTTAAATCCCCCTCAAAACCC 59.738 47.826 3.89 0.00 39.82 4.11
6600 8592 4.164981 AGGTTTAAATCCCCCTCAAAACC 58.835 43.478 6.66 6.66 43.90 3.27
6601 8593 5.084519 AGAGGTTTAAATCCCCCTCAAAAC 58.915 41.667 19.38 0.00 44.85 2.43
6602 8594 5.348259 AGAGGTTTAAATCCCCCTCAAAA 57.652 39.130 19.38 0.00 44.85 2.44
6603 8595 5.075900 AGAAGAGGTTTAAATCCCCCTCAAA 59.924 40.000 19.38 0.00 44.85 2.69
6604 8596 4.606255 AGAAGAGGTTTAAATCCCCCTCAA 59.394 41.667 19.38 0.00 44.85 3.02
6605 8597 4.183916 AGAAGAGGTTTAAATCCCCCTCA 58.816 43.478 19.38 0.00 44.85 3.86
6606 8598 4.864483 AGAAGAGGTTTAAATCCCCCTC 57.136 45.455 12.53 12.53 43.14 4.30
6607 8599 5.796399 ACTTAGAAGAGGTTTAAATCCCCCT 59.204 40.000 0.00 0.00 0.00 4.79
6608 8600 6.075949 ACTTAGAAGAGGTTTAAATCCCCC 57.924 41.667 0.00 0.00 0.00 5.40
6609 8601 5.816258 CGACTTAGAAGAGGTTTAAATCCCC 59.184 44.000 0.00 0.00 0.00 4.81
6610 8602 6.637657 TCGACTTAGAAGAGGTTTAAATCCC 58.362 40.000 0.00 0.00 0.00 3.85
6611 8603 8.543862 TTTCGACTTAGAAGAGGTTTAAATCC 57.456 34.615 0.00 0.00 0.00 3.01
6614 8606 9.132521 CGTATTTCGACTTAGAAGAGGTTTAAA 57.867 33.333 0.00 0.00 42.86 1.52
6615 8607 8.514594 TCGTATTTCGACTTAGAAGAGGTTTAA 58.485 33.333 0.00 0.00 44.01 1.52
6616 8608 8.044060 TCGTATTTCGACTTAGAAGAGGTTTA 57.956 34.615 0.00 0.00 44.01 2.01
6617 8609 6.917533 TCGTATTTCGACTTAGAAGAGGTTT 58.082 36.000 0.00 0.00 44.01 3.27
6618 8610 6.506500 TCGTATTTCGACTTAGAAGAGGTT 57.493 37.500 0.00 0.00 44.01 3.50
6645 8637 2.287584 TGGAGGGGATTGACAAGGATT 58.712 47.619 0.00 0.00 0.00 3.01
6646 8638 1.985622 TGGAGGGGATTGACAAGGAT 58.014 50.000 0.00 0.00 0.00 3.24
6647 8639 1.753903 TTGGAGGGGATTGACAAGGA 58.246 50.000 0.00 0.00 0.00 3.36
6648 8640 2.243221 AGATTGGAGGGGATTGACAAGG 59.757 50.000 0.00 0.00 0.00 3.61
6649 8641 3.659183 AGATTGGAGGGGATTGACAAG 57.341 47.619 0.00 0.00 0.00 3.16
6650 8642 3.593328 AGAAGATTGGAGGGGATTGACAA 59.407 43.478 0.00 0.00 0.00 3.18
6651 8643 3.192944 AGAAGATTGGAGGGGATTGACA 58.807 45.455 0.00 0.00 0.00 3.58
6652 8644 3.941704 AGAAGATTGGAGGGGATTGAC 57.058 47.619 0.00 0.00 0.00 3.18
6653 8645 3.053395 CCAAGAAGATTGGAGGGGATTGA 60.053 47.826 0.12 0.00 42.06 2.57
6654 8646 3.294214 CCAAGAAGATTGGAGGGGATTG 58.706 50.000 0.12 0.00 42.06 2.67
6655 8647 2.245806 CCCAAGAAGATTGGAGGGGATT 59.754 50.000 8.20 0.00 42.06 3.01
6656 8648 1.855599 CCCAAGAAGATTGGAGGGGAT 59.144 52.381 8.20 0.00 42.06 3.85
6657 8649 1.298953 CCCAAGAAGATTGGAGGGGA 58.701 55.000 8.20 0.00 42.06 4.81
6658 8650 3.911719 CCCAAGAAGATTGGAGGGG 57.088 57.895 8.20 0.00 42.06 4.79
6659 8651 1.213926 CTCCCCAAGAAGATTGGAGGG 59.786 57.143 8.20 2.36 42.06 4.30
6660 8652 2.172293 CTCTCCCCAAGAAGATTGGAGG 59.828 54.545 8.20 7.77 42.33 4.30
6661 8653 2.172293 CCTCTCCCCAAGAAGATTGGAG 59.828 54.545 8.20 0.00 42.06 3.86
6662 8654 2.200081 CCTCTCCCCAAGAAGATTGGA 58.800 52.381 8.20 0.00 42.06 3.53
6663 8655 2.200081 TCCTCTCCCCAAGAAGATTGG 58.800 52.381 0.00 0.00 39.25 3.16
6664 8656 4.516652 AATCCTCTCCCCAAGAAGATTG 57.483 45.455 0.00 0.00 41.56 2.67
6665 8657 5.103898 GGTTAATCCTCTCCCCAAGAAGATT 60.104 44.000 4.75 4.75 44.08 2.40
6666 8658 4.413851 GGTTAATCCTCTCCCCAAGAAGAT 59.586 45.833 0.00 0.00 36.85 2.40
6667 8659 3.780850 GGTTAATCCTCTCCCCAAGAAGA 59.219 47.826 0.00 0.00 32.23 2.87
6668 8660 3.432326 CGGTTAATCCTCTCCCCAAGAAG 60.432 52.174 0.00 0.00 32.23 2.85
6669 8661 2.504175 CGGTTAATCCTCTCCCCAAGAA 59.496 50.000 0.00 0.00 32.23 2.52
6670 8662 2.116238 CGGTTAATCCTCTCCCCAAGA 58.884 52.381 0.00 0.00 0.00 3.02
6671 8663 2.116238 TCGGTTAATCCTCTCCCCAAG 58.884 52.381 0.00 0.00 0.00 3.61
6672 8664 2.237893 GTTCGGTTAATCCTCTCCCCAA 59.762 50.000 0.00 0.00 0.00 4.12
6673 8665 1.835531 GTTCGGTTAATCCTCTCCCCA 59.164 52.381 0.00 0.00 0.00 4.96
6674 8666 1.835531 TGTTCGGTTAATCCTCTCCCC 59.164 52.381 0.00 0.00 0.00 4.81
6675 8667 3.622166 TTGTTCGGTTAATCCTCTCCC 57.378 47.619 0.00 0.00 0.00 4.30
6676 8668 3.374367 GCTTTGTTCGGTTAATCCTCTCC 59.626 47.826 0.00 0.00 0.00 3.71
6677 8669 4.254492 AGCTTTGTTCGGTTAATCCTCTC 58.746 43.478 0.00 0.00 0.00 3.20
6678 8670 4.287766 AGCTTTGTTCGGTTAATCCTCT 57.712 40.909 0.00 0.00 0.00 3.69
6679 8671 4.142665 GGAAGCTTTGTTCGGTTAATCCTC 60.143 45.833 0.00 0.00 0.00 3.71
6680 8672 3.756963 GGAAGCTTTGTTCGGTTAATCCT 59.243 43.478 0.00 0.00 0.00 3.24
6681 8673 3.756963 AGGAAGCTTTGTTCGGTTAATCC 59.243 43.478 0.00 0.00 0.00 3.01
6682 8674 5.372547 AAGGAAGCTTTGTTCGGTTAATC 57.627 39.130 0.00 0.00 0.00 1.75
6683 8675 6.657541 TCATAAGGAAGCTTTGTTCGGTTAAT 59.342 34.615 0.00 0.00 0.00 1.40
6684 8676 5.998981 TCATAAGGAAGCTTTGTTCGGTTAA 59.001 36.000 0.00 0.00 0.00 2.01
6685 8677 5.553123 TCATAAGGAAGCTTTGTTCGGTTA 58.447 37.500 0.00 0.00 0.00 2.85
6686 8678 4.394729 TCATAAGGAAGCTTTGTTCGGTT 58.605 39.130 0.00 0.00 0.00 4.44
6687 8679 4.015872 TCATAAGGAAGCTTTGTTCGGT 57.984 40.909 0.00 0.00 0.00 4.69
6688 8680 5.817816 AGTATCATAAGGAAGCTTTGTTCGG 59.182 40.000 0.00 0.00 0.00 4.30
6689 8681 6.910536 AGTATCATAAGGAAGCTTTGTTCG 57.089 37.500 0.00 0.00 0.00 3.95
6738 8737 9.084533 GTAATCAGATAGTACAATCTCTCCCTT 57.915 37.037 0.00 0.00 33.87 3.95
6815 8814 5.098211 GGATCTGCACTTTCATGCTTTTAC 58.902 41.667 0.00 0.00 46.28 2.01
6830 8829 6.063404 TGATATGCTTAATTGTGGATCTGCA 58.937 36.000 0.00 0.00 0.00 4.41
6881 8880 8.365210 CGATCCATTTCGTTAACAAAGATTTTG 58.635 33.333 6.39 0.28 34.46 2.44
6911 8910 1.474498 GCGAGGGGATTATGGTTTCGT 60.474 52.381 0.00 0.00 0.00 3.85
6913 8912 2.341846 TGCGAGGGGATTATGGTTTC 57.658 50.000 0.00 0.00 0.00 2.78
6995 8997 3.655211 AGGTGCAGCCAGAAGGGG 61.655 66.667 13.29 0.00 40.61 4.79
6996 8998 2.360852 CAGGTGCAGCCAGAAGGG 60.361 66.667 13.29 0.00 40.61 3.95
6997 8999 0.538057 TTTCAGGTGCAGCCAGAAGG 60.538 55.000 13.29 0.00 42.53 3.46
6998 9000 0.879765 CTTTCAGGTGCAGCCAGAAG 59.120 55.000 13.29 10.00 42.53 2.85
6999 9001 0.538057 CCTTTCAGGTGCAGCCAGAA 60.538 55.000 13.29 14.32 40.41 3.02
7000 9002 1.073722 CCTTTCAGGTGCAGCCAGA 59.926 57.895 13.29 8.49 40.61 3.86
7001 9003 2.633509 GCCTTTCAGGTGCAGCCAG 61.634 63.158 13.29 5.91 37.80 4.85
7002 9004 2.598394 GCCTTTCAGGTGCAGCCA 60.598 61.111 13.29 0.00 37.80 4.75
7030 9032 2.829914 GCGGAGGATGCATGGCAA 60.830 61.111 2.46 0.00 43.62 4.52
7051 9053 4.680237 CCGCGGTGGCTTGAGTCA 62.680 66.667 19.50 0.00 36.88 3.41


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

AutoCloner maintained by Alex Coulton.