Multiple sequence alignment - TraesCS6D01G341700

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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 TraesCS6D01G341700 chr6D 100.000 2726 0 0 1 2726 441290375 441293100 0.000000e+00 5035.0
1 TraesCS6D01G341700 chr6D 93.488 1981 111 11 1 1976 441315864 441317831 0.000000e+00 2928.0
2 TraesCS6D01G341700 chr6D 92.304 1949 113 17 57 1976 441396753 441398693 0.000000e+00 2734.0
3 TraesCS6D01G341700 chr6D 89.426 889 71 14 1111 1976 441100601 441101489 0.000000e+00 1099.0
4 TraesCS6D01G341700 chr6D 94.444 558 21 1 1974 2531 441398742 441399289 0.000000e+00 850.0
5 TraesCS6D01G341700 chr6D 82.743 678 95 16 269 932 441304791 441305460 3.910000e-163 584.0
6 TraesCS6D01G341700 chr6D 95.804 286 9 1 2246 2531 441325679 441325961 2.470000e-125 459.0
7 TraesCS6D01G341700 chr6D 94.942 257 13 0 1974 2230 441317880 441318136 1.180000e-108 403.0
8 TraesCS6D01G341700 chr6D 95.600 250 8 2 866 1115 441098632 441098878 5.470000e-107 398.0
9 TraesCS6D01G341700 chr6D 97.462 197 5 0 2530 2726 441101477 441101673 1.210000e-88 337.0
10 TraesCS6D01G341700 chr6D 95.897 195 7 1 2530 2723 441398681 441398875 5.670000e-82 315.0
11 TraesCS6D01G341700 chr6D 95.385 195 8 1 2530 2723 441317819 441318013 2.640000e-80 309.0
12 TraesCS6D01G341700 chr6D 100.000 28 0 0 1 28 441396699 441396726 5.000000e-03 52.8
13 TraesCS6D01G341700 chr6A 92.940 1983 124 11 1 1976 589174345 589176318 0.000000e+00 2872.0
14 TraesCS6D01G341700 chr6A 92.385 1983 120 15 1 1976 589193319 589191361 0.000000e+00 2796.0
15 TraesCS6D01G341700 chr6A 95.341 558 25 1 1974 2531 589176366 589176922 0.000000e+00 885.0
16 TraesCS6D01G341700 chr6A 95.170 559 23 4 1974 2531 589191312 589190757 0.000000e+00 880.0
17 TraesCS6D01G341700 chr6A 95.385 195 7 2 2530 2723 589176306 589176499 2.640000e-80 309.0
18 TraesCS6D01G341700 chr6A 94.949 198 9 1 2530 2726 589191373 589191176 2.640000e-80 309.0
19 TraesCS6D01G341700 chr6A 89.595 173 14 1 2352 2524 589089490 589089658 1.640000e-52 217.0
20 TraesCS6D01G341700 chr6B 87.183 2013 203 23 1 1976 666219071 666221065 0.000000e+00 2237.0
21 TraesCS6D01G341700 chr6B 86.667 2010 210 28 1 1973 666306293 666308281 0.000000e+00 2174.0
22 TraesCS6D01G341700 chr6B 86.567 2010 212 28 1 1973 666274168 666276156 0.000000e+00 2163.0
23 TraesCS6D01G341700 chr6B 88.147 1139 106 10 855 1976 666176384 666177510 0.000000e+00 1328.0
24 TraesCS6D01G341700 chr6B 84.129 838 101 12 1 819 666175559 666176383 0.000000e+00 782.0
25 TraesCS6D01G341700 chr6B 91.123 552 42 4 1974 2524 666276416 666276961 0.000000e+00 741.0
26 TraesCS6D01G341700 chr6B 91.123 552 42 4 1974 2524 666308541 666309086 0.000000e+00 741.0
27 TraesCS6D01G341700 chr6B 87.302 378 44 3 1974 2348 666177562 666177938 1.940000e-116 429.0
28 TraesCS6D01G341700 chr6B 86.508 378 47 3 1974 2348 666221117 666221493 1.950000e-111 412.0
29 TraesCS6D01G341700 chr6B 92.891 211 14 1 1767 1976 666055413 666055623 3.410000e-79 305.0
30 TraesCS6D01G341700 chr6B 92.929 198 9 4 2530 2723 666055611 666055807 1.600000e-72 283.0
31 TraesCS6D01G341700 chr6B 92.424 198 10 3 2530 2723 666177498 666177694 7.430000e-71 278.0
32 TraesCS6D01G341700 chr6B 92.784 194 9 2 2530 2723 666276356 666276544 2.670000e-70 276.0
33 TraesCS6D01G341700 chr6B 85.714 245 24 4 2281 2523 666055941 666056176 5.830000e-62 248.0
34 TraesCS6D01G341700 chr6B 83.832 167 20 4 102 263 666095056 666095220 4.700000e-33 152.0
35 TraesCS6D01G341700 chrUn 88.037 978 93 14 1007 1976 349101524 349100563 0.000000e+00 1136.0
36 TraesCS6D01G341700 chrUn 91.123 552 42 4 1974 2524 349100306 349099761 0.000000e+00 741.0
37 TraesCS6D01G341700 chrUn 92.386 197 10 2 2530 2726 349100366 349100175 2.670000e-70 276.0


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 TraesCS6D01G341700 chr6D 441290375 441293100 2725 False 5035.000000 5035 100.000000 1 2726 1 chr6D.!!$F1 2725
1 TraesCS6D01G341700 chr6D 441315864 441318136 2272 False 1213.333333 2928 94.605000 1 2723 3 chr6D.!!$F5 2722
2 TraesCS6D01G341700 chr6D 441396699 441399289 2590 False 987.950000 2734 95.661250 1 2723 4 chr6D.!!$F6 2722
3 TraesCS6D01G341700 chr6D 441098632 441101673 3041 False 611.333333 1099 94.162667 866 2726 3 chr6D.!!$F4 1860
4 TraesCS6D01G341700 chr6D 441304791 441305460 669 False 584.000000 584 82.743000 269 932 1 chr6D.!!$F2 663
5 TraesCS6D01G341700 chr6A 589174345 589176922 2577 False 1355.333333 2872 94.555333 1 2723 3 chr6A.!!$F2 2722
6 TraesCS6D01G341700 chr6A 589190757 589193319 2562 True 1328.333333 2796 94.168000 1 2726 3 chr6A.!!$R1 2725
7 TraesCS6D01G341700 chr6B 666306293 666309086 2793 False 1457.500000 2174 88.895000 1 2524 2 chr6B.!!$F6 2523
8 TraesCS6D01G341700 chr6B 666219071 666221493 2422 False 1324.500000 2237 86.845500 1 2348 2 chr6B.!!$F4 2347
9 TraesCS6D01G341700 chr6B 666274168 666276961 2793 False 1060.000000 2163 90.158000 1 2723 3 chr6B.!!$F5 2722
10 TraesCS6D01G341700 chr6B 666175559 666177938 2379 False 704.250000 1328 88.000500 1 2723 4 chr6B.!!$F3 2722
11 TraesCS6D01G341700 chr6B 666055413 666056176 763 False 278.666667 305 90.511333 1767 2723 3 chr6B.!!$F2 956
12 TraesCS6D01G341700 chrUn 349099761 349101524 1763 True 717.666667 1136 90.515333 1007 2726 3 chrUn.!!$R1 1719

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
522 551 0.030297 TTAATAGGGGGCGGGTGGTA 60.03 55.0 0.0 0.0 0.0 3.25 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2138 4246 0.105778 GGCTCCAGGAGAAGGAATCG 59.894 60.0 21.89 0.0 34.08 3.34 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
30 31 0.389426 TCCGAGTTCAACTTAGCGGC 60.389 55.000 10.60 0.00 34.35 6.53
31 32 0.389948 CCGAGTTCAACTTAGCGGCT 60.390 55.000 7.98 7.98 28.63 5.52
62 64 6.207691 AGTTACCGCGGAATACTTTAGTAA 57.792 37.500 35.90 12.94 33.76 2.24
70 72 6.092533 CGCGGAATACTTTAGTAAGGGAAAAA 59.907 38.462 0.00 0.00 35.61 1.94
120 134 3.088789 ACACTCGAGGGTAGATGTTCT 57.911 47.619 21.25 0.00 0.00 3.01
174 188 3.488553 CGGTGTTTCTTGTTTGGAAGGTC 60.489 47.826 0.00 0.00 0.00 3.85
187 201 3.104512 TGGAAGGTCGTCATATGGTCTT 58.895 45.455 2.13 0.49 0.00 3.01
287 301 3.371595 GCCTGGTAGGTGGTCATATGTTT 60.372 47.826 1.90 0.00 37.80 2.83
516 545 1.770294 TTTTGCTTAATAGGGGGCGG 58.230 50.000 0.00 0.00 0.00 6.13
519 548 1.228154 GCTTAATAGGGGGCGGGTG 60.228 63.158 0.00 0.00 0.00 4.61
520 549 1.454539 CTTAATAGGGGGCGGGTGG 59.545 63.158 0.00 0.00 0.00 4.61
521 550 1.308041 TTAATAGGGGGCGGGTGGT 60.308 57.895 0.00 0.00 0.00 4.16
522 551 0.030297 TTAATAGGGGGCGGGTGGTA 60.030 55.000 0.00 0.00 0.00 3.25
542 571 5.036737 GGTAAAACATCATCGATGGCTTTG 58.963 41.667 24.61 17.94 43.60 2.77
914 969 7.820872 GGCATATCATGAAATTAATTCCTTGGG 59.179 37.037 0.00 0.00 37.22 4.12
1033 1103 2.902608 AGGTGACCCTCAAGTACATCA 58.097 47.619 0.00 0.00 35.62 3.07
1036 1106 1.906574 TGACCCTCAAGTACATCACCC 59.093 52.381 0.00 0.00 0.00 4.61
1738 3535 2.338809 CCATGTAAGCCAGGAGGGATA 58.661 52.381 0.00 0.00 40.01 2.59
1750 3547 2.113414 AGGAGGGATAAGGATCTCCAGG 59.887 54.545 10.35 0.00 46.02 4.45
1751 3548 1.905894 GAGGGATAAGGATCTCCAGGC 59.094 57.143 0.00 0.00 38.89 4.85
2035 4142 1.072965 CTGTCAGGGCCTCAAAGAACT 59.927 52.381 0.95 0.00 0.00 3.01
2070 4178 4.275781 CCTGTTGGGGCTTGTGTT 57.724 55.556 0.00 0.00 0.00 3.32
2138 4246 3.973657 TCTGTGGTAGAAACGAGTTGAC 58.026 45.455 0.00 0.00 30.84 3.18
2190 4299 9.812347 ATGTGCTGGATGATTAATATTTTCCTA 57.188 29.630 0.00 0.00 0.00 2.94
2238 4348 8.556213 ACCTTTTTGACTTAATTACATAGCGA 57.444 30.769 0.00 0.00 0.00 4.93
2239 4349 8.448615 ACCTTTTTGACTTAATTACATAGCGAC 58.551 33.333 0.00 0.00 0.00 5.19
2240 4350 8.447833 CCTTTTTGACTTAATTACATAGCGACA 58.552 33.333 0.00 0.00 0.00 4.35
2241 4351 9.478019 CTTTTTGACTTAATTACATAGCGACAG 57.522 33.333 0.00 0.00 0.00 3.51
2242 4352 6.583912 TTGACTTAATTACATAGCGACAGC 57.416 37.500 0.00 0.00 45.58 4.40
2405 4527 1.485124 TGCCCTCGATCTTGCTCTAA 58.515 50.000 0.00 0.00 0.00 2.10
2469 4591 7.345691 TGAGATTTGGAGCTATTTCCATGTTA 58.654 34.615 0.00 0.00 46.22 2.41
2545 4667 5.671493 CCGATCAGGTGGTAAATCTTAAGT 58.329 41.667 1.63 0.00 34.51 2.24
2546 4668 6.113411 CCGATCAGGTGGTAAATCTTAAGTT 58.887 40.000 1.63 0.00 34.51 2.66
2547 4669 6.037172 CCGATCAGGTGGTAAATCTTAAGTTG 59.963 42.308 1.63 0.00 34.51 3.16
2548 4670 6.456988 CGATCAGGTGGTAAATCTTAAGTTGC 60.457 42.308 1.63 0.00 0.00 4.17
2549 4671 5.626142 TCAGGTGGTAAATCTTAAGTTGCA 58.374 37.500 1.63 0.00 0.00 4.08
2550 4672 5.472137 TCAGGTGGTAAATCTTAAGTTGCAC 59.528 40.000 1.63 0.00 0.00 4.57
2551 4673 4.765339 AGGTGGTAAATCTTAAGTTGCACC 59.235 41.667 1.63 7.15 0.00 5.01
2552 4674 4.765339 GGTGGTAAATCTTAAGTTGCACCT 59.235 41.667 1.63 0.00 0.00 4.00
2553 4675 5.335661 GGTGGTAAATCTTAAGTTGCACCTG 60.336 44.000 1.63 0.00 0.00 4.00
2554 4676 5.240844 GTGGTAAATCTTAAGTTGCACCTGT 59.759 40.000 1.63 0.00 0.00 4.00
2555 4677 5.830991 TGGTAAATCTTAAGTTGCACCTGTT 59.169 36.000 1.63 0.00 0.00 3.16
2556 4678 6.322712 TGGTAAATCTTAAGTTGCACCTGTTT 59.677 34.615 1.63 0.00 0.00 2.83
2557 4679 6.640907 GGTAAATCTTAAGTTGCACCTGTTTG 59.359 38.462 1.63 0.00 0.00 2.93
2558 4680 5.852282 AATCTTAAGTTGCACCTGTTTGT 57.148 34.783 1.63 0.00 0.00 2.83
2559 4681 5.852282 ATCTTAAGTTGCACCTGTTTGTT 57.148 34.783 1.63 0.00 0.00 2.83
2560 4682 5.652994 TCTTAAGTTGCACCTGTTTGTTT 57.347 34.783 1.63 0.00 0.00 2.83
2561 4683 5.406649 TCTTAAGTTGCACCTGTTTGTTTG 58.593 37.500 1.63 0.00 0.00 2.93
2562 4684 3.676291 AAGTTGCACCTGTTTGTTTGT 57.324 38.095 0.00 0.00 0.00 2.83
2563 4685 2.958213 AGTTGCACCTGTTTGTTTGTG 58.042 42.857 0.00 0.00 0.00 3.33
2564 4686 2.298729 AGTTGCACCTGTTTGTTTGTGT 59.701 40.909 0.00 0.00 0.00 3.72
2565 4687 2.645730 TGCACCTGTTTGTTTGTGTC 57.354 45.000 0.00 0.00 0.00 3.67
2566 4688 1.889170 TGCACCTGTTTGTTTGTGTCA 59.111 42.857 0.00 0.00 0.00 3.58
2567 4689 2.258755 GCACCTGTTTGTTTGTGTCAC 58.741 47.619 0.00 0.00 0.00 3.67
2568 4690 2.352225 GCACCTGTTTGTTTGTGTCACA 60.352 45.455 0.18 0.18 0.00 3.58
2569 4691 3.858877 GCACCTGTTTGTTTGTGTCACAA 60.859 43.478 14.48 14.48 36.11 3.33
2570 4692 4.493547 CACCTGTTTGTTTGTGTCACAAT 58.506 39.130 18.83 0.00 38.00 2.71
2571 4693 4.928615 CACCTGTTTGTTTGTGTCACAATT 59.071 37.500 18.83 0.00 38.00 2.32
2572 4694 4.928615 ACCTGTTTGTTTGTGTCACAATTG 59.071 37.500 18.83 3.24 38.00 2.32
2573 4695 4.928615 CCTGTTTGTTTGTGTCACAATTGT 59.071 37.500 18.83 4.92 38.00 2.71
2574 4696 5.163972 CCTGTTTGTTTGTGTCACAATTGTG 60.164 40.000 29.01 29.01 46.91 3.33
2575 4697 5.292765 TGTTTGTTTGTGTCACAATTGTGT 58.707 33.333 31.99 0.84 45.76 3.72
2576 4698 5.755375 TGTTTGTTTGTGTCACAATTGTGTT 59.245 32.000 31.99 0.00 45.76 3.32
2577 4699 6.258727 TGTTTGTTTGTGTCACAATTGTGTTT 59.741 30.769 31.99 0.00 45.76 2.83
2578 4700 6.851222 TTGTTTGTGTCACAATTGTGTTTT 57.149 29.167 31.99 0.00 45.76 2.43
2579 4701 6.220579 TGTTTGTGTCACAATTGTGTTTTG 57.779 33.333 31.99 11.92 45.76 2.44
2580 4702 5.755375 TGTTTGTGTCACAATTGTGTTTTGT 59.245 32.000 31.99 0.00 45.76 2.83
2581 4703 6.074088 TGTTTGTGTCACAATTGTGTTTTGTC 60.074 34.615 31.99 19.73 45.76 3.18
2582 4704 5.384063 TGTGTCACAATTGTGTTTTGTCT 57.616 34.783 31.99 0.00 45.76 3.41
2583 4705 5.159925 TGTGTCACAATTGTGTTTTGTCTG 58.840 37.500 31.99 9.18 45.76 3.51
2584 4706 5.048434 TGTGTCACAATTGTGTTTTGTCTGA 60.048 36.000 31.99 11.80 45.76 3.27
2585 4707 5.286082 GTGTCACAATTGTGTTTTGTCTGAC 59.714 40.000 31.99 21.38 45.76 3.51
2586 4708 5.048434 TGTCACAATTGTGTTTTGTCTGACA 60.048 36.000 31.99 23.31 45.76 3.58
2587 4709 6.035843 GTCACAATTGTGTTTTGTCTGACAT 58.964 36.000 31.99 0.00 45.76 3.06
2588 4710 6.531240 GTCACAATTGTGTTTTGTCTGACATT 59.469 34.615 31.99 0.00 45.76 2.71
2589 4711 7.700234 GTCACAATTGTGTTTTGTCTGACATTA 59.300 33.333 31.99 9.45 45.76 1.90
2590 4712 7.700234 TCACAATTGTGTTTTGTCTGACATTAC 59.300 33.333 31.99 12.56 45.76 1.89
2591 4713 7.701924 CACAATTGTGTTTTGTCTGACATTACT 59.298 33.333 27.08 0.00 40.96 2.24
2592 4714 8.250332 ACAATTGTGTTTTGTCTGACATTACTT 58.750 29.630 11.07 1.32 32.58 2.24
2593 4715 8.533965 CAATTGTGTTTTGTCTGACATTACTTG 58.466 33.333 11.86 8.95 0.00 3.16
2594 4716 5.577835 TGTGTTTTGTCTGACATTACTTGC 58.422 37.500 11.86 7.98 0.00 4.01
2595 4717 5.124617 TGTGTTTTGTCTGACATTACTTGCA 59.875 36.000 11.86 9.97 0.00 4.08
2596 4718 5.455525 GTGTTTTGTCTGACATTACTTGCAC 59.544 40.000 11.86 9.93 0.00 4.57
2597 4719 5.124617 TGTTTTGTCTGACATTACTTGCACA 59.875 36.000 11.86 3.63 0.00 4.57
2598 4720 5.422666 TTTGTCTGACATTACTTGCACAG 57.577 39.130 11.86 0.00 35.63 3.66
2599 4721 2.807967 TGTCTGACATTACTTGCACAGC 59.192 45.455 6.36 0.00 34.86 4.40
2600 4722 3.070018 GTCTGACATTACTTGCACAGCT 58.930 45.455 2.24 0.00 34.86 4.24
2601 4723 4.245660 GTCTGACATTACTTGCACAGCTA 58.754 43.478 2.24 0.00 34.86 3.32
2602 4724 4.690748 GTCTGACATTACTTGCACAGCTAA 59.309 41.667 2.24 0.00 34.86 3.09
2603 4725 5.179368 GTCTGACATTACTTGCACAGCTAAA 59.821 40.000 2.24 0.00 34.86 1.85
2604 4726 5.939883 TCTGACATTACTTGCACAGCTAAAT 59.060 36.000 0.00 0.00 34.86 1.40
2605 4727 5.941733 TGACATTACTTGCACAGCTAAATG 58.058 37.500 0.00 2.51 0.00 2.32
2606 4728 4.737054 ACATTACTTGCACAGCTAAATGC 58.263 39.130 9.31 9.31 42.40 3.56
2607 4729 3.848272 TTACTTGCACAGCTAAATGCC 57.152 42.857 12.74 0.00 44.23 4.40
2608 4730 1.915141 ACTTGCACAGCTAAATGCCT 58.085 45.000 12.74 0.00 44.23 4.75
2609 4731 1.542915 ACTTGCACAGCTAAATGCCTG 59.457 47.619 12.74 8.64 44.23 4.85
2610 4732 1.814394 CTTGCACAGCTAAATGCCTGA 59.186 47.619 12.74 1.18 44.23 3.86
2611 4733 2.133281 TGCACAGCTAAATGCCTGAT 57.867 45.000 12.74 0.00 44.23 2.90
2612 4734 3.280197 TGCACAGCTAAATGCCTGATA 57.720 42.857 12.74 0.00 44.23 2.15
2613 4735 3.824133 TGCACAGCTAAATGCCTGATAT 58.176 40.909 12.74 0.00 44.23 1.63
2614 4736 4.971939 TGCACAGCTAAATGCCTGATATA 58.028 39.130 12.74 0.00 44.23 0.86
2615 4737 5.563592 TGCACAGCTAAATGCCTGATATAT 58.436 37.500 12.74 0.00 44.23 0.86
2616 4738 6.710278 TGCACAGCTAAATGCCTGATATATA 58.290 36.000 12.74 0.00 44.23 0.86
2617 4739 6.820152 TGCACAGCTAAATGCCTGATATATAG 59.180 38.462 12.74 0.00 44.23 1.31
2618 4740 6.820656 GCACAGCTAAATGCCTGATATATAGT 59.179 38.462 5.66 0.00 44.23 2.12
2619 4741 7.335422 GCACAGCTAAATGCCTGATATATAGTT 59.665 37.037 5.66 0.00 44.23 2.24
2620 4742 8.663025 CACAGCTAAATGCCTGATATATAGTTG 58.337 37.037 0.00 0.00 44.23 3.16
2621 4743 7.335422 ACAGCTAAATGCCTGATATATAGTTGC 59.665 37.037 0.00 0.00 44.23 4.17
2622 4744 7.551974 CAGCTAAATGCCTGATATATAGTTGCT 59.448 37.037 0.00 0.00 44.23 3.91
2623 4745 7.551974 AGCTAAATGCCTGATATATAGTTGCTG 59.448 37.037 0.00 0.00 44.23 4.41
2624 4746 6.506500 AAATGCCTGATATATAGTTGCTGC 57.493 37.500 0.00 0.00 0.00 5.25
2625 4747 4.897509 TGCCTGATATATAGTTGCTGCT 57.102 40.909 0.00 0.00 0.00 4.24
2626 4748 5.233083 TGCCTGATATATAGTTGCTGCTT 57.767 39.130 0.00 0.00 0.00 3.91
2627 4749 4.999311 TGCCTGATATATAGTTGCTGCTTG 59.001 41.667 0.00 0.00 0.00 4.01
2628 4750 5.221702 TGCCTGATATATAGTTGCTGCTTGA 60.222 40.000 0.00 0.00 0.00 3.02
2629 4751 5.879223 GCCTGATATATAGTTGCTGCTTGAT 59.121 40.000 0.00 0.00 0.00 2.57
2630 4752 6.373774 GCCTGATATATAGTTGCTGCTTGATT 59.626 38.462 0.00 0.00 0.00 2.57
2631 4753 7.625817 GCCTGATATATAGTTGCTGCTTGATTG 60.626 40.741 0.00 0.00 0.00 2.67
2632 4754 7.137490 TGATATATAGTTGCTGCTTGATTGC 57.863 36.000 0.00 0.00 0.00 3.56
2633 4755 6.938596 TGATATATAGTTGCTGCTTGATTGCT 59.061 34.615 0.00 0.00 0.00 3.91
2634 4756 3.777465 ATAGTTGCTGCTTGATTGCTG 57.223 42.857 0.00 0.00 35.44 4.41
2635 4757 1.325355 AGTTGCTGCTTGATTGCTGT 58.675 45.000 0.00 0.00 34.93 4.40
2636 4758 1.268899 AGTTGCTGCTTGATTGCTGTC 59.731 47.619 0.00 0.00 34.93 3.51
2637 4759 1.001048 GTTGCTGCTTGATTGCTGTCA 60.001 47.619 0.00 0.00 34.93 3.58
2638 4760 0.879090 TGCTGCTTGATTGCTGTCAG 59.121 50.000 0.00 0.00 34.93 3.51
2639 4761 0.170561 GCTGCTTGATTGCTGTCAGG 59.829 55.000 1.14 0.00 34.93 3.86
2640 4762 0.809385 CTGCTTGATTGCTGTCAGGG 59.191 55.000 1.14 0.00 0.00 4.45
2641 4763 1.246056 TGCTTGATTGCTGTCAGGGC 61.246 55.000 1.14 7.27 32.88 5.19
2642 4764 1.941999 GCTTGATTGCTGTCAGGGCC 61.942 60.000 0.00 0.00 0.00 5.80
2643 4765 0.323178 CTTGATTGCTGTCAGGGCCT 60.323 55.000 0.00 0.00 0.00 5.19
2644 4766 0.322816 TTGATTGCTGTCAGGGCCTC 60.323 55.000 0.95 0.00 0.00 4.70
2645 4767 1.300963 GATTGCTGTCAGGGCCTCA 59.699 57.895 0.95 0.00 0.00 3.86
2646 4768 0.322816 GATTGCTGTCAGGGCCTCAA 60.323 55.000 0.95 4.84 0.00 3.02
2647 4769 0.112995 ATTGCTGTCAGGGCCTCAAA 59.887 50.000 0.95 0.00 0.00 2.69
2648 4770 0.538057 TTGCTGTCAGGGCCTCAAAG 60.538 55.000 0.95 0.00 0.00 2.77
2649 4771 1.376466 GCTGTCAGGGCCTCAAAGA 59.624 57.895 0.95 0.00 0.00 2.52
2650 4772 0.250901 GCTGTCAGGGCCTCAAAGAA 60.251 55.000 0.95 0.00 0.00 2.52
2651 4773 1.528129 CTGTCAGGGCCTCAAAGAAC 58.472 55.000 0.95 0.00 0.00 3.01
2652 4774 0.110486 TGTCAGGGCCTCAAAGAACC 59.890 55.000 0.95 0.00 0.00 3.62
2653 4775 0.402121 GTCAGGGCCTCAAAGAACCT 59.598 55.000 0.95 0.00 0.00 3.50
2654 4776 1.149101 TCAGGGCCTCAAAGAACCTT 58.851 50.000 0.95 0.00 0.00 3.50
2655 4777 1.202927 TCAGGGCCTCAAAGAACCTTG 60.203 52.381 0.95 0.00 0.00 3.61
2656 4778 0.113190 AGGGCCTCAAAGAACCTTGG 59.887 55.000 0.00 0.00 0.00 3.61
2657 4779 0.178961 GGGCCTCAAAGAACCTTGGT 60.179 55.000 0.84 0.00 0.00 3.67
2658 4780 1.248486 GGCCTCAAAGAACCTTGGTC 58.752 55.000 0.00 0.00 0.00 4.02
2659 4781 1.202940 GGCCTCAAAGAACCTTGGTCT 60.203 52.381 0.00 0.00 0.00 3.85
2660 4782 2.587522 GCCTCAAAGAACCTTGGTCTT 58.412 47.619 0.00 0.00 36.90 3.01
2661 4783 2.294512 GCCTCAAAGAACCTTGGTCTTG 59.705 50.000 0.00 0.00 35.50 3.02
2662 4784 3.555966 CCTCAAAGAACCTTGGTCTTGT 58.444 45.455 0.00 0.00 35.50 3.16
2663 4785 3.316308 CCTCAAAGAACCTTGGTCTTGTG 59.684 47.826 0.00 0.00 35.50 3.33
2664 4786 3.947834 CTCAAAGAACCTTGGTCTTGTGT 59.052 43.478 0.00 0.00 35.50 3.72
2665 4787 3.694072 TCAAAGAACCTTGGTCTTGTGTG 59.306 43.478 0.00 0.00 35.50 3.82
2666 4788 3.366052 AAGAACCTTGGTCTTGTGTGT 57.634 42.857 0.00 0.00 34.03 3.72
2667 4789 3.366052 AGAACCTTGGTCTTGTGTGTT 57.634 42.857 0.00 0.00 0.00 3.32
2668 4790 3.016736 AGAACCTTGGTCTTGTGTGTTG 58.983 45.455 0.00 0.00 0.00 3.33
2669 4791 1.762708 ACCTTGGTCTTGTGTGTTGG 58.237 50.000 0.00 0.00 0.00 3.77
2670 4792 0.385390 CCTTGGTCTTGTGTGTTGGC 59.615 55.000 0.00 0.00 0.00 4.52
2671 4793 0.385390 CTTGGTCTTGTGTGTTGGCC 59.615 55.000 0.00 0.00 0.00 5.36
2672 4794 0.033601 TTGGTCTTGTGTGTTGGCCT 60.034 50.000 3.32 0.00 0.00 5.19
2673 4795 0.751277 TGGTCTTGTGTGTTGGCCTG 60.751 55.000 3.32 0.00 0.00 4.85
2674 4796 0.751643 GGTCTTGTGTGTTGGCCTGT 60.752 55.000 3.32 0.00 0.00 4.00
2675 4797 1.102978 GTCTTGTGTGTTGGCCTGTT 58.897 50.000 3.32 0.00 0.00 3.16
2676 4798 1.102154 TCTTGTGTGTTGGCCTGTTG 58.898 50.000 3.32 0.00 0.00 3.33
2677 4799 0.102844 CTTGTGTGTTGGCCTGTTGG 59.897 55.000 3.32 0.00 0.00 3.77
2678 4800 1.326213 TTGTGTGTTGGCCTGTTGGG 61.326 55.000 3.32 0.00 38.36 4.12
2688 4810 3.540211 CCTGTTGGGCTACTGTCAG 57.460 57.895 0.00 0.00 0.00 3.51
2689 4811 0.036010 CCTGTTGGGCTACTGTCAGG 60.036 60.000 4.53 0.00 36.87 3.86
2690 4812 0.036010 CTGTTGGGCTACTGTCAGGG 60.036 60.000 4.53 0.00 0.00 4.45
2691 4813 1.377333 GTTGGGCTACTGTCAGGGC 60.377 63.158 4.53 8.04 0.00 5.19
2692 4814 2.602676 TTGGGCTACTGTCAGGGCC 61.603 63.158 22.92 22.92 44.50 5.80
2693 4815 2.689034 GGGCTACTGTCAGGGCCT 60.689 66.667 26.95 0.00 43.62 5.19
2694 4816 2.301738 GGGCTACTGTCAGGGCCTT 61.302 63.158 26.95 0.00 43.62 4.35
2695 4817 1.685820 GGCTACTGTCAGGGCCTTT 59.314 57.895 23.41 0.00 41.20 3.11
2696 4818 0.909623 GGCTACTGTCAGGGCCTTTA 59.090 55.000 23.41 0.00 41.20 1.85
2697 4819 1.280998 GGCTACTGTCAGGGCCTTTAA 59.719 52.381 23.41 0.00 41.20 1.52
2698 4820 2.092375 GGCTACTGTCAGGGCCTTTAAT 60.092 50.000 23.41 0.00 41.20 1.40
2699 4821 3.621558 GCTACTGTCAGGGCCTTTAATT 58.378 45.455 1.32 0.00 0.00 1.40
2700 4822 4.017126 GCTACTGTCAGGGCCTTTAATTT 58.983 43.478 1.32 0.00 0.00 1.82
2701 4823 4.096532 GCTACTGTCAGGGCCTTTAATTTC 59.903 45.833 1.32 0.00 0.00 2.17
2702 4824 4.112634 ACTGTCAGGGCCTTTAATTTCA 57.887 40.909 1.32 0.00 0.00 2.69
2703 4825 4.677182 ACTGTCAGGGCCTTTAATTTCAT 58.323 39.130 1.32 0.00 0.00 2.57
2704 4826 4.463891 ACTGTCAGGGCCTTTAATTTCATG 59.536 41.667 1.32 0.00 0.00 3.07
2705 4827 3.195396 TGTCAGGGCCTTTAATTTCATGC 59.805 43.478 1.32 0.00 0.00 4.06
2706 4828 3.448660 GTCAGGGCCTTTAATTTCATGCT 59.551 43.478 1.32 0.00 0.00 3.79
2707 4829 4.644685 GTCAGGGCCTTTAATTTCATGCTA 59.355 41.667 1.32 0.00 0.00 3.49
2708 4830 5.302823 GTCAGGGCCTTTAATTTCATGCTAT 59.697 40.000 1.32 0.00 0.00 2.97
2709 4831 5.898972 TCAGGGCCTTTAATTTCATGCTATT 59.101 36.000 1.32 0.00 0.00 1.73
2710 4832 6.383726 TCAGGGCCTTTAATTTCATGCTATTT 59.616 34.615 1.32 0.00 0.00 1.40
2711 4833 7.049754 CAGGGCCTTTAATTTCATGCTATTTT 58.950 34.615 1.32 0.00 0.00 1.82
2712 4834 7.011669 CAGGGCCTTTAATTTCATGCTATTTTG 59.988 37.037 1.32 0.00 0.00 2.44
2713 4835 6.260714 GGGCCTTTAATTTCATGCTATTTTGG 59.739 38.462 0.84 0.00 0.00 3.28
2714 4836 6.823182 GGCCTTTAATTTCATGCTATTTTGGT 59.177 34.615 0.00 0.00 0.00 3.67
2715 4837 7.201635 GGCCTTTAATTTCATGCTATTTTGGTG 60.202 37.037 0.00 0.00 0.00 4.17
2716 4838 7.334171 GCCTTTAATTTCATGCTATTTTGGTGT 59.666 33.333 0.00 0.00 0.00 4.16
2717 4839 8.872845 CCTTTAATTTCATGCTATTTTGGTGTC 58.127 33.333 0.00 0.00 0.00 3.67
2718 4840 9.643693 CTTTAATTTCATGCTATTTTGGTGTCT 57.356 29.630 0.00 0.00 0.00 3.41
2721 4843 8.579850 AATTTCATGCTATTTTGGTGTCTAGA 57.420 30.769 0.00 0.00 0.00 2.43
2722 4844 7.994425 TTTCATGCTATTTTGGTGTCTAGAA 57.006 32.000 0.00 0.00 0.00 2.10
2723 4845 6.985188 TCATGCTATTTTGGTGTCTAGAAC 57.015 37.500 0.00 0.00 0.00 3.01
2724 4846 6.711277 TCATGCTATTTTGGTGTCTAGAACT 58.289 36.000 0.00 0.00 0.00 3.01
2725 4847 7.168219 TCATGCTATTTTGGTGTCTAGAACTT 58.832 34.615 0.00 0.00 0.00 2.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
30 31 0.736325 CCGCGGTAACTTCTGGACAG 60.736 60.000 19.50 0.00 0.00 3.51
31 32 1.180456 TCCGCGGTAACTTCTGGACA 61.180 55.000 27.15 0.00 0.00 4.02
62 64 1.677633 CCCCGTGCGATTTTTCCCT 60.678 57.895 0.00 0.00 0.00 4.20
70 72 3.081409 AAGTAGGCCCCGTGCGAT 61.081 61.111 0.00 0.00 42.61 4.58
133 147 1.270625 CGTGTTTCCTTCACCAGGCTA 60.271 52.381 0.00 0.00 43.55 3.93
174 188 5.891451 TGAGTTGTAGAAGACCATATGACG 58.109 41.667 3.65 0.00 0.00 4.35
271 285 6.877668 TGTAGGAAAACATATGACCACCTA 57.122 37.500 10.38 13.03 0.00 3.08
512 541 1.404035 GATGATGTTTTACCACCCGCC 59.596 52.381 0.00 0.00 0.00 6.13
516 545 3.243068 GCCATCGATGATGTTTTACCACC 60.243 47.826 26.86 0.00 38.28 4.61
519 548 4.900635 AAGCCATCGATGATGTTTTACC 57.099 40.909 26.86 3.50 38.28 2.85
520 549 4.500477 GCAAAGCCATCGATGATGTTTTAC 59.500 41.667 26.86 11.66 38.28 2.01
521 550 4.157472 TGCAAAGCCATCGATGATGTTTTA 59.843 37.500 26.86 10.54 38.28 1.52
522 551 3.056678 TGCAAAGCCATCGATGATGTTTT 60.057 39.130 26.86 16.84 38.28 2.43
542 571 8.028938 AGAAGACATTATTAACCAACAACATGC 58.971 33.333 0.00 0.00 0.00 4.06
889 944 7.820872 CCCCAAGGAATTAATTTCATGATATGC 59.179 37.037 12.34 0.00 35.94 3.14
914 969 6.381707 GGGGTAGATTTATAGTGGAGAGATCC 59.618 46.154 0.00 0.00 0.00 3.36
1155 2952 2.452767 GAACACCTTAGGTTCCGCG 58.547 57.895 0.00 0.00 38.92 6.46
1414 3211 1.672356 CGTCCACCTTCCAGCCAAG 60.672 63.158 0.00 0.00 0.00 3.61
1510 3307 1.821216 GACCCCATGTCGATGTTGTT 58.179 50.000 0.00 0.00 33.49 2.83
1738 3535 1.344191 GCTGGAGCCTGGAGATCCTT 61.344 60.000 0.00 0.00 34.04 3.36
1761 3558 2.601398 CGATAGCTGGCCATGCACG 61.601 63.158 23.46 20.36 0.00 5.34
1913 3757 5.099042 GCCTTTTGGGTAGAGATCAACTA 57.901 43.478 0.00 0.00 40.82 2.24
2035 4142 1.098712 GGCCAACACACGAGACCAAA 61.099 55.000 0.00 0.00 0.00 3.28
2070 4178 7.912778 AAATAGCATGAAATTAAAGGCCCTA 57.087 32.000 0.00 0.00 0.00 3.53
2138 4246 0.105778 GGCTCCAGGAGAAGGAATCG 59.894 60.000 21.89 0.00 34.08 3.34
2238 4348 3.807631 TTTGCCTGTCGCGAGCTGT 62.808 57.895 10.24 0.00 42.08 4.40
2239 4349 3.043713 TTTGCCTGTCGCGAGCTG 61.044 61.111 10.24 8.75 42.08 4.24
2240 4350 3.044305 GTTTGCCTGTCGCGAGCT 61.044 61.111 10.24 0.00 42.08 4.09
2241 4351 2.568935 GATGTTTGCCTGTCGCGAGC 62.569 60.000 10.24 11.02 42.08 5.03
2242 4352 1.291184 TGATGTTTGCCTGTCGCGAG 61.291 55.000 10.24 0.00 42.08 5.03
2243 4353 1.291184 CTGATGTTTGCCTGTCGCGA 61.291 55.000 3.71 3.71 42.08 5.87
2244 4354 1.133253 CTGATGTTTGCCTGTCGCG 59.867 57.895 0.00 0.00 42.08 5.87
2245 4355 0.874390 TTCTGATGTTTGCCTGTCGC 59.126 50.000 0.00 0.00 38.31 5.19
2246 4356 2.146342 AGTTCTGATGTTTGCCTGTCG 58.854 47.619 0.00 0.00 0.00 4.35
2247 4357 4.095483 CCATAGTTCTGATGTTTGCCTGTC 59.905 45.833 0.00 0.00 0.00 3.51
2405 4527 2.923035 CCGGTCAGTGGGGTGACT 60.923 66.667 0.00 0.00 45.34 3.41
2469 4591 6.477033 CGCTAGCAAATAGAACTAGTCAACAT 59.523 38.462 16.45 0.00 36.57 2.71
2484 4606 5.011090 TGTAGAGTTCATCGCTAGCAAAT 57.989 39.130 16.45 4.55 0.00 2.32
2531 4653 5.381757 ACAGGTGCAACTTAAGATTTACCA 58.618 37.500 0.00 0.00 36.74 3.25
2532 4654 5.959618 ACAGGTGCAACTTAAGATTTACC 57.040 39.130 0.00 11.68 36.74 2.85
2533 4655 7.200455 ACAAACAGGTGCAACTTAAGATTTAC 58.800 34.615 0.00 3.12 36.74 2.01
2534 4656 7.341445 ACAAACAGGTGCAACTTAAGATTTA 57.659 32.000 0.00 0.00 36.74 1.40
2535 4657 6.220726 ACAAACAGGTGCAACTTAAGATTT 57.779 33.333 0.00 0.00 36.74 2.17
2536 4658 5.852282 ACAAACAGGTGCAACTTAAGATT 57.148 34.783 0.00 0.00 36.74 2.40
2537 4659 5.852282 AACAAACAGGTGCAACTTAAGAT 57.148 34.783 0.00 0.00 36.74 2.40
2538 4660 5.047660 ACAAACAAACAGGTGCAACTTAAGA 60.048 36.000 0.00 0.00 36.74 2.10
2539 4661 5.062058 CACAAACAAACAGGTGCAACTTAAG 59.938 40.000 0.00 0.00 36.74 1.85
2540 4662 4.926238 CACAAACAAACAGGTGCAACTTAA 59.074 37.500 0.00 0.00 36.74 1.85
2541 4663 4.021894 ACACAAACAAACAGGTGCAACTTA 60.022 37.500 0.00 0.00 36.74 2.24
2542 4664 3.244044 ACACAAACAAACAGGTGCAACTT 60.244 39.130 0.00 0.00 36.74 2.66
2543 4665 2.298729 ACACAAACAAACAGGTGCAACT 59.701 40.909 0.00 0.00 36.74 3.16
2544 4666 2.666022 GACACAAACAAACAGGTGCAAC 59.334 45.455 0.00 0.00 34.69 4.17
2545 4667 2.297315 TGACACAAACAAACAGGTGCAA 59.703 40.909 0.00 0.00 34.69 4.08
2546 4668 1.889170 TGACACAAACAAACAGGTGCA 59.111 42.857 0.00 0.00 34.69 4.57
2547 4669 2.258755 GTGACACAAACAAACAGGTGC 58.741 47.619 0.00 0.00 34.69 5.01
2548 4670 3.567576 TGTGACACAAACAAACAGGTG 57.432 42.857 5.62 0.00 37.29 4.00
2549 4671 4.799564 ATTGTGACACAAACAAACAGGT 57.200 36.364 24.00 2.39 41.96 4.00
2550 4672 4.928615 ACAATTGTGACACAAACAAACAGG 59.071 37.500 24.00 10.17 41.96 4.00
2566 4688 7.771183 AGTAATGTCAGACAAAACACAATTGT 58.229 30.769 7.50 4.92 43.37 2.71
2567 4689 8.533965 CAAGTAATGTCAGACAAAACACAATTG 58.466 33.333 7.50 3.24 0.00 2.32
2568 4690 7.222611 GCAAGTAATGTCAGACAAAACACAATT 59.777 33.333 7.50 0.00 0.00 2.32
2569 4691 6.697019 GCAAGTAATGTCAGACAAAACACAAT 59.303 34.615 7.50 0.00 0.00 2.71
2570 4692 6.033341 GCAAGTAATGTCAGACAAAACACAA 58.967 36.000 7.50 0.00 0.00 3.33
2571 4693 5.124617 TGCAAGTAATGTCAGACAAAACACA 59.875 36.000 7.50 6.22 0.00 3.72
2572 4694 5.455525 GTGCAAGTAATGTCAGACAAAACAC 59.544 40.000 7.50 5.99 0.00 3.32
2573 4695 5.124617 TGTGCAAGTAATGTCAGACAAAACA 59.875 36.000 7.50 1.30 0.00 2.83
2574 4696 5.577835 TGTGCAAGTAATGTCAGACAAAAC 58.422 37.500 7.50 8.80 0.00 2.43
2575 4697 5.733091 GCTGTGCAAGTAATGTCAGACAAAA 60.733 40.000 7.50 0.00 36.18 2.44
2576 4698 4.261155 GCTGTGCAAGTAATGTCAGACAAA 60.261 41.667 7.50 0.00 36.18 2.83
2577 4699 3.250762 GCTGTGCAAGTAATGTCAGACAA 59.749 43.478 7.50 0.00 36.18 3.18
2578 4700 2.807967 GCTGTGCAAGTAATGTCAGACA 59.192 45.455 5.50 5.50 36.18 3.41
2579 4701 3.070018 AGCTGTGCAAGTAATGTCAGAC 58.930 45.455 0.00 0.00 36.18 3.51
2580 4702 3.407424 AGCTGTGCAAGTAATGTCAGA 57.593 42.857 0.00 0.00 36.18 3.27
2581 4703 5.611796 TTTAGCTGTGCAAGTAATGTCAG 57.388 39.130 0.00 0.00 36.73 3.51
2582 4704 5.619757 GCATTTAGCTGTGCAAGTAATGTCA 60.620 40.000 13.56 0.00 40.94 3.58
2583 4705 4.795278 GCATTTAGCTGTGCAAGTAATGTC 59.205 41.667 13.56 0.00 40.94 3.06
2584 4706 4.380867 GGCATTTAGCTGTGCAAGTAATGT 60.381 41.667 18.26 0.00 43.00 2.71
2585 4707 4.107622 GGCATTTAGCTGTGCAAGTAATG 58.892 43.478 18.26 2.90 43.00 1.90
2586 4708 4.019174 AGGCATTTAGCTGTGCAAGTAAT 58.981 39.130 18.26 0.03 43.00 1.89
2587 4709 3.191162 CAGGCATTTAGCTGTGCAAGTAA 59.809 43.478 18.26 0.00 43.00 2.24
2588 4710 2.749076 CAGGCATTTAGCTGTGCAAGTA 59.251 45.455 18.26 0.00 43.00 2.24
2589 4711 1.542915 CAGGCATTTAGCTGTGCAAGT 59.457 47.619 18.26 4.11 43.00 3.16
2590 4712 1.814394 TCAGGCATTTAGCTGTGCAAG 59.186 47.619 18.26 11.67 43.00 4.01
2591 4713 1.908344 TCAGGCATTTAGCTGTGCAA 58.092 45.000 18.26 4.85 43.00 4.08
2592 4714 2.133281 ATCAGGCATTTAGCTGTGCA 57.867 45.000 18.26 0.00 43.00 4.57
2593 4715 6.820656 ACTATATATCAGGCATTTAGCTGTGC 59.179 38.462 10.91 10.91 44.79 4.57
2594 4716 8.663025 CAACTATATATCAGGCATTTAGCTGTG 58.337 37.037 0.00 0.00 44.79 3.66
2595 4717 7.335422 GCAACTATATATCAGGCATTTAGCTGT 59.665 37.037 0.00 0.00 44.79 4.40
2596 4718 7.551974 AGCAACTATATATCAGGCATTTAGCTG 59.448 37.037 0.00 0.00 44.79 4.24
2597 4719 7.551974 CAGCAACTATATATCAGGCATTTAGCT 59.448 37.037 0.00 0.00 44.79 3.32
2598 4720 7.678218 GCAGCAACTATATATCAGGCATTTAGC 60.678 40.741 0.00 0.00 44.65 3.09
2599 4721 7.551974 AGCAGCAACTATATATCAGGCATTTAG 59.448 37.037 0.00 0.00 0.00 1.85
2600 4722 7.397221 AGCAGCAACTATATATCAGGCATTTA 58.603 34.615 0.00 0.00 0.00 1.40
2601 4723 6.243900 AGCAGCAACTATATATCAGGCATTT 58.756 36.000 0.00 0.00 0.00 2.32
2602 4724 5.813383 AGCAGCAACTATATATCAGGCATT 58.187 37.500 0.00 0.00 0.00 3.56
2603 4725 5.432680 AGCAGCAACTATATATCAGGCAT 57.567 39.130 0.00 0.00 0.00 4.40
2604 4726 4.897509 AGCAGCAACTATATATCAGGCA 57.102 40.909 0.00 0.00 0.00 4.75
2605 4727 5.240891 TCAAGCAGCAACTATATATCAGGC 58.759 41.667 0.00 0.00 0.00 4.85
2606 4728 7.625817 GCAATCAAGCAGCAACTATATATCAGG 60.626 40.741 0.00 0.00 0.00 3.86
2607 4729 7.119407 AGCAATCAAGCAGCAACTATATATCAG 59.881 37.037 0.00 0.00 36.85 2.90
2608 4730 6.938596 AGCAATCAAGCAGCAACTATATATCA 59.061 34.615 0.00 0.00 36.85 2.15
2609 4731 7.094890 ACAGCAATCAAGCAGCAACTATATATC 60.095 37.037 0.00 0.00 36.85 1.63
2610 4732 6.713903 ACAGCAATCAAGCAGCAACTATATAT 59.286 34.615 0.00 0.00 36.85 0.86
2611 4733 6.057533 ACAGCAATCAAGCAGCAACTATATA 58.942 36.000 0.00 0.00 36.85 0.86
2612 4734 4.885907 ACAGCAATCAAGCAGCAACTATAT 59.114 37.500 0.00 0.00 36.85 0.86
2613 4735 4.264253 ACAGCAATCAAGCAGCAACTATA 58.736 39.130 0.00 0.00 36.85 1.31
2614 4736 3.087031 ACAGCAATCAAGCAGCAACTAT 58.913 40.909 0.00 0.00 36.85 2.12
2615 4737 2.485426 GACAGCAATCAAGCAGCAACTA 59.515 45.455 0.00 0.00 36.85 2.24
2616 4738 1.268899 GACAGCAATCAAGCAGCAACT 59.731 47.619 0.00 0.00 36.85 3.16
2617 4739 1.001048 TGACAGCAATCAAGCAGCAAC 60.001 47.619 0.00 0.00 36.85 4.17
2618 4740 1.268625 CTGACAGCAATCAAGCAGCAA 59.731 47.619 0.00 0.00 36.85 3.91
2619 4741 0.879090 CTGACAGCAATCAAGCAGCA 59.121 50.000 0.00 0.00 36.85 4.41
2620 4742 0.170561 CCTGACAGCAATCAAGCAGC 59.829 55.000 0.00 0.00 36.85 5.25
2621 4743 0.809385 CCCTGACAGCAATCAAGCAG 59.191 55.000 0.00 0.00 36.85 4.24
2622 4744 1.246056 GCCCTGACAGCAATCAAGCA 61.246 55.000 0.00 0.00 36.85 3.91
2623 4745 1.509923 GCCCTGACAGCAATCAAGC 59.490 57.895 0.00 0.00 0.00 4.01
2624 4746 0.323178 AGGCCCTGACAGCAATCAAG 60.323 55.000 0.00 0.00 0.00 3.02
2625 4747 0.322816 GAGGCCCTGACAGCAATCAA 60.323 55.000 0.00 0.00 0.00 2.57
2626 4748 1.300963 GAGGCCCTGACAGCAATCA 59.699 57.895 0.00 0.00 0.00 2.57
2627 4749 0.322816 TTGAGGCCCTGACAGCAATC 60.323 55.000 0.00 0.00 0.00 2.67
2628 4750 0.112995 TTTGAGGCCCTGACAGCAAT 59.887 50.000 0.00 0.00 0.00 3.56
2629 4751 0.538057 CTTTGAGGCCCTGACAGCAA 60.538 55.000 0.00 0.00 0.00 3.91
2630 4752 1.073722 CTTTGAGGCCCTGACAGCA 59.926 57.895 0.00 0.00 0.00 4.41
2631 4753 0.250901 TTCTTTGAGGCCCTGACAGC 60.251 55.000 0.00 0.00 0.00 4.40
2632 4754 1.528129 GTTCTTTGAGGCCCTGACAG 58.472 55.000 0.00 0.00 0.00 3.51
2633 4755 0.110486 GGTTCTTTGAGGCCCTGACA 59.890 55.000 0.00 0.00 0.00 3.58
2634 4756 0.402121 AGGTTCTTTGAGGCCCTGAC 59.598 55.000 0.00 0.00 0.00 3.51
2635 4757 1.149101 AAGGTTCTTTGAGGCCCTGA 58.851 50.000 0.00 0.00 0.00 3.86
2636 4758 1.251251 CAAGGTTCTTTGAGGCCCTG 58.749 55.000 0.00 0.00 0.00 4.45
2637 4759 0.113190 CCAAGGTTCTTTGAGGCCCT 59.887 55.000 0.00 0.00 0.00 5.19
2638 4760 0.178961 ACCAAGGTTCTTTGAGGCCC 60.179 55.000 0.00 0.00 0.00 5.80
2639 4761 1.202940 AGACCAAGGTTCTTTGAGGCC 60.203 52.381 0.00 0.00 0.00 5.19
2640 4762 2.278332 AGACCAAGGTTCTTTGAGGC 57.722 50.000 0.00 0.00 0.00 4.70
2641 4763 3.316308 CACAAGACCAAGGTTCTTTGAGG 59.684 47.826 14.73 0.00 0.00 3.86
2642 4764 3.947834 ACACAAGACCAAGGTTCTTTGAG 59.052 43.478 14.73 10.98 0.00 3.02
2643 4765 3.694072 CACACAAGACCAAGGTTCTTTGA 59.306 43.478 14.73 0.00 0.00 2.69
2644 4766 3.443681 ACACACAAGACCAAGGTTCTTTG 59.556 43.478 0.00 2.33 0.00 2.77
2645 4767 3.697166 ACACACAAGACCAAGGTTCTTT 58.303 40.909 0.00 0.00 0.00 2.52
2646 4768 3.366052 ACACACAAGACCAAGGTTCTT 57.634 42.857 0.00 0.00 0.00 2.52
2647 4769 3.016736 CAACACACAAGACCAAGGTTCT 58.983 45.455 0.00 0.00 0.00 3.01
2648 4770 2.099098 CCAACACACAAGACCAAGGTTC 59.901 50.000 0.00 0.00 0.00 3.62
2649 4771 2.099405 CCAACACACAAGACCAAGGTT 58.901 47.619 0.00 0.00 0.00 3.50
2650 4772 1.762708 CCAACACACAAGACCAAGGT 58.237 50.000 0.00 0.00 0.00 3.50
2651 4773 0.385390 GCCAACACACAAGACCAAGG 59.615 55.000 0.00 0.00 0.00 3.61
2652 4774 0.385390 GGCCAACACACAAGACCAAG 59.615 55.000 0.00 0.00 0.00 3.61
2653 4775 0.033601 AGGCCAACACACAAGACCAA 60.034 50.000 5.01 0.00 0.00 3.67
2654 4776 0.751277 CAGGCCAACACACAAGACCA 60.751 55.000 5.01 0.00 0.00 4.02
2655 4777 0.751643 ACAGGCCAACACACAAGACC 60.752 55.000 5.01 0.00 0.00 3.85
2656 4778 1.102978 AACAGGCCAACACACAAGAC 58.897 50.000 5.01 0.00 0.00 3.01
2657 4779 1.102154 CAACAGGCCAACACACAAGA 58.898 50.000 5.01 0.00 0.00 3.02
2658 4780 0.102844 CCAACAGGCCAACACACAAG 59.897 55.000 5.01 0.00 0.00 3.16
2659 4781 1.326213 CCCAACAGGCCAACACACAA 61.326 55.000 5.01 0.00 0.00 3.33
2660 4782 1.756172 CCCAACAGGCCAACACACA 60.756 57.895 5.01 0.00 0.00 3.72
2661 4783 3.128375 CCCAACAGGCCAACACAC 58.872 61.111 5.01 0.00 0.00 3.82
2670 4792 0.036010 CCTGACAGTAGCCCAACAGG 60.036 60.000 0.93 0.00 38.77 4.00
2671 4793 0.036010 CCCTGACAGTAGCCCAACAG 60.036 60.000 0.93 0.00 0.00 3.16
2672 4794 2.066340 CCCTGACAGTAGCCCAACA 58.934 57.895 0.93 0.00 0.00 3.33
2673 4795 1.377333 GCCCTGACAGTAGCCCAAC 60.377 63.158 0.93 0.00 0.00 3.77
2674 4796 2.602676 GGCCCTGACAGTAGCCCAA 61.603 63.158 18.71 0.00 39.60 4.12
2675 4797 3.009115 GGCCCTGACAGTAGCCCA 61.009 66.667 18.71 0.00 39.60 5.36
2677 4799 0.909623 TAAAGGCCCTGACAGTAGCC 59.090 55.000 20.88 20.88 46.13 3.93
2678 4800 2.781681 TTAAAGGCCCTGACAGTAGC 57.218 50.000 0.00 3.98 0.00 3.58
2679 4801 5.253330 TGAAATTAAAGGCCCTGACAGTAG 58.747 41.667 0.00 0.00 0.00 2.57
2680 4802 5.249780 TGAAATTAAAGGCCCTGACAGTA 57.750 39.130 0.00 0.00 0.00 2.74
2681 4803 4.112634 TGAAATTAAAGGCCCTGACAGT 57.887 40.909 0.00 0.00 0.00 3.55
2682 4804 4.678840 GCATGAAATTAAAGGCCCTGACAG 60.679 45.833 0.00 0.00 0.00 3.51
2683 4805 3.195396 GCATGAAATTAAAGGCCCTGACA 59.805 43.478 0.00 0.00 0.00 3.58
2684 4806 3.448660 AGCATGAAATTAAAGGCCCTGAC 59.551 43.478 0.00 0.00 0.00 3.51
2685 4807 3.711863 AGCATGAAATTAAAGGCCCTGA 58.288 40.909 0.00 0.00 0.00 3.86
2686 4808 5.796424 ATAGCATGAAATTAAAGGCCCTG 57.204 39.130 0.00 0.00 0.00 4.45
2687 4809 6.813293 AAATAGCATGAAATTAAAGGCCCT 57.187 33.333 0.00 0.00 0.00 5.19
2688 4810 6.260714 CCAAAATAGCATGAAATTAAAGGCCC 59.739 38.462 0.00 0.00 0.00 5.80
2689 4811 6.823182 ACCAAAATAGCATGAAATTAAAGGCC 59.177 34.615 0.00 0.00 0.00 5.19
2690 4812 7.334171 ACACCAAAATAGCATGAAATTAAAGGC 59.666 33.333 0.00 0.00 0.00 4.35
2691 4813 8.776376 ACACCAAAATAGCATGAAATTAAAGG 57.224 30.769 0.00 1.31 0.00 3.11
2692 4814 9.643693 AGACACCAAAATAGCATGAAATTAAAG 57.356 29.630 0.00 0.00 0.00 1.85
2695 4817 9.679661 TCTAGACACCAAAATAGCATGAAATTA 57.320 29.630 0.00 0.00 0.00 1.40
2696 4818 8.579850 TCTAGACACCAAAATAGCATGAAATT 57.420 30.769 0.00 0.00 0.00 1.82
2697 4819 8.462016 GTTCTAGACACCAAAATAGCATGAAAT 58.538 33.333 0.00 0.00 0.00 2.17
2698 4820 7.665559 AGTTCTAGACACCAAAATAGCATGAAA 59.334 33.333 0.00 0.00 0.00 2.69
2699 4821 7.168219 AGTTCTAGACACCAAAATAGCATGAA 58.832 34.615 0.00 0.00 0.00 2.57
2700 4822 6.711277 AGTTCTAGACACCAAAATAGCATGA 58.289 36.000 0.00 0.00 0.00 3.07
2701 4823 6.992063 AGTTCTAGACACCAAAATAGCATG 57.008 37.500 0.00 0.00 0.00 4.06


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

AutoCloner maintained by Alex Coulton.