Multiple sequence alignment - TraesCS2A01G108800

Loading Multiple Alignment...

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 TraesCS2A01G108800 chr2A 100.000 3025 0 0 1 3025 60807903 60804879 0.000000e+00 5587.0
1 TraesCS2A01G108800 chr2A 87.768 327 34 5 2533 2857 45077901 45078223 7.920000e-101 377.0
2 TraesCS2A01G108800 chr2A 87.009 331 37 5 2533 2861 136058206 136058532 4.760000e-98 368.0
3 TraesCS2A01G108800 chr2A 86.667 330 39 5 2533 2860 1504302 1503976 7.970000e-96 361.0
4 TraesCS2A01G108800 chr2A 86.667 330 39 4 2533 2860 693233691 693233365 7.970000e-96 361.0
5 TraesCS2A01G108800 chr2D 91.572 2551 97 37 1 2496 60326673 60329160 0.000000e+00 3411.0
6 TraesCS2A01G108800 chr2D 94.483 145 7 1 2879 3023 60329584 60329727 3.930000e-54 222.0
7 TraesCS2A01G108800 chr2D 89.706 68 5 2 2391 2457 270480406 270480472 5.370000e-13 86.1
8 TraesCS2A01G108800 chr2B 90.357 1514 71 33 904 2377 94661119 94662597 0.000000e+00 1917.0
9 TraesCS2A01G108800 chr2B 88.355 979 41 22 1 944 94660169 94661109 0.000000e+00 1109.0
10 TraesCS2A01G108800 chr2B 91.241 137 8 2 2891 3023 94663077 94663213 1.850000e-42 183.0
11 TraesCS2A01G108800 chr2B 86.667 75 8 2 2390 2463 224586511 224586438 6.950000e-12 82.4
12 TraesCS2A01G108800 chr6D 90.578 329 27 3 2533 2860 448561375 448561050 1.670000e-117 433.0
13 TraesCS2A01G108800 chr4D 87.952 332 30 7 2535 2861 485690227 485690553 1.700000e-102 383.0
14 TraesCS2A01G108800 chr4B 87.156 327 39 3 2530 2853 112336558 112336232 4.760000e-98 368.0
15 TraesCS2A01G108800 chr3A 87.009 331 38 5 2533 2861 12175372 12175699 4.760000e-98 368.0
16 TraesCS2A01G108800 chr3A 86.061 330 43 2 2532 2861 555120732 555120406 4.800000e-93 351.0
17 TraesCS2A01G108800 chr3A 90.667 75 5 2 2383 2456 658755089 658755162 6.900000e-17 99.0
18 TraesCS2A01G108800 chr7B 83.929 224 28 7 179 399 683369225 683369007 1.100000e-49 207.0
19 TraesCS2A01G108800 chr7B 89.706 68 5 2 2391 2457 13801873 13801939 5.370000e-13 86.1
20 TraesCS2A01G108800 chr7B 86.842 76 9 1 2384 2458 478482204 478482279 1.930000e-12 84.2
21 TraesCS2A01G108800 chr3D 91.892 74 6 0 2383 2456 523844533 523844606 1.480000e-18 104.0
22 TraesCS2A01G108800 chr1A 90.625 64 6 0 2394 2457 543475080 543475017 5.370000e-13 86.1
23 TraesCS2A01G108800 chr1A 87.838 74 5 4 2391 2461 236718414 236718486 1.930000e-12 84.2
24 TraesCS2A01G108800 chr1A 96.970 33 0 1 2308 2340 465497662 465497693 2.000000e-03 54.7
25 TraesCS2A01G108800 chr1D 96.970 33 0 1 2308 2340 366474874 366474843 2.000000e-03 54.7


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 TraesCS2A01G108800 chr2A 60804879 60807903 3024 True 5587.000000 5587 100.000000 1 3025 1 chr2A.!!$R2 3024
1 TraesCS2A01G108800 chr2D 60326673 60329727 3054 False 1816.500000 3411 93.027500 1 3023 2 chr2D.!!$F2 3022
2 TraesCS2A01G108800 chr2B 94660169 94663213 3044 False 1069.666667 1917 89.984333 1 3023 3 chr2B.!!$F1 3022

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
97 98 0.178935 GGATGAGGAGGAGGAGGAGG 60.179 65.0 0.00 0.00 0.0 4.30 F
1244 1362 0.179124 AGAAGATCGCGAGGCTCAAC 60.179 55.0 16.66 4.83 0.0 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1683 1805 0.896923 TTGTCGCGTAGGGGTATGTT 59.103 50.0 5.77 0.0 42.39 2.71 R
2461 2600 0.107017 AAGCCGCATAACAGCAGGAT 60.107 50.0 0.00 0.0 32.44 3.24 R

All possible primers

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

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
34 35 2.821969 ACACTTGGGCTTGATGACATTC 59.178 45.455 0.00 0.00 0.00 2.67
59 60 8.154203 TCGAATGACTATGCCCTATAATCAAAA 58.846 33.333 0.00 0.00 31.91 2.44
90 91 2.492881 CGAGATGATGGATGAGGAGGAG 59.507 54.545 0.00 0.00 0.00 3.69
91 92 2.833338 GAGATGATGGATGAGGAGGAGG 59.167 54.545 0.00 0.00 0.00 4.30
92 93 2.453991 AGATGATGGATGAGGAGGAGGA 59.546 50.000 0.00 0.00 0.00 3.71
93 94 2.395336 TGATGGATGAGGAGGAGGAG 57.605 55.000 0.00 0.00 0.00 3.69
94 95 1.132913 TGATGGATGAGGAGGAGGAGG 60.133 57.143 0.00 0.00 0.00 4.30
95 96 1.148867 GATGGATGAGGAGGAGGAGGA 59.851 57.143 0.00 0.00 0.00 3.71
96 97 0.560193 TGGATGAGGAGGAGGAGGAG 59.440 60.000 0.00 0.00 0.00 3.69
97 98 0.178935 GGATGAGGAGGAGGAGGAGG 60.179 65.000 0.00 0.00 0.00 4.30
98 99 0.856982 GATGAGGAGGAGGAGGAGGA 59.143 60.000 0.00 0.00 0.00 3.71
99 100 0.859760 ATGAGGAGGAGGAGGAGGAG 59.140 60.000 0.00 0.00 0.00 3.69
100 101 1.292941 TGAGGAGGAGGAGGAGGAGG 61.293 65.000 0.00 0.00 0.00 4.30
166 168 5.184479 AGGAAGCGAGTACATGTAACTACAA 59.816 40.000 7.25 0.00 39.99 2.41
245 250 7.856492 TGATCAATTTGTTCGAATGTTTGAG 57.144 32.000 0.00 0.00 0.00 3.02
246 251 6.363088 TGATCAATTTGTTCGAATGTTTGAGC 59.637 34.615 17.11 17.11 0.00 4.26
247 252 4.674662 TCAATTTGTTCGAATGTTTGAGCG 59.325 37.500 0.00 0.00 0.00 5.03
249 254 4.481930 TTTGTTCGAATGTTTGAGCGAT 57.518 36.364 0.00 0.00 32.38 4.58
250 255 5.599359 TTTGTTCGAATGTTTGAGCGATA 57.401 34.783 0.00 0.00 32.38 2.92
251 256 4.577687 TGTTCGAATGTTTGAGCGATAC 57.422 40.909 0.00 0.00 32.38 2.24
252 257 4.242475 TGTTCGAATGTTTGAGCGATACT 58.758 39.130 0.00 0.00 32.38 2.12
253 258 4.688879 TGTTCGAATGTTTGAGCGATACTT 59.311 37.500 0.00 0.00 32.38 2.24
254 259 5.865013 TGTTCGAATGTTTGAGCGATACTTA 59.135 36.000 0.00 0.00 32.38 2.24
255 260 6.366604 TGTTCGAATGTTTGAGCGATACTTAA 59.633 34.615 0.00 0.00 32.38 1.85
269 274 8.227731 AGCGATACTTAAATTTCAAAGTTTGC 57.772 30.769 10.90 11.63 37.19 3.68
304 310 2.246091 AGGATAGGGATCTGCTAGCC 57.754 55.000 13.29 0.00 32.15 3.93
306 312 1.551452 GATAGGGATCTGCTAGCCGT 58.449 55.000 13.29 0.10 32.90 5.68
314 320 2.067365 TCTGCTAGCCGTGGAATAGA 57.933 50.000 13.29 2.41 0.00 1.98
316 322 1.957177 CTGCTAGCCGTGGAATAGAGA 59.043 52.381 13.29 0.00 0.00 3.10
353 379 7.133483 ACAAATAGTAGAGTGGGATAGGAAGT 58.867 38.462 0.00 0.00 0.00 3.01
797 842 2.289320 CCTCGTCATCCCATCTTCCATC 60.289 54.545 0.00 0.00 0.00 3.51
832 877 1.990799 CAATAAGGTCACGTGAGCGA 58.009 50.000 34.44 27.97 46.33 4.93
902 947 0.914644 TCCTCATCCCCTTGAAGCAG 59.085 55.000 0.00 0.00 0.00 4.24
974 1079 3.678056 AGCACGTGAAGGATTAACTGA 57.322 42.857 22.23 0.00 0.00 3.41
1005 1118 2.702478 CAGAGAGAGGGGCATAATGTCA 59.298 50.000 0.00 0.00 0.00 3.58
1026 1139 3.052082 GAGCGCAAGAAGGCAGCA 61.052 61.111 11.47 0.00 43.02 4.41
1029 1142 3.054503 CGCAAGAAGGCAGCAGCT 61.055 61.111 0.00 0.00 39.96 4.24
1030 1143 2.567049 GCAAGAAGGCAGCAGCTG 59.433 61.111 18.93 18.93 41.70 4.24
1101 1214 0.320946 TAACCCACGCCTCTTTTCGG 60.321 55.000 0.00 0.00 0.00 4.30
1141 1259 3.280197 TGCTGCCATTAGCTTGATGTA 57.720 42.857 0.00 0.00 44.01 2.29
1244 1362 0.179124 AGAAGATCGCGAGGCTCAAC 60.179 55.000 16.66 4.83 0.00 3.18
1269 1387 4.753877 TCGCACGCGAGGAAGACG 62.754 66.667 15.93 3.25 44.01 4.18
1336 1458 1.860950 CTATCACCGCACTGTGTATGC 59.139 52.381 9.86 0.00 39.81 3.14
1718 1842 2.289820 CGACAATGCCTCCTCAATCATG 59.710 50.000 0.00 0.00 0.00 3.07
1739 1863 1.033574 ACTGATCCCCGATCGAACTC 58.966 55.000 18.66 8.21 41.51 3.01
1769 1893 3.878778 AGCAGACCAACATGTTCTATCC 58.121 45.455 8.48 0.00 0.00 2.59
1855 1984 2.874780 GTGACTAGCGACACGGCG 60.875 66.667 4.80 4.80 38.18 6.46
1913 2042 4.098416 GCTGATGCTCGGTTATTTTTGTC 58.902 43.478 0.00 0.00 36.03 3.18
1916 2045 4.092821 TGATGCTCGGTTATTTTTGTCTCG 59.907 41.667 0.00 0.00 0.00 4.04
1922 2051 6.564125 GCTCGGTTATTTTTGTCTCGATATGG 60.564 42.308 0.00 0.00 0.00 2.74
1925 2054 6.256975 CGGTTATTTTTGTCTCGATATGGTGA 59.743 38.462 0.00 0.00 0.00 4.02
1941 2070 3.512516 GATGCAGAACCAGGCGGC 61.513 66.667 0.00 0.00 34.57 6.53
2461 2600 4.875578 AGTGGACAGAGGGTGTACTATA 57.124 45.455 0.00 0.00 41.25 1.31
2462 2601 5.405063 AGTGGACAGAGGGTGTACTATAT 57.595 43.478 0.00 0.00 41.25 0.86
2470 2609 4.140900 AGAGGGTGTACTATATCCTGCTGT 60.141 45.833 0.00 0.00 0.00 4.40
2489 2628 4.500477 GCTGTTATGCGGCTTAATGAAAAG 59.500 41.667 10.94 6.35 45.76 2.27
2496 2635 5.216648 TGCGGCTTAATGAAAAGTTGTTAC 58.783 37.500 0.00 0.00 0.00 2.50
2497 2636 4.619760 GCGGCTTAATGAAAAGTTGTTACC 59.380 41.667 0.00 0.00 0.00 2.85
2498 2637 5.158494 CGGCTTAATGAAAAGTTGTTACCC 58.842 41.667 0.00 0.00 0.00 3.69
2499 2638 5.475719 GGCTTAATGAAAAGTTGTTACCCC 58.524 41.667 0.00 0.00 0.00 4.95
2500 2639 5.475719 GCTTAATGAAAAGTTGTTACCCCC 58.524 41.667 0.00 0.00 0.00 5.40
2549 2688 3.961576 CGGAACCGGATCCTCTAAC 57.038 57.895 26.42 1.47 37.34 2.34
2550 2689 1.108776 CGGAACCGGATCCTCTAACA 58.891 55.000 26.42 0.00 37.34 2.41
2551 2690 1.067212 CGGAACCGGATCCTCTAACAG 59.933 57.143 26.42 7.14 37.34 3.16
2552 2691 2.385803 GGAACCGGATCCTCTAACAGA 58.614 52.381 22.87 0.00 36.50 3.41
2553 2692 2.764572 GGAACCGGATCCTCTAACAGAA 59.235 50.000 22.87 0.00 36.50 3.02
2554 2693 3.197116 GGAACCGGATCCTCTAACAGAAA 59.803 47.826 22.87 0.00 36.50 2.52
2555 2694 4.434520 GAACCGGATCCTCTAACAGAAAG 58.565 47.826 9.46 0.00 0.00 2.62
2556 2695 3.709587 ACCGGATCCTCTAACAGAAAGA 58.290 45.455 9.46 0.00 0.00 2.52
2557 2696 4.094476 ACCGGATCCTCTAACAGAAAGAA 58.906 43.478 9.46 0.00 0.00 2.52
2558 2697 4.160626 ACCGGATCCTCTAACAGAAAGAAG 59.839 45.833 9.46 0.00 0.00 2.85
2559 2698 4.442192 CCGGATCCTCTAACAGAAAGAAGG 60.442 50.000 10.75 0.00 0.00 3.46
2560 2699 4.402793 CGGATCCTCTAACAGAAAGAAGGA 59.597 45.833 10.75 0.00 0.00 3.36
2561 2700 5.105310 CGGATCCTCTAACAGAAAGAAGGAA 60.105 44.000 10.75 0.00 29.80 3.36
2562 2701 6.574465 CGGATCCTCTAACAGAAAGAAGGAAA 60.574 42.308 10.75 0.00 29.80 3.13
2563 2702 6.821160 GGATCCTCTAACAGAAAGAAGGAAAG 59.179 42.308 3.84 0.00 29.80 2.62
2564 2703 6.749036 TCCTCTAACAGAAAGAAGGAAAGT 57.251 37.500 0.00 0.00 0.00 2.66
2565 2704 6.760291 TCCTCTAACAGAAAGAAGGAAAGTC 58.240 40.000 0.00 0.00 0.00 3.01
2566 2705 6.326583 TCCTCTAACAGAAAGAAGGAAAGTCA 59.673 38.462 0.00 0.00 0.00 3.41
2567 2706 6.425417 CCTCTAACAGAAAGAAGGAAAGTCAC 59.575 42.308 0.00 0.00 0.00 3.67
2568 2707 5.983720 TCTAACAGAAAGAAGGAAAGTCACG 59.016 40.000 0.00 0.00 0.00 4.35
2569 2708 3.467803 ACAGAAAGAAGGAAAGTCACGG 58.532 45.455 0.00 0.00 0.00 4.94
2570 2709 3.118371 ACAGAAAGAAGGAAAGTCACGGT 60.118 43.478 0.00 0.00 0.00 4.83
2571 2710 3.248602 CAGAAAGAAGGAAAGTCACGGTG 59.751 47.826 0.56 0.56 0.00 4.94
2572 2711 1.594331 AAGAAGGAAAGTCACGGTGC 58.406 50.000 2.51 0.00 0.00 5.01
2573 2712 0.759346 AGAAGGAAAGTCACGGTGCT 59.241 50.000 2.51 1.17 0.00 4.40
2574 2713 1.968493 AGAAGGAAAGTCACGGTGCTA 59.032 47.619 2.51 0.00 0.00 3.49
2575 2714 2.567615 AGAAGGAAAGTCACGGTGCTAT 59.432 45.455 2.51 0.00 0.00 2.97
2576 2715 3.767673 AGAAGGAAAGTCACGGTGCTATA 59.232 43.478 2.51 0.00 0.00 1.31
2577 2716 3.802948 AGGAAAGTCACGGTGCTATAG 57.197 47.619 2.51 0.00 0.00 1.31
2578 2717 3.097614 AGGAAAGTCACGGTGCTATAGT 58.902 45.455 2.51 0.00 0.00 2.12
2579 2718 3.119101 AGGAAAGTCACGGTGCTATAGTG 60.119 47.826 2.51 0.00 37.24 2.74
2580 2719 2.295253 AAGTCACGGTGCTATAGTGC 57.705 50.000 2.51 0.00 35.97 4.40
2581 2720 1.475403 AGTCACGGTGCTATAGTGCT 58.525 50.000 2.51 0.00 35.97 4.40
2582 2721 2.651455 AGTCACGGTGCTATAGTGCTA 58.349 47.619 2.51 0.00 35.97 3.49
2583 2722 2.619177 AGTCACGGTGCTATAGTGCTAG 59.381 50.000 2.51 0.00 35.97 3.42
2584 2723 1.337071 TCACGGTGCTATAGTGCTAGC 59.663 52.381 8.10 8.10 43.61 3.42
2585 2724 0.674534 ACGGTGCTATAGTGCTAGCC 59.325 55.000 13.29 3.49 42.85 3.93
2586 2725 0.962489 CGGTGCTATAGTGCTAGCCT 59.038 55.000 13.29 11.39 42.85 4.58
2587 2726 2.160205 CGGTGCTATAGTGCTAGCCTA 58.840 52.381 13.29 13.26 42.85 3.93
2588 2727 2.162608 CGGTGCTATAGTGCTAGCCTAG 59.837 54.545 13.29 9.00 42.85 3.02
2589 2728 3.158676 GGTGCTATAGTGCTAGCCTAGT 58.841 50.000 13.29 0.00 42.85 2.57
2590 2729 3.057174 GGTGCTATAGTGCTAGCCTAGTG 60.057 52.174 13.29 10.46 42.85 2.74
2591 2730 3.570550 GTGCTATAGTGCTAGCCTAGTGT 59.429 47.826 13.29 0.00 42.85 3.55
2592 2731 4.760715 GTGCTATAGTGCTAGCCTAGTGTA 59.239 45.833 13.29 7.00 42.85 2.90
2593 2732 5.241064 GTGCTATAGTGCTAGCCTAGTGTAA 59.759 44.000 13.29 0.00 42.85 2.41
2594 2733 5.831525 TGCTATAGTGCTAGCCTAGTGTAAA 59.168 40.000 13.29 0.00 42.85 2.01
2595 2734 6.322969 TGCTATAGTGCTAGCCTAGTGTAAAA 59.677 38.462 13.29 0.00 42.85 1.52
2596 2735 7.015292 TGCTATAGTGCTAGCCTAGTGTAAAAT 59.985 37.037 13.29 0.04 42.85 1.82
2597 2736 8.521176 GCTATAGTGCTAGCCTAGTGTAAAATA 58.479 37.037 13.29 0.00 38.54 1.40
2600 2739 9.765795 ATAGTGCTAGCCTAGTGTAAAATAAAG 57.234 33.333 13.29 0.00 0.00 1.85
2601 2740 7.848128 AGTGCTAGCCTAGTGTAAAATAAAGA 58.152 34.615 13.29 0.00 0.00 2.52
2602 2741 8.319146 AGTGCTAGCCTAGTGTAAAATAAAGAA 58.681 33.333 13.29 0.00 0.00 2.52
2603 2742 8.604890 GTGCTAGCCTAGTGTAAAATAAAGAAG 58.395 37.037 13.29 0.00 0.00 2.85
2604 2743 7.769044 TGCTAGCCTAGTGTAAAATAAAGAAGG 59.231 37.037 13.29 0.00 0.00 3.46
2605 2744 7.226918 GCTAGCCTAGTGTAAAATAAAGAAGGG 59.773 40.741 2.29 0.00 0.00 3.95
2606 2745 7.266905 AGCCTAGTGTAAAATAAAGAAGGGA 57.733 36.000 0.00 0.00 0.00 4.20
2607 2746 7.696017 AGCCTAGTGTAAAATAAAGAAGGGAA 58.304 34.615 0.00 0.00 0.00 3.97
2608 2747 7.829706 AGCCTAGTGTAAAATAAAGAAGGGAAG 59.170 37.037 0.00 0.00 0.00 3.46
2609 2748 7.610692 GCCTAGTGTAAAATAAAGAAGGGAAGT 59.389 37.037 0.00 0.00 0.00 3.01
2610 2749 9.516546 CCTAGTGTAAAATAAAGAAGGGAAGTT 57.483 33.333 0.00 0.00 0.00 2.66
2620 2759 9.549984 AATAAAGAAGGGAAGTTAGAGACTACT 57.450 33.333 0.00 0.00 37.72 2.57
2622 2761 8.584063 AAAGAAGGGAAGTTAGAGACTACTAG 57.416 38.462 0.00 0.00 37.72 2.57
2623 2762 7.274772 AGAAGGGAAGTTAGAGACTACTAGT 57.725 40.000 0.00 0.00 37.72 2.57
2624 2763 8.391305 AGAAGGGAAGTTAGAGACTACTAGTA 57.609 38.462 1.89 1.89 37.72 1.82
2625 2764 8.488668 AGAAGGGAAGTTAGAGACTACTAGTAG 58.511 40.741 25.30 25.30 37.72 2.57
2626 2765 7.140522 AGGGAAGTTAGAGACTACTAGTAGG 57.859 44.000 29.05 14.29 37.72 3.18
2627 2766 6.677965 AGGGAAGTTAGAGACTACTAGTAGGT 59.322 42.308 29.05 18.20 37.72 3.08
2628 2767 7.848875 AGGGAAGTTAGAGACTACTAGTAGGTA 59.151 40.741 29.05 14.54 37.72 3.08
2629 2768 8.150296 GGGAAGTTAGAGACTACTAGTAGGTAG 58.850 44.444 29.05 11.35 43.27 3.18
2641 2780 9.972106 ACTACTAGTAGGTAGTTAACAGATTGT 57.028 33.333 29.05 4.58 46.88 2.71
2646 2785 8.976986 AGTAGGTAGTTAACAGATTGTTTACG 57.023 34.615 8.61 0.00 42.62 3.18
2647 2786 8.579863 AGTAGGTAGTTAACAGATTGTTTACGT 58.420 33.333 8.61 0.00 42.62 3.57
2648 2787 9.196552 GTAGGTAGTTAACAGATTGTTTACGTT 57.803 33.333 8.61 0.00 42.62 3.99
2649 2788 8.667076 AGGTAGTTAACAGATTGTTTACGTTT 57.333 30.769 8.61 0.00 42.62 3.60
2650 2789 8.553696 AGGTAGTTAACAGATTGTTTACGTTTG 58.446 33.333 8.61 0.00 42.62 2.93
2651 2790 7.799914 GGTAGTTAACAGATTGTTTACGTTTGG 59.200 37.037 8.61 0.00 42.62 3.28
2652 2791 7.324354 AGTTAACAGATTGTTTACGTTTGGT 57.676 32.000 8.61 0.00 42.62 3.67
2653 2792 8.436046 AGTTAACAGATTGTTTACGTTTGGTA 57.564 30.769 8.61 0.00 42.62 3.25
2654 2793 9.059260 AGTTAACAGATTGTTTACGTTTGGTAT 57.941 29.630 8.61 0.00 42.62 2.73
2655 2794 9.667989 GTTAACAGATTGTTTACGTTTGGTATT 57.332 29.630 0.00 0.00 41.45 1.89
2658 2797 9.667989 AACAGATTGTTTACGTTTGGTATTTAC 57.332 29.630 0.00 0.00 37.26 2.01
2659 2798 9.059260 ACAGATTGTTTACGTTTGGTATTTACT 57.941 29.630 0.00 0.00 0.00 2.24
2710 2849 9.570488 AATTTTGTTTCACCATCAATTTGTTTG 57.430 25.926 0.00 0.00 36.61 2.93
2711 2850 7.678947 TTTGTTTCACCATCAATTTGTTTGT 57.321 28.000 0.00 0.00 36.65 2.83
2712 2851 8.777865 TTTGTTTCACCATCAATTTGTTTGTA 57.222 26.923 0.00 0.00 36.65 2.41
2713 2852 8.954950 TTGTTTCACCATCAATTTGTTTGTAT 57.045 26.923 0.00 0.00 36.65 2.29
2714 2853 8.586570 TGTTTCACCATCAATTTGTTTGTATC 57.413 30.769 0.00 0.00 36.65 2.24
2715 2854 8.420222 TGTTTCACCATCAATTTGTTTGTATCT 58.580 29.630 0.00 0.00 36.65 1.98
2716 2855 9.906660 GTTTCACCATCAATTTGTTTGTATCTA 57.093 29.630 0.00 0.00 36.65 1.98
2751 2890 8.939201 AATGTACAGAGTAGATCATCAGTTTG 57.061 34.615 0.33 0.00 0.00 2.93
2752 2891 6.333416 TGTACAGAGTAGATCATCAGTTTGC 58.667 40.000 0.00 0.00 0.00 3.68
2753 2892 5.411831 ACAGAGTAGATCATCAGTTTGCA 57.588 39.130 0.00 0.00 0.00 4.08
2754 2893 5.798132 ACAGAGTAGATCATCAGTTTGCAA 58.202 37.500 0.00 0.00 0.00 4.08
2755 2894 6.233434 ACAGAGTAGATCATCAGTTTGCAAA 58.767 36.000 8.05 8.05 0.00 3.68
2756 2895 6.883217 ACAGAGTAGATCATCAGTTTGCAAAT 59.117 34.615 16.21 1.70 0.00 2.32
2757 2896 7.392673 ACAGAGTAGATCATCAGTTTGCAAATT 59.607 33.333 16.21 8.48 0.00 1.82
2758 2897 8.886719 CAGAGTAGATCATCAGTTTGCAAATTA 58.113 33.333 16.21 4.37 0.00 1.40
2759 2898 9.453572 AGAGTAGATCATCAGTTTGCAAATTAA 57.546 29.630 16.21 0.00 0.00 1.40
2802 2941 9.964354 CATAATCATATGGATAGAAACAGGGAA 57.036 33.333 2.13 0.00 36.13 3.97
2804 2943 8.930846 AATCATATGGATAGAAACAGGGAAAG 57.069 34.615 2.13 0.00 34.28 2.62
2805 2944 7.451731 TCATATGGATAGAAACAGGGAAAGT 57.548 36.000 2.13 0.00 0.00 2.66
2806 2945 7.872138 TCATATGGATAGAAACAGGGAAAGTT 58.128 34.615 2.13 0.00 0.00 2.66
2807 2946 8.998814 TCATATGGATAGAAACAGGGAAAGTTA 58.001 33.333 2.13 0.00 0.00 2.24
2808 2947 9.277783 CATATGGATAGAAACAGGGAAAGTTAG 57.722 37.037 0.00 0.00 0.00 2.34
2809 2948 6.945636 TGGATAGAAACAGGGAAAGTTAGA 57.054 37.500 0.00 0.00 0.00 2.10
2810 2949 6.947464 TGGATAGAAACAGGGAAAGTTAGAG 58.053 40.000 0.00 0.00 0.00 2.43
2811 2950 6.500751 TGGATAGAAACAGGGAAAGTTAGAGT 59.499 38.462 0.00 0.00 0.00 3.24
2812 2951 7.676893 TGGATAGAAACAGGGAAAGTTAGAGTA 59.323 37.037 0.00 0.00 0.00 2.59
2813 2952 8.706521 GGATAGAAACAGGGAAAGTTAGAGTAT 58.293 37.037 0.00 0.00 0.00 2.12
2815 2954 9.892130 ATAGAAACAGGGAAAGTTAGAGTATTG 57.108 33.333 0.00 0.00 0.00 1.90
2816 2955 7.746703 AGAAACAGGGAAAGTTAGAGTATTGT 58.253 34.615 0.00 0.00 0.00 2.71
2817 2956 8.877195 AGAAACAGGGAAAGTTAGAGTATTGTA 58.123 33.333 0.00 0.00 0.00 2.41
2818 2957 9.152595 GAAACAGGGAAAGTTAGAGTATTGTAG 57.847 37.037 0.00 0.00 0.00 2.74
2819 2958 6.641474 ACAGGGAAAGTTAGAGTATTGTAGC 58.359 40.000 0.00 0.00 0.00 3.58
2820 2959 6.440965 ACAGGGAAAGTTAGAGTATTGTAGCT 59.559 38.462 0.00 0.00 0.00 3.32
2821 2960 7.038231 ACAGGGAAAGTTAGAGTATTGTAGCTT 60.038 37.037 0.00 0.00 0.00 3.74
2822 2961 7.492994 CAGGGAAAGTTAGAGTATTGTAGCTTC 59.507 40.741 0.00 0.00 0.00 3.86
2823 2962 7.400627 AGGGAAAGTTAGAGTATTGTAGCTTCT 59.599 37.037 0.00 0.00 0.00 2.85
2824 2963 7.707464 GGGAAAGTTAGAGTATTGTAGCTTCTC 59.293 40.741 0.00 0.00 0.00 2.87
2825 2964 8.471609 GGAAAGTTAGAGTATTGTAGCTTCTCT 58.528 37.037 0.00 0.00 38.69 3.10
2860 2999 8.437274 TCTTAATATTAGAGGATCCAGTTCCC 57.563 38.462 15.82 0.00 36.35 3.97
2861 3000 8.016652 TCTTAATATTAGAGGATCCAGTTCCCA 58.983 37.037 15.82 0.00 36.35 4.37
2863 3002 1.776662 TAGAGGATCCAGTTCCCACG 58.223 55.000 15.82 0.00 36.35 4.94
2864 3003 1.153349 GAGGATCCAGTTCCCACGC 60.153 63.158 15.82 0.00 36.35 5.34
2865 3004 2.124695 GGATCCAGTTCCCACGCC 60.125 66.667 6.95 0.00 0.00 5.68
2866 3005 2.511600 GATCCAGTTCCCACGCCG 60.512 66.667 0.00 0.00 0.00 6.46
2867 3006 4.778143 ATCCAGTTCCCACGCCGC 62.778 66.667 0.00 0.00 0.00 6.53
2936 3119 7.847711 ATTAGTATGAGTTACTCATCTGGCT 57.152 36.000 28.37 22.10 46.83 4.75
2944 3127 2.283145 ACTCATCTGGCTTGTTGCTT 57.717 45.000 0.00 0.00 42.39 3.91
2945 3128 1.884579 ACTCATCTGGCTTGTTGCTTG 59.115 47.619 0.00 0.00 42.39 4.01
3012 3196 2.257894 GCATGACAACAGAGAGAGACG 58.742 52.381 0.00 0.00 0.00 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 2.906897 AAGCCCAAGTGTGTGGCG 60.907 61.111 0.00 0.00 42.64 5.69
34 35 7.905604 TTTGATTATAGGGCATAGTCATTCG 57.094 36.000 0.00 0.00 36.19 3.34
59 60 6.244654 TCATCCATCATCTCGACTTATCTCT 58.755 40.000 0.00 0.00 0.00 3.10
90 91 1.541672 CTCCTCCTCCTCCTCCTCC 59.458 68.421 0.00 0.00 0.00 4.30
91 92 0.996762 TCCTCCTCCTCCTCCTCCTC 60.997 65.000 0.00 0.00 0.00 3.71
92 93 0.998945 CTCCTCCTCCTCCTCCTCCT 60.999 65.000 0.00 0.00 0.00 3.69
93 94 1.541672 CTCCTCCTCCTCCTCCTCC 59.458 68.421 0.00 0.00 0.00 4.30
94 95 1.293683 ACCTCCTCCTCCTCCTCCTC 61.294 65.000 0.00 0.00 0.00 3.71
95 96 1.230819 ACCTCCTCCTCCTCCTCCT 60.231 63.158 0.00 0.00 0.00 3.69
96 97 1.231928 GACCTCCTCCTCCTCCTCC 59.768 68.421 0.00 0.00 0.00 4.30
97 98 1.152839 CGACCTCCTCCTCCTCCTC 60.153 68.421 0.00 0.00 0.00 3.71
98 99 1.619975 TCGACCTCCTCCTCCTCCT 60.620 63.158 0.00 0.00 0.00 3.69
99 100 1.152839 CTCGACCTCCTCCTCCTCC 60.153 68.421 0.00 0.00 0.00 4.30
100 101 1.152839 CCTCGACCTCCTCCTCCTC 60.153 68.421 0.00 0.00 0.00 3.71
166 168 8.373220 TGCATCACATCACAAATATAGAGATCT 58.627 33.333 0.00 0.00 0.00 2.75
176 178 9.661563 AGAATTTAAATGCATCACATCACAAAT 57.338 25.926 8.91 0.00 38.34 2.32
239 244 9.394477 ACTTTGAAATTTAAGTATCGCTCAAAC 57.606 29.630 4.82 0.00 33.06 2.93
240 245 9.959749 AACTTTGAAATTTAAGTATCGCTCAAA 57.040 25.926 6.75 1.78 33.66 2.69
243 248 8.365938 GCAAACTTTGAAATTTAAGTATCGCTC 58.634 33.333 5.65 0.00 33.66 5.03
244 249 7.060633 CGCAAACTTTGAAATTTAAGTATCGCT 59.939 33.333 5.65 0.00 33.66 4.93
245 250 7.060174 TCGCAAACTTTGAAATTTAAGTATCGC 59.940 33.333 5.65 8.50 33.66 4.58
246 251 8.429739 TCGCAAACTTTGAAATTTAAGTATCG 57.570 30.769 5.65 9.78 33.66 2.92
304 310 7.335924 TGTTTTTAGGGAAATCTCTATTCCACG 59.664 37.037 7.53 0.00 46.69 4.94
306 312 9.594936 TTTGTTTTTAGGGAAATCTCTATTCCA 57.405 29.630 7.53 0.00 46.69 3.53
338 364 4.459337 CCAAAACAACTTCCTATCCCACTC 59.541 45.833 0.00 0.00 0.00 3.51
342 368 5.567430 AGTACCAAAACAACTTCCTATCCC 58.433 41.667 0.00 0.00 0.00 3.85
634 679 1.748879 GTGCCCACTGTGTGTGTGT 60.749 57.895 7.08 0.00 44.81 3.72
635 680 2.480610 GGTGCCCACTGTGTGTGTG 61.481 63.158 7.08 0.00 44.81 3.82
653 698 4.641645 TCAGTTGCTGCCCACCCG 62.642 66.667 0.00 0.00 0.00 5.28
797 842 1.185315 ATTGCGGTTCAGGGAATTGG 58.815 50.000 0.00 0.00 0.00 3.16
902 947 3.640967 AGAGAGAGAGAGAGAGAGAGAGC 59.359 52.174 0.00 0.00 0.00 4.09
974 1079 3.373830 CCCCTCTCTCTGATTGTCTCTT 58.626 50.000 0.00 0.00 0.00 2.85
1005 1118 2.360475 GCCTTCTTGCGCTCCCTT 60.360 61.111 9.73 0.00 0.00 3.95
1026 1139 2.523325 TCTTCTCCTGTAGAGCAGCT 57.477 50.000 0.00 0.00 43.71 4.24
1029 1142 2.429971 CTGCATCTTCTCCTGTAGAGCA 59.570 50.000 0.00 0.00 42.90 4.26
1030 1143 2.692557 TCTGCATCTTCTCCTGTAGAGC 59.307 50.000 0.00 0.00 42.90 4.09
1031 1144 5.302568 AGAATCTGCATCTTCTCCTGTAGAG 59.697 44.000 5.35 0.00 44.75 2.43
1101 1214 2.489938 TAAGATCACACCAAGGGCAC 57.510 50.000 0.00 0.00 0.00 5.01
1141 1259 7.201401 GCACCGCGATTTTAGATTTAAAAACAT 60.201 33.333 8.23 0.00 40.91 2.71
1244 1362 4.193334 TCGCGTGCGATCTCCTGG 62.193 66.667 13.62 0.00 44.01 4.45
1336 1458 5.815233 ATTCAGGTCCTCCATACAGTATG 57.185 43.478 13.06 13.06 38.11 2.39
1452 1574 5.443261 CAGACGCACGCAATAATTGATTAT 58.557 37.500 0.00 0.00 34.59 1.28
1453 1575 4.785025 GCAGACGCACGCAATAATTGATTA 60.785 41.667 0.00 0.00 38.36 1.75
1683 1805 0.896923 TTGTCGCGTAGGGGTATGTT 59.103 50.000 5.77 0.00 42.39 2.71
1718 1842 1.409427 AGTTCGATCGGGGATCAGTTC 59.591 52.381 16.41 0.00 38.84 3.01
1739 1863 9.279108 AGAACATGTTGGTCTGCTTTACAGTTG 62.279 40.741 17.58 0.00 43.97 3.16
1769 1893 3.517100 ACTATATATGGGCAGCAGAGGTG 59.483 47.826 0.80 0.00 0.00 4.00
1854 1983 2.613739 ATCCATCAGTCGGTCGCACG 62.614 60.000 0.00 0.00 0.00 5.34
1855 1984 1.141881 ATCCATCAGTCGGTCGCAC 59.858 57.895 0.00 0.00 0.00 5.34
1913 2042 3.062763 GGTTCTGCATCACCATATCGAG 58.937 50.000 9.17 0.00 32.74 4.04
1916 2045 3.144506 CCTGGTTCTGCATCACCATATC 58.855 50.000 15.68 0.00 42.35 1.63
1922 2051 2.401766 CCGCCTGGTTCTGCATCAC 61.402 63.158 0.00 0.00 0.00 3.06
1941 2070 1.478105 TGACATCCTCATCCACACTCG 59.522 52.381 0.00 0.00 0.00 4.18
1981 2110 3.803082 CCGCAGTTGGTGATGGCG 61.803 66.667 0.00 0.00 46.61 5.69
2031 2160 1.502690 AGAATATGTGGGGGCACGTA 58.497 50.000 0.00 0.00 0.00 3.57
2068 2198 3.460103 CCATGAAACTATGCAAATGGGC 58.540 45.455 0.00 0.00 32.61 5.36
2069 2199 3.133362 AGCCATGAAACTATGCAAATGGG 59.867 43.478 0.00 0.00 36.02 4.00
2070 2200 4.098960 AGAGCCATGAAACTATGCAAATGG 59.901 41.667 0.00 0.00 38.07 3.16
2071 2201 5.258456 AGAGCCATGAAACTATGCAAATG 57.742 39.130 0.00 0.00 0.00 2.32
2380 2519 8.231837 GCCAAAACGTCTTACATAAGTGAATTA 58.768 33.333 0.00 0.00 34.93 1.40
2381 2520 7.081976 GCCAAAACGTCTTACATAAGTGAATT 58.918 34.615 0.00 0.00 34.93 2.17
2389 2528 7.493743 TTAAACTGCCAAAACGTCTTACATA 57.506 32.000 0.00 0.00 0.00 2.29
2461 2600 0.107017 AAGCCGCATAACAGCAGGAT 60.107 50.000 0.00 0.00 32.44 3.24
2462 2601 0.539518 TAAGCCGCATAACAGCAGGA 59.460 50.000 0.00 0.00 32.44 3.86
2470 2609 6.019779 ACAACTTTTCATTAAGCCGCATAA 57.980 33.333 0.00 0.00 0.00 1.90
2531 2670 1.067212 CTGTTAGAGGATCCGGTTCCG 59.933 57.143 22.98 4.08 40.94 4.30
2532 2671 2.385803 TCTGTTAGAGGATCCGGTTCC 58.614 52.381 22.05 22.05 33.66 3.62
2533 2672 4.159879 TCTTTCTGTTAGAGGATCCGGTTC 59.840 45.833 5.98 1.67 33.66 3.62
2534 2673 4.094476 TCTTTCTGTTAGAGGATCCGGTT 58.906 43.478 5.98 0.00 33.66 4.44
2535 2674 3.709587 TCTTTCTGTTAGAGGATCCGGT 58.290 45.455 5.98 0.00 33.66 5.28
2536 2675 4.442192 CCTTCTTTCTGTTAGAGGATCCGG 60.442 50.000 5.98 0.00 33.66 5.14
2537 2676 4.402793 TCCTTCTTTCTGTTAGAGGATCCG 59.597 45.833 5.98 0.00 33.66 4.18
2538 2677 5.941555 TCCTTCTTTCTGTTAGAGGATCC 57.058 43.478 2.48 2.48 33.66 3.36
2539 2678 7.390823 ACTTTCCTTCTTTCTGTTAGAGGATC 58.609 38.462 0.00 0.00 0.00 3.36
2540 2679 7.016661 TGACTTTCCTTCTTTCTGTTAGAGGAT 59.983 37.037 0.00 0.00 0.00 3.24
2541 2680 6.326583 TGACTTTCCTTCTTTCTGTTAGAGGA 59.673 38.462 0.00 0.00 0.00 3.71
2542 2681 6.425417 GTGACTTTCCTTCTTTCTGTTAGAGG 59.575 42.308 0.00 0.00 0.00 3.69
2543 2682 6.144724 CGTGACTTTCCTTCTTTCTGTTAGAG 59.855 42.308 0.00 0.00 0.00 2.43
2544 2683 5.983720 CGTGACTTTCCTTCTTTCTGTTAGA 59.016 40.000 0.00 0.00 0.00 2.10
2545 2684 5.177696 CCGTGACTTTCCTTCTTTCTGTTAG 59.822 44.000 0.00 0.00 0.00 2.34
2546 2685 5.054477 CCGTGACTTTCCTTCTTTCTGTTA 58.946 41.667 0.00 0.00 0.00 2.41
2547 2686 3.877508 CCGTGACTTTCCTTCTTTCTGTT 59.122 43.478 0.00 0.00 0.00 3.16
2548 2687 3.118371 ACCGTGACTTTCCTTCTTTCTGT 60.118 43.478 0.00 0.00 0.00 3.41
2549 2688 3.248602 CACCGTGACTTTCCTTCTTTCTG 59.751 47.826 0.00 0.00 0.00 3.02
2550 2689 3.467803 CACCGTGACTTTCCTTCTTTCT 58.532 45.455 0.00 0.00 0.00 2.52
2551 2690 2.031944 GCACCGTGACTTTCCTTCTTTC 60.032 50.000 1.65 0.00 0.00 2.62
2552 2691 1.947456 GCACCGTGACTTTCCTTCTTT 59.053 47.619 1.65 0.00 0.00 2.52
2553 2692 1.141053 AGCACCGTGACTTTCCTTCTT 59.859 47.619 1.65 0.00 0.00 2.52
2554 2693 0.759346 AGCACCGTGACTTTCCTTCT 59.241 50.000 1.65 0.00 0.00 2.85
2555 2694 2.450609 TAGCACCGTGACTTTCCTTC 57.549 50.000 1.65 0.00 0.00 3.46
2556 2695 3.514309 ACTATAGCACCGTGACTTTCCTT 59.486 43.478 1.65 0.00 0.00 3.36
2557 2696 3.097614 ACTATAGCACCGTGACTTTCCT 58.902 45.455 1.65 0.00 0.00 3.36
2558 2697 3.187700 CACTATAGCACCGTGACTTTCC 58.812 50.000 1.65 0.00 0.00 3.13
2559 2698 2.603560 GCACTATAGCACCGTGACTTTC 59.396 50.000 1.65 0.00 0.00 2.62
2560 2699 2.233922 AGCACTATAGCACCGTGACTTT 59.766 45.455 1.65 0.00 36.85 2.66
2561 2700 1.825474 AGCACTATAGCACCGTGACTT 59.175 47.619 1.65 0.00 36.85 3.01
2562 2701 1.475403 AGCACTATAGCACCGTGACT 58.525 50.000 1.65 1.79 36.85 3.41
2563 2702 2.859032 GCTAGCACTATAGCACCGTGAC 60.859 54.545 10.63 0.00 46.12 3.67
2564 2703 1.337071 GCTAGCACTATAGCACCGTGA 59.663 52.381 10.63 0.00 46.12 4.35
2565 2704 1.772182 GCTAGCACTATAGCACCGTG 58.228 55.000 10.63 0.00 46.12 4.94
2571 2710 5.961396 TTACACTAGGCTAGCACTATAGC 57.039 43.478 21.26 0.00 46.13 2.97
2574 2713 9.765795 CTTTATTTTACACTAGGCTAGCACTAT 57.234 33.333 21.26 9.83 0.00 2.12
2575 2714 8.974238 TCTTTATTTTACACTAGGCTAGCACTA 58.026 33.333 21.26 13.92 0.00 2.74
2576 2715 7.848128 TCTTTATTTTACACTAGGCTAGCACT 58.152 34.615 21.26 13.51 0.00 4.40
2577 2716 8.488651 TTCTTTATTTTACACTAGGCTAGCAC 57.511 34.615 21.26 6.06 0.00 4.40
2578 2717 7.769044 CCTTCTTTATTTTACACTAGGCTAGCA 59.231 37.037 21.26 4.28 0.00 3.49
2579 2718 7.226918 CCCTTCTTTATTTTACACTAGGCTAGC 59.773 40.741 21.26 6.04 0.00 3.42
2580 2719 8.483758 TCCCTTCTTTATTTTACACTAGGCTAG 58.516 37.037 19.83 19.83 0.00 3.42
2581 2720 8.383374 TCCCTTCTTTATTTTACACTAGGCTA 57.617 34.615 0.00 0.00 0.00 3.93
2582 2721 7.266905 TCCCTTCTTTATTTTACACTAGGCT 57.733 36.000 0.00 0.00 0.00 4.58
2583 2722 7.610692 ACTTCCCTTCTTTATTTTACACTAGGC 59.389 37.037 0.00 0.00 0.00 3.93
2584 2723 9.516546 AACTTCCCTTCTTTATTTTACACTAGG 57.483 33.333 0.00 0.00 0.00 3.02
2594 2733 9.549984 AGTAGTCTCTAACTTCCCTTCTTTATT 57.450 33.333 0.00 0.00 39.55 1.40
2596 2735 9.683870 CTAGTAGTCTCTAACTTCCCTTCTTTA 57.316 37.037 0.00 0.00 39.55 1.85
2597 2736 8.172070 ACTAGTAGTCTCTAACTTCCCTTCTTT 58.828 37.037 0.00 0.00 39.55 2.52
2598 2737 7.701815 ACTAGTAGTCTCTAACTTCCCTTCTT 58.298 38.462 0.00 0.00 39.55 2.52
2599 2738 7.274772 ACTAGTAGTCTCTAACTTCCCTTCT 57.725 40.000 0.00 0.00 39.55 2.85
2600 2739 7.716560 CCTACTAGTAGTCTCTAACTTCCCTTC 59.283 44.444 24.84 0.00 39.55 3.46
2601 2740 7.184387 ACCTACTAGTAGTCTCTAACTTCCCTT 59.816 40.741 24.84 0.00 39.55 3.95
2602 2741 6.677965 ACCTACTAGTAGTCTCTAACTTCCCT 59.322 42.308 24.84 0.00 39.55 4.20
2603 2742 6.899089 ACCTACTAGTAGTCTCTAACTTCCC 58.101 44.000 24.84 0.00 39.55 3.97
2621 2760 8.579863 ACGTAAACAATCTGTTAACTACCTACT 58.420 33.333 7.22 0.00 40.14 2.57
2622 2761 8.748380 ACGTAAACAATCTGTTAACTACCTAC 57.252 34.615 7.22 0.00 40.14 3.18
2623 2762 9.762933 AAACGTAAACAATCTGTTAACTACCTA 57.237 29.630 7.22 0.00 40.14 3.08
2624 2763 8.553696 CAAACGTAAACAATCTGTTAACTACCT 58.446 33.333 7.22 0.00 40.14 3.08
2625 2764 7.799914 CCAAACGTAAACAATCTGTTAACTACC 59.200 37.037 7.22 0.00 40.14 3.18
2626 2765 8.337532 ACCAAACGTAAACAATCTGTTAACTAC 58.662 33.333 7.22 0.00 40.14 2.73
2627 2766 8.436046 ACCAAACGTAAACAATCTGTTAACTA 57.564 30.769 7.22 0.00 40.14 2.24
2628 2767 7.324354 ACCAAACGTAAACAATCTGTTAACT 57.676 32.000 7.22 0.00 40.14 2.24
2629 2768 9.667989 AATACCAAACGTAAACAATCTGTTAAC 57.332 29.630 0.00 0.00 40.14 2.01
2632 2771 9.667989 GTAAATACCAAACGTAAACAATCTGTT 57.332 29.630 0.00 0.00 43.41 3.16
2633 2772 9.059260 AGTAAATACCAAACGTAAACAATCTGT 57.941 29.630 0.00 0.00 0.00 3.41
2684 2823 9.570488 CAAACAAATTGATGGTGAAACAAAATT 57.430 25.926 0.00 0.00 41.85 1.82
2685 2824 8.738106 ACAAACAAATTGATGGTGAAACAAAAT 58.262 25.926 0.00 0.00 41.85 1.82
2686 2825 8.103948 ACAAACAAATTGATGGTGAAACAAAA 57.896 26.923 0.00 0.00 41.85 2.44
2687 2826 7.678947 ACAAACAAATTGATGGTGAAACAAA 57.321 28.000 0.00 0.00 41.85 2.83
2688 2827 8.954950 ATACAAACAAATTGATGGTGAAACAA 57.045 26.923 0.00 0.00 41.85 2.83
2689 2828 8.420222 AGATACAAACAAATTGATGGTGAAACA 58.580 29.630 0.00 0.00 41.85 2.83
2690 2829 8.816640 AGATACAAACAAATTGATGGTGAAAC 57.183 30.769 0.00 0.00 41.85 2.78
2725 2864 9.376075 CAAACTGATGATCTACTCTGTACATTT 57.624 33.333 0.00 0.00 0.00 2.32
2726 2865 7.493971 GCAAACTGATGATCTACTCTGTACATT 59.506 37.037 0.00 0.00 0.00 2.71
2727 2866 6.983307 GCAAACTGATGATCTACTCTGTACAT 59.017 38.462 0.00 0.00 0.00 2.29
2728 2867 6.071391 TGCAAACTGATGATCTACTCTGTACA 60.071 38.462 0.00 0.00 0.00 2.90
2729 2868 6.333416 TGCAAACTGATGATCTACTCTGTAC 58.667 40.000 0.00 0.00 0.00 2.90
2730 2869 6.530019 TGCAAACTGATGATCTACTCTGTA 57.470 37.500 0.00 0.00 0.00 2.74
2731 2870 5.411831 TGCAAACTGATGATCTACTCTGT 57.588 39.130 0.00 0.00 0.00 3.41
2732 2871 6.732531 TTTGCAAACTGATGATCTACTCTG 57.267 37.500 8.05 0.00 0.00 3.35
2733 2872 7.934855 AATTTGCAAACTGATGATCTACTCT 57.065 32.000 15.41 0.00 0.00 3.24
2776 2915 9.964354 TTCCCTGTTTCTATCCATATGATTATG 57.036 33.333 3.65 0.00 34.76 1.90
2779 2918 8.506083 ACTTTCCCTGTTTCTATCCATATGATT 58.494 33.333 3.65 0.00 34.76 2.57
2780 2919 8.050316 ACTTTCCCTGTTTCTATCCATATGAT 57.950 34.615 3.65 0.00 37.49 2.45
2781 2920 7.451731 ACTTTCCCTGTTTCTATCCATATGA 57.548 36.000 3.65 0.00 0.00 2.15
2782 2921 9.277783 CTAACTTTCCCTGTTTCTATCCATATG 57.722 37.037 0.00 0.00 0.00 1.78
2783 2922 9.225682 TCTAACTTTCCCTGTTTCTATCCATAT 57.774 33.333 0.00 0.00 0.00 1.78
2784 2923 8.618240 TCTAACTTTCCCTGTTTCTATCCATA 57.382 34.615 0.00 0.00 0.00 2.74
2785 2924 7.182930 ACTCTAACTTTCCCTGTTTCTATCCAT 59.817 37.037 0.00 0.00 0.00 3.41
2786 2925 6.500751 ACTCTAACTTTCCCTGTTTCTATCCA 59.499 38.462 0.00 0.00 0.00 3.41
2787 2926 6.948589 ACTCTAACTTTCCCTGTTTCTATCC 58.051 40.000 0.00 0.00 0.00 2.59
2789 2928 9.892130 CAATACTCTAACTTTCCCTGTTTCTAT 57.108 33.333 0.00 0.00 0.00 1.98
2790 2929 8.877195 ACAATACTCTAACTTTCCCTGTTTCTA 58.123 33.333 0.00 0.00 0.00 2.10
2791 2930 7.746703 ACAATACTCTAACTTTCCCTGTTTCT 58.253 34.615 0.00 0.00 0.00 2.52
2792 2931 7.981102 ACAATACTCTAACTTTCCCTGTTTC 57.019 36.000 0.00 0.00 0.00 2.78
2793 2932 7.606839 GCTACAATACTCTAACTTTCCCTGTTT 59.393 37.037 0.00 0.00 0.00 2.83
2794 2933 7.038231 AGCTACAATACTCTAACTTTCCCTGTT 60.038 37.037 0.00 0.00 0.00 3.16
2795 2934 6.440965 AGCTACAATACTCTAACTTTCCCTGT 59.559 38.462 0.00 0.00 0.00 4.00
2796 2935 6.879400 AGCTACAATACTCTAACTTTCCCTG 58.121 40.000 0.00 0.00 0.00 4.45
2797 2936 7.400627 AGAAGCTACAATACTCTAACTTTCCCT 59.599 37.037 0.00 0.00 0.00 4.20
2798 2937 7.557724 AGAAGCTACAATACTCTAACTTTCCC 58.442 38.462 0.00 0.00 0.00 3.97
2799 2938 8.471609 AGAGAAGCTACAATACTCTAACTTTCC 58.528 37.037 0.00 0.00 36.39 3.13
2834 2973 8.881262 GGGAACTGGATCCTCTAATATTAAGAA 58.119 37.037 14.23 0.00 39.57 2.52
2835 2974 8.016652 TGGGAACTGGATCCTCTAATATTAAGA 58.983 37.037 14.23 0.00 39.57 2.10
2836 2975 8.097662 GTGGGAACTGGATCCTCTAATATTAAG 58.902 40.741 14.23 0.00 39.57 1.85
2837 2976 7.256190 CGTGGGAACTGGATCCTCTAATATTAA 60.256 40.741 14.23 0.00 39.57 1.40
2838 2977 6.210784 CGTGGGAACTGGATCCTCTAATATTA 59.789 42.308 14.23 0.00 39.57 0.98
2839 2978 5.012148 CGTGGGAACTGGATCCTCTAATATT 59.988 44.000 14.23 0.00 39.57 1.28
2840 2979 4.528596 CGTGGGAACTGGATCCTCTAATAT 59.471 45.833 14.23 0.00 39.57 1.28
2841 2980 3.895656 CGTGGGAACTGGATCCTCTAATA 59.104 47.826 14.23 0.00 39.57 0.98
2842 2981 2.700897 CGTGGGAACTGGATCCTCTAAT 59.299 50.000 14.23 0.00 39.57 1.73
2843 2982 2.108168 CGTGGGAACTGGATCCTCTAA 58.892 52.381 14.23 0.00 39.57 2.10
2844 2983 1.776662 CGTGGGAACTGGATCCTCTA 58.223 55.000 14.23 0.00 39.57 2.43
2845 2984 1.617947 GCGTGGGAACTGGATCCTCT 61.618 60.000 14.23 0.00 39.57 3.69
2846 2985 1.153349 GCGTGGGAACTGGATCCTC 60.153 63.158 14.23 1.71 39.57 3.71
2847 2986 2.670148 GGCGTGGGAACTGGATCCT 61.670 63.158 14.23 0.00 39.57 3.24
2848 2987 2.124695 GGCGTGGGAACTGGATCC 60.125 66.667 4.20 4.20 38.86 3.36
2849 2988 2.511600 CGGCGTGGGAACTGGATC 60.512 66.667 0.00 0.00 0.00 3.36
2850 2989 4.778143 GCGGCGTGGGAACTGGAT 62.778 66.667 9.37 0.00 0.00 3.41
2868 3007 3.765894 TTGAGGGGCGGTGTGTGTG 62.766 63.158 0.00 0.00 0.00 3.82
2872 3011 1.966451 GTCTTTGAGGGGCGGTGTG 60.966 63.158 0.00 0.00 0.00 3.82
2873 3012 1.779061 ATGTCTTTGAGGGGCGGTGT 61.779 55.000 0.00 0.00 0.00 4.16
2874 3013 0.251916 TATGTCTTTGAGGGGCGGTG 59.748 55.000 0.00 0.00 0.00 4.94
2875 3014 1.134098 CATATGTCTTTGAGGGGCGGT 60.134 52.381 0.00 0.00 0.00 5.68
2876 3015 1.140852 TCATATGTCTTTGAGGGGCGG 59.859 52.381 1.90 0.00 0.00 6.13
2936 3119 5.294356 AGAACTATGTCGTACAAGCAACAA 58.706 37.500 0.00 0.00 0.00 2.83


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

AutoCloner maintained by Alex Coulton.