Multiple sequence alignment - TraesCS6A01G157800

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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 TraesCS6A01G157800 chr6A 100.000 2639 0 0 1 2639 147468843 147471481 0.000000e+00 4874.0
1 TraesCS6A01G157800 chr6D 91.106 1709 69 27 758 2421 119291737 119293407 0.000000e+00 2237.0
2 TraesCS6A01G157800 chr6D 88.227 688 62 10 47 729 119290940 119291613 0.000000e+00 804.0
3 TraesCS6A01G157800 chr6B 89.717 1624 89 35 762 2357 211209531 211211104 0.000000e+00 2002.0
4 TraesCS6A01G157800 chr6B 87.387 777 78 15 1 764 211208654 211209423 0.000000e+00 874.0
5 TraesCS6A01G157800 chr6B 100.000 28 0 0 2353 2380 211211123 211211150 5.000000e-03 52.8
6 TraesCS6A01G157800 chr4D 86.564 454 46 9 49 490 494477034 494477484 1.100000e-133 486.0
7 TraesCS6A01G157800 chr2D 85.307 456 51 10 48 490 650648994 650649446 8.610000e-125 457.0
8 TraesCS6A01G157800 chr2D 83.624 287 37 7 488 764 650649483 650649769 7.250000e-66 261.0
9 TraesCS6A01G157800 chr2D 96.552 58 2 0 49 106 435036029 435036086 2.160000e-16 97.1
10 TraesCS6A01G157800 chr4B 83.843 458 57 11 47 490 633937441 633937895 1.130000e-113 420.0
11 TraesCS6A01G157800 chr7A 83.589 457 59 6 48 490 198476254 198476708 5.260000e-112 414.0
12 TraesCS6A01G157800 chr5B 83.553 456 57 10 48 490 480167137 480167587 6.800000e-111 411.0
13 TraesCS6A01G157800 chr5B 86.760 287 27 9 488 764 480167615 480167900 2.550000e-80 309.0
14 TraesCS6A01G157800 chr2A 83.333 456 56 11 48 490 772060278 772060726 1.140000e-108 403.0
15 TraesCS6A01G157800 chr2A 84.138 290 32 10 488 764 771996963 771997251 4.330000e-68 268.0
16 TraesCS6A01G157800 chr2A 86.420 243 28 3 488 725 772060765 772061007 7.250000e-66 261.0
17 TraesCS6A01G157800 chr2A 86.420 243 27 4 488 725 772100055 772100296 7.250000e-66 261.0
18 TraesCS6A01G157800 chr2A 86.008 243 28 4 488 725 772140459 772140700 3.370000e-64 255.0
19 TraesCS6A01G157800 chr5A 84.755 387 55 4 105 489 673931036 673930652 4.120000e-103 385.0
20 TraesCS6A01G157800 chr5A 94.915 59 3 0 48 106 706933515 706933573 2.800000e-15 93.5
21 TraesCS6A01G157800 chr3D 84.615 286 30 10 491 764 6979938 6979655 3.350000e-69 272.0
22 TraesCS6A01G157800 chr7D 79.387 359 55 10 48 390 160555870 160556225 4.390000e-58 235.0
23 TraesCS6A01G157800 chr7B 81.538 130 14 9 1416 1537 642831299 642831172 6.010000e-17 99.0
24 TraesCS6A01G157800 chr2B 94.915 59 3 0 48 106 513460355 513460413 2.800000e-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 TraesCS6A01G157800 chr6A 147468843 147471481 2638 False 4874.000000 4874 100.0000 1 2639 1 chr6A.!!$F1 2638
1 TraesCS6A01G157800 chr6D 119290940 119293407 2467 False 1520.500000 2237 89.6665 47 2421 2 chr6D.!!$F1 2374
2 TraesCS6A01G157800 chr6B 211208654 211211150 2496 False 976.266667 2002 92.3680 1 2380 3 chr6B.!!$F1 2379
3 TraesCS6A01G157800 chr2D 650648994 650649769 775 False 359.000000 457 84.4655 48 764 2 chr2D.!!$F2 716
4 TraesCS6A01G157800 chr5B 480167137 480167900 763 False 360.000000 411 85.1565 48 764 2 chr5B.!!$F1 716
5 TraesCS6A01G157800 chr2A 772060278 772061007 729 False 332.000000 403 84.8765 48 725 2 chr2A.!!$F4 677

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
895 1076 0.106894 GATAAGACCTTCCCTGCCCG 59.893 60.0 0.0 0.0 0.0 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2446 2701 0.251916 CATGGGTAGGAAGCACCGAA 59.748 55.0 0.0 0.0 44.74 4.3 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
26 27 7.426410 TCTAATATGTCGTCTTTGCCTTCTAG 58.574 38.462 0.00 0.00 0.00 2.43
30 31 2.157863 GTCGTCTTTGCCTTCTAGTTGC 59.842 50.000 0.00 0.00 0.00 4.17
31 32 2.143122 CGTCTTTGCCTTCTAGTTGCA 58.857 47.619 0.00 0.00 0.00 4.08
113 126 8.553696 CATGTCGTTTACAAGTAAAAGTTAGGT 58.446 33.333 14.95 0.00 42.70 3.08
176 189 2.406130 GCTTAGCTAGCTCATCTGCTG 58.594 52.381 23.26 4.84 46.77 4.41
178 191 1.406903 TAGCTAGCTCATCTGCTGCA 58.593 50.000 23.26 0.88 43.87 4.41
189 202 4.204799 TCATCTGCTGCATGATTAGCTTT 58.795 39.130 1.31 0.00 40.52 3.51
192 205 4.011698 TCTGCTGCATGATTAGCTTTTCA 58.988 39.130 1.31 0.00 40.52 2.69
197 210 6.040878 GCTGCATGATTAGCTTTTCAGAAAT 58.959 36.000 0.00 0.00 36.99 2.17
253 266 3.682696 TCAACTGCTTGCATTCAGAGAT 58.317 40.909 18.87 5.57 34.57 2.75
259 272 4.014406 TGCTTGCATTCAGAGATCAATGT 58.986 39.130 0.00 0.00 33.27 2.71
265 278 8.735692 TTGCATTCAGAGATCAATGTAATGTA 57.264 30.769 0.00 3.17 31.92 2.29
270 283 7.437713 TCAGAGATCAATGTAATGTAGGGTT 57.562 36.000 0.00 0.00 0.00 4.11
319 332 1.169661 TCCACCGCAAACGAGCAATT 61.170 50.000 0.00 0.00 43.93 2.32
394 408 1.486310 TCTAATTGCCATGAGCTCCGT 59.514 47.619 12.15 0.00 44.23 4.69
400 414 0.659957 GCCATGAGCTCCGTTGAATC 59.340 55.000 12.15 0.00 38.99 2.52
432 446 5.593909 TCGGATATACGGAAGAAACCAAGTA 59.406 40.000 7.66 0.00 0.00 2.24
448 462 6.073327 ACCAAGTAACTTCTGCTAAAAAGC 57.927 37.500 0.00 0.00 0.00 3.51
481 495 1.073177 ACGCACAATAGTACCGCAAC 58.927 50.000 0.00 0.00 0.00 4.17
544 603 1.178276 TCTTCTGAGTCGGGAGCTTC 58.822 55.000 1.85 0.00 0.00 3.86
579 639 7.540400 CGATCTGATGTAATTTGTAGCTAGGAG 59.460 40.741 0.00 0.00 0.00 3.69
580 640 6.516718 TCTGATGTAATTTGTAGCTAGGAGC 58.483 40.000 0.00 0.00 42.84 4.70
594 656 1.257743 AGGAGCGAAAGACTGTGCTA 58.742 50.000 0.00 0.00 37.91 3.49
597 659 2.605366 GGAGCGAAAGACTGTGCTATTC 59.395 50.000 0.00 0.00 37.91 1.75
666 728 2.437716 AAAGGTACCATGCCGCCG 60.438 61.111 15.94 0.00 0.00 6.46
708 771 2.740447 GGTACTCCATCCGAAACAACAC 59.260 50.000 0.00 0.00 0.00 3.32
709 772 2.930826 ACTCCATCCGAAACAACACT 57.069 45.000 0.00 0.00 0.00 3.55
734 805 9.486497 CTAAGCTTTGATAAGATATTCAGAGCA 57.514 33.333 15.94 1.18 46.79 4.26
737 808 7.022384 GCTTTGATAAGATATTCAGAGCATGC 58.978 38.462 10.51 10.51 44.89 4.06
775 956 6.770785 AGTTGCTCTTTGAACAAGGTATGTAA 59.229 34.615 0.00 0.00 42.99 2.41
803 984 6.449830 AAGAAAAGGGCCTTCTACTTCTAA 57.550 37.500 24.20 0.00 32.77 2.10
895 1076 0.106894 GATAAGACCTTCCCTGCCCG 59.893 60.000 0.00 0.00 0.00 6.13
896 1077 0.326238 ATAAGACCTTCCCTGCCCGA 60.326 55.000 0.00 0.00 0.00 5.14
897 1078 0.326238 TAAGACCTTCCCTGCCCGAT 60.326 55.000 0.00 0.00 0.00 4.18
898 1079 1.915078 AAGACCTTCCCTGCCCGATG 61.915 60.000 0.00 0.00 0.00 3.84
899 1080 2.610859 ACCTTCCCTGCCCGATGT 60.611 61.111 0.00 0.00 0.00 3.06
1101 1294 1.149174 ACAAGTCCCACAGCCACAG 59.851 57.895 0.00 0.00 0.00 3.66
1102 1295 2.113986 AAGTCCCACAGCCACAGC 59.886 61.111 0.00 0.00 40.32 4.40
1103 1296 3.497884 AAGTCCCACAGCCACAGCC 62.498 63.158 0.00 0.00 41.25 4.85
1104 1297 4.269523 GTCCCACAGCCACAGCCA 62.270 66.667 0.00 0.00 41.25 4.75
1105 1298 4.269523 TCCCACAGCCACAGCCAC 62.270 66.667 0.00 0.00 41.25 5.01
1106 1299 4.584518 CCCACAGCCACAGCCACA 62.585 66.667 0.00 0.00 41.25 4.17
1107 1300 3.289834 CCACAGCCACAGCCACAC 61.290 66.667 0.00 0.00 41.25 3.82
1108 1301 2.203252 CACAGCCACAGCCACACT 60.203 61.111 0.00 0.00 41.25 3.55
1134 1327 3.349006 CTGCACTGGACACACGGC 61.349 66.667 0.00 0.00 0.00 5.68
1179 1372 0.535102 GAGGAGCGAGAGGGAGAGAG 60.535 65.000 0.00 0.00 0.00 3.20
1180 1373 0.986019 AGGAGCGAGAGGGAGAGAGA 60.986 60.000 0.00 0.00 0.00 3.10
1188 1381 4.779733 GGGAGAGAGACGGGGGCA 62.780 72.222 0.00 0.00 0.00 5.36
1666 1859 1.648467 GCGCCAGTAGCTTCCCTTTG 61.648 60.000 0.00 0.00 40.39 2.77
1728 1922 3.656559 AGGCAGCAGCTTGTTTTAATTG 58.343 40.909 0.00 0.00 41.70 2.32
1788 1982 1.918609 GGAGAACGACGATGCTTGTAC 59.081 52.381 0.00 0.00 0.00 2.90
1825 2024 5.584253 ACTGTATGTATGCGAGAAGAACT 57.416 39.130 0.00 0.00 0.00 3.01
1856 2055 2.879070 CGATCGAGCTGTGCCATGC 61.879 63.158 10.26 0.00 0.00 4.06
1857 2056 2.515523 ATCGAGCTGTGCCATGCC 60.516 61.111 0.00 0.00 0.00 4.40
1858 2057 3.333899 ATCGAGCTGTGCCATGCCA 62.334 57.895 0.00 0.00 0.00 4.92
1859 2058 2.619941 ATCGAGCTGTGCCATGCCAT 62.620 55.000 0.00 0.00 0.00 4.40
1860 2059 2.805546 GAGCTGTGCCATGCCATG 59.194 61.111 0.00 0.00 0.00 3.66
1876 2075 2.191513 ATGCCATGCCATGCTCGAC 61.192 57.895 0.00 0.00 0.00 4.20
1895 2094 0.460284 CCGGATTCTCAAGGACCGTG 60.460 60.000 0.00 0.22 41.67 4.94
2068 2271 3.728373 GGTGGGAGCGGAATGGGT 61.728 66.667 0.00 0.00 0.00 4.51
2070 2273 3.727258 TGGGAGCGGAATGGGTGG 61.727 66.667 0.00 0.00 0.00 4.61
2071 2274 3.728373 GGGAGCGGAATGGGTGGT 61.728 66.667 0.00 0.00 0.00 4.16
2153 2356 1.213013 GTCCGTGATCTGTCGCTGT 59.787 57.895 0.00 0.00 32.64 4.40
2154 2357 0.798771 GTCCGTGATCTGTCGCTGTC 60.799 60.000 0.00 0.00 32.64 3.51
2155 2358 1.212751 CCGTGATCTGTCGCTGTCA 59.787 57.895 0.00 0.00 32.64 3.58
2156 2359 1.073216 CCGTGATCTGTCGCTGTCAC 61.073 60.000 0.00 0.00 38.03 3.67
2192 2395 4.722700 CTGCTTCGGGGTGGTGGG 62.723 72.222 0.00 0.00 0.00 4.61
2243 2461 2.202756 GGCGAGACCGACCATGAC 60.203 66.667 0.00 0.00 38.01 3.06
2244 2462 2.571757 GCGAGACCGACCATGACA 59.428 61.111 0.00 0.00 38.22 3.58
2245 2463 1.805945 GCGAGACCGACCATGACAC 60.806 63.158 0.00 0.00 38.22 3.67
2246 2464 1.153823 CGAGACCGACCATGACACC 60.154 63.158 0.00 0.00 38.22 4.16
2247 2465 1.153823 GAGACCGACCATGACACCG 60.154 63.158 0.00 0.00 0.00 4.94
2248 2466 1.592400 GAGACCGACCATGACACCGA 61.592 60.000 0.00 0.00 0.00 4.69
2249 2467 1.445582 GACCGACCATGACACCGAC 60.446 63.158 0.00 0.00 0.00 4.79
2250 2468 2.506217 CCGACCATGACACCGACG 60.506 66.667 0.00 0.00 0.00 5.12
2251 2469 3.179265 CGACCATGACACCGACGC 61.179 66.667 0.00 0.00 0.00 5.19
2252 2470 3.179265 GACCATGACACCGACGCG 61.179 66.667 3.53 3.53 0.00 6.01
2253 2471 3.909258 GACCATGACACCGACGCGT 62.909 63.158 13.85 13.85 0.00 6.01
2254 2472 2.179767 CCATGACACCGACGCGTA 59.820 61.111 13.97 0.00 0.00 4.42
2257 2488 1.444895 ATGACACCGACGCGTAACC 60.445 57.895 13.97 0.00 0.00 2.85
2348 2579 3.948719 GGCCACTGGACCCAACGA 61.949 66.667 0.00 0.00 0.00 3.85
2421 2676 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
2422 2677 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
2423 2678 1.265635 GTGTGTGTGTGTGTGTGTGTT 59.734 47.619 0.00 0.00 0.00 3.32
2424 2679 1.950216 TGTGTGTGTGTGTGTGTGTTT 59.050 42.857 0.00 0.00 0.00 2.83
2425 2680 2.287248 TGTGTGTGTGTGTGTGTGTTTG 60.287 45.455 0.00 0.00 0.00 2.93
2426 2681 1.950216 TGTGTGTGTGTGTGTGTTTGT 59.050 42.857 0.00 0.00 0.00 2.83
2427 2682 2.287248 TGTGTGTGTGTGTGTGTTTGTG 60.287 45.455 0.00 0.00 0.00 3.33
2428 2683 1.950216 TGTGTGTGTGTGTGTTTGTGT 59.050 42.857 0.00 0.00 0.00 3.72
2429 2684 2.359214 TGTGTGTGTGTGTGTTTGTGTT 59.641 40.909 0.00 0.00 0.00 3.32
2430 2685 2.723658 GTGTGTGTGTGTGTTTGTGTTG 59.276 45.455 0.00 0.00 0.00 3.33
2431 2686 2.618709 TGTGTGTGTGTGTTTGTGTTGA 59.381 40.909 0.00 0.00 0.00 3.18
2432 2687 3.233578 GTGTGTGTGTGTTTGTGTTGAG 58.766 45.455 0.00 0.00 0.00 3.02
2433 2688 2.250188 GTGTGTGTGTTTGTGTTGAGC 58.750 47.619 0.00 0.00 0.00 4.26
2434 2689 1.882623 TGTGTGTGTTTGTGTTGAGCA 59.117 42.857 0.00 0.00 0.00 4.26
2435 2690 2.095314 TGTGTGTGTTTGTGTTGAGCAG 60.095 45.455 0.00 0.00 0.00 4.24
2436 2691 2.161410 GTGTGTGTTTGTGTTGAGCAGA 59.839 45.455 0.00 0.00 0.00 4.26
2437 2692 3.016031 TGTGTGTTTGTGTTGAGCAGAT 58.984 40.909 0.00 0.00 0.00 2.90
2438 2693 3.181498 TGTGTGTTTGTGTTGAGCAGATG 60.181 43.478 0.00 0.00 0.00 2.90
2439 2694 2.223548 TGTGTTTGTGTTGAGCAGATGC 60.224 45.455 0.00 0.00 42.49 3.91
2450 2705 4.121691 CAGATGCTCCTGCTTCGG 57.878 61.111 0.00 0.00 44.83 4.30
2451 2706 1.220206 CAGATGCTCCTGCTTCGGT 59.780 57.895 0.00 0.00 44.83 4.69
2452 2707 1.088340 CAGATGCTCCTGCTTCGGTG 61.088 60.000 0.00 0.00 44.83 4.94
2453 2708 2.437359 ATGCTCCTGCTTCGGTGC 60.437 61.111 7.17 7.17 42.38 5.01
2454 2709 2.866085 GATGCTCCTGCTTCGGTGCT 62.866 60.000 12.87 2.77 42.49 4.40
2455 2710 2.359230 GCTCCTGCTTCGGTGCTT 60.359 61.111 6.94 0.00 39.73 3.91
2456 2711 2.394563 GCTCCTGCTTCGGTGCTTC 61.395 63.158 6.94 0.00 39.73 3.86
2457 2712 1.743252 CTCCTGCTTCGGTGCTTCC 60.743 63.158 2.64 0.00 0.00 3.46
2458 2713 2.177594 CTCCTGCTTCGGTGCTTCCT 62.178 60.000 2.64 0.00 0.00 3.36
2459 2714 0.902984 TCCTGCTTCGGTGCTTCCTA 60.903 55.000 2.64 0.00 0.00 2.94
2460 2715 0.741221 CCTGCTTCGGTGCTTCCTAC 60.741 60.000 2.64 0.00 0.00 3.18
2461 2716 0.741221 CTGCTTCGGTGCTTCCTACC 60.741 60.000 2.64 0.00 34.81 3.18
2462 2717 1.449778 GCTTCGGTGCTTCCTACCC 60.450 63.158 0.00 0.00 34.66 3.69
2463 2718 1.980052 CTTCGGTGCTTCCTACCCA 59.020 57.895 0.00 0.00 34.66 4.51
2464 2719 0.541863 CTTCGGTGCTTCCTACCCAT 59.458 55.000 0.00 0.00 34.66 4.00
2465 2720 0.251916 TTCGGTGCTTCCTACCCATG 59.748 55.000 0.00 0.00 34.66 3.66
2466 2721 0.616395 TCGGTGCTTCCTACCCATGA 60.616 55.000 0.00 0.00 34.66 3.07
2467 2722 0.251916 CGGTGCTTCCTACCCATGAA 59.748 55.000 0.00 0.00 34.66 2.57
2468 2723 1.134098 CGGTGCTTCCTACCCATGAAT 60.134 52.381 0.00 0.00 34.66 2.57
2469 2724 2.301346 GGTGCTTCCTACCCATGAATG 58.699 52.381 0.00 0.00 31.89 2.67
2470 2725 1.678101 GTGCTTCCTACCCATGAATGC 59.322 52.381 0.00 0.00 0.00 3.56
2471 2726 1.284491 TGCTTCCTACCCATGAATGCA 59.716 47.619 0.00 0.00 0.00 3.96
2472 2727 1.952296 GCTTCCTACCCATGAATGCAG 59.048 52.381 0.00 0.00 0.00 4.41
2473 2728 2.421952 GCTTCCTACCCATGAATGCAGA 60.422 50.000 0.00 0.00 0.00 4.26
2474 2729 3.749954 GCTTCCTACCCATGAATGCAGAT 60.750 47.826 0.00 0.00 0.00 2.90
2475 2730 3.497103 TCCTACCCATGAATGCAGATG 57.503 47.619 0.00 0.00 0.00 2.90
2476 2731 3.047857 TCCTACCCATGAATGCAGATGA 58.952 45.455 0.00 0.00 0.00 2.92
2477 2732 3.654321 TCCTACCCATGAATGCAGATGAT 59.346 43.478 0.00 0.00 0.00 2.45
2478 2733 4.105217 TCCTACCCATGAATGCAGATGATT 59.895 41.667 0.00 0.00 0.00 2.57
2479 2734 4.831155 CCTACCCATGAATGCAGATGATTT 59.169 41.667 0.00 0.00 0.00 2.17
2480 2735 4.665833 ACCCATGAATGCAGATGATTTG 57.334 40.909 0.00 0.00 0.00 2.32
2481 2736 4.028131 ACCCATGAATGCAGATGATTTGT 58.972 39.130 0.00 0.00 0.00 2.83
2482 2737 4.098960 ACCCATGAATGCAGATGATTTGTC 59.901 41.667 0.00 0.00 0.00 3.18
2483 2738 4.341235 CCCATGAATGCAGATGATTTGTCT 59.659 41.667 0.00 0.00 0.00 3.41
2484 2739 5.163447 CCCATGAATGCAGATGATTTGTCTT 60.163 40.000 0.00 0.00 0.00 3.01
2485 2740 5.748630 CCATGAATGCAGATGATTTGTCTTG 59.251 40.000 0.00 0.00 0.00 3.02
2486 2741 5.319140 TGAATGCAGATGATTTGTCTTGG 57.681 39.130 0.00 0.00 0.00 3.61
2487 2742 4.768448 TGAATGCAGATGATTTGTCTTGGT 59.232 37.500 0.00 0.00 0.00 3.67
2488 2743 5.945191 TGAATGCAGATGATTTGTCTTGGTA 59.055 36.000 0.00 0.00 0.00 3.25
2489 2744 6.094464 TGAATGCAGATGATTTGTCTTGGTAG 59.906 38.462 0.00 0.00 0.00 3.18
2490 2745 4.910195 TGCAGATGATTTGTCTTGGTAGT 58.090 39.130 0.00 0.00 0.00 2.73
2491 2746 5.316167 TGCAGATGATTTGTCTTGGTAGTT 58.684 37.500 0.00 0.00 0.00 2.24
2492 2747 5.769662 TGCAGATGATTTGTCTTGGTAGTTT 59.230 36.000 0.00 0.00 0.00 2.66
2493 2748 6.072508 TGCAGATGATTTGTCTTGGTAGTTTC 60.073 38.462 0.00 0.00 0.00 2.78
2494 2749 6.150140 GCAGATGATTTGTCTTGGTAGTTTCT 59.850 38.462 0.00 0.00 0.00 2.52
2495 2750 7.524912 CAGATGATTTGTCTTGGTAGTTTCTG 58.475 38.462 0.00 0.00 0.00 3.02
2496 2751 5.689383 TGATTTGTCTTGGTAGTTTCTGC 57.311 39.130 0.00 0.00 0.00 4.26
2497 2752 5.376625 TGATTTGTCTTGGTAGTTTCTGCT 58.623 37.500 0.00 0.00 0.00 4.24
2498 2753 5.827797 TGATTTGTCTTGGTAGTTTCTGCTT 59.172 36.000 0.00 0.00 0.00 3.91
2499 2754 6.995686 TGATTTGTCTTGGTAGTTTCTGCTTA 59.004 34.615 0.00 0.00 0.00 3.09
2500 2755 6.613755 TTTGTCTTGGTAGTTTCTGCTTAC 57.386 37.500 0.00 0.00 0.00 2.34
2501 2756 5.284861 TGTCTTGGTAGTTTCTGCTTACA 57.715 39.130 0.00 0.00 0.00 2.41
2502 2757 5.865085 TGTCTTGGTAGTTTCTGCTTACAT 58.135 37.500 0.00 0.00 0.00 2.29
2503 2758 6.296026 TGTCTTGGTAGTTTCTGCTTACATT 58.704 36.000 0.00 0.00 0.00 2.71
2504 2759 6.770785 TGTCTTGGTAGTTTCTGCTTACATTT 59.229 34.615 0.00 0.00 0.00 2.32
2505 2760 7.284489 TGTCTTGGTAGTTTCTGCTTACATTTT 59.716 33.333 0.00 0.00 0.00 1.82
2506 2761 7.803659 GTCTTGGTAGTTTCTGCTTACATTTTC 59.196 37.037 0.00 0.00 0.00 2.29
2507 2762 7.719633 TCTTGGTAGTTTCTGCTTACATTTTCT 59.280 33.333 0.00 0.00 0.00 2.52
2508 2763 7.202016 TGGTAGTTTCTGCTTACATTTTCTG 57.798 36.000 0.00 0.00 0.00 3.02
2509 2764 6.206634 TGGTAGTTTCTGCTTACATTTTCTGG 59.793 38.462 0.00 0.00 0.00 3.86
2510 2765 5.712152 AGTTTCTGCTTACATTTTCTGGG 57.288 39.130 0.00 0.00 0.00 4.45
2511 2766 4.021981 AGTTTCTGCTTACATTTTCTGGGC 60.022 41.667 0.00 0.00 0.00 5.36
2512 2767 3.153369 TCTGCTTACATTTTCTGGGCA 57.847 42.857 0.00 0.00 0.00 5.36
2513 2768 3.495331 TCTGCTTACATTTTCTGGGCAA 58.505 40.909 0.00 0.00 31.91 4.52
2514 2769 3.894427 TCTGCTTACATTTTCTGGGCAAA 59.106 39.130 0.00 0.00 31.91 3.68
2515 2770 4.022068 TCTGCTTACATTTTCTGGGCAAAG 60.022 41.667 0.00 0.00 31.91 2.77
2516 2771 3.894427 TGCTTACATTTTCTGGGCAAAGA 59.106 39.130 0.00 0.00 0.00 2.52
2517 2772 4.022068 TGCTTACATTTTCTGGGCAAAGAG 60.022 41.667 0.00 0.00 0.00 2.85
2518 2773 4.218417 GCTTACATTTTCTGGGCAAAGAGA 59.782 41.667 0.00 0.00 0.00 3.10
2519 2774 5.278957 GCTTACATTTTCTGGGCAAAGAGAA 60.279 40.000 0.00 0.00 0.00 2.87
2520 2775 4.590850 ACATTTTCTGGGCAAAGAGAAC 57.409 40.909 0.00 0.00 0.00 3.01
2521 2776 4.218312 ACATTTTCTGGGCAAAGAGAACT 58.782 39.130 0.00 0.00 0.00 3.01
2522 2777 4.038402 ACATTTTCTGGGCAAAGAGAACTG 59.962 41.667 0.00 0.00 0.00 3.16
2523 2778 1.609208 TTCTGGGCAAAGAGAACTGC 58.391 50.000 0.00 0.00 37.86 4.40
2524 2779 0.473755 TCTGGGCAAAGAGAACTGCA 59.526 50.000 0.00 0.00 40.46 4.41
2525 2780 0.879765 CTGGGCAAAGAGAACTGCAG 59.120 55.000 13.48 13.48 40.46 4.41
2526 2781 1.174712 TGGGCAAAGAGAACTGCAGC 61.175 55.000 15.27 0.00 40.46 5.25
2527 2782 0.892814 GGGCAAAGAGAACTGCAGCT 60.893 55.000 15.27 0.00 40.46 4.24
2528 2783 0.957362 GGCAAAGAGAACTGCAGCTT 59.043 50.000 15.27 6.03 40.46 3.74
2529 2784 2.154462 GGCAAAGAGAACTGCAGCTTA 58.846 47.619 15.27 0.00 40.46 3.09
2530 2785 2.161211 GGCAAAGAGAACTGCAGCTTAG 59.839 50.000 15.27 0.00 40.46 2.18
2531 2786 2.810852 GCAAAGAGAACTGCAGCTTAGT 59.189 45.455 15.27 0.00 38.48 2.24
2532 2787 3.364764 GCAAAGAGAACTGCAGCTTAGTG 60.365 47.826 15.27 6.40 38.48 2.74
2533 2788 4.060900 CAAAGAGAACTGCAGCTTAGTGA 58.939 43.478 15.27 0.00 0.00 3.41
2534 2789 4.550076 AAGAGAACTGCAGCTTAGTGAT 57.450 40.909 15.27 0.00 0.00 3.06
2535 2790 5.667539 AAGAGAACTGCAGCTTAGTGATA 57.332 39.130 15.27 0.00 0.00 2.15
2536 2791 5.867903 AGAGAACTGCAGCTTAGTGATAT 57.132 39.130 15.27 0.00 0.00 1.63
2537 2792 5.599732 AGAGAACTGCAGCTTAGTGATATG 58.400 41.667 15.27 0.00 0.00 1.78
2538 2793 4.125703 AGAACTGCAGCTTAGTGATATGC 58.874 43.478 15.27 0.00 37.40 3.14
2539 2794 3.834489 ACTGCAGCTTAGTGATATGCT 57.166 42.857 15.27 0.00 37.76 3.79
2540 2795 3.726607 ACTGCAGCTTAGTGATATGCTC 58.273 45.455 15.27 0.00 37.76 4.26
2541 2796 3.387374 ACTGCAGCTTAGTGATATGCTCT 59.613 43.478 15.27 0.00 37.76 4.09
2542 2797 4.141756 ACTGCAGCTTAGTGATATGCTCTT 60.142 41.667 15.27 0.00 37.76 2.85
2543 2798 4.774124 TGCAGCTTAGTGATATGCTCTTT 58.226 39.130 0.00 0.00 37.76 2.52
2544 2799 5.188434 TGCAGCTTAGTGATATGCTCTTTT 58.812 37.500 0.00 0.00 37.76 2.27
2545 2800 5.295292 TGCAGCTTAGTGATATGCTCTTTTC 59.705 40.000 0.00 0.00 37.76 2.29
2546 2801 5.526846 GCAGCTTAGTGATATGCTCTTTTCT 59.473 40.000 0.00 0.00 33.03 2.52
2547 2802 6.038050 GCAGCTTAGTGATATGCTCTTTTCTT 59.962 38.462 0.00 0.00 33.03 2.52
2548 2803 7.414984 GCAGCTTAGTGATATGCTCTTTTCTTT 60.415 37.037 0.00 0.00 33.03 2.52
2549 2804 8.457261 CAGCTTAGTGATATGCTCTTTTCTTTT 58.543 33.333 0.00 0.00 33.03 2.27
2550 2805 9.018582 AGCTTAGTGATATGCTCTTTTCTTTTT 57.981 29.630 0.00 0.00 0.00 1.94
2573 2828 9.753674 TTTTTGGGAAATAGTGATATGTTCTCT 57.246 29.630 0.00 0.00 33.00 3.10
2574 2829 9.753674 TTTTGGGAAATAGTGATATGTTCTCTT 57.246 29.630 0.00 0.00 30.95 2.85
2576 2831 9.832445 TTGGGAAATAGTGATATGTTCTCTTAC 57.168 33.333 0.00 0.00 30.95 2.34
2577 2832 9.213777 TGGGAAATAGTGATATGTTCTCTTACT 57.786 33.333 0.00 0.00 30.95 2.24
2578 2833 9.482627 GGGAAATAGTGATATGTTCTCTTACTG 57.517 37.037 0.00 0.00 30.95 2.74
2584 2839 8.939201 AGTGATATGTTCTCTTACTGACAATG 57.061 34.615 0.00 0.00 0.00 2.82
2585 2840 8.535335 AGTGATATGTTCTCTTACTGACAATGT 58.465 33.333 0.00 0.00 0.00 2.71
2586 2841 9.803315 GTGATATGTTCTCTTACTGACAATGTA 57.197 33.333 0.00 0.00 0.00 2.29
2592 2847 9.586435 TGTTCTCTTACTGACAATGTATACATG 57.414 33.333 18.94 14.50 36.56 3.21
2593 2848 9.803315 GTTCTCTTACTGACAATGTATACATGA 57.197 33.333 18.94 7.67 36.56 3.07
2594 2849 9.803315 TTCTCTTACTGACAATGTATACATGAC 57.197 33.333 18.94 13.02 36.56 3.06
2595 2850 8.966868 TCTCTTACTGACAATGTATACATGACA 58.033 33.333 18.94 16.27 36.56 3.58
2596 2851 8.926715 TCTTACTGACAATGTATACATGACAC 57.073 34.615 18.94 11.16 36.56 3.67
2597 2852 7.979537 TCTTACTGACAATGTATACATGACACC 59.020 37.037 18.94 7.80 36.56 4.16
2598 2853 5.109210 ACTGACAATGTATACATGACACCG 58.891 41.667 18.94 8.90 36.56 4.94
2599 2854 5.105513 ACTGACAATGTATACATGACACCGA 60.106 40.000 18.94 0.13 36.56 4.69
2600 2855 5.912892 TGACAATGTATACATGACACCGAT 58.087 37.500 18.94 0.00 36.56 4.18
2601 2856 6.345298 TGACAATGTATACATGACACCGATT 58.655 36.000 18.94 0.00 36.56 3.34
2602 2857 7.493367 TGACAATGTATACATGACACCGATTA 58.507 34.615 18.94 0.00 36.56 1.75
2603 2858 8.147704 TGACAATGTATACATGACACCGATTAT 58.852 33.333 18.94 0.00 36.56 1.28
2604 2859 9.634163 GACAATGTATACATGACACCGATTATA 57.366 33.333 18.94 0.00 36.56 0.98
2609 2864 9.238368 TGTATACATGACACCGATTATATGAGA 57.762 33.333 0.08 0.00 0.00 3.27
2611 2866 8.988064 ATACATGACACCGATTATATGAGAAC 57.012 34.615 0.00 0.00 0.00 3.01
2612 2867 6.816136 ACATGACACCGATTATATGAGAACA 58.184 36.000 0.00 0.00 0.00 3.18
2613 2868 7.272244 ACATGACACCGATTATATGAGAACAA 58.728 34.615 0.00 0.00 0.00 2.83
2614 2869 7.439356 ACATGACACCGATTATATGAGAACAAG 59.561 37.037 0.00 0.00 0.00 3.16
2615 2870 7.107639 TGACACCGATTATATGAGAACAAGA 57.892 36.000 0.00 0.00 0.00 3.02
2616 2871 7.726216 TGACACCGATTATATGAGAACAAGAT 58.274 34.615 0.00 0.00 0.00 2.40
2617 2872 8.856103 TGACACCGATTATATGAGAACAAGATA 58.144 33.333 0.00 0.00 0.00 1.98
2618 2873 9.347934 GACACCGATTATATGAGAACAAGATAG 57.652 37.037 0.00 0.00 0.00 2.08
2619 2874 8.861086 ACACCGATTATATGAGAACAAGATAGT 58.139 33.333 0.00 0.00 0.00 2.12
2620 2875 9.133627 CACCGATTATATGAGAACAAGATAGTG 57.866 37.037 0.00 0.00 0.00 2.74
2621 2876 8.861086 ACCGATTATATGAGAACAAGATAGTGT 58.139 33.333 0.00 0.00 0.00 3.55
2622 2877 9.698309 CCGATTATATGAGAACAAGATAGTGTT 57.302 33.333 0.00 0.00 44.38 3.32
2628 2883 9.965902 ATATGAGAACAAGATAGTGTTTTTCCT 57.034 29.630 0.00 0.00 41.78 3.36
2629 2884 8.697507 ATGAGAACAAGATAGTGTTTTTCCTT 57.302 30.769 0.00 0.00 41.78 3.36
2630 2885 8.519799 TGAGAACAAGATAGTGTTTTTCCTTT 57.480 30.769 0.00 0.00 41.78 3.11
2631 2886 8.966868 TGAGAACAAGATAGTGTTTTTCCTTTT 58.033 29.630 0.00 0.00 41.78 2.27
2632 2887 9.237846 GAGAACAAGATAGTGTTTTTCCTTTTG 57.762 33.333 0.00 0.00 41.78 2.44
2633 2888 8.749354 AGAACAAGATAGTGTTTTTCCTTTTGT 58.251 29.630 0.00 0.00 41.78 2.83
2634 2889 8.702163 AACAAGATAGTGTTTTTCCTTTTGTG 57.298 30.769 0.00 0.00 38.60 3.33
2635 2890 8.062065 ACAAGATAGTGTTTTTCCTTTTGTGA 57.938 30.769 0.00 0.00 0.00 3.58
2636 2891 7.973944 ACAAGATAGTGTTTTTCCTTTTGTGAC 59.026 33.333 0.00 0.00 0.00 3.67
2637 2892 7.639113 AGATAGTGTTTTTCCTTTTGTGACA 57.361 32.000 0.00 0.00 0.00 3.58
2638 2893 8.062065 AGATAGTGTTTTTCCTTTTGTGACAA 57.938 30.769 0.00 0.00 0.00 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 2.157863 GCAACTAGAAGGCAAAGACGAC 59.842 50.000 0.00 0.00 0.00 4.34
26 27 2.560105 AGGCATTTTCTCTTCCTGCAAC 59.440 45.455 0.00 0.00 34.56 4.17
113 126 8.690203 TTTTCAGGTTCTTGAGATGATGTAAA 57.310 30.769 0.00 0.00 0.00 2.01
176 189 8.186821 ACACTATTTCTGAAAAGCTAATCATGC 58.813 33.333 6.95 0.00 0.00 4.06
197 210 7.908827 TGCCGAAAGTATCATTTAAACACTA 57.091 32.000 0.00 0.00 0.00 2.74
213 226 6.306356 CAGTTGATAATGAACTTTGCCGAAAG 59.694 38.462 0.00 0.00 43.79 2.62
217 230 3.853671 GCAGTTGATAATGAACTTTGCCG 59.146 43.478 0.00 0.00 31.05 5.69
231 244 3.682696 TCTCTGAATGCAAGCAGTTGAT 58.317 40.909 15.97 0.00 35.46 2.57
232 245 3.130280 TCTCTGAATGCAAGCAGTTGA 57.870 42.857 15.97 13.04 35.46 3.18
259 272 8.508601 TGGACTCTTATCTAGAACCCTACATTA 58.491 37.037 0.00 0.00 32.01 1.90
265 278 6.674419 ACAAATGGACTCTTATCTAGAACCCT 59.326 38.462 0.00 0.00 32.01 4.34
319 332 7.307694 GTGCAACAATGTGAAGATTGAATCTA 58.692 34.615 8.30 0.00 35.92 1.98
394 408 6.645003 CCGTATATCCGAGATGTTTGATTCAA 59.355 38.462 0.00 0.00 0.00 2.69
400 414 5.769367 TCTTCCGTATATCCGAGATGTTTG 58.231 41.667 0.00 0.00 0.00 2.93
432 446 2.628178 GGGTGGCTTTTTAGCAGAAGTT 59.372 45.455 0.00 0.00 36.33 2.66
470 484 2.029623 GATCTGGAGGTTGCGGTACTA 58.970 52.381 0.00 0.00 0.00 1.82
481 495 2.364970 GTCTCATGGACTGATCTGGAGG 59.635 54.545 4.49 0.00 41.46 4.30
579 639 3.516615 AGAGAATAGCACAGTCTTTCGC 58.483 45.455 0.00 0.00 29.94 4.70
580 640 4.738124 TGAGAGAATAGCACAGTCTTTCG 58.262 43.478 0.00 0.00 35.75 3.46
581 641 5.108517 CCTGAGAGAATAGCACAGTCTTTC 58.891 45.833 0.00 0.00 34.11 2.62
582 642 4.081198 CCCTGAGAGAATAGCACAGTCTTT 60.081 45.833 0.00 0.00 29.94 2.52
588 650 4.041567 TCAAAACCCTGAGAGAATAGCACA 59.958 41.667 0.00 0.00 0.00 4.57
594 656 4.697352 CGTGATTCAAAACCCTGAGAGAAT 59.303 41.667 0.00 0.00 0.00 2.40
597 659 3.664107 TCGTGATTCAAAACCCTGAGAG 58.336 45.455 0.00 0.00 0.00 3.20
666 728 3.670377 GGCCGAACTGGGTGTTGC 61.670 66.667 0.00 0.00 39.30 4.17
708 771 9.486497 TGCTCTGAATATCTTATCAAAGCTTAG 57.514 33.333 0.00 0.00 39.73 2.18
734 805 2.490903 GCAACTGATGAGGACAAAGCAT 59.509 45.455 0.00 0.00 0.00 3.79
737 808 3.672808 AGAGCAACTGATGAGGACAAAG 58.327 45.455 0.00 0.00 0.00 2.77
775 956 5.706447 AGTAGAAGGCCCTTTTCTTTTTCT 58.294 37.500 10.71 7.12 36.38 2.52
787 968 6.051179 TCTTTTCTTAGAAGTAGAAGGCCC 57.949 41.667 0.00 0.00 33.49 5.80
883 1064 2.124570 CACATCGGGCAGGGAAGG 60.125 66.667 0.00 0.00 0.00 3.46
895 1076 1.741770 GAGACCCGTGCACCACATC 60.742 63.158 12.15 4.11 33.40 3.06
896 1077 1.841302 ATGAGACCCGTGCACCACAT 61.841 55.000 12.15 4.65 33.40 3.21
897 1078 2.449031 GATGAGACCCGTGCACCACA 62.449 60.000 12.15 2.20 33.40 4.17
898 1079 1.741770 GATGAGACCCGTGCACCAC 60.742 63.158 12.15 0.12 0.00 4.16
899 1080 2.662596 GATGAGACCCGTGCACCA 59.337 61.111 12.15 2.07 0.00 4.17
971 1154 3.423154 GTTGGCGAACTGAGGCGG 61.423 66.667 4.11 0.00 36.92 6.13
1112 1305 3.349006 GTGTCCAGTGCAGTGCGG 61.349 66.667 16.47 5.87 0.00 5.69
1113 1306 2.588596 TGTGTCCAGTGCAGTGCG 60.589 61.111 16.47 9.59 0.00 5.34
1114 1307 2.885676 CGTGTGTCCAGTGCAGTGC 61.886 63.158 16.47 8.58 0.00 4.40
1115 1308 2.246739 CCGTGTGTCCAGTGCAGTG 61.247 63.158 14.95 14.95 0.00 3.66
1116 1309 2.108976 CCGTGTGTCCAGTGCAGT 59.891 61.111 0.00 0.00 0.00 4.40
1154 1347 3.591835 CTCTCGCTCCTCGCCTCC 61.592 72.222 0.00 0.00 38.27 4.30
1188 1381 4.431131 CCTTCCACCATGGCCGCT 62.431 66.667 13.04 0.00 37.47 5.52
1194 1387 3.136123 CTGCCGCCTTCCACCATG 61.136 66.667 0.00 0.00 0.00 3.66
1666 1859 1.268066 AAAGGAACCCGAGGAGAGAC 58.732 55.000 0.00 0.00 0.00 3.36
1695 1889 0.612732 TGCTGCCTTTCCATTCCAGG 60.613 55.000 0.00 0.00 0.00 4.45
1728 1922 6.315642 CCTACGGAAAACCTCTTCTTTAATCC 59.684 42.308 0.00 0.00 0.00 3.01
1813 2007 1.002430 AGCAATGGAGTTCTTCTCGCA 59.998 47.619 0.00 0.00 43.60 5.10
1814 2008 1.396301 CAGCAATGGAGTTCTTCTCGC 59.604 52.381 0.00 0.00 43.60 5.03
1815 2009 2.005451 CCAGCAATGGAGTTCTTCTCG 58.995 52.381 0.00 0.00 43.60 4.04
1825 2024 1.143838 CGATCGACCCAGCAATGGA 59.856 57.895 10.26 0.00 0.00 3.41
1856 2055 2.734591 GAGCATGGCATGGCATGG 59.265 61.111 44.47 32.20 0.00 3.66
1857 2056 2.190841 TCGAGCATGGCATGGCATG 61.191 57.895 42.44 42.44 0.00 4.06
1858 2057 2.191513 GTCGAGCATGGCATGGCAT 61.192 57.895 27.75 27.75 0.00 4.40
1859 2058 2.825387 GTCGAGCATGGCATGGCA 60.825 61.111 27.48 25.52 0.00 4.92
1860 2059 3.589881 GGTCGAGCATGGCATGGC 61.590 66.667 27.48 19.20 0.00 4.40
1876 2075 0.460284 CACGGTCCTTGAGAATCCGG 60.460 60.000 0.00 0.00 44.54 5.14
2013 2212 3.118454 CACCGCTGGCAAGTACCG 61.118 66.667 0.00 0.00 0.00 4.02
2041 2240 3.252284 CTCCCACCCAGTGCCACT 61.252 66.667 0.00 0.00 31.34 4.00
2084 2287 1.588667 GCCAATTATTGCGCCACCG 60.589 57.895 4.18 0.00 37.57 4.94
2153 2356 3.157949 TGCGGTGGTGGTGAGTGA 61.158 61.111 0.00 0.00 0.00 3.41
2154 2357 2.972505 GTGCGGTGGTGGTGAGTG 60.973 66.667 0.00 0.00 0.00 3.51
2155 2358 4.250305 GGTGCGGTGGTGGTGAGT 62.250 66.667 0.00 0.00 0.00 3.41
2192 2395 1.148048 GCAGGCATCTTCTCCTCCC 59.852 63.158 0.00 0.00 0.00 4.30
2251 2469 3.817960 GCACCATAATGCGGTTACG 57.182 52.632 0.00 0.00 44.63 3.18
2346 2577 0.596082 AAAAACAGCACCGGGATTCG 59.404 50.000 6.32 0.00 38.88 3.34
2348 2579 2.871453 AGTAAAAACAGCACCGGGATT 58.129 42.857 6.32 0.00 0.00 3.01
2433 2688 1.088340 CACCGAAGCAGGAGCATCTG 61.088 60.000 0.00 2.43 45.49 2.90
2434 2689 1.220206 CACCGAAGCAGGAGCATCT 59.780 57.895 0.00 0.00 45.49 2.90
2435 2690 2.467826 GCACCGAAGCAGGAGCATC 61.468 63.158 9.60 0.00 45.33 3.91
2436 2691 2.437359 GCACCGAAGCAGGAGCAT 60.437 61.111 9.60 0.00 45.33 3.79
2438 2693 2.359230 AAGCACCGAAGCAGGAGC 60.359 61.111 7.09 7.09 46.17 4.70
2439 2694 1.743252 GGAAGCACCGAAGCAGGAG 60.743 63.158 0.00 0.00 36.85 3.69
2440 2695 0.902984 TAGGAAGCACCGAAGCAGGA 60.903 55.000 0.00 0.00 44.74 3.86
2441 2696 0.741221 GTAGGAAGCACCGAAGCAGG 60.741 60.000 2.02 0.00 44.74 4.85
2442 2697 0.741221 GGTAGGAAGCACCGAAGCAG 60.741 60.000 2.02 0.00 44.74 4.24
2443 2698 1.295423 GGTAGGAAGCACCGAAGCA 59.705 57.895 2.02 0.00 44.74 3.91
2444 2699 1.449778 GGGTAGGAAGCACCGAAGC 60.450 63.158 0.00 0.00 44.74 3.86
2445 2700 0.541863 ATGGGTAGGAAGCACCGAAG 59.458 55.000 0.00 0.00 44.74 3.79
2446 2701 0.251916 CATGGGTAGGAAGCACCGAA 59.748 55.000 0.00 0.00 44.74 4.30
2447 2702 0.616395 TCATGGGTAGGAAGCACCGA 60.616 55.000 0.00 0.00 44.74 4.69
2448 2703 0.251916 TTCATGGGTAGGAAGCACCG 59.748 55.000 0.00 0.00 44.74 4.94
2449 2704 2.301346 CATTCATGGGTAGGAAGCACC 58.699 52.381 0.00 0.00 39.35 5.01
2450 2705 1.678101 GCATTCATGGGTAGGAAGCAC 59.322 52.381 0.00 0.00 29.18 4.40
2451 2706 1.284491 TGCATTCATGGGTAGGAAGCA 59.716 47.619 0.00 0.00 32.52 3.91
2452 2707 1.952296 CTGCATTCATGGGTAGGAAGC 59.048 52.381 0.00 0.00 29.18 3.86
2453 2708 3.565764 TCTGCATTCATGGGTAGGAAG 57.434 47.619 0.00 0.00 29.18 3.46
2454 2709 3.459227 TCATCTGCATTCATGGGTAGGAA 59.541 43.478 0.00 0.00 0.00 3.36
2455 2710 3.047857 TCATCTGCATTCATGGGTAGGA 58.952 45.455 0.00 0.00 0.00 2.94
2456 2711 3.497103 TCATCTGCATTCATGGGTAGG 57.503 47.619 0.00 0.00 0.00 3.18
2457 2712 5.301045 ACAAATCATCTGCATTCATGGGTAG 59.699 40.000 0.00 0.00 0.00 3.18
2458 2713 5.202765 ACAAATCATCTGCATTCATGGGTA 58.797 37.500 0.00 0.00 0.00 3.69
2459 2714 4.028131 ACAAATCATCTGCATTCATGGGT 58.972 39.130 0.00 0.00 0.00 4.51
2460 2715 4.341235 AGACAAATCATCTGCATTCATGGG 59.659 41.667 0.00 0.00 0.00 4.00
2461 2716 5.515797 AGACAAATCATCTGCATTCATGG 57.484 39.130 0.00 0.00 0.00 3.66
2462 2717 5.748630 CCAAGACAAATCATCTGCATTCATG 59.251 40.000 0.00 0.00 0.00 3.07
2463 2718 5.421056 ACCAAGACAAATCATCTGCATTCAT 59.579 36.000 0.00 0.00 0.00 2.57
2464 2719 4.768448 ACCAAGACAAATCATCTGCATTCA 59.232 37.500 0.00 0.00 0.00 2.57
2465 2720 5.320549 ACCAAGACAAATCATCTGCATTC 57.679 39.130 0.00 0.00 0.00 2.67
2466 2721 5.948162 ACTACCAAGACAAATCATCTGCATT 59.052 36.000 0.00 0.00 0.00 3.56
2467 2722 5.503927 ACTACCAAGACAAATCATCTGCAT 58.496 37.500 0.00 0.00 0.00 3.96
2468 2723 4.910195 ACTACCAAGACAAATCATCTGCA 58.090 39.130 0.00 0.00 0.00 4.41
2469 2724 5.886960 AACTACCAAGACAAATCATCTGC 57.113 39.130 0.00 0.00 0.00 4.26
2470 2725 7.524912 CAGAAACTACCAAGACAAATCATCTG 58.475 38.462 0.00 0.00 0.00 2.90
2471 2726 6.150140 GCAGAAACTACCAAGACAAATCATCT 59.850 38.462 0.00 0.00 0.00 2.90
2472 2727 6.150140 AGCAGAAACTACCAAGACAAATCATC 59.850 38.462 0.00 0.00 0.00 2.92
2473 2728 6.006449 AGCAGAAACTACCAAGACAAATCAT 58.994 36.000 0.00 0.00 0.00 2.45
2474 2729 5.376625 AGCAGAAACTACCAAGACAAATCA 58.623 37.500 0.00 0.00 0.00 2.57
2475 2730 5.948992 AGCAGAAACTACCAAGACAAATC 57.051 39.130 0.00 0.00 0.00 2.17
2476 2731 6.770785 TGTAAGCAGAAACTACCAAGACAAAT 59.229 34.615 0.00 0.00 0.00 2.32
2477 2732 6.116806 TGTAAGCAGAAACTACCAAGACAAA 58.883 36.000 0.00 0.00 0.00 2.83
2478 2733 5.676552 TGTAAGCAGAAACTACCAAGACAA 58.323 37.500 0.00 0.00 0.00 3.18
2479 2734 5.284861 TGTAAGCAGAAACTACCAAGACA 57.715 39.130 0.00 0.00 0.00 3.41
2480 2735 6.803154 AATGTAAGCAGAAACTACCAAGAC 57.197 37.500 0.00 0.00 0.00 3.01
2481 2736 7.719633 AGAAAATGTAAGCAGAAACTACCAAGA 59.280 33.333 0.00 0.00 0.00 3.02
2482 2737 7.805071 CAGAAAATGTAAGCAGAAACTACCAAG 59.195 37.037 0.00 0.00 0.00 3.61
2483 2738 7.255451 CCAGAAAATGTAAGCAGAAACTACCAA 60.255 37.037 0.00 0.00 0.00 3.67
2484 2739 6.206634 CCAGAAAATGTAAGCAGAAACTACCA 59.793 38.462 0.00 0.00 0.00 3.25
2485 2740 6.349363 CCCAGAAAATGTAAGCAGAAACTACC 60.349 42.308 0.00 0.00 0.00 3.18
2486 2741 6.612306 CCCAGAAAATGTAAGCAGAAACTAC 58.388 40.000 0.00 0.00 0.00 2.73
2487 2742 5.183140 GCCCAGAAAATGTAAGCAGAAACTA 59.817 40.000 0.00 0.00 0.00 2.24
2488 2743 4.021981 GCCCAGAAAATGTAAGCAGAAACT 60.022 41.667 0.00 0.00 0.00 2.66
2489 2744 4.237724 GCCCAGAAAATGTAAGCAGAAAC 58.762 43.478 0.00 0.00 0.00 2.78
2490 2745 3.894427 TGCCCAGAAAATGTAAGCAGAAA 59.106 39.130 0.00 0.00 0.00 2.52
2491 2746 3.495331 TGCCCAGAAAATGTAAGCAGAA 58.505 40.909 0.00 0.00 0.00 3.02
2492 2747 3.153369 TGCCCAGAAAATGTAAGCAGA 57.847 42.857 0.00 0.00 0.00 4.26
2493 2748 3.940209 TTGCCCAGAAAATGTAAGCAG 57.060 42.857 0.00 0.00 31.58 4.24
2494 2749 3.894427 TCTTTGCCCAGAAAATGTAAGCA 59.106 39.130 0.00 0.00 0.00 3.91
2495 2750 4.218417 TCTCTTTGCCCAGAAAATGTAAGC 59.782 41.667 0.00 0.00 0.00 3.09
2496 2751 5.964958 TCTCTTTGCCCAGAAAATGTAAG 57.035 39.130 0.00 0.00 0.00 2.34
2497 2752 5.833131 AGTTCTCTTTGCCCAGAAAATGTAA 59.167 36.000 0.00 0.00 30.38 2.41
2498 2753 5.241506 CAGTTCTCTTTGCCCAGAAAATGTA 59.758 40.000 0.00 0.00 30.38 2.29
2499 2754 4.038402 CAGTTCTCTTTGCCCAGAAAATGT 59.962 41.667 0.00 0.00 30.38 2.71
2500 2755 4.553323 CAGTTCTCTTTGCCCAGAAAATG 58.447 43.478 0.00 0.00 30.38 2.32
2501 2756 3.006217 GCAGTTCTCTTTGCCCAGAAAAT 59.994 43.478 0.00 0.00 34.28 1.82
2502 2757 2.362077 GCAGTTCTCTTTGCCCAGAAAA 59.638 45.455 0.00 0.00 34.28 2.29
2503 2758 1.956477 GCAGTTCTCTTTGCCCAGAAA 59.044 47.619 0.00 0.00 34.28 2.52
2504 2759 1.133823 TGCAGTTCTCTTTGCCCAGAA 60.134 47.619 0.00 0.00 39.54 3.02
2505 2760 0.473755 TGCAGTTCTCTTTGCCCAGA 59.526 50.000 0.00 0.00 39.54 3.86
2506 2761 0.879765 CTGCAGTTCTCTTTGCCCAG 59.120 55.000 5.25 0.00 39.54 4.45
2507 2762 1.174712 GCTGCAGTTCTCTTTGCCCA 61.175 55.000 16.64 0.00 39.54 5.36
2508 2763 0.892814 AGCTGCAGTTCTCTTTGCCC 60.893 55.000 16.64 0.00 39.54 5.36
2509 2764 0.957362 AAGCTGCAGTTCTCTTTGCC 59.043 50.000 16.64 0.00 39.54 4.52
2510 2765 2.810852 ACTAAGCTGCAGTTCTCTTTGC 59.189 45.455 16.64 0.00 40.67 3.68
2511 2766 4.060900 TCACTAAGCTGCAGTTCTCTTTG 58.939 43.478 16.64 12.65 0.00 2.77
2512 2767 4.342862 TCACTAAGCTGCAGTTCTCTTT 57.657 40.909 16.64 0.00 0.00 2.52
2513 2768 4.550076 ATCACTAAGCTGCAGTTCTCTT 57.450 40.909 16.64 12.17 0.00 2.85
2514 2769 5.599732 CATATCACTAAGCTGCAGTTCTCT 58.400 41.667 16.64 0.00 0.00 3.10
2515 2770 4.210955 GCATATCACTAAGCTGCAGTTCTC 59.789 45.833 16.64 0.00 33.13 2.87
2516 2771 4.125703 GCATATCACTAAGCTGCAGTTCT 58.874 43.478 16.64 1.18 33.13 3.01
2517 2772 4.125703 AGCATATCACTAAGCTGCAGTTC 58.874 43.478 16.64 0.00 35.72 3.01
2518 2773 4.125703 GAGCATATCACTAAGCTGCAGTT 58.874 43.478 16.64 6.37 37.48 3.16
2519 2774 3.387374 AGAGCATATCACTAAGCTGCAGT 59.613 43.478 16.64 0.00 37.48 4.40
2520 2775 3.992643 AGAGCATATCACTAAGCTGCAG 58.007 45.455 10.11 10.11 37.48 4.41
2521 2776 4.412796 AAGAGCATATCACTAAGCTGCA 57.587 40.909 1.02 0.00 37.48 4.41
2522 2777 5.526846 AGAAAAGAGCATATCACTAAGCTGC 59.473 40.000 0.00 0.00 37.48 5.25
2523 2778 7.551035 AAGAAAAGAGCATATCACTAAGCTG 57.449 36.000 0.00 0.00 37.48 4.24
2524 2779 8.572855 AAAAGAAAAGAGCATATCACTAAGCT 57.427 30.769 0.00 0.00 40.60 3.74
2547 2802 9.753674 AGAGAACATATCACTATTTCCCAAAAA 57.246 29.630 0.00 0.00 0.00 1.94
2548 2803 9.753674 AAGAGAACATATCACTATTTCCCAAAA 57.246 29.630 0.00 0.00 0.00 2.44
2550 2805 9.832445 GTAAGAGAACATATCACTATTTCCCAA 57.168 33.333 0.00 0.00 0.00 4.12
2551 2806 9.213777 AGTAAGAGAACATATCACTATTTCCCA 57.786 33.333 0.00 0.00 0.00 4.37
2552 2807 9.482627 CAGTAAGAGAACATATCACTATTTCCC 57.517 37.037 0.00 0.00 0.00 3.97
2559 2814 8.535335 ACATTGTCAGTAAGAGAACATATCACT 58.465 33.333 0.00 0.00 31.65 3.41
2560 2815 8.709386 ACATTGTCAGTAAGAGAACATATCAC 57.291 34.615 0.00 0.00 31.65 3.06
2566 2821 9.586435 CATGTATACATTGTCAGTAAGAGAACA 57.414 33.333 15.85 0.00 31.65 3.18
2567 2822 9.803315 TCATGTATACATTGTCAGTAAGAGAAC 57.197 33.333 15.85 0.00 31.65 3.01
2568 2823 9.803315 GTCATGTATACATTGTCAGTAAGAGAA 57.197 33.333 15.85 0.00 33.61 2.87
2569 2824 8.966868 TGTCATGTATACATTGTCAGTAAGAGA 58.033 33.333 15.85 3.14 33.61 3.10
2570 2825 9.025020 GTGTCATGTATACATTGTCAGTAAGAG 57.975 37.037 15.85 0.82 33.61 2.85
2571 2826 7.979537 GGTGTCATGTATACATTGTCAGTAAGA 59.020 37.037 15.85 4.36 33.61 2.10
2572 2827 7.043391 CGGTGTCATGTATACATTGTCAGTAAG 60.043 40.741 15.85 2.02 33.61 2.34
2573 2828 6.754675 CGGTGTCATGTATACATTGTCAGTAA 59.245 38.462 15.85 0.00 33.61 2.24
2574 2829 6.095720 TCGGTGTCATGTATACATTGTCAGTA 59.904 38.462 15.85 0.00 33.61 2.74
2575 2830 5.105513 TCGGTGTCATGTATACATTGTCAGT 60.106 40.000 15.85 0.00 33.61 3.41
2576 2831 5.348164 TCGGTGTCATGTATACATTGTCAG 58.652 41.667 15.85 4.83 33.61 3.51
2577 2832 5.331876 TCGGTGTCATGTATACATTGTCA 57.668 39.130 15.85 11.78 33.61 3.58
2578 2833 6.844696 AATCGGTGTCATGTATACATTGTC 57.155 37.500 15.85 9.55 33.61 3.18
2583 2838 9.238368 TCTCATATAATCGGTGTCATGTATACA 57.762 33.333 8.27 8.27 0.00 2.29
2586 2841 8.585018 TGTTCTCATATAATCGGTGTCATGTAT 58.415 33.333 0.00 0.00 0.00 2.29
2587 2842 7.947282 TGTTCTCATATAATCGGTGTCATGTA 58.053 34.615 0.00 0.00 0.00 2.29
2588 2843 6.816136 TGTTCTCATATAATCGGTGTCATGT 58.184 36.000 0.00 0.00 0.00 3.21
2589 2844 7.653311 TCTTGTTCTCATATAATCGGTGTCATG 59.347 37.037 0.00 0.00 0.00 3.07
2590 2845 7.726216 TCTTGTTCTCATATAATCGGTGTCAT 58.274 34.615 0.00 0.00 0.00 3.06
2591 2846 7.107639 TCTTGTTCTCATATAATCGGTGTCA 57.892 36.000 0.00 0.00 0.00 3.58
2592 2847 9.347934 CTATCTTGTTCTCATATAATCGGTGTC 57.652 37.037 0.00 0.00 0.00 3.67
2593 2848 8.861086 ACTATCTTGTTCTCATATAATCGGTGT 58.139 33.333 0.00 0.00 0.00 4.16
2594 2849 9.133627 CACTATCTTGTTCTCATATAATCGGTG 57.866 37.037 0.00 0.00 0.00 4.94
2595 2850 8.861086 ACACTATCTTGTTCTCATATAATCGGT 58.139 33.333 0.00 0.00 0.00 4.69
2596 2851 9.698309 AACACTATCTTGTTCTCATATAATCGG 57.302 33.333 0.00 0.00 34.48 4.18
2602 2857 9.965902 AGGAAAAACACTATCTTGTTCTCATAT 57.034 29.630 0.00 0.00 38.82 1.78
2603 2858 9.793259 AAGGAAAAACACTATCTTGTTCTCATA 57.207 29.630 0.00 0.00 38.82 2.15
2604 2859 8.697507 AAGGAAAAACACTATCTTGTTCTCAT 57.302 30.769 0.00 0.00 38.82 2.90
2605 2860 8.519799 AAAGGAAAAACACTATCTTGTTCTCA 57.480 30.769 0.00 0.00 38.82 3.27
2606 2861 9.237846 CAAAAGGAAAAACACTATCTTGTTCTC 57.762 33.333 0.00 0.00 38.82 2.87
2607 2862 8.749354 ACAAAAGGAAAAACACTATCTTGTTCT 58.251 29.630 0.00 0.00 38.82 3.01
2608 2863 8.807581 CACAAAAGGAAAAACACTATCTTGTTC 58.192 33.333 0.00 0.00 38.82 3.18
2609 2864 8.527810 TCACAAAAGGAAAAACACTATCTTGTT 58.472 29.630 0.00 0.00 41.62 2.83
2610 2865 7.973944 GTCACAAAAGGAAAAACACTATCTTGT 59.026 33.333 0.00 0.00 0.00 3.16
2611 2866 7.973388 TGTCACAAAAGGAAAAACACTATCTTG 59.027 33.333 0.00 0.00 0.00 3.02
2612 2867 8.062065 TGTCACAAAAGGAAAAACACTATCTT 57.938 30.769 0.00 0.00 0.00 2.40
2613 2868 7.639113 TGTCACAAAAGGAAAAACACTATCT 57.361 32.000 0.00 0.00 0.00 1.98


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

AutoCloner maintained by Alex Coulton.