Multiple sequence alignment - TraesCS6B01G276700

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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 TraesCS6B01G276700 chr6B 100.000 3185 0 0 1 3185 500893267 500896451 0.000000e+00 5882.0
1 TraesCS6B01G276700 chr6B 90.786 1552 116 11 943 2467 501062655 501064206 0.000000e+00 2049.0
2 TraesCS6B01G276700 chr6A 94.886 2718 70 11 1 2657 460007421 460004712 0.000000e+00 4185.0
3 TraesCS6B01G276700 chr6A 91.195 1556 111 12 943 2476 459878438 459876887 0.000000e+00 2091.0
4 TraesCS6B01G276700 chr6A 91.667 180 6 5 2917 3096 460004713 460004543 1.140000e-59 241.0
5 TraesCS6B01G276700 chr6A 93.421 152 6 2 3038 3185 460004455 460004304 4.140000e-54 222.0
6 TraesCS6B01G276700 chr6A 87.805 82 9 1 3104 3185 460004554 460004474 9.410000e-16 95.3
7 TraesCS6B01G276700 chr6D 94.057 2608 69 29 1 2559 322587954 322585384 0.000000e+00 3879.0
8 TraesCS6B01G276700 chr6D 90.468 1731 123 21 943 2641 322572298 322570578 0.000000e+00 2244.0
9 TraesCS6B01G276700 chr6D 94.444 180 7 2 2917 3096 322582907 322582731 1.130000e-69 274.0
10 TraesCS6B01G276700 chr6D 95.070 142 6 1 3043 3183 322582245 322582104 4.140000e-54 222.0
11 TraesCS6B01G276700 chr6D 98.058 103 1 1 2555 2657 322583007 322582906 9.080000e-41 178.0
12 TraesCS6B01G276700 chr6D 94.118 68 2 2 3119 3185 322582411 322582345 5.620000e-18 102.0
13 TraesCS6B01G276700 chr6D 87.013 77 10 0 735 811 322572478 322572402 1.570000e-13 87.9
14 TraesCS6B01G276700 chr2D 88.982 1189 120 7 997 2181 15133811 15134992 0.000000e+00 1459.0
15 TraesCS6B01G276700 chr3D 88.191 1194 139 2 996 2188 213996921 213998113 0.000000e+00 1423.0
16 TraesCS6B01G276700 chr3B 88.097 1193 140 2 996 2187 330800921 330799730 0.000000e+00 1415.0
17 TraesCS6B01G276700 chr3B 97.417 271 6 1 2655 2924 521657132 521657402 8.050000e-126 460.0
18 TraesCS6B01G276700 chr3B 96.085 281 9 2 2655 2934 367769322 367769043 1.040000e-124 457.0
19 TraesCS6B01G276700 chr3A 87.990 1199 142 2 991 2188 279436896 279435699 0.000000e+00 1415.0
20 TraesCS6B01G276700 chr5B 97.407 270 6 1 2655 2924 297942333 297942065 2.900000e-125 459.0
21 TraesCS6B01G276700 chr5B 97.037 270 7 1 2655 2924 364080571 364080303 1.350000e-123 453.0
22 TraesCS6B01G276700 chr7B 97.048 271 8 0 2649 2919 299180462 299180192 1.040000e-124 457.0
23 TraesCS6B01G276700 chr7B 96.691 272 9 0 2649 2920 50270263 50270534 1.350000e-123 453.0
24 TraesCS6B01G276700 chr7B 96.337 273 10 0 2652 2924 725776959 725776687 1.740000e-122 449.0
25 TraesCS6B01G276700 chr2B 97.744 266 5 1 2653 2918 94922410 94922674 1.040000e-124 457.0
26 TraesCS6B01G276700 chr1B 97.736 265 6 0 2655 2919 91242832 91242568 1.040000e-124 457.0
27 TraesCS6B01G276700 chr7D 89.286 56 5 1 3129 3183 132747121 132747066 5.700000e-08 69.4
28 TraesCS6B01G276700 chr7A 85.714 56 7 1 3129 3183 131122528 131122583 1.230000e-04 58.4


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6B01G276700 chr6B 500893267 500896451 3184 False 5882.000 5882 100.00000 1 3185 1 chr6B.!!$F1 3184
1 TraesCS6B01G276700 chr6B 501062655 501064206 1551 False 2049.000 2049 90.78600 943 2467 1 chr6B.!!$F2 1524
2 TraesCS6B01G276700 chr6A 459876887 459878438 1551 True 2091.000 2091 91.19500 943 2476 1 chr6A.!!$R1 1533
3 TraesCS6B01G276700 chr6A 460004304 460007421 3117 True 1185.825 4185 91.94475 1 3185 4 chr6A.!!$R2 3184
4 TraesCS6B01G276700 chr6D 322570578 322572478 1900 True 1165.950 2244 88.74050 735 2641 2 chr6D.!!$R1 1906
5 TraesCS6B01G276700 chr6D 322582104 322587954 5850 True 931.000 3879 95.14940 1 3185 5 chr6D.!!$R2 3184
6 TraesCS6B01G276700 chr2D 15133811 15134992 1181 False 1459.000 1459 88.98200 997 2181 1 chr2D.!!$F1 1184
7 TraesCS6B01G276700 chr3D 213996921 213998113 1192 False 1423.000 1423 88.19100 996 2188 1 chr3D.!!$F1 1192
8 TraesCS6B01G276700 chr3B 330799730 330800921 1191 True 1415.000 1415 88.09700 996 2187 1 chr3B.!!$R1 1191
9 TraesCS6B01G276700 chr3A 279435699 279436896 1197 True 1415.000 1415 87.99000 991 2188 1 chr3A.!!$R1 1197

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
245 264 1.229209 TCTCCTCCGCTTGTCCCTT 60.229 57.895 0.00 0.0 0.0 3.95 F
1329 1413 0.114954 ACATTGCCCAGGGTGTTCAT 59.885 50.000 7.55 0.0 0.0 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1692 1776 0.107831 CAGACGGGTTCAGGTGGAAA 59.892 55.0 0.00 0.0 37.23 3.13 R
2834 5344 0.034756 TATTGCACTGCACCACTCGT 59.965 50.0 2.26 0.0 38.71 4.18 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
67 68 2.159198 ACGTGGGTGGCGTAATTACTAG 60.159 50.000 13.56 0.45 41.06 2.57
68 69 2.159198 CGTGGGTGGCGTAATTACTAGT 60.159 50.000 13.56 0.00 0.00 2.57
69 70 3.066621 CGTGGGTGGCGTAATTACTAGTA 59.933 47.826 13.56 0.00 0.00 1.82
245 264 1.229209 TCTCCTCCGCTTGTCCCTT 60.229 57.895 0.00 0.00 0.00 3.95
415 434 3.974757 GGATCCGGGCGTACTCGG 61.975 72.222 0.00 11.35 46.89 4.63
449 469 2.102109 TTTGTTCCTCCGGCTGCGTA 62.102 55.000 0.00 0.00 0.00 4.42
703 740 3.060020 GATGTCGGCGGGTCTTCGA 62.060 63.158 7.21 0.00 0.00 3.71
733 782 3.541713 GCCGCTCCTTCCTCCGAT 61.542 66.667 0.00 0.00 0.00 4.18
749 798 4.889112 ATGGCGGCAGATGCAGGG 62.889 66.667 19.29 0.00 44.36 4.45
875 954 5.565045 GCGTCTATATTCTCTGTACTTGGGG 60.565 48.000 0.00 0.00 0.00 4.96
1005 1085 2.677836 CGCTAGCACTAAAGAAATGGCA 59.322 45.455 16.45 0.00 0.00 4.92
1071 1151 0.249868 CCGACAAGCTCTGTGACCAA 60.250 55.000 6.31 0.00 38.84 3.67
1329 1413 0.114954 ACATTGCCCAGGGTGTTCAT 59.885 50.000 7.55 0.00 0.00 2.57
1356 1440 1.301401 CACCAAGCGTCCCGAAGAA 60.301 57.895 0.00 0.00 0.00 2.52
1464 1548 2.507992 CTTGGAGCTCGCCTCACG 60.508 66.667 7.83 0.00 42.62 4.35
1692 1776 3.769844 AGTACCTCGATGAGAACACCATT 59.230 43.478 0.00 0.00 0.00 3.16
2097 2181 4.137543 GTGGAAACAGGTTCATCAAGACT 58.862 43.478 0.00 0.00 44.46 3.24
2329 2430 6.453092 TGGTAGTCAGTGCTAAGTTTCTTAC 58.547 40.000 0.00 0.00 0.00 2.34
2516 2642 4.823989 AGCCATGTGTAATTCTATTGCTCC 59.176 41.667 0.00 0.00 0.00 4.70
2529 2655 0.404040 TTGCTCCGTTCTCCCCAAAT 59.596 50.000 0.00 0.00 0.00 2.32
2530 2656 0.404040 TGCTCCGTTCTCCCCAAATT 59.596 50.000 0.00 0.00 0.00 1.82
2655 5165 7.496920 TCATGAGATCTGAACTGCGAAAATAAT 59.503 33.333 0.00 0.00 0.00 1.28
2656 5166 8.768019 CATGAGATCTGAACTGCGAAAATAATA 58.232 33.333 0.00 0.00 0.00 0.98
2657 5167 8.131455 TGAGATCTGAACTGCGAAAATAATAC 57.869 34.615 0.00 0.00 0.00 1.89
2658 5168 7.981789 TGAGATCTGAACTGCGAAAATAATACT 59.018 33.333 0.00 0.00 0.00 2.12
2659 5169 8.359060 AGATCTGAACTGCGAAAATAATACTC 57.641 34.615 0.00 0.00 0.00 2.59
2660 5170 6.903883 TCTGAACTGCGAAAATAATACTCC 57.096 37.500 0.00 0.00 0.00 3.85
2661 5171 5.815740 TCTGAACTGCGAAAATAATACTCCC 59.184 40.000 0.00 0.00 0.00 4.30
2662 5172 5.741011 TGAACTGCGAAAATAATACTCCCT 58.259 37.500 0.00 0.00 0.00 4.20
2663 5173 5.815740 TGAACTGCGAAAATAATACTCCCTC 59.184 40.000 0.00 0.00 0.00 4.30
2664 5174 4.704965 ACTGCGAAAATAATACTCCCTCC 58.295 43.478 0.00 0.00 0.00 4.30
2665 5175 4.163458 ACTGCGAAAATAATACTCCCTCCA 59.837 41.667 0.00 0.00 0.00 3.86
2666 5176 5.163195 ACTGCGAAAATAATACTCCCTCCAT 60.163 40.000 0.00 0.00 0.00 3.41
2667 5177 5.690865 TGCGAAAATAATACTCCCTCCATT 58.309 37.500 0.00 0.00 0.00 3.16
2668 5178 5.763204 TGCGAAAATAATACTCCCTCCATTC 59.237 40.000 0.00 0.00 0.00 2.67
2669 5179 5.181433 GCGAAAATAATACTCCCTCCATTCC 59.819 44.000 0.00 0.00 0.00 3.01
2670 5180 6.534634 CGAAAATAATACTCCCTCCATTCCT 58.465 40.000 0.00 0.00 0.00 3.36
2671 5181 7.676947 CGAAAATAATACTCCCTCCATTCCTA 58.323 38.462 0.00 0.00 0.00 2.94
2672 5182 8.154856 CGAAAATAATACTCCCTCCATTCCTAA 58.845 37.037 0.00 0.00 0.00 2.69
2673 5183 9.862149 GAAAATAATACTCCCTCCATTCCTAAA 57.138 33.333 0.00 0.00 0.00 1.85
2697 5207 8.459911 AATATAGGGTGTATAGTTTTTGGCAC 57.540 34.615 0.00 0.00 0.00 5.01
2698 5208 3.078837 AGGGTGTATAGTTTTTGGCACG 58.921 45.455 0.00 0.00 0.00 5.34
2699 5209 2.162809 GGGTGTATAGTTTTTGGCACGG 59.837 50.000 0.00 0.00 0.00 4.94
2700 5210 3.075884 GGTGTATAGTTTTTGGCACGGA 58.924 45.455 0.00 0.00 0.00 4.69
2701 5211 3.502979 GGTGTATAGTTTTTGGCACGGAA 59.497 43.478 0.00 0.00 0.00 4.30
2702 5212 4.023021 GGTGTATAGTTTTTGGCACGGAAA 60.023 41.667 0.00 0.00 0.00 3.13
2703 5213 5.336134 GGTGTATAGTTTTTGGCACGGAAAT 60.336 40.000 0.00 0.00 0.00 2.17
2704 5214 6.153756 GTGTATAGTTTTTGGCACGGAAATT 58.846 36.000 0.00 0.00 0.00 1.82
2705 5215 7.306953 GTGTATAGTTTTTGGCACGGAAATTA 58.693 34.615 0.00 0.00 0.00 1.40
2706 5216 7.808856 GTGTATAGTTTTTGGCACGGAAATTAA 59.191 33.333 0.00 0.00 0.00 1.40
2707 5217 8.358148 TGTATAGTTTTTGGCACGGAAATTAAA 58.642 29.630 0.00 0.00 0.00 1.52
2708 5218 7.883229 ATAGTTTTTGGCACGGAAATTAAAG 57.117 32.000 0.00 0.00 0.00 1.85
2709 5219 5.908341 AGTTTTTGGCACGGAAATTAAAGA 58.092 33.333 0.00 0.00 0.00 2.52
2710 5220 6.342111 AGTTTTTGGCACGGAAATTAAAGAA 58.658 32.000 0.00 0.00 0.00 2.52
2711 5221 6.256975 AGTTTTTGGCACGGAAATTAAAGAAC 59.743 34.615 0.00 0.00 0.00 3.01
2712 5222 4.920640 TTGGCACGGAAATTAAAGAACA 57.079 36.364 0.00 0.00 0.00 3.18
2713 5223 4.231718 TGGCACGGAAATTAAAGAACAC 57.768 40.909 0.00 0.00 0.00 3.32
2714 5224 3.632604 TGGCACGGAAATTAAAGAACACA 59.367 39.130 0.00 0.00 0.00 3.72
2715 5225 4.279671 TGGCACGGAAATTAAAGAACACAT 59.720 37.500 0.00 0.00 0.00 3.21
2716 5226 5.473846 TGGCACGGAAATTAAAGAACACATA 59.526 36.000 0.00 0.00 0.00 2.29
2717 5227 6.151985 TGGCACGGAAATTAAAGAACACATAT 59.848 34.615 0.00 0.00 0.00 1.78
2718 5228 6.472163 GGCACGGAAATTAAAGAACACATATG 59.528 38.462 0.00 0.00 0.00 1.78
2719 5229 6.472163 GCACGGAAATTAAAGAACACATATGG 59.528 38.462 7.80 0.00 0.00 2.74
2720 5230 7.627513 GCACGGAAATTAAAGAACACATATGGA 60.628 37.037 7.80 0.00 0.00 3.41
2721 5231 7.910162 CACGGAAATTAAAGAACACATATGGAG 59.090 37.037 7.80 1.69 0.00 3.86
2722 5232 7.067008 ACGGAAATTAAAGAACACATATGGAGG 59.933 37.037 7.80 0.00 0.00 4.30
2723 5233 7.468631 CGGAAATTAAAGAACACATATGGAGGG 60.469 40.741 7.80 0.00 0.00 4.30
2724 5234 7.559897 GGAAATTAAAGAACACATATGGAGGGA 59.440 37.037 7.80 0.00 0.00 4.20
2725 5235 8.893563 AAATTAAAGAACACATATGGAGGGAA 57.106 30.769 7.80 0.00 0.00 3.97
2726 5236 8.893563 AATTAAAGAACACATATGGAGGGAAA 57.106 30.769 7.80 0.00 0.00 3.13
2727 5237 8.893563 ATTAAAGAACACATATGGAGGGAAAA 57.106 30.769 7.80 0.00 0.00 2.29
2728 5238 8.893563 TTAAAGAACACATATGGAGGGAAAAT 57.106 30.769 7.80 0.00 0.00 1.82
2729 5239 7.797121 AAAGAACACATATGGAGGGAAAATT 57.203 32.000 7.80 0.00 0.00 1.82
2730 5240 7.797121 AAGAACACATATGGAGGGAAAATTT 57.203 32.000 7.80 0.00 0.00 1.82
2731 5241 7.410120 AGAACACATATGGAGGGAAAATTTC 57.590 36.000 7.80 0.00 0.00 2.17
2732 5242 6.953520 AGAACACATATGGAGGGAAAATTTCA 59.046 34.615 7.80 0.00 0.00 2.69
2733 5243 6.530019 ACACATATGGAGGGAAAATTTCAC 57.470 37.500 7.80 3.68 0.00 3.18
2734 5244 6.015918 ACACATATGGAGGGAAAATTTCACA 58.984 36.000 10.88 2.87 34.83 3.58
2735 5245 6.496565 ACACATATGGAGGGAAAATTTCACAA 59.503 34.615 10.88 0.00 34.83 3.33
2736 5246 7.037438 CACATATGGAGGGAAAATTTCACAAG 58.963 38.462 10.88 0.00 34.83 3.16
2737 5247 4.541973 ATGGAGGGAAAATTTCACAAGC 57.458 40.909 10.88 0.00 34.83 4.01
2738 5248 3.575805 TGGAGGGAAAATTTCACAAGCT 58.424 40.909 10.88 0.00 34.83 3.74
2739 5249 3.966665 TGGAGGGAAAATTTCACAAGCTT 59.033 39.130 10.88 0.00 34.83 3.74
2740 5250 4.408596 TGGAGGGAAAATTTCACAAGCTTT 59.591 37.500 10.88 0.00 34.83 3.51
2741 5251 4.751600 GGAGGGAAAATTTCACAAGCTTTG 59.248 41.667 10.88 0.00 34.83 2.77
2742 5252 4.707105 AGGGAAAATTTCACAAGCTTTGG 58.293 39.130 10.88 0.00 34.83 3.28
2743 5253 3.814842 GGGAAAATTTCACAAGCTTTGGG 59.185 43.478 8.09 0.00 31.89 4.12
2744 5254 3.250762 GGAAAATTTCACAAGCTTTGGGC 59.749 43.478 8.09 0.00 42.19 5.36
2754 5264 3.694889 GCTTTGGGCGACATTACAC 57.305 52.632 0.00 0.00 0.00 2.90
2755 5265 0.878416 GCTTTGGGCGACATTACACA 59.122 50.000 0.00 0.00 0.00 3.72
2756 5266 1.472480 GCTTTGGGCGACATTACACAT 59.528 47.619 0.00 0.00 0.00 3.21
2757 5267 2.731968 GCTTTGGGCGACATTACACATG 60.732 50.000 0.00 0.00 0.00 3.21
2758 5268 2.481289 TTGGGCGACATTACACATGA 57.519 45.000 0.00 0.00 0.00 3.07
2759 5269 1.732941 TGGGCGACATTACACATGAC 58.267 50.000 0.00 0.00 0.00 3.06
2760 5270 1.277842 TGGGCGACATTACACATGACT 59.722 47.619 0.00 0.00 0.00 3.41
2761 5271 2.498078 TGGGCGACATTACACATGACTA 59.502 45.455 0.00 0.00 0.00 2.59
2762 5272 3.055747 TGGGCGACATTACACATGACTAA 60.056 43.478 0.00 0.00 0.00 2.24
2763 5273 4.127171 GGGCGACATTACACATGACTAAT 58.873 43.478 0.00 0.00 0.00 1.73
2764 5274 4.574828 GGGCGACATTACACATGACTAATT 59.425 41.667 0.00 0.00 0.00 1.40
2765 5275 5.501715 GGCGACATTACACATGACTAATTG 58.498 41.667 0.00 0.00 0.00 2.32
2766 5276 5.293324 GGCGACATTACACATGACTAATTGA 59.707 40.000 0.00 0.00 0.00 2.57
2767 5277 6.185399 GCGACATTACACATGACTAATTGAC 58.815 40.000 0.00 0.00 0.00 3.18
2768 5278 6.183360 GCGACATTACACATGACTAATTGACA 60.183 38.462 0.00 0.00 0.00 3.58
2769 5279 7.465916 GCGACATTACACATGACTAATTGACAT 60.466 37.037 0.00 0.00 0.00 3.06
2771 5281 8.791327 ACATTACACATGACTAATTGACATGA 57.209 30.769 20.06 5.97 46.51 3.07
2772 5282 8.886719 ACATTACACATGACTAATTGACATGAG 58.113 33.333 20.06 16.34 46.51 2.90
2773 5283 9.101655 CATTACACATGACTAATTGACATGAGA 57.898 33.333 20.06 8.28 46.51 3.27
2774 5284 9.671279 ATTACACATGACTAATTGACATGAGAA 57.329 29.630 20.06 13.51 46.51 2.87
2775 5285 7.984422 ACACATGACTAATTGACATGAGAAA 57.016 32.000 20.06 0.00 46.51 2.52
2776 5286 8.394971 ACACATGACTAATTGACATGAGAAAA 57.605 30.769 20.06 0.00 46.51 2.29
2777 5287 9.017509 ACACATGACTAATTGACATGAGAAAAT 57.982 29.630 20.06 0.00 46.51 1.82
2782 5292 9.605275 TGACTAATTGACATGAGAAAATAGAGG 57.395 33.333 0.00 0.00 0.00 3.69
2783 5293 9.823647 GACTAATTGACATGAGAAAATAGAGGA 57.176 33.333 0.00 0.00 0.00 3.71
2784 5294 9.829507 ACTAATTGACATGAGAAAATAGAGGAG 57.170 33.333 0.00 0.00 0.00 3.69
2785 5295 7.565323 AATTGACATGAGAAAATAGAGGAGC 57.435 36.000 0.00 0.00 0.00 4.70
2786 5296 5.946942 TGACATGAGAAAATAGAGGAGCT 57.053 39.130 0.00 0.00 0.00 4.09
2787 5297 6.305272 TGACATGAGAAAATAGAGGAGCTT 57.695 37.500 0.00 0.00 0.00 3.74
2788 5298 6.111382 TGACATGAGAAAATAGAGGAGCTTG 58.889 40.000 0.00 0.00 0.00 4.01
2789 5299 4.880696 ACATGAGAAAATAGAGGAGCTTGC 59.119 41.667 0.00 0.00 0.00 4.01
2790 5300 3.525537 TGAGAAAATAGAGGAGCTTGCG 58.474 45.455 0.00 0.00 0.00 4.85
2791 5301 3.055819 TGAGAAAATAGAGGAGCTTGCGT 60.056 43.478 0.00 0.00 0.00 5.24
2792 5302 3.265791 AGAAAATAGAGGAGCTTGCGTG 58.734 45.455 0.00 0.00 0.00 5.34
2793 5303 3.055819 AGAAAATAGAGGAGCTTGCGTGA 60.056 43.478 0.00 0.00 0.00 4.35
2794 5304 3.550437 AAATAGAGGAGCTTGCGTGAT 57.450 42.857 0.00 0.00 0.00 3.06
2795 5305 4.672587 AAATAGAGGAGCTTGCGTGATA 57.327 40.909 0.00 0.00 0.00 2.15
2796 5306 4.881019 AATAGAGGAGCTTGCGTGATAT 57.119 40.909 0.00 0.00 0.00 1.63
2797 5307 5.984695 AATAGAGGAGCTTGCGTGATATA 57.015 39.130 0.00 0.00 0.00 0.86
2798 5308 5.984695 ATAGAGGAGCTTGCGTGATATAA 57.015 39.130 0.00 0.00 0.00 0.98
2799 5309 4.250116 AGAGGAGCTTGCGTGATATAAG 57.750 45.455 0.00 0.00 0.00 1.73
2800 5310 3.006323 AGAGGAGCTTGCGTGATATAAGG 59.994 47.826 0.00 0.00 0.00 2.69
2801 5311 2.965831 AGGAGCTTGCGTGATATAAGGA 59.034 45.455 0.00 0.00 0.00 3.36
2802 5312 3.388024 AGGAGCTTGCGTGATATAAGGAA 59.612 43.478 0.00 0.00 0.00 3.36
2803 5313 4.127171 GGAGCTTGCGTGATATAAGGAAA 58.873 43.478 0.00 0.00 0.00 3.13
2804 5314 4.757149 GGAGCTTGCGTGATATAAGGAAAT 59.243 41.667 0.00 0.00 0.00 2.17
2805 5315 5.334414 GGAGCTTGCGTGATATAAGGAAATG 60.334 44.000 0.00 0.00 0.00 2.32
2806 5316 5.126067 AGCTTGCGTGATATAAGGAAATGT 58.874 37.500 0.00 0.00 0.00 2.71
2807 5317 6.288294 AGCTTGCGTGATATAAGGAAATGTA 58.712 36.000 0.00 0.00 0.00 2.29
2808 5318 6.765989 AGCTTGCGTGATATAAGGAAATGTAA 59.234 34.615 0.00 0.00 0.00 2.41
2809 5319 7.282224 AGCTTGCGTGATATAAGGAAATGTAAA 59.718 33.333 0.00 0.00 0.00 2.01
2810 5320 7.376072 GCTTGCGTGATATAAGGAAATGTAAAC 59.624 37.037 0.00 0.00 0.00 2.01
2811 5321 7.851387 TGCGTGATATAAGGAAATGTAAACA 57.149 32.000 0.00 0.00 0.00 2.83
2812 5322 8.270080 TGCGTGATATAAGGAAATGTAAACAA 57.730 30.769 0.00 0.00 0.00 2.83
2813 5323 8.731605 TGCGTGATATAAGGAAATGTAAACAAA 58.268 29.630 0.00 0.00 0.00 2.83
2814 5324 9.730420 GCGTGATATAAGGAAATGTAAACAAAT 57.270 29.630 0.00 0.00 0.00 2.32
2820 5330 8.893563 ATAAGGAAATGTAAACAAATCCCTCA 57.106 30.769 11.73 2.01 36.12 3.86
2821 5331 7.610580 AAGGAAATGTAAACAAATCCCTCAA 57.389 32.000 11.73 0.00 36.12 3.02
2822 5332 7.610580 AGGAAATGTAAACAAATCCCTCAAA 57.389 32.000 11.73 0.00 36.12 2.69
2823 5333 8.028652 AGGAAATGTAAACAAATCCCTCAAAA 57.971 30.769 11.73 0.00 36.12 2.44
2824 5334 8.490311 AGGAAATGTAAACAAATCCCTCAAAAA 58.510 29.630 11.73 0.00 36.12 1.94
2825 5335 9.283768 GGAAATGTAAACAAATCCCTCAAAAAT 57.716 29.630 6.36 0.00 32.00 1.82
2833 5343 9.859152 AAACAAATCCCTCAAAAATTTATCCAA 57.141 25.926 0.00 0.00 0.00 3.53
2834 5344 9.859152 AACAAATCCCTCAAAAATTTATCCAAA 57.141 25.926 0.00 0.00 0.00 3.28
2835 5345 9.283768 ACAAATCCCTCAAAAATTTATCCAAAC 57.716 29.630 0.00 0.00 0.00 2.93
2836 5346 8.442384 CAAATCCCTCAAAAATTTATCCAAACG 58.558 33.333 0.00 0.00 0.00 3.60
2837 5347 6.902771 TCCCTCAAAAATTTATCCAAACGA 57.097 33.333 0.00 0.00 0.00 3.85
2838 5348 6.919721 TCCCTCAAAAATTTATCCAAACGAG 58.080 36.000 0.00 0.00 0.00 4.18
2839 5349 6.492087 TCCCTCAAAAATTTATCCAAACGAGT 59.508 34.615 0.00 0.00 0.00 4.18
2840 5350 6.586082 CCCTCAAAAATTTATCCAAACGAGTG 59.414 38.462 0.00 0.00 0.00 3.51
2841 5351 6.586082 CCTCAAAAATTTATCCAAACGAGTGG 59.414 38.462 0.00 0.00 40.33 4.00
2842 5352 7.045126 TCAAAAATTTATCCAAACGAGTGGT 57.955 32.000 8.62 0.98 39.88 4.16
2843 5353 6.920758 TCAAAAATTTATCCAAACGAGTGGTG 59.079 34.615 8.62 0.00 39.88 4.17
2844 5354 4.434713 AATTTATCCAAACGAGTGGTGC 57.565 40.909 8.62 0.00 39.88 5.01
2845 5355 2.552599 TTATCCAAACGAGTGGTGCA 57.447 45.000 8.62 0.00 39.88 4.57
2846 5356 2.093306 TATCCAAACGAGTGGTGCAG 57.907 50.000 8.62 0.00 39.88 4.41
2847 5357 0.108585 ATCCAAACGAGTGGTGCAGT 59.891 50.000 8.62 0.00 39.88 4.40
2848 5358 0.813610 TCCAAACGAGTGGTGCAGTG 60.814 55.000 8.62 0.00 39.88 3.66
2849 5359 1.009675 CAAACGAGTGGTGCAGTGC 60.010 57.895 8.58 8.58 0.00 4.40
2850 5360 1.451207 AAACGAGTGGTGCAGTGCA 60.451 52.632 15.37 15.37 35.60 4.57
2851 5361 1.029408 AAACGAGTGGTGCAGTGCAA 61.029 50.000 21.67 1.42 41.47 4.08
2852 5362 0.819259 AACGAGTGGTGCAGTGCAAT 60.819 50.000 21.67 6.22 41.47 3.56
2853 5363 0.034756 ACGAGTGGTGCAGTGCAATA 59.965 50.000 21.67 9.06 41.47 1.90
2854 5364 0.443869 CGAGTGGTGCAGTGCAATAC 59.556 55.000 21.67 20.55 41.47 1.89
2855 5365 1.522668 GAGTGGTGCAGTGCAATACA 58.477 50.000 21.67 16.31 41.47 2.29
2869 5379 6.854496 GTGCAATACACCTTATATTTCGGA 57.146 37.500 0.00 0.00 44.02 4.55
2870 5380 7.254227 GTGCAATACACCTTATATTTCGGAA 57.746 36.000 0.00 0.00 44.02 4.30
2871 5381 7.871853 GTGCAATACACCTTATATTTCGGAAT 58.128 34.615 0.00 0.00 44.02 3.01
2872 5382 8.349983 GTGCAATACACCTTATATTTCGGAATT 58.650 33.333 0.00 0.00 44.02 2.17
2873 5383 8.908903 TGCAATACACCTTATATTTCGGAATTT 58.091 29.630 0.00 0.00 0.00 1.82
2874 5384 9.744468 GCAATACACCTTATATTTCGGAATTTT 57.256 29.630 0.00 0.00 0.00 1.82
2879 5389 9.238368 ACACCTTATATTTCGGAATTTTTCTCA 57.762 29.630 0.00 0.00 0.00 3.27
2909 5419 8.118976 TCTATACACCTTATATCAAGGAACGG 57.881 38.462 9.96 0.05 39.81 4.44
2910 5420 6.989155 ATACACCTTATATCAAGGAACGGA 57.011 37.500 9.96 0.00 39.81 4.69
2911 5421 5.277857 ACACCTTATATCAAGGAACGGAG 57.722 43.478 9.96 0.00 39.81 4.63
2912 5422 4.101119 ACACCTTATATCAAGGAACGGAGG 59.899 45.833 9.96 0.00 39.81 4.30
2913 5423 3.646637 ACCTTATATCAAGGAACGGAGGG 59.353 47.826 9.96 0.00 39.81 4.30
2914 5424 3.901844 CCTTATATCAAGGAACGGAGGGA 59.098 47.826 0.00 0.00 39.81 4.20
2915 5425 4.021016 CCTTATATCAAGGAACGGAGGGAG 60.021 50.000 0.00 0.00 39.81 4.30
3007 5517 7.361799 GGTTTGGTGTAAACTACAAGGATGATC 60.362 40.741 0.00 0.00 46.26 2.92
3035 5545 1.444119 TTCGCTGCAAGGTTGGTGTC 61.444 55.000 0.00 0.00 0.00 3.67
3083 6132 1.872952 CGTTTGCTGTGTGGAGATGAA 59.127 47.619 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 8.542953 CGATGAATTAGACATGAAAGATCGAAA 58.457 33.333 0.00 0.00 0.00 3.46
15 16 8.998377 TGAAGAAAAACGATGAATTAGACATGA 58.002 29.630 0.00 0.00 0.00 3.07
415 434 2.825086 ACAAAAATCCATAGCGACGC 57.175 45.000 13.03 13.03 0.00 5.19
417 436 4.201920 GGAGGAACAAAAATCCATAGCGAC 60.202 45.833 0.00 0.00 39.55 5.19
519 539 1.078918 TCCATCAGAAGCAGCACCG 60.079 57.895 0.00 0.00 0.00 4.94
661 681 2.606213 TGGCACATCGTCTGGGGA 60.606 61.111 0.00 0.00 0.00 4.81
875 954 3.302699 GCGACTAAAATCACGGTACTGTC 59.697 47.826 3.76 0.00 0.00 3.51
1005 1085 0.894184 TGAAGAGGAACGTCTCGGCT 60.894 55.000 0.00 0.00 38.71 5.52
1329 1413 4.454948 CGCTTGGTGAAGTGTCCA 57.545 55.556 0.00 0.00 35.33 4.02
1464 1548 2.115291 GCCATTCTTGCGGACCTCC 61.115 63.158 0.00 0.00 0.00 4.30
1692 1776 0.107831 CAGACGGGTTCAGGTGGAAA 59.892 55.000 0.00 0.00 37.23 3.13
2097 2181 2.161855 CCAAAGTGACCATAAGCAGCA 58.838 47.619 0.00 0.00 0.00 4.41
2516 2642 4.519540 ATGACAAAATTTGGGGAGAACG 57.480 40.909 10.71 0.00 34.12 3.95
2671 5181 8.909923 GTGCCAAAAACTATACACCCTATATTT 58.090 33.333 0.00 0.00 0.00 1.40
2672 5182 7.227910 CGTGCCAAAAACTATACACCCTATATT 59.772 37.037 0.00 0.00 0.00 1.28
2673 5183 6.708949 CGTGCCAAAAACTATACACCCTATAT 59.291 38.462 0.00 0.00 0.00 0.86
2674 5184 6.050432 CGTGCCAAAAACTATACACCCTATA 58.950 40.000 0.00 0.00 0.00 1.31
2675 5185 4.879545 CGTGCCAAAAACTATACACCCTAT 59.120 41.667 0.00 0.00 0.00 2.57
2676 5186 4.255301 CGTGCCAAAAACTATACACCCTA 58.745 43.478 0.00 0.00 0.00 3.53
2677 5187 3.078837 CGTGCCAAAAACTATACACCCT 58.921 45.455 0.00 0.00 0.00 4.34
2678 5188 2.162809 CCGTGCCAAAAACTATACACCC 59.837 50.000 0.00 0.00 0.00 4.61
2679 5189 3.075884 TCCGTGCCAAAAACTATACACC 58.924 45.455 0.00 0.00 0.00 4.16
2680 5190 4.752661 TTCCGTGCCAAAAACTATACAC 57.247 40.909 0.00 0.00 0.00 2.90
2681 5191 5.968528 ATTTCCGTGCCAAAAACTATACA 57.031 34.783 0.00 0.00 0.00 2.29
2682 5192 8.745464 TTTAATTTCCGTGCCAAAAACTATAC 57.255 30.769 0.00 0.00 0.00 1.47
2683 5193 8.794553 TCTTTAATTTCCGTGCCAAAAACTATA 58.205 29.630 0.00 0.00 0.00 1.31
2684 5194 7.662897 TCTTTAATTTCCGTGCCAAAAACTAT 58.337 30.769 0.00 0.00 0.00 2.12
2685 5195 7.040473 TCTTTAATTTCCGTGCCAAAAACTA 57.960 32.000 0.00 0.00 0.00 2.24
2686 5196 5.908341 TCTTTAATTTCCGTGCCAAAAACT 58.092 33.333 0.00 0.00 0.00 2.66
2687 5197 6.036191 TGTTCTTTAATTTCCGTGCCAAAAAC 59.964 34.615 0.00 0.00 0.00 2.43
2688 5198 6.036191 GTGTTCTTTAATTTCCGTGCCAAAAA 59.964 34.615 0.00 0.00 0.00 1.94
2689 5199 5.520649 GTGTTCTTTAATTTCCGTGCCAAAA 59.479 36.000 0.00 0.00 0.00 2.44
2690 5200 5.044558 GTGTTCTTTAATTTCCGTGCCAAA 58.955 37.500 0.00 0.00 0.00 3.28
2691 5201 4.098044 TGTGTTCTTTAATTTCCGTGCCAA 59.902 37.500 0.00 0.00 0.00 4.52
2692 5202 3.632604 TGTGTTCTTTAATTTCCGTGCCA 59.367 39.130 0.00 0.00 0.00 4.92
2693 5203 4.231718 TGTGTTCTTTAATTTCCGTGCC 57.768 40.909 0.00 0.00 0.00 5.01
2694 5204 6.472163 CCATATGTGTTCTTTAATTTCCGTGC 59.528 38.462 1.24 0.00 0.00 5.34
2695 5205 7.757526 TCCATATGTGTTCTTTAATTTCCGTG 58.242 34.615 1.24 0.00 0.00 4.94
2696 5206 7.067008 CCTCCATATGTGTTCTTTAATTTCCGT 59.933 37.037 1.24 0.00 0.00 4.69
2697 5207 7.417612 CCTCCATATGTGTTCTTTAATTTCCG 58.582 38.462 1.24 0.00 0.00 4.30
2698 5208 7.559897 TCCCTCCATATGTGTTCTTTAATTTCC 59.440 37.037 1.24 0.00 0.00 3.13
2699 5209 8.519799 TCCCTCCATATGTGTTCTTTAATTTC 57.480 34.615 1.24 0.00 0.00 2.17
2700 5210 8.893563 TTCCCTCCATATGTGTTCTTTAATTT 57.106 30.769 1.24 0.00 0.00 1.82
2701 5211 8.893563 TTTCCCTCCATATGTGTTCTTTAATT 57.106 30.769 1.24 0.00 0.00 1.40
2702 5212 8.893563 TTTTCCCTCCATATGTGTTCTTTAAT 57.106 30.769 1.24 0.00 0.00 1.40
2703 5213 8.893563 ATTTTCCCTCCATATGTGTTCTTTAA 57.106 30.769 1.24 0.00 0.00 1.52
2704 5214 8.893563 AATTTTCCCTCCATATGTGTTCTTTA 57.106 30.769 1.24 0.00 0.00 1.85
2705 5215 7.797121 AATTTTCCCTCCATATGTGTTCTTT 57.203 32.000 1.24 0.00 0.00 2.52
2706 5216 7.454380 TGAAATTTTCCCTCCATATGTGTTCTT 59.546 33.333 6.68 0.00 0.00 2.52
2707 5217 6.953520 TGAAATTTTCCCTCCATATGTGTTCT 59.046 34.615 6.68 0.00 0.00 3.01
2708 5218 7.035612 GTGAAATTTTCCCTCCATATGTGTTC 58.964 38.462 6.68 0.00 0.00 3.18
2709 5219 6.496565 TGTGAAATTTTCCCTCCATATGTGTT 59.503 34.615 6.68 0.00 0.00 3.32
2710 5220 6.015918 TGTGAAATTTTCCCTCCATATGTGT 58.984 36.000 6.68 0.00 0.00 3.72
2711 5221 6.528537 TGTGAAATTTTCCCTCCATATGTG 57.471 37.500 6.68 0.00 0.00 3.21
2712 5222 6.351286 GCTTGTGAAATTTTCCCTCCATATGT 60.351 38.462 6.68 0.00 0.00 2.29
2713 5223 6.044682 GCTTGTGAAATTTTCCCTCCATATG 58.955 40.000 6.68 0.00 0.00 1.78
2714 5224 5.960202 AGCTTGTGAAATTTTCCCTCCATAT 59.040 36.000 6.68 0.00 0.00 1.78
2715 5225 5.332743 AGCTTGTGAAATTTTCCCTCCATA 58.667 37.500 6.68 0.00 0.00 2.74
2716 5226 4.162651 AGCTTGTGAAATTTTCCCTCCAT 58.837 39.130 6.68 0.00 0.00 3.41
2717 5227 3.575805 AGCTTGTGAAATTTTCCCTCCA 58.424 40.909 6.68 0.00 0.00 3.86
2718 5228 4.607293 AAGCTTGTGAAATTTTCCCTCC 57.393 40.909 0.00 0.00 0.00 4.30
2719 5229 4.751600 CCAAAGCTTGTGAAATTTTCCCTC 59.248 41.667 0.00 0.00 0.00 4.30
2720 5230 4.444733 CCCAAAGCTTGTGAAATTTTCCCT 60.445 41.667 0.00 0.00 0.00 4.20
2721 5231 3.814842 CCCAAAGCTTGTGAAATTTTCCC 59.185 43.478 0.00 0.00 0.00 3.97
2722 5232 3.250762 GCCCAAAGCTTGTGAAATTTTCC 59.749 43.478 0.00 0.00 38.99 3.13
2723 5233 3.059665 CGCCCAAAGCTTGTGAAATTTTC 60.060 43.478 0.00 2.05 40.39 2.29
2724 5234 2.871633 CGCCCAAAGCTTGTGAAATTTT 59.128 40.909 0.00 0.00 40.39 1.82
2725 5235 2.102252 TCGCCCAAAGCTTGTGAAATTT 59.898 40.909 0.00 0.00 40.39 1.82
2726 5236 1.686052 TCGCCCAAAGCTTGTGAAATT 59.314 42.857 0.00 0.00 40.39 1.82
2727 5237 1.000274 GTCGCCCAAAGCTTGTGAAAT 60.000 47.619 0.00 0.00 40.39 2.17
2728 5238 0.383949 GTCGCCCAAAGCTTGTGAAA 59.616 50.000 0.00 0.00 40.39 2.69
2729 5239 0.749818 TGTCGCCCAAAGCTTGTGAA 60.750 50.000 0.00 0.00 40.39 3.18
2730 5240 0.537143 ATGTCGCCCAAAGCTTGTGA 60.537 50.000 0.00 0.00 40.39 3.58
2731 5241 0.314935 AATGTCGCCCAAAGCTTGTG 59.685 50.000 0.00 0.45 40.39 3.33
2732 5242 1.539827 GTAATGTCGCCCAAAGCTTGT 59.460 47.619 0.00 0.00 40.39 3.16
2733 5243 1.539388 TGTAATGTCGCCCAAAGCTTG 59.461 47.619 0.00 0.00 40.39 4.01
2734 5244 1.539827 GTGTAATGTCGCCCAAAGCTT 59.460 47.619 0.00 0.00 40.39 3.74
2735 5245 1.165270 GTGTAATGTCGCCCAAAGCT 58.835 50.000 0.00 0.00 40.39 3.74
2736 5246 0.878416 TGTGTAATGTCGCCCAAAGC 59.122 50.000 0.00 0.00 38.52 3.51
2737 5247 2.746904 TCATGTGTAATGTCGCCCAAAG 59.253 45.455 0.00 0.00 0.00 2.77
2738 5248 2.486203 GTCATGTGTAATGTCGCCCAAA 59.514 45.455 0.00 0.00 0.00 3.28
2739 5249 2.080693 GTCATGTGTAATGTCGCCCAA 58.919 47.619 0.00 0.00 0.00 4.12
2740 5250 1.277842 AGTCATGTGTAATGTCGCCCA 59.722 47.619 0.00 0.00 0.00 5.36
2741 5251 2.024176 AGTCATGTGTAATGTCGCCC 57.976 50.000 0.00 0.00 0.00 6.13
2742 5252 5.293324 TCAATTAGTCATGTGTAATGTCGCC 59.707 40.000 0.00 0.00 0.00 5.54
2743 5253 6.183360 TGTCAATTAGTCATGTGTAATGTCGC 60.183 38.462 0.00 0.00 0.00 5.19
2744 5254 7.289587 TGTCAATTAGTCATGTGTAATGTCG 57.710 36.000 0.00 0.00 0.00 4.35
2745 5255 8.882736 TCATGTCAATTAGTCATGTGTAATGTC 58.117 33.333 12.87 0.00 42.18 3.06
2746 5256 8.791327 TCATGTCAATTAGTCATGTGTAATGT 57.209 30.769 12.87 0.00 42.18 2.71
2747 5257 9.101655 TCTCATGTCAATTAGTCATGTGTAATG 57.898 33.333 12.87 0.00 42.18 1.90
2748 5258 9.671279 TTCTCATGTCAATTAGTCATGTGTAAT 57.329 29.630 12.87 0.00 42.18 1.89
2749 5259 9.500785 TTTCTCATGTCAATTAGTCATGTGTAA 57.499 29.630 12.87 9.55 42.18 2.41
2750 5260 9.500785 TTTTCTCATGTCAATTAGTCATGTGTA 57.499 29.630 12.87 5.78 42.18 2.90
2751 5261 7.984422 TTTCTCATGTCAATTAGTCATGTGT 57.016 32.000 12.87 0.00 42.18 3.72
2756 5266 9.605275 CCTCTATTTTCTCATGTCAATTAGTCA 57.395 33.333 0.00 0.00 0.00 3.41
2757 5267 9.823647 TCCTCTATTTTCTCATGTCAATTAGTC 57.176 33.333 0.00 0.00 0.00 2.59
2758 5268 9.829507 CTCCTCTATTTTCTCATGTCAATTAGT 57.170 33.333 0.00 0.00 0.00 2.24
2759 5269 8.772705 GCTCCTCTATTTTCTCATGTCAATTAG 58.227 37.037 0.00 0.00 0.00 1.73
2760 5270 8.489489 AGCTCCTCTATTTTCTCATGTCAATTA 58.511 33.333 0.00 0.00 0.00 1.40
2761 5271 7.344913 AGCTCCTCTATTTTCTCATGTCAATT 58.655 34.615 0.00 0.00 0.00 2.32
2762 5272 6.897986 AGCTCCTCTATTTTCTCATGTCAAT 58.102 36.000 0.00 0.00 0.00 2.57
2763 5273 6.305272 AGCTCCTCTATTTTCTCATGTCAA 57.695 37.500 0.00 0.00 0.00 3.18
2764 5274 5.946942 AGCTCCTCTATTTTCTCATGTCA 57.053 39.130 0.00 0.00 0.00 3.58
2765 5275 5.007528 GCAAGCTCCTCTATTTTCTCATGTC 59.992 44.000 0.00 0.00 0.00 3.06
2766 5276 4.880696 GCAAGCTCCTCTATTTTCTCATGT 59.119 41.667 0.00 0.00 0.00 3.21
2767 5277 4.025061 CGCAAGCTCCTCTATTTTCTCATG 60.025 45.833 0.00 0.00 0.00 3.07
2768 5278 4.125703 CGCAAGCTCCTCTATTTTCTCAT 58.874 43.478 0.00 0.00 0.00 2.90
2769 5279 3.055819 ACGCAAGCTCCTCTATTTTCTCA 60.056 43.478 0.00 0.00 45.62 3.27
2770 5280 3.308323 CACGCAAGCTCCTCTATTTTCTC 59.692 47.826 0.00 0.00 45.62 2.87
2771 5281 3.055819 TCACGCAAGCTCCTCTATTTTCT 60.056 43.478 0.00 0.00 45.62 2.52
2772 5282 3.262420 TCACGCAAGCTCCTCTATTTTC 58.738 45.455 0.00 0.00 45.62 2.29
2773 5283 3.334583 TCACGCAAGCTCCTCTATTTT 57.665 42.857 0.00 0.00 45.62 1.82
2774 5284 3.550437 ATCACGCAAGCTCCTCTATTT 57.450 42.857 0.00 0.00 45.62 1.40
2775 5285 4.881019 ATATCACGCAAGCTCCTCTATT 57.119 40.909 0.00 0.00 45.62 1.73
2776 5286 5.105554 CCTTATATCACGCAAGCTCCTCTAT 60.106 44.000 0.00 0.00 45.62 1.98
2777 5287 4.218635 CCTTATATCACGCAAGCTCCTCTA 59.781 45.833 0.00 0.00 45.62 2.43
2778 5288 3.006323 CCTTATATCACGCAAGCTCCTCT 59.994 47.826 0.00 0.00 45.62 3.69
2779 5289 3.005897 TCCTTATATCACGCAAGCTCCTC 59.994 47.826 0.00 0.00 45.62 3.71
2780 5290 2.965831 TCCTTATATCACGCAAGCTCCT 59.034 45.455 0.00 0.00 45.62 3.69
2781 5291 3.386768 TCCTTATATCACGCAAGCTCC 57.613 47.619 0.00 0.00 45.62 4.70
2782 5292 5.237344 ACATTTCCTTATATCACGCAAGCTC 59.763 40.000 0.00 0.00 45.62 4.09
2783 5293 5.126067 ACATTTCCTTATATCACGCAAGCT 58.874 37.500 0.00 0.00 45.62 3.74
2784 5294 5.424121 ACATTTCCTTATATCACGCAAGC 57.576 39.130 0.00 0.00 45.62 4.01
2786 5296 8.270080 TGTTTACATTTCCTTATATCACGCAA 57.730 30.769 0.00 0.00 0.00 4.85
2787 5297 7.851387 TGTTTACATTTCCTTATATCACGCA 57.149 32.000 0.00 0.00 0.00 5.24
2788 5298 9.730420 ATTTGTTTACATTTCCTTATATCACGC 57.270 29.630 0.00 0.00 0.00 5.34
2794 5304 9.983024 TGAGGGATTTGTTTACATTTCCTTATA 57.017 29.630 9.91 0.00 31.61 0.98
2795 5305 8.893563 TGAGGGATTTGTTTACATTTCCTTAT 57.106 30.769 9.91 0.92 31.61 1.73
2796 5306 8.713708 TTGAGGGATTTGTTTACATTTCCTTA 57.286 30.769 9.91 0.00 31.61 2.69
2797 5307 7.610580 TTGAGGGATTTGTTTACATTTCCTT 57.389 32.000 9.91 4.57 31.61 3.36
2798 5308 7.610580 TTTGAGGGATTTGTTTACATTTCCT 57.389 32.000 9.91 3.34 31.61 3.36
2799 5309 8.669946 TTTTTGAGGGATTTGTTTACATTTCC 57.330 30.769 4.02 4.02 0.00 3.13
2807 5317 9.859152 TTGGATAAATTTTTGAGGGATTTGTTT 57.141 25.926 0.00 0.00 0.00 2.83
2808 5318 9.859152 TTTGGATAAATTTTTGAGGGATTTGTT 57.141 25.926 0.00 0.00 0.00 2.83
2809 5319 9.283768 GTTTGGATAAATTTTTGAGGGATTTGT 57.716 29.630 0.00 0.00 0.00 2.83
2810 5320 8.442384 CGTTTGGATAAATTTTTGAGGGATTTG 58.558 33.333 0.00 0.00 0.00 2.32
2811 5321 8.371699 TCGTTTGGATAAATTTTTGAGGGATTT 58.628 29.630 0.00 0.00 0.00 2.17
2812 5322 7.902087 TCGTTTGGATAAATTTTTGAGGGATT 58.098 30.769 0.00 0.00 0.00 3.01
2813 5323 7.178451 ACTCGTTTGGATAAATTTTTGAGGGAT 59.822 33.333 0.00 0.00 0.00 3.85
2814 5324 6.492087 ACTCGTTTGGATAAATTTTTGAGGGA 59.508 34.615 0.00 0.00 0.00 4.20
2815 5325 6.586082 CACTCGTTTGGATAAATTTTTGAGGG 59.414 38.462 0.00 0.00 0.00 4.30
2816 5326 6.586082 CCACTCGTTTGGATAAATTTTTGAGG 59.414 38.462 0.00 0.00 39.24 3.86
2817 5327 7.114811 CACCACTCGTTTGGATAAATTTTTGAG 59.885 37.037 11.38 0.00 39.24 3.02
2818 5328 6.920758 CACCACTCGTTTGGATAAATTTTTGA 59.079 34.615 11.38 0.00 39.24 2.69
2819 5329 6.346518 GCACCACTCGTTTGGATAAATTTTTG 60.347 38.462 11.38 0.00 39.24 2.44
2820 5330 5.694458 GCACCACTCGTTTGGATAAATTTTT 59.306 36.000 11.38 0.00 39.24 1.94
2821 5331 5.221342 TGCACCACTCGTTTGGATAAATTTT 60.221 36.000 11.38 0.00 39.24 1.82
2822 5332 4.279671 TGCACCACTCGTTTGGATAAATTT 59.720 37.500 11.38 0.00 39.24 1.82
2823 5333 3.823873 TGCACCACTCGTTTGGATAAATT 59.176 39.130 11.38 0.00 39.24 1.82
2824 5334 3.417101 TGCACCACTCGTTTGGATAAAT 58.583 40.909 11.38 0.00 39.24 1.40
2825 5335 2.811431 CTGCACCACTCGTTTGGATAAA 59.189 45.455 11.38 0.00 39.24 1.40
2826 5336 2.224426 ACTGCACCACTCGTTTGGATAA 60.224 45.455 11.38 0.00 39.24 1.75
2827 5337 1.346395 ACTGCACCACTCGTTTGGATA 59.654 47.619 11.38 0.00 39.24 2.59
2828 5338 0.108585 ACTGCACCACTCGTTTGGAT 59.891 50.000 11.38 0.00 39.24 3.41
2829 5339 0.813610 CACTGCACCACTCGTTTGGA 60.814 55.000 11.38 0.00 39.24 3.53
2830 5340 1.648720 CACTGCACCACTCGTTTGG 59.351 57.895 3.82 3.82 43.04 3.28
2831 5341 1.009675 GCACTGCACCACTCGTTTG 60.010 57.895 0.00 0.00 0.00 2.93
2832 5342 1.029408 TTGCACTGCACCACTCGTTT 61.029 50.000 2.26 0.00 38.71 3.60
2833 5343 0.819259 ATTGCACTGCACCACTCGTT 60.819 50.000 2.26 0.00 38.71 3.85
2834 5344 0.034756 TATTGCACTGCACCACTCGT 59.965 50.000 2.26 0.00 38.71 4.18
2835 5345 0.443869 GTATTGCACTGCACCACTCG 59.556 55.000 2.26 0.00 38.71 4.18
2836 5346 1.197721 GTGTATTGCACTGCACCACTC 59.802 52.381 13.23 2.25 44.41 3.51
2837 5347 1.238439 GTGTATTGCACTGCACCACT 58.762 50.000 13.23 0.00 44.41 4.00
2838 5348 3.773117 GTGTATTGCACTGCACCAC 57.227 52.632 13.23 7.47 44.41 4.16
2841 5351 6.377327 AATATAAGGTGTATTGCACTGCAC 57.623 37.500 15.43 15.43 46.86 4.57
2842 5352 6.238347 CGAAATATAAGGTGTATTGCACTGCA 60.238 38.462 0.00 0.00 46.86 4.41
2843 5353 6.136071 CGAAATATAAGGTGTATTGCACTGC 58.864 40.000 4.86 0.00 46.86 4.40
2844 5354 6.481976 TCCGAAATATAAGGTGTATTGCACTG 59.518 38.462 4.86 0.00 46.86 3.66
2845 5355 6.588204 TCCGAAATATAAGGTGTATTGCACT 58.412 36.000 4.86 0.00 46.86 4.40
2846 5356 6.854496 TCCGAAATATAAGGTGTATTGCAC 57.146 37.500 0.00 0.00 46.97 4.57
2847 5357 8.458573 AATTCCGAAATATAAGGTGTATTGCA 57.541 30.769 0.00 0.00 0.00 4.08
2848 5358 9.744468 AAAATTCCGAAATATAAGGTGTATTGC 57.256 29.630 0.00 0.00 0.00 3.56
2853 5363 9.238368 TGAGAAAAATTCCGAAATATAAGGTGT 57.762 29.630 0.00 0.00 0.00 4.16
2883 5393 8.750298 CCGTTCCTTGATATAAGGTGTATAGAT 58.250 37.037 5.67 0.00 38.55 1.98
2884 5394 7.946219 TCCGTTCCTTGATATAAGGTGTATAGA 59.054 37.037 5.67 0.00 38.55 1.98
2885 5395 8.118976 TCCGTTCCTTGATATAAGGTGTATAG 57.881 38.462 5.67 0.00 38.55 1.31
2886 5396 7.177921 CCTCCGTTCCTTGATATAAGGTGTATA 59.822 40.741 5.67 0.00 38.55 1.47
2887 5397 6.014499 CCTCCGTTCCTTGATATAAGGTGTAT 60.014 42.308 5.67 0.00 38.55 2.29
2888 5398 5.303589 CCTCCGTTCCTTGATATAAGGTGTA 59.696 44.000 5.67 0.00 38.55 2.90
2889 5399 4.101119 CCTCCGTTCCTTGATATAAGGTGT 59.899 45.833 5.67 0.00 38.55 4.16
2890 5400 4.503296 CCCTCCGTTCCTTGATATAAGGTG 60.503 50.000 5.67 0.00 38.55 4.00
2891 5401 3.646637 CCCTCCGTTCCTTGATATAAGGT 59.353 47.826 5.67 0.00 38.55 3.50
2892 5402 3.901844 TCCCTCCGTTCCTTGATATAAGG 59.098 47.826 0.00 0.00 38.78 2.69
2893 5403 4.589374 ACTCCCTCCGTTCCTTGATATAAG 59.411 45.833 0.00 0.00 0.00 1.73
2894 5404 4.553678 ACTCCCTCCGTTCCTTGATATAA 58.446 43.478 0.00 0.00 0.00 0.98
2895 5405 4.194678 ACTCCCTCCGTTCCTTGATATA 57.805 45.455 0.00 0.00 0.00 0.86
2896 5406 3.047695 ACTCCCTCCGTTCCTTGATAT 57.952 47.619 0.00 0.00 0.00 1.63
2897 5407 2.544844 ACTCCCTCCGTTCCTTGATA 57.455 50.000 0.00 0.00 0.00 2.15
2898 5408 2.544844 TACTCCCTCCGTTCCTTGAT 57.455 50.000 0.00 0.00 0.00 2.57
2899 5409 2.500098 CAATACTCCCTCCGTTCCTTGA 59.500 50.000 0.00 0.00 0.00 3.02
2900 5410 2.500098 TCAATACTCCCTCCGTTCCTTG 59.500 50.000 0.00 0.00 0.00 3.61
2901 5411 2.829023 TCAATACTCCCTCCGTTCCTT 58.171 47.619 0.00 0.00 0.00 3.36
2902 5412 2.544844 TCAATACTCCCTCCGTTCCT 57.455 50.000 0.00 0.00 0.00 3.36
2903 5413 3.134081 TGAATCAATACTCCCTCCGTTCC 59.866 47.826 0.00 0.00 0.00 3.62
2904 5414 4.120589 GTGAATCAATACTCCCTCCGTTC 58.879 47.826 0.00 0.00 0.00 3.95
2905 5415 3.775316 AGTGAATCAATACTCCCTCCGTT 59.225 43.478 0.00 0.00 0.00 4.44
2906 5416 3.133003 CAGTGAATCAATACTCCCTCCGT 59.867 47.826 0.00 0.00 0.00 4.69
2907 5417 3.493350 CCAGTGAATCAATACTCCCTCCG 60.493 52.174 0.00 0.00 0.00 4.63
2908 5418 3.711704 TCCAGTGAATCAATACTCCCTCC 59.288 47.826 0.00 0.00 0.00 4.30
2909 5419 4.407296 AGTCCAGTGAATCAATACTCCCTC 59.593 45.833 0.00 0.00 0.00 4.30
2910 5420 4.366267 AGTCCAGTGAATCAATACTCCCT 58.634 43.478 0.00 0.00 0.00 4.20
2911 5421 4.407296 AGAGTCCAGTGAATCAATACTCCC 59.593 45.833 9.24 0.00 38.05 4.30
2912 5422 5.105146 ACAGAGTCCAGTGAATCAATACTCC 60.105 44.000 9.24 0.00 38.05 3.85
2913 5423 5.971763 ACAGAGTCCAGTGAATCAATACTC 58.028 41.667 5.71 5.71 38.05 2.59
2914 5424 6.212388 AGAACAGAGTCCAGTGAATCAATACT 59.788 38.462 0.00 0.00 38.05 2.12
2915 5425 6.402222 AGAACAGAGTCCAGTGAATCAATAC 58.598 40.000 0.00 0.00 38.05 1.89
3025 5535 2.930826 ATTCTCAACGACACCAACCT 57.069 45.000 0.00 0.00 0.00 3.50
3057 6106 1.668751 TCCACACAGCAAACGAAAGAC 59.331 47.619 0.00 0.00 0.00 3.01
3063 6112 1.511850 TCATCTCCACACAGCAAACG 58.488 50.000 0.00 0.00 0.00 3.60
3069 6118 4.000331 ACACTTCTTCATCTCCACACAG 58.000 45.455 0.00 0.00 0.00 3.66


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

AutoCloner maintained by Alex Coulton.