Multiple sequence alignment - TraesCS2D01G000800

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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 TraesCS2D01G000800 chr2D 100.000 4594 0 0 1 4594 385386 389979 0.000000e+00 8484.0
1 TraesCS2D01G000800 chr2D 80.865 1087 121 39 2928 3976 634833304 634834341 0.000000e+00 774.0
2 TraesCS2D01G000800 chr2D 87.975 158 9 6 4022 4179 634834913 634835060 1.310000e-40 178.0
3 TraesCS2D01G000800 chr2A 94.085 1978 59 20 614 2566 500249 502193 0.000000e+00 2952.0
4 TraesCS2D01G000800 chr2A 94.429 1472 51 11 2612 4068 502198 503653 0.000000e+00 2235.0
5 TraesCS2D01G000800 chr2A 92.938 354 10 6 4073 4416 503706 504054 6.860000e-138 501.0
6 TraesCS2D01G000800 chr2A 80.541 591 87 16 2 587 499623 500190 3.280000e-116 429.0
7 TraesCS2D01G000800 chr2A 80.275 436 41 16 3850 4245 509371 509801 2.090000e-73 287.0
8 TraesCS2D01G000800 chr2A 91.011 89 4 2 4492 4576 504201 504289 2.900000e-22 117.0
9 TraesCS2D01G000800 chr2A 88.312 77 6 2 4424 4497 504101 504177 6.330000e-14 89.8
10 TraesCS2D01G000800 chr2A 84.091 88 6 1 3414 3493 618304 618217 1.370000e-10 78.7
11 TraesCS2D01G000800 chr2B 93.645 1495 61 10 2612 4095 10860723 10859252 0.000000e+00 2204.0
12 TraesCS2D01G000800 chr2B 93.590 1404 43 15 614 1999 10862677 10861303 0.000000e+00 2050.0
13 TraesCS2D01G000800 chr2B 83.646 587 62 3 1 586 10863290 10862737 5.270000e-144 521.0
14 TraesCS2D01G000800 chr2B 88.728 346 29 7 2000 2337 10861268 10860925 9.200000e-112 414.0
15 TraesCS2D01G000800 chr2B 86.159 289 16 11 4132 4416 10859255 10858987 1.620000e-74 291.0
16 TraesCS2D01G000800 chr2B 93.434 198 10 2 2372 2566 10860925 10860728 1.620000e-74 291.0
17 TraesCS2D01G000800 chr2B 85.455 110 8 5 4264 4370 10840743 10840639 1.750000e-19 108.0
18 TraesCS2D01G000800 chr2B 94.340 53 3 0 4424 4476 10858933 10858881 1.060000e-11 82.4
19 TraesCS2D01G000800 chr3B 82.068 474 79 5 2926 3396 733436237 733435767 2.570000e-107 399.0
20 TraesCS2D01G000800 chr1D 77.778 279 27 12 4113 4370 452995570 452995306 6.200000e-29 139.0
21 TraesCS2D01G000800 chr1B 90.909 55 5 0 1884 1938 348805107 348805053 1.770000e-09 75.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2D01G000800 chr2D 385386 389979 4593 False 8484.000000 8484 100.000000 1 4594 1 chr2D.!!$F1 4593
1 TraesCS2D01G000800 chr2D 634833304 634835060 1756 False 476.000000 774 84.420000 2928 4179 2 chr2D.!!$F2 1251
2 TraesCS2D01G000800 chr2A 499623 504289 4666 False 1053.966667 2952 90.219333 2 4576 6 chr2A.!!$F2 4574
3 TraesCS2D01G000800 chr2B 10858881 10863290 4409 True 836.200000 2204 90.506000 1 4476 7 chr2B.!!$R2 4475

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
345 361 0.459489 GCGATTAGGGGCATTGCAAA 59.541 50.0 11.39 0.0 31.99 3.68 F
769 820 0.537371 CCCCAACCACCAAGACAGAC 60.537 60.0 0.00 0.0 0.00 3.51 F
2374 2502 0.106167 CCTCTGGAGGGATACACGGA 60.106 60.0 8.68 0.0 44.87 4.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2127 2249 1.989706 TTTACAAGGGTGTTCAGGCC 58.010 50.0 0.0 0.0 39.3 5.19 R
2567 2700 0.839853 ATATCTCTCCCTGCTGGCCC 60.840 60.0 0.0 0.0 0.0 5.80 R
3922 4110 0.914644 TCCTCTCAGCCCCAAAGATG 59.085 55.0 0.0 0.0 0.0 2.90 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
89 103 6.774656 AGGAGATTCATTCTGACTTGTTTTGT 59.225 34.615 0.00 0.00 33.74 2.83
98 112 6.567687 TCTGACTTGTTTTGTCTTGTTTCA 57.432 33.333 0.00 0.00 35.63 2.69
120 134 5.896106 TCATCACTCTCTTCATAGTGGATGT 59.104 40.000 0.00 0.00 42.72 3.06
121 135 6.382282 TCATCACTCTCTTCATAGTGGATGTT 59.618 38.462 0.00 0.00 42.72 2.71
122 136 6.611613 TCACTCTCTTCATAGTGGATGTTT 57.388 37.500 0.00 0.00 42.72 2.83
123 137 6.634805 TCACTCTCTTCATAGTGGATGTTTC 58.365 40.000 0.00 0.00 42.72 2.78
124 138 6.211384 TCACTCTCTTCATAGTGGATGTTTCA 59.789 38.462 0.00 0.00 42.72 2.69
125 139 7.046652 CACTCTCTTCATAGTGGATGTTTCAT 58.953 38.462 0.00 0.00 39.55 2.57
126 140 7.224362 CACTCTCTTCATAGTGGATGTTTCATC 59.776 40.741 1.60 1.60 39.55 2.92
127 141 7.093156 ACTCTCTTCATAGTGGATGTTTCATCA 60.093 37.037 11.08 0.00 36.84 3.07
128 142 7.044181 TCTCTTCATAGTGGATGTTTCATCAC 58.956 38.462 11.08 7.70 36.84 3.06
129 143 6.950842 TCTTCATAGTGGATGTTTCATCACT 58.049 36.000 11.08 12.90 42.32 3.41
130 144 7.044181 TCTTCATAGTGGATGTTTCATCACTC 58.956 38.462 11.08 3.39 40.45 3.51
131 145 6.550938 TCATAGTGGATGTTTCATCACTCT 57.449 37.500 11.08 8.90 40.45 3.24
132 146 6.577103 TCATAGTGGATGTTTCATCACTCTC 58.423 40.000 11.08 0.00 40.45 3.20
133 147 6.382282 TCATAGTGGATGTTTCATCACTCTCT 59.618 38.462 11.08 4.17 40.45 3.10
134 148 5.495926 AGTGGATGTTTCATCACTCTCTT 57.504 39.130 11.08 0.00 35.83 2.85
135 149 5.486526 AGTGGATGTTTCATCACTCTCTTC 58.513 41.667 11.08 0.00 35.83 2.87
136 150 5.012458 AGTGGATGTTTCATCACTCTCTTCA 59.988 40.000 11.08 0.00 35.83 3.02
137 151 5.879223 GTGGATGTTTCATCACTCTCTTCAT 59.121 40.000 11.08 0.00 0.00 2.57
138 152 7.044181 GTGGATGTTTCATCACTCTCTTCATA 58.956 38.462 11.08 0.00 0.00 2.15
139 153 7.224362 GTGGATGTTTCATCACTCTCTTCATAG 59.776 40.741 11.08 0.00 0.00 2.23
140 154 7.093156 TGGATGTTTCATCACTCTCTTCATAGT 60.093 37.037 11.08 0.00 0.00 2.12
141 155 7.224362 GGATGTTTCATCACTCTCTTCATAGTG 59.776 40.741 11.08 0.00 43.63 2.74
142 156 6.401394 TGTTTCATCACTCTCTTCATAGTGG 58.599 40.000 0.00 0.00 42.72 4.00
143 157 5.604758 TTCATCACTCTCTTCATAGTGGG 57.395 43.478 0.00 0.00 42.72 4.61
144 158 4.614475 TCATCACTCTCTTCATAGTGGGT 58.386 43.478 0.00 0.00 42.72 4.51
145 159 4.403752 TCATCACTCTCTTCATAGTGGGTG 59.596 45.833 0.00 0.00 44.17 4.61
288 304 2.607750 GGGTGAGGCAGGTGAGGA 60.608 66.667 0.00 0.00 0.00 3.71
290 306 1.566298 GGGTGAGGCAGGTGAGGAAT 61.566 60.000 0.00 0.00 0.00 3.01
325 341 4.481870 CGCCATGGTGCATGAAAC 57.518 55.556 13.39 0.00 43.81 2.78
345 361 0.459489 GCGATTAGGGGCATTGCAAA 59.541 50.000 11.39 0.00 31.99 3.68
346 362 1.134848 GCGATTAGGGGCATTGCAAAA 60.135 47.619 11.39 0.00 31.99 2.44
347 363 2.676463 GCGATTAGGGGCATTGCAAAAA 60.676 45.455 11.39 0.00 31.99 1.94
349 365 3.616076 CGATTAGGGGCATTGCAAAAACA 60.616 43.478 11.39 0.00 0.00 2.83
350 366 3.845781 TTAGGGGCATTGCAAAAACAA 57.154 38.095 11.39 0.00 0.00 2.83
351 367 2.725221 AGGGGCATTGCAAAAACAAA 57.275 40.000 11.39 0.00 32.27 2.83
352 368 3.010200 AGGGGCATTGCAAAAACAAAA 57.990 38.095 11.39 0.00 32.27 2.44
353 369 3.359950 AGGGGCATTGCAAAAACAAAAA 58.640 36.364 11.39 0.00 32.27 1.94
354 370 3.130164 AGGGGCATTGCAAAAACAAAAAC 59.870 39.130 11.39 0.00 32.27 2.43
355 371 3.119352 GGGGCATTGCAAAAACAAAAACA 60.119 39.130 11.39 0.00 32.27 2.83
356 372 4.488879 GGGCATTGCAAAAACAAAAACAA 58.511 34.783 11.39 0.00 32.27 2.83
357 373 4.925646 GGGCATTGCAAAAACAAAAACAAA 59.074 33.333 11.39 0.00 32.27 2.83
358 374 5.406477 GGGCATTGCAAAAACAAAAACAAAA 59.594 32.000 11.39 0.00 32.27 2.44
359 375 6.073602 GGGCATTGCAAAAACAAAAACAAAAA 60.074 30.769 11.39 0.00 32.27 1.94
399 415 0.541863 AGGGATTCACGGGATCACAC 59.458 55.000 0.00 0.00 0.00 3.82
415 432 2.365635 ACGATGCTAGGGGGCAGT 60.366 61.111 0.00 0.00 45.75 4.40
470 488 3.142838 GCATGTTGGCGGCTCCAT 61.143 61.111 11.43 9.31 46.04 3.41
510 528 1.209504 CCAGAGGAAATAGTCGGGCAA 59.790 52.381 0.00 0.00 0.00 4.52
527 545 2.866762 GGCAACGCTATCTAGGTCAAAG 59.133 50.000 0.00 0.00 0.00 2.77
534 552 2.295253 ATCTAGGTCAAAGCGTTCGG 57.705 50.000 0.00 0.00 0.00 4.30
537 555 2.102109 TAGGTCAAAGCGTTCGGGCA 62.102 55.000 0.00 0.00 34.64 5.36
587 605 3.083997 GAGGCGATCCCACTGGGT 61.084 66.667 14.25 1.43 44.74 4.51
589 607 3.399181 GGCGATCCCACTGGGTGA 61.399 66.667 14.25 0.00 44.74 4.02
593 611 1.050988 CGATCCCACTGGGTGAGGAT 61.051 60.000 14.25 10.93 44.74 3.24
595 613 2.408565 GATCCCACTGGGTGAGGATAA 58.591 52.381 14.25 0.00 44.74 1.75
596 614 1.580059 TCCCACTGGGTGAGGATAAC 58.420 55.000 14.25 0.00 44.74 1.89
604 622 2.994186 GGTGAGGATAACCCGCTTTA 57.006 50.000 0.00 0.00 31.16 1.85
605 623 3.271055 GGTGAGGATAACCCGCTTTAA 57.729 47.619 0.00 0.00 31.16 1.52
608 626 4.460034 GGTGAGGATAACCCGCTTTAAAAA 59.540 41.667 0.00 0.00 31.16 1.94
691 742 4.142138 GCTCTTTCCGGAGACATCTAGAAA 60.142 45.833 3.34 0.00 35.52 2.52
693 744 6.239064 GCTCTTTCCGGAGACATCTAGAAATA 60.239 42.308 3.34 0.00 35.52 1.40
762 813 6.155247 AGTATAAATTACCCCAACCACCAA 57.845 37.500 0.00 0.00 0.00 3.67
769 820 0.537371 CCCCAACCACCAAGACAGAC 60.537 60.000 0.00 0.00 0.00 3.51
1478 1552 1.895707 GCAATGGGAGGGATCAGCG 60.896 63.158 0.00 0.00 0.00 5.18
1599 1673 1.409661 GGGTTGGCGGATGGATACTTT 60.410 52.381 0.00 0.00 37.61 2.66
1827 1901 9.481340 ACTTCAGCAATACATACATACATACAG 57.519 33.333 0.00 0.00 0.00 2.74
1828 1902 9.696917 CTTCAGCAATACATACATACATACAGA 57.303 33.333 0.00 0.00 0.00 3.41
1829 1903 9.696917 TTCAGCAATACATACATACATACAGAG 57.303 33.333 0.00 0.00 0.00 3.35
1830 1904 8.306761 TCAGCAATACATACATACATACAGAGG 58.693 37.037 0.00 0.00 0.00 3.69
1831 1905 8.306761 CAGCAATACATACATACATACAGAGGA 58.693 37.037 0.00 0.00 0.00 3.71
1832 1906 8.870116 AGCAATACATACATACATACAGAGGAA 58.130 33.333 0.00 0.00 0.00 3.36
1833 1907 9.658799 GCAATACATACATACATACAGAGGAAT 57.341 33.333 0.00 0.00 0.00 3.01
1878 1952 7.921041 ATCTGTATCCCTTTGATCTTCTACA 57.079 36.000 0.00 0.00 34.76 2.74
1879 1953 7.921041 TCTGTATCCCTTTGATCTTCTACAT 57.079 36.000 0.00 0.00 34.76 2.29
1880 1954 8.324191 TCTGTATCCCTTTGATCTTCTACATT 57.676 34.615 0.00 0.00 34.76 2.71
1881 1955 9.434275 TCTGTATCCCTTTGATCTTCTACATTA 57.566 33.333 0.00 0.00 34.76 1.90
1933 2010 9.657728 TTTCCTTTTAAATACCCCTGTAAAAGA 57.342 29.630 13.61 1.72 42.31 2.52
1934 2011 9.831682 TTCCTTTTAAATACCCCTGTAAAAGAT 57.168 29.630 13.61 0.00 42.31 2.40
1975 2059 4.142271 TGTCGTTTTGTTTCCAGCTGAAAT 60.142 37.500 17.39 0.00 44.44 2.17
1980 2064 3.110447 TGTTTCCAGCTGAAATTTGCC 57.890 42.857 17.39 2.86 44.44 4.52
2074 2192 9.816787 TTTGTTCTATTTCCCCTAAACATAAGT 57.183 29.630 0.00 0.00 0.00 2.24
2127 2249 7.875971 ACCAGTCTTTTCATTAGTGCTTTAAG 58.124 34.615 0.00 0.00 0.00 1.85
2153 2280 7.093684 GGCCTGAACACCCTTGTAAATTTATTA 60.094 37.037 0.31 0.00 33.55 0.98
2322 2450 5.751243 ATATAGTTCGGGCAAAATGTGTC 57.249 39.130 0.00 0.00 0.00 3.67
2337 2465 2.665165 TGTGTCAACTTCCCATTTGCT 58.335 42.857 0.00 0.00 0.00 3.91
2342 2470 3.319122 GTCAACTTCCCATTTGCTGTCTT 59.681 43.478 0.00 0.00 0.00 3.01
2343 2471 3.318839 TCAACTTCCCATTTGCTGTCTTG 59.681 43.478 0.00 0.00 0.00 3.02
2352 2480 5.156355 CCATTTGCTGTCTTGATGTGTTAC 58.844 41.667 0.00 0.00 0.00 2.50
2356 2484 3.563808 TGCTGTCTTGATGTGTTACAACC 59.436 43.478 0.00 0.00 0.00 3.77
2374 2502 0.106167 CCTCTGGAGGGATACACGGA 60.106 60.000 8.68 0.00 44.87 4.69
2376 2504 1.889829 CTCTGGAGGGATACACGGATC 59.110 57.143 0.00 0.00 39.74 3.36
2562 2695 2.211410 TCGGGTACTGTGGGTGGTG 61.211 63.158 0.00 0.00 35.30 4.17
2566 2699 0.036306 GGTACTGTGGGTGGTGGAAG 59.964 60.000 0.00 0.00 0.00 3.46
2567 2700 0.036306 GTACTGTGGGTGGTGGAAGG 59.964 60.000 0.00 0.00 0.00 3.46
2568 2701 1.131303 TACTGTGGGTGGTGGAAGGG 61.131 60.000 0.00 0.00 0.00 3.95
2569 2702 3.182263 TGTGGGTGGTGGAAGGGG 61.182 66.667 0.00 0.00 0.00 4.79
2570 2703 4.678743 GTGGGTGGTGGAAGGGGC 62.679 72.222 0.00 0.00 0.00 5.80
2573 2706 4.366684 GGTGGTGGAAGGGGCCAG 62.367 72.222 4.39 0.00 38.95 4.85
2577 2710 4.748144 GTGGAAGGGGCCAGCAGG 62.748 72.222 4.39 0.00 38.95 4.85
2580 2713 4.120755 GAAGGGGCCAGCAGGGAG 62.121 72.222 4.39 0.00 40.01 4.30
2581 2714 4.682714 AAGGGGCCAGCAGGGAGA 62.683 66.667 4.39 0.00 40.01 3.71
2584 2717 2.771762 GGGCCAGCAGGGAGAGAT 60.772 66.667 4.39 0.00 40.01 2.75
2585 2718 1.460305 GGGCCAGCAGGGAGAGATA 60.460 63.158 4.39 0.00 40.01 1.98
2586 2719 0.839853 GGGCCAGCAGGGAGAGATAT 60.840 60.000 4.39 0.00 40.01 1.63
2587 2720 1.553417 GGGCCAGCAGGGAGAGATATA 60.553 57.143 4.39 0.00 40.01 0.86
2588 2721 1.830477 GGCCAGCAGGGAGAGATATAG 59.170 57.143 0.00 0.00 40.01 1.31
2589 2722 2.558575 GGCCAGCAGGGAGAGATATAGA 60.559 54.545 0.00 0.00 40.01 1.98
2590 2723 3.169099 GCCAGCAGGGAGAGATATAGAA 58.831 50.000 0.00 0.00 40.01 2.10
2591 2724 3.774216 GCCAGCAGGGAGAGATATAGAAT 59.226 47.826 0.00 0.00 40.01 2.40
2592 2725 4.382901 GCCAGCAGGGAGAGATATAGAATG 60.383 50.000 0.00 0.00 40.01 2.67
2593 2726 4.161942 CCAGCAGGGAGAGATATAGAATGG 59.838 50.000 0.00 0.00 40.01 3.16
2594 2727 5.022122 CAGCAGGGAGAGATATAGAATGGA 58.978 45.833 0.00 0.00 0.00 3.41
2595 2728 5.127519 CAGCAGGGAGAGATATAGAATGGAG 59.872 48.000 0.00 0.00 0.00 3.86
2596 2729 4.405358 GCAGGGAGAGATATAGAATGGAGG 59.595 50.000 0.00 0.00 0.00 4.30
2597 2730 4.961730 CAGGGAGAGATATAGAATGGAGGG 59.038 50.000 0.00 0.00 0.00 4.30
2598 2731 4.015730 AGGGAGAGATATAGAATGGAGGGG 60.016 50.000 0.00 0.00 0.00 4.79
2599 2732 4.265078 GGGAGAGATATAGAATGGAGGGGT 60.265 50.000 0.00 0.00 0.00 4.95
2600 2733 5.346270 GGAGAGATATAGAATGGAGGGGTT 58.654 45.833 0.00 0.00 0.00 4.11
2601 2734 5.188751 GGAGAGATATAGAATGGAGGGGTTG 59.811 48.000 0.00 0.00 0.00 3.77
2602 2735 5.097234 AGAGATATAGAATGGAGGGGTTGG 58.903 45.833 0.00 0.00 0.00 3.77
2603 2736 5.094387 GAGATATAGAATGGAGGGGTTGGA 58.906 45.833 0.00 0.00 0.00 3.53
2604 2737 5.486332 AGATATAGAATGGAGGGGTTGGAA 58.514 41.667 0.00 0.00 0.00 3.53
2605 2738 3.953542 ATAGAATGGAGGGGTTGGAAC 57.046 47.619 0.00 0.00 0.00 3.62
2606 2739 1.760405 AGAATGGAGGGGTTGGAACT 58.240 50.000 0.00 0.00 0.00 3.01
2607 2740 2.073776 AGAATGGAGGGGTTGGAACTT 58.926 47.619 0.00 0.00 0.00 2.66
2608 2741 2.450886 AGAATGGAGGGGTTGGAACTTT 59.549 45.455 0.00 0.00 0.00 2.66
2609 2742 3.116746 AGAATGGAGGGGTTGGAACTTTT 60.117 43.478 0.00 0.00 0.00 2.27
2610 2743 2.858787 TGGAGGGGTTGGAACTTTTT 57.141 45.000 0.00 0.00 0.00 1.94
2632 2765 5.528043 TTTTTGTCTGCTTCATTGCCTTA 57.472 34.783 0.00 0.00 0.00 2.69
2646 2779 7.141758 TCATTGCCTTAAAGATGATAGTCCT 57.858 36.000 0.00 0.00 0.00 3.85
2710 2843 4.034048 CGATTACTTGGCAACTGGATACAC 59.966 45.833 0.00 0.00 46.17 2.90
2841 2976 1.890876 TCAACAACCTGGTTCGGATG 58.109 50.000 9.62 5.04 33.47 3.51
2849 2984 4.497291 ACCTGGTTCGGATGCTAATAAA 57.503 40.909 0.00 0.00 0.00 1.40
2918 3053 1.278172 CGAGCAGTGTGAACGGACAG 61.278 60.000 0.00 0.00 0.00 3.51
3128 3263 3.282021 TGGCAAAGGCAGAGAATATGTC 58.718 45.455 0.00 0.00 43.71 3.06
3563 3705 3.495124 CACCGTTTGCATCCAAAGG 57.505 52.632 0.66 0.66 41.32 3.11
3630 3772 2.327325 TCTAGGAGGCTGGTTGAAGT 57.673 50.000 0.00 0.00 0.00 3.01
3733 3894 6.651225 AGAGTTAGACCATTTTGCTTACTGTC 59.349 38.462 0.00 0.00 0.00 3.51
3734 3895 6.534634 AGTTAGACCATTTTGCTTACTGTCT 58.465 36.000 0.00 0.00 35.85 3.41
3735 3896 6.998673 AGTTAGACCATTTTGCTTACTGTCTT 59.001 34.615 0.00 0.00 33.89 3.01
3736 3897 5.695851 AGACCATTTTGCTTACTGTCTTG 57.304 39.130 0.00 0.00 0.00 3.02
3737 3898 5.133221 AGACCATTTTGCTTACTGTCTTGT 58.867 37.500 0.00 0.00 0.00 3.16
3738 3899 5.239525 AGACCATTTTGCTTACTGTCTTGTC 59.760 40.000 0.00 0.00 0.00 3.18
3922 4110 1.941999 GCTGATCCAAGCCAGTTGCC 61.942 60.000 0.00 0.00 42.71 4.52
3946 4134 3.788142 TCTTTGGGGCTGAGAGGATTAAT 59.212 43.478 0.00 0.00 0.00 1.40
3982 4680 8.826710 ACATTGTGGAATAGTATGTTGTTATCG 58.173 33.333 0.00 0.00 0.00 2.92
4120 4895 7.566658 TCTCTCTCTAGATATGGAGTGATGA 57.433 40.000 6.02 4.25 33.56 2.92
4147 4922 5.745227 AGGAATGGTATGTTGAGGTTAGTG 58.255 41.667 0.00 0.00 0.00 2.74
4213 4988 7.330262 AGCATGTCTGTTTTATTTATTTGGGG 58.670 34.615 0.00 0.00 0.00 4.96
4225 5004 1.185315 ATTTGGGGTTTCGGCATCTG 58.815 50.000 0.00 0.00 0.00 2.90
4258 5040 8.539770 ACATGTCTGTTTTAGTCTATGAGTTG 57.460 34.615 0.00 0.00 28.70 3.16
4368 5153 6.937436 ATTAACCGACAGATAAATGGGAAC 57.063 37.500 0.00 0.00 0.00 3.62
4462 5293 1.672356 GTGGTGCAAGATGACGGCT 60.672 57.895 0.00 0.00 0.00 5.52
4465 5296 0.955428 GGTGCAAGATGACGGCTTCA 60.955 55.000 6.95 0.00 39.11 3.02
4476 5307 0.607489 ACGGCTTCATCTTGCTGCTT 60.607 50.000 0.00 0.00 39.01 3.91
4477 5308 0.524862 CGGCTTCATCTTGCTGCTTT 59.475 50.000 0.00 0.00 0.00 3.51
4479 5310 2.334838 GGCTTCATCTTGCTGCTTTTG 58.665 47.619 0.00 0.00 0.00 2.44
4480 5311 2.029649 GGCTTCATCTTGCTGCTTTTGA 60.030 45.455 0.00 0.00 0.00 2.69
4482 5313 3.305199 GCTTCATCTTGCTGCTTTTGACT 60.305 43.478 0.00 0.00 0.00 3.41
4483 5314 3.909776 TCATCTTGCTGCTTTTGACTG 57.090 42.857 0.00 0.00 0.00 3.51
4488 5319 1.372623 GCTGCTTTTGACTGCTGCC 60.373 57.895 0.00 0.00 44.54 4.85
4490 5321 1.509644 CTGCTTTTGACTGCTGCCGA 61.510 55.000 0.00 0.00 0.00 5.54
4511 5374 4.697352 CGAGTGGGTTTTGATCTGAAGAAT 59.303 41.667 0.00 0.00 0.00 2.40
4514 5377 7.094805 CGAGTGGGTTTTGATCTGAAGAATAAA 60.095 37.037 0.00 0.00 0.00 1.40
4515 5378 7.886338 AGTGGGTTTTGATCTGAAGAATAAAC 58.114 34.615 0.00 0.00 0.00 2.01
4517 5380 7.809806 GTGGGTTTTGATCTGAAGAATAAACAG 59.190 37.037 12.96 0.00 30.86 3.16
4518 5381 7.039784 TGGGTTTTGATCTGAAGAATAAACAGG 60.040 37.037 12.96 0.00 33.19 4.00
4519 5382 7.176690 GGGTTTTGATCTGAAGAATAAACAGGA 59.823 37.037 12.96 0.00 33.19 3.86
4521 5384 6.992063 TTGATCTGAAGAATAAACAGGAGC 57.008 37.500 0.00 0.00 33.19 4.70
4522 5385 6.305272 TGATCTGAAGAATAAACAGGAGCT 57.695 37.500 0.00 0.00 33.19 4.09
4523 5386 7.423844 TGATCTGAAGAATAAACAGGAGCTA 57.576 36.000 0.00 0.00 33.19 3.32
4524 5387 7.495901 TGATCTGAAGAATAAACAGGAGCTAG 58.504 38.462 0.00 0.00 33.19 3.42
4525 5388 5.665459 TCTGAAGAATAAACAGGAGCTAGC 58.335 41.667 6.62 6.62 33.19 3.42
4528 5391 7.124298 TCTGAAGAATAAACAGGAGCTAGCTAA 59.876 37.037 19.38 0.00 33.19 3.09
4576 5443 0.808755 GTTTGGTTAGCCATCCCGTG 59.191 55.000 0.00 0.00 45.56 4.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
41 42 6.149129 TCGCTTCTAGAAAGCTCATAATCA 57.851 37.500 18.51 0.00 40.94 2.57
89 103 7.816513 CACTATGAAGAGAGTGATGAAACAAGA 59.183 37.037 0.00 0.00 43.02 3.02
98 112 6.805016 AACATCCACTATGAAGAGAGTGAT 57.195 37.500 3.64 0.00 43.02 3.06
120 134 5.485353 ACCCACTATGAAGAGAGTGATGAAA 59.515 40.000 3.64 0.00 43.02 2.69
121 135 5.026121 ACCCACTATGAAGAGAGTGATGAA 58.974 41.667 3.64 0.00 43.02 2.57
122 136 4.403752 CACCCACTATGAAGAGAGTGATGA 59.596 45.833 3.64 0.00 43.02 2.92
123 137 4.691175 CACCCACTATGAAGAGAGTGATG 58.309 47.826 3.64 0.00 43.02 3.07
124 138 3.133721 GCACCCACTATGAAGAGAGTGAT 59.866 47.826 3.64 0.00 43.02 3.06
125 139 2.497675 GCACCCACTATGAAGAGAGTGA 59.502 50.000 3.64 0.00 43.02 3.41
126 140 2.419297 GGCACCCACTATGAAGAGAGTG 60.419 54.545 0.00 0.00 40.53 3.51
127 141 1.834263 GGCACCCACTATGAAGAGAGT 59.166 52.381 0.00 0.00 0.00 3.24
128 142 2.114616 AGGCACCCACTATGAAGAGAG 58.885 52.381 0.00 0.00 0.00 3.20
129 143 2.254152 AGGCACCCACTATGAAGAGA 57.746 50.000 0.00 0.00 0.00 3.10
130 144 3.034635 AGTAGGCACCCACTATGAAGAG 58.965 50.000 0.00 0.00 0.00 2.85
131 145 3.116096 AGTAGGCACCCACTATGAAGA 57.884 47.619 0.00 0.00 0.00 2.87
132 146 3.452627 AGAAGTAGGCACCCACTATGAAG 59.547 47.826 0.00 0.00 0.00 3.02
133 147 3.450904 AGAAGTAGGCACCCACTATGAA 58.549 45.455 0.00 0.00 0.00 2.57
134 148 3.031736 GAGAAGTAGGCACCCACTATGA 58.968 50.000 0.00 0.00 0.00 2.15
135 149 3.034635 AGAGAAGTAGGCACCCACTATG 58.965 50.000 0.00 0.00 0.00 2.23
136 150 3.301274 GAGAGAAGTAGGCACCCACTAT 58.699 50.000 0.00 0.00 0.00 2.12
137 151 2.042569 TGAGAGAAGTAGGCACCCACTA 59.957 50.000 0.00 0.00 0.00 2.74
138 152 1.203187 TGAGAGAAGTAGGCACCCACT 60.203 52.381 0.00 0.00 0.00 4.00
139 153 1.066787 GTGAGAGAAGTAGGCACCCAC 60.067 57.143 0.00 0.00 0.00 4.61
140 154 1.267121 GTGAGAGAAGTAGGCACCCA 58.733 55.000 0.00 0.00 0.00 4.51
141 155 0.537653 GGTGAGAGAAGTAGGCACCC 59.462 60.000 0.00 0.00 42.37 4.61
143 157 3.358118 ACTAGGTGAGAGAAGTAGGCAC 58.642 50.000 0.00 0.00 0.00 5.01
144 158 3.741245 ACTAGGTGAGAGAAGTAGGCA 57.259 47.619 0.00 0.00 0.00 4.75
145 159 3.429684 GCAACTAGGTGAGAGAAGTAGGC 60.430 52.174 13.29 0.00 0.00 3.93
288 304 0.394352 CCCACCTTGCTCCGCTAATT 60.394 55.000 0.00 0.00 0.00 1.40
290 306 2.668632 CCCACCTTGCTCCGCTAA 59.331 61.111 0.00 0.00 0.00 3.09
317 333 0.307760 CCCCTAATCGCGTTTCATGC 59.692 55.000 5.77 0.00 0.00 4.06
318 334 0.307760 GCCCCTAATCGCGTTTCATG 59.692 55.000 5.77 0.00 0.00 3.07
322 338 0.738389 CAATGCCCCTAATCGCGTTT 59.262 50.000 5.77 6.86 31.93 3.60
324 340 2.186826 GCAATGCCCCTAATCGCGT 61.187 57.895 5.77 0.00 0.00 6.01
325 341 1.723608 TTGCAATGCCCCTAATCGCG 61.724 55.000 1.53 0.00 0.00 5.87
345 361 7.565848 GTCGGTAAGTGTTTTTGTTTTTGTTT 58.434 30.769 0.00 0.00 0.00 2.83
346 362 6.129141 CGTCGGTAAGTGTTTTTGTTTTTGTT 60.129 34.615 0.00 0.00 0.00 2.83
347 363 5.342791 CGTCGGTAAGTGTTTTTGTTTTTGT 59.657 36.000 0.00 0.00 0.00 2.83
349 365 4.858140 CCGTCGGTAAGTGTTTTTGTTTTT 59.142 37.500 2.08 0.00 0.00 1.94
350 366 4.413969 CCGTCGGTAAGTGTTTTTGTTTT 58.586 39.130 2.08 0.00 0.00 2.43
351 367 3.181498 CCCGTCGGTAAGTGTTTTTGTTT 60.181 43.478 11.06 0.00 0.00 2.83
352 368 2.355444 CCCGTCGGTAAGTGTTTTTGTT 59.645 45.455 11.06 0.00 0.00 2.83
353 369 1.941975 CCCGTCGGTAAGTGTTTTTGT 59.058 47.619 11.06 0.00 0.00 2.83
354 370 1.264826 CCCCGTCGGTAAGTGTTTTTG 59.735 52.381 11.06 0.00 0.00 2.44
355 371 1.140652 TCCCCGTCGGTAAGTGTTTTT 59.859 47.619 11.06 0.00 0.00 1.94
356 372 0.758123 TCCCCGTCGGTAAGTGTTTT 59.242 50.000 11.06 0.00 0.00 2.43
357 373 0.978907 ATCCCCGTCGGTAAGTGTTT 59.021 50.000 11.06 0.00 0.00 2.83
358 374 0.248289 CATCCCCGTCGGTAAGTGTT 59.752 55.000 11.06 0.00 0.00 3.32
359 375 0.901580 ACATCCCCGTCGGTAAGTGT 60.902 55.000 11.06 6.76 0.00 3.55
399 415 2.109799 CACTGCCCCCTAGCATCG 59.890 66.667 0.00 0.00 43.09 3.84
470 488 1.599518 ACCGCCTTCGTTCATTGCA 60.600 52.632 0.00 0.00 0.00 4.08
497 515 2.102588 AGATAGCGTTGCCCGACTATTT 59.897 45.455 0.00 0.00 36.61 1.40
510 528 2.493713 CGCTTTGACCTAGATAGCGT 57.506 50.000 0.00 0.00 46.82 5.07
562 580 3.900892 GGATCGCCTCGCTCCGAA 61.901 66.667 0.00 0.00 32.65 4.30
608 626 6.828785 AGATGATGTAAGCGGGTTATCTTTTT 59.171 34.615 2.65 0.00 0.00 1.94
609 627 6.357367 AGATGATGTAAGCGGGTTATCTTTT 58.643 36.000 2.65 0.00 0.00 2.27
611 629 5.552870 AGATGATGTAAGCGGGTTATCTT 57.447 39.130 2.65 0.00 0.00 2.40
612 630 5.163301 ACAAGATGATGTAAGCGGGTTATCT 60.163 40.000 2.65 0.06 0.00 1.98
691 742 9.984190 GATTTCGGAAGTATTCTCCTTACTTAT 57.016 33.333 0.00 0.00 46.56 1.73
693 744 7.982354 CAGATTTCGGAAGTATTCTCCTTACTT 59.018 37.037 0.00 0.00 46.56 2.24
762 813 3.265791 GAGATCAAATTGCCGTCTGTCT 58.734 45.455 0.00 0.00 0.00 3.41
769 820 3.837213 AGTTGTGAGATCAAATTGCCG 57.163 42.857 0.00 0.00 0.00 5.69
856 907 2.452600 TGGGGAAACAAAGTTGAGCT 57.547 45.000 0.00 0.00 0.00 4.09
1210 1263 4.388499 GGCGGTGAAGAGGCGGAA 62.388 66.667 0.00 0.00 0.00 4.30
1550 1624 3.522731 CGCCCTCCTCCGAGACAG 61.523 72.222 0.00 0.00 38.52 3.51
1825 1899 4.454678 TGCCAGCTAACAATATTCCTCTG 58.545 43.478 0.00 0.00 0.00 3.35
1827 1901 4.640201 TGTTGCCAGCTAACAATATTCCTC 59.360 41.667 4.10 0.00 35.29 3.71
1828 1902 4.599041 TGTTGCCAGCTAACAATATTCCT 58.401 39.130 4.10 0.00 35.29 3.36
1829 1903 4.981806 TGTTGCCAGCTAACAATATTCC 57.018 40.909 4.10 0.00 35.29 3.01
1830 1904 6.382869 AGATGTTGCCAGCTAACAATATTC 57.617 37.500 4.71 0.00 40.95 1.75
1831 1905 7.941238 AGATAGATGTTGCCAGCTAACAATATT 59.059 33.333 4.71 2.66 42.43 1.28
1832 1906 7.389884 CAGATAGATGTTGCCAGCTAACAATAT 59.610 37.037 4.71 7.14 42.43 1.28
1833 1907 6.707608 CAGATAGATGTTGCCAGCTAACAATA 59.292 38.462 4.71 2.63 42.43 1.90
1834 1908 5.530171 CAGATAGATGTTGCCAGCTAACAAT 59.470 40.000 4.71 0.60 42.43 2.71
1878 1952 4.563140 TCGAAACAGGGCCTAAACTAAT 57.437 40.909 5.28 0.00 0.00 1.73
1879 1953 4.563140 ATCGAAACAGGGCCTAAACTAA 57.437 40.909 5.28 0.00 0.00 2.24
1880 1954 4.258543 CAATCGAAACAGGGCCTAAACTA 58.741 43.478 5.28 0.00 0.00 2.24
1881 1955 3.081804 CAATCGAAACAGGGCCTAAACT 58.918 45.455 5.28 0.00 0.00 2.66
1932 2009 5.629849 CGACAATCTTATCCTTCGGTGTATC 59.370 44.000 0.00 0.00 0.00 2.24
1933 2010 5.068723 ACGACAATCTTATCCTTCGGTGTAT 59.931 40.000 0.00 0.00 0.00 2.29
1934 2011 4.400251 ACGACAATCTTATCCTTCGGTGTA 59.600 41.667 0.00 0.00 0.00 2.90
1935 2012 3.194968 ACGACAATCTTATCCTTCGGTGT 59.805 43.478 0.00 0.00 0.00 4.16
1936 2013 3.782046 ACGACAATCTTATCCTTCGGTG 58.218 45.455 0.00 0.00 0.00 4.94
2075 2193 9.783081 AAGACCTGAAGCATGAATTTTAATTTT 57.217 25.926 0.00 0.00 0.00 1.82
2079 2197 7.450014 TGGTAAGACCTGAAGCATGAATTTTAA 59.550 33.333 0.00 0.00 39.58 1.52
2127 2249 1.989706 TTTACAAGGGTGTTCAGGCC 58.010 50.000 0.00 0.00 39.30 5.19
2153 2280 4.855298 TTTGTAGGGTAGCTAGCCAAAT 57.145 40.909 36.59 22.44 46.03 2.32
2322 2450 3.318839 TCAAGACAGCAAATGGGAAGTTG 59.681 43.478 0.00 0.00 0.00 3.16
2337 2465 5.056480 CAGAGGTTGTAACACATCAAGACA 58.944 41.667 0.00 0.00 0.00 3.41
2342 2470 3.007940 CCTCCAGAGGTTGTAACACATCA 59.992 47.826 5.47 0.00 43.61 3.07
2343 2471 3.600388 CCTCCAGAGGTTGTAACACATC 58.400 50.000 5.47 0.00 43.61 3.06
2356 2484 1.889829 GATCCGTGTATCCCTCCAGAG 59.110 57.143 0.00 0.00 0.00 3.35
2376 2504 2.648059 CAGATTTTGCCCTCTGGTAGG 58.352 52.381 0.00 0.00 46.09 3.18
2566 2699 2.972589 TATCTCTCCCTGCTGGCCCC 62.973 65.000 0.00 0.00 0.00 5.80
2567 2700 0.839853 ATATCTCTCCCTGCTGGCCC 60.840 60.000 0.00 0.00 0.00 5.80
2568 2701 1.830477 CTATATCTCTCCCTGCTGGCC 59.170 57.143 3.63 0.00 0.00 5.36
2569 2702 2.813907 TCTATATCTCTCCCTGCTGGC 58.186 52.381 3.63 0.00 0.00 4.85
2570 2703 4.161942 CCATTCTATATCTCTCCCTGCTGG 59.838 50.000 1.89 1.89 0.00 4.85
2571 2704 5.022122 TCCATTCTATATCTCTCCCTGCTG 58.978 45.833 0.00 0.00 0.00 4.41
2572 2705 5.271598 CTCCATTCTATATCTCTCCCTGCT 58.728 45.833 0.00 0.00 0.00 4.24
2573 2706 4.405358 CCTCCATTCTATATCTCTCCCTGC 59.595 50.000 0.00 0.00 0.00 4.85
2574 2707 4.961730 CCCTCCATTCTATATCTCTCCCTG 59.038 50.000 0.00 0.00 0.00 4.45
2575 2708 4.015730 CCCCTCCATTCTATATCTCTCCCT 60.016 50.000 0.00 0.00 0.00 4.20
2576 2709 4.265078 ACCCCTCCATTCTATATCTCTCCC 60.265 50.000 0.00 0.00 0.00 4.30
2577 2710 4.954089 ACCCCTCCATTCTATATCTCTCC 58.046 47.826 0.00 0.00 0.00 3.71
2578 2711 5.188751 CCAACCCCTCCATTCTATATCTCTC 59.811 48.000 0.00 0.00 0.00 3.20
2579 2712 5.097234 CCAACCCCTCCATTCTATATCTCT 58.903 45.833 0.00 0.00 0.00 3.10
2580 2713 5.094387 TCCAACCCCTCCATTCTATATCTC 58.906 45.833 0.00 0.00 0.00 2.75
2581 2714 5.106631 TCCAACCCCTCCATTCTATATCT 57.893 43.478 0.00 0.00 0.00 1.98
2582 2715 5.310857 AGTTCCAACCCCTCCATTCTATATC 59.689 44.000 0.00 0.00 0.00 1.63
2583 2716 5.235534 AGTTCCAACCCCTCCATTCTATAT 58.764 41.667 0.00 0.00 0.00 0.86
2584 2717 4.641868 AGTTCCAACCCCTCCATTCTATA 58.358 43.478 0.00 0.00 0.00 1.31
2585 2718 3.474920 AGTTCCAACCCCTCCATTCTAT 58.525 45.455 0.00 0.00 0.00 1.98
2586 2719 2.929301 AGTTCCAACCCCTCCATTCTA 58.071 47.619 0.00 0.00 0.00 2.10
2587 2720 1.760405 AGTTCCAACCCCTCCATTCT 58.240 50.000 0.00 0.00 0.00 2.40
2588 2721 2.604912 AAGTTCCAACCCCTCCATTC 57.395 50.000 0.00 0.00 0.00 2.67
2589 2722 3.344535 AAAAGTTCCAACCCCTCCATT 57.655 42.857 0.00 0.00 0.00 3.16
2590 2723 3.344535 AAAAAGTTCCAACCCCTCCAT 57.655 42.857 0.00 0.00 0.00 3.41
2591 2724 2.858787 AAAAAGTTCCAACCCCTCCA 57.141 45.000 0.00 0.00 0.00 3.86
2610 2743 4.405116 AAGGCAATGAAGCAGACAAAAA 57.595 36.364 0.00 0.00 35.83 1.94
2617 2750 5.571784 TCATCTTTAAGGCAATGAAGCAG 57.428 39.130 0.00 0.00 35.83 4.24
2623 2756 7.222872 AGAGGACTATCATCTTTAAGGCAATG 58.777 38.462 0.00 0.00 33.16 2.82
2695 2828 3.788227 AAGAAGTGTATCCAGTTGCCA 57.212 42.857 0.00 0.00 34.34 4.92
2739 2874 1.838112 ATTTCCTGCGCCATCAGAAA 58.162 45.000 4.18 7.38 36.19 2.52
2918 3053 5.762045 TGCTGACTTTTAGAATGCTTCAAC 58.238 37.500 0.00 0.00 0.00 3.18
3338 3473 2.420687 GGATGACTGGAGATGGTTCCAC 60.421 54.545 0.00 0.00 42.24 4.02
3557 3699 1.171308 CCATGCAGTGAGTCCTTTGG 58.829 55.000 0.00 0.00 0.00 3.28
3563 3705 1.483827 TCCAGATCCATGCAGTGAGTC 59.516 52.381 0.00 0.00 0.00 3.36
3733 3894 1.294659 GGCACGGCTCTGAAGACAAG 61.295 60.000 0.00 0.00 0.00 3.16
3734 3895 1.301716 GGCACGGCTCTGAAGACAA 60.302 57.895 0.00 0.00 0.00 3.18
3735 3896 2.343758 GGCACGGCTCTGAAGACA 59.656 61.111 0.00 0.00 0.00 3.41
3736 3897 1.739562 CTGGCACGGCTCTGAAGAC 60.740 63.158 0.00 0.00 0.00 3.01
3737 3898 2.659016 CTGGCACGGCTCTGAAGA 59.341 61.111 0.00 0.00 0.00 2.87
3877 4065 5.710646 TGCCTCTATATATCCTCCTCATCC 58.289 45.833 0.00 0.00 0.00 3.51
3922 4110 0.914644 TCCTCTCAGCCCCAAAGATG 59.085 55.000 0.00 0.00 0.00 2.90
3982 4680 1.548269 CCACTCACTCAGGTTCTCTCC 59.452 57.143 0.00 0.00 0.00 3.71
3995 4693 7.093354 CAGGTATACATGATGATACCACTCAC 58.907 42.308 24.86 8.56 46.89 3.51
4120 4895 5.975988 ACCTCAACATACCATTCCTATGT 57.024 39.130 0.00 0.00 36.56 2.29
4147 4922 5.804979 ACAACTGCAACATTAGTTTCACAAC 59.195 36.000 0.00 0.00 35.08 3.32
4213 4988 5.545658 TGTTCTTATTCAGATGCCGAAAC 57.454 39.130 0.00 0.00 0.00 2.78
4288 5070 8.463930 TCCCAAGGTTGATAATATTTGACATC 57.536 34.615 0.00 0.00 0.00 3.06
4368 5153 2.996621 GACTATGCTATGCTAAAGCCGG 59.003 50.000 0.00 0.00 39.30 6.13
4375 5160 6.662663 ACATCAGATCAGACTATGCTATGCTA 59.337 38.462 0.00 0.00 0.00 3.49
4376 5161 5.481122 ACATCAGATCAGACTATGCTATGCT 59.519 40.000 0.00 0.00 0.00 3.79
4377 5162 5.722263 ACATCAGATCAGACTATGCTATGC 58.278 41.667 0.00 0.00 0.00 3.14
4378 5163 8.054152 AGTACATCAGATCAGACTATGCTATG 57.946 38.462 0.00 0.00 0.00 2.23
4379 5164 9.394767 CTAGTACATCAGATCAGACTATGCTAT 57.605 37.037 0.00 0.00 0.00 2.97
4416 5201 1.379710 ACAGCACAGCACCACCAAA 60.380 52.632 0.00 0.00 0.00 3.28
4417 5202 2.120282 CACAGCACAGCACCACCAA 61.120 57.895 0.00 0.00 0.00 3.67
4418 5203 1.977293 TACACAGCACAGCACCACCA 61.977 55.000 0.00 0.00 0.00 4.17
4419 5204 1.227823 TACACAGCACAGCACCACC 60.228 57.895 0.00 0.00 0.00 4.61
4420 5205 1.230635 CCTACACAGCACAGCACCAC 61.231 60.000 0.00 0.00 0.00 4.16
4421 5206 1.071299 CCTACACAGCACAGCACCA 59.929 57.895 0.00 0.00 0.00 4.17
4422 5207 0.535102 AACCTACACAGCACAGCACC 60.535 55.000 0.00 0.00 0.00 5.01
4462 5293 3.551454 GCAGTCAAAAGCAGCAAGATGAA 60.551 43.478 0.00 0.00 0.00 2.57
4465 5296 2.030185 CAGCAGTCAAAAGCAGCAAGAT 60.030 45.455 0.00 0.00 0.00 2.40
4476 5307 1.597854 CCACTCGGCAGCAGTCAAA 60.598 57.895 0.00 0.00 0.00 2.69
4477 5308 2.031012 CCACTCGGCAGCAGTCAA 59.969 61.111 0.00 0.00 0.00 3.18
4479 5310 3.537206 AACCCACTCGGCAGCAGTC 62.537 63.158 0.00 0.00 33.26 3.51
4480 5311 2.624674 AAAACCCACTCGGCAGCAGT 62.625 55.000 0.00 0.00 33.26 4.40
4482 5313 2.192861 CAAAACCCACTCGGCAGCA 61.193 57.895 0.00 0.00 33.26 4.41
4483 5314 1.244019 ATCAAAACCCACTCGGCAGC 61.244 55.000 0.00 0.00 33.26 5.25
4488 5319 3.664107 TCTTCAGATCAAAACCCACTCG 58.336 45.455 0.00 0.00 0.00 4.18
4490 5321 7.505585 TGTTTATTCTTCAGATCAAAACCCACT 59.494 33.333 0.00 0.00 0.00 4.00
4511 5374 4.402793 CCTCAGTTAGCTAGCTCCTGTTTA 59.597 45.833 29.33 17.59 31.31 2.01
4514 5377 2.291930 ACCTCAGTTAGCTAGCTCCTGT 60.292 50.000 29.33 16.71 31.31 4.00
4515 5378 2.383855 ACCTCAGTTAGCTAGCTCCTG 58.616 52.381 26.93 26.93 0.00 3.86
4517 5380 2.159028 CCAACCTCAGTTAGCTAGCTCC 60.159 54.545 23.26 13.40 33.27 4.70
4518 5381 2.498078 ACCAACCTCAGTTAGCTAGCTC 59.502 50.000 23.26 8.07 33.27 4.09
4519 5382 2.541466 ACCAACCTCAGTTAGCTAGCT 58.459 47.619 23.12 23.12 33.27 3.32
4521 5384 5.153950 AGAAACCAACCTCAGTTAGCTAG 57.846 43.478 0.00 0.00 33.27 3.42
4522 5385 5.336213 CGTAGAAACCAACCTCAGTTAGCTA 60.336 44.000 0.00 0.00 33.27 3.32
4523 5386 4.560919 CGTAGAAACCAACCTCAGTTAGCT 60.561 45.833 0.00 0.00 33.27 3.32
4524 5387 3.678548 CGTAGAAACCAACCTCAGTTAGC 59.321 47.826 0.00 0.00 33.27 3.09
4525 5388 4.879598 ACGTAGAAACCAACCTCAGTTAG 58.120 43.478 0.00 0.00 33.27 2.34
4528 5391 3.304928 CGTACGTAGAAACCAACCTCAGT 60.305 47.826 7.22 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.