Multiple sequence alignment - TraesCS1D01G021500

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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 TraesCS1D01G021500 chr1D 100.000 2213 0 0 1 2213 9256776 9254564 0.000000e+00 4087
1 TraesCS1D01G021500 chr7D 85.438 1394 168 26 837 2210 20431765 20433143 0.000000e+00 1417
2 TraesCS1D01G021500 chr5D 86.024 1338 135 32 670 1988 38276369 38277673 0.000000e+00 1387
3 TraesCS1D01G021500 chr5D 91.743 109 9 0 2103 2211 38278022 38278130 3.810000e-33 152
4 TraesCS1D01G021500 chr6B 85.423 1372 152 33 670 2026 711365093 711366431 0.000000e+00 1382
5 TraesCS1D01G021500 chr6B 85.114 1357 156 24 866 2213 14021363 14020044 0.000000e+00 1345
6 TraesCS1D01G021500 chr6B 84.819 1357 160 23 866 2213 709010321 709009002 0.000000e+00 1323
7 TraesCS1D01G021500 chr6B 87.380 523 53 7 1692 2213 658559389 658559899 2.450000e-164 588
8 TraesCS1D01G021500 chr6B 92.473 93 7 0 2119 2211 711366453 711366545 1.380000e-27 134
9 TraesCS1D01G021500 chr1A 85.239 1382 157 32 670 2038 551193014 551191667 0.000000e+00 1378
10 TraesCS1D01G021500 chr1A 92.473 93 7 0 2119 2211 551191657 551191565 1.380000e-27 134
11 TraesCS1D01G021500 chr7B 84.758 1299 179 19 926 2213 265362339 265363629 0.000000e+00 1284
12 TraesCS1D01G021500 chr6A 84.377 1293 184 14 929 2213 615377639 615376357 0.000000e+00 1253
13 TraesCS1D01G021500 chr3D 89.583 912 67 15 576 1477 309696573 309697466 0.000000e+00 1133
14 TraesCS1D01G021500 chr3D 85.714 455 32 8 159 587 309696031 309696478 1.210000e-122 449
15 TraesCS1D01G021500 chr3B 86.306 942 118 10 1280 2213 750878425 750877487 0.000000e+00 1014
16 TraesCS1D01G021500 chr4B 86.499 874 113 5 1341 2212 63806650 63805780 0.000000e+00 955
17 TraesCS1D01G021500 chr2D 85.977 599 76 6 877 1474 595527707 595527116 3.100000e-178 634
18 TraesCS1D01G021500 chr6D 84.975 599 78 8 877 1474 455456837 455456250 4.070000e-167 597
19 TraesCS1D01G021500 chr2A 79.355 310 46 10 4 299 779331523 779331218 3.730000e-48 202
20 TraesCS1D01G021500 chr3A 93.750 80 4 1 4 82 735231377 735231298 3.860000e-23 119


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 TraesCS1D01G021500 chr1D 9254564 9256776 2212 True 4087.0 4087 100.0000 1 2213 1 chr1D.!!$R1 2212
1 TraesCS1D01G021500 chr7D 20431765 20433143 1378 False 1417.0 1417 85.4380 837 2210 1 chr7D.!!$F1 1373
2 TraesCS1D01G021500 chr5D 38276369 38278130 1761 False 769.5 1387 88.8835 670 2211 2 chr5D.!!$F1 1541
3 TraesCS1D01G021500 chr6B 14020044 14021363 1319 True 1345.0 1345 85.1140 866 2213 1 chr6B.!!$R1 1347
4 TraesCS1D01G021500 chr6B 709009002 709010321 1319 True 1323.0 1323 84.8190 866 2213 1 chr6B.!!$R2 1347
5 TraesCS1D01G021500 chr6B 711365093 711366545 1452 False 758.0 1382 88.9480 670 2211 2 chr6B.!!$F2 1541
6 TraesCS1D01G021500 chr6B 658559389 658559899 510 False 588.0 588 87.3800 1692 2213 1 chr6B.!!$F1 521
7 TraesCS1D01G021500 chr1A 551191565 551193014 1449 True 756.0 1378 88.8560 670 2211 2 chr1A.!!$R1 1541
8 TraesCS1D01G021500 chr7B 265362339 265363629 1290 False 1284.0 1284 84.7580 926 2213 1 chr7B.!!$F1 1287
9 TraesCS1D01G021500 chr6A 615376357 615377639 1282 True 1253.0 1253 84.3770 929 2213 1 chr6A.!!$R1 1284
10 TraesCS1D01G021500 chr3D 309696031 309697466 1435 False 791.0 1133 87.6485 159 1477 2 chr3D.!!$F1 1318
11 TraesCS1D01G021500 chr3B 750877487 750878425 938 True 1014.0 1014 86.3060 1280 2213 1 chr3B.!!$R1 933
12 TraesCS1D01G021500 chr4B 63805780 63806650 870 True 955.0 955 86.4990 1341 2212 1 chr4B.!!$R1 871
13 TraesCS1D01G021500 chr2D 595527116 595527707 591 True 634.0 634 85.9770 877 1474 1 chr2D.!!$R1 597
14 TraesCS1D01G021500 chr6D 455456250 455456837 587 True 597.0 597 84.9750 877 1474 1 chr6D.!!$R1 597

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
445 454 0.106669 GATTGGTTCCTAGGGTGGGC 60.107 60.0 9.46 0.0 0.0 5.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1447 1606 0.107897 TATGTGCCGGTGCGATTTCT 60.108 50.0 1.9 0.0 41.78 2.52 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
17 18 2.433664 CGTTGTACGTGGGCCTCC 60.434 66.667 4.53 0.00 36.74 4.30
18 19 2.433664 GTTGTACGTGGGCCTCCG 60.434 66.667 4.53 10.01 35.24 4.63
19 20 3.697747 TTGTACGTGGGCCTCCGG 61.698 66.667 18.00 0.00 35.24 5.14
21 22 4.446413 GTACGTGGGCCTCCGGTG 62.446 72.222 18.00 0.00 35.24 4.94
44 45 2.514013 CGGGATACGCAAGCACGTC 61.514 63.158 2.60 0.00 44.43 4.34
45 46 1.447140 GGGATACGCAAGCACGTCA 60.447 57.895 2.60 0.00 44.43 4.35
46 47 0.810031 GGGATACGCAAGCACGTCAT 60.810 55.000 2.60 0.00 44.43 3.06
47 48 0.301687 GGATACGCAAGCACGTCATG 59.698 55.000 2.60 0.00 44.43 3.07
48 49 0.999406 GATACGCAAGCACGTCATGT 59.001 50.000 2.60 0.00 44.43 3.21
57 58 2.754648 CACGTCATGTGCTACTGGG 58.245 57.895 0.00 0.00 42.70 4.45
58 59 1.079127 ACGTCATGTGCTACTGGGC 60.079 57.895 0.00 0.00 0.00 5.36
59 60 1.219124 CGTCATGTGCTACTGGGCT 59.781 57.895 0.00 0.00 0.00 5.19
60 61 1.086067 CGTCATGTGCTACTGGGCTG 61.086 60.000 0.00 0.00 0.00 4.85
61 62 0.250234 GTCATGTGCTACTGGGCTGA 59.750 55.000 0.00 0.00 0.00 4.26
62 63 1.134280 GTCATGTGCTACTGGGCTGAT 60.134 52.381 0.00 0.00 0.00 2.90
63 64 1.561076 TCATGTGCTACTGGGCTGATT 59.439 47.619 0.00 0.00 0.00 2.57
64 65 2.025981 TCATGTGCTACTGGGCTGATTT 60.026 45.455 0.00 0.00 0.00 2.17
65 66 1.825090 TGTGCTACTGGGCTGATTTG 58.175 50.000 0.00 0.00 0.00 2.32
66 67 1.350684 TGTGCTACTGGGCTGATTTGA 59.649 47.619 0.00 0.00 0.00 2.69
67 68 2.224744 TGTGCTACTGGGCTGATTTGAA 60.225 45.455 0.00 0.00 0.00 2.69
68 69 2.819608 GTGCTACTGGGCTGATTTGAAA 59.180 45.455 0.00 0.00 0.00 2.69
69 70 3.255642 GTGCTACTGGGCTGATTTGAAAA 59.744 43.478 0.00 0.00 0.00 2.29
70 71 4.082026 GTGCTACTGGGCTGATTTGAAAAT 60.082 41.667 0.00 0.00 0.00 1.82
71 72 5.125417 GTGCTACTGGGCTGATTTGAAAATA 59.875 40.000 0.00 0.00 0.00 1.40
72 73 5.357878 TGCTACTGGGCTGATTTGAAAATAG 59.642 40.000 0.00 0.00 0.00 1.73
73 74 4.725790 ACTGGGCTGATTTGAAAATAGC 57.274 40.909 7.87 7.87 0.00 2.97
74 75 4.088634 ACTGGGCTGATTTGAAAATAGCA 58.911 39.130 15.38 0.12 36.15 3.49
75 76 4.082026 ACTGGGCTGATTTGAAAATAGCAC 60.082 41.667 15.38 13.18 38.25 4.40
76 77 3.831333 TGGGCTGATTTGAAAATAGCACA 59.169 39.130 14.89 14.89 44.72 4.57
77 78 4.467082 TGGGCTGATTTGAAAATAGCACAT 59.533 37.500 14.89 0.00 42.33 3.21
78 79 4.807304 GGGCTGATTTGAAAATAGCACATG 59.193 41.667 15.38 0.00 37.71 3.21
79 80 5.413499 GGCTGATTTGAAAATAGCACATGT 58.587 37.500 15.38 0.00 36.15 3.21
80 81 6.405731 GGGCTGATTTGAAAATAGCACATGTA 60.406 38.462 15.38 0.00 37.71 2.29
81 82 6.694411 GGCTGATTTGAAAATAGCACATGTAG 59.306 38.462 15.38 0.00 36.15 2.74
82 83 6.197842 GCTGATTTGAAAATAGCACATGTAGC 59.802 38.462 0.00 5.03 34.64 3.58
83 84 7.395190 TGATTTGAAAATAGCACATGTAGCT 57.605 32.000 21.13 21.13 45.77 3.32
84 85 7.252708 TGATTTGAAAATAGCACATGTAGCTG 58.747 34.615 24.18 5.10 43.33 4.24
85 86 5.565592 TTGAAAATAGCACATGTAGCTGG 57.434 39.130 24.18 4.71 43.33 4.85
86 87 4.588899 TGAAAATAGCACATGTAGCTGGT 58.411 39.130 24.18 14.41 43.33 4.00
87 88 4.395854 TGAAAATAGCACATGTAGCTGGTG 59.604 41.667 24.18 0.57 43.33 4.17
88 89 2.627515 ATAGCACATGTAGCTGGTGG 57.372 50.000 24.18 2.76 43.33 4.61
89 90 0.541392 TAGCACATGTAGCTGGTGGG 59.459 55.000 24.18 0.00 43.33 4.61
90 91 1.200760 AGCACATGTAGCTGGTGGGA 61.201 55.000 18.13 0.00 41.61 4.37
91 92 0.745845 GCACATGTAGCTGGTGGGAG 60.746 60.000 0.00 0.00 33.25 4.30
92 93 0.107508 CACATGTAGCTGGTGGGAGG 60.108 60.000 0.00 0.00 0.00 4.30
93 94 1.274703 ACATGTAGCTGGTGGGAGGG 61.275 60.000 0.00 0.00 0.00 4.30
94 95 1.694169 ATGTAGCTGGTGGGAGGGG 60.694 63.158 0.00 0.00 0.00 4.79
95 96 3.090532 GTAGCTGGTGGGAGGGGG 61.091 72.222 0.00 0.00 0.00 5.40
96 97 3.622263 TAGCTGGTGGGAGGGGGT 61.622 66.667 0.00 0.00 0.00 4.95
97 98 3.943137 TAGCTGGTGGGAGGGGGTG 62.943 68.421 0.00 0.00 0.00 4.61
111 112 4.250305 GGTGGGCCGGTGCGATAT 62.250 66.667 1.90 0.00 38.85 1.63
112 113 2.203153 GTGGGCCGGTGCGATATT 60.203 61.111 1.90 0.00 38.85 1.28
113 114 1.070105 GTGGGCCGGTGCGATATTA 59.930 57.895 1.90 0.00 38.85 0.98
114 115 0.533308 GTGGGCCGGTGCGATATTAA 60.533 55.000 1.90 0.00 38.85 1.40
115 116 0.398696 TGGGCCGGTGCGATATTAAT 59.601 50.000 1.90 0.00 38.85 1.40
116 117 1.202830 TGGGCCGGTGCGATATTAATT 60.203 47.619 1.90 0.00 38.85 1.40
117 118 1.467342 GGGCCGGTGCGATATTAATTC 59.533 52.381 1.90 0.00 38.85 2.17
118 119 2.423577 GGCCGGTGCGATATTAATTCT 58.576 47.619 1.90 0.00 38.85 2.40
119 120 2.159627 GGCCGGTGCGATATTAATTCTG 59.840 50.000 1.90 0.00 38.85 3.02
120 121 2.159627 GCCGGTGCGATATTAATTCTGG 59.840 50.000 1.90 0.00 0.00 3.86
121 122 2.742053 CCGGTGCGATATTAATTCTGGG 59.258 50.000 0.00 0.00 0.00 4.45
122 123 2.159627 CGGTGCGATATTAATTCTGGGC 59.840 50.000 0.00 0.00 0.00 5.36
123 124 2.488153 GGTGCGATATTAATTCTGGGCC 59.512 50.000 0.00 0.00 0.00 5.80
124 125 2.488153 GTGCGATATTAATTCTGGGCCC 59.512 50.000 17.59 17.59 0.00 5.80
125 126 2.107378 TGCGATATTAATTCTGGGCCCA 59.893 45.455 26.67 26.67 0.00 5.36
126 127 3.245229 TGCGATATTAATTCTGGGCCCAT 60.245 43.478 28.82 13.82 0.00 4.00
127 128 3.378427 GCGATATTAATTCTGGGCCCATC 59.622 47.826 28.82 15.78 0.00 3.51
128 129 4.848357 CGATATTAATTCTGGGCCCATCT 58.152 43.478 28.82 12.62 0.00 2.90
129 130 4.637534 CGATATTAATTCTGGGCCCATCTG 59.362 45.833 28.82 14.98 0.00 2.90
130 131 2.754012 TTAATTCTGGGCCCATCTGG 57.246 50.000 28.82 14.54 37.09 3.86
142 143 4.827087 ATCTGGCGCCGCAGTCAG 62.827 66.667 23.90 12.75 0.00 3.51
147 148 3.118454 GCGCCGCAGTCAGCTTAA 61.118 61.111 3.15 0.00 42.61 1.85
148 149 2.778679 CGCCGCAGTCAGCTTAAC 59.221 61.111 0.00 0.00 42.61 2.01
149 150 2.027073 CGCCGCAGTCAGCTTAACA 61.027 57.895 0.00 0.00 42.61 2.41
150 151 1.497722 GCCGCAGTCAGCTTAACAC 59.502 57.895 0.00 0.00 42.61 3.32
151 152 1.912371 GCCGCAGTCAGCTTAACACC 61.912 60.000 0.00 0.00 42.61 4.16
152 153 1.626654 CCGCAGTCAGCTTAACACCG 61.627 60.000 0.00 0.00 42.61 4.94
153 154 1.626654 CGCAGTCAGCTTAACACCGG 61.627 60.000 0.00 0.00 42.61 5.28
154 155 0.320421 GCAGTCAGCTTAACACCGGA 60.320 55.000 9.46 0.00 41.15 5.14
155 156 1.876416 GCAGTCAGCTTAACACCGGAA 60.876 52.381 9.46 0.00 41.15 4.30
156 157 2.069273 CAGTCAGCTTAACACCGGAAG 58.931 52.381 9.46 1.45 0.00 3.46
157 158 0.796927 GTCAGCTTAACACCGGAAGC 59.203 55.000 9.46 13.58 46.88 3.86
162 163 4.745751 TAACACCGGAAGCGGCGG 62.746 66.667 9.46 0.00 0.00 6.13
175 176 1.579429 CGGCGGTTTTCTTTCCCTG 59.421 57.895 0.00 0.00 0.00 4.45
177 178 1.289066 GCGGTTTTCTTTCCCTGGC 59.711 57.895 0.00 0.00 0.00 4.85
183 184 1.729267 TTTCTTTCCCTGGCCAGCCT 61.729 55.000 28.39 0.00 36.94 4.58
198 199 0.760945 AGCCTACTCATCCCCTTCCG 60.761 60.000 0.00 0.00 0.00 4.30
206 207 0.689745 CATCCCCTTCCGGTGGTAGA 60.690 60.000 0.00 5.13 0.00 2.59
210 211 0.909623 CCCTTCCGGTGGTAGATGTT 59.090 55.000 0.00 0.00 0.00 2.71
211 212 1.134491 CCCTTCCGGTGGTAGATGTTC 60.134 57.143 0.00 0.00 0.00 3.18
212 213 1.470979 CCTTCCGGTGGTAGATGTTCG 60.471 57.143 0.00 0.00 0.00 3.95
219 220 1.591863 GGTAGATGTTCGGAGCGGC 60.592 63.158 0.00 0.00 0.00 6.53
251 252 2.933260 GGATTGCCTCGAGTTCTTCTTC 59.067 50.000 12.31 0.00 0.00 2.87
286 287 1.070786 GGTGAGAACGAACCTGCCA 59.929 57.895 0.00 0.00 33.40 4.92
292 293 0.539986 GAACGAACCTGCCATCCCTA 59.460 55.000 0.00 0.00 0.00 3.53
305 306 2.489802 CCATCCCTATTTCTCTTGCCCC 60.490 54.545 0.00 0.00 0.00 5.80
360 369 2.755952 ATTATGCTCCTTGGTTCCCC 57.244 50.000 0.00 0.00 0.00 4.81
361 370 0.254747 TTATGCTCCTTGGTTCCCCG 59.745 55.000 0.00 0.00 0.00 5.73
362 371 1.632018 TATGCTCCTTGGTTCCCCGG 61.632 60.000 0.00 0.00 0.00 5.73
371 380 0.178897 TGGTTCCCCGGGTTCTTCTA 60.179 55.000 21.85 0.00 0.00 2.10
408 417 6.987404 GGTTGGATCTGACTAGTTAAGAATCC 59.013 42.308 11.86 16.02 0.00 3.01
411 420 6.897966 TGGATCTGACTAGTTAAGAATCCTGT 59.102 38.462 21.86 7.83 0.00 4.00
412 421 8.059461 TGGATCTGACTAGTTAAGAATCCTGTA 58.941 37.037 21.86 11.24 0.00 2.74
413 422 9.084533 GGATCTGACTAGTTAAGAATCCTGTAT 57.915 37.037 11.86 0.00 0.00 2.29
423 432 8.880244 AGTTAAGAATCCTGTATATATGTGCCA 58.120 33.333 0.00 0.00 0.00 4.92
430 439 6.466812 TCCTGTATATATGTGCCACAGATTG 58.533 40.000 10.60 0.00 39.13 2.67
444 453 1.212935 CAGATTGGTTCCTAGGGTGGG 59.787 57.143 9.46 0.00 0.00 4.61
445 454 0.106669 GATTGGTTCCTAGGGTGGGC 60.107 60.000 9.46 0.00 0.00 5.36
446 455 0.552615 ATTGGTTCCTAGGGTGGGCT 60.553 55.000 9.46 0.00 0.00 5.19
457 484 2.203070 GTGGGCTGCGGAATCGAT 60.203 61.111 0.00 0.00 39.00 3.59
470 497 3.181490 CGGAATCGATGTTGTGGAGTCTA 60.181 47.826 0.00 0.00 39.00 2.59
500 527 1.524621 ATCAATGAAGCTCGCGGGG 60.525 57.895 8.71 1.20 0.00 5.73
501 528 3.880846 CAATGAAGCTCGCGGGGC 61.881 66.667 8.71 12.71 0.00 5.80
515 542 1.152525 GGGGCGGTCCTCTGATCTA 60.153 63.158 0.00 0.00 35.33 1.98
531 558 5.300539 TCTGATCTAATCTCTTCTGAACCCG 59.699 44.000 0.00 0.00 0.00 5.28
561 588 1.347817 GAGCGTCAAGGAGCAGTTCG 61.348 60.000 0.00 0.00 35.48 3.95
564 591 0.108615 CGTCAAGGAGCAGTTCGGAT 60.109 55.000 0.00 0.00 0.00 4.18
569 596 1.450312 GGAGCAGTTCGGATGGGTG 60.450 63.158 0.00 0.00 0.00 4.61
575 602 3.395702 TTCGGATGGGTGGACGGG 61.396 66.667 0.00 0.00 0.00 5.28
577 604 3.849951 CGGATGGGTGGACGGGAG 61.850 72.222 0.00 0.00 0.00 4.30
588 615 2.997897 ACGGGAGTGGTGCCTCTC 60.998 66.667 10.83 10.83 44.82 3.20
590 617 2.362369 CGGGAGTGGTGCCTCTCAT 61.362 63.158 18.39 0.00 38.05 2.90
603 737 2.363683 CCTCTCATCAACTCAAAGGGC 58.636 52.381 0.00 0.00 0.00 5.19
604 738 2.363683 CTCTCATCAACTCAAAGGGCC 58.636 52.381 0.00 0.00 0.00 5.80
609 743 2.118294 AACTCAAAGGGCCCCTGC 59.882 61.111 21.43 0.00 32.13 4.85
634 768 2.159198 ACTCGACGGTAACAAACACACT 60.159 45.455 0.00 0.00 0.00 3.55
638 772 2.466846 ACGGTAACAAACACACTCTCG 58.533 47.619 0.00 0.00 0.00 4.04
680 814 1.062581 AGAGCAGAGATTCTAGGCCCA 60.063 52.381 0.00 0.00 0.00 5.36
689 823 0.325296 TTCTAGGCCCATGGACTCGT 60.325 55.000 15.22 6.20 35.03 4.18
694 828 1.448540 GCCCATGGACTCGTCTGTG 60.449 63.158 15.22 0.00 0.00 3.66
709 843 3.488489 GTCTGTGACACAAAACACACAC 58.512 45.455 10.02 0.00 41.19 3.82
730 864 4.095483 CACATTGAAGAGTTCACCTATGGC 59.905 45.833 0.00 0.00 39.87 4.40
740 874 4.278419 AGTTCACCTATGGCTGAACAAAAC 59.722 41.667 16.72 1.33 41.50 2.43
744 878 5.127845 TCACCTATGGCTGAACAAAACAAAA 59.872 36.000 0.00 0.00 0.00 2.44
745 879 5.234116 CACCTATGGCTGAACAAAACAAAAC 59.766 40.000 0.00 0.00 0.00 2.43
752 886 6.027131 GGCTGAACAAAACAAAACAAAATCC 58.973 36.000 0.00 0.00 0.00 3.01
792 927 9.806203 TTGATGCTATCTTGAAAACCATAATTG 57.194 29.630 0.00 0.00 0.00 2.32
803 938 7.822658 TGAAAACCATAATTGTACAACTAGGC 58.177 34.615 11.22 0.00 0.00 3.93
814 950 1.002366 CAACTAGGCGTCATGCTGTC 58.998 55.000 0.00 0.00 45.43 3.51
835 971 8.366666 GCTGTCGATCGTAGTTTTATGATTATC 58.633 37.037 15.94 0.00 36.01 1.75
860 1003 9.653287 TCGATCAACAGTTAATCTTTTGATAGT 57.347 29.630 14.16 1.69 46.83 2.12
916 1062 8.194769 AGAAAATACAGTTAACACCTTTGTTGG 58.805 33.333 8.61 0.00 45.91 3.77
917 1063 7.648039 AAATACAGTTAACACCTTTGTTGGA 57.352 32.000 8.61 0.00 45.91 3.53
945 1091 4.074970 ACTGAAGTGTTAGGATTGGCAAG 58.925 43.478 5.96 0.00 0.00 4.01
964 1110 1.215673 AGGCGTCAGAAGAGAGGGATA 59.784 52.381 0.00 0.00 0.00 2.59
1076 1222 4.130118 ACTAGCTTTGACACAGTTGAAGG 58.870 43.478 0.00 0.00 0.00 3.46
1119 1265 0.907230 ACTCCTGGGAGACTGGCTTC 60.907 60.000 21.86 0.00 44.53 3.86
1133 1279 1.141019 GCTTCGGCGTCAGGTATGA 59.859 57.895 6.85 0.00 0.00 2.15
1150 1296 1.761449 TGACAAAAGCAGGCTGAACA 58.239 45.000 20.86 3.83 0.00 3.18
1160 1306 1.135094 AGGCTGAACATCCATCGGAT 58.865 50.000 0.00 0.00 44.21 4.18
1191 1337 1.730547 GGAGTTTGTGTGCGCATGC 60.731 57.895 15.91 7.91 43.20 4.06
1307 1466 0.965439 TGCAGGGTAAACCATTGCAC 59.035 50.000 20.22 0.00 46.24 4.57
1336 1495 1.078759 CGCTCGACAAGGTGTGGATC 61.079 60.000 0.00 0.00 34.66 3.36
1406 1565 4.924305 ATGTGAACACAAAACAGAGCAT 57.076 36.364 11.60 0.00 45.41 3.79
1447 1606 4.286297 ACTGTATGGAAAAGCTGCACTA 57.714 40.909 1.02 0.00 0.00 2.74
1496 1655 9.256228 AGATATACCAGAGACTTAGTGAAACAA 57.744 33.333 0.00 0.00 41.43 2.83
1498 1657 4.704965 ACCAGAGACTTAGTGAAACAACC 58.295 43.478 0.00 0.00 41.43 3.77
1541 1700 2.290641 GAGCAAGGTTTACAGTGTGGTG 59.709 50.000 5.88 0.00 0.00 4.17
1595 1755 5.064962 GCCATTCACAAAGAGATCTCTCAAG 59.935 44.000 25.29 18.78 45.21 3.02
1607 1767 4.222588 AGATCTCTCAAGACTCTTTGTGGG 59.777 45.833 0.00 0.00 33.32 4.61
1671 1835 0.310543 GAGGTGTTCAACGCAATGCA 59.689 50.000 5.91 0.00 0.00 3.96
1683 1847 0.822164 GCAATGCAGGGCTGAAGATT 59.178 50.000 0.00 0.00 0.00 2.40
1714 1878 9.801873 GTTTAAATACAATGTGCAGGTTGATAT 57.198 29.630 15.70 8.33 0.00 1.63
1723 1887 4.202441 GTGCAGGTTGATATTGATGGTCT 58.798 43.478 0.00 0.00 0.00 3.85
1744 1908 6.611613 TCTAGTCAAGACTTTGATGTGGAT 57.388 37.500 8.17 0.00 44.62 3.41
1802 1967 2.666022 CGATGCTGTCACGTTTGATACA 59.334 45.455 0.00 0.00 33.11 2.29
1847 2012 3.244976 CATGCCATTCGGTCTTTTTGTC 58.755 45.455 0.00 0.00 33.28 3.18
1897 2062 2.064434 TTTGGTGGTGTGCTGATGAA 57.936 45.000 0.00 0.00 0.00 2.57
1950 2121 7.659390 GGATATTTACAGAGTTCTTCCAGATGG 59.341 40.741 0.00 0.00 0.00 3.51
1963 2134 0.387202 CAGATGGTAGGAGCTCCACG 59.613 60.000 33.90 12.66 38.89 4.94
1983 2154 0.392998 GCCACGGACAATCCTCACAT 60.393 55.000 0.00 0.00 33.30 3.21
2017 2193 6.681729 AATGTTCCCTTCTAGTTGTGACTA 57.318 37.500 0.00 0.00 37.33 2.59
2026 2203 8.043710 CCCTTCTAGTTGTGACTATTGATCTTT 58.956 37.037 0.00 0.00 37.71 2.52
2069 2246 1.540267 TTTTTCCCCTGGTATGTGCG 58.460 50.000 0.00 0.00 0.00 5.34
2073 2250 2.202878 CCCTGGTATGTGCGGACG 60.203 66.667 1.60 0.00 0.00 4.79
2188 2593 2.345876 GCTGAAGAAAGCAGAGGAGTC 58.654 52.381 0.00 0.00 43.01 3.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 2.433664 CGGAGGCCCACGTACAAC 60.434 66.667 0.00 0.00 0.00 3.32
26 27 2.508439 ACGTGCTTGCGTATCCCG 60.508 61.111 0.00 0.00 43.83 5.14
27 28 0.810031 ATGACGTGCTTGCGTATCCC 60.810 55.000 0.00 0.00 45.79 3.85
28 29 0.301687 CATGACGTGCTTGCGTATCC 59.698 55.000 0.00 0.00 45.79 2.59
29 30 0.999406 ACATGACGTGCTTGCGTATC 59.001 50.000 0.00 0.00 45.79 2.24
30 31 0.721154 CACATGACGTGCTTGCGTAT 59.279 50.000 0.00 0.00 45.79 3.06
31 32 2.149555 CACATGACGTGCTTGCGTA 58.850 52.632 0.00 0.00 45.79 4.42
40 41 1.079127 GCCCAGTAGCACATGACGT 60.079 57.895 0.00 0.00 0.00 4.34
41 42 1.086067 CAGCCCAGTAGCACATGACG 61.086 60.000 0.00 0.00 34.23 4.35
42 43 0.250234 TCAGCCCAGTAGCACATGAC 59.750 55.000 0.00 0.00 34.23 3.06
43 44 1.206878 ATCAGCCCAGTAGCACATGA 58.793 50.000 0.00 0.00 34.23 3.07
44 45 2.048444 AATCAGCCCAGTAGCACATG 57.952 50.000 0.00 0.00 34.23 3.21
45 46 2.025981 TCAAATCAGCCCAGTAGCACAT 60.026 45.455 0.00 0.00 34.23 3.21
46 47 1.350684 TCAAATCAGCCCAGTAGCACA 59.649 47.619 0.00 0.00 34.23 4.57
47 48 2.113860 TCAAATCAGCCCAGTAGCAC 57.886 50.000 0.00 0.00 34.23 4.40
48 49 2.877097 TTCAAATCAGCCCAGTAGCA 57.123 45.000 0.00 0.00 34.23 3.49
49 50 4.725790 ATTTTCAAATCAGCCCAGTAGC 57.274 40.909 0.00 0.00 0.00 3.58
50 51 5.357878 TGCTATTTTCAAATCAGCCCAGTAG 59.642 40.000 2.00 0.00 30.71 2.57
51 52 5.125417 GTGCTATTTTCAAATCAGCCCAGTA 59.875 40.000 2.00 0.00 30.71 2.74
52 53 4.082026 GTGCTATTTTCAAATCAGCCCAGT 60.082 41.667 2.00 0.00 30.71 4.00
53 54 4.082081 TGTGCTATTTTCAAATCAGCCCAG 60.082 41.667 2.00 0.00 30.71 4.45
54 55 3.831333 TGTGCTATTTTCAAATCAGCCCA 59.169 39.130 2.00 0.00 30.71 5.36
55 56 4.454728 TGTGCTATTTTCAAATCAGCCC 57.545 40.909 2.00 0.00 30.71 5.19
56 57 5.413499 ACATGTGCTATTTTCAAATCAGCC 58.587 37.500 0.00 0.00 30.71 4.85
57 58 6.197842 GCTACATGTGCTATTTTCAAATCAGC 59.802 38.462 9.11 0.00 0.00 4.26
58 59 7.431376 CAGCTACATGTGCTATTTTCAAATCAG 59.569 37.037 18.31 0.62 38.92 2.90
59 60 7.252708 CAGCTACATGTGCTATTTTCAAATCA 58.747 34.615 18.31 0.00 38.92 2.57
60 61 6.694411 CCAGCTACATGTGCTATTTTCAAATC 59.306 38.462 18.31 0.00 38.92 2.17
61 62 6.153340 ACCAGCTACATGTGCTATTTTCAAAT 59.847 34.615 18.31 0.00 38.92 2.32
62 63 5.476599 ACCAGCTACATGTGCTATTTTCAAA 59.523 36.000 18.31 0.00 38.92 2.69
63 64 5.009631 ACCAGCTACATGTGCTATTTTCAA 58.990 37.500 18.31 0.00 38.92 2.69
64 65 4.395854 CACCAGCTACATGTGCTATTTTCA 59.604 41.667 18.31 0.00 38.92 2.69
65 66 4.201950 CCACCAGCTACATGTGCTATTTTC 60.202 45.833 18.31 0.00 38.92 2.29
66 67 3.696051 CCACCAGCTACATGTGCTATTTT 59.304 43.478 18.31 5.05 38.92 1.82
67 68 3.282021 CCACCAGCTACATGTGCTATTT 58.718 45.455 18.31 6.92 38.92 1.40
68 69 2.421952 CCCACCAGCTACATGTGCTATT 60.422 50.000 18.31 8.81 38.92 1.73
69 70 1.141657 CCCACCAGCTACATGTGCTAT 59.858 52.381 18.31 10.00 38.92 2.97
70 71 0.541392 CCCACCAGCTACATGTGCTA 59.459 55.000 18.31 0.00 38.92 3.49
71 72 1.200760 TCCCACCAGCTACATGTGCT 61.201 55.000 9.11 12.48 42.06 4.40
72 73 0.745845 CTCCCACCAGCTACATGTGC 60.746 60.000 9.11 10.27 0.00 4.57
73 74 0.107508 CCTCCCACCAGCTACATGTG 60.108 60.000 9.11 0.00 0.00 3.21
74 75 1.274703 CCCTCCCACCAGCTACATGT 61.275 60.000 2.69 2.69 0.00 3.21
75 76 1.528824 CCCTCCCACCAGCTACATG 59.471 63.158 0.00 0.00 0.00 3.21
76 77 1.694169 CCCCTCCCACCAGCTACAT 60.694 63.158 0.00 0.00 0.00 2.29
77 78 2.285368 CCCCTCCCACCAGCTACA 60.285 66.667 0.00 0.00 0.00 2.74
78 79 3.090532 CCCCCTCCCACCAGCTAC 61.091 72.222 0.00 0.00 0.00 3.58
79 80 3.622263 ACCCCCTCCCACCAGCTA 61.622 66.667 0.00 0.00 0.00 3.32
94 95 2.386064 TAATATCGCACCGGCCCACC 62.386 60.000 0.00 0.00 36.38 4.61
95 96 0.533308 TTAATATCGCACCGGCCCAC 60.533 55.000 0.00 0.00 36.38 4.61
96 97 0.398696 ATTAATATCGCACCGGCCCA 59.601 50.000 0.00 0.00 36.38 5.36
97 98 1.467342 GAATTAATATCGCACCGGCCC 59.533 52.381 0.00 0.00 36.38 5.80
98 99 2.159627 CAGAATTAATATCGCACCGGCC 59.840 50.000 0.00 0.00 36.38 6.13
99 100 2.159627 CCAGAATTAATATCGCACCGGC 59.840 50.000 0.00 0.00 0.00 6.13
100 101 2.742053 CCCAGAATTAATATCGCACCGG 59.258 50.000 0.00 0.00 0.00 5.28
101 102 2.159627 GCCCAGAATTAATATCGCACCG 59.840 50.000 0.00 0.00 0.00 4.94
102 103 2.488153 GGCCCAGAATTAATATCGCACC 59.512 50.000 0.00 0.00 0.00 5.01
103 104 2.488153 GGGCCCAGAATTAATATCGCAC 59.512 50.000 19.95 0.00 0.00 5.34
104 105 2.107378 TGGGCCCAGAATTAATATCGCA 59.893 45.455 24.45 0.00 0.00 5.10
105 106 2.790433 TGGGCCCAGAATTAATATCGC 58.210 47.619 24.45 0.00 0.00 4.58
106 107 4.637534 CAGATGGGCCCAGAATTAATATCG 59.362 45.833 31.97 11.40 0.00 2.92
107 108 4.952335 CCAGATGGGCCCAGAATTAATATC 59.048 45.833 31.97 19.02 0.00 1.63
108 109 4.939255 CCAGATGGGCCCAGAATTAATAT 58.061 43.478 31.97 9.98 0.00 1.28
109 110 4.387026 CCAGATGGGCCCAGAATTAATA 57.613 45.455 31.97 2.06 0.00 0.98
110 111 3.249481 CCAGATGGGCCCAGAATTAAT 57.751 47.619 31.97 11.78 0.00 1.40
111 112 2.754012 CCAGATGGGCCCAGAATTAA 57.246 50.000 31.97 3.90 0.00 1.40
125 126 4.827087 CTGACTGCGGCGCCAGAT 62.827 66.667 30.82 11.97 36.67 2.90
135 136 0.320421 TCCGGTGTTAAGCTGACTGC 60.320 55.000 0.00 0.00 43.29 4.40
136 137 2.069273 CTTCCGGTGTTAAGCTGACTG 58.931 52.381 0.00 0.00 0.00 3.51
137 138 1.608283 GCTTCCGGTGTTAAGCTGACT 60.608 52.381 16.23 0.00 43.77 3.41
138 139 0.796927 GCTTCCGGTGTTAAGCTGAC 59.203 55.000 16.23 0.00 43.77 3.51
139 140 0.669318 CGCTTCCGGTGTTAAGCTGA 60.669 55.000 19.79 0.00 44.72 4.26
140 141 1.787847 CGCTTCCGGTGTTAAGCTG 59.212 57.895 19.79 11.63 44.72 4.24
141 142 4.278956 CGCTTCCGGTGTTAAGCT 57.721 55.556 19.79 0.00 44.72 3.74
151 152 2.125202 AAAGAAAACCGCCGCTTCCG 62.125 55.000 0.00 0.00 0.00 4.30
152 153 0.386858 GAAAGAAAACCGCCGCTTCC 60.387 55.000 0.00 0.00 0.00 3.46
153 154 0.386858 GGAAAGAAAACCGCCGCTTC 60.387 55.000 0.00 0.00 0.00 3.86
154 155 1.658114 GGAAAGAAAACCGCCGCTT 59.342 52.632 0.00 0.00 0.00 4.68
155 156 2.265904 GGGAAAGAAAACCGCCGCT 61.266 57.895 0.00 0.00 0.00 5.52
156 157 2.257371 GGGAAAGAAAACCGCCGC 59.743 61.111 0.00 0.00 0.00 6.53
157 158 1.579429 CAGGGAAAGAAAACCGCCG 59.421 57.895 0.00 0.00 0.00 6.46
162 163 0.318441 GCTGGCCAGGGAAAGAAAAC 59.682 55.000 33.46 9.38 0.00 2.43
175 176 2.823758 GGGGATGAGTAGGCTGGCC 61.824 68.421 3.00 3.00 0.00 5.36
177 178 0.761802 GAAGGGGATGAGTAGGCTGG 59.238 60.000 0.00 0.00 0.00 4.85
198 199 0.527817 CGCTCCGAACATCTACCACC 60.528 60.000 0.00 0.00 0.00 4.61
206 207 1.883084 GAATCGCCGCTCCGAACAT 60.883 57.895 0.00 0.00 41.01 2.71
219 220 1.283793 GGCAATCCATGGCGAATCG 59.716 57.895 6.96 0.00 45.46 3.34
234 235 1.200252 CTCGAAGAAGAACTCGAGGCA 59.800 52.381 18.41 0.00 45.55 4.75
251 252 0.539051 ACCCTGATTCTGCTTCCTCG 59.461 55.000 0.00 0.00 0.00 4.63
286 287 2.444766 CAGGGGCAAGAGAAATAGGGAT 59.555 50.000 0.00 0.00 0.00 3.85
292 293 4.385754 GGACTAATCAGGGGCAAGAGAAAT 60.386 45.833 0.00 0.00 0.00 2.17
305 306 6.998968 AGATTTTGCTTCTGGACTAATCAG 57.001 37.500 0.00 0.00 0.00 2.90
360 369 1.751924 CAGAGGGAGTAGAAGAACCCG 59.248 57.143 0.00 0.00 46.13 5.28
361 370 2.822697 ACAGAGGGAGTAGAAGAACCC 58.177 52.381 0.00 0.00 42.36 4.11
362 371 3.055747 CCAACAGAGGGAGTAGAAGAACC 60.056 52.174 0.00 0.00 0.00 3.62
371 380 1.630878 GATCCAACCAACAGAGGGAGT 59.369 52.381 0.00 0.00 0.00 3.85
408 417 6.732531 CCAATCTGTGGCACATATATACAG 57.267 41.667 22.35 6.85 44.52 2.74
423 432 1.916181 CCACCCTAGGAACCAATCTGT 59.084 52.381 11.48 0.00 0.00 3.41
430 439 2.998949 CAGCCCACCCTAGGAACC 59.001 66.667 11.48 0.00 0.00 3.62
444 453 0.247814 CACAACATCGATTCCGCAGC 60.248 55.000 0.00 0.00 35.37 5.25
445 454 0.374758 CCACAACATCGATTCCGCAG 59.625 55.000 0.00 0.00 35.37 5.18
446 455 0.036858 TCCACAACATCGATTCCGCA 60.037 50.000 0.00 0.00 35.37 5.69
457 484 2.371841 AGCAACCATAGACTCCACAACA 59.628 45.455 0.00 0.00 0.00 3.33
500 527 3.153919 AGAGATTAGATCAGAGGACCGC 58.846 50.000 0.00 0.00 0.00 5.68
501 528 5.048782 CAGAAGAGATTAGATCAGAGGACCG 60.049 48.000 0.00 0.00 0.00 4.79
502 529 6.068010 TCAGAAGAGATTAGATCAGAGGACC 58.932 44.000 0.00 0.00 0.00 4.46
503 530 7.425606 GTTCAGAAGAGATTAGATCAGAGGAC 58.574 42.308 0.00 0.00 0.00 3.85
510 537 5.285651 CACGGGTTCAGAAGAGATTAGATC 58.714 45.833 0.00 0.00 0.00 2.75
515 542 2.257207 TCCACGGGTTCAGAAGAGATT 58.743 47.619 0.00 0.00 0.00 2.40
547 574 0.250234 CCATCCGAACTGCTCCTTGA 59.750 55.000 0.00 0.00 0.00 3.02
561 588 2.687566 ACTCCCGTCCACCCATCC 60.688 66.667 0.00 0.00 0.00 3.51
564 591 4.567597 ACCACTCCCGTCCACCCA 62.568 66.667 0.00 0.00 0.00 4.51
569 596 4.083862 GAGGCACCACTCCCGTCC 62.084 72.222 0.00 0.00 0.00 4.79
575 602 1.277557 AGTTGATGAGAGGCACCACTC 59.722 52.381 7.14 7.14 37.77 3.51
577 604 1.002430 TGAGTTGATGAGAGGCACCAC 59.998 52.381 0.00 0.00 0.00 4.16
587 614 0.039618 GGGGCCCTTTGAGTTGATGA 59.960 55.000 24.38 0.00 0.00 2.92
588 615 0.040204 AGGGGCCCTTTGAGTTGATG 59.960 55.000 22.67 0.00 0.00 3.07
590 617 1.460255 CAGGGGCCCTTTGAGTTGA 59.540 57.895 26.34 0.00 0.00 3.18
603 737 4.135153 CGTCGAGTCCAGCAGGGG 62.135 72.222 0.00 0.00 37.22 4.79
604 738 4.135153 CCGTCGAGTCCAGCAGGG 62.135 72.222 0.00 0.00 34.83 4.45
609 743 2.056577 GTTTGTTACCGTCGAGTCCAG 58.943 52.381 0.00 0.00 0.00 3.86
634 768 5.163663 ACAGCAAAAGAAATGACAAACGAGA 60.164 36.000 0.00 0.00 0.00 4.04
638 772 7.985634 TCTAACAGCAAAAGAAATGACAAAC 57.014 32.000 0.00 0.00 0.00 2.93
680 814 1.328279 TGTGTCACAGACGAGTCCAT 58.672 50.000 0.18 0.00 34.95 3.41
689 823 3.142174 TGTGTGTGTTTTGTGTCACAGA 58.858 40.909 5.67 0.00 43.67 3.41
694 828 5.398169 TCTTCAATGTGTGTGTTTTGTGTC 58.602 37.500 0.00 0.00 0.00 3.67
709 843 4.334759 CAGCCATAGGTGAACTCTTCAATG 59.665 45.833 0.00 0.00 44.53 2.82
730 864 6.374053 AGGGGATTTTGTTTTGTTTTGTTCAG 59.626 34.615 0.00 0.00 0.00 3.02
740 874 6.934056 TGATATGACAGGGGATTTTGTTTTG 58.066 36.000 0.00 0.00 0.00 2.44
744 878 6.896860 TCAAATGATATGACAGGGGATTTTGT 59.103 34.615 0.00 0.00 0.00 2.83
745 879 7.350744 TCAAATGATATGACAGGGGATTTTG 57.649 36.000 0.00 0.00 0.00 2.44
752 886 7.110810 AGATAGCATCAAATGATATGACAGGG 58.889 38.462 2.67 0.00 41.51 4.45
792 927 1.927174 CAGCATGACGCCTAGTTGTAC 59.073 52.381 0.00 0.00 44.04 2.90
844 980 8.803397 ACAGGGGTAACTATCAAAAGATTAAC 57.197 34.615 0.00 0.00 0.00 2.01
846 982 8.607713 TGAACAGGGGTAACTATCAAAAGATTA 58.392 33.333 0.00 0.00 0.00 1.75
849 985 6.442541 TGAACAGGGGTAACTATCAAAAGA 57.557 37.500 0.00 0.00 0.00 2.52
850 986 6.318900 GGATGAACAGGGGTAACTATCAAAAG 59.681 42.308 0.00 0.00 0.00 2.27
859 1002 0.107361 CCGGGATGAACAGGGGTAAC 60.107 60.000 0.00 0.00 0.00 2.50
860 1003 0.548197 ACCGGGATGAACAGGGGTAA 60.548 55.000 6.32 0.00 0.00 2.85
862 1005 2.204090 ACCGGGATGAACAGGGGT 60.204 61.111 6.32 0.00 0.00 4.95
945 1091 1.338655 GTATCCCTCTCTTCTGACGCC 59.661 57.143 0.00 0.00 0.00 5.68
964 1110 0.178990 GGGACTCTGCTTGGTTTGGT 60.179 55.000 0.00 0.00 0.00 3.67
1133 1279 1.615392 GGATGTTCAGCCTGCTTTTGT 59.385 47.619 0.00 0.00 0.00 2.83
1150 1296 3.827876 TGCATGCATTTTATCCGATGGAT 59.172 39.130 18.46 3.49 45.40 3.41
1160 1306 4.039004 ACACAAACTCCTGCATGCATTTTA 59.961 37.500 22.97 6.05 0.00 1.52
1191 1337 1.086696 AATGAATTGTCCTCACCGCG 58.913 50.000 0.00 0.00 0.00 6.46
1307 1466 1.221466 TTGTCGAGCGGCTGTTTGAG 61.221 55.000 7.50 0.00 0.00 3.02
1352 1511 5.248020 CCCCTTATCATCAGATCTAAGCACT 59.752 44.000 0.00 0.00 35.67 4.40
1406 1565 6.765403 ACAGTTAACTAAGAGTGCATGGTTA 58.235 36.000 8.04 0.00 0.00 2.85
1447 1606 0.107897 TATGTGCCGGTGCGATTTCT 60.108 50.000 1.90 0.00 41.78 2.52
1487 1646 5.975693 TGTTTTCTCTTGGTTGTTTCACT 57.024 34.783 0.00 0.00 0.00 3.41
1496 1655 7.175104 TCAGGCTTATATTGTTTTCTCTTGGT 58.825 34.615 0.00 0.00 0.00 3.67
1498 1657 7.148188 TGCTCAGGCTTATATTGTTTTCTCTTG 60.148 37.037 0.00 0.00 39.59 3.02
1595 1755 5.820947 TCTGTTAAGTTTCCCACAAAGAGTC 59.179 40.000 0.00 0.00 0.00 3.36
1607 1767 7.426929 TTCTGATTGCTCTCTGTTAAGTTTC 57.573 36.000 0.00 0.00 0.00 2.78
1671 1835 5.505181 TTAAACTCAGAATCTTCAGCCCT 57.495 39.130 0.00 0.00 0.00 5.19
1683 1847 6.714810 ACCTGCACATTGTATTTAAACTCAGA 59.285 34.615 0.00 0.00 0.00 3.27
1723 1887 7.676004 TGTTATCCACATCAAAGTCTTGACTA 58.324 34.615 3.52 0.00 44.28 2.59
1744 1908 3.374764 TGCTCTATGCTTCTCCCTGTTA 58.625 45.455 0.00 0.00 43.37 2.41
1835 2000 1.292061 TGACACCGACAAAAAGACCG 58.708 50.000 0.00 0.00 0.00 4.79
1847 2012 2.217750 TGGAAGTGATTGTTGACACCG 58.782 47.619 0.00 0.00 37.69 4.94
1897 2062 4.988540 TGAAAGTGTCGATTTTCTCATCGT 59.011 37.500 16.03 0.00 45.28 3.73
1950 2121 3.075005 TGGCCGTGGAGCTCCTAC 61.075 66.667 32.28 25.02 36.82 3.18
1963 2134 1.745489 GTGAGGATTGTCCGTGGCC 60.745 63.158 0.00 0.00 42.75 5.36
2001 2177 9.442047 AAAAGATCAATAGTCACAACTAGAAGG 57.558 33.333 0.00 0.00 41.22 3.46
2054 2231 2.039787 TCCGCACATACCAGGGGA 59.960 61.111 0.00 0.00 43.58 4.81
2056 2233 2.202878 CGTCCGCACATACCAGGG 60.203 66.667 0.00 0.00 0.00 4.45
2069 2246 1.268692 GGAACCAACCGTTTTTCGTCC 60.269 52.381 0.00 0.00 33.74 4.79
2073 2250 3.074504 GTCTGGAACCAACCGTTTTTC 57.925 47.619 0.00 0.00 33.74 2.29
2088 2266 1.741706 CATTGCACTAGCTTGGTCTGG 59.258 52.381 0.00 0.00 42.74 3.86
2117 2522 7.301868 TGTATGTGGCATGACATCTTCTATA 57.698 36.000 3.50 0.00 37.70 1.31
2181 2586 2.610859 TGGCCCAAGGGACTCCTC 60.611 66.667 13.21 0.00 45.59 3.71
2183 2588 2.936032 AGTGGCCCAAGGGACTCC 60.936 66.667 13.21 2.84 45.59 3.85
2188 2593 2.273449 CTAGCAGTGGCCCAAGGG 59.727 66.667 0.00 0.00 42.56 3.95


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

AutoCloner maintained by Alex Coulton.