Multiple sequence alignment - TraesCS1B01G195900

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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 TraesCS1B01G195900 chr1B 100.000 3656 0 0 1 3656 352336604 352332949 0.000000e+00 6752.0
1 TraesCS1B01G195900 chr1B 91.045 201 16 1 2971 3169 167605169 167604969 1.670000e-68 270.0
2 TraesCS1B01G195900 chr1B 96.460 113 4 0 1 113 526342859 526342747 1.730000e-43 187.0
3 TraesCS1B01G195900 chr1A 93.875 2890 142 14 110 2981 339916617 339913745 0.000000e+00 4324.0
4 TraesCS1B01G195900 chr1A 89.861 503 34 9 3169 3656 339913692 339913192 6.660000e-177 630.0
5 TraesCS1B01G195900 chr1D 93.396 2877 164 16 110 2973 260587522 260590385 0.000000e+00 4237.0
6 TraesCS1B01G195900 chr1D 88.552 297 19 8 3154 3446 260590433 260590718 2.700000e-91 346.0
7 TraesCS1B01G195900 chr1D 87.940 199 24 0 2971 3169 417038539 417038737 6.100000e-58 235.0
8 TraesCS1B01G195900 chr4D 90.426 188 18 0 2971 3158 110505807 110505620 7.840000e-62 248.0
9 TraesCS1B01G195900 chr4D 88.384 198 21 2 2972 3169 268010328 268010133 1.700000e-58 237.0
10 TraesCS1B01G195900 chr5A 88.945 199 21 1 2971 3169 355429212 355429015 1.010000e-60 244.0
11 TraesCS1B01G195900 chrUn 88.442 199 23 0 2971 3169 94919993 94920191 1.310000e-59 241.0
12 TraesCS1B01G195900 chrUn 96.491 114 4 0 1 114 434935665 434935778 4.820000e-44 189.0
13 TraesCS1B01G195900 chr7D 88.442 199 23 0 2971 3169 494802311 494802113 1.310000e-59 241.0
14 TraesCS1B01G195900 chr7A 88.384 198 23 0 2971 3168 41477558 41477361 4.720000e-59 239.0
15 TraesCS1B01G195900 chr7A 96.875 32 1 0 134 165 26062486 26062517 2.000000e-03 54.7
16 TraesCS1B01G195900 chr2D 87.940 199 24 0 2971 3169 6179673 6179475 6.100000e-58 235.0
17 TraesCS1B01G195900 chr4B 97.297 111 3 0 1 111 612366453 612366343 4.820000e-44 189.0
18 TraesCS1B01G195900 chr4B 96.491 114 4 0 1 114 649583272 649583385 4.820000e-44 189.0
19 TraesCS1B01G195900 chr4B 93.388 121 8 0 1 121 522285999 522285879 2.900000e-41 180.0
20 TraesCS1B01G195900 chr2B 96.491 114 4 0 1 114 748520720 748520833 4.820000e-44 189.0
21 TraesCS1B01G195900 chr5B 96.460 113 4 0 1 113 584166933 584167045 1.730000e-43 187.0
22 TraesCS1B01G195900 chr4A 96.460 113 4 0 1 113 665181131 665181019 1.730000e-43 187.0
23 TraesCS1B01G195900 chr7B 93.496 123 6 1 1 123 712533230 712533110 8.060000e-42 182.0
24 TraesCS1B01G195900 chr5D 72.593 270 57 13 168 429 97923516 97923776 5.060000e-09 73.1


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 TraesCS1B01G195900 chr1B 352332949 352336604 3655 True 6752.0 6752 100.000 1 3656 1 chr1B.!!$R2 3655
1 TraesCS1B01G195900 chr1A 339913192 339916617 3425 True 2477.0 4324 91.868 110 3656 2 chr1A.!!$R1 3546
2 TraesCS1B01G195900 chr1D 260587522 260590718 3196 False 2291.5 4237 90.974 110 3446 2 chr1D.!!$F2 3336

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
59 60 0.030638 CACCCTGTTTGGTTTGCTCG 59.969 55.0 0.00 0.00 36.12 5.03 F
64 65 0.106918 TGTTTGGTTTGCTCGGGACT 60.107 50.0 0.00 0.00 0.00 3.85 F
328 331 0.537143 AAATGTTGTGCCGGCTCAGA 60.537 50.0 28.12 20.05 0.00 3.27 F
662 673 1.009829 GATCCACAAACAGCTAGCCG 58.990 55.0 12.13 3.05 0.00 5.52 F
2551 2571 0.174845 CGGAGGCTATGTCAACGGAA 59.825 55.0 0.00 0.00 0.00 4.30 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1317 1337 0.178941 ACAGGACTGAGTACCCGGTT 60.179 55.000 6.29 0.00 0.00 4.44 R
1471 1491 0.615331 AGAAGCGGCTCCATCTGAAA 59.385 50.000 1.45 0.00 0.00 2.69 R
1656 1676 0.916358 AGTTGATGGGGAGGTGGAGG 60.916 60.000 0.00 0.00 0.00 4.30 R
2604 2624 0.833409 TGAGCAAGCTGGAGTCCTCA 60.833 55.000 11.33 0.47 0.00 3.86 R
3460 3510 3.190874 AGCTACGCTTTCATAACTGAGC 58.809 45.455 0.00 0.00 33.89 4.26 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
23 24 6.952773 TGCTTCTAAGGACTTTTAGCAAAA 57.047 33.333 10.79 0.00 32.01 2.44
24 25 7.341445 TGCTTCTAAGGACTTTTAGCAAAAA 57.659 32.000 10.79 0.00 32.01 1.94
51 52 1.788229 AAAAGTCCCACCCTGTTTGG 58.212 50.000 0.00 0.00 0.00 3.28
52 53 0.634465 AAAGTCCCACCCTGTTTGGT 59.366 50.000 0.00 0.00 39.96 3.67
53 54 0.634465 AAGTCCCACCCTGTTTGGTT 59.366 50.000 0.00 0.00 36.12 3.67
54 55 0.634465 AGTCCCACCCTGTTTGGTTT 59.366 50.000 0.00 0.00 36.12 3.27
55 56 0.750249 GTCCCACCCTGTTTGGTTTG 59.250 55.000 0.00 0.00 36.12 2.93
56 57 1.045911 TCCCACCCTGTTTGGTTTGC 61.046 55.000 0.00 0.00 36.12 3.68
57 58 1.048160 CCCACCCTGTTTGGTTTGCT 61.048 55.000 0.00 0.00 36.12 3.91
58 59 0.389025 CCACCCTGTTTGGTTTGCTC 59.611 55.000 0.00 0.00 36.12 4.26
59 60 0.030638 CACCCTGTTTGGTTTGCTCG 59.969 55.000 0.00 0.00 36.12 5.03
60 61 1.106944 ACCCTGTTTGGTTTGCTCGG 61.107 55.000 0.00 0.00 33.91 4.63
61 62 1.659794 CCTGTTTGGTTTGCTCGGG 59.340 57.895 0.00 0.00 0.00 5.14
62 63 0.821711 CCTGTTTGGTTTGCTCGGGA 60.822 55.000 0.00 0.00 0.00 5.14
63 64 0.310854 CTGTTTGGTTTGCTCGGGAC 59.689 55.000 0.00 0.00 0.00 4.46
64 65 0.106918 TGTTTGGTTTGCTCGGGACT 60.107 50.000 0.00 0.00 0.00 3.85
65 66 1.029681 GTTTGGTTTGCTCGGGACTT 58.970 50.000 0.00 0.00 0.00 3.01
66 67 1.407618 GTTTGGTTTGCTCGGGACTTT 59.592 47.619 0.00 0.00 0.00 2.66
67 68 1.770294 TTGGTTTGCTCGGGACTTTT 58.230 45.000 0.00 0.00 0.00 2.27
68 69 1.770294 TGGTTTGCTCGGGACTTTTT 58.230 45.000 0.00 0.00 0.00 1.94
69 70 1.679153 TGGTTTGCTCGGGACTTTTTC 59.321 47.619 0.00 0.00 0.00 2.29
70 71 1.954382 GGTTTGCTCGGGACTTTTTCT 59.046 47.619 0.00 0.00 0.00 2.52
71 72 3.143728 GGTTTGCTCGGGACTTTTTCTA 58.856 45.455 0.00 0.00 0.00 2.10
72 73 3.756963 GGTTTGCTCGGGACTTTTTCTAT 59.243 43.478 0.00 0.00 0.00 1.98
73 74 4.217767 GGTTTGCTCGGGACTTTTTCTATT 59.782 41.667 0.00 0.00 0.00 1.73
74 75 5.391449 GTTTGCTCGGGACTTTTTCTATTC 58.609 41.667 0.00 0.00 0.00 1.75
75 76 3.606687 TGCTCGGGACTTTTTCTATTCC 58.393 45.455 0.00 0.00 0.00 3.01
76 77 2.943690 GCTCGGGACTTTTTCTATTCCC 59.056 50.000 0.00 0.00 43.98 3.97
77 78 3.370633 GCTCGGGACTTTTTCTATTCCCT 60.371 47.826 4.06 0.00 45.09 4.20
78 79 4.141779 GCTCGGGACTTTTTCTATTCCCTA 60.142 45.833 4.06 0.00 45.09 3.53
79 80 5.349061 TCGGGACTTTTTCTATTCCCTAC 57.651 43.478 4.06 0.00 45.09 3.18
80 81 4.778958 TCGGGACTTTTTCTATTCCCTACA 59.221 41.667 4.06 0.00 45.09 2.74
81 82 4.874396 CGGGACTTTTTCTATTCCCTACAC 59.126 45.833 4.06 0.00 45.09 2.90
82 83 5.191426 GGGACTTTTTCTATTCCCTACACC 58.809 45.833 0.00 0.00 44.04 4.16
83 84 5.280830 GGGACTTTTTCTATTCCCTACACCA 60.281 44.000 0.00 0.00 44.04 4.17
84 85 6.243148 GGACTTTTTCTATTCCCTACACCAA 58.757 40.000 0.00 0.00 0.00 3.67
85 86 6.717997 GGACTTTTTCTATTCCCTACACCAAA 59.282 38.462 0.00 0.00 0.00 3.28
86 87 7.231925 GGACTTTTTCTATTCCCTACACCAAAA 59.768 37.037 0.00 0.00 0.00 2.44
87 88 8.541899 ACTTTTTCTATTCCCTACACCAAAAA 57.458 30.769 0.00 0.00 0.00 1.94
88 89 8.638873 ACTTTTTCTATTCCCTACACCAAAAAG 58.361 33.333 10.51 10.51 41.85 2.27
89 90 8.541899 TTTTTCTATTCCCTACACCAAAAAGT 57.458 30.769 0.00 0.00 0.00 2.66
90 91 7.754851 TTTCTATTCCCTACACCAAAAAGTC 57.245 36.000 0.00 0.00 0.00 3.01
91 92 5.812286 TCTATTCCCTACACCAAAAAGTCC 58.188 41.667 0.00 0.00 0.00 3.85
92 93 2.963599 TCCCTACACCAAAAAGTCCC 57.036 50.000 0.00 0.00 0.00 4.46
93 94 2.424793 TCCCTACACCAAAAAGTCCCT 58.575 47.619 0.00 0.00 0.00 4.20
94 95 2.107552 TCCCTACACCAAAAAGTCCCTG 59.892 50.000 0.00 0.00 0.00 4.45
95 96 2.107552 CCCTACACCAAAAAGTCCCTGA 59.892 50.000 0.00 0.00 0.00 3.86
96 97 3.435890 CCCTACACCAAAAAGTCCCTGAA 60.436 47.826 0.00 0.00 0.00 3.02
97 98 4.211920 CCTACACCAAAAAGTCCCTGAAA 58.788 43.478 0.00 0.00 0.00 2.69
98 99 4.647399 CCTACACCAAAAAGTCCCTGAAAA 59.353 41.667 0.00 0.00 0.00 2.29
99 100 4.465632 ACACCAAAAAGTCCCTGAAAAC 57.534 40.909 0.00 0.00 0.00 2.43
100 101 3.835395 ACACCAAAAAGTCCCTGAAAACA 59.165 39.130 0.00 0.00 0.00 2.83
101 102 4.284746 ACACCAAAAAGTCCCTGAAAACAA 59.715 37.500 0.00 0.00 0.00 2.83
102 103 5.221742 ACACCAAAAAGTCCCTGAAAACAAA 60.222 36.000 0.00 0.00 0.00 2.83
103 104 5.121611 CACCAAAAAGTCCCTGAAAACAAAC 59.878 40.000 0.00 0.00 0.00 2.93
104 105 5.221742 ACCAAAAAGTCCCTGAAAACAAACA 60.222 36.000 0.00 0.00 0.00 2.83
105 106 5.879777 CCAAAAAGTCCCTGAAAACAAACAT 59.120 36.000 0.00 0.00 0.00 2.71
106 107 6.037062 CCAAAAAGTCCCTGAAAACAAACATC 59.963 38.462 0.00 0.00 0.00 3.06
107 108 4.937201 AAGTCCCTGAAAACAAACATCC 57.063 40.909 0.00 0.00 0.00 3.51
108 109 3.230976 AGTCCCTGAAAACAAACATCCC 58.769 45.455 0.00 0.00 0.00 3.85
116 117 6.183360 CCTGAAAACAAACATCCCCTAAAAGT 60.183 38.462 0.00 0.00 0.00 2.66
126 127 2.841881 TCCCCTAAAAGTAATGAGCCGT 59.158 45.455 0.00 0.00 0.00 5.68
130 131 4.881850 CCCTAAAAGTAATGAGCCGTGAAT 59.118 41.667 0.00 0.00 0.00 2.57
135 136 2.420022 AGTAATGAGCCGTGAATTGCAC 59.580 45.455 0.00 0.00 44.21 4.57
166 167 4.640771 TTCCTTGTGATGGAACTAGCTT 57.359 40.909 0.00 0.00 38.53 3.74
168 169 5.086104 TCCTTGTGATGGAACTAGCTTAC 57.914 43.478 0.00 0.00 0.00 2.34
170 171 3.520290 TGTGATGGAACTAGCTTACCG 57.480 47.619 0.00 0.00 0.00 4.02
200 201 4.151883 AGTCCTACATTTGGCATTTGTGT 58.848 39.130 11.75 6.48 0.00 3.72
202 203 5.070313 AGTCCTACATTTGGCATTTGTGTTT 59.930 36.000 11.75 0.00 0.00 2.83
203 204 5.757808 GTCCTACATTTGGCATTTGTGTTTT 59.242 36.000 11.75 0.00 0.00 2.43
204 205 5.988561 TCCTACATTTGGCATTTGTGTTTTC 59.011 36.000 11.75 0.00 0.00 2.29
245 247 7.962964 TCAGTTATTCTGACGATGTTTCTTT 57.037 32.000 0.00 0.00 46.77 2.52
280 283 1.649664 TCTCGTCGACTACTAGGCAC 58.350 55.000 14.70 0.00 0.00 5.01
281 284 1.066645 TCTCGTCGACTACTAGGCACA 60.067 52.381 14.70 0.00 0.00 4.57
282 285 1.941294 CTCGTCGACTACTAGGCACAT 59.059 52.381 14.70 0.00 0.00 3.21
283 286 1.669265 TCGTCGACTACTAGGCACATG 59.331 52.381 14.70 0.00 0.00 3.21
284 287 1.400846 CGTCGACTACTAGGCACATGT 59.599 52.381 14.70 0.00 0.00 3.21
285 288 2.610833 CGTCGACTACTAGGCACATGTA 59.389 50.000 14.70 0.00 0.00 2.29
317 320 7.544217 GGTGACTTTGTCAACTTAAAATGTTGT 59.456 33.333 8.33 0.00 45.70 3.32
318 321 8.372521 GTGACTTTGTCAACTTAAAATGTTGTG 58.627 33.333 1.73 0.00 44.49 3.33
321 324 4.355437 TGTCAACTTAAAATGTTGTGCCG 58.645 39.130 6.52 0.00 43.54 5.69
328 331 0.537143 AAATGTTGTGCCGGCTCAGA 60.537 50.000 28.12 20.05 0.00 3.27
349 352 5.582269 CAGAATCTCGAAGGTGCTCATAAAA 59.418 40.000 0.00 0.00 0.00 1.52
364 367 4.661125 TCATAAAAATGAGATGTGCGTGC 58.339 39.130 0.00 0.00 0.00 5.34
365 368 4.155644 TCATAAAAATGAGATGTGCGTGCA 59.844 37.500 0.00 0.00 0.00 4.57
368 371 3.581024 AAATGAGATGTGCGTGCATTT 57.419 38.095 0.00 0.00 35.14 2.32
374 377 4.213906 TGAGATGTGCGTGCATTTATATGG 59.786 41.667 0.00 0.00 32.15 2.74
403 406 1.587547 TGTGCGTGTTTGTGAGCATA 58.412 45.000 0.00 0.00 41.88 3.14
406 409 2.095768 GTGCGTGTTTGTGAGCATATGT 60.096 45.455 4.29 0.00 41.88 2.29
407 410 2.095819 TGCGTGTTTGTGAGCATATGTG 60.096 45.455 4.29 0.00 34.39 3.21
412 415 4.560035 GTGTTTGTGAGCATATGTGATTGC 59.440 41.667 4.29 0.00 39.17 3.56
413 416 3.678915 TTGTGAGCATATGTGATTGCG 57.321 42.857 4.29 0.00 43.61 4.85
441 447 3.385193 AAAAATGGCCCAAAGACTTCG 57.615 42.857 0.00 0.00 0.00 3.79
518 527 8.398665 GGTGCAGATAATTAAAAGGACTTAGTG 58.601 37.037 0.00 0.00 0.00 2.74
587 598 3.620821 GCTCTTTTTCTCCTCATCCTTCG 59.379 47.826 0.00 0.00 0.00 3.79
662 673 1.009829 GATCCACAAACAGCTAGCCG 58.990 55.000 12.13 3.05 0.00 5.52
1122 1142 4.760047 GTGTCCATGTCGGCGCCT 62.760 66.667 26.68 1.35 33.14 5.52
1365 1385 1.746615 CTCGGGCATGGAACCTGTG 60.747 63.158 0.00 0.00 34.93 3.66
1368 1388 1.228552 GGGCATGGAACCTGTGTGT 60.229 57.895 0.00 0.00 0.00 3.72
1442 1462 1.965754 ATGGTGCTCTTCCTCCTCGC 61.966 60.000 0.00 0.00 0.00 5.03
1467 1487 2.978824 GTGCCTGTCGCCTTCCTA 59.021 61.111 0.00 0.00 36.24 2.94
1471 1491 1.972660 GCCTGTCGCCTTCCTATGGT 61.973 60.000 0.00 0.00 0.00 3.55
1503 1523 2.873288 CTTCTCCTGCTTTGCGGC 59.127 61.111 0.00 0.00 32.89 6.53
1569 1589 2.726351 CCTGCCCGACCTCCTCTTC 61.726 68.421 0.00 0.00 0.00 2.87
1579 1599 1.435168 ACCTCCTCTTCCAGTCCTTCT 59.565 52.381 0.00 0.00 0.00 2.85
1581 1601 2.235898 CCTCCTCTTCCAGTCCTTCTTG 59.764 54.545 0.00 0.00 0.00 3.02
1716 1736 2.567049 CTCGGCGTCGAAGGAGTT 59.433 61.111 15.23 0.00 45.47 3.01
1820 1840 1.817099 GGGGCTTCTCGCTGTCATG 60.817 63.158 0.00 0.00 39.13 3.07
1914 1934 1.614241 GCCTCGAGTGGTGGTGGTAT 61.614 60.000 12.31 0.00 0.00 2.73
1956 1976 2.679342 CCTCCTGGCCAATCCCGAA 61.679 63.158 7.01 0.00 0.00 4.30
2396 2416 2.825836 GGCCGGCATGGACTTCAG 60.826 66.667 30.85 0.00 45.46 3.02
2551 2571 0.174845 CGGAGGCTATGTCAACGGAA 59.825 55.000 0.00 0.00 0.00 4.30
2637 2657 1.937191 TGCTCATCACTGTGGTAGGA 58.063 50.000 8.11 1.86 0.00 2.94
2767 2787 2.427506 GGGAGTTCATGTGAGTTGGTC 58.572 52.381 0.00 0.00 0.00 4.02
2775 2795 2.022764 TGTGAGTTGGTCTGTGTGTG 57.977 50.000 0.00 0.00 0.00 3.82
2792 2812 2.605818 GTGTGTCAACATACGTGTGTGT 59.394 45.455 19.14 7.92 38.92 3.72
2836 2856 6.780522 AGGAAAACACCTGTAATTACATGGTT 59.219 34.615 24.99 20.12 39.01 3.67
2869 2889 6.294899 GGTGTGTTGAGTGACCTAGTTATACA 60.295 42.308 0.00 0.00 0.00 2.29
3024 3047 9.245962 AGTTACATTACTATTGATTCACTACGC 57.754 33.333 0.00 0.00 0.00 4.42
3025 3048 9.027129 GTTACATTACTATTGATTCACTACGCA 57.973 33.333 0.00 0.00 0.00 5.24
3026 3049 9.589111 TTACATTACTATTGATTCACTACGCAA 57.411 29.630 0.00 0.00 0.00 4.85
3027 3050 8.487313 ACATTACTATTGATTCACTACGCAAA 57.513 30.769 0.00 0.00 0.00 3.68
3028 3051 8.941977 ACATTACTATTGATTCACTACGCAAAA 58.058 29.630 0.00 0.00 0.00 2.44
3029 3052 9.935682 CATTACTATTGATTCACTACGCAAAAT 57.064 29.630 0.00 0.00 0.00 1.82
3032 3055 8.673626 ACTATTGATTCACTACGCAAAATTTG 57.326 30.769 0.57 0.57 0.00 2.32
3033 3056 6.949578 ATTGATTCACTACGCAAAATTTGG 57.050 33.333 7.89 0.68 0.00 3.28
3034 3057 4.233789 TGATTCACTACGCAAAATTTGGC 58.766 39.130 7.55 7.55 0.00 4.52
3035 3058 3.717400 TTCACTACGCAAAATTTGGCA 57.283 38.095 17.60 0.00 0.00 4.92
3036 3059 3.932545 TCACTACGCAAAATTTGGCAT 57.067 38.095 17.60 4.73 0.00 4.40
3037 3060 5.378292 TTCACTACGCAAAATTTGGCATA 57.622 34.783 17.60 5.76 0.00 3.14
3038 3061 5.378292 TCACTACGCAAAATTTGGCATAA 57.622 34.783 17.60 1.30 0.00 1.90
3039 3062 5.398169 TCACTACGCAAAATTTGGCATAAG 58.602 37.500 17.60 12.47 0.00 1.73
3040 3063 5.182190 TCACTACGCAAAATTTGGCATAAGA 59.818 36.000 17.60 5.09 0.00 2.10
3041 3064 5.861251 CACTACGCAAAATTTGGCATAAGAA 59.139 36.000 17.60 0.00 0.00 2.52
3042 3065 6.033831 CACTACGCAAAATTTGGCATAAGAAG 59.966 38.462 17.60 7.17 0.00 2.85
3043 3066 5.132897 ACGCAAAATTTGGCATAAGAAGA 57.867 34.783 17.60 0.00 0.00 2.87
3044 3067 5.723295 ACGCAAAATTTGGCATAAGAAGAT 58.277 33.333 17.60 0.00 0.00 2.40
3045 3068 6.862209 ACGCAAAATTTGGCATAAGAAGATA 58.138 32.000 17.60 0.00 0.00 1.98
3046 3069 7.319646 ACGCAAAATTTGGCATAAGAAGATAA 58.680 30.769 17.60 0.00 0.00 1.75
3047 3070 7.816995 ACGCAAAATTTGGCATAAGAAGATAAA 59.183 29.630 17.60 0.00 0.00 1.40
3048 3071 8.655092 CGCAAAATTTGGCATAAGAAGATAAAA 58.345 29.630 17.60 0.00 0.00 1.52
3232 3256 3.872354 TCTCGCAACAACATTCTTTTCG 58.128 40.909 0.00 0.00 0.00 3.46
3240 3264 8.845648 CGCAACAACATTCTTTTCGAAATTATA 58.154 29.630 12.12 0.00 34.79 0.98
3323 3349 7.709182 CGTAGAAAGGTACATGGAATACATCAA 59.291 37.037 0.00 0.00 37.84 2.57
3327 3353 6.677781 AGGTACATGGAATACATCAAAACG 57.322 37.500 0.00 0.00 37.84 3.60
3432 3474 4.520492 AGCATCCTTAGTTTGTGTTCTTGG 59.480 41.667 0.00 0.00 0.00 3.61
3460 3510 1.147473 GCATTTCTTTGTTTGCCGGG 58.853 50.000 2.18 0.00 0.00 5.73
3466 3516 1.454847 TTTGTTTGCCGGGCTCAGT 60.455 52.632 21.46 0.00 0.00 3.41
3511 3561 9.374711 TGTCATTGTAGTAATATGAGATACCCA 57.625 33.333 0.00 0.00 0.00 4.51
3520 3570 0.319083 TGAGATACCCAACGCGTTGT 59.681 50.000 40.30 29.32 38.85 3.32
3533 3583 1.117234 GCGTTGTTGCGGTAACTTTG 58.883 50.000 10.27 1.44 40.05 2.77
3536 3586 2.779471 CGTTGTTGCGGTAACTTTGTTC 59.221 45.455 10.27 0.00 40.05 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.952773 TTTTGCTAAAAGTCCTTAGAAGCA 57.047 33.333 6.73 6.73 31.59 3.91
1 2 7.859613 CTTTTTGCTAAAAGTCCTTAGAAGC 57.140 36.000 20.79 0.00 43.34 3.86
31 32 2.115427 CCAAACAGGGTGGGACTTTTT 58.885 47.619 0.00 0.00 32.03 1.94
32 33 1.007842 ACCAAACAGGGTGGGACTTTT 59.992 47.619 0.00 0.00 43.89 2.27
33 34 0.634465 ACCAAACAGGGTGGGACTTT 59.366 50.000 0.00 0.00 43.89 2.66
34 35 0.634465 AACCAAACAGGGTGGGACTT 59.366 50.000 0.00 0.00 41.32 3.01
35 36 0.634465 AAACCAAACAGGGTGGGACT 59.366 50.000 0.00 0.00 41.32 3.85
36 37 0.750249 CAAACCAAACAGGGTGGGAC 59.250 55.000 0.00 0.00 41.32 4.46
37 38 1.045911 GCAAACCAAACAGGGTGGGA 61.046 55.000 0.00 0.00 41.32 4.37
38 39 1.048160 AGCAAACCAAACAGGGTGGG 61.048 55.000 0.00 0.00 41.32 4.61
39 40 0.389025 GAGCAAACCAAACAGGGTGG 59.611 55.000 0.00 0.00 41.32 4.61
40 41 0.030638 CGAGCAAACCAAACAGGGTG 59.969 55.000 0.00 0.00 41.32 4.61
41 42 1.106944 CCGAGCAAACCAAACAGGGT 61.107 55.000 0.00 0.00 45.04 4.34
42 43 1.659794 CCGAGCAAACCAAACAGGG 59.340 57.895 0.00 0.00 43.89 4.45
43 44 0.821711 TCCCGAGCAAACCAAACAGG 60.822 55.000 0.00 0.00 45.67 4.00
44 45 0.310854 GTCCCGAGCAAACCAAACAG 59.689 55.000 0.00 0.00 0.00 3.16
45 46 0.106918 AGTCCCGAGCAAACCAAACA 60.107 50.000 0.00 0.00 0.00 2.83
46 47 1.029681 AAGTCCCGAGCAAACCAAAC 58.970 50.000 0.00 0.00 0.00 2.93
47 48 1.770294 AAAGTCCCGAGCAAACCAAA 58.230 45.000 0.00 0.00 0.00 3.28
48 49 1.770294 AAAAGTCCCGAGCAAACCAA 58.230 45.000 0.00 0.00 0.00 3.67
49 50 1.679153 GAAAAAGTCCCGAGCAAACCA 59.321 47.619 0.00 0.00 0.00 3.67
50 51 1.954382 AGAAAAAGTCCCGAGCAAACC 59.046 47.619 0.00 0.00 0.00 3.27
51 52 5.372547 AATAGAAAAAGTCCCGAGCAAAC 57.627 39.130 0.00 0.00 0.00 2.93
52 53 4.457949 GGAATAGAAAAAGTCCCGAGCAAA 59.542 41.667 0.00 0.00 0.00 3.68
53 54 4.007659 GGAATAGAAAAAGTCCCGAGCAA 58.992 43.478 0.00 0.00 0.00 3.91
54 55 3.606687 GGAATAGAAAAAGTCCCGAGCA 58.393 45.455 0.00 0.00 0.00 4.26
55 56 2.943690 GGGAATAGAAAAAGTCCCGAGC 59.056 50.000 0.00 0.00 40.45 5.03
60 61 5.812286 TGGTGTAGGGAATAGAAAAAGTCC 58.188 41.667 0.00 0.00 0.00 3.85
61 62 7.754851 TTTGGTGTAGGGAATAGAAAAAGTC 57.245 36.000 0.00 0.00 0.00 3.01
62 63 8.541899 TTTTTGGTGTAGGGAATAGAAAAAGT 57.458 30.769 0.00 0.00 0.00 2.66
63 64 8.638873 ACTTTTTGGTGTAGGGAATAGAAAAAG 58.361 33.333 0.00 0.00 41.57 2.27
64 65 8.541899 ACTTTTTGGTGTAGGGAATAGAAAAA 57.458 30.769 0.00 0.00 0.00 1.94
65 66 7.231925 GGACTTTTTGGTGTAGGGAATAGAAAA 59.768 37.037 0.00 0.00 0.00 2.29
66 67 6.717997 GGACTTTTTGGTGTAGGGAATAGAAA 59.282 38.462 0.00 0.00 0.00 2.52
67 68 6.243148 GGACTTTTTGGTGTAGGGAATAGAA 58.757 40.000 0.00 0.00 0.00 2.10
68 69 5.280830 GGGACTTTTTGGTGTAGGGAATAGA 60.281 44.000 0.00 0.00 0.00 1.98
69 70 4.948004 GGGACTTTTTGGTGTAGGGAATAG 59.052 45.833 0.00 0.00 0.00 1.73
70 71 4.604490 AGGGACTTTTTGGTGTAGGGAATA 59.396 41.667 0.00 0.00 27.25 1.75
71 72 3.401342 AGGGACTTTTTGGTGTAGGGAAT 59.599 43.478 0.00 0.00 27.25 3.01
72 73 2.787035 AGGGACTTTTTGGTGTAGGGAA 59.213 45.455 0.00 0.00 27.25 3.97
73 74 2.107552 CAGGGACTTTTTGGTGTAGGGA 59.892 50.000 0.00 0.00 34.60 4.20
74 75 2.107552 TCAGGGACTTTTTGGTGTAGGG 59.892 50.000 0.00 0.00 34.60 3.53
75 76 3.502123 TCAGGGACTTTTTGGTGTAGG 57.498 47.619 0.00 0.00 34.60 3.18
76 77 5.126384 TGTTTTCAGGGACTTTTTGGTGTAG 59.874 40.000 0.00 0.00 34.60 2.74
77 78 5.017490 TGTTTTCAGGGACTTTTTGGTGTA 58.983 37.500 0.00 0.00 34.60 2.90
78 79 3.835395 TGTTTTCAGGGACTTTTTGGTGT 59.165 39.130 0.00 0.00 34.60 4.16
79 80 4.464069 TGTTTTCAGGGACTTTTTGGTG 57.536 40.909 0.00 0.00 34.60 4.17
80 81 5.221742 TGTTTGTTTTCAGGGACTTTTTGGT 60.222 36.000 0.00 0.00 34.60 3.67
81 82 5.241662 TGTTTGTTTTCAGGGACTTTTTGG 58.758 37.500 0.00 0.00 34.60 3.28
82 83 6.037062 GGATGTTTGTTTTCAGGGACTTTTTG 59.963 38.462 0.00 0.00 34.60 2.44
83 84 6.112734 GGATGTTTGTTTTCAGGGACTTTTT 58.887 36.000 0.00 0.00 34.60 1.94
84 85 5.396324 GGGATGTTTGTTTTCAGGGACTTTT 60.396 40.000 0.00 0.00 34.60 2.27
85 86 4.100963 GGGATGTTTGTTTTCAGGGACTTT 59.899 41.667 0.00 0.00 34.60 2.66
86 87 3.641436 GGGATGTTTGTTTTCAGGGACTT 59.359 43.478 0.00 0.00 34.60 3.01
87 88 3.230976 GGGATGTTTGTTTTCAGGGACT 58.769 45.455 0.00 0.00 43.88 3.85
88 89 2.299013 GGGGATGTTTGTTTTCAGGGAC 59.701 50.000 0.00 0.00 0.00 4.46
89 90 2.178984 AGGGGATGTTTGTTTTCAGGGA 59.821 45.455 0.00 0.00 0.00 4.20
90 91 2.608623 AGGGGATGTTTGTTTTCAGGG 58.391 47.619 0.00 0.00 0.00 4.45
91 92 5.799827 TTTAGGGGATGTTTGTTTTCAGG 57.200 39.130 0.00 0.00 0.00 3.86
92 93 6.816136 ACTTTTAGGGGATGTTTGTTTTCAG 58.184 36.000 0.00 0.00 0.00 3.02
93 94 6.800072 ACTTTTAGGGGATGTTTGTTTTCA 57.200 33.333 0.00 0.00 0.00 2.69
94 95 9.203421 CATTACTTTTAGGGGATGTTTGTTTTC 57.797 33.333 0.00 0.00 0.00 2.29
95 96 8.929487 TCATTACTTTTAGGGGATGTTTGTTTT 58.071 29.630 0.00 0.00 0.00 2.43
96 97 8.485578 TCATTACTTTTAGGGGATGTTTGTTT 57.514 30.769 0.00 0.00 0.00 2.83
97 98 7.309805 GCTCATTACTTTTAGGGGATGTTTGTT 60.310 37.037 0.00 0.00 0.00 2.83
98 99 6.152831 GCTCATTACTTTTAGGGGATGTTTGT 59.847 38.462 0.00 0.00 0.00 2.83
99 100 6.405842 GGCTCATTACTTTTAGGGGATGTTTG 60.406 42.308 0.00 0.00 0.00 2.93
100 101 5.656859 GGCTCATTACTTTTAGGGGATGTTT 59.343 40.000 0.00 0.00 0.00 2.83
101 102 5.201243 GGCTCATTACTTTTAGGGGATGTT 58.799 41.667 0.00 0.00 0.00 2.71
102 103 4.686122 CGGCTCATTACTTTTAGGGGATGT 60.686 45.833 0.00 0.00 0.00 3.06
103 104 3.815401 CGGCTCATTACTTTTAGGGGATG 59.185 47.826 0.00 0.00 0.00 3.51
104 105 3.458487 ACGGCTCATTACTTTTAGGGGAT 59.542 43.478 0.00 0.00 0.00 3.85
105 106 2.841881 ACGGCTCATTACTTTTAGGGGA 59.158 45.455 0.00 0.00 0.00 4.81
106 107 2.943033 CACGGCTCATTACTTTTAGGGG 59.057 50.000 0.00 0.00 0.00 4.79
107 108 3.869065 TCACGGCTCATTACTTTTAGGG 58.131 45.455 0.00 0.00 0.00 3.53
108 109 6.258160 CAATTCACGGCTCATTACTTTTAGG 58.742 40.000 0.00 0.00 0.00 2.69
126 127 3.509575 GGAACCTAACCATGTGCAATTCA 59.490 43.478 0.00 0.00 0.00 2.57
130 131 2.890311 CAAGGAACCTAACCATGTGCAA 59.110 45.455 0.00 0.00 0.00 4.08
135 136 3.696051 CCATCACAAGGAACCTAACCATG 59.304 47.826 0.00 0.00 33.16 3.66
163 164 1.280133 AGGACTTAAACCCCGGTAAGC 59.720 52.381 0.00 0.00 31.67 3.09
165 166 3.515562 TGTAGGACTTAAACCCCGGTAA 58.484 45.455 0.00 0.00 0.00 2.85
166 167 3.182887 TGTAGGACTTAAACCCCGGTA 57.817 47.619 0.00 0.00 0.00 4.02
168 169 3.639672 AATGTAGGACTTAAACCCCGG 57.360 47.619 0.00 0.00 0.00 5.73
170 171 3.446161 GCCAAATGTAGGACTTAAACCCC 59.554 47.826 0.00 0.00 0.00 4.95
226 228 8.044309 TCCCATTAAAGAAACATCGTCAGAATA 58.956 33.333 0.00 0.00 0.00 1.75
231 233 4.941263 CCTCCCATTAAAGAAACATCGTCA 59.059 41.667 0.00 0.00 0.00 4.35
233 235 4.270008 CCCTCCCATTAAAGAAACATCGT 58.730 43.478 0.00 0.00 0.00 3.73
241 243 1.961133 ACGTCCCCTCCCATTAAAGA 58.039 50.000 0.00 0.00 0.00 2.52
242 244 2.238898 AGAACGTCCCCTCCCATTAAAG 59.761 50.000 0.00 0.00 0.00 1.85
245 247 1.492764 GAGAACGTCCCCTCCCATTA 58.507 55.000 0.00 0.00 0.00 1.90
280 283 3.476552 ACAAAGTCACCACAGGTACATG 58.523 45.455 5.87 5.87 32.11 3.21
281 284 3.135712 TGACAAAGTCACCACAGGTACAT 59.864 43.478 0.00 0.00 37.67 2.29
282 285 2.502130 TGACAAAGTCACCACAGGTACA 59.498 45.455 0.00 0.00 37.67 2.90
283 286 3.188159 TGACAAAGTCACCACAGGTAC 57.812 47.619 0.00 0.00 37.67 3.34
284 287 3.199071 AGTTGACAAAGTCACCACAGGTA 59.801 43.478 0.00 0.00 42.60 3.08
285 288 2.026262 AGTTGACAAAGTCACCACAGGT 60.026 45.455 0.00 0.00 42.60 4.00
310 313 0.537143 TTCTGAGCCGGCACAACATT 60.537 50.000 31.54 5.22 0.00 2.71
315 318 1.219124 GAGATTCTGAGCCGGCACA 59.781 57.895 31.54 28.20 0.00 4.57
317 320 1.604147 TTCGAGATTCTGAGCCGGCA 61.604 55.000 31.54 7.75 0.00 5.69
318 321 0.873743 CTTCGAGATTCTGAGCCGGC 60.874 60.000 21.89 21.89 0.00 6.13
321 324 1.933247 CACCTTCGAGATTCTGAGCC 58.067 55.000 0.00 0.00 0.00 4.70
328 331 6.599244 TCATTTTTATGAGCACCTTCGAGATT 59.401 34.615 0.00 0.00 0.00 2.40
349 352 4.906065 ATAAATGCACGCACATCTCATT 57.094 36.364 0.00 0.00 0.00 2.57
364 367 7.549134 ACGCACATATACTCACCCATATAAATG 59.451 37.037 0.00 0.00 0.00 2.32
365 368 7.549134 CACGCACATATACTCACCCATATAAAT 59.451 37.037 0.00 0.00 0.00 1.40
368 371 5.479027 ACACGCACATATACTCACCCATATA 59.521 40.000 0.00 0.00 0.00 0.86
374 377 3.682858 ACAAACACGCACATATACTCACC 59.317 43.478 0.00 0.00 0.00 4.02
441 447 4.504858 AGATTTATCGTGTCTGTGGGTTC 58.495 43.478 0.00 0.00 0.00 3.62
558 569 0.321653 GGAGAAAAAGAGCAGGGCGA 60.322 55.000 0.00 0.00 0.00 5.54
587 598 1.005630 AGCGAGAGAAGGTGTGTGC 60.006 57.895 0.00 0.00 0.00 4.57
662 673 1.657794 GGCGAGCTTCCGTACGATC 60.658 63.158 18.76 5.66 0.00 3.69
705 723 0.386731 GTTGTTGTATTGCGCGGCTT 60.387 50.000 8.83 0.00 0.00 4.35
799 817 2.054801 CTCGTCGTCTTGTTGCGAG 58.945 57.895 0.00 0.00 42.01 5.03
986 1006 1.456923 CACACATGACGGCTATATGCG 59.543 52.381 0.00 0.00 44.05 4.73
1075 1095 2.126580 GTGGTCGTCGTTCGGAGG 60.127 66.667 0.00 0.00 40.32 4.30
1305 1325 0.675522 ACCCGGTTATGTTGGCGAAG 60.676 55.000 0.00 0.00 0.00 3.79
1317 1337 0.178941 ACAGGACTGAGTACCCGGTT 60.179 55.000 6.29 0.00 0.00 4.44
1350 1370 1.228552 ACACACAGGTTCCATGCCC 60.229 57.895 0.00 0.00 0.00 5.36
1455 1475 1.626321 TGAAACCATAGGAAGGCGACA 59.374 47.619 0.00 0.00 0.00 4.35
1467 1487 0.749454 GCGGCTCCATCTGAAACCAT 60.749 55.000 0.00 0.00 0.00 3.55
1471 1491 0.615331 AGAAGCGGCTCCATCTGAAA 59.385 50.000 1.45 0.00 0.00 2.69
1503 1523 3.285215 GAGATGGCGGCATGCTGG 61.285 66.667 30.87 15.87 45.43 4.85
1545 1565 3.672295 GAGGTCGGGCAGGCAGAAG 62.672 68.421 0.00 0.00 0.00 2.85
1569 1589 1.672356 CGGGTGCAAGAAGGACTGG 60.672 63.158 0.00 0.00 38.81 4.00
1579 1599 1.038681 TAGATACGGAGCGGGTGCAA 61.039 55.000 0.00 0.00 46.23 4.08
1581 1601 1.007618 GTAGATACGGAGCGGGTGC 60.008 63.158 0.00 0.00 43.24 5.01
1656 1676 0.916358 AGTTGATGGGGAGGTGGAGG 60.916 60.000 0.00 0.00 0.00 4.30
1820 1840 2.030805 ACATCGTCCTTGAAAAGCTTGC 60.031 45.455 0.00 0.00 44.44 4.01
1914 1934 2.484947 GCACAGCAGGATCATGATCTCA 60.485 50.000 29.85 0.00 37.92 3.27
2124 2144 1.617947 GGAAGGAGATGACGCCCTGT 61.618 60.000 0.00 0.00 36.64 4.00
2220 2240 1.107538 TCCCGAGGATAGGAAGCACG 61.108 60.000 0.00 0.00 29.15 5.34
2253 2273 1.302832 GGTGGTCTGAGGGCAGTTG 60.303 63.158 0.00 0.00 42.84 3.16
2551 2571 2.663852 CGCGTCTTTCCCACCGTT 60.664 61.111 0.00 0.00 0.00 4.44
2596 2616 2.343163 CTGGAGTCCTCATCGCCGTC 62.343 65.000 11.33 0.00 0.00 4.79
2604 2624 0.833409 TGAGCAAGCTGGAGTCCTCA 60.833 55.000 11.33 0.47 0.00 3.86
2676 2696 3.202906 GCCAGCTAATTACCGTGATTCA 58.797 45.455 0.00 0.00 0.00 2.57
2757 2777 1.933853 GACACACACAGACCAACTCAC 59.066 52.381 0.00 0.00 0.00 3.51
2767 2787 2.863740 ACACGTATGTTGACACACACAG 59.136 45.455 0.00 0.00 34.46 3.66
2775 2795 2.206750 ACCACACACACGTATGTTGAC 58.793 47.619 0.00 0.00 36.72 3.18
2792 2812 4.288398 TCCTCCAATATAACGTGGTACCA 58.712 43.478 11.60 11.60 36.23 3.25
2836 2856 6.597562 AGGTCACTCAACACACCTAATTAAA 58.402 36.000 0.00 0.00 37.50 1.52
2998 3021 9.245962 GCGTAGTGAATCAATAGTAATGTAACT 57.754 33.333 0.00 0.00 0.00 2.24
2999 3022 9.027129 TGCGTAGTGAATCAATAGTAATGTAAC 57.973 33.333 0.00 0.00 0.00 2.50
3000 3023 9.589111 TTGCGTAGTGAATCAATAGTAATGTAA 57.411 29.630 0.00 0.00 0.00 2.41
3002 3025 8.487313 TTTGCGTAGTGAATCAATAGTAATGT 57.513 30.769 0.00 0.00 0.00 2.71
3003 3026 9.935682 ATTTTGCGTAGTGAATCAATAGTAATG 57.064 29.630 0.00 0.00 0.00 1.90
3006 3029 9.767684 CAAATTTTGCGTAGTGAATCAATAGTA 57.232 29.630 0.00 0.00 0.00 1.82
3007 3030 7.754924 CCAAATTTTGCGTAGTGAATCAATAGT 59.245 33.333 3.50 0.00 0.00 2.12
3008 3031 7.253750 GCCAAATTTTGCGTAGTGAATCAATAG 60.254 37.037 3.50 0.00 0.00 1.73
3009 3032 6.529829 GCCAAATTTTGCGTAGTGAATCAATA 59.470 34.615 3.50 0.00 0.00 1.90
3010 3033 5.348451 GCCAAATTTTGCGTAGTGAATCAAT 59.652 36.000 3.50 0.00 0.00 2.57
3011 3034 4.683781 GCCAAATTTTGCGTAGTGAATCAA 59.316 37.500 3.50 0.00 0.00 2.57
3012 3035 4.233789 GCCAAATTTTGCGTAGTGAATCA 58.766 39.130 3.50 0.00 0.00 2.57
3013 3036 4.233789 TGCCAAATTTTGCGTAGTGAATC 58.766 39.130 9.45 0.00 0.00 2.52
3014 3037 4.250116 TGCCAAATTTTGCGTAGTGAAT 57.750 36.364 9.45 0.00 0.00 2.57
3015 3038 3.717400 TGCCAAATTTTGCGTAGTGAA 57.283 38.095 9.45 0.00 0.00 3.18
3016 3039 3.932545 ATGCCAAATTTTGCGTAGTGA 57.067 38.095 7.16 0.00 0.00 3.41
3017 3040 5.398169 TCTTATGCCAAATTTTGCGTAGTG 58.602 37.500 13.92 11.71 31.15 2.74
3018 3041 5.637006 TCTTATGCCAAATTTTGCGTAGT 57.363 34.783 13.92 2.64 31.15 2.73
3019 3042 6.321717 TCTTCTTATGCCAAATTTTGCGTAG 58.678 36.000 13.92 9.06 31.15 3.51
3020 3043 6.260870 TCTTCTTATGCCAAATTTTGCGTA 57.739 33.333 11.14 11.14 0.00 4.42
3021 3044 5.132897 TCTTCTTATGCCAAATTTTGCGT 57.867 34.783 12.99 12.99 0.00 5.24
3022 3045 7.754069 TTATCTTCTTATGCCAAATTTTGCG 57.246 32.000 9.45 0.00 0.00 4.85
3152 3175 9.220906 TGTGGGGTATAGACTGTAAGAAAATAT 57.779 33.333 0.00 0.00 37.43 1.28
3153 3176 8.612486 TGTGGGGTATAGACTGTAAGAAAATA 57.388 34.615 0.00 0.00 37.43 1.40
3154 3177 7.504926 TGTGGGGTATAGACTGTAAGAAAAT 57.495 36.000 0.00 0.00 37.43 1.82
3155 3178 6.938698 TGTGGGGTATAGACTGTAAGAAAA 57.061 37.500 0.00 0.00 37.43 2.29
3156 3179 6.901300 AGATGTGGGGTATAGACTGTAAGAAA 59.099 38.462 0.00 0.00 37.43 2.52
3157 3180 6.441222 AGATGTGGGGTATAGACTGTAAGAA 58.559 40.000 0.00 0.00 37.43 2.52
3158 3181 6.027025 AGATGTGGGGTATAGACTGTAAGA 57.973 41.667 0.00 0.00 37.43 2.10
3159 3182 6.732896 AAGATGTGGGGTATAGACTGTAAG 57.267 41.667 0.00 0.00 42.29 2.34
3160 3183 7.335627 CAAAAGATGTGGGGTATAGACTGTAA 58.664 38.462 0.00 0.00 0.00 2.41
3161 3184 6.126883 CCAAAAGATGTGGGGTATAGACTGTA 60.127 42.308 0.00 0.00 32.03 2.74
3162 3185 5.339200 CCAAAAGATGTGGGGTATAGACTGT 60.339 44.000 0.00 0.00 32.03 3.55
3163 3186 5.104527 TCCAAAAGATGTGGGGTATAGACTG 60.105 44.000 0.00 0.00 36.73 3.51
3164 3187 5.036916 TCCAAAAGATGTGGGGTATAGACT 58.963 41.667 0.00 0.00 36.73 3.24
3165 3188 5.367945 TCCAAAAGATGTGGGGTATAGAC 57.632 43.478 0.00 0.00 36.73 2.59
3166 3189 6.590656 ATTCCAAAAGATGTGGGGTATAGA 57.409 37.500 0.00 0.00 36.73 1.98
3167 3190 7.124147 ACAAATTCCAAAAGATGTGGGGTATAG 59.876 37.037 0.00 0.00 36.73 1.31
3240 3264 5.464030 TCCTCAAAGTTTACGCTACTTCT 57.536 39.130 0.00 0.00 34.88 2.85
3248 3272 5.682943 TTCCATGTTCCTCAAAGTTTACG 57.317 39.130 0.00 0.00 0.00 3.18
3251 3275 6.739565 GCAGATTTCCATGTTCCTCAAAGTTT 60.740 38.462 0.00 0.00 0.00 2.66
3310 3334 3.360867 TGCCCGTTTTGATGTATTCCAT 58.639 40.909 0.00 0.00 36.13 3.41
3323 3349 0.899717 ATGGAGTTGCATGCCCGTTT 60.900 50.000 16.68 0.00 0.00 3.60
3327 3353 3.825143 AATTTATGGAGTTGCATGCCC 57.175 42.857 16.68 9.62 0.00 5.36
3432 3474 6.090763 GGCAAACAAAGAAATGCATTACCTAC 59.909 38.462 13.39 2.74 40.51 3.18
3460 3510 3.190874 AGCTACGCTTTCATAACTGAGC 58.809 45.455 0.00 0.00 33.89 4.26
3466 3516 5.656480 TGACACATAGCTACGCTTTCATAA 58.344 37.500 0.00 0.00 40.44 1.90
3490 3540 7.149973 GCGTTGGGTATCTCATATTACTACAA 58.850 38.462 0.00 0.00 0.00 2.41
3496 3546 4.859304 ACGCGTTGGGTATCTCATATTA 57.141 40.909 5.58 0.00 0.00 0.98
3520 3570 5.220491 GCATTTTTGAACAAAGTTACCGCAA 60.220 36.000 0.46 0.00 0.00 4.85
3522 3572 4.268884 TGCATTTTTGAACAAAGTTACCGC 59.731 37.500 0.46 0.00 0.00 5.68
3533 3583 9.787532 TTAGCAACTATCTATGCATTTTTGAAC 57.212 29.630 3.54 0.00 44.95 3.18


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

AutoCloner maintained by Alex Coulton.