Multiple sequence alignment - TraesCS4B01G262000

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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 TraesCS4B01G262000 chr4B 100.000 2831 0 0 1 2831 531092542 531095372 0.000000e+00 5228.0
1 TraesCS4B01G262000 chr4B 78.448 232 39 10 2565 2789 583782876 583782649 1.060000e-29 141.0
2 TraesCS4B01G262000 chr4B 75.598 209 40 11 1540 1742 610434869 610434666 3.000000e-15 93.5
3 TraesCS4B01G262000 chr4D 91.140 2246 91 28 645 2831 432990780 432992976 0.000000e+00 2946.0
4 TraesCS4B01G262000 chr4D 82.979 282 45 3 286 566 432988802 432989081 4.680000e-63 252.0
5 TraesCS4B01G262000 chr4D 75.648 193 37 10 1555 1742 481447864 481447677 1.400000e-13 87.9
6 TraesCS4B01G262000 chr4A 91.701 1675 71 25 701 2321 34294072 34295732 0.000000e+00 2261.0
7 TraesCS4B01G262000 chr4A 98.246 285 5 0 1 285 507915313 507915597 1.510000e-137 499.0
8 TraesCS4B01G262000 chr4A 83.748 523 54 13 2320 2815 34295892 34296410 1.540000e-127 466.0
9 TraesCS4B01G262000 chr4A 76.721 305 40 19 324 624 39462658 39462381 1.060000e-29 141.0
10 TraesCS4B01G262000 chr7A 99.649 285 1 0 1 285 664215214 664214930 3.230000e-144 521.0
11 TraesCS4B01G262000 chr7A 82.105 190 32 2 325 514 37727613 37727800 8.120000e-36 161.0
12 TraesCS4B01G262000 chr7A 76.074 326 59 14 2488 2798 292565782 292565461 4.880000e-33 152.0
13 TraesCS4B01G262000 chr7A 73.640 239 53 8 2565 2795 489166711 489166475 1.810000e-12 84.2
14 TraesCS4B01G262000 chr2A 99.303 287 2 0 1 287 710255134 710255420 1.160000e-143 520.0
15 TraesCS4B01G262000 chr2A 92.857 42 2 1 2745 2785 299061836 299061795 3.050000e-05 60.2
16 TraesCS4B01G262000 chr5A 99.298 285 2 0 1 285 601203077 601202793 1.500000e-142 516.0
17 TraesCS4B01G262000 chr5A 98.947 285 3 0 1 285 3998101 3998385 7.000000e-141 510.0
18 TraesCS4B01G262000 chr5A 85.139 323 31 4 1369 1682 602452642 602452328 5.890000e-82 315.0
19 TraesCS4B01G262000 chr5A 74.554 224 44 13 1525 1742 661222161 661222377 5.020000e-13 86.1
20 TraesCS4B01G262000 chr6B 97.895 285 6 0 1 285 612981298 612981582 7.050000e-136 494.0
21 TraesCS4B01G262000 chr6A 97.895 285 6 0 1 285 338119519 338119803 7.050000e-136 494.0
22 TraesCS4B01G262000 chr6A 80.184 217 41 2 322 537 124138883 124139098 8.120000e-36 161.0
23 TraesCS4B01G262000 chr3B 96.491 285 9 1 1 285 82361573 82361290 1.190000e-128 470.0
24 TraesCS4B01G262000 chr2B 94.949 297 14 1 1 297 255861124 255861419 5.520000e-127 464.0
25 TraesCS4B01G262000 chr6D 80.858 303 52 5 324 624 472495714 472496012 1.700000e-57 233.0
26 TraesCS4B01G262000 chr3A 79.739 306 59 2 321 624 28130910 28130606 4.750000e-53 219.0
27 TraesCS4B01G262000 chr3D 78.964 309 51 9 2494 2790 19335759 19335453 6.190000e-47 198.0
28 TraesCS4B01G262000 chr2D 77.152 302 55 11 324 617 615611704 615611999 2.260000e-36 163.0
29 TraesCS4B01G262000 chr2D 81.667 120 22 0 324 443 131272669 131272550 1.790000e-17 100.0
30 TraesCS4B01G262000 chr5B 77.686 242 45 8 2548 2786 94672385 94672620 3.800000e-29 139.0
31 TraesCS4B01G262000 chr1B 78.866 194 33 6 324 515 670928331 670928144 1.060000e-24 124.0
32 TraesCS4B01G262000 chr7D 75.820 244 54 5 2547 2786 610671314 610671072 4.950000e-23 119.0
33 TraesCS4B01G262000 chr1A 94.872 39 1 1 2751 2789 102216274 102216311 3.050000e-05 60.2


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 TraesCS4B01G262000 chr4B 531092542 531095372 2830 False 5228.0 5228 100.0000 1 2831 1 chr4B.!!$F1 2830
1 TraesCS4B01G262000 chr4D 432988802 432992976 4174 False 1599.0 2946 87.0595 286 2831 2 chr4D.!!$F1 2545
2 TraesCS4B01G262000 chr4A 34294072 34296410 2338 False 1363.5 2261 87.7245 701 2815 2 chr4A.!!$F2 2114

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
96 97 0.106918 GGGTGTGGGTTTGTGTCTGA 60.107 55.0 0.0 0.0 0.0 3.27 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1882 3538 2.028523 CGTCTAGTCTACCACGTGTACG 59.971 54.545 15.65 2.43 46.33 3.67 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
22 23 5.576563 TCAATTCTGTTGGTCCTCCTTAA 57.423 39.130 0.00 0.00 34.23 1.85
23 24 5.313712 TCAATTCTGTTGGTCCTCCTTAAC 58.686 41.667 0.00 0.00 34.23 2.01
24 25 4.993705 ATTCTGTTGGTCCTCCTTAACA 57.006 40.909 0.00 0.00 31.68 2.41
25 26 4.993705 TTCTGTTGGTCCTCCTTAACAT 57.006 40.909 0.00 0.00 32.00 2.71
26 27 4.993705 TCTGTTGGTCCTCCTTAACATT 57.006 40.909 0.00 0.00 32.00 2.71
27 28 4.651778 TCTGTTGGTCCTCCTTAACATTG 58.348 43.478 0.00 0.00 32.00 2.82
28 29 3.153919 TGTTGGTCCTCCTTAACATTGC 58.846 45.455 0.00 0.00 28.81 3.56
29 30 3.181434 TGTTGGTCCTCCTTAACATTGCT 60.181 43.478 0.00 0.00 28.81 3.91
30 31 3.806949 TGGTCCTCCTTAACATTGCTT 57.193 42.857 0.00 0.00 34.23 3.91
31 32 3.420893 TGGTCCTCCTTAACATTGCTTG 58.579 45.455 0.00 0.00 34.23 4.01
32 33 2.755103 GGTCCTCCTTAACATTGCTTGG 59.245 50.000 0.00 0.00 0.00 3.61
33 34 2.755103 GTCCTCCTTAACATTGCTTGGG 59.245 50.000 0.00 0.00 0.00 4.12
34 35 2.647299 TCCTCCTTAACATTGCTTGGGA 59.353 45.455 0.00 0.00 0.00 4.37
35 36 3.075283 TCCTCCTTAACATTGCTTGGGAA 59.925 43.478 0.00 0.00 0.00 3.97
36 37 4.026052 CCTCCTTAACATTGCTTGGGAAT 58.974 43.478 0.00 0.00 0.00 3.01
37 38 4.142093 CCTCCTTAACATTGCTTGGGAATG 60.142 45.833 9.56 9.56 36.94 2.67
38 39 4.415596 TCCTTAACATTGCTTGGGAATGT 58.584 39.130 10.71 10.71 44.21 2.71
39 40 4.220382 TCCTTAACATTGCTTGGGAATGTG 59.780 41.667 15.76 6.08 42.04 3.21
40 41 4.220382 CCTTAACATTGCTTGGGAATGTGA 59.780 41.667 15.76 7.77 42.04 3.58
41 42 3.947910 AACATTGCTTGGGAATGTGAG 57.052 42.857 15.76 0.00 42.04 3.51
42 43 2.173519 ACATTGCTTGGGAATGTGAGG 58.826 47.619 14.64 0.00 41.46 3.86
43 44 1.134907 CATTGCTTGGGAATGTGAGGC 60.135 52.381 4.08 0.00 0.00 4.70
44 45 0.112995 TTGCTTGGGAATGTGAGGCT 59.887 50.000 0.00 0.00 0.00 4.58
45 46 0.112995 TGCTTGGGAATGTGAGGCTT 59.887 50.000 0.00 0.00 0.00 4.35
46 47 1.354031 TGCTTGGGAATGTGAGGCTTA 59.646 47.619 0.00 0.00 0.00 3.09
47 48 2.224992 TGCTTGGGAATGTGAGGCTTAA 60.225 45.455 0.00 0.00 0.00 1.85
48 49 2.825532 GCTTGGGAATGTGAGGCTTAAA 59.174 45.455 0.00 0.00 0.00 1.52
49 50 3.258123 GCTTGGGAATGTGAGGCTTAAAA 59.742 43.478 0.00 0.00 0.00 1.52
50 51 4.619160 GCTTGGGAATGTGAGGCTTAAAAG 60.619 45.833 0.00 0.00 0.00 2.27
51 52 4.112634 TGGGAATGTGAGGCTTAAAAGT 57.887 40.909 0.00 0.00 0.00 2.66
52 53 4.479158 TGGGAATGTGAGGCTTAAAAGTT 58.521 39.130 0.00 0.00 0.00 2.66
53 54 4.898861 TGGGAATGTGAGGCTTAAAAGTTT 59.101 37.500 0.00 0.00 0.00 2.66
54 55 5.010617 TGGGAATGTGAGGCTTAAAAGTTTC 59.989 40.000 0.00 0.00 0.00 2.78
55 56 5.010617 GGGAATGTGAGGCTTAAAAGTTTCA 59.989 40.000 0.00 0.00 0.00 2.69
56 57 6.462347 GGGAATGTGAGGCTTAAAAGTTTCAA 60.462 38.462 0.00 0.00 0.00 2.69
57 58 6.420903 GGAATGTGAGGCTTAAAAGTTTCAAC 59.579 38.462 0.00 0.00 0.00 3.18
58 59 5.257082 TGTGAGGCTTAAAAGTTTCAACC 57.743 39.130 0.00 0.00 0.00 3.77
59 60 4.098807 TGTGAGGCTTAAAAGTTTCAACCC 59.901 41.667 0.00 0.00 0.00 4.11
60 61 4.341235 GTGAGGCTTAAAAGTTTCAACCCT 59.659 41.667 0.00 0.00 0.00 4.34
61 62 4.340950 TGAGGCTTAAAAGTTTCAACCCTG 59.659 41.667 0.00 0.00 0.00 4.45
62 63 4.286707 AGGCTTAAAAGTTTCAACCCTGT 58.713 39.130 0.00 0.00 0.00 4.00
63 64 4.099419 AGGCTTAAAAGTTTCAACCCTGTG 59.901 41.667 0.00 0.00 0.00 3.66
64 65 3.802139 GCTTAAAAGTTTCAACCCTGTGC 59.198 43.478 0.00 0.00 0.00 4.57
65 66 4.679372 GCTTAAAAGTTTCAACCCTGTGCA 60.679 41.667 0.00 0.00 0.00 4.57
66 67 3.971245 AAAAGTTTCAACCCTGTGCAA 57.029 38.095 0.00 0.00 0.00 4.08
67 68 4.486125 AAAAGTTTCAACCCTGTGCAAT 57.514 36.364 0.00 0.00 0.00 3.56
68 69 3.457610 AAGTTTCAACCCTGTGCAATG 57.542 42.857 0.00 0.00 0.00 2.82
69 70 2.387757 AGTTTCAACCCTGTGCAATGT 58.612 42.857 0.00 0.00 0.00 2.71
70 71 2.101249 AGTTTCAACCCTGTGCAATGTG 59.899 45.455 0.00 0.00 0.00 3.21
71 72 0.388659 TTCAACCCTGTGCAATGTGC 59.611 50.000 0.00 0.00 45.29 4.57
72 73 0.467844 TCAACCCTGTGCAATGTGCT 60.468 50.000 1.43 0.00 45.31 4.40
73 74 0.390124 CAACCCTGTGCAATGTGCTT 59.610 50.000 1.43 0.00 45.31 3.91
74 75 0.675633 AACCCTGTGCAATGTGCTTC 59.324 50.000 1.43 0.00 45.31 3.86
75 76 0.178981 ACCCTGTGCAATGTGCTTCT 60.179 50.000 1.43 0.00 45.31 2.85
76 77 0.524862 CCCTGTGCAATGTGCTTCTC 59.475 55.000 1.43 0.00 45.31 2.87
77 78 0.167470 CCTGTGCAATGTGCTTCTCG 59.833 55.000 1.43 0.00 45.31 4.04
78 79 0.167470 CTGTGCAATGTGCTTCTCGG 59.833 55.000 1.43 0.00 45.31 4.63
79 80 1.236616 TGTGCAATGTGCTTCTCGGG 61.237 55.000 1.43 0.00 45.31 5.14
80 81 1.073025 TGCAATGTGCTTCTCGGGT 59.927 52.632 1.43 0.00 45.31 5.28
81 82 1.236616 TGCAATGTGCTTCTCGGGTG 61.237 55.000 1.43 0.00 45.31 4.61
82 83 1.237285 GCAATGTGCTTCTCGGGTGT 61.237 55.000 0.00 0.00 40.96 4.16
83 84 0.518636 CAATGTGCTTCTCGGGTGTG 59.481 55.000 0.00 0.00 0.00 3.82
84 85 0.606401 AATGTGCTTCTCGGGTGTGG 60.606 55.000 0.00 0.00 0.00 4.17
85 86 2.358737 GTGCTTCTCGGGTGTGGG 60.359 66.667 0.00 0.00 0.00 4.61
86 87 2.847234 TGCTTCTCGGGTGTGGGT 60.847 61.111 0.00 0.00 0.00 4.51
87 88 2.430367 GCTTCTCGGGTGTGGGTT 59.570 61.111 0.00 0.00 0.00 4.11
88 89 1.228154 GCTTCTCGGGTGTGGGTTT 60.228 57.895 0.00 0.00 0.00 3.27
89 90 1.515521 GCTTCTCGGGTGTGGGTTTG 61.516 60.000 0.00 0.00 0.00 2.93
90 91 0.179029 CTTCTCGGGTGTGGGTTTGT 60.179 55.000 0.00 0.00 0.00 2.83
91 92 0.464735 TTCTCGGGTGTGGGTTTGTG 60.465 55.000 0.00 0.00 0.00 3.33
92 93 1.153046 CTCGGGTGTGGGTTTGTGT 60.153 57.895 0.00 0.00 0.00 3.72
93 94 1.153127 TCGGGTGTGGGTTTGTGTC 60.153 57.895 0.00 0.00 0.00 3.67
94 95 1.153046 CGGGTGTGGGTTTGTGTCT 60.153 57.895 0.00 0.00 0.00 3.41
95 96 1.444119 CGGGTGTGGGTTTGTGTCTG 61.444 60.000 0.00 0.00 0.00 3.51
96 97 0.106918 GGGTGTGGGTTTGTGTCTGA 60.107 55.000 0.00 0.00 0.00 3.27
97 98 1.021968 GGTGTGGGTTTGTGTCTGAC 58.978 55.000 0.00 0.00 0.00 3.51
98 99 1.408266 GGTGTGGGTTTGTGTCTGACT 60.408 52.381 9.51 0.00 0.00 3.41
99 100 2.158871 GGTGTGGGTTTGTGTCTGACTA 60.159 50.000 9.51 0.00 0.00 2.59
100 101 3.537580 GTGTGGGTTTGTGTCTGACTAA 58.462 45.455 9.51 1.94 0.00 2.24
101 102 4.134563 GTGTGGGTTTGTGTCTGACTAAT 58.865 43.478 9.51 0.00 0.00 1.73
102 103 4.578928 GTGTGGGTTTGTGTCTGACTAATT 59.421 41.667 9.51 0.00 0.00 1.40
103 104 5.761234 GTGTGGGTTTGTGTCTGACTAATTA 59.239 40.000 9.51 0.00 0.00 1.40
104 105 6.261381 GTGTGGGTTTGTGTCTGACTAATTAA 59.739 38.462 9.51 0.00 0.00 1.40
105 106 6.261381 TGTGGGTTTGTGTCTGACTAATTAAC 59.739 38.462 9.51 6.38 0.00 2.01
106 107 5.467399 TGGGTTTGTGTCTGACTAATTAACG 59.533 40.000 9.51 0.00 0.00 3.18
107 108 5.106830 GGGTTTGTGTCTGACTAATTAACGG 60.107 44.000 9.51 0.00 0.00 4.44
108 109 5.467735 GGTTTGTGTCTGACTAATTAACGGT 59.532 40.000 9.51 0.00 0.00 4.83
109 110 6.017687 GGTTTGTGTCTGACTAATTAACGGTT 60.018 38.462 9.51 0.00 0.00 4.44
110 111 6.774354 TTGTGTCTGACTAATTAACGGTTC 57.226 37.500 9.51 0.00 0.00 3.62
111 112 6.092955 TGTGTCTGACTAATTAACGGTTCT 57.907 37.500 9.51 0.00 0.00 3.01
112 113 5.924254 TGTGTCTGACTAATTAACGGTTCTG 59.076 40.000 9.51 0.00 0.00 3.02
113 114 5.924825 GTGTCTGACTAATTAACGGTTCTGT 59.075 40.000 9.51 0.00 0.00 3.41
114 115 6.423001 GTGTCTGACTAATTAACGGTTCTGTT 59.577 38.462 9.51 2.58 35.86 3.16
115 116 7.596248 GTGTCTGACTAATTAACGGTTCTGTTA 59.404 37.037 9.51 0.71 33.32 2.41
116 117 8.143193 TGTCTGACTAATTAACGGTTCTGTTAA 58.857 33.333 16.06 16.06 45.43 2.01
128 129 8.644318 AACGGTTCTGTTAATACTGATATGTC 57.356 34.615 0.00 0.00 33.04 3.06
129 130 7.208080 ACGGTTCTGTTAATACTGATATGTCC 58.792 38.462 0.00 0.00 33.04 4.02
130 131 7.069578 ACGGTTCTGTTAATACTGATATGTCCT 59.930 37.037 0.00 0.00 33.04 3.85
131 132 7.926555 CGGTTCTGTTAATACTGATATGTCCTT 59.073 37.037 0.00 0.00 33.04 3.36
132 133 9.046296 GGTTCTGTTAATACTGATATGTCCTTG 57.954 37.037 0.00 0.00 33.04 3.61
133 134 9.601217 GTTCTGTTAATACTGATATGTCCTTGT 57.399 33.333 0.00 0.00 33.04 3.16
145 146 9.605275 CTGATATGTCCTTGTACATTATATGGG 57.395 37.037 0.00 0.00 40.52 4.00
146 147 9.111519 TGATATGTCCTTGTACATTATATGGGT 57.888 33.333 0.00 0.00 40.52 4.51
150 151 9.739276 ATGTCCTTGTACATTATATGGGTATTG 57.261 33.333 0.00 0.00 36.71 1.90
151 152 7.663905 TGTCCTTGTACATTATATGGGTATTGC 59.336 37.037 0.00 0.00 33.60 3.56
152 153 7.663905 GTCCTTGTACATTATATGGGTATTGCA 59.336 37.037 0.00 0.00 33.60 4.08
153 154 8.390143 TCCTTGTACATTATATGGGTATTGCAT 58.610 33.333 0.00 0.00 33.60 3.96
154 155 8.677300 CCTTGTACATTATATGGGTATTGCATC 58.323 37.037 0.00 0.00 33.60 3.91
155 156 7.841915 TGTACATTATATGGGTATTGCATCG 57.158 36.000 0.00 0.00 33.60 3.84
156 157 5.818136 ACATTATATGGGTATTGCATCGC 57.182 39.130 0.00 0.00 33.60 4.58
157 158 5.500234 ACATTATATGGGTATTGCATCGCT 58.500 37.500 0.00 0.00 33.60 4.93
158 159 5.945784 ACATTATATGGGTATTGCATCGCTT 59.054 36.000 0.00 0.00 33.60 4.68
159 160 5.878332 TTATATGGGTATTGCATCGCTTG 57.122 39.130 0.00 0.00 0.00 4.01
160 161 2.057137 ATGGGTATTGCATCGCTTGT 57.943 45.000 0.00 0.00 0.00 3.16
161 162 2.700722 TGGGTATTGCATCGCTTGTA 57.299 45.000 0.00 0.00 0.00 2.41
162 163 2.285083 TGGGTATTGCATCGCTTGTAC 58.715 47.619 0.00 0.00 0.00 2.90
163 164 2.093181 TGGGTATTGCATCGCTTGTACT 60.093 45.455 0.00 0.00 0.00 2.73
164 165 2.943033 GGGTATTGCATCGCTTGTACTT 59.057 45.455 0.00 0.00 0.00 2.24
165 166 4.124238 GGGTATTGCATCGCTTGTACTTA 58.876 43.478 0.00 0.00 0.00 2.24
166 167 4.755123 GGGTATTGCATCGCTTGTACTTAT 59.245 41.667 0.00 0.00 0.00 1.73
167 168 5.929992 GGGTATTGCATCGCTTGTACTTATA 59.070 40.000 0.00 0.00 0.00 0.98
168 169 6.090898 GGGTATTGCATCGCTTGTACTTATAG 59.909 42.308 0.00 0.00 0.00 1.31
169 170 6.645415 GGTATTGCATCGCTTGTACTTATAGT 59.355 38.462 0.00 0.00 0.00 2.12
170 171 7.811236 GGTATTGCATCGCTTGTACTTATAGTA 59.189 37.037 0.00 0.00 0.00 1.82
171 172 9.188588 GTATTGCATCGCTTGTACTTATAGTAA 57.811 33.333 0.00 0.00 31.62 2.24
172 173 7.694388 TTGCATCGCTTGTACTTATAGTAAG 57.306 36.000 0.00 0.00 31.62 2.34
173 174 6.802608 TGCATCGCTTGTACTTATAGTAAGT 58.197 36.000 7.44 7.44 31.62 2.24
174 175 6.695713 TGCATCGCTTGTACTTATAGTAAGTG 59.304 38.462 11.54 0.00 31.62 3.16
175 176 6.144080 GCATCGCTTGTACTTATAGTAAGTGG 59.856 42.308 11.54 2.69 31.62 4.00
176 177 7.423199 CATCGCTTGTACTTATAGTAAGTGGA 58.577 38.462 11.54 0.00 31.62 4.02
177 178 7.395190 TCGCTTGTACTTATAGTAAGTGGAA 57.605 36.000 11.54 4.66 31.62 3.53
178 179 7.829725 TCGCTTGTACTTATAGTAAGTGGAAA 58.170 34.615 11.54 4.09 31.62 3.13
179 180 8.472413 TCGCTTGTACTTATAGTAAGTGGAAAT 58.528 33.333 11.54 0.00 31.62 2.17
180 181 9.095065 CGCTTGTACTTATAGTAAGTGGAAATT 57.905 33.333 11.54 0.00 31.62 1.82
206 207 8.463930 TTTCTCATATGTTTCAATATGTCCCC 57.536 34.615 1.90 0.00 40.15 4.81
207 208 6.230472 TCTCATATGTTTCAATATGTCCCCG 58.770 40.000 1.90 0.00 40.15 5.73
208 209 6.042666 TCTCATATGTTTCAATATGTCCCCGA 59.957 38.462 1.90 0.00 40.15 5.14
209 210 6.596621 TCATATGTTTCAATATGTCCCCGAA 58.403 36.000 1.90 0.00 40.15 4.30
210 211 7.230747 TCATATGTTTCAATATGTCCCCGAAT 58.769 34.615 1.90 0.00 40.15 3.34
211 212 8.379331 TCATATGTTTCAATATGTCCCCGAATA 58.621 33.333 1.90 0.00 40.15 1.75
212 213 9.008965 CATATGTTTCAATATGTCCCCGAATAA 57.991 33.333 0.00 0.00 36.28 1.40
213 214 9.753674 ATATGTTTCAATATGTCCCCGAATAAT 57.246 29.630 0.00 0.00 0.00 1.28
215 216 9.753674 ATGTTTCAATATGTCCCCGAATAATAT 57.246 29.630 0.00 0.00 0.00 1.28
216 217 9.581289 TGTTTCAATATGTCCCCGAATAATATT 57.419 29.630 0.00 0.00 0.00 1.28
221 222 9.950680 CAATATGTCCCCGAATAATATTAATGC 57.049 33.333 0.00 0.00 0.00 3.56
222 223 9.693739 AATATGTCCCCGAATAATATTAATGCA 57.306 29.630 0.00 0.00 0.00 3.96
223 224 6.811253 TGTCCCCGAATAATATTAATGCAC 57.189 37.500 0.00 0.00 0.00 4.57
224 225 6.299922 TGTCCCCGAATAATATTAATGCACA 58.700 36.000 0.00 0.00 0.00 4.57
225 226 6.205853 TGTCCCCGAATAATATTAATGCACAC 59.794 38.462 0.00 0.00 0.00 3.82
226 227 6.430000 GTCCCCGAATAATATTAATGCACACT 59.570 38.462 0.00 0.00 0.00 3.55
227 228 6.653320 TCCCCGAATAATATTAATGCACACTC 59.347 38.462 0.00 0.00 0.00 3.51
228 229 6.655003 CCCCGAATAATATTAATGCACACTCT 59.345 38.462 0.00 0.00 0.00 3.24
229 230 7.174946 CCCCGAATAATATTAATGCACACTCTT 59.825 37.037 0.00 0.00 0.00 2.85
230 231 8.567948 CCCGAATAATATTAATGCACACTCTTT 58.432 33.333 0.00 0.00 0.00 2.52
231 232 9.599322 CCGAATAATATTAATGCACACTCTTTC 57.401 33.333 0.00 0.00 0.00 2.62
240 241 5.571784 ATGCACACTCTTTCAATACATGG 57.428 39.130 0.00 0.00 0.00 3.66
241 242 3.191162 TGCACACTCTTTCAATACATGGC 59.809 43.478 0.00 0.00 0.00 4.40
242 243 3.441572 GCACACTCTTTCAATACATGGCT 59.558 43.478 0.00 0.00 0.00 4.75
243 244 4.082571 GCACACTCTTTCAATACATGGCTT 60.083 41.667 0.00 0.00 0.00 4.35
244 245 5.123820 GCACACTCTTTCAATACATGGCTTA 59.876 40.000 0.00 0.00 0.00 3.09
245 246 6.546395 CACACTCTTTCAATACATGGCTTAC 58.454 40.000 0.00 0.00 0.00 2.34
246 247 5.648092 ACACTCTTTCAATACATGGCTTACC 59.352 40.000 0.00 0.00 0.00 2.85
247 248 5.066505 CACTCTTTCAATACATGGCTTACCC 59.933 44.000 0.00 0.00 33.59 3.69
248 249 5.044846 ACTCTTTCAATACATGGCTTACCCT 60.045 40.000 0.00 0.00 33.59 4.34
249 250 5.826643 TCTTTCAATACATGGCTTACCCTT 58.173 37.500 0.00 0.00 33.59 3.95
250 251 5.652014 TCTTTCAATACATGGCTTACCCTTG 59.348 40.000 0.00 0.00 42.82 3.61
251 252 3.897239 TCAATACATGGCTTACCCTTGG 58.103 45.455 0.00 0.00 41.77 3.61
252 253 2.362077 CAATACATGGCTTACCCTTGGC 59.638 50.000 0.00 0.00 41.77 4.52
253 254 0.257616 TACATGGCTTACCCTTGGCC 59.742 55.000 0.00 0.00 41.77 5.36
254 255 1.307647 CATGGCTTACCCTTGGCCT 59.692 57.895 3.32 0.00 45.45 5.19
255 256 0.324645 CATGGCTTACCCTTGGCCTT 60.325 55.000 3.32 0.00 45.45 4.35
256 257 0.413434 ATGGCTTACCCTTGGCCTTT 59.587 50.000 3.32 0.00 45.45 3.11
257 258 0.541764 TGGCTTACCCTTGGCCTTTG 60.542 55.000 3.32 0.00 45.45 2.77
258 259 1.591703 GCTTACCCTTGGCCTTTGC 59.408 57.895 3.32 0.00 0.00 3.68
259 260 1.883021 CTTACCCTTGGCCTTTGCG 59.117 57.895 3.32 0.00 38.85 4.85
260 261 2.212900 CTTACCCTTGGCCTTTGCGC 62.213 60.000 3.32 0.00 38.85 6.09
276 277 3.683937 GCCATTGGCGCAACTGGT 61.684 61.111 21.16 0.00 39.62 4.00
277 278 2.568090 CCATTGGCGCAACTGGTC 59.432 61.111 12.94 0.00 0.00 4.02
278 279 2.267351 CCATTGGCGCAACTGGTCA 61.267 57.895 12.94 0.00 0.00 4.02
279 280 1.597797 CCATTGGCGCAACTGGTCAT 61.598 55.000 12.94 0.00 0.00 3.06
280 281 0.179156 CATTGGCGCAACTGGTCATC 60.179 55.000 10.83 0.00 0.00 2.92
281 282 0.322816 ATTGGCGCAACTGGTCATCT 60.323 50.000 10.83 0.00 0.00 2.90
282 283 0.323302 TTGGCGCAACTGGTCATCTA 59.677 50.000 10.83 0.00 0.00 1.98
283 284 0.108186 TGGCGCAACTGGTCATCTAG 60.108 55.000 10.83 0.00 0.00 2.43
284 285 0.108138 GGCGCAACTGGTCATCTAGT 60.108 55.000 10.83 0.00 36.97 2.57
320 321 4.335416 GTCCATGGTCCTTTTCTCAATCA 58.665 43.478 12.58 0.00 0.00 2.57
324 325 6.830324 TCCATGGTCCTTTTCTCAATCATTAG 59.170 38.462 12.58 0.00 0.00 1.73
326 327 5.509498 TGGTCCTTTTCTCAATCATTAGGG 58.491 41.667 0.00 0.00 0.00 3.53
339 340 4.860802 TCATTAGGGCCTCTTTGATTCA 57.139 40.909 10.74 0.00 0.00 2.57
347 348 4.764308 GGGCCTCTTTGATTCATAGGATTC 59.236 45.833 0.84 0.00 0.00 2.52
394 396 7.397892 ACATAGGATTAGGATGTCATACTCG 57.602 40.000 0.00 0.00 0.00 4.18
405 407 5.473846 GGATGTCATACTCGTCTCAATCCTA 59.526 44.000 0.00 0.00 0.00 2.94
406 408 5.752892 TGTCATACTCGTCTCAATCCTAC 57.247 43.478 0.00 0.00 0.00 3.18
413 415 4.707448 ACTCGTCTCAATCCTACATGAGTT 59.293 41.667 0.00 0.00 42.86 3.01
414 416 5.186021 ACTCGTCTCAATCCTACATGAGTTT 59.814 40.000 0.00 0.00 42.86 2.66
420 422 5.009631 TCAATCCTACATGAGTTTGGGTTG 58.990 41.667 0.00 6.77 40.01 3.77
427 429 5.200368 ACATGAGTTTGGGTTGTTTGATC 57.800 39.130 0.00 0.00 0.00 2.92
436 438 2.164219 GGGTTGTTTGATCGCATCATGT 59.836 45.455 0.00 0.00 39.39 3.21
437 439 3.376859 GGGTTGTTTGATCGCATCATGTA 59.623 43.478 0.00 0.00 39.39 2.29
439 441 5.398169 GGTTGTTTGATCGCATCATGTAAA 58.602 37.500 0.00 0.00 39.39 2.01
491 493 8.430573 TGAATGGATTATAGAAATCCTACGGA 57.569 34.615 15.73 0.00 45.01 4.69
494 496 9.726438 AATGGATTATAGAAATCCTACGGAAAG 57.274 33.333 15.73 0.00 45.01 2.62
496 498 9.370930 TGGATTATAGAAATCCTACGGAAAGTA 57.629 33.333 15.73 0.00 45.01 2.24
557 559 8.578448 TCAATCATATGAATCTGACAAACCAA 57.422 30.769 9.99 0.00 0.00 3.67
559 561 6.421377 TCATATGAATCTGACAAACCAACG 57.579 37.500 1.98 0.00 0.00 4.10
566 568 6.485313 TGAATCTGACAAACCAACGTAGAAAT 59.515 34.615 0.00 0.00 0.00 2.17
567 569 5.917541 TCTGACAAACCAACGTAGAAATC 57.082 39.130 0.00 0.00 0.00 2.17
568 570 5.607477 TCTGACAAACCAACGTAGAAATCT 58.393 37.500 0.00 0.00 0.00 2.40
571 573 7.066525 TCTGACAAACCAACGTAGAAATCTTTT 59.933 33.333 0.00 0.00 0.00 2.27
578 580 7.447594 ACCAACGTAGAAATCTTTTCTAAGGA 58.552 34.615 19.73 0.00 35.68 3.36
579 581 8.101419 ACCAACGTAGAAATCTTTTCTAAGGAT 58.899 33.333 19.73 10.46 35.68 3.24
633 2232 9.793259 ACTTTTGAATGAAAGGATCTAGTTACA 57.207 29.630 0.00 0.00 40.19 2.41
635 2234 9.793259 TTTTGAATGAAAGGATCTAGTTACAGT 57.207 29.630 0.00 0.00 0.00 3.55
661 2283 5.585844 TCTTATATGTCTGCAATGGTGTGTG 59.414 40.000 0.00 0.00 0.00 3.82
722 2345 4.092091 GTCTTAGTGACAGGAAATTCGCAG 59.908 45.833 0.00 0.00 44.73 5.18
740 2363 4.926832 TCGCAGAATCGTAGAACAATTTCA 59.073 37.500 0.00 0.00 43.58 2.69
743 2366 6.017933 GCAGAATCGTAGAACAATTTCACTG 58.982 40.000 0.00 0.00 43.58 3.66
794 2424 5.983118 CACATCAGTATTGCACGGAATACTA 59.017 40.000 19.53 11.19 44.04 1.82
864 2499 2.525105 TAAAACCATGCCCCCTCTTC 57.475 50.000 0.00 0.00 0.00 2.87
882 2524 4.168291 CCTTGCCGGCTCCTCCTC 62.168 72.222 29.70 0.00 0.00 3.71
969 2613 2.487762 CCTCATTTACGCCACAACACAT 59.512 45.455 0.00 0.00 0.00 3.21
1074 2718 3.966543 CCCGCCACCAACCTCCTT 61.967 66.667 0.00 0.00 0.00 3.36
1089 2733 1.529010 CCTTGCCAAGCACCACTCA 60.529 57.895 0.00 0.00 38.71 3.41
1750 3406 2.847234 TGTGGGAGGCCGTGTTCT 60.847 61.111 0.00 0.00 0.00 3.01
1834 3490 2.123428 GGGGCGCCTCGTTAGTAGA 61.123 63.158 28.56 0.00 0.00 2.59
1880 3536 6.152661 ACCCTGTAAAATGTGATTATGTGTGG 59.847 38.462 0.00 0.00 0.00 4.17
1881 3537 6.152661 CCCTGTAAAATGTGATTATGTGTGGT 59.847 38.462 0.00 0.00 0.00 4.16
1882 3538 7.250569 CCTGTAAAATGTGATTATGTGTGGTC 58.749 38.462 0.00 0.00 0.00 4.02
1915 3571 6.475727 TGGTAGACTAGACGTACGTATGTAAC 59.524 42.308 24.74 19.17 30.94 2.50
1917 3573 7.222999 GGTAGACTAGACGTACGTATGTAACTT 59.777 40.741 24.74 9.13 30.94 2.66
2008 3673 4.771590 TCATCTTTGCAGTGTGGAAATC 57.228 40.909 0.00 0.00 37.08 2.17
2266 3956 6.826231 TCACAGAACTCATTTTGTCTTTACCA 59.174 34.615 0.00 0.00 30.98 3.25
2270 3960 9.364989 CAGAACTCATTTTGTCTTTACCAAAAA 57.635 29.630 2.83 0.00 42.95 1.94
2379 4233 6.647334 TGTTTGTCTCTTCATTTATTGGCA 57.353 33.333 0.00 0.00 0.00 4.92
2382 4236 7.814107 TGTTTGTCTCTTCATTTATTGGCAATC 59.186 33.333 17.41 0.00 0.00 2.67
2491 4370 0.457851 CCAAAGTGGTTTCGGCACAA 59.542 50.000 0.00 0.00 31.35 3.33
2619 4499 0.527565 TACGAAACCTCTGTACCGCC 59.472 55.000 0.00 0.00 0.00 6.13
2645 4525 8.980481 TTTCATAGGAAATCTAACCTCCATTC 57.020 34.615 0.00 0.00 38.07 2.67
2723 4605 8.650143 AATCCTATAATATTCAAACGGGCATT 57.350 30.769 0.00 0.00 0.00 3.56
2753 4635 5.886609 TCAATCCTGTACTTTTTCCATCCA 58.113 37.500 0.00 0.00 0.00 3.41
2765 4647 4.327982 TTTCCATCCATGCGTTTTCAAA 57.672 36.364 0.00 0.00 0.00 2.69
2770 4652 3.311486 TCCATGCGTTTTCAAAATCCC 57.689 42.857 0.00 0.00 0.00 3.85
2805 4688 6.154534 AGAGGCACTATATATTTGGCATACGA 59.845 38.462 17.64 0.00 41.55 3.43
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.163141 TGTTAAGGAGGACCAACAGAATTGA 60.163 40.000 0.00 0.00 38.94 2.57
1 2 5.070001 TGTTAAGGAGGACCAACAGAATTG 58.930 41.667 0.00 0.00 38.94 2.32
2 3 5.319043 TGTTAAGGAGGACCAACAGAATT 57.681 39.130 0.00 0.00 38.94 2.17
3 4 4.993705 TGTTAAGGAGGACCAACAGAAT 57.006 40.909 0.00 0.00 38.94 2.40
4 5 4.993705 ATGTTAAGGAGGACCAACAGAA 57.006 40.909 0.00 0.00 36.17 3.02
5 6 4.651778 CAATGTTAAGGAGGACCAACAGA 58.348 43.478 0.00 0.00 36.17 3.41
6 7 3.191371 GCAATGTTAAGGAGGACCAACAG 59.809 47.826 0.00 0.00 36.17 3.16
7 8 3.153919 GCAATGTTAAGGAGGACCAACA 58.846 45.455 0.00 0.00 36.80 3.33
8 9 3.421844 AGCAATGTTAAGGAGGACCAAC 58.578 45.455 0.00 0.00 38.94 3.77
9 10 3.806949 AGCAATGTTAAGGAGGACCAA 57.193 42.857 0.00 0.00 38.94 3.67
10 11 3.420893 CAAGCAATGTTAAGGAGGACCA 58.579 45.455 0.00 0.00 38.94 4.02
11 12 2.755103 CCAAGCAATGTTAAGGAGGACC 59.245 50.000 0.00 0.00 0.00 4.46
12 13 2.755103 CCCAAGCAATGTTAAGGAGGAC 59.245 50.000 0.00 0.00 0.00 3.85
13 14 2.647299 TCCCAAGCAATGTTAAGGAGGA 59.353 45.455 0.00 0.00 0.00 3.71
14 15 3.085952 TCCCAAGCAATGTTAAGGAGG 57.914 47.619 0.00 0.00 0.00 4.30
15 16 4.463891 ACATTCCCAAGCAATGTTAAGGAG 59.536 41.667 0.00 0.00 40.83 3.69
16 17 4.220382 CACATTCCCAAGCAATGTTAAGGA 59.780 41.667 0.00 0.00 41.58 3.36
17 18 4.220382 TCACATTCCCAAGCAATGTTAAGG 59.780 41.667 0.00 0.00 41.58 2.69
18 19 5.389859 TCACATTCCCAAGCAATGTTAAG 57.610 39.130 0.00 0.00 41.58 1.85
19 20 4.220382 CCTCACATTCCCAAGCAATGTTAA 59.780 41.667 0.00 0.00 41.58 2.01
20 21 3.763360 CCTCACATTCCCAAGCAATGTTA 59.237 43.478 0.00 0.00 41.58 2.41
21 22 2.564062 CCTCACATTCCCAAGCAATGTT 59.436 45.455 0.00 0.00 41.58 2.71
22 23 2.173519 CCTCACATTCCCAAGCAATGT 58.826 47.619 0.00 0.00 43.80 2.71
23 24 1.134907 GCCTCACATTCCCAAGCAATG 60.135 52.381 0.00 0.00 37.29 2.82
24 25 1.188863 GCCTCACATTCCCAAGCAAT 58.811 50.000 0.00 0.00 0.00 3.56
25 26 0.112995 AGCCTCACATTCCCAAGCAA 59.887 50.000 0.00 0.00 0.00 3.91
26 27 0.112995 AAGCCTCACATTCCCAAGCA 59.887 50.000 0.00 0.00 0.00 3.91
27 28 2.128771 TAAGCCTCACATTCCCAAGC 57.871 50.000 0.00 0.00 0.00 4.01
28 29 4.524328 ACTTTTAAGCCTCACATTCCCAAG 59.476 41.667 0.00 0.00 0.00 3.61
29 30 4.479158 ACTTTTAAGCCTCACATTCCCAA 58.521 39.130 0.00 0.00 0.00 4.12
30 31 4.112634 ACTTTTAAGCCTCACATTCCCA 57.887 40.909 0.00 0.00 0.00 4.37
31 32 5.010617 TGAAACTTTTAAGCCTCACATTCCC 59.989 40.000 0.00 0.00 0.00 3.97
32 33 6.084326 TGAAACTTTTAAGCCTCACATTCC 57.916 37.500 0.00 0.00 0.00 3.01
33 34 6.420903 GGTTGAAACTTTTAAGCCTCACATTC 59.579 38.462 0.00 0.00 0.00 2.67
34 35 6.280643 GGTTGAAACTTTTAAGCCTCACATT 58.719 36.000 0.00 0.00 0.00 2.71
35 36 5.221441 GGGTTGAAACTTTTAAGCCTCACAT 60.221 40.000 16.28 0.00 38.56 3.21
36 37 4.098807 GGGTTGAAACTTTTAAGCCTCACA 59.901 41.667 16.28 0.00 38.56 3.58
37 38 4.341235 AGGGTTGAAACTTTTAAGCCTCAC 59.659 41.667 19.15 0.87 46.17 3.51
38 39 4.340950 CAGGGTTGAAACTTTTAAGCCTCA 59.659 41.667 21.09 0.00 46.17 3.86
39 40 4.341235 ACAGGGTTGAAACTTTTAAGCCTC 59.659 41.667 21.09 2.81 46.17 4.70
41 42 4.368315 CACAGGGTTGAAACTTTTAAGCC 58.632 43.478 15.95 15.95 41.12 4.35
42 43 3.802139 GCACAGGGTTGAAACTTTTAAGC 59.198 43.478 0.71 0.71 0.00 3.09
43 44 5.004922 TGCACAGGGTTGAAACTTTTAAG 57.995 39.130 0.00 0.00 0.00 1.85
44 45 5.407407 TTGCACAGGGTTGAAACTTTTAA 57.593 34.783 0.00 0.00 0.00 1.52
45 46 5.105146 ACATTGCACAGGGTTGAAACTTTTA 60.105 36.000 0.00 0.00 0.00 1.52
46 47 3.971245 TTGCACAGGGTTGAAACTTTT 57.029 38.095 0.00 0.00 0.00 2.27
47 48 3.197549 ACATTGCACAGGGTTGAAACTTT 59.802 39.130 0.00 0.00 0.00 2.66
48 49 2.765699 ACATTGCACAGGGTTGAAACTT 59.234 40.909 0.00 0.00 0.00 2.66
49 50 2.101249 CACATTGCACAGGGTTGAAACT 59.899 45.455 0.00 0.00 0.00 2.66
50 51 2.472816 CACATTGCACAGGGTTGAAAC 58.527 47.619 0.00 0.00 0.00 2.78
51 52 1.202510 GCACATTGCACAGGGTTGAAA 60.203 47.619 0.00 0.00 44.26 2.69
52 53 0.388659 GCACATTGCACAGGGTTGAA 59.611 50.000 0.00 0.00 44.26 2.69
53 54 2.040330 GCACATTGCACAGGGTTGA 58.960 52.632 0.00 0.00 44.26 3.18
54 55 4.659480 GCACATTGCACAGGGTTG 57.341 55.556 0.00 0.00 44.26 3.77
63 64 1.237285 ACACCCGAGAAGCACATTGC 61.237 55.000 0.00 0.00 45.46 3.56
64 65 0.518636 CACACCCGAGAAGCACATTG 59.481 55.000 0.00 0.00 0.00 2.82
65 66 0.606401 CCACACCCGAGAAGCACATT 60.606 55.000 0.00 0.00 0.00 2.71
66 67 1.003355 CCACACCCGAGAAGCACAT 60.003 57.895 0.00 0.00 0.00 3.21
67 68 2.425592 CCACACCCGAGAAGCACA 59.574 61.111 0.00 0.00 0.00 4.57
68 69 2.358737 CCCACACCCGAGAAGCAC 60.359 66.667 0.00 0.00 0.00 4.40
69 70 1.990160 AAACCCACACCCGAGAAGCA 61.990 55.000 0.00 0.00 0.00 3.91
70 71 1.228154 AAACCCACACCCGAGAAGC 60.228 57.895 0.00 0.00 0.00 3.86
71 72 0.179029 ACAAACCCACACCCGAGAAG 60.179 55.000 0.00 0.00 0.00 2.85
72 73 0.464735 CACAAACCCACACCCGAGAA 60.465 55.000 0.00 0.00 0.00 2.87
73 74 1.147376 CACAAACCCACACCCGAGA 59.853 57.895 0.00 0.00 0.00 4.04
74 75 1.153046 ACACAAACCCACACCCGAG 60.153 57.895 0.00 0.00 0.00 4.63
75 76 1.153127 GACACAAACCCACACCCGA 60.153 57.895 0.00 0.00 0.00 5.14
76 77 1.153046 AGACACAAACCCACACCCG 60.153 57.895 0.00 0.00 0.00 5.28
77 78 0.106918 TCAGACACAAACCCACACCC 60.107 55.000 0.00 0.00 0.00 4.61
78 79 1.021968 GTCAGACACAAACCCACACC 58.978 55.000 0.00 0.00 0.00 4.16
79 80 2.038387 AGTCAGACACAAACCCACAC 57.962 50.000 2.66 0.00 0.00 3.82
80 81 3.916359 TTAGTCAGACACAAACCCACA 57.084 42.857 2.66 0.00 0.00 4.17
81 82 6.565247 CGTTAATTAGTCAGACACAAACCCAC 60.565 42.308 2.66 0.00 0.00 4.61
82 83 5.467399 CGTTAATTAGTCAGACACAAACCCA 59.533 40.000 2.66 0.00 0.00 4.51
83 84 5.106830 CCGTTAATTAGTCAGACACAAACCC 60.107 44.000 2.66 0.00 0.00 4.11
84 85 5.467735 ACCGTTAATTAGTCAGACACAAACC 59.532 40.000 2.66 0.00 0.00 3.27
85 86 6.535274 ACCGTTAATTAGTCAGACACAAAC 57.465 37.500 2.66 0.00 0.00 2.93
86 87 6.987992 AGAACCGTTAATTAGTCAGACACAAA 59.012 34.615 2.66 0.00 0.00 2.83
87 88 6.422701 CAGAACCGTTAATTAGTCAGACACAA 59.577 38.462 2.66 0.00 0.00 3.33
88 89 5.924254 CAGAACCGTTAATTAGTCAGACACA 59.076 40.000 2.66 0.00 0.00 3.72
89 90 5.924825 ACAGAACCGTTAATTAGTCAGACAC 59.075 40.000 2.66 0.00 0.00 3.67
90 91 6.092955 ACAGAACCGTTAATTAGTCAGACA 57.907 37.500 2.66 0.00 0.00 3.41
91 92 8.524870 TTAACAGAACCGTTAATTAGTCAGAC 57.475 34.615 0.00 0.00 36.63 3.51
102 103 9.740239 GACATATCAGTATTAACAGAACCGTTA 57.260 33.333 0.00 0.00 0.00 3.18
103 104 7.709613 GGACATATCAGTATTAACAGAACCGTT 59.290 37.037 0.00 0.00 0.00 4.44
104 105 7.069578 AGGACATATCAGTATTAACAGAACCGT 59.930 37.037 0.00 0.00 0.00 4.83
105 106 7.434492 AGGACATATCAGTATTAACAGAACCG 58.566 38.462 0.00 0.00 0.00 4.44
106 107 9.046296 CAAGGACATATCAGTATTAACAGAACC 57.954 37.037 0.00 0.00 0.00 3.62
107 108 9.601217 ACAAGGACATATCAGTATTAACAGAAC 57.399 33.333 0.00 0.00 0.00 3.01
119 120 9.605275 CCCATATAATGTACAAGGACATATCAG 57.395 37.037 0.00 0.00 39.16 2.90
120 121 9.111519 ACCCATATAATGTACAAGGACATATCA 57.888 33.333 0.00 0.00 39.16 2.15
124 125 9.739276 CAATACCCATATAATGTACAAGGACAT 57.261 33.333 0.00 0.00 41.92 3.06
125 126 7.663905 GCAATACCCATATAATGTACAAGGACA 59.336 37.037 0.00 0.00 0.00 4.02
126 127 7.663905 TGCAATACCCATATAATGTACAAGGAC 59.336 37.037 0.00 0.00 0.00 3.85
127 128 7.750655 TGCAATACCCATATAATGTACAAGGA 58.249 34.615 0.00 0.00 0.00 3.36
128 129 7.994425 TGCAATACCCATATAATGTACAAGG 57.006 36.000 0.00 0.00 0.00 3.61
129 130 8.390354 CGATGCAATACCCATATAATGTACAAG 58.610 37.037 0.00 0.00 0.00 3.16
130 131 7.148323 GCGATGCAATACCCATATAATGTACAA 60.148 37.037 0.00 0.00 0.00 2.41
131 132 6.315144 GCGATGCAATACCCATATAATGTACA 59.685 38.462 0.00 0.00 0.00 2.90
132 133 6.538742 AGCGATGCAATACCCATATAATGTAC 59.461 38.462 0.00 0.00 0.00 2.90
133 134 6.649155 AGCGATGCAATACCCATATAATGTA 58.351 36.000 0.00 0.00 0.00 2.29
134 135 5.500234 AGCGATGCAATACCCATATAATGT 58.500 37.500 0.00 0.00 0.00 2.71
135 136 6.127925 ACAAGCGATGCAATACCCATATAATG 60.128 38.462 0.00 0.00 0.00 1.90
136 137 5.945784 ACAAGCGATGCAATACCCATATAAT 59.054 36.000 0.00 0.00 0.00 1.28
137 138 5.312895 ACAAGCGATGCAATACCCATATAA 58.687 37.500 0.00 0.00 0.00 0.98
138 139 4.905429 ACAAGCGATGCAATACCCATATA 58.095 39.130 0.00 0.00 0.00 0.86
139 140 3.754965 ACAAGCGATGCAATACCCATAT 58.245 40.909 0.00 0.00 0.00 1.78
140 141 3.207265 ACAAGCGATGCAATACCCATA 57.793 42.857 0.00 0.00 0.00 2.74
141 142 2.057137 ACAAGCGATGCAATACCCAT 57.943 45.000 0.00 0.00 0.00 4.00
142 143 2.093181 AGTACAAGCGATGCAATACCCA 60.093 45.455 0.00 0.00 0.00 4.51
143 144 2.561569 AGTACAAGCGATGCAATACCC 58.438 47.619 0.00 0.00 0.00 3.69
144 145 5.924475 ATAAGTACAAGCGATGCAATACC 57.076 39.130 0.00 0.00 0.00 2.73
145 146 7.639162 ACTATAAGTACAAGCGATGCAATAC 57.361 36.000 0.00 0.00 0.00 1.89
146 147 9.406828 CTTACTATAAGTACAAGCGATGCAATA 57.593 33.333 0.00 0.00 28.93 1.90
147 148 7.926555 ACTTACTATAAGTACAAGCGATGCAAT 59.073 33.333 0.00 0.00 28.93 3.56
148 149 7.222031 CACTTACTATAAGTACAAGCGATGCAA 59.778 37.037 0.00 0.00 28.93 4.08
149 150 6.695713 CACTTACTATAAGTACAAGCGATGCA 59.304 38.462 1.05 0.00 28.93 3.96
150 151 6.144080 CCACTTACTATAAGTACAAGCGATGC 59.856 42.308 1.05 0.00 28.93 3.91
151 152 7.423199 TCCACTTACTATAAGTACAAGCGATG 58.577 38.462 1.05 0.00 28.93 3.84
152 153 7.578310 TCCACTTACTATAAGTACAAGCGAT 57.422 36.000 1.05 0.00 28.93 4.58
153 154 7.395190 TTCCACTTACTATAAGTACAAGCGA 57.605 36.000 1.05 0.00 28.93 4.93
154 155 8.644318 ATTTCCACTTACTATAAGTACAAGCG 57.356 34.615 1.05 0.00 28.93 4.68
180 181 8.912988 GGGGACATATTGAAACATATGAGAAAA 58.087 33.333 10.38 0.00 35.38 2.29
181 182 7.228507 CGGGGACATATTGAAACATATGAGAAA 59.771 37.037 10.38 0.00 35.38 2.52
182 183 6.710295 CGGGGACATATTGAAACATATGAGAA 59.290 38.462 10.38 0.00 35.38 2.87
183 184 6.042666 TCGGGGACATATTGAAACATATGAGA 59.957 38.462 10.38 0.00 35.38 3.27
184 185 6.230472 TCGGGGACATATTGAAACATATGAG 58.770 40.000 10.38 0.00 35.38 2.90
185 186 6.181206 TCGGGGACATATTGAAACATATGA 57.819 37.500 10.38 0.00 35.38 2.15
186 187 6.875948 TTCGGGGACATATTGAAACATATG 57.124 37.500 0.00 0.00 36.94 1.78
187 188 9.753674 ATTATTCGGGGACATATTGAAACATAT 57.246 29.630 0.00 0.00 0.00 1.78
189 190 9.753674 ATATTATTCGGGGACATATTGAAACAT 57.246 29.630 0.00 0.00 0.00 2.71
190 191 9.581289 AATATTATTCGGGGACATATTGAAACA 57.419 29.630 0.00 0.00 0.00 2.83
195 196 9.950680 GCATTAATATTATTCGGGGACATATTG 57.049 33.333 0.00 0.00 0.00 1.90
196 197 9.693739 TGCATTAATATTATTCGGGGACATATT 57.306 29.630 0.00 0.00 0.00 1.28
197 198 9.120538 GTGCATTAATATTATTCGGGGACATAT 57.879 33.333 0.00 0.00 0.00 1.78
198 199 8.103935 TGTGCATTAATATTATTCGGGGACATA 58.896 33.333 0.00 0.00 0.00 2.29
199 200 6.945435 TGTGCATTAATATTATTCGGGGACAT 59.055 34.615 0.00 0.00 0.00 3.06
200 201 6.205853 GTGTGCATTAATATTATTCGGGGACA 59.794 38.462 0.00 0.50 0.00 4.02
201 202 6.430000 AGTGTGCATTAATATTATTCGGGGAC 59.570 38.462 0.00 0.00 0.00 4.46
202 203 6.539173 AGTGTGCATTAATATTATTCGGGGA 58.461 36.000 0.00 0.00 0.00 4.81
203 204 6.655003 AGAGTGTGCATTAATATTATTCGGGG 59.345 38.462 0.00 0.00 0.00 5.73
204 205 7.672983 AGAGTGTGCATTAATATTATTCGGG 57.327 36.000 0.00 0.00 0.00 5.14
205 206 9.599322 GAAAGAGTGTGCATTAATATTATTCGG 57.401 33.333 0.00 0.00 0.00 4.30
214 215 8.192774 CCATGTATTGAAAGAGTGTGCATTAAT 58.807 33.333 0.00 0.00 0.00 1.40
215 216 7.537715 CCATGTATTGAAAGAGTGTGCATTAA 58.462 34.615 0.00 0.00 0.00 1.40
216 217 6.404623 GCCATGTATTGAAAGAGTGTGCATTA 60.405 38.462 0.00 0.00 0.00 1.90
217 218 5.622914 GCCATGTATTGAAAGAGTGTGCATT 60.623 40.000 0.00 0.00 0.00 3.56
218 219 4.142315 GCCATGTATTGAAAGAGTGTGCAT 60.142 41.667 0.00 0.00 0.00 3.96
219 220 3.191162 GCCATGTATTGAAAGAGTGTGCA 59.809 43.478 0.00 0.00 0.00 4.57
220 221 3.441572 AGCCATGTATTGAAAGAGTGTGC 59.558 43.478 0.00 0.00 0.00 4.57
221 222 5.633830 AAGCCATGTATTGAAAGAGTGTG 57.366 39.130 0.00 0.00 0.00 3.82
222 223 5.648092 GGTAAGCCATGTATTGAAAGAGTGT 59.352 40.000 0.00 0.00 34.09 3.55
223 224 5.066505 GGGTAAGCCATGTATTGAAAGAGTG 59.933 44.000 0.00 0.00 36.17 3.51
224 225 5.044846 AGGGTAAGCCATGTATTGAAAGAGT 60.045 40.000 0.00 0.00 36.17 3.24
225 226 5.440610 AGGGTAAGCCATGTATTGAAAGAG 58.559 41.667 0.00 0.00 36.17 2.85
226 227 5.450818 AGGGTAAGCCATGTATTGAAAGA 57.549 39.130 0.00 0.00 36.17 2.52
227 228 5.163519 CCAAGGGTAAGCCATGTATTGAAAG 60.164 44.000 0.00 0.00 36.17 2.62
228 229 4.709397 CCAAGGGTAAGCCATGTATTGAAA 59.291 41.667 0.00 0.00 36.17 2.69
229 230 4.277476 CCAAGGGTAAGCCATGTATTGAA 58.723 43.478 0.00 0.00 36.17 2.69
230 231 3.897239 CCAAGGGTAAGCCATGTATTGA 58.103 45.455 0.00 0.00 36.17 2.57
231 232 2.362077 GCCAAGGGTAAGCCATGTATTG 59.638 50.000 0.00 0.00 36.17 1.90
232 233 2.666317 GCCAAGGGTAAGCCATGTATT 58.334 47.619 0.00 0.00 36.17 1.89
233 234 1.133482 GGCCAAGGGTAAGCCATGTAT 60.133 52.381 0.00 0.00 46.34 2.29
234 235 0.257616 GGCCAAGGGTAAGCCATGTA 59.742 55.000 0.00 0.00 46.34 2.29
235 236 1.000359 GGCCAAGGGTAAGCCATGT 60.000 57.895 0.00 0.00 46.34 3.21
236 237 3.939564 GGCCAAGGGTAAGCCATG 58.060 61.111 0.00 0.00 46.34 3.66
240 241 1.591703 GCAAAGGCCAAGGGTAAGC 59.408 57.895 5.01 0.00 0.00 3.09
241 242 1.883021 CGCAAAGGCCAAGGGTAAG 59.117 57.895 5.01 0.00 36.38 2.34
242 243 2.272447 GCGCAAAGGCCAAGGGTAA 61.272 57.895 5.01 0.00 36.38 2.85
243 244 2.675075 GCGCAAAGGCCAAGGGTA 60.675 61.111 5.01 0.00 36.38 3.69
259 260 3.631487 GACCAGTTGCGCCAATGGC 62.631 63.158 25.80 15.52 46.75 4.40
260 261 1.597797 ATGACCAGTTGCGCCAATGG 61.598 55.000 24.50 24.50 38.83 3.16
261 262 0.179156 GATGACCAGTTGCGCCAATG 60.179 55.000 4.18 2.61 0.00 2.82
262 263 0.322816 AGATGACCAGTTGCGCCAAT 60.323 50.000 4.18 0.00 0.00 3.16
263 264 0.323302 TAGATGACCAGTTGCGCCAA 59.677 50.000 4.18 0.00 0.00 4.52
264 265 0.108186 CTAGATGACCAGTTGCGCCA 60.108 55.000 4.18 0.00 0.00 5.69
265 266 0.108138 ACTAGATGACCAGTTGCGCC 60.108 55.000 4.18 0.00 0.00 6.53
266 267 1.002366 CACTAGATGACCAGTTGCGC 58.998 55.000 0.00 0.00 0.00 6.09
267 268 2.370281 ACACTAGATGACCAGTTGCG 57.630 50.000 0.00 0.00 0.00 4.85
268 269 5.479306 TCTTAACACTAGATGACCAGTTGC 58.521 41.667 0.00 0.00 0.00 4.17
269 270 9.307121 CTATTCTTAACACTAGATGACCAGTTG 57.693 37.037 0.00 0.00 0.00 3.16
270 271 9.256228 TCTATTCTTAACACTAGATGACCAGTT 57.744 33.333 0.00 0.00 0.00 3.16
271 272 8.688151 GTCTATTCTTAACACTAGATGACCAGT 58.312 37.037 0.00 0.00 0.00 4.00
272 273 7.858382 CGTCTATTCTTAACACTAGATGACCAG 59.142 40.741 0.00 0.00 31.68 4.00
273 274 7.338703 ACGTCTATTCTTAACACTAGATGACCA 59.661 37.037 0.00 0.00 33.44 4.02
274 275 7.705214 ACGTCTATTCTTAACACTAGATGACC 58.295 38.462 0.00 0.00 33.44 4.02
275 276 7.856894 GGACGTCTATTCTTAACACTAGATGAC 59.143 40.741 16.46 0.24 33.44 3.06
276 277 7.555195 TGGACGTCTATTCTTAACACTAGATGA 59.445 37.037 16.46 0.00 33.44 2.92
277 278 7.704271 TGGACGTCTATTCTTAACACTAGATG 58.296 38.462 16.46 0.00 34.72 2.90
278 279 7.876936 TGGACGTCTATTCTTAACACTAGAT 57.123 36.000 16.46 0.00 0.00 1.98
279 280 7.201794 CCATGGACGTCTATTCTTAACACTAGA 60.202 40.741 16.46 0.00 0.00 2.43
280 281 6.918569 CCATGGACGTCTATTCTTAACACTAG 59.081 42.308 16.46 0.00 0.00 2.57
281 282 6.379133 ACCATGGACGTCTATTCTTAACACTA 59.621 38.462 21.47 0.00 0.00 2.74
282 283 5.187186 ACCATGGACGTCTATTCTTAACACT 59.813 40.000 21.47 0.00 0.00 3.55
283 284 5.416947 ACCATGGACGTCTATTCTTAACAC 58.583 41.667 21.47 0.00 0.00 3.32
284 285 5.394883 GGACCATGGACGTCTATTCTTAACA 60.395 44.000 21.47 1.43 0.00 2.41
320 321 5.612688 TCCTATGAATCAAAGAGGCCCTAAT 59.387 40.000 0.00 0.00 0.00 1.73
324 325 3.864789 TCCTATGAATCAAAGAGGCCC 57.135 47.619 0.00 0.00 0.00 5.80
326 327 8.682936 TTTAGAATCCTATGAATCAAAGAGGC 57.317 34.615 4.80 0.00 0.00 4.70
373 375 6.780901 AGACGAGTATGACATCCTAATCCTA 58.219 40.000 0.00 0.00 0.00 2.94
379 381 5.473846 GGATTGAGACGAGTATGACATCCTA 59.526 44.000 0.00 0.00 0.00 2.94
380 382 4.279671 GGATTGAGACGAGTATGACATCCT 59.720 45.833 0.00 0.00 0.00 3.24
381 383 4.279671 AGGATTGAGACGAGTATGACATCC 59.720 45.833 0.00 0.00 0.00 3.51
382 384 5.446143 AGGATTGAGACGAGTATGACATC 57.554 43.478 0.00 0.00 0.00 3.06
387 389 6.016693 ACTCATGTAGGATTGAGACGAGTATG 60.017 42.308 6.91 0.00 41.53 2.39
390 392 4.274147 ACTCATGTAGGATTGAGACGAGT 58.726 43.478 6.91 0.00 41.53 4.18
394 396 4.878397 CCCAAACTCATGTAGGATTGAGAC 59.122 45.833 6.91 0.00 41.53 3.36
405 407 4.261572 CGATCAAACAACCCAAACTCATGT 60.262 41.667 0.00 0.00 0.00 3.21
406 408 4.229096 CGATCAAACAACCCAAACTCATG 58.771 43.478 0.00 0.00 0.00 3.07
413 415 2.234143 TGATGCGATCAAACAACCCAA 58.766 42.857 0.00 0.00 36.11 4.12
414 416 1.902938 TGATGCGATCAAACAACCCA 58.097 45.000 0.00 0.00 36.11 4.51
460 462 9.942526 AGGATTTCTATAATCCATTCAAACCTT 57.057 29.630 16.47 0.00 46.70 3.50
519 521 8.956533 TTCATATGATTGAATCCTACACGAAA 57.043 30.769 6.17 0.00 30.82 3.46
547 549 6.687081 AAAGATTTCTACGTTGGTTTGTCA 57.313 33.333 0.00 0.00 0.00 3.58
548 550 7.415229 AGAAAAGATTTCTACGTTGGTTTGTC 58.585 34.615 3.62 0.00 0.00 3.18
550 552 9.382244 CTTAGAAAAGATTTCTACGTTGGTTTG 57.618 33.333 11.10 0.00 34.37 2.93
551 553 8.565416 CCTTAGAAAAGATTTCTACGTTGGTTT 58.435 33.333 11.10 0.00 34.37 3.27
607 2206 9.793259 TGTAACTAGATCCTTTCATTCAAAAGT 57.207 29.630 0.00 0.00 34.99 2.66
630 2229 8.870116 ACCATTGCAGACATATAAGATACTGTA 58.130 33.333 0.00 0.00 0.00 2.74
632 2231 7.658982 ACACCATTGCAGACATATAAGATACTG 59.341 37.037 0.00 0.00 0.00 2.74
633 2232 7.658982 CACACCATTGCAGACATATAAGATACT 59.341 37.037 0.00 0.00 0.00 2.12
634 2233 7.442364 ACACACCATTGCAGACATATAAGATAC 59.558 37.037 0.00 0.00 0.00 2.24
635 2234 7.442062 CACACACCATTGCAGACATATAAGATA 59.558 37.037 0.00 0.00 0.00 1.98
636 2235 6.261603 CACACACCATTGCAGACATATAAGAT 59.738 38.462 0.00 0.00 0.00 2.40
637 2236 5.585844 CACACACCATTGCAGACATATAAGA 59.414 40.000 0.00 0.00 0.00 2.10
638 2237 5.355071 ACACACACCATTGCAGACATATAAG 59.645 40.000 0.00 0.00 0.00 1.73
639 2238 5.252547 ACACACACCATTGCAGACATATAA 58.747 37.500 0.00 0.00 0.00 0.98
640 2239 4.842574 ACACACACCATTGCAGACATATA 58.157 39.130 0.00 0.00 0.00 0.86
642 2241 3.138884 ACACACACCATTGCAGACATA 57.861 42.857 0.00 0.00 0.00 2.29
643 2242 1.985473 ACACACACCATTGCAGACAT 58.015 45.000 0.00 0.00 0.00 3.06
722 2345 5.927030 TGCAGTGAAATTGTTCTACGATTC 58.073 37.500 0.00 0.00 31.20 2.52
882 2524 1.074951 GTTGGGGTTGGAGGAGGTG 59.925 63.158 0.00 0.00 0.00 4.00
1074 2718 2.203337 GGTGAGTGGTGCTTGGCA 60.203 61.111 0.00 0.00 35.60 4.92
1722 3378 3.851845 CTCCCACACGTCGCCGAAA 62.852 63.158 0.00 0.00 37.88 3.46
1880 3536 3.061429 GTCTAGTCTACCACGTGTACGAC 59.939 52.174 15.65 15.89 43.02 4.34
1881 3537 3.254060 GTCTAGTCTACCACGTGTACGA 58.746 50.000 15.65 4.32 43.02 3.43
1882 3538 2.028523 CGTCTAGTCTACCACGTGTACG 59.971 54.545 15.65 2.43 46.33 3.67
1888 3544 2.263077 ACGTACGTCTAGTCTACCACG 58.737 52.381 16.72 0.00 38.24 4.94
2008 3673 3.950254 ATCCGAGTAGTCGCGCCG 61.950 66.667 14.65 1.10 45.41 6.46
2244 3934 8.925161 TTTTGGTAAAGACAAAATGAGTTCTG 57.075 30.769 0.00 0.00 41.39 3.02
2270 3960 9.295825 TCATACCACACAAAATGAGTTCTATTT 57.704 29.630 0.00 0.00 0.00 1.40
2273 3963 8.684386 TTTCATACCACACAAAATGAGTTCTA 57.316 30.769 0.00 0.00 30.53 2.10
2292 3985 3.328382 ACTGCGCTACACCTTTTCATA 57.672 42.857 9.73 0.00 0.00 2.15
2379 4233 1.315690 CCGATCATGGCTGCAAGATT 58.684 50.000 0.50 0.00 34.07 2.40
2382 4236 2.191513 CCCCGATCATGGCTGCAAG 61.192 63.158 0.50 0.00 0.00 4.01
2491 4370 4.401202 CGTTTGAACCAAAATAGGCCCTAT 59.599 41.667 0.00 0.00 35.03 2.57
2599 4479 1.067635 GGCGGTACAGAGGTTTCGTAA 60.068 52.381 0.00 0.00 0.00 3.18
2610 4490 3.536956 TTCCTATGAAAGGCGGTACAG 57.463 47.619 0.00 0.00 46.10 2.74
2616 4496 5.368989 AGGTTAGATTTCCTATGAAAGGCG 58.631 41.667 0.00 0.00 46.10 5.52
2619 4499 8.986929 AATGGAGGTTAGATTTCCTATGAAAG 57.013 34.615 0.00 0.00 43.39 2.62
2675 4557 9.661187 GATTAGCAAGAAGTATTTGATGTCATG 57.339 33.333 0.00 0.00 0.00 3.07
2676 4558 8.844244 GGATTAGCAAGAAGTATTTGATGTCAT 58.156 33.333 0.00 0.00 0.00 3.06
2723 4605 3.788227 AAGTACAGGATTGAAGTGGCA 57.212 42.857 0.00 0.00 0.00 4.92
2753 4635 1.708822 GCGGGATTTTGAAAACGCAT 58.291 45.000 15.97 0.00 45.57 4.73
2765 4647 1.668419 CCTCTTTGATTCGCGGGATT 58.332 50.000 6.13 0.00 0.00 3.01
2770 4652 1.640428 TAGTGCCTCTTTGATTCGCG 58.360 50.000 0.00 0.00 0.00 5.87
2805 4688 5.507650 GCGCCAAGAATAGCTAGTAGTACTT 60.508 44.000 8.40 0.00 0.00 2.24


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

AutoCloner maintained by Alex Coulton.