Multiple sequence alignment - TraesCS3B01G481500

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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 TraesCS3B01G481500 chr3B 100.000 3366 0 0 1 3366 728921573 728918208 0.000000e+00 6216.0
1 TraesCS3B01G481500 chr3B 78.916 166 33 2 2797 2961 372173300 372173136 9.870000e-21 111.0
2 TraesCS3B01G481500 chr3B 92.453 53 3 1 2635 2687 475412834 475412783 1.300000e-09 75.0
3 TraesCS3B01G481500 chr3D 93.183 2934 139 19 115 3004 549517038 549514122 0.000000e+00 4253.0
4 TraesCS3B01G481500 chr3A 94.653 2525 99 8 111 2602 686786459 686783938 0.000000e+00 3882.0
5 TraesCS3B01G481500 chr3A 86.111 756 61 19 2618 3353 686783953 686783222 0.000000e+00 774.0
6 TraesCS3B01G481500 chr7D 85.047 214 30 2 3153 3366 21090832 21090621 2.030000e-52 217.0
7 TraesCS3B01G481500 chr7D 95.652 92 4 0 18 109 618321457 618321366 7.520000e-32 148.0
8 TraesCS3B01G481500 chr7D 86.441 59 2 5 2630 2687 271250971 271250918 3.630000e-05 60.2
9 TraesCS3B01G481500 chr6B 73.123 506 107 21 2797 3289 340310159 340309670 1.620000e-33 154.0
10 TraesCS3B01G481500 chr2B 94.898 98 5 0 18 115 738486752 738486655 1.620000e-33 154.0
11 TraesCS3B01G481500 chr2B 92.308 104 6 2 15 117 782881287 782881389 2.710000e-31 147.0
12 TraesCS3B01G481500 chr7A 93.137 102 5 2 10 111 218238850 218238751 7.520000e-32 148.0
13 TraesCS3B01G481500 chr6D 73.031 508 104 24 2797 3289 454181925 454182414 7.520000e-32 148.0
14 TraesCS3B01G481500 chr4A 93.137 102 6 1 10 111 422945094 422945194 7.520000e-32 148.0
15 TraesCS3B01G481500 chr4A 93.939 99 5 1 18 115 650851205 650851303 7.520000e-32 148.0
16 TraesCS3B01G481500 chr4A 93.939 99 5 1 18 115 650861408 650861506 7.520000e-32 148.0
17 TraesCS3B01G481500 chr2D 94.792 96 4 1 16 111 523143295 523143389 7.520000e-32 148.0
18 TraesCS3B01G481500 chr2D 72.638 508 109 22 2797 3289 229832541 229832049 1.260000e-29 141.0
19 TraesCS3B01G481500 chr2D 89.286 56 3 2 2632 2687 526652201 526652253 2.170000e-07 67.6
20 TraesCS3B01G481500 chr4D 93.069 101 5 2 9 109 39220524 39220622 2.710000e-31 147.0
21 TraesCS3B01G481500 chr2A 87.234 47 5 1 3131 3177 44401078 44401123 6.000000e-03 52.8


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 TraesCS3B01G481500 chr3B 728918208 728921573 3365 True 6216 6216 100.000 1 3366 1 chr3B.!!$R3 3365
1 TraesCS3B01G481500 chr3D 549514122 549517038 2916 True 4253 4253 93.183 115 3004 1 chr3D.!!$R1 2889
2 TraesCS3B01G481500 chr3A 686783222 686786459 3237 True 2328 3882 90.382 111 3353 2 chr3A.!!$R1 3242

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
362 369 0.668535 AAAAGGCGGAGTTTGACAGC 59.331 50.0 0.0 0.0 0.0 4.40 F
1321 1357 0.172803 GTACGTCCTGACCGCTGATT 59.827 55.0 0.0 0.0 0.0 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1912 1950 0.190815 ACCCAAAGCAACCCCATCTT 59.809 50.0 0.0 0.00 0.0 2.4 R
3234 3291 0.320858 TGTCAGGCGCCGTTCAAATA 60.321 50.0 23.2 0.09 0.0 1.4 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 5.083533 AGTTCCTCTCATGCTAGAAACAG 57.916 43.478 0.00 0.00 0.00 3.16
23 24 3.533606 TCCTCTCATGCTAGAAACAGC 57.466 47.619 0.00 0.00 42.15 4.40
24 25 3.102972 TCCTCTCATGCTAGAAACAGCT 58.897 45.455 0.00 0.00 42.30 4.24
25 26 4.281657 TCCTCTCATGCTAGAAACAGCTA 58.718 43.478 0.00 0.00 42.30 3.32
26 27 4.098654 TCCTCTCATGCTAGAAACAGCTAC 59.901 45.833 0.00 0.00 42.30 3.58
27 28 4.099266 CCTCTCATGCTAGAAACAGCTACT 59.901 45.833 0.00 0.00 42.30 2.57
28 29 5.255710 TCTCATGCTAGAAACAGCTACTC 57.744 43.478 0.00 0.00 42.30 2.59
29 30 4.098654 TCTCATGCTAGAAACAGCTACTCC 59.901 45.833 0.00 0.00 42.30 3.85
30 31 3.133003 TCATGCTAGAAACAGCTACTCCC 59.867 47.826 0.00 0.00 42.30 4.30
31 32 2.821437 TGCTAGAAACAGCTACTCCCT 58.179 47.619 0.00 0.00 42.30 4.20
32 33 2.761208 TGCTAGAAACAGCTACTCCCTC 59.239 50.000 0.00 0.00 42.30 4.30
33 34 3.028130 GCTAGAAACAGCTACTCCCTCT 58.972 50.000 0.00 0.00 38.57 3.69
34 35 3.181480 GCTAGAAACAGCTACTCCCTCTG 60.181 52.174 0.00 0.00 38.57 3.35
35 36 2.896039 AGAAACAGCTACTCCCTCTGT 58.104 47.619 0.00 0.00 42.28 3.41
36 37 4.048970 AGAAACAGCTACTCCCTCTGTA 57.951 45.455 0.00 0.00 39.86 2.74
37 38 4.417437 AGAAACAGCTACTCCCTCTGTAA 58.583 43.478 0.00 0.00 39.86 2.41
38 39 4.838986 AGAAACAGCTACTCCCTCTGTAAA 59.161 41.667 0.00 0.00 39.86 2.01
39 40 4.538746 AACAGCTACTCCCTCTGTAAAC 57.461 45.455 0.00 0.00 39.86 2.01
40 41 3.780626 ACAGCTACTCCCTCTGTAAACT 58.219 45.455 0.00 0.00 39.08 2.66
41 42 4.931914 ACAGCTACTCCCTCTGTAAACTA 58.068 43.478 0.00 0.00 39.08 2.24
42 43 5.331069 ACAGCTACTCCCTCTGTAAACTAA 58.669 41.667 0.00 0.00 39.08 2.24
43 44 5.958987 ACAGCTACTCCCTCTGTAAACTAAT 59.041 40.000 0.00 0.00 39.08 1.73
44 45 7.124052 ACAGCTACTCCCTCTGTAAACTAATA 58.876 38.462 0.00 0.00 39.08 0.98
45 46 7.785506 ACAGCTACTCCCTCTGTAAACTAATAT 59.214 37.037 0.00 0.00 39.08 1.28
46 47 9.298250 CAGCTACTCCCTCTGTAAACTAATATA 57.702 37.037 0.00 0.00 0.00 0.86
47 48 9.878737 AGCTACTCCCTCTGTAAACTAATATAA 57.121 33.333 0.00 0.00 0.00 0.98
51 52 8.862085 ACTCCCTCTGTAAACTAATATAAGAGC 58.138 37.037 0.00 0.00 0.00 4.09
52 53 7.883217 TCCCTCTGTAAACTAATATAAGAGCG 58.117 38.462 0.00 0.00 0.00 5.03
53 54 7.504911 TCCCTCTGTAAACTAATATAAGAGCGT 59.495 37.037 0.00 0.00 0.00 5.07
54 55 8.142551 CCCTCTGTAAACTAATATAAGAGCGTT 58.857 37.037 0.00 0.00 0.00 4.84
55 56 9.530633 CCTCTGTAAACTAATATAAGAGCGTTT 57.469 33.333 0.00 0.00 0.00 3.60
57 58 9.309516 TCTGTAAACTAATATAAGAGCGTTTGG 57.690 33.333 0.00 0.00 0.00 3.28
58 59 9.309516 CTGTAAACTAATATAAGAGCGTTTGGA 57.690 33.333 0.00 0.00 0.00 3.53
59 60 9.826574 TGTAAACTAATATAAGAGCGTTTGGAT 57.173 29.630 0.00 0.00 0.00 3.41
61 62 8.958119 AAACTAATATAAGAGCGTTTGGATCA 57.042 30.769 0.00 0.00 32.03 2.92
62 63 7.948278 ACTAATATAAGAGCGTTTGGATCAC 57.052 36.000 0.00 0.00 32.03 3.06
63 64 7.727181 ACTAATATAAGAGCGTTTGGATCACT 58.273 34.615 0.00 0.00 32.03 3.41
64 65 8.857098 ACTAATATAAGAGCGTTTGGATCACTA 58.143 33.333 0.00 0.00 32.03 2.74
65 66 7.948278 AATATAAGAGCGTTTGGATCACTAC 57.052 36.000 0.00 0.00 32.03 2.73
66 67 3.963428 AAGAGCGTTTGGATCACTACT 57.037 42.857 0.00 0.00 32.03 2.57
67 68 3.963428 AGAGCGTTTGGATCACTACTT 57.037 42.857 0.00 0.00 32.03 2.24
68 69 4.273148 AGAGCGTTTGGATCACTACTTT 57.727 40.909 0.00 0.00 32.03 2.66
69 70 5.401531 AGAGCGTTTGGATCACTACTTTA 57.598 39.130 0.00 0.00 32.03 1.85
70 71 5.411781 AGAGCGTTTGGATCACTACTTTAG 58.588 41.667 0.00 0.00 32.03 1.85
71 72 5.047235 AGAGCGTTTGGATCACTACTTTAGT 60.047 40.000 0.00 0.00 40.28 2.24
72 73 6.152323 AGAGCGTTTGGATCACTACTTTAGTA 59.848 38.462 0.00 0.00 37.23 1.82
73 74 6.694447 AGCGTTTGGATCACTACTTTAGTAA 58.306 36.000 0.00 0.00 37.23 2.24
74 75 7.328737 AGCGTTTGGATCACTACTTTAGTAAT 58.671 34.615 0.00 0.00 37.23 1.89
75 76 7.491696 AGCGTTTGGATCACTACTTTAGTAATC 59.508 37.037 0.00 0.00 37.23 1.75
76 77 7.491696 GCGTTTGGATCACTACTTTAGTAATCT 59.508 37.037 0.00 0.00 37.23 2.40
82 83 8.966194 GGATCACTACTTTAGTAATCTAAACGC 58.034 37.037 0.00 0.00 40.05 4.84
83 84 9.733219 GATCACTACTTTAGTAATCTAAACGCT 57.267 33.333 0.00 0.00 40.05 5.07
84 85 9.733219 ATCACTACTTTAGTAATCTAAACGCTC 57.267 33.333 0.00 0.00 40.05 5.03
85 86 8.954350 TCACTACTTTAGTAATCTAAACGCTCT 58.046 33.333 0.00 0.00 40.05 4.09
86 87 9.570488 CACTACTTTAGTAATCTAAACGCTCTT 57.430 33.333 0.00 0.00 40.05 2.85
100 101 8.810427 TCTAAACGCTCTTATATTTGTTTACGG 58.190 33.333 0.00 0.00 32.41 4.02
101 102 7.599630 AAACGCTCTTATATTTGTTTACGGA 57.400 32.000 0.00 0.00 0.00 4.69
102 103 6.823678 ACGCTCTTATATTTGTTTACGGAG 57.176 37.500 0.00 0.00 0.00 4.63
103 104 5.751990 ACGCTCTTATATTTGTTTACGGAGG 59.248 40.000 0.00 0.00 0.00 4.30
104 105 5.176958 CGCTCTTATATTTGTTTACGGAGGG 59.823 44.000 0.00 0.00 0.00 4.30
105 106 6.285990 GCTCTTATATTTGTTTACGGAGGGA 58.714 40.000 0.00 0.00 0.00 4.20
106 107 6.424207 GCTCTTATATTTGTTTACGGAGGGAG 59.576 42.308 0.00 0.00 0.00 4.30
107 108 7.427989 TCTTATATTTGTTTACGGAGGGAGT 57.572 36.000 0.00 0.00 0.00 3.85
108 109 8.537728 TCTTATATTTGTTTACGGAGGGAGTA 57.462 34.615 0.00 0.00 0.00 2.59
109 110 8.416329 TCTTATATTTGTTTACGGAGGGAGTAC 58.584 37.037 0.00 0.00 0.00 2.73
136 137 4.396854 GTACACGACGATGGCCTC 57.603 61.111 3.32 0.00 0.00 4.70
148 149 2.668457 CGATGGCCTCGTCTATATTTGC 59.332 50.000 3.32 0.00 42.56 3.68
149 150 3.615110 CGATGGCCTCGTCTATATTTGCT 60.615 47.826 3.32 0.00 42.56 3.91
166 169 1.270305 TGCTCTGTCTGTTGGTAGTGC 60.270 52.381 0.00 0.00 0.00 4.40
231 238 2.353889 CACCTGCAGAGCATATGTGTTC 59.646 50.000 17.39 0.00 38.13 3.18
267 274 6.350906 TCATGTGAAGATCATGACAGCATTA 58.649 36.000 0.00 0.00 44.14 1.90
362 369 0.668535 AAAAGGCGGAGTTTGACAGC 59.331 50.000 0.00 0.00 0.00 4.40
376 383 3.281727 TGACAGCTTGTGTTCCTTTCT 57.718 42.857 0.00 0.00 40.56 2.52
377 384 2.945008 TGACAGCTTGTGTTCCTTTCTG 59.055 45.455 0.00 0.00 40.56 3.02
595 608 5.514274 AAACGATTATATGGCCAAAGGTG 57.486 39.130 10.96 0.00 0.00 4.00
597 610 3.882888 ACGATTATATGGCCAAAGGTGTG 59.117 43.478 10.96 0.14 0.00 3.82
608 623 5.045505 TGGCCAAAGGTGTGTATATCTTACA 60.046 40.000 0.61 0.00 0.00 2.41
609 624 6.062095 GGCCAAAGGTGTGTATATCTTACAT 58.938 40.000 0.00 0.00 0.00 2.29
642 657 4.919754 CCTAGCAACTTTGACTGCAAATTC 59.080 41.667 0.00 0.00 42.66 2.17
785 800 3.491447 CCAAAAATTCTCATCGGATGGCC 60.491 47.826 17.42 0.00 0.00 5.36
1053 1086 3.476552 TGTTCAACCACAGTCATTCCTC 58.523 45.455 0.00 0.00 0.00 3.71
1067 1100 0.613260 TTCCTCCGTGCTACAATGCT 59.387 50.000 0.00 0.00 0.00 3.79
1105 1141 2.747436 GGCAACTTTCCTTCTGCTTTG 58.253 47.619 0.00 0.00 35.13 2.77
1221 1257 3.006061 CCCTGTCATGGGTGGAGTA 57.994 57.895 0.00 0.00 42.25 2.59
1283 1319 3.040147 TGCTGTAAGGAAAGAGGTTCG 57.960 47.619 0.00 0.00 37.08 3.95
1305 1341 2.135664 AGCTTGACGAGTGTGTGTAC 57.864 50.000 0.00 0.00 0.00 2.90
1309 1345 3.083213 GACGAGTGTGTGTACGTCC 57.917 57.895 0.00 0.00 45.76 4.79
1321 1357 0.172803 GTACGTCCTGACCGCTGATT 59.827 55.000 0.00 0.00 0.00 2.57
1325 1361 0.526524 GTCCTGACCGCTGATTCTCG 60.527 60.000 0.00 0.00 0.00 4.04
1333 1369 1.633561 CGCTGATTCTCGAGCAAAGA 58.366 50.000 7.81 0.00 34.69 2.52
1334 1370 1.322936 CGCTGATTCTCGAGCAAAGAC 59.677 52.381 7.81 0.00 34.69 3.01
1533 1569 6.774673 TGATTGTTTCCTCAACAGGTATGTA 58.225 36.000 0.00 0.00 46.37 2.29
1548 1584 4.524714 AGGTATGTATCTTGTGGATCCTCG 59.475 45.833 14.23 0.00 35.98 4.63
1562 1598 3.064545 GGATCCTCGTGCATCAGAAAAAG 59.935 47.826 3.84 0.00 0.00 2.27
1568 1604 5.095691 TCGTGCATCAGAAAAAGAAAGTC 57.904 39.130 0.00 0.00 0.00 3.01
1667 1705 9.161629 CTTGGTGATATGTACAGTGTTCAAATA 57.838 33.333 6.68 0.00 0.00 1.40
1698 1736 8.784043 ACAATACTCAAGTCCTCAACATTTTAC 58.216 33.333 0.00 0.00 0.00 2.01
1814 1852 4.404394 AGGTCAACGGTGTGATATATGTCA 59.596 41.667 0.00 0.00 0.00 3.58
1998 2036 3.822940 TCACAATTGGTAACTCCCGTTT 58.177 40.909 10.83 0.00 34.59 3.60
2038 2076 1.288508 ATAGCCATGCCTGGGGTGAA 61.289 55.000 10.28 0.00 43.36 3.18
2056 2094 4.380867 GGTGAATTTAGGAATGGCTGTGTG 60.381 45.833 0.00 0.00 0.00 3.82
2156 2194 1.318158 CCCAGCAGACAATTCCTGGC 61.318 60.000 0.00 0.00 42.71 4.85
2164 2202 2.087646 GACAATTCCTGGCAGAAGGTC 58.912 52.381 17.94 14.68 38.58 3.85
2197 2235 2.048503 GGTAGTTCCAGCACGCGT 60.049 61.111 5.58 5.58 35.97 6.01
2292 2330 2.601194 TATGATCCTGCCGCGCCAAA 62.601 55.000 0.00 0.00 0.00 3.28
2326 2364 1.591703 CACGTCTAAGCTCAGGCCA 59.408 57.895 5.01 0.00 39.73 5.36
2333 2371 0.764369 TAAGCTCAGGCCATCGGGAT 60.764 55.000 5.01 0.00 39.73 3.85
2334 2372 1.639635 AAGCTCAGGCCATCGGGATT 61.640 55.000 5.01 0.00 39.73 3.01
2366 2404 1.808945 CTGTGACCATCAAAGCCTGAC 59.191 52.381 0.00 0.00 36.69 3.51
2384 2422 2.442272 GCTCTAGCTCGGGGGTCA 60.442 66.667 0.00 0.00 38.21 4.02
2388 2426 1.682684 CTAGCTCGGGGGTCACTGT 60.683 63.158 0.00 0.00 0.00 3.55
2457 2495 5.774690 AGATCAGGCTTTGTTTGGTTTATCA 59.225 36.000 0.00 0.00 0.00 2.15
2481 2524 7.956315 TCATCCTACTTGCTAGGGTTTATATCT 59.044 37.037 0.00 0.00 42.51 1.98
2547 2590 2.253758 GGTTGCTTGCTGACAGCGA 61.254 57.895 22.00 19.31 46.26 4.93
2686 2729 9.362151 GAGAGGCTCCTACTATGCTATATTAAT 57.638 37.037 11.71 0.00 0.00 1.40
2736 2780 3.685139 TCCTCACATTGGTTCAGAGAC 57.315 47.619 0.00 0.00 0.00 3.36
2754 2798 6.538742 TCAGAGACTTGTAAACAAAACAGGAG 59.461 38.462 0.00 0.00 35.15 3.69
2762 2806 3.425162 AACAAAACAGGAGCTAGAGGG 57.575 47.619 0.00 0.00 0.00 4.30
2767 2811 2.632763 ACAGGAGCTAGAGGGAGTTT 57.367 50.000 0.00 0.00 0.00 2.66
2780 2824 5.870706 AGAGGGAGTTTAGAAAAGAAGTGG 58.129 41.667 0.00 0.00 0.00 4.00
2790 2834 8.406297 GTTTAGAAAAGAAGTGGTGAAATCACT 58.594 33.333 12.87 0.00 46.22 3.41
2791 2835 6.382869 AGAAAAGAAGTGGTGAAATCACTG 57.617 37.500 12.87 0.00 43.82 3.66
2792 2836 5.888161 AGAAAAGAAGTGGTGAAATCACTGT 59.112 36.000 12.87 0.00 43.82 3.55
2793 2837 5.757850 AAAGAAGTGGTGAAATCACTGTC 57.242 39.130 12.87 6.03 43.82 3.51
2794 2838 3.744660 AGAAGTGGTGAAATCACTGTCC 58.255 45.455 12.87 0.00 43.82 4.02
2795 2839 2.169832 AGTGGTGAAATCACTGTCCG 57.830 50.000 12.87 0.00 45.73 4.79
2864 2908 7.174946 CCTTTGTTCTTTCTAACCATGCTCTAA 59.825 37.037 0.00 0.00 0.00 2.10
2911 2960 9.942526 AAAATGTAATTATTCCTCTCCTTCCAT 57.057 29.630 0.00 0.00 33.67 3.41
2938 2987 7.847096 TGTTCCAAGCAGTAATAGTGAAGATA 58.153 34.615 0.00 0.00 0.00 1.98
2985 3034 2.065899 TGTTTAGCCCTTTGCACTGT 57.934 45.000 0.00 0.00 44.83 3.55
2992 3041 1.615392 GCCCTTTGCACTGTCTCAATT 59.385 47.619 0.00 0.00 40.77 2.32
2998 3047 3.708403 TGCACTGTCTCAATTCTGGAT 57.292 42.857 0.00 0.00 0.00 3.41
3024 3074 4.608948 CAGAGGTATACTGGATTCCCAC 57.391 50.000 2.25 0.00 37.58 4.61
3029 3079 4.078571 AGGTATACTGGATTCCCACTCTGA 60.079 45.833 2.25 0.00 37.58 3.27
3030 3080 4.841246 GGTATACTGGATTCCCACTCTGAT 59.159 45.833 2.25 0.00 37.58 2.90
3038 3088 0.615331 TCCCACTCTGATCCAACAGC 59.385 55.000 0.00 0.00 37.75 4.40
3040 3090 1.678123 CCCACTCTGATCCAACAGCTG 60.678 57.143 13.48 13.48 37.75 4.24
3078 3128 8.920509 CAGTTGAATATCAAATGCTCAATCAA 57.079 30.769 7.48 0.00 43.85 2.57
3087 3137 8.749026 ATCAAATGCTCAATCAATAGTCTCTT 57.251 30.769 0.00 0.00 0.00 2.85
3088 3138 8.206325 TCAAATGCTCAATCAATAGTCTCTTC 57.794 34.615 0.00 0.00 0.00 2.87
3089 3139 7.825761 TCAAATGCTCAATCAATAGTCTCTTCA 59.174 33.333 0.00 0.00 0.00 3.02
3090 3140 7.789273 AATGCTCAATCAATAGTCTCTTCAG 57.211 36.000 0.00 0.00 0.00 3.02
3091 3141 5.114780 TGCTCAATCAATAGTCTCTTCAGC 58.885 41.667 0.00 0.00 0.00 4.26
3093 3143 5.463061 GCTCAATCAATAGTCTCTTCAGCTC 59.537 44.000 0.00 0.00 0.00 4.09
3094 3144 5.911752 TCAATCAATAGTCTCTTCAGCTCC 58.088 41.667 0.00 0.00 0.00 4.70
3096 3146 3.713003 TCAATAGTCTCTTCAGCTCCCA 58.287 45.455 0.00 0.00 0.00 4.37
3101 3151 2.909006 AGTCTCTTCAGCTCCCAAATCA 59.091 45.455 0.00 0.00 0.00 2.57
3102 3152 3.006247 GTCTCTTCAGCTCCCAAATCAC 58.994 50.000 0.00 0.00 0.00 3.06
3111 3161 2.945668 GCTCCCAAATCACATAGGACAC 59.054 50.000 0.00 0.00 0.00 3.67
3151 3208 7.413877 GCCAATCTGATAGTGTCTTCTTTTGAG 60.414 40.741 0.00 0.00 0.00 3.02
3160 3217 6.479884 AGTGTCTTCTTTTGAGCATATTCCT 58.520 36.000 0.00 0.00 0.00 3.36
3169 3226 7.882791 TCTTTTGAGCATATTCCTAGTGTTCAA 59.117 33.333 5.75 5.75 39.96 2.69
3178 3235 4.067972 TCCTAGTGTTCAACCTGTCAAC 57.932 45.455 0.00 0.00 0.00 3.18
3186 3243 7.051623 AGTGTTCAACCTGTCAACAAGTAATA 58.948 34.615 0.00 0.00 31.95 0.98
3187 3244 7.226720 AGTGTTCAACCTGTCAACAAGTAATAG 59.773 37.037 0.00 0.00 31.95 1.73
3188 3245 6.017440 TGTTCAACCTGTCAACAAGTAATAGC 60.017 38.462 0.00 0.00 0.00 2.97
3189 3246 5.616270 TCAACCTGTCAACAAGTAATAGCA 58.384 37.500 0.00 0.00 0.00 3.49
3190 3247 6.058833 TCAACCTGTCAACAAGTAATAGCAA 58.941 36.000 0.00 0.00 0.00 3.91
3191 3248 5.941948 ACCTGTCAACAAGTAATAGCAAC 57.058 39.130 0.00 0.00 0.00 4.17
3192 3249 5.373222 ACCTGTCAACAAGTAATAGCAACA 58.627 37.500 0.00 0.00 0.00 3.33
3193 3250 6.003950 ACCTGTCAACAAGTAATAGCAACAT 58.996 36.000 0.00 0.00 0.00 2.71
3194 3251 7.165485 ACCTGTCAACAAGTAATAGCAACATA 58.835 34.615 0.00 0.00 0.00 2.29
3195 3252 7.663905 ACCTGTCAACAAGTAATAGCAACATAA 59.336 33.333 0.00 0.00 0.00 1.90
3227 3284 7.147312 TGAGCTTCATTTGTAACTTGGATTTG 58.853 34.615 0.00 0.00 0.00 2.32
3234 3291 8.149647 TCATTTGTAACTTGGATTTGCAAATCT 58.850 29.630 37.77 25.91 43.27 2.40
3251 3308 0.248012 TCTATTTGAACGGCGCCTGA 59.752 50.000 26.68 0.00 0.00 3.86
3254 3311 1.577328 ATTTGAACGGCGCCTGACAG 61.577 55.000 26.68 11.18 0.00 3.51
3270 3327 3.993081 CTGACAGGTGATTTCTCTGTGAC 59.007 47.826 10.31 0.00 41.24 3.67
3276 3333 3.921021 GGTGATTTCTCTGTGACAGTACG 59.079 47.826 12.93 2.97 32.61 3.67
3346 3407 4.698201 TGACCAAGTGTCCAAATCACTA 57.302 40.909 0.00 0.00 44.03 2.74
3353 3414 5.568620 AGTGTCCAAATCACTAAACTCCT 57.431 39.130 0.00 0.00 43.17 3.69
3354 3415 5.552178 AGTGTCCAAATCACTAAACTCCTC 58.448 41.667 0.00 0.00 43.17 3.71
3355 3416 5.071788 AGTGTCCAAATCACTAAACTCCTCA 59.928 40.000 0.00 0.00 43.17 3.86
3356 3417 5.763204 GTGTCCAAATCACTAAACTCCTCAA 59.237 40.000 0.00 0.00 33.59 3.02
3357 3418 6.431234 GTGTCCAAATCACTAAACTCCTCAAT 59.569 38.462 0.00 0.00 33.59 2.57
3358 3419 6.430925 TGTCCAAATCACTAAACTCCTCAATG 59.569 38.462 0.00 0.00 0.00 2.82
3359 3420 6.655003 GTCCAAATCACTAAACTCCTCAATGA 59.345 38.462 0.00 0.00 0.00 2.57
3360 3421 7.337942 GTCCAAATCACTAAACTCCTCAATGAT 59.662 37.037 0.00 0.00 0.00 2.45
3361 3422 7.337689 TCCAAATCACTAAACTCCTCAATGATG 59.662 37.037 0.00 0.00 0.00 3.07
3362 3423 7.415989 CCAAATCACTAAACTCCTCAATGATGG 60.416 40.741 0.00 0.00 0.00 3.51
3363 3424 6.566079 ATCACTAAACTCCTCAATGATGGA 57.434 37.500 2.40 2.40 0.00 3.41
3364 3425 6.373005 TCACTAAACTCCTCAATGATGGAA 57.627 37.500 3.70 0.00 31.23 3.53
3365 3426 6.409704 TCACTAAACTCCTCAATGATGGAAG 58.590 40.000 3.70 1.72 31.23 3.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.622695 GCTGTTTCTAGCATGAGAGGAACT 60.623 45.833 15.66 0.00 42.78 3.01
1 2 3.620821 GCTGTTTCTAGCATGAGAGGAAC 59.379 47.826 10.23 10.23 43.17 3.62
2 3 3.517100 AGCTGTTTCTAGCATGAGAGGAA 59.483 43.478 0.00 0.00 46.07 3.36
3 4 3.102972 AGCTGTTTCTAGCATGAGAGGA 58.897 45.455 0.00 0.00 46.07 3.71
4 5 3.540314 AGCTGTTTCTAGCATGAGAGG 57.460 47.619 0.00 0.00 46.07 3.69
5 6 5.261209 AGTAGCTGTTTCTAGCATGAGAG 57.739 43.478 0.00 0.00 46.07 3.20
6 7 4.098654 GGAGTAGCTGTTTCTAGCATGAGA 59.901 45.833 0.00 0.00 46.07 3.27
7 8 4.367450 GGAGTAGCTGTTTCTAGCATGAG 58.633 47.826 0.00 0.00 46.07 2.90
8 9 3.133003 GGGAGTAGCTGTTTCTAGCATGA 59.867 47.826 0.00 0.00 46.07 3.07
9 10 3.133721 AGGGAGTAGCTGTTTCTAGCATG 59.866 47.826 0.00 0.00 46.07 4.06
10 11 3.379452 AGGGAGTAGCTGTTTCTAGCAT 58.621 45.455 0.00 0.00 46.07 3.79
11 12 2.761208 GAGGGAGTAGCTGTTTCTAGCA 59.239 50.000 0.00 0.00 46.07 3.49
12 13 3.028130 AGAGGGAGTAGCTGTTTCTAGC 58.972 50.000 0.00 0.00 44.01 3.42
13 14 4.020543 ACAGAGGGAGTAGCTGTTTCTAG 58.979 47.826 0.00 0.00 39.69 2.43
14 15 4.048970 ACAGAGGGAGTAGCTGTTTCTA 57.951 45.455 0.00 0.00 39.69 2.10
15 16 2.896039 ACAGAGGGAGTAGCTGTTTCT 58.104 47.619 0.00 0.00 39.69 2.52
16 17 4.803098 TTACAGAGGGAGTAGCTGTTTC 57.197 45.455 0.00 0.00 42.40 2.78
17 18 4.593634 AGTTTACAGAGGGAGTAGCTGTTT 59.406 41.667 0.00 0.00 42.40 2.83
18 19 4.161102 AGTTTACAGAGGGAGTAGCTGTT 58.839 43.478 0.00 0.00 42.40 3.16
19 20 3.780626 AGTTTACAGAGGGAGTAGCTGT 58.219 45.455 0.00 0.00 44.38 4.40
20 21 5.916661 TTAGTTTACAGAGGGAGTAGCTG 57.083 43.478 0.00 0.00 35.81 4.24
21 22 9.878737 TTATATTAGTTTACAGAGGGAGTAGCT 57.121 33.333 0.00 0.00 0.00 3.32
25 26 8.862085 GCTCTTATATTAGTTTACAGAGGGAGT 58.138 37.037 0.00 0.00 0.00 3.85
26 27 8.024285 CGCTCTTATATTAGTTTACAGAGGGAG 58.976 40.741 4.76 0.00 40.49 4.30
27 28 7.504911 ACGCTCTTATATTAGTTTACAGAGGGA 59.495 37.037 14.96 0.00 40.49 4.20
28 29 7.659186 ACGCTCTTATATTAGTTTACAGAGGG 58.341 38.462 8.36 8.36 42.53 4.30
29 30 9.530633 AAACGCTCTTATATTAGTTTACAGAGG 57.469 33.333 0.00 0.00 31.14 3.69
31 32 9.309516 CCAAACGCTCTTATATTAGTTTACAGA 57.690 33.333 0.00 0.00 31.63 3.41
32 33 9.309516 TCCAAACGCTCTTATATTAGTTTACAG 57.690 33.333 0.00 0.00 31.63 2.74
33 34 9.826574 ATCCAAACGCTCTTATATTAGTTTACA 57.173 29.630 0.00 0.00 31.63 2.41
36 37 8.827677 GTGATCCAAACGCTCTTATATTAGTTT 58.172 33.333 0.00 0.00 32.82 2.66
37 38 8.204836 AGTGATCCAAACGCTCTTATATTAGTT 58.795 33.333 0.00 0.00 0.00 2.24
38 39 7.727181 AGTGATCCAAACGCTCTTATATTAGT 58.273 34.615 0.00 0.00 0.00 2.24
39 40 9.130312 GTAGTGATCCAAACGCTCTTATATTAG 57.870 37.037 0.00 0.00 0.00 1.73
40 41 8.857098 AGTAGTGATCCAAACGCTCTTATATTA 58.143 33.333 0.00 0.00 0.00 0.98
41 42 7.727181 AGTAGTGATCCAAACGCTCTTATATT 58.273 34.615 0.00 0.00 0.00 1.28
42 43 7.291411 AGTAGTGATCCAAACGCTCTTATAT 57.709 36.000 0.00 0.00 0.00 0.86
43 44 6.710597 AGTAGTGATCCAAACGCTCTTATA 57.289 37.500 0.00 0.00 0.00 0.98
44 45 5.599999 AGTAGTGATCCAAACGCTCTTAT 57.400 39.130 0.00 0.00 0.00 1.73
45 46 5.401531 AAGTAGTGATCCAAACGCTCTTA 57.598 39.130 0.00 0.00 0.00 2.10
46 47 3.963428 AGTAGTGATCCAAACGCTCTT 57.037 42.857 0.00 0.00 0.00 2.85
47 48 3.963428 AAGTAGTGATCCAAACGCTCT 57.037 42.857 0.00 0.00 0.00 4.09
48 49 5.169295 ACTAAAGTAGTGATCCAAACGCTC 58.831 41.667 0.00 0.00 37.69 5.03
49 50 5.148651 ACTAAAGTAGTGATCCAAACGCT 57.851 39.130 0.00 0.00 37.69 5.07
50 51 6.956299 TTACTAAAGTAGTGATCCAAACGC 57.044 37.500 0.00 0.00 39.81 4.84
51 52 8.928270 AGATTACTAAAGTAGTGATCCAAACG 57.072 34.615 13.59 0.00 46.90 3.60
56 57 8.966194 GCGTTTAGATTACTAAAGTAGTGATCC 58.034 37.037 13.59 2.28 46.90 3.36
57 58 9.733219 AGCGTTTAGATTACTAAAGTAGTGATC 57.267 33.333 10.62 10.62 46.38 2.92
58 59 9.733219 GAGCGTTTAGATTACTAAAGTAGTGAT 57.267 33.333 0.00 0.00 45.42 3.06
59 60 8.954350 AGAGCGTTTAGATTACTAAAGTAGTGA 58.046 33.333 0.00 0.00 45.42 3.41
60 61 9.570488 AAGAGCGTTTAGATTACTAAAGTAGTG 57.430 33.333 0.00 0.00 45.42 2.74
74 75 8.810427 CCGTAAACAAATATAAGAGCGTTTAGA 58.190 33.333 0.00 0.00 31.53 2.10
75 76 8.810427 TCCGTAAACAAATATAAGAGCGTTTAG 58.190 33.333 0.00 0.00 31.53 1.85
76 77 8.700722 TCCGTAAACAAATATAAGAGCGTTTA 57.299 30.769 0.00 0.00 0.00 2.01
77 78 7.201582 CCTCCGTAAACAAATATAAGAGCGTTT 60.202 37.037 0.00 0.00 0.00 3.60
78 79 6.257193 CCTCCGTAAACAAATATAAGAGCGTT 59.743 38.462 0.00 0.00 0.00 4.84
79 80 5.751990 CCTCCGTAAACAAATATAAGAGCGT 59.248 40.000 0.00 0.00 0.00 5.07
80 81 5.176958 CCCTCCGTAAACAAATATAAGAGCG 59.823 44.000 0.00 0.00 0.00 5.03
81 82 6.285990 TCCCTCCGTAAACAAATATAAGAGC 58.714 40.000 0.00 0.00 0.00 4.09
82 83 7.498443 ACTCCCTCCGTAAACAAATATAAGAG 58.502 38.462 0.00 0.00 0.00 2.85
83 84 7.427989 ACTCCCTCCGTAAACAAATATAAGA 57.572 36.000 0.00 0.00 0.00 2.10
84 85 8.419442 AGTACTCCCTCCGTAAACAAATATAAG 58.581 37.037 0.00 0.00 0.00 1.73
85 86 8.310122 AGTACTCCCTCCGTAAACAAATATAA 57.690 34.615 0.00 0.00 0.00 0.98
86 87 7.902920 AGTACTCCCTCCGTAAACAAATATA 57.097 36.000 0.00 0.00 0.00 0.86
87 88 6.803366 AGTACTCCCTCCGTAAACAAATAT 57.197 37.500 0.00 0.00 0.00 1.28
88 89 6.014327 ACAAGTACTCCCTCCGTAAACAAATA 60.014 38.462 0.00 0.00 0.00 1.40
89 90 5.221783 ACAAGTACTCCCTCCGTAAACAAAT 60.222 40.000 0.00 0.00 0.00 2.32
90 91 4.101430 ACAAGTACTCCCTCCGTAAACAAA 59.899 41.667 0.00 0.00 0.00 2.83
91 92 3.642848 ACAAGTACTCCCTCCGTAAACAA 59.357 43.478 0.00 0.00 0.00 2.83
92 93 3.233507 ACAAGTACTCCCTCCGTAAACA 58.766 45.455 0.00 0.00 0.00 2.83
93 94 3.949842 ACAAGTACTCCCTCCGTAAAC 57.050 47.619 0.00 0.00 0.00 2.01
94 95 4.961438 AAACAAGTACTCCCTCCGTAAA 57.039 40.909 0.00 0.00 0.00 2.01
95 96 4.220602 GGTAAACAAGTACTCCCTCCGTAA 59.779 45.833 0.00 0.00 0.00 3.18
96 97 3.763897 GGTAAACAAGTACTCCCTCCGTA 59.236 47.826 0.00 0.00 0.00 4.02
97 98 2.564504 GGTAAACAAGTACTCCCTCCGT 59.435 50.000 0.00 0.00 0.00 4.69
98 99 2.416431 CGGTAAACAAGTACTCCCTCCG 60.416 54.545 0.00 3.00 0.00 4.63
99 100 2.564504 ACGGTAAACAAGTACTCCCTCC 59.435 50.000 0.00 0.00 0.00 4.30
100 101 3.949842 ACGGTAAACAAGTACTCCCTC 57.050 47.619 0.00 0.00 0.00 4.30
101 102 4.021981 GTGTACGGTAAACAAGTACTCCCT 60.022 45.833 3.57 0.00 40.77 4.20
102 103 4.237724 GTGTACGGTAAACAAGTACTCCC 58.762 47.826 3.57 0.00 40.77 4.30
103 104 3.914364 CGTGTACGGTAAACAAGTACTCC 59.086 47.826 9.06 0.00 40.77 3.85
104 105 4.613031 GTCGTGTACGGTAAACAAGTACTC 59.387 45.833 9.06 11.64 40.77 2.59
105 106 4.537015 GTCGTGTACGGTAAACAAGTACT 58.463 43.478 9.06 0.00 40.77 2.73
106 107 4.868581 GTCGTGTACGGTAAACAAGTAC 57.131 45.455 9.06 9.68 40.61 2.73
107 108 6.118806 CATCGTCGTGTACGGTAAACAAGTA 61.119 44.000 9.06 0.00 45.15 2.24
108 109 5.368005 CATCGTCGTGTACGGTAAACAAGT 61.368 45.833 9.06 0.00 45.15 3.16
109 110 3.058520 CATCGTCGTGTACGGTAAACAAG 59.941 47.826 9.06 0.53 45.15 3.16
136 137 5.233050 CCAACAGACAGAGCAAATATAGACG 59.767 44.000 0.00 0.00 0.00 4.18
148 149 1.670087 CGGCACTACCAACAGACAGAG 60.670 57.143 0.00 0.00 39.03 3.35
149 150 0.317160 CGGCACTACCAACAGACAGA 59.683 55.000 0.00 0.00 39.03 3.41
166 169 3.412386 ACAAGAAATTCCTGAGGTTCGG 58.588 45.455 0.00 0.00 0.00 4.30
247 254 6.426980 TGTTAATGCTGTCATGATCTTCAC 57.573 37.500 0.00 0.00 32.23 3.18
324 331 6.455513 GCCTTTTAACAACAGAAGCAGTTTTG 60.456 38.462 0.00 0.00 0.00 2.44
362 369 6.201806 CACTAGAGAACAGAAAGGAACACAAG 59.798 42.308 0.00 0.00 0.00 3.16
608 623 7.885399 AGTCAAAGTTGCTAGGAACAAATAGAT 59.115 33.333 26.40 3.61 0.00 1.98
609 624 7.173218 CAGTCAAAGTTGCTAGGAACAAATAGA 59.827 37.037 26.40 14.44 0.00 1.98
785 800 8.869897 TCTGTTTTAGTTATTCTTGCTGTATCG 58.130 33.333 0.00 0.00 0.00 2.92
943 958 7.683437 ATAGTACTGAAAACCTTTGGCTTAC 57.317 36.000 5.39 0.00 0.00 2.34
1045 1078 2.905075 CATTGTAGCACGGAGGAATGA 58.095 47.619 0.00 0.00 0.00 2.57
1053 1086 1.020861 TGAGCAGCATTGTAGCACGG 61.021 55.000 0.00 0.00 36.85 4.94
1067 1100 0.178992 CCTTGTTGGGGACTTGAGCA 60.179 55.000 0.00 0.00 0.00 4.26
1105 1141 4.133796 GCAATCCCCTTGTGGCGC 62.134 66.667 0.00 0.00 37.18 6.53
1283 1319 0.861837 CACACACTCGTCAAGCTTCC 59.138 55.000 0.00 0.00 0.00 3.46
1305 1341 0.526524 GAGAATCAGCGGTCAGGACG 60.527 60.000 0.00 0.00 33.17 4.79
1309 1345 0.869454 GCTCGAGAATCAGCGGTCAG 60.869 60.000 18.75 0.00 31.66 3.51
1321 1357 4.240888 CAATGAGAAGTCTTTGCTCGAGA 58.759 43.478 18.75 0.00 32.74 4.04
1325 1361 3.679389 TCCCAATGAGAAGTCTTTGCTC 58.321 45.455 0.00 0.00 36.80 4.26
1348 1384 0.413037 TGCCCCTGACATCCCAAAAT 59.587 50.000 0.00 0.00 0.00 1.82
1533 1569 0.904649 TGCACGAGGATCCACAAGAT 59.095 50.000 15.82 0.00 38.17 2.40
1548 1584 5.186996 TGGACTTTCTTTTTCTGATGCAC 57.813 39.130 0.00 0.00 0.00 4.57
1562 1598 9.220767 AGTTTGTCAGACTAATAATGGACTTTC 57.779 33.333 1.31 0.00 0.00 2.62
1639 1677 6.163476 TGAACACTGTACATATCACCAAGTC 58.837 40.000 0.00 0.00 0.00 3.01
1667 1705 5.808366 TGAGGACTTGAGTATTGTTCTGT 57.192 39.130 0.00 0.00 0.00 3.41
1698 1736 1.890876 TGAGTTGGTCCAACATTCGG 58.109 50.000 31.59 0.00 45.66 4.30
1912 1950 0.190815 ACCCAAAGCAACCCCATCTT 59.809 50.000 0.00 0.00 0.00 2.40
1998 2036 6.197655 GCTATTTGTATCGTACACGTCAATGA 59.802 38.462 1.19 0.00 38.63 2.57
2038 2076 3.956199 CCATCACACAGCCATTCCTAAAT 59.044 43.478 0.00 0.00 0.00 1.40
2056 2094 1.153289 AGCATGAGCCGTGACCATC 60.153 57.895 0.00 0.00 43.56 3.51
2156 2194 2.046892 CGGCACTGGGACCTTCTG 60.047 66.667 0.00 0.00 0.00 3.02
2197 2235 3.762407 TCATGTGTCCCGAGAGAAAAA 57.238 42.857 0.00 0.00 0.00 1.94
2292 2330 0.957395 CGTGCACCATTCAGAGCCTT 60.957 55.000 12.15 0.00 0.00 4.35
2347 2385 1.877680 CGTCAGGCTTTGATGGTCACA 60.878 52.381 0.00 0.00 38.85 3.58
2388 2426 9.584008 CAGGTAGTAAACTTAGGTATCATCCTA 57.416 37.037 0.00 0.00 38.86 2.94
2547 2590 5.179452 ACAGAGTACATTATGGCAAGGTT 57.821 39.130 0.00 0.00 0.00 3.50
2691 2734 8.670521 ATACATATCCCACACTCATTCTATCA 57.329 34.615 0.00 0.00 0.00 2.15
2692 2735 8.200792 GGATACATATCCCACACTCATTCTATC 58.799 40.741 6.66 0.00 45.20 2.08
2736 2780 6.073003 CCTCTAGCTCCTGTTTTGTTTACAAG 60.073 42.308 0.00 0.00 37.15 3.16
2754 2798 6.592220 CACTTCTTTTCTAAACTCCCTCTAGC 59.408 42.308 0.00 0.00 0.00 3.42
2762 2806 8.621286 TGATTTCACCACTTCTTTTCTAAACTC 58.379 33.333 0.00 0.00 0.00 3.01
2790 2834 2.443958 ATCCTCTGATCTCACGGACA 57.556 50.000 0.00 0.00 0.00 4.02
2791 2835 3.482436 AGTATCCTCTGATCTCACGGAC 58.518 50.000 0.00 0.00 32.18 4.79
2792 2836 3.392947 AGAGTATCCTCTGATCTCACGGA 59.607 47.826 0.00 0.00 46.45 4.69
2793 2837 3.750371 AGAGTATCCTCTGATCTCACGG 58.250 50.000 0.00 0.00 46.45 4.94
2864 2908 7.552050 TTTTCAACCACATAAATCCTTCCAT 57.448 32.000 0.00 0.00 0.00 3.41
2896 2940 4.977739 TGGAACATATGGAAGGAGAGGAAT 59.022 41.667 7.80 0.00 0.00 3.01
2911 2960 7.847096 TCTTCACTATTACTGCTTGGAACATA 58.153 34.615 0.00 0.00 39.30 2.29
3024 3074 3.931468 CAGTAACAGCTGTTGGATCAGAG 59.069 47.826 36.50 16.30 38.90 3.35
3029 3079 4.516698 CACTTTCAGTAACAGCTGTTGGAT 59.483 41.667 36.50 21.42 38.90 3.41
3030 3080 3.876914 CACTTTCAGTAACAGCTGTTGGA 59.123 43.478 36.50 27.34 38.90 3.53
3038 3088 5.484173 TTCAACTGCACTTTCAGTAACAG 57.516 39.130 0.00 5.11 45.77 3.16
3040 3090 7.806690 TGATATTCAACTGCACTTTCAGTAAC 58.193 34.615 0.00 0.00 45.77 2.50
3075 3125 3.713003 TGGGAGCTGAAGAGACTATTGA 58.287 45.455 0.00 0.00 0.00 2.57
3076 3126 4.478206 TTGGGAGCTGAAGAGACTATTG 57.522 45.455 0.00 0.00 0.00 1.90
3078 3128 4.718774 TGATTTGGGAGCTGAAGAGACTAT 59.281 41.667 0.00 0.00 0.00 2.12
3082 3132 2.639347 TGTGATTTGGGAGCTGAAGAGA 59.361 45.455 0.00 0.00 0.00 3.10
3083 3133 3.063510 TGTGATTTGGGAGCTGAAGAG 57.936 47.619 0.00 0.00 0.00 2.85
3084 3134 3.726557 ATGTGATTTGGGAGCTGAAGA 57.273 42.857 0.00 0.00 0.00 2.87
3085 3135 3.881688 CCTATGTGATTTGGGAGCTGAAG 59.118 47.826 0.00 0.00 0.00 3.02
3087 3137 3.114606 TCCTATGTGATTTGGGAGCTGA 58.885 45.455 0.00 0.00 0.00 4.26
3088 3138 3.209410 GTCCTATGTGATTTGGGAGCTG 58.791 50.000 0.00 0.00 0.00 4.24
3089 3139 2.846206 TGTCCTATGTGATTTGGGAGCT 59.154 45.455 0.00 0.00 0.00 4.09
3090 3140 2.945668 GTGTCCTATGTGATTTGGGAGC 59.054 50.000 0.00 0.00 0.00 4.70
3091 3141 4.220693 TGTGTCCTATGTGATTTGGGAG 57.779 45.455 0.00 0.00 0.00 4.30
3093 3143 4.577693 CAGATGTGTCCTATGTGATTTGGG 59.422 45.833 0.00 0.00 0.00 4.12
3094 3144 5.430886 TCAGATGTGTCCTATGTGATTTGG 58.569 41.667 0.00 0.00 0.00 3.28
3096 3146 6.715280 AGTTCAGATGTGTCCTATGTGATTT 58.285 36.000 0.00 0.00 29.41 2.17
3101 3151 5.946942 ATGAGTTCAGATGTGTCCTATGT 57.053 39.130 0.00 0.00 0.00 2.29
3102 3152 5.007430 GCAATGAGTTCAGATGTGTCCTATG 59.993 44.000 0.00 0.00 0.00 2.23
3111 3161 4.638865 TCAGATTGGCAATGAGTTCAGATG 59.361 41.667 19.07 0.00 0.00 2.90
3151 3208 5.186198 ACAGGTTGAACACTAGGAATATGC 58.814 41.667 0.00 0.00 0.00 3.14
3160 3217 4.839121 ACTTGTTGACAGGTTGAACACTA 58.161 39.130 0.00 0.00 31.78 2.74
3169 3226 5.373222 TGTTGCTATTACTTGTTGACAGGT 58.627 37.500 4.31 4.31 39.58 4.00
3178 3235 8.946085 TCAAGGTCTTTATGTTGCTATTACTTG 58.054 33.333 0.00 0.00 0.00 3.16
3186 3243 4.026356 AGCTCAAGGTCTTTATGTTGCT 57.974 40.909 0.00 0.00 0.00 3.91
3187 3244 4.216257 TGAAGCTCAAGGTCTTTATGTTGC 59.784 41.667 0.00 0.00 0.00 4.17
3188 3245 5.947228 TGAAGCTCAAGGTCTTTATGTTG 57.053 39.130 0.00 0.00 0.00 3.33
3189 3246 7.014615 ACAAATGAAGCTCAAGGTCTTTATGTT 59.985 33.333 0.00 0.00 0.00 2.71
3190 3247 6.491403 ACAAATGAAGCTCAAGGTCTTTATGT 59.509 34.615 0.00 0.00 0.00 2.29
3191 3248 6.917533 ACAAATGAAGCTCAAGGTCTTTATG 58.082 36.000 0.00 0.00 0.00 1.90
3192 3249 8.515414 GTTACAAATGAAGCTCAAGGTCTTTAT 58.485 33.333 0.00 0.00 0.00 1.40
3193 3250 7.719633 AGTTACAAATGAAGCTCAAGGTCTTTA 59.280 33.333 0.00 0.00 0.00 1.85
3194 3251 6.547510 AGTTACAAATGAAGCTCAAGGTCTTT 59.452 34.615 0.00 0.00 0.00 2.52
3195 3252 6.064717 AGTTACAAATGAAGCTCAAGGTCTT 58.935 36.000 0.00 0.00 0.00 3.01
3227 3284 1.846175 GCGCCGTTCAAATAGATTTGC 59.154 47.619 9.66 0.00 45.06 3.68
3234 3291 0.320858 TGTCAGGCGCCGTTCAAATA 60.321 50.000 23.20 0.09 0.00 1.40
3246 3303 2.289945 ACAGAGAAATCACCTGTCAGGC 60.290 50.000 19.40 1.16 39.63 4.85
3251 3308 3.389329 ACTGTCACAGAGAAATCACCTGT 59.611 43.478 13.14 0.00 41.35 4.00
3254 3311 3.921021 CGTACTGTCACAGAGAAATCACC 59.079 47.826 13.14 0.00 35.18 4.02


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

AutoCloner maintained by Alex Coulton.