Multiple sequence alignment - TraesCS3B01G532700

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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 TraesCS3B01G532700 chr3B 100.000 2450 0 0 1 2450 773156090 773153641 0.000000e+00 4525.0
1 TraesCS3B01G532700 chr3B 91.311 633 41 5 195 814 773139934 773139303 0.000000e+00 852.0
2 TraesCS3B01G532700 chr3B 80.534 524 70 18 268 775 773171797 773171290 8.270000e-100 374.0
3 TraesCS3B01G532700 chr3B 77.160 486 68 20 269 736 773102023 773101563 2.430000e-60 243.0
4 TraesCS3B01G532700 chr3A 90.701 1839 107 24 195 2001 714451788 714449982 0.000000e+00 2390.0
5 TraesCS3B01G532700 chr3A 83.895 267 33 4 193 454 714455250 714454989 1.880000e-61 246.0
6 TraesCS3B01G532700 chr3A 83.399 253 27 9 270 517 714435560 714435318 1.140000e-53 220.0
7 TraesCS3B01G532700 chr3A 81.609 174 19 7 2040 2205 714449977 714449809 5.500000e-27 132.0
8 TraesCS3B01G532700 chr3A 76.277 274 43 9 526 777 714454917 714454644 2.560000e-25 126.0
9 TraesCS3B01G532700 chr3D 86.858 1537 119 41 697 2205 579080338 579078857 0.000000e+00 1642.0
10 TraesCS3B01G532700 chr3D 95.652 391 16 1 315 705 579082342 579081953 5.750000e-176 627.0
11 TraesCS3B01G532700 chr3D 82.270 564 70 13 194 736 579107550 579106996 6.170000e-126 460.0
12 TraesCS3B01G532700 chr3D 89.796 196 11 4 1 192 424493541 424493351 2.430000e-60 243.0
13 TraesCS3B01G532700 chr3D 83.643 269 28 9 269 532 579046944 579046687 3.150000e-59 239.0
14 TraesCS3B01G532700 chr3D 93.701 127 4 2 195 318 579084004 579083879 1.160000e-43 187.0
15 TraesCS3B01G532700 chr3D 79.661 177 22 10 2281 2450 579078802 579078633 5.540000e-22 115.0
16 TraesCS3B01G532700 chr3D 84.946 93 11 2 633 722 579078863 579078771 9.330000e-15 91.6
17 TraesCS3B01G532700 chr7D 90.576 191 13 2 2 191 610487010 610486824 5.230000e-62 248.0
18 TraesCS3B01G532700 chr7D 90.052 191 11 5 1 188 133690302 133690117 8.750000e-60 241.0
19 TraesCS3B01G532700 chr7D 100.000 28 0 0 924 951 286497834 286497807 4.000000e-03 52.8
20 TraesCS3B01G532700 chr2D 90.155 193 14 2 1 192 640367533 640367721 1.880000e-61 246.0
21 TraesCS3B01G532700 chr2D 90.104 192 13 3 1 191 3731991 3731805 6.770000e-61 244.0
22 TraesCS3B01G532700 chr7B 90.476 189 12 3 1 188 652613192 652613009 6.770000e-61 244.0
23 TraesCS3B01G532700 chr7B 100.000 29 0 0 923 951 374038675 374038703 1.000000e-03 54.7
24 TraesCS3B01G532700 chr6B 89.637 193 18 2 2 192 10854281 10854089 6.770000e-61 244.0
25 TraesCS3B01G532700 chr6B 100.000 29 0 0 923 951 106117434 106117406 1.000000e-03 54.7
26 TraesCS3B01G532700 chr5A 89.947 189 14 2 1 188 303685185 303685369 3.150000e-59 239.0
27 TraesCS3B01G532700 chr4D 89.894 188 15 3 1 188 463411441 463411624 3.150000e-59 239.0
28 TraesCS3B01G532700 chr5B 100.000 29 0 0 925 953 221906741 221906769 1.000000e-03 54.7


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 TraesCS3B01G532700 chr3B 773153641 773156090 2449 True 4525.00 4525 100.0000 1 2450 1 chr3B.!!$R3 2449
1 TraesCS3B01G532700 chr3B 773139303 773139934 631 True 852.00 852 91.3110 195 814 1 chr3B.!!$R2 619
2 TraesCS3B01G532700 chr3B 773171290 773171797 507 True 374.00 374 80.5340 268 775 1 chr3B.!!$R4 507
3 TraesCS3B01G532700 chr3A 714449809 714455250 5441 True 723.50 2390 83.1205 193 2205 4 chr3A.!!$R2 2012
4 TraesCS3B01G532700 chr3D 579078633 579084004 5371 True 532.52 1642 88.1636 195 2450 5 chr3D.!!$R4 2255
5 TraesCS3B01G532700 chr3D 579106996 579107550 554 True 460.00 460 82.2700 194 736 1 chr3D.!!$R3 542

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
33 34 0.038343 TTTTGGGCAGCTCGCAATTC 60.038 50.0 13.53 1.88 45.32 2.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1768 8478 0.464373 AGTGGCATGGTATCCGCAAG 60.464 55.0 0.0 0.0 35.41 4.01 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
30 31 3.531283 TTTTTGGGCAGCTCGCAA 58.469 50.000 9.78 10.01 45.17 4.85
31 32 2.048601 TTTTTGGGCAGCTCGCAAT 58.951 47.368 13.53 0.00 45.32 3.56
32 33 0.392336 TTTTTGGGCAGCTCGCAATT 59.608 45.000 13.53 0.00 45.32 2.32
33 34 0.038343 TTTTGGGCAGCTCGCAATTC 60.038 50.000 13.53 1.88 45.32 2.17
34 35 1.177895 TTTGGGCAGCTCGCAATTCA 61.178 50.000 13.53 3.82 45.32 2.57
35 36 1.177895 TTGGGCAGCTCGCAATTCAA 61.178 50.000 9.78 6.13 45.17 2.69
36 37 1.138247 GGGCAGCTCGCAATTCAAG 59.862 57.895 9.78 0.00 45.17 3.02
37 38 1.138247 GGCAGCTCGCAATTCAAGG 59.862 57.895 9.78 0.00 45.17 3.61
38 39 1.589716 GGCAGCTCGCAATTCAAGGT 61.590 55.000 9.78 0.00 45.17 3.50
39 40 1.086696 GCAGCTCGCAATTCAAGGTA 58.913 50.000 3.64 0.00 41.79 3.08
40 41 1.672881 GCAGCTCGCAATTCAAGGTAT 59.327 47.619 3.64 0.00 41.79 2.73
41 42 2.098117 GCAGCTCGCAATTCAAGGTATT 59.902 45.455 3.64 0.00 41.79 1.89
42 43 3.428045 GCAGCTCGCAATTCAAGGTATTT 60.428 43.478 3.64 0.00 41.79 1.40
43 44 4.346129 CAGCTCGCAATTCAAGGTATTTC 58.654 43.478 0.00 0.00 0.00 2.17
44 45 4.009675 AGCTCGCAATTCAAGGTATTTCA 58.990 39.130 0.00 0.00 0.00 2.69
45 46 4.641989 AGCTCGCAATTCAAGGTATTTCAT 59.358 37.500 0.00 0.00 0.00 2.57
46 47 4.972440 GCTCGCAATTCAAGGTATTTCATC 59.028 41.667 0.00 0.00 0.00 2.92
47 48 5.499139 TCGCAATTCAAGGTATTTCATCC 57.501 39.130 0.00 0.00 0.00 3.51
48 49 5.192927 TCGCAATTCAAGGTATTTCATCCT 58.807 37.500 0.00 0.00 35.34 3.24
49 50 5.066375 TCGCAATTCAAGGTATTTCATCCTG 59.934 40.000 0.00 0.00 33.97 3.86
50 51 5.066375 CGCAATTCAAGGTATTTCATCCTGA 59.934 40.000 0.00 0.00 33.97 3.86
51 52 6.404623 CGCAATTCAAGGTATTTCATCCTGAA 60.405 38.462 0.00 0.00 34.03 3.02
64 65 7.769272 TTTCATCCTGAAAATTTTCACACAC 57.231 32.000 26.01 4.05 42.72 3.82
65 66 6.462552 TCATCCTGAAAATTTTCACACACA 57.537 33.333 26.01 10.31 41.88 3.72
66 67 7.053316 TCATCCTGAAAATTTTCACACACAT 57.947 32.000 26.01 12.43 41.88 3.21
67 68 8.175925 TCATCCTGAAAATTTTCACACACATA 57.824 30.769 26.01 8.87 41.88 2.29
68 69 8.081633 TCATCCTGAAAATTTTCACACACATAC 58.918 33.333 26.01 1.31 41.88 2.39
69 70 7.581213 TCCTGAAAATTTTCACACACATACT 57.419 32.000 26.01 0.00 41.88 2.12
70 71 8.006298 TCCTGAAAATTTTCACACACATACTT 57.994 30.769 26.01 0.00 41.88 2.24
71 72 8.474025 TCCTGAAAATTTTCACACACATACTTT 58.526 29.630 26.01 0.00 41.88 2.66
72 73 9.743057 CCTGAAAATTTTCACACACATACTTTA 57.257 29.630 26.01 4.03 41.88 1.85
80 81 9.729023 TTTTCACACACATACTTTACATCTTTG 57.271 29.630 0.00 0.00 0.00 2.77
81 82 6.898041 TCACACACATACTTTACATCTTTGC 58.102 36.000 0.00 0.00 0.00 3.68
82 83 6.484977 TCACACACATACTTTACATCTTTGCA 59.515 34.615 0.00 0.00 0.00 4.08
83 84 7.174772 TCACACACATACTTTACATCTTTGCAT 59.825 33.333 0.00 0.00 0.00 3.96
84 85 8.450180 CACACACATACTTTACATCTTTGCATA 58.550 33.333 0.00 0.00 0.00 3.14
85 86 8.450964 ACACACATACTTTACATCTTTGCATAC 58.549 33.333 0.00 0.00 0.00 2.39
86 87 8.450180 CACACATACTTTACATCTTTGCATACA 58.550 33.333 0.00 0.00 0.00 2.29
87 88 9.177608 ACACATACTTTACATCTTTGCATACAT 57.822 29.630 0.00 0.00 0.00 2.29
88 89 9.442033 CACATACTTTACATCTTTGCATACATG 57.558 33.333 0.00 0.00 0.00 3.21
89 90 9.177608 ACATACTTTACATCTTTGCATACATGT 57.822 29.630 2.69 2.69 33.95 3.21
90 91 9.442033 CATACTTTACATCTTTGCATACATGTG 57.558 33.333 9.11 0.00 31.83 3.21
91 92 7.452880 ACTTTACATCTTTGCATACATGTGT 57.547 32.000 9.11 0.00 31.83 3.72
92 93 8.560355 ACTTTACATCTTTGCATACATGTGTA 57.440 30.769 9.11 0.00 31.83 2.90
93 94 9.177608 ACTTTACATCTTTGCATACATGTGTAT 57.822 29.630 9.11 0.00 41.58 2.29
96 97 9.786105 TTACATCTTTGCATACATGTGTATTTG 57.214 29.630 9.11 0.00 39.06 2.32
97 98 7.829725 ACATCTTTGCATACATGTGTATTTGT 58.170 30.769 9.11 0.00 39.06 2.83
98 99 8.306038 ACATCTTTGCATACATGTGTATTTGTT 58.694 29.630 9.11 0.00 39.06 2.83
99 100 9.142515 CATCTTTGCATACATGTGTATTTGTTT 57.857 29.630 9.11 0.00 39.06 2.83
100 101 8.741101 TCTTTGCATACATGTGTATTTGTTTC 57.259 30.769 9.11 0.00 39.06 2.78
101 102 8.355913 TCTTTGCATACATGTGTATTTGTTTCA 58.644 29.630 9.11 0.00 39.06 2.69
102 103 8.518151 TTTGCATACATGTGTATTTGTTTCAG 57.482 30.769 9.11 0.00 39.06 3.02
103 104 7.446001 TGCATACATGTGTATTTGTTTCAGA 57.554 32.000 9.11 0.00 39.06 3.27
104 105 7.880105 TGCATACATGTGTATTTGTTTCAGAA 58.120 30.769 9.11 0.00 39.06 3.02
105 106 8.522003 TGCATACATGTGTATTTGTTTCAGAAT 58.478 29.630 9.11 0.00 39.06 2.40
106 107 9.357652 GCATACATGTGTATTTGTTTCAGAATT 57.642 29.630 9.11 0.00 39.06 2.17
164 165 5.419239 TTTCAAAATAAAGGGCTCCATGG 57.581 39.130 4.97 4.97 0.00 3.66
165 166 4.329638 TCAAAATAAAGGGCTCCATGGA 57.670 40.909 15.27 15.27 0.00 3.41
166 167 4.280819 TCAAAATAAAGGGCTCCATGGAG 58.719 43.478 33.73 33.73 44.56 3.86
184 185 1.601430 GAGCTCGATCTCCAAAATGCC 59.399 52.381 4.91 0.00 0.00 4.40
185 186 0.665298 GCTCGATCTCCAAAATGCCC 59.335 55.000 0.00 0.00 0.00 5.36
186 187 1.748591 GCTCGATCTCCAAAATGCCCT 60.749 52.381 0.00 0.00 0.00 5.19
187 188 2.485479 GCTCGATCTCCAAAATGCCCTA 60.485 50.000 0.00 0.00 0.00 3.53
188 189 3.808618 GCTCGATCTCCAAAATGCCCTAT 60.809 47.826 0.00 0.00 0.00 2.57
189 190 4.392940 CTCGATCTCCAAAATGCCCTATT 58.607 43.478 0.00 0.00 0.00 1.73
190 191 4.389374 TCGATCTCCAAAATGCCCTATTC 58.611 43.478 0.00 0.00 0.00 1.75
191 192 3.187227 CGATCTCCAAAATGCCCTATTCG 59.813 47.826 0.00 0.00 0.00 3.34
311 315 4.514441 TGTAAAATGGCTGCAAATGTTTGG 59.486 37.500 0.50 0.00 38.57 3.28
430 5474 6.406692 AATACTATCATCACGGTGCTTAGT 57.593 37.500 2.51 9.56 0.00 2.24
446 5490 1.301423 TAGTTGGGTTTGACGCACAC 58.699 50.000 0.00 1.21 40.90 3.82
480 5524 3.449632 GAAGAGATTAGGACCAGCGTTC 58.550 50.000 0.00 0.00 0.00 3.95
483 5528 4.475345 AGAGATTAGGACCAGCGTTCTAT 58.525 43.478 0.00 0.00 29.75 1.98
496 5541 5.344066 CAGCGTTCTATGCTAATCCGATAT 58.656 41.667 0.00 0.00 38.65 1.63
515 5560 7.277098 TCCGATATCTAGGTTTCAAAAGTTTCG 59.723 37.037 0.34 0.00 0.00 3.46
521 5566 3.113322 GGTTTCAAAAGTTTCGGAGCAC 58.887 45.455 0.00 0.00 0.00 4.40
548 5593 2.579207 TATCTCCCGAGCAAAAGTCG 57.421 50.000 0.00 0.00 37.17 4.18
612 5658 1.002087 AGGTTGGAAAGGTAGCTCACG 59.998 52.381 0.00 0.00 0.00 4.35
618 5664 3.267483 GGAAAGGTAGCTCACGCATAAA 58.733 45.455 0.00 0.00 39.10 1.40
622 5668 2.500098 AGGTAGCTCACGCATAAAGGAA 59.500 45.455 0.00 0.00 39.10 3.36
672 5722 1.672145 CGGTCGAGAAAAGGGAGTTCC 60.672 57.143 0.00 0.00 0.00 3.62
714 7387 8.409690 CACAATGATTTAATTAATTAGACGCGC 58.590 33.333 5.73 0.00 0.00 6.86
740 7413 0.319297 TGATCGATGCATGAGAGGCG 60.319 55.000 2.46 0.00 0.00 5.52
834 7517 4.037684 ACACCTACCATGCTACGAATACTC 59.962 45.833 0.00 0.00 0.00 2.59
873 7556 2.103432 ACCGAAGACAACACCATACACA 59.897 45.455 0.00 0.00 0.00 3.72
925 7611 1.135915 CACAAGACGGCAGAGATAGCT 59.864 52.381 0.00 0.00 0.00 3.32
939 7625 2.786445 AGATAGCTACTCCCTCTGTCCA 59.214 50.000 0.00 0.00 0.00 4.02
995 7681 8.504005 GCTATAAACTTCACAAGAGCAAAACTA 58.496 33.333 0.00 0.00 0.00 2.24
1004 7690 5.978919 CACAAGAGCAAAACTAAAGAATGCA 59.021 36.000 0.00 0.00 39.42 3.96
1278 7973 8.449423 AGGCAGATTATATGGAGGTAATTACA 57.551 34.615 17.16 0.00 0.00 2.41
1291 7986 9.634021 TGGAGGTAATTACAATTATGCATAACA 57.366 29.630 21.10 6.88 33.79 2.41
1330 8025 2.828128 GCAGCGGCCATCTACAAGC 61.828 63.158 2.24 0.00 0.00 4.01
1458 8153 5.754406 TCGAACTATTGTTTGAAAGTCGGAA 59.246 36.000 7.42 0.00 41.98 4.30
1616 8314 5.005394 GGAGTAGTACATTTATGTGTGCACG 59.995 44.000 13.13 0.00 41.89 5.34
1659 8357 5.565439 GCTTTAGCTTGGCTTGAAGAATGAA 60.565 40.000 14.77 0.00 40.44 2.57
1673 8371 3.552875 AGAATGAAGGAGGACATGCATG 58.447 45.455 25.09 25.09 0.00 4.06
1709 8419 5.708697 CGTACCTGTCATAGTCATACCCATA 59.291 44.000 0.00 0.00 0.00 2.74
1710 8420 6.377429 CGTACCTGTCATAGTCATACCCATAT 59.623 42.308 0.00 0.00 0.00 1.78
1711 8421 7.555195 CGTACCTGTCATAGTCATACCCATATA 59.445 40.741 0.00 0.00 0.00 0.86
1712 8422 9.422681 GTACCTGTCATAGTCATACCCATATAT 57.577 37.037 0.00 0.00 0.00 0.86
1714 8424 9.422681 ACCTGTCATAGTCATACCCATATATAC 57.577 37.037 0.00 0.00 0.00 1.47
1715 8425 8.861086 CCTGTCATAGTCATACCCATATATACC 58.139 40.741 0.00 0.00 0.00 2.73
1716 8426 9.421399 CTGTCATAGTCATACCCATATATACCA 57.579 37.037 0.00 0.00 0.00 3.25
1717 8427 9.777008 TGTCATAGTCATACCCATATATACCAA 57.223 33.333 0.00 0.00 0.00 3.67
1719 8429 9.434275 TCATAGTCATACCCATATATACCAAGG 57.566 37.037 0.00 0.00 0.00 3.61
1720 8430 8.651389 CATAGTCATACCCATATATACCAAGGG 58.349 40.741 3.95 3.95 45.20 3.95
1721 8431 5.970640 AGTCATACCCATATATACCAAGGGG 59.029 44.000 9.32 6.12 43.96 4.79
1722 8432 5.968167 GTCATACCCATATATACCAAGGGGA 59.032 44.000 9.90 1.96 43.96 4.81
1723 8433 6.445786 GTCATACCCATATATACCAAGGGGAA 59.554 42.308 9.90 0.00 43.96 3.97
1724 8434 6.676632 TCATACCCATATATACCAAGGGGAAG 59.323 42.308 9.90 0.00 43.96 3.46
1725 8435 5.114743 ACCCATATATACCAAGGGGAAGA 57.885 43.478 9.90 0.00 43.96 2.87
1726 8436 5.686667 ACCCATATATACCAAGGGGAAGAT 58.313 41.667 9.90 0.00 43.96 2.40
1727 8437 6.833292 ACCCATATATACCAAGGGGAAGATA 58.167 40.000 9.90 0.00 43.96 1.98
1728 8438 6.909158 ACCCATATATACCAAGGGGAAGATAG 59.091 42.308 9.90 0.00 43.96 2.08
1729 8439 6.909158 CCCATATATACCAAGGGGAAGATAGT 59.091 42.308 0.00 0.00 37.80 2.12
1730 8440 7.406151 CCCATATATACCAAGGGGAAGATAGTT 59.594 40.741 0.00 0.00 37.80 2.24
1731 8441 9.502035 CCATATATACCAAGGGGAAGATAGTTA 57.498 37.037 0.00 0.00 38.05 2.24
1757 8467 8.671987 ATATTGGCTACTCATACCAAGAGTAT 57.328 34.615 3.79 0.00 46.08 2.12
1806 8518 2.038557 ACTGGTAATGGCTTTCACGTCT 59.961 45.455 0.00 0.00 0.00 4.18
1810 8522 6.169557 TGGTAATGGCTTTCACGTCTATAT 57.830 37.500 0.00 0.00 0.00 0.86
1828 8540 1.086696 ATGTTGCTTCCGATGAACCG 58.913 50.000 0.00 0.00 0.00 4.44
1837 8549 0.743345 CCGATGAACCGGGGAAACTC 60.743 60.000 6.32 0.00 45.43 3.01
1838 8550 0.249398 CGATGAACCGGGGAAACTCT 59.751 55.000 6.32 0.00 0.00 3.24
1902 8616 3.312973 ACGGACGCTAATGTTTGACAAAA 59.687 39.130 1.27 0.00 0.00 2.44
1910 8624 4.576106 AATGTTTGACAAAAACACACGC 57.424 36.364 1.27 0.00 42.18 5.34
1938 8654 0.892063 TACGGGCTTTTTCATTGGCC 59.108 50.000 0.00 0.00 43.42 5.36
1950 8666 0.802494 CATTGGCCCGTTGACAGTAC 59.198 55.000 0.00 0.00 0.00 2.73
1980 8696 6.839301 CACGAATAAATAATCCAACGAGTTCG 59.161 38.462 0.00 0.00 46.33 3.95
2012 8728 8.498054 AAGCTTCCCATAATAATATCATCACG 57.502 34.615 0.00 0.00 0.00 4.35
2019 8735 6.019559 CCATAATAATATCATCACGGTGCTCG 60.020 42.308 2.51 0.00 45.88 5.03
2021 8737 2.423926 ATATCATCACGGTGCTCGAC 57.576 50.000 2.51 0.00 42.43 4.20
2024 8740 2.125912 ATCACGGTGCTCGACTGC 60.126 61.111 2.51 0.00 42.43 4.40
2026 8742 4.700365 CACGGTGCTCGACTGCGA 62.700 66.667 7.01 0.00 45.71 5.10
2036 8752 1.358877 TCGACTGCGAATGATGTTGG 58.641 50.000 0.00 0.00 44.78 3.77
2037 8753 0.374758 CGACTGCGAATGATGTTGGG 59.625 55.000 0.00 0.00 40.82 4.12
2038 8754 0.734889 GACTGCGAATGATGTTGGGG 59.265 55.000 0.00 0.00 0.00 4.96
2039 8755 0.038166 ACTGCGAATGATGTTGGGGT 59.962 50.000 0.00 0.00 0.00 4.95
2040 8756 1.176527 CTGCGAATGATGTTGGGGTT 58.823 50.000 0.00 0.00 0.00 4.11
2041 8757 1.545582 CTGCGAATGATGTTGGGGTTT 59.454 47.619 0.00 0.00 0.00 3.27
2042 8758 1.271934 TGCGAATGATGTTGGGGTTTG 59.728 47.619 0.00 0.00 0.00 2.93
2043 8759 1.543802 GCGAATGATGTTGGGGTTTGA 59.456 47.619 0.00 0.00 0.00 2.69
2044 8760 2.671070 GCGAATGATGTTGGGGTTTGAC 60.671 50.000 0.00 0.00 0.00 3.18
2045 8761 2.414029 CGAATGATGTTGGGGTTTGACG 60.414 50.000 0.00 0.00 0.00 4.35
2049 8765 1.791103 ATGTTGGGGTTTGACGCACG 61.791 55.000 0.00 0.00 32.69 5.34
2055 8771 4.293626 GTTTGACGCACGCACGCT 62.294 61.111 0.00 0.00 36.19 5.07
2073 8789 0.179702 CTTAACGGGAGGGGTTAGGC 59.820 60.000 0.00 0.00 32.01 3.93
2119 8835 5.278604 CGGTAGGTTTCAAAAGTTTTGGAG 58.721 41.667 24.45 3.47 0.00 3.86
2125 8841 6.316140 AGGTTTCAAAAGTTTTGGAGCATTTC 59.684 34.615 24.45 8.45 0.00 2.17
2127 8843 7.494298 GGTTTCAAAAGTTTTGGAGCATTTCTA 59.506 33.333 24.45 2.31 0.00 2.10
2128 8844 9.045223 GTTTCAAAAGTTTTGGAGCATTTCTAT 57.955 29.630 24.45 0.00 0.00 1.98
2139 8855 9.935241 TTTGGAGCATTTCTATATATCTCTCAC 57.065 33.333 0.00 0.00 0.00 3.51
2140 8856 8.655935 TGGAGCATTTCTATATATCTCTCACA 57.344 34.615 0.00 0.00 0.00 3.58
2154 8870 3.067601 TCTCTCACACAAAAGTCGCAGTA 59.932 43.478 0.00 0.00 0.00 2.74
2155 8871 3.120792 TCTCACACAAAAGTCGCAGTAC 58.879 45.455 0.00 0.00 0.00 2.73
2156 8872 3.123804 CTCACACAAAAGTCGCAGTACT 58.876 45.455 0.00 0.00 0.00 2.73
2159 8879 3.799963 CACACAAAAGTCGCAGTACTGTA 59.200 43.478 23.44 10.08 0.00 2.74
2161 8881 5.631929 CACACAAAAGTCGCAGTACTGTATA 59.368 40.000 23.44 7.24 0.00 1.47
2167 8887 8.604035 CAAAAGTCGCAGTACTGTATATGATTT 58.396 33.333 23.44 13.16 0.00 2.17
2171 8891 9.464714 AGTCGCAGTACTGTATATGATTTTAAG 57.535 33.333 23.44 0.00 0.00 1.85
2189 8909 9.214953 GATTTTAAGTTTGTGCTCGAATGATAG 57.785 33.333 0.00 0.00 0.00 2.08
2199 8919 3.489398 GCTCGAATGATAGGTCGACTTGT 60.489 47.826 16.46 5.98 41.13 3.16
2202 8922 6.198650 TCGAATGATAGGTCGACTTGTAAA 57.801 37.500 16.46 0.00 41.13 2.01
2203 8923 6.263344 TCGAATGATAGGTCGACTTGTAAAG 58.737 40.000 16.46 0.50 41.13 1.85
2204 8924 7.168581 TCGAATGATAGGTCGACTTGTAAAGC 61.169 42.308 16.46 0.00 40.98 3.51
2205 8925 9.232388 TCGAATGATAGGTCGACTTGTAAAGCT 62.232 40.741 16.46 3.72 40.98 3.74
2215 8935 2.977914 CTTGTAAAGCTAGCTCAGGCA 58.022 47.619 19.65 11.95 36.98 4.75
2216 8936 3.539604 CTTGTAAAGCTAGCTCAGGCAT 58.460 45.455 19.65 0.00 36.98 4.40
2217 8937 4.697514 CTTGTAAAGCTAGCTCAGGCATA 58.302 43.478 19.65 2.24 36.98 3.14
2218 8938 4.753516 TGTAAAGCTAGCTCAGGCATAA 57.246 40.909 19.65 0.00 41.70 1.90
2219 8939 5.097742 TGTAAAGCTAGCTCAGGCATAAA 57.902 39.130 19.65 0.00 41.70 1.40
2220 8940 5.118990 TGTAAAGCTAGCTCAGGCATAAAG 58.881 41.667 19.65 0.00 41.70 1.85
2221 8941 2.926778 AGCTAGCTCAGGCATAAAGG 57.073 50.000 12.68 0.00 41.70 3.11
2222 8942 2.402564 AGCTAGCTCAGGCATAAAGGA 58.597 47.619 12.68 0.00 41.70 3.36
2223 8943 2.774234 AGCTAGCTCAGGCATAAAGGAA 59.226 45.455 12.68 0.00 41.70 3.36
2224 8944 2.875317 GCTAGCTCAGGCATAAAGGAAC 59.125 50.000 7.70 0.00 41.70 3.62
2225 8945 3.432890 GCTAGCTCAGGCATAAAGGAACT 60.433 47.826 7.70 0.00 40.85 3.01
2226 8946 2.996631 AGCTCAGGCATAAAGGAACTG 58.003 47.619 0.00 0.00 39.30 3.16
2227 8947 1.403323 GCTCAGGCATAAAGGAACTGC 59.597 52.381 0.00 0.00 37.26 4.40
2230 8950 2.106844 GGCATAAAGGAACTGCCGG 58.893 57.895 0.00 0.00 45.35 6.13
2231 8951 1.433471 GCATAAAGGAACTGCCGGC 59.567 57.895 22.73 22.73 40.86 6.13
2232 8952 1.032114 GCATAAAGGAACTGCCGGCT 61.032 55.000 29.70 7.33 40.86 5.52
2233 8953 1.463674 CATAAAGGAACTGCCGGCTT 58.536 50.000 29.70 15.25 40.86 4.35
2234 8954 2.639065 CATAAAGGAACTGCCGGCTTA 58.361 47.619 29.70 16.05 40.86 3.09
2235 8955 3.214328 CATAAAGGAACTGCCGGCTTAT 58.786 45.455 29.70 17.65 40.86 1.73
2236 8956 1.463674 AAAGGAACTGCCGGCTTATG 58.536 50.000 29.70 16.96 40.86 1.90
2237 8957 0.394352 AAGGAACTGCCGGCTTATGG 60.394 55.000 29.70 14.36 40.86 2.74
2238 8958 1.077716 GGAACTGCCGGCTTATGGT 60.078 57.895 29.70 13.83 0.00 3.55
2239 8959 0.679960 GGAACTGCCGGCTTATGGTT 60.680 55.000 29.70 21.86 0.00 3.67
2240 8960 0.451783 GAACTGCCGGCTTATGGTTG 59.548 55.000 29.70 9.51 0.00 3.77
2241 8961 0.965363 AACTGCCGGCTTATGGTTGG 60.965 55.000 29.70 8.46 0.00 3.77
2242 8962 1.077787 CTGCCGGCTTATGGTTGGA 60.078 57.895 29.70 1.03 0.00 3.53
2243 8963 0.679640 CTGCCGGCTTATGGTTGGAA 60.680 55.000 29.70 0.41 0.00 3.53
2263 8984 2.617274 GCACCTTTCTGTGGACGGC 61.617 63.158 0.00 0.00 36.73 5.68
2273 8994 0.250295 TGTGGACGGCTGAGAAAAGG 60.250 55.000 0.00 0.00 0.00 3.11
2280 9001 1.270839 CGGCTGAGAAAAGGGAGTTCA 60.271 52.381 0.00 0.00 0.00 3.18
2324 9066 7.849804 ATGCGTCAAGTTTAATAACTGATCT 57.150 32.000 0.00 0.00 43.74 2.75
2326 9068 8.942338 TGCGTCAAGTTTAATAACTGATCTAT 57.058 30.769 0.00 0.00 43.74 1.98
2327 9069 8.817100 TGCGTCAAGTTTAATAACTGATCTATG 58.183 33.333 0.00 0.00 43.74 2.23
2328 9070 7.794349 GCGTCAAGTTTAATAACTGATCTATGC 59.206 37.037 0.00 0.00 43.74 3.14
2383 9125 2.766970 ACACGGGAACATGAAAAACG 57.233 45.000 0.00 0.00 0.00 3.60
2389 9131 4.687483 ACGGGAACATGAAAAACGTAGTAG 59.313 41.667 0.00 0.00 45.00 2.57
2390 9132 4.092383 CGGGAACATGAAAAACGTAGTAGG 59.908 45.833 0.00 0.00 45.00 3.18
2392 9134 5.702209 GGGAACATGAAAAACGTAGTAGGAA 59.298 40.000 0.00 0.00 45.00 3.36
2393 9135 6.373495 GGGAACATGAAAAACGTAGTAGGAAT 59.627 38.462 0.00 0.00 45.00 3.01
2394 9136 7.550196 GGGAACATGAAAAACGTAGTAGGAATA 59.450 37.037 0.00 0.00 45.00 1.75
2406 9148 8.325421 ACGTAGTAGGAATATAGAGACACATG 57.675 38.462 0.00 0.00 41.94 3.21
2432 9174 6.351749 GTGAAACAACTGTTGAAAAACACAC 58.648 36.000 26.00 18.33 38.44 3.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 14 0.392336 AATTGCGAGCTGCCCAAAAA 59.608 45.000 0.00 0.00 45.60 1.94
14 15 0.038343 GAATTGCGAGCTGCCCAAAA 60.038 50.000 0.00 0.00 45.60 2.44
15 16 1.177895 TGAATTGCGAGCTGCCCAAA 61.178 50.000 0.00 0.00 45.60 3.28
16 17 1.177895 TTGAATTGCGAGCTGCCCAA 61.178 50.000 0.00 0.00 45.60 4.12
17 18 1.588824 CTTGAATTGCGAGCTGCCCA 61.589 55.000 0.00 0.00 45.60 5.36
18 19 1.138247 CTTGAATTGCGAGCTGCCC 59.862 57.895 0.00 0.00 45.60 5.36
19 20 1.138247 CCTTGAATTGCGAGCTGCC 59.862 57.895 0.00 0.00 45.60 4.85
20 21 1.086696 TACCTTGAATTGCGAGCTGC 58.913 50.000 0.00 0.00 46.70 5.25
21 22 4.142622 TGAAATACCTTGAATTGCGAGCTG 60.143 41.667 0.00 0.00 0.00 4.24
22 23 4.009675 TGAAATACCTTGAATTGCGAGCT 58.990 39.130 0.00 0.00 0.00 4.09
23 24 4.355543 TGAAATACCTTGAATTGCGAGC 57.644 40.909 0.00 0.00 0.00 5.03
24 25 5.297776 AGGATGAAATACCTTGAATTGCGAG 59.702 40.000 0.00 0.00 31.95 5.03
25 26 5.066375 CAGGATGAAATACCTTGAATTGCGA 59.934 40.000 0.00 0.00 39.69 5.10
26 27 5.066375 TCAGGATGAAATACCTTGAATTGCG 59.934 40.000 0.00 0.00 45.97 4.85
27 28 6.455360 TCAGGATGAAATACCTTGAATTGC 57.545 37.500 0.00 0.00 45.97 3.56
42 43 6.462552 TGTGTGTGAAAATTTTCAGGATGA 57.537 33.333 29.34 13.80 46.80 2.92
43 44 8.084073 AGTATGTGTGTGAAAATTTTCAGGATG 58.916 33.333 29.34 0.00 46.80 3.51
44 45 8.181904 AGTATGTGTGTGAAAATTTTCAGGAT 57.818 30.769 29.34 18.90 46.80 3.24
45 46 7.581213 AGTATGTGTGTGAAAATTTTCAGGA 57.419 32.000 29.34 18.15 46.80 3.86
46 47 8.647143 AAAGTATGTGTGTGAAAATTTTCAGG 57.353 30.769 29.34 0.00 46.80 3.86
54 55 9.729023 CAAAGATGTAAAGTATGTGTGTGAAAA 57.271 29.630 0.00 0.00 0.00 2.29
55 56 7.860373 GCAAAGATGTAAAGTATGTGTGTGAAA 59.140 33.333 0.00 0.00 0.00 2.69
56 57 7.012799 TGCAAAGATGTAAAGTATGTGTGTGAA 59.987 33.333 0.00 0.00 0.00 3.18
57 58 6.484977 TGCAAAGATGTAAAGTATGTGTGTGA 59.515 34.615 0.00 0.00 0.00 3.58
58 59 6.667370 TGCAAAGATGTAAAGTATGTGTGTG 58.333 36.000 0.00 0.00 0.00 3.82
59 60 6.875948 TGCAAAGATGTAAAGTATGTGTGT 57.124 33.333 0.00 0.00 0.00 3.72
60 61 8.450180 TGTATGCAAAGATGTAAAGTATGTGTG 58.550 33.333 0.00 0.00 0.00 3.82
61 62 8.560355 TGTATGCAAAGATGTAAAGTATGTGT 57.440 30.769 0.00 0.00 0.00 3.72
62 63 9.442033 CATGTATGCAAAGATGTAAAGTATGTG 57.558 33.333 0.00 0.00 0.00 3.21
63 64 9.177608 ACATGTATGCAAAGATGTAAAGTATGT 57.822 29.630 0.00 0.00 32.06 2.29
64 65 9.442033 CACATGTATGCAAAGATGTAAAGTATG 57.558 33.333 0.00 0.00 32.06 2.39
65 66 9.177608 ACACATGTATGCAAAGATGTAAAGTAT 57.822 29.630 0.00 0.00 32.06 2.12
66 67 8.560355 ACACATGTATGCAAAGATGTAAAGTA 57.440 30.769 0.00 0.00 32.06 2.24
67 68 7.452880 ACACATGTATGCAAAGATGTAAAGT 57.547 32.000 0.00 1.15 32.06 2.66
70 71 9.786105 CAAATACACATGTATGCAAAGATGTAA 57.214 29.630 0.00 1.61 40.78 2.41
71 72 8.955388 ACAAATACACATGTATGCAAAGATGTA 58.045 29.630 0.00 4.93 40.78 2.29
72 73 7.829725 ACAAATACACATGTATGCAAAGATGT 58.170 30.769 0.00 0.00 40.78 3.06
73 74 8.692110 AACAAATACACATGTATGCAAAGATG 57.308 30.769 0.00 0.00 40.78 2.90
74 75 9.357652 GAAACAAATACACATGTATGCAAAGAT 57.642 29.630 0.00 0.00 40.78 2.40
75 76 8.355913 TGAAACAAATACACATGTATGCAAAGA 58.644 29.630 0.00 0.00 40.78 2.52
76 77 8.518151 TGAAACAAATACACATGTATGCAAAG 57.482 30.769 0.00 0.00 40.78 2.77
77 78 8.355913 TCTGAAACAAATACACATGTATGCAAA 58.644 29.630 0.00 0.00 40.78 3.68
78 79 7.880105 TCTGAAACAAATACACATGTATGCAA 58.120 30.769 0.00 0.00 40.78 4.08
79 80 7.446001 TCTGAAACAAATACACATGTATGCA 57.554 32.000 0.00 0.00 40.78 3.96
80 81 8.915871 ATTCTGAAACAAATACACATGTATGC 57.084 30.769 0.00 0.00 40.78 3.14
140 141 6.043706 TCCATGGAGCCCTTTATTTTGAAAAA 59.956 34.615 11.44 0.00 0.00 1.94
141 142 5.545723 TCCATGGAGCCCTTTATTTTGAAAA 59.454 36.000 11.44 0.00 0.00 2.29
142 143 5.090139 TCCATGGAGCCCTTTATTTTGAAA 58.910 37.500 11.44 0.00 0.00 2.69
143 144 4.682563 TCCATGGAGCCCTTTATTTTGAA 58.317 39.130 11.44 0.00 0.00 2.69
144 145 4.280819 CTCCATGGAGCCCTTTATTTTGA 58.719 43.478 28.45 0.00 35.31 2.69
145 146 4.660789 CTCCATGGAGCCCTTTATTTTG 57.339 45.455 28.45 1.40 35.31 2.44
164 165 1.601430 GGCATTTTGGAGATCGAGCTC 59.399 52.381 22.26 22.26 0.00 4.09
165 166 1.673168 GGCATTTTGGAGATCGAGCT 58.327 50.000 1.00 1.00 0.00 4.09
166 167 0.665298 GGGCATTTTGGAGATCGAGC 59.335 55.000 0.00 0.00 0.00 5.03
167 168 2.338577 AGGGCATTTTGGAGATCGAG 57.661 50.000 0.00 0.00 0.00 4.04
168 169 4.389374 GAATAGGGCATTTTGGAGATCGA 58.611 43.478 0.00 0.00 0.00 3.59
169 170 3.187227 CGAATAGGGCATTTTGGAGATCG 59.813 47.826 0.00 0.00 0.00 3.69
170 171 4.137543 ACGAATAGGGCATTTTGGAGATC 58.862 43.478 0.00 0.00 0.00 2.75
171 172 4.170468 ACGAATAGGGCATTTTGGAGAT 57.830 40.909 0.00 0.00 0.00 2.75
172 173 3.644966 ACGAATAGGGCATTTTGGAGA 57.355 42.857 0.00 0.00 0.00 3.71
173 174 3.564225 GGTACGAATAGGGCATTTTGGAG 59.436 47.826 0.00 0.00 0.00 3.86
174 175 3.201266 AGGTACGAATAGGGCATTTTGGA 59.799 43.478 0.00 0.00 0.00 3.53
175 176 3.551846 AGGTACGAATAGGGCATTTTGG 58.448 45.455 0.00 0.00 0.00 3.28
176 177 4.398044 ACAAGGTACGAATAGGGCATTTTG 59.602 41.667 0.00 0.00 0.00 2.44
177 178 4.595986 ACAAGGTACGAATAGGGCATTTT 58.404 39.130 0.00 0.00 0.00 1.82
178 179 4.196971 GACAAGGTACGAATAGGGCATTT 58.803 43.478 0.00 0.00 0.00 2.32
179 180 3.199071 TGACAAGGTACGAATAGGGCATT 59.801 43.478 0.00 0.00 0.00 3.56
180 181 2.769663 TGACAAGGTACGAATAGGGCAT 59.230 45.455 0.00 0.00 0.00 4.40
181 182 2.167693 CTGACAAGGTACGAATAGGGCA 59.832 50.000 0.00 0.00 0.00 5.36
182 183 2.167900 ACTGACAAGGTACGAATAGGGC 59.832 50.000 0.00 0.00 0.00 5.19
183 184 5.587388 TTACTGACAAGGTACGAATAGGG 57.413 43.478 0.00 0.00 0.00 3.53
184 185 6.570692 ACATTACTGACAAGGTACGAATAGG 58.429 40.000 0.00 0.00 0.00 2.57
185 186 8.475331 AAACATTACTGACAAGGTACGAATAG 57.525 34.615 0.00 0.00 0.00 1.73
186 187 8.836268 AAAACATTACTGACAAGGTACGAATA 57.164 30.769 0.00 0.00 0.00 1.75
187 188 7.739498 AAAACATTACTGACAAGGTACGAAT 57.261 32.000 0.00 0.00 0.00 3.34
188 189 7.280428 TGAAAAACATTACTGACAAGGTACGAA 59.720 33.333 0.00 0.00 0.00 3.85
189 190 6.762187 TGAAAAACATTACTGACAAGGTACGA 59.238 34.615 0.00 0.00 0.00 3.43
190 191 6.849305 GTGAAAAACATTACTGACAAGGTACG 59.151 38.462 0.00 0.00 0.00 3.67
191 192 6.849305 CGTGAAAAACATTACTGACAAGGTAC 59.151 38.462 0.00 0.00 0.00 3.34
311 315 3.870723 TGATGTAGCGTGTGTTTTGTC 57.129 42.857 0.00 0.00 0.00 3.18
430 5474 3.102985 CGTGTGCGTCAAACCCAA 58.897 55.556 0.00 0.00 0.00 4.12
460 5504 3.100671 AGAACGCTGGTCCTAATCTCTT 58.899 45.455 0.00 0.00 0.00 2.85
465 5509 2.700897 AGCATAGAACGCTGGTCCTAAT 59.299 45.455 0.00 0.00 38.60 1.73
480 5524 8.687242 TGAAACCTAGATATCGGATTAGCATAG 58.313 37.037 0.00 0.00 0.00 2.23
483 5528 6.911250 TGAAACCTAGATATCGGATTAGCA 57.089 37.500 0.00 0.00 0.00 3.49
496 5541 4.514066 GCTCCGAAACTTTTGAAACCTAGA 59.486 41.667 0.00 0.00 0.00 2.43
515 5560 6.282199 TCGGGAGATATATAAAAGTGCTCC 57.718 41.667 0.00 0.00 39.68 4.70
521 5566 8.608844 ACTTTTGCTCGGGAGATATATAAAAG 57.391 34.615 0.00 0.00 38.80 2.27
612 5658 0.249447 GGCCGGCAATTCCTTTATGC 60.249 55.000 30.85 0.98 39.33 3.14
618 5664 3.577334 TTTCCGGCCGGCAATTCCT 62.577 57.895 39.89 0.00 34.68 3.36
672 5722 6.304356 TCATTGTGCACTTCTAAGAAACAG 57.696 37.500 19.41 0.00 0.00 3.16
714 7387 3.624410 TCTCATGCATCGATCAAACTTGG 59.376 43.478 0.00 0.00 0.00 3.61
793 7475 6.128138 AGGTGTAGATGCTCTTACCTTTTT 57.872 37.500 12.08 0.00 38.74 1.94
834 7517 1.539827 GGTTTGGTCGGTGGAGAAATG 59.460 52.381 0.00 0.00 0.00 2.32
901 7585 3.895232 ATCTCTGCCGTCTTGTGTATT 57.105 42.857 0.00 0.00 0.00 1.89
902 7586 3.243569 GCTATCTCTGCCGTCTTGTGTAT 60.244 47.826 0.00 0.00 0.00 2.29
910 7594 1.538075 GGAGTAGCTATCTCTGCCGTC 59.462 57.143 17.34 3.05 33.06 4.79
925 7611 9.310449 GTCTTATATTATTGGACAGAGGGAGTA 57.690 37.037 0.00 0.00 0.00 2.59
939 7625 9.632638 AGCAACAATGGTCTGTCTTATATTATT 57.367 29.630 0.00 0.00 29.35 1.40
962 7648 5.767665 TCTTGTGAAGTTTATAGCCAAAGCA 59.232 36.000 0.00 0.00 43.56 3.91
1015 7701 1.005450 TGGTTTCTGCCTACCATTCCC 59.995 52.381 0.00 0.00 39.44 3.97
1024 7710 2.750350 CTCGGGTGGTTTCTGCCT 59.250 61.111 0.00 0.00 0.00 4.75
1278 7973 7.013655 AGAGAATTTCCGCTGTTATGCATAATT 59.986 33.333 21.52 9.82 0.00 1.40
1291 7986 1.630878 AGGACCAAGAGAATTTCCGCT 59.369 47.619 0.00 0.00 0.00 5.52
1330 8025 3.051081 ACAAGCTAAGAAGGAGCACTG 57.949 47.619 0.00 0.00 42.69 3.66
1367 8062 6.122964 GCCTTCCTAGGACAGTGATTAAAAT 58.877 40.000 12.22 0.00 45.05 1.82
1405 8100 3.157087 CCCAGTTCTTAGCCAACACATT 58.843 45.455 0.00 0.00 0.00 2.71
1458 8153 2.360423 ATCTACCAAGAATCCCGGAGGT 60.360 50.000 0.73 1.43 40.43 3.85
1509 8204 8.028938 GCCATCATAGCGGTTTTTATTTCATAT 58.971 33.333 0.00 0.00 0.00 1.78
1519 8214 2.427095 GGAAAGCCATCATAGCGGTTTT 59.573 45.455 0.00 0.00 38.28 2.43
1616 8314 0.810031 CTACCATAGTGCCGTGCCAC 60.810 60.000 0.00 0.00 35.98 5.01
1648 8346 4.012374 GCATGTCCTCCTTCATTCTTCAA 58.988 43.478 0.00 0.00 0.00 2.69
1659 8357 1.583556 TGTACCATGCATGTCCTCCT 58.416 50.000 24.58 3.19 0.00 3.69
1679 8383 7.388776 GGTATGACTATGACAGGTACGTACATA 59.611 40.741 26.02 13.80 0.00 2.29
1691 8395 9.777008 TTGGTATATATGGGTATGACTATGACA 57.223 33.333 0.00 0.00 0.00 3.58
1712 8422 8.665906 CCAATATTAACTATCTTCCCCTTGGTA 58.334 37.037 0.00 0.00 0.00 3.25
1713 8423 7.526918 CCAATATTAACTATCTTCCCCTTGGT 58.473 38.462 0.00 0.00 0.00 3.67
1714 8424 6.434340 GCCAATATTAACTATCTTCCCCTTGG 59.566 42.308 0.00 0.00 33.17 3.61
1715 8425 7.234355 AGCCAATATTAACTATCTTCCCCTTG 58.766 38.462 0.00 0.00 0.00 3.61
1716 8426 7.408013 AGCCAATATTAACTATCTTCCCCTT 57.592 36.000 0.00 0.00 0.00 3.95
1717 8427 7.739904 AGTAGCCAATATTAACTATCTTCCCCT 59.260 37.037 0.00 0.00 0.00 4.79
1718 8428 7.919151 AGTAGCCAATATTAACTATCTTCCCC 58.081 38.462 0.00 0.00 0.00 4.81
1719 8429 8.594550 TGAGTAGCCAATATTAACTATCTTCCC 58.405 37.037 0.00 0.00 0.00 3.97
1727 8437 8.934697 TCTTGGTATGAGTAGCCAATATTAACT 58.065 33.333 0.00 0.00 40.91 2.24
1728 8438 9.209175 CTCTTGGTATGAGTAGCCAATATTAAC 57.791 37.037 0.00 0.00 40.91 2.01
1729 8439 8.934697 ACTCTTGGTATGAGTAGCCAATATTAA 58.065 33.333 0.00 0.00 42.28 1.40
1730 8440 8.492415 ACTCTTGGTATGAGTAGCCAATATTA 57.508 34.615 0.00 0.00 42.28 0.98
1731 8441 7.380423 ACTCTTGGTATGAGTAGCCAATATT 57.620 36.000 0.00 0.00 42.28 1.28
1757 8467 1.896220 ATCCGCAAGCAAGAAGAACA 58.104 45.000 0.00 0.00 0.00 3.18
1758 8468 2.096013 GGTATCCGCAAGCAAGAAGAAC 59.904 50.000 0.00 0.00 0.00 3.01
1768 8478 0.464373 AGTGGCATGGTATCCGCAAG 60.464 55.000 0.00 0.00 35.41 4.01
1910 8624 1.632046 AAAAGCCCGTATGCACGTCG 61.632 55.000 0.00 0.00 46.96 5.12
1950 8666 5.440685 GTTGGATTATTTATTCGTGCTCCG 58.559 41.667 0.00 0.00 38.13 4.63
1954 8670 6.044512 ACTCGTTGGATTATTTATTCGTGC 57.955 37.500 0.00 0.00 0.00 5.34
1987 8703 7.554118 CCGTGATGATATTATTATGGGAAGCTT 59.446 37.037 0.00 0.00 0.00 3.74
1988 8704 7.050377 CCGTGATGATATTATTATGGGAAGCT 58.950 38.462 3.28 0.00 0.00 3.74
1989 8705 6.823689 ACCGTGATGATATTATTATGGGAAGC 59.176 38.462 13.18 0.00 29.47 3.86
1990 8706 7.201644 GCACCGTGATGATATTATTATGGGAAG 60.202 40.741 13.18 5.82 29.47 3.46
2002 8718 1.957177 AGTCGAGCACCGTGATGATAT 59.043 47.619 1.65 0.00 39.75 1.63
2012 8728 0.807667 ATCATTCGCAGTCGAGCACC 60.808 55.000 0.00 0.00 46.34 5.01
2019 8735 0.734889 CCCCAACATCATTCGCAGTC 59.265 55.000 0.00 0.00 0.00 3.51
2021 8737 1.176527 AACCCCAACATCATTCGCAG 58.823 50.000 0.00 0.00 0.00 5.18
2024 8740 2.414029 CGTCAAACCCCAACATCATTCG 60.414 50.000 0.00 0.00 0.00 3.34
2026 8742 1.272212 GCGTCAAACCCCAACATCATT 59.728 47.619 0.00 0.00 0.00 2.57
2027 8743 0.887933 GCGTCAAACCCCAACATCAT 59.112 50.000 0.00 0.00 0.00 2.45
2031 8747 2.473760 CGTGCGTCAAACCCCAACA 61.474 57.895 0.00 0.00 0.00 3.33
2033 8749 3.587933 GCGTGCGTCAAACCCCAA 61.588 61.111 0.00 0.00 0.00 4.12
2034 8750 4.858680 TGCGTGCGTCAAACCCCA 62.859 61.111 0.00 0.00 0.00 4.96
2035 8751 4.322385 GTGCGTGCGTCAAACCCC 62.322 66.667 0.00 0.00 0.00 4.95
2036 8752 4.659874 CGTGCGTGCGTCAAACCC 62.660 66.667 0.00 0.00 0.00 4.11
2038 8754 2.419100 TAAGCGTGCGTGCGTCAAAC 62.419 55.000 3.11 0.00 40.67 2.93
2039 8755 1.763200 TTAAGCGTGCGTGCGTCAAA 61.763 50.000 3.11 0.00 40.67 2.69
2040 8756 2.238437 TTAAGCGTGCGTGCGTCAA 61.238 52.632 3.11 0.00 40.67 3.18
2041 8757 2.658918 TTAAGCGTGCGTGCGTCA 60.659 55.556 3.11 0.00 40.67 4.35
2042 8758 2.202008 GTTAAGCGTGCGTGCGTC 60.202 61.111 3.11 0.00 40.67 5.19
2043 8759 4.054455 CGTTAAGCGTGCGTGCGT 62.054 61.111 3.11 0.00 40.67 5.24
2044 8760 4.770102 CCGTTAAGCGTGCGTGCG 62.770 66.667 0.00 0.00 40.67 5.34
2045 8761 4.439472 CCCGTTAAGCGTGCGTGC 62.439 66.667 0.00 0.00 39.32 5.34
2049 8765 2.818274 CCCTCCCGTTAAGCGTGC 60.818 66.667 0.00 0.00 39.32 5.34
2055 8771 1.273986 GGCCTAACCCCTCCCGTTAA 61.274 60.000 0.00 0.00 0.00 2.01
2125 8841 7.862873 TGCGACTTTTGTGTGAGAGATATATAG 59.137 37.037 0.00 0.00 0.00 1.31
2127 8843 6.573434 TGCGACTTTTGTGTGAGAGATATAT 58.427 36.000 0.00 0.00 0.00 0.86
2128 8844 5.961272 TGCGACTTTTGTGTGAGAGATATA 58.039 37.500 0.00 0.00 0.00 0.86
2135 8851 3.060272 CAGTACTGCGACTTTTGTGTGAG 60.060 47.826 10.54 0.00 0.00 3.51
2136 8852 2.863740 CAGTACTGCGACTTTTGTGTGA 59.136 45.455 10.54 0.00 0.00 3.58
2139 8855 6.530181 TCATATACAGTACTGCGACTTTTGTG 59.470 38.462 22.90 6.97 0.00 3.33
2140 8856 6.627243 TCATATACAGTACTGCGACTTTTGT 58.373 36.000 22.90 3.35 0.00 2.83
2155 8871 9.425893 CGAGCACAAACTTAAAATCATATACAG 57.574 33.333 0.00 0.00 0.00 2.74
2156 8872 9.157104 TCGAGCACAAACTTAAAATCATATACA 57.843 29.630 0.00 0.00 0.00 2.29
2159 8879 9.507280 CATTCGAGCACAAACTTAAAATCATAT 57.493 29.630 0.00 0.00 0.00 1.78
2161 8881 7.592938 TCATTCGAGCACAAACTTAAAATCAT 58.407 30.769 0.00 0.00 0.00 2.45
2167 8887 6.170506 ACCTATCATTCGAGCACAAACTTAA 58.829 36.000 0.00 0.00 0.00 1.85
2171 8891 3.000322 CGACCTATCATTCGAGCACAAAC 60.000 47.826 0.00 0.00 37.43 2.93
2189 8909 3.180613 GAGCTAGCTTTACAAGTCGACC 58.819 50.000 20.42 0.00 0.00 4.79
2199 8919 4.408921 TCCTTTATGCCTGAGCTAGCTTTA 59.591 41.667 20.42 10.48 40.80 1.85
2202 8922 2.402564 TCCTTTATGCCTGAGCTAGCT 58.597 47.619 19.45 19.45 40.80 3.32
2203 8923 2.875317 GTTCCTTTATGCCTGAGCTAGC 59.125 50.000 6.62 6.62 40.80 3.42
2204 8924 4.125703 CAGTTCCTTTATGCCTGAGCTAG 58.874 47.826 0.00 0.00 40.80 3.42
2205 8925 3.682718 GCAGTTCCTTTATGCCTGAGCTA 60.683 47.826 0.00 0.00 40.80 3.32
2206 8926 2.943199 GCAGTTCCTTTATGCCTGAGCT 60.943 50.000 0.00 0.00 40.80 4.09
2207 8927 1.403323 GCAGTTCCTTTATGCCTGAGC 59.597 52.381 0.00 0.00 40.48 4.26
2213 8933 1.032114 AGCCGGCAGTTCCTTTATGC 61.032 55.000 31.54 0.00 39.25 3.14
2214 8934 1.463674 AAGCCGGCAGTTCCTTTATG 58.536 50.000 31.54 0.00 0.00 1.90
2215 8935 3.214328 CATAAGCCGGCAGTTCCTTTAT 58.786 45.455 31.54 18.32 0.00 1.40
2216 8936 2.639065 CATAAGCCGGCAGTTCCTTTA 58.361 47.619 31.54 16.74 0.00 1.85
2217 8937 1.463674 CATAAGCCGGCAGTTCCTTT 58.536 50.000 31.54 14.88 0.00 3.11
2218 8938 0.394352 CCATAAGCCGGCAGTTCCTT 60.394 55.000 31.54 15.69 0.00 3.36
2219 8939 1.224592 CCATAAGCCGGCAGTTCCT 59.775 57.895 31.54 2.66 0.00 3.36
2220 8940 0.679960 AACCATAAGCCGGCAGTTCC 60.680 55.000 31.54 0.00 0.00 3.62
2221 8941 0.451783 CAACCATAAGCCGGCAGTTC 59.548 55.000 31.54 0.00 0.00 3.01
2222 8942 0.965363 CCAACCATAAGCCGGCAGTT 60.965 55.000 31.54 18.15 0.00 3.16
2223 8943 1.378514 CCAACCATAAGCCGGCAGT 60.379 57.895 31.54 18.99 0.00 4.40
2224 8944 0.679640 TTCCAACCATAAGCCGGCAG 60.680 55.000 31.54 15.15 0.00 4.85
2225 8945 0.251386 TTTCCAACCATAAGCCGGCA 60.251 50.000 31.54 9.64 0.00 5.69
2226 8946 0.455815 CTTTCCAACCATAAGCCGGC 59.544 55.000 21.89 21.89 0.00 6.13
2227 8947 0.455815 GCTTTCCAACCATAAGCCGG 59.544 55.000 0.00 0.00 38.61 6.13
2228 8948 1.135402 GTGCTTTCCAACCATAAGCCG 60.135 52.381 0.00 0.00 42.70 5.52
2229 8949 1.204704 GGTGCTTTCCAACCATAAGCC 59.795 52.381 0.00 0.00 42.70 4.35
2230 8950 2.171003 AGGTGCTTTCCAACCATAAGC 58.829 47.619 0.00 0.00 43.44 3.09
2231 8951 4.809673 GAAAGGTGCTTTCCAACCATAAG 58.190 43.478 0.00 0.00 42.61 1.73
2232 8952 4.864704 GAAAGGTGCTTTCCAACCATAA 57.135 40.909 0.00 0.00 42.61 1.90
2242 8962 1.308998 CGTCCACAGAAAGGTGCTTT 58.691 50.000 0.00 0.00 37.46 3.51
2243 8963 0.535102 CCGTCCACAGAAAGGTGCTT 60.535 55.000 0.00 0.00 37.46 3.91
2253 8973 1.151668 CTTTTCTCAGCCGTCCACAG 58.848 55.000 0.00 0.00 0.00 3.66
2263 8984 7.510549 TTAAACATGAACTCCCTTTTCTCAG 57.489 36.000 0.00 0.00 0.00 3.35
2299 9041 8.942338 AGATCAGTTATTAAACTTGACGCATA 57.058 30.769 0.00 0.00 43.60 3.14
2300 9042 7.849804 AGATCAGTTATTAAACTTGACGCAT 57.150 32.000 0.00 0.00 43.60 4.73
2301 9043 8.817100 CATAGATCAGTTATTAAACTTGACGCA 58.183 33.333 0.00 0.00 43.60 5.24
2302 9044 7.794349 GCATAGATCAGTTATTAAACTTGACGC 59.206 37.037 0.00 0.00 43.60 5.19
2305 9047 8.830580 GCTGCATAGATCAGTTATTAAACTTGA 58.169 33.333 0.00 0.00 43.60 3.02
2306 9048 8.834465 AGCTGCATAGATCAGTTATTAAACTTG 58.166 33.333 1.02 0.00 43.60 3.16
2307 9049 8.970859 AGCTGCATAGATCAGTTATTAAACTT 57.029 30.769 1.02 0.00 43.60 2.66
2326 9068 9.863845 TGCGTATACTTATATATTTAAGCTGCA 57.136 29.630 11.53 11.12 33.34 4.41
2342 9084 8.537223 CGTGTATTTAGAATTGTGCGTATACTT 58.463 33.333 0.56 0.00 0.00 2.24
2344 9086 7.278629 CCGTGTATTTAGAATTGTGCGTATAC 58.721 38.462 0.00 0.00 0.00 1.47
2345 9087 6.421501 CCCGTGTATTTAGAATTGTGCGTATA 59.578 38.462 0.00 0.00 0.00 1.47
2353 9095 7.315247 TCATGTTCCCGTGTATTTAGAATTG 57.685 36.000 0.00 0.00 0.00 2.32
2354 9096 7.931578 TTCATGTTCCCGTGTATTTAGAATT 57.068 32.000 0.00 0.00 0.00 2.17
2383 9125 9.069082 ACACATGTGTCTCTATATTCCTACTAC 57.931 37.037 25.76 0.00 40.24 2.73
2387 9129 8.533569 TTCACACATGTGTCTCTATATTCCTA 57.466 34.615 28.38 0.00 45.76 2.94
2389 9131 7.549134 TGTTTCACACATGTGTCTCTATATTCC 59.451 37.037 28.38 8.74 45.76 3.01
2390 9132 8.479313 TGTTTCACACATGTGTCTCTATATTC 57.521 34.615 28.38 11.94 45.76 1.75
2392 9134 8.097038 AGTTGTTTCACACATGTGTCTCTATAT 58.903 33.333 28.38 8.89 45.76 0.86
2393 9135 7.384932 CAGTTGTTTCACACATGTGTCTCTATA 59.615 37.037 28.38 10.85 45.76 1.31
2394 9136 6.203530 CAGTTGTTTCACACATGTGTCTCTAT 59.796 38.462 28.38 3.29 45.76 1.98
2401 9143 4.731720 TCAACAGTTGTTTCACACATGTG 58.268 39.130 24.25 24.25 40.74 3.21
2402 9144 5.384063 TTCAACAGTTGTTTCACACATGT 57.616 34.783 13.14 0.00 35.83 3.21
2406 9148 6.019479 TGTGTTTTTCAACAGTTGTTTCACAC 60.019 34.615 21.87 21.87 43.83 3.82
2416 9158 6.422400 ACAAAATTCGTGTGTTTTTCAACAGT 59.578 30.769 0.00 0.00 43.83 3.55
2417 9159 6.816377 ACAAAATTCGTGTGTTTTTCAACAG 58.184 32.000 0.00 0.00 43.83 3.16
2418 9160 6.771188 ACAAAATTCGTGTGTTTTTCAACA 57.229 29.167 0.00 0.00 40.82 3.33


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

AutoCloner maintained by Alex Coulton.