Multiple sequence alignment - TraesCS7A01G414900

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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 TraesCS7A01G414900 chr7A 100.000 3547 0 0 1 3547 606200004 606196458 0.000000e+00 6551.0
1 TraesCS7A01G414900 chr7A 91.026 234 16 3 388 620 606260856 606260627 9.560000e-81 311.0
2 TraesCS7A01G414900 chr7A 81.281 406 54 18 1204 1606 606260092 606259706 3.440000e-80 309.0
3 TraesCS7A01G414900 chr7A 85.409 281 31 9 861 1134 606260401 606260124 2.080000e-72 283.0
4 TraesCS7A01G414900 chr7A 90.556 180 17 0 3368 3547 141902743 141902564 4.580000e-59 239.0
5 TraesCS7A01G414900 chr7A 89.071 183 19 1 2805 2987 90607654 90607473 3.560000e-55 226.0
6 TraesCS7A01G414900 chr7A 82.609 115 17 2 676 790 606260541 606260430 8.100000e-17 99.0
7 TraesCS7A01G414900 chr7D 93.170 2328 102 23 507 2802 525719121 525716819 0.000000e+00 3365.0
8 TraesCS7A01G414900 chr7D 91.514 436 27 4 8 438 525719550 525719120 3.050000e-165 592.0
9 TraesCS7A01G414900 chr7D 82.512 406 52 15 1204 1606 525722153 525721764 4.390000e-89 339.0
10 TraesCS7A01G414900 chr7D 82.687 335 24 17 486 790 525722863 525722533 2.100000e-67 267.0
11 TraesCS7A01G414900 chr7D 84.962 266 31 8 861 1119 525722504 525722241 9.770000e-66 261.0
12 TraesCS7A01G414900 chr7D 90.556 180 17 0 3368 3547 235534076 235533897 4.580000e-59 239.0
13 TraesCS7A01G414900 chr7D 90.556 180 17 0 3368 3547 561524256 561524077 4.580000e-59 239.0
14 TraesCS7A01G414900 chr7D 90.556 180 17 0 3368 3547 621163263 621163442 4.580000e-59 239.0
15 TraesCS7A01G414900 chr7B 94.232 1283 54 10 9 1288 562378154 562376889 0.000000e+00 1941.0
16 TraesCS7A01G414900 chr7B 86.989 1468 114 26 1379 2802 562375651 562374217 0.000000e+00 1581.0
17 TraesCS7A01G414900 chr7B 83.794 543 82 6 2145 2684 562384437 562383898 8.780000e-141 510.0
18 TraesCS7A01G414900 chr7B 81.352 429 35 25 395 790 562386479 562386063 1.240000e-79 307.0
19 TraesCS7A01G414900 chr7B 87.097 248 26 5 1322 1567 562385512 562385269 3.490000e-70 276.0
20 TraesCS7A01G414900 chr7B 84.477 277 34 8 861 1130 562386034 562385760 7.550000e-67 265.0
21 TraesCS7A01G414900 chr7B 88.601 193 19 3 2803 2995 115220191 115220380 7.660000e-57 231.0
22 TraesCS7A01G414900 chr7B 89.610 77 6 2 1204 1280 562385654 562385580 2.910000e-16 97.1
23 TraesCS7A01G414900 chr3A 90.340 559 43 8 2803 3352 535079780 535080336 0.000000e+00 723.0
24 TraesCS7A01G414900 chr2B 89.485 466 33 4 2803 3260 790368717 790369174 3.070000e-160 575.0
25 TraesCS7A01G414900 chr2B 90.909 187 16 1 2803 2989 142947669 142947854 2.110000e-62 250.0
26 TraesCS7A01G414900 chr2B 90.155 193 16 3 2803 2995 293616613 293616802 7.600000e-62 248.0
27 TraesCS7A01G414900 chr4B 83.403 476 36 10 2804 3260 103548985 103548534 5.520000e-108 401.0
28 TraesCS7A01G414900 chr4B 90.556 180 17 0 3368 3547 551785654 551785833 4.580000e-59 239.0
29 TraesCS7A01G414900 chr5D 89.637 193 19 1 3355 3547 416790870 416791061 9.840000e-61 244.0
30 TraesCS7A01G414900 chr5A 91.111 180 16 0 3368 3547 364973543 364973364 9.840000e-61 244.0
31 TraesCS7A01G414900 chr4A 89.637 193 17 3 2803 2995 641033927 641033738 3.540000e-60 243.0
32 TraesCS7A01G414900 chr4A 90.556 180 17 0 3368 3547 78818739 78818560 4.580000e-59 239.0
33 TraesCS7A01G414900 chr4A 89.119 193 18 3 2803 2995 598673781 598673970 1.650000e-58 237.0
34 TraesCS7A01G414900 chr1A 90.556 180 17 0 3368 3547 88336087 88336266 4.580000e-59 239.0
35 TraesCS7A01G414900 chr2A 88.083 193 20 3 2803 2995 675966122 675966311 3.560000e-55 226.0
36 TraesCS7A01G414900 chr6B 97.436 39 1 0 1285 1323 638498584 638498546 2.290000e-07 67.6
37 TraesCS7A01G414900 chr6A 94.737 38 2 0 3 40 181907981 181907944 3.820000e-05 60.2
38 TraesCS7A01G414900 chr5B 96.970 33 1 0 8 40 370472020 370472052 4.950000e-04 56.5


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 TraesCS7A01G414900 chr7A 606196458 606200004 3546 True 6551.00 6551 100.00000 1 3547 1 chr7A.!!$R3 3546
1 TraesCS7A01G414900 chr7A 606259706 606260856 1150 True 250.50 311 85.08125 388 1606 4 chr7A.!!$R4 1218
2 TraesCS7A01G414900 chr7D 525716819 525722863 6044 True 964.80 3365 86.96900 8 2802 5 chr7D.!!$R3 2794
3 TraesCS7A01G414900 chr7B 562374217 562378154 3937 True 1761.00 1941 90.61050 9 2802 2 chr7B.!!$R1 2793
4 TraesCS7A01G414900 chr7B 562383898 562386479 2581 True 291.02 510 85.26600 395 2684 5 chr7B.!!$R2 2289
5 TraesCS7A01G414900 chr3A 535079780 535080336 556 False 723.00 723 90.34000 2803 3352 1 chr3A.!!$F1 549

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
744 4095 0.743345 GAAACGAGGATGTTCCCCCG 60.743 60.0 0.0 4.93 37.19 5.73 F
2356 7410 0.464554 GTAATGGGAGACTGGCTGGC 60.465 60.0 0.0 0.00 0.00 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2437 7491 0.390735 AAAACGGATAGACGGCGCTT 60.391 50.0 6.9 0.0 38.39 4.68 R
3488 8551 0.036732 TTTCAGGAGCAGCCGATGTT 59.963 50.0 0.0 0.0 43.43 2.71 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
41 3348 9.419297 CTTCATCAATCTCAAAATGATGTGTTT 57.581 29.630 12.98 0.00 46.61 2.83
42 3349 9.767228 TTCATCAATCTCAAAATGATGTGTTTT 57.233 25.926 12.98 0.00 46.61 2.43
47 3354 8.912658 CAATCTCAAAATGATGTGTTTTCTCAG 58.087 33.333 0.00 0.00 0.00 3.35
67 3374 4.461431 TCAGTCACTCGGAGTTGCTTATAA 59.539 41.667 8.18 0.00 0.00 0.98
79 3386 7.542477 CGGAGTTGCTTATAAGTATAGGATGTG 59.458 40.741 13.91 0.00 0.00 3.21
88 3395 1.931172 GTATAGGATGTGCGTGCGTTT 59.069 47.619 0.00 0.00 0.00 3.60
114 3422 4.021894 AGGGATGAGTTATGTATGAGCGTC 60.022 45.833 0.00 0.00 0.00 5.19
117 3425 3.706698 TGAGTTATGTATGAGCGTCTGC 58.293 45.455 0.00 0.00 43.24 4.26
174 3486 5.872617 GGCACACAAATGTACTCATGTACTA 59.127 40.000 7.67 0.00 46.70 1.82
175 3487 6.370442 GGCACACAAATGTACTCATGTACTAA 59.630 38.462 7.67 0.00 46.70 2.24
176 3488 7.094975 GGCACACAAATGTACTCATGTACTAAA 60.095 37.037 7.67 0.00 46.70 1.85
212 3524 1.167851 CACAAATGGGAGTGCGACAT 58.832 50.000 0.00 0.00 0.00 3.06
621 3937 6.884832 TCTACCCAACTAATCAACAGGTATG 58.115 40.000 0.00 0.00 0.00 2.39
651 3975 9.261180 ACTCATAATCGATCGTGTTAATCAAAT 57.739 29.630 15.94 0.00 0.00 2.32
744 4095 0.743345 GAAACGAGGATGTTCCCCCG 60.743 60.000 0.00 4.93 37.19 5.73
790 4141 3.131223 CACCACTCGATACTGAATCTGGT 59.869 47.826 0.00 0.00 39.87 4.00
855 4209 1.717032 TTGCCGGGAGACTAGCATAT 58.283 50.000 2.18 0.00 37.97 1.78
856 4210 2.597578 TGCCGGGAGACTAGCATATA 57.402 50.000 2.18 0.00 34.23 0.86
857 4211 2.168496 TGCCGGGAGACTAGCATATAC 58.832 52.381 2.18 0.00 34.23 1.47
858 4212 2.225041 TGCCGGGAGACTAGCATATACT 60.225 50.000 2.18 0.00 34.23 2.12
859 4213 2.424246 GCCGGGAGACTAGCATATACTC 59.576 54.545 2.18 0.00 0.00 2.59
969 4335 2.404995 GCACCAGACAGCAGCATCC 61.405 63.158 0.00 0.00 0.00 3.51
1209 4623 3.624861 ACATTGCTTCCTCGATCATTGTC 59.375 43.478 0.00 0.00 0.00 3.18
1264 4678 3.799755 CGCACCCGTTTAGCTGGC 61.800 66.667 0.00 0.00 0.00 4.85
1277 4691 2.731571 GCTGGCCTATGGACGGTGA 61.732 63.158 3.32 0.00 39.83 4.02
1294 4757 5.703310 ACGGTGAGTCTATAATACTCCCTT 58.297 41.667 10.79 4.92 42.24 3.95
1296 4759 5.106634 CGGTGAGTCTATAATACTCCCTTCG 60.107 48.000 10.79 6.96 42.24 3.79
1354 4819 1.565288 TGGGATCCACAAGATGCATGA 59.435 47.619 15.23 0.00 44.78 3.07
1403 6038 4.336532 ACACGTGTTGTTGTTCTTCTTC 57.663 40.909 17.22 0.00 33.09 2.87
1404 6039 4.000988 ACACGTGTTGTTGTTCTTCTTCT 58.999 39.130 17.22 0.00 33.09 2.85
1405 6040 4.454504 ACACGTGTTGTTGTTCTTCTTCTT 59.545 37.500 17.22 0.00 33.09 2.52
1466 6101 4.738998 CCCCAATGCCCAGTGCGA 62.739 66.667 0.00 0.00 45.60 5.10
2010 7061 6.577103 TCATTGATGTGCACTGGTTTAAAAA 58.423 32.000 19.41 0.00 0.00 1.94
2136 7189 6.002062 AGCTGTACTTTTGCATGTTAAGTC 57.998 37.500 10.96 6.14 34.26 3.01
2173 7227 7.649306 GCTTTTTCAACATGGGTGATATGTATC 59.351 37.037 0.00 0.00 37.77 2.24
2196 7250 8.801715 ATCAAAACATGTCATGAAAACTGTAC 57.198 30.769 19.77 0.00 0.00 2.90
2254 7308 4.549599 CGCTTTGCAAGTTTCGTATTAGTG 59.450 41.667 0.00 0.00 0.00 2.74
2317 7371 4.439057 TGCATCGTTGGAACCTAACTATC 58.561 43.478 0.00 0.00 0.00 2.08
2356 7410 0.464554 GTAATGGGAGACTGGCTGGC 60.465 60.000 0.00 0.00 0.00 4.85
2421 7475 4.637387 TTCCCCAAGTCGTTATTTACCA 57.363 40.909 0.00 0.00 0.00 3.25
2436 7490 1.335132 TACCAGAGGGATGGCGAACC 61.335 60.000 0.00 0.00 44.80 3.62
2437 7491 3.993837 TACCAGAGGGATGGCGAACCA 62.994 57.143 0.00 0.00 44.80 3.67
2530 7585 0.107017 CTTCCCAGGGTGATGCGATT 60.107 55.000 5.01 0.00 0.00 3.34
2578 7633 3.565764 ATCTTCGATCAGAATGGCCAA 57.434 42.857 10.96 0.00 38.34 4.52
2618 7673 4.673968 AGACTCACCCACTGTCATTACTA 58.326 43.478 0.00 0.00 33.56 1.82
2651 7706 2.432628 GAGCCACTCCCGTTGTCG 60.433 66.667 0.00 0.00 0.00 4.35
2822 7877 7.664731 TGTTCCAATTCCTTATTTAACACCGTA 59.335 33.333 0.00 0.00 30.34 4.02
2860 7915 6.857964 GCCCTATTTGACATCGACAAATAATG 59.142 38.462 16.10 12.31 44.19 1.90
2867 7922 7.447374 TGACATCGACAAATAATGTTTTCCT 57.553 32.000 0.00 0.00 44.12 3.36
2883 7938 8.617290 ATGTTTTCCTTATCTAACAACGAGTT 57.383 30.769 0.00 0.00 44.27 3.01
2885 7940 9.545105 TGTTTTCCTTATCTAACAACGAGTTTA 57.455 29.630 3.60 0.00 41.64 2.01
2936 7991 6.744112 TGTCCATTTCAAACCTAAATGACAC 58.256 36.000 9.50 6.80 43.79 3.67
2937 7992 6.322456 TGTCCATTTCAAACCTAAATGACACA 59.678 34.615 9.50 8.75 43.79 3.72
2944 7999 9.658799 TTTCAAACCTAAATGACACATGAAAAA 57.341 25.926 0.00 0.00 32.99 1.94
2972 8027 6.463995 TTTTGCCCTCATATGGTATGTTTC 57.536 37.500 2.13 0.00 0.00 2.78
2974 8029 6.508030 TTGCCCTCATATGGTATGTTTCTA 57.492 37.500 2.13 0.00 0.00 2.10
2990 8045 2.126424 TATGCGCGCGTGTGTGTA 60.126 55.556 34.70 11.90 0.00 2.90
3083 8144 5.853282 ACCGTACTATGTATAAATCGTTCGC 59.147 40.000 2.26 0.00 0.00 4.70
3147 8208 0.387202 AGCCATCGATCCTGTTCTCG 59.613 55.000 0.00 0.00 36.25 4.04
3166 8227 2.431419 TCGCGTTATTGGTCCTTATGGA 59.569 45.455 5.77 0.00 40.69 3.41
3173 8234 4.510167 ATTGGTCCTTATGGAAGTCAGG 57.490 45.455 0.00 0.00 45.18 3.86
3176 8237 4.631234 TGGTCCTTATGGAAGTCAGGTAT 58.369 43.478 0.00 0.00 45.18 2.73
3180 8241 7.008941 GGTCCTTATGGAAGTCAGGTATACTA 58.991 42.308 2.25 0.00 45.18 1.82
3200 8261 5.454062 ACTATTGGGCCATATGCAAGTTAA 58.546 37.500 7.26 0.00 43.89 2.01
3213 8274 1.263217 CAAGTTAAGCACCACCACGAC 59.737 52.381 0.00 0.00 0.00 4.34
3224 8287 4.065281 CCACGACCTCCCGTCCAC 62.065 72.222 0.00 0.00 41.29 4.02
3227 8290 4.112341 CGACCTCCCGTCCACGAC 62.112 72.222 0.00 0.00 43.02 4.34
3279 8342 3.402681 AGTCCATGCCTCCACGGG 61.403 66.667 0.00 0.00 0.00 5.28
3294 8357 2.737376 GGGTCGACACGAACTGGC 60.737 66.667 18.91 0.00 43.71 4.85
3342 8405 2.798445 TAGCAAGGAGGAGCGGGACA 62.798 60.000 0.00 0.00 35.48 4.02
3353 8416 2.677524 CGGGACACGGGGTGACTA 60.678 66.667 2.29 0.00 39.42 2.59
3354 8417 2.976356 GGGACACGGGGTGACTAC 59.024 66.667 2.29 0.00 36.96 2.73
3355 8418 2.653087 GGGACACGGGGTGACTACC 61.653 68.421 2.29 0.00 46.76 3.18
3367 8430 4.608948 GGTGACTACCATTAGGAGGATG 57.391 50.000 0.00 0.00 46.71 3.51
3368 8431 3.325135 GGTGACTACCATTAGGAGGATGG 59.675 52.174 1.74 1.74 46.71 3.51
3369 8432 4.223953 GTGACTACCATTAGGAGGATGGA 58.776 47.826 9.92 0.00 45.59 3.41
3370 8433 4.282195 GTGACTACCATTAGGAGGATGGAG 59.718 50.000 9.92 5.82 45.59 3.86
3371 8434 3.835395 GACTACCATTAGGAGGATGGAGG 59.165 52.174 9.92 4.83 45.59 4.30
3372 8435 3.471306 ACTACCATTAGGAGGATGGAGGA 59.529 47.826 9.92 0.00 45.59 3.71
3373 8436 3.663298 ACCATTAGGAGGATGGAGGAT 57.337 47.619 9.92 0.00 45.59 3.24
3374 8437 3.254960 ACCATTAGGAGGATGGAGGATG 58.745 50.000 9.92 0.00 45.59 3.51
3375 8438 2.575279 CCATTAGGAGGATGGAGGATGG 59.425 54.545 0.00 0.00 45.59 3.51
3376 8439 1.734655 TTAGGAGGATGGAGGATGGC 58.265 55.000 0.00 0.00 0.00 4.40
3377 8440 0.870313 TAGGAGGATGGAGGATGGCT 59.130 55.000 0.00 0.00 0.00 4.75
3378 8441 0.473501 AGGAGGATGGAGGATGGCTC 60.474 60.000 0.00 0.00 0.00 4.70
3379 8442 0.765903 GGAGGATGGAGGATGGCTCA 60.766 60.000 0.00 0.00 0.00 4.26
3380 8443 1.135094 GAGGATGGAGGATGGCTCAA 58.865 55.000 0.00 0.00 0.00 3.02
3381 8444 0.842635 AGGATGGAGGATGGCTCAAC 59.157 55.000 0.00 0.00 0.00 3.18
3382 8445 0.842635 GGATGGAGGATGGCTCAACT 59.157 55.000 0.00 0.00 0.00 3.16
3383 8446 1.202746 GGATGGAGGATGGCTCAACTC 60.203 57.143 0.00 0.00 0.00 3.01
3384 8447 1.487976 GATGGAGGATGGCTCAACTCA 59.512 52.381 0.00 0.00 0.00 3.41
3385 8448 1.588239 TGGAGGATGGCTCAACTCAT 58.412 50.000 0.00 0.00 0.00 2.90
3386 8449 1.918262 TGGAGGATGGCTCAACTCATT 59.082 47.619 0.00 0.00 0.00 2.57
3387 8450 2.309755 TGGAGGATGGCTCAACTCATTT 59.690 45.455 0.00 0.00 0.00 2.32
3388 8451 3.245371 TGGAGGATGGCTCAACTCATTTT 60.245 43.478 0.00 0.00 0.00 1.82
3389 8452 3.766051 GGAGGATGGCTCAACTCATTTTT 59.234 43.478 0.00 0.00 0.00 1.94
3412 8475 2.486472 AGGTCATCCTTGCACTGAAG 57.514 50.000 0.00 0.00 42.12 3.02
3413 8476 1.701847 AGGTCATCCTTGCACTGAAGT 59.298 47.619 0.00 0.00 42.12 3.01
3414 8477 2.107204 AGGTCATCCTTGCACTGAAGTT 59.893 45.455 0.00 0.00 42.12 2.66
3415 8478 2.887152 GGTCATCCTTGCACTGAAGTTT 59.113 45.455 0.00 0.00 0.00 2.66
3416 8479 3.304928 GGTCATCCTTGCACTGAAGTTTG 60.305 47.826 0.00 0.00 0.00 2.93
3417 8480 3.565482 GTCATCCTTGCACTGAAGTTTGA 59.435 43.478 0.00 0.00 0.00 2.69
3418 8481 3.817084 TCATCCTTGCACTGAAGTTTGAG 59.183 43.478 0.00 0.00 0.00 3.02
3419 8482 3.281727 TCCTTGCACTGAAGTTTGAGT 57.718 42.857 0.00 0.00 0.00 3.41
3420 8483 2.945008 TCCTTGCACTGAAGTTTGAGTG 59.055 45.455 7.05 7.05 43.87 3.51
3425 8488 3.549299 CACTGAAGTTTGAGTGCATCC 57.451 47.619 0.00 0.00 35.73 3.51
3426 8489 3.144506 CACTGAAGTTTGAGTGCATCCT 58.855 45.455 0.00 0.00 35.73 3.24
3427 8490 3.188048 CACTGAAGTTTGAGTGCATCCTC 59.812 47.826 0.00 0.00 35.73 3.71
3428 8491 3.181451 ACTGAAGTTTGAGTGCATCCTCA 60.181 43.478 3.01 3.01 39.65 3.86
3429 8492 4.008330 CTGAAGTTTGAGTGCATCCTCAT 58.992 43.478 7.76 0.00 40.96 2.90
3430 8493 3.754850 TGAAGTTTGAGTGCATCCTCATG 59.245 43.478 7.76 0.00 40.96 3.07
3438 8501 3.664769 CATCCTCATGCCCCTGGA 58.335 61.111 0.00 0.00 0.00 3.86
3439 8502 1.150081 CATCCTCATGCCCCTGGAC 59.850 63.158 0.00 0.00 0.00 4.02
3440 8503 1.005289 ATCCTCATGCCCCTGGACT 59.995 57.895 0.00 0.00 0.00 3.85
3441 8504 0.625683 ATCCTCATGCCCCTGGACTT 60.626 55.000 0.00 0.00 0.00 3.01
3442 8505 1.225704 CCTCATGCCCCTGGACTTC 59.774 63.158 0.00 0.00 0.00 3.01
3443 8506 1.565390 CCTCATGCCCCTGGACTTCA 61.565 60.000 0.00 0.00 0.00 3.02
3444 8507 0.393537 CTCATGCCCCTGGACTTCAC 60.394 60.000 0.00 0.00 0.00 3.18
3445 8508 1.379044 CATGCCCCTGGACTTCACC 60.379 63.158 0.00 0.00 0.00 4.02
3446 8509 1.852157 ATGCCCCTGGACTTCACCA 60.852 57.895 0.00 0.00 38.33 4.17
3447 8510 1.434513 ATGCCCCTGGACTTCACCAA 61.435 55.000 0.00 0.00 39.59 3.67
3448 8511 1.303643 GCCCCTGGACTTCACCAAG 60.304 63.158 0.00 0.00 39.59 3.61
3449 8512 1.303643 CCCCTGGACTTCACCAAGC 60.304 63.158 0.00 0.00 39.59 4.01
3450 8513 1.455849 CCCTGGACTTCACCAAGCA 59.544 57.895 0.00 0.00 39.59 3.91
3451 8514 0.890996 CCCTGGACTTCACCAAGCAC 60.891 60.000 0.00 0.00 39.59 4.40
3452 8515 0.109342 CCTGGACTTCACCAAGCACT 59.891 55.000 0.00 0.00 39.59 4.40
3453 8516 1.477558 CCTGGACTTCACCAAGCACTT 60.478 52.381 0.00 0.00 39.59 3.16
3454 8517 2.301346 CTGGACTTCACCAAGCACTTT 58.699 47.619 0.00 0.00 39.59 2.66
3455 8518 2.023673 TGGACTTCACCAAGCACTTTG 58.976 47.619 0.00 0.00 36.96 2.77
3456 8519 2.024414 GGACTTCACCAAGCACTTTGT 58.976 47.619 0.00 0.00 34.87 2.83
3457 8520 2.427095 GGACTTCACCAAGCACTTTGTT 59.573 45.455 0.00 0.00 34.87 2.83
3458 8521 3.438360 GACTTCACCAAGCACTTTGTTG 58.562 45.455 0.00 0.00 34.87 3.33
3459 8522 2.825532 ACTTCACCAAGCACTTTGTTGT 59.174 40.909 0.00 0.00 34.87 3.32
3460 8523 2.937469 TCACCAAGCACTTTGTTGTG 57.063 45.000 0.00 0.00 40.62 3.33
3461 8524 1.476085 TCACCAAGCACTTTGTTGTGG 59.524 47.619 0.00 0.00 38.31 4.17
3463 8526 1.204467 ACCAAGCACTTTGTTGTGGTG 59.796 47.619 0.10 0.00 46.25 4.17
3466 8529 4.707988 CACTTTGTTGTGGTGCCG 57.292 55.556 0.00 0.00 34.56 5.69
3467 8530 1.065600 CACTTTGTTGTGGTGCCGG 59.934 57.895 0.00 0.00 34.56 6.13
3468 8531 2.027460 CTTTGTTGTGGTGCCGGC 59.973 61.111 22.73 22.73 0.00 6.13
3469 8532 3.822403 CTTTGTTGTGGTGCCGGCG 62.822 63.158 23.90 0.00 0.00 6.46
3478 8541 2.975799 GTGCCGGCGGAGTTCAAA 60.976 61.111 33.44 0.00 0.00 2.69
3479 8542 2.033448 TGCCGGCGGAGTTCAAAT 59.967 55.556 33.44 0.00 0.00 2.32
3480 8543 1.602323 TGCCGGCGGAGTTCAAATT 60.602 52.632 33.44 0.00 0.00 1.82
3481 8544 1.136774 GCCGGCGGAGTTCAAATTC 59.863 57.895 33.44 3.13 0.00 2.17
3482 8545 1.582610 GCCGGCGGAGTTCAAATTCA 61.583 55.000 33.44 0.00 0.00 2.57
3483 8546 0.447801 CCGGCGGAGTTCAAATTCAG 59.552 55.000 24.41 0.00 0.00 3.02
3484 8547 0.447801 CGGCGGAGTTCAAATTCAGG 59.552 55.000 0.00 0.00 0.00 3.86
3485 8548 1.821216 GGCGGAGTTCAAATTCAGGA 58.179 50.000 0.00 0.00 0.00 3.86
3486 8549 2.159382 GGCGGAGTTCAAATTCAGGAA 58.841 47.619 0.00 0.00 0.00 3.36
3487 8550 2.095212 GGCGGAGTTCAAATTCAGGAAC 60.095 50.000 8.68 8.68 42.82 3.62
3488 8551 2.552315 GCGGAGTTCAAATTCAGGAACA 59.448 45.455 15.61 0.00 44.46 3.18
3489 8552 3.004315 GCGGAGTTCAAATTCAGGAACAA 59.996 43.478 15.61 0.00 44.46 2.83
3490 8553 4.537015 CGGAGTTCAAATTCAGGAACAAC 58.463 43.478 15.61 10.66 44.46 3.32
3491 8554 4.036262 CGGAGTTCAAATTCAGGAACAACA 59.964 41.667 15.61 0.00 44.46 3.33
3492 8555 5.278463 CGGAGTTCAAATTCAGGAACAACAT 60.278 40.000 15.61 0.92 44.46 2.71
3493 8556 6.152379 GGAGTTCAAATTCAGGAACAACATC 58.848 40.000 15.61 7.62 44.46 3.06
3494 8557 5.762045 AGTTCAAATTCAGGAACAACATCG 58.238 37.500 15.61 0.00 44.46 3.84
3495 8558 4.764679 TCAAATTCAGGAACAACATCGG 57.235 40.909 0.00 0.00 0.00 4.18
3496 8559 3.057596 TCAAATTCAGGAACAACATCGGC 60.058 43.478 0.00 0.00 0.00 5.54
3497 8560 2.496899 ATTCAGGAACAACATCGGCT 57.503 45.000 0.00 0.00 0.00 5.52
3498 8561 1.522668 TTCAGGAACAACATCGGCTG 58.477 50.000 0.00 0.00 0.00 4.85
3499 8562 0.955428 TCAGGAACAACATCGGCTGC 60.955 55.000 0.00 0.00 0.00 5.25
3500 8563 0.957395 CAGGAACAACATCGGCTGCT 60.957 55.000 0.00 0.00 0.00 4.24
3501 8564 0.674895 AGGAACAACATCGGCTGCTC 60.675 55.000 0.00 0.00 0.00 4.26
3502 8565 1.648467 GGAACAACATCGGCTGCTCC 61.648 60.000 0.00 0.00 0.00 4.70
3503 8566 0.674895 GAACAACATCGGCTGCTCCT 60.675 55.000 0.00 0.00 0.00 3.69
3504 8567 0.957395 AACAACATCGGCTGCTCCTG 60.957 55.000 0.00 0.00 0.00 3.86
3505 8568 1.078918 CAACATCGGCTGCTCCTGA 60.079 57.895 0.00 0.00 0.00 3.86
3506 8569 0.674581 CAACATCGGCTGCTCCTGAA 60.675 55.000 0.00 0.00 0.00 3.02
3507 8570 0.036732 AACATCGGCTGCTCCTGAAA 59.963 50.000 0.00 0.00 0.00 2.69
3508 8571 0.392193 ACATCGGCTGCTCCTGAAAG 60.392 55.000 0.00 0.00 0.00 2.62
3509 8572 0.392193 CATCGGCTGCTCCTGAAAGT 60.392 55.000 0.00 0.00 0.00 2.66
3510 8573 0.326264 ATCGGCTGCTCCTGAAAGTT 59.674 50.000 0.00 0.00 0.00 2.66
3511 8574 0.603707 TCGGCTGCTCCTGAAAGTTG 60.604 55.000 0.00 0.00 0.00 3.16
3512 8575 1.580845 CGGCTGCTCCTGAAAGTTGG 61.581 60.000 0.00 0.00 0.00 3.77
3513 8576 1.583477 GCTGCTCCTGAAAGTTGGC 59.417 57.895 0.00 0.00 0.00 4.52
3514 8577 1.871772 CTGCTCCTGAAAGTTGGCG 59.128 57.895 0.00 0.00 0.00 5.69
3515 8578 1.580845 CTGCTCCTGAAAGTTGGCGG 61.581 60.000 0.00 0.00 0.00 6.13
3516 8579 1.600916 GCTCCTGAAAGTTGGCGGT 60.601 57.895 0.00 0.00 0.00 5.68
3517 8580 1.856265 GCTCCTGAAAGTTGGCGGTG 61.856 60.000 0.00 0.00 0.00 4.94
3518 8581 0.250295 CTCCTGAAAGTTGGCGGTGA 60.250 55.000 0.00 0.00 0.00 4.02
3519 8582 0.181587 TCCTGAAAGTTGGCGGTGAA 59.818 50.000 0.00 0.00 0.00 3.18
3520 8583 0.593128 CCTGAAAGTTGGCGGTGAAG 59.407 55.000 0.00 0.00 0.00 3.02
3521 8584 0.040067 CTGAAAGTTGGCGGTGAAGC 60.040 55.000 0.00 0.00 0.00 3.86
3522 8585 0.465460 TGAAAGTTGGCGGTGAAGCT 60.465 50.000 0.00 0.00 37.29 3.74
3523 8586 0.040067 GAAAGTTGGCGGTGAAGCTG 60.040 55.000 0.00 0.00 37.29 4.24
3524 8587 0.465460 AAAGTTGGCGGTGAAGCTGA 60.465 50.000 0.00 0.00 37.29 4.26
3525 8588 0.250901 AAGTTGGCGGTGAAGCTGAT 60.251 50.000 0.00 0.00 37.29 2.90
3526 8589 0.957395 AGTTGGCGGTGAAGCTGATG 60.957 55.000 0.00 0.00 37.29 3.07
3527 8590 0.955428 GTTGGCGGTGAAGCTGATGA 60.955 55.000 0.00 0.00 37.29 2.92
3528 8591 0.250684 TTGGCGGTGAAGCTGATGAA 60.251 50.000 0.00 0.00 37.29 2.57
3529 8592 0.955428 TGGCGGTGAAGCTGATGAAC 60.955 55.000 0.00 0.00 37.29 3.18
3530 8593 1.421485 GCGGTGAAGCTGATGAACG 59.579 57.895 0.00 0.00 0.00 3.95
3531 8594 1.970917 GCGGTGAAGCTGATGAACGG 61.971 60.000 0.00 0.00 0.00 4.44
3538 8601 3.895025 CTGATGAACGGCAGGGTG 58.105 61.111 0.00 0.00 0.00 4.61
3539 8602 1.296392 CTGATGAACGGCAGGGTGA 59.704 57.895 0.00 0.00 0.00 4.02
3540 8603 1.003839 TGATGAACGGCAGGGTGAC 60.004 57.895 0.00 0.00 0.00 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.467844 TGAAGTTGCCACACATGCCT 60.468 50.000 0.00 0.00 0.00 4.75
1 2 0.604578 ATGAAGTTGCCACACATGCC 59.395 50.000 0.00 0.00 0.00 4.40
3 4 3.646611 TTGATGAAGTTGCCACACATG 57.353 42.857 5.62 0.00 0.00 3.21
4 5 4.084287 AGATTGATGAAGTTGCCACACAT 58.916 39.130 1.51 1.51 0.00 3.21
6 7 3.503363 TGAGATTGATGAAGTTGCCACAC 59.497 43.478 0.00 0.00 0.00 3.82
7 8 3.753815 TGAGATTGATGAAGTTGCCACA 58.246 40.909 0.00 0.00 0.00 4.17
41 3348 1.000163 GCAACTCCGAGTGACTGAGAA 60.000 52.381 0.65 0.00 34.65 2.87
42 3349 0.598562 GCAACTCCGAGTGACTGAGA 59.401 55.000 0.65 0.00 34.65 3.27
47 3354 4.745649 ACTTATAAGCAACTCCGAGTGAC 58.254 43.478 12.54 0.00 0.00 3.67
67 3374 0.744874 ACGCACGCACATCCTATACT 59.255 50.000 0.00 0.00 0.00 2.12
79 3386 1.792949 CTCATCCCTATAAACGCACGC 59.207 52.381 0.00 0.00 0.00 5.34
88 3395 6.890268 ACGCTCATACATAACTCATCCCTATA 59.110 38.462 0.00 0.00 0.00 1.31
448 3762 2.492019 TAGTCGATCGGCAAGACATG 57.508 50.000 23.45 0.00 37.36 3.21
449 3763 2.427453 ACTTAGTCGATCGGCAAGACAT 59.573 45.455 27.04 9.80 37.36 3.06
667 4014 7.437862 ACAATGAACGTGCAAATTATCAAACTT 59.562 29.630 0.00 0.00 0.00 2.66
744 4095 0.108804 TTGACCGAGCGACCATCTTC 60.109 55.000 0.00 0.00 0.00 2.87
915 4280 1.665679 ACGACACAGCACAAAGTCAAG 59.334 47.619 0.00 0.00 0.00 3.02
969 4335 1.683943 TCCCGTAGTAACCCTGATCG 58.316 55.000 0.00 0.00 0.00 3.69
1264 4678 6.885376 AGTATTATAGACTCACCGTCCATAGG 59.115 42.308 0.00 0.00 43.91 2.57
1277 4691 8.536340 AAGAAACGAAGGGAGTATTATAGACT 57.464 34.615 0.00 0.00 0.00 3.24
1311 4774 6.488006 CCAAAGCAGCCTACAATCTTATATGT 59.512 38.462 0.00 0.00 0.00 2.29
1319 4782 2.128771 TCCCAAAGCAGCCTACAATC 57.871 50.000 0.00 0.00 0.00 2.67
1320 4783 2.659428 GATCCCAAAGCAGCCTACAAT 58.341 47.619 0.00 0.00 0.00 2.71
1329 4792 2.449464 CATCTTGTGGATCCCAAAGCA 58.551 47.619 9.90 4.15 34.18 3.91
1404 6039 9.166173 CCATCATTCTACATCAACAGTAAAGAA 57.834 33.333 0.00 0.00 0.00 2.52
1405 6040 7.770433 CCCATCATTCTACATCAACAGTAAAGA 59.230 37.037 0.00 0.00 0.00 2.52
1466 6101 2.438434 CCTCTGCCGGCCGAAAAT 60.438 61.111 30.73 0.00 0.00 1.82
1593 6243 0.734889 CTCGGGATGAAACCACATGC 59.265 55.000 0.00 0.00 37.77 4.06
2076 7128 3.769300 TCATACATATCCCAGATGTCGGG 59.231 47.826 0.00 0.00 46.03 5.14
2136 7189 6.129115 CCATGTTGAAAAAGCTAATTGACACG 60.129 38.462 0.00 0.00 0.00 4.49
2173 7227 8.633075 AAGTACAGTTTTCATGACATGTTTTG 57.367 30.769 14.98 9.93 0.00 2.44
2196 7250 4.118410 TGGCACAACTTAACATGCAAAAG 58.882 39.130 0.00 0.00 39.92 2.27
2254 7308 6.203647 ACGTCTGTTAACATTTAGCAAAACC 58.796 36.000 9.13 0.00 0.00 3.27
2317 7371 1.808891 CGCCGTCCTGTAATTTAGGGG 60.809 57.143 8.18 4.69 35.96 4.79
2356 7410 2.035449 TCCTGATTGAGCCCGTAATACG 59.965 50.000 5.74 5.74 42.11 3.06
2436 7490 1.082117 AAACGGATAGACGGCGCTTG 61.082 55.000 6.90 2.40 38.39 4.01
2437 7491 0.390735 AAAACGGATAGACGGCGCTT 60.391 50.000 6.90 0.00 38.39 4.68
2540 7595 6.426025 TCGAAGATTTGGATATTGCTCATGAG 59.574 38.462 18.84 18.84 0.00 2.90
2618 7673 4.890581 AGTGGCTCAGTAGATATTCGAGTT 59.109 41.667 0.00 0.00 0.00 3.01
2633 7688 2.741092 GACAACGGGAGTGGCTCA 59.259 61.111 0.00 0.00 46.69 4.26
2651 7706 2.616510 CCCCATAGAAGAATCGCCCATC 60.617 54.545 0.00 0.00 0.00 3.51
2908 7963 8.764287 GTCATTTAGGTTTGAAATGGACAAAAG 58.236 33.333 7.93 0.00 42.21 2.27
2914 7969 6.968263 TGTGTCATTTAGGTTTGAAATGGA 57.032 33.333 7.93 0.00 42.21 3.41
2944 7999 8.725606 ACATACCATATGAGGGCAAAATAATT 57.274 30.769 3.65 0.00 0.00 1.40
2946 8001 8.546083 AAACATACCATATGAGGGCAAAATAA 57.454 30.769 3.65 0.00 0.00 1.40
2947 8002 8.004215 AGAAACATACCATATGAGGGCAAAATA 58.996 33.333 3.65 0.00 0.00 1.40
2954 8009 5.582269 CGCATAGAAACATACCATATGAGGG 59.418 44.000 3.65 0.00 0.00 4.30
2961 8016 1.531149 GCGCGCATAGAAACATACCAT 59.469 47.619 29.10 0.00 0.00 3.55
2972 8027 1.679187 TTACACACACGCGCGCATAG 61.679 55.000 32.58 21.54 0.00 2.23
2974 8029 2.387445 ATTACACACACGCGCGCAT 61.387 52.632 32.58 14.98 0.00 4.73
2990 8045 1.078848 GAGCTCCGCCTGTGACATT 60.079 57.895 0.87 0.00 0.00 2.71
3033 8093 5.975693 AAAATCGCTGGAAATCAAGGTAA 57.024 34.783 0.00 0.00 0.00 2.85
3091 8152 3.822167 ACGTGGTTTTATTTTCGGTGGAT 59.178 39.130 0.00 0.00 0.00 3.41
3147 8208 4.196971 ACTTCCATAAGGACCAATAACGC 58.803 43.478 0.00 0.00 45.73 4.84
3166 8227 4.303794 TGGCCCAATAGTATACCTGACTT 58.696 43.478 0.00 0.00 0.00 3.01
3173 8234 6.180472 ACTTGCATATGGCCCAATAGTATAC 58.820 40.000 0.00 0.00 43.89 1.47
3176 8237 4.722526 ACTTGCATATGGCCCAATAGTA 57.277 40.909 0.00 0.00 43.89 1.82
3180 8241 3.070015 GCTTAACTTGCATATGGCCCAAT 59.930 43.478 0.00 0.00 43.89 3.16
3200 8261 3.626924 GGAGGTCGTGGTGGTGCT 61.627 66.667 0.00 0.00 0.00 4.40
3224 8287 2.351322 CGTCCAGATCGAGCGTCG 60.351 66.667 0.00 1.67 42.10 5.12
3227 8290 1.586564 GGAACGTCCAGATCGAGCG 60.587 63.158 0.00 0.00 36.28 5.03
3279 8342 2.050714 TCGCCAGTTCGTGTCGAC 60.051 61.111 9.11 9.11 34.89 4.20
3294 8357 3.456431 CTGCTAGGGCTCGTCGTCG 62.456 68.421 0.00 0.00 39.59 5.12
3317 8380 1.439644 CTCCTCCTTGCTAGCCGTC 59.560 63.158 13.29 0.00 0.00 4.79
3321 8384 2.107953 CCGCTCCTCCTTGCTAGC 59.892 66.667 8.10 8.10 0.00 3.42
3342 8405 1.007479 TCCTAATGGTAGTCACCCCGT 59.993 52.381 0.00 0.00 45.11 5.28
3348 8411 4.483950 CTCCATCCTCCTAATGGTAGTCA 58.516 47.826 2.32 0.00 43.52 3.41
3349 8412 3.835395 CCTCCATCCTCCTAATGGTAGTC 59.165 52.174 2.32 0.00 43.52 2.59
3350 8413 3.471306 TCCTCCATCCTCCTAATGGTAGT 59.529 47.826 2.32 0.00 43.52 2.73
3351 8414 4.133526 TCCTCCATCCTCCTAATGGTAG 57.866 50.000 2.32 0.05 43.52 3.18
3352 8415 4.429505 CATCCTCCATCCTCCTAATGGTA 58.570 47.826 2.32 0.00 43.52 3.25
3353 8416 3.254960 CATCCTCCATCCTCCTAATGGT 58.745 50.000 2.32 0.00 43.52 3.55
3354 8417 2.575279 CCATCCTCCATCCTCCTAATGG 59.425 54.545 0.00 0.00 44.27 3.16
3355 8418 2.026449 GCCATCCTCCATCCTCCTAATG 60.026 54.545 0.00 0.00 0.00 1.90
3356 8419 2.157880 AGCCATCCTCCATCCTCCTAAT 60.158 50.000 0.00 0.00 0.00 1.73
3357 8420 1.224120 AGCCATCCTCCATCCTCCTAA 59.776 52.381 0.00 0.00 0.00 2.69
3358 8421 0.870313 AGCCATCCTCCATCCTCCTA 59.130 55.000 0.00 0.00 0.00 2.94
3359 8422 0.473501 GAGCCATCCTCCATCCTCCT 60.474 60.000 0.00 0.00 34.35 3.69
3360 8423 0.765903 TGAGCCATCCTCCATCCTCC 60.766 60.000 0.00 0.00 39.98 4.30
3361 8424 1.135094 TTGAGCCATCCTCCATCCTC 58.865 55.000 0.00 0.00 39.98 3.71
3362 8425 0.842635 GTTGAGCCATCCTCCATCCT 59.157 55.000 0.00 0.00 39.98 3.24
3363 8426 0.842635 AGTTGAGCCATCCTCCATCC 59.157 55.000 0.00 0.00 39.98 3.51
3364 8427 1.487976 TGAGTTGAGCCATCCTCCATC 59.512 52.381 0.00 0.00 39.98 3.51
3365 8428 1.588239 TGAGTTGAGCCATCCTCCAT 58.412 50.000 0.00 0.00 39.98 3.41
3366 8429 1.588239 ATGAGTTGAGCCATCCTCCA 58.412 50.000 0.00 0.00 39.98 3.86
3367 8430 2.725221 AATGAGTTGAGCCATCCTCC 57.275 50.000 0.00 0.00 39.98 4.30
3394 8457 2.191128 ACTTCAGTGCAAGGATGACC 57.809 50.000 8.25 0.00 0.00 4.02
3395 8458 3.565482 TCAAACTTCAGTGCAAGGATGAC 59.435 43.478 8.25 0.00 0.00 3.06
3396 8459 3.817084 CTCAAACTTCAGTGCAAGGATGA 59.183 43.478 8.25 8.53 0.00 2.92
3397 8460 3.567164 ACTCAAACTTCAGTGCAAGGATG 59.433 43.478 0.00 0.00 0.00 3.51
3398 8461 3.567164 CACTCAAACTTCAGTGCAAGGAT 59.433 43.478 0.00 0.00 33.96 3.24
3399 8462 2.945008 CACTCAAACTTCAGTGCAAGGA 59.055 45.455 0.00 0.00 33.96 3.36
3400 8463 3.344904 CACTCAAACTTCAGTGCAAGG 57.655 47.619 0.00 0.00 33.96 3.61
3405 8468 3.144506 AGGATGCACTCAAACTTCAGTG 58.855 45.455 0.00 0.00 42.61 3.66
3406 8469 3.181451 TGAGGATGCACTCAAACTTCAGT 60.181 43.478 4.62 0.00 44.03 3.41
3407 8470 3.405831 TGAGGATGCACTCAAACTTCAG 58.594 45.455 4.62 0.00 44.03 3.02
3408 8471 3.490439 TGAGGATGCACTCAAACTTCA 57.510 42.857 4.62 0.00 44.03 3.02
3421 8484 1.150081 GTCCAGGGGCATGAGGATG 59.850 63.158 0.00 0.00 31.91 3.51
3422 8485 0.625683 AAGTCCAGGGGCATGAGGAT 60.626 55.000 0.00 0.00 31.91 3.24
3423 8486 1.229951 AAGTCCAGGGGCATGAGGA 60.230 57.895 0.00 0.00 0.00 3.71
3424 8487 1.225704 GAAGTCCAGGGGCATGAGG 59.774 63.158 0.00 0.00 0.00 3.86
3425 8488 0.393537 GTGAAGTCCAGGGGCATGAG 60.394 60.000 0.00 0.00 0.00 2.90
3426 8489 1.685224 GTGAAGTCCAGGGGCATGA 59.315 57.895 0.00 0.00 0.00 3.07
3427 8490 1.379044 GGTGAAGTCCAGGGGCATG 60.379 63.158 0.00 0.00 0.00 4.06
3428 8491 1.434513 TTGGTGAAGTCCAGGGGCAT 61.435 55.000 0.00 0.00 38.80 4.40
3429 8492 2.067932 CTTGGTGAAGTCCAGGGGCA 62.068 60.000 0.00 0.00 38.80 5.36
3430 8493 1.303643 CTTGGTGAAGTCCAGGGGC 60.304 63.158 0.00 0.00 38.80 5.80
3431 8494 1.303643 GCTTGGTGAAGTCCAGGGG 60.304 63.158 0.00 0.00 38.80 4.79
3432 8495 0.890996 GTGCTTGGTGAAGTCCAGGG 60.891 60.000 0.00 0.00 38.80 4.45
3433 8496 0.109342 AGTGCTTGGTGAAGTCCAGG 59.891 55.000 0.00 0.00 38.80 4.45
3434 8497 1.972872 AAGTGCTTGGTGAAGTCCAG 58.027 50.000 0.00 0.00 38.80 3.86
3435 8498 2.023673 CAAAGTGCTTGGTGAAGTCCA 58.976 47.619 0.00 0.00 35.49 4.02
3436 8499 2.024414 ACAAAGTGCTTGGTGAAGTCC 58.976 47.619 0.00 0.00 39.56 3.85
3437 8500 3.782889 AACAAAGTGCTTGGTGAAGTC 57.217 42.857 0.00 0.00 39.56 3.01
3443 8506 1.204467 CACCACAACAAAGTGCTTGGT 59.796 47.619 0.00 0.00 39.56 3.67
3444 8507 1.925229 CACCACAACAAAGTGCTTGG 58.075 50.000 0.00 0.00 39.56 3.61
3449 8512 1.065600 CCGGCACCACAACAAAGTG 59.934 57.895 0.00 0.00 39.21 3.16
3450 8513 2.781158 GCCGGCACCACAACAAAGT 61.781 57.895 24.80 0.00 0.00 2.66
3451 8514 2.027460 GCCGGCACCACAACAAAG 59.973 61.111 24.80 0.00 0.00 2.77
3452 8515 3.893763 CGCCGGCACCACAACAAA 61.894 61.111 28.98 0.00 0.00 2.83
3461 8524 1.862602 AATTTGAACTCCGCCGGCAC 61.863 55.000 28.98 10.27 0.00 5.01
3462 8525 1.582610 GAATTTGAACTCCGCCGGCA 61.583 55.000 28.98 6.80 0.00 5.69
3463 8526 1.136774 GAATTTGAACTCCGCCGGC 59.863 57.895 19.07 19.07 0.00 6.13
3464 8527 0.447801 CTGAATTTGAACTCCGCCGG 59.552 55.000 0.00 0.00 0.00 6.13
3465 8528 0.447801 CCTGAATTTGAACTCCGCCG 59.552 55.000 0.00 0.00 0.00 6.46
3466 8529 1.821216 TCCTGAATTTGAACTCCGCC 58.179 50.000 0.00 0.00 0.00 6.13
3467 8530 2.552315 TGTTCCTGAATTTGAACTCCGC 59.448 45.455 13.92 0.00 41.10 5.54
3468 8531 4.036262 TGTTGTTCCTGAATTTGAACTCCG 59.964 41.667 13.92 0.00 41.10 4.63
3469 8532 5.514274 TGTTGTTCCTGAATTTGAACTCC 57.486 39.130 13.92 7.75 41.10 3.85
3470 8533 5.853282 CGATGTTGTTCCTGAATTTGAACTC 59.147 40.000 13.92 9.55 41.10 3.01
3471 8534 5.278463 CCGATGTTGTTCCTGAATTTGAACT 60.278 40.000 13.92 0.00 41.10 3.01
3472 8535 4.917415 CCGATGTTGTTCCTGAATTTGAAC 59.083 41.667 8.63 8.63 40.94 3.18
3473 8536 4.558496 GCCGATGTTGTTCCTGAATTTGAA 60.558 41.667 0.00 0.00 0.00 2.69
3474 8537 3.057596 GCCGATGTTGTTCCTGAATTTGA 60.058 43.478 0.00 0.00 0.00 2.69
3475 8538 3.057315 AGCCGATGTTGTTCCTGAATTTG 60.057 43.478 0.00 0.00 0.00 2.32
3476 8539 3.057315 CAGCCGATGTTGTTCCTGAATTT 60.057 43.478 0.00 0.00 0.00 1.82
3477 8540 2.489329 CAGCCGATGTTGTTCCTGAATT 59.511 45.455 0.00 0.00 0.00 2.17
3478 8541 2.086869 CAGCCGATGTTGTTCCTGAAT 58.913 47.619 0.00 0.00 0.00 2.57
3479 8542 1.522668 CAGCCGATGTTGTTCCTGAA 58.477 50.000 0.00 0.00 0.00 3.02
3480 8543 0.955428 GCAGCCGATGTTGTTCCTGA 60.955 55.000 0.00 0.00 0.00 3.86
3481 8544 0.957395 AGCAGCCGATGTTGTTCCTG 60.957 55.000 0.00 0.00 0.00 3.86
3482 8545 0.674895 GAGCAGCCGATGTTGTTCCT 60.675 55.000 0.00 0.00 28.78 3.36
3483 8546 1.648467 GGAGCAGCCGATGTTGTTCC 61.648 60.000 0.00 0.00 43.62 3.62
3484 8547 0.674895 AGGAGCAGCCGATGTTGTTC 60.675 55.000 0.00 0.00 43.43 3.18
3485 8548 0.957395 CAGGAGCAGCCGATGTTGTT 60.957 55.000 0.00 0.00 43.43 2.83
3486 8549 1.376424 CAGGAGCAGCCGATGTTGT 60.376 57.895 0.00 0.00 43.43 3.32
3487 8550 0.674581 TTCAGGAGCAGCCGATGTTG 60.675 55.000 0.00 0.00 43.43 3.33
3488 8551 0.036732 TTTCAGGAGCAGCCGATGTT 59.963 50.000 0.00 0.00 43.43 2.71
3489 8552 0.392193 CTTTCAGGAGCAGCCGATGT 60.392 55.000 0.00 0.00 43.43 3.06
3490 8553 0.392193 ACTTTCAGGAGCAGCCGATG 60.392 55.000 0.00 0.00 43.43 3.84
3491 8554 0.326264 AACTTTCAGGAGCAGCCGAT 59.674 50.000 0.00 0.00 43.43 4.18
3492 8555 0.603707 CAACTTTCAGGAGCAGCCGA 60.604 55.000 0.00 0.00 43.43 5.54
3493 8556 1.580845 CCAACTTTCAGGAGCAGCCG 61.581 60.000 0.00 0.00 43.43 5.52
3494 8557 1.871126 GCCAACTTTCAGGAGCAGCC 61.871 60.000 0.00 0.00 0.00 4.85
3495 8558 1.583477 GCCAACTTTCAGGAGCAGC 59.417 57.895 0.00 0.00 0.00 5.25
3496 8559 1.580845 CCGCCAACTTTCAGGAGCAG 61.581 60.000 0.00 0.00 0.00 4.24
3497 8560 1.600636 CCGCCAACTTTCAGGAGCA 60.601 57.895 0.00 0.00 0.00 4.26
3498 8561 1.600916 ACCGCCAACTTTCAGGAGC 60.601 57.895 0.00 0.00 0.00 4.70
3499 8562 0.250295 TCACCGCCAACTTTCAGGAG 60.250 55.000 0.00 0.00 0.00 3.69
3500 8563 0.181587 TTCACCGCCAACTTTCAGGA 59.818 50.000 0.00 0.00 0.00 3.86
3501 8564 0.593128 CTTCACCGCCAACTTTCAGG 59.407 55.000 0.00 0.00 0.00 3.86
3502 8565 0.040067 GCTTCACCGCCAACTTTCAG 60.040 55.000 0.00 0.00 0.00 3.02
3503 8566 0.465460 AGCTTCACCGCCAACTTTCA 60.465 50.000 0.00 0.00 0.00 2.69
3504 8567 0.040067 CAGCTTCACCGCCAACTTTC 60.040 55.000 0.00 0.00 0.00 2.62
3505 8568 0.465460 TCAGCTTCACCGCCAACTTT 60.465 50.000 0.00 0.00 0.00 2.66
3506 8569 0.250901 ATCAGCTTCACCGCCAACTT 60.251 50.000 0.00 0.00 0.00 2.66
3507 8570 0.957395 CATCAGCTTCACCGCCAACT 60.957 55.000 0.00 0.00 0.00 3.16
3508 8571 0.955428 TCATCAGCTTCACCGCCAAC 60.955 55.000 0.00 0.00 0.00 3.77
3509 8572 0.250684 TTCATCAGCTTCACCGCCAA 60.251 50.000 0.00 0.00 0.00 4.52
3510 8573 0.955428 GTTCATCAGCTTCACCGCCA 60.955 55.000 0.00 0.00 0.00 5.69
3511 8574 1.796796 GTTCATCAGCTTCACCGCC 59.203 57.895 0.00 0.00 0.00 6.13
3512 8575 1.421485 CGTTCATCAGCTTCACCGC 59.579 57.895 0.00 0.00 0.00 5.68
3513 8576 1.970917 GCCGTTCATCAGCTTCACCG 61.971 60.000 0.00 0.00 0.00 4.94
3514 8577 0.955428 TGCCGTTCATCAGCTTCACC 60.955 55.000 0.00 0.00 0.00 4.02
3515 8578 0.445436 CTGCCGTTCATCAGCTTCAC 59.555 55.000 0.00 0.00 0.00 3.18
3516 8579 0.674581 CCTGCCGTTCATCAGCTTCA 60.675 55.000 0.00 0.00 0.00 3.02
3517 8580 1.372087 CCCTGCCGTTCATCAGCTTC 61.372 60.000 0.00 0.00 0.00 3.86
3518 8581 1.377725 CCCTGCCGTTCATCAGCTT 60.378 57.895 0.00 0.00 0.00 3.74
3519 8582 2.270205 CCCTGCCGTTCATCAGCT 59.730 61.111 0.00 0.00 0.00 4.24
3520 8583 2.045926 ACCCTGCCGTTCATCAGC 60.046 61.111 0.00 0.00 0.00 4.26
3521 8584 1.021390 GTCACCCTGCCGTTCATCAG 61.021 60.000 0.00 0.00 0.00 2.90
3522 8585 1.003839 GTCACCCTGCCGTTCATCA 60.004 57.895 0.00 0.00 0.00 3.07
3523 8586 1.745489 GGTCACCCTGCCGTTCATC 60.745 63.158 0.00 0.00 0.00 2.92
3524 8587 2.351276 GGTCACCCTGCCGTTCAT 59.649 61.111 0.00 0.00 0.00 2.57
3525 8588 3.948719 GGGTCACCCTGCCGTTCA 61.949 66.667 5.22 0.00 41.34 3.18


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

AutoCloner maintained by Alex Coulton.