Multiple sequence alignment - TraesCS6A01G130200

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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 TraesCS6A01G130200 chr6A 100.000 4130 0 0 1 4130 101866358 101862229 0.000000e+00 7627
1 TraesCS6A01G130200 chr6A 90.064 3140 290 17 34 3161 101549115 101545986 0.000000e+00 4050
2 TraesCS6A01G130200 chr6A 88.512 2594 263 22 565 3132 101563076 101560492 0.000000e+00 3107
3 TraesCS6A01G130200 chr6A 86.987 2167 274 6 999 3161 101844965 101842803 0.000000e+00 2433
4 TraesCS6A01G130200 chr6A 85.421 2339 309 25 815 3132 101554927 101552600 0.000000e+00 2401
5 TraesCS6A01G130200 chr6A 84.669 287 29 9 40 316 101846260 101845979 5.260000e-69 272
6 TraesCS6A01G130200 chr6A 83.860 285 32 8 40 313 101572305 101572024 4.100000e-65 259
7 TraesCS6A01G130200 chr6A 84.242 165 23 3 3967 4130 17915523 17915361 1.540000e-34 158
8 TraesCS6A01G130200 chr6A 90.588 85 8 0 40 124 101563387 101563303 3.370000e-21 113
9 TraesCS6A01G130200 chr6B 95.278 2605 112 7 742 3344 160905142 160902547 0.000000e+00 4119
10 TraesCS6A01G130200 chr6B 90.104 3072 284 17 107 3161 160664069 160661001 0.000000e+00 3971
11 TraesCS6A01G130200 chr6B 87.536 2447 272 16 925 3344 160912202 160909762 0.000000e+00 2798
12 TraesCS6A01G130200 chr6B 95.845 746 27 3 1 743 160906047 160905303 0.000000e+00 1203
13 TraesCS6A01G130200 chr6B 89.769 303 19 3 3479 3776 160902497 160902202 1.080000e-100 377
14 TraesCS6A01G130200 chr6B 96.377 138 5 0 3827 3964 160902137 160902000 1.150000e-55 228
15 TraesCS6A01G130200 chr6B 88.235 119 8 4 3478 3596 160909751 160909639 2.000000e-28 137
16 TraesCS6A01G130200 chr6B 86.154 130 9 4 1 124 159991653 159991527 9.320000e-27 132
17 TraesCS6A01G130200 chr6D 89.599 3067 299 15 107 3161 84474906 84471848 0.000000e+00 3879
18 TraesCS6A01G130200 chr6D 87.359 2935 297 37 244 3132 84232575 84229669 0.000000e+00 3297
19 TraesCS6A01G130200 chr6D 88.843 2429 258 12 742 3161 84218372 84215948 0.000000e+00 2972
20 TraesCS6A01G130200 chr6D 87.437 2380 259 22 949 3310 84653918 84651561 0.000000e+00 2702
21 TraesCS6A01G130200 chr6D 86.947 2398 288 18 925 3304 85608142 85610532 0.000000e+00 2671
22 TraesCS6A01G130200 chr6D 92.706 754 38 10 1 743 84219201 84218454 0.000000e+00 1072
23 TraesCS6A01G130200 chr6D 85.595 479 31 14 3486 3964 85610613 85611053 6.250000e-128 468
24 TraesCS6A01G130200 chr6D 87.406 397 39 9 3576 3964 84651449 84651056 2.930000e-121 446
25 TraesCS6A01G130200 chr6D 84.186 215 22 9 40 244 84476933 84476721 9.060000e-47 198
26 TraesCS6A01G130200 chr2D 81.006 179 23 9 3958 4130 609634960 609634787 9.320000e-27 132
27 TraesCS6A01G130200 chr5D 81.761 159 26 3 3964 4122 540829314 540829159 3.350000e-26 130


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 TraesCS6A01G130200 chr6A 101862229 101866358 4129 True 7627.0 7627 100.000000 1 4130 1 chr6A.!!$R3 4129
1 TraesCS6A01G130200 chr6A 101545986 101554927 8941 True 3225.5 4050 87.742500 34 3161 2 chr6A.!!$R4 3127
2 TraesCS6A01G130200 chr6A 101560492 101563387 2895 True 1610.0 3107 89.550000 40 3132 2 chr6A.!!$R5 3092
3 TraesCS6A01G130200 chr6A 101842803 101846260 3457 True 1352.5 2433 85.828000 40 3161 2 chr6A.!!$R6 3121
4 TraesCS6A01G130200 chr6B 160661001 160664069 3068 True 3971.0 3971 90.104000 107 3161 1 chr6B.!!$R2 3054
5 TraesCS6A01G130200 chr6B 160902000 160912202 10202 True 1477.0 4119 92.173333 1 3964 6 chr6B.!!$R3 3963
6 TraesCS6A01G130200 chr6D 84229669 84232575 2906 True 3297.0 3297 87.359000 244 3132 1 chr6D.!!$R1 2888
7 TraesCS6A01G130200 chr6D 84471848 84476933 5085 True 2038.5 3879 86.892500 40 3161 2 chr6D.!!$R3 3121
8 TraesCS6A01G130200 chr6D 84215948 84219201 3253 True 2022.0 2972 90.774500 1 3161 2 chr6D.!!$R2 3160
9 TraesCS6A01G130200 chr6D 84651056 84653918 2862 True 1574.0 2702 87.421500 949 3964 2 chr6D.!!$R4 3015
10 TraesCS6A01G130200 chr6D 85608142 85611053 2911 False 1569.5 2671 86.271000 925 3964 2 chr6D.!!$F1 3039

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
863 10809 0.250858 CACTGAGGTGCACCCATGAA 60.251 55.0 32.29 12.37 36.61 2.57 F
1731 12038 0.393820 AAACCTTCCGCGTTACCTCA 59.606 50.0 4.92 0.00 0.00 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2218 12533 2.094675 GCTCTTAAGGGCATGCAAAGA 58.905 47.619 22.7 18.96 0.0 2.52 R
3361 13704 1.079323 AGCTTGGAAATTGGGGTGGAT 59.921 47.619 0.0 0.00 0.0 3.41 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
21 22 4.895224 CATGTGCAGACATCTAAATGCT 57.105 40.909 0.00 0.00 41.12 3.79
22 23 4.598062 CATGTGCAGACATCTAAATGCTG 58.402 43.478 0.00 0.00 41.12 4.41
23 24 3.678289 TGTGCAGACATCTAAATGCTGT 58.322 40.909 0.00 0.00 38.35 4.40
25 26 3.438087 GTGCAGACATCTAAATGCTGTGT 59.562 43.478 0.00 0.00 38.35 3.72
26 27 4.074259 TGCAGACATCTAAATGCTGTGTT 58.926 39.130 0.00 0.00 38.35 3.32
28 29 5.009911 TGCAGACATCTAAATGCTGTGTTTT 59.990 36.000 0.00 0.00 38.35 2.43
29 30 5.922544 GCAGACATCTAAATGCTGTGTTTTT 59.077 36.000 0.00 0.00 38.35 1.94
189 9762 3.973657 GCATATGTGCCTTTGATTCTGG 58.026 45.455 2.47 0.00 45.76 3.86
300 9883 8.665643 AAGCATTTTTCAAACTGAAATGATGA 57.334 26.923 19.56 0.64 44.75 2.92
335 9983 0.678048 GCTGGCGGAAAATGACCTCT 60.678 55.000 0.00 0.00 0.00 3.69
367 10015 9.676861 CAATTATTGAGCAGAATATCTCCCATA 57.323 33.333 0.00 0.00 0.00 2.74
426 10088 3.262420 CTGGGACAAATCTAGGTTCGTG 58.738 50.000 0.00 0.00 38.70 4.35
579 10265 3.633525 GCAATGCAATGAATAGGTCAGGA 59.366 43.478 5.79 0.00 40.43 3.86
584 10274 4.943705 TGCAATGAATAGGTCAGGAAAGAC 59.056 41.667 0.00 0.00 40.43 3.01
596 10286 4.858140 GTCAGGAAAGACGACTAAACTAGC 59.142 45.833 0.00 0.00 0.00 3.42
863 10809 0.250858 CACTGAGGTGCACCCATGAA 60.251 55.000 32.29 12.37 36.61 2.57
922 10868 4.009675 TCTGACATGCAACTAAATCCACC 58.990 43.478 0.00 0.00 0.00 4.61
923 10869 3.088532 TGACATGCAACTAAATCCACCC 58.911 45.455 0.00 0.00 0.00 4.61
977 10925 7.577979 CATTATTCAAGCAACAGCAAAACAAT 58.422 30.769 0.00 0.00 0.00 2.71
1042 11345 3.037833 TCGTGCTGCAGCTGTTCG 61.038 61.111 36.61 30.58 42.66 3.95
1122 11425 4.065281 CGGTTCCTCGACGGGCTT 62.065 66.667 0.00 0.00 0.00 4.35
1262 11567 2.262774 CTTGAAGGGCCCATCTCGCT 62.263 60.000 26.63 0.00 0.00 4.93
1275 11580 0.976641 TCTCGCTGTTCCTCACCAAT 59.023 50.000 0.00 0.00 0.00 3.16
1454 11761 1.801178 GCCTCTGCAAGTACTCAACAC 59.199 52.381 0.00 0.00 37.47 3.32
1618 11925 3.003378 GCTTGACCTCTGTTACAACCAAC 59.997 47.826 0.00 0.00 0.00 3.77
1623 11930 2.808543 CCTCTGTTACAACCAACTGAGC 59.191 50.000 14.03 0.00 45.68 4.26
1724 12031 1.164041 CCTGTTGAAACCTTCCGCGT 61.164 55.000 4.92 0.00 0.00 6.01
1731 12038 0.393820 AAACCTTCCGCGTTACCTCA 59.606 50.000 4.92 0.00 0.00 3.86
2067 12382 7.654568 TCATGATGAATAATTTCAGTGGCATC 58.345 34.615 0.00 0.00 44.75 3.91
2218 12533 6.469782 ACTCCTTCACAAACATCACAAAAT 57.530 33.333 0.00 0.00 0.00 1.82
2260 12576 1.610102 GCAGGAACATCAGCACTCTGT 60.610 52.381 0.00 0.00 41.10 3.41
2346 12662 3.819368 TCTTCAGTTTCTGTCCATGCAA 58.181 40.909 0.00 0.00 32.61 4.08
2349 12665 3.286353 TCAGTTTCTGTCCATGCAACAA 58.714 40.909 0.00 0.00 32.61 2.83
2820 13148 9.186323 CTAGATTTGTCTAATAACCATCTCACG 57.814 37.037 0.00 0.00 0.00 4.35
2928 13256 0.321475 AAGAGCAGCTGAGCACCTTC 60.321 55.000 20.43 0.00 36.85 3.46
3262 13592 5.931441 AGCAAACTTGTTAAGAGCTGTAG 57.069 39.130 0.00 0.00 34.97 2.74
3273 13603 2.038659 AGAGCTGTAGGAAGATGGCTC 58.961 52.381 0.00 0.00 44.21 4.70
3275 13605 1.127343 GCTGTAGGAAGATGGCTCCT 58.873 55.000 0.00 0.00 37.64 3.69
3341 13673 8.807948 TCAATAGCTCTAACTTTTGGCTTAAT 57.192 30.769 0.00 0.00 34.88 1.40
3347 13690 8.856103 AGCTCTAACTTTTGGCTTAATAACAAA 58.144 29.630 0.00 0.00 32.77 2.83
3355 13698 9.202273 CTTTTGGCTTAATAACAAATAACTGCA 57.798 29.630 0.00 0.00 34.47 4.41
3368 13711 5.914898 AATAACTGCAGTTAAATCCACCC 57.085 39.130 35.91 0.00 42.93 4.61
3376 13719 4.622933 GCAGTTAAATCCACCCCAATTTCC 60.623 45.833 0.00 0.00 0.00 3.13
3381 13724 0.486879 TCCACCCCAATTTCCAAGCT 59.513 50.000 0.00 0.00 0.00 3.74
3382 13725 1.713647 TCCACCCCAATTTCCAAGCTA 59.286 47.619 0.00 0.00 0.00 3.32
3383 13726 1.824852 CCACCCCAATTTCCAAGCTAC 59.175 52.381 0.00 0.00 0.00 3.58
3384 13727 2.557452 CCACCCCAATTTCCAAGCTACT 60.557 50.000 0.00 0.00 0.00 2.57
3385 13728 2.493278 CACCCCAATTTCCAAGCTACTG 59.507 50.000 0.00 0.00 0.00 2.74
3386 13729 2.102578 CCCCAATTTCCAAGCTACTGG 58.897 52.381 0.00 0.00 37.87 4.00
3387 13730 2.102578 CCCAATTTCCAAGCTACTGGG 58.897 52.381 4.59 0.00 37.06 4.45
3388 13731 1.478105 CCAATTTCCAAGCTACTGGGC 59.522 52.381 4.59 0.00 37.06 5.36
3389 13732 2.450476 CAATTTCCAAGCTACTGGGCT 58.550 47.619 4.59 0.00 45.30 5.19
3390 13733 3.620488 CAATTTCCAAGCTACTGGGCTA 58.380 45.455 4.59 0.00 42.24 3.93
3391 13734 4.016444 CAATTTCCAAGCTACTGGGCTAA 58.984 43.478 4.59 0.00 42.24 3.09
3392 13735 4.526438 ATTTCCAAGCTACTGGGCTAAT 57.474 40.909 4.59 0.85 42.24 1.73
3393 13736 4.316025 TTTCCAAGCTACTGGGCTAATT 57.684 40.909 4.59 0.00 42.24 1.40
3394 13737 3.281727 TCCAAGCTACTGGGCTAATTG 57.718 47.619 4.59 0.00 42.24 2.32
3395 13738 2.843730 TCCAAGCTACTGGGCTAATTGA 59.156 45.455 4.59 0.00 42.24 2.57
3396 13739 3.459598 TCCAAGCTACTGGGCTAATTGAT 59.540 43.478 4.59 0.00 42.24 2.57
3397 13740 3.817647 CCAAGCTACTGGGCTAATTGATC 59.182 47.826 0.00 0.00 42.24 2.92
3398 13741 4.454678 CAAGCTACTGGGCTAATTGATCA 58.545 43.478 0.00 0.00 42.24 2.92
3399 13742 4.989875 AGCTACTGGGCTAATTGATCAT 57.010 40.909 0.00 0.00 41.16 2.45
3400 13743 4.649692 AGCTACTGGGCTAATTGATCATG 58.350 43.478 0.00 0.00 41.16 3.07
3401 13744 3.190118 GCTACTGGGCTAATTGATCATGC 59.810 47.826 0.00 0.00 0.00 4.06
3402 13745 3.301794 ACTGGGCTAATTGATCATGCA 57.698 42.857 0.00 0.00 0.00 3.96
3403 13746 3.220110 ACTGGGCTAATTGATCATGCAG 58.780 45.455 0.00 0.00 0.00 4.41
3404 13747 3.220110 CTGGGCTAATTGATCATGCAGT 58.780 45.455 0.00 0.00 0.00 4.40
3405 13748 3.634504 TGGGCTAATTGATCATGCAGTT 58.365 40.909 0.00 0.00 0.00 3.16
3406 13749 4.790937 TGGGCTAATTGATCATGCAGTTA 58.209 39.130 0.00 0.00 0.00 2.24
3407 13750 5.387788 TGGGCTAATTGATCATGCAGTTAT 58.612 37.500 0.00 0.00 0.00 1.89
3408 13751 5.834742 TGGGCTAATTGATCATGCAGTTATT 59.165 36.000 0.00 0.00 0.00 1.40
3409 13752 6.324512 TGGGCTAATTGATCATGCAGTTATTT 59.675 34.615 0.00 0.00 0.00 1.40
3410 13753 6.643770 GGGCTAATTGATCATGCAGTTATTTG 59.356 38.462 0.00 0.00 0.00 2.32
3411 13754 6.643770 GGCTAATTGATCATGCAGTTATTTGG 59.356 38.462 0.00 0.00 0.00 3.28
3412 13755 7.205297 GCTAATTGATCATGCAGTTATTTGGT 58.795 34.615 0.00 0.00 0.00 3.67
3413 13756 7.707893 GCTAATTGATCATGCAGTTATTTGGTT 59.292 33.333 0.00 0.00 0.00 3.67
3419 13762 9.407380 TGATCATGCAGTTATTTGGTTAATACT 57.593 29.630 0.00 0.00 0.00 2.12
3450 13793 9.754382 AATAACTTTTGGCTTAATATCATGCAG 57.246 29.630 0.00 0.00 0.00 4.41
3451 13794 6.780457 ACTTTTGGCTTAATATCATGCAGT 57.220 33.333 0.00 0.00 0.00 4.40
3452 13795 7.174107 ACTTTTGGCTTAATATCATGCAGTT 57.826 32.000 0.00 0.00 0.00 3.16
3453 13796 8.292444 ACTTTTGGCTTAATATCATGCAGTTA 57.708 30.769 0.00 0.00 0.00 2.24
3454 13797 8.748412 ACTTTTGGCTTAATATCATGCAGTTAA 58.252 29.630 0.00 0.00 0.00 2.01
3455 13798 8.925161 TTTTGGCTTAATATCATGCAGTTAAC 57.075 30.769 0.00 0.00 0.00 2.01
3456 13799 7.880160 TTGGCTTAATATCATGCAGTTAACT 57.120 32.000 1.12 1.12 0.00 2.24
3457 13800 8.972458 TTGGCTTAATATCATGCAGTTAACTA 57.028 30.769 8.04 0.00 0.00 2.24
3458 13801 8.378172 TGGCTTAATATCATGCAGTTAACTAC 57.622 34.615 8.04 2.91 0.00 2.73
3459 13802 7.990314 TGGCTTAATATCATGCAGTTAACTACA 59.010 33.333 10.92 10.92 0.00 2.74
3460 13803 9.003658 GGCTTAATATCATGCAGTTAACTACAT 57.996 33.333 14.47 14.47 30.35 2.29
3461 13804 9.817365 GCTTAATATCATGCAGTTAACTACATG 57.183 33.333 30.85 30.85 44.96 3.21
3467 13810 7.686438 TCATGCAGTTAACTACATGATGTTT 57.314 32.000 33.41 8.33 46.33 2.83
3468 13811 8.785329 TCATGCAGTTAACTACATGATGTTTA 57.215 30.769 33.41 18.95 46.33 2.01
3469 13812 9.394767 TCATGCAGTTAACTACATGATGTTTAT 57.605 29.630 33.41 7.08 46.33 1.40
3506 13849 9.700831 AATACAAATAAAATAGAGAACTGGGCT 57.299 29.630 0.00 0.00 0.00 5.19
3523 13866 1.680207 GGCTAATTACCTCCGAGTCGT 59.320 52.381 12.31 0.00 0.00 4.34
3551 13894 1.880675 CGGATCGTATGAGCTACACCT 59.119 52.381 0.00 0.00 0.00 4.00
3554 13897 0.380733 TCGTATGAGCTACACCTGCG 59.619 55.000 0.00 0.00 35.28 5.18
3555 13898 0.595053 CGTATGAGCTACACCTGCGG 60.595 60.000 0.00 0.00 35.28 5.69
3556 13899 0.876342 GTATGAGCTACACCTGCGGC 60.876 60.000 0.00 0.00 35.28 6.53
3632 13975 4.681978 AACTCGCCGGGTGACTGC 62.682 66.667 6.10 0.00 34.42 4.40
3642 13985 4.767255 GTGACTGCGAGGGGCTGG 62.767 72.222 0.00 0.00 44.16 4.85
3702 14050 1.461655 GGGGAGGGGATGGGAGTAC 60.462 68.421 0.00 0.00 0.00 2.73
3750 14100 0.179070 GGAATCGAGGGAGAAGGTGC 60.179 60.000 0.00 0.00 0.00 5.01
3781 14131 2.564975 GCAGCAGCGCAACATCTT 59.435 55.556 11.47 0.00 0.00 2.40
3782 14132 1.796151 GCAGCAGCGCAACATCTTA 59.204 52.632 11.47 0.00 0.00 2.10
3783 14133 0.247974 GCAGCAGCGCAACATCTTAG 60.248 55.000 11.47 0.00 0.00 2.18
3784 14134 1.362768 CAGCAGCGCAACATCTTAGA 58.637 50.000 11.47 0.00 0.00 2.10
3785 14135 1.326852 CAGCAGCGCAACATCTTAGAG 59.673 52.381 11.47 0.00 0.00 2.43
3786 14136 0.027324 GCAGCGCAACATCTTAGAGC 59.973 55.000 11.47 0.00 0.00 4.09
3787 14137 1.649664 CAGCGCAACATCTTAGAGCT 58.350 50.000 11.47 0.00 0.00 4.09
3788 14138 2.814269 CAGCGCAACATCTTAGAGCTA 58.186 47.619 11.47 0.00 31.75 3.32
3789 14139 3.388308 CAGCGCAACATCTTAGAGCTAT 58.612 45.455 11.47 0.00 31.75 2.97
3791 14141 3.806521 AGCGCAACATCTTAGAGCTATTG 59.193 43.478 11.47 0.00 0.00 1.90
3792 14142 3.804325 GCGCAACATCTTAGAGCTATTGA 59.196 43.478 0.30 0.00 0.00 2.57
3793 14143 4.271049 GCGCAACATCTTAGAGCTATTGAA 59.729 41.667 0.30 0.00 0.00 2.69
3794 14144 5.732288 CGCAACATCTTAGAGCTATTGAAC 58.268 41.667 0.00 0.00 0.00 3.18
3795 14145 5.277058 CGCAACATCTTAGAGCTATTGAACC 60.277 44.000 0.00 0.00 0.00 3.62
3797 14147 6.317391 GCAACATCTTAGAGCTATTGAACCTT 59.683 38.462 0.00 0.00 0.00 3.50
3798 14148 7.466590 GCAACATCTTAGAGCTATTGAACCTTC 60.467 40.741 0.00 0.00 0.00 3.46
3799 14149 7.430760 ACATCTTAGAGCTATTGAACCTTCT 57.569 36.000 0.00 0.00 0.00 2.85
3800 14150 7.496747 ACATCTTAGAGCTATTGAACCTTCTC 58.503 38.462 0.00 0.00 0.00 2.87
3801 14151 6.472686 TCTTAGAGCTATTGAACCTTCTCC 57.527 41.667 0.00 0.00 0.00 3.71
3803 14153 4.479786 AGAGCTATTGAACCTTCTCCAC 57.520 45.455 0.00 0.00 0.00 4.02
3804 14154 4.100373 AGAGCTATTGAACCTTCTCCACT 58.900 43.478 0.00 0.00 0.00 4.00
3807 14157 3.307762 GCTATTGAACCTTCTCCACTGGT 60.308 47.826 0.00 0.00 35.29 4.00
3808 14158 2.638480 TTGAACCTTCTCCACTGGTG 57.362 50.000 0.00 0.00 33.89 4.17
3809 14159 0.108585 TGAACCTTCTCCACTGGTGC 59.891 55.000 0.00 0.00 33.89 5.01
3810 14160 0.951040 GAACCTTCTCCACTGGTGCG 60.951 60.000 0.00 0.00 33.89 5.34
3811 14161 2.743928 CCTTCTCCACTGGTGCGC 60.744 66.667 0.00 0.00 0.00 6.09
3812 14162 2.031012 CTTCTCCACTGGTGCGCA 59.969 61.111 5.66 5.66 0.00 6.09
3813 14163 1.597854 CTTCTCCACTGGTGCGCAA 60.598 57.895 14.00 0.00 0.00 4.85
3814 14164 0.957395 CTTCTCCACTGGTGCGCAAT 60.957 55.000 14.00 0.00 0.00 3.56
3815 14165 1.236616 TTCTCCACTGGTGCGCAATG 61.237 55.000 14.00 8.54 0.00 2.82
3816 14166 2.672651 TCCACTGGTGCGCAATGG 60.673 61.111 14.00 17.93 0.00 3.16
3817 14167 2.985282 CCACTGGTGCGCAATGGT 60.985 61.111 14.00 8.24 0.00 3.55
3893 14282 2.474816 CTTATAACTGGGCTCAGACGC 58.525 52.381 23.49 0.00 43.49 5.19
3912 14301 1.745827 GCCGCTTATAACTGGGCTTCA 60.746 52.381 8.67 0.00 40.59 3.02
3966 14355 9.710900 AAGTTAAAAATTAGAGCAAATTCTGGG 57.289 29.630 0.00 0.00 0.00 4.45
3967 14356 9.088987 AGTTAAAAATTAGAGCAAATTCTGGGA 57.911 29.630 0.00 0.00 0.00 4.37
3968 14357 9.358872 GTTAAAAATTAGAGCAAATTCTGGGAG 57.641 33.333 0.00 0.00 0.00 4.30
3969 14358 5.588958 AAATTAGAGCAAATTCTGGGAGC 57.411 39.130 0.00 0.00 0.00 4.70
3970 14359 3.719268 TTAGAGCAAATTCTGGGAGCA 57.281 42.857 0.00 0.00 0.00 4.26
3971 14360 2.592102 AGAGCAAATTCTGGGAGCAA 57.408 45.000 0.00 0.00 0.00 3.91
3972 14361 2.165998 AGAGCAAATTCTGGGAGCAAC 58.834 47.619 0.00 0.00 0.00 4.17
3973 14362 2.165998 GAGCAAATTCTGGGAGCAACT 58.834 47.619 0.00 0.00 0.00 3.16
3974 14363 3.009473 AGAGCAAATTCTGGGAGCAACTA 59.991 43.478 0.00 0.00 0.00 2.24
3975 14364 3.350833 AGCAAATTCTGGGAGCAACTAG 58.649 45.455 0.00 0.00 0.00 2.57
3976 14365 3.084786 GCAAATTCTGGGAGCAACTAGT 58.915 45.455 0.00 0.00 0.00 2.57
3977 14366 3.507622 GCAAATTCTGGGAGCAACTAGTT 59.492 43.478 1.12 1.12 0.00 2.24
3978 14367 4.616835 GCAAATTCTGGGAGCAACTAGTTG 60.617 45.833 27.85 27.85 43.14 3.16
3979 14368 4.640771 AATTCTGGGAGCAACTAGTTGA 57.359 40.909 34.43 15.37 42.93 3.18
3980 14369 3.402628 TTCTGGGAGCAACTAGTTGAC 57.597 47.619 34.43 25.51 42.93 3.18
3981 14370 2.609747 TCTGGGAGCAACTAGTTGACT 58.390 47.619 34.43 28.45 42.93 3.41
3982 14371 3.774734 TCTGGGAGCAACTAGTTGACTA 58.225 45.455 34.43 20.71 42.93 2.59
3993 14382 2.349297 AGTTGACTAGCGTTCCTTCG 57.651 50.000 0.00 0.00 0.00 3.79
3994 14383 1.067776 AGTTGACTAGCGTTCCTTCGG 60.068 52.381 0.00 0.00 0.00 4.30
3995 14384 0.245539 TTGACTAGCGTTCCTTCGGG 59.754 55.000 0.00 0.00 0.00 5.14
3996 14385 0.609957 TGACTAGCGTTCCTTCGGGA 60.610 55.000 0.00 0.00 43.37 5.14
3997 14386 0.100861 GACTAGCGTTCCTTCGGGAG 59.899 60.000 0.00 0.00 45.95 4.30
3998 14387 1.227002 CTAGCGTTCCTTCGGGAGC 60.227 63.158 0.00 0.00 45.95 4.70
3999 14388 2.630592 CTAGCGTTCCTTCGGGAGCC 62.631 65.000 0.00 0.00 45.95 4.70
4000 14389 4.083862 GCGTTCCTTCGGGAGCCT 62.084 66.667 0.00 0.00 45.95 4.58
4001 14390 2.184579 CGTTCCTTCGGGAGCCTC 59.815 66.667 0.00 0.00 45.95 4.70
4002 14391 2.646175 CGTTCCTTCGGGAGCCTCA 61.646 63.158 0.00 0.00 45.95 3.86
4003 14392 1.079057 GTTCCTTCGGGAGCCTCAC 60.079 63.158 0.00 0.00 45.95 3.51
4004 14393 1.535444 TTCCTTCGGGAGCCTCACA 60.535 57.895 0.00 0.00 45.95 3.58
4005 14394 1.125093 TTCCTTCGGGAGCCTCACAA 61.125 55.000 0.00 0.00 45.95 3.33
4006 14395 1.376037 CCTTCGGGAGCCTCACAAC 60.376 63.158 0.00 0.00 37.25 3.32
4007 14396 1.738099 CTTCGGGAGCCTCACAACG 60.738 63.158 0.00 0.00 0.00 4.10
4008 14397 2.154798 CTTCGGGAGCCTCACAACGA 62.155 60.000 0.00 0.00 0.00 3.85
4009 14398 2.430382 TTCGGGAGCCTCACAACGAC 62.430 60.000 0.00 0.00 0.00 4.34
4010 14399 2.047179 GGGAGCCTCACAACGACC 60.047 66.667 0.00 0.00 0.00 4.79
4011 14400 2.741092 GGAGCCTCACAACGACCA 59.259 61.111 0.00 0.00 0.00 4.02
4012 14401 1.374758 GGAGCCTCACAACGACCAG 60.375 63.158 0.00 0.00 0.00 4.00
4013 14402 2.029844 GAGCCTCACAACGACCAGC 61.030 63.158 0.00 0.00 0.00 4.85
4014 14403 3.050275 GCCTCACAACGACCAGCC 61.050 66.667 0.00 0.00 0.00 4.85
4015 14404 2.743718 CCTCACAACGACCAGCCT 59.256 61.111 0.00 0.00 0.00 4.58
4016 14405 1.374758 CCTCACAACGACCAGCCTC 60.375 63.158 0.00 0.00 0.00 4.70
4017 14406 1.367471 CTCACAACGACCAGCCTCA 59.633 57.895 0.00 0.00 0.00 3.86
4018 14407 0.946221 CTCACAACGACCAGCCTCAC 60.946 60.000 0.00 0.00 0.00 3.51
4019 14408 1.069765 CACAACGACCAGCCTCACT 59.930 57.895 0.00 0.00 0.00 3.41
4020 14409 0.532862 CACAACGACCAGCCTCACTT 60.533 55.000 0.00 0.00 0.00 3.16
4021 14410 0.532862 ACAACGACCAGCCTCACTTG 60.533 55.000 0.00 0.00 0.00 3.16
4022 14411 1.071471 AACGACCAGCCTCACTTGG 59.929 57.895 0.00 0.00 0.00 3.61
4030 14419 4.749310 CCTCACTTGGCGCGCTCT 62.749 66.667 32.29 7.83 0.00 4.09
4031 14420 3.184683 CTCACTTGGCGCGCTCTC 61.185 66.667 32.29 15.45 0.00 3.20
4032 14421 3.921767 CTCACTTGGCGCGCTCTCA 62.922 63.158 32.29 18.24 0.00 3.27
4033 14422 3.485431 CACTTGGCGCGCTCTCAG 61.485 66.667 32.29 21.96 0.00 3.35
4043 14432 4.166888 GCTCTCAGCCGCCCATCA 62.167 66.667 0.00 0.00 34.48 3.07
4044 14433 2.202987 CTCTCAGCCGCCCATCAC 60.203 66.667 0.00 0.00 0.00 3.06
4045 14434 3.002583 TCTCAGCCGCCCATCACA 61.003 61.111 0.00 0.00 0.00 3.58
4046 14435 2.191375 CTCAGCCGCCCATCACAT 59.809 61.111 0.00 0.00 0.00 3.21
4047 14436 2.124612 TCAGCCGCCCATCACATG 60.125 61.111 0.00 0.00 0.00 3.21
4048 14437 2.438975 CAGCCGCCCATCACATGT 60.439 61.111 0.00 0.00 0.00 3.21
4049 14438 2.124570 AGCCGCCCATCACATGTC 60.125 61.111 0.00 0.00 0.00 3.06
4050 14439 2.438254 GCCGCCCATCACATGTCA 60.438 61.111 0.00 0.00 0.00 3.58
4051 14440 2.764314 GCCGCCCATCACATGTCAC 61.764 63.158 0.00 0.00 0.00 3.67
4052 14441 2.463620 CCGCCCATCACATGTCACG 61.464 63.158 0.00 0.00 0.00 4.35
4053 14442 2.793946 GCCCATCACATGTCACGC 59.206 61.111 0.00 0.00 0.00 5.34
4054 14443 1.746615 GCCCATCACATGTCACGCT 60.747 57.895 0.00 0.00 0.00 5.07
4055 14444 1.709147 GCCCATCACATGTCACGCTC 61.709 60.000 0.00 0.00 0.00 5.03
4056 14445 1.091771 CCCATCACATGTCACGCTCC 61.092 60.000 0.00 0.00 0.00 4.70
4057 14446 1.423721 CCATCACATGTCACGCTCCG 61.424 60.000 0.00 0.00 0.00 4.63
4058 14447 1.153568 ATCACATGTCACGCTCCGG 60.154 57.895 0.00 0.00 0.00 5.14
4059 14448 1.604147 ATCACATGTCACGCTCCGGA 61.604 55.000 2.93 2.93 0.00 5.14
4060 14449 1.153568 CACATGTCACGCTCCGGAT 60.154 57.895 3.57 0.00 0.00 4.18
4061 14450 1.153568 ACATGTCACGCTCCGGATG 60.154 57.895 3.57 0.00 0.00 3.51
4062 14451 2.202932 ATGTCACGCTCCGGATGC 60.203 61.111 3.57 10.35 0.00 3.91
4063 14452 2.725312 ATGTCACGCTCCGGATGCT 61.725 57.895 19.30 7.73 0.00 3.79
4064 14453 2.583593 GTCACGCTCCGGATGCTC 60.584 66.667 19.30 4.26 0.00 4.26
4065 14454 3.838271 TCACGCTCCGGATGCTCC 61.838 66.667 19.30 1.43 0.00 4.70
4066 14455 4.899239 CACGCTCCGGATGCTCCC 62.899 72.222 19.30 0.00 31.13 4.30
4068 14457 3.854669 CGCTCCGGATGCTCCCTT 61.855 66.667 19.30 0.00 31.13 3.95
4069 14458 2.110006 GCTCCGGATGCTCCCTTC 59.890 66.667 3.57 0.00 31.13 3.46
4070 14459 2.419198 CTCCGGATGCTCCCTTCG 59.581 66.667 3.57 0.00 31.13 3.79
4071 14460 3.154473 TCCGGATGCTCCCTTCGG 61.154 66.667 0.00 0.00 41.80 4.30
4072 14461 3.154473 CCGGATGCTCCCTTCGGA 61.154 66.667 0.00 0.00 42.94 4.55
4073 14462 2.511452 CCGGATGCTCCCTTCGGAT 61.511 63.158 0.00 0.00 42.94 4.18
4074 14463 1.447643 CGGATGCTCCCTTCGGATT 59.552 57.895 0.00 0.00 37.60 3.01
4075 14464 0.179045 CGGATGCTCCCTTCGGATTT 60.179 55.000 0.00 0.00 37.60 2.17
4076 14465 1.747206 CGGATGCTCCCTTCGGATTTT 60.747 52.381 0.00 0.00 37.60 1.82
4077 14466 1.678101 GGATGCTCCCTTCGGATTTTG 59.322 52.381 0.00 0.00 37.60 2.44
4078 14467 2.369394 GATGCTCCCTTCGGATTTTGT 58.631 47.619 0.00 0.00 37.60 2.83
4079 14468 3.541632 GATGCTCCCTTCGGATTTTGTA 58.458 45.455 0.00 0.00 37.60 2.41
4080 14469 3.644966 TGCTCCCTTCGGATTTTGTAT 57.355 42.857 0.00 0.00 37.60 2.29
4081 14470 3.963129 TGCTCCCTTCGGATTTTGTATT 58.037 40.909 0.00 0.00 37.60 1.89
4082 14471 4.340617 TGCTCCCTTCGGATTTTGTATTT 58.659 39.130 0.00 0.00 37.60 1.40
4083 14472 4.770010 TGCTCCCTTCGGATTTTGTATTTT 59.230 37.500 0.00 0.00 37.60 1.82
4084 14473 5.245075 TGCTCCCTTCGGATTTTGTATTTTT 59.755 36.000 0.00 0.00 37.60 1.94
4085 14474 6.434652 TGCTCCCTTCGGATTTTGTATTTTTA 59.565 34.615 0.00 0.00 37.60 1.52
4086 14475 7.123547 TGCTCCCTTCGGATTTTGTATTTTTAT 59.876 33.333 0.00 0.00 37.60 1.40
4087 14476 7.979537 GCTCCCTTCGGATTTTGTATTTTTATT 59.020 33.333 0.00 0.00 37.60 1.40
4088 14477 9.869757 CTCCCTTCGGATTTTGTATTTTTATTT 57.130 29.630 0.00 0.00 37.60 1.40
4092 14481 9.670180 CTTCGGATTTTGTATTTTTATTTTCGC 57.330 29.630 0.00 0.00 0.00 4.70
4093 14482 8.744008 TCGGATTTTGTATTTTTATTTTCGCA 57.256 26.923 0.00 0.00 0.00 5.10
4094 14483 8.640291 TCGGATTTTGTATTTTTATTTTCGCAC 58.360 29.630 0.00 0.00 0.00 5.34
4095 14484 7.625309 CGGATTTTGTATTTTTATTTTCGCACG 59.375 33.333 0.00 0.00 0.00 5.34
4096 14485 7.421331 GGATTTTGTATTTTTATTTTCGCACGC 59.579 33.333 0.00 0.00 0.00 5.34
4097 14486 5.408964 TTGTATTTTTATTTTCGCACGCG 57.591 34.783 3.53 3.53 41.35 6.01
4098 14487 4.465016 TGTATTTTTATTTTCGCACGCGT 58.535 34.783 5.58 5.58 40.74 6.01
4099 14488 4.910456 TGTATTTTTATTTTCGCACGCGTT 59.090 33.333 10.22 0.00 40.74 4.84
4100 14489 4.957832 ATTTTTATTTTCGCACGCGTTT 57.042 31.818 10.22 0.00 40.74 3.60
4101 14490 4.756868 TTTTTATTTTCGCACGCGTTTT 57.243 31.818 10.22 0.00 40.74 2.43
4102 14491 4.756868 TTTTATTTTCGCACGCGTTTTT 57.243 31.818 10.22 0.00 40.74 1.94
4103 14492 3.737766 TTATTTTCGCACGCGTTTTTG 57.262 38.095 10.22 0.00 40.74 2.44
4104 14493 0.849579 ATTTTCGCACGCGTTTTTGG 59.150 45.000 10.22 0.00 40.74 3.28
4105 14494 1.743855 TTTTCGCACGCGTTTTTGGC 61.744 50.000 10.22 9.05 40.74 4.52
4106 14495 2.600122 TTTCGCACGCGTTTTTGGCT 62.600 50.000 10.22 0.00 40.74 4.75
4107 14496 2.600122 TTCGCACGCGTTTTTGGCTT 62.600 50.000 10.22 0.00 40.74 4.35
4108 14497 2.227568 CGCACGCGTTTTTGGCTTT 61.228 52.632 10.22 0.00 34.35 3.51
4109 14498 1.747686 CGCACGCGTTTTTGGCTTTT 61.748 50.000 10.22 0.00 34.35 2.27
4110 14499 0.371989 GCACGCGTTTTTGGCTTTTT 59.628 45.000 10.22 0.00 0.00 1.94
4111 14500 1.588861 GCACGCGTTTTTGGCTTTTTA 59.411 42.857 10.22 0.00 0.00 1.52
4112 14501 2.029365 GCACGCGTTTTTGGCTTTTTAA 59.971 40.909 10.22 0.00 0.00 1.52
4113 14502 3.483738 GCACGCGTTTTTGGCTTTTTAAA 60.484 39.130 10.22 0.00 0.00 1.52
4114 14503 4.016623 CACGCGTTTTTGGCTTTTTAAAC 58.983 39.130 10.22 0.00 0.00 2.01
4117 14506 4.843879 CGTTTTTGGCTTTTTAAACGGT 57.156 36.364 10.17 0.00 45.26 4.83
4118 14507 5.205988 CGTTTTTGGCTTTTTAAACGGTT 57.794 34.783 10.17 0.00 45.26 4.44
4119 14508 5.619513 CGTTTTTGGCTTTTTAAACGGTTT 58.380 33.333 11.33 11.33 45.26 3.27
4120 14509 6.078479 CGTTTTTGGCTTTTTAAACGGTTTT 58.922 32.000 11.87 0.00 45.26 2.43
4121 14510 6.577800 CGTTTTTGGCTTTTTAAACGGTTTTT 59.422 30.769 11.87 0.00 45.26 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 7.986085 TGTCATTTTCCTTTTTGGACAAAAA 57.014 28.000 18.58 18.58 46.14 1.94
30 31 7.880195 TCTTGTCATTTTCCTTTTTGGACAAAA 59.120 29.630 6.14 6.14 46.14 2.44
32 33 6.940739 TCTTGTCATTTTCCTTTTTGGACAA 58.059 32.000 0.00 0.00 46.14 3.18
33 34 6.406849 CCTCTTGTCATTTTCCTTTTTGGACA 60.407 38.462 0.00 0.00 46.14 4.02
35 36 5.896678 TCCTCTTGTCATTTTCCTTTTTGGA 59.103 36.000 0.00 0.00 44.51 3.53
36 37 6.160576 TCCTCTTGTCATTTTCCTTTTTGG 57.839 37.500 0.00 0.00 37.10 3.28
37 38 8.491331 TTTTCCTCTTGTCATTTTCCTTTTTG 57.509 30.769 0.00 0.00 0.00 2.44
38 39 8.946085 GTTTTTCCTCTTGTCATTTTCCTTTTT 58.054 29.630 0.00 0.00 0.00 1.94
189 9762 2.505405 GGAGAGGTCCTGGAACAAAAC 58.495 52.381 15.35 2.51 40.17 2.43
300 9883 4.997395 CCGCCAGCTGTATGAATTAATACT 59.003 41.667 13.81 0.00 34.66 2.12
367 10015 5.964958 ATTTGGAAACGTGATTCATGTCT 57.035 34.783 11.80 0.00 31.86 3.41
579 10265 7.876582 AGGTTAATTGCTAGTTTAGTCGTCTTT 59.123 33.333 0.00 0.00 0.00 2.52
584 10274 8.699283 AGTAAGGTTAATTGCTAGTTTAGTCG 57.301 34.615 0.00 0.00 0.00 4.18
596 10286 6.173339 TGCCTGAAGAGAGTAAGGTTAATTG 58.827 40.000 0.00 0.00 32.06 2.32
922 10868 7.495901 CAGTGCTGGATAGTTATCATATAGGG 58.504 42.308 1.91 0.00 34.40 3.53
923 10869 6.983307 GCAGTGCTGGATAGTTATCATATAGG 59.017 42.308 8.18 0.00 34.40 2.57
977 10925 3.982052 TGGTTAGTGTTTCTTCCCCCTTA 59.018 43.478 0.00 0.00 0.00 2.69
1042 11345 1.303155 AGGCCAAGAAGAGCAGCAC 60.303 57.895 5.01 0.00 0.00 4.40
1122 11425 1.003839 GAGGCCACCATCACACGAA 60.004 57.895 5.01 0.00 0.00 3.85
1262 11567 2.038952 CTGGTGAGATTGGTGAGGAACA 59.961 50.000 0.00 0.00 0.00 3.18
1454 11761 0.595095 GCTGAACTGGTTGCTTGAGG 59.405 55.000 0.00 0.00 0.00 3.86
1881 12194 2.748605 CTACCTAAATGCAGCTCCTCG 58.251 52.381 0.00 0.00 0.00 4.63
2218 12533 2.094675 GCTCTTAAGGGCATGCAAAGA 58.905 47.619 22.70 18.96 0.00 2.52
2260 12576 7.440198 TCATTCATGAAGTTTGTGCCAATAAA 58.560 30.769 14.54 0.00 33.08 1.40
2346 12662 4.710324 TCCTTCCAGTAAACGAACATTGT 58.290 39.130 0.00 0.00 0.00 2.71
2349 12665 5.189145 AGGTATCCTTCCAGTAAACGAACAT 59.811 40.000 0.00 0.00 0.00 2.71
2912 13240 2.350514 GGAAGGTGCTCAGCTGCT 59.649 61.111 9.47 0.00 39.39 4.24
2928 13256 2.755929 GTCAAAGCTAGACGCCTGG 58.244 57.895 0.00 0.00 40.39 4.45
3262 13592 3.391296 TGTTATACCAGGAGCCATCTTCC 59.609 47.826 0.00 0.00 0.00 3.46
3273 13603 5.373812 AGAGGACCATTTGTTATACCAGG 57.626 43.478 0.00 0.00 0.00 4.45
3275 13605 5.424757 CGAAGAGGACCATTTGTTATACCA 58.575 41.667 0.00 0.00 0.00 3.25
3341 13673 8.301002 GGTGGATTTAACTGCAGTTATTTGTTA 58.699 33.333 33.72 18.78 39.89 2.41
3347 13690 4.264172 TGGGGTGGATTTAACTGCAGTTAT 60.264 41.667 33.72 23.95 39.89 1.89
3351 13694 2.214376 TGGGGTGGATTTAACTGCAG 57.786 50.000 13.48 13.48 0.00 4.41
3355 13698 4.757692 TGGAAATTGGGGTGGATTTAACT 58.242 39.130 0.00 0.00 0.00 2.24
3361 13704 1.079323 AGCTTGGAAATTGGGGTGGAT 59.921 47.619 0.00 0.00 0.00 3.41
3368 13711 1.478105 GCCCAGTAGCTTGGAAATTGG 59.522 52.381 5.98 0.00 40.87 3.16
3376 13719 4.454678 TGATCAATTAGCCCAGTAGCTTG 58.545 43.478 0.00 0.00 41.41 4.01
3381 13724 4.141413 ACTGCATGATCAATTAGCCCAGTA 60.141 41.667 0.00 0.00 30.09 2.74
3382 13725 3.220110 CTGCATGATCAATTAGCCCAGT 58.780 45.455 0.00 0.00 0.00 4.00
3383 13726 3.220110 ACTGCATGATCAATTAGCCCAG 58.780 45.455 0.00 1.74 0.00 4.45
3384 13727 3.301794 ACTGCATGATCAATTAGCCCA 57.698 42.857 0.00 0.00 0.00 5.36
3385 13728 5.972107 ATAACTGCATGATCAATTAGCCC 57.028 39.130 0.00 0.00 0.00 5.19
3386 13729 6.643770 CCAAATAACTGCATGATCAATTAGCC 59.356 38.462 0.00 0.00 0.00 3.93
3387 13730 7.205297 ACCAAATAACTGCATGATCAATTAGC 58.795 34.615 0.00 2.59 0.00 3.09
3393 13736 9.407380 AGTATTAACCAAATAACTGCATGATCA 57.593 29.630 0.00 0.00 31.82 2.92
3424 13767 9.754382 CTGCATGATATTAAGCCAAAAGTTATT 57.246 29.630 0.00 0.00 0.00 1.40
3425 13768 8.917088 ACTGCATGATATTAAGCCAAAAGTTAT 58.083 29.630 0.00 0.00 0.00 1.89
3426 13769 8.292444 ACTGCATGATATTAAGCCAAAAGTTA 57.708 30.769 0.00 0.00 0.00 2.24
3427 13770 7.174107 ACTGCATGATATTAAGCCAAAAGTT 57.826 32.000 0.00 0.00 0.00 2.66
3428 13771 6.780457 ACTGCATGATATTAAGCCAAAAGT 57.220 33.333 0.00 0.00 0.00 2.66
3429 13772 9.023967 GTTAACTGCATGATATTAAGCCAAAAG 57.976 33.333 0.00 0.00 0.00 2.27
3430 13773 8.748412 AGTTAACTGCATGATATTAAGCCAAAA 58.252 29.630 7.48 0.00 0.00 2.44
3431 13774 8.292444 AGTTAACTGCATGATATTAAGCCAAA 57.708 30.769 7.48 0.00 0.00 3.28
3432 13775 7.880160 AGTTAACTGCATGATATTAAGCCAA 57.120 32.000 7.48 0.00 0.00 4.52
3433 13776 7.990314 TGTAGTTAACTGCATGATATTAAGCCA 59.010 33.333 20.78 0.00 33.67 4.75
3434 13777 8.378172 TGTAGTTAACTGCATGATATTAAGCC 57.622 34.615 20.78 0.00 33.67 4.35
3506 13849 3.003394 TCCACGACTCGGAGGTAATTA 57.997 47.619 10.23 0.00 0.00 1.40
3508 13851 1.955080 GATCCACGACTCGGAGGTAAT 59.045 52.381 10.23 0.00 35.56 1.89
3593 13936 2.890474 CGGCCGGAATCGAACAGG 60.890 66.667 20.10 7.53 39.00 4.00
3632 13975 1.915078 AACATCTTCCCAGCCCCTCG 61.915 60.000 0.00 0.00 0.00 4.63
3642 13985 2.435938 TGCCGGCGAACATCTTCC 60.436 61.111 23.90 0.00 0.00 3.46
3680 14023 3.099170 CCCATCCCCTCCCCACTG 61.099 72.222 0.00 0.00 0.00 3.66
3702 14050 1.746727 CTCGCTGAAGCCATCGAACG 61.747 60.000 0.00 0.00 39.92 3.95
3776 14126 6.928492 GGAGAAGGTTCAATAGCTCTAAGATG 59.072 42.308 0.00 0.00 32.17 2.90
3777 14127 6.613271 TGGAGAAGGTTCAATAGCTCTAAGAT 59.387 38.462 0.00 0.00 32.17 2.40
3778 14128 5.958380 TGGAGAAGGTTCAATAGCTCTAAGA 59.042 40.000 0.00 0.00 32.17 2.10
3779 14129 6.045955 GTGGAGAAGGTTCAATAGCTCTAAG 58.954 44.000 0.00 0.00 32.17 2.18
3780 14130 5.721960 AGTGGAGAAGGTTCAATAGCTCTAA 59.278 40.000 0.00 0.00 32.17 2.10
3781 14131 5.127845 CAGTGGAGAAGGTTCAATAGCTCTA 59.872 44.000 0.00 0.00 32.17 2.43
3782 14132 4.081198 CAGTGGAGAAGGTTCAATAGCTCT 60.081 45.833 0.00 0.00 32.17 4.09
3783 14133 4.187694 CAGTGGAGAAGGTTCAATAGCTC 58.812 47.826 0.00 0.00 32.17 4.09
3784 14134 3.054802 CCAGTGGAGAAGGTTCAATAGCT 60.055 47.826 1.68 0.00 35.72 3.32
3785 14135 3.274288 CCAGTGGAGAAGGTTCAATAGC 58.726 50.000 1.68 0.00 0.00 2.97
3786 14136 4.256920 CACCAGTGGAGAAGGTTCAATAG 58.743 47.826 18.40 0.00 32.15 1.73
3787 14137 3.559171 GCACCAGTGGAGAAGGTTCAATA 60.559 47.826 18.40 0.00 32.15 1.90
3788 14138 2.815589 GCACCAGTGGAGAAGGTTCAAT 60.816 50.000 18.40 0.00 32.15 2.57
3789 14139 1.476833 GCACCAGTGGAGAAGGTTCAA 60.477 52.381 18.40 0.00 32.15 2.69
3791 14141 0.951040 CGCACCAGTGGAGAAGGTTC 60.951 60.000 18.40 0.00 32.15 3.62
3792 14142 1.071471 CGCACCAGTGGAGAAGGTT 59.929 57.895 18.40 0.00 32.15 3.50
3793 14143 2.743718 CGCACCAGTGGAGAAGGT 59.256 61.111 18.40 0.00 35.65 3.50
3794 14144 2.743928 GCGCACCAGTGGAGAAGG 60.744 66.667 18.40 2.23 0.00 3.46
3795 14145 0.957395 ATTGCGCACCAGTGGAGAAG 60.957 55.000 18.40 7.15 0.00 2.85
3797 14147 1.672030 CATTGCGCACCAGTGGAGA 60.672 57.895 18.40 0.00 0.00 3.71
3798 14148 2.872557 CATTGCGCACCAGTGGAG 59.127 61.111 18.40 9.68 0.00 3.86
3801 14151 0.673333 TCTACCATTGCGCACCAGTG 60.673 55.000 11.12 6.96 0.00 3.66
3803 14153 0.729116 CTTCTACCATTGCGCACCAG 59.271 55.000 11.12 3.42 0.00 4.00
3804 14154 0.676466 CCTTCTACCATTGCGCACCA 60.676 55.000 11.12 0.00 0.00 4.17
3807 14157 1.164411 CAACCTTCTACCATTGCGCA 58.836 50.000 5.66 5.66 0.00 6.09
3808 14158 0.451783 CCAACCTTCTACCATTGCGC 59.548 55.000 0.00 0.00 0.00 6.09
3809 14159 1.094785 CCCAACCTTCTACCATTGCG 58.905 55.000 0.00 0.00 0.00 4.85
3810 14160 0.817654 GCCCAACCTTCTACCATTGC 59.182 55.000 0.00 0.00 0.00 3.56
3811 14161 2.514458 AGCCCAACCTTCTACCATTG 57.486 50.000 0.00 0.00 0.00 2.82
3812 14162 3.850173 TCTAAGCCCAACCTTCTACCATT 59.150 43.478 0.00 0.00 0.00 3.16
3813 14163 3.460825 TCTAAGCCCAACCTTCTACCAT 58.539 45.455 0.00 0.00 0.00 3.55
3814 14164 2.910544 TCTAAGCCCAACCTTCTACCA 58.089 47.619 0.00 0.00 0.00 3.25
3815 14165 4.505324 AATCTAAGCCCAACCTTCTACC 57.495 45.455 0.00 0.00 0.00 3.18
3816 14166 6.094186 CAGAAAATCTAAGCCCAACCTTCTAC 59.906 42.308 0.00 0.00 0.00 2.59
3817 14167 6.180472 CAGAAAATCTAAGCCCAACCTTCTA 58.820 40.000 0.00 0.00 0.00 2.10
3893 14282 2.325583 TGAAGCCCAGTTATAAGCGG 57.674 50.000 0.00 0.00 0.00 5.52
3912 14301 0.106015 AGCTCAACTGGGCTGGTTTT 60.106 50.000 2.53 0.00 37.41 2.43
3964 14353 2.735762 CGCTAGTCAACTAGTTGCTCCC 60.736 54.545 27.49 18.84 45.85 4.30
3965 14354 2.094649 ACGCTAGTCAACTAGTTGCTCC 60.095 50.000 27.49 17.91 45.85 4.70
3966 14355 3.219052 ACGCTAGTCAACTAGTTGCTC 57.781 47.619 27.49 21.57 45.85 4.26
3967 14356 3.576648 GAACGCTAGTCAACTAGTTGCT 58.423 45.455 27.49 26.27 45.85 3.91
3968 14357 2.666994 GGAACGCTAGTCAACTAGTTGC 59.333 50.000 27.49 21.76 45.85 4.17
3969 14358 4.175787 AGGAACGCTAGTCAACTAGTTG 57.824 45.455 26.60 26.60 45.85 3.16
3970 14359 4.615452 CGAAGGAACGCTAGTCAACTAGTT 60.615 45.833 16.43 1.12 45.85 2.24
3971 14360 3.119919 CGAAGGAACGCTAGTCAACTAGT 60.120 47.826 16.43 0.00 45.85 2.57
3972 14361 3.427243 CGAAGGAACGCTAGTCAACTAG 58.573 50.000 11.99 11.99 46.63 2.57
3973 14362 3.482722 CGAAGGAACGCTAGTCAACTA 57.517 47.619 0.00 0.00 0.00 2.24
3974 14363 2.349297 CGAAGGAACGCTAGTCAACT 57.651 50.000 0.00 0.00 0.00 3.16
3989 14378 1.738099 CGTTGTGAGGCTCCCGAAG 60.738 63.158 12.86 0.00 0.00 3.79
3990 14379 2.204461 TCGTTGTGAGGCTCCCGAA 61.204 57.895 12.86 0.00 0.00 4.30
3991 14380 2.599281 TCGTTGTGAGGCTCCCGA 60.599 61.111 12.86 11.33 0.00 5.14
3992 14381 2.432628 GTCGTTGTGAGGCTCCCG 60.433 66.667 12.86 9.14 0.00 5.14
3993 14382 2.047179 GGTCGTTGTGAGGCTCCC 60.047 66.667 12.86 0.00 0.00 4.30
3994 14383 1.374758 CTGGTCGTTGTGAGGCTCC 60.375 63.158 12.86 4.00 0.00 4.70
3995 14384 2.029844 GCTGGTCGTTGTGAGGCTC 61.030 63.158 7.79 7.79 0.00 4.70
3996 14385 2.031163 GCTGGTCGTTGTGAGGCT 59.969 61.111 0.00 0.00 0.00 4.58
3997 14386 3.050275 GGCTGGTCGTTGTGAGGC 61.050 66.667 0.00 0.00 0.00 4.70
3998 14387 1.374758 GAGGCTGGTCGTTGTGAGG 60.375 63.158 0.00 0.00 0.00 3.86
3999 14388 0.946221 GTGAGGCTGGTCGTTGTGAG 60.946 60.000 0.00 0.00 0.00 3.51
4000 14389 1.069090 GTGAGGCTGGTCGTTGTGA 59.931 57.895 0.00 0.00 0.00 3.58
4001 14390 0.532862 AAGTGAGGCTGGTCGTTGTG 60.533 55.000 0.00 0.00 0.00 3.33
4002 14391 0.532862 CAAGTGAGGCTGGTCGTTGT 60.533 55.000 0.00 0.00 0.00 3.32
4003 14392 1.230635 CCAAGTGAGGCTGGTCGTTG 61.231 60.000 0.00 0.00 0.00 4.10
4004 14393 1.071471 CCAAGTGAGGCTGGTCGTT 59.929 57.895 0.00 0.00 0.00 3.85
4005 14394 2.743718 CCAAGTGAGGCTGGTCGT 59.256 61.111 0.00 0.00 0.00 4.34
4013 14402 4.749310 AGAGCGCGCCAAGTGAGG 62.749 66.667 30.33 0.00 0.00 3.86
4014 14403 3.184683 GAGAGCGCGCCAAGTGAG 61.185 66.667 30.33 0.00 0.00 3.51
4015 14404 3.921767 CTGAGAGCGCGCCAAGTGA 62.922 63.158 30.33 6.19 0.00 3.41
4016 14405 3.485431 CTGAGAGCGCGCCAAGTG 61.485 66.667 30.33 12.20 0.00 3.16
4026 14415 4.166888 TGATGGGCGGCTGAGAGC 62.167 66.667 9.56 0.00 41.46 4.09
4027 14416 2.202987 GTGATGGGCGGCTGAGAG 60.203 66.667 9.56 0.00 0.00 3.20
4028 14417 2.369633 ATGTGATGGGCGGCTGAGA 61.370 57.895 9.56 0.00 0.00 3.27
4029 14418 2.184830 CATGTGATGGGCGGCTGAG 61.185 63.158 9.56 0.00 0.00 3.35
4030 14419 2.124612 CATGTGATGGGCGGCTGA 60.125 61.111 9.56 0.00 0.00 4.26
4031 14420 2.438975 ACATGTGATGGGCGGCTG 60.439 61.111 9.56 0.00 33.60 4.85
4032 14421 2.124570 GACATGTGATGGGCGGCT 60.125 61.111 1.15 0.00 33.60 5.52
4033 14422 2.438254 TGACATGTGATGGGCGGC 60.438 61.111 1.15 0.00 33.60 6.53
4034 14423 2.463620 CGTGACATGTGATGGGCGG 61.464 63.158 1.15 0.00 33.60 6.13
4035 14424 3.092403 CGTGACATGTGATGGGCG 58.908 61.111 1.15 0.00 33.60 6.13
4036 14425 1.709147 GAGCGTGACATGTGATGGGC 61.709 60.000 1.15 0.00 33.60 5.36
4037 14426 1.091771 GGAGCGTGACATGTGATGGG 61.092 60.000 1.15 0.00 33.60 4.00
4038 14427 1.423721 CGGAGCGTGACATGTGATGG 61.424 60.000 1.15 0.00 33.60 3.51
4039 14428 1.423721 CCGGAGCGTGACATGTGATG 61.424 60.000 1.15 0.14 0.00 3.07
4040 14429 1.153568 CCGGAGCGTGACATGTGAT 60.154 57.895 1.15 0.00 0.00 3.06
4041 14430 1.604147 ATCCGGAGCGTGACATGTGA 61.604 55.000 11.34 0.00 0.00 3.58
4042 14431 1.153568 ATCCGGAGCGTGACATGTG 60.154 57.895 11.34 0.00 0.00 3.21
4043 14432 1.153568 CATCCGGAGCGTGACATGT 60.154 57.895 11.34 0.00 0.00 3.21
4044 14433 2.528743 GCATCCGGAGCGTGACATG 61.529 63.158 11.34 0.99 0.00 3.21
4045 14434 2.202932 GCATCCGGAGCGTGACAT 60.203 61.111 11.34 0.00 0.00 3.06
4046 14435 3.356639 GAGCATCCGGAGCGTGACA 62.357 63.158 11.34 0.00 37.01 3.58
4047 14436 2.583593 GAGCATCCGGAGCGTGAC 60.584 66.667 11.34 0.15 37.01 3.67
4066 14455 9.670180 GCGAAAATAAAAATACAAAATCCGAAG 57.330 29.630 0.00 0.00 0.00 3.79
4067 14456 9.193133 TGCGAAAATAAAAATACAAAATCCGAA 57.807 25.926 0.00 0.00 0.00 4.30
4068 14457 8.640291 GTGCGAAAATAAAAATACAAAATCCGA 58.360 29.630 0.00 0.00 0.00 4.55
4069 14458 7.625309 CGTGCGAAAATAAAAATACAAAATCCG 59.375 33.333 0.00 0.00 0.00 4.18
4070 14459 7.421331 GCGTGCGAAAATAAAAATACAAAATCC 59.579 33.333 0.00 0.00 0.00 3.01
4071 14460 7.158075 CGCGTGCGAAAATAAAAATACAAAATC 59.842 33.333 8.89 0.00 42.83 2.17
4072 14461 6.945491 CGCGTGCGAAAATAAAAATACAAAAT 59.055 30.769 8.89 0.00 42.83 1.82
4073 14462 6.074994 ACGCGTGCGAAAATAAAAATACAAAA 60.075 30.769 22.32 0.00 42.83 2.44
4074 14463 5.398711 ACGCGTGCGAAAATAAAAATACAAA 59.601 32.000 22.32 0.00 42.83 2.83
4075 14464 4.910456 ACGCGTGCGAAAATAAAAATACAA 59.090 33.333 22.32 0.00 42.83 2.41
4076 14465 4.465016 ACGCGTGCGAAAATAAAAATACA 58.535 34.783 22.32 0.00 42.83 2.29
4077 14466 5.410371 AACGCGTGCGAAAATAAAAATAC 57.590 34.783 22.32 0.00 42.83 1.89
4078 14467 6.435562 AAAACGCGTGCGAAAATAAAAATA 57.564 29.167 22.32 0.00 42.83 1.40
4079 14468 4.957832 AAACGCGTGCGAAAATAAAAAT 57.042 31.818 22.32 0.00 42.83 1.82
4080 14469 4.756868 AAAACGCGTGCGAAAATAAAAA 57.243 31.818 22.32 0.00 42.83 1.94
4081 14470 4.497100 CAAAAACGCGTGCGAAAATAAAA 58.503 34.783 22.32 0.00 42.83 1.52
4082 14471 3.061139 CCAAAAACGCGTGCGAAAATAAA 60.061 39.130 22.32 0.00 42.83 1.40
4083 14472 2.468040 CCAAAAACGCGTGCGAAAATAA 59.532 40.909 22.32 0.00 42.83 1.40
4084 14473 2.044860 CCAAAAACGCGTGCGAAAATA 58.955 42.857 22.32 0.00 42.83 1.40
4085 14474 0.849579 CCAAAAACGCGTGCGAAAAT 59.150 45.000 22.32 0.00 42.83 1.82
4086 14475 1.743855 GCCAAAAACGCGTGCGAAAA 61.744 50.000 22.32 0.00 42.83 2.29
4087 14476 2.224885 GCCAAAAACGCGTGCGAAA 61.225 52.632 22.32 0.00 42.83 3.46
4088 14477 2.600122 AAGCCAAAAACGCGTGCGAA 62.600 50.000 22.32 0.00 42.83 4.70
4089 14478 2.600122 AAAGCCAAAAACGCGTGCGA 62.600 50.000 22.32 0.00 42.83 5.10
4090 14479 1.747686 AAAAGCCAAAAACGCGTGCG 61.748 50.000 14.98 13.39 46.03 5.34
4091 14480 0.371989 AAAAAGCCAAAAACGCGTGC 59.628 45.000 14.98 12.13 0.00 5.34
4092 14481 3.909019 TTAAAAAGCCAAAAACGCGTG 57.091 38.095 14.98 0.00 0.00 5.34
4093 14482 3.241709 CGTTTAAAAAGCCAAAAACGCGT 60.242 39.130 5.58 5.58 44.94 6.01
4094 14483 3.265259 CGTTTAAAAAGCCAAAAACGCG 58.735 40.909 3.53 3.53 44.94 6.01
4097 14486 7.854934 AAAAACCGTTTAAAAAGCCAAAAAC 57.145 28.000 0.00 0.00 0.00 2.43


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

AutoCloner maintained by Alex Coulton.