Multiple sequence alignment - TraesCS1D01G262600

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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 TraesCS1D01G262600 chr1D 100.000 5889 0 0 1 5889 356873448 356867560 0.000000e+00 10876.0
1 TraesCS1D01G262600 chr1A 94.272 2706 110 21 462 3145 457961280 457958598 0.000000e+00 4096.0
2 TraesCS1D01G262600 chr1A 93.959 1109 57 8 3147 4249 457958515 457957411 0.000000e+00 1668.0
3 TraesCS1D01G262600 chr1A 91.960 908 38 17 4370 5251 457957384 457956486 0.000000e+00 1240.0
4 TraesCS1D01G262600 chr1A 87.884 553 33 6 5349 5889 457955868 457955338 2.330000e-173 619.0
5 TraesCS1D01G262600 chr1A 84.153 366 48 6 13 377 457962778 457962422 4.370000e-91 346.0
6 TraesCS1D01G262600 chr1B 95.426 2427 91 10 497 2910 480372714 480370295 0.000000e+00 3849.0
7 TraesCS1D01G262600 chr1B 92.931 1160 56 13 3147 4298 480369674 480368533 0.000000e+00 1664.0
8 TraesCS1D01G262600 chr1B 94.565 920 26 10 4353 5251 480368536 480367620 0.000000e+00 1400.0
9 TraesCS1D01G262600 chr1B 81.942 515 53 25 14 509 480374595 480374102 3.310000e-107 399.0
10 TraesCS1D01G262600 chr1B 94.492 236 10 2 2910 3145 480369987 480369755 1.560000e-95 361.0
11 TraesCS1D01G262600 chr1B 86.025 322 20 7 5352 5661 480362267 480361959 7.360000e-84 322.0
12 TraesCS1D01G262600 chr1B 91.772 158 12 1 5662 5819 480360567 480360411 9.940000e-53 219.0
13 TraesCS1D01G262600 chr1B 98.851 87 1 0 5250 5336 480367593 480367507 7.900000e-34 156.0
14 TraesCS1D01G262600 chr1B 100.000 76 0 0 5814 5889 480359869 480359794 2.210000e-29 141.0
15 TraesCS1D01G262600 chr3A 76.309 363 65 17 3234 3593 649034751 649034407 2.180000e-39 174.0
16 TraesCS1D01G262600 chr3D 86.250 160 21 1 3435 3593 514273805 514273646 7.850000e-39 172.0
17 TraesCS1D01G262600 chr3D 91.803 61 4 1 4295 4355 422648397 422648338 3.780000e-12 84.2
18 TraesCS1D01G262600 chr3D 82.178 101 12 6 4286 4382 122572166 122572264 1.360000e-11 82.4
19 TraesCS1D01G262600 chr3B 85.000 160 23 1 3435 3593 676627806 676627647 1.700000e-35 161.0
20 TraesCS1D01G262600 chr2B 93.548 62 2 1 4295 4354 796806455 796806516 2.260000e-14 91.6
21 TraesCS1D01G262600 chr2B 93.103 58 4 0 4297 4354 546587798 546587741 1.050000e-12 86.1
22 TraesCS1D01G262600 chr6B 93.333 60 3 1 4296 4354 434283523 434283582 2.920000e-13 87.9
23 TraesCS1D01G262600 chr7D 89.041 73 3 3 4309 4381 11018344 11018411 1.050000e-12 86.1
24 TraesCS1D01G262600 chr4B 90.769 65 5 1 4295 4358 553950920 553950984 1.050000e-12 86.1
25 TraesCS1D01G262600 chr4B 91.667 60 5 0 4295 4354 43064239 43064298 3.780000e-12 84.2
26 TraesCS1D01G262600 chr6A 91.667 60 4 1 4295 4353 9347323 9347264 1.360000e-11 82.4


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 TraesCS1D01G262600 chr1D 356867560 356873448 5888 True 10876.000000 10876 100.0000 1 5889 1 chr1D.!!$R1 5888
1 TraesCS1D01G262600 chr1A 457955338 457962778 7440 True 1593.800000 4096 90.4456 13 5889 5 chr1A.!!$R1 5876
2 TraesCS1D01G262600 chr1B 480367507 480374595 7088 True 1304.833333 3849 93.0345 14 5336 6 chr1B.!!$R2 5322
3 TraesCS1D01G262600 chr1B 480359794 480362267 2473 True 227.333333 322 92.5990 5352 5889 3 chr1B.!!$R1 537

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
344 372 0.241213 TGACTTGGAAGCGAGAGTCG 59.759 55.0 0.0 0.0 41.00 4.18 F
752 3246 0.471617 CCAGCTATCACCTCCCCTTG 59.528 60.0 0.0 0.0 0.00 3.61 F
1263 3766 0.824759 GTGCCTAATCTGGACCGTCT 59.175 55.0 0.0 0.0 0.00 4.18 F
2609 5125 0.958091 CGCAGGAACCAATGAACCAA 59.042 50.0 0.0 0.0 0.00 3.67 F
4355 7276 0.195096 TTTGGGACAGAGGGGGTACT 59.805 55.0 0.0 0.0 42.39 2.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1316 3819 0.109132 CCGCAAATCCTCAACTTGGC 60.109 55.00 0.00 0.00 0.00 4.52 R
2452 4965 4.334552 TCATGCCAGCATTTCTCTAACAA 58.665 39.13 1.47 0.00 33.90 2.83 R
3258 6172 1.784358 CAGCCCATGGATGGTGAATT 58.216 50.00 15.22 0.00 46.65 2.17 R
4546 7488 0.038618 CATCAACGATATCCGCCGGA 60.039 55.00 8.97 8.97 43.32 5.14 R
5387 8893 1.476235 CGAAATCACGTGCGGCGATA 61.476 55.00 12.98 0.00 44.77 2.92 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
28 29 3.558931 TTGGCGTGATGTCCTATGAAT 57.441 42.857 0.00 0.00 0.00 2.57
32 33 5.432645 TGGCGTGATGTCCTATGAATTTTA 58.567 37.500 0.00 0.00 0.00 1.52
35 36 5.853282 GCGTGATGTCCTATGAATTTTATGC 59.147 40.000 0.00 0.00 0.00 3.14
138 139 9.071221 TGTTTTGTGTTATTATCATCGATTTGC 57.929 29.630 0.00 0.00 0.00 3.68
140 141 9.853555 TTTTGTGTTATTATCATCGATTTGCTT 57.146 25.926 0.00 0.00 0.00 3.91
181 182 6.779115 AATCTACGCGCATGATTTTGTATA 57.221 33.333 5.73 0.00 0.00 1.47
190 191 6.580041 GCGCATGATTTTGTATAGATTTGAGG 59.420 38.462 0.30 0.00 0.00 3.86
228 229 1.698714 CGTTGACCGGGCGGATAAAC 61.699 60.000 6.32 1.04 38.96 2.01
251 252 2.562738 AGCCTTGGCCAAAAATAGTCAC 59.437 45.455 20.91 0.00 0.00 3.67
252 253 2.298729 GCCTTGGCCAAAAATAGTCACA 59.701 45.455 20.91 0.00 0.00 3.58
253 254 3.860754 GCCTTGGCCAAAAATAGTCACAC 60.861 47.826 20.91 0.00 0.00 3.82
255 256 4.298332 CTTGGCCAAAAATAGTCACACAC 58.702 43.478 20.91 0.00 0.00 3.82
256 257 3.291584 TGGCCAAAAATAGTCACACACA 58.708 40.909 0.61 0.00 0.00 3.72
257 258 3.701542 TGGCCAAAAATAGTCACACACAA 59.298 39.130 0.61 0.00 0.00 3.33
258 259 4.160439 TGGCCAAAAATAGTCACACACAAA 59.840 37.500 0.61 0.00 0.00 2.83
259 260 5.112686 GGCCAAAAATAGTCACACACAAAA 58.887 37.500 0.00 0.00 0.00 2.44
260 261 5.582665 GGCCAAAAATAGTCACACACAAAAA 59.417 36.000 0.00 0.00 0.00 1.94
286 287 3.222603 TCTGACTCAGCGATAATAGCCA 58.777 45.455 0.62 0.00 34.64 4.75
302 329 1.154205 GCCATCCGATCAAGGTGTCG 61.154 60.000 0.00 0.00 37.58 4.35
344 372 0.241213 TGACTTGGAAGCGAGAGTCG 59.759 55.000 0.00 0.00 41.00 4.18
377 405 7.383300 AGCACAAGCATCTTCTTTTTCAAATAC 59.617 33.333 0.00 0.00 45.49 1.89
378 406 7.383300 GCACAAGCATCTTCTTTTTCAAATACT 59.617 33.333 0.00 0.00 41.58 2.12
379 407 9.897744 CACAAGCATCTTCTTTTTCAAATACTA 57.102 29.630 0.00 0.00 0.00 1.82
416 486 8.767478 AATGACAATATCTGCCAAAAGAAAAG 57.233 30.769 0.00 0.00 0.00 2.27
428 500 9.489393 CTGCCAAAAGAAAAGAAAAATAAACAC 57.511 29.630 0.00 0.00 0.00 3.32
429 501 8.171840 TGCCAAAAGAAAAGAAAAATAAACACG 58.828 29.630 0.00 0.00 0.00 4.49
430 502 8.384365 GCCAAAAGAAAAGAAAAATAAACACGA 58.616 29.630 0.00 0.00 0.00 4.35
431 503 9.900264 CCAAAAGAAAAGAAAAATAAACACGAG 57.100 29.630 0.00 0.00 0.00 4.18
723 3217 2.704572 CCTGGGCTCCGATAATTGATC 58.295 52.381 0.00 0.00 0.00 2.92
752 3246 0.471617 CCAGCTATCACCTCCCCTTG 59.528 60.000 0.00 0.00 0.00 3.61
930 3424 1.831736 TCCTCCGTTCTCCAGATTTCC 59.168 52.381 0.00 0.00 0.00 3.13
997 3496 3.304996 GGAGCTCTTCTTTGGTTTCTTGC 60.305 47.826 14.64 0.00 0.00 4.01
1017 3517 1.826921 CATGCTGGGAGCCATGGAC 60.827 63.158 18.40 8.46 41.51 4.02
1131 3631 2.865600 AGGGAGAGGTCTGTGCCT 59.134 61.111 2.41 2.41 39.82 4.75
1231 3734 1.680249 GGGGTGAGATTTGACTCTGGC 60.680 57.143 0.00 0.00 37.73 4.85
1263 3766 0.824759 GTGCCTAATCTGGACCGTCT 59.175 55.000 0.00 0.00 0.00 4.18
1264 3767 1.207329 GTGCCTAATCTGGACCGTCTT 59.793 52.381 0.00 0.00 0.00 3.01
1301 3804 2.150390 TGGTCAAATGATGTCCACACG 58.850 47.619 0.00 0.00 41.48 4.49
1314 3817 1.686566 CCACACGCGCTGTAGTGATG 61.687 60.000 18.17 12.26 40.56 3.07
1316 3819 1.008875 ACACGCGCTGTAGTGATGTG 61.009 55.000 18.17 11.61 40.56 3.21
1333 3836 1.340889 TGTGCCAAGTTGAGGATTTGC 59.659 47.619 3.87 0.00 0.00 3.68
1381 3886 4.793216 GTGCTTGCTGTTACGAATAAATGG 59.207 41.667 0.00 0.00 0.00 3.16
1774 4287 4.141390 CCCAGTTGCTATTCTTACCCATCT 60.141 45.833 0.00 0.00 0.00 2.90
1794 4307 4.380531 TCTTCGCTGTTTGTCAGAAGAAT 58.619 39.130 4.02 0.00 46.27 2.40
1823 4336 8.457261 GCTATTCTTCTTTGAACAATCATGTCT 58.543 33.333 0.00 0.00 39.40 3.41
1952 4465 6.528537 TGTAAATCACATAAATTGCTGCCT 57.471 33.333 0.00 0.00 30.04 4.75
1972 4485 4.214971 GCCTGAGATTGTATAACATGCAGG 59.785 45.833 0.00 0.00 42.39 4.85
2045 4558 7.102346 AGTTCCTCAGTCATATCTTTCAGTTG 58.898 38.462 0.00 0.00 0.00 3.16
2072 4585 8.230486 ACATGCTTACTTTTCACTTCTTTATCG 58.770 33.333 0.00 0.00 0.00 2.92
2075 4588 8.922676 TGCTTACTTTTCACTTCTTTATCGTAG 58.077 33.333 0.00 0.00 0.00 3.51
2407 4920 8.243426 GGTTGTGCAAATTCATACAATCTTCTA 58.757 33.333 0.00 0.00 35.72 2.10
2452 4965 8.574737 CCTAACTGCCTTAACGTTCTATATAGT 58.425 37.037 2.82 1.05 0.00 2.12
2609 5125 0.958091 CGCAGGAACCAATGAACCAA 59.042 50.000 0.00 0.00 0.00 3.67
2735 5252 4.771903 TCAAGTTACAGCCACTGTTACAA 58.228 39.130 16.42 0.00 42.59 2.41
2781 5298 9.153721 GAATAATTCAAGAATGGCATGTTTTGA 57.846 29.630 0.00 8.94 0.00 2.69
2819 5336 3.813529 AATGACAACGTTCTTGCTAGC 57.186 42.857 8.10 8.10 0.00 3.42
2892 5416 7.095060 CGAGATTAATGATTATGAACCACTGGG 60.095 40.741 0.00 0.00 41.29 4.45
3175 6088 7.986085 ATTAATATGTAACACTGGCCATCTC 57.014 36.000 5.51 0.00 0.00 2.75
3180 6093 2.134789 AACACTGGCCATCTCCAATC 57.865 50.000 5.51 0.00 35.36 2.67
3257 6171 5.848286 TTCTTCAGCATATGGGGATACAT 57.152 39.130 4.56 0.00 39.74 2.29
3258 6172 6.950860 TTCTTCAGCATATGGGGATACATA 57.049 37.500 4.56 0.00 37.69 2.29
3369 6283 8.335356 CAGAAAAGTATCCAAATGTATGTACGG 58.665 37.037 0.00 0.00 0.00 4.02
3477 6391 7.771361 TGTTATGAGTAGTTCAACTTTGTTGGA 59.229 33.333 0.00 0.00 39.77 3.53
3701 6616 8.508875 CCATGTTCCGTTACAGTACTTATTTTT 58.491 33.333 0.00 0.00 0.00 1.94
3702 6617 9.325150 CATGTTCCGTTACAGTACTTATTTTTG 57.675 33.333 0.00 0.00 0.00 2.44
3703 6618 7.354257 TGTTCCGTTACAGTACTTATTTTTGC 58.646 34.615 0.00 0.00 0.00 3.68
3704 6619 7.012138 TGTTCCGTTACAGTACTTATTTTTGCA 59.988 33.333 0.00 0.00 0.00 4.08
3705 6620 7.493743 TCCGTTACAGTACTTATTTTTGCAA 57.506 32.000 0.00 0.00 0.00 4.08
3706 6621 7.577979 TCCGTTACAGTACTTATTTTTGCAAG 58.422 34.615 0.00 0.00 0.00 4.01
3708 6623 7.858879 CCGTTACAGTACTTATTTTTGCAAGTT 59.141 33.333 0.00 0.00 0.00 2.66
3709 6624 9.866936 CGTTACAGTACTTATTTTTGCAAGTTA 57.133 29.630 0.00 0.00 0.00 2.24
3799 6714 4.594920 AGGTTGATCCTGAACTCTTCTGAA 59.405 41.667 0.00 0.00 46.19 3.02
3802 6717 6.169094 GTTGATCCTGAACTCTTCTGAATGA 58.831 40.000 0.00 0.00 0.00 2.57
3840 6758 1.443828 TTTTTGGCGGCAAACTCCC 59.556 52.632 33.66 0.00 0.00 4.30
3841 6759 1.330655 TTTTTGGCGGCAAACTCCCA 61.331 50.000 33.66 18.09 0.00 4.37
3842 6760 2.022240 TTTTGGCGGCAAACTCCCAC 62.022 55.000 33.66 0.00 0.00 4.61
3849 6767 1.069500 CGGCAAACTCCCACGTTTTAG 60.069 52.381 0.00 0.00 35.06 1.85
3857 6775 4.879598 ACTCCCACGTTTTAGAAGTACAG 58.120 43.478 0.00 0.00 0.00 2.74
3900 6818 5.476599 AGGCTGATAGATGTTGAGCTAGTAG 59.523 44.000 0.00 0.00 0.00 2.57
3975 6893 7.815549 TCAGTTATTTGTTATGTTCTAGCGTCA 59.184 33.333 0.00 0.00 0.00 4.35
4006 6924 3.705043 GCCATGGCTTGTTAAGATGAG 57.295 47.619 29.98 0.00 38.26 2.90
4104 7022 1.628340 CACCAGTTGTATCTCACCCCA 59.372 52.381 0.00 0.00 0.00 4.96
4150 7070 7.282224 AGAGCTGTCAGTTAAAATGTTGTGTTA 59.718 33.333 0.93 0.00 0.00 2.41
4206 7126 2.104281 GCCCGGATAGTATGGAGTGTTT 59.896 50.000 0.73 0.00 0.00 2.83
4254 7175 3.187022 GCATCCCTTTTGAAAACATGCAC 59.813 43.478 14.75 0.00 36.11 4.57
4298 7219 5.389516 CCGTGCATAAACAAGACAACTACTC 60.390 44.000 0.00 0.00 0.00 2.59
4299 7220 5.389516 CGTGCATAAACAAGACAACTACTCC 60.390 44.000 0.00 0.00 0.00 3.85
4300 7221 5.001232 TGCATAAACAAGACAACTACTCCC 58.999 41.667 0.00 0.00 0.00 4.30
4301 7222 5.221843 TGCATAAACAAGACAACTACTCCCT 60.222 40.000 0.00 0.00 0.00 4.20
4302 7223 5.351740 GCATAAACAAGACAACTACTCCCTC 59.648 44.000 0.00 0.00 0.00 4.30
4303 7224 4.353383 AAACAAGACAACTACTCCCTCC 57.647 45.455 0.00 0.00 0.00 4.30
4304 7225 2.972348 ACAAGACAACTACTCCCTCCA 58.028 47.619 0.00 0.00 0.00 3.86
4305 7226 3.521727 ACAAGACAACTACTCCCTCCAT 58.478 45.455 0.00 0.00 0.00 3.41
4306 7227 3.515901 ACAAGACAACTACTCCCTCCATC 59.484 47.826 0.00 0.00 0.00 3.51
4307 7228 2.753247 AGACAACTACTCCCTCCATCC 58.247 52.381 0.00 0.00 0.00 3.51
4308 7229 2.044492 AGACAACTACTCCCTCCATCCA 59.956 50.000 0.00 0.00 0.00 3.41
4309 7230 2.838202 GACAACTACTCCCTCCATCCAA 59.162 50.000 0.00 0.00 0.00 3.53
4310 7231 3.256704 ACAACTACTCCCTCCATCCAAA 58.743 45.455 0.00 0.00 0.00 3.28
4311 7232 3.264450 ACAACTACTCCCTCCATCCAAAG 59.736 47.826 0.00 0.00 0.00 2.77
4312 7233 3.207044 ACTACTCCCTCCATCCAAAGT 57.793 47.619 0.00 0.00 0.00 2.66
4313 7234 3.532102 ACTACTCCCTCCATCCAAAGTT 58.468 45.455 0.00 0.00 0.00 2.66
4314 7235 4.695606 ACTACTCCCTCCATCCAAAGTTA 58.304 43.478 0.00 0.00 0.00 2.24
4315 7236 4.717280 ACTACTCCCTCCATCCAAAGTTAG 59.283 45.833 0.00 0.00 0.00 2.34
4316 7237 3.532102 ACTCCCTCCATCCAAAGTTAGT 58.468 45.455 0.00 0.00 0.00 2.24
4317 7238 4.695606 ACTCCCTCCATCCAAAGTTAGTA 58.304 43.478 0.00 0.00 0.00 1.82
4318 7239 4.470304 ACTCCCTCCATCCAAAGTTAGTAC 59.530 45.833 0.00 0.00 0.00 2.73
4319 7240 4.431378 TCCCTCCATCCAAAGTTAGTACA 58.569 43.478 0.00 0.00 0.00 2.90
4320 7241 4.847512 TCCCTCCATCCAAAGTTAGTACAA 59.152 41.667 0.00 0.00 0.00 2.41
4321 7242 5.311121 TCCCTCCATCCAAAGTTAGTACAAA 59.689 40.000 0.00 0.00 0.00 2.83
4322 7243 5.648092 CCCTCCATCCAAAGTTAGTACAAAG 59.352 44.000 0.00 0.00 0.00 2.77
4323 7244 6.238648 CCTCCATCCAAAGTTAGTACAAAGT 58.761 40.000 0.00 0.00 0.00 2.66
4324 7245 6.715264 CCTCCATCCAAAGTTAGTACAAAGTT 59.285 38.462 0.00 0.00 0.00 2.66
4325 7246 7.308589 CCTCCATCCAAAGTTAGTACAAAGTTG 60.309 40.741 0.00 0.00 0.00 3.16
4326 7247 7.284074 TCCATCCAAAGTTAGTACAAAGTTGA 58.716 34.615 0.00 0.00 0.00 3.18
4327 7248 7.444183 TCCATCCAAAGTTAGTACAAAGTTGAG 59.556 37.037 0.00 0.00 0.00 3.02
4328 7249 7.228706 CCATCCAAAGTTAGTACAAAGTTGAGT 59.771 37.037 0.00 0.00 0.00 3.41
4329 7250 7.781548 TCCAAAGTTAGTACAAAGTTGAGTC 57.218 36.000 0.00 0.00 0.00 3.36
4330 7251 7.332557 TCCAAAGTTAGTACAAAGTTGAGTCA 58.667 34.615 0.00 0.00 0.00 3.41
4331 7252 7.279313 TCCAAAGTTAGTACAAAGTTGAGTCAC 59.721 37.037 0.00 0.00 0.00 3.67
4332 7253 7.280205 CCAAAGTTAGTACAAAGTTGAGTCACT 59.720 37.037 0.00 0.00 0.00 3.41
4333 7254 8.665685 CAAAGTTAGTACAAAGTTGAGTCACTT 58.334 33.333 0.00 0.00 38.74 3.16
4334 7255 9.880157 AAAGTTAGTACAAAGTTGAGTCACTTA 57.120 29.630 0.00 0.00 35.87 2.24
4340 7261 8.621286 AGTACAAAGTTGAGTCACTTATTTTGG 58.379 33.333 12.94 0.78 35.87 3.28
4341 7262 6.805713 ACAAAGTTGAGTCACTTATTTTGGG 58.194 36.000 12.94 0.00 35.87 4.12
4342 7263 6.605594 ACAAAGTTGAGTCACTTATTTTGGGA 59.394 34.615 12.94 0.00 35.87 4.37
4343 7264 6.635030 AAGTTGAGTCACTTATTTTGGGAC 57.365 37.500 0.00 0.00 35.10 4.46
4344 7265 5.690865 AGTTGAGTCACTTATTTTGGGACA 58.309 37.500 0.00 0.00 0.00 4.02
4345 7266 5.765182 AGTTGAGTCACTTATTTTGGGACAG 59.235 40.000 0.00 0.00 42.39 3.51
4346 7267 5.560722 TGAGTCACTTATTTTGGGACAGA 57.439 39.130 0.00 0.00 42.39 3.41
4347 7268 5.551233 TGAGTCACTTATTTTGGGACAGAG 58.449 41.667 0.00 0.00 42.39 3.35
4348 7269 4.911390 AGTCACTTATTTTGGGACAGAGG 58.089 43.478 0.00 0.00 42.39 3.69
4349 7270 4.010349 GTCACTTATTTTGGGACAGAGGG 58.990 47.826 0.00 0.00 42.39 4.30
4350 7271 3.010138 TCACTTATTTTGGGACAGAGGGG 59.990 47.826 0.00 0.00 42.39 4.79
4351 7272 2.311841 ACTTATTTTGGGACAGAGGGGG 59.688 50.000 0.00 0.00 42.39 5.40
4352 7273 2.068831 TATTTTGGGACAGAGGGGGT 57.931 50.000 0.00 0.00 42.39 4.95
4353 7274 2.068831 ATTTTGGGACAGAGGGGGTA 57.931 50.000 0.00 0.00 42.39 3.69
4354 7275 1.069775 TTTTGGGACAGAGGGGGTAC 58.930 55.000 0.00 0.00 42.39 3.34
4355 7276 0.195096 TTTGGGACAGAGGGGGTACT 59.805 55.000 0.00 0.00 42.39 2.73
4359 7280 1.008084 GGGACAGAGGGGGTACTAGTT 59.992 57.143 0.00 0.00 0.00 2.24
4417 7341 9.783256 ACAGAATTAACTCTTGTGTTTAACAAC 57.217 29.630 0.00 0.00 43.96 3.32
4423 7347 5.123936 ACTCTTGTGTTTAACAACTCCTCC 58.876 41.667 0.00 0.00 43.96 4.30
4428 7368 5.017490 TGTGTTTAACAACTCCTCCCAAAA 58.983 37.500 0.00 0.00 35.24 2.44
4453 7393 3.864789 TTGGAGAGGTTCTGAAAAGCT 57.135 42.857 0.00 0.00 0.00 3.74
4715 7657 3.813443 ACCTCTCTCGCTAACGGTATTA 58.187 45.455 0.00 0.00 40.63 0.98
4870 7815 1.295423 CTCCACCGGGATGAAACGT 59.705 57.895 6.32 0.00 43.91 3.99
4893 7838 1.363885 AAAACGGGCCGCTAATCGAC 61.364 55.000 28.71 0.00 41.67 4.20
5075 8020 4.260253 GGTCGCTATGGAAGAAATTCGTTC 60.260 45.833 0.00 0.00 36.38 3.95
5169 8119 0.738412 ATTAACGCTGTCGGTTCGGG 60.738 55.000 0.00 0.00 40.69 5.14
5202 8153 5.455392 GTGATTGATCTGTGGTTCAAAGTG 58.545 41.667 0.00 0.00 35.59 3.16
5310 8290 3.979911 TGGCATTCCAATGTATGAACCT 58.020 40.909 1.37 0.00 39.99 3.50
5344 8324 2.266554 GAAGATCACTCACTTGCCTCG 58.733 52.381 0.00 0.00 0.00 4.63
5387 8893 4.260985 TCTGCCGTTGTAACATCATGATT 58.739 39.130 5.16 0.00 0.00 2.57
5395 8901 3.431912 TGTAACATCATGATTATCGCCGC 59.568 43.478 5.16 0.00 0.00 6.53
5417 8923 1.400113 CGTGATTTCGTTGTGCATGCT 60.400 47.619 20.33 0.00 0.00 3.79
5470 8976 6.154363 TGTGAATCTGTGATAGTGGTATGTGA 59.846 38.462 0.00 0.00 0.00 3.58
5557 9074 3.799753 CCGACAAATGCTCGGGAG 58.200 61.111 13.24 0.00 45.90 4.30
5568 9085 1.718757 GCTCGGGAGCGCATGAAATT 61.719 55.000 11.47 0.00 45.29 1.82
5573 9090 1.332997 GGGAGCGCATGAAATTGAGAG 59.667 52.381 11.47 0.00 0.00 3.20
5583 9100 6.626488 CGCATGAAATTGAGAGATTTACTTCG 59.374 38.462 0.00 0.00 29.75 3.79
5584 9101 7.467623 GCATGAAATTGAGAGATTTACTTCGT 58.532 34.615 0.00 0.00 29.75 3.85
5593 9110 9.731819 TTGAGAGATTTACTTCGTATACATGTC 57.268 33.333 0.00 0.00 0.00 3.06
5599 9116 4.548991 ACTTCGTATACATGTCGGAGTC 57.451 45.455 12.34 0.00 38.81 3.36
5607 9124 5.899120 ATACATGTCGGAGTCGCTATTAT 57.101 39.130 0.00 0.00 36.13 1.28
5612 9129 7.152645 ACATGTCGGAGTCGCTATTATATTTT 58.847 34.615 0.00 0.00 36.13 1.82
5613 9130 7.328737 ACATGTCGGAGTCGCTATTATATTTTC 59.671 37.037 0.00 0.00 36.13 2.29
5614 9131 6.154445 TGTCGGAGTCGCTATTATATTTTCC 58.846 40.000 0.00 0.00 36.13 3.13
5619 9136 7.043325 CGGAGTCGCTATTATATTTTCCTATGC 60.043 40.741 0.00 0.00 0.00 3.14
5710 10619 7.161773 AGAATTATGTCAATTCCAGGTGTTG 57.838 36.000 6.19 0.00 37.36 3.33
5724 10633 0.111266 GTGTTGTAGACAGCAACGCG 60.111 55.000 3.53 3.53 46.48 6.01
5764 10673 4.415596 TGCAGGTCATATTTTTGGAAGGT 58.584 39.130 0.00 0.00 0.00 3.50
5788 10697 4.272504 GCTCCAAAATTCATGGCATCATTG 59.727 41.667 0.00 0.00 37.88 2.82
5809 10718 4.832248 TGTGCTTGGTCTATTCCTAAGTG 58.168 43.478 0.00 0.00 0.00 3.16
5810 10719 3.623510 GTGCTTGGTCTATTCCTAAGTGC 59.376 47.826 0.00 0.00 0.00 4.40
5811 10720 3.519510 TGCTTGGTCTATTCCTAAGTGCT 59.480 43.478 0.00 0.00 0.00 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.223711 GGACATCACGCCAAAACAACTT 60.224 45.455 0.00 0.00 0.00 2.66
1 2 1.336755 GGACATCACGCCAAAACAACT 59.663 47.619 0.00 0.00 0.00 3.16
2 3 1.336755 AGGACATCACGCCAAAACAAC 59.663 47.619 0.00 0.00 0.00 3.32
3 4 1.686355 AGGACATCACGCCAAAACAA 58.314 45.000 0.00 0.00 0.00 2.83
4 5 2.552599 TAGGACATCACGCCAAAACA 57.447 45.000 0.00 0.00 0.00 2.83
5 6 3.006940 TCATAGGACATCACGCCAAAAC 58.993 45.455 0.00 0.00 0.00 2.43
6 7 3.342377 TCATAGGACATCACGCCAAAA 57.658 42.857 0.00 0.00 0.00 2.44
7 8 3.342377 TTCATAGGACATCACGCCAAA 57.658 42.857 0.00 0.00 0.00 3.28
8 9 3.558931 ATTCATAGGACATCACGCCAA 57.441 42.857 0.00 0.00 0.00 4.52
9 10 3.558931 AATTCATAGGACATCACGCCA 57.441 42.857 0.00 0.00 0.00 5.69
10 11 4.900635 AAAATTCATAGGACATCACGCC 57.099 40.909 0.00 0.00 0.00 5.68
11 12 5.853282 GCATAAAATTCATAGGACATCACGC 59.147 40.000 0.00 0.00 0.00 5.34
126 127 8.301720 ACAATGCATATTAAGCAAATCGATGAT 58.698 29.630 0.00 0.00 46.27 2.45
141 142 9.541724 CGCGTAGATTATTTAACAATGCATATT 57.458 29.630 0.00 0.00 0.00 1.28
147 148 7.068955 TCATGCGCGTAGATTATTTAACAATG 58.931 34.615 8.43 0.00 0.00 2.82
150 151 6.779115 ATCATGCGCGTAGATTATTTAACA 57.221 33.333 8.43 0.00 0.00 2.41
158 159 5.673337 ATACAAAATCATGCGCGTAGATT 57.327 34.783 8.43 16.53 33.68 2.40
181 182 5.147032 TCCACATTCCAAAACCTCAAATCT 58.853 37.500 0.00 0.00 0.00 2.40
190 191 1.778334 GGCGTTCCACATTCCAAAAC 58.222 50.000 0.00 0.00 0.00 2.43
219 220 2.014594 CCAAGGCTCGTTTATCCGC 58.985 57.895 0.00 0.00 0.00 5.54
228 229 1.818674 ACTATTTTTGGCCAAGGCTCG 59.181 47.619 19.48 11.00 41.60 5.03
260 261 6.203723 GGCTATTATCGCTGAGTCAGATTTTT 59.796 38.462 24.55 5.83 32.44 1.94
261 262 5.698545 GGCTATTATCGCTGAGTCAGATTTT 59.301 40.000 24.55 7.35 32.44 1.82
262 263 5.221521 TGGCTATTATCGCTGAGTCAGATTT 60.222 40.000 24.55 9.09 32.44 2.17
263 264 4.281941 TGGCTATTATCGCTGAGTCAGATT 59.718 41.667 24.55 9.44 32.44 2.40
264 265 3.829026 TGGCTATTATCGCTGAGTCAGAT 59.171 43.478 24.55 11.83 32.44 2.90
286 287 3.198068 CATTTCGACACCTTGATCGGAT 58.802 45.455 0.00 0.00 38.86 4.18
302 329 2.864343 CGATACGGAACCACTCCATTTC 59.136 50.000 0.00 0.00 45.74 2.17
344 372 2.977772 AGATGCTTGTGCTACTCCTC 57.022 50.000 0.00 0.00 40.48 3.71
377 405 9.698309 AGATATTGTCATTTCCGTCAGTTATAG 57.302 33.333 0.00 0.00 0.00 1.31
378 406 9.476202 CAGATATTGTCATTTCCGTCAGTTATA 57.524 33.333 0.00 0.00 0.00 0.98
379 407 7.041780 GCAGATATTGTCATTTCCGTCAGTTAT 60.042 37.037 0.00 0.00 0.00 1.89
383 453 4.024556 GGCAGATATTGTCATTTCCGTCAG 60.025 45.833 0.00 0.00 0.00 3.51
416 486 9.170584 CTCTCCTTTTTCTCGTGTTTATTTTTC 57.829 33.333 0.00 0.00 0.00 2.29
422 494 4.957296 AGCTCTCCTTTTTCTCGTGTTTA 58.043 39.130 0.00 0.00 0.00 2.01
423 495 3.809905 AGCTCTCCTTTTTCTCGTGTTT 58.190 40.909 0.00 0.00 0.00 2.83
425 497 3.321111 TGTAGCTCTCCTTTTTCTCGTGT 59.679 43.478 0.00 0.00 0.00 4.49
426 498 3.914312 TGTAGCTCTCCTTTTTCTCGTG 58.086 45.455 0.00 0.00 0.00 4.35
428 500 4.442375 TCTGTAGCTCTCCTTTTTCTCG 57.558 45.455 0.00 0.00 0.00 4.04
429 501 4.629634 GCTTCTGTAGCTCTCCTTTTTCTC 59.370 45.833 0.00 0.00 46.77 2.87
430 502 4.574892 GCTTCTGTAGCTCTCCTTTTTCT 58.425 43.478 0.00 0.00 46.77 2.52
431 503 4.937696 GCTTCTGTAGCTCTCCTTTTTC 57.062 45.455 0.00 0.00 46.77 2.29
592 3086 3.536394 CTGTACTGCAGCGTCGCG 61.536 66.667 15.27 0.00 38.52 5.87
610 3104 2.202676 GCTCGCTGTTCCTCCTCG 60.203 66.667 0.00 0.00 0.00 4.63
723 3217 0.739462 TGATAGCTGGGTTTGCGTCG 60.739 55.000 0.00 0.00 35.28 5.12
905 3399 0.174617 CTGGAGAACGGAGGAAGAGC 59.825 60.000 0.00 0.00 0.00 4.09
997 3496 1.528542 CCATGGCTCCCAGCATGAG 60.529 63.158 0.00 0.00 44.75 2.90
1131 3631 2.027745 GCAGTTCACAAGAGGAGGATGA 60.028 50.000 0.00 0.00 0.00 2.92
1202 3705 0.976073 AATCTCACCCCCACGACGAT 60.976 55.000 0.00 0.00 0.00 3.73
1213 3716 1.743996 GGCCAGAGTCAAATCTCACC 58.256 55.000 0.00 0.00 36.97 4.02
1231 3734 0.739462 TAGGCACAAATCTCGCACGG 60.739 55.000 0.00 0.00 0.00 4.94
1263 3766 2.158559 CCATCACCGAAATCACACCAA 58.841 47.619 0.00 0.00 0.00 3.67
1264 3767 1.073125 ACCATCACCGAAATCACACCA 59.927 47.619 0.00 0.00 0.00 4.17
1275 3778 2.355756 GGACATCATTTGACCATCACCG 59.644 50.000 0.00 0.00 39.62 4.94
1297 3800 1.008875 CACATCACTACAGCGCGTGT 61.009 55.000 8.43 13.50 43.86 4.49
1300 3803 2.697425 GCACATCACTACAGCGCG 59.303 61.111 0.00 0.00 0.00 6.86
1301 3804 1.298157 TTGGCACATCACTACAGCGC 61.298 55.000 0.00 0.00 39.30 5.92
1314 3817 1.666888 CGCAAATCCTCAACTTGGCAC 60.667 52.381 0.00 0.00 0.00 5.01
1316 3819 0.109132 CCGCAAATCCTCAACTTGGC 60.109 55.000 0.00 0.00 0.00 4.52
1333 3836 1.802960 CTAGCATTAGCAGGCAATCCG 59.197 52.381 0.00 0.00 45.49 4.18
1381 3886 1.233019 CCAATCGAGGACATCATGCC 58.767 55.000 0.00 0.00 0.00 4.40
1487 3992 8.511321 CACAGGCACATATTTACTTAAGAACAA 58.489 33.333 10.09 0.00 0.00 2.83
1549 4054 9.953565 AAGTAACTCAGCAATATACCTACAAAA 57.046 29.630 0.00 0.00 0.00 2.44
1774 4287 5.273170 CAAATTCTTCTGACAAACAGCGAA 58.727 37.500 0.00 0.00 45.38 4.70
1794 4307 9.414295 CATGATTGTTCAAAGAAGAATAGCAAA 57.586 29.630 2.62 0.00 34.96 3.68
1823 4336 8.575589 TGAGCAGCTTTTCATATAAAAAGAACA 58.424 29.630 14.26 4.40 45.12 3.18
1952 4465 6.239217 AGTCCTGCATGTTATACAATCTCA 57.761 37.500 0.00 0.00 0.00 3.27
1972 4485 6.764877 TCTTGTTTCGTCAATGAGTTAGTC 57.235 37.500 0.00 0.00 0.00 2.59
2045 4558 9.548208 GATAAAGAAGTGAAAAGTAAGCATGTC 57.452 33.333 0.00 0.00 0.00 3.06
2075 4588 9.946165 GCCACTCAAGTAATATAATGGTTAAAC 57.054 33.333 0.00 0.00 0.00 2.01
2164 4677 7.340743 TGTGTCACTTTAAATCAGGGAGAAAAA 59.659 33.333 4.27 0.00 0.00 1.94
2452 4965 4.334552 TCATGCCAGCATTTCTCTAACAA 58.665 39.130 1.47 0.00 33.90 2.83
2781 5298 8.935844 GTTGTCATTTTCTCAAAAGGAAAAAGT 58.064 29.630 1.60 0.00 42.02 2.66
2819 5336 5.107133 GCTTGGATGAAAATCACCATTGAG 58.893 41.667 0.00 0.00 34.35 3.02
2924 5756 3.857157 TTACCTGGTGTCAAGCTTCTT 57.143 42.857 10.23 0.00 0.00 2.52
3157 6070 1.915489 TGGAGATGGCCAGTGTTACAT 59.085 47.619 13.05 0.00 33.10 2.29
3160 6073 2.092429 GGATTGGAGATGGCCAGTGTTA 60.092 50.000 13.05 0.00 39.52 2.41
3175 6088 6.991938 TGAAAGTGTTTCTATTTGGGATTGG 58.008 36.000 1.39 0.00 40.32 3.16
3257 6171 2.948115 CAGCCCATGGATGGTGAATTA 58.052 47.619 15.22 0.00 46.65 1.40
3258 6172 1.784358 CAGCCCATGGATGGTGAATT 58.216 50.000 15.22 0.00 46.65 2.17
3308 6222 3.621268 TCCTGACAAGTTTCTTCACAACG 59.379 43.478 0.00 0.00 0.00 4.10
3369 6283 1.461127 CAGCTTGAGGTGAAAGTACGC 59.539 52.381 4.23 0.00 45.66 4.42
3459 6373 4.870221 ACGTCCAACAAAGTTGAACTAC 57.130 40.909 11.19 0.00 0.00 2.73
3477 6391 3.213402 CGTGGCCCCAACAAACGT 61.213 61.111 0.00 0.00 0.00 3.99
3665 6580 3.495434 ACGGAACATGGTCCTAAAACA 57.505 42.857 27.03 0.00 35.31 2.83
3677 6592 8.019094 GCAAAAATAAGTACTGTAACGGAACAT 58.981 33.333 0.00 0.00 0.00 2.71
3790 6705 7.391554 TGGGAGTTTTACATTCATTCAGAAGAG 59.608 37.037 0.00 0.00 40.15 2.85
3840 6758 5.867716 AGGCATACTGTACTTCTAAAACGTG 59.132 40.000 0.00 0.00 0.00 4.49
3841 6759 6.034161 AGGCATACTGTACTTCTAAAACGT 57.966 37.500 0.00 0.00 0.00 3.99
3842 6760 6.963049 AAGGCATACTGTACTTCTAAAACG 57.037 37.500 0.00 0.00 0.00 3.60
3843 6761 8.654215 GTGTAAGGCATACTGTACTTCTAAAAC 58.346 37.037 1.26 0.00 35.42 2.43
3849 6767 5.721232 ACTGTGTAAGGCATACTGTACTTC 58.279 41.667 1.26 0.00 35.42 3.01
3900 6818 3.806625 ATCAATACAAATGCTGCCCAC 57.193 42.857 0.00 0.00 0.00 4.61
4006 6924 9.444600 TTTGTGGGTCAATTACTAGTAGAATTC 57.555 33.333 3.59 0.00 35.84 2.17
4023 6941 1.388547 TTCTGCACTGTTTGTGGGTC 58.611 50.000 0.00 0.00 46.27 4.46
4070 6988 4.947388 ACAACTGGTGAGCAAACTTAGAAA 59.053 37.500 0.00 0.00 0.00 2.52
4072 6990 4.150897 ACAACTGGTGAGCAAACTTAGA 57.849 40.909 0.00 0.00 0.00 2.10
4218 7138 4.322057 AGGGATGCCACTGAAATAGTTT 57.678 40.909 5.86 0.00 37.60 2.66
4266 7187 1.271434 TGTTTATGCACGGGCCAACTA 60.271 47.619 7.46 0.00 40.13 2.24
4298 7219 4.837093 TGTACTAACTTTGGATGGAGGG 57.163 45.455 0.00 0.00 0.00 4.30
4299 7220 6.238648 ACTTTGTACTAACTTTGGATGGAGG 58.761 40.000 0.00 0.00 0.00 4.30
4300 7221 7.444183 TCAACTTTGTACTAACTTTGGATGGAG 59.556 37.037 0.00 0.00 0.00 3.86
4301 7222 7.284074 TCAACTTTGTACTAACTTTGGATGGA 58.716 34.615 0.00 0.00 0.00 3.41
4302 7223 7.228706 ACTCAACTTTGTACTAACTTTGGATGG 59.771 37.037 0.00 0.00 0.00 3.51
4303 7224 8.154649 ACTCAACTTTGTACTAACTTTGGATG 57.845 34.615 0.00 0.00 0.00 3.51
4304 7225 7.990886 TGACTCAACTTTGTACTAACTTTGGAT 59.009 33.333 0.00 0.00 0.00 3.41
4305 7226 7.279313 GTGACTCAACTTTGTACTAACTTTGGA 59.721 37.037 0.00 0.00 0.00 3.53
4306 7227 7.280205 AGTGACTCAACTTTGTACTAACTTTGG 59.720 37.037 0.00 0.00 0.00 3.28
4307 7228 8.197988 AGTGACTCAACTTTGTACTAACTTTG 57.802 34.615 0.00 0.00 0.00 2.77
4308 7229 8.788325 AAGTGACTCAACTTTGTACTAACTTT 57.212 30.769 0.00 0.00 37.05 2.66
4314 7235 8.621286 CCAAAATAAGTGACTCAACTTTGTACT 58.379 33.333 0.00 0.00 40.77 2.73
4315 7236 7.860872 CCCAAAATAAGTGACTCAACTTTGTAC 59.139 37.037 0.00 0.00 40.77 2.90
4316 7237 7.776030 TCCCAAAATAAGTGACTCAACTTTGTA 59.224 33.333 0.00 0.00 40.77 2.41
4317 7238 6.605594 TCCCAAAATAAGTGACTCAACTTTGT 59.394 34.615 0.00 0.00 40.77 2.83
4318 7239 6.918022 GTCCCAAAATAAGTGACTCAACTTTG 59.082 38.462 0.00 0.00 40.77 2.77
4319 7240 6.605594 TGTCCCAAAATAAGTGACTCAACTTT 59.394 34.615 0.00 0.00 40.77 2.66
4320 7241 6.126409 TGTCCCAAAATAAGTGACTCAACTT 58.874 36.000 0.00 0.00 42.89 2.66
4321 7242 5.690865 TGTCCCAAAATAAGTGACTCAACT 58.309 37.500 0.00 0.00 0.00 3.16
4322 7243 5.763204 TCTGTCCCAAAATAAGTGACTCAAC 59.237 40.000 0.00 0.00 0.00 3.18
4323 7244 5.935945 TCTGTCCCAAAATAAGTGACTCAA 58.064 37.500 0.00 0.00 0.00 3.02
4324 7245 5.513094 CCTCTGTCCCAAAATAAGTGACTCA 60.513 44.000 0.00 0.00 0.00 3.41
4325 7246 4.938226 CCTCTGTCCCAAAATAAGTGACTC 59.062 45.833 0.00 0.00 0.00 3.36
4326 7247 4.263506 CCCTCTGTCCCAAAATAAGTGACT 60.264 45.833 0.00 0.00 0.00 3.41
4327 7248 4.010349 CCCTCTGTCCCAAAATAAGTGAC 58.990 47.826 0.00 0.00 0.00 3.67
4328 7249 3.010138 CCCCTCTGTCCCAAAATAAGTGA 59.990 47.826 0.00 0.00 0.00 3.41
4329 7250 3.356290 CCCCTCTGTCCCAAAATAAGTG 58.644 50.000 0.00 0.00 0.00 3.16
4330 7251 2.311841 CCCCCTCTGTCCCAAAATAAGT 59.688 50.000 0.00 0.00 0.00 2.24
4331 7252 2.311841 ACCCCCTCTGTCCCAAAATAAG 59.688 50.000 0.00 0.00 0.00 1.73
4332 7253 2.364190 ACCCCCTCTGTCCCAAAATAA 58.636 47.619 0.00 0.00 0.00 1.40
4333 7254 2.068831 ACCCCCTCTGTCCCAAAATA 57.931 50.000 0.00 0.00 0.00 1.40
4334 7255 1.639108 GTACCCCCTCTGTCCCAAAAT 59.361 52.381 0.00 0.00 0.00 1.82
4335 7256 1.069775 GTACCCCCTCTGTCCCAAAA 58.930 55.000 0.00 0.00 0.00 2.44
4336 7257 0.195096 AGTACCCCCTCTGTCCCAAA 59.805 55.000 0.00 0.00 0.00 3.28
4337 7258 1.007963 CTAGTACCCCCTCTGTCCCAA 59.992 57.143 0.00 0.00 0.00 4.12
4338 7259 0.635009 CTAGTACCCCCTCTGTCCCA 59.365 60.000 0.00 0.00 0.00 4.37
4339 7260 0.635555 ACTAGTACCCCCTCTGTCCC 59.364 60.000 0.00 0.00 0.00 4.46
4340 7261 2.546652 AACTAGTACCCCCTCTGTCC 57.453 55.000 0.00 0.00 0.00 4.02
4341 7262 4.248174 AGTAACTAGTACCCCCTCTGTC 57.752 50.000 0.00 0.00 32.58 3.51
4342 7263 5.803463 TTAGTAACTAGTACCCCCTCTGT 57.197 43.478 0.00 0.00 32.58 3.41
4343 7264 7.564292 AGATTTTAGTAACTAGTACCCCCTCTG 59.436 40.741 0.00 0.00 32.58 3.35
4344 7265 7.660169 AGATTTTAGTAACTAGTACCCCCTCT 58.340 38.462 0.00 0.00 32.58 3.69
4345 7266 7.911130 AGATTTTAGTAACTAGTACCCCCTC 57.089 40.000 0.00 0.00 32.58 4.30
4417 7341 6.705863 CTCTCCAATAATTTTTGGGAGGAG 57.294 41.667 22.64 20.89 45.21 3.69
4423 7347 7.466746 TCAGAACCTCTCCAATAATTTTTGG 57.533 36.000 18.59 18.59 46.28 3.28
4428 7368 6.950619 AGCTTTTCAGAACCTCTCCAATAATT 59.049 34.615 0.00 0.00 0.00 1.40
4546 7488 0.038618 CATCAACGATATCCGCCGGA 60.039 55.000 8.97 8.97 43.32 5.14
4688 7630 2.097791 CGTTAGCGAGAGAGGTAAAGCT 59.902 50.000 0.00 0.00 41.33 3.74
4715 7657 6.365970 GGATTCATCCTGGTGATATGTAGT 57.634 41.667 0.00 0.00 43.73 2.73
4893 7838 4.728882 GCAAATCAGTATTCAGAAGCACGG 60.729 45.833 0.00 0.00 0.00 4.94
5075 8020 1.874019 CGATTCCACGAGCAGACGG 60.874 63.158 0.00 0.00 37.61 4.79
5137 8087 5.250200 ACAGCGTTAATATTTGGGAGTCAA 58.750 37.500 0.00 0.00 0.00 3.18
5157 8107 2.989166 GTTAACTAACCCGAACCGACAG 59.011 50.000 0.00 0.00 0.00 3.51
5169 8119 6.367969 ACCACAGATCAATCACGTTAACTAAC 59.632 38.462 3.71 0.00 0.00 2.34
5202 8153 7.339466 ACCCTGATTATTGTCCACAACTATTTC 59.661 37.037 0.00 0.00 38.86 2.17
5310 8290 5.250982 AGTGATCTTCATGATGTTGCTTGA 58.749 37.500 8.33 0.00 35.14 3.02
5344 8324 6.491394 CAGAGAGACATGCTTACTACTGTAC 58.509 44.000 0.00 0.00 0.00 2.90
5387 8893 1.476235 CGAAATCACGTGCGGCGATA 61.476 55.000 12.98 0.00 44.77 2.92
5395 8901 1.971284 CATGCACAACGAAATCACGTG 59.029 47.619 9.94 9.94 45.83 4.49
5417 8923 8.347004 TCAGTTCATTAGACATGCCAATAAAA 57.653 30.769 0.00 0.00 0.00 1.52
5470 8976 1.692519 AGGAGCAACTTCGTTGTAGGT 59.307 47.619 8.34 0.00 44.40 3.08
5557 9074 5.814783 AGTAAATCTCTCAATTTCATGCGC 58.185 37.500 0.00 0.00 31.50 6.09
5559 9076 7.467623 ACGAAGTAAATCTCTCAATTTCATGC 58.532 34.615 0.00 0.00 41.94 4.06
5583 9100 4.681835 ATAGCGACTCCGACATGTATAC 57.318 45.455 0.00 0.00 38.22 1.47
5584 9101 6.997239 ATAATAGCGACTCCGACATGTATA 57.003 37.500 0.00 0.00 38.22 1.47
5593 9110 7.043325 GCATAGGAAAATATAATAGCGACTCCG 60.043 40.741 0.00 0.00 39.16 4.63
5724 10633 1.689959 CAAATGGAGTCAAAGCGCAC 58.310 50.000 11.47 0.00 0.00 5.34
5730 10639 2.942804 TGACCTGCAAATGGAGTCAAA 58.057 42.857 0.00 0.00 0.00 2.69
5764 10673 2.832733 TGATGCCATGAATTTTGGAGCA 59.167 40.909 11.47 3.63 36.26 4.26
5788 10697 3.623510 GCACTTAGGAATAGACCAAGCAC 59.376 47.826 0.00 0.00 0.00 4.40
5809 10718 3.438297 TCATGTCGCCTTAGACTTAGC 57.562 47.619 0.00 0.00 41.47 3.09
5810 10719 4.747108 CCAATCATGTCGCCTTAGACTTAG 59.253 45.833 0.00 0.00 41.47 2.18
5811 10720 4.404394 TCCAATCATGTCGCCTTAGACTTA 59.596 41.667 0.00 0.00 41.47 2.24


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

AutoCloner maintained by Alex Coulton.