Multiple sequence alignment - TraesCS6B01G322400

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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 TraesCS6B01G322400 chr6B 100.000 3216 0 0 2239 5454 571092988 571096203 0.000000e+00 5939
1 TraesCS6B01G322400 chr6B 100.000 1923 0 0 1 1923 571090750 571092672 0.000000e+00 3552
2 TraesCS6B01G322400 chr6B 87.153 288 33 2 4611 4894 571100434 571100721 1.890000e-84 324
3 TraesCS6B01G322400 chr6A 97.530 2065 49 2 2239 4302 524067912 524069975 0.000000e+00 3530
4 TraesCS6B01G322400 chr6A 91.803 1037 64 9 856 1884 524066882 524067905 0.000000e+00 1424
5 TraesCS6B01G322400 chr6A 86.471 887 39 20 5 831 524065789 524066654 0.000000e+00 898
6 TraesCS6B01G322400 chr6A 93.041 388 24 3 4302 4686 524070087 524070474 1.030000e-156 564
7 TraesCS6B01G322400 chr6A 89.024 328 25 5 5125 5442 524073590 524073916 3.960000e-106 396
8 TraesCS6B01G322400 chr6A 87.241 290 31 5 4611 4894 524076580 524076869 5.270000e-85 326
9 TraesCS6B01G322400 chr6A 88.115 244 13 6 4780 5007 524073348 524073591 5.380000e-70 276
10 TraesCS6B01G322400 chr6A 90.435 115 7 3 5005 5115 287304243 287304129 1.220000e-31 148
11 TraesCS6B01G322400 chr6A 96.552 87 3 0 5029 5115 157876429 157876515 1.580000e-30 145
12 TraesCS6B01G322400 chr6A 96.591 88 2 1 5029 5115 545814203 545814290 1.580000e-30 145
13 TraesCS6B01G322400 chr6A 89.381 113 7 4 5007 5115 108925569 108925680 2.650000e-28 137
14 TraesCS6B01G322400 chr6D 91.900 1358 89 13 2239 3585 382076250 382077597 0.000000e+00 1879
15 TraesCS6B01G322400 chr6D 90.234 1024 68 11 902 1915 382075082 382076083 0.000000e+00 1308
16 TraesCS6B01G322400 chr6D 96.919 714 17 3 3583 4295 382077690 382078399 0.000000e+00 1192
17 TraesCS6B01G322400 chr6D 92.598 689 45 4 4302 4984 382078517 382079205 0.000000e+00 985
18 TraesCS6B01G322400 chr6D 83.333 726 35 26 21 722 382074161 382074824 4.700000e-165 592
19 TraesCS6B01G322400 chr6D 88.194 288 30 2 4611 4894 382082114 382082401 1.880000e-89 340
20 TraesCS6B01G322400 chr6D 95.263 190 8 1 5261 5450 382079282 382079470 3.190000e-77 300
21 TraesCS6B01G322400 chr3B 90.517 116 7 3 5004 5115 642070079 642070194 3.400000e-32 150
22 TraesCS6B01G322400 chr2D 96.552 87 3 0 5029 5115 461232329 461232415 1.580000e-30 145
23 TraesCS6B01G322400 chr1B 96.552 87 3 0 5029 5115 82347530 82347444 1.580000e-30 145
24 TraesCS6B01G322400 chr2A 90.090 111 7 3 5009 5115 663656585 663656475 2.050000e-29 141
25 TraesCS6B01G322400 chr7D 87.179 117 10 4 5003 5115 102965045 102964930 1.590000e-25 128


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 TraesCS6B01G322400 chr6B 571090750 571096203 5453 False 4745.500000 5939 100.000000 1 5454 2 chr6B.!!$F2 5453
1 TraesCS6B01G322400 chr6A 524065789 524076869 11080 False 1059.142857 3530 90.460714 5 5442 7 chr6A.!!$F4 5437
2 TraesCS6B01G322400 chr6D 382074161 382082401 8240 False 942.285714 1879 91.205857 21 5450 7 chr6D.!!$F1 5429

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
166 183 0.034616 GGCCTGAGGATCGAGATTGG 59.965 60.0 0.65 0.0 38.61 3.16 F
857 1168 0.104934 ATATGTCTCCCGAGGCCCTT 60.105 55.0 0.00 0.0 30.48 3.95 F
2572 2941 0.396811 ATCATTGGCCGCCTACCTAC 59.603 55.0 11.61 0.0 0.00 3.18 F
3172 3546 1.187974 CCATCCAAGGCATGAGCAAA 58.812 50.0 0.00 0.0 44.61 3.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1200 1555 1.204786 CCATGACCACCACCCACCTA 61.205 60.0 0.00 0.0 0.00 3.08 R
2717 3086 0.179086 GCTCACCAGCTAGCTCCTTC 60.179 60.0 16.15 0.0 43.09 3.46 R
3868 4338 0.792640 AAGTTTGTGATCTCAGCGCG 59.207 50.0 0.00 0.0 0.00 6.86 R
5064 8487 0.097674 CTTCCGTACGTGGTAGTCCG 59.902 60.0 15.21 0.0 36.30 4.79 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
47 52 1.083806 TGCGAATGCTTGCTAGGTCG 61.084 55.000 0.00 0.00 43.34 4.79
48 53 1.084370 GCGAATGCTTGCTAGGTCGT 61.084 55.000 0.00 0.00 38.39 4.34
52 57 2.820037 GCTTGCTAGGTCGTGGGC 60.820 66.667 0.00 0.00 0.00 5.36
95 100 1.925847 CGATCTGAAGTTCTGAGCTGC 59.074 52.381 21.02 9.34 30.12 5.25
164 181 0.468214 TCGGCCTGAGGATCGAGATT 60.468 55.000 0.65 0.00 38.61 2.40
166 183 0.034616 GGCCTGAGGATCGAGATTGG 59.965 60.000 0.65 0.00 38.61 3.16
178 199 3.650409 AGATTGGTCGACGATCTGC 57.350 52.632 23.98 6.33 46.45 4.26
184 205 4.193334 TCGACGATCTGCTGGCGG 62.193 66.667 0.00 0.00 0.00 6.13
222 244 2.885894 ACGAGGAGAAGAAGTCGAAACT 59.114 45.455 0.00 0.00 37.32 2.66
236 258 2.557056 TCGAAACTCATCACTTCGGAGT 59.443 45.455 0.00 0.00 43.35 3.85
245 267 4.796225 CTTCGGAGTTCGGAGCTC 57.204 61.111 12.84 12.84 37.71 4.09
279 301 1.074423 CCGGCCCCGAGTCTATCTA 59.926 63.158 8.54 0.00 42.83 1.98
283 305 2.371306 GGCCCCGAGTCTATCTATCTC 58.629 57.143 0.00 0.00 0.00 2.75
294 316 7.523873 CGAGTCTATCTATCTCTCTGTCTGTCT 60.524 44.444 0.00 0.00 0.00 3.41
295 317 7.445121 AGTCTATCTATCTCTCTGTCTGTCTG 58.555 42.308 0.00 0.00 0.00 3.51
296 318 7.071196 AGTCTATCTATCTCTCTGTCTGTCTGT 59.929 40.741 0.00 0.00 0.00 3.41
297 319 7.385205 GTCTATCTATCTCTCTGTCTGTCTGTC 59.615 44.444 0.00 0.00 0.00 3.51
298 320 4.776349 TCTATCTCTCTGTCTGTCTGTCC 58.224 47.826 0.00 0.00 0.00 4.02
299 321 2.959465 TCTCTCTGTCTGTCTGTCCA 57.041 50.000 0.00 0.00 0.00 4.02
300 322 3.448093 TCTCTCTGTCTGTCTGTCCAT 57.552 47.619 0.00 0.00 0.00 3.41
301 323 3.351740 TCTCTCTGTCTGTCTGTCCATC 58.648 50.000 0.00 0.00 0.00 3.51
302 324 2.087646 TCTCTGTCTGTCTGTCCATCG 58.912 52.381 0.00 0.00 0.00 3.84
332 354 2.048222 TGCTGTACGCTGACAGGC 60.048 61.111 14.55 8.76 45.85 4.85
551 578 1.460699 GGACCTTCCTGCCTTTGGT 59.539 57.895 0.00 0.00 32.53 3.67
559 586 1.139520 CTGCCTTTGGTAATGCCGC 59.860 57.895 0.00 0.00 41.21 6.53
560 587 1.304052 TGCCTTTGGTAATGCCGCT 60.304 52.632 0.00 0.00 41.21 5.52
564 591 1.666209 CTTTGGTAATGCCGCTGGGG 61.666 60.000 6.36 6.36 41.21 4.96
565 592 2.143575 TTTGGTAATGCCGCTGGGGA 62.144 55.000 15.77 0.07 41.21 4.81
766 837 4.742201 GCTCGCTCCGCTCCAACA 62.742 66.667 0.00 0.00 0.00 3.33
768 839 2.989253 TCGCTCCGCTCCAACAGA 60.989 61.111 0.00 0.00 0.00 3.41
804 896 2.076100 AGTTGCGAAAATGCTGATCGA 58.924 42.857 0.00 0.00 38.82 3.59
849 957 4.960938 TCTTCCATGAAATATGTCTCCCG 58.039 43.478 0.00 0.00 0.00 5.14
850 958 4.653801 TCTTCCATGAAATATGTCTCCCGA 59.346 41.667 0.00 0.00 0.00 5.14
851 959 4.607293 TCCATGAAATATGTCTCCCGAG 57.393 45.455 0.00 0.00 0.00 4.63
852 960 3.324846 TCCATGAAATATGTCTCCCGAGG 59.675 47.826 0.00 0.00 0.00 4.63
854 962 1.416401 TGAAATATGTCTCCCGAGGCC 59.584 52.381 0.00 0.00 30.48 5.19
857 1168 0.104934 ATATGTCTCCCGAGGCCCTT 60.105 55.000 0.00 0.00 30.48 3.95
882 1193 2.967076 ATTGCTCGCATACGGCCG 60.967 61.111 26.86 26.86 40.31 6.13
895 1207 4.767255 GGCCGACAGCTCCACAGG 62.767 72.222 0.00 0.00 43.05 4.00
896 1208 4.767255 GCCGACAGCTCCACAGGG 62.767 72.222 0.00 0.00 38.99 4.45
900 1255 3.177884 ACAGCTCCACAGGGCCAA 61.178 61.111 6.18 0.00 0.00 4.52
957 1312 0.878086 GTCATCTCCTTGCTAGCCGC 60.878 60.000 13.29 0.00 39.77 6.53
1026 1381 1.139947 CGTCCGCTCTTTCCTCCTC 59.860 63.158 0.00 0.00 0.00 3.71
1230 1585 4.832608 GTCATGGACGACCCGCCC 62.833 72.222 0.34 0.00 37.93 6.13
1315 1670 1.352352 CCAGAGTGTTGGGAAGGTGAT 59.648 52.381 0.00 0.00 34.46 3.06
1352 1707 5.202004 CCTTCTGTATCCAGTGGTAGTAGT 58.798 45.833 9.54 0.00 39.82 2.73
1395 1750 1.414181 ACTGCAATCTCTGATACCCCG 59.586 52.381 0.00 0.00 0.00 5.73
1498 1854 0.671251 AGATCGATGAGGAAGCGTCC 59.329 55.000 11.15 11.15 45.35 4.79
1548 1904 2.269172 CTATGTCTGTGCAGAGCAGTG 58.731 52.381 5.87 1.84 40.08 3.66
1769 2126 4.748277 ACATGTGGTGGTAGTATGGTAC 57.252 45.455 0.00 0.00 0.00 3.34
1777 2134 7.147248 TGTGGTGGTAGTATGGTACTAGACTAT 60.147 40.741 15.58 0.00 41.59 2.12
1808 2174 3.738982 ACCATCGTGTCAGATTTTGTCA 58.261 40.909 0.00 0.00 0.00 3.58
1901 2267 9.630098 CATCTTGCTGTAAAACTTGAATTATGT 57.370 29.630 0.00 0.00 0.00 2.29
1903 2269 8.081633 TCTTGCTGTAAAACTTGAATTATGTGG 58.918 33.333 0.00 0.00 0.00 4.17
1910 2276 9.406828 GTAAAACTTGAATTATGTGGAACCTTC 57.593 33.333 0.00 0.00 34.36 3.46
1915 2281 6.573664 TGAATTATGTGGAACCTTCTGTTG 57.426 37.500 0.00 0.00 37.29 3.33
1917 2283 6.549364 TGAATTATGTGGAACCTTCTGTTGTT 59.451 34.615 0.00 0.00 37.29 2.83
1921 2287 6.976934 ATGTGGAACCTTCTGTTGTTAATT 57.023 33.333 0.00 0.00 37.29 1.40
1922 2288 6.783708 TGTGGAACCTTCTGTTGTTAATTT 57.216 33.333 0.00 0.00 37.29 1.82
2365 2734 4.412796 TGTGCCAGAGAAGGATAATCTG 57.587 45.455 0.00 0.00 40.13 2.90
2368 2737 3.645212 TGCCAGAGAAGGATAATCTGAGG 59.355 47.826 3.09 0.00 42.48 3.86
2563 2932 5.392767 AGTATGTAGAGTATCATTGGCCG 57.607 43.478 0.00 0.00 37.82 6.13
2572 2941 0.396811 ATCATTGGCCGCCTACCTAC 59.603 55.000 11.61 0.00 0.00 3.18
2582 2951 2.481449 CCGCCTACCTACTACTTTGCTG 60.481 54.545 0.00 0.00 0.00 4.41
2767 3136 5.908831 TGCTTTATCCTCCTGGGTAGATAAA 59.091 40.000 17.72 17.72 38.32 1.40
3172 3546 1.187974 CCATCCAAGGCATGAGCAAA 58.812 50.000 0.00 0.00 44.61 3.68
3214 3588 2.036475 CGGACATGATCCTTCTACCCTG 59.964 54.545 0.00 0.00 46.69 4.45
3279 3653 5.455056 ACGAGGGATGCTACAACTATAAG 57.545 43.478 0.00 0.00 0.00 1.73
3498 3873 3.279434 ACTTCTTGTGGTTTCAGGTGAC 58.721 45.455 0.00 0.00 0.00 3.67
3578 3953 4.650972 TTGTTACAGGTAAAGGGCATCT 57.349 40.909 0.00 0.00 0.00 2.90
3636 4106 7.402054 TGATCACTTAAACCTTACACATGGAT 58.598 34.615 0.00 0.00 0.00 3.41
3782 4252 5.874810 CAGACAATTCGACCCTATTTGAGAA 59.125 40.000 0.00 0.00 0.00 2.87
3812 4282 7.119262 AGTGTTGATATTTAAACGTGCTAAGCT 59.881 33.333 0.00 0.00 0.00 3.74
4283 4753 6.547510 AGGTAGCTGACAAAATTCTGTTTTCT 59.452 34.615 0.00 0.00 0.00 2.52
4288 4758 8.800332 AGCTGACAAAATTCTGTTTTCTGATAT 58.200 29.630 0.00 0.00 0.00 1.63
4402 4984 5.241506 TGCTAAAACCAAATCAAGAGACCAG 59.758 40.000 0.00 0.00 0.00 4.00
4405 4987 6.790232 AAAACCAAATCAAGAGACCAGAAA 57.210 33.333 0.00 0.00 0.00 2.52
4444 5026 1.473278 AGTTTTCGGCCACGTTTTCAA 59.527 42.857 2.24 0.00 41.85 2.69
4458 5040 6.128172 CCACGTTTTCAATCTAGATGAAGCTT 60.128 38.462 5.86 0.00 38.01 3.74
4460 5042 7.805071 CACGTTTTCAATCTAGATGAAGCTTTT 59.195 33.333 5.86 0.00 38.01 2.27
4511 5093 4.276431 AGAGATTAAGTGACTAGTAGCGGC 59.724 45.833 0.00 0.00 0.00 6.53
4512 5094 2.838386 TTAAGTGACTAGTAGCGGCG 57.162 50.000 0.51 0.51 0.00 6.46
4531 5114 2.668279 GCGTAATGCCACAGTTTCTTGG 60.668 50.000 0.00 0.00 37.76 3.61
4539 5124 2.301346 CACAGTTTCTTGGCCTGACTT 58.699 47.619 3.32 0.00 0.00 3.01
4588 5173 7.178274 GTGATAGTTGAGGGAGATGATAGTGAT 59.822 40.741 0.00 0.00 0.00 3.06
4596 5181 6.688073 GGGAGATGATAGTGATTTCCCTTA 57.312 41.667 0.00 0.00 39.72 2.69
4608 5193 5.823045 GTGATTTCCCTTAAGTATGAGGTGG 59.177 44.000 0.97 0.00 30.33 4.61
4702 5287 6.709397 ACTTCAGATACTGCATTGTCCATATG 59.291 38.462 0.00 0.00 0.00 1.78
4878 8289 7.913297 TCAAATTAAGTTTCAAGTCTTCCAACG 59.087 33.333 0.00 0.00 0.00 4.10
4895 8306 8.673711 TCTTCCAACGTATGATAAATTTCTTGG 58.326 33.333 0.00 0.00 0.00 3.61
4956 8370 0.030369 CTGACGTCGGCCTGGTATAC 59.970 60.000 12.25 0.00 0.00 1.47
4960 8374 0.671796 CGTCGGCCTGGTATACATGA 59.328 55.000 0.00 0.00 0.00 3.07
4973 8390 4.999950 GGTATACATGATGGAGAAGGCAAG 59.000 45.833 5.01 0.00 0.00 4.01
4992 8415 3.354948 AGAAGTTCATGCCATGCACTA 57.645 42.857 10.38 0.00 43.04 2.74
5007 8430 4.252971 TGCACTACAGTTCAGGTTCTAC 57.747 45.455 0.00 0.00 0.00 2.59
5008 8431 3.895656 TGCACTACAGTTCAGGTTCTACT 59.104 43.478 0.00 0.00 0.00 2.57
5009 8432 4.022242 TGCACTACAGTTCAGGTTCTACTC 60.022 45.833 0.00 0.00 0.00 2.59
5010 8433 4.618693 GCACTACAGTTCAGGTTCTACTCC 60.619 50.000 0.00 0.00 0.00 3.85
5011 8434 4.082136 CACTACAGTTCAGGTTCTACTCCC 60.082 50.000 0.00 0.00 0.00 4.30
5012 8435 3.261818 ACAGTTCAGGTTCTACTCCCT 57.738 47.619 0.00 0.00 0.00 4.20
5013 8436 3.166679 ACAGTTCAGGTTCTACTCCCTC 58.833 50.000 0.00 0.00 0.00 4.30
5014 8437 2.498078 CAGTTCAGGTTCTACTCCCTCC 59.502 54.545 0.00 0.00 0.00 4.30
5015 8438 1.477295 GTTCAGGTTCTACTCCCTCCG 59.523 57.143 0.00 0.00 0.00 4.63
5016 8439 0.702902 TCAGGTTCTACTCCCTCCGT 59.297 55.000 0.00 0.00 0.00 4.69
5017 8440 1.076677 TCAGGTTCTACTCCCTCCGTT 59.923 52.381 0.00 0.00 0.00 4.44
5018 8441 1.477295 CAGGTTCTACTCCCTCCGTTC 59.523 57.143 0.00 0.00 0.00 3.95
5019 8442 0.822811 GGTTCTACTCCCTCCGTTCC 59.177 60.000 0.00 0.00 0.00 3.62
5020 8443 1.619160 GGTTCTACTCCCTCCGTTCCT 60.619 57.143 0.00 0.00 0.00 3.36
5021 8444 1.750206 GTTCTACTCCCTCCGTTCCTC 59.250 57.143 0.00 0.00 0.00 3.71
5022 8445 0.997363 TCTACTCCCTCCGTTCCTCA 59.003 55.000 0.00 0.00 0.00 3.86
5023 8446 1.356738 TCTACTCCCTCCGTTCCTCAA 59.643 52.381 0.00 0.00 0.00 3.02
5024 8447 2.024273 TCTACTCCCTCCGTTCCTCAAT 60.024 50.000 0.00 0.00 0.00 2.57
5025 8448 2.544844 ACTCCCTCCGTTCCTCAATA 57.455 50.000 0.00 0.00 0.00 1.90
5026 8449 3.047695 ACTCCCTCCGTTCCTCAATAT 57.952 47.619 0.00 0.00 0.00 1.28
5027 8450 3.385115 ACTCCCTCCGTTCCTCAATATT 58.615 45.455 0.00 0.00 0.00 1.28
5028 8451 3.780850 ACTCCCTCCGTTCCTCAATATTT 59.219 43.478 0.00 0.00 0.00 1.40
5029 8452 4.141688 ACTCCCTCCGTTCCTCAATATTTC 60.142 45.833 0.00 0.00 0.00 2.17
5030 8453 3.135895 TCCCTCCGTTCCTCAATATTTCC 59.864 47.826 0.00 0.00 0.00 3.13
5031 8454 3.131396 CCTCCGTTCCTCAATATTTCCG 58.869 50.000 0.00 0.00 0.00 4.30
5032 8455 3.431766 CCTCCGTTCCTCAATATTTCCGT 60.432 47.826 0.00 0.00 0.00 4.69
5033 8456 4.189231 CTCCGTTCCTCAATATTTCCGTT 58.811 43.478 0.00 0.00 0.00 4.44
5034 8457 4.186159 TCCGTTCCTCAATATTTCCGTTC 58.814 43.478 0.00 0.00 0.00 3.95
5035 8458 3.311596 CCGTTCCTCAATATTTCCGTTCC 59.688 47.826 0.00 0.00 0.00 3.62
5036 8459 4.189231 CGTTCCTCAATATTTCCGTTCCT 58.811 43.478 0.00 0.00 0.00 3.36
5037 8460 5.353938 CGTTCCTCAATATTTCCGTTCCTA 58.646 41.667 0.00 0.00 0.00 2.94
5038 8461 5.813672 CGTTCCTCAATATTTCCGTTCCTAA 59.186 40.000 0.00 0.00 0.00 2.69
5039 8462 6.314400 CGTTCCTCAATATTTCCGTTCCTAAA 59.686 38.462 0.00 0.00 0.00 1.85
5040 8463 7.012044 CGTTCCTCAATATTTCCGTTCCTAAAT 59.988 37.037 0.00 0.00 0.00 1.40
5041 8464 9.333724 GTTCCTCAATATTTCCGTTCCTAAATA 57.666 33.333 0.00 0.00 33.39 1.40
5054 8477 9.947433 TCCGTTCCTAAATATTTGTCTTTTAGA 57.053 29.630 11.05 0.00 35.79 2.10
5067 8490 7.795482 TTGTCTTTTAGAGATTTCAAACGGA 57.205 32.000 0.00 0.00 36.61 4.69
5068 8491 7.186021 TGTCTTTTAGAGATTTCAAACGGAC 57.814 36.000 0.00 0.00 36.61 4.79
5069 8492 6.990349 TGTCTTTTAGAGATTTCAAACGGACT 59.010 34.615 0.00 0.00 36.61 3.85
5070 8493 8.145767 TGTCTTTTAGAGATTTCAAACGGACTA 58.854 33.333 0.00 0.00 36.61 2.59
5071 8494 8.433893 GTCTTTTAGAGATTTCAAACGGACTAC 58.566 37.037 0.00 0.00 36.61 2.73
5072 8495 7.601508 TCTTTTAGAGATTTCAAACGGACTACC 59.398 37.037 0.00 0.00 0.00 3.18
5073 8496 4.884668 AGAGATTTCAAACGGACTACCA 57.115 40.909 0.00 0.00 35.59 3.25
5074 8497 4.566987 AGAGATTTCAAACGGACTACCAC 58.433 43.478 0.00 0.00 35.59 4.16
5075 8498 3.323243 AGATTTCAAACGGACTACCACG 58.677 45.455 0.00 0.00 35.59 4.94
5076 8499 2.600470 TTTCAAACGGACTACCACGT 57.400 45.000 0.00 0.00 46.48 4.49
5077 8500 3.724508 TTTCAAACGGACTACCACGTA 57.275 42.857 0.00 0.00 43.31 3.57
5078 8501 2.704725 TCAAACGGACTACCACGTAC 57.295 50.000 0.00 0.00 43.31 3.67
5079 8502 1.069296 TCAAACGGACTACCACGTACG 60.069 52.381 15.01 15.01 46.41 3.67
5080 8503 0.240945 AAACGGACTACCACGTACGG 59.759 55.000 21.06 8.46 45.30 4.02
5081 8504 0.605319 AACGGACTACCACGTACGGA 60.605 55.000 21.06 0.65 45.30 4.69
5082 8505 0.605319 ACGGACTACCACGTACGGAA 60.605 55.000 21.06 0.54 45.30 4.30
5083 8506 0.097674 CGGACTACCACGTACGGAAG 59.902 60.000 21.06 12.74 37.58 3.46
5084 8507 1.168714 GGACTACCACGTACGGAAGT 58.831 55.000 21.06 15.76 41.52 3.01
5085 8508 2.356135 GGACTACCACGTACGGAAGTA 58.644 52.381 21.06 15.61 39.96 2.24
5086 8509 2.945668 GGACTACCACGTACGGAAGTAT 59.054 50.000 21.06 7.89 41.62 2.12
5087 8510 4.127171 GGACTACCACGTACGGAAGTATA 58.873 47.826 21.06 2.36 41.62 1.47
5088 8511 4.757149 GGACTACCACGTACGGAAGTATAT 59.243 45.833 21.06 8.75 41.62 0.86
5089 8512 5.932303 GGACTACCACGTACGGAAGTATATA 59.068 44.000 21.06 0.00 41.62 0.86
5090 8513 6.091441 GGACTACCACGTACGGAAGTATATAG 59.909 46.154 21.06 9.74 41.62 1.31
5091 8514 8.005007 GGACTACCACGTACGGAAGTATATAGA 61.005 44.444 21.06 0.00 41.62 1.98
5116 8539 8.873215 ACATATTTTAGAGTGTAGATTCACCG 57.127 34.615 0.00 0.00 38.91 4.94
5117 8540 7.926555 ACATATTTTAGAGTGTAGATTCACCGG 59.073 37.037 0.00 0.00 38.91 5.28
5118 8541 5.988310 TTTTAGAGTGTAGATTCACCGGA 57.012 39.130 9.46 0.00 38.91 5.14
5119 8542 5.578005 TTTAGAGTGTAGATTCACCGGAG 57.422 43.478 9.46 0.00 38.91 4.63
5135 8558 1.267261 CGGAGGGAGTAGTATCAAGCG 59.733 57.143 0.00 0.00 0.00 4.68
5147 8570 4.642429 AGTATCAAGCGTTTTCAAGGTCT 58.358 39.130 0.00 0.00 0.00 3.85
5148 8571 4.691216 AGTATCAAGCGTTTTCAAGGTCTC 59.309 41.667 0.00 0.00 0.00 3.36
5151 8574 3.882888 TCAAGCGTTTTCAAGGTCTCAAT 59.117 39.130 0.00 0.00 0.00 2.57
5159 8582 6.414987 CGTTTTCAAGGTCTCAATGAAAGAAC 59.585 38.462 0.00 0.00 42.20 3.01
5164 8587 4.792068 AGGTCTCAATGAAAGAACCACAA 58.208 39.130 6.56 0.00 30.36 3.33
5166 8589 4.338118 GGTCTCAATGAAAGAACCACAACA 59.662 41.667 0.00 0.00 0.00 3.33
5167 8590 5.163561 GGTCTCAATGAAAGAACCACAACAA 60.164 40.000 0.00 0.00 0.00 2.83
5201 8624 3.072468 TGTAGGGCGTCGGAAGGG 61.072 66.667 0.00 0.00 0.00 3.95
5210 8633 1.087771 CGTCGGAAGGGTATGTTGCC 61.088 60.000 0.00 0.00 0.00 4.52
5232 8655 3.792956 CGTCAATGTTGATGCTAATTGCC 59.207 43.478 2.33 0.00 39.73 4.52
5234 8657 5.170021 GTCAATGTTGATGCTAATTGCCAA 58.830 37.500 0.00 0.00 39.73 4.52
5235 8658 5.638657 GTCAATGTTGATGCTAATTGCCAAA 59.361 36.000 0.00 0.00 39.73 3.28
5249 8682 9.185192 GCTAATTGCCAAATATGATGTAAACTC 57.815 33.333 0.00 0.00 35.15 3.01
5265 8698 3.314307 AACTCGGGATCAGGAGATGTA 57.686 47.619 16.48 0.00 33.72 2.29
5267 8700 3.643237 ACTCGGGATCAGGAGATGTAAA 58.357 45.455 16.48 0.00 33.72 2.01
5277 8710 4.782691 TCAGGAGATGTAAACTTGGGATCA 59.217 41.667 0.00 0.00 0.00 2.92
5278 8711 5.104776 TCAGGAGATGTAAACTTGGGATCAG 60.105 44.000 0.00 0.00 0.00 2.90
5284 8717 4.101114 TGTAAACTTGGGATCAGGAGCTA 58.899 43.478 0.00 0.00 0.00 3.32
5285 8718 4.721776 TGTAAACTTGGGATCAGGAGCTAT 59.278 41.667 0.00 0.00 0.00 2.97
5313 8746 2.158842 GGTGATCAGAGATGACAAGGGG 60.159 54.545 0.00 0.00 0.00 4.79
5341 8774 2.409870 GCGGCAAAGGTCATCCCTG 61.410 63.158 0.00 0.00 45.47 4.45
5442 8875 1.470098 GCCTGTTGCAACCTACTGATG 59.530 52.381 26.14 5.31 40.77 3.07
5443 8876 1.470098 CCTGTTGCAACCTACTGATGC 59.530 52.381 26.14 0.00 40.45 3.91
5444 8877 1.129251 CTGTTGCAACCTACTGATGCG 59.871 52.381 26.14 0.00 42.91 4.73
5445 8878 1.156736 GTTGCAACCTACTGATGCGT 58.843 50.000 19.15 0.00 42.91 5.24
5446 8879 1.135972 GTTGCAACCTACTGATGCGTG 60.136 52.381 19.15 0.00 42.91 5.34
5447 8880 1.298157 TGCAACCTACTGATGCGTGC 61.298 55.000 0.00 0.00 42.91 5.34
5448 8881 1.021390 GCAACCTACTGATGCGTGCT 61.021 55.000 0.00 0.00 0.00 4.40
5449 8882 1.739035 GCAACCTACTGATGCGTGCTA 60.739 52.381 0.00 0.00 0.00 3.49
5450 8883 2.196749 CAACCTACTGATGCGTGCTAG 58.803 52.381 0.00 0.00 0.00 3.42
5451 8884 1.763968 ACCTACTGATGCGTGCTAGA 58.236 50.000 0.00 0.00 0.00 2.43
5452 8885 1.405821 ACCTACTGATGCGTGCTAGAC 59.594 52.381 0.00 0.00 0.00 2.59
5453 8886 1.405463 CCTACTGATGCGTGCTAGACA 59.595 52.381 0.00 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 9.163899 GCATCAACATACTAGATGAATGATGAT 57.836 33.333 28.71 22.22 41.20 2.45
5 6 7.330208 CGCATCAACATACTAGATGAATGATGA 59.670 37.037 28.71 21.55 42.37 2.92
6 7 7.330208 TCGCATCAACATACTAGATGAATGATG 59.670 37.037 25.42 25.42 42.49 3.07
7 8 7.381323 TCGCATCAACATACTAGATGAATGAT 58.619 34.615 0.00 8.86 41.18 2.45
19 20 2.785477 GCAAGCATTCGCATCAACATAC 59.215 45.455 0.00 0.00 42.27 2.39
47 52 3.763897 ACCAGAAACTAATCAATGCCCAC 59.236 43.478 0.00 0.00 0.00 4.61
48 53 4.046286 ACCAGAAACTAATCAATGCCCA 57.954 40.909 0.00 0.00 0.00 5.36
95 100 0.800631 TAGTCGTAGTCACACAGGCG 59.199 55.000 0.00 0.00 0.00 5.52
164 181 2.885113 CCAGCAGATCGTCGACCA 59.115 61.111 10.58 0.00 0.00 4.02
166 183 2.951745 CGCCAGCAGATCGTCGAC 60.952 66.667 5.18 5.18 0.00 4.20
195 216 2.600122 CTTCTTCTCCTCGTCCGGCG 62.600 65.000 11.37 11.37 43.01 6.46
222 244 1.472878 CTCCGAACTCCGAAGTGATGA 59.527 52.381 0.00 0.00 41.76 2.92
245 267 4.587189 GGCCGGGGAGACGAATCG 62.587 72.222 2.18 0.00 35.47 3.34
279 301 3.448093 TGGACAGACAGACAGAGAGAT 57.552 47.619 0.00 0.00 0.00 2.75
283 305 1.468908 GCGATGGACAGACAGACAGAG 60.469 57.143 0.00 0.00 0.00 3.35
294 316 2.463620 GCAAGCGATGCGATGGACA 61.464 57.895 1.74 0.00 46.87 4.02
295 317 2.325857 GCAAGCGATGCGATGGAC 59.674 61.111 1.74 0.00 46.87 4.02
332 354 1.302033 AGTGAGGTTGCTTCCAGCG 60.302 57.895 1.12 0.00 46.26 5.18
337 359 1.200948 GGCAATCAGTGAGGTTGCTTC 59.799 52.381 23.78 10.29 45.56 3.86
339 361 0.957395 CGGCAATCAGTGAGGTTGCT 60.957 55.000 23.78 0.00 45.56 3.91
391 418 4.735132 TTTCTCGAGGGCGCACGG 62.735 66.667 19.47 2.93 37.46 4.94
393 420 3.491652 GCTTTCTCGAGGGCGCAC 61.492 66.667 13.56 5.15 37.46 5.34
395 422 4.796231 TCGCTTTCTCGAGGGCGC 62.796 66.667 28.97 20.32 45.97 6.53
397 424 2.509561 GGTCGCTTTCTCGAGGGC 60.510 66.667 13.56 13.36 39.34 5.19
398 425 2.202623 CGGTCGCTTTCTCGAGGG 60.203 66.667 13.56 4.66 39.34 4.30
399 426 1.226435 CTCGGTCGCTTTCTCGAGG 60.226 63.158 13.56 0.00 43.49 4.63
400 427 4.368756 CTCGGTCGCTTTCTCGAG 57.631 61.111 5.93 5.93 42.09 4.04
401 428 1.209383 CACTCGGTCGCTTTCTCGA 59.791 57.895 0.00 0.00 35.95 4.04
402 429 1.801913 CCACTCGGTCGCTTTCTCG 60.802 63.158 0.00 0.00 0.00 4.04
543 570 1.139520 CAGCGGCATTACCAAAGGC 59.860 57.895 1.45 0.00 41.62 4.35
551 578 1.451504 CTGATCCCCAGCGGCATTA 59.548 57.895 1.45 0.00 35.89 1.90
559 586 2.735772 CGTCCACCCTGATCCCCAG 61.736 68.421 0.00 0.00 42.55 4.45
560 587 2.687200 CGTCCACCCTGATCCCCA 60.687 66.667 0.00 0.00 0.00 4.96
564 591 2.509336 CGTGCGTCCACCCTGATC 60.509 66.667 0.00 0.00 38.79 2.92
565 592 4.760047 GCGTGCGTCCACCCTGAT 62.760 66.667 0.00 0.00 38.79 2.90
766 837 3.402681 CTGCCATCCACCCGGTCT 61.403 66.667 0.00 0.00 0.00 3.85
768 839 3.402681 CTCTGCCATCCACCCGGT 61.403 66.667 0.00 0.00 0.00 5.28
831 939 3.668447 CCTCGGGAGACATATTTCATGG 58.332 50.000 0.00 0.00 33.60 3.66
832 940 3.070018 GCCTCGGGAGACATATTTCATG 58.930 50.000 0.00 0.00 33.60 3.07
833 941 2.039084 GGCCTCGGGAGACATATTTCAT 59.961 50.000 0.00 0.00 33.60 2.57
835 943 1.270893 GGGCCTCGGGAGACATATTTC 60.271 57.143 0.84 0.00 33.60 2.17
836 944 0.765510 GGGCCTCGGGAGACATATTT 59.234 55.000 0.84 0.00 33.60 1.40
837 945 0.104934 AGGGCCTCGGGAGACATATT 60.105 55.000 0.00 0.00 33.60 1.28
839 947 0.326238 AAAGGGCCTCGGGAGACATA 60.326 55.000 6.46 0.00 33.60 2.29
841 949 2.203938 AAAGGGCCTCGGGAGACA 60.204 61.111 6.46 0.00 33.60 3.41
842 950 2.269241 CAAAGGGCCTCGGGAGAC 59.731 66.667 6.46 0.00 33.60 3.36
844 952 4.115199 CCCAAAGGGCCTCGGGAG 62.115 72.222 29.19 13.99 41.62 4.30
866 1177 4.136511 TCGGCCGTATGCGAGCAA 62.137 61.111 27.15 0.00 42.61 3.91
882 1193 3.196207 TTGGCCCTGTGGAGCTGTC 62.196 63.158 0.00 0.00 0.00 3.51
895 1207 7.466590 CGAGAAAGAAAGAAATATCTCTTGGCC 60.467 40.741 0.00 0.00 35.79 5.36
896 1208 7.405769 CGAGAAAGAAAGAAATATCTCTTGGC 58.594 38.462 0.00 0.00 35.79 4.52
900 1255 6.052360 GGCCGAGAAAGAAAGAAATATCTCT 58.948 40.000 0.00 0.00 33.77 3.10
1065 1420 1.348775 GGATAGAGTTGGCCTGGGCT 61.349 60.000 21.72 0.22 41.60 5.19
1076 1431 2.683768 GGGAGATGTGTGGGATAGAGT 58.316 52.381 0.00 0.00 0.00 3.24
1200 1555 1.204786 CCATGACCACCACCCACCTA 61.205 60.000 0.00 0.00 0.00 3.08
1315 1670 7.676893 TGGATACAGAAGGGAAAACTAGTAGAA 59.323 37.037 3.59 0.00 46.17 2.10
1498 1854 4.863491 ACAACATACTTGCAAGCTTCTTG 58.137 39.130 26.27 21.65 0.00 3.02
1546 1902 5.985530 GCTTCCATTGAAAAATATAGCCCAC 59.014 40.000 0.00 0.00 0.00 4.61
1548 1904 6.410942 AGCTTCCATTGAAAAATATAGCCC 57.589 37.500 0.00 0.00 0.00 5.19
1555 1911 6.928520 AGAATTCGAGCTTCCATTGAAAAAT 58.071 32.000 0.00 0.00 0.00 1.82
1769 2126 8.755941 CACGATGGTCAAAATGTAATAGTCTAG 58.244 37.037 0.00 0.00 0.00 2.43
1777 2134 5.301555 TCTGACACGATGGTCAAAATGTAA 58.698 37.500 9.74 0.00 46.36 2.41
1792 2149 4.903638 ACGTATGACAAAATCTGACACG 57.096 40.909 0.00 0.00 32.44 4.49
1808 2174 3.005472 CCCGGTGAATCAGTCATACGTAT 59.995 47.826 1.14 1.14 38.90 3.06
1851 2217 5.932303 GCTTTCAATGAGTACTACCTGTTCA 59.068 40.000 0.00 0.00 0.00 3.18
1856 2222 6.552445 AGATGCTTTCAATGAGTACTACCT 57.448 37.500 0.00 0.00 0.00 3.08
1890 2256 6.824305 ACAGAAGGTTCCACATAATTCAAG 57.176 37.500 0.00 0.00 0.00 3.02
2368 2737 1.174783 TAACTGGTGAGAGGCTCGAC 58.825 55.000 9.22 9.85 32.35 4.20
2563 2932 3.889520 ACAGCAAAGTAGTAGGTAGGC 57.110 47.619 0.00 0.00 0.00 3.93
2572 2941 7.154656 TCATAGGCACATATACAGCAAAGTAG 58.845 38.462 0.00 0.00 0.00 2.57
2582 2951 9.658799 ATTTGTATCACTCATAGGCACATATAC 57.341 33.333 0.00 0.00 0.00 1.47
2622 2991 5.938125 GTGCATCCTTTTCACTAGGAAGTTA 59.062 40.000 0.00 0.00 44.59 2.24
2717 3086 0.179086 GCTCACCAGCTAGCTCCTTC 60.179 60.000 16.15 0.00 43.09 3.46
2793 3162 8.276252 TGTTGGTATCTTAATAAAGGCAGAAC 57.724 34.615 0.00 0.00 33.22 3.01
3067 3437 9.837525 CAGAGGAATGAGAACAAAAAGAATAAG 57.162 33.333 0.00 0.00 0.00 1.73
3172 3546 3.937706 CGAGCATGAACCTCAGAAAAGAT 59.062 43.478 0.00 0.00 0.00 2.40
3214 3588 2.357952 ACAAAAAGGGACAAGAACGAGC 59.642 45.455 0.00 0.00 0.00 5.03
3279 3653 5.717119 AGCATGAAACAAGAAATGATGTCC 58.283 37.500 0.00 0.00 0.00 4.02
3866 4336 1.067846 AGTTTGTGATCTCAGCGCGTA 60.068 47.619 8.43 0.00 0.00 4.42
3868 4338 0.792640 AAGTTTGTGATCTCAGCGCG 59.207 50.000 0.00 0.00 0.00 6.86
3971 4441 8.251721 GTCATACTAGACCAAATTAGTGACACT 58.748 37.037 13.68 13.68 32.64 3.55
4096 4566 1.981256 AAATGGGTAATGGCTAGGCG 58.019 50.000 12.19 0.00 0.00 5.52
4134 4604 5.637810 TCTTGACTGCAATAAAGTAGTTCCG 59.362 40.000 0.00 0.00 34.49 4.30
4402 4984 2.368548 AGAAGTGCCAAATGGGGTTTTC 59.631 45.455 0.90 0.00 37.04 2.29
4405 4987 2.110011 ACTAGAAGTGCCAAATGGGGTT 59.890 45.455 0.00 0.00 37.04 4.11
4444 5026 9.507329 TTGTCTAAACAAAAGCTTCATCTAGAT 57.493 29.630 0.00 0.00 42.34 1.98
4460 5042 9.890629 ATATCTAGCTGTCAAATTGTCTAAACA 57.109 29.630 0.00 0.00 0.00 2.83
4466 5048 9.973450 TCTCTAATATCTAGCTGTCAAATTGTC 57.027 33.333 0.00 0.00 0.00 3.18
4511 5093 3.201726 CCAAGAAACTGTGGCATTACG 57.798 47.619 0.00 0.00 0.00 3.18
4531 5114 7.412237 GCATTTCACATGAAAATAAAGTCAGGC 60.412 37.037 10.90 0.00 45.81 4.85
4532 5115 7.816031 AGCATTTCACATGAAAATAAAGTCAGG 59.184 33.333 10.90 0.00 45.81 3.86
4534 5117 9.545105 AAAGCATTTCACATGAAAATAAAGTCA 57.455 25.926 10.90 0.00 45.81 3.41
4539 5124 9.322773 TCACAAAAGCATTTCACATGAAAATAA 57.677 25.926 10.90 0.00 45.81 1.40
4588 5173 5.098663 AGACCACCTCATACTTAAGGGAAA 58.901 41.667 7.53 0.00 36.95 3.13
4608 5193 7.173562 ACTGTATCTACATATCTTCGTGGAGAC 59.826 40.741 0.00 0.00 38.09 3.36
4615 5200 9.175060 CACTTGAACTGTATCTACATATCTTCG 57.825 37.037 0.00 0.00 35.36 3.79
4684 5269 7.399634 TCATGATCATATGGACAATGCAGTAT 58.600 34.615 8.15 0.00 0.00 2.12
4895 8306 5.238214 GCATCACTCTCTCATTAATTGGTCC 59.762 44.000 0.00 0.00 0.00 4.46
4956 8370 3.618351 ACTTCTTGCCTTCTCCATCATG 58.382 45.455 0.00 0.00 0.00 3.07
4960 8374 3.795688 TGAACTTCTTGCCTTCTCCAT 57.204 42.857 0.00 0.00 0.00 3.41
4992 8415 3.166679 GAGGGAGTAGAACCTGAACTGT 58.833 50.000 0.00 0.00 37.18 3.55
5007 8430 4.381411 GAAATATTGAGGAACGGAGGGAG 58.619 47.826 0.00 0.00 0.00 4.30
5008 8431 3.135895 GGAAATATTGAGGAACGGAGGGA 59.864 47.826 0.00 0.00 0.00 4.20
5009 8432 3.477530 GGAAATATTGAGGAACGGAGGG 58.522 50.000 0.00 0.00 0.00 4.30
5010 8433 3.131396 CGGAAATATTGAGGAACGGAGG 58.869 50.000 0.00 0.00 0.00 4.30
5011 8434 3.793559 ACGGAAATATTGAGGAACGGAG 58.206 45.455 0.00 0.00 0.00 4.63
5012 8435 3.899052 ACGGAAATATTGAGGAACGGA 57.101 42.857 0.00 0.00 0.00 4.69
5013 8436 3.311596 GGAACGGAAATATTGAGGAACGG 59.688 47.826 0.00 0.00 0.00 4.44
5014 8437 4.189231 AGGAACGGAAATATTGAGGAACG 58.811 43.478 0.00 0.00 0.00 3.95
5015 8438 7.619964 TTTAGGAACGGAAATATTGAGGAAC 57.380 36.000 0.00 0.00 0.00 3.62
5028 8451 9.947433 TCTAAAAGACAAATATTTAGGAACGGA 57.053 29.630 0.00 0.00 37.29 4.69
5041 8464 8.846211 TCCGTTTGAAATCTCTAAAAGACAAAT 58.154 29.630 0.00 0.00 36.65 2.32
5042 8465 8.126700 GTCCGTTTGAAATCTCTAAAAGACAAA 58.873 33.333 0.00 0.00 36.65 2.83
5043 8466 7.497909 AGTCCGTTTGAAATCTCTAAAAGACAA 59.502 33.333 0.00 0.00 36.65 3.18
5044 8467 6.990349 AGTCCGTTTGAAATCTCTAAAAGACA 59.010 34.615 0.00 0.00 36.65 3.41
5045 8468 7.422878 AGTCCGTTTGAAATCTCTAAAAGAC 57.577 36.000 0.00 0.00 36.65 3.01
5046 8469 7.601508 GGTAGTCCGTTTGAAATCTCTAAAAGA 59.398 37.037 0.00 0.00 38.72 2.52
5047 8470 7.386848 TGGTAGTCCGTTTGAAATCTCTAAAAG 59.613 37.037 0.00 0.00 36.30 2.27
5048 8471 7.172019 GTGGTAGTCCGTTTGAAATCTCTAAAA 59.828 37.037 0.00 0.00 36.30 1.52
5049 8472 6.647895 GTGGTAGTCCGTTTGAAATCTCTAAA 59.352 38.462 0.00 0.00 36.30 1.85
5050 8473 6.161381 GTGGTAGTCCGTTTGAAATCTCTAA 58.839 40.000 0.00 0.00 36.30 2.10
5051 8474 5.620654 CGTGGTAGTCCGTTTGAAATCTCTA 60.621 44.000 0.00 0.00 36.30 2.43
5052 8475 4.566987 GTGGTAGTCCGTTTGAAATCTCT 58.433 43.478 0.00 0.00 36.30 3.10
5053 8476 3.367025 CGTGGTAGTCCGTTTGAAATCTC 59.633 47.826 0.00 0.00 36.30 2.75
5054 8477 3.243975 ACGTGGTAGTCCGTTTGAAATCT 60.244 43.478 0.00 0.00 32.50 2.40
5055 8478 3.062042 ACGTGGTAGTCCGTTTGAAATC 58.938 45.455 0.00 0.00 32.50 2.17
5056 8479 3.116079 ACGTGGTAGTCCGTTTGAAAT 57.884 42.857 0.00 0.00 32.50 2.17
5057 8480 2.600470 ACGTGGTAGTCCGTTTGAAA 57.400 45.000 0.00 0.00 32.50 2.69
5058 8481 2.604373 CGTACGTGGTAGTCCGTTTGAA 60.604 50.000 7.22 0.00 38.43 2.69
5059 8482 1.069296 CGTACGTGGTAGTCCGTTTGA 60.069 52.381 7.22 0.00 38.43 2.69
5060 8483 1.330306 CGTACGTGGTAGTCCGTTTG 58.670 55.000 7.22 0.00 38.43 2.93
5061 8484 0.240945 CCGTACGTGGTAGTCCGTTT 59.759 55.000 15.21 0.00 38.43 3.60
5062 8485 0.605319 TCCGTACGTGGTAGTCCGTT 60.605 55.000 15.21 0.00 38.43 4.44
5063 8486 0.605319 TTCCGTACGTGGTAGTCCGT 60.605 55.000 15.21 0.00 40.87 4.69
5064 8487 0.097674 CTTCCGTACGTGGTAGTCCG 59.902 60.000 15.21 0.00 36.30 4.79
5065 8488 1.168714 ACTTCCGTACGTGGTAGTCC 58.831 55.000 15.21 0.00 34.94 3.85
5066 8489 5.931441 ATATACTTCCGTACGTGGTAGTC 57.069 43.478 15.21 0.00 39.88 2.59
5067 8490 6.647067 GTCTATATACTTCCGTACGTGGTAGT 59.353 42.308 15.21 11.13 41.77 2.73
5068 8491 6.646653 TGTCTATATACTTCCGTACGTGGTAG 59.353 42.308 15.21 5.63 33.04 3.18
5069 8492 6.521162 TGTCTATATACTTCCGTACGTGGTA 58.479 40.000 15.21 13.39 0.00 3.25
5070 8493 5.368145 TGTCTATATACTTCCGTACGTGGT 58.632 41.667 15.21 11.68 0.00 4.16
5071 8494 5.929697 TGTCTATATACTTCCGTACGTGG 57.070 43.478 15.21 6.19 0.00 4.94
5090 8513 8.969267 CGGTGAATCTACACTCTAAAATATGTC 58.031 37.037 0.00 0.00 40.22 3.06
5091 8514 7.926555 CCGGTGAATCTACACTCTAAAATATGT 59.073 37.037 0.00 0.00 40.22 2.29
5092 8515 8.141909 TCCGGTGAATCTACACTCTAAAATATG 58.858 37.037 0.00 0.00 40.22 1.78
5093 8516 8.246430 TCCGGTGAATCTACACTCTAAAATAT 57.754 34.615 0.00 0.00 40.22 1.28
5094 8517 7.201884 CCTCCGGTGAATCTACACTCTAAAATA 60.202 40.741 4.76 0.00 40.22 1.40
5095 8518 6.407074 CCTCCGGTGAATCTACACTCTAAAAT 60.407 42.308 4.76 0.00 40.22 1.82
5096 8519 5.105473 CCTCCGGTGAATCTACACTCTAAAA 60.105 44.000 4.76 0.00 40.22 1.52
5097 8520 4.401519 CCTCCGGTGAATCTACACTCTAAA 59.598 45.833 4.76 0.00 40.22 1.85
5098 8521 3.952323 CCTCCGGTGAATCTACACTCTAA 59.048 47.826 4.76 0.00 40.22 2.10
5099 8522 3.552875 CCTCCGGTGAATCTACACTCTA 58.447 50.000 4.76 0.00 40.22 2.43
5100 8523 2.379972 CCTCCGGTGAATCTACACTCT 58.620 52.381 4.76 0.00 40.22 3.24
5101 8524 1.409427 CCCTCCGGTGAATCTACACTC 59.591 57.143 4.76 0.00 40.22 3.51
5102 8525 1.006758 TCCCTCCGGTGAATCTACACT 59.993 52.381 4.76 0.00 40.22 3.55
5103 8526 1.409427 CTCCCTCCGGTGAATCTACAC 59.591 57.143 4.76 0.00 39.70 2.90
5104 8527 1.006758 ACTCCCTCCGGTGAATCTACA 59.993 52.381 4.76 0.00 0.00 2.74
5105 8528 1.777941 ACTCCCTCCGGTGAATCTAC 58.222 55.000 4.76 0.00 0.00 2.59
5106 8529 2.512896 ACTACTCCCTCCGGTGAATCTA 59.487 50.000 4.76 0.00 0.00 1.98
5107 8530 1.288335 ACTACTCCCTCCGGTGAATCT 59.712 52.381 4.76 0.00 0.00 2.40
5108 8531 1.777941 ACTACTCCCTCCGGTGAATC 58.222 55.000 4.76 0.00 0.00 2.52
5109 8532 3.117246 TGATACTACTCCCTCCGGTGAAT 60.117 47.826 4.76 0.00 0.00 2.57
5110 8533 2.242965 TGATACTACTCCCTCCGGTGAA 59.757 50.000 4.76 0.00 0.00 3.18
5111 8534 1.848388 TGATACTACTCCCTCCGGTGA 59.152 52.381 4.76 0.00 0.00 4.02
5112 8535 2.359981 TGATACTACTCCCTCCGGTG 57.640 55.000 0.00 0.00 0.00 4.94
5113 8536 2.946785 CTTGATACTACTCCCTCCGGT 58.053 52.381 0.00 0.00 0.00 5.28
5114 8537 1.614413 GCTTGATACTACTCCCTCCGG 59.386 57.143 0.00 0.00 0.00 5.14
5115 8538 1.267261 CGCTTGATACTACTCCCTCCG 59.733 57.143 0.00 0.00 0.00 4.63
5116 8539 2.308690 ACGCTTGATACTACTCCCTCC 58.691 52.381 0.00 0.00 0.00 4.30
5117 8540 4.388378 AAACGCTTGATACTACTCCCTC 57.612 45.455 0.00 0.00 0.00 4.30
5118 8541 4.222145 TGAAAACGCTTGATACTACTCCCT 59.778 41.667 0.00 0.00 0.00 4.20
5119 8542 4.501071 TGAAAACGCTTGATACTACTCCC 58.499 43.478 0.00 0.00 0.00 4.30
5120 8543 5.063564 CCTTGAAAACGCTTGATACTACTCC 59.936 44.000 0.00 0.00 0.00 3.85
5121 8544 5.638234 ACCTTGAAAACGCTTGATACTACTC 59.362 40.000 0.00 0.00 0.00 2.59
5122 8545 5.548406 ACCTTGAAAACGCTTGATACTACT 58.452 37.500 0.00 0.00 0.00 2.57
5123 8546 5.638234 AGACCTTGAAAACGCTTGATACTAC 59.362 40.000 0.00 0.00 0.00 2.73
5124 8547 5.790593 AGACCTTGAAAACGCTTGATACTA 58.209 37.500 0.00 0.00 0.00 1.82
5125 8548 4.642429 AGACCTTGAAAACGCTTGATACT 58.358 39.130 0.00 0.00 0.00 2.12
5135 8558 6.697455 GGTTCTTTCATTGAGACCTTGAAAAC 59.303 38.462 0.00 0.00 38.49 2.43
5182 8605 2.642254 CCTTCCGACGCCCTACACA 61.642 63.158 0.00 0.00 0.00 3.72
5201 8624 3.822594 TCAACATTGACGGCAACATAC 57.177 42.857 5.42 0.00 36.72 2.39
5232 8655 7.095060 CCTGATCCCGAGTTTACATCATATTTG 60.095 40.741 0.00 0.00 0.00 2.32
5234 8657 6.270000 TCCTGATCCCGAGTTTACATCATATT 59.730 38.462 0.00 0.00 0.00 1.28
5235 8658 5.780282 TCCTGATCCCGAGTTTACATCATAT 59.220 40.000 0.00 0.00 0.00 1.78
5249 8682 4.122776 CAAGTTTACATCTCCTGATCCCG 58.877 47.826 0.00 0.00 0.00 5.14
5265 8698 3.117738 CCATAGCTCCTGATCCCAAGTTT 60.118 47.826 0.00 0.00 0.00 2.66
5267 8700 2.053244 CCATAGCTCCTGATCCCAAGT 58.947 52.381 0.00 0.00 0.00 3.16
5277 8710 1.694169 CACCACCCCCATAGCTCCT 60.694 63.158 0.00 0.00 0.00 3.69
5278 8711 1.062488 ATCACCACCCCCATAGCTCC 61.062 60.000 0.00 0.00 0.00 4.70
5284 8717 0.044702 TCTCTGATCACCACCCCCAT 59.955 55.000 0.00 0.00 0.00 4.00
5285 8718 0.044702 ATCTCTGATCACCACCCCCA 59.955 55.000 0.00 0.00 0.00 4.96
5313 8746 2.586357 TTTGCCGCCAAAAACCGC 60.586 55.556 0.00 0.00 37.97 5.68
5341 8774 0.373024 GAAGCAGCATCAAGAGCGAC 59.627 55.000 0.00 0.00 37.01 5.19
5396 8829 2.093973 AGTTGAGGGACACGATTAGCTG 60.094 50.000 0.00 0.00 0.00 4.24


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

AutoCloner maintained by Alex Coulton.