Multiple sequence alignment - TraesCS2B01G116600

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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 TraesCS2B01G116600 chr2B 100.000 4235 0 0 1 4235 79710088 79705854 0.000000e+00 7821.0
1 TraesCS2B01G116600 chr2B 86.054 2352 309 13 869 3214 80200438 80202776 0.000000e+00 2508.0
2 TraesCS2B01G116600 chr2B 84.446 2366 337 21 783 3133 79671967 79669618 0.000000e+00 2302.0
3 TraesCS2B01G116600 chr2B 81.317 2596 370 49 595 3139 794032148 794029617 0.000000e+00 2001.0
4 TraesCS2B01G116600 chr2B 94.444 198 10 1 460 657 79672387 79672191 1.910000e-78 303.0
5 TraesCS2B01G116600 chr2B 87.288 118 12 1 3097 3211 79669606 79669489 9.550000e-27 132.0
6 TraesCS2B01G116600 chr2B 100.000 29 0 0 3979 4007 79706016 79705988 2.000000e-03 54.7
7 TraesCS2B01G116600 chr2B 100.000 29 0 0 4073 4101 79706110 79706082 2.000000e-03 54.7
8 TraesCS2B01G116600 chr2A 95.193 3412 137 11 304 3700 52573841 52570442 0.000000e+00 5367.0
9 TraesCS2B01G116600 chr2A 86.060 2353 309 15 869 3214 52756522 52758862 0.000000e+00 2510.0
10 TraesCS2B01G116600 chr2A 83.914 373 28 14 3705 4077 52759504 52759844 1.140000e-85 327.0
11 TraesCS2B01G116600 chr2A 83.776 339 38 5 595 927 761277780 761278107 5.320000e-79 305.0
12 TraesCS2B01G116600 chr2A 91.919 198 14 2 460 657 52428742 52428547 4.170000e-70 276.0
13 TraesCS2B01G116600 chr2A 79.457 258 33 12 417 667 52541416 52541172 9.420000e-37 165.0
14 TraesCS2B01G116600 chr2A 90.526 95 7 1 783 877 52428309 52428217 1.600000e-24 124.0
15 TraesCS2B01G116600 chr2D 94.697 3300 142 11 411 3700 51160746 51157470 0.000000e+00 5094.0
16 TraesCS2B01G116600 chr2D 86.431 2351 302 11 869 3214 51253154 51255492 0.000000e+00 2558.0
17 TraesCS2B01G116600 chr2D 89.676 833 78 5 726 1554 51138033 51137205 0.000000e+00 1055.0
18 TraesCS2B01G116600 chr2D 86.902 397 30 8 3690 4081 51157224 51156845 3.910000e-115 425.0
19 TraesCS2B01G116600 chr2D 90.566 318 16 5 6 317 51161088 51160779 3.940000e-110 409.0
20 TraesCS2B01G116600 chr2D 80.620 258 30 11 417 667 51139801 51139557 9.350000e-42 182.0
21 TraesCS2B01G116600 chr7D 81.245 2714 449 40 510 3212 76396486 76399150 0.000000e+00 2137.0
22 TraesCS2B01G116600 chr7D 82.290 2044 333 19 1178 3212 79360862 79358839 0.000000e+00 1742.0
23 TraesCS2B01G116600 chr7B 82.294 2293 378 22 777 3062 26654430 26652159 0.000000e+00 1960.0
24 TraesCS2B01G116600 chr3B 82.536 2216 356 18 1014 3214 703922184 703924383 0.000000e+00 1919.0
25 TraesCS2B01G116600 chr7A 83.022 2032 315 18 1190 3212 82155452 82153442 0.000000e+00 1814.0


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 TraesCS2B01G116600 chr2B 79705854 79710088 4234 True 7821.000000 7821 100.000000 1 4235 1 chr2B.!!$R1 4234
1 TraesCS2B01G116600 chr2B 80200438 80202776 2338 False 2508.000000 2508 86.054000 869 3214 1 chr2B.!!$F1 2345
2 TraesCS2B01G116600 chr2B 794029617 794032148 2531 True 2001.000000 2001 81.317000 595 3139 1 chr2B.!!$R2 2544
3 TraesCS2B01G116600 chr2B 79669489 79672387 2898 True 912.333333 2302 88.726000 460 3211 3 chr2B.!!$R3 2751
4 TraesCS2B01G116600 chr2A 52570442 52573841 3399 True 5367.000000 5367 95.193000 304 3700 1 chr2A.!!$R2 3396
5 TraesCS2B01G116600 chr2A 52756522 52759844 3322 False 1418.500000 2510 84.987000 869 4077 2 chr2A.!!$F2 3208
6 TraesCS2B01G116600 chr2D 51253154 51255492 2338 False 2558.000000 2558 86.431000 869 3214 1 chr2D.!!$F1 2345
7 TraesCS2B01G116600 chr2D 51156845 51161088 4243 True 1976.000000 5094 90.721667 6 4081 3 chr2D.!!$R2 4075
8 TraesCS2B01G116600 chr2D 51137205 51139801 2596 True 618.500000 1055 85.148000 417 1554 2 chr2D.!!$R1 1137
9 TraesCS2B01G116600 chr7D 76396486 76399150 2664 False 2137.000000 2137 81.245000 510 3212 1 chr7D.!!$F1 2702
10 TraesCS2B01G116600 chr7D 79358839 79360862 2023 True 1742.000000 1742 82.290000 1178 3212 1 chr7D.!!$R1 2034
11 TraesCS2B01G116600 chr7B 26652159 26654430 2271 True 1960.000000 1960 82.294000 777 3062 1 chr7B.!!$R1 2285
12 TraesCS2B01G116600 chr3B 703922184 703924383 2199 False 1919.000000 1919 82.536000 1014 3214 1 chr3B.!!$F1 2200
13 TraesCS2B01G116600 chr7A 82153442 82155452 2010 True 1814.000000 1814 83.022000 1190 3212 1 chr7A.!!$R1 2022

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
233 240 0.035317 CAACTGGTGGCACTCAGCTA 59.965 55.0 25.99 5.82 43.76 3.32 F
235 242 0.251354 ACTGGTGGCACTCAGCTATG 59.749 55.0 25.99 11.30 43.76 2.23 F
1004 2534 0.253044 TTTGAGCCTCGAGGAATGGG 59.747 55.0 35.69 8.91 37.39 4.00 F
2079 3628 0.618458 ATGGAGAAGCGCTTACCCAA 59.382 50.0 33.00 22.00 31.20 4.12 F
2859 4427 0.249911 GCTGGTTTCTCGGTGACAGT 60.250 55.0 0.00 0.00 0.00 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2079 3628 0.033504 TTGAGCTCGGACTCGCTTTT 59.966 50.000 9.64 0.0 39.68 2.27 R
2136 3685 5.066375 GCCACTATCATCACTGTAATTGCAA 59.934 40.000 0.00 0.0 0.00 4.08 R
2456 4020 0.178990 GTTGGTGAAGCTTGGACCCT 60.179 55.000 17.79 0.0 0.00 4.34 R
2969 4546 0.828022 AGTCCGGTTCACTGTCAACA 59.172 50.000 0.00 0.0 0.00 3.33 R
4162 6096 1.133668 AGGCAGATTATGACAAGGGCC 60.134 52.381 0.00 0.0 40.68 5.80 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
23 24 6.096673 GGTCAATAACAGTTGGGTCAAAAT 57.903 37.500 0.00 0.00 0.00 1.82
74 75 0.460635 CATGCAAAATCCTTGGGCCG 60.461 55.000 0.00 0.00 0.00 6.13
80 81 2.499303 AAATCCTTGGGCCGTGGGAG 62.499 60.000 15.23 1.90 0.00 4.30
101 103 6.153067 GGAGTATTATCTGACATCCAACTCG 58.847 44.000 0.00 0.00 33.34 4.18
160 162 0.519077 CTGAAGGGCGTTTTCTCAGC 59.481 55.000 0.00 0.00 0.00 4.26
161 163 0.179032 TGAAGGGCGTTTTCTCAGCA 60.179 50.000 0.00 0.00 0.00 4.41
189 191 6.131544 TCAGTTTACAAGTCCTTTTTCAGC 57.868 37.500 0.00 0.00 0.00 4.26
225 232 3.119319 TCCCTAATATCAACTGGTGGCA 58.881 45.455 0.00 0.00 0.00 4.92
230 237 2.768253 TATCAACTGGTGGCACTCAG 57.232 50.000 25.04 25.04 36.67 3.35
233 240 0.035317 CAACTGGTGGCACTCAGCTA 59.965 55.000 25.99 5.82 43.76 3.32
235 242 0.251354 ACTGGTGGCACTCAGCTATG 59.749 55.000 25.99 11.30 43.76 2.23
236 243 0.463295 CTGGTGGCACTCAGCTATGG 60.463 60.000 18.45 0.00 43.76 2.74
237 244 1.200760 TGGTGGCACTCAGCTATGGT 61.201 55.000 18.45 0.00 43.76 3.55
239 246 0.745845 GTGGCACTCAGCTATGGTGG 60.746 60.000 11.13 0.00 44.79 4.61
244 251 1.134280 CACTCAGCTATGGTGGGGAAG 60.134 57.143 1.71 0.00 35.63 3.46
245 252 0.471617 CTCAGCTATGGTGGGGAAGG 59.528 60.000 0.00 0.00 0.00 3.46
246 253 0.988145 TCAGCTATGGTGGGGAAGGG 60.988 60.000 0.00 0.00 0.00 3.95
247 254 1.697754 AGCTATGGTGGGGAAGGGG 60.698 63.158 0.00 0.00 0.00 4.79
248 255 2.927056 CTATGGTGGGGAAGGGGC 59.073 66.667 0.00 0.00 0.00 5.80
249 256 1.697754 CTATGGTGGGGAAGGGGCT 60.698 63.158 0.00 0.00 0.00 5.19
295 302 6.808321 TGGTCTTGTAGAGCATTTAGGTAT 57.192 37.500 4.59 0.00 46.53 2.73
296 303 7.195374 TGGTCTTGTAGAGCATTTAGGTATT 57.805 36.000 4.59 0.00 46.53 1.89
297 304 7.272978 TGGTCTTGTAGAGCATTTAGGTATTC 58.727 38.462 4.59 0.00 46.53 1.75
298 305 7.093068 TGGTCTTGTAGAGCATTTAGGTATTCA 60.093 37.037 4.59 0.00 46.53 2.57
299 306 7.439655 GGTCTTGTAGAGCATTTAGGTATTCAG 59.560 40.741 1.29 0.00 42.03 3.02
300 307 7.982354 GTCTTGTAGAGCATTTAGGTATTCAGT 59.018 37.037 0.00 0.00 0.00 3.41
301 308 7.981789 TCTTGTAGAGCATTTAGGTATTCAGTG 59.018 37.037 0.00 0.00 0.00 3.66
302 309 7.182817 TGTAGAGCATTTAGGTATTCAGTGT 57.817 36.000 0.00 0.00 0.00 3.55
313 320 6.377327 AGGTATTCAGTGTTTCAGTGTTTG 57.623 37.500 4.80 0.00 36.33 2.93
335 342 3.691609 GTGCCTGGTTTAGAGAAATCTGG 59.308 47.826 0.00 3.04 43.99 3.86
338 345 4.767409 GCCTGGTTTAGAGAAATCTGGTTT 59.233 41.667 7.99 0.00 43.39 3.27
415 424 3.507233 TGCACCCATTCTGTCATTTTCTC 59.493 43.478 0.00 0.00 0.00 2.87
438 447 3.949754 CCATTTCTTCATGCAGCTCCTAA 59.050 43.478 0.00 0.00 0.00 2.69
455 464 7.872993 CAGCTCCTAATAATATTCGTTCAGGAA 59.127 37.037 0.00 0.00 30.86 3.36
879 2402 9.884465 GCTGGATTTGTCAACTGATTAATATAC 57.116 33.333 0.00 0.00 0.00 1.47
1004 2534 0.253044 TTTGAGCCTCGAGGAATGGG 59.747 55.000 35.69 8.91 37.39 4.00
1029 2559 4.523173 TCGTTCACAAATCTCTCAGTACCT 59.477 41.667 0.00 0.00 0.00 3.08
1030 2560 5.010719 TCGTTCACAAATCTCTCAGTACCTT 59.989 40.000 0.00 0.00 0.00 3.50
1056 2586 1.524849 GCTCGCCATCCTCTTTCCC 60.525 63.158 0.00 0.00 0.00 3.97
1217 2747 3.971032 CAAGTCTTTCTTGCCGAGTTT 57.029 42.857 0.00 0.00 45.37 2.66
1450 2980 2.783288 GGCTACGGGAAGGGAGTCG 61.783 68.421 0.00 0.00 0.00 4.18
1950 3487 3.778619 CGCAGGTAATGATGGTCCA 57.221 52.632 0.00 0.00 0.00 4.02
2079 3628 0.618458 ATGGAGAAGCGCTTACCCAA 59.382 50.000 33.00 22.00 31.20 4.12
2113 3662 1.544691 GCTCAAAGTCGTACCCTCTCA 59.455 52.381 0.00 0.00 0.00 3.27
2297 3849 0.802494 GGCTACACCACCATTGTTCG 59.198 55.000 0.00 0.00 38.86 3.95
2334 3886 1.457823 TTGTACAGGTGACCGCGTCT 61.458 55.000 4.92 0.00 33.15 4.18
2777 4345 4.715523 CGGCCATGTGAACCCGGT 62.716 66.667 2.24 0.00 37.21 5.28
2847 4415 3.159298 CGGCTACATCTGCTGGTTT 57.841 52.632 0.00 0.00 33.50 3.27
2859 4427 0.249911 GCTGGTTTCTCGGTGACAGT 60.250 55.000 0.00 0.00 0.00 3.55
2903 4471 1.377725 CAAGCTTGACCTGCGGGAT 60.378 57.895 22.31 1.74 36.25 3.85
2919 4487 1.304381 GATGCTGCCCAAGGTCCAA 60.304 57.895 0.00 0.00 0.00 3.53
2969 4546 2.404215 CGTGTTGGTTTCATCGACTCT 58.596 47.619 0.00 0.00 0.00 3.24
2973 4550 3.559655 TGTTGGTTTCATCGACTCTGTTG 59.440 43.478 0.00 0.00 0.00 3.33
3148 4776 1.826385 CGACTTGGGCAAGGAAGAAT 58.174 50.000 0.00 0.00 42.53 2.40
3155 4783 2.039216 TGGGCAAGGAAGAATTGTACGA 59.961 45.455 0.00 0.00 0.00 3.43
3229 4878 1.227380 GCTCTTCCGGCGTCATCAT 60.227 57.895 6.01 0.00 0.00 2.45
3309 4959 5.509622 GTCATCTTCAGTATTTCTTTTGCGC 59.490 40.000 0.00 0.00 0.00 6.09
3380 5031 7.148755 GCATTTTGATTTACTTACTGGTGCAAG 60.149 37.037 0.00 0.00 0.00 4.01
3394 5045 5.596772 ACTGGTGCAAGGTTTTAAGTTATGT 59.403 36.000 0.00 0.00 0.00 2.29
3428 5079 1.599542 GATGAGCGGTTGATACTTGGC 59.400 52.381 0.00 0.00 0.00 4.52
3474 5125 1.071385 CTGCCTGTCTGAAACTCCACT 59.929 52.381 0.00 0.00 0.00 4.00
3502 5159 6.035327 CCTTTTTGTTCAGAGCAAGAAAACAG 59.965 38.462 4.79 0.00 30.54 3.16
3510 5167 3.073650 AGAGCAAGAAAACAGAGGTGGAT 59.926 43.478 0.00 0.00 0.00 3.41
3519 5176 3.146104 ACAGAGGTGGATGGAAACTTG 57.854 47.619 0.00 0.00 0.00 3.16
3590 5247 7.981102 AGGAAACAGAGTAAATAGGTGAAAC 57.019 36.000 0.00 0.00 0.00 2.78
3658 5315 8.619146 TTATTTTTGCTTTAATGCAGATCTCG 57.381 30.769 14.80 0.00 44.27 4.04
3686 5343 8.196771 TCTAAATGCTCAACAAAAGAAATGTGT 58.803 29.630 0.00 0.00 0.00 3.72
3701 5358 9.651913 AAAGAAATGTGTAAATTGTTGTTGTCT 57.348 25.926 0.00 0.00 0.00 3.41
3719 5648 2.746362 GTCTCTTTCCATCAAGCACCAG 59.254 50.000 0.00 0.00 0.00 4.00
3761 5690 5.291971 ACAATGCATTCTTGTTTGGTCTTC 58.708 37.500 9.53 0.00 33.10 2.87
3784 5714 9.617975 CTTCCACTAGAAAATGACATTCTTTTC 57.382 33.333 0.05 3.11 40.18 2.29
3822 5752 7.406031 ACGAAAGGACTAACTGAATCTCATA 57.594 36.000 0.00 0.00 0.00 2.15
3862 5796 3.625313 TGAGACGCTCAATCTCTCTAGTG 59.375 47.826 7.02 0.00 42.68 2.74
3914 5848 1.597742 ACTGCAGGATTGTGACACAC 58.402 50.000 19.93 0.00 34.56 3.82
3921 5855 4.261741 GCAGGATTGTGACACACAGAAAAT 60.262 41.667 8.05 0.00 45.39 1.82
3929 5863 6.041511 TGTGACACACAGAAAATTTTCATGG 58.958 36.000 28.00 19.79 39.62 3.66
3953 5887 3.553096 CCGCATTCTATTACCGAGCTTCT 60.553 47.826 0.00 0.00 0.00 2.85
4070 6004 9.838339 TTTATGGGAGTAGAATCTTCAGAATTC 57.162 33.333 0.00 0.00 0.00 2.17
4081 6015 9.978044 AGAATCTTCAGAATTCTTTTTCTTTGG 57.022 29.630 4.86 0.00 33.69 3.28
4082 6016 8.599055 AATCTTCAGAATTCTTTTTCTTTGGC 57.401 30.769 4.86 0.00 33.69 4.52
4083 6017 7.352079 TCTTCAGAATTCTTTTTCTTTGGCT 57.648 32.000 4.86 0.00 33.69 4.75
4084 6018 8.463930 TCTTCAGAATTCTTTTTCTTTGGCTA 57.536 30.769 4.86 0.00 33.69 3.93
4085 6019 8.352942 TCTTCAGAATTCTTTTTCTTTGGCTAC 58.647 33.333 4.86 0.00 33.69 3.58
4086 6020 7.823745 TCAGAATTCTTTTTCTTTGGCTACT 57.176 32.000 4.86 0.00 33.69 2.57
4087 6021 8.918202 TCAGAATTCTTTTTCTTTGGCTACTA 57.082 30.769 4.86 0.00 33.69 1.82
4088 6022 9.520515 TCAGAATTCTTTTTCTTTGGCTACTAT 57.479 29.630 4.86 0.00 33.69 2.12
4089 6023 9.565213 CAGAATTCTTTTTCTTTGGCTACTATG 57.435 33.333 4.86 0.00 33.69 2.23
4090 6024 8.743714 AGAATTCTTTTTCTTTGGCTACTATGG 58.256 33.333 0.88 0.00 31.94 2.74
4091 6025 5.897377 TCTTTTTCTTTGGCTACTATGGC 57.103 39.130 0.00 0.00 0.00 4.40
4092 6026 5.321102 TCTTTTTCTTTGGCTACTATGGCA 58.679 37.500 0.00 0.00 40.80 4.92
4093 6027 5.183140 TCTTTTTCTTTGGCTACTATGGCAC 59.817 40.000 0.00 0.00 42.23 5.01
4121 6055 1.539388 TGGTGCAGCCAAATAACTTCG 59.461 47.619 14.36 0.00 45.94 3.79
4122 6056 1.810151 GGTGCAGCCAAATAACTTCGA 59.190 47.619 4.03 0.00 37.17 3.71
4123 6057 2.423538 GGTGCAGCCAAATAACTTCGAT 59.576 45.455 4.03 0.00 37.17 3.59
4124 6058 3.119495 GGTGCAGCCAAATAACTTCGATT 60.119 43.478 4.03 0.00 37.17 3.34
4125 6059 4.098416 GTGCAGCCAAATAACTTCGATTC 58.902 43.478 0.00 0.00 0.00 2.52
4126 6060 3.128589 TGCAGCCAAATAACTTCGATTCC 59.871 43.478 0.00 0.00 0.00 3.01
4127 6061 3.128589 GCAGCCAAATAACTTCGATTCCA 59.871 43.478 0.00 0.00 0.00 3.53
4128 6062 4.202050 GCAGCCAAATAACTTCGATTCCAT 60.202 41.667 0.00 0.00 0.00 3.41
4129 6063 5.008613 GCAGCCAAATAACTTCGATTCCATA 59.991 40.000 0.00 0.00 0.00 2.74
4130 6064 6.294176 GCAGCCAAATAACTTCGATTCCATAT 60.294 38.462 0.00 0.00 0.00 1.78
4131 6065 7.651808 CAGCCAAATAACTTCGATTCCATATT 58.348 34.615 0.00 0.00 0.00 1.28
4132 6066 7.805071 CAGCCAAATAACTTCGATTCCATATTC 59.195 37.037 0.00 0.00 0.00 1.75
4133 6067 7.040409 AGCCAAATAACTTCGATTCCATATTCC 60.040 37.037 0.00 0.00 0.00 3.01
4134 6068 7.593825 CCAAATAACTTCGATTCCATATTCCC 58.406 38.462 0.00 0.00 0.00 3.97
4135 6069 7.298122 CAAATAACTTCGATTCCATATTCCCG 58.702 38.462 0.00 0.00 0.00 5.14
4136 6070 4.417426 AACTTCGATTCCATATTCCCGT 57.583 40.909 0.00 0.00 0.00 5.28
4137 6071 3.728845 ACTTCGATTCCATATTCCCGTG 58.271 45.455 0.00 0.00 0.00 4.94
4138 6072 3.134081 ACTTCGATTCCATATTCCCGTGT 59.866 43.478 0.00 0.00 0.00 4.49
4139 6073 3.830744 TCGATTCCATATTCCCGTGTT 57.169 42.857 0.00 0.00 0.00 3.32
4140 6074 4.145365 TCGATTCCATATTCCCGTGTTT 57.855 40.909 0.00 0.00 0.00 2.83
4141 6075 5.279255 TCGATTCCATATTCCCGTGTTTA 57.721 39.130 0.00 0.00 0.00 2.01
4142 6076 5.672503 TCGATTCCATATTCCCGTGTTTAA 58.327 37.500 0.00 0.00 0.00 1.52
4143 6077 6.114089 TCGATTCCATATTCCCGTGTTTAAA 58.886 36.000 0.00 0.00 0.00 1.52
4144 6078 6.598457 TCGATTCCATATTCCCGTGTTTAAAA 59.402 34.615 0.00 0.00 0.00 1.52
4145 6079 7.283580 TCGATTCCATATTCCCGTGTTTAAAAT 59.716 33.333 0.00 0.00 0.00 1.82
4146 6080 7.918562 CGATTCCATATTCCCGTGTTTAAAATT 59.081 33.333 0.00 0.00 0.00 1.82
4147 6081 9.594478 GATTCCATATTCCCGTGTTTAAAATTT 57.406 29.630 0.00 0.00 0.00 1.82
4148 6082 8.989653 TTCCATATTCCCGTGTTTAAAATTTC 57.010 30.769 0.00 0.00 0.00 2.17
4149 6083 8.123639 TCCATATTCCCGTGTTTAAAATTTCA 57.876 30.769 0.00 0.00 0.00 2.69
4150 6084 8.585881 TCCATATTCCCGTGTTTAAAATTTCAA 58.414 29.630 0.00 0.00 0.00 2.69
4151 6085 9.377312 CCATATTCCCGTGTTTAAAATTTCAAT 57.623 29.630 0.00 0.00 0.00 2.57
4157 6091 9.849166 TCCCGTGTTTAAAATTTCAATAGATTC 57.151 29.630 0.00 0.00 0.00 2.52
4158 6092 9.083080 CCCGTGTTTAAAATTTCAATAGATTCC 57.917 33.333 0.00 0.00 0.00 3.01
4159 6093 9.632807 CCGTGTTTAAAATTTCAATAGATTCCA 57.367 29.630 0.00 0.00 0.00 3.53
4165 6099 9.612066 TTAAAATTTCAATAGATTCCAATGGCC 57.388 29.630 0.00 0.00 0.00 5.36
4166 6100 5.813513 ATTTCAATAGATTCCAATGGCCC 57.186 39.130 0.00 0.00 0.00 5.80
4167 6101 4.541250 TTCAATAGATTCCAATGGCCCT 57.459 40.909 0.00 0.00 0.00 5.19
4168 6102 4.541250 TCAATAGATTCCAATGGCCCTT 57.459 40.909 0.00 0.00 0.00 3.95
4169 6103 4.217510 TCAATAGATTCCAATGGCCCTTG 58.782 43.478 13.42 13.42 0.00 3.61
4170 6104 3.962718 CAATAGATTCCAATGGCCCTTGT 59.037 43.478 18.13 1.29 0.00 3.16
4171 6105 2.149973 AGATTCCAATGGCCCTTGTC 57.850 50.000 18.13 10.14 0.00 3.18
4172 6106 1.358787 AGATTCCAATGGCCCTTGTCA 59.641 47.619 18.13 5.90 0.00 3.58
4173 6107 2.023695 AGATTCCAATGGCCCTTGTCAT 60.024 45.455 18.13 10.08 38.84 3.06
4174 6108 3.205056 AGATTCCAATGGCCCTTGTCATA 59.795 43.478 18.13 2.69 35.21 2.15
4175 6109 3.464720 TTCCAATGGCCCTTGTCATAA 57.535 42.857 18.13 5.72 35.21 1.90
4176 6110 3.686227 TCCAATGGCCCTTGTCATAAT 57.314 42.857 18.13 0.00 35.21 1.28
4177 6111 3.565307 TCCAATGGCCCTTGTCATAATC 58.435 45.455 18.13 0.00 35.21 1.75
4178 6112 3.205056 TCCAATGGCCCTTGTCATAATCT 59.795 43.478 18.13 0.00 35.21 2.40
4179 6113 3.319972 CCAATGGCCCTTGTCATAATCTG 59.680 47.826 18.13 0.00 35.21 2.90
4180 6114 2.057137 TGGCCCTTGTCATAATCTGC 57.943 50.000 0.00 0.00 0.00 4.26
4181 6115 1.322442 GGCCCTTGTCATAATCTGCC 58.678 55.000 0.00 0.00 0.00 4.85
4182 6116 1.133668 GGCCCTTGTCATAATCTGCCT 60.134 52.381 0.00 0.00 34.83 4.75
4183 6117 2.659428 GCCCTTGTCATAATCTGCCTT 58.341 47.619 0.00 0.00 0.00 4.35
4184 6118 3.026694 GCCCTTGTCATAATCTGCCTTT 58.973 45.455 0.00 0.00 0.00 3.11
4185 6119 3.448660 GCCCTTGTCATAATCTGCCTTTT 59.551 43.478 0.00 0.00 0.00 2.27
4186 6120 4.440663 GCCCTTGTCATAATCTGCCTTTTC 60.441 45.833 0.00 0.00 0.00 2.29
4187 6121 4.098501 CCCTTGTCATAATCTGCCTTTTCC 59.901 45.833 0.00 0.00 0.00 3.13
4188 6122 4.952335 CCTTGTCATAATCTGCCTTTTCCT 59.048 41.667 0.00 0.00 0.00 3.36
4189 6123 6.122277 CCTTGTCATAATCTGCCTTTTCCTA 58.878 40.000 0.00 0.00 0.00 2.94
4190 6124 6.774656 CCTTGTCATAATCTGCCTTTTCCTAT 59.225 38.462 0.00 0.00 0.00 2.57
4191 6125 7.286316 CCTTGTCATAATCTGCCTTTTCCTATT 59.714 37.037 0.00 0.00 0.00 1.73
4192 6126 7.807977 TGTCATAATCTGCCTTTTCCTATTC 57.192 36.000 0.00 0.00 0.00 1.75
4193 6127 6.772716 TGTCATAATCTGCCTTTTCCTATTCC 59.227 38.462 0.00 0.00 0.00 3.01
4194 6128 6.207614 GTCATAATCTGCCTTTTCCTATTCCC 59.792 42.308 0.00 0.00 0.00 3.97
4195 6129 2.710096 TCTGCCTTTTCCTATTCCCG 57.290 50.000 0.00 0.00 0.00 5.14
4196 6130 1.913419 TCTGCCTTTTCCTATTCCCGT 59.087 47.619 0.00 0.00 0.00 5.28
4197 6131 2.017049 CTGCCTTTTCCTATTCCCGTG 58.983 52.381 0.00 0.00 0.00 4.94
4198 6132 1.353022 TGCCTTTTCCTATTCCCGTGT 59.647 47.619 0.00 0.00 0.00 4.49
4199 6133 2.572556 TGCCTTTTCCTATTCCCGTGTA 59.427 45.455 0.00 0.00 0.00 2.90
4200 6134 3.203716 GCCTTTTCCTATTCCCGTGTAG 58.796 50.000 0.00 0.00 0.00 2.74
4201 6135 3.805207 CCTTTTCCTATTCCCGTGTAGG 58.195 50.000 0.00 0.00 39.06 3.18
4202 6136 2.994186 TTTCCTATTCCCGTGTAGGC 57.006 50.000 0.00 0.00 37.87 3.93
4203 6137 2.170012 TTCCTATTCCCGTGTAGGCT 57.830 50.000 0.00 0.00 37.87 4.58
4204 6138 3.317455 TTCCTATTCCCGTGTAGGCTA 57.683 47.619 0.00 0.00 37.87 3.93
4205 6139 3.317455 TCCTATTCCCGTGTAGGCTAA 57.683 47.619 0.00 0.00 37.87 3.09
4206 6140 2.961062 TCCTATTCCCGTGTAGGCTAAC 59.039 50.000 0.00 0.00 37.87 2.34
4207 6141 2.963782 CCTATTCCCGTGTAGGCTAACT 59.036 50.000 0.00 0.00 39.21 2.24
4208 6142 4.141181 TCCTATTCCCGTGTAGGCTAACTA 60.141 45.833 0.00 0.00 37.87 2.24
4209 6143 4.586001 CCTATTCCCGTGTAGGCTAACTAA 59.414 45.833 0.00 0.00 39.21 2.24
4210 6144 5.069516 CCTATTCCCGTGTAGGCTAACTAAA 59.930 44.000 0.00 0.00 39.21 1.85
4211 6145 4.888326 TTCCCGTGTAGGCTAACTAAAA 57.112 40.909 0.00 0.00 39.21 1.52
4212 6146 5.425196 TTCCCGTGTAGGCTAACTAAAAT 57.575 39.130 0.00 0.00 39.21 1.82
4213 6147 5.425196 TCCCGTGTAGGCTAACTAAAATT 57.575 39.130 0.00 0.00 39.21 1.82
4214 6148 5.807909 TCCCGTGTAGGCTAACTAAAATTT 58.192 37.500 0.00 0.00 39.21 1.82
4215 6149 5.644636 TCCCGTGTAGGCTAACTAAAATTTG 59.355 40.000 0.00 0.00 39.21 2.32
4216 6150 5.329493 CCGTGTAGGCTAACTAAAATTTGC 58.671 41.667 0.00 0.00 32.37 3.68
4217 6151 5.019498 CGTGTAGGCTAACTAAAATTTGCG 58.981 41.667 0.00 0.00 32.37 4.85
4218 6152 5.390145 CGTGTAGGCTAACTAAAATTTGCGT 60.390 40.000 0.00 0.00 33.94 5.24
4219 6153 6.183360 CGTGTAGGCTAACTAAAATTTGCGTA 60.183 38.462 0.00 0.00 32.25 4.42
4220 6154 7.520686 GTGTAGGCTAACTAAAATTTGCGTAA 58.479 34.615 0.00 0.00 34.26 3.18
4221 6155 7.691050 GTGTAGGCTAACTAAAATTTGCGTAAG 59.309 37.037 0.00 0.00 34.26 2.34
4222 6156 6.190954 AGGCTAACTAAAATTTGCGTAAGG 57.809 37.500 0.00 0.00 32.00 2.69
4223 6157 5.124936 AGGCTAACTAAAATTTGCGTAAGGG 59.875 40.000 0.00 0.00 32.00 3.95
4224 6158 5.337554 GCTAACTAAAATTTGCGTAAGGGG 58.662 41.667 0.00 0.00 38.28 4.79
4225 6159 4.794278 AACTAAAATTTGCGTAAGGGGG 57.206 40.909 0.00 0.00 38.28 5.40
4226 6160 3.770046 ACTAAAATTTGCGTAAGGGGGT 58.230 40.909 0.00 0.00 38.28 4.95
4227 6161 4.154176 ACTAAAATTTGCGTAAGGGGGTT 58.846 39.130 0.00 0.00 38.28 4.11
4228 6162 5.323581 ACTAAAATTTGCGTAAGGGGGTTA 58.676 37.500 0.00 0.00 38.28 2.85
4229 6163 4.794278 AAAATTTGCGTAAGGGGGTTAG 57.206 40.909 0.00 0.00 38.28 2.34
4230 6164 3.444792 AATTTGCGTAAGGGGGTTAGT 57.555 42.857 0.00 0.00 38.28 2.24
4231 6165 2.955342 TTTGCGTAAGGGGGTTAGTT 57.045 45.000 0.00 0.00 38.28 2.24
4232 6166 2.955342 TTGCGTAAGGGGGTTAGTTT 57.045 45.000 0.00 0.00 38.28 2.66
4233 6167 2.188062 TGCGTAAGGGGGTTAGTTTG 57.812 50.000 0.00 0.00 38.28 2.93
4234 6168 1.271488 TGCGTAAGGGGGTTAGTTTGG 60.271 52.381 0.00 0.00 38.28 3.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.523438 TTTTGACCCAACTGTTATTGACC 57.477 39.130 0.00 0.00 0.00 4.02
43 44 8.859090 CAAGGATTTTGCATGATAACCCTAATA 58.141 33.333 0.00 0.00 0.00 0.98
65 66 1.921869 AATACTCCCACGGCCCAAGG 61.922 60.000 0.00 0.00 0.00 3.61
74 75 5.808366 TGGATGTCAGATAATACTCCCAC 57.192 43.478 0.00 0.00 0.00 4.61
80 81 5.844004 ACCGAGTTGGATGTCAGATAATAC 58.156 41.667 2.42 0.00 42.00 1.89
101 103 0.744771 GAATCGCTCCTGTTGGGACC 60.745 60.000 0.00 0.00 39.58 4.46
161 163 9.936759 TGAAAAAGGACTTGTAAACTGATTTTT 57.063 25.926 0.00 0.00 31.93 1.94
189 191 7.498900 TGATATTAGGGAGTAAACACATTGCAG 59.501 37.037 0.00 0.00 0.00 4.41
225 232 1.207791 CTTCCCCACCATAGCTGAGT 58.792 55.000 0.00 0.00 0.00 3.41
230 237 2.927056 CCCCTTCCCCACCATAGC 59.073 66.667 0.00 0.00 0.00 2.97
233 240 3.350163 CAGCCCCTTCCCCACCAT 61.350 66.667 0.00 0.00 0.00 3.55
235 242 3.264845 TTCAGCCCCTTCCCCACC 61.265 66.667 0.00 0.00 0.00 4.61
236 243 2.035783 GTTCAGCCCCTTCCCCAC 59.964 66.667 0.00 0.00 0.00 4.61
237 244 2.121506 AGTTCAGCCCCTTCCCCA 60.122 61.111 0.00 0.00 0.00 4.96
239 246 0.609406 GTTGAGTTCAGCCCCTTCCC 60.609 60.000 0.00 0.00 0.00 3.97
244 251 0.890996 CACCAGTTGAGTTCAGCCCC 60.891 60.000 0.00 0.00 0.00 5.80
245 252 0.890996 CCACCAGTTGAGTTCAGCCC 60.891 60.000 0.00 0.00 0.00 5.19
246 253 1.518903 GCCACCAGTTGAGTTCAGCC 61.519 60.000 0.00 0.00 0.00 4.85
247 254 0.536006 AGCCACCAGTTGAGTTCAGC 60.536 55.000 0.00 0.00 0.00 4.26
248 255 1.202687 TGAGCCACCAGTTGAGTTCAG 60.203 52.381 0.00 0.00 0.00 3.02
249 256 0.836606 TGAGCCACCAGTTGAGTTCA 59.163 50.000 0.00 0.00 0.00 3.18
295 302 3.366883 GGCACAAACACTGAAACACTGAA 60.367 43.478 0.00 0.00 0.00 3.02
296 303 2.163412 GGCACAAACACTGAAACACTGA 59.837 45.455 0.00 0.00 0.00 3.41
297 304 2.164219 AGGCACAAACACTGAAACACTG 59.836 45.455 0.00 0.00 0.00 3.66
298 305 2.164219 CAGGCACAAACACTGAAACACT 59.836 45.455 0.00 0.00 34.21 3.55
299 306 2.529151 CAGGCACAAACACTGAAACAC 58.471 47.619 0.00 0.00 34.21 3.32
300 307 1.476085 CCAGGCACAAACACTGAAACA 59.524 47.619 0.00 0.00 34.21 2.83
301 308 1.476488 ACCAGGCACAAACACTGAAAC 59.524 47.619 0.00 0.00 34.21 2.78
302 309 1.846007 ACCAGGCACAAACACTGAAA 58.154 45.000 0.00 0.00 34.21 2.69
313 320 3.691609 CCAGATTTCTCTAAACCAGGCAC 59.308 47.826 0.00 0.00 0.00 5.01
415 424 1.407979 GGAGCTGCATGAAGAAATGGG 59.592 52.381 4.31 0.00 0.00 4.00
556 569 7.118496 AGTACTATCAACAGATTCCTGAAGG 57.882 40.000 0.00 0.00 43.02 3.46
879 2402 2.849473 GTGTTGTGTGTTACTTTTGGCG 59.151 45.455 0.00 0.00 0.00 5.69
962 2488 3.428870 CCACACAACTACACGATGAAGAC 59.571 47.826 0.00 0.00 0.00 3.01
1004 2534 3.654414 ACTGAGAGATTTGTGAACGACC 58.346 45.455 0.00 0.00 0.00 4.79
1029 2559 1.003580 AGGATGGCGAGCAAGAGAAAA 59.996 47.619 0.00 0.00 0.00 2.29
1030 2560 0.615331 AGGATGGCGAGCAAGAGAAA 59.385 50.000 0.00 0.00 0.00 2.52
1217 2747 2.747443 TTGGACTCACCCGCCAACA 61.747 57.895 0.00 0.00 36.80 3.33
1450 2980 1.071605 GTGTCGAGCAGTCCAATGAC 58.928 55.000 0.00 0.00 42.09 3.06
1563 3099 0.323302 TGGCACCGATGAGCTTGTTA 59.677 50.000 0.00 0.00 0.00 2.41
1950 3487 1.924731 TGGTGACCGAGAACAGATCT 58.075 50.000 0.00 0.00 42.61 2.75
2079 3628 0.033504 TTGAGCTCGGACTCGCTTTT 59.966 50.000 9.64 0.00 39.68 2.27
2136 3685 5.066375 GCCACTATCATCACTGTAATTGCAA 59.934 40.000 0.00 0.00 0.00 4.08
2334 3886 0.321564 CTTTGAGGATGCCACCGTCA 60.322 55.000 0.00 0.00 34.73 4.35
2456 4020 0.178990 GTTGGTGAAGCTTGGACCCT 60.179 55.000 17.79 0.00 0.00 4.34
2810 4378 1.424493 GGCATACTCAGTGACGCTGC 61.424 60.000 11.29 7.28 44.66 5.25
2847 4415 0.965866 CTAGGCCACTGTCACCGAGA 60.966 60.000 5.01 0.00 0.00 4.04
2859 4427 1.078497 CACGATGGTTGCTAGGCCA 60.078 57.895 5.01 0.00 39.33 5.36
2903 4471 2.203480 GTTGGACCTTGGGCAGCA 60.203 61.111 0.00 0.00 0.00 4.41
2919 4487 1.012486 GGTAGTTAAGCTGCGCGTGT 61.012 55.000 8.43 0.00 0.00 4.49
2969 4546 0.828022 AGTCCGGTTCACTGTCAACA 59.172 50.000 0.00 0.00 0.00 3.33
3148 4776 1.275291 CAAGCTTCCCTCCTCGTACAA 59.725 52.381 0.00 0.00 0.00 2.41
3327 4978 7.057894 AGTGTTTCTTCCATTGGTACTGTTTA 58.942 34.615 1.86 0.00 0.00 2.01
3328 4979 5.891551 AGTGTTTCTTCCATTGGTACTGTTT 59.108 36.000 1.86 0.00 0.00 2.83
3329 4980 5.445964 AGTGTTTCTTCCATTGGTACTGTT 58.554 37.500 1.86 0.00 0.00 3.16
3349 5000 7.867403 ACCAGTAAGTAAATCAAAATGCAAGTG 59.133 33.333 0.00 0.00 0.00 3.16
3359 5010 5.381757 ACCTTGCACCAGTAAGTAAATCAA 58.618 37.500 0.00 0.00 35.92 2.57
3380 5031 7.586747 TGGTTCGAATCACATAACTTAAAACC 58.413 34.615 7.11 0.00 33.55 3.27
3394 5045 2.480244 CGCTCATCTCTGGTTCGAATCA 60.480 50.000 11.31 11.31 0.00 2.57
3448 5099 2.636893 AGTTTCAGACAGGCAGAGATGT 59.363 45.455 0.00 0.00 0.00 3.06
3474 5125 4.269183 TCTTGCTCTGAACAAAAAGGTCA 58.731 39.130 0.00 0.00 43.06 4.02
3502 5159 3.140325 TCACAAGTTTCCATCCACCTC 57.860 47.619 0.00 0.00 0.00 3.85
3510 5167 4.199310 CTCCAGAGTTTCACAAGTTTCCA 58.801 43.478 0.00 0.00 0.00 3.53
3590 5247 1.519455 GGACACAATCGCCTCTCCG 60.519 63.158 0.00 0.00 0.00 4.63
3640 5297 2.868583 GAGCGAGATCTGCATTAAAGCA 59.131 45.455 16.20 5.13 43.35 3.91
3658 5315 7.383300 ACATTTCTTTTGTTGAGCATTTAGAGC 59.617 33.333 0.00 0.00 0.00 4.09
3686 5343 8.231692 TGATGGAAAGAGACAACAACAATTTA 57.768 30.769 0.00 0.00 0.00 1.40
3696 5353 3.149196 GGTGCTTGATGGAAAGAGACAA 58.851 45.455 0.00 0.00 0.00 3.18
3700 5357 1.471684 GCTGGTGCTTGATGGAAAGAG 59.528 52.381 0.00 0.00 36.03 2.85
3701 5358 1.202915 TGCTGGTGCTTGATGGAAAGA 60.203 47.619 0.00 0.00 40.48 2.52
3719 5648 2.947652 TGTACTACTACGACCTGGATGC 59.052 50.000 0.00 0.00 0.00 3.91
3761 5690 7.023575 CCGAAAAGAATGTCATTTTCTAGTGG 58.976 38.462 0.00 0.00 33.17 4.00
3784 5714 5.234972 AGTCCTTTCGTTGTAAAACTAACCG 59.765 40.000 0.00 0.00 0.00 4.44
3822 5752 4.159693 GTCTCAGGGAAAACAGTTTTTGGT 59.840 41.667 12.62 0.00 34.94 3.67
3862 5796 9.683069 ATTAAAACAATGTTCAAGATCTCACAC 57.317 29.630 0.00 0.00 0.00 3.82
3896 5830 1.534163 CTGTGTGTCACAATCCTGCAG 59.466 52.381 7.38 6.78 44.08 4.41
3897 5831 1.140652 TCTGTGTGTCACAATCCTGCA 59.859 47.619 7.38 0.00 44.08 4.41
3909 5843 5.600696 GGTCCATGAAAATTTTCTGTGTGT 58.399 37.500 26.73 7.72 38.02 3.72
3914 5848 3.911868 TGCGGTCCATGAAAATTTTCTG 58.088 40.909 26.73 21.19 38.02 3.02
3921 5855 5.298276 GGTAATAGAATGCGGTCCATGAAAA 59.702 40.000 0.00 0.00 33.49 2.29
3929 5863 2.059541 GCTCGGTAATAGAATGCGGTC 58.940 52.381 0.00 0.00 0.00 4.79
3953 5887 2.763039 TCCATGAGACAGGAGCCAATA 58.237 47.619 0.00 0.00 0.00 1.90
4044 5978 9.838339 GAATTCTGAAGATTCTACTCCCATAAA 57.162 33.333 0.00 0.00 0.00 1.40
4063 5997 9.565213 CATAGTAGCCAAAGAAAAAGAATTCTG 57.435 33.333 9.17 0.00 39.54 3.02
4070 6004 5.048083 TGTGCCATAGTAGCCAAAGAAAAAG 60.048 40.000 0.00 0.00 0.00 2.27
4078 6012 1.339631 GGTGTGTGCCATAGTAGCCAA 60.340 52.381 0.00 0.00 0.00 4.52
4081 6015 3.393800 CATAGGTGTGTGCCATAGTAGC 58.606 50.000 0.00 0.00 0.00 3.58
4082 6016 3.388024 ACCATAGGTGTGTGCCATAGTAG 59.612 47.826 0.00 0.00 32.98 2.57
4083 6017 3.380393 ACCATAGGTGTGTGCCATAGTA 58.620 45.455 0.00 0.00 32.98 1.82
4084 6018 2.196595 ACCATAGGTGTGTGCCATAGT 58.803 47.619 0.00 0.00 32.98 2.12
4102 6036 1.810151 TCGAAGTTATTTGGCTGCACC 59.190 47.619 0.50 0.00 39.84 5.01
4103 6037 3.764885 ATCGAAGTTATTTGGCTGCAC 57.235 42.857 0.50 0.00 0.00 4.57
4104 6038 3.128589 GGAATCGAAGTTATTTGGCTGCA 59.871 43.478 0.50 0.00 0.00 4.41
4105 6039 3.128589 TGGAATCGAAGTTATTTGGCTGC 59.871 43.478 0.00 0.00 0.00 5.25
4106 6040 4.963276 TGGAATCGAAGTTATTTGGCTG 57.037 40.909 0.00 0.00 0.00 4.85
4107 6041 7.040409 GGAATATGGAATCGAAGTTATTTGGCT 60.040 37.037 0.00 0.00 0.00 4.75
4108 6042 7.084486 GGAATATGGAATCGAAGTTATTTGGC 58.916 38.462 0.00 0.00 0.00 4.52
4109 6043 7.573096 CGGGAATATGGAATCGAAGTTATTTGG 60.573 40.741 0.00 0.00 0.00 3.28
4110 6044 7.041372 ACGGGAATATGGAATCGAAGTTATTTG 60.041 37.037 0.00 0.00 0.00 2.32
4111 6045 6.996282 ACGGGAATATGGAATCGAAGTTATTT 59.004 34.615 0.00 0.00 0.00 1.40
4112 6046 6.426937 CACGGGAATATGGAATCGAAGTTATT 59.573 38.462 0.00 0.00 0.00 1.40
4113 6047 5.932303 CACGGGAATATGGAATCGAAGTTAT 59.068 40.000 0.00 0.00 0.00 1.89
4114 6048 5.163385 ACACGGGAATATGGAATCGAAGTTA 60.163 40.000 0.00 0.00 0.00 2.24
4115 6049 4.127171 CACGGGAATATGGAATCGAAGTT 58.873 43.478 0.00 0.00 0.00 2.66
4116 6050 3.134081 ACACGGGAATATGGAATCGAAGT 59.866 43.478 0.00 0.00 0.00 3.01
4117 6051 3.728845 ACACGGGAATATGGAATCGAAG 58.271 45.455 0.00 0.00 0.00 3.79
4118 6052 3.830744 ACACGGGAATATGGAATCGAA 57.169 42.857 0.00 0.00 0.00 3.71
4119 6053 3.830744 AACACGGGAATATGGAATCGA 57.169 42.857 0.00 0.00 0.00 3.59
4120 6054 5.994887 TTAAACACGGGAATATGGAATCG 57.005 39.130 0.00 0.00 0.00 3.34
4121 6055 9.594478 AAATTTTAAACACGGGAATATGGAATC 57.406 29.630 0.00 0.00 0.00 2.52
4122 6056 9.594478 GAAATTTTAAACACGGGAATATGGAAT 57.406 29.630 0.00 0.00 0.00 3.01
4123 6057 8.585881 TGAAATTTTAAACACGGGAATATGGAA 58.414 29.630 0.00 0.00 0.00 3.53
4124 6058 8.123639 TGAAATTTTAAACACGGGAATATGGA 57.876 30.769 0.00 0.00 0.00 3.41
4125 6059 8.764524 TTGAAATTTTAAACACGGGAATATGG 57.235 30.769 0.00 0.00 0.00 2.74
4131 6065 9.849166 GAATCTATTGAAATTTTAAACACGGGA 57.151 29.630 0.00 0.00 0.00 5.14
4132 6066 9.083080 GGAATCTATTGAAATTTTAAACACGGG 57.917 33.333 0.00 0.00 0.00 5.28
4133 6067 9.632807 TGGAATCTATTGAAATTTTAAACACGG 57.367 29.630 0.00 0.00 0.00 4.94
4139 6073 9.612066 GGCCATTGGAATCTATTGAAATTTTAA 57.388 29.630 6.95 0.00 0.00 1.52
4140 6074 8.210265 GGGCCATTGGAATCTATTGAAATTTTA 58.790 33.333 6.95 0.00 0.00 1.52
4141 6075 7.056006 GGGCCATTGGAATCTATTGAAATTTT 58.944 34.615 6.95 0.00 0.00 1.82
4142 6076 6.387807 AGGGCCATTGGAATCTATTGAAATTT 59.612 34.615 6.18 0.00 0.00 1.82
4143 6077 5.907079 AGGGCCATTGGAATCTATTGAAATT 59.093 36.000 6.18 0.00 0.00 1.82
4144 6078 5.470501 AGGGCCATTGGAATCTATTGAAAT 58.529 37.500 6.18 0.00 0.00 2.17
4145 6079 4.882559 AGGGCCATTGGAATCTATTGAAA 58.117 39.130 6.18 0.00 0.00 2.69
4146 6080 4.541250 AGGGCCATTGGAATCTATTGAA 57.459 40.909 6.18 0.00 0.00 2.69
4147 6081 4.217510 CAAGGGCCATTGGAATCTATTGA 58.782 43.478 22.41 0.00 0.00 2.57
4148 6082 3.962718 ACAAGGGCCATTGGAATCTATTG 59.037 43.478 31.72 5.96 34.36 1.90
4149 6083 4.218312 GACAAGGGCCATTGGAATCTATT 58.782 43.478 31.72 10.14 34.36 1.73
4150 6084 3.205056 TGACAAGGGCCATTGGAATCTAT 59.795 43.478 31.72 10.91 34.36 1.98
4151 6085 2.580322 TGACAAGGGCCATTGGAATCTA 59.420 45.455 31.72 10.06 34.36 1.98
4152 6086 1.358787 TGACAAGGGCCATTGGAATCT 59.641 47.619 31.72 12.43 34.36 2.40
4153 6087 1.851304 TGACAAGGGCCATTGGAATC 58.149 50.000 31.72 21.02 34.36 2.52
4154 6088 2.555732 ATGACAAGGGCCATTGGAAT 57.444 45.000 31.72 21.57 34.36 3.01
4155 6089 3.464720 TTATGACAAGGGCCATTGGAA 57.535 42.857 31.72 20.34 34.36 3.53
4156 6090 3.205056 AGATTATGACAAGGGCCATTGGA 59.795 43.478 31.72 19.23 34.36 3.53
4157 6091 3.319972 CAGATTATGACAAGGGCCATTGG 59.680 47.826 31.72 15.33 34.36 3.16
4158 6092 3.243636 GCAGATTATGACAAGGGCCATTG 60.244 47.826 27.76 27.76 36.22 2.82
4159 6093 2.961062 GCAGATTATGACAAGGGCCATT 59.039 45.455 6.18 0.00 0.00 3.16
4160 6094 2.590821 GCAGATTATGACAAGGGCCAT 58.409 47.619 6.18 0.00 0.00 4.40
4161 6095 1.410083 GGCAGATTATGACAAGGGCCA 60.410 52.381 6.18 0.00 39.88 5.36
4162 6096 1.133668 AGGCAGATTATGACAAGGGCC 60.134 52.381 0.00 0.00 40.68 5.80
4163 6097 2.355010 AGGCAGATTATGACAAGGGC 57.645 50.000 0.00 0.00 40.68 5.19
4164 6098 4.098501 GGAAAAGGCAGATTATGACAAGGG 59.901 45.833 0.00 0.00 40.68 3.95
4165 6099 4.952335 AGGAAAAGGCAGATTATGACAAGG 59.048 41.667 0.00 0.00 40.68 3.61
4166 6100 7.814264 ATAGGAAAAGGCAGATTATGACAAG 57.186 36.000 0.00 0.00 40.68 3.16
4167 6101 7.285401 GGAATAGGAAAAGGCAGATTATGACAA 59.715 37.037 0.00 0.00 40.68 3.18
4168 6102 6.772716 GGAATAGGAAAAGGCAGATTATGACA 59.227 38.462 0.00 0.00 40.68 3.58
4169 6103 6.207614 GGGAATAGGAAAAGGCAGATTATGAC 59.792 42.308 0.00 0.00 37.09 3.06
4170 6104 6.306987 GGGAATAGGAAAAGGCAGATTATGA 58.693 40.000 0.00 0.00 0.00 2.15
4171 6105 5.182001 CGGGAATAGGAAAAGGCAGATTATG 59.818 44.000 0.00 0.00 0.00 1.90
4172 6106 5.163088 ACGGGAATAGGAAAAGGCAGATTAT 60.163 40.000 0.00 0.00 0.00 1.28
4173 6107 4.165372 ACGGGAATAGGAAAAGGCAGATTA 59.835 41.667 0.00 0.00 0.00 1.75
4174 6108 3.053619 ACGGGAATAGGAAAAGGCAGATT 60.054 43.478 0.00 0.00 0.00 2.40
4175 6109 2.509964 ACGGGAATAGGAAAAGGCAGAT 59.490 45.455 0.00 0.00 0.00 2.90
4176 6110 1.913419 ACGGGAATAGGAAAAGGCAGA 59.087 47.619 0.00 0.00 0.00 4.26
4177 6111 2.017049 CACGGGAATAGGAAAAGGCAG 58.983 52.381 0.00 0.00 0.00 4.85
4178 6112 1.353022 ACACGGGAATAGGAAAAGGCA 59.647 47.619 0.00 0.00 0.00 4.75
4179 6113 2.124277 ACACGGGAATAGGAAAAGGC 57.876 50.000 0.00 0.00 0.00 4.35
4180 6114 3.805207 CCTACACGGGAATAGGAAAAGG 58.195 50.000 0.00 0.00 40.53 3.11
4181 6115 3.118371 AGCCTACACGGGAATAGGAAAAG 60.118 47.826 5.55 0.00 40.53 2.27
4182 6116 2.841881 AGCCTACACGGGAATAGGAAAA 59.158 45.455 5.55 0.00 40.53 2.29
4183 6117 2.474112 AGCCTACACGGGAATAGGAAA 58.526 47.619 5.55 0.00 40.53 3.13
4184 6118 2.170012 AGCCTACACGGGAATAGGAA 57.830 50.000 5.55 0.00 40.53 3.36
4185 6119 2.961062 GTTAGCCTACACGGGAATAGGA 59.039 50.000 5.55 0.00 40.53 2.94
4186 6120 2.963782 AGTTAGCCTACACGGGAATAGG 59.036 50.000 0.00 0.00 40.95 2.57
4187 6121 5.779529 TTAGTTAGCCTACACGGGAATAG 57.220 43.478 0.00 0.00 0.00 1.73
4188 6122 6.543430 TTTTAGTTAGCCTACACGGGAATA 57.457 37.500 0.00 0.00 0.00 1.75
4189 6123 5.425196 TTTTAGTTAGCCTACACGGGAAT 57.575 39.130 0.00 0.00 0.00 3.01
4190 6124 4.888326 TTTTAGTTAGCCTACACGGGAA 57.112 40.909 0.00 0.00 0.00 3.97
4191 6125 5.425196 AATTTTAGTTAGCCTACACGGGA 57.575 39.130 0.00 0.00 0.00 5.14
4192 6126 5.675323 GCAAATTTTAGTTAGCCTACACGGG 60.675 44.000 0.00 0.00 0.00 5.28
4193 6127 5.329493 GCAAATTTTAGTTAGCCTACACGG 58.671 41.667 0.00 0.00 0.00 4.94
4194 6128 5.019498 CGCAAATTTTAGTTAGCCTACACG 58.981 41.667 0.00 0.00 0.00 4.49
4195 6129 5.934921 ACGCAAATTTTAGTTAGCCTACAC 58.065 37.500 0.00 0.00 0.00 2.90
4196 6130 7.148373 CCTTACGCAAATTTTAGTTAGCCTACA 60.148 37.037 1.25 0.00 0.00 2.74
4197 6131 7.184779 CCTTACGCAAATTTTAGTTAGCCTAC 58.815 38.462 1.25 0.00 0.00 3.18
4198 6132 6.316890 CCCTTACGCAAATTTTAGTTAGCCTA 59.683 38.462 1.25 0.00 0.00 3.93
4199 6133 5.124936 CCCTTACGCAAATTTTAGTTAGCCT 59.875 40.000 1.25 0.00 0.00 4.58
4200 6134 5.337554 CCCTTACGCAAATTTTAGTTAGCC 58.662 41.667 1.25 0.00 0.00 3.93
4201 6135 5.337554 CCCCTTACGCAAATTTTAGTTAGC 58.662 41.667 1.25 0.00 0.00 3.09
4202 6136 5.416639 ACCCCCTTACGCAAATTTTAGTTAG 59.583 40.000 1.25 2.36 0.00 2.34
4203 6137 5.323581 ACCCCCTTACGCAAATTTTAGTTA 58.676 37.500 1.25 0.00 0.00 2.24
4204 6138 4.154176 ACCCCCTTACGCAAATTTTAGTT 58.846 39.130 1.25 0.00 0.00 2.24
4205 6139 3.770046 ACCCCCTTACGCAAATTTTAGT 58.230 40.909 0.00 0.00 0.00 2.24
4206 6140 4.794278 AACCCCCTTACGCAAATTTTAG 57.206 40.909 0.00 0.00 0.00 1.85
4207 6141 5.323581 ACTAACCCCCTTACGCAAATTTTA 58.676 37.500 0.00 0.00 0.00 1.52
4208 6142 4.154176 ACTAACCCCCTTACGCAAATTTT 58.846 39.130 0.00 0.00 0.00 1.82
4209 6143 3.770046 ACTAACCCCCTTACGCAAATTT 58.230 40.909 0.00 0.00 0.00 1.82
4210 6144 3.444792 ACTAACCCCCTTACGCAAATT 57.555 42.857 0.00 0.00 0.00 1.82
4211 6145 3.444792 AACTAACCCCCTTACGCAAAT 57.555 42.857 0.00 0.00 0.00 2.32
4212 6146 2.885894 CAAACTAACCCCCTTACGCAAA 59.114 45.455 0.00 0.00 0.00 3.68
4213 6147 2.506444 CAAACTAACCCCCTTACGCAA 58.494 47.619 0.00 0.00 0.00 4.85
4214 6148 1.271488 CCAAACTAACCCCCTTACGCA 60.271 52.381 0.00 0.00 0.00 5.24
4215 6149 1.456296 CCAAACTAACCCCCTTACGC 58.544 55.000 0.00 0.00 0.00 4.42


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

AutoCloner maintained by Alex Coulton.