Multiple sequence alignment - TraesCS5B01G083800

Loading Multiple Alignment...

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 TraesCS5B01G083800 chr5B 100.000 4755 0 0 1 4755 105774339 105779093 0.000000e+00 8781.0
1 TraesCS5B01G083800 chr5B 97.352 4041 69 14 1 4035 103575203 103579211 0.000000e+00 6835.0
2 TraesCS5B01G083800 chr5B 88.571 105 11 1 4651 4754 91208136 91208240 5.000000e-25 126.0
3 TraesCS5B01G083800 chr5D 93.318 4325 196 40 3 4290 97330114 97334382 0.000000e+00 6300.0
4 TraesCS5B01G083800 chr5A 94.776 4058 128 34 15 4037 106732364 106728356 0.000000e+00 6242.0
5 TraesCS5B01G083800 chr5A 92.287 363 21 4 3675 4037 106723227 106722872 4.250000e-140 508.0
6 TraesCS5B01G083800 chr5A 93.636 220 9 4 4075 4293 106728348 106728133 1.650000e-84 324.0
7 TraesCS5B01G083800 chr5A 82.857 245 15 12 4075 4293 106722864 106722621 1.350000e-45 195.0
8 TraesCS5B01G083800 chr1D 94.318 264 13 2 4316 4578 365804821 365804559 2.060000e-108 403.0
9 TraesCS5B01G083800 chr1D 94.231 260 13 2 4322 4580 76971207 76970949 3.450000e-106 396.0
10 TraesCS5B01G083800 chr1D 100.000 30 0 0 4648 4677 384733856 384733827 6.650000e-04 56.5
11 TraesCS5B01G083800 chr3A 93.962 265 14 2 4317 4581 552211997 552211735 2.670000e-107 399.0
12 TraesCS5B01G083800 chr1B 93.962 265 14 2 4316 4578 12835102 12835366 2.670000e-107 399.0
13 TraesCS5B01G083800 chr7A 93.962 265 13 3 4314 4578 584381833 584381572 9.590000e-107 398.0
14 TraesCS5B01G083800 chr7A 93.233 266 14 3 4317 4581 465760605 465760867 5.770000e-104 388.0
15 TraesCS5B01G083800 chr7A 92.381 105 7 1 4650 4753 440779925 440779821 1.070000e-31 148.0
16 TraesCS5B01G083800 chr2B 93.284 268 15 3 4315 4581 166592379 166592114 4.460000e-105 392.0
17 TraesCS5B01G083800 chr2B 92.115 279 17 4 4306 4579 548017832 548017554 5.770000e-104 388.0
18 TraesCS5B01G083800 chr6B 92.364 275 16 4 4305 4578 256975914 256976184 2.080000e-103 387.0
19 TraesCS5B01G083800 chr6B 88.496 113 12 1 4643 4754 201936490 201936602 8.300000e-28 135.0
20 TraesCS5B01G083800 chr4D 90.741 108 9 1 4648 4754 166583579 166583686 4.960000e-30 143.0


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 TraesCS5B01G083800 chr5B 105774339 105779093 4754 False 8781.0 8781 100.000 1 4755 1 chr5B.!!$F3 4754
1 TraesCS5B01G083800 chr5B 103575203 103579211 4008 False 6835.0 6835 97.352 1 4035 1 chr5B.!!$F2 4034
2 TraesCS5B01G083800 chr5D 97330114 97334382 4268 False 6300.0 6300 93.318 3 4290 1 chr5D.!!$F1 4287
3 TraesCS5B01G083800 chr5A 106728133 106732364 4231 True 3283.0 6242 94.206 15 4293 2 chr5A.!!$R2 4278
4 TraesCS5B01G083800 chr5A 106722621 106723227 606 True 351.5 508 87.572 3675 4293 2 chr5A.!!$R1 618

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
322 325 0.868406 CTCGTGTTGTTTGGCTCCTC 59.132 55.000 0.00 0.00 0.00 3.71 F
1202 1250 0.320697 GGAAGTACCGGTGCTGAGTT 59.679 55.000 26.69 10.39 0.00 3.01 F
2031 2079 0.402121 GAACCTCTGTTCCTTGCCCT 59.598 55.000 0.00 0.00 44.20 5.19 F
3056 3105 2.926200 CTGAAGAGCGACATGATTCGTT 59.074 45.455 0.00 0.00 41.26 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1473 1521 1.702886 ATGAGTTCTCTGTTGCGACG 58.297 50.0 0.0 0.0 0.00 5.12 R
3165 3214 0.898320 CACCTTGTGGAGACGGAGAT 59.102 55.0 0.0 0.0 37.04 2.75 R
3395 3444 0.811915 GCTTCTAGTGCGTCTCCAGA 59.188 55.0 0.0 0.0 0.00 3.86 R
4699 4799 0.393267 GCACGTAATAGGGGTTGCCA 60.393 55.0 0.0 0.0 0.00 4.92 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
25 26 2.343101 CGAATGCTTTAGGTTCCGTGA 58.657 47.619 0.00 0.00 0.00 4.35
310 313 0.875728 CCTGTCTCGTCTCTCGTGTT 59.124 55.000 0.00 0.00 40.80 3.32
322 325 0.868406 CTCGTGTTGTTTGGCTCCTC 59.132 55.000 0.00 0.00 0.00 3.71
806 848 1.727467 GGACGAATTGGGGATTGCG 59.273 57.895 0.00 0.00 0.00 4.85
834 876 3.426191 CCACTCGTCGTTTGTTTCGAATA 59.574 43.478 0.00 0.00 39.01 1.75
835 877 4.432503 CCACTCGTCGTTTGTTTCGAATAG 60.433 45.833 0.00 0.00 39.01 1.73
867 915 1.668047 GCCTTGTGCTCATGTTCTTGC 60.668 52.381 0.00 0.00 36.87 4.01
975 1023 1.276421 GCCTTGTGCTGAGGAACTAGA 59.724 52.381 0.00 0.00 35.99 2.43
1041 1089 4.081309 CACAAGAATGCAGAAATGGGGAAT 60.081 41.667 0.00 0.00 0.00 3.01
1202 1250 0.320697 GGAAGTACCGGTGCTGAGTT 59.679 55.000 26.69 10.39 0.00 3.01
1473 1521 6.015940 CCCAGAGGCATTTTATTAATCCACTC 60.016 42.308 0.00 0.00 0.00 3.51
1518 1566 8.006298 ACATTCCACAACTTTACAATGAGAAA 57.994 30.769 0.00 0.00 0.00 2.52
1878 1926 1.336240 GCAATCCGCTGAAACAAAGCT 60.336 47.619 0.00 0.00 38.57 3.74
2031 2079 0.402121 GAACCTCTGTTCCTTGCCCT 59.598 55.000 0.00 0.00 44.20 5.19
2332 2381 8.306313 TCTCTTATCTCTTGCTAATGGTTGTA 57.694 34.615 0.00 0.00 0.00 2.41
3056 3105 2.926200 CTGAAGAGCGACATGATTCGTT 59.074 45.455 0.00 0.00 41.26 3.85
3395 3444 6.049790 GCCGAACCTTTCTGTCTAAATCTAT 58.950 40.000 0.00 0.00 0.00 1.98
3815 3878 9.914131 GATATAGCATGTAGTGTTGACTGATTA 57.086 33.333 0.00 0.00 33.21 1.75
3944 4017 1.279025 GGTCAGGCATTGGGGGACTA 61.279 60.000 0.00 0.00 0.00 2.59
4019 4092 3.139397 TCACACTGGGTTGGGAACTATTT 59.861 43.478 0.00 0.00 0.00 1.40
4038 4111 4.517952 TTTATGCACACTCCAAATGTGG 57.482 40.909 0.00 0.00 46.22 4.17
4053 4126 5.653507 CAAATGTGGAATTATCACACTGGG 58.346 41.667 14.02 4.12 46.19 4.45
4054 4127 4.591321 ATGTGGAATTATCACACTGGGT 57.409 40.909 14.02 0.00 46.19 4.51
4055 4128 4.380843 TGTGGAATTATCACACTGGGTT 57.619 40.909 9.28 0.00 39.83 4.11
4056 4129 4.078537 TGTGGAATTATCACACTGGGTTG 58.921 43.478 9.28 0.00 39.83 3.77
4057 4130 3.443681 GTGGAATTATCACACTGGGTTGG 59.556 47.826 6.55 0.00 35.39 3.77
4058 4131 3.023832 GGAATTATCACACTGGGTTGGG 58.976 50.000 0.00 0.00 0.00 4.12
4060 4133 4.340617 GAATTATCACACTGGGTTGGGAA 58.659 43.478 0.00 0.00 30.98 3.97
4061 4134 2.871096 TATCACACTGGGTTGGGAAC 57.129 50.000 0.00 0.00 30.98 3.62
4064 4137 2.344592 TCACACTGGGTTGGGAACTAT 58.655 47.619 0.00 0.00 0.00 2.12
4065 4138 2.304761 TCACACTGGGTTGGGAACTATC 59.695 50.000 0.00 0.00 0.00 2.08
4066 4139 2.039746 CACACTGGGTTGGGAACTATCA 59.960 50.000 0.00 0.00 0.00 2.15
4067 4140 2.039879 ACACTGGGTTGGGAACTATCAC 59.960 50.000 0.00 0.00 0.00 3.06
4068 4141 2.039746 CACTGGGTTGGGAACTATCACA 59.960 50.000 0.00 0.00 37.13 3.58
4069 4142 2.039879 ACTGGGTTGGGAACTATCACAC 59.960 50.000 0.00 0.00 39.16 3.82
4070 4143 2.305927 CTGGGTTGGGAACTATCACACT 59.694 50.000 0.00 0.00 39.16 3.55
4071 4144 2.039746 TGGGTTGGGAACTATCACACTG 59.960 50.000 0.00 0.00 39.16 3.66
4072 4145 2.618045 GGGTTGGGAACTATCACACTGG 60.618 54.545 0.00 0.00 39.16 4.00
4073 4146 2.618045 GGTTGGGAACTATCACACTGGG 60.618 54.545 0.00 0.00 39.16 4.45
4128 4203 8.648698 TCATTTTCAACATATTCCAGGAGAAA 57.351 30.769 0.00 0.00 38.21 2.52
4133 4208 9.581289 TTTCAACATATTCCAGGAGAAAGTTTA 57.419 29.630 0.00 0.00 38.21 2.01
4165 4240 6.558771 TGATGTGTGACACTAGGATTTTTG 57.441 37.500 17.47 0.00 35.11 2.44
4293 4393 6.318648 AGCATCGATTCATAAAAGGCAAGTAA 59.681 34.615 0.00 0.00 0.00 2.24
4294 4394 6.634436 GCATCGATTCATAAAAGGCAAGTAAG 59.366 38.462 0.00 0.00 0.00 2.34
4295 4395 6.677781 TCGATTCATAAAAGGCAAGTAAGG 57.322 37.500 0.00 0.00 0.00 2.69
4296 4396 5.588648 TCGATTCATAAAAGGCAAGTAAGGG 59.411 40.000 0.00 0.00 0.00 3.95
4297 4397 5.357032 CGATTCATAAAAGGCAAGTAAGGGT 59.643 40.000 0.00 0.00 0.00 4.34
4298 4398 6.458342 CGATTCATAAAAGGCAAGTAAGGGTC 60.458 42.308 0.00 0.00 0.00 4.46
4299 4399 4.595986 TCATAAAAGGCAAGTAAGGGTCC 58.404 43.478 0.00 0.00 0.00 4.46
4300 4400 1.905637 AAAAGGCAAGTAAGGGTCCG 58.094 50.000 0.00 0.00 0.00 4.79
4301 4401 0.769247 AAAGGCAAGTAAGGGTCCGT 59.231 50.000 0.00 0.00 0.00 4.69
4302 4402 1.648116 AAGGCAAGTAAGGGTCCGTA 58.352 50.000 0.00 0.00 0.00 4.02
4303 4403 1.192428 AGGCAAGTAAGGGTCCGTAG 58.808 55.000 0.00 0.00 0.00 3.51
4304 4404 1.188863 GGCAAGTAAGGGTCCGTAGA 58.811 55.000 0.00 0.00 0.00 2.59
4305 4405 1.134877 GGCAAGTAAGGGTCCGTAGAC 60.135 57.143 0.00 0.00 42.73 2.59
4306 4406 1.547372 GCAAGTAAGGGTCCGTAGACA 59.453 52.381 0.00 0.00 45.48 3.41
4307 4407 2.167900 GCAAGTAAGGGTCCGTAGACAT 59.832 50.000 0.00 0.00 45.48 3.06
4308 4408 3.369157 GCAAGTAAGGGTCCGTAGACATT 60.369 47.826 0.00 0.00 45.48 2.71
4309 4409 4.142093 GCAAGTAAGGGTCCGTAGACATTA 60.142 45.833 0.00 0.00 45.48 1.90
4310 4410 5.589192 CAAGTAAGGGTCCGTAGACATTAG 58.411 45.833 0.00 0.00 45.48 1.73
4311 4411 3.635836 AGTAAGGGTCCGTAGACATTAGC 59.364 47.826 0.00 0.00 45.48 3.09
4312 4412 2.456073 AGGGTCCGTAGACATTAGCT 57.544 50.000 0.00 0.00 45.48 3.32
4313 4413 3.589951 AGGGTCCGTAGACATTAGCTA 57.410 47.619 0.00 0.00 45.48 3.32
4314 4414 3.488363 AGGGTCCGTAGACATTAGCTAG 58.512 50.000 0.00 0.00 45.48 3.42
4315 4415 3.137913 AGGGTCCGTAGACATTAGCTAGA 59.862 47.826 0.00 0.00 45.48 2.43
4316 4416 4.080687 GGGTCCGTAGACATTAGCTAGAT 58.919 47.826 0.00 0.00 45.48 1.98
4317 4417 5.013913 AGGGTCCGTAGACATTAGCTAGATA 59.986 44.000 0.00 0.00 45.48 1.98
4318 4418 5.123661 GGGTCCGTAGACATTAGCTAGATAC 59.876 48.000 0.00 0.00 45.48 2.24
4319 4419 5.939296 GGTCCGTAGACATTAGCTAGATACT 59.061 44.000 0.00 0.00 45.48 2.12
4320 4420 6.430616 GGTCCGTAGACATTAGCTAGATACTT 59.569 42.308 0.00 0.00 45.48 2.24
4321 4421 7.361116 GGTCCGTAGACATTAGCTAGATACTTC 60.361 44.444 0.00 0.00 45.48 3.01
4322 4422 6.654161 TCCGTAGACATTAGCTAGATACTTCC 59.346 42.308 0.00 0.00 0.00 3.46
4323 4423 6.655848 CCGTAGACATTAGCTAGATACTTCCT 59.344 42.308 0.00 0.00 0.00 3.36
4324 4424 7.148373 CCGTAGACATTAGCTAGATACTTCCTC 60.148 44.444 0.00 0.00 0.00 3.71
4325 4425 7.148373 CGTAGACATTAGCTAGATACTTCCTCC 60.148 44.444 0.00 0.00 0.00 4.30
4326 4426 5.708230 AGACATTAGCTAGATACTTCCTCCG 59.292 44.000 0.00 0.00 0.00 4.63
4327 4427 5.386924 ACATTAGCTAGATACTTCCTCCGT 58.613 41.667 0.00 0.00 0.00 4.69
4328 4428 5.834204 ACATTAGCTAGATACTTCCTCCGTT 59.166 40.000 0.00 0.00 0.00 4.44
4329 4429 6.324254 ACATTAGCTAGATACTTCCTCCGTTT 59.676 38.462 0.00 0.00 0.00 3.60
4330 4430 4.922471 AGCTAGATACTTCCTCCGTTTC 57.078 45.455 0.00 0.00 0.00 2.78
4331 4431 4.538738 AGCTAGATACTTCCTCCGTTTCT 58.461 43.478 0.00 0.00 0.00 2.52
4332 4432 4.957327 AGCTAGATACTTCCTCCGTTTCTT 59.043 41.667 0.00 0.00 0.00 2.52
4333 4433 5.422650 AGCTAGATACTTCCTCCGTTTCTTT 59.577 40.000 0.00 0.00 0.00 2.52
4334 4434 6.070710 AGCTAGATACTTCCTCCGTTTCTTTT 60.071 38.462 0.00 0.00 0.00 2.27
4335 4435 6.594547 GCTAGATACTTCCTCCGTTTCTTTTT 59.405 38.462 0.00 0.00 0.00 1.94
4336 4436 7.763071 GCTAGATACTTCCTCCGTTTCTTTTTA 59.237 37.037 0.00 0.00 0.00 1.52
4337 4437 9.303537 CTAGATACTTCCTCCGTTTCTTTTTAG 57.696 37.037 0.00 0.00 0.00 1.85
4338 4438 7.677892 AGATACTTCCTCCGTTTCTTTTTAGT 58.322 34.615 0.00 0.00 0.00 2.24
4339 4439 7.818446 AGATACTTCCTCCGTTTCTTTTTAGTC 59.182 37.037 0.00 0.00 0.00 2.59
4340 4440 5.926663 ACTTCCTCCGTTTCTTTTTAGTCT 58.073 37.500 0.00 0.00 0.00 3.24
4341 4441 5.758784 ACTTCCTCCGTTTCTTTTTAGTCTG 59.241 40.000 0.00 0.00 0.00 3.51
4342 4442 4.062991 TCCTCCGTTTCTTTTTAGTCTGC 58.937 43.478 0.00 0.00 0.00 4.26
4343 4443 3.813166 CCTCCGTTTCTTTTTAGTCTGCA 59.187 43.478 0.00 0.00 0.00 4.41
4344 4444 4.455877 CCTCCGTTTCTTTTTAGTCTGCAT 59.544 41.667 0.00 0.00 0.00 3.96
4345 4445 5.642063 CCTCCGTTTCTTTTTAGTCTGCATA 59.358 40.000 0.00 0.00 0.00 3.14
4346 4446 6.316390 CCTCCGTTTCTTTTTAGTCTGCATAT 59.684 38.462 0.00 0.00 0.00 1.78
4347 4447 7.494625 CCTCCGTTTCTTTTTAGTCTGCATATA 59.505 37.037 0.00 0.00 0.00 0.86
4348 4448 8.780846 TCCGTTTCTTTTTAGTCTGCATATAA 57.219 30.769 0.00 0.00 0.00 0.98
4349 4449 9.221933 TCCGTTTCTTTTTAGTCTGCATATAAA 57.778 29.630 0.00 0.00 0.00 1.40
4350 4450 9.834628 CCGTTTCTTTTTAGTCTGCATATAAAA 57.165 29.630 6.73 6.73 0.00 1.52
4552 4652 9.076596 GTTTGACTTTGACCAAATCTTATATGC 57.923 33.333 0.00 0.00 35.14 3.14
4553 4653 7.936496 TGACTTTGACCAAATCTTATATGCA 57.064 32.000 0.00 0.00 0.00 3.96
4554 4654 7.988737 TGACTTTGACCAAATCTTATATGCAG 58.011 34.615 0.00 0.00 0.00 4.41
4555 4655 7.828717 TGACTTTGACCAAATCTTATATGCAGA 59.171 33.333 0.00 0.00 0.00 4.26
4556 4656 7.989826 ACTTTGACCAAATCTTATATGCAGAC 58.010 34.615 0.00 0.00 0.00 3.51
4557 4657 7.831193 ACTTTGACCAAATCTTATATGCAGACT 59.169 33.333 0.00 0.00 0.00 3.24
4558 4658 9.330063 CTTTGACCAAATCTTATATGCAGACTA 57.670 33.333 0.00 0.00 0.00 2.59
4559 4659 9.679661 TTTGACCAAATCTTATATGCAGACTAA 57.320 29.630 0.00 0.00 0.00 2.24
4560 4660 9.679661 TTGACCAAATCTTATATGCAGACTAAA 57.320 29.630 0.00 0.00 0.00 1.85
4561 4661 9.679661 TGACCAAATCTTATATGCAGACTAAAA 57.320 29.630 0.00 0.00 0.00 1.52
4582 4682 3.908643 AAAACGGAGGGAGTATCTTCC 57.091 47.619 0.00 0.00 36.12 3.46
4583 4683 2.850695 AACGGAGGGAGTATCTTCCT 57.149 50.000 0.00 0.00 43.32 3.36
4590 4690 4.724279 AGGGAGTATCTTCCTCTCTCTC 57.276 50.000 0.00 0.00 33.33 3.20
4591 4691 4.315993 AGGGAGTATCTTCCTCTCTCTCT 58.684 47.826 0.00 0.00 33.33 3.10
4592 4692 4.351111 AGGGAGTATCTTCCTCTCTCTCTC 59.649 50.000 0.00 0.00 33.33 3.20
4593 4693 4.351111 GGGAGTATCTTCCTCTCTCTCTCT 59.649 50.000 0.00 0.00 37.40 3.10
4594 4694 5.163088 GGGAGTATCTTCCTCTCTCTCTCTT 60.163 48.000 0.00 0.00 37.40 2.85
4595 4695 6.365520 GGAGTATCTTCCTCTCTCTCTCTTT 58.634 44.000 0.00 0.00 34.27 2.52
4596 4696 6.833933 GGAGTATCTTCCTCTCTCTCTCTTTT 59.166 42.308 0.00 0.00 34.27 2.27
4597 4697 7.201821 GGAGTATCTTCCTCTCTCTCTCTTTTG 60.202 44.444 0.00 0.00 34.27 2.44
4598 4698 7.410174 AGTATCTTCCTCTCTCTCTCTTTTGA 58.590 38.462 0.00 0.00 0.00 2.69
4599 4699 8.061304 AGTATCTTCCTCTCTCTCTCTTTTGAT 58.939 37.037 0.00 0.00 0.00 2.57
4600 4700 7.738437 ATCTTCCTCTCTCTCTCTTTTGATT 57.262 36.000 0.00 0.00 0.00 2.57
4601 4701 7.169158 TCTTCCTCTCTCTCTCTTTTGATTC 57.831 40.000 0.00 0.00 0.00 2.52
4602 4702 6.953520 TCTTCCTCTCTCTCTCTTTTGATTCT 59.046 38.462 0.00 0.00 0.00 2.40
4603 4703 6.773976 TCCTCTCTCTCTCTTTTGATTCTC 57.226 41.667 0.00 0.00 0.00 2.87
4604 4704 6.252233 TCCTCTCTCTCTCTTTTGATTCTCA 58.748 40.000 0.00 0.00 0.00 3.27
4605 4705 6.723515 TCCTCTCTCTCTCTTTTGATTCTCAA 59.276 38.462 0.00 0.00 34.03 3.02
4606 4706 7.399765 TCCTCTCTCTCTCTTTTGATTCTCAAT 59.600 37.037 0.00 0.00 36.11 2.57
4607 4707 8.694540 CCTCTCTCTCTCTTTTGATTCTCAATA 58.305 37.037 0.00 0.00 36.11 1.90
4608 4708 9.520204 CTCTCTCTCTCTTTTGATTCTCAATAC 57.480 37.037 0.00 0.00 36.11 1.89
4609 4709 9.029368 TCTCTCTCTCTTTTGATTCTCAATACA 57.971 33.333 0.00 0.00 36.11 2.29
4610 4710 9.650539 CTCTCTCTCTTTTGATTCTCAATACAA 57.349 33.333 0.00 0.00 36.11 2.41
4613 4713 9.091784 TCTCTCTTTTGATTCTCAATACAATCG 57.908 33.333 0.00 0.00 36.11 3.34
4614 4714 8.777865 TCTCTTTTGATTCTCAATACAATCGT 57.222 30.769 0.00 0.00 36.11 3.73
4615 4715 8.873830 TCTCTTTTGATTCTCAATACAATCGTC 58.126 33.333 0.00 0.00 36.11 4.20
4616 4716 8.777865 TCTTTTGATTCTCAATACAATCGTCT 57.222 30.769 0.00 0.00 36.11 4.18
4617 4717 8.873830 TCTTTTGATTCTCAATACAATCGTCTC 58.126 33.333 0.00 0.00 36.11 3.36
4618 4718 8.777865 TTTTGATTCTCAATACAATCGTCTCT 57.222 30.769 0.00 0.00 36.11 3.10
4619 4719 8.777865 TTTGATTCTCAATACAATCGTCTCTT 57.222 30.769 0.00 0.00 36.11 2.85
4620 4720 7.761651 TGATTCTCAATACAATCGTCTCTTG 57.238 36.000 0.00 0.00 32.49 3.02
4621 4721 7.547227 TGATTCTCAATACAATCGTCTCTTGA 58.453 34.615 0.00 0.00 32.49 3.02
4622 4722 8.034804 TGATTCTCAATACAATCGTCTCTTGAA 58.965 33.333 0.00 0.00 32.49 2.69
4623 4723 7.818493 TTCTCAATACAATCGTCTCTTGAAG 57.182 36.000 0.00 0.00 0.00 3.02
4624 4724 7.158099 TCTCAATACAATCGTCTCTTGAAGA 57.842 36.000 0.00 0.00 35.36 2.87
4625 4725 7.776107 TCTCAATACAATCGTCTCTTGAAGAT 58.224 34.615 0.00 0.00 41.83 2.40
4626 4726 7.918033 TCTCAATACAATCGTCTCTTGAAGATC 59.082 37.037 0.00 0.00 39.77 2.75
4627 4727 7.776107 TCAATACAATCGTCTCTTGAAGATCT 58.224 34.615 0.00 0.00 39.77 2.75
4628 4728 8.903820 TCAATACAATCGTCTCTTGAAGATCTA 58.096 33.333 0.00 0.00 39.77 1.98
4629 4729 8.963130 CAATACAATCGTCTCTTGAAGATCTAC 58.037 37.037 0.00 0.00 39.77 2.59
4630 4730 6.767524 ACAATCGTCTCTTGAAGATCTACT 57.232 37.500 0.00 0.00 39.77 2.57
4631 4731 7.164230 ACAATCGTCTCTTGAAGATCTACTT 57.836 36.000 0.00 0.00 39.77 2.24
4632 4732 7.032580 ACAATCGTCTCTTGAAGATCTACTTG 58.967 38.462 0.00 0.99 39.77 3.16
4633 4733 7.094162 ACAATCGTCTCTTGAAGATCTACTTGA 60.094 37.037 0.00 0.00 39.77 3.02
4634 4734 7.581213 ATCGTCTCTTGAAGATCTACTTGAT 57.419 36.000 0.00 0.00 36.89 2.57
4635 4735 6.790282 TCGTCTCTTGAAGATCTACTTGATG 58.210 40.000 0.00 0.00 39.13 3.07
4636 4736 5.458452 CGTCTCTTGAAGATCTACTTGATGC 59.542 44.000 0.00 0.00 39.13 3.91
4637 4737 6.336566 GTCTCTTGAAGATCTACTTGATGCA 58.663 40.000 0.00 0.00 39.13 3.96
4638 4738 6.815641 GTCTCTTGAAGATCTACTTGATGCAA 59.184 38.462 0.00 0.00 39.13 4.08
4639 4739 6.815641 TCTCTTGAAGATCTACTTGATGCAAC 59.184 38.462 0.00 0.00 39.13 4.17
4640 4740 6.705302 TCTTGAAGATCTACTTGATGCAACT 58.295 36.000 0.00 0.00 39.13 3.16
4641 4741 6.815641 TCTTGAAGATCTACTTGATGCAACTC 59.184 38.462 0.00 0.00 39.13 3.01
4642 4742 6.291648 TGAAGATCTACTTGATGCAACTCT 57.708 37.500 0.00 0.00 39.13 3.24
4643 4743 6.705302 TGAAGATCTACTTGATGCAACTCTT 58.295 36.000 0.00 0.00 39.13 2.85
4644 4744 7.164122 TGAAGATCTACTTGATGCAACTCTTT 58.836 34.615 0.00 0.00 39.13 2.52
4645 4745 8.314021 TGAAGATCTACTTGATGCAACTCTTTA 58.686 33.333 0.00 0.00 39.13 1.85
4646 4746 9.323985 GAAGATCTACTTGATGCAACTCTTTAT 57.676 33.333 0.00 0.00 39.13 1.40
4648 4748 9.979578 AGATCTACTTGATGCAACTCTTTATAG 57.020 33.333 0.00 0.00 35.14 1.31
4649 4749 8.600449 ATCTACTTGATGCAACTCTTTATAGC 57.400 34.615 0.00 0.00 33.43 2.97
4650 4750 7.786030 TCTACTTGATGCAACTCTTTATAGCT 58.214 34.615 0.00 0.00 0.00 3.32
4651 4751 8.914011 TCTACTTGATGCAACTCTTTATAGCTA 58.086 33.333 0.00 0.00 0.00 3.32
4652 4752 9.703892 CTACTTGATGCAACTCTTTATAGCTAT 57.296 33.333 11.77 11.77 0.00 2.97
4653 4753 8.970859 ACTTGATGCAACTCTTTATAGCTATT 57.029 30.769 12.39 0.00 0.00 1.73
4654 4754 9.401058 ACTTGATGCAACTCTTTATAGCTATTT 57.599 29.630 12.39 0.00 0.00 1.40
4660 4760 9.845740 TGCAACTCTTTATAGCTATTTATCCAA 57.154 29.630 12.39 0.00 0.00 3.53
4673 4773 9.646522 AGCTATTTATCCAATCTACCACAAATT 57.353 29.630 0.00 0.00 0.00 1.82
4690 4790 9.457436 ACCACAAATTATCTATCTTTTTACCGT 57.543 29.630 0.00 0.00 0.00 4.83
4691 4791 9.716507 CCACAAATTATCTATCTTTTTACCGTG 57.283 33.333 0.00 0.00 0.00 4.94
4692 4792 9.716507 CACAAATTATCTATCTTTTTACCGTGG 57.283 33.333 0.00 0.00 0.00 4.94
4693 4793 9.675464 ACAAATTATCTATCTTTTTACCGTGGA 57.325 29.630 0.00 0.00 0.00 4.02
4696 4796 7.664552 TTATCTATCTTTTTACCGTGGAGGA 57.335 36.000 0.00 0.00 45.00 3.71
4697 4797 6.555463 ATCTATCTTTTTACCGTGGAGGAA 57.445 37.500 0.00 0.00 45.00 3.36
4698 4798 6.555463 TCTATCTTTTTACCGTGGAGGAAT 57.445 37.500 0.00 0.00 45.00 3.01
4699 4799 6.954232 TCTATCTTTTTACCGTGGAGGAATT 58.046 36.000 0.00 0.00 45.00 2.17
4700 4800 5.897377 ATCTTTTTACCGTGGAGGAATTG 57.103 39.130 0.00 0.00 45.00 2.32
4701 4801 4.076394 TCTTTTTACCGTGGAGGAATTGG 58.924 43.478 0.00 0.00 45.00 3.16
4702 4802 1.828979 TTTACCGTGGAGGAATTGGC 58.171 50.000 0.00 0.00 45.00 4.52
4703 4803 0.693622 TTACCGTGGAGGAATTGGCA 59.306 50.000 0.00 0.00 45.00 4.92
4704 4804 0.693622 TACCGTGGAGGAATTGGCAA 59.306 50.000 0.68 0.68 45.00 4.52
4705 4805 0.893727 ACCGTGGAGGAATTGGCAAC 60.894 55.000 0.00 0.00 45.00 4.17
4706 4806 1.595093 CCGTGGAGGAATTGGCAACC 61.595 60.000 0.00 0.00 45.00 3.77
4707 4807 1.595093 CGTGGAGGAATTGGCAACCC 61.595 60.000 0.00 7.26 0.00 4.11
4708 4808 1.078347 TGGAGGAATTGGCAACCCC 59.922 57.895 14.64 12.73 0.00 4.95
4709 4809 1.388133 GGAGGAATTGGCAACCCCT 59.612 57.895 18.67 18.67 0.00 4.79
4710 4810 0.629058 GGAGGAATTGGCAACCCCTA 59.371 55.000 18.64 0.00 0.00 3.53
4711 4811 1.217942 GGAGGAATTGGCAACCCCTAT 59.782 52.381 18.64 2.55 0.00 2.57
4712 4812 2.359249 GGAGGAATTGGCAACCCCTATT 60.359 50.000 18.64 2.03 40.96 1.73
4713 4813 3.117284 GGAGGAATTGGCAACCCCTATTA 60.117 47.826 18.64 0.00 38.83 0.98
4714 4814 3.889538 GAGGAATTGGCAACCCCTATTAC 59.110 47.826 18.64 3.09 38.83 1.89
4715 4815 2.621526 GGAATTGGCAACCCCTATTACG 59.378 50.000 0.00 0.00 38.83 3.18
4716 4816 3.284617 GAATTGGCAACCCCTATTACGT 58.715 45.455 0.00 0.00 38.83 3.57
4717 4817 2.116827 TTGGCAACCCCTATTACGTG 57.883 50.000 0.00 0.00 0.00 4.49
4718 4818 0.393267 TGGCAACCCCTATTACGTGC 60.393 55.000 0.00 0.00 0.00 5.34
4719 4819 1.099295 GGCAACCCCTATTACGTGCC 61.099 60.000 0.00 0.00 0.00 5.01
4720 4820 1.433837 GCAACCCCTATTACGTGCCG 61.434 60.000 0.00 0.00 0.00 5.69
4721 4821 0.812412 CAACCCCTATTACGTGCCGG 60.812 60.000 0.00 0.00 0.00 6.13
4722 4822 1.974973 AACCCCTATTACGTGCCGGG 61.975 60.000 2.18 2.48 36.55 5.73
4723 4823 2.437396 CCCCTATTACGTGCCGGGT 61.437 63.158 2.18 0.00 32.91 5.28
4724 4824 1.523524 CCCTATTACGTGCCGGGTT 59.476 57.895 2.18 0.00 0.00 4.11
4725 4825 0.812412 CCCTATTACGTGCCGGGTTG 60.812 60.000 2.18 0.00 0.00 3.77
4726 4826 1.433837 CCTATTACGTGCCGGGTTGC 61.434 60.000 2.18 0.00 0.00 4.17
4727 4827 0.741574 CTATTACGTGCCGGGTTGCA 60.742 55.000 2.18 0.00 39.37 4.08
4728 4828 0.321387 TATTACGTGCCGGGTTGCAA 60.321 50.000 2.18 0.00 44.11 4.08
4729 4829 1.582610 ATTACGTGCCGGGTTGCAAG 61.583 55.000 2.18 0.00 44.11 4.01
4730 4830 4.868116 ACGTGCCGGGTTGCAAGT 62.868 61.111 2.18 0.00 46.69 3.16
4731 4831 2.666862 CGTGCCGGGTTGCAAGTA 60.667 61.111 2.18 0.00 44.11 2.24
4732 4832 2.038269 CGTGCCGGGTTGCAAGTAT 61.038 57.895 2.18 0.00 44.11 2.12
4733 4833 1.582610 CGTGCCGGGTTGCAAGTATT 61.583 55.000 2.18 0.00 44.11 1.89
4734 4834 0.601057 GTGCCGGGTTGCAAGTATTT 59.399 50.000 2.18 0.00 44.11 1.40
4735 4835 0.600557 TGCCGGGTTGCAAGTATTTG 59.399 50.000 2.18 0.00 38.56 2.32
4736 4836 0.601057 GCCGGGTTGCAAGTATTTGT 59.399 50.000 2.18 0.00 36.65 2.83
4737 4837 1.668628 GCCGGGTTGCAAGTATTTGTG 60.669 52.381 2.18 0.00 36.65 3.33
4738 4838 1.611491 CCGGGTTGCAAGTATTTGTGT 59.389 47.619 0.00 0.00 36.65 3.72
4739 4839 2.035321 CCGGGTTGCAAGTATTTGTGTT 59.965 45.455 0.00 0.00 36.65 3.32
4740 4840 3.491792 CCGGGTTGCAAGTATTTGTGTTT 60.492 43.478 0.00 0.00 36.65 2.83
4741 4841 4.116238 CGGGTTGCAAGTATTTGTGTTTT 58.884 39.130 0.00 0.00 36.65 2.43
4742 4842 4.026145 CGGGTTGCAAGTATTTGTGTTTTG 60.026 41.667 0.00 0.00 36.65 2.44
4743 4843 4.873259 GGGTTGCAAGTATTTGTGTTTTGT 59.127 37.500 0.00 0.00 36.65 2.83
4744 4844 5.220567 GGGTTGCAAGTATTTGTGTTTTGTG 60.221 40.000 0.00 0.00 36.65 3.33
4745 4845 5.350091 GGTTGCAAGTATTTGTGTTTTGTGT 59.650 36.000 0.00 0.00 36.65 3.72
4746 4846 6.239945 GTTGCAAGTATTTGTGTTTTGTGTG 58.760 36.000 0.00 0.00 36.65 3.82
4747 4847 4.328440 TGCAAGTATTTGTGTTTTGTGTGC 59.672 37.500 0.00 0.00 36.65 4.57
4748 4848 4.328440 GCAAGTATTTGTGTTTTGTGTGCA 59.672 37.500 0.00 0.00 36.65 4.57
4749 4849 5.500610 GCAAGTATTTGTGTTTTGTGTGCAG 60.501 40.000 0.00 0.00 36.65 4.41
4750 4850 4.681744 AGTATTTGTGTTTTGTGTGCAGG 58.318 39.130 0.00 0.00 0.00 4.85
4751 4851 3.608316 ATTTGTGTTTTGTGTGCAGGT 57.392 38.095 0.00 0.00 0.00 4.00
4752 4852 4.727507 ATTTGTGTTTTGTGTGCAGGTA 57.272 36.364 0.00 0.00 0.00 3.08
4753 4853 3.495670 TTGTGTTTTGTGTGCAGGTAC 57.504 42.857 0.00 0.00 0.00 3.34
4754 4854 2.717390 TGTGTTTTGTGTGCAGGTACT 58.283 42.857 0.00 0.00 43.88 2.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 3.771160 GCCACGTCGGATCCCACT 61.771 66.667 6.06 0.00 36.56 4.00
158 161 0.620556 TGACAGAGGGCCAAGGATTC 59.379 55.000 6.18 0.00 0.00 2.52
310 313 1.299648 CATCCCGAGGAGCCAAACA 59.700 57.895 0.00 0.00 34.05 2.83
322 325 1.065854 AGAGGCAAGAAGAACATCCCG 60.066 52.381 0.00 0.00 0.00 5.14
660 691 2.286365 AAATTCTCCTGTCCCGCAAA 57.714 45.000 0.00 0.00 0.00 3.68
662 693 1.073125 TGAAAATTCTCCTGTCCCGCA 59.927 47.619 0.00 0.00 0.00 5.69
806 848 1.371389 AAACGACGAGTGGAGCGAC 60.371 57.895 0.00 0.00 0.00 5.19
834 876 2.621998 GCACAAGGCTGATGCAATATCT 59.378 45.455 16.14 0.00 41.91 1.98
835 877 3.009301 GCACAAGGCTGATGCAATATC 57.991 47.619 16.14 0.00 41.91 1.63
867 915 1.400142 TGATGGGCAACGAAATTAGCG 59.600 47.619 0.00 0.00 37.60 4.26
1041 1089 5.185454 AGAATTATTCTGCGGAACACATCA 58.815 37.500 10.90 0.00 38.91 3.07
1473 1521 1.702886 ATGAGTTCTCTGTTGCGACG 58.297 50.000 0.00 0.00 0.00 5.12
1518 1566 5.633830 ATGTGCATTCTTCAAACTCGAAT 57.366 34.783 0.00 0.00 0.00 3.34
2031 2079 7.227049 TGTGATAGTTCAACTAGTGTCATCA 57.773 36.000 3.12 0.00 33.66 3.07
2667 2716 7.437713 TGATTTACCATCTAGTTCACCAGAT 57.562 36.000 0.00 0.00 31.58 2.90
3165 3214 0.898320 CACCTTGTGGAGACGGAGAT 59.102 55.000 0.00 0.00 37.04 2.75
3395 3444 0.811915 GCTTCTAGTGCGTCTCCAGA 59.188 55.000 0.00 0.00 0.00 3.86
3664 3722 5.748402 TCTACAATCTGTTGGATGAGCATT 58.252 37.500 0.00 0.00 39.70 3.56
3809 3872 7.361628 GCTTCTTCTTTTTCCCTGAGTAATCAG 60.362 40.741 13.23 13.23 37.48 2.90
3815 3878 4.170468 TGCTTCTTCTTTTTCCCTGAGT 57.830 40.909 0.00 0.00 0.00 3.41
3889 3962 7.023575 GCATAAACAAGATAGTTTGTGACTGG 58.976 38.462 16.78 0.00 46.84 4.00
3894 3967 6.071952 ACTGGGCATAAACAAGATAGTTTGTG 60.072 38.462 10.62 10.62 46.70 3.33
3944 4017 7.617225 TGTAGTGTAATAGTAATGTTGCCACT 58.383 34.615 10.13 10.13 0.00 4.00
3982 4055 4.003648 CAGTGTGATCCCTGTTACCTTTC 58.996 47.826 0.00 0.00 0.00 2.62
4037 4110 3.023832 CCCAACCCAGTGTGATAATTCC 58.976 50.000 0.00 0.00 0.00 3.01
4038 4111 3.963129 TCCCAACCCAGTGTGATAATTC 58.037 45.455 0.00 0.00 0.00 2.17
4039 4112 4.086457 GTTCCCAACCCAGTGTGATAATT 58.914 43.478 0.00 0.00 0.00 1.40
4040 4113 3.333680 AGTTCCCAACCCAGTGTGATAAT 59.666 43.478 0.00 0.00 0.00 1.28
4041 4114 2.714250 AGTTCCCAACCCAGTGTGATAA 59.286 45.455 0.00 0.00 0.00 1.75
4043 4116 1.149101 AGTTCCCAACCCAGTGTGAT 58.851 50.000 0.00 0.00 0.00 3.06
4045 4118 2.039746 TGATAGTTCCCAACCCAGTGTG 59.960 50.000 0.00 0.00 0.00 3.82
4046 4119 2.039879 GTGATAGTTCCCAACCCAGTGT 59.960 50.000 0.00 0.00 0.00 3.55
4047 4120 2.039746 TGTGATAGTTCCCAACCCAGTG 59.960 50.000 0.00 0.00 0.00 3.66
4048 4121 2.039879 GTGTGATAGTTCCCAACCCAGT 59.960 50.000 0.00 0.00 0.00 4.00
4051 4124 2.618045 CCAGTGTGATAGTTCCCAACCC 60.618 54.545 0.00 0.00 0.00 4.11
4052 4125 2.618045 CCCAGTGTGATAGTTCCCAACC 60.618 54.545 0.00 0.00 0.00 3.77
4053 4126 2.039879 ACCCAGTGTGATAGTTCCCAAC 59.960 50.000 0.00 0.00 0.00 3.77
4054 4127 2.344592 ACCCAGTGTGATAGTTCCCAA 58.655 47.619 0.00 0.00 0.00 4.12
4055 4128 2.038863 ACCCAGTGTGATAGTTCCCA 57.961 50.000 0.00 0.00 0.00 4.37
4056 4129 3.081804 CAAACCCAGTGTGATAGTTCCC 58.918 50.000 0.00 0.00 0.00 3.97
4057 4130 2.488153 GCAAACCCAGTGTGATAGTTCC 59.512 50.000 0.00 0.00 0.00 3.62
4058 4131 2.159627 CGCAAACCCAGTGTGATAGTTC 59.840 50.000 0.00 0.00 0.00 3.01
4060 4133 1.808411 CGCAAACCCAGTGTGATAGT 58.192 50.000 0.00 0.00 0.00 2.12
4061 4134 0.447801 GCGCAAACCCAGTGTGATAG 59.552 55.000 0.30 0.00 0.00 2.08
4064 4137 2.904866 GGCGCAAACCCAGTGTGA 60.905 61.111 10.83 0.00 0.00 3.58
4065 4138 3.215568 TGGCGCAAACCCAGTGTG 61.216 61.111 10.83 0.00 0.00 3.82
4066 4139 3.216292 GTGGCGCAAACCCAGTGT 61.216 61.111 10.83 0.00 31.89 3.55
4067 4140 3.977244 GGTGGCGCAAACCCAGTG 61.977 66.667 18.24 0.00 31.89 3.66
4068 4141 3.731766 AAGGTGGCGCAAACCCAGT 62.732 57.895 23.54 10.10 38.57 4.00
4069 4142 2.498056 AAAGGTGGCGCAAACCCAG 61.498 57.895 23.54 0.00 38.57 4.45
4070 4143 2.443016 AAAGGTGGCGCAAACCCA 60.443 55.556 23.54 3.54 38.57 4.51
4071 4144 1.815817 ATCAAAGGTGGCGCAAACCC 61.816 55.000 23.54 11.12 38.57 4.11
4072 4145 0.885196 TATCAAAGGTGGCGCAAACC 59.115 50.000 20.67 20.67 38.03 3.27
4073 4146 1.539827 AGTATCAAAGGTGGCGCAAAC 59.460 47.619 10.83 0.00 0.00 2.93
4109 4182 9.753674 ATTAAACTTTCTCCTGGAATATGTTGA 57.246 29.630 0.00 0.00 33.53 3.18
4128 4203 4.759693 TCACACATCAGCGGAAATTAAACT 59.240 37.500 0.00 0.00 0.00 2.66
4133 4208 2.226437 GTGTCACACATCAGCGGAAATT 59.774 45.455 2.00 0.00 34.08 1.82
4138 4213 1.633561 CTAGTGTCACACATCAGCGG 58.366 55.000 11.40 0.00 36.74 5.52
4215 4312 6.275494 TCATTCTGTACGAATCCAGTAACA 57.725 37.500 9.14 0.00 40.33 2.41
4218 4315 8.135529 CACTATTCATTCTGTACGAATCCAGTA 58.864 37.037 9.14 2.69 40.33 2.74
4220 4317 7.203218 TCACTATTCATTCTGTACGAATCCAG 58.797 38.462 9.14 7.32 40.33 3.86
4293 4393 2.456073 AGCTAATGTCTACGGACCCT 57.544 50.000 0.00 0.00 41.47 4.34
4294 4394 3.484407 TCTAGCTAATGTCTACGGACCC 58.516 50.000 0.00 0.00 41.47 4.46
4295 4395 5.939296 AGTATCTAGCTAATGTCTACGGACC 59.061 44.000 0.00 0.00 41.47 4.46
4296 4396 7.361116 GGAAGTATCTAGCTAATGTCTACGGAC 60.361 44.444 0.00 0.00 42.42 4.79
4297 4397 6.654161 GGAAGTATCTAGCTAATGTCTACGGA 59.346 42.308 0.00 0.00 0.00 4.69
4298 4398 6.655848 AGGAAGTATCTAGCTAATGTCTACGG 59.344 42.308 0.00 0.00 0.00 4.02
4299 4399 7.148373 GGAGGAAGTATCTAGCTAATGTCTACG 60.148 44.444 0.00 0.00 0.00 3.51
4300 4400 7.148373 CGGAGGAAGTATCTAGCTAATGTCTAC 60.148 44.444 0.00 0.00 0.00 2.59
4301 4401 6.879993 CGGAGGAAGTATCTAGCTAATGTCTA 59.120 42.308 0.00 0.00 0.00 2.59
4302 4402 5.708230 CGGAGGAAGTATCTAGCTAATGTCT 59.292 44.000 0.00 0.00 0.00 3.41
4303 4403 5.474189 ACGGAGGAAGTATCTAGCTAATGTC 59.526 44.000 0.00 0.00 0.00 3.06
4304 4404 5.386924 ACGGAGGAAGTATCTAGCTAATGT 58.613 41.667 0.00 0.00 0.00 2.71
4305 4405 5.968528 ACGGAGGAAGTATCTAGCTAATG 57.031 43.478 0.00 0.00 0.00 1.90
4306 4406 6.778559 AGAAACGGAGGAAGTATCTAGCTAAT 59.221 38.462 0.00 0.00 0.00 1.73
4307 4407 6.127793 AGAAACGGAGGAAGTATCTAGCTAA 58.872 40.000 0.00 0.00 0.00 3.09
4308 4408 5.692928 AGAAACGGAGGAAGTATCTAGCTA 58.307 41.667 0.00 0.00 0.00 3.32
4309 4409 4.538738 AGAAACGGAGGAAGTATCTAGCT 58.461 43.478 0.00 0.00 0.00 3.32
4310 4410 4.922471 AGAAACGGAGGAAGTATCTAGC 57.078 45.455 0.00 0.00 0.00 3.42
4311 4411 9.303537 CTAAAAAGAAACGGAGGAAGTATCTAG 57.696 37.037 0.00 0.00 0.00 2.43
4312 4412 8.810041 ACTAAAAAGAAACGGAGGAAGTATCTA 58.190 33.333 0.00 0.00 0.00 1.98
4313 4413 7.677892 ACTAAAAAGAAACGGAGGAAGTATCT 58.322 34.615 0.00 0.00 0.00 1.98
4314 4414 7.818446 AGACTAAAAAGAAACGGAGGAAGTATC 59.182 37.037 0.00 0.00 0.00 2.24
4315 4415 7.603024 CAGACTAAAAAGAAACGGAGGAAGTAT 59.397 37.037 0.00 0.00 0.00 2.12
4316 4416 6.927381 CAGACTAAAAAGAAACGGAGGAAGTA 59.073 38.462 0.00 0.00 0.00 2.24
4317 4417 5.758784 CAGACTAAAAAGAAACGGAGGAAGT 59.241 40.000 0.00 0.00 0.00 3.01
4318 4418 5.334182 GCAGACTAAAAAGAAACGGAGGAAG 60.334 44.000 0.00 0.00 0.00 3.46
4319 4419 4.514066 GCAGACTAAAAAGAAACGGAGGAA 59.486 41.667 0.00 0.00 0.00 3.36
4320 4420 4.062991 GCAGACTAAAAAGAAACGGAGGA 58.937 43.478 0.00 0.00 0.00 3.71
4321 4421 3.813166 TGCAGACTAAAAAGAAACGGAGG 59.187 43.478 0.00 0.00 0.00 4.30
4322 4422 5.613358 ATGCAGACTAAAAAGAAACGGAG 57.387 39.130 0.00 0.00 0.00 4.63
4323 4423 8.780846 TTATATGCAGACTAAAAAGAAACGGA 57.219 30.769 0.00 0.00 0.00 4.69
4324 4424 9.834628 TTTTATATGCAGACTAAAAAGAAACGG 57.165 29.630 0.00 0.00 0.00 4.44
4526 4626 9.076596 GCATATAAGATTTGGTCAAAGTCAAAC 57.923 33.333 2.55 0.00 35.97 2.93
4527 4627 8.801299 TGCATATAAGATTTGGTCAAAGTCAAA 58.199 29.630 2.55 0.00 37.29 2.69
4528 4628 8.347004 TGCATATAAGATTTGGTCAAAGTCAA 57.653 30.769 2.55 0.00 33.32 3.18
4529 4629 7.828717 TCTGCATATAAGATTTGGTCAAAGTCA 59.171 33.333 2.55 0.00 33.32 3.41
4530 4630 8.125448 GTCTGCATATAAGATTTGGTCAAAGTC 58.875 37.037 2.55 1.51 33.32 3.01
4531 4631 7.831193 AGTCTGCATATAAGATTTGGTCAAAGT 59.169 33.333 2.55 0.00 33.32 2.66
4532 4632 8.218338 AGTCTGCATATAAGATTTGGTCAAAG 57.782 34.615 2.55 0.00 33.32 2.77
4533 4633 9.679661 TTAGTCTGCATATAAGATTTGGTCAAA 57.320 29.630 0.00 0.00 34.46 2.69
4534 4634 9.679661 TTTAGTCTGCATATAAGATTTGGTCAA 57.320 29.630 0.00 0.00 0.00 3.18
4535 4635 9.679661 TTTTAGTCTGCATATAAGATTTGGTCA 57.320 29.630 0.00 0.00 0.00 4.02
4561 4661 3.844804 AGGAAGATACTCCCTCCGTTTTT 59.155 43.478 0.00 0.00 35.95 1.94
4562 4662 3.451540 GAGGAAGATACTCCCTCCGTTTT 59.548 47.826 0.00 0.00 40.35 2.43
4563 4663 3.032459 GAGGAAGATACTCCCTCCGTTT 58.968 50.000 0.00 0.00 40.35 3.60
4564 4664 2.245287 AGAGGAAGATACTCCCTCCGTT 59.755 50.000 0.00 0.00 45.77 4.44
4565 4665 1.854280 AGAGGAAGATACTCCCTCCGT 59.146 52.381 0.00 0.00 45.77 4.69
4566 4666 2.107552 AGAGAGGAAGATACTCCCTCCG 59.892 54.545 0.00 0.00 45.77 4.63
4567 4667 3.397955 AGAGAGAGGAAGATACTCCCTCC 59.602 52.174 0.00 0.00 45.77 4.30
4568 4668 4.351111 AGAGAGAGAGGAAGATACTCCCTC 59.649 50.000 0.00 0.00 45.16 4.30
4569 4669 4.315993 AGAGAGAGAGGAAGATACTCCCT 58.684 47.826 0.00 0.00 35.95 4.20
4570 4670 4.351111 AGAGAGAGAGAGGAAGATACTCCC 59.649 50.000 0.00 0.00 35.95 4.30
4571 4671 5.568620 AGAGAGAGAGAGGAAGATACTCC 57.431 47.826 0.00 0.00 35.58 3.85
4572 4672 7.556275 TCAAAAGAGAGAGAGAGGAAGATACTC 59.444 40.741 0.00 0.00 35.20 2.59
4573 4673 7.410174 TCAAAAGAGAGAGAGAGGAAGATACT 58.590 38.462 0.00 0.00 0.00 2.12
4574 4674 7.639113 TCAAAAGAGAGAGAGAGGAAGATAC 57.361 40.000 0.00 0.00 0.00 2.24
4575 4675 8.837099 AATCAAAAGAGAGAGAGAGGAAGATA 57.163 34.615 0.00 0.00 0.00 1.98
4576 4676 7.620888 AGAATCAAAAGAGAGAGAGAGGAAGAT 59.379 37.037 0.00 0.00 0.00 2.40
4577 4677 6.953520 AGAATCAAAAGAGAGAGAGAGGAAGA 59.046 38.462 0.00 0.00 0.00 2.87
4578 4678 7.093814 TGAGAATCAAAAGAGAGAGAGAGGAAG 60.094 40.741 0.00 0.00 45.97 3.46
4579 4679 6.723515 TGAGAATCAAAAGAGAGAGAGAGGAA 59.276 38.462 0.00 0.00 45.97 3.36
4580 4680 6.252233 TGAGAATCAAAAGAGAGAGAGAGGA 58.748 40.000 0.00 0.00 45.97 3.71
4581 4681 6.528537 TGAGAATCAAAAGAGAGAGAGAGG 57.471 41.667 0.00 0.00 45.97 3.69
4597 4697 7.993821 TCAAGAGACGATTGTATTGAGAATC 57.006 36.000 0.00 0.00 33.08 2.52
4598 4698 8.253810 TCTTCAAGAGACGATTGTATTGAGAAT 58.746 33.333 0.00 0.00 31.07 2.40
4599 4699 7.602753 TCTTCAAGAGACGATTGTATTGAGAA 58.397 34.615 0.00 1.05 31.07 2.87
4600 4700 7.158099 TCTTCAAGAGACGATTGTATTGAGA 57.842 36.000 0.00 5.99 31.07 3.27
4601 4701 7.920151 AGATCTTCAAGAGACGATTGTATTGAG 59.080 37.037 0.00 4.47 37.17 3.02
4602 4702 7.776107 AGATCTTCAAGAGACGATTGTATTGA 58.224 34.615 0.00 4.50 37.17 2.57
4603 4703 8.963130 GTAGATCTTCAAGAGACGATTGTATTG 58.037 37.037 0.00 0.00 37.17 1.90
4604 4704 8.908903 AGTAGATCTTCAAGAGACGATTGTATT 58.091 33.333 0.00 0.00 37.17 1.89
4605 4705 8.458573 AGTAGATCTTCAAGAGACGATTGTAT 57.541 34.615 0.00 0.00 37.17 2.29
4606 4706 7.867305 AGTAGATCTTCAAGAGACGATTGTA 57.133 36.000 0.00 0.00 37.17 2.41
4607 4707 6.767524 AGTAGATCTTCAAGAGACGATTGT 57.232 37.500 0.00 0.00 37.17 2.71
4608 4708 7.254137 TCAAGTAGATCTTCAAGAGACGATTG 58.746 38.462 0.00 0.00 37.17 2.67
4609 4709 7.397892 TCAAGTAGATCTTCAAGAGACGATT 57.602 36.000 0.00 0.00 37.17 3.34
4610 4710 7.424803 CATCAAGTAGATCTTCAAGAGACGAT 58.575 38.462 0.00 0.00 37.17 3.73
4611 4711 6.679146 GCATCAAGTAGATCTTCAAGAGACGA 60.679 42.308 0.00 0.00 37.17 4.20
4612 4712 5.458452 GCATCAAGTAGATCTTCAAGAGACG 59.542 44.000 0.00 0.00 37.17 4.18
4613 4713 6.336566 TGCATCAAGTAGATCTTCAAGAGAC 58.663 40.000 0.00 0.00 37.17 3.36
4614 4714 6.535963 TGCATCAAGTAGATCTTCAAGAGA 57.464 37.500 0.00 0.00 39.13 3.10
4615 4715 6.817641 AGTTGCATCAAGTAGATCTTCAAGAG 59.182 38.462 0.00 0.00 33.72 2.85
4616 4716 6.705302 AGTTGCATCAAGTAGATCTTCAAGA 58.295 36.000 0.00 0.00 33.72 3.02
4617 4717 6.817641 AGAGTTGCATCAAGTAGATCTTCAAG 59.182 38.462 0.00 0.00 33.72 3.02
4618 4718 6.705302 AGAGTTGCATCAAGTAGATCTTCAA 58.295 36.000 0.00 0.00 33.72 2.69
4619 4719 6.291648 AGAGTTGCATCAAGTAGATCTTCA 57.708 37.500 0.00 0.00 33.72 3.02
4620 4720 7.608308 AAAGAGTTGCATCAAGTAGATCTTC 57.392 36.000 0.00 0.00 33.72 2.87
4622 4722 9.979578 CTATAAAGAGTTGCATCAAGTAGATCT 57.020 33.333 0.00 0.00 33.72 2.75
4623 4723 8.707839 GCTATAAAGAGTTGCATCAAGTAGATC 58.292 37.037 0.00 0.00 33.72 2.75
4624 4724 8.428063 AGCTATAAAGAGTTGCATCAAGTAGAT 58.572 33.333 0.00 0.00 37.48 1.98
4625 4725 7.786030 AGCTATAAAGAGTTGCATCAAGTAGA 58.214 34.615 0.00 0.00 0.00 2.59
4626 4726 9.703892 ATAGCTATAAAGAGTTGCATCAAGTAG 57.296 33.333 3.84 0.00 0.00 2.57
4628 4728 8.970859 AATAGCTATAAAGAGTTGCATCAAGT 57.029 30.769 6.68 0.00 0.00 3.16
4634 4734 9.845740 TTGGATAAATAGCTATAAAGAGTTGCA 57.154 29.630 6.68 0.00 0.00 4.08
4647 4747 9.646522 AATTTGTGGTAGATTGGATAAATAGCT 57.353 29.630 0.00 0.00 0.00 3.32
4664 4764 9.457436 ACGGTAAAAAGATAGATAATTTGTGGT 57.543 29.630 0.00 0.00 0.00 4.16
4665 4765 9.716507 CACGGTAAAAAGATAGATAATTTGTGG 57.283 33.333 0.00 0.00 0.00 4.17
4666 4766 9.716507 CCACGGTAAAAAGATAGATAATTTGTG 57.283 33.333 0.00 0.00 0.00 3.33
4667 4767 9.675464 TCCACGGTAAAAAGATAGATAATTTGT 57.325 29.630 0.00 0.00 0.00 2.83
4669 4769 9.338622 CCTCCACGGTAAAAAGATAGATAATTT 57.661 33.333 0.00 0.00 0.00 1.82
4670 4770 8.711170 TCCTCCACGGTAAAAAGATAGATAATT 58.289 33.333 0.00 0.00 0.00 1.40
4671 4771 8.258850 TCCTCCACGGTAAAAAGATAGATAAT 57.741 34.615 0.00 0.00 0.00 1.28
4672 4772 7.664552 TCCTCCACGGTAAAAAGATAGATAA 57.335 36.000 0.00 0.00 0.00 1.75
4673 4773 7.664552 TTCCTCCACGGTAAAAAGATAGATA 57.335 36.000 0.00 0.00 0.00 1.98
4674 4774 6.555463 TTCCTCCACGGTAAAAAGATAGAT 57.445 37.500 0.00 0.00 0.00 1.98
4675 4775 6.555463 ATTCCTCCACGGTAAAAAGATAGA 57.445 37.500 0.00 0.00 0.00 1.98
4676 4776 6.038271 CCAATTCCTCCACGGTAAAAAGATAG 59.962 42.308 0.00 0.00 0.00 2.08
4677 4777 5.883673 CCAATTCCTCCACGGTAAAAAGATA 59.116 40.000 0.00 0.00 0.00 1.98
4678 4778 4.705023 CCAATTCCTCCACGGTAAAAAGAT 59.295 41.667 0.00 0.00 0.00 2.40
4679 4779 4.076394 CCAATTCCTCCACGGTAAAAAGA 58.924 43.478 0.00 0.00 0.00 2.52
4680 4780 3.366985 GCCAATTCCTCCACGGTAAAAAG 60.367 47.826 0.00 0.00 0.00 2.27
4681 4781 2.559231 GCCAATTCCTCCACGGTAAAAA 59.441 45.455 0.00 0.00 0.00 1.94
4682 4782 2.164338 GCCAATTCCTCCACGGTAAAA 58.836 47.619 0.00 0.00 0.00 1.52
4683 4783 1.074084 TGCCAATTCCTCCACGGTAAA 59.926 47.619 0.00 0.00 0.00 2.01
4684 4784 0.693622 TGCCAATTCCTCCACGGTAA 59.306 50.000 0.00 0.00 0.00 2.85
4685 4785 0.693622 TTGCCAATTCCTCCACGGTA 59.306 50.000 0.00 0.00 0.00 4.02
4686 4786 0.893727 GTTGCCAATTCCTCCACGGT 60.894 55.000 0.00 0.00 0.00 4.83
4687 4787 1.595093 GGTTGCCAATTCCTCCACGG 61.595 60.000 0.00 0.00 0.00 4.94
4688 4788 1.595093 GGGTTGCCAATTCCTCCACG 61.595 60.000 0.00 0.00 0.00 4.94
4689 4789 1.257750 GGGGTTGCCAATTCCTCCAC 61.258 60.000 0.91 0.00 0.00 4.02
4690 4790 1.078347 GGGGTTGCCAATTCCTCCA 59.922 57.895 0.91 0.00 0.00 3.86
4691 4791 0.629058 TAGGGGTTGCCAATTCCTCC 59.371 55.000 5.05 0.00 0.00 4.30
4692 4792 2.755952 ATAGGGGTTGCCAATTCCTC 57.244 50.000 5.05 0.00 0.00 3.71
4693 4793 3.687264 CGTAATAGGGGTTGCCAATTCCT 60.687 47.826 6.73 6.73 0.00 3.36
4694 4794 2.621526 CGTAATAGGGGTTGCCAATTCC 59.378 50.000 0.00 0.00 0.00 3.01
4695 4795 3.066203 CACGTAATAGGGGTTGCCAATTC 59.934 47.826 0.00 0.00 0.00 2.17
4696 4796 3.020984 CACGTAATAGGGGTTGCCAATT 58.979 45.455 0.00 0.00 0.00 2.32
4697 4797 2.650322 CACGTAATAGGGGTTGCCAAT 58.350 47.619 0.00 0.00 0.00 3.16
4698 4798 1.951424 GCACGTAATAGGGGTTGCCAA 60.951 52.381 0.00 0.00 0.00 4.52
4699 4799 0.393267 GCACGTAATAGGGGTTGCCA 60.393 55.000 0.00 0.00 0.00 4.92
4700 4800 1.099295 GGCACGTAATAGGGGTTGCC 61.099 60.000 0.00 0.00 0.00 4.52
4701 4801 2.400911 GGCACGTAATAGGGGTTGC 58.599 57.895 0.00 0.00 0.00 4.17
4715 4815 0.601057 AAATACTTGCAACCCGGCAC 59.399 50.000 0.00 0.00 44.86 5.01
4716 4816 0.600557 CAAATACTTGCAACCCGGCA 59.399 50.000 0.00 0.00 43.19 5.69
4717 4817 0.601057 ACAAATACTTGCAACCCGGC 59.399 50.000 0.00 0.00 35.84 6.13
4718 4818 1.611491 ACACAAATACTTGCAACCCGG 59.389 47.619 0.00 0.00 35.84 5.73
4719 4819 3.363341 AACACAAATACTTGCAACCCG 57.637 42.857 0.00 0.00 35.84 5.28
4720 4820 4.873259 ACAAAACACAAATACTTGCAACCC 59.127 37.500 0.00 0.00 35.84 4.11
4721 4821 5.350091 ACACAAAACACAAATACTTGCAACC 59.650 36.000 0.00 0.00 35.84 3.77
4722 4822 6.239945 CACACAAAACACAAATACTTGCAAC 58.760 36.000 0.00 0.00 35.84 4.17
4723 4823 5.163913 GCACACAAAACACAAATACTTGCAA 60.164 36.000 0.00 0.00 35.84 4.08
4724 4824 4.328440 GCACACAAAACACAAATACTTGCA 59.672 37.500 0.00 0.00 35.84 4.08
4725 4825 4.328440 TGCACACAAAACACAAATACTTGC 59.672 37.500 0.00 0.00 35.84 4.01
4726 4826 5.005586 CCTGCACACAAAACACAAATACTTG 59.994 40.000 0.00 0.00 38.61 3.16
4727 4827 5.108517 CCTGCACACAAAACACAAATACTT 58.891 37.500 0.00 0.00 0.00 2.24
4728 4828 4.159506 ACCTGCACACAAAACACAAATACT 59.840 37.500 0.00 0.00 0.00 2.12
4729 4829 4.429108 ACCTGCACACAAAACACAAATAC 58.571 39.130 0.00 0.00 0.00 1.89
4730 4830 4.727507 ACCTGCACACAAAACACAAATA 57.272 36.364 0.00 0.00 0.00 1.40
4731 4831 3.608316 ACCTGCACACAAAACACAAAT 57.392 38.095 0.00 0.00 0.00 2.32
4732 4832 3.508012 AGTACCTGCACACAAAACACAAA 59.492 39.130 0.00 0.00 0.00 2.83
4733 4833 3.085533 AGTACCTGCACACAAAACACAA 58.914 40.909 0.00 0.00 0.00 3.33
4734 4834 2.717390 AGTACCTGCACACAAAACACA 58.283 42.857 0.00 0.00 0.00 3.72


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

AutoCloner maintained by Alex Coulton.