Multiple sequence alignment - TraesCS7D01G213300

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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 TraesCS7D01G213300 chr7D 100.000 4762 0 0 1 4762 171743670 171748431 0.000000e+00 8794.0
1 TraesCS7D01G213300 chr7D 92.105 76 6 0 4203 4278 506889153 506889228 1.810000e-19 108.0
2 TraesCS7D01G213300 chr7A 96.183 3353 101 16 529 3867 174692857 174696196 0.000000e+00 5457.0
3 TraesCS7D01G213300 chr7A 92.400 500 29 6 3697 4193 174696195 174696688 0.000000e+00 704.0
4 TraesCS7D01G213300 chr7A 84.755 551 64 5 1 531 174687830 174688380 7.010000e-148 534.0
5 TraesCS7D01G213300 chr7A 96.970 33 0 1 3603 3634 174696308 174696340 2.000000e-03 54.7
6 TraesCS7D01G213300 chr7B 94.344 2705 130 13 1 2691 138125476 138128171 0.000000e+00 4126.0
7 TraesCS7D01G213300 chr7B 95.238 1533 56 11 2676 4199 138128187 138129711 0.000000e+00 2410.0
8 TraesCS7D01G213300 chr7B 86.957 322 29 7 4444 4762 674014323 674014634 2.730000e-92 350.0
9 TraesCS7D01G213300 chr7B 87.222 180 14 4 4280 4456 674014130 674014303 3.760000e-46 196.0
10 TraesCS7D01G213300 chr2A 82.863 496 61 13 4281 4762 716483574 716483089 1.580000e-114 424.0
11 TraesCS7D01G213300 chr5A 86.916 321 30 7 4444 4762 489676184 489675874 2.730000e-92 350.0
12 TraesCS7D01G213300 chr5A 84.698 281 43 0 1206 1486 605321659 605321379 1.010000e-71 281.0
13 TraesCS7D01G213300 chr5A 86.188 181 16 4 4279 4456 489676379 489676205 2.260000e-43 187.0
14 TraesCS7D01G213300 chr1B 84.252 254 38 2 1132 1384 62077014 62076762 3.680000e-61 246.0
15 TraesCS7D01G213300 chr1B 85.526 152 22 0 1554 1705 62076767 62076616 4.930000e-35 159.0
16 TraesCS7D01G213300 chr5D 73.391 233 47 12 3142 3368 30954318 30954095 6.610000e-09 73.1
17 TraesCS7D01G213300 chr5B 89.474 57 6 0 3312 3368 23425348 23425292 6.610000e-09 73.1


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 TraesCS7D01G213300 chr7D 171743670 171748431 4761 False 8794.0 8794 100.000000 1 4762 1 chr7D.!!$F1 4761
1 TraesCS7D01G213300 chr7A 174692857 174696688 3831 False 2071.9 5457 95.184333 529 4193 3 chr7A.!!$F2 3664
2 TraesCS7D01G213300 chr7A 174687830 174688380 550 False 534.0 534 84.755000 1 531 1 chr7A.!!$F1 530
3 TraesCS7D01G213300 chr7B 138125476 138129711 4235 False 3268.0 4126 94.791000 1 4199 2 chr7B.!!$F1 4198
4 TraesCS7D01G213300 chr7B 674014130 674014634 504 False 273.0 350 87.089500 4280 4762 2 chr7B.!!$F2 482
5 TraesCS7D01G213300 chr5A 489675874 489676379 505 True 268.5 350 86.552000 4279 4762 2 chr5A.!!$R2 483


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
382 412 0.034337 GGGTACACGACAAAGGCTCA 59.966 55.0 0.00 0.0 0.00 4.26 F
949 980 0.179078 CCATCTCAGTCAGCCTCAGC 60.179 60.0 0.00 0.0 40.32 4.26 F
1824 1862 0.809241 GCCTCGGCTCTGACATTCTG 60.809 60.0 0.00 0.0 38.26 3.02 F
2995 3069 0.179089 GCATGCTGGATCTCGTGACT 60.179 55.0 11.37 0.0 0.00 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1431 1469 1.003812 CCGGTGTCAAGAACCCCAATA 59.996 52.381 0.00 0.0 33.88 1.90 R
2385 2423 1.268948 GCGTAGTCCCGTATCTTGTCC 60.269 57.143 0.00 0.0 0.00 4.02 R
3494 3574 0.611062 CCCTCCTGTACCTCACGACA 60.611 60.000 0.00 0.0 0.00 4.35 R
4220 4469 0.032130 TAACGGGCGCATCTGAGATC 59.968 55.000 10.83 0.0 0.00 2.75 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
51 52 2.782222 TAGTCATCCTCGTGCGGCC 61.782 63.158 0.00 0.00 0.00 6.13
72 73 0.394216 CGCCCAACAATCAGATCCCA 60.394 55.000 0.00 0.00 0.00 4.37
80 81 2.775960 ACAATCAGATCCCAGATGCTCA 59.224 45.455 0.00 0.00 0.00 4.26
158 159 2.753029 GCAGCTCCAGGTGACCTT 59.247 61.111 0.00 0.00 45.66 3.50
160 161 2.061220 CAGCTCCAGGTGACCTTCA 58.939 57.895 0.00 0.00 45.66 3.02
161 162 0.036577 CAGCTCCAGGTGACCTTCAG 60.037 60.000 0.00 1.23 45.66 3.02
227 247 2.679092 CCCAAGCATGAGGAGGCA 59.321 61.111 0.00 0.00 0.00 4.75
254 274 1.141019 GCACTATCCGCCTTCACGA 59.859 57.895 0.00 0.00 34.06 4.35
361 391 2.924101 ACCAACGGCGGTAAGGGA 60.924 61.111 13.24 0.00 37.57 4.20
382 412 0.034337 GGGTACACGACAAAGGCTCA 59.966 55.000 0.00 0.00 0.00 4.26
423 453 3.885521 GACTAGGACGACGCGGGG 61.886 72.222 12.47 3.65 0.00 5.73
437 467 2.025418 CGGGGGTCTGTTTTCGTCG 61.025 63.158 0.00 0.00 0.00 5.12
498 528 9.768662 TTAGGCCTAAATAGAAATAAGGTAACG 57.231 33.333 23.21 0.00 46.39 3.18
569 600 5.649395 TCGAGAGGGTTCTACTTCGAAATTA 59.351 40.000 0.00 0.00 32.53 1.40
570 601 5.972382 CGAGAGGGTTCTACTTCGAAATTAG 59.028 44.000 0.00 3.28 32.53 1.73
720 751 8.088365 AGAAACCAAAATAATCACTAAAGCCAC 58.912 33.333 0.00 0.00 0.00 5.01
730 761 4.101114 TCACTAAAGCCACCTAATCCTGA 58.899 43.478 0.00 0.00 0.00 3.86
759 790 2.812591 GCTGCATCACTCCCTAATCATG 59.187 50.000 0.00 0.00 0.00 3.07
760 791 2.812591 CTGCATCACTCCCTAATCATGC 59.187 50.000 0.00 0.00 37.69 4.06
949 980 0.179078 CCATCTCAGTCAGCCTCAGC 60.179 60.000 0.00 0.00 40.32 4.26
953 984 1.228988 TCAGTCAGCCTCAGCCTCA 60.229 57.895 0.00 0.00 41.25 3.86
954 985 1.218585 CAGTCAGCCTCAGCCTCAG 59.781 63.158 0.00 0.00 41.25 3.35
955 986 1.229145 AGTCAGCCTCAGCCTCAGT 60.229 57.895 0.00 0.00 41.25 3.41
956 987 1.217779 GTCAGCCTCAGCCTCAGTC 59.782 63.158 0.00 0.00 41.25 3.51
957 988 1.986757 TCAGCCTCAGCCTCAGTCC 60.987 63.158 0.00 0.00 41.25 3.85
958 989 1.988956 CAGCCTCAGCCTCAGTCCT 60.989 63.158 0.00 0.00 41.25 3.85
959 990 1.685421 AGCCTCAGCCTCAGTCCTC 60.685 63.158 0.00 0.00 41.25 3.71
1130 1168 2.168521 CCTACATCGTGTTCATGGACCT 59.831 50.000 0.46 0.00 0.00 3.85
1434 1472 2.733127 CTCGCACGACGTGGTTATT 58.267 52.632 27.86 0.00 44.19 1.40
1529 1567 4.681978 GAAGGGCGTGTGCGAGGT 62.682 66.667 0.00 0.00 44.10 3.85
1824 1862 0.809241 GCCTCGGCTCTGACATTCTG 60.809 60.000 0.00 0.00 38.26 3.02
2019 2057 4.681978 AACTCAGCGCCGTGGGTC 62.682 66.667 2.29 0.00 27.92 4.46
2058 2096 2.342279 CTGGACCGCGACTTTCCA 59.658 61.111 8.23 12.90 37.07 3.53
2082 2120 3.771160 GTCACGCTCCCATCCGGT 61.771 66.667 0.00 0.00 0.00 5.28
2766 2837 6.599244 TGCTACTCACAATCAAATCCTTTAGG 59.401 38.462 0.00 0.00 0.00 2.69
2886 2960 3.314913 ACATGTGATCTGCTCTAGACGAG 59.685 47.826 0.00 0.00 42.88 4.18
2995 3069 0.179089 GCATGCTGGATCTCGTGACT 60.179 55.000 11.37 0.00 0.00 3.41
3003 3077 4.390264 CTGGATCTCGTGACTAGATACCA 58.610 47.826 6.85 10.84 33.94 3.25
3025 3099 5.104817 CCAGATTGCCTCCAAACCAAATATT 60.105 40.000 0.00 0.00 34.05 1.28
3026 3100 5.813672 CAGATTGCCTCCAAACCAAATATTG 59.186 40.000 0.00 0.00 34.05 1.90
3063 3140 4.261197 GCTCACTCCCTTTGTGTTTTACTG 60.261 45.833 0.00 0.00 36.83 2.74
3075 3155 8.903570 TTTGTGTTTTACTGTACTGAACAATG 57.096 30.769 6.77 0.00 37.74 2.82
3340 3420 1.068125 CGTGTACGACATCTCCACCAA 60.068 52.381 0.00 0.00 43.02 3.67
3390 3470 2.557059 CTACAGCGCGACCCACATCA 62.557 60.000 12.10 0.00 0.00 3.07
3491 3571 1.000955 GTGTTCAGGAAGAAGCCGAGA 59.999 52.381 0.00 0.00 36.78 4.04
3494 3574 1.561643 TCAGGAAGAAGCCGAGACAT 58.438 50.000 0.00 0.00 0.00 3.06
3641 3721 1.137282 GGGCAGAAGCAGAGGTACTAC 59.863 57.143 0.00 0.00 41.13 2.73
3785 3865 3.376918 GGGCAGCAAGTTCAGGCC 61.377 66.667 0.00 0.00 43.86 5.19
3786 3866 3.376918 GGCAGCAAGTTCAGGCCC 61.377 66.667 0.00 0.00 38.70 5.80
3787 3867 2.282745 GCAGCAAGTTCAGGCCCT 60.283 61.111 0.00 0.00 0.00 5.19
3788 3868 2.633509 GCAGCAAGTTCAGGCCCTG 61.634 63.158 3.69 3.69 0.00 4.45
3832 3912 3.492656 CGTGTTCAGGTTCAGGAGAAGAA 60.493 47.826 0.00 0.00 33.63 2.52
3910 4156 2.306799 CGAAGCTCTCAACTGCAAAC 57.693 50.000 0.00 0.00 0.00 2.93
3927 4173 2.106511 CAAACCCTGGAGTTCTTCCTCA 59.893 50.000 0.00 0.00 46.92 3.86
3929 4175 0.251634 CCCTGGAGTTCTTCCTCAGC 59.748 60.000 0.00 0.00 46.92 4.26
4139 4388 1.525923 CCATCCTGGTGCTCCTGAG 59.474 63.158 12.76 0.00 35.11 3.35
4195 4444 2.100252 CTCTTGGGCAATATGGTTGCTG 59.900 50.000 14.69 6.13 44.36 4.41
4197 4446 0.334335 TGGGCAATATGGTTGCTGGA 59.666 50.000 14.69 0.81 44.36 3.86
4199 4448 1.410153 GGGCAATATGGTTGCTGGAAG 59.590 52.381 14.69 0.00 44.36 3.46
4200 4449 1.410153 GGCAATATGGTTGCTGGAAGG 59.590 52.381 14.69 0.00 44.36 3.46
4201 4450 1.410153 GCAATATGGTTGCTGGAAGGG 59.590 52.381 9.60 0.00 41.87 3.95
4202 4451 2.949963 GCAATATGGTTGCTGGAAGGGA 60.950 50.000 9.60 0.00 41.87 4.20
4203 4452 3.364549 CAATATGGTTGCTGGAAGGGAA 58.635 45.455 0.00 0.00 0.00 3.97
4204 4453 2.806945 TATGGTTGCTGGAAGGGAAG 57.193 50.000 0.00 0.00 0.00 3.46
4205 4454 0.779997 ATGGTTGCTGGAAGGGAAGT 59.220 50.000 0.00 0.00 0.00 3.01
4206 4455 0.178992 TGGTTGCTGGAAGGGAAGTG 60.179 55.000 0.00 0.00 0.00 3.16
4207 4456 1.527433 GGTTGCTGGAAGGGAAGTGC 61.527 60.000 0.00 0.00 0.00 4.40
4208 4457 0.538287 GTTGCTGGAAGGGAAGTGCT 60.538 55.000 0.00 0.00 0.00 4.40
4209 4458 1.064003 TTGCTGGAAGGGAAGTGCTA 58.936 50.000 0.00 0.00 0.00 3.49
4210 4459 1.289160 TGCTGGAAGGGAAGTGCTAT 58.711 50.000 0.00 0.00 0.00 2.97
4211 4460 1.635487 TGCTGGAAGGGAAGTGCTATT 59.365 47.619 0.00 0.00 0.00 1.73
4212 4461 2.293170 GCTGGAAGGGAAGTGCTATTC 58.707 52.381 0.00 0.00 0.00 1.75
4213 4462 2.092699 GCTGGAAGGGAAGTGCTATTCT 60.093 50.000 2.25 0.00 0.00 2.40
4214 4463 3.539604 CTGGAAGGGAAGTGCTATTCTG 58.460 50.000 2.25 0.00 0.00 3.02
4215 4464 3.181329 TGGAAGGGAAGTGCTATTCTGA 58.819 45.455 2.25 0.00 0.00 3.27
4216 4465 3.198635 TGGAAGGGAAGTGCTATTCTGAG 59.801 47.826 2.25 0.00 0.00 3.35
4217 4466 2.998316 AGGGAAGTGCTATTCTGAGC 57.002 50.000 2.25 0.00 43.16 4.26
4218 4467 2.476199 AGGGAAGTGCTATTCTGAGCT 58.524 47.619 0.00 0.00 43.27 4.09
4219 4468 2.433970 AGGGAAGTGCTATTCTGAGCTC 59.566 50.000 6.82 6.82 43.27 4.09
4220 4469 2.468831 GGAAGTGCTATTCTGAGCTCG 58.531 52.381 9.64 4.19 43.27 5.03
4221 4470 2.099921 GGAAGTGCTATTCTGAGCTCGA 59.900 50.000 9.64 6.70 43.27 4.04
4222 4471 3.243704 GGAAGTGCTATTCTGAGCTCGAT 60.244 47.826 9.64 5.80 43.27 3.59
4223 4472 3.641437 AGTGCTATTCTGAGCTCGATC 57.359 47.619 9.64 0.00 43.27 3.69
4224 4473 3.221771 AGTGCTATTCTGAGCTCGATCT 58.778 45.455 9.64 0.00 43.27 2.75
4225 4474 3.253188 AGTGCTATTCTGAGCTCGATCTC 59.747 47.826 9.64 9.34 43.27 2.75
4226 4475 3.004210 GTGCTATTCTGAGCTCGATCTCA 59.996 47.826 17.41 17.41 43.27 3.27
4232 4481 0.310232 TGAGCTCGATCTCAGATGCG 59.690 55.000 14.72 0.00 38.11 4.73
4233 4482 1.003262 GAGCTCGATCTCAGATGCGC 61.003 60.000 11.31 0.00 33.41 6.09
4234 4483 2.021039 GCTCGATCTCAGATGCGCC 61.021 63.158 4.18 0.00 0.00 6.53
4235 4484 1.372748 CTCGATCTCAGATGCGCCC 60.373 63.158 4.18 0.00 0.00 6.13
4236 4485 2.732468 CGATCTCAGATGCGCCCG 60.732 66.667 4.18 0.00 0.00 6.13
4237 4486 2.419198 GATCTCAGATGCGCCCGT 59.581 61.111 4.18 0.00 0.00 5.28
4238 4487 1.227380 GATCTCAGATGCGCCCGTT 60.227 57.895 4.18 0.00 0.00 4.44
4239 4488 0.032130 GATCTCAGATGCGCCCGTTA 59.968 55.000 4.18 0.00 0.00 3.18
4240 4489 0.681733 ATCTCAGATGCGCCCGTTAT 59.318 50.000 4.18 0.00 0.00 1.89
4241 4490 0.032130 TCTCAGATGCGCCCGTTATC 59.968 55.000 4.18 0.00 0.00 1.75
4242 4491 0.032678 CTCAGATGCGCCCGTTATCT 59.967 55.000 4.18 2.61 0.00 1.98
4243 4492 1.269723 CTCAGATGCGCCCGTTATCTA 59.730 52.381 4.18 0.00 30.43 1.98
4244 4493 1.684450 TCAGATGCGCCCGTTATCTAA 59.316 47.619 4.18 0.00 30.43 2.10
4245 4494 2.101750 TCAGATGCGCCCGTTATCTAAA 59.898 45.455 4.18 0.00 30.43 1.85
4246 4495 3.067106 CAGATGCGCCCGTTATCTAAAT 58.933 45.455 4.18 0.00 30.43 1.40
4247 4496 3.123621 CAGATGCGCCCGTTATCTAAATC 59.876 47.826 4.18 0.00 30.43 2.17
4248 4497 1.493772 TGCGCCCGTTATCTAAATCG 58.506 50.000 4.18 0.00 0.00 3.34
4249 4498 0.163146 GCGCCCGTTATCTAAATCGC 59.837 55.000 0.00 0.00 34.61 4.58
4250 4499 0.788391 CGCCCGTTATCTAAATCGCC 59.212 55.000 0.00 0.00 0.00 5.54
4251 4500 1.154197 GCCCGTTATCTAAATCGCCC 58.846 55.000 0.00 0.00 0.00 6.13
4252 4501 1.425412 CCCGTTATCTAAATCGCCCG 58.575 55.000 0.00 0.00 0.00 6.13
4253 4502 1.269936 CCCGTTATCTAAATCGCCCGT 60.270 52.381 0.00 0.00 0.00 5.28
4254 4503 2.476821 CCGTTATCTAAATCGCCCGTT 58.523 47.619 0.00 0.00 0.00 4.44
4255 4504 2.473984 CCGTTATCTAAATCGCCCGTTC 59.526 50.000 0.00 0.00 0.00 3.95
4256 4505 2.152489 CGTTATCTAAATCGCCCGTTCG 59.848 50.000 0.00 0.00 0.00 3.95
4257 4506 1.774639 TATCTAAATCGCCCGTTCGC 58.225 50.000 0.00 0.00 0.00 4.70
4258 4507 0.179094 ATCTAAATCGCCCGTTCGCA 60.179 50.000 0.00 0.00 0.00 5.10
4259 4508 0.179094 TCTAAATCGCCCGTTCGCAT 60.179 50.000 0.00 0.00 0.00 4.73
4260 4509 0.232303 CTAAATCGCCCGTTCGCATC 59.768 55.000 0.00 0.00 0.00 3.91
4261 4510 0.179094 TAAATCGCCCGTTCGCATCT 60.179 50.000 0.00 0.00 0.00 2.90
4262 4511 0.179094 AAATCGCCCGTTCGCATCTA 60.179 50.000 0.00 0.00 0.00 1.98
4263 4512 0.597637 AATCGCCCGTTCGCATCTAG 60.598 55.000 0.00 0.00 0.00 2.43
4264 4513 1.452953 ATCGCCCGTTCGCATCTAGA 61.453 55.000 0.00 0.00 0.00 2.43
4265 4514 1.007271 CGCCCGTTCGCATCTAGAT 60.007 57.895 0.00 0.00 0.00 1.98
4266 4515 1.004277 CGCCCGTTCGCATCTAGATC 61.004 60.000 1.03 0.00 0.00 2.75
4267 4516 0.667792 GCCCGTTCGCATCTAGATCC 60.668 60.000 1.03 0.00 0.00 3.36
4268 4517 0.673985 CCCGTTCGCATCTAGATCCA 59.326 55.000 1.03 0.00 0.00 3.41
4269 4518 1.603172 CCCGTTCGCATCTAGATCCAC 60.603 57.143 1.03 0.00 0.00 4.02
4270 4519 1.067060 CCGTTCGCATCTAGATCCACA 59.933 52.381 1.03 0.00 0.00 4.17
4271 4520 2.120232 CGTTCGCATCTAGATCCACAC 58.880 52.381 1.03 0.00 0.00 3.82
4272 4521 2.474816 GTTCGCATCTAGATCCACACC 58.525 52.381 1.03 0.00 0.00 4.16
4273 4522 1.775385 TCGCATCTAGATCCACACCA 58.225 50.000 1.03 0.00 0.00 4.17
4274 4523 1.683385 TCGCATCTAGATCCACACCAG 59.317 52.381 1.03 0.00 0.00 4.00
4275 4524 1.871408 CGCATCTAGATCCACACCAGC 60.871 57.143 1.03 0.00 0.00 4.85
4276 4525 1.542108 GCATCTAGATCCACACCAGCC 60.542 57.143 1.03 0.00 0.00 4.85
4277 4526 1.071385 CATCTAGATCCACACCAGCCC 59.929 57.143 1.03 0.00 0.00 5.19
4295 4545 1.285641 CGTGCACAAATTTCGGCCT 59.714 52.632 18.64 0.00 0.00 5.19
4317 4567 0.107831 GCCCACCCACTATCGCAATA 59.892 55.000 0.00 0.00 0.00 1.90
4319 4569 2.494059 CCCACCCACTATCGCAATAAG 58.506 52.381 0.00 0.00 0.00 1.73
4360 4610 4.070552 GGAAGGCTCAGACGCGGT 62.071 66.667 12.47 0.00 0.00 5.68
4392 4642 1.136305 GGCCACAGCTCAGACGTAATA 59.864 52.381 0.00 0.00 39.73 0.98
4406 4656 1.268692 CGTAATAACGGGCGCAGTCTA 60.269 52.381 10.83 4.89 45.50 2.59
4407 4657 2.122564 GTAATAACGGGCGCAGTCTAC 58.877 52.381 10.83 7.83 0.00 2.59
4408 4658 0.533491 AATAACGGGCGCAGTCTACA 59.467 50.000 10.83 0.00 0.00 2.74
4409 4659 0.179119 ATAACGGGCGCAGTCTACAC 60.179 55.000 10.83 0.00 0.00 2.90
4410 4660 2.216750 TAACGGGCGCAGTCTACACC 62.217 60.000 10.83 0.00 0.00 4.16
4424 4674 2.092807 TCTACACCGGCCCCTTTATTTC 60.093 50.000 0.00 0.00 0.00 2.17
4430 4680 1.810412 CGGCCCCTTTATTTCTCTCCG 60.810 57.143 0.00 0.00 0.00 4.63
4434 4684 1.490910 CCCTTTATTTCTCTCCGCCCT 59.509 52.381 0.00 0.00 0.00 5.19
4435 4685 2.565841 CCTTTATTTCTCTCCGCCCTG 58.434 52.381 0.00 0.00 0.00 4.45
4439 4689 1.627297 ATTTCTCTCCGCCCTGTCCC 61.627 60.000 0.00 0.00 0.00 4.46
4442 4692 4.414956 TCTCCGCCCTGTCCCCAT 62.415 66.667 0.00 0.00 0.00 4.00
4481 4766 2.248248 CCGCCACCCTAGATCTGAATA 58.752 52.381 5.18 0.00 0.00 1.75
4488 4773 5.221541 CCACCCTAGATCTGAATAACCAGAC 60.222 48.000 5.18 0.00 44.93 3.51
4489 4774 5.600484 CACCCTAGATCTGAATAACCAGACT 59.400 44.000 5.18 0.00 44.93 3.24
4537 4822 6.229733 CAAAAATAAGCAAGATCACCCCAAA 58.770 36.000 0.00 0.00 0.00 3.28
4547 4832 4.082125 AGATCACCCCAAAGATTCAACAC 58.918 43.478 0.00 0.00 0.00 3.32
4579 4864 5.884232 TGCAAGAATCAGTAAGATCAAGCAT 59.116 36.000 0.00 0.00 35.39 3.79
4580 4865 6.183360 TGCAAGAATCAGTAAGATCAAGCATG 60.183 38.462 0.00 0.00 35.39 4.06
4581 4866 6.200100 CAAGAATCAGTAAGATCAAGCATGC 58.800 40.000 10.51 10.51 35.39 4.06
4591 4876 2.455674 TCAAGCATGCAACTACGACT 57.544 45.000 21.98 0.00 0.00 4.18
4605 4890 2.604046 ACGACTACAGCCATCATTCC 57.396 50.000 0.00 0.00 0.00 3.01
4632 4917 7.064490 CACCATGGGCAATTAATTAACTGAAAC 59.936 37.037 18.09 0.79 0.00 2.78
4635 4920 8.997323 CATGGGCAATTAATTAACTGAAACAAA 58.003 29.630 10.71 0.00 0.00 2.83
4638 4923 7.360861 GGGCAATTAATTAACTGAAACAAAGCC 60.361 37.037 10.71 4.78 0.00 4.35
4652 4939 7.327214 TGAAACAAAGCCAGATTTTTAACTGT 58.673 30.769 0.00 0.00 32.93 3.55
4654 4941 9.476202 GAAACAAAGCCAGATTTTTAACTGTAT 57.524 29.630 0.00 0.00 32.93 2.29
4670 4957 3.829948 CTGTATTTCAGCTTGCCAAGTG 58.170 45.455 6.28 3.76 37.36 3.16
4671 4958 2.030007 TGTATTTCAGCTTGCCAAGTGC 60.030 45.455 6.28 0.00 41.77 4.40
4672 4959 6.341127 CTGTATTTCAGCTTGCCAAGTGCA 62.341 45.833 6.28 0.00 42.16 4.57
4673 4960 7.732976 CTGTATTTCAGCTTGCCAAGTGCAA 62.733 44.000 6.28 0.00 46.21 4.08
4691 4978 2.597272 GCAAATCAGTGCAACGCAAAAC 60.597 45.455 0.00 0.00 45.86 2.43
4693 4980 0.743688 ATCAGTGCAACGCAAAACCA 59.256 45.000 0.00 0.00 45.86 3.67
4694 4981 0.100325 TCAGTGCAACGCAAAACCAG 59.900 50.000 0.00 0.00 45.86 4.00
4705 4992 5.059404 ACGCAAAACCAGAAATAATCCAG 57.941 39.130 0.00 0.00 0.00 3.86
4715 5002 6.207417 ACCAGAAATAATCCAGAACACAACAG 59.793 38.462 0.00 0.00 0.00 3.16
4716 5003 6.088824 CAGAAATAATCCAGAACACAACAGC 58.911 40.000 0.00 0.00 0.00 4.40
4718 5005 6.435277 AGAAATAATCCAGAACACAACAGCAT 59.565 34.615 0.00 0.00 0.00 3.79
4734 5021 6.206048 ACAACAGCATAGGTTTACAACTAACC 59.794 38.462 0.00 0.00 44.34 2.85
4749 5036 1.950909 CTAACCAAAAACAGCCCGTCA 59.049 47.619 0.00 0.00 0.00 4.35
4751 5038 0.106918 ACCAAAAACAGCCCGTCAGA 60.107 50.000 0.00 0.00 0.00 3.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 0.909623 CCTCCATGGTACCCGACTTT 59.090 55.000 12.58 0.00 0.00 2.66
8 9 0.819259 CAATGCCTCCATGGTACCCG 60.819 60.000 12.58 0.00 38.35 5.28
51 52 1.103398 GGATCTGATTGTTGGGCGGG 61.103 60.000 0.00 0.00 0.00 6.13
63 64 1.140452 GCTTGAGCATCTGGGATCTGA 59.860 52.381 0.00 0.00 41.59 3.27
110 111 1.369091 CTAGCATTGTCGCCCACACC 61.369 60.000 0.00 0.00 33.41 4.16
122 123 0.397535 CCATGGCCCAACCTAGCATT 60.398 55.000 0.00 0.00 40.22 3.56
124 125 2.682846 CCATGGCCCAACCTAGCA 59.317 61.111 0.00 0.00 40.22 3.49
149 150 1.599047 CATCCGCTGAAGGTCACCT 59.401 57.895 0.00 0.00 33.87 4.00
227 247 1.961180 GCGGATAGTGCAGAGGTGGT 61.961 60.000 0.00 0.00 0.00 4.16
279 299 2.166870 ACATCGTTCCCGTAGCATTGTA 59.833 45.455 0.00 0.00 35.01 2.41
280 300 1.066430 ACATCGTTCCCGTAGCATTGT 60.066 47.619 0.00 0.00 35.01 2.71
352 382 0.174162 CGTGTACCCTTCCCTTACCG 59.826 60.000 0.00 0.00 0.00 4.02
355 385 2.307496 TGTCGTGTACCCTTCCCTTA 57.693 50.000 0.00 0.00 0.00 2.69
356 386 1.426751 TTGTCGTGTACCCTTCCCTT 58.573 50.000 0.00 0.00 0.00 3.95
361 391 0.763035 AGCCTTTGTCGTGTACCCTT 59.237 50.000 0.00 0.00 0.00 3.95
382 412 2.489971 TGCTCGATCAACTTTTTCGGT 58.510 42.857 0.00 0.00 33.82 4.69
420 450 1.670083 CCGACGAAAACAGACCCCC 60.670 63.158 0.00 0.00 0.00 5.40
423 453 0.249573 TCACCCGACGAAAACAGACC 60.250 55.000 0.00 0.00 0.00 3.85
437 467 2.514458 AATGTGTGGGAATCTCACCC 57.486 50.000 11.18 0.00 46.87 4.61
498 528 8.192110 TGGTTCTACACTTTAAATGTGGTTTTC 58.808 33.333 16.79 8.22 39.52 2.29
569 600 3.042059 TCTATTTCGGCTTACCTCCCT 57.958 47.619 0.00 0.00 0.00 4.20
570 601 3.557264 CCATCTATTTCGGCTTACCTCCC 60.557 52.174 0.00 0.00 0.00 4.30
638 669 2.029828 CGCCTCTATCGAGTGCCTAATT 60.030 50.000 0.00 0.00 35.43 1.40
720 751 3.814283 GCAGCATCTTTCTCAGGATTAGG 59.186 47.826 0.00 0.00 0.00 2.69
730 761 2.641305 GGAGTGATGCAGCATCTTTCT 58.359 47.619 31.02 24.94 41.06 2.52
759 790 0.324275 TGGGGCCAGATAAACTTGGC 60.324 55.000 4.39 6.95 39.93 4.52
760 791 2.230130 TTGGGGCCAGATAAACTTGG 57.770 50.000 4.39 0.00 0.00 3.61
949 980 0.926293 AGGAGAGGAGAGGACTGAGG 59.074 60.000 0.00 0.00 0.00 3.86
953 984 1.564348 GAGTGAGGAGAGGAGAGGACT 59.436 57.143 0.00 0.00 0.00 3.85
954 985 1.409661 GGAGTGAGGAGAGGAGAGGAC 60.410 61.905 0.00 0.00 0.00 3.85
955 986 0.923358 GGAGTGAGGAGAGGAGAGGA 59.077 60.000 0.00 0.00 0.00 3.71
956 987 0.106217 GGGAGTGAGGAGAGGAGAGG 60.106 65.000 0.00 0.00 0.00 3.69
957 988 0.106217 GGGGAGTGAGGAGAGGAGAG 60.106 65.000 0.00 0.00 0.00 3.20
958 989 1.927569 CGGGGAGTGAGGAGAGGAGA 61.928 65.000 0.00 0.00 0.00 3.71
959 990 1.454847 CGGGGAGTGAGGAGAGGAG 60.455 68.421 0.00 0.00 0.00 3.69
1431 1469 1.003812 CCGGTGTCAAGAACCCCAATA 59.996 52.381 0.00 0.00 33.88 1.90
1434 1472 2.833227 CCGGTGTCAAGAACCCCA 59.167 61.111 0.00 0.00 33.88 4.96
1719 1757 2.149803 CTGTGGCGTACCCGAACAGA 62.150 60.000 12.00 0.00 45.56 3.41
1824 1862 3.512516 GCGGAGTCAATGCCAGCC 61.513 66.667 0.00 0.00 0.00 4.85
2385 2423 1.268948 GCGTAGTCCCGTATCTTGTCC 60.269 57.143 0.00 0.00 0.00 4.02
2766 2837 2.538737 GGCGCCTTTTTGAAACAAAAGC 60.539 45.455 22.15 9.33 35.33 3.51
2886 2960 8.603242 TTTGAAAGGTTTCACATCTAGTCTAC 57.397 34.615 4.61 0.00 45.99 2.59
2949 3023 5.163561 TGCTAGAAACCACTCAAACCAAAAG 60.164 40.000 0.00 0.00 0.00 2.27
2995 3069 4.141482 GGTTTGGAGGCAATCTGGTATCTA 60.141 45.833 0.00 0.00 0.00 1.98
3003 3077 5.721000 TCAATATTTGGTTTGGAGGCAATCT 59.279 36.000 0.00 0.00 0.00 2.40
3025 3099 5.163405 GGGAGTGAGCTGAATATTGTACTCA 60.163 44.000 0.00 0.00 36.06 3.41
3026 3100 5.069781 AGGGAGTGAGCTGAATATTGTACTC 59.930 44.000 0.00 0.00 34.19 2.59
3063 3140 5.700832 TCACAATCAGACCATTGTTCAGTAC 59.299 40.000 0.00 0.00 43.17 2.73
3075 3155 2.681848 CTGCAGGAATCACAATCAGACC 59.318 50.000 5.57 0.00 0.00 3.85
3408 3488 4.351938 CGGGCACGAGACGTTGGA 62.352 66.667 0.00 0.00 44.60 3.53
3491 3571 1.819288 CTCCTGTACCTCACGACATGT 59.181 52.381 0.00 0.00 0.00 3.21
3494 3574 0.611062 CCCTCCTGTACCTCACGACA 60.611 60.000 0.00 0.00 0.00 4.35
3641 3721 1.359848 CCTTGGATTCGAAGGTGACG 58.640 55.000 16.90 0.00 36.05 4.35
3785 3865 0.823460 AACAAACACCAACAGGCAGG 59.177 50.000 0.00 0.00 0.00 4.85
3786 3866 2.671130 AAACAAACACCAACAGGCAG 57.329 45.000 0.00 0.00 0.00 4.85
3787 3867 3.511934 ACTAAAACAAACACCAACAGGCA 59.488 39.130 0.00 0.00 0.00 4.75
3788 3868 4.109766 GACTAAAACAAACACCAACAGGC 58.890 43.478 0.00 0.00 0.00 4.85
3941 4187 2.727684 GAAACGAAGTCCGGCGAGC 61.728 63.158 9.30 0.00 45.00 5.03
4139 4388 7.221452 ACGATCTTTTCATCATTTTGCATTAGC 59.779 33.333 0.00 0.00 42.57 3.09
4140 4389 8.624701 ACGATCTTTTCATCATTTTGCATTAG 57.375 30.769 0.00 0.00 0.00 1.73
4195 4444 3.802866 CTCAGAATAGCACTTCCCTTCC 58.197 50.000 0.00 0.00 0.00 3.46
4197 4446 2.843113 AGCTCAGAATAGCACTTCCCTT 59.157 45.455 0.00 0.00 45.30 3.95
4199 4448 2.801342 CGAGCTCAGAATAGCACTTCCC 60.801 54.545 15.40 0.00 45.30 3.97
4200 4449 2.099921 TCGAGCTCAGAATAGCACTTCC 59.900 50.000 15.40 0.00 45.30 3.46
4201 4450 3.428746 TCGAGCTCAGAATAGCACTTC 57.571 47.619 15.40 0.00 45.30 3.01
4202 4451 3.636300 AGATCGAGCTCAGAATAGCACTT 59.364 43.478 15.40 0.00 45.30 3.16
4203 4452 3.221771 AGATCGAGCTCAGAATAGCACT 58.778 45.455 15.40 4.44 45.30 4.40
4204 4453 3.004210 TGAGATCGAGCTCAGAATAGCAC 59.996 47.826 28.42 0.28 45.30 4.40
4205 4454 3.217626 TGAGATCGAGCTCAGAATAGCA 58.782 45.455 28.42 4.76 45.30 3.49
4206 4455 3.913548 TGAGATCGAGCTCAGAATAGC 57.086 47.619 28.42 1.84 39.84 2.97
4213 4462 0.310232 CGCATCTGAGATCGAGCTCA 59.690 55.000 29.74 29.74 42.31 4.26
4214 4463 1.003262 GCGCATCTGAGATCGAGCTC 61.003 60.000 23.45 23.45 35.46 4.09
4215 4464 1.007502 GCGCATCTGAGATCGAGCT 60.008 57.895 1.00 1.00 0.00 4.09
4216 4465 2.021039 GGCGCATCTGAGATCGAGC 61.021 63.158 10.83 12.71 0.00 5.03
4217 4466 1.372748 GGGCGCATCTGAGATCGAG 60.373 63.158 10.83 5.30 0.00 4.04
4218 4467 2.730733 GGGCGCATCTGAGATCGA 59.269 61.111 10.83 0.00 0.00 3.59
4219 4468 2.732468 CGGGCGCATCTGAGATCG 60.732 66.667 10.83 9.04 0.00 3.69
4220 4469 0.032130 TAACGGGCGCATCTGAGATC 59.968 55.000 10.83 0.00 0.00 2.75
4221 4470 0.681733 ATAACGGGCGCATCTGAGAT 59.318 50.000 10.83 0.00 0.00 2.75
4222 4471 0.032130 GATAACGGGCGCATCTGAGA 59.968 55.000 10.83 0.00 0.00 3.27
4223 4472 0.032678 AGATAACGGGCGCATCTGAG 59.967 55.000 10.83 0.00 0.00 3.35
4224 4473 1.324383 TAGATAACGGGCGCATCTGA 58.676 50.000 10.83 0.00 31.60 3.27
4225 4474 2.148916 TTAGATAACGGGCGCATCTG 57.851 50.000 10.83 0.00 31.60 2.90
4226 4475 2.902705 TTTAGATAACGGGCGCATCT 57.097 45.000 10.83 11.19 33.66 2.90
4227 4476 2.092211 CGATTTAGATAACGGGCGCATC 59.908 50.000 10.83 2.63 0.00 3.91
4228 4477 2.066262 CGATTTAGATAACGGGCGCAT 58.934 47.619 10.83 0.00 0.00 4.73
4229 4478 1.493772 CGATTTAGATAACGGGCGCA 58.506 50.000 10.83 0.00 0.00 6.09
4230 4479 0.163146 GCGATTTAGATAACGGGCGC 59.837 55.000 0.00 0.00 36.35 6.53
4231 4480 0.788391 GGCGATTTAGATAACGGGCG 59.212 55.000 0.00 0.00 0.00 6.13
4232 4481 1.154197 GGGCGATTTAGATAACGGGC 58.846 55.000 0.00 0.00 0.00 6.13
4233 4482 1.269936 ACGGGCGATTTAGATAACGGG 60.270 52.381 0.00 0.00 0.00 5.28
4234 4483 2.144482 ACGGGCGATTTAGATAACGG 57.856 50.000 0.00 0.00 0.00 4.44
4235 4484 2.152489 CGAACGGGCGATTTAGATAACG 59.848 50.000 0.00 0.00 0.00 3.18
4236 4485 2.097056 GCGAACGGGCGATTTAGATAAC 60.097 50.000 3.29 0.00 0.00 1.89
4237 4486 2.129607 GCGAACGGGCGATTTAGATAA 58.870 47.619 3.29 0.00 0.00 1.75
4238 4487 1.067364 TGCGAACGGGCGATTTAGATA 59.933 47.619 3.29 0.00 35.06 1.98
4239 4488 0.179094 TGCGAACGGGCGATTTAGAT 60.179 50.000 3.29 0.00 35.06 1.98
4240 4489 0.179094 ATGCGAACGGGCGATTTAGA 60.179 50.000 3.29 0.00 35.06 2.10
4241 4490 0.232303 GATGCGAACGGGCGATTTAG 59.768 55.000 3.29 0.00 35.06 1.85
4242 4491 0.179094 AGATGCGAACGGGCGATTTA 60.179 50.000 3.29 0.00 35.06 1.40
4243 4492 0.179094 TAGATGCGAACGGGCGATTT 60.179 50.000 3.29 0.00 35.06 2.17
4244 4493 0.597637 CTAGATGCGAACGGGCGATT 60.598 55.000 3.29 0.00 35.06 3.34
4245 4494 1.007271 CTAGATGCGAACGGGCGAT 60.007 57.895 3.29 0.00 35.06 4.58
4246 4495 1.452953 ATCTAGATGCGAACGGGCGA 61.453 55.000 3.89 0.00 35.06 5.54
4247 4496 1.004277 GATCTAGATGCGAACGGGCG 61.004 60.000 10.74 0.00 35.06 6.13
4248 4497 0.667792 GGATCTAGATGCGAACGGGC 60.668 60.000 10.74 0.00 0.00 6.13
4249 4498 0.673985 TGGATCTAGATGCGAACGGG 59.326 55.000 18.13 0.00 31.21 5.28
4250 4499 1.067060 TGTGGATCTAGATGCGAACGG 59.933 52.381 18.13 0.00 31.21 4.44
4251 4500 2.120232 GTGTGGATCTAGATGCGAACG 58.880 52.381 18.13 0.00 31.21 3.95
4252 4501 2.159099 TGGTGTGGATCTAGATGCGAAC 60.159 50.000 18.13 17.06 31.21 3.95
4253 4502 2.101415 CTGGTGTGGATCTAGATGCGAA 59.899 50.000 18.13 7.10 31.21 4.70
4254 4503 1.683385 CTGGTGTGGATCTAGATGCGA 59.317 52.381 18.13 5.80 31.21 5.10
4255 4504 1.871408 GCTGGTGTGGATCTAGATGCG 60.871 57.143 18.13 5.18 31.21 4.73
4256 4505 1.542108 GGCTGGTGTGGATCTAGATGC 60.542 57.143 16.76 16.76 0.00 3.91
4257 4506 1.071385 GGGCTGGTGTGGATCTAGATG 59.929 57.143 10.74 0.00 0.00 2.90
4258 4507 1.428869 GGGCTGGTGTGGATCTAGAT 58.571 55.000 4.47 4.47 0.00 1.98
4259 4508 1.043116 CGGGCTGGTGTGGATCTAGA 61.043 60.000 0.00 0.00 0.00 2.43
4260 4509 1.330655 ACGGGCTGGTGTGGATCTAG 61.331 60.000 0.00 0.00 0.00 2.43
4261 4510 1.305802 ACGGGCTGGTGTGGATCTA 60.306 57.895 0.00 0.00 0.00 1.98
4262 4511 2.607750 ACGGGCTGGTGTGGATCT 60.608 61.111 0.00 0.00 0.00 2.75
4263 4512 2.436646 CACGGGCTGGTGTGGATC 60.437 66.667 0.00 0.00 33.24 3.36
4264 4513 4.722700 GCACGGGCTGGTGTGGAT 62.723 66.667 0.00 0.00 40.08 3.41
4268 4517 4.497984 TTGTGCACGGGCTGGTGT 62.498 61.111 12.74 0.00 41.91 4.16
4269 4518 2.086251 AATTTGTGCACGGGCTGGTG 62.086 55.000 12.74 1.29 41.91 4.17
4270 4519 1.398958 AAATTTGTGCACGGGCTGGT 61.399 50.000 12.74 0.00 41.91 4.00
4271 4520 0.667184 GAAATTTGTGCACGGGCTGG 60.667 55.000 12.74 0.00 41.91 4.85
4272 4521 1.003262 CGAAATTTGTGCACGGGCTG 61.003 55.000 12.74 0.00 41.91 4.85
4273 4522 1.285641 CGAAATTTGTGCACGGGCT 59.714 52.632 12.74 0.00 41.91 5.19
4274 4523 1.732683 CCGAAATTTGTGCACGGGC 60.733 57.895 13.13 0.34 39.92 6.13
4275 4524 1.732683 GCCGAAATTTGTGCACGGG 60.733 57.895 13.13 5.62 43.15 5.28
4276 4525 1.732683 GGCCGAAATTTGTGCACGG 60.733 57.895 13.13 8.89 45.26 4.94
4277 4526 0.318614 AAGGCCGAAATTTGTGCACG 60.319 50.000 13.13 0.00 0.00 5.34
4295 4545 2.994699 CGATAGTGGGTGGGCCAA 59.005 61.111 8.40 0.00 36.17 4.52
4305 4555 2.794910 CGTCCCACTTATTGCGATAGTG 59.205 50.000 12.87 12.87 39.35 2.74
4360 4610 2.107041 CTGTGGCCCAGAACGGTGTA 62.107 60.000 14.21 0.00 44.49 2.90
4392 4642 2.048503 GTGTAGACTGCGCCCGTT 60.049 61.111 4.18 0.00 0.00 4.44
4401 4651 0.252375 TAAAGGGGCCGGTGTAGACT 60.252 55.000 1.90 0.00 0.00 3.24
4406 4656 0.702316 AGAAATAAAGGGGCCGGTGT 59.298 50.000 1.90 0.00 0.00 4.16
4407 4657 1.064685 AGAGAAATAAAGGGGCCGGTG 60.065 52.381 1.90 0.00 0.00 4.94
4408 4658 1.212195 GAGAGAAATAAAGGGGCCGGT 59.788 52.381 1.90 0.00 0.00 5.28
4409 4659 1.477014 GGAGAGAAATAAAGGGGCCGG 60.477 57.143 0.00 0.00 0.00 6.13
4410 4660 1.810412 CGGAGAGAAATAAAGGGGCCG 60.810 57.143 0.00 0.00 0.00 6.13
4411 4661 1.968704 CGGAGAGAAATAAAGGGGCC 58.031 55.000 0.00 0.00 0.00 5.80
4435 4685 4.335416 TGTGAAAGAATCTTGATGGGGAC 58.665 43.478 0.00 0.00 0.00 4.46
4439 4689 3.730061 GCGCTGTGAAAGAATCTTGATGG 60.730 47.826 0.00 0.00 0.00 3.51
4442 4692 1.806542 GGCGCTGTGAAAGAATCTTGA 59.193 47.619 7.64 0.00 0.00 3.02
4481 4766 7.123547 TGGTTTGTTCTTTTGAATAGTCTGGTT 59.876 33.333 0.00 0.00 40.94 3.67
4488 4773 8.081633 TGCAGTATGGTTTGTTCTTTTGAATAG 58.918 33.333 0.00 0.00 37.40 1.73
4489 4774 7.946207 TGCAGTATGGTTTGTTCTTTTGAATA 58.054 30.769 0.00 0.00 37.40 1.75
4496 4781 9.260002 CTTATTTTTGCAGTATGGTTTGTTCTT 57.740 29.630 0.00 0.00 35.86 2.52
4537 4822 7.275888 TCTTGCAATTTGTAGTGTTGAATCT 57.724 32.000 0.00 0.00 0.00 2.40
4547 4832 9.713740 GATCTTACTGATTCTTGCAATTTGTAG 57.286 33.333 0.00 0.00 35.14 2.74
4579 4864 0.963225 TGGCTGTAGTCGTAGTTGCA 59.037 50.000 0.00 0.00 0.00 4.08
4580 4865 2.194271 GATGGCTGTAGTCGTAGTTGC 58.806 52.381 0.00 0.00 0.00 4.17
4581 4866 3.503827 TGATGGCTGTAGTCGTAGTTG 57.496 47.619 0.00 0.00 0.00 3.16
4591 4876 1.294041 TGGTGGGAATGATGGCTGTA 58.706 50.000 0.00 0.00 0.00 2.74
4605 4890 5.128499 TCAGTTAATTAATTGCCCATGGTGG 59.872 40.000 11.73 0.00 37.25 4.61
4624 4909 8.040727 AGTTAAAAATCTGGCTTTGTTTCAGTT 58.959 29.630 0.00 0.00 0.00 3.16
4632 4917 9.474920 TGAAATACAGTTAAAAATCTGGCTTTG 57.525 29.630 0.00 0.00 36.17 2.77
4670 4957 1.207390 TTTGCGTTGCACTGATTTGC 58.793 45.000 0.00 0.00 38.71 3.68
4671 4958 2.033832 GGTTTTGCGTTGCACTGATTTG 60.034 45.455 0.00 0.00 38.71 2.32
4672 4959 2.200899 GGTTTTGCGTTGCACTGATTT 58.799 42.857 0.00 0.00 38.71 2.17
4673 4960 1.135915 TGGTTTTGCGTTGCACTGATT 59.864 42.857 0.00 0.00 38.71 2.57
4674 4961 0.743688 TGGTTTTGCGTTGCACTGAT 59.256 45.000 0.00 0.00 38.71 2.90
4675 4962 0.100325 CTGGTTTTGCGTTGCACTGA 59.900 50.000 0.00 0.00 38.71 3.41
4676 4963 0.100325 TCTGGTTTTGCGTTGCACTG 59.900 50.000 0.00 0.00 38.71 3.66
4685 4972 6.366061 GTGTTCTGGATTATTTCTGGTTTTGC 59.634 38.462 0.00 0.00 0.00 3.68
4691 4978 6.573664 TGTTGTGTTCTGGATTATTTCTGG 57.426 37.500 0.00 0.00 0.00 3.86
4693 4980 5.769662 TGCTGTTGTGTTCTGGATTATTTCT 59.230 36.000 0.00 0.00 0.00 2.52
4694 4981 6.012658 TGCTGTTGTGTTCTGGATTATTTC 57.987 37.500 0.00 0.00 0.00 2.17
4705 4992 5.682943 TGTAAACCTATGCTGTTGTGTTC 57.317 39.130 0.00 0.00 0.00 3.18
4734 5021 0.310854 GGTCTGACGGGCTGTTTTTG 59.689 55.000 0.00 0.00 0.00 2.44



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

AutoCloner maintained by Alex Coulton.