Multiple sequence alignment - TraesCS7B01G136200

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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 TraesCS7B01G136200 chr7B 100.000 5021 0 0 1 5021 168073266 168078286 0.000000e+00 9273.0
1 TraesCS7B01G136200 chr7A 93.588 4055 179 28 311 4327 215933650 215937661 0.000000e+00 5973.0
2 TraesCS7B01G136200 chr7A 89.011 273 25 2 4590 4860 215938195 215938464 2.900000e-87 333.0
3 TraesCS7B01G136200 chr7A 85.274 292 9 13 3 292 215933297 215933556 2.300000e-68 270.0
4 TraesCS7B01G136200 chr7A 97.619 42 1 0 4548 4589 215937836 215937877 6.970000e-09 73.1
5 TraesCS7B01G136200 chr7D 93.445 3631 166 33 661 4268 204108631 204112212 0.000000e+00 5321.0
6 TraesCS7B01G136200 chr7D 91.629 669 20 12 1 637 204107970 204108634 0.000000e+00 893.0
7 TraesCS7B01G136200 chr7D 90.234 471 38 3 4548 5015 204114655 204115120 4.300000e-170 608.0
8 TraesCS7B01G136200 chr5A 77.133 2707 552 48 1343 4014 473010119 473012793 0.000000e+00 1507.0
9 TraesCS7B01G136200 chr5D 76.479 2891 597 60 1158 4014 370463018 370465859 0.000000e+00 1495.0
10 TraesCS7B01G136200 chr5D 96.364 55 2 0 4317 4371 389033776 389033722 1.920000e-14 91.6
11 TraesCS7B01G136200 chr5D 98.077 52 1 0 4320 4371 469554766 469554817 1.920000e-14 91.6
12 TraesCS7B01G136200 chr5D 93.333 60 3 1 4312 4371 301581305 301581363 2.490000e-13 87.9
13 TraesCS7B01G136200 chr3B 96.364 55 2 0 4317 4371 628478854 628478800 1.920000e-14 91.6
14 TraesCS7B01G136200 chr4D 96.296 54 2 0 4318 4371 479997569 479997622 6.920000e-14 89.8
15 TraesCS7B01G136200 chr6B 94.643 56 3 0 4316 4371 487591414 487591359 2.490000e-13 87.9
16 TraesCS7B01G136200 chr5B 94.737 57 1 2 4316 4371 598715308 598715363 2.490000e-13 87.9
17 TraesCS7B01G136200 chr1B 94.737 57 1 2 4316 4371 494732263 494732318 2.490000e-13 87.9
18 TraesCS7B01G136200 chr1D 100.000 45 0 0 4327 4371 84570936 84570892 3.220000e-12 84.2


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 TraesCS7B01G136200 chr7B 168073266 168078286 5020 False 9273.000 9273 100.000000 1 5021 1 chr7B.!!$F1 5020
1 TraesCS7B01G136200 chr7A 215933297 215938464 5167 False 1662.275 5973 91.373000 3 4860 4 chr7A.!!$F1 4857
2 TraesCS7B01G136200 chr7D 204107970 204115120 7150 False 2274.000 5321 91.769333 1 5015 3 chr7D.!!$F1 5014
3 TraesCS7B01G136200 chr5A 473010119 473012793 2674 False 1507.000 1507 77.133000 1343 4014 1 chr5A.!!$F1 2671
4 TraesCS7B01G136200 chr5D 370463018 370465859 2841 False 1495.000 1495 76.479000 1158 4014 1 chr5D.!!$F2 2856

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
417 527 0.114560 AGAGAGGACCCCGAACTGAA 59.885 55.0 0.0 0.0 0.00 3.02 F
976 1112 0.463620 GCTTTCCAGCAAAACCACCA 59.536 50.0 0.0 0.0 46.49 4.17 F
2328 2485 0.904649 ATCCGGTGATTGAGCTGTCA 59.095 50.0 0.0 0.0 0.00 3.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2319 2476 0.250234 CTTTCCCCGATGACAGCTCA 59.750 55.0 0.0 0.0 0.0 4.26 R
2373 2530 0.550914 TGCACCTGAACCTTGACCTT 59.449 50.0 0.0 0.0 0.0 3.50 R
4081 4242 0.107654 CCGGAAACCCTTCTAGCAGG 60.108 60.0 0.0 0.7 0.0 4.85 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
31 32 3.320541 CCACCCAGAGCACATAAAACAAA 59.679 43.478 0.00 0.00 0.00 2.83
114 116 0.673022 CTCCAAGCACAGCTCCAGAC 60.673 60.000 0.00 0.00 38.25 3.51
233 247 0.912486 ACAGGATGGCTTGGGAGTAC 59.088 55.000 0.00 0.00 43.62 2.73
234 248 1.207791 CAGGATGGCTTGGGAGTACT 58.792 55.000 0.00 0.00 0.00 2.73
235 249 1.134280 CAGGATGGCTTGGGAGTACTG 60.134 57.143 0.00 0.00 0.00 2.74
236 250 0.912486 GGATGGCTTGGGAGTACTGT 59.088 55.000 0.00 0.00 0.00 3.55
237 251 2.116238 GGATGGCTTGGGAGTACTGTA 58.884 52.381 0.00 0.00 0.00 2.74
298 338 0.391263 GCAGTGGCACTGGTAGTACC 60.391 60.000 39.74 22.60 46.01 3.34
342 451 2.390306 TAGCTCCACGTTTGCCTGCA 62.390 55.000 0.00 0.00 0.00 4.41
417 527 0.114560 AGAGAGGACCCCGAACTGAA 59.885 55.000 0.00 0.00 0.00 3.02
644 766 1.880941 GGGGAAGAGTATCCACCAGT 58.119 55.000 0.00 0.00 41.55 4.00
645 767 2.197465 GGGGAAGAGTATCCACCAGTT 58.803 52.381 0.00 0.00 41.55 3.16
659 783 2.358898 CACCAGTTTTCCTTCTGTGGTG 59.641 50.000 4.99 4.99 46.54 4.17
678 802 3.706086 GGTGGTATTGGCATTGGATTCTT 59.294 43.478 0.00 0.00 0.00 2.52
688 812 4.648307 GGCATTGGATTCTTCTTGAAGGAT 59.352 41.667 10.08 7.15 38.18 3.24
689 813 5.829924 GGCATTGGATTCTTCTTGAAGGATA 59.170 40.000 10.08 0.00 38.18 2.59
690 814 6.238869 GGCATTGGATTCTTCTTGAAGGATAC 60.239 42.308 6.88 6.88 38.18 2.24
714 838 8.164058 ACTACCTCGGTATATCAGTAAGTTTC 57.836 38.462 0.00 0.00 0.00 2.78
717 841 8.075761 ACCTCGGTATATCAGTAAGTTTCTTT 57.924 34.615 0.00 0.00 0.00 2.52
718 842 8.537858 ACCTCGGTATATCAGTAAGTTTCTTTT 58.462 33.333 0.00 0.00 0.00 2.27
719 843 9.032420 CCTCGGTATATCAGTAAGTTTCTTTTC 57.968 37.037 0.00 0.00 0.00 2.29
726 850 9.914131 ATATCAGTAAGTTTCTTTTCTTTTGCC 57.086 29.630 0.00 0.00 0.00 4.52
730 854 7.759433 CAGTAAGTTTCTTTTCTTTTGCCTGAA 59.241 33.333 0.00 0.00 0.00 3.02
809 933 4.883026 CAGATTGCTGCAGGTTGC 57.117 55.556 17.12 1.59 45.29 4.17
811 935 1.456296 CAGATTGCTGCAGGTTGCTA 58.544 50.000 17.12 0.00 45.31 3.49
819 943 1.802960 CTGCAGGTTGCTAGAACAGTG 59.197 52.381 5.57 0.00 45.31 3.66
875 1009 5.129320 ACCAAATGCTTTCTCTTTCTGGTTT 59.871 36.000 0.00 0.00 0.00 3.27
976 1112 0.463620 GCTTTCCAGCAAAACCACCA 59.536 50.000 0.00 0.00 46.49 4.17
1030 1166 2.607750 AGCAGAAGGAAGCCCCGA 60.608 61.111 0.00 0.00 40.87 5.14
1442 1593 1.425428 CGGCCAAGATTTCAGACGC 59.575 57.895 2.24 0.00 0.00 5.19
1692 1846 1.153881 GGCGAAGTACTCCGACACC 60.154 63.158 5.39 0.00 33.27 4.16
1830 1984 5.966935 TCAGAAGAAGAACCTCATCCCTATT 59.033 40.000 0.00 0.00 0.00 1.73
1915 2069 2.529632 GGAAGGAAGCATTTGAAGGGT 58.470 47.619 0.00 0.00 0.00 4.34
1917 2071 4.086457 GGAAGGAAGCATTTGAAGGGTTA 58.914 43.478 0.00 0.00 29.93 2.85
2103 2257 1.406751 GGAAGGGAGAAAGAGCTGAGC 60.407 57.143 0.00 0.00 0.00 4.26
2289 2446 1.737735 GCGCAAATGCAAGGAACCC 60.738 57.895 0.30 0.00 42.21 4.11
2328 2485 0.904649 ATCCGGTGATTGAGCTGTCA 59.095 50.000 0.00 0.00 0.00 3.58
2373 2530 3.007723 AGAAGCAGAGATCAAAGCACAGA 59.992 43.478 0.00 0.00 0.00 3.41
2442 2599 0.179065 TCTGCATCAATGGCTCCTCG 60.179 55.000 0.00 0.00 0.00 4.63
2445 2602 1.528824 CATCAATGGCTCCTCGGGT 59.471 57.895 0.00 0.00 0.00 5.28
2448 2605 1.048601 TCAATGGCTCCTCGGGTATC 58.951 55.000 0.00 0.00 0.00 2.24
2457 2614 1.392710 CCTCGGGTATCGGCAAGACT 61.393 60.000 0.00 0.00 39.77 3.24
2460 2617 0.174845 CGGGTATCGGCAAGACTGAA 59.825 55.000 0.00 0.00 37.17 3.02
2487 2644 3.706600 TTGGAGTTTGCTTACCGGTAT 57.293 42.857 16.67 0.00 0.00 2.73
2610 2767 1.306568 GGCTGAGAAGGAGAGGGGT 60.307 63.158 0.00 0.00 0.00 4.95
2859 3016 2.402305 CAGCTCTCTTACATCGATGCC 58.598 52.381 25.11 3.97 0.00 4.40
2970 3127 1.557443 GCTTTGGTCTGTCGGTCGTG 61.557 60.000 0.00 0.00 0.00 4.35
2976 3133 2.048503 CTGTCGGTCGTGGGTTCC 60.049 66.667 0.00 0.00 0.00 3.62
3141 3298 0.388520 GTTTTGCCTTGATGGACCGC 60.389 55.000 0.00 0.00 38.35 5.68
3162 3319 1.512926 CAAAAGGAGGACACCTGACG 58.487 55.000 0.00 0.00 40.49 4.35
3432 3592 0.834261 TCCAGTTCCACCCGATCACA 60.834 55.000 0.00 0.00 0.00 3.58
3492 3652 2.435234 GCGGCCGTGAATGGTGTA 60.435 61.111 28.70 0.00 0.00 2.90
3504 3664 1.994885 ATGGTGTAATGAGGGCCGGG 61.995 60.000 2.18 0.00 0.00 5.73
3669 3829 1.733041 CATGACGTTCTCGCGGTGT 60.733 57.895 6.13 0.00 41.18 4.16
3900 4060 3.998672 GGGCTGTTCGACACCGGA 61.999 66.667 9.46 0.00 36.24 5.14
4022 4182 4.585162 CAGGTACAGGAGTAAGGTATGAGG 59.415 50.000 0.00 0.00 30.67 3.86
4026 4186 4.884961 ACAGGAGTAAGGTATGAGGTGAT 58.115 43.478 0.00 0.00 0.00 3.06
4039 4200 4.235079 TGAGGTGATATCCAAAACCCTG 57.765 45.455 6.38 0.00 32.85 4.45
4041 4202 2.926329 AGGTGATATCCAAAACCCTGGT 59.074 45.455 6.38 0.00 37.74 4.00
4048 4209 1.662044 CAAAACCCTGGTGAGCTGC 59.338 57.895 0.00 0.00 0.00 5.25
4052 4213 2.121992 AACCCTGGTGAGCTGCTCTG 62.122 60.000 28.04 15.72 0.00 3.35
4053 4214 2.288778 CCCTGGTGAGCTGCTCTGA 61.289 63.158 28.04 8.38 0.00 3.27
4055 4216 0.462225 CCTGGTGAGCTGCTCTGATG 60.462 60.000 28.04 16.03 0.00 3.07
4064 4225 1.673337 TGCTCTGATGTGCAGGTGC 60.673 57.895 0.00 0.00 44.98 5.01
4074 4235 2.914097 GCAGGTGCAGCCCTTTGT 60.914 61.111 13.29 0.00 41.59 2.83
4075 4236 2.501602 GCAGGTGCAGCCCTTTGTT 61.502 57.895 13.29 0.00 41.59 2.83
4076 4237 1.364901 CAGGTGCAGCCCTTTGTTG 59.635 57.895 13.29 0.00 38.26 3.33
4082 4243 2.919328 AGCCCTTTGTTGCTGCCC 60.919 61.111 0.00 0.00 36.23 5.36
4083 4244 2.919328 GCCCTTTGTTGCTGCCCT 60.919 61.111 0.00 0.00 0.00 5.19
4084 4245 3.053828 CCCTTTGTTGCTGCCCTG 58.946 61.111 0.00 0.00 0.00 4.45
4085 4246 2.341176 CCTTTGTTGCTGCCCTGC 59.659 61.111 0.00 0.00 0.00 4.85
4099 4260 3.460648 CCTGCTAGAAGGGTTTCCG 57.539 57.895 9.25 0.00 38.33 4.30
4101 4262 0.902531 CTGCTAGAAGGGTTTCCGGA 59.097 55.000 0.00 0.00 38.33 5.14
4102 4263 0.902531 TGCTAGAAGGGTTTCCGGAG 59.097 55.000 3.34 0.00 38.33 4.63
4111 4272 3.356290 AGGGTTTCCGGAGATTTTCATG 58.644 45.455 3.34 0.00 38.33 3.07
4113 4274 3.119495 GGGTTTCCGGAGATTTTCATGTG 60.119 47.826 3.34 0.00 0.00 3.21
4116 4277 3.694043 TCCGGAGATTTTCATGTGTCA 57.306 42.857 0.00 0.00 0.00 3.58
4144 4317 1.761784 TGAATGCCAGCCACAGTTTTT 59.238 42.857 0.00 0.00 0.00 1.94
4172 4345 1.814394 TCTGTGCAATAGCCAAGCTTG 59.186 47.619 19.93 19.93 40.44 4.01
4212 4388 6.926826 TGTAACCTGAGTTGTTATGTACAGTG 59.073 38.462 0.33 0.00 38.19 3.66
4213 4389 4.315803 ACCTGAGTTGTTATGTACAGTGC 58.684 43.478 0.33 0.00 38.19 4.40
4214 4390 4.040461 ACCTGAGTTGTTATGTACAGTGCT 59.960 41.667 0.33 0.00 38.19 4.40
4226 4402 4.368315 TGTACAGTGCTACAGTTCAGTTG 58.632 43.478 0.00 0.00 0.00 3.16
4227 4403 2.838736 ACAGTGCTACAGTTCAGTTGG 58.161 47.619 0.00 0.00 0.00 3.77
4249 4425 6.389091 TGGCAGTTGCTATTTGAAATACTTG 58.611 36.000 3.88 0.00 41.70 3.16
4272 4518 9.569167 CTTGTGTTATCTTCTTATTACTGTCGA 57.431 33.333 0.00 0.00 0.00 4.20
4280 4526 5.916661 TCTTATTACTGTCGAGCTTTCCT 57.083 39.130 0.00 0.00 0.00 3.36
4292 4538 7.159372 TGTCGAGCTTTCCTAGATTAAACTTT 58.841 34.615 0.00 0.00 0.00 2.66
4294 4540 6.530534 TCGAGCTTTCCTAGATTAAACTTTCG 59.469 38.462 0.00 0.00 0.00 3.46
4315 4561 7.969387 TTCGCTTTAGATATGAAAAATGTGC 57.031 32.000 0.00 0.00 0.00 4.57
4329 4575 8.225603 TGAAAAATGTGCTCTTCTTTTCTACT 57.774 30.769 15.15 0.00 37.07 2.57
4330 4576 8.345565 TGAAAAATGTGCTCTTCTTTTCTACTC 58.654 33.333 15.15 4.64 37.07 2.59
4331 4577 6.809630 AAATGTGCTCTTCTTTTCTACTCC 57.190 37.500 0.00 0.00 0.00 3.85
4332 4578 4.273148 TGTGCTCTTCTTTTCTACTCCC 57.727 45.455 0.00 0.00 0.00 4.30
4333 4579 3.904339 TGTGCTCTTCTTTTCTACTCCCT 59.096 43.478 0.00 0.00 0.00 4.20
4334 4580 4.021016 TGTGCTCTTCTTTTCTACTCCCTC 60.021 45.833 0.00 0.00 0.00 4.30
4335 4581 3.515901 TGCTCTTCTTTTCTACTCCCTCC 59.484 47.826 0.00 0.00 0.00 4.30
4336 4582 3.429684 GCTCTTCTTTTCTACTCCCTCCG 60.430 52.174 0.00 0.00 0.00 4.63
4337 4583 3.764972 CTCTTCTTTTCTACTCCCTCCGT 59.235 47.826 0.00 0.00 0.00 4.69
4338 4584 3.762823 TCTTCTTTTCTACTCCCTCCGTC 59.237 47.826 0.00 0.00 0.00 4.79
4339 4585 2.454538 TCTTTTCTACTCCCTCCGTCC 58.545 52.381 0.00 0.00 0.00 4.79
4340 4586 1.481363 CTTTTCTACTCCCTCCGTCCC 59.519 57.143 0.00 0.00 0.00 4.46
4341 4587 0.410663 TTTCTACTCCCTCCGTCCCA 59.589 55.000 0.00 0.00 0.00 4.37
4342 4588 0.635009 TTCTACTCCCTCCGTCCCAT 59.365 55.000 0.00 0.00 0.00 4.00
4343 4589 1.526315 TCTACTCCCTCCGTCCCATA 58.474 55.000 0.00 0.00 0.00 2.74
4344 4590 1.854939 TCTACTCCCTCCGTCCCATAA 59.145 52.381 0.00 0.00 0.00 1.90
4345 4591 2.449730 TCTACTCCCTCCGTCCCATAAT 59.550 50.000 0.00 0.00 0.00 1.28
4346 4592 3.659195 TCTACTCCCTCCGTCCCATAATA 59.341 47.826 0.00 0.00 0.00 0.98
4347 4593 3.562108 ACTCCCTCCGTCCCATAATAT 57.438 47.619 0.00 0.00 0.00 1.28
4348 4594 4.687262 ACTCCCTCCGTCCCATAATATA 57.313 45.455 0.00 0.00 0.00 0.86
4349 4595 5.019657 ACTCCCTCCGTCCCATAATATAA 57.980 43.478 0.00 0.00 0.00 0.98
4350 4596 5.024118 ACTCCCTCCGTCCCATAATATAAG 58.976 45.833 0.00 0.00 0.00 1.73
4351 4597 5.222484 ACTCCCTCCGTCCCATAATATAAGA 60.222 44.000 0.00 0.00 0.00 2.10
4352 4598 5.269991 TCCCTCCGTCCCATAATATAAGAG 58.730 45.833 0.00 0.00 0.00 2.85
4353 4599 4.141914 CCCTCCGTCCCATAATATAAGAGC 60.142 50.000 0.00 0.00 0.00 4.09
4354 4600 4.440250 CCTCCGTCCCATAATATAAGAGCG 60.440 50.000 0.00 0.00 0.00 5.03
4355 4601 4.084287 TCCGTCCCATAATATAAGAGCGT 58.916 43.478 0.00 0.00 0.00 5.07
4356 4602 4.525487 TCCGTCCCATAATATAAGAGCGTT 59.475 41.667 0.00 0.00 0.00 4.84
4357 4603 5.011329 TCCGTCCCATAATATAAGAGCGTTT 59.989 40.000 0.00 0.00 0.00 3.60
4358 4604 5.699458 CCGTCCCATAATATAAGAGCGTTTT 59.301 40.000 0.00 0.00 0.00 2.43
4359 4605 6.204108 CCGTCCCATAATATAAGAGCGTTTTT 59.796 38.462 0.00 0.00 0.00 1.94
4360 4606 7.069569 CGTCCCATAATATAAGAGCGTTTTTG 58.930 38.462 0.00 0.00 0.00 2.44
4361 4607 7.042321 CGTCCCATAATATAAGAGCGTTTTTGA 60.042 37.037 0.00 0.00 0.00 2.69
4362 4608 8.068380 GTCCCATAATATAAGAGCGTTTTTGAC 58.932 37.037 0.00 0.00 0.00 3.18
4363 4609 7.771361 TCCCATAATATAAGAGCGTTTTTGACA 59.229 33.333 0.00 0.00 0.00 3.58
4364 4610 7.855904 CCCATAATATAAGAGCGTTTTTGACAC 59.144 37.037 0.00 0.00 0.00 3.67
4365 4611 8.612619 CCATAATATAAGAGCGTTTTTGACACT 58.387 33.333 0.00 0.00 0.00 3.55
4368 4614 8.773404 AATATAAGAGCGTTTTTGACACTAGT 57.227 30.769 0.00 0.00 0.00 2.57
4369 4615 4.795970 AAGAGCGTTTTTGACACTAGTG 57.204 40.909 21.44 21.44 0.00 2.74
4380 4626 1.991121 ACACTAGTGTCCTTGACGGA 58.009 50.000 22.95 0.00 40.24 4.69
4381 4627 2.313317 ACACTAGTGTCCTTGACGGAA 58.687 47.619 22.95 0.00 45.32 4.30
4382 4628 2.897969 ACACTAGTGTCCTTGACGGAAT 59.102 45.455 22.95 0.00 45.32 3.01
4383 4629 4.084287 ACACTAGTGTCCTTGACGGAATA 58.916 43.478 22.95 0.00 45.32 1.75
4384 4630 4.082354 ACACTAGTGTCCTTGACGGAATAC 60.082 45.833 22.95 0.00 45.32 1.89
4385 4631 4.158025 CACTAGTGTCCTTGACGGAATACT 59.842 45.833 15.06 2.56 45.32 2.12
4386 4632 3.870633 AGTGTCCTTGACGGAATACTC 57.129 47.619 0.00 0.00 45.32 2.59
4387 4633 3.162666 AGTGTCCTTGACGGAATACTCA 58.837 45.455 0.00 0.00 45.32 3.41
4388 4634 3.576982 AGTGTCCTTGACGGAATACTCAA 59.423 43.478 0.00 0.00 45.32 3.02
4389 4635 4.223032 AGTGTCCTTGACGGAATACTCAAT 59.777 41.667 0.00 0.00 45.32 2.57
4390 4636 4.567159 GTGTCCTTGACGGAATACTCAATC 59.433 45.833 0.00 0.00 45.32 2.67
4391 4637 4.120589 GTCCTTGACGGAATACTCAATCC 58.879 47.826 0.00 0.00 45.32 3.01
4392 4638 3.772572 TCCTTGACGGAATACTCAATCCA 59.227 43.478 0.00 0.00 39.40 3.41
4393 4639 4.408921 TCCTTGACGGAATACTCAATCCAT 59.591 41.667 0.00 0.00 39.40 3.41
4394 4640 5.600898 TCCTTGACGGAATACTCAATCCATA 59.399 40.000 0.00 0.00 39.40 2.74
4395 4641 5.928839 CCTTGACGGAATACTCAATCCATAG 59.071 44.000 0.00 0.00 35.34 2.23
4396 4642 6.463049 CCTTGACGGAATACTCAATCCATAGT 60.463 42.308 0.00 0.00 35.34 2.12
4397 4643 6.479972 TGACGGAATACTCAATCCATAGTT 57.520 37.500 0.00 0.00 35.34 2.24
4398 4644 7.591421 TGACGGAATACTCAATCCATAGTTA 57.409 36.000 0.00 0.00 35.34 2.24
4399 4645 7.658261 TGACGGAATACTCAATCCATAGTTAG 58.342 38.462 0.00 0.00 35.34 2.34
4400 4646 6.456501 ACGGAATACTCAATCCATAGTTAGC 58.543 40.000 0.00 0.00 35.34 3.09
4401 4647 6.267928 ACGGAATACTCAATCCATAGTTAGCT 59.732 38.462 0.00 0.00 35.34 3.32
4402 4648 7.155328 CGGAATACTCAATCCATAGTTAGCTT 58.845 38.462 0.00 0.00 35.34 3.74
4403 4649 7.116948 CGGAATACTCAATCCATAGTTAGCTTG 59.883 40.741 0.00 0.00 35.34 4.01
4404 4650 7.934120 GGAATACTCAATCCATAGTTAGCTTGT 59.066 37.037 0.00 0.00 35.71 3.16
4405 4651 9.331282 GAATACTCAATCCATAGTTAGCTTGTT 57.669 33.333 0.00 0.00 0.00 2.83
4414 4660 9.871238 ATCCATAGTTAGCTTGTTATTATACGG 57.129 33.333 0.00 0.00 0.00 4.02
4415 4661 9.081204 TCCATAGTTAGCTTGTTATTATACGGA 57.919 33.333 0.00 0.00 0.00 4.69
4416 4662 9.355215 CCATAGTTAGCTTGTTATTATACGGAG 57.645 37.037 0.00 0.00 0.00 4.63
4417 4663 8.861101 CATAGTTAGCTTGTTATTATACGGAGC 58.139 37.037 0.00 0.00 32.93 4.70
4418 4664 7.052142 AGTTAGCTTGTTATTATACGGAGCT 57.948 36.000 0.00 0.00 40.73 4.09
4419 4665 7.498443 AGTTAGCTTGTTATTATACGGAGCTT 58.502 34.615 0.00 0.00 39.40 3.74
4420 4666 7.438459 AGTTAGCTTGTTATTATACGGAGCTTG 59.562 37.037 0.00 0.00 39.40 4.01
4421 4667 5.914033 AGCTTGTTATTATACGGAGCTTGA 58.086 37.500 0.00 0.00 37.04 3.02
4422 4668 6.525629 AGCTTGTTATTATACGGAGCTTGAT 58.474 36.000 0.00 0.00 37.04 2.57
4423 4669 6.425114 AGCTTGTTATTATACGGAGCTTGATG 59.575 38.462 0.00 0.00 37.04 3.07
4424 4670 6.423905 GCTTGTTATTATACGGAGCTTGATGA 59.576 38.462 0.00 0.00 31.23 2.92
4425 4671 7.569591 GCTTGTTATTATACGGAGCTTGATGAC 60.570 40.741 0.00 0.00 31.23 3.06
4426 4672 7.050970 TGTTATTATACGGAGCTTGATGACT 57.949 36.000 0.00 0.00 0.00 3.41
4434 4680 3.937706 CGGAGCTTGATGACTTGAAGATT 59.062 43.478 0.00 0.00 0.00 2.40
4440 4686 8.627208 AGCTTGATGACTTGAAGATTTTAGAA 57.373 30.769 0.00 0.00 0.00 2.10
4441 4687 9.240734 AGCTTGATGACTTGAAGATTTTAGAAT 57.759 29.630 0.00 0.00 0.00 2.40
4472 4718 4.815533 TGTGCTCTCTTATGCTTTCTCT 57.184 40.909 0.00 0.00 0.00 3.10
4478 4724 5.294060 GCTCTCTTATGCTTTCTCTGAAAGG 59.706 44.000 18.05 5.08 0.00 3.11
4484 4730 2.880890 TGCTTTCTCTGAAAGGAACTGC 59.119 45.455 18.05 7.25 40.86 4.40
4485 4731 2.880890 GCTTTCTCTGAAAGGAACTGCA 59.119 45.455 18.05 0.00 40.86 4.41
4486 4732 3.304324 GCTTTCTCTGAAAGGAACTGCAC 60.304 47.826 18.05 0.22 40.86 4.57
4505 4754 2.093181 CACCCATGGTCCAATCTCGTTA 60.093 50.000 11.73 0.00 31.02 3.18
4517 6962 5.088739 CCAATCTCGTTAGTTTGCATGAAC 58.911 41.667 0.00 0.00 33.04 3.18
4557 7030 2.555325 CTGAGATGCAACTTTTGAGGCA 59.445 45.455 0.00 0.00 41.00 4.75
4612 7407 1.325943 GCAGCTTCGAGATCTTTTCCG 59.674 52.381 0.00 0.00 0.00 4.30
4619 7414 1.993370 CGAGATCTTTTCCGGTGTGAC 59.007 52.381 0.00 0.00 0.00 3.67
4620 7415 2.609491 CGAGATCTTTTCCGGTGTGACA 60.609 50.000 0.00 0.00 0.00 3.58
4644 7439 5.249780 TCTACCCAACAATTCCTTTGCTA 57.750 39.130 0.00 0.00 39.03 3.49
4672 7467 4.639135 AGTTGTTTGACTGAAGGAAAGC 57.361 40.909 0.00 0.00 0.00 3.51
4673 7468 4.016444 AGTTGTTTGACTGAAGGAAAGCA 58.984 39.130 0.00 0.00 0.00 3.91
4676 7471 3.378112 TGTTTGACTGAAGGAAAGCAGTG 59.622 43.478 0.00 0.00 44.77 3.66
4735 7530 0.375454 TTTGTTTGCGACAGTGACCG 59.625 50.000 0.00 0.82 39.94 4.79
4779 7574 2.826128 ACCGAAATCTCTAGTGCTCACA 59.174 45.455 2.63 0.00 0.00 3.58
4825 7620 4.271049 TCTTTTGAAGACGAAGAGCACTTG 59.729 41.667 0.00 0.00 32.50 3.16
4826 7621 2.890808 TGAAGACGAAGAGCACTTGT 57.109 45.000 0.00 0.00 36.39 3.16
4827 7622 4.316205 TTGAAGACGAAGAGCACTTGTA 57.684 40.909 0.00 0.00 36.39 2.41
4870 7665 5.394333 GGAGTACCTTCTTACAGCAGGTTAG 60.394 48.000 0.18 0.00 38.77 2.34
4897 7692 1.705337 AATTCAGACCATTCGGCGCG 61.705 55.000 0.00 0.00 34.57 6.86
4906 7701 1.447838 ATTCGGCGCGCTATATGGG 60.448 57.895 32.29 11.38 0.00 4.00
4914 7709 2.159707 GCGCGCTATATGGGTTATTGTG 60.160 50.000 26.67 0.00 0.00 3.33
4916 7711 3.408634 GCGCTATATGGGTTATTGTGGT 58.591 45.455 0.00 0.00 0.00 4.16
4919 7714 4.079253 GCTATATGGGTTATTGTGGTGGG 58.921 47.826 0.00 0.00 0.00 4.61
4930 7725 0.618458 TGTGGTGGGGAGCTGATTAC 59.382 55.000 0.00 0.00 0.00 1.89
4951 7746 3.253188 ACATATCCCATCGGCAAATTTCG 59.747 43.478 0.00 0.00 0.00 3.46
4956 7751 0.109365 CATCGGCAAATTTCGGTGCA 60.109 50.000 0.26 0.00 42.74 4.57
4957 7752 0.171007 ATCGGCAAATTTCGGTGCAG 59.829 50.000 2.50 0.00 42.74 4.41
4988 7783 7.745620 ACAGAAACTTGGAACATAAAGTAGG 57.254 36.000 0.00 0.00 39.30 3.18
5015 7810 8.919661 CCTTGAAAATAAACTTTGAGCTGATTC 58.080 33.333 0.00 0.00 0.00 2.52
5016 7811 9.688592 CTTGAAAATAAACTTTGAGCTGATTCT 57.311 29.630 0.00 0.00 0.00 2.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 2.158534 TGTTTTATGTGCTCTGGGTGGT 60.159 45.455 0.00 0.00 0.00 4.16
31 32 0.110104 GCATCTGCCTGCCTAATCCT 59.890 55.000 0.00 0.00 36.10 3.24
114 116 2.236690 CAAAGCAAAGCGTGATTCTCG 58.763 47.619 3.85 3.85 33.79 4.04
233 247 2.620251 TCCCATGGCGAGAAATACAG 57.380 50.000 6.09 0.00 0.00 2.74
234 248 3.358111 TTTCCCATGGCGAGAAATACA 57.642 42.857 6.09 0.00 0.00 2.29
235 249 3.004734 CCATTTCCCATGGCGAGAAATAC 59.995 47.826 20.47 0.00 37.97 1.89
236 250 3.221771 CCATTTCCCATGGCGAGAAATA 58.778 45.455 20.47 2.71 37.97 1.40
237 251 2.034124 CCATTTCCCATGGCGAGAAAT 58.966 47.619 17.11 17.11 40.05 2.17
298 338 0.382515 GTCTCCTAGTAGCAGCACCG 59.617 60.000 0.00 0.00 0.00 4.94
342 451 3.405823 CCAAATGTGGCATCAAAAGGT 57.594 42.857 0.00 0.00 38.35 3.50
417 527 1.142870 TGGTGCCAAGAAAGTACAGCT 59.857 47.619 0.00 0.00 0.00 4.24
570 692 2.634453 AGCTTCAAGGACCAAAAATGGG 59.366 45.455 0.00 0.00 0.00 4.00
633 755 4.455877 CACAGAAGGAAAACTGGTGGATAC 59.544 45.833 0.00 0.00 38.30 2.24
634 756 4.506625 CCACAGAAGGAAAACTGGTGGATA 60.507 45.833 0.00 0.00 37.42 2.59
636 758 2.422803 CCACAGAAGGAAAACTGGTGGA 60.423 50.000 0.00 0.00 37.42 4.02
637 759 1.956477 CCACAGAAGGAAAACTGGTGG 59.044 52.381 0.00 0.00 38.30 4.61
638 760 2.358898 CACCACAGAAGGAAAACTGGTG 59.641 50.000 0.00 0.00 38.30 4.17
639 761 2.654863 CACCACAGAAGGAAAACTGGT 58.345 47.619 0.00 0.00 38.30 4.00
641 763 2.654863 ACCACCACAGAAGGAAAACTG 58.345 47.619 0.00 0.00 39.65 3.16
642 764 4.724279 ATACCACCACAGAAGGAAAACT 57.276 40.909 0.00 0.00 0.00 2.66
643 765 4.022329 CCAATACCACCACAGAAGGAAAAC 60.022 45.833 0.00 0.00 0.00 2.43
644 766 4.148838 CCAATACCACCACAGAAGGAAAA 58.851 43.478 0.00 0.00 0.00 2.29
645 767 3.761897 CCAATACCACCACAGAAGGAAA 58.238 45.455 0.00 0.00 0.00 3.13
659 783 5.360714 TCAAGAAGAATCCAATGCCAATACC 59.639 40.000 0.00 0.00 0.00 2.73
678 802 4.246712 ACCGAGGTAGTATCCTTCAAGA 57.753 45.455 0.00 0.00 38.02 3.02
688 812 9.277783 GAAACTTACTGATATACCGAGGTAGTA 57.722 37.037 8.09 3.35 33.77 1.82
689 813 7.997803 AGAAACTTACTGATATACCGAGGTAGT 59.002 37.037 8.09 4.28 33.77 2.73
690 814 8.393671 AGAAACTTACTGATATACCGAGGTAG 57.606 38.462 8.09 0.00 33.77 3.18
714 838 4.050852 AGCAGTTCAGGCAAAAGAAAAG 57.949 40.909 0.00 0.00 0.00 2.27
717 841 3.290710 AGAAGCAGTTCAGGCAAAAGAA 58.709 40.909 0.00 0.00 34.82 2.52
718 842 2.936202 AGAAGCAGTTCAGGCAAAAGA 58.064 42.857 0.00 0.00 34.82 2.52
719 843 3.067180 TGAAGAAGCAGTTCAGGCAAAAG 59.933 43.478 0.00 0.00 34.82 2.27
849 980 4.470462 CAGAAAGAGAAAGCATTTGGTCG 58.530 43.478 0.00 0.00 39.27 4.79
976 1112 4.501400 GGCTACCAAATCACAACAAAGCTT 60.501 41.667 0.00 0.00 0.00 3.74
1012 1148 2.437359 CGGGGCTTCCTTCTGCTG 60.437 66.667 0.00 0.00 0.00 4.41
1479 1630 1.371389 GAACGAGAAGGACACGCGT 60.371 57.895 5.58 5.58 44.34 6.01
1692 1846 2.606725 GTCAGCAATCTCGTGAATCTGG 59.393 50.000 11.41 0.00 0.00 3.86
1830 1984 2.649034 GGCTCGGTGTCGAACAGA 59.351 61.111 0.00 0.00 45.47 3.41
1915 2069 1.742831 GAACTCATGGCACCGCATTAA 59.257 47.619 0.00 0.00 0.00 1.40
1917 2071 0.608856 TGAACTCATGGCACCGCATT 60.609 50.000 0.00 0.00 0.00 3.56
2058 2212 0.250814 AATGCCGGTTACGTGGGAAA 60.251 50.000 1.90 0.00 38.78 3.13
2103 2257 3.921021 CGAAGAATATCCCCTCGATTTCG 59.079 47.826 0.00 0.00 33.53 3.46
2157 2311 1.073284 GTAGTGGAACCCCTTGAGCAA 59.927 52.381 0.00 0.00 37.80 3.91
2286 2443 2.765969 CAGGCCTCCAATGTGGGT 59.234 61.111 0.00 0.00 38.32 4.51
2289 2446 1.108776 CAATCCAGGCCTCCAATGTG 58.891 55.000 0.00 0.00 0.00 3.21
2319 2476 0.250234 CTTTCCCCGATGACAGCTCA 59.750 55.000 0.00 0.00 0.00 4.26
2328 2485 3.117552 AGACTTCTACCTTTCCCCGAT 57.882 47.619 0.00 0.00 0.00 4.18
2373 2530 0.550914 TGCACCTGAACCTTGACCTT 59.449 50.000 0.00 0.00 0.00 3.50
2442 2599 1.207329 AGTTCAGTCTTGCCGATACCC 59.793 52.381 0.00 0.00 0.00 3.69
2445 2602 1.405526 GCCAGTTCAGTCTTGCCGATA 60.406 52.381 0.00 0.00 0.00 2.92
2448 2605 0.957395 ATGCCAGTTCAGTCTTGCCG 60.957 55.000 0.00 0.00 0.00 5.69
2457 2614 1.340889 GCAAACTCCAATGCCAGTTCA 59.659 47.619 0.00 0.00 36.56 3.18
2460 2617 1.708341 AAGCAAACTCCAATGCCAGT 58.292 45.000 0.00 0.00 43.57 4.00
2487 2644 1.346395 ACCATCTTGTACCGCTGTGAA 59.654 47.619 0.00 0.00 0.00 3.18
2610 2767 3.303938 CTCCTCAAAGCTCCTGATCCTA 58.696 50.000 0.00 0.00 0.00 2.94
2847 3004 4.959723 TCAAGATCATGGCATCGATGTAA 58.040 39.130 25.47 14.88 0.00 2.41
2859 3016 5.374921 AGCTTACCCTTCATCAAGATCATG 58.625 41.667 0.00 0.00 0.00 3.07
2916 3073 0.729690 GCTCGTCCAATTTCCTGAGC 59.270 55.000 4.36 4.36 41.57 4.26
2996 3153 0.035458 AAACAGAGTGGAAGGAGCGG 59.965 55.000 0.00 0.00 0.00 5.52
3111 3268 1.986882 AGGCAAAACAGAAGACCAGG 58.013 50.000 0.00 0.00 0.00 4.45
3141 3298 0.250295 TCAGGTGTCCTCCTTTTGCG 60.250 55.000 0.00 0.00 35.37 4.85
3144 3301 1.070289 GACGTCAGGTGTCCTCCTTTT 59.930 52.381 11.55 0.00 35.37 2.27
3162 3319 1.070577 CCGGCGATGATCATTTTCGAC 60.071 52.381 18.79 15.56 37.54 4.20
3432 3592 2.434428 CTGATCTTGCCAAAGAGCTGT 58.566 47.619 0.00 0.00 46.76 4.40
3492 3652 3.739613 GGGTTCCCGGCCCTCATT 61.740 66.667 8.32 0.00 42.81 2.57
3504 3664 2.280823 CTGAGTACGCCGAGGGGTTC 62.281 65.000 16.92 11.97 41.53 3.62
3639 3799 0.179100 ACGTCATGAAGGCCTCGATG 60.179 55.000 15.42 15.24 0.00 3.84
3882 4042 4.308458 CCGGTGTCGAACAGCCCA 62.308 66.667 0.00 0.00 43.18 5.36
3900 4060 3.386237 GTCCGGCACAGCTCCTCT 61.386 66.667 0.00 0.00 0.00 3.69
4022 4182 3.947834 CTCACCAGGGTTTTGGATATCAC 59.052 47.826 4.83 0.00 40.87 3.06
4026 4186 1.992557 AGCTCACCAGGGTTTTGGATA 59.007 47.619 0.00 0.00 40.87 2.59
4039 4200 1.367599 GCACATCAGAGCAGCTCACC 61.368 60.000 24.64 0.00 32.06 4.02
4041 4202 1.675219 TGCACATCAGAGCAGCTCA 59.325 52.632 24.64 4.93 36.40 4.26
4061 4222 3.132084 AGCAACAAAGGGCTGCAC 58.868 55.556 0.50 0.00 39.30 4.57
4065 4226 2.919328 GGGCAGCAACAAAGGGCT 60.919 61.111 0.00 0.00 42.06 5.19
4066 4227 2.919328 AGGGCAGCAACAAAGGGC 60.919 61.111 0.00 0.00 0.00 5.19
4067 4228 3.053828 CAGGGCAGCAACAAAGGG 58.946 61.111 0.00 0.00 0.00 3.95
4068 4229 0.895100 TAGCAGGGCAGCAACAAAGG 60.895 55.000 0.00 0.00 36.85 3.11
4069 4230 0.524862 CTAGCAGGGCAGCAACAAAG 59.475 55.000 0.00 0.00 36.85 2.77
4070 4231 0.110295 TCTAGCAGGGCAGCAACAAA 59.890 50.000 0.00 0.00 36.85 2.83
4071 4232 0.110295 TTCTAGCAGGGCAGCAACAA 59.890 50.000 0.00 0.00 36.85 2.83
4072 4233 0.321919 CTTCTAGCAGGGCAGCAACA 60.322 55.000 0.00 0.00 36.85 3.33
4073 4234 1.028868 CCTTCTAGCAGGGCAGCAAC 61.029 60.000 0.00 0.00 36.85 4.17
4074 4235 1.300963 CCTTCTAGCAGGGCAGCAA 59.699 57.895 0.00 0.00 36.85 3.91
4075 4236 2.993008 CCTTCTAGCAGGGCAGCA 59.007 61.111 0.00 0.00 36.85 4.41
4081 4242 0.107654 CCGGAAACCCTTCTAGCAGG 60.108 60.000 0.00 0.70 0.00 4.85
4082 4243 0.902531 TCCGGAAACCCTTCTAGCAG 59.097 55.000 0.00 0.00 0.00 4.24
4083 4244 0.902531 CTCCGGAAACCCTTCTAGCA 59.097 55.000 5.23 0.00 0.00 3.49
4084 4245 1.192428 TCTCCGGAAACCCTTCTAGC 58.808 55.000 5.23 0.00 0.00 3.42
4085 4246 4.489306 AAATCTCCGGAAACCCTTCTAG 57.511 45.455 5.23 0.00 0.00 2.43
4099 4260 3.074412 ACCGTGACACATGAAAATCTCC 58.926 45.455 6.37 0.00 0.00 3.71
4101 4262 4.821805 AGAAACCGTGACACATGAAAATCT 59.178 37.500 6.37 0.00 0.00 2.40
4102 4263 4.911610 CAGAAACCGTGACACATGAAAATC 59.088 41.667 6.37 0.00 0.00 2.17
4111 4272 1.069227 GGCATTCAGAAACCGTGACAC 60.069 52.381 0.00 0.00 0.00 3.67
4113 4274 1.197721 CTGGCATTCAGAAACCGTGAC 59.802 52.381 0.00 0.00 46.18 3.67
4116 4277 1.244019 GGCTGGCATTCAGAAACCGT 61.244 55.000 0.00 0.00 46.18 4.83
4144 4317 3.273434 GGCTATTGCACAGATCACTGAA 58.727 45.455 0.66 0.00 42.81 3.02
4172 4345 1.396996 GTTACACGTGGCATCATCACC 59.603 52.381 21.57 0.00 0.00 4.02
4173 4346 1.396996 GGTTACACGTGGCATCATCAC 59.603 52.381 21.57 4.08 0.00 3.06
4174 4347 1.277842 AGGTTACACGTGGCATCATCA 59.722 47.619 21.57 0.00 0.00 3.07
4175 4348 1.665679 CAGGTTACACGTGGCATCATC 59.334 52.381 21.57 2.64 30.93 2.92
4212 4388 1.884235 ACTGCCAACTGAACTGTAGC 58.116 50.000 0.00 0.00 0.00 3.58
4213 4389 2.031682 GCAACTGCCAACTGAACTGTAG 60.032 50.000 0.00 0.00 34.31 2.74
4214 4390 1.946768 GCAACTGCCAACTGAACTGTA 59.053 47.619 0.00 0.00 34.31 2.74
4226 4402 6.308766 CACAAGTATTTCAAATAGCAACTGCC 59.691 38.462 0.00 0.00 43.38 4.85
4227 4403 6.863126 ACACAAGTATTTCAAATAGCAACTGC 59.137 34.615 0.00 0.00 42.49 4.40
4249 4425 7.916450 AGCTCGACAGTAATAAGAAGATAACAC 59.084 37.037 0.00 0.00 0.00 3.32
4256 4432 6.334202 AGGAAAGCTCGACAGTAATAAGAAG 58.666 40.000 0.00 0.00 0.00 2.85
4257 4433 6.282199 AGGAAAGCTCGACAGTAATAAGAA 57.718 37.500 0.00 0.00 0.00 2.52
4262 4438 6.472686 AATCTAGGAAAGCTCGACAGTAAT 57.527 37.500 0.00 0.00 0.00 1.89
4268 4514 7.462988 CGAAAGTTTAATCTAGGAAAGCTCGAC 60.463 40.741 0.00 0.00 0.00 4.20
4272 4518 6.174049 AGCGAAAGTTTAATCTAGGAAAGCT 58.826 36.000 0.00 0.00 0.00 3.74
4292 4538 7.280876 AGAGCACATTTTTCATATCTAAAGCGA 59.719 33.333 0.00 0.00 0.00 4.93
4294 4540 9.230932 GAAGAGCACATTTTTCATATCTAAAGC 57.769 33.333 0.00 0.00 0.00 3.51
4309 4555 5.013599 AGGGAGTAGAAAAGAAGAGCACATT 59.986 40.000 0.00 0.00 0.00 2.71
4315 4561 3.764972 ACGGAGGGAGTAGAAAAGAAGAG 59.235 47.826 0.00 0.00 0.00 2.85
4327 4573 3.562108 ATATTATGGGACGGAGGGAGT 57.438 47.619 0.00 0.00 0.00 3.85
4328 4574 5.269991 TCTTATATTATGGGACGGAGGGAG 58.730 45.833 0.00 0.00 0.00 4.30
4329 4575 5.269991 CTCTTATATTATGGGACGGAGGGA 58.730 45.833 0.00 0.00 0.00 4.20
4330 4576 4.141914 GCTCTTATATTATGGGACGGAGGG 60.142 50.000 0.00 0.00 0.00 4.30
4331 4577 4.440250 CGCTCTTATATTATGGGACGGAGG 60.440 50.000 0.00 0.00 0.00 4.30
4332 4578 4.158025 ACGCTCTTATATTATGGGACGGAG 59.842 45.833 0.00 0.00 0.00 4.63
4333 4579 4.084287 ACGCTCTTATATTATGGGACGGA 58.916 43.478 0.00 0.00 0.00 4.69
4334 4580 4.451629 ACGCTCTTATATTATGGGACGG 57.548 45.455 0.00 0.00 0.00 4.79
4335 4581 6.780706 AAAACGCTCTTATATTATGGGACG 57.219 37.500 0.00 0.00 0.00 4.79
4336 4582 8.068380 GTCAAAAACGCTCTTATATTATGGGAC 58.932 37.037 0.00 0.00 0.00 4.46
4337 4583 7.771361 TGTCAAAAACGCTCTTATATTATGGGA 59.229 33.333 0.00 0.00 0.00 4.37
4338 4584 7.855904 GTGTCAAAAACGCTCTTATATTATGGG 59.144 37.037 0.00 0.00 35.42 4.00
4339 4585 8.612619 AGTGTCAAAAACGCTCTTATATTATGG 58.387 33.333 0.00 0.00 45.69 2.74
4342 4588 9.865321 ACTAGTGTCAAAAACGCTCTTATATTA 57.135 29.630 0.00 0.00 45.69 0.98
4343 4589 8.656849 CACTAGTGTCAAAAACGCTCTTATATT 58.343 33.333 15.06 0.00 45.69 1.28
4344 4590 7.817962 ACACTAGTGTCAAAAACGCTCTTATAT 59.182 33.333 22.95 0.00 45.69 0.86
4345 4591 7.149973 ACACTAGTGTCAAAAACGCTCTTATA 58.850 34.615 22.95 0.00 45.69 0.98
4346 4592 5.989777 ACACTAGTGTCAAAAACGCTCTTAT 59.010 36.000 22.95 0.00 45.69 1.73
4347 4593 5.353938 ACACTAGTGTCAAAAACGCTCTTA 58.646 37.500 22.95 0.00 45.69 2.10
4348 4594 4.189231 ACACTAGTGTCAAAAACGCTCTT 58.811 39.130 22.95 0.00 45.69 2.85
4349 4595 3.793559 ACACTAGTGTCAAAAACGCTCT 58.206 40.909 22.95 0.00 45.69 4.09
4361 4607 1.991121 TCCGTCAAGGACACTAGTGT 58.009 50.000 28.27 28.27 45.98 3.55
4371 4617 4.137116 TGGATTGAGTATTCCGTCAAGG 57.863 45.455 0.00 0.00 36.16 3.61
4372 4618 6.516718 ACTATGGATTGAGTATTCCGTCAAG 58.483 40.000 0.00 0.00 36.16 3.02
4373 4619 6.479972 ACTATGGATTGAGTATTCCGTCAA 57.520 37.500 0.00 0.00 37.10 3.18
4374 4620 6.479972 AACTATGGATTGAGTATTCCGTCA 57.520 37.500 0.00 0.00 34.58 4.35
4375 4621 6.586844 GCTAACTATGGATTGAGTATTCCGTC 59.413 42.308 0.00 0.00 34.58 4.79
4376 4622 6.267928 AGCTAACTATGGATTGAGTATTCCGT 59.732 38.462 0.00 0.00 34.58 4.69
4377 4623 6.692486 AGCTAACTATGGATTGAGTATTCCG 58.308 40.000 0.00 0.00 34.58 4.30
4378 4624 7.934120 ACAAGCTAACTATGGATTGAGTATTCC 59.066 37.037 0.00 0.00 35.67 3.01
4379 4625 8.894768 ACAAGCTAACTATGGATTGAGTATTC 57.105 34.615 0.00 0.00 35.67 1.75
4388 4634 9.871238 CCGTATAATAACAAGCTAACTATGGAT 57.129 33.333 0.00 0.00 0.00 3.41
4389 4635 9.081204 TCCGTATAATAACAAGCTAACTATGGA 57.919 33.333 0.00 0.00 0.00 3.41
4390 4636 9.355215 CTCCGTATAATAACAAGCTAACTATGG 57.645 37.037 0.00 0.00 0.00 2.74
4391 4637 8.861101 GCTCCGTATAATAACAAGCTAACTATG 58.139 37.037 0.00 0.00 0.00 2.23
4392 4638 8.804204 AGCTCCGTATAATAACAAGCTAACTAT 58.196 33.333 0.00 0.00 36.75 2.12
4393 4639 8.174733 AGCTCCGTATAATAACAAGCTAACTA 57.825 34.615 0.00 0.00 36.75 2.24
4394 4640 7.052142 AGCTCCGTATAATAACAAGCTAACT 57.948 36.000 0.00 0.00 36.75 2.24
4395 4641 7.437267 TCAAGCTCCGTATAATAACAAGCTAAC 59.563 37.037 0.00 0.00 37.23 2.34
4396 4642 7.494211 TCAAGCTCCGTATAATAACAAGCTAA 58.506 34.615 0.00 0.00 37.23 3.09
4397 4643 7.046292 TCAAGCTCCGTATAATAACAAGCTA 57.954 36.000 0.00 0.00 37.23 3.32
4398 4644 5.914033 TCAAGCTCCGTATAATAACAAGCT 58.086 37.500 0.00 0.00 38.88 3.74
4399 4645 6.423905 TCATCAAGCTCCGTATAATAACAAGC 59.576 38.462 0.00 0.00 0.00 4.01
4400 4646 7.653713 AGTCATCAAGCTCCGTATAATAACAAG 59.346 37.037 0.00 0.00 0.00 3.16
4401 4647 7.497595 AGTCATCAAGCTCCGTATAATAACAA 58.502 34.615 0.00 0.00 0.00 2.83
4402 4648 7.050970 AGTCATCAAGCTCCGTATAATAACA 57.949 36.000 0.00 0.00 0.00 2.41
4403 4649 7.652105 TCAAGTCATCAAGCTCCGTATAATAAC 59.348 37.037 0.00 0.00 0.00 1.89
4404 4650 7.722363 TCAAGTCATCAAGCTCCGTATAATAA 58.278 34.615 0.00 0.00 0.00 1.40
4405 4651 7.284919 TCAAGTCATCAAGCTCCGTATAATA 57.715 36.000 0.00 0.00 0.00 0.98
4406 4652 6.161855 TCAAGTCATCAAGCTCCGTATAAT 57.838 37.500 0.00 0.00 0.00 1.28
4407 4653 5.592104 TCAAGTCATCAAGCTCCGTATAA 57.408 39.130 0.00 0.00 0.00 0.98
4408 4654 5.359860 TCTTCAAGTCATCAAGCTCCGTATA 59.640 40.000 0.00 0.00 0.00 1.47
4409 4655 4.160439 TCTTCAAGTCATCAAGCTCCGTAT 59.840 41.667 0.00 0.00 0.00 3.06
4410 4656 3.509967 TCTTCAAGTCATCAAGCTCCGTA 59.490 43.478 0.00 0.00 0.00 4.02
4411 4657 2.300152 TCTTCAAGTCATCAAGCTCCGT 59.700 45.455 0.00 0.00 0.00 4.69
4412 4658 2.964740 TCTTCAAGTCATCAAGCTCCG 58.035 47.619 0.00 0.00 0.00 4.63
4413 4659 5.893897 AAATCTTCAAGTCATCAAGCTCC 57.106 39.130 0.00 0.00 0.00 4.70
4414 4660 8.261492 TCTAAAATCTTCAAGTCATCAAGCTC 57.739 34.615 0.00 0.00 0.00 4.09
4415 4661 8.627208 TTCTAAAATCTTCAAGTCATCAAGCT 57.373 30.769 0.00 0.00 0.00 3.74
4440 4686 8.910944 AGCATAAGAGAGCACATTTTCAATTAT 58.089 29.630 0.00 0.00 0.00 1.28
4441 4687 8.284945 AGCATAAGAGAGCACATTTTCAATTA 57.715 30.769 0.00 0.00 0.00 1.40
4450 4696 5.105023 TCAGAGAAAGCATAAGAGAGCACAT 60.105 40.000 0.00 0.00 0.00 3.21
4453 4699 5.411831 TTCAGAGAAAGCATAAGAGAGCA 57.588 39.130 0.00 0.00 0.00 4.26
4472 4718 1.619654 CATGGGTGCAGTTCCTTTCA 58.380 50.000 0.00 0.00 0.00 2.69
4478 4724 4.002797 GGACCATGGGTGCAGTTC 57.997 61.111 18.09 1.85 43.66 3.01
4484 4730 0.253044 ACGAGATTGGACCATGGGTG 59.747 55.000 18.09 0.00 35.25 4.61
4485 4731 0.991920 AACGAGATTGGACCATGGGT 59.008 50.000 18.09 0.99 39.44 4.51
4486 4732 2.170607 ACTAACGAGATTGGACCATGGG 59.829 50.000 18.09 0.00 0.00 4.00
4505 4754 6.000219 AGAGTGTTCATAGTTCATGCAAACT 59.000 36.000 8.74 8.74 42.10 2.66
4517 6962 2.926200 CAGCCGACAAGAGTGTTCATAG 59.074 50.000 0.00 0.00 38.41 2.23
4557 7030 7.372714 GTTACCATTTTTACCCGACAAATCTT 58.627 34.615 0.00 0.00 0.00 2.40
4612 7407 3.134574 TGTTGGGTAGAATGTCACACC 57.865 47.619 0.00 0.00 0.00 4.16
4619 7414 5.047092 AGCAAAGGAATTGTTGGGTAGAATG 60.047 40.000 0.00 0.00 41.32 2.67
4620 7415 5.086621 AGCAAAGGAATTGTTGGGTAGAAT 58.913 37.500 0.00 0.00 41.32 2.40
4644 7439 5.827797 TCCTTCAGTCAAACAACTGCTTTAT 59.172 36.000 0.00 0.00 45.12 1.40
4666 7461 1.068055 CAACAGATGCCACTGCTTTCC 60.068 52.381 7.07 0.00 41.06 3.13
4667 7462 2.342910 CAACAGATGCCACTGCTTTC 57.657 50.000 7.07 0.00 41.06 2.62
4689 7484 4.022849 CACTCAACTTTAAGCAAAGGGGAG 60.023 45.833 13.46 13.46 44.63 4.30
4692 7487 3.068024 TGCACTCAACTTTAAGCAAAGGG 59.932 43.478 2.03 0.00 44.63 3.95
4693 7488 4.305989 TGCACTCAACTTTAAGCAAAGG 57.694 40.909 2.03 0.00 44.63 3.11
4735 7530 2.073816 CGAATCCATATAACCGTGGGC 58.926 52.381 0.00 0.00 36.15 5.36
4779 7574 0.471617 AACAGCAGAGCTTGACCTGT 59.528 50.000 2.48 3.80 36.40 4.00
4782 7577 0.319900 TCGAACAGCAGAGCTTGACC 60.320 55.000 0.00 0.00 36.40 4.02
4825 7620 6.943718 ACTCCCTACTGCTAATGAGATACTAC 59.056 42.308 0.00 0.00 0.00 2.73
4826 7621 7.092748 ACTCCCTACTGCTAATGAGATACTA 57.907 40.000 0.00 0.00 0.00 1.82
4827 7622 5.959512 ACTCCCTACTGCTAATGAGATACT 58.040 41.667 0.00 0.00 0.00 2.12
4870 7665 6.255950 GCCGAATGGTCTGAATTTAAACTAC 58.744 40.000 0.00 0.00 37.67 2.73
4897 7692 4.079253 CCCACCACAATAACCCATATAGC 58.921 47.826 0.00 0.00 0.00 2.97
4898 7693 4.352595 TCCCCACCACAATAACCCATATAG 59.647 45.833 0.00 0.00 0.00 1.31
4906 7701 1.004277 TCAGCTCCCCACCACAATAAC 59.996 52.381 0.00 0.00 0.00 1.89
4914 7709 3.307762 GGATATGTAATCAGCTCCCCACC 60.308 52.174 0.00 0.00 0.00 4.61
4916 7711 2.912956 GGGATATGTAATCAGCTCCCCA 59.087 50.000 0.00 0.00 39.95 4.96
4919 7714 4.437239 CGATGGGATATGTAATCAGCTCC 58.563 47.826 0.00 0.00 0.00 4.70
4930 7725 3.366273 CCGAAATTTGCCGATGGGATATG 60.366 47.826 0.00 0.00 34.06 1.78
4951 7746 2.099756 AGTTTCTGTTCAAAGCTGCACC 59.900 45.455 1.02 0.00 0.00 5.01
4956 7751 4.462483 TGTTCCAAGTTTCTGTTCAAAGCT 59.538 37.500 0.00 0.00 0.00 3.74
4957 7752 4.743493 TGTTCCAAGTTTCTGTTCAAAGC 58.257 39.130 0.00 0.00 0.00 3.51
4988 7783 6.215845 TCAGCTCAAAGTTTATTTTCAAGGC 58.784 36.000 0.00 0.00 0.00 4.35


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

AutoCloner maintained by Alex Coulton.