Multiple sequence alignment - TraesCS2B01G358600

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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 TraesCS2B01G358600 chr2B 100.000 6985 0 0 1 6985 511272482 511279466 0.000000e+00 12899.0
1 TraesCS2B01G358600 chr2B 92.857 98 7 0 3398 3495 223534321 223534224 7.300000e-30 143.0
2 TraesCS2B01G358600 chr2A 92.634 3489 148 33 1 3406 553490900 553487438 0.000000e+00 4918.0
3 TraesCS2B01G358600 chr2A 93.822 1813 59 14 4666 6439 553486207 553484409 0.000000e+00 2678.0
4 TraesCS2B01G358600 chr2A 95.327 1177 40 9 3488 4649 553487439 553486263 0.000000e+00 1855.0
5 TraesCS2B01G358600 chr2A 92.870 547 23 6 6438 6984 553484223 553483693 0.000000e+00 780.0
6 TraesCS2B01G358600 chr2A 79.412 170 14 5 4597 4747 537476548 537476715 4.460000e-17 100.0
7 TraesCS2B01G358600 chr2D 92.434 3476 170 42 1 3406 433502493 433505945 0.000000e+00 4876.0
8 TraesCS2B01G358600 chr2D 93.892 2767 85 23 3729 6438 433506330 433509069 0.000000e+00 4096.0
9 TraesCS2B01G358600 chr2D 97.263 548 15 0 6438 6985 433509173 433509720 0.000000e+00 929.0
10 TraesCS2B01G358600 chr2D 95.103 388 14 4 3488 3872 433505944 433506329 2.150000e-169 606.0
11 TraesCS2B01G358600 chr2D 94.595 37 1 1 4714 4750 114543500 114543535 1.000000e-03 56.5
12 TraesCS2B01G358600 chr4A 79.848 1052 140 49 3489 4485 487864345 487865379 0.000000e+00 702.0
13 TraesCS2B01G358600 chr4A 89.095 486 49 4 3832 4314 486641667 486642151 1.000000e-167 601.0
14 TraesCS2B01G358600 chr4A 79.211 659 73 35 5187 5807 486642582 486643214 3.930000e-107 399.0
15 TraesCS2B01G358600 chr4A 81.781 494 68 16 900 1387 487862058 487862535 1.830000e-105 394.0
16 TraesCS2B01G358600 chr4A 85.117 383 46 7 872 1254 486639764 486640135 1.420000e-101 381.0
17 TraesCS2B01G358600 chr4A 87.435 191 21 2 3542 3730 486641260 486641449 4.240000e-52 217.0
18 TraesCS2B01G358600 chr4A 85.149 202 24 6 2666 2863 486640672 486640871 1.190000e-47 202.0
19 TraesCS2B01G358600 chrUn 97.680 388 9 0 996 1383 477061841 477062228 0.000000e+00 667.0
20 TraesCS2B01G358600 chr4D 88.560 507 53 5 3832 4335 94260260 94259756 1.670000e-170 610.0
21 TraesCS2B01G358600 chr4D 82.159 667 94 17 3832 4485 93845533 93844879 3.680000e-152 549.0
22 TraesCS2B01G358600 chr4D 76.376 872 144 39 5151 5999 94259376 94258544 5.040000e-111 412.0
23 TraesCS2B01G358600 chr4D 84.576 389 44 10 867 1254 94262270 94261897 8.560000e-99 372.0
24 TraesCS2B01G358600 chr4D 84.921 252 28 7 3489 3731 93845920 93845670 5.410000e-61 246.0
25 TraesCS2B01G358600 chr4D 86.538 208 23 3 3527 3730 94260674 94260468 2.540000e-54 224.0
26 TraesCS2B01G358600 chr4D 82.996 247 35 6 2666 2908 94261234 94260991 4.240000e-52 217.0
27 TraesCS2B01G358600 chr4D 95.652 46 2 0 4605 4650 467223069 467223114 2.700000e-09 75.0
28 TraesCS2B01G358600 chr4B 88.560 507 53 5 3832 4335 132854601 132854097 1.670000e-170 610.0
29 TraesCS2B01G358600 chr4B 78.086 721 97 29 5299 5999 132853543 132852864 3.930000e-107 399.0
30 TraesCS2B01G358600 chr4B 78.973 623 98 20 900 1504 132338508 132337901 1.830000e-105 394.0
31 TraesCS2B01G358600 chr4B 87.625 299 33 2 956 1254 132856307 132856013 1.870000e-90 344.0
32 TraesCS2B01G358600 chr4B 87.864 206 20 4 3529 3730 132336188 132335984 3.260000e-58 237.0
33 TraesCS2B01G358600 chr4B 86.058 208 24 3 3527 3730 132855016 132854810 1.180000e-52 219.0
34 TraesCS2B01G358600 chr4B 82.927 246 37 4 2666 2908 132855577 132855334 4.240000e-52 217.0
35 TraesCS2B01G358600 chr4B 95.556 90 4 0 3404 3493 496549870 496549959 2.030000e-30 145.0
36 TraesCS2B01G358600 chr4B 92.784 97 6 1 3401 3497 201334262 201334357 9.450000e-29 139.0
37 TraesCS2B01G358600 chr5B 77.849 465 82 12 3839 4286 172628259 172627799 1.150000e-67 268.0
38 TraesCS2B01G358600 chr5D 77.204 465 85 12 3839 4286 175761850 175762310 1.160000e-62 252.0
39 TraesCS2B01G358600 chr5D 94.565 92 3 2 3402 3492 206601260 206601350 2.630000e-29 141.0
40 TraesCS2B01G358600 chr5D 89.362 47 4 1 4603 4648 42065232 42065186 2.720000e-04 58.4
41 TraesCS2B01G358600 chr6D 95.833 96 2 2 3398 3492 271737198 271737292 3.370000e-33 154.0
42 TraesCS2B01G358600 chr6D 94.792 96 5 0 3402 3497 174620808 174620713 4.360000e-32 150.0
43 TraesCS2B01G358600 chr6D 88.889 54 3 1 4763 4816 62197653 62197603 5.850000e-06 63.9
44 TraesCS2B01G358600 chr6D 76.860 121 17 4 4645 4755 82959055 82958936 2.720000e-04 58.4
45 TraesCS2B01G358600 chr1D 97.753 89 2 0 3401 3489 291791954 291792042 3.370000e-33 154.0
46 TraesCS2B01G358600 chr1D 96.667 90 1 2 3401 3489 291792046 291791958 1.570000e-31 148.0
47 TraesCS2B01G358600 chr3D 97.727 88 2 0 3405 3492 261571956 261572043 1.210000e-32 152.0
48 TraesCS2B01G358600 chr3D 86.667 60 6 2 4603 4661 555956146 555956088 1.630000e-06 65.8
49 TraesCS2B01G358600 chr3D 94.595 37 0 2 4715 4751 300710968 300711002 1.000000e-03 56.5
50 TraesCS2B01G358600 chr7B 88.696 115 9 4 3384 3495 400715517 400715630 3.400000e-28 137.0
51 TraesCS2B01G358600 chr7B 89.286 112 6 6 3387 3497 99367391 99367497 1.220000e-27 135.0
52 TraesCS2B01G358600 chr5A 78.481 158 18 7 4609 4756 382961919 382961768 9.650000e-14 89.8
53 TraesCS2B01G358600 chr5A 89.362 47 4 1 4603 4648 30392141 30392187 2.720000e-04 58.4
54 TraesCS2B01G358600 chr5A 94.595 37 1 1 4718 4753 675963213 675963177 1.000000e-03 56.5
55 TraesCS2B01G358600 chr1B 100.000 36 0 0 4605 4640 352337180 352337145 4.520000e-07 67.6
56 TraesCS2B01G358600 chr1A 75.472 159 18 10 4612 4750 397087596 397087439 2.720000e-04 58.4
57 TraesCS2B01G358600 chr7D 94.444 36 2 0 4715 4750 59664915 59664950 1.000000e-03 56.5


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 TraesCS2B01G358600 chr2B 511272482 511279466 6984 False 12899.00 12899 100.00000 1 6985 1 chr2B.!!$F1 6984
1 TraesCS2B01G358600 chr2A 553483693 553490900 7207 True 2557.75 4918 93.66325 1 6984 4 chr2A.!!$R1 6983
2 TraesCS2B01G358600 chr2D 433502493 433509720 7227 False 2626.75 4876 94.67300 1 6985 4 chr2D.!!$F2 6984
3 TraesCS2B01G358600 chr4A 487862058 487865379 3321 False 548.00 702 80.81450 900 4485 2 chr4A.!!$F2 3585
4 TraesCS2B01G358600 chr4A 486639764 486643214 3450 False 360.00 601 85.20140 872 5807 5 chr4A.!!$F1 4935
5 TraesCS2B01G358600 chr4D 93844879 93845920 1041 True 397.50 549 83.54000 3489 4485 2 chr4D.!!$R1 996
6 TraesCS2B01G358600 chr4D 94258544 94262270 3726 True 367.00 610 83.80920 867 5999 5 chr4D.!!$R2 5132
7 TraesCS2B01G358600 chr4B 132852864 132856307 3443 True 357.80 610 84.65120 956 5999 5 chr4B.!!$R2 5043
8 TraesCS2B01G358600 chr4B 132335984 132338508 2524 True 315.50 394 83.41850 900 3730 2 chr4B.!!$R1 2830

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
647 670 0.978146 CCTCCTGGTCCCGACTCATT 60.978 60.0 0.00 0.00 0.00 2.57 F
1640 1880 0.441533 GCAAGTGTCTGACATGCTCG 59.558 55.0 22.62 5.75 44.32 5.03 F
2962 3440 0.463654 TTGATGCTCGCCACCCATAC 60.464 55.0 0.00 0.00 0.00 2.39 F
3492 4138 1.200519 TGGGACGGAGGGAGTATTTG 58.799 55.0 0.00 0.00 0.00 2.32 F
4499 5462 0.736053 GCACAGAGTACTCCCTCTCG 59.264 60.0 19.38 3.91 39.81 4.04 F
4681 5686 0.321671 ACCCACACGAATCTCCACAG 59.678 55.0 0.00 0.00 0.00 3.66 F
4682 5687 0.391661 CCCACACGAATCTCCACAGG 60.392 60.0 0.00 0.00 0.00 4.00 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1839 2092 0.538977 AGTCAGCATGCTTGGCAACT 60.539 50.0 19.98 13.31 43.62 3.16 R
3147 3787 0.463204 TACGAACCAAACGACCCACA 59.537 50.0 0.00 0.00 34.70 4.17 R
4338 5281 1.280206 GCTGCTTGCTTTCAAAGGCG 61.280 55.0 0.00 0.00 38.95 5.52 R
4680 5685 2.023501 AGTCCTACCTCATTGCTCTCCT 60.024 50.0 0.00 0.00 0.00 3.69 R
5807 6878 0.252057 TGTTCTGGTGATCCTCCCGA 60.252 55.0 0.00 0.00 34.23 5.14 R
5900 6977 0.685097 CCTTCCTCTTCCGGTTGTCA 59.315 55.0 0.00 0.00 0.00 3.58 R
6227 7310 0.968901 CATTCAGGTGCAGGCCATGT 60.969 55.0 5.01 0.00 0.00 3.21 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
90 91 4.201773 TGTCTGCTTGTAACAAGTTTGTCG 60.202 41.667 0.00 0.00 41.31 4.35
141 142 3.146066 TCAGAAAAATCTGAACCGTGGG 58.854 45.455 6.08 0.00 43.03 4.61
289 311 3.004090 GGGTGATTAAGGCCCCGT 58.996 61.111 0.00 0.00 36.46 5.28
302 324 2.758737 CCCGTTCCGTAGCCCTCT 60.759 66.667 0.00 0.00 0.00 3.69
303 325 2.494918 CCGTTCCGTAGCCCTCTG 59.505 66.667 0.00 0.00 0.00 3.35
320 342 4.785453 GGCTCCCAACTCTGCGGG 62.785 72.222 0.00 0.00 44.60 6.13
357 379 3.489355 TGCCCCGAACGATATAACTCTA 58.511 45.455 0.00 0.00 0.00 2.43
385 407 4.298626 TGAATTGGTAGATCTGGGCTAGT 58.701 43.478 5.18 0.00 0.00 2.57
387 409 3.398318 TTGGTAGATCTGGGCTAGTCA 57.602 47.619 5.18 0.00 0.00 3.41
422 444 1.141858 GAGCGAGGGATTCCAGGATTT 59.858 52.381 4.80 0.00 34.83 2.17
439 461 3.002759 GGATTTCAGATCTAGCCAAACGC 59.997 47.826 0.00 0.00 37.98 4.84
523 546 1.901085 GACCCGTCTCCTCTTGCAT 59.099 57.895 0.00 0.00 0.00 3.96
594 617 4.847367 CCAATGCCCTGAGCCCCC 62.847 72.222 0.00 0.00 42.71 5.40
614 637 1.003839 ACGCAAGCCGAGATTTGGA 60.004 52.632 0.00 0.00 45.62 3.53
636 659 1.458777 TTCACGTGGTCCTCCTGGT 60.459 57.895 17.00 0.00 34.23 4.00
647 670 0.978146 CCTCCTGGTCCCGACTCATT 60.978 60.000 0.00 0.00 0.00 2.57
714 738 6.983890 GTCACAAATTGTTTGAATTACTGGGT 59.016 34.615 9.21 0.00 43.26 4.51
791 815 1.005805 TGTAGCACCCATCCTTTGCAT 59.994 47.619 0.00 0.00 38.81 3.96
792 817 2.240921 TGTAGCACCCATCCTTTGCATA 59.759 45.455 0.00 0.00 38.81 3.14
898 924 4.329545 GCTGCACCTTCCGTCCCA 62.330 66.667 0.00 0.00 0.00 4.37
1233 1264 0.471617 AGGATTTCGGGATGAGGCTG 59.528 55.000 0.00 0.00 0.00 4.85
1351 1383 7.581011 GAAAGTTCTTTTCAAGTTTCAGCAA 57.419 32.000 8.11 0.00 43.79 3.91
1451 1496 1.133025 GATTGGCGTCACCCTCATTTG 59.867 52.381 0.00 0.00 37.83 2.32
1504 1550 7.669098 CACACTTAAAGCATAAATGATTGCAC 58.331 34.615 0.00 0.00 41.35 4.57
1508 1554 9.143631 ACTTAAAGCATAAATGATTGCACTTTC 57.856 29.630 0.00 0.00 41.35 2.62
1538 1611 9.139734 TGACTATGTTCTATAACCTTTACGGAT 57.860 33.333 0.00 0.00 34.49 4.18
1576 1663 2.579410 TAGTTGGAAGCCAAACCCTC 57.421 50.000 0.00 0.00 45.73 4.30
1640 1880 0.441533 GCAAGTGTCTGACATGCTCG 59.558 55.000 22.62 5.75 44.32 5.03
1646 1886 1.591703 TCTGACATGCTCGGACACC 59.408 57.895 0.00 0.00 28.26 4.16
1679 1920 7.542890 TGCGAATCAACATACATTTAATGGTT 58.457 30.769 9.88 1.54 33.60 3.67
1811 2061 5.520748 AGGGAACATGACTCATAGGTTTT 57.479 39.130 0.00 0.00 0.00 2.43
1831 2081 8.739972 AGGTTTTAAATAAGCATAGTGTCCTTG 58.260 33.333 0.00 0.00 0.00 3.61
1839 2092 5.039920 AGCATAGTGTCCTTGCATGATAA 57.960 39.130 0.00 0.00 38.84 1.75
1911 2169 5.650543 TCCAGAAAAACTTGTCTGCTTTTC 58.349 37.500 4.35 0.00 40.01 2.29
1933 2191 6.713762 TCCCTGGCATTTTACTTGATTATG 57.286 37.500 0.00 0.00 0.00 1.90
2114 2400 7.153217 TCTGTCACAACGTTCAGAGATAATA 57.847 36.000 12.04 0.00 33.77 0.98
2169 2455 4.226427 AGCTCTCAATTGTCAAGCCATA 57.774 40.909 18.91 0.00 33.43 2.74
2173 2459 5.163581 GCTCTCAATTGTCAAGCCATATGTT 60.164 40.000 5.13 0.00 0.00 2.71
2231 2517 9.241317 GCTTGTGAATCTGATATTTATGTTTGG 57.759 33.333 0.00 0.00 0.00 3.28
2260 2548 3.482156 AGATATGCCTGTGATGACACC 57.518 47.619 0.00 0.00 45.40 4.16
2308 2596 3.244665 TGTCTTCTTCATCAGCACATGGT 60.245 43.478 0.00 0.00 0.00 3.55
2319 2607 6.318648 TCATCAGCACATGGTATTTTAGGAAC 59.681 38.462 0.00 0.00 0.00 3.62
2526 2821 8.720562 GTTACTTTTAGCCCACTCGTTTTTATA 58.279 33.333 0.00 0.00 0.00 0.98
2565 2872 4.095483 GCTGATGACATCCTTGTTTAGGTG 59.905 45.833 12.90 0.00 45.03 4.00
2566 2873 5.491070 CTGATGACATCCTTGTTTAGGTGA 58.509 41.667 12.90 0.00 45.03 4.02
2641 2960 5.320549 AGAACATTTGCTCCATGAATGTC 57.679 39.130 9.42 5.07 41.65 3.06
2677 3129 5.193099 AGACCCCTTTGTTACTGCATAAT 57.807 39.130 0.00 0.00 0.00 1.28
2962 3440 0.463654 TTGATGCTCGCCACCCATAC 60.464 55.000 0.00 0.00 0.00 2.39
2963 3441 1.598130 GATGCTCGCCACCCATACC 60.598 63.158 0.00 0.00 0.00 2.73
3091 3731 4.757149 GCTAACACTATAGGGCATCTTTGG 59.243 45.833 0.58 0.00 0.00 3.28
3160 3800 2.073816 GTGTCTATGTGGGTCGTTTGG 58.926 52.381 0.00 0.00 0.00 3.28
3163 3803 2.740447 GTCTATGTGGGTCGTTTGGTTC 59.260 50.000 0.00 0.00 0.00 3.62
3175 3815 2.159707 CGTTTGGTTCGTAGGATTGCAG 60.160 50.000 0.00 0.00 0.00 4.41
3183 3823 4.307443 TCGTAGGATTGCAGTCTACATG 57.693 45.455 9.27 0.00 34.63 3.21
3184 3824 3.068165 TCGTAGGATTGCAGTCTACATGG 59.932 47.826 9.27 1.13 34.63 3.66
3194 3835 4.263905 TGCAGTCTACATGGATTTCCCTTT 60.264 41.667 0.00 0.00 35.38 3.11
3197 3838 6.547510 GCAGTCTACATGGATTTCCCTTTATT 59.452 38.462 0.00 0.00 35.38 1.40
3198 3839 7.068716 GCAGTCTACATGGATTTCCCTTTATTT 59.931 37.037 0.00 0.00 35.38 1.40
3279 3921 5.835280 CCTATGCTTTTGGGGTATTGAAGAT 59.165 40.000 0.00 0.00 0.00 2.40
3343 3985 9.066892 TGCTTTAGAAATACTGTGAATCAAAGT 57.933 29.630 11.26 11.26 35.86 2.66
3410 4056 5.302357 GCTGCTTGCAATATATTACTCCC 57.698 43.478 0.00 0.00 42.31 4.30
3411 4057 5.006386 GCTGCTTGCAATATATTACTCCCT 58.994 41.667 0.00 0.00 42.31 4.20
3412 4058 5.123027 GCTGCTTGCAATATATTACTCCCTC 59.877 44.000 0.00 0.00 42.31 4.30
3413 4059 5.560724 TGCTTGCAATATATTACTCCCTCC 58.439 41.667 0.00 0.00 0.00 4.30
3414 4060 4.631813 GCTTGCAATATATTACTCCCTCCG 59.368 45.833 0.00 0.00 0.00 4.63
3415 4061 5.794894 CTTGCAATATATTACTCCCTCCGT 58.205 41.667 0.00 0.00 0.00 4.69
3416 4062 5.401531 TGCAATATATTACTCCCTCCGTC 57.598 43.478 0.00 0.00 0.00 4.79
3417 4063 4.222145 TGCAATATATTACTCCCTCCGTCC 59.778 45.833 0.00 0.00 0.00 4.79
3418 4064 4.382793 GCAATATATTACTCCCTCCGTCCC 60.383 50.000 0.00 0.00 0.00 4.46
3419 4065 4.687262 ATATATTACTCCCTCCGTCCCA 57.313 45.455 0.00 0.00 0.00 4.37
3420 4066 2.852714 TATTACTCCCTCCGTCCCAA 57.147 50.000 0.00 0.00 0.00 4.12
3421 4067 1.961133 ATTACTCCCTCCGTCCCAAA 58.039 50.000 0.00 0.00 0.00 3.28
3422 4068 1.732117 TTACTCCCTCCGTCCCAAAA 58.268 50.000 0.00 0.00 0.00 2.44
3423 4069 1.961133 TACTCCCTCCGTCCCAAAAT 58.039 50.000 0.00 0.00 0.00 1.82
3424 4070 1.961133 ACTCCCTCCGTCCCAAAATA 58.039 50.000 0.00 0.00 0.00 1.40
3425 4071 2.488836 ACTCCCTCCGTCCCAAAATAT 58.511 47.619 0.00 0.00 0.00 1.28
3426 4072 3.660959 ACTCCCTCCGTCCCAAAATATA 58.339 45.455 0.00 0.00 0.00 0.86
3427 4073 4.042174 ACTCCCTCCGTCCCAAAATATAA 58.958 43.478 0.00 0.00 0.00 0.98
3428 4074 4.102681 ACTCCCTCCGTCCCAAAATATAAG 59.897 45.833 0.00 0.00 0.00 1.73
3429 4075 4.300345 TCCCTCCGTCCCAAAATATAAGA 58.700 43.478 0.00 0.00 0.00 2.10
3430 4076 4.722781 TCCCTCCGTCCCAAAATATAAGAA 59.277 41.667 0.00 0.00 0.00 2.52
3431 4077 4.820173 CCCTCCGTCCCAAAATATAAGAAC 59.180 45.833 0.00 0.00 0.00 3.01
3432 4078 4.510340 CCTCCGTCCCAAAATATAAGAACG 59.490 45.833 0.00 0.00 0.00 3.95
3433 4079 5.088680 TCCGTCCCAAAATATAAGAACGT 57.911 39.130 0.00 0.00 0.00 3.99
3434 4080 5.490159 TCCGTCCCAAAATATAAGAACGTT 58.510 37.500 0.00 0.00 0.00 3.99
3435 4081 5.939296 TCCGTCCCAAAATATAAGAACGTTT 59.061 36.000 0.46 0.00 0.00 3.60
3436 4082 6.430616 TCCGTCCCAAAATATAAGAACGTTTT 59.569 34.615 0.46 0.00 0.00 2.43
3437 4083 7.040548 TCCGTCCCAAAATATAAGAACGTTTTT 60.041 33.333 9.22 9.22 0.00 1.94
3438 4084 7.061326 CCGTCCCAAAATATAAGAACGTTTTTG 59.939 37.037 13.87 12.16 37.14 2.44
3439 4085 7.804129 CGTCCCAAAATATAAGAACGTTTTTGA 59.196 33.333 13.87 2.81 38.79 2.69
3440 4086 8.908678 GTCCCAAAATATAAGAACGTTTTTGAC 58.091 33.333 13.87 5.89 38.79 3.18
3441 4087 8.630917 TCCCAAAATATAAGAACGTTTTTGACA 58.369 29.630 13.87 0.01 38.79 3.58
3442 4088 8.696175 CCCAAAATATAAGAACGTTTTTGACAC 58.304 33.333 13.87 0.00 38.79 3.67
3443 4089 9.458374 CCAAAATATAAGAACGTTTTTGACACT 57.542 29.630 13.87 0.00 38.79 3.55
3447 4093 9.769093 AATATAAGAACGTTTTTGACACTATGC 57.231 29.630 13.87 0.00 0.00 3.14
3448 4094 5.751243 AAGAACGTTTTTGACACTATGCT 57.249 34.783 0.46 0.00 0.00 3.79
3449 4095 6.854496 AAGAACGTTTTTGACACTATGCTA 57.146 33.333 0.46 0.00 0.00 3.49
3450 4096 6.467723 AGAACGTTTTTGACACTATGCTAG 57.532 37.500 0.46 0.00 0.00 3.42
3451 4097 5.989777 AGAACGTTTTTGACACTATGCTAGT 59.010 36.000 0.46 0.00 40.28 2.57
3466 4112 8.451908 ACTATGCTAGTGTCAAAAACTTTCTT 57.548 30.769 0.00 0.00 37.69 2.52
3467 4113 9.555727 ACTATGCTAGTGTCAAAAACTTTCTTA 57.444 29.630 0.00 0.00 37.69 2.10
3479 4125 9.685828 TCAAAAACTTTCTTATATTTTGGGACG 57.314 29.630 8.80 0.00 39.94 4.79
3480 4126 8.921670 CAAAAACTTTCTTATATTTTGGGACGG 58.078 33.333 0.00 0.00 37.34 4.79
3481 4127 8.411991 AAAACTTTCTTATATTTTGGGACGGA 57.588 30.769 0.00 0.00 0.00 4.69
3482 4128 7.625828 AACTTTCTTATATTTTGGGACGGAG 57.374 36.000 0.00 0.00 0.00 4.63
3483 4129 6.120220 ACTTTCTTATATTTTGGGACGGAGG 58.880 40.000 0.00 0.00 0.00 4.30
3484 4130 4.699925 TCTTATATTTTGGGACGGAGGG 57.300 45.455 0.00 0.00 0.00 4.30
3485 4131 4.300345 TCTTATATTTTGGGACGGAGGGA 58.700 43.478 0.00 0.00 0.00 4.20
3486 4132 4.347000 TCTTATATTTTGGGACGGAGGGAG 59.653 45.833 0.00 0.00 0.00 4.30
3492 4138 1.200519 TGGGACGGAGGGAGTATTTG 58.799 55.000 0.00 0.00 0.00 2.32
3780 4594 2.163010 CCCTCACAACATAAAGCTGCAG 59.837 50.000 10.11 10.11 0.00 4.41
3841 4778 4.798387 GTGACAAGAATGGTTTGTGTTGTC 59.202 41.667 6.71 6.71 42.60 3.18
4415 5368 4.637387 TGGCCAAAATTTCATCACCATT 57.363 36.364 0.61 0.00 0.00 3.16
4416 5369 4.325119 TGGCCAAAATTTCATCACCATTG 58.675 39.130 0.61 0.00 0.00 2.82
4467 5429 2.897969 GGTTAGGTCAGAGACACAAGGA 59.102 50.000 0.00 0.00 33.68 3.36
4497 5460 1.203063 TGTGCACAGAGTACTCCCTCT 60.203 52.381 17.42 0.00 42.55 3.69
4498 5461 1.474879 GTGCACAGAGTACTCCCTCTC 59.525 57.143 19.38 6.10 39.81 3.20
4499 5462 0.736053 GCACAGAGTACTCCCTCTCG 59.264 60.000 19.38 3.91 39.81 4.04
4516 5482 4.210955 CCTCTCGATAATTTGAGCAAGCTC 59.789 45.833 14.90 14.90 43.01 4.09
4554 5520 3.558418 ACGTCTTTTTCACATTACAGCGT 59.442 39.130 0.00 0.00 0.00 5.07
4572 5538 3.057734 GCGTGTATTAGGAAATCGAGGG 58.942 50.000 0.00 0.00 0.00 4.30
4606 5572 6.452242 CAATGCATGCAGGATTATATTGTGT 58.548 36.000 26.69 0.11 35.96 3.72
4680 5685 1.634960 TACCCACACGAATCTCCACA 58.365 50.000 0.00 0.00 0.00 4.17
4681 5686 0.321671 ACCCACACGAATCTCCACAG 59.678 55.000 0.00 0.00 0.00 3.66
4682 5687 0.391661 CCCACACGAATCTCCACAGG 60.392 60.000 0.00 0.00 0.00 4.00
4694 5699 0.907486 TCCACAGGAGAGCAATGAGG 59.093 55.000 0.00 0.00 0.00 3.86
4716 5721 4.982916 GGTAGGACTTAGATGTGCAATACG 59.017 45.833 0.00 0.00 0.00 3.06
4843 5857 8.500753 AGTTGTTGACTTGTTGTTAAGATGTA 57.499 30.769 0.00 0.00 33.92 2.29
4852 5866 9.185680 ACTTGTTGTTAAGATGTACTCCTTTTT 57.814 29.630 5.82 0.00 0.00 1.94
4904 5918 2.537633 ACACAAGGGAATGCCATGAT 57.462 45.000 2.40 0.00 35.15 2.45
5248 6293 5.928264 ACTCCATTTTTATGCTCTTTGTTGC 59.072 36.000 0.00 0.00 0.00 4.17
5356 6415 0.462937 CAGAACCGTGTTGGACCACA 60.463 55.000 0.00 0.00 42.00 4.17
5657 6728 0.952497 TGAAAGCTGCGCTGGAGAAG 60.952 55.000 16.47 0.66 39.62 2.85
5696 6767 2.354704 CGATGCTGGTAGGAAAGTGGAA 60.355 50.000 0.00 0.00 0.00 3.53
5717 6788 5.012458 GGAAGTCATGGATGATGATGACCTA 59.988 44.000 0.00 0.00 46.54 3.08
5900 6977 2.898472 AATACCGCTCTCCTGGCCCT 62.898 60.000 0.00 0.00 0.00 5.19
6227 7310 3.890147 GAGGAACGATAGGAAAGAGGCTA 59.110 47.826 0.00 0.00 43.77 3.93
6241 7324 2.273449 GCTACATGGCCTGCACCT 59.727 61.111 3.32 0.00 0.00 4.00
6245 7328 0.625316 TACATGGCCTGCACCTGAAT 59.375 50.000 3.32 0.00 0.00 2.57
6332 7415 6.489361 TGGATTTGAAACAAATTTGATTGGGG 59.511 34.615 24.64 0.00 34.56 4.96
6385 7468 2.755655 CCGTATTTTGGGTGTGCCATTA 59.244 45.455 0.00 0.00 36.17 1.90
6419 7502 2.479837 TCGTCAGTTCATTGGTGTGAC 58.520 47.619 0.00 0.00 35.26 3.67
6442 7712 5.119743 ACAAGCGAGTAATAAACGAGTTTCC 59.880 40.000 4.32 0.00 34.23 3.13
6443 7713 5.069501 AGCGAGTAATAAACGAGTTTCCT 57.930 39.130 4.32 0.00 34.23 3.36
6702 7972 1.021920 GCGGGAAGAAGAGCCAGAAC 61.022 60.000 0.00 0.00 0.00 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
57 58 5.011635 TGTTACAAGCAGACAATGGTAGAGA 59.988 40.000 0.00 0.00 39.18 3.10
90 91 8.199449 TCATGAAAGCCAAATATCAAATCCTTC 58.801 33.333 0.00 0.00 0.00 3.46
141 142 5.614760 ACGAGACGTAACAAAATGCAATAC 58.385 37.500 0.00 0.00 38.73 1.89
258 260 7.992608 GCCTTAATCACCCCATAAATCAATTTT 59.007 33.333 0.00 0.00 0.00 1.82
259 261 7.420097 GGCCTTAATCACCCCATAAATCAATTT 60.420 37.037 0.00 0.00 0.00 1.82
260 262 6.043127 GGCCTTAATCACCCCATAAATCAATT 59.957 38.462 0.00 0.00 0.00 2.32
261 263 5.543790 GGCCTTAATCACCCCATAAATCAAT 59.456 40.000 0.00 0.00 0.00 2.57
302 324 4.020617 CCGCAGAGTTGGGAGCCA 62.021 66.667 0.00 0.00 39.46 4.75
320 342 3.200593 CAGCTCCATGTGCTCCGC 61.201 66.667 7.38 0.00 38.92 5.54
334 356 1.145803 GTTATATCGTTCGGGGCAGC 58.854 55.000 0.00 0.00 0.00 5.25
357 379 4.202440 CCCAGATCTACCAATTCAGCTCAT 60.202 45.833 0.00 0.00 0.00 2.90
385 407 4.198530 TCGCTCCAGAAATTTGCATATGA 58.801 39.130 6.97 0.00 0.00 2.15
387 409 3.567164 CCTCGCTCCAGAAATTTGCATAT 59.433 43.478 0.00 0.00 0.00 1.78
523 546 2.082231 CGCTAGGCTTAGGTCGCTATA 58.918 52.381 4.88 0.00 0.00 1.31
594 617 1.059369 CAAATCTCGGCTTGCGTCG 59.941 57.895 0.00 0.00 40.22 5.12
605 628 1.734465 CACGTGAAGGCTCCAAATCTC 59.266 52.381 10.90 0.00 0.00 2.75
608 631 0.110486 ACCACGTGAAGGCTCCAAAT 59.890 50.000 19.30 0.00 0.00 2.32
614 637 2.584391 GGAGGACCACGTGAAGGCT 61.584 63.158 19.30 0.00 35.97 4.58
636 659 3.627395 AATTACAGCAATGAGTCGGGA 57.373 42.857 0.00 0.00 0.00 5.14
647 670 5.014202 GGAAGGGGTTTCTTAATTACAGCA 58.986 41.667 0.00 0.00 36.03 4.41
772 796 1.767759 ATGCAAAGGATGGGTGCTAC 58.232 50.000 0.00 0.00 39.09 3.58
792 817 9.605951 AAAGGCATCAAACTATATTCCCAATAT 57.394 29.630 0.00 0.00 37.76 1.28
893 919 8.807948 ACCATATAAGCATACATAAATGGGAC 57.192 34.615 0.00 0.00 37.53 4.46
944 971 3.629398 GGCAAAGAGAGAGAGAGAGAGAG 59.371 52.174 0.00 0.00 0.00 3.20
945 972 3.010027 TGGCAAAGAGAGAGAGAGAGAGA 59.990 47.826 0.00 0.00 0.00 3.10
946 973 3.355378 TGGCAAAGAGAGAGAGAGAGAG 58.645 50.000 0.00 0.00 0.00 3.20
947 974 3.355378 CTGGCAAAGAGAGAGAGAGAGA 58.645 50.000 0.00 0.00 0.00 3.10
948 975 2.428171 CCTGGCAAAGAGAGAGAGAGAG 59.572 54.545 0.00 0.00 0.00 3.20
949 976 2.225242 ACCTGGCAAAGAGAGAGAGAGA 60.225 50.000 0.00 0.00 0.00 3.10
950 977 2.178580 ACCTGGCAAAGAGAGAGAGAG 58.821 52.381 0.00 0.00 0.00 3.20
951 978 2.317371 ACCTGGCAAAGAGAGAGAGA 57.683 50.000 0.00 0.00 0.00 3.10
952 979 3.415457 AAACCTGGCAAAGAGAGAGAG 57.585 47.619 0.00 0.00 0.00 3.20
1437 1482 2.621055 TGGAAAACAAATGAGGGTGACG 59.379 45.455 0.00 0.00 0.00 4.35
1510 1556 9.760077 CCGTAAAGGTTATAGAACATAGTCATT 57.240 33.333 2.17 0.00 37.29 2.57
1538 1611 3.844211 ACTAAACAGGCCCTGACAATCTA 59.156 43.478 19.90 0.00 35.18 1.98
1588 1675 2.738013 ACTAGCCTTAACGGTGTCAC 57.262 50.000 0.00 0.00 34.25 3.67
1590 1677 3.431233 GTCAAACTAGCCTTAACGGTGTC 59.569 47.826 0.00 0.00 34.25 3.67
1593 1680 2.636403 AGGTCAAACTAGCCTTAACGGT 59.364 45.455 0.00 0.00 34.25 4.83
1646 1886 1.737838 TGTTGATTCGCAGCCTAAGG 58.262 50.000 0.00 0.00 0.00 2.69
1679 1920 9.739276 CTTTAGCTATTCCACCCATCAAATATA 57.261 33.333 0.00 0.00 0.00 0.86
1692 1933 5.817296 CACAGTGTATGCTTTAGCTATTCCA 59.183 40.000 0.00 0.00 42.66 3.53
1745 1986 3.937706 GTGTGATCTTCTGAACATCCCTG 59.062 47.826 3.66 0.00 0.00 4.45
1788 2038 5.520748 AAACCTATGAGTCATGTTCCCTT 57.479 39.130 16.15 0.00 0.00 3.95
1811 2061 7.053498 TCATGCAAGGACACTATGCTTATTTA 58.947 34.615 0.00 0.00 36.73 1.40
1818 2068 4.818546 ACTTATCATGCAAGGACACTATGC 59.181 41.667 10.49 0.00 40.45 3.14
1831 2081 2.945447 TGCTTGGCAACTTATCATGC 57.055 45.000 0.00 0.00 41.82 4.06
1839 2092 0.538977 AGTCAGCATGCTTGGCAACT 60.539 50.000 19.98 13.31 43.62 3.16
1911 2169 6.275335 CACATAATCAAGTAAAATGCCAGGG 58.725 40.000 0.00 0.00 0.00 4.45
2002 2260 5.125417 CAGAAGAAAAACTGGACAGGTCAAA 59.875 40.000 4.14 0.00 0.00 2.69
2095 2381 7.649705 AGTGCTATATTATCTCTGAACGTTGTG 59.350 37.037 5.00 0.00 0.00 3.33
2159 2445 6.473455 GCTGAACAAATAACATATGGCTTGAC 59.527 38.462 7.80 5.82 0.00 3.18
2169 2455 7.934855 AATCTCTCAGCTGAACAAATAACAT 57.065 32.000 18.85 0.00 0.00 2.71
2173 2459 5.942236 AGCAAATCTCTCAGCTGAACAAATA 59.058 36.000 18.85 0.70 35.72 1.40
2231 2517 4.697514 TCACAGGCATATCTAGCAACTTC 58.302 43.478 0.00 0.00 0.00 3.01
2352 2640 9.726438 TGAAGAAAACATCAACCCTTTTTAAAA 57.274 25.926 0.00 0.00 0.00 1.52
2526 2821 1.611261 AGCCATTGTTGCATGCCCT 60.611 52.632 16.68 0.00 0.00 5.19
2592 2902 4.485163 GCACATAAAGGCCAGTAAAACAG 58.515 43.478 5.01 0.00 0.00 3.16
2641 2960 4.762289 AGGGGTCTTTACTGCTTCATAG 57.238 45.455 0.00 0.00 0.00 2.23
2677 3129 1.064017 ACCAACCCAAGAGAGCACAAA 60.064 47.619 0.00 0.00 0.00 2.83
2962 3440 9.282247 CAAATCATTTATTCTTCTCTTTCACGG 57.718 33.333 0.00 0.00 0.00 4.94
2963 3441 8.792538 GCAAATCATTTATTCTTCTCTTTCACG 58.207 33.333 0.00 0.00 0.00 4.35
2993 3479 6.992123 CCAATAAGATACATGTTCTACAGGCA 59.008 38.462 2.30 0.00 32.34 4.75
3147 3787 0.463204 TACGAACCAAACGACCCACA 59.537 50.000 0.00 0.00 34.70 4.17
3148 3788 1.142474 CTACGAACCAAACGACCCAC 58.858 55.000 0.00 0.00 34.70 4.61
3160 3800 4.106029 TGTAGACTGCAATCCTACGAAC 57.894 45.455 12.33 0.00 36.47 3.95
3163 3803 3.068165 TCCATGTAGACTGCAATCCTACG 59.932 47.826 0.00 0.00 36.47 3.51
3214 3855 9.010029 GTTGGAGTAGATGTAAATTTTCCTTCA 57.990 33.333 0.00 0.00 0.00 3.02
3279 3921 4.248058 CACAGCAATAGAGTGTCATGTCA 58.752 43.478 0.00 0.00 0.00 3.58
3329 3971 1.145738 AGGGCCACTTTGATTCACAGT 59.854 47.619 6.18 0.00 0.00 3.55
3402 4048 1.961133 TTTGGGACGGAGGGAGTAAT 58.039 50.000 0.00 0.00 0.00 1.89
3404 4050 1.961133 ATTTTGGGACGGAGGGAGTA 58.039 50.000 0.00 0.00 0.00 2.59
3405 4051 1.961133 TATTTTGGGACGGAGGGAGT 58.039 50.000 0.00 0.00 0.00 3.85
3406 4052 4.347000 TCTTATATTTTGGGACGGAGGGAG 59.653 45.833 0.00 0.00 0.00 4.30
3407 4053 4.300345 TCTTATATTTTGGGACGGAGGGA 58.700 43.478 0.00 0.00 0.00 4.20
3408 4054 4.699925 TCTTATATTTTGGGACGGAGGG 57.300 45.455 0.00 0.00 0.00 4.30
3409 4055 4.510340 CGTTCTTATATTTTGGGACGGAGG 59.490 45.833 0.00 0.00 0.00 4.30
3410 4056 5.114081 ACGTTCTTATATTTTGGGACGGAG 58.886 41.667 0.00 0.00 0.00 4.63
3411 4057 5.088680 ACGTTCTTATATTTTGGGACGGA 57.911 39.130 0.00 0.00 0.00 4.69
3412 4058 5.806366 AACGTTCTTATATTTTGGGACGG 57.194 39.130 0.00 0.00 0.00 4.79
3413 4059 7.804129 TCAAAAACGTTCTTATATTTTGGGACG 59.196 33.333 15.53 0.00 39.94 4.79
3414 4060 8.908678 GTCAAAAACGTTCTTATATTTTGGGAC 58.091 33.333 15.53 7.20 39.94 4.46
3415 4061 8.630917 TGTCAAAAACGTTCTTATATTTTGGGA 58.369 29.630 15.53 4.35 39.94 4.37
3416 4062 8.696175 GTGTCAAAAACGTTCTTATATTTTGGG 58.304 33.333 15.53 0.00 39.94 4.12
3417 4063 9.458374 AGTGTCAAAAACGTTCTTATATTTTGG 57.542 29.630 15.53 0.00 39.94 3.28
3421 4067 9.769093 GCATAGTGTCAAAAACGTTCTTATATT 57.231 29.630 0.00 0.00 0.00 1.28
3422 4068 9.162764 AGCATAGTGTCAAAAACGTTCTTATAT 57.837 29.630 0.00 0.00 0.00 0.86
3423 4069 8.542497 AGCATAGTGTCAAAAACGTTCTTATA 57.458 30.769 0.00 0.00 0.00 0.98
3424 4070 7.435068 AGCATAGTGTCAAAAACGTTCTTAT 57.565 32.000 0.00 0.00 0.00 1.73
3425 4071 6.854496 AGCATAGTGTCAAAAACGTTCTTA 57.146 33.333 0.00 0.00 0.00 2.10
3426 4072 5.751243 AGCATAGTGTCAAAAACGTTCTT 57.249 34.783 0.00 0.00 0.00 2.52
3427 4073 6.467723 CTAGCATAGTGTCAAAAACGTTCT 57.532 37.500 0.00 0.00 32.85 3.01
3453 4099 9.685828 CGTCCCAAAATATAAGAAAGTTTTTGA 57.314 29.630 7.74 0.00 38.79 2.69
3454 4100 8.921670 CCGTCCCAAAATATAAGAAAGTTTTTG 58.078 33.333 0.00 0.00 37.14 2.44
3455 4101 8.862085 TCCGTCCCAAAATATAAGAAAGTTTTT 58.138 29.630 0.00 0.00 0.00 1.94
3456 4102 8.411991 TCCGTCCCAAAATATAAGAAAGTTTT 57.588 30.769 0.00 0.00 0.00 2.43
3457 4103 7.122204 CCTCCGTCCCAAAATATAAGAAAGTTT 59.878 37.037 0.00 0.00 0.00 2.66
3458 4104 6.602009 CCTCCGTCCCAAAATATAAGAAAGTT 59.398 38.462 0.00 0.00 0.00 2.66
3459 4105 6.120220 CCTCCGTCCCAAAATATAAGAAAGT 58.880 40.000 0.00 0.00 0.00 2.66
3460 4106 5.531287 CCCTCCGTCCCAAAATATAAGAAAG 59.469 44.000 0.00 0.00 0.00 2.62
3461 4107 5.192121 TCCCTCCGTCCCAAAATATAAGAAA 59.808 40.000 0.00 0.00 0.00 2.52
3462 4108 4.722781 TCCCTCCGTCCCAAAATATAAGAA 59.277 41.667 0.00 0.00 0.00 2.52
3463 4109 4.300345 TCCCTCCGTCCCAAAATATAAGA 58.700 43.478 0.00 0.00 0.00 2.10
3464 4110 4.102681 ACTCCCTCCGTCCCAAAATATAAG 59.897 45.833 0.00 0.00 0.00 1.73
3465 4111 4.042174 ACTCCCTCCGTCCCAAAATATAA 58.958 43.478 0.00 0.00 0.00 0.98
3466 4112 3.660959 ACTCCCTCCGTCCCAAAATATA 58.339 45.455 0.00 0.00 0.00 0.86
3467 4113 2.488836 ACTCCCTCCGTCCCAAAATAT 58.511 47.619 0.00 0.00 0.00 1.28
3468 4114 1.961133 ACTCCCTCCGTCCCAAAATA 58.039 50.000 0.00 0.00 0.00 1.40
3469 4115 1.961133 TACTCCCTCCGTCCCAAAAT 58.039 50.000 0.00 0.00 0.00 1.82
3470 4116 1.961133 ATACTCCCTCCGTCCCAAAA 58.039 50.000 0.00 0.00 0.00 2.44
3471 4117 1.961133 AATACTCCCTCCGTCCCAAA 58.039 50.000 0.00 0.00 0.00 3.28
3472 4118 1.557832 CAAATACTCCCTCCGTCCCAA 59.442 52.381 0.00 0.00 0.00 4.12
3473 4119 1.200519 CAAATACTCCCTCCGTCCCA 58.799 55.000 0.00 0.00 0.00 4.37
3474 4120 1.201424 ACAAATACTCCCTCCGTCCC 58.799 55.000 0.00 0.00 0.00 4.46
3475 4121 3.181468 CCTAACAAATACTCCCTCCGTCC 60.181 52.174 0.00 0.00 0.00 4.79
3476 4122 3.181468 CCCTAACAAATACTCCCTCCGTC 60.181 52.174 0.00 0.00 0.00 4.79
3477 4123 2.770232 CCCTAACAAATACTCCCTCCGT 59.230 50.000 0.00 0.00 0.00 4.69
3478 4124 2.104281 CCCCTAACAAATACTCCCTCCG 59.896 54.545 0.00 0.00 0.00 4.63
3479 4125 3.120898 ACCCCTAACAAATACTCCCTCC 58.879 50.000 0.00 0.00 0.00 4.30
3480 4126 4.967442 ACTACCCCTAACAAATACTCCCTC 59.033 45.833 0.00 0.00 0.00 4.30
3481 4127 4.969133 ACTACCCCTAACAAATACTCCCT 58.031 43.478 0.00 0.00 0.00 4.20
3482 4128 7.384524 AATACTACCCCTAACAAATACTCCC 57.615 40.000 0.00 0.00 0.00 4.30
3483 4129 9.690913 AAAAATACTACCCCTAACAAATACTCC 57.309 33.333 0.00 0.00 0.00 3.85
3652 4308 3.512724 CAGCAGGATCCTTTTTGTGGATT 59.487 43.478 13.00 0.00 43.68 3.01
3780 4594 2.898729 TGCACCAGCTATAGAAGAGC 57.101 50.000 3.21 2.08 42.74 4.09
3841 4778 4.552355 TGTTCATACACTTCCTACACACG 58.448 43.478 0.00 0.00 0.00 4.49
4319 5262 8.938906 CAAAGGCGTTTAAACTACTATCCTTAA 58.061 33.333 16.01 0.00 31.81 1.85
4338 5281 1.280206 GCTGCTTGCTTTCAAAGGCG 61.280 55.000 0.00 0.00 38.95 5.52
4415 5368 6.998074 AGTTCCAGTATCATTTCTGAACAACA 59.002 34.615 0.00 0.00 34.37 3.33
4416 5369 7.440523 AGTTCCAGTATCATTTCTGAACAAC 57.559 36.000 0.00 0.00 34.37 3.32
4497 5460 3.521560 ACGAGCTTGCTCAAATTATCGA 58.478 40.909 20.59 0.00 33.43 3.59
4498 5461 3.553511 AGACGAGCTTGCTCAAATTATCG 59.446 43.478 20.59 8.80 35.21 2.92
4499 5462 5.476752 AAGACGAGCTTGCTCAAATTATC 57.523 39.130 20.59 8.87 34.93 1.75
4534 5500 4.844267 ACACGCTGTAATGTGAAAAAGAC 58.156 39.130 0.00 0.00 39.38 3.01
4554 5520 3.042682 TGCCCCTCGATTTCCTAATACA 58.957 45.455 0.00 0.00 0.00 2.29
4589 5555 6.747414 ACTAGGACACAATATAATCCTGCA 57.253 37.500 1.83 0.00 41.76 4.41
4606 5572 8.978472 AGTTACTTAGATGTGCAATAACTAGGA 58.022 33.333 0.00 0.00 31.39 2.94
4680 5685 2.023501 AGTCCTACCTCATTGCTCTCCT 60.024 50.000 0.00 0.00 0.00 3.69
4681 5686 2.393646 AGTCCTACCTCATTGCTCTCC 58.606 52.381 0.00 0.00 0.00 3.71
4682 5687 4.890581 TCTAAGTCCTACCTCATTGCTCTC 59.109 45.833 0.00 0.00 0.00 3.20
4686 5691 5.053145 CACATCTAAGTCCTACCTCATTGC 58.947 45.833 0.00 0.00 0.00 3.56
4694 5699 5.589192 ACGTATTGCACATCTAAGTCCTAC 58.411 41.667 0.00 0.00 0.00 3.18
4741 5755 5.919755 TGGAACCGCTTGTGATATGTATAA 58.080 37.500 0.00 0.00 0.00 0.98
4852 5866 7.622713 TCCCAGAACAATAATACTCCGTTTAA 58.377 34.615 0.00 0.00 0.00 1.52
4904 5918 9.733556 ATACAAGTTCATAACAATGTGTTCCTA 57.266 29.630 0.00 0.00 40.22 2.94
5248 6293 5.794687 TCTTTGGTATGCATGTTACTTCG 57.205 39.130 10.16 0.00 0.00 3.79
5564 6635 0.828762 TGCCTTCATTGCTGTTGGCT 60.829 50.000 0.00 0.00 40.16 4.75
5657 6728 2.101233 GCCTTTCGACTTCCTCCGC 61.101 63.158 0.00 0.00 0.00 5.54
5696 6767 6.699242 ATTAGGTCATCATCATCCATGACT 57.301 37.500 10.92 2.16 44.70 3.41
5717 6788 1.988107 TGTTCCAGCTCCCTCTCAATT 59.012 47.619 0.00 0.00 0.00 2.32
5807 6878 0.252057 TGTTCTGGTGATCCTCCCGA 60.252 55.000 0.00 0.00 34.23 5.14
5849 6920 2.355193 GGACAGCTCGCCCTCTTCT 61.355 63.158 0.00 0.00 0.00 2.85
5900 6977 0.685097 CCTTCCTCTTCCGGTTGTCA 59.315 55.000 0.00 0.00 0.00 3.58
6017 7094 2.359850 TGTCACCGCTGATTGCCC 60.360 61.111 0.00 0.00 38.78 5.36
6020 7097 1.073964 CAGTCTGTCACCGCTGATTG 58.926 55.000 0.00 0.00 0.00 2.67
6021 7098 0.969149 TCAGTCTGTCACCGCTGATT 59.031 50.000 0.00 0.00 33.62 2.57
6034 7111 4.446371 CTCAAAACACCAGTTCTCAGTCT 58.554 43.478 0.00 0.00 36.84 3.24
6123 7200 7.946043 AGTTACGTACAGTACATTTCAAATCG 58.054 34.615 11.37 0.00 34.56 3.34
6203 7286 3.491792 GCCTCTTTCCTATCGTTCCTCAG 60.492 52.174 0.00 0.00 0.00 3.35
6227 7310 0.968901 CATTCAGGTGCAGGCCATGT 60.969 55.000 5.01 0.00 0.00 3.21
6269 7352 4.696402 TCCAAATTTGCTTCAAATCCATGC 59.304 37.500 12.92 0.00 42.32 4.06
6385 7468 5.048013 TGAACTGACGATGATTGACAGTACT 60.048 40.000 16.12 4.16 40.51 2.73
6419 7502 5.347907 AGGAAACTCGTTTATTACTCGCTTG 59.652 40.000 0.00 0.00 32.90 4.01
6442 7712 7.006210 GCTGTCGATTTGTTACGAAAATGTAAG 59.994 37.037 0.00 0.00 40.12 2.34
6443 7713 6.793203 GCTGTCGATTTGTTACGAAAATGTAA 59.207 34.615 0.00 0.00 40.12 2.41


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

AutoCloner maintained by Alex Coulton.