Multiple sequence alignment - TraesCS3B01G500900

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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 TraesCS3B01G500900 chr3B 100.000 3912 0 0 1 3912 745204397 745200486 0.000000e+00 7225.0
1 TraesCS3B01G500900 chr3B 93.091 1954 79 31 1637 3566 746357136 746355215 0.000000e+00 2809.0
2 TraesCS3B01G500900 chr3B 86.929 1400 137 22 984 2344 747493022 747494414 0.000000e+00 1530.0
3 TraesCS3B01G500900 chr3B 86.315 1403 146 21 984 2347 744419878 744418483 0.000000e+00 1485.0
4 TraesCS3B01G500900 chr3B 92.774 941 54 7 4 940 746361099 746360169 0.000000e+00 1349.0
5 TraesCS3B01G500900 chr3B 84.270 1424 170 29 945 2346 744590523 744591914 0.000000e+00 1339.0
6 TraesCS3B01G500900 chr3B 84.170 1434 171 28 945 2356 746856435 746855036 0.000000e+00 1339.0
7 TraesCS3B01G500900 chr3B 84.053 1367 177 30 928 2281 747093650 747094988 0.000000e+00 1279.0
8 TraesCS3B01G500900 chr3B 81.127 816 103 30 2346 3134 745243465 745242674 1.200000e-169 606.0
9 TraesCS3B01G500900 chr3B 81.852 540 72 19 2450 2981 747095236 747095757 7.770000e-117 431.0
10 TraesCS3B01G500900 chr3B 83.755 474 56 14 2450 2914 744545205 744544744 2.790000e-116 429.0
11 TraesCS3B01G500900 chr3B 81.797 434 71 7 2482 2911 747385904 747386333 1.340000e-94 357.0
12 TraesCS3B01G500900 chr3B 90.650 246 23 0 2048 2293 745449329 745449084 1.050000e-85 327.0
13 TraesCS3B01G500900 chr3B 95.294 85 4 0 3563 3647 746354921 746354837 6.820000e-28 135.0
14 TraesCS3B01G500900 chr3D 86.452 1395 151 21 984 2347 560235130 560233743 0.000000e+00 1495.0
15 TraesCS3B01G500900 chr3D 85.406 1391 167 19 983 2363 560826869 560828233 0.000000e+00 1411.0
16 TraesCS3B01G500900 chr3D 89.043 940 97 5 968 1905 560269625 560268690 0.000000e+00 1160.0
17 TraesCS3B01G500900 chr3D 82.218 1001 128 32 2051 3039 560784703 560783741 0.000000e+00 817.0
18 TraesCS3B01G500900 chr3D 80.966 725 89 27 2346 3045 560703156 560702456 2.680000e-146 529.0
19 TraesCS3B01G500900 chr3D 83.087 473 61 14 2450 2914 560285205 560284744 2.810000e-111 412.0
20 TraesCS3B01G500900 chr3D 83.848 421 53 8 2501 2916 560645411 560645001 1.700000e-103 387.0
21 TraesCS3B01G500900 chr3D 84.164 341 40 9 2049 2381 560197917 560197583 6.310000e-83 318.0
22 TraesCS3B01G500900 chr3D 87.821 156 17 2 3746 3900 281350824 281350670 8.630000e-42 182.0
23 TraesCS3B01G500900 chr3D 86.179 123 10 7 3738 3853 126958058 126958180 4.100000e-25 126.0
24 TraesCS3B01G500900 chr3D 75.916 191 30 9 622 809 82548017 82548194 2.500000e-12 84.2
25 TraesCS3B01G500900 chr3A 85.766 1391 150 26 984 2334 629086990 629088372 0.000000e+00 1428.0
26 TraesCS3B01G500900 chr3A 85.489 1392 154 26 984 2335 696332975 696331592 0.000000e+00 1408.0
27 TraesCS3B01G500900 chr3A 82.840 338 48 9 2049 2381 696289176 696288844 1.060000e-75 294.0
28 TraesCS3B01G500900 chr3A 79.907 428 62 18 1960 2371 696599537 696599118 3.820000e-75 292.0
29 TraesCS3B01G500900 chrUn 81.181 813 102 30 2346 3131 301718583 301719371 1.200000e-169 606.0
30 TraesCS3B01G500900 chr2D 100.000 85 0 0 3649 3733 542253425 542253509 1.460000e-34 158.0
31 TraesCS3B01G500900 chr2B 100.000 85 0 0 3649 3733 647315799 647315883 1.460000e-34 158.0
32 TraesCS3B01G500900 chr6A 79.116 249 29 7 573 809 34305229 34304992 2.430000e-32 150.0
33 TraesCS3B01G500900 chr6A 81.879 149 22 4 666 809 34258177 34258029 1.910000e-23 121.0
34 TraesCS3B01G500900 chr2A 96.429 84 3 0 3650 3733 685222597 685222680 5.270000e-29 139.0
35 TraesCS3B01G500900 chr6D 81.301 123 22 1 668 790 466385098 466384977 8.950000e-17 99.0
36 TraesCS3B01G500900 chr1B 77.128 188 29 10 632 809 368462444 368462627 3.220000e-16 97.1
37 TraesCS3B01G500900 chr4B 75.519 241 31 20 622 840 40523289 40523523 4.160000e-15 93.5
38 TraesCS3B01G500900 chr4D 79.775 89 12 3 721 809 485493849 485493767 4.220000e-05 60.2
39 TraesCS3B01G500900 chr7B 92.308 39 3 0 632 670 514511206 514511168 5.460000e-04 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 TraesCS3B01G500900 chr3B 745200486 745204397 3911 True 7225 7225 100.000000 1 3912 1 chr3B.!!$R3 3911
1 TraesCS3B01G500900 chr3B 747493022 747494414 1392 False 1530 1530 86.929000 984 2344 1 chr3B.!!$F3 1360
2 TraesCS3B01G500900 chr3B 744418483 744419878 1395 True 1485 1485 86.315000 984 2347 1 chr3B.!!$R1 1363
3 TraesCS3B01G500900 chr3B 746354837 746361099 6262 True 1431 2809 93.719667 4 3647 3 chr3B.!!$R7 3643
4 TraesCS3B01G500900 chr3B 744590523 744591914 1391 False 1339 1339 84.270000 945 2346 1 chr3B.!!$F1 1401
5 TraesCS3B01G500900 chr3B 746855036 746856435 1399 True 1339 1339 84.170000 945 2356 1 chr3B.!!$R6 1411
6 TraesCS3B01G500900 chr3B 747093650 747095757 2107 False 855 1279 82.952500 928 2981 2 chr3B.!!$F4 2053
7 TraesCS3B01G500900 chr3B 745242674 745243465 791 True 606 606 81.127000 2346 3134 1 chr3B.!!$R4 788
8 TraesCS3B01G500900 chr3D 560233743 560235130 1387 True 1495 1495 86.452000 984 2347 1 chr3D.!!$R3 1363
9 TraesCS3B01G500900 chr3D 560826869 560828233 1364 False 1411 1411 85.406000 983 2363 1 chr3D.!!$F3 1380
10 TraesCS3B01G500900 chr3D 560268690 560269625 935 True 1160 1160 89.043000 968 1905 1 chr3D.!!$R4 937
11 TraesCS3B01G500900 chr3D 560783741 560784703 962 True 817 817 82.218000 2051 3039 1 chr3D.!!$R8 988
12 TraesCS3B01G500900 chr3D 560702456 560703156 700 True 529 529 80.966000 2346 3045 1 chr3D.!!$R7 699
13 TraesCS3B01G500900 chr3A 629086990 629088372 1382 False 1428 1428 85.766000 984 2334 1 chr3A.!!$F1 1350
14 TraesCS3B01G500900 chr3A 696331592 696332975 1383 True 1408 1408 85.489000 984 2335 1 chr3A.!!$R2 1351
15 TraesCS3B01G500900 chrUn 301718583 301719371 788 False 606 606 81.181000 2346 3131 1 chrUn.!!$F1 785

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
215 216 0.108585 GAACCTCTCACCCACTTGCA 59.891 55.0 0.00 0.0 0.0 4.08 F
711 721 0.254747 TATTGAAGGGGCCTGGTTCG 59.745 55.0 0.84 0.0 0.0 3.95 F
2034 4396 0.185901 AGCAACAGTTGGTGGTGGAT 59.814 50.0 17.24 0.0 45.0 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2034 4396 0.659427 CTACCACGAGATCGGCGTTA 59.341 55.0 6.85 5.11 44.95 3.18 R
2561 5087 0.038251 TTCTTCACGCTCTGCACGAT 60.038 50.0 1.86 0.00 0.00 3.73 R
3727 6612 0.107945 GCGAGCCATCAGAGGAACTT 60.108 55.0 0.00 0.00 41.55 2.66 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
64 65 0.172578 TTGACCCGTGCGATCACTAG 59.827 55.000 0.00 0.00 40.99 2.57
66 67 2.005960 GACCCGTGCGATCACTAGCT 62.006 60.000 0.00 0.00 40.99 3.32
74 75 4.477780 GTGCGATCACTAGCTAGGTATTC 58.522 47.826 24.35 13.68 40.03 1.75
78 79 2.940158 TCACTAGCTAGGTATTCGGCA 58.060 47.619 24.35 0.00 0.00 5.69
109 110 4.392138 CGAATTACCTCACTTCCTGTTTCC 59.608 45.833 0.00 0.00 0.00 3.13
111 112 1.518367 ACCTCACTTCCTGTTTCCCA 58.482 50.000 0.00 0.00 0.00 4.37
119 120 1.444933 TCCTGTTTCCCAGTCACCAT 58.555 50.000 0.00 0.00 39.74 3.55
183 184 4.184649 AGGGTTTTGGAGAAGAACACAT 57.815 40.909 0.00 0.00 0.00 3.21
215 216 0.108585 GAACCTCTCACCCACTTGCA 59.891 55.000 0.00 0.00 0.00 4.08
263 264 1.676678 TACTTGCCCTAGCCAGAGCG 61.677 60.000 0.00 0.00 46.67 5.03
278 279 3.181461 CCAGAGCGAAAATAGTGAGGGAT 60.181 47.826 0.00 0.00 0.00 3.85
317 318 4.325344 CCCATGAGAGGAAATAAAGTGGGT 60.325 45.833 0.00 0.00 39.09 4.51
347 348 2.666596 CTAGCCCGCCCAGATTGGAC 62.667 65.000 0.00 0.00 40.96 4.02
365 366 1.136305 GACAATGTAGCTCCGCCACTA 59.864 52.381 0.00 0.00 0.00 2.74
445 449 2.159254 TCATGTCAACGATGCGAGATCA 60.159 45.455 0.00 0.00 0.00 2.92
520 525 8.574251 ACACAAGCATGACCACTTATTTATTA 57.426 30.769 0.00 0.00 0.00 0.98
521 526 9.019656 ACACAAGCATGACCACTTATTTATTAA 57.980 29.630 0.00 0.00 0.00 1.40
522 527 9.289303 CACAAGCATGACCACTTATTTATTAAC 57.711 33.333 0.00 0.00 0.00 2.01
557 562 8.049721 AGGATGACCACTTATTTAAGAAGGAAG 58.950 37.037 15.44 0.00 38.94 3.46
564 569 7.386848 CCACTTATTTAAGAAGGAAGTCGTTCA 59.613 37.037 14.30 0.00 41.65 3.18
600 605 3.065567 GCATCCCGGCCCGAAAAA 61.066 61.111 3.71 0.00 0.00 1.94
610 615 2.281900 CCGAAAAAGCCCGACCCA 60.282 61.111 0.00 0.00 0.00 4.51
620 625 1.295423 CCCGACCCAACGATTCACT 59.705 57.895 0.00 0.00 35.09 3.41
688 698 0.679640 CTGGGCCCGTCATTTTAGCA 60.680 55.000 19.37 0.00 0.00 3.49
694 704 4.202212 GGGCCCGTCATTTTAGCAATTTAT 60.202 41.667 5.69 0.00 0.00 1.40
705 715 3.120468 AGCAATTTATTGAAGGGGCCT 57.880 42.857 0.84 0.00 40.14 5.19
710 720 2.525105 TTATTGAAGGGGCCTGGTTC 57.475 50.000 0.84 5.18 0.00 3.62
711 721 0.254747 TATTGAAGGGGCCTGGTTCG 59.745 55.000 0.84 0.00 0.00 3.95
742 752 2.203167 TTTTACACGTGCGGGCCA 60.203 55.556 17.22 0.00 0.00 5.36
764 774 2.027385 GCTTGGGCCTGATTTTCTAGG 58.973 52.381 4.53 0.00 37.14 3.02
805 815 1.515521 GGCCTGGGTTTTCTGTGTCG 61.516 60.000 0.00 0.00 0.00 4.35
871 881 4.137543 AGAAAAAGCTATTCTATGGGCCG 58.862 43.478 11.82 0.00 35.43 6.13
1767 4123 1.002544 CTCGAAAGAAGCCCAGTCCTT 59.997 52.381 0.00 0.00 41.32 3.36
1818 4174 4.719369 GTGCGCCTCCGACTCGTT 62.719 66.667 4.18 0.00 36.29 3.85
1870 4226 4.712337 CCTTCACCTACTTGGAGTACATCT 59.288 45.833 0.00 0.00 39.71 2.90
2034 4396 0.185901 AGCAACAGTTGGTGGTGGAT 59.814 50.000 17.24 0.00 45.00 3.41
2038 4400 2.178912 ACAGTTGGTGGTGGATAACG 57.821 50.000 0.00 0.00 0.00 3.18
2102 4489 6.039047 AGCTGTTCTGTGCCAATTAATATCTG 59.961 38.462 0.00 0.00 0.00 2.90
2287 4687 5.679638 GCTCCATGTCCATGTAAATTTGGTC 60.680 44.000 0.00 0.00 37.11 4.02
2368 4833 2.899900 TCTAGCATGGTCAGAACTGTGT 59.100 45.455 0.00 0.00 0.00 3.72
2381 4846 9.088512 GGTCAGAACTGTGTATTAGATTAGTTG 57.911 37.037 0.00 0.00 0.00 3.16
2390 4855 9.888878 TGTGTATTAGATTAGTTGTACTATCGC 57.111 33.333 0.00 0.00 29.64 4.58
2395 4860 3.447918 TTAGTTGTACTATCGCTGGCC 57.552 47.619 0.00 0.00 29.64 5.36
2396 4861 1.191535 AGTTGTACTATCGCTGGCCA 58.808 50.000 4.71 4.71 0.00 5.36
2561 5087 2.051518 GGCGGTCCCATCAAATGCA 61.052 57.895 0.00 0.00 0.00 3.96
2780 5309 4.640201 ACAACAAAGCTTGCAAACTAGAGA 59.360 37.500 2.13 0.00 0.00 3.10
2878 5410 2.766828 CCCTTTTGACCTCGAGGACTAT 59.233 50.000 37.69 15.88 38.94 2.12
2939 5479 4.707448 AGGTCTATGACAAGACTAGTGGTG 59.293 45.833 0.00 0.00 44.42 4.17
2991 5532 1.471684 CCTGGCAGCAGCTAAAAGAAG 59.528 52.381 9.56 0.00 41.70 2.85
3009 5550 2.907458 AGCTATTTGGGGAGCTTGTT 57.093 45.000 0.00 0.00 46.99 2.83
3010 5551 3.175438 AGCTATTTGGGGAGCTTGTTT 57.825 42.857 0.00 0.00 46.99 2.83
3011 5552 2.827921 AGCTATTTGGGGAGCTTGTTTG 59.172 45.455 0.00 0.00 46.99 2.93
3012 5553 2.675032 GCTATTTGGGGAGCTTGTTTGC 60.675 50.000 0.00 0.00 35.73 3.68
3018 5559 4.233408 GAGCTTGTTTGCGCCAAG 57.767 55.556 17.38 17.38 41.75 3.61
3019 5560 1.360192 GAGCTTGTTTGCGCCAAGT 59.640 52.632 20.96 11.27 41.08 3.16
3020 5561 0.591170 GAGCTTGTTTGCGCCAAGTA 59.409 50.000 20.96 1.17 41.08 2.24
3021 5562 1.001815 GAGCTTGTTTGCGCCAAGTAA 60.002 47.619 20.96 8.23 41.08 2.24
3022 5563 1.407258 AGCTTGTTTGCGCCAAGTAAA 59.593 42.857 20.96 6.29 41.08 2.01
3201 5779 1.935799 TGCTATGCATTGGGTTGGTT 58.064 45.000 3.54 0.00 31.71 3.67
3218 5796 2.872245 TGGTTTCAGCTCGAAAGACTTG 59.128 45.455 10.39 0.00 44.26 3.16
3242 5820 1.705002 CCAGATTATGTCCGCCCCCA 61.705 60.000 0.00 0.00 0.00 4.96
3437 6025 7.095857 GGAGTTGTTCAGCTTTGATATAGATCG 60.096 40.741 0.00 0.00 34.49 3.69
3468 6056 3.131709 ACACAAAGATGACTGTCCCTG 57.868 47.619 5.17 0.00 0.00 4.45
3494 6082 4.868171 TCACTGTTAGCTTAGCCGTTATTG 59.132 41.667 0.00 0.00 0.00 1.90
3495 6083 4.630069 CACTGTTAGCTTAGCCGTTATTGT 59.370 41.667 0.00 0.00 0.00 2.71
3496 6084 5.121768 CACTGTTAGCTTAGCCGTTATTGTT 59.878 40.000 0.00 0.00 0.00 2.83
3500 6088 7.546358 TGTTAGCTTAGCCGTTATTGTTACTA 58.454 34.615 0.00 0.00 0.00 1.82
3644 6529 3.987745 TCAGAAAGATAGGAGGCAGAGT 58.012 45.455 0.00 0.00 0.00 3.24
3647 6532 4.280677 CAGAAAGATAGGAGGCAGAGTAGG 59.719 50.000 0.00 0.00 0.00 3.18
3648 6533 2.990740 AGATAGGAGGCAGAGTAGGG 57.009 55.000 0.00 0.00 0.00 3.53
3649 6534 2.148702 AGATAGGAGGCAGAGTAGGGT 58.851 52.381 0.00 0.00 0.00 4.34
3650 6535 2.109304 AGATAGGAGGCAGAGTAGGGTC 59.891 54.545 0.00 0.00 0.00 4.46
3651 6536 1.609626 TAGGAGGCAGAGTAGGGTCT 58.390 55.000 0.00 0.00 0.00 3.85
3652 6537 0.260523 AGGAGGCAGAGTAGGGTCTC 59.739 60.000 0.00 0.00 35.05 3.36
3653 6538 0.033011 GGAGGCAGAGTAGGGTCTCA 60.033 60.000 0.00 0.00 37.49 3.27
3654 6539 1.107945 GAGGCAGAGTAGGGTCTCAC 58.892 60.000 0.00 0.00 35.84 3.51
3655 6540 0.409876 AGGCAGAGTAGGGTCTCACA 59.590 55.000 0.00 0.00 36.97 3.58
3656 6541 1.203187 AGGCAGAGTAGGGTCTCACAA 60.203 52.381 0.00 0.00 36.97 3.33
3657 6542 1.205893 GGCAGAGTAGGGTCTCACAAG 59.794 57.143 0.00 0.00 36.97 3.16
3658 6543 1.205893 GCAGAGTAGGGTCTCACAAGG 59.794 57.143 0.00 0.00 36.97 3.61
3659 6544 2.530701 CAGAGTAGGGTCTCACAAGGT 58.469 52.381 0.00 0.00 36.97 3.50
3660 6545 3.698289 CAGAGTAGGGTCTCACAAGGTA 58.302 50.000 0.00 0.00 36.97 3.08
3661 6546 4.087182 CAGAGTAGGGTCTCACAAGGTAA 58.913 47.826 0.00 0.00 36.97 2.85
3662 6547 4.527038 CAGAGTAGGGTCTCACAAGGTAAA 59.473 45.833 0.00 0.00 36.97 2.01
3663 6548 4.773149 AGAGTAGGGTCTCACAAGGTAAAG 59.227 45.833 0.00 0.00 36.97 1.85
3664 6549 4.748701 AGTAGGGTCTCACAAGGTAAAGA 58.251 43.478 0.00 0.00 0.00 2.52
3665 6550 5.152934 AGTAGGGTCTCACAAGGTAAAGAA 58.847 41.667 0.00 0.00 0.00 2.52
3666 6551 5.785940 AGTAGGGTCTCACAAGGTAAAGAAT 59.214 40.000 0.00 0.00 0.00 2.40
3667 6552 5.167303 AGGGTCTCACAAGGTAAAGAATC 57.833 43.478 0.00 0.00 0.00 2.52
3668 6553 4.846940 AGGGTCTCACAAGGTAAAGAATCT 59.153 41.667 0.00 0.00 0.00 2.40
3669 6554 5.046231 AGGGTCTCACAAGGTAAAGAATCTC 60.046 44.000 0.00 0.00 0.00 2.75
3670 6555 5.179533 GGTCTCACAAGGTAAAGAATCTCC 58.820 45.833 0.00 0.00 0.00 3.71
3671 6556 5.280011 GGTCTCACAAGGTAAAGAATCTCCA 60.280 44.000 0.00 0.00 0.00 3.86
3672 6557 6.410540 GTCTCACAAGGTAAAGAATCTCCAT 58.589 40.000 0.00 0.00 0.00 3.41
3673 6558 6.881602 GTCTCACAAGGTAAAGAATCTCCATT 59.118 38.462 0.00 0.00 0.00 3.16
3674 6559 7.065204 GTCTCACAAGGTAAAGAATCTCCATTC 59.935 40.741 0.00 0.00 39.10 2.67
3676 6561 6.881065 TCACAAGGTAAAGAATCTCCATTCTG 59.119 38.462 0.00 0.00 46.96 3.02
3677 6562 5.649831 ACAAGGTAAAGAATCTCCATTCTGC 59.350 40.000 0.00 0.00 46.96 4.26
3678 6563 5.707066 AGGTAAAGAATCTCCATTCTGCT 57.293 39.130 0.00 0.00 46.96 4.24
3679 6564 5.435291 AGGTAAAGAATCTCCATTCTGCTG 58.565 41.667 0.00 0.00 46.96 4.41
3680 6565 5.190528 AGGTAAAGAATCTCCATTCTGCTGA 59.809 40.000 0.00 0.00 46.96 4.26
3681 6566 6.060788 GGTAAAGAATCTCCATTCTGCTGAT 58.939 40.000 0.00 0.00 46.96 2.90
3682 6567 6.545298 GGTAAAGAATCTCCATTCTGCTGATT 59.455 38.462 0.00 0.00 46.96 2.57
3683 6568 6.452494 AAAGAATCTCCATTCTGCTGATTG 57.548 37.500 8.13 8.13 46.96 2.67
3684 6569 5.113446 AGAATCTCCATTCTGCTGATTGT 57.887 39.130 12.61 0.00 46.06 2.71
3685 6570 5.124645 AGAATCTCCATTCTGCTGATTGTC 58.875 41.667 12.61 5.34 46.06 3.18
3686 6571 3.986996 TCTCCATTCTGCTGATTGTCA 57.013 42.857 12.61 1.36 0.00 3.58
3687 6572 3.870274 TCTCCATTCTGCTGATTGTCAG 58.130 45.455 12.61 2.65 46.90 3.51
3721 6606 9.160496 CTTTCTAAAGCTTATCTGTCATTGTCT 57.840 33.333 0.00 0.00 0.00 3.41
3722 6607 8.709386 TTCTAAAGCTTATCTGTCATTGTCTC 57.291 34.615 0.00 0.00 0.00 3.36
3723 6608 8.072321 TCTAAAGCTTATCTGTCATTGTCTCT 57.928 34.615 0.00 0.00 0.00 3.10
3724 6609 8.194104 TCTAAAGCTTATCTGTCATTGTCTCTC 58.806 37.037 0.00 0.00 0.00 3.20
3725 6610 6.543430 AAGCTTATCTGTCATTGTCTCTCT 57.457 37.500 0.00 0.00 0.00 3.10
3726 6611 7.652524 AAGCTTATCTGTCATTGTCTCTCTA 57.347 36.000 0.00 0.00 0.00 2.43
3727 6612 7.652524 AGCTTATCTGTCATTGTCTCTCTAA 57.347 36.000 0.00 0.00 0.00 2.10
3728 6613 8.072321 AGCTTATCTGTCATTGTCTCTCTAAA 57.928 34.615 0.00 0.00 0.00 1.85
3729 6614 8.196771 AGCTTATCTGTCATTGTCTCTCTAAAG 58.803 37.037 0.00 0.00 0.00 1.85
3730 6615 7.978975 GCTTATCTGTCATTGTCTCTCTAAAGT 59.021 37.037 0.00 0.00 0.00 2.66
3731 6616 9.868277 CTTATCTGTCATTGTCTCTCTAAAGTT 57.132 33.333 0.00 0.00 0.00 2.66
3732 6617 9.862371 TTATCTGTCATTGTCTCTCTAAAGTTC 57.138 33.333 0.00 0.00 0.00 3.01
3733 6618 6.692486 TCTGTCATTGTCTCTCTAAAGTTCC 58.308 40.000 0.00 0.00 0.00 3.62
3734 6619 6.495181 TCTGTCATTGTCTCTCTAAAGTTCCT 59.505 38.462 0.00 0.00 0.00 3.36
3735 6620 6.692486 TGTCATTGTCTCTCTAAAGTTCCTC 58.308 40.000 0.00 0.00 0.00 3.71
3736 6621 6.495181 TGTCATTGTCTCTCTAAAGTTCCTCT 59.505 38.462 0.00 0.00 0.00 3.69
3737 6622 6.811170 GTCATTGTCTCTCTAAAGTTCCTCTG 59.189 42.308 0.00 0.00 0.00 3.35
3738 6623 6.721668 TCATTGTCTCTCTAAAGTTCCTCTGA 59.278 38.462 0.00 0.00 0.00 3.27
3739 6624 7.398618 TCATTGTCTCTCTAAAGTTCCTCTGAT 59.601 37.037 0.00 0.00 0.00 2.90
3740 6625 6.522625 TGTCTCTCTAAAGTTCCTCTGATG 57.477 41.667 0.00 0.00 0.00 3.07
3741 6626 5.420421 TGTCTCTCTAAAGTTCCTCTGATGG 59.580 44.000 0.00 0.00 0.00 3.51
3742 6627 4.404073 TCTCTCTAAAGTTCCTCTGATGGC 59.596 45.833 0.00 0.00 0.00 4.40
3743 6628 4.357325 TCTCTAAAGTTCCTCTGATGGCT 58.643 43.478 0.00 0.00 0.00 4.75
3744 6629 4.404073 TCTCTAAAGTTCCTCTGATGGCTC 59.596 45.833 0.00 0.00 0.00 4.70
3745 6630 2.393271 AAAGTTCCTCTGATGGCTCG 57.607 50.000 0.00 0.00 0.00 5.03
3746 6631 0.107945 AAGTTCCTCTGATGGCTCGC 60.108 55.000 0.00 0.00 0.00 5.03
3747 6632 0.975040 AGTTCCTCTGATGGCTCGCT 60.975 55.000 0.00 0.00 0.00 4.93
3748 6633 0.529555 GTTCCTCTGATGGCTCGCTC 60.530 60.000 0.00 0.00 0.00 5.03
3749 6634 0.685785 TTCCTCTGATGGCTCGCTCT 60.686 55.000 0.00 0.00 0.00 4.09
3750 6635 1.106351 TCCTCTGATGGCTCGCTCTC 61.106 60.000 0.00 0.00 0.00 3.20
3751 6636 1.008652 CTCTGATGGCTCGCTCTCG 60.009 63.158 0.00 0.00 0.00 4.04
3752 6637 2.657944 CTGATGGCTCGCTCTCGC 60.658 66.667 0.00 0.00 35.26 5.03
3753 6638 3.136345 CTGATGGCTCGCTCTCGCT 62.136 63.158 0.00 0.00 35.26 4.93
3754 6639 2.354539 GATGGCTCGCTCTCGCTC 60.355 66.667 0.00 0.00 35.26 5.03
3755 6640 2.832661 ATGGCTCGCTCTCGCTCT 60.833 61.111 0.00 0.00 35.26 4.09
3756 6641 2.731587 GATGGCTCGCTCTCGCTCTC 62.732 65.000 0.00 0.00 35.26 3.20
3757 6642 4.605967 GGCTCGCTCTCGCTCTCG 62.606 72.222 0.00 0.00 35.26 4.04
3759 6644 3.572539 CTCGCTCTCGCTCTCGCT 61.573 66.667 0.00 0.00 35.26 4.93
3760 6645 3.506312 CTCGCTCTCGCTCTCGCTC 62.506 68.421 0.00 0.00 35.26 5.03
3761 6646 4.605967 CGCTCTCGCTCTCGCTCC 62.606 72.222 0.00 0.00 35.26 4.70
3762 6647 4.605967 GCTCTCGCTCTCGCTCCG 62.606 72.222 0.00 0.00 35.26 4.63
3763 6648 4.605967 CTCTCGCTCTCGCTCCGC 62.606 72.222 0.00 0.00 35.26 5.54
3765 6650 4.605967 CTCGCTCTCGCTCCGCTC 62.606 72.222 0.00 0.00 35.26 5.03
3777 6662 4.475444 CCGCTCCCCTCCCACCTA 62.475 72.222 0.00 0.00 0.00 3.08
3778 6663 2.840102 CGCTCCCCTCCCACCTAG 60.840 72.222 0.00 0.00 0.00 3.02
3779 6664 3.164977 GCTCCCCTCCCACCTAGC 61.165 72.222 0.00 0.00 0.00 3.42
3780 6665 2.699496 CTCCCCTCCCACCTAGCT 59.301 66.667 0.00 0.00 0.00 3.32
3781 6666 1.458588 CTCCCCTCCCACCTAGCTC 60.459 68.421 0.00 0.00 0.00 4.09
3782 6667 2.446802 CCCCTCCCACCTAGCTCC 60.447 72.222 0.00 0.00 0.00 4.70
3783 6668 2.840102 CCCTCCCACCTAGCTCCG 60.840 72.222 0.00 0.00 0.00 4.63
3784 6669 3.541713 CCTCCCACCTAGCTCCGC 61.542 72.222 0.00 0.00 0.00 5.54
3785 6670 3.905678 CTCCCACCTAGCTCCGCG 61.906 72.222 0.00 0.00 0.00 6.46
3786 6671 4.753662 TCCCACCTAGCTCCGCGT 62.754 66.667 4.92 0.00 0.00 6.01
3787 6672 2.831742 CCCACCTAGCTCCGCGTA 60.832 66.667 4.92 0.00 0.00 4.42
3788 6673 2.722487 CCACCTAGCTCCGCGTAG 59.278 66.667 4.92 0.00 0.00 3.51
3789 6674 1.822613 CCACCTAGCTCCGCGTAGA 60.823 63.158 1.57 0.00 0.00 2.59
3790 6675 1.355916 CACCTAGCTCCGCGTAGAC 59.644 63.158 1.57 0.00 0.00 2.59
3791 6676 1.096386 CACCTAGCTCCGCGTAGACT 61.096 60.000 1.57 1.74 0.00 3.24
3792 6677 0.814812 ACCTAGCTCCGCGTAGACTC 60.815 60.000 1.57 0.00 0.00 3.36
3793 6678 1.565591 CTAGCTCCGCGTAGACTCG 59.434 63.158 1.57 0.00 0.00 4.18
3801 6686 4.310672 CGTAGACTCGCAGCATCC 57.689 61.111 0.00 0.00 0.00 3.51
3802 6687 1.299468 CGTAGACTCGCAGCATCCC 60.299 63.158 0.00 0.00 0.00 3.85
3803 6688 1.816537 GTAGACTCGCAGCATCCCA 59.183 57.895 0.00 0.00 0.00 4.37
3804 6689 0.249238 GTAGACTCGCAGCATCCCAG 60.249 60.000 0.00 0.00 0.00 4.45
3805 6690 2.021068 TAGACTCGCAGCATCCCAGC 62.021 60.000 0.00 0.00 0.00 4.85
3806 6691 4.479993 ACTCGCAGCATCCCAGCC 62.480 66.667 0.00 0.00 34.23 4.85
3827 6712 2.753043 GTCGACTCCCCGCCTGTA 60.753 66.667 8.70 0.00 0.00 2.74
3828 6713 2.439701 TCGACTCCCCGCCTGTAG 60.440 66.667 0.00 0.00 0.00 2.74
3829 6714 4.208686 CGACTCCCCGCCTGTAGC 62.209 72.222 0.00 0.00 38.52 3.58
3830 6715 3.851128 GACTCCCCGCCTGTAGCC 61.851 72.222 0.00 0.00 38.78 3.93
3836 6721 4.162690 CCGCCTGTAGCCCACCTC 62.163 72.222 0.00 0.00 38.78 3.85
3837 6722 4.162690 CGCCTGTAGCCCACCTCC 62.163 72.222 0.00 0.00 38.78 4.30
3838 6723 3.798511 GCCTGTAGCCCACCTCCC 61.799 72.222 0.00 0.00 34.35 4.30
3839 6724 3.090532 CCTGTAGCCCACCTCCCC 61.091 72.222 0.00 0.00 0.00 4.81
3840 6725 3.090532 CTGTAGCCCACCTCCCCC 61.091 72.222 0.00 0.00 0.00 5.40
3888 6773 4.048470 GGCGGCCCTCCTTTTCCT 62.048 66.667 8.12 0.00 0.00 3.36
3889 6774 2.438614 GCGGCCCTCCTTTTCCTC 60.439 66.667 0.00 0.00 0.00 3.71
3890 6775 2.272471 CGGCCCTCCTTTTCCTCC 59.728 66.667 0.00 0.00 0.00 4.30
3891 6776 2.301738 CGGCCCTCCTTTTCCTCCT 61.302 63.158 0.00 0.00 0.00 3.69
3892 6777 1.610327 GGCCCTCCTTTTCCTCCTC 59.390 63.158 0.00 0.00 0.00 3.71
3893 6778 1.208165 GGCCCTCCTTTTCCTCCTCA 61.208 60.000 0.00 0.00 0.00 3.86
3894 6779 0.254462 GCCCTCCTTTTCCTCCTCAG 59.746 60.000 0.00 0.00 0.00 3.35
3895 6780 0.254462 CCCTCCTTTTCCTCCTCAGC 59.746 60.000 0.00 0.00 0.00 4.26
3896 6781 0.254462 CCTCCTTTTCCTCCTCAGCC 59.746 60.000 0.00 0.00 0.00 4.85
3897 6782 0.254462 CTCCTTTTCCTCCTCAGCCC 59.746 60.000 0.00 0.00 0.00 5.19
3898 6783 0.178861 TCCTTTTCCTCCTCAGCCCT 60.179 55.000 0.00 0.00 0.00 5.19
3899 6784 0.254462 CCTTTTCCTCCTCAGCCCTC 59.746 60.000 0.00 0.00 0.00 4.30
3900 6785 0.254462 CTTTTCCTCCTCAGCCCTCC 59.746 60.000 0.00 0.00 0.00 4.30
3901 6786 0.178861 TTTTCCTCCTCAGCCCTCCT 60.179 55.000 0.00 0.00 0.00 3.69
3902 6787 0.618968 TTTCCTCCTCAGCCCTCCTC 60.619 60.000 0.00 0.00 0.00 3.71
3903 6788 2.445654 CCTCCTCAGCCCTCCTCC 60.446 72.222 0.00 0.00 0.00 4.30
3904 6789 2.837291 CTCCTCAGCCCTCCTCCG 60.837 72.222 0.00 0.00 0.00 4.63
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.554959 TGGAGGATATGTTTAATACTCCCTC 57.445 40.000 11.04 0.00 41.71 4.30
1 2 7.474936 GCTTGGAGGATATGTTTAATACTCCCT 60.475 40.741 11.04 0.00 41.71 4.20
2 3 6.655425 GCTTGGAGGATATGTTTAATACTCCC 59.345 42.308 11.04 0.00 41.71 4.30
64 65 1.419374 CGTGATGCCGAATACCTAGC 58.581 55.000 0.00 0.00 0.00 3.42
66 67 3.580904 GCGTGATGCCGAATACCTA 57.419 52.632 0.00 0.00 37.76 3.08
78 79 2.427453 AGTGAGGTAATTCGAGCGTGAT 59.573 45.455 0.00 0.00 0.00 3.06
109 110 0.321210 TTGTACGGCATGGTGACTGG 60.321 55.000 0.00 0.00 0.00 4.00
111 112 0.685097 AGTTGTACGGCATGGTGACT 59.315 50.000 0.00 0.00 0.00 3.41
119 120 3.786516 TCGATTATGAGTTGTACGGCA 57.213 42.857 0.00 0.00 0.00 5.69
183 184 1.774217 AGGTTCCTTGTGGGGCTCA 60.774 57.895 0.00 0.00 35.33 4.26
278 279 3.465210 TCATGGGCCCAATATGGTCTTAA 59.535 43.478 32.58 2.20 35.17 1.85
317 318 3.281158 GGGCGGGCTAGTACAAATAAAA 58.719 45.455 0.26 0.00 0.00 1.52
329 330 2.366301 TCCAATCTGGGCGGGCTA 60.366 61.111 0.26 0.00 38.32 3.93
330 331 4.115199 GTCCAATCTGGGCGGGCT 62.115 66.667 0.26 0.00 38.32 5.19
375 379 2.166664 GCTACCCTCTTTCACGAGTGAT 59.833 50.000 6.77 0.00 39.64 3.06
445 449 4.635699 AAAAATTACCCTCTCAGTCGGT 57.364 40.909 0.00 0.00 0.00 4.69
520 525 5.048846 AGTGGTCATCCTTGTGTAAAGTT 57.951 39.130 0.00 0.00 34.23 2.66
521 526 4.706842 AGTGGTCATCCTTGTGTAAAGT 57.293 40.909 0.00 0.00 34.23 2.66
522 527 7.687941 AATAAGTGGTCATCCTTGTGTAAAG 57.312 36.000 0.00 0.00 34.23 1.85
557 562 2.067013 GCCAGGACTACTTTGAACGAC 58.933 52.381 0.00 0.00 0.00 4.34
564 569 0.625849 CCCATGGCCAGGACTACTTT 59.374 55.000 21.32 0.00 0.00 2.66
590 595 3.744719 GTCGGGCTTTTTCGGGCC 61.745 66.667 0.00 0.00 46.89 5.80
591 596 3.744719 GGTCGGGCTTTTTCGGGC 61.745 66.667 0.00 0.00 0.00 6.13
592 597 3.060000 GGGTCGGGCTTTTTCGGG 61.060 66.667 0.00 0.00 0.00 5.14
593 598 1.899534 TTGGGTCGGGCTTTTTCGG 60.900 57.895 0.00 0.00 0.00 4.30
594 599 1.284715 GTTGGGTCGGGCTTTTTCG 59.715 57.895 0.00 0.00 0.00 3.46
595 600 1.167781 TCGTTGGGTCGGGCTTTTTC 61.168 55.000 0.00 0.00 0.00 2.29
596 601 0.538746 ATCGTTGGGTCGGGCTTTTT 60.539 50.000 0.00 0.00 0.00 1.94
597 602 0.538746 AATCGTTGGGTCGGGCTTTT 60.539 50.000 0.00 0.00 0.00 2.27
598 603 0.958876 GAATCGTTGGGTCGGGCTTT 60.959 55.000 0.00 0.00 0.00 3.51
599 604 1.376812 GAATCGTTGGGTCGGGCTT 60.377 57.895 0.00 0.00 0.00 4.35
600 605 2.267961 GAATCGTTGGGTCGGGCT 59.732 61.111 0.00 0.00 0.00 5.19
604 609 2.359792 CGAGTGAATCGTTGGGTCG 58.640 57.895 0.00 0.00 46.62 4.79
620 625 0.471211 AAATCTAGGATCCGGCCCGA 60.471 55.000 3.71 0.00 0.00 5.14
678 688 7.047271 GCCCCTTCAATAAATTGCTAAAATGA 58.953 34.615 0.00 0.00 37.68 2.57
680 690 6.158520 AGGCCCCTTCAATAAATTGCTAAAAT 59.841 34.615 0.00 0.00 37.68 1.82
688 698 3.490060 ACCAGGCCCCTTCAATAAATT 57.510 42.857 0.00 0.00 0.00 1.82
694 704 2.124507 CTCGAACCAGGCCCCTTCAA 62.125 60.000 0.00 0.00 0.00 2.69
705 715 4.323477 CCGTTGGGCCTCGAACCA 62.323 66.667 19.54 3.03 34.29 3.67
710 720 0.320946 TAAAAGACCGTTGGGCCTCG 60.321 55.000 4.53 9.92 36.48 4.63
711 721 1.162698 GTAAAAGACCGTTGGGCCTC 58.837 55.000 4.53 0.00 36.48 4.70
789 799 1.515521 GCCCGACACAGAAAACCCAG 61.516 60.000 0.00 0.00 0.00 4.45
830 840 4.634184 TCTCACTTCGAACTATACCTGC 57.366 45.455 0.00 0.00 0.00 4.85
871 881 2.946990 GGCAGTACTAGTGTCTCTCCTC 59.053 54.545 5.39 0.00 0.00 3.71
1531 3528 0.905357 ACGAGATCTTTGACCCCCTG 59.095 55.000 0.00 0.00 0.00 4.45
2031 4393 0.663568 CCACGAGATCGGCGTTATCC 60.664 60.000 6.85 0.00 44.95 2.59
2034 4396 0.659427 CTACCACGAGATCGGCGTTA 59.341 55.000 6.85 5.11 44.95 3.18
2038 4400 2.152830 AGTATCTACCACGAGATCGGC 58.847 52.381 7.22 0.00 44.95 5.54
2118 4505 1.012086 CAATGCACCGAGGACAGATG 58.988 55.000 0.00 0.00 0.00 2.90
2287 4687 5.673068 GCAGCAACTGTATCTCATGAAGTTG 60.673 44.000 23.80 23.80 46.66 3.16
2368 4833 8.242053 GCCAGCGATAGTACAACTAATCTAATA 58.758 37.037 0.00 0.00 33.89 0.98
2381 4846 4.345337 GCTGGCCAGCGATAGTAC 57.655 61.111 40.24 14.47 45.29 2.73
2436 4906 8.664798 GTGCATACATAGTTTGATGTTAGACAA 58.335 33.333 0.00 0.00 40.54 3.18
2438 4908 8.331022 CAGTGCATACATAGTTTGATGTTAGAC 58.669 37.037 0.00 0.00 40.54 2.59
2561 5087 0.038251 TTCTTCACGCTCTGCACGAT 60.038 50.000 1.86 0.00 0.00 3.73
2780 5309 1.007271 CGCGTCCGCTCCTGAATAT 60.007 57.895 10.21 0.00 39.32 1.28
2878 5410 4.478206 CAGAGACCCTTTCTGCTTCATA 57.522 45.455 0.00 0.00 36.04 2.15
2991 5532 2.675032 GCAAACAAGCTCCCCAAATAGC 60.675 50.000 0.00 0.00 39.08 2.97
3006 5547 3.182967 CAAACTTTACTTGGCGCAAACA 58.817 40.909 10.83 0.00 0.00 2.83
3008 5549 3.512033 ACAAACTTTACTTGGCGCAAA 57.488 38.095 10.83 2.19 0.00 3.68
3009 5550 4.036971 ACATACAAACTTTACTTGGCGCAA 59.963 37.500 10.83 0.00 0.00 4.85
3010 5551 3.566322 ACATACAAACTTTACTTGGCGCA 59.434 39.130 10.83 0.00 0.00 6.09
3011 5552 3.911964 CACATACAAACTTTACTTGGCGC 59.088 43.478 0.00 0.00 0.00 6.53
3012 5553 4.472286 CCACATACAAACTTTACTTGGCG 58.528 43.478 0.00 0.00 0.00 5.69
3015 5556 6.071952 AGCATCCCACATACAAACTTTACTTG 60.072 38.462 0.00 0.00 0.00 3.16
3016 5557 6.010219 AGCATCCCACATACAAACTTTACTT 58.990 36.000 0.00 0.00 0.00 2.24
3017 5558 5.570320 AGCATCCCACATACAAACTTTACT 58.430 37.500 0.00 0.00 0.00 2.24
3018 5559 5.897377 AGCATCCCACATACAAACTTTAC 57.103 39.130 0.00 0.00 0.00 2.01
3019 5560 7.066887 CACATAGCATCCCACATACAAACTTTA 59.933 37.037 0.00 0.00 0.00 1.85
3020 5561 5.951747 ACATAGCATCCCACATACAAACTTT 59.048 36.000 0.00 0.00 0.00 2.66
3021 5562 5.357878 CACATAGCATCCCACATACAAACTT 59.642 40.000 0.00 0.00 0.00 2.66
3022 5563 4.883585 CACATAGCATCCCACATACAAACT 59.116 41.667 0.00 0.00 0.00 2.66
3137 5715 4.887071 ACAACTGCCAAGAGTGAAAACATA 59.113 37.500 0.00 0.00 0.00 2.29
3201 5779 2.872245 CAACCAAGTCTTTCGAGCTGAA 59.128 45.455 0.00 0.00 33.85 3.02
3218 5796 0.663153 GCGGACATAATCTGGCAACC 59.337 55.000 0.00 0.00 32.82 3.77
3242 5820 1.834263 GACTCCTCCCAGTAGCATTGT 59.166 52.381 0.00 0.00 0.00 2.71
3279 5863 2.401766 GCCAATGACCGTCAGCCAG 61.402 63.158 7.41 0.00 0.00 4.85
3282 5866 3.134127 GGGCCAATGACCGTCAGC 61.134 66.667 4.39 5.12 0.00 4.26
3303 5887 1.937546 CTTTGCACCTGGAATCCCGC 61.938 60.000 0.00 0.00 34.29 6.13
3304 5888 0.322456 TCTTTGCACCTGGAATCCCG 60.322 55.000 0.00 0.00 34.29 5.14
3305 5889 1.467920 CTCTTTGCACCTGGAATCCC 58.532 55.000 0.00 0.00 0.00 3.85
3306 5890 1.467920 CCTCTTTGCACCTGGAATCC 58.532 55.000 0.00 0.00 0.00 3.01
3308 5892 0.613012 GGCCTCTTTGCACCTGGAAT 60.613 55.000 0.00 0.00 0.00 3.01
3437 6025 3.561310 TCATCTTTGTGTTGTGCTCTGTC 59.439 43.478 0.00 0.00 0.00 3.51
3468 6056 2.000447 CGGCTAAGCTAACAGTGAACC 59.000 52.381 0.00 0.00 0.00 3.62
3517 6105 1.915489 ACAGGGGCAGACATAATGACA 59.085 47.619 0.00 0.00 0.00 3.58
3576 6461 9.535170 TGTTATATACTCCCTCCTATCTTTCTG 57.465 37.037 0.00 0.00 0.00 3.02
3644 6529 6.023603 AGATTCTTTACCTTGTGAGACCCTA 58.976 40.000 0.00 0.00 0.00 3.53
3647 6532 5.179533 GGAGATTCTTTACCTTGTGAGACC 58.820 45.833 0.00 0.00 0.00 3.85
3648 6533 5.794894 TGGAGATTCTTTACCTTGTGAGAC 58.205 41.667 0.00 0.00 0.00 3.36
3649 6534 6.627087 ATGGAGATTCTTTACCTTGTGAGA 57.373 37.500 0.00 0.00 0.00 3.27
3650 6535 7.065563 CAGAATGGAGATTCTTTACCTTGTGAG 59.934 40.741 0.00 0.00 45.14 3.51
3651 6536 6.881065 CAGAATGGAGATTCTTTACCTTGTGA 59.119 38.462 0.00 0.00 45.14 3.58
3652 6537 6.404074 GCAGAATGGAGATTCTTTACCTTGTG 60.404 42.308 0.00 0.00 45.14 3.33
3653 6538 5.649831 GCAGAATGGAGATTCTTTACCTTGT 59.350 40.000 0.00 0.00 45.14 3.16
3654 6539 5.884792 AGCAGAATGGAGATTCTTTACCTTG 59.115 40.000 0.00 0.00 45.14 3.61
3655 6540 5.884792 CAGCAGAATGGAGATTCTTTACCTT 59.115 40.000 0.00 0.00 45.14 3.50
3656 6541 5.190528 TCAGCAGAATGGAGATTCTTTACCT 59.809 40.000 0.00 0.00 45.14 3.08
3657 6542 5.431765 TCAGCAGAATGGAGATTCTTTACC 58.568 41.667 0.00 0.00 45.14 2.85
3658 6543 7.066766 ACAATCAGCAGAATGGAGATTCTTTAC 59.933 37.037 0.00 0.00 45.14 2.01
3659 6544 7.114754 ACAATCAGCAGAATGGAGATTCTTTA 58.885 34.615 0.00 0.00 45.14 1.85
3660 6545 5.950549 ACAATCAGCAGAATGGAGATTCTTT 59.049 36.000 0.00 0.00 45.14 2.52
3661 6546 5.507637 ACAATCAGCAGAATGGAGATTCTT 58.492 37.500 0.00 0.00 45.14 2.52
3662 6547 7.131439 CTGACAATCAGCAGAATGGAGATTCT 61.131 42.308 0.00 0.00 41.10 2.40
3663 6548 4.880120 TGACAATCAGCAGAATGGAGATTC 59.120 41.667 0.00 0.00 38.69 2.52
3664 6549 4.851843 TGACAATCAGCAGAATGGAGATT 58.148 39.130 0.00 0.00 35.86 2.40
3665 6550 4.452825 CTGACAATCAGCAGAATGGAGAT 58.547 43.478 0.00 0.00 37.72 2.75
3666 6551 3.870274 CTGACAATCAGCAGAATGGAGA 58.130 45.455 0.00 0.00 37.72 3.71
3695 6580 9.160496 AGACAATGACAGATAAGCTTTAGAAAG 57.840 33.333 3.20 0.00 39.03 2.62
3696 6581 9.155975 GAGACAATGACAGATAAGCTTTAGAAA 57.844 33.333 3.20 0.00 0.00 2.52
3697 6582 8.535335 AGAGACAATGACAGATAAGCTTTAGAA 58.465 33.333 3.20 0.00 0.00 2.10
3698 6583 8.072321 AGAGACAATGACAGATAAGCTTTAGA 57.928 34.615 3.20 0.00 0.00 2.10
3699 6584 8.196771 AGAGAGACAATGACAGATAAGCTTTAG 58.803 37.037 3.20 0.00 0.00 1.85
3700 6585 8.072321 AGAGAGACAATGACAGATAAGCTTTA 57.928 34.615 3.20 0.00 0.00 1.85
3701 6586 6.945218 AGAGAGACAATGACAGATAAGCTTT 58.055 36.000 3.20 0.00 0.00 3.51
3702 6587 6.543430 AGAGAGACAATGACAGATAAGCTT 57.457 37.500 3.48 3.48 0.00 3.74
3703 6588 7.652524 TTAGAGAGACAATGACAGATAAGCT 57.347 36.000 0.00 0.00 0.00 3.74
3704 6589 7.978975 ACTTTAGAGAGACAATGACAGATAAGC 59.021 37.037 0.00 0.00 0.00 3.09
3705 6590 9.868277 AACTTTAGAGAGACAATGACAGATAAG 57.132 33.333 0.00 0.00 0.00 1.73
3706 6591 9.862371 GAACTTTAGAGAGACAATGACAGATAA 57.138 33.333 0.00 0.00 0.00 1.75
3707 6592 8.470805 GGAACTTTAGAGAGACAATGACAGATA 58.529 37.037 0.00 0.00 0.00 1.98
3708 6593 7.180051 AGGAACTTTAGAGAGACAATGACAGAT 59.820 37.037 0.00 0.00 27.25 2.90
3709 6594 6.495181 AGGAACTTTAGAGAGACAATGACAGA 59.505 38.462 0.00 0.00 27.25 3.41
3710 6595 6.696411 AGGAACTTTAGAGAGACAATGACAG 58.304 40.000 0.00 0.00 27.25 3.51
3711 6596 6.495181 AGAGGAACTTTAGAGAGACAATGACA 59.505 38.462 0.00 0.00 41.55 3.58
3712 6597 6.811170 CAGAGGAACTTTAGAGAGACAATGAC 59.189 42.308 0.00 0.00 41.55 3.06
3713 6598 6.721668 TCAGAGGAACTTTAGAGAGACAATGA 59.278 38.462 0.00 0.00 41.55 2.57
3714 6599 6.929625 TCAGAGGAACTTTAGAGAGACAATG 58.070 40.000 0.00 0.00 41.55 2.82
3715 6600 7.364585 CCATCAGAGGAACTTTAGAGAGACAAT 60.365 40.741 0.00 0.00 41.55 2.71
3716 6601 6.071108 CCATCAGAGGAACTTTAGAGAGACAA 60.071 42.308 0.00 0.00 41.55 3.18
3717 6602 5.420421 CCATCAGAGGAACTTTAGAGAGACA 59.580 44.000 0.00 0.00 41.55 3.41
3718 6603 5.681179 GCCATCAGAGGAACTTTAGAGAGAC 60.681 48.000 0.00 0.00 41.55 3.36
3719 6604 4.404073 GCCATCAGAGGAACTTTAGAGAGA 59.596 45.833 0.00 0.00 41.55 3.10
3720 6605 4.405358 AGCCATCAGAGGAACTTTAGAGAG 59.595 45.833 0.00 0.00 41.55 3.20
3721 6606 4.357325 AGCCATCAGAGGAACTTTAGAGA 58.643 43.478 0.00 0.00 41.55 3.10
3722 6607 4.692228 GAGCCATCAGAGGAACTTTAGAG 58.308 47.826 0.00 0.00 41.55 2.43
3723 6608 3.131223 CGAGCCATCAGAGGAACTTTAGA 59.869 47.826 0.00 0.00 41.55 2.10
3724 6609 3.452474 CGAGCCATCAGAGGAACTTTAG 58.548 50.000 0.00 0.00 41.55 1.85
3725 6610 2.418746 GCGAGCCATCAGAGGAACTTTA 60.419 50.000 0.00 0.00 41.55 1.85
3726 6611 1.677217 GCGAGCCATCAGAGGAACTTT 60.677 52.381 0.00 0.00 41.55 2.66
3727 6612 0.107945 GCGAGCCATCAGAGGAACTT 60.108 55.000 0.00 0.00 41.55 2.66
3729 6614 0.529555 GAGCGAGCCATCAGAGGAAC 60.530 60.000 0.00 0.00 0.00 3.62
3730 6615 0.685785 AGAGCGAGCCATCAGAGGAA 60.686 55.000 0.00 0.00 0.00 3.36
3731 6616 1.076412 AGAGCGAGCCATCAGAGGA 60.076 57.895 0.00 0.00 0.00 3.71
3732 6617 1.363443 GAGAGCGAGCCATCAGAGG 59.637 63.158 0.00 0.00 0.00 3.69
3733 6618 1.008652 CGAGAGCGAGCCATCAGAG 60.009 63.158 0.00 0.00 40.82 3.35
3734 6619 3.114650 CGAGAGCGAGCCATCAGA 58.885 61.111 0.00 0.00 40.82 3.27
3760 6645 4.475444 TAGGTGGGAGGGGAGCGG 62.475 72.222 0.00 0.00 0.00 5.52
3761 6646 2.840102 CTAGGTGGGAGGGGAGCG 60.840 72.222 0.00 0.00 0.00 5.03
3762 6647 3.164977 GCTAGGTGGGAGGGGAGC 61.165 72.222 0.00 0.00 0.00 4.70
3763 6648 1.458588 GAGCTAGGTGGGAGGGGAG 60.459 68.421 0.00 0.00 0.00 4.30
3764 6649 2.696893 GAGCTAGGTGGGAGGGGA 59.303 66.667 0.00 0.00 0.00 4.81
3765 6650 2.446802 GGAGCTAGGTGGGAGGGG 60.447 72.222 0.00 0.00 0.00 4.79
3766 6651 2.840102 CGGAGCTAGGTGGGAGGG 60.840 72.222 0.00 0.00 0.00 4.30
3784 6669 1.299468 GGGATGCTGCGAGTCTACG 60.299 63.158 0.00 0.00 0.00 3.51
3785 6670 0.249238 CTGGGATGCTGCGAGTCTAC 60.249 60.000 0.00 0.00 0.00 2.59
3786 6671 2.021068 GCTGGGATGCTGCGAGTCTA 62.021 60.000 0.00 0.00 0.00 2.59
3787 6672 2.898738 CTGGGATGCTGCGAGTCT 59.101 61.111 0.00 0.00 0.00 3.24
3788 6673 2.894387 GCTGGGATGCTGCGAGTC 60.894 66.667 0.00 0.00 0.00 3.36
3789 6674 4.479993 GGCTGGGATGCTGCGAGT 62.480 66.667 0.00 0.00 0.00 4.18
3810 6695 2.753043 TACAGGCGGGGAGTCGAC 60.753 66.667 7.70 7.70 38.69 4.20
3811 6696 2.439701 CTACAGGCGGGGAGTCGA 60.440 66.667 0.00 0.00 0.00 4.20
3812 6697 4.208686 GCTACAGGCGGGGAGTCG 62.209 72.222 0.00 0.00 0.00 4.18
3813 6698 3.851128 GGCTACAGGCGGGGAGTC 61.851 72.222 0.00 0.00 42.94 3.36
3819 6704 4.162690 GAGGTGGGCTACAGGCGG 62.163 72.222 2.66 0.00 42.94 6.13
3820 6705 4.162690 GGAGGTGGGCTACAGGCG 62.163 72.222 2.66 0.00 42.94 5.52
3821 6706 3.798511 GGGAGGTGGGCTACAGGC 61.799 72.222 2.66 0.00 40.90 4.85
3822 6707 3.090532 GGGGAGGTGGGCTACAGG 61.091 72.222 2.66 0.00 0.00 4.00
3823 6708 3.090532 GGGGGAGGTGGGCTACAG 61.091 72.222 2.66 0.00 0.00 2.74
3871 6756 3.997400 GAGGAAAAGGAGGGCCGCC 62.997 68.421 19.88 19.88 39.96 6.13
3872 6757 2.438614 GAGGAAAAGGAGGGCCGC 60.439 66.667 0.00 0.00 39.96 6.53
3873 6758 2.258748 GAGGAGGAAAAGGAGGGCCG 62.259 65.000 0.00 0.00 39.96 6.13
3874 6759 1.208165 TGAGGAGGAAAAGGAGGGCC 61.208 60.000 0.00 0.00 0.00 5.80
3875 6760 0.254462 CTGAGGAGGAAAAGGAGGGC 59.746 60.000 0.00 0.00 0.00 5.19
3876 6761 0.254462 GCTGAGGAGGAAAAGGAGGG 59.746 60.000 0.00 0.00 0.00 4.30
3877 6762 0.254462 GGCTGAGGAGGAAAAGGAGG 59.746 60.000 0.00 0.00 0.00 4.30
3878 6763 0.254462 GGGCTGAGGAGGAAAAGGAG 59.746 60.000 0.00 0.00 0.00 3.69
3879 6764 0.178861 AGGGCTGAGGAGGAAAAGGA 60.179 55.000 0.00 0.00 0.00 3.36
3880 6765 0.254462 GAGGGCTGAGGAGGAAAAGG 59.746 60.000 0.00 0.00 0.00 3.11
3881 6766 0.254462 GGAGGGCTGAGGAGGAAAAG 59.746 60.000 0.00 0.00 0.00 2.27
3882 6767 0.178861 AGGAGGGCTGAGGAGGAAAA 60.179 55.000 0.00 0.00 0.00 2.29
3883 6768 0.618968 GAGGAGGGCTGAGGAGGAAA 60.619 60.000 0.00 0.00 0.00 3.13
3884 6769 1.002274 GAGGAGGGCTGAGGAGGAA 59.998 63.158 0.00 0.00 0.00 3.36
3885 6770 2.693017 GAGGAGGGCTGAGGAGGA 59.307 66.667 0.00 0.00 0.00 3.71
3886 6771 2.445654 GGAGGAGGGCTGAGGAGG 60.446 72.222 0.00 0.00 0.00 4.30
3887 6772 2.837291 CGGAGGAGGGCTGAGGAG 60.837 72.222 0.00 0.00 0.00 3.69


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

AutoCloner maintained by Alex Coulton.