Multiple sequence alignment - TraesCS1D01G314400

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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 TraesCS1D01G314400 chr1D 100.000 5054 0 0 1 5054 409534942 409539995 0.000000e+00 9334.0
1 TraesCS1D01G314400 chr1D 97.126 174 3 2 4824 4995 238940380 238940207 4.950000e-75 292.0
2 TraesCS1D01G314400 chr1B 94.094 4470 174 37 18 4458 551720657 551725065 0.000000e+00 6709.0
3 TraesCS1D01G314400 chr1B 95.109 368 17 1 4457 4823 551725121 551725488 3.390000e-161 579.0
4 TraesCS1D01G314400 chr1B 83.771 419 51 11 525 938 167998580 167998174 1.030000e-101 381.0
5 TraesCS1D01G314400 chr1B 85.849 212 27 3 733 941 90417790 90418001 6.590000e-54 222.0
6 TraesCS1D01G314400 chr1B 84.892 139 10 5 1 133 55152051 55151918 4.110000e-26 130.0
7 TraesCS1D01G314400 chr1A 93.381 3792 147 34 95 3861 505536881 505540593 0.000000e+00 5517.0
8 TraesCS1D01G314400 chr1A 92.154 599 21 6 3885 4458 505540872 505541469 0.000000e+00 822.0
9 TraesCS1D01G314400 chr1A 85.265 604 65 16 23 614 547253793 547254384 7.240000e-168 601.0
10 TraesCS1D01G314400 chr1A 87.263 369 25 1 4457 4825 505541522 505541868 7.880000e-108 401.0
11 TraesCS1D01G314400 chr1A 84.450 418 47 13 23 436 547241687 547242090 3.670000e-106 396.0
12 TraesCS1D01G314400 chr1A 83.641 434 46 13 525 945 115368207 115367786 7.940000e-103 385.0
13 TraesCS1D01G314400 chr1A 83.732 418 51 13 23 436 547219796 547220200 3.690000e-101 379.0
14 TraesCS1D01G314400 chr1A 93.976 166 9 1 1 165 505536752 505536917 3.020000e-62 250.0
15 TraesCS1D01G314400 chr5B 85.031 1757 174 50 2515 4237 582834179 582835880 0.000000e+00 1705.0
16 TraesCS1D01G314400 chr5B 85.079 945 95 27 22 945 692786552 692785633 0.000000e+00 922.0
17 TraesCS1D01G314400 chr5B 83.333 1002 113 29 1529 2497 582833213 582834193 0.000000e+00 876.0
18 TraesCS1D01G314400 chr5B 82.458 952 116 31 26 943 12860587 12859653 0.000000e+00 785.0
19 TraesCS1D01G314400 chr5B 89.223 566 46 10 972 1524 582832611 582833174 0.000000e+00 693.0
20 TraesCS1D01G314400 chr5A 85.267 1629 154 42 2629 4237 594954759 594956321 0.000000e+00 1600.0
21 TraesCS1D01G314400 chr5A 82.513 995 127 29 1529 2498 594953722 594954694 0.000000e+00 830.0
22 TraesCS1D01G314400 chr5A 81.606 984 119 31 1 943 9856894 9855932 0.000000e+00 758.0
23 TraesCS1D01G314400 chr5A 88.328 574 52 7 972 1532 594953120 594953691 0.000000e+00 675.0
24 TraesCS1D01G314400 chr5A 82.456 114 15 4 2231 2343 594978246 594978355 1.500000e-15 95.3
25 TraesCS1D01G314400 chr5D 88.682 1184 96 23 3064 4237 475501801 475502956 0.000000e+00 1410.0
26 TraesCS1D01G314400 chr5D 80.278 1440 178 56 1628 3022 475500420 475501798 0.000000e+00 989.0
27 TraesCS1D01G314400 chr5D 83.061 980 113 30 1 943 12992759 12991796 0.000000e+00 841.0
28 TraesCS1D01G314400 chr5D 82.280 965 102 33 19 953 114628122 114627197 0.000000e+00 771.0
29 TraesCS1D01G314400 chr5D 88.401 569 47 10 972 1532 475499757 475500314 0.000000e+00 667.0
30 TraesCS1D01G314400 chr5D 97.110 173 5 0 4824 4996 274578176 274578004 4.950000e-75 292.0
31 TraesCS1D01G314400 chr6A 83.851 966 96 35 1 943 579956411 579955483 0.000000e+00 865.0
32 TraesCS1D01G314400 chr6A 83.244 937 107 27 39 952 535995869 535994960 0.000000e+00 815.0
33 TraesCS1D01G314400 chr6A 97.674 172 4 0 4824 4995 153669712 153669883 3.830000e-76 296.0
34 TraesCS1D01G314400 chr6D 83.230 966 103 32 1 943 433769314 433768385 0.000000e+00 832.0
35 TraesCS1D01G314400 chr2A 83.157 944 95 34 16 939 691231248 691230349 0.000000e+00 804.0
36 TraesCS1D01G314400 chr2A 97.110 173 5 0 4824 4996 746756990 746757162 4.950000e-75 292.0
37 TraesCS1D01G314400 chr6B 84.211 361 42 11 591 943 656033730 656033377 2.250000e-88 337.0
38 TraesCS1D01G314400 chr3B 99.394 165 1 0 4824 4988 62969931 62970095 2.960000e-77 300.0
39 TraesCS1D01G314400 chr2D 98.235 170 3 0 4822 4991 29162387 29162556 1.060000e-76 298.0
40 TraesCS1D01G314400 chr2D 97.110 173 4 1 4824 4996 516708312 516708483 1.780000e-74 291.0
41 TraesCS1D01G314400 chr3A 95.628 183 8 0 4817 4999 744921118 744920936 1.380000e-75 294.0
42 TraesCS1D01G314400 chr4D 97.126 174 4 1 4824 4997 75782217 75782045 4.950000e-75 292.0
43 TraesCS1D01G314400 chr4B 85.401 137 11 5 1 133 227918356 227918225 3.170000e-27 134.0
44 TraesCS1D01G314400 chr7B 84.173 139 10 7 1 133 107411733 107411865 1.910000e-24 124.0
45 TraesCS1D01G314400 chr7B 84.173 139 11 5 1 133 123334033 123333900 1.910000e-24 124.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS1D01G314400 chr1D 409534942 409539995 5053 False 9334.000000 9334 100.000000 1 5054 1 chr1D.!!$F1 5053
1 TraesCS1D01G314400 chr1B 551720657 551725488 4831 False 3644.000000 6709 94.601500 18 4823 2 chr1B.!!$F2 4805
2 TraesCS1D01G314400 chr1A 505536752 505541868 5116 False 1747.500000 5517 91.693500 1 4825 4 chr1A.!!$F4 4824
3 TraesCS1D01G314400 chr1A 547253793 547254384 591 False 601.000000 601 85.265000 23 614 1 chr1A.!!$F3 591
4 TraesCS1D01G314400 chr5B 582832611 582835880 3269 False 1091.333333 1705 85.862333 972 4237 3 chr5B.!!$F1 3265
5 TraesCS1D01G314400 chr5B 692785633 692786552 919 True 922.000000 922 85.079000 22 945 1 chr5B.!!$R2 923
6 TraesCS1D01G314400 chr5B 12859653 12860587 934 True 785.000000 785 82.458000 26 943 1 chr5B.!!$R1 917
7 TraesCS1D01G314400 chr5A 594953120 594956321 3201 False 1035.000000 1600 85.369333 972 4237 3 chr5A.!!$F2 3265
8 TraesCS1D01G314400 chr5A 9855932 9856894 962 True 758.000000 758 81.606000 1 943 1 chr5A.!!$R1 942
9 TraesCS1D01G314400 chr5D 475499757 475502956 3199 False 1022.000000 1410 85.787000 972 4237 3 chr5D.!!$F1 3265
10 TraesCS1D01G314400 chr5D 12991796 12992759 963 True 841.000000 841 83.061000 1 943 1 chr5D.!!$R1 942
11 TraesCS1D01G314400 chr5D 114627197 114628122 925 True 771.000000 771 82.280000 19 953 1 chr5D.!!$R2 934
12 TraesCS1D01G314400 chr6A 579955483 579956411 928 True 865.000000 865 83.851000 1 943 1 chr6A.!!$R2 942
13 TraesCS1D01G314400 chr6A 535994960 535995869 909 True 815.000000 815 83.244000 39 952 1 chr6A.!!$R1 913
14 TraesCS1D01G314400 chr6D 433768385 433769314 929 True 832.000000 832 83.230000 1 943 1 chr6D.!!$R1 942
15 TraesCS1D01G314400 chr2A 691230349 691231248 899 True 804.000000 804 83.157000 16 939 1 chr2A.!!$R1 923

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
769 874 2.422945 GGAACTTGGAGTTGGAACAGGT 60.423 50.0 0.0 0.0 38.80 4.00 F
1487 1628 0.696501 GTCTTACTTTCCCCCAGCCA 59.303 55.0 0.0 0.0 0.00 4.75 F
3062 3338 1.097232 ATGCGATGTCCACCAATGTG 58.903 50.0 0.0 0.0 42.39 3.21 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1640 1819 0.531200 CTTCCTACCTCACACGACCC 59.469 60.0 0.0 0.0 0.0 4.46 R
3450 3735 0.614415 TCGGCCCTGCAAAATGGAAT 60.614 50.0 0.0 0.0 0.0 3.01 R
5009 5649 0.036732 GACCTGACCCAATGCTGACA 59.963 55.0 0.0 0.0 0.0 3.58 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
144 194 7.821359 AGATTGGATATTGTGTCGGATGAATAG 59.179 37.037 0.00 0.00 0.00 1.73
271 334 4.704540 TGTAGGGGCAAATGTTTACAGATG 59.295 41.667 0.00 0.00 0.00 2.90
440 517 2.696506 CATGCAGTTTGAGAGAGCAGA 58.303 47.619 0.00 0.00 38.75 4.26
441 518 3.271729 CATGCAGTTTGAGAGAGCAGAT 58.728 45.455 0.00 0.00 38.75 2.90
442 519 3.413846 TGCAGTTTGAGAGAGCAGATT 57.586 42.857 0.00 0.00 0.00 2.40
460 540 6.599638 AGCAGATTCTTTGTCTTGGTTATACC 59.400 38.462 0.00 0.00 39.22 2.73
480 560 2.977169 CCAGCCGAAATTTGTTAACACG 59.023 45.455 8.07 8.15 0.00 4.49
502 587 6.529125 CACGTTAGTACTAGTGGTATTGTTGG 59.471 42.308 5.39 0.00 32.56 3.77
769 874 2.422945 GGAACTTGGAGTTGGAACAGGT 60.423 50.000 0.00 0.00 38.80 4.00
850 955 3.252974 AGAAGGTAATCTGCTGTTCCG 57.747 47.619 0.00 0.00 27.65 4.30
865 973 4.918583 GCTGTTCCGAGCTTCTATACATAC 59.081 45.833 0.00 0.00 35.95 2.39
866 974 5.278561 GCTGTTCCGAGCTTCTATACATACT 60.279 44.000 0.00 0.00 35.95 2.12
1009 1137 4.266962 CTCCTCTGATGGAGCGGA 57.733 61.111 9.29 0.00 45.84 5.54
1106 1234 1.497161 GAGAAGCAGGTAGGCCCTTA 58.503 55.000 0.00 0.00 42.73 2.69
1110 1238 3.269643 AGAAGCAGGTAGGCCCTTAAAAT 59.730 43.478 0.00 0.00 42.73 1.82
1206 1342 1.072159 GGCAATCCAGAGCGGCTAT 59.928 57.895 0.60 0.00 33.14 2.97
1487 1628 0.696501 GTCTTACTTTCCCCCAGCCA 59.303 55.000 0.00 0.00 0.00 4.75
1589 1768 4.080413 CCCCACAGAAATGCCCATAAAATT 60.080 41.667 0.00 0.00 0.00 1.82
1640 1819 8.023128 CACTGGTGAAGTATTTACTTTGATTGG 58.977 37.037 4.57 0.00 45.84 3.16
1746 1936 7.648142 ACTATGTGTTTAGTCATGTTGGTTTG 58.352 34.615 0.00 0.00 0.00 2.93
1766 1956 6.481644 GGTTTGTCATGCCTTGTTGAAATTAA 59.518 34.615 0.00 0.00 0.00 1.40
1894 2084 6.263168 CCAGAACATCTTTAGAAACACAAGGT 59.737 38.462 0.00 0.00 0.00 3.50
1906 2096 3.577805 ACACAAGGTAAAAGCCTCACT 57.422 42.857 0.00 0.00 38.03 3.41
1917 2107 1.439543 AGCCTCACTCACCCTCTTTT 58.560 50.000 0.00 0.00 0.00 2.27
1929 2119 5.433526 TCACCCTCTTTTATAAACGATGGG 58.566 41.667 23.17 23.17 34.18 4.00
1930 2120 4.036380 CACCCTCTTTTATAAACGATGGGC 59.964 45.833 23.94 0.00 32.74 5.36
2089 2280 5.648092 AGTCAAACAAACAGTCTGCTTAGTT 59.352 36.000 0.00 0.00 0.00 2.24
2154 2349 6.186957 ACATGATGGACCTATGTTGCTTTTA 58.813 36.000 0.00 0.00 31.38 1.52
2200 2395 6.284891 TGGATTTTCTGTTGATCCAATTCC 57.715 37.500 2.00 0.00 44.63 3.01
2210 2405 8.485392 TCTGTTGATCCAATTCCTTTTCTTTTT 58.515 29.630 0.00 0.00 0.00 1.94
2416 2626 9.865321 GCAATATTTTGATATGCCAGTGATAAT 57.135 29.630 0.00 0.00 34.60 1.28
2468 2723 9.947433 ATGTTTATCAACAACATGGAATTCAAT 57.053 25.926 7.93 0.00 46.17 2.57
2472 2727 9.566530 TTATCAACAACATGGAATTCAATTACG 57.433 29.630 7.93 0.00 0.00 3.18
2620 2876 8.970020 TCTAATGAAATGCATGTATGTTTCCTT 58.030 29.630 0.00 2.18 37.28 3.36
2734 3002 4.613437 ACAATAGATCCCATTTGCCTTGT 58.387 39.130 0.00 0.00 0.00 3.16
2820 3088 7.568349 TGTTGAGAATTTCAGGAGCTATACAT 58.432 34.615 0.00 0.00 37.07 2.29
3062 3338 1.097232 ATGCGATGTCCACCAATGTG 58.903 50.000 0.00 0.00 42.39 3.21
3176 3452 8.601845 ATTTGCACTTGCGTAGTATATATGAA 57.398 30.769 0.00 0.00 45.83 2.57
4060 4609 3.897141 AAACTAGTGCCTAAGCTCCTC 57.103 47.619 0.00 0.00 40.80 3.71
4169 4721 7.177216 TCCTGTACGGTACTCAGAAATCTTAAA 59.823 37.037 18.32 0.00 0.00 1.52
4170 4722 7.980099 CCTGTACGGTACTCAGAAATCTTAAAT 59.020 37.037 18.32 0.00 0.00 1.40
4171 4723 8.697846 TGTACGGTACTCAGAAATCTTAAATG 57.302 34.615 18.32 0.00 0.00 2.32
4355 4934 4.319766 CGCAGTACATTTTCATATCCAGCC 60.320 45.833 0.00 0.00 0.00 4.85
4359 4938 2.961062 ACATTTTCATATCCAGCCTGGC 59.039 45.455 11.65 11.65 37.47 4.85
4361 4940 2.645838 TTTCATATCCAGCCTGGCTC 57.354 50.000 20.49 0.00 36.40 4.70
4431 5012 5.509498 TGCTCTAATGCCACCTTAAATTCT 58.491 37.500 0.00 0.00 0.00 2.40
4499 5138 9.574458 TGTTGTTTGAATTCGAAACTTCAATAA 57.426 25.926 21.43 17.38 40.13 1.40
4544 5183 5.885465 AGAATTGAATCTTGTCCCAACTCT 58.115 37.500 0.00 0.00 0.00 3.24
4590 5229 1.269723 GTTCTGCCCAGCTGTAAAACC 59.730 52.381 13.81 0.00 0.00 3.27
4604 5243 5.245301 GCTGTAAAACCCCCTAGTCATTTTT 59.755 40.000 0.00 0.00 0.00 1.94
4740 5380 5.995897 AGGTAGTCAGGTTAACAATGTTGTC 59.004 40.000 9.15 1.63 41.31 3.18
4743 5383 5.305585 AGTCAGGTTAACAATGTTGTCGAT 58.694 37.500 9.15 0.00 41.31 3.59
4749 5389 8.233868 CAGGTTAACAATGTTGTCGATATTTGA 58.766 33.333 9.15 0.00 41.31 2.69
4772 5412 3.375299 AGTCTTCCATGCGTTAGAATTGC 59.625 43.478 0.00 0.00 0.00 3.56
4828 5468 5.584253 TCTGTAGCTGTGAGAATTACTCC 57.416 43.478 0.00 0.00 44.34 3.85
4829 5469 4.402793 TCTGTAGCTGTGAGAATTACTCCC 59.597 45.833 0.00 0.00 44.34 4.30
4830 5470 4.353777 TGTAGCTGTGAGAATTACTCCCT 58.646 43.478 0.00 0.00 44.34 4.20
4831 5471 4.402793 TGTAGCTGTGAGAATTACTCCCTC 59.597 45.833 0.00 0.00 44.34 4.30
4832 5472 3.718723 AGCTGTGAGAATTACTCCCTCT 58.281 45.455 0.00 0.00 44.34 3.69
4833 5473 3.450457 AGCTGTGAGAATTACTCCCTCTG 59.550 47.826 0.00 0.00 44.34 3.35
4834 5474 3.196685 GCTGTGAGAATTACTCCCTCTGT 59.803 47.826 0.00 0.00 44.34 3.41
4835 5475 4.323104 GCTGTGAGAATTACTCCCTCTGTT 60.323 45.833 0.00 0.00 44.34 3.16
4836 5476 5.407407 TGTGAGAATTACTCCCTCTGTTC 57.593 43.478 0.00 0.00 44.34 3.18
4837 5477 4.223032 TGTGAGAATTACTCCCTCTGTTCC 59.777 45.833 0.00 0.00 44.34 3.62
4838 5478 4.468153 GTGAGAATTACTCCCTCTGTTCCT 59.532 45.833 0.00 0.00 44.34 3.36
4839 5479 5.657302 GTGAGAATTACTCCCTCTGTTCCTA 59.343 44.000 0.00 0.00 44.34 2.94
4840 5480 6.154706 GTGAGAATTACTCCCTCTGTTCCTAA 59.845 42.308 0.00 0.00 44.34 2.69
4841 5481 6.729100 TGAGAATTACTCCCTCTGTTCCTAAA 59.271 38.462 0.00 0.00 44.34 1.85
4842 5482 7.403231 TGAGAATTACTCCCTCTGTTCCTAAAT 59.597 37.037 0.00 0.00 44.34 1.40
4843 5483 8.855804 AGAATTACTCCCTCTGTTCCTAAATA 57.144 34.615 0.00 0.00 0.00 1.40
4844 5484 9.453830 AGAATTACTCCCTCTGTTCCTAAATAT 57.546 33.333 0.00 0.00 0.00 1.28
4847 5487 9.853177 ATTACTCCCTCTGTTCCTAAATATTTG 57.147 33.333 11.05 1.40 0.00 2.32
4848 5488 7.272144 ACTCCCTCTGTTCCTAAATATTTGT 57.728 36.000 11.05 0.00 0.00 2.83
4849 5489 7.339482 ACTCCCTCTGTTCCTAAATATTTGTC 58.661 38.462 11.05 0.00 0.00 3.18
4850 5490 7.182930 ACTCCCTCTGTTCCTAAATATTTGTCT 59.817 37.037 11.05 0.00 0.00 3.41
4851 5491 7.928873 TCCCTCTGTTCCTAAATATTTGTCTT 58.071 34.615 11.05 0.00 0.00 3.01
4852 5492 8.390921 TCCCTCTGTTCCTAAATATTTGTCTTT 58.609 33.333 11.05 0.00 0.00 2.52
4853 5493 8.678199 CCCTCTGTTCCTAAATATTTGTCTTTC 58.322 37.037 11.05 0.00 0.00 2.62
4854 5494 9.454859 CCTCTGTTCCTAAATATTTGTCTTTCT 57.545 33.333 11.05 0.00 0.00 2.52
4870 5510 8.964476 TTGTCTTTCTAGAGATTTCAACAAGT 57.036 30.769 0.00 0.00 0.00 3.16
4871 5511 8.370493 TGTCTTTCTAGAGATTTCAACAAGTG 57.630 34.615 0.00 0.00 0.00 3.16
4872 5512 8.204160 TGTCTTTCTAGAGATTTCAACAAGTGA 58.796 33.333 0.00 0.00 0.00 3.41
4873 5513 8.491950 GTCTTTCTAGAGATTTCAACAAGTGAC 58.508 37.037 0.00 0.00 35.39 3.67
4874 5514 8.424918 TCTTTCTAGAGATTTCAACAAGTGACT 58.575 33.333 0.00 0.00 35.39 3.41
4875 5515 9.698309 CTTTCTAGAGATTTCAACAAGTGACTA 57.302 33.333 0.00 0.00 35.39 2.59
4876 5516 9.477484 TTTCTAGAGATTTCAACAAGTGACTAC 57.523 33.333 0.00 0.00 35.39 2.73
4877 5517 8.178313 TCTAGAGATTTCAACAAGTGACTACA 57.822 34.615 0.00 0.00 35.39 2.74
4878 5518 8.807118 TCTAGAGATTTCAACAAGTGACTACAT 58.193 33.333 0.00 0.00 35.39 2.29
4880 5520 8.764524 AGAGATTTCAACAAGTGACTACATAC 57.235 34.615 0.00 0.00 35.39 2.39
4881 5521 7.542477 AGAGATTTCAACAAGTGACTACATACG 59.458 37.037 0.00 0.00 35.39 3.06
4882 5522 6.590292 AGATTTCAACAAGTGACTACATACGG 59.410 38.462 0.00 0.00 35.39 4.02
4883 5523 5.456548 TTCAACAAGTGACTACATACGGA 57.543 39.130 0.00 0.00 35.39 4.69
4884 5524 5.055642 TCAACAAGTGACTACATACGGAG 57.944 43.478 0.00 0.00 0.00 4.63
4885 5525 5.010314 TTCAACAAGTGACTACATACGGAGT 59.990 40.000 0.00 0.00 39.84 3.85
4886 5526 6.207221 TTCAACAAGTGACTACATACGGAGTA 59.793 38.462 0.00 0.00 41.66 2.59
4887 5527 7.255555 TTCAACAAGTGACTACATACGGAGTAA 60.256 37.037 0.00 0.00 41.03 2.24
4903 5543 6.931838 ACGGAGTAAAATGAGTGAATCTACA 58.068 36.000 0.00 0.00 41.94 2.74
4904 5544 6.812160 ACGGAGTAAAATGAGTGAATCTACAC 59.188 38.462 0.00 0.00 41.94 2.90
4940 5580 9.081204 TGTTTATATACATCCGTATGTGGTAGT 57.919 33.333 3.56 0.00 45.99 2.73
4941 5581 9.565213 GTTTATATACATCCGTATGTGGTAGTC 57.435 37.037 3.56 0.00 45.99 2.59
4942 5582 6.770746 ATATACATCCGTATGTGGTAGTCC 57.229 41.667 3.56 0.00 45.99 3.85
4943 5583 2.742348 ACATCCGTATGTGGTAGTCCA 58.258 47.619 0.00 0.00 44.79 4.02
4944 5584 3.305720 ACATCCGTATGTGGTAGTCCAT 58.694 45.455 0.00 0.00 44.79 3.41
4945 5585 3.709653 ACATCCGTATGTGGTAGTCCATT 59.290 43.478 0.00 0.00 44.79 3.16
4946 5586 4.163458 ACATCCGTATGTGGTAGTCCATTT 59.837 41.667 0.00 0.00 44.79 2.32
4947 5587 4.131649 TCCGTATGTGGTAGTCCATTTG 57.868 45.455 0.00 0.00 46.20 2.32
4948 5588 3.770388 TCCGTATGTGGTAGTCCATTTGA 59.230 43.478 0.00 0.00 46.20 2.69
4949 5589 4.223255 TCCGTATGTGGTAGTCCATTTGAA 59.777 41.667 0.00 0.00 46.20 2.69
4950 5590 4.938832 CCGTATGTGGTAGTCCATTTGAAA 59.061 41.667 0.00 0.00 46.20 2.69
4951 5591 5.588648 CCGTATGTGGTAGTCCATTTGAAAT 59.411 40.000 0.00 0.00 46.20 2.17
4952 5592 6.238374 CCGTATGTGGTAGTCCATTTGAAATC 60.238 42.308 0.00 0.00 46.20 2.17
4953 5593 6.538742 CGTATGTGGTAGTCCATTTGAAATCT 59.461 38.462 0.00 0.00 46.20 2.40
4954 5594 7.254455 CGTATGTGGTAGTCCATTTGAAATCTC 60.254 40.741 0.00 0.00 46.20 2.75
4955 5595 6.126863 TGTGGTAGTCCATTTGAAATCTCT 57.873 37.500 0.00 0.00 46.20 3.10
4956 5596 7.252612 TGTGGTAGTCCATTTGAAATCTCTA 57.747 36.000 0.00 0.00 46.20 2.43
4957 5597 7.685481 TGTGGTAGTCCATTTGAAATCTCTAA 58.315 34.615 0.00 0.00 46.20 2.10
4958 5598 8.160765 TGTGGTAGTCCATTTGAAATCTCTAAA 58.839 33.333 0.00 0.00 46.20 1.85
4959 5599 9.010029 GTGGTAGTCCATTTGAAATCTCTAAAA 57.990 33.333 0.00 0.00 46.20 1.52
4960 5600 9.581289 TGGTAGTCCATTTGAAATCTCTAAAAA 57.419 29.630 0.00 0.00 39.03 1.94
4964 5604 9.354673 AGTCCATTTGAAATCTCTAAAAAGACA 57.645 29.630 0.00 0.00 0.00 3.41
4965 5605 9.965824 GTCCATTTGAAATCTCTAAAAAGACAA 57.034 29.630 0.00 0.00 0.00 3.18
4982 5622 7.625828 AAAGACAAATATTTAGGAACGGAGG 57.374 36.000 0.00 0.00 0.00 4.30
4983 5623 5.681639 AGACAAATATTTAGGAACGGAGGG 58.318 41.667 0.00 0.00 0.00 4.30
4984 5624 5.427481 AGACAAATATTTAGGAACGGAGGGA 59.573 40.000 0.00 0.00 0.00 4.20
4985 5625 5.681639 ACAAATATTTAGGAACGGAGGGAG 58.318 41.667 0.00 0.00 0.00 4.30
4986 5626 5.191124 ACAAATATTTAGGAACGGAGGGAGT 59.809 40.000 0.00 0.00 0.00 3.85
4987 5627 6.384886 ACAAATATTTAGGAACGGAGGGAGTA 59.615 38.462 0.00 0.00 0.00 2.59
4988 5628 7.072076 ACAAATATTTAGGAACGGAGGGAGTAT 59.928 37.037 0.00 0.00 0.00 2.12
4989 5629 8.591072 CAAATATTTAGGAACGGAGGGAGTATA 58.409 37.037 0.00 0.00 0.00 1.47
4990 5630 8.912614 AATATTTAGGAACGGAGGGAGTATAT 57.087 34.615 0.00 0.00 0.00 0.86
4993 5633 7.530426 TTTAGGAACGGAGGGAGTATATAAC 57.470 40.000 0.00 0.00 0.00 1.89
4994 5634 5.070823 AGGAACGGAGGGAGTATATAACA 57.929 43.478 0.00 0.00 0.00 2.41
4995 5635 5.461327 AGGAACGGAGGGAGTATATAACAA 58.539 41.667 0.00 0.00 0.00 2.83
4996 5636 5.539193 AGGAACGGAGGGAGTATATAACAAG 59.461 44.000 0.00 0.00 0.00 3.16
4997 5637 4.868314 ACGGAGGGAGTATATAACAAGC 57.132 45.455 0.00 0.00 0.00 4.01
4998 5638 4.481072 ACGGAGGGAGTATATAACAAGCT 58.519 43.478 0.00 0.00 0.00 3.74
4999 5639 4.900054 ACGGAGGGAGTATATAACAAGCTT 59.100 41.667 0.00 0.00 0.00 3.74
5000 5640 5.221461 ACGGAGGGAGTATATAACAAGCTTG 60.221 44.000 24.84 24.84 0.00 4.01
5001 5641 5.221461 CGGAGGGAGTATATAACAAGCTTGT 60.221 44.000 26.36 26.36 44.72 3.16
5002 5642 6.224584 GGAGGGAGTATATAACAAGCTTGTC 58.775 44.000 31.20 17.76 41.31 3.18
5003 5643 6.183360 GGAGGGAGTATATAACAAGCTTGTCA 60.183 42.308 31.20 19.49 41.31 3.58
5004 5644 7.380423 AGGGAGTATATAACAAGCTTGTCAT 57.620 36.000 31.20 24.99 41.31 3.06
5005 5645 7.806180 AGGGAGTATATAACAAGCTTGTCATT 58.194 34.615 31.20 18.84 41.31 2.57
5006 5646 7.716998 AGGGAGTATATAACAAGCTTGTCATTG 59.283 37.037 31.20 5.87 41.31 2.82
5007 5647 7.715249 GGGAGTATATAACAAGCTTGTCATTGA 59.285 37.037 31.20 15.66 41.31 2.57
5008 5648 9.277783 GGAGTATATAACAAGCTTGTCATTGAT 57.722 33.333 31.20 20.56 41.31 2.57
5013 5653 5.518848 AACAAGCTTGTCATTGATTGTCA 57.481 34.783 31.20 0.00 41.12 3.58
5014 5654 5.117355 ACAAGCTTGTCATTGATTGTCAG 57.883 39.130 26.36 0.00 38.20 3.51
5015 5655 3.844577 AGCTTGTCATTGATTGTCAGC 57.155 42.857 0.00 0.00 0.00 4.26
5016 5656 3.151554 AGCTTGTCATTGATTGTCAGCA 58.848 40.909 0.00 0.00 0.00 4.41
5017 5657 3.762288 AGCTTGTCATTGATTGTCAGCAT 59.238 39.130 0.00 0.00 0.00 3.79
5018 5658 4.219944 AGCTTGTCATTGATTGTCAGCATT 59.780 37.500 0.00 0.00 0.00 3.56
5019 5659 4.326278 GCTTGTCATTGATTGTCAGCATTG 59.674 41.667 0.00 0.00 0.00 2.82
5020 5660 4.443913 TGTCATTGATTGTCAGCATTGG 57.556 40.909 0.00 0.00 0.00 3.16
5021 5661 3.193903 TGTCATTGATTGTCAGCATTGGG 59.806 43.478 0.00 0.00 0.00 4.12
5022 5662 3.194116 GTCATTGATTGTCAGCATTGGGT 59.806 43.478 0.00 0.00 0.00 4.51
5023 5663 3.444742 TCATTGATTGTCAGCATTGGGTC 59.555 43.478 0.00 0.00 0.00 4.46
5024 5664 2.583024 TGATTGTCAGCATTGGGTCA 57.417 45.000 0.00 0.00 0.00 4.02
5025 5665 2.439409 TGATTGTCAGCATTGGGTCAG 58.561 47.619 0.00 0.00 0.00 3.51
5026 5666 1.747355 GATTGTCAGCATTGGGTCAGG 59.253 52.381 0.00 0.00 0.00 3.86
5027 5667 0.478072 TTGTCAGCATTGGGTCAGGT 59.522 50.000 0.00 0.00 0.00 4.00
5028 5668 0.036732 TGTCAGCATTGGGTCAGGTC 59.963 55.000 0.00 0.00 0.00 3.85
5029 5669 0.036732 GTCAGCATTGGGTCAGGTCA 59.963 55.000 0.00 0.00 0.00 4.02
5030 5670 0.036732 TCAGCATTGGGTCAGGTCAC 59.963 55.000 0.00 0.00 0.00 3.67
5031 5671 0.037303 CAGCATTGGGTCAGGTCACT 59.963 55.000 0.00 0.00 0.00 3.41
5032 5672 1.278985 CAGCATTGGGTCAGGTCACTA 59.721 52.381 0.00 0.00 0.00 2.74
5033 5673 2.092753 CAGCATTGGGTCAGGTCACTAT 60.093 50.000 0.00 0.00 0.00 2.12
5034 5674 3.134623 CAGCATTGGGTCAGGTCACTATA 59.865 47.826 0.00 0.00 0.00 1.31
5035 5675 3.389329 AGCATTGGGTCAGGTCACTATAG 59.611 47.826 0.00 0.00 0.00 1.31
5036 5676 3.134804 GCATTGGGTCAGGTCACTATAGT 59.865 47.826 0.00 0.00 0.00 2.12
5037 5677 4.384208 GCATTGGGTCAGGTCACTATAGTT 60.384 45.833 1.56 0.00 0.00 2.24
5038 5678 4.819105 TTGGGTCAGGTCACTATAGTTG 57.181 45.455 1.56 0.00 0.00 3.16
5039 5679 2.500098 TGGGTCAGGTCACTATAGTTGC 59.500 50.000 1.56 0.00 0.00 4.17
5040 5680 2.158943 GGGTCAGGTCACTATAGTTGCC 60.159 54.545 1.56 8.40 0.00 4.52
5041 5681 2.500098 GGTCAGGTCACTATAGTTGCCA 59.500 50.000 19.20 3.08 0.00 4.92
5042 5682 3.430929 GGTCAGGTCACTATAGTTGCCAG 60.431 52.174 19.20 13.69 0.00 4.85
5043 5683 2.168521 TCAGGTCACTATAGTTGCCAGC 59.831 50.000 19.20 8.05 0.00 4.85
5044 5684 1.137086 AGGTCACTATAGTTGCCAGCG 59.863 52.381 19.20 2.46 0.00 5.18
5045 5685 1.136305 GGTCACTATAGTTGCCAGCGA 59.864 52.381 1.56 0.00 0.00 4.93
5046 5686 2.418197 GGTCACTATAGTTGCCAGCGAA 60.418 50.000 1.56 0.00 0.00 4.70
5047 5687 3.259064 GTCACTATAGTTGCCAGCGAAA 58.741 45.455 1.56 0.00 0.00 3.46
5048 5688 3.062234 GTCACTATAGTTGCCAGCGAAAC 59.938 47.826 1.56 0.00 0.00 2.78
5049 5689 3.000041 CACTATAGTTGCCAGCGAAACA 59.000 45.455 1.56 0.00 0.00 2.83
5050 5690 3.062639 CACTATAGTTGCCAGCGAAACAG 59.937 47.826 1.56 0.00 0.00 3.16
5051 5691 2.185004 ATAGTTGCCAGCGAAACAGT 57.815 45.000 0.00 0.00 0.00 3.55
5052 5692 1.961793 TAGTTGCCAGCGAAACAGTT 58.038 45.000 0.00 0.00 0.00 3.16
5053 5693 0.663153 AGTTGCCAGCGAAACAGTTC 59.337 50.000 0.00 0.00 0.00 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 1.545706 AAGAGGGAGGACGAAGGTGC 61.546 60.000 0.00 0.00 34.21 5.01
14 15 0.615261 GGAAGAGGGAGGACGAAGGT 60.615 60.000 0.00 0.00 0.00 3.50
98 139 4.933330 TCTACAGCAAGTATTCATCCGAC 58.067 43.478 0.00 0.00 30.93 4.79
144 194 7.880195 AGTATCCAATATCCAATCTACAGCAAC 59.120 37.037 0.00 0.00 0.00 4.17
342 413 8.142994 TCTTTTCCTTTTCATATATCGTCAGC 57.857 34.615 0.00 0.00 0.00 4.26
374 448 2.734606 TCAAGACGGTGCAGATAAAACG 59.265 45.455 0.00 0.00 0.00 3.60
426 502 5.700373 AGACAAAGAATCTGCTCTCTCAAAC 59.300 40.000 0.00 0.00 0.00 2.93
460 540 3.623863 ACGTGTTAACAAATTTCGGCTG 58.376 40.909 10.51 0.00 0.00 4.85
461 541 3.974871 ACGTGTTAACAAATTTCGGCT 57.025 38.095 10.51 0.00 0.00 5.52
480 560 5.814188 GCCCAACAATACCACTAGTACTAAC 59.186 44.000 3.76 0.00 32.46 2.34
502 587 4.660168 AGATTTGGGACATCTATCATGCC 58.340 43.478 0.00 0.00 39.30 4.40
730 835 9.189156 CCAAGTTCCAATGGAATAGAAATAGAA 57.811 33.333 18.63 0.00 44.04 2.10
735 840 6.552008 ACTCCAAGTTCCAATGGAATAGAAA 58.448 36.000 18.63 3.87 44.77 2.52
742 847 2.445145 TCCAACTCCAAGTTCCAATGGA 59.555 45.455 0.00 0.00 43.32 3.41
745 850 3.891366 CTGTTCCAACTCCAAGTTCCAAT 59.109 43.478 0.00 0.00 36.03 3.16
769 874 6.160684 CAGCTCCAATTGAAAATGTTGATGA 58.839 36.000 7.12 0.00 0.00 2.92
876 985 7.897864 ACGGGGATACATTTTACATTTTTCAA 58.102 30.769 0.00 0.00 39.74 2.69
907 1031 8.576442 ACGTAAATTCACCATTTCAGAAAATCT 58.424 29.630 0.00 0.00 36.43 2.40
1106 1234 1.304962 GTTCGGGGGCCAGGATTTT 60.305 57.895 4.39 0.00 0.00 1.82
1110 1238 4.995058 AAGGTTCGGGGGCCAGGA 62.995 66.667 4.39 0.00 0.00 3.86
1191 1327 0.107456 CCACATAGCCGCTCTGGATT 59.893 55.000 10.25 0.00 42.00 3.01
1206 1342 3.872603 ACCTTGAGCGCCACCACA 61.873 61.111 2.29 0.00 0.00 4.17
1487 1628 1.937223 TCGAATCAATAAACGCCGCAT 59.063 42.857 0.00 0.00 0.00 4.73
1589 1768 8.321353 TGAAATGCTAGAAAAAGTCCTCTATCA 58.679 33.333 0.00 0.00 0.00 2.15
1640 1819 0.531200 CTTCCTACCTCACACGACCC 59.469 60.000 0.00 0.00 0.00 4.46
1746 1936 9.423061 AGTTTATTAATTTCAACAAGGCATGAC 57.577 29.630 0.00 0.00 0.00 3.06
1766 1956 9.449719 AAAATCCTTAACGATCAGACAGTTTAT 57.550 29.630 0.00 0.00 0.00 1.40
1821 2011 5.049129 TGCAGTGATGTACAGAGATCTATCG 60.049 44.000 0.33 0.00 0.00 2.92
1825 2015 4.708909 TCTTGCAGTGATGTACAGAGATCT 59.291 41.667 0.33 0.00 0.00 2.75
1894 2084 2.621070 AGAGGGTGAGTGAGGCTTTTA 58.379 47.619 0.00 0.00 0.00 1.52
1906 2096 5.433526 CCCATCGTTTATAAAAGAGGGTGA 58.566 41.667 29.92 10.35 43.54 4.02
1917 2107 7.012327 CAGATTTTCTTCAGCCCATCGTTTATA 59.988 37.037 0.00 0.00 0.00 0.98
2089 2280 7.147915 TGCAGTATATCACAGAGTACATGTCAA 60.148 37.037 0.00 0.00 0.00 3.18
2154 2349 5.048504 CAGCACAACAATGGTAAGTCAGAAT 60.049 40.000 0.00 0.00 0.00 2.40
2241 2436 2.479837 CTTCTTGTGACAGTACGCCAA 58.520 47.619 0.00 0.00 0.00 4.52
2468 2723 6.317642 AGGCATAATTTACAGCAATGACGTAA 59.682 34.615 0.00 0.00 30.65 3.18
2472 2727 4.741676 GCAGGCATAATTTACAGCAATGAC 59.258 41.667 5.41 0.00 0.00 3.06
2513 2768 7.526041 TCCATCTGTTGGTAGGCATAATTTAT 58.474 34.615 4.76 0.00 46.52 1.40
2620 2876 2.885135 ACATGCATTCCCACTCTTCA 57.115 45.000 0.00 0.00 0.00 3.02
2734 3002 6.649155 TGATAGTTTATGCTTGCAGTAAGGA 58.351 36.000 0.87 0.00 41.21 3.36
2798 3066 8.049117 ACAAATGTATAGCTCCTGAAATTCTCA 58.951 33.333 0.00 0.00 0.00 3.27
2820 3088 7.161404 AGATGTATAGTGCTTCAGTTCACAAA 58.839 34.615 0.00 0.00 35.76 2.83
3016 3292 5.972935 AGTTTTAAAACTTTGGGGTGTCAG 58.027 37.500 24.66 0.00 46.52 3.51
3041 3317 2.094597 CACATTGGTGGACATCGCATTT 60.095 45.455 0.00 0.00 41.45 2.32
3062 3338 1.815866 GGCACCCATGTACATTGCC 59.184 57.895 26.37 26.37 45.64 4.52
3176 3452 7.511268 TCTACAAAGTAACCAGGTGTTTACAT 58.489 34.615 0.00 0.00 38.42 2.29
3450 3735 0.614415 TCGGCCCTGCAAAATGGAAT 60.614 50.000 0.00 0.00 0.00 3.01
3716 4003 1.140652 CAAAGGAAGGCCAGGCAAAAA 59.859 47.619 15.19 0.00 36.29 1.94
3727 4014 5.587844 CCAGAGAATGTGTATCAAAGGAAGG 59.412 44.000 0.00 0.00 0.00 3.46
4060 4609 2.074547 ACACATACGTGAACTTCCCG 57.925 50.000 0.00 0.00 46.80 5.14
4169 4721 7.578310 ATCTTGATTAGCAAATGTACTGCAT 57.422 32.000 8.15 0.00 42.48 3.96
4170 4722 8.504812 TTATCTTGATTAGCAAATGTACTGCA 57.495 30.769 8.15 0.00 42.48 4.41
4171 4723 8.616076 ACTTATCTTGATTAGCAAATGTACTGC 58.384 33.333 0.00 0.00 40.24 4.40
4355 4934 0.906756 TTCTCAGACAGGGGAGCCAG 60.907 60.000 0.00 0.00 0.00 4.85
4359 4938 1.974236 ACTGTTTCTCAGACAGGGGAG 59.026 52.381 8.86 0.00 46.77 4.30
4361 4940 2.551071 GGAACTGTTTCTCAGACAGGGG 60.551 54.545 8.86 0.00 46.77 4.79
4431 5012 4.631377 CCGTGATCAAGAAATCTGCAGTAA 59.369 41.667 14.67 0.00 0.00 2.24
4499 5138 6.561294 TCTCTCCCAATTTCCCTTGTAATTT 58.439 36.000 0.00 0.00 0.00 1.82
4508 5147 5.896106 AGATTCAATTCTCTCCCAATTTCCC 59.104 40.000 0.00 0.00 0.00 3.97
4544 5183 0.680921 GGCCATAGCAGCAAGGTTCA 60.681 55.000 0.00 0.00 42.56 3.18
4740 5380 4.271049 ACGCATGGAAGACTTCAAATATCG 59.729 41.667 16.85 15.64 0.00 2.92
4743 5383 6.403049 TCTAACGCATGGAAGACTTCAAATA 58.597 36.000 16.85 0.95 0.00 1.40
4749 5389 4.142600 GCAATTCTAACGCATGGAAGACTT 60.143 41.667 0.00 0.00 31.46 3.01
4772 5412 1.526575 AATCCAAGGCACCTGCAACG 61.527 55.000 0.00 0.00 44.36 4.10
4825 5465 7.569240 AGACAAATATTTAGGAACAGAGGGAG 58.431 38.462 0.00 0.00 0.00 4.30
4826 5466 7.510675 AGACAAATATTTAGGAACAGAGGGA 57.489 36.000 0.00 0.00 0.00 4.20
4827 5467 8.581253 AAAGACAAATATTTAGGAACAGAGGG 57.419 34.615 0.00 0.00 0.00 4.30
4828 5468 9.454859 AGAAAGACAAATATTTAGGAACAGAGG 57.545 33.333 0.00 0.00 0.00 3.69
4844 5484 9.396022 ACTTGTTGAAATCTCTAGAAAGACAAA 57.604 29.630 0.00 0.00 0.00 2.83
4845 5485 8.830580 CACTTGTTGAAATCTCTAGAAAGACAA 58.169 33.333 0.00 0.00 0.00 3.18
4846 5486 8.204160 TCACTTGTTGAAATCTCTAGAAAGACA 58.796 33.333 0.00 0.00 0.00 3.41
4847 5487 8.491950 GTCACTTGTTGAAATCTCTAGAAAGAC 58.508 37.037 0.00 0.00 35.39 3.01
4848 5488 8.424918 AGTCACTTGTTGAAATCTCTAGAAAGA 58.575 33.333 0.00 0.00 35.39 2.52
4849 5489 8.600449 AGTCACTTGTTGAAATCTCTAGAAAG 57.400 34.615 0.00 0.00 35.39 2.62
4850 5490 9.477484 GTAGTCACTTGTTGAAATCTCTAGAAA 57.523 33.333 0.00 0.00 35.39 2.52
4851 5491 8.638873 TGTAGTCACTTGTTGAAATCTCTAGAA 58.361 33.333 0.00 0.00 35.39 2.10
4852 5492 8.178313 TGTAGTCACTTGTTGAAATCTCTAGA 57.822 34.615 0.00 0.00 35.39 2.43
4853 5493 8.994429 ATGTAGTCACTTGTTGAAATCTCTAG 57.006 34.615 0.00 0.00 35.39 2.43
4854 5494 9.856488 GTATGTAGTCACTTGTTGAAATCTCTA 57.144 33.333 0.00 0.00 35.39 2.43
4855 5495 7.542477 CGTATGTAGTCACTTGTTGAAATCTCT 59.458 37.037 0.00 0.00 35.39 3.10
4856 5496 7.201444 CCGTATGTAGTCACTTGTTGAAATCTC 60.201 40.741 0.00 0.00 35.39 2.75
4857 5497 6.590292 CCGTATGTAGTCACTTGTTGAAATCT 59.410 38.462 0.00 0.00 35.39 2.40
4858 5498 6.588756 TCCGTATGTAGTCACTTGTTGAAATC 59.411 38.462 0.00 0.00 35.39 2.17
4859 5499 6.460781 TCCGTATGTAGTCACTTGTTGAAAT 58.539 36.000 0.00 0.00 35.39 2.17
4860 5500 5.845103 TCCGTATGTAGTCACTTGTTGAAA 58.155 37.500 0.00 0.00 35.39 2.69
4861 5501 5.010314 ACTCCGTATGTAGTCACTTGTTGAA 59.990 40.000 0.00 0.00 35.39 2.69
4862 5502 4.521639 ACTCCGTATGTAGTCACTTGTTGA 59.478 41.667 0.00 0.00 0.00 3.18
4863 5503 4.806330 ACTCCGTATGTAGTCACTTGTTG 58.194 43.478 0.00 0.00 0.00 3.33
4864 5504 6.579666 TTACTCCGTATGTAGTCACTTGTT 57.420 37.500 0.00 0.00 0.00 2.83
4865 5505 6.579666 TTTACTCCGTATGTAGTCACTTGT 57.420 37.500 0.00 0.00 0.00 3.16
4866 5506 7.758076 TCATTTTACTCCGTATGTAGTCACTTG 59.242 37.037 0.00 0.00 0.00 3.16
4867 5507 7.833786 TCATTTTACTCCGTATGTAGTCACTT 58.166 34.615 0.00 0.00 0.00 3.16
4868 5508 7.122353 ACTCATTTTACTCCGTATGTAGTCACT 59.878 37.037 0.00 0.00 0.00 3.41
4869 5509 7.220300 CACTCATTTTACTCCGTATGTAGTCAC 59.780 40.741 0.00 0.00 0.00 3.67
4870 5510 7.121611 TCACTCATTTTACTCCGTATGTAGTCA 59.878 37.037 0.00 0.00 0.00 3.41
4871 5511 7.478322 TCACTCATTTTACTCCGTATGTAGTC 58.522 38.462 0.00 0.00 0.00 2.59
4872 5512 7.400599 TCACTCATTTTACTCCGTATGTAGT 57.599 36.000 0.00 0.00 0.00 2.73
4873 5513 8.873215 ATTCACTCATTTTACTCCGTATGTAG 57.127 34.615 0.00 0.00 0.00 2.74
4874 5514 8.692710 AGATTCACTCATTTTACTCCGTATGTA 58.307 33.333 0.00 0.00 0.00 2.29
4875 5515 7.556844 AGATTCACTCATTTTACTCCGTATGT 58.443 34.615 0.00 0.00 0.00 2.29
4876 5516 8.969267 GTAGATTCACTCATTTTACTCCGTATG 58.031 37.037 0.00 0.00 0.00 2.39
4877 5517 8.692710 TGTAGATTCACTCATTTTACTCCGTAT 58.307 33.333 0.00 0.00 0.00 3.06
4878 5518 7.972277 GTGTAGATTCACTCATTTTACTCCGTA 59.028 37.037 0.00 0.00 35.68 4.02
4879 5519 6.812160 GTGTAGATTCACTCATTTTACTCCGT 59.188 38.462 0.00 0.00 35.68 4.69
4880 5520 7.036220 AGTGTAGATTCACTCATTTTACTCCG 58.964 38.462 0.00 0.00 44.07 4.63
4914 5554 9.081204 ACTACCACATACGGATGTATATAAACA 57.919 33.333 14.23 0.00 44.82 2.83
4915 5555 9.565213 GACTACCACATACGGATGTATATAAAC 57.435 37.037 14.23 0.00 44.82 2.01
4916 5556 8.742777 GGACTACCACATACGGATGTATATAAA 58.257 37.037 14.23 0.00 44.82 1.40
4917 5557 7.889600 TGGACTACCACATACGGATGTATATAA 59.110 37.037 14.23 0.00 44.82 0.98
4918 5558 7.404481 TGGACTACCACATACGGATGTATATA 58.596 38.462 14.23 5.36 44.82 0.86
4919 5559 6.250711 TGGACTACCACATACGGATGTATAT 58.749 40.000 14.23 4.37 44.82 0.86
4920 5560 5.633117 TGGACTACCACATACGGATGTATA 58.367 41.667 14.23 8.27 44.82 1.47
4921 5561 4.476297 TGGACTACCACATACGGATGTAT 58.524 43.478 14.23 7.46 44.82 2.29
4922 5562 3.900971 TGGACTACCACATACGGATGTA 58.099 45.455 14.23 0.00 44.82 2.29
4938 5578 9.354673 TGTCTTTTTAGAGATTTCAAATGGACT 57.645 29.630 0.00 0.00 0.00 3.85
4939 5579 9.965824 TTGTCTTTTTAGAGATTTCAAATGGAC 57.034 29.630 0.00 0.00 0.00 4.02
4956 5596 8.520351 CCTCCGTTCCTAAATATTTGTCTTTTT 58.480 33.333 11.05 0.00 0.00 1.94
4957 5597 7.122204 CCCTCCGTTCCTAAATATTTGTCTTTT 59.878 37.037 11.05 0.00 0.00 2.27
4958 5598 6.602009 CCCTCCGTTCCTAAATATTTGTCTTT 59.398 38.462 11.05 0.00 0.00 2.52
4959 5599 6.069847 TCCCTCCGTTCCTAAATATTTGTCTT 60.070 38.462 11.05 0.00 0.00 3.01
4960 5600 5.427481 TCCCTCCGTTCCTAAATATTTGTCT 59.573 40.000 11.05 0.00 0.00 3.41
4961 5601 5.677567 TCCCTCCGTTCCTAAATATTTGTC 58.322 41.667 11.05 0.00 0.00 3.18
4962 5602 5.191124 ACTCCCTCCGTTCCTAAATATTTGT 59.809 40.000 11.05 0.00 0.00 2.83
4963 5603 5.681639 ACTCCCTCCGTTCCTAAATATTTG 58.318 41.667 11.05 1.40 0.00 2.32
4964 5604 5.970501 ACTCCCTCCGTTCCTAAATATTT 57.029 39.130 5.89 5.89 0.00 1.40
4965 5605 8.912614 ATATACTCCCTCCGTTCCTAAATATT 57.087 34.615 0.00 0.00 0.00 1.28
4967 5607 9.247861 GTTATATACTCCCTCCGTTCCTAAATA 57.752 37.037 0.00 0.00 0.00 1.40
4968 5608 7.731688 TGTTATATACTCCCTCCGTTCCTAAAT 59.268 37.037 0.00 0.00 0.00 1.40
4969 5609 7.068702 TGTTATATACTCCCTCCGTTCCTAAA 58.931 38.462 0.00 0.00 0.00 1.85
4970 5610 6.613699 TGTTATATACTCCCTCCGTTCCTAA 58.386 40.000 0.00 0.00 0.00 2.69
4971 5611 6.204852 TGTTATATACTCCCTCCGTTCCTA 57.795 41.667 0.00 0.00 0.00 2.94
4972 5612 5.070823 TGTTATATACTCCCTCCGTTCCT 57.929 43.478 0.00 0.00 0.00 3.36
4973 5613 5.780984 CTTGTTATATACTCCCTCCGTTCC 58.219 45.833 0.00 0.00 0.00 3.62
4974 5614 5.010820 AGCTTGTTATATACTCCCTCCGTTC 59.989 44.000 0.00 0.00 0.00 3.95
4975 5615 4.900054 AGCTTGTTATATACTCCCTCCGTT 59.100 41.667 0.00 0.00 0.00 4.44
4976 5616 4.481072 AGCTTGTTATATACTCCCTCCGT 58.519 43.478 0.00 0.00 0.00 4.69
4977 5617 5.221461 ACAAGCTTGTTATATACTCCCTCCG 60.221 44.000 26.36 0.00 38.47 4.63
4978 5618 6.176014 ACAAGCTTGTTATATACTCCCTCC 57.824 41.667 26.36 0.00 38.47 4.30
4979 5619 6.817184 TGACAAGCTTGTTATATACTCCCTC 58.183 40.000 31.58 15.00 42.43 4.30
4980 5620 6.808321 TGACAAGCTTGTTATATACTCCCT 57.192 37.500 31.58 5.28 42.43 4.20
4981 5621 7.715249 TCAATGACAAGCTTGTTATATACTCCC 59.285 37.037 30.34 16.38 42.43 4.30
4982 5622 8.662781 TCAATGACAAGCTTGTTATATACTCC 57.337 34.615 30.34 17.02 42.43 3.85
4987 5627 8.959548 TGACAATCAATGACAAGCTTGTTATAT 58.040 29.630 30.34 20.75 42.43 0.86
4988 5628 8.334263 TGACAATCAATGACAAGCTTGTTATA 57.666 30.769 30.34 19.62 42.43 0.98
4989 5629 7.218228 TGACAATCAATGACAAGCTTGTTAT 57.782 32.000 31.58 28.77 42.43 1.89
4990 5630 6.631971 TGACAATCAATGACAAGCTTGTTA 57.368 33.333 31.58 27.87 42.43 2.41
4991 5631 5.518848 TGACAATCAATGACAAGCTTGTT 57.481 34.783 31.58 15.56 42.43 2.83
4992 5632 4.558095 GCTGACAATCAATGACAAGCTTGT 60.558 41.667 31.57 31.57 45.65 3.16
4993 5633 3.918591 GCTGACAATCAATGACAAGCTTG 59.081 43.478 24.84 24.84 33.38 4.01
4994 5634 3.570975 TGCTGACAATCAATGACAAGCTT 59.429 39.130 0.00 0.00 33.38 3.74
4995 5635 3.151554 TGCTGACAATCAATGACAAGCT 58.848 40.909 0.00 0.00 33.38 3.74
4996 5636 3.564235 TGCTGACAATCAATGACAAGC 57.436 42.857 0.00 0.00 33.38 4.01
4997 5637 4.862574 CCAATGCTGACAATCAATGACAAG 59.137 41.667 0.00 0.00 33.38 3.16
4998 5638 4.322123 CCCAATGCTGACAATCAATGACAA 60.322 41.667 0.00 0.00 33.38 3.18
4999 5639 3.193903 CCCAATGCTGACAATCAATGACA 59.806 43.478 0.00 0.00 32.78 3.58
5000 5640 3.194116 ACCCAATGCTGACAATCAATGAC 59.806 43.478 0.00 0.00 0.00 3.06
5001 5641 3.433343 ACCCAATGCTGACAATCAATGA 58.567 40.909 0.00 0.00 0.00 2.57
5002 5642 3.193903 TGACCCAATGCTGACAATCAATG 59.806 43.478 0.00 0.00 0.00 2.82
5003 5643 3.433343 TGACCCAATGCTGACAATCAAT 58.567 40.909 0.00 0.00 0.00 2.57
5004 5644 2.821378 CTGACCCAATGCTGACAATCAA 59.179 45.455 0.00 0.00 0.00 2.57
5005 5645 2.439409 CTGACCCAATGCTGACAATCA 58.561 47.619 0.00 0.00 0.00 2.57
5006 5646 1.747355 CCTGACCCAATGCTGACAATC 59.253 52.381 0.00 0.00 0.00 2.67
5007 5647 1.076024 ACCTGACCCAATGCTGACAAT 59.924 47.619 0.00 0.00 0.00 2.71
5008 5648 0.478072 ACCTGACCCAATGCTGACAA 59.522 50.000 0.00 0.00 0.00 3.18
5009 5649 0.036732 GACCTGACCCAATGCTGACA 59.963 55.000 0.00 0.00 0.00 3.58
5010 5650 0.036732 TGACCTGACCCAATGCTGAC 59.963 55.000 0.00 0.00 0.00 3.51
5011 5651 0.036732 GTGACCTGACCCAATGCTGA 59.963 55.000 0.00 0.00 0.00 4.26
5012 5652 0.037303 AGTGACCTGACCCAATGCTG 59.963 55.000 0.00 0.00 0.00 4.41
5013 5653 1.656587 TAGTGACCTGACCCAATGCT 58.343 50.000 0.00 0.00 0.00 3.79
5014 5654 2.717639 ATAGTGACCTGACCCAATGC 57.282 50.000 0.00 0.00 0.00 3.56
5015 5655 5.118990 CAACTATAGTGACCTGACCCAATG 58.881 45.833 6.06 0.00 0.00 2.82
5016 5656 4.384208 GCAACTATAGTGACCTGACCCAAT 60.384 45.833 6.06 0.00 0.00 3.16
5017 5657 3.055385 GCAACTATAGTGACCTGACCCAA 60.055 47.826 6.06 0.00 0.00 4.12
5018 5658 2.500098 GCAACTATAGTGACCTGACCCA 59.500 50.000 6.06 0.00 0.00 4.51
5019 5659 2.158943 GGCAACTATAGTGACCTGACCC 60.159 54.545 6.06 0.00 0.00 4.46
5020 5660 2.500098 TGGCAACTATAGTGACCTGACC 59.500 50.000 19.86 13.61 37.61 4.02
5021 5661 3.786635 CTGGCAACTATAGTGACCTGAC 58.213 50.000 19.86 12.04 37.61 3.51
5022 5662 2.168521 GCTGGCAACTATAGTGACCTGA 59.831 50.000 24.18 8.85 37.61 3.86
5023 5663 2.555199 GCTGGCAACTATAGTGACCTG 58.445 52.381 19.86 19.53 37.61 4.00
5024 5664 1.137086 CGCTGGCAACTATAGTGACCT 59.863 52.381 19.86 0.00 37.61 3.85
5025 5665 1.136305 TCGCTGGCAACTATAGTGACC 59.864 52.381 6.06 11.44 37.61 4.02
5026 5666 2.579207 TCGCTGGCAACTATAGTGAC 57.421 50.000 6.06 3.78 37.61 3.67
5027 5667 3.259064 GTTTCGCTGGCAACTATAGTGA 58.741 45.455 6.06 0.00 37.61 3.41
5028 5668 3.000041 TGTTTCGCTGGCAACTATAGTG 59.000 45.455 6.06 2.23 37.61 2.74
5029 5669 3.262420 CTGTTTCGCTGGCAACTATAGT 58.738 45.455 0.00 0.00 37.61 2.12
5030 5670 3.262420 ACTGTTTCGCTGGCAACTATAG 58.738 45.455 0.00 0.00 37.61 1.31
5031 5671 3.328382 ACTGTTTCGCTGGCAACTATA 57.672 42.857 0.00 0.00 37.61 1.31
5032 5672 2.185004 ACTGTTTCGCTGGCAACTAT 57.815 45.000 0.00 0.00 37.61 2.12
5033 5673 1.871039 GAACTGTTTCGCTGGCAACTA 59.129 47.619 0.00 0.00 37.61 2.24
5034 5674 0.663153 GAACTGTTTCGCTGGCAACT 59.337 50.000 0.00 0.00 37.61 3.16
5035 5675 3.164028 GAACTGTTTCGCTGGCAAC 57.836 52.632 0.00 0.00 0.00 4.17


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

AutoCloner maintained by Alex Coulton.