Multiple sequence alignment - TraesCS4B01G311300

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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 TraesCS4B01G311300 chr4B 100.000 2465 0 0 1 2465 601285921 601283457 0.000000e+00 4553.0
1 TraesCS4B01G311300 chr4B 97.100 1000 16 2 926 1925 601306778 601305792 0.000000e+00 1674.0
2 TraesCS4B01G311300 chr4B 82.579 729 52 41 978 1671 601277520 601276832 7.650000e-160 573.0
3 TraesCS4B01G311300 chr4B 97.264 329 9 0 1924 2252 513872772 513872444 2.140000e-155 558.0
4 TraesCS4B01G311300 chr4B 81.166 669 90 25 242 895 601307425 601306778 2.830000e-139 505.0
5 TraesCS4B01G311300 chr4B 77.919 788 92 42 195 956 601278310 601277579 1.360000e-112 416.0
6 TraesCS4B01G311300 chr4B 98.148 216 4 0 2250 2465 601305793 601305578 6.430000e-101 377.0
7 TraesCS4B01G311300 chr4B 89.231 130 9 3 2 131 601307698 601307574 9.130000e-35 158.0
8 TraesCS4B01G311300 chr4D 83.262 1637 173 48 334 1918 477031344 477029757 0.000000e+00 1411.0
9 TraesCS4B01G311300 chr4D 83.721 731 52 33 975 1671 477023787 477023090 1.610000e-176 628.0
10 TraesCS4B01G311300 chr4D 77.403 801 93 47 195 956 477024603 477023852 1.780000e-106 396.0
11 TraesCS4B01G311300 chr4D 87.571 177 9 8 4 169 477027848 477027674 2.500000e-45 193.0
12 TraesCS4B01G311300 chr4D 90.435 115 9 2 18 131 477031676 477031563 1.530000e-32 150.0
13 TraesCS4B01G311300 chr4A 79.515 1484 141 78 359 1736 683788458 683787032 0.000000e+00 905.0
14 TraesCS4B01G311300 chr4A 89.314 627 58 8 1266 1884 683806042 683805417 0.000000e+00 778.0
15 TraesCS4B01G311300 chr4A 78.711 1334 147 71 1 1243 683802291 683801004 0.000000e+00 763.0
16 TraesCS4B01G311300 chr4A 88.033 610 51 10 1290 1888 683801024 683800426 0.000000e+00 702.0
17 TraesCS4B01G311300 chr4A 83.755 474 47 17 782 1239 683806495 683806036 2.930000e-114 422.0
18 TraesCS4B01G311300 chr4A 86.765 272 18 7 1621 1889 683791634 683791378 1.120000e-73 287.0
19 TraesCS4B01G311300 chr4A 82.121 330 54 5 281 608 683858427 683858101 6.710000e-71 278.0
20 TraesCS4B01G311300 chr4A 93.571 140 8 1 2327 2465 683800198 683800059 8.930000e-50 207.0
21 TraesCS4B01G311300 chr4A 89.922 129 7 4 4 131 683858769 683858646 7.050000e-36 161.0
22 TraesCS4B01G311300 chr5B 83.201 756 55 31 770 1468 669909901 669909161 5.790000e-176 627.0
23 TraesCS4B01G311300 chr5B 80.603 232 26 15 2250 2465 480803434 480803662 7.050000e-36 161.0
24 TraesCS4B01G311300 chr5B 92.233 103 7 1 23 124 669910341 669910239 7.100000e-31 145.0
25 TraesCS4B01G311300 chr7B 97.568 329 8 0 1924 2252 178720981 178720653 4.600000e-157 564.0
26 TraesCS4B01G311300 chr7B 96.677 331 11 0 1925 2255 272578036 272577706 3.580000e-153 551.0
27 TraesCS4B01G311300 chr7B 96.667 330 11 0 1923 2252 500229582 500229911 1.290000e-152 549.0
28 TraesCS4B01G311300 chr7B 86.275 102 10 3 2250 2349 687816404 687816503 9.320000e-20 108.0
29 TraesCS4B01G311300 chr3D 96.429 336 11 1 1921 2255 240219076 240219411 9.960000e-154 553.0
30 TraesCS4B01G311300 chr3D 83.408 223 22 11 2249 2457 609933731 609933510 2.500000e-45 193.0
31 TraesCS4B01G311300 chr3D 80.383 209 25 11 2250 2444 315757803 315757597 7.100000e-31 145.0
32 TraesCS4B01G311300 chr3D 84.962 133 13 3 2250 2375 165936810 165936942 7.160000e-26 128.0
33 TraesCS4B01G311300 chr3D 85.437 103 12 3 2250 2349 572023482 572023584 1.210000e-18 104.0
34 TraesCS4B01G311300 chr1B 96.960 329 10 0 1924 2252 18008175 18008503 9.960000e-154 553.0
35 TraesCS4B01G311300 chr1B 96.951 328 10 0 1924 2251 329564686 329565013 3.580000e-153 551.0
36 TraesCS4B01G311300 chr1B 96.386 332 11 1 1921 2251 306403278 306403609 1.670000e-151 545.0
37 TraesCS4B01G311300 chr1B 80.000 195 26 8 2250 2432 371143346 371143153 5.530000e-27 132.0
38 TraesCS4B01G311300 chr1B 100.000 28 0 0 448 475 491037645 491037618 4.000000e-03 52.8
39 TraesCS4B01G311300 chr6B 96.386 332 11 1 1921 2251 69792977 69793308 1.670000e-151 545.0
40 TraesCS4B01G311300 chrUn 80.603 232 26 15 2250 2465 349853530 349853758 7.050000e-36 161.0
41 TraesCS4B01G311300 chr1D 87.705 122 14 1 2344 2465 8333913 8334033 9.190000e-30 141.0
42 TraesCS4B01G311300 chr5D 88.235 102 10 2 2344 2444 468803312 468803212 1.200000e-23 121.0
43 TraesCS4B01G311300 chr5A 88.235 102 11 1 2250 2350 450172065 450171964 1.200000e-23 121.0
44 TraesCS4B01G311300 chr1A 89.362 94 9 1 2351 2444 9961417 9961509 1.550000e-22 117.0
45 TraesCS4B01G311300 chr3A 84.314 102 15 1 2344 2444 700933195 700933094 5.610000e-17 99.0
46 TraesCS4B01G311300 chr3B 84.158 101 14 2 2251 2349 761939637 761939537 2.020000e-16 97.1
47 TraesCS4B01G311300 chr2B 97.297 37 1 0 444 480 62176558 62176594 2.050000e-06 63.9
48 TraesCS4B01G311300 chr2B 100.000 28 0 0 448 475 776989031 776989004 4.000000e-03 52.8
49 TraesCS4B01G311300 chr2A 100.000 29 0 0 306 334 678154392 678154420 1.000000e-03 54.7
50 TraesCS4B01G311300 chr6D 100.000 28 0 0 448 475 19143046 19143019 4.000000e-03 52.8
51 TraesCS4B01G311300 chr6D 100.000 28 0 0 448 475 19204875 19204848 4.000000e-03 52.8


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 TraesCS4B01G311300 chr4B 601283457 601285921 2464 True 4553.0 4553 100.00000 1 2465 1 chr4B.!!$R2 2464
1 TraesCS4B01G311300 chr4B 601305578 601307698 2120 True 678.5 1674 91.41125 2 2465 4 chr4B.!!$R4 2463
2 TraesCS4B01G311300 chr4B 601276832 601278310 1478 True 494.5 573 80.24900 195 1671 2 chr4B.!!$R3 1476
3 TraesCS4B01G311300 chr4D 477023090 477031676 8586 True 555.6 1411 84.47840 4 1918 5 chr4D.!!$R1 1914
4 TraesCS4B01G311300 chr4A 683787032 683791634 4602 True 596.0 905 83.14000 359 1889 2 chr4A.!!$R1 1530
5 TraesCS4B01G311300 chr4A 683800059 683806495 6436 True 574.4 778 86.67680 1 2465 5 chr4A.!!$R2 2464
6 TraesCS4B01G311300 chr4A 683858101 683858769 668 True 219.5 278 86.02150 4 608 2 chr4A.!!$R3 604
7 TraesCS4B01G311300 chr5B 669909161 669910341 1180 True 386.0 627 87.71700 23 1468 2 chr5B.!!$R1 1445

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
175 4444 0.610232 AAACACCTGGCCTCTGCATC 60.610 55.000 3.32 0.0 40.13 3.91 F
177 4446 1.001764 CACCTGGCCTCTGCATCAA 60.002 57.895 3.32 0.0 40.13 2.57 F
359 4633 1.282248 CGTTCTTGCATCACCGTCGT 61.282 55.000 0.00 0.0 0.00 4.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1013 5568 0.473755 TGCTCTCTTTGGCTTGGACA 59.526 50.000 0.00 0.0 0.00 4.02 R
1023 5578 1.682257 GAGGCCACCTGCTCTCTTT 59.318 57.895 5.01 0.0 40.92 2.52 R
1971 6617 2.567169 CACCACTCACCATCTACCTTGA 59.433 50.000 0.00 0.0 0.00 3.02 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
44 4257 3.559655 GTCATTTGGCATGCATACGTCTA 59.440 43.478 21.36 0.00 0.00 2.59
129 4342 4.818534 TGCAAACAAACTTCTCTGCTAG 57.181 40.909 0.00 0.00 0.00 3.42
133 4346 6.486657 TGCAAACAAACTTCTCTGCTAGTTAT 59.513 34.615 0.00 0.00 33.66 1.89
155 4424 6.561737 ATTTCTTCTTCGAAAAGGAGGTTC 57.438 37.500 15.40 0.00 38.49 3.62
160 4429 4.519213 TCTTCGAAAAGGAGGTTCAAACA 58.481 39.130 0.00 0.00 33.03 2.83
167 4436 4.599036 AGGTTCAAACACCTGGCC 57.401 55.556 0.00 0.00 46.22 5.36
172 4441 0.823356 TTCAAACACCTGGCCTCTGC 60.823 55.000 3.32 0.00 0.00 4.26
173 4442 1.529010 CAAACACCTGGCCTCTGCA 60.529 57.895 3.32 0.00 40.13 4.41
175 4444 0.610232 AAACACCTGGCCTCTGCATC 60.610 55.000 3.32 0.00 40.13 3.91
177 4446 1.001764 CACCTGGCCTCTGCATCAA 60.002 57.895 3.32 0.00 40.13 2.57
320 4591 9.099454 GACTAAGTCGATTTCTTCCATAACAAT 57.901 33.333 0.00 0.00 0.00 2.71
333 4604 5.569355 TCCATAACAATGCCTTCAAGAAGA 58.431 37.500 11.25 0.00 40.79 2.87
341 4612 6.863126 ACAATGCCTTCAAGAAGAAATAAACG 59.137 34.615 11.25 0.00 40.79 3.60
343 4614 6.385649 TGCCTTCAAGAAGAAATAAACGTT 57.614 33.333 11.25 0.00 40.79 3.99
344 4615 6.435428 TGCCTTCAAGAAGAAATAAACGTTC 58.565 36.000 11.25 0.00 40.79 3.95
346 4617 7.139392 GCCTTCAAGAAGAAATAAACGTTCTT 58.861 34.615 11.25 0.00 45.72 2.52
351 4622 7.932526 CAAGAAGAAATAAACGTTCTTGCATC 58.067 34.615 0.00 0.07 45.24 3.91
354 4625 5.699839 AGAAATAAACGTTCTTGCATCACC 58.300 37.500 0.00 0.00 31.10 4.02
359 4633 1.282248 CGTTCTTGCATCACCGTCGT 61.282 55.000 0.00 0.00 0.00 4.34
367 4702 2.263021 ATCACCGTCGTCACGTCCA 61.263 57.895 0.00 0.00 45.17 4.02
379 4723 2.621526 GTCACGTCCAACCAAAAAGGAT 59.378 45.455 0.00 0.00 41.22 3.24
380 4724 2.621055 TCACGTCCAACCAAAAAGGATG 59.379 45.455 0.00 0.00 42.75 3.51
393 4737 5.163311 CCAAAAAGGATGAAGACAAGGGTTT 60.163 40.000 0.00 0.00 41.22 3.27
422 4770 2.616524 AGTTACTGAGGCCAACCACTA 58.383 47.619 5.01 0.00 39.06 2.74
498 4850 2.620112 CCGCTGTTGAGCCAACCAG 61.620 63.158 13.35 11.62 42.96 4.00
516 4871 3.134458 CCAGTCAAGGTCAGAACAAGAC 58.866 50.000 2.83 2.83 35.29 3.01
524 4879 3.964031 AGGTCAGAACAAGACTCTTCACT 59.036 43.478 0.00 0.00 36.29 3.41
528 4883 3.740321 CAGAACAAGACTCTTCACTCAGC 59.260 47.826 0.00 0.00 0.00 4.26
569 4938 5.013079 TGGGCTAGGTGGAAATAGTATCATG 59.987 44.000 0.00 0.00 0.00 3.07
571 4940 6.069963 GGGCTAGGTGGAAATAGTATCATGAT 60.070 42.308 13.81 13.81 0.00 2.45
591 4960 8.849168 TCATGATATTGGCCATAAAACTAGTTG 58.151 33.333 6.09 0.00 0.00 3.16
613 4982 9.539825 AGTTGCACAACATAAACATTTATTTGA 57.460 25.926 15.40 3.28 43.47 2.69
647 5032 4.876107 ACATTCTCATACAAAAGGTAGCGG 59.124 41.667 0.00 0.00 34.92 5.52
790 5263 4.062293 CACCAACAACTTCTTCCATACGA 58.938 43.478 0.00 0.00 0.00 3.43
804 5280 2.418746 CCATACGAAGGAAGGGACACTG 60.419 54.545 0.00 0.00 0.00 3.66
870 5353 1.671054 ATGCACACGGAGGGAAACG 60.671 57.895 0.00 0.00 0.00 3.60
884 5367 1.539712 GGAAACGAGTCCAAGTTCGGT 60.540 52.381 0.00 0.00 40.93 4.69
1013 5568 2.803670 CGCCATGTCGTCGACGTT 60.804 61.111 34.40 19.26 40.80 3.99
1023 5578 1.593209 GTCGACGTTGTCCAAGCCA 60.593 57.895 0.00 0.00 0.00 4.75
1596 6236 1.064296 CGCTCTAGCCACTGTACGG 59.936 63.158 0.00 0.00 37.91 4.02
1745 6390 2.031465 GTCTTTGGCCCGAACCGA 59.969 61.111 0.00 0.00 0.00 4.69
1804 6449 4.742438 TTTAACTCTGTGCATTCGGTTC 57.258 40.909 0.00 0.00 0.00 3.62
1824 6469 4.678509 TCATTCTGTTTACATGGTTCGC 57.321 40.909 0.00 0.00 0.00 4.70
1901 6547 7.382759 TGAAATTAAAATACAACCCTGTTTCGC 59.617 33.333 0.00 0.00 36.96 4.70
1902 6548 2.981400 AAATACAACCCTGTTTCGCG 57.019 45.000 0.00 0.00 36.96 5.87
1938 6584 6.475596 TTTAGGTATACTCCCTCCTTTTCG 57.524 41.667 2.25 0.00 33.35 3.46
1939 6585 3.306613 AGGTATACTCCCTCCTTTTCGG 58.693 50.000 2.25 0.00 0.00 4.30
1940 6586 3.036819 GGTATACTCCCTCCTTTTCGGT 58.963 50.000 2.25 0.00 0.00 4.69
1941 6587 3.453717 GGTATACTCCCTCCTTTTCGGTT 59.546 47.826 2.25 0.00 0.00 4.44
1942 6588 4.080695 GGTATACTCCCTCCTTTTCGGTTT 60.081 45.833 2.25 0.00 0.00 3.27
1943 6589 5.129320 GGTATACTCCCTCCTTTTCGGTTTA 59.871 44.000 2.25 0.00 0.00 2.01
1944 6590 5.970501 ATACTCCCTCCTTTTCGGTTTAT 57.029 39.130 0.00 0.00 0.00 1.40
1945 6591 7.015584 GGTATACTCCCTCCTTTTCGGTTTATA 59.984 40.741 2.25 0.00 0.00 0.98
1946 6592 5.354842 ACTCCCTCCTTTTCGGTTTATAG 57.645 43.478 0.00 0.00 0.00 1.31
1947 6593 4.163649 ACTCCCTCCTTTTCGGTTTATAGG 59.836 45.833 0.00 0.00 0.00 2.57
1948 6594 3.457012 TCCCTCCTTTTCGGTTTATAGGG 59.543 47.826 0.00 0.00 41.33 3.53
1949 6595 3.211865 CCTCCTTTTCGGTTTATAGGGC 58.788 50.000 0.00 0.00 0.00 5.19
1950 6596 3.118000 CCTCCTTTTCGGTTTATAGGGCT 60.118 47.826 0.00 0.00 0.00 5.19
1951 6597 4.127907 CTCCTTTTCGGTTTATAGGGCTC 58.872 47.826 0.00 0.00 0.00 4.70
1952 6598 3.520317 TCCTTTTCGGTTTATAGGGCTCA 59.480 43.478 0.00 0.00 0.00 4.26
1953 6599 4.019141 TCCTTTTCGGTTTATAGGGCTCAA 60.019 41.667 0.00 0.00 0.00 3.02
1954 6600 4.887655 CCTTTTCGGTTTATAGGGCTCAAT 59.112 41.667 0.00 0.00 0.00 2.57
1955 6601 5.359860 CCTTTTCGGTTTATAGGGCTCAATT 59.640 40.000 0.00 0.00 0.00 2.32
1956 6602 6.445357 TTTTCGGTTTATAGGGCTCAATTC 57.555 37.500 0.00 0.00 0.00 2.17
1957 6603 4.764050 TCGGTTTATAGGGCTCAATTCA 57.236 40.909 0.00 0.00 0.00 2.57
1958 6604 5.105567 TCGGTTTATAGGGCTCAATTCAA 57.894 39.130 0.00 0.00 0.00 2.69
1959 6605 5.502079 TCGGTTTATAGGGCTCAATTCAAA 58.498 37.500 0.00 0.00 0.00 2.69
1960 6606 5.946972 TCGGTTTATAGGGCTCAATTCAAAA 59.053 36.000 0.00 0.00 0.00 2.44
1961 6607 6.434652 TCGGTTTATAGGGCTCAATTCAAAAA 59.565 34.615 0.00 0.00 0.00 1.94
1962 6608 7.123547 TCGGTTTATAGGGCTCAATTCAAAAAT 59.876 33.333 0.00 0.00 0.00 1.82
1963 6609 7.435192 CGGTTTATAGGGCTCAATTCAAAAATC 59.565 37.037 0.00 0.00 0.00 2.17
1964 6610 8.478066 GGTTTATAGGGCTCAATTCAAAAATCT 58.522 33.333 0.00 0.00 0.00 2.40
1965 6611 9.521503 GTTTATAGGGCTCAATTCAAAAATCTC 57.478 33.333 0.00 0.00 0.00 2.75
1966 6612 8.821686 TTATAGGGCTCAATTCAAAAATCTCA 57.178 30.769 0.00 0.00 0.00 3.27
1967 6613 5.397142 AGGGCTCAATTCAAAAATCTCAC 57.603 39.130 0.00 0.00 0.00 3.51
1968 6614 4.221482 AGGGCTCAATTCAAAAATCTCACC 59.779 41.667 0.00 0.00 0.00 4.02
1969 6615 4.021192 GGGCTCAATTCAAAAATCTCACCA 60.021 41.667 0.00 0.00 0.00 4.17
1970 6616 5.511202 GGGCTCAATTCAAAAATCTCACCAA 60.511 40.000 0.00 0.00 0.00 3.67
1971 6617 6.168389 GGCTCAATTCAAAAATCTCACCAAT 58.832 36.000 0.00 0.00 0.00 3.16
1972 6618 6.312180 GGCTCAATTCAAAAATCTCACCAATC 59.688 38.462 0.00 0.00 0.00 2.67
1973 6619 6.869913 GCTCAATTCAAAAATCTCACCAATCA 59.130 34.615 0.00 0.00 0.00 2.57
1974 6620 7.385752 GCTCAATTCAAAAATCTCACCAATCAA 59.614 33.333 0.00 0.00 0.00 2.57
1975 6621 8.821147 TCAATTCAAAAATCTCACCAATCAAG 57.179 30.769 0.00 0.00 0.00 3.02
1976 6622 7.874016 TCAATTCAAAAATCTCACCAATCAAGG 59.126 33.333 0.00 0.00 0.00 3.61
1977 6623 6.729690 TTCAAAAATCTCACCAATCAAGGT 57.270 33.333 0.00 0.00 44.48 3.50
1978 6624 7.831691 TTCAAAAATCTCACCAATCAAGGTA 57.168 32.000 0.00 0.00 40.77 3.08
1979 6625 7.452880 TCAAAAATCTCACCAATCAAGGTAG 57.547 36.000 0.00 0.00 40.77 3.18
1980 6626 7.230747 TCAAAAATCTCACCAATCAAGGTAGA 58.769 34.615 0.00 0.00 40.77 2.59
1981 6627 7.890127 TCAAAAATCTCACCAATCAAGGTAGAT 59.110 33.333 0.00 0.00 40.77 1.98
1982 6628 7.636150 AAAATCTCACCAATCAAGGTAGATG 57.364 36.000 0.00 0.00 40.77 2.90
1983 6629 4.760530 TCTCACCAATCAAGGTAGATGG 57.239 45.455 0.00 0.00 40.77 3.51
1984 6630 4.104086 TCTCACCAATCAAGGTAGATGGT 58.896 43.478 0.00 0.00 40.77 3.55
1985 6631 4.080919 TCTCACCAATCAAGGTAGATGGTG 60.081 45.833 15.28 15.28 40.77 4.17
1986 6632 3.843619 TCACCAATCAAGGTAGATGGTGA 59.156 43.478 19.00 19.00 44.47 4.02
1987 6633 4.080919 TCACCAATCAAGGTAGATGGTGAG 60.081 45.833 19.00 0.00 43.33 3.51
1988 6634 3.846588 ACCAATCAAGGTAGATGGTGAGT 59.153 43.478 0.00 0.00 40.98 3.41
1989 6635 4.194640 CCAATCAAGGTAGATGGTGAGTG 58.805 47.826 0.00 0.00 36.21 3.51
1990 6636 4.194640 CAATCAAGGTAGATGGTGAGTGG 58.805 47.826 0.00 0.00 33.61 4.00
1991 6637 2.902608 TCAAGGTAGATGGTGAGTGGT 58.097 47.619 0.00 0.00 0.00 4.16
1992 6638 2.567169 TCAAGGTAGATGGTGAGTGGTG 59.433 50.000 0.00 0.00 0.00 4.17
1993 6639 2.567169 CAAGGTAGATGGTGAGTGGTGA 59.433 50.000 0.00 0.00 0.00 4.02
1994 6640 2.902608 AGGTAGATGGTGAGTGGTGAA 58.097 47.619 0.00 0.00 0.00 3.18
1995 6641 3.248024 AGGTAGATGGTGAGTGGTGAAA 58.752 45.455 0.00 0.00 0.00 2.69
1996 6642 3.846588 AGGTAGATGGTGAGTGGTGAAAT 59.153 43.478 0.00 0.00 0.00 2.17
1997 6643 5.030147 AGGTAGATGGTGAGTGGTGAAATA 58.970 41.667 0.00 0.00 0.00 1.40
1998 6644 5.667626 AGGTAGATGGTGAGTGGTGAAATAT 59.332 40.000 0.00 0.00 0.00 1.28
1999 6645 6.158695 AGGTAGATGGTGAGTGGTGAAATATT 59.841 38.462 0.00 0.00 0.00 1.28
2000 6646 6.828785 GGTAGATGGTGAGTGGTGAAATATTT 59.171 38.462 0.00 0.00 0.00 1.40
2001 6647 7.339466 GGTAGATGGTGAGTGGTGAAATATTTT 59.661 37.037 1.43 0.00 0.00 1.82
2002 6648 7.781324 AGATGGTGAGTGGTGAAATATTTTT 57.219 32.000 1.43 0.00 0.00 1.94
2022 6668 5.538067 TTTTGTAGTTTTGCAAAAGCACC 57.462 34.783 24.46 12.86 41.78 5.01
2023 6669 4.464069 TTGTAGTTTTGCAAAAGCACCT 57.536 36.364 24.46 18.89 0.00 4.00
2024 6670 5.584253 TTGTAGTTTTGCAAAAGCACCTA 57.416 34.783 24.46 17.93 0.00 3.08
2025 6671 5.584253 TGTAGTTTTGCAAAAGCACCTAA 57.416 34.783 24.46 10.16 0.00 2.69
2026 6672 6.155475 TGTAGTTTTGCAAAAGCACCTAAT 57.845 33.333 24.46 3.96 0.00 1.73
2027 6673 6.578023 TGTAGTTTTGCAAAAGCACCTAATT 58.422 32.000 24.46 0.86 0.00 1.40
2028 6674 7.717568 TGTAGTTTTGCAAAAGCACCTAATTA 58.282 30.769 24.46 9.48 0.00 1.40
2029 6675 8.198109 TGTAGTTTTGCAAAAGCACCTAATTAA 58.802 29.630 24.46 5.50 0.00 1.40
2030 6676 9.203421 GTAGTTTTGCAAAAGCACCTAATTAAT 57.797 29.630 24.46 1.22 0.00 1.40
2031 6677 8.086851 AGTTTTGCAAAAGCACCTAATTAATG 57.913 30.769 24.46 0.00 0.00 1.90
2032 6678 6.479095 TTTGCAAAAGCACCTAATTAATGC 57.521 33.333 10.02 11.70 39.74 3.56
2042 6688 8.214721 AGCACCTAATTAATGCTCTAGTTTTC 57.785 34.615 15.10 0.00 46.68 2.29
2043 6689 7.283354 AGCACCTAATTAATGCTCTAGTTTTCC 59.717 37.037 15.10 0.00 46.68 3.13
2044 6690 7.283354 GCACCTAATTAATGCTCTAGTTTTCCT 59.717 37.037 12.17 0.00 36.40 3.36
2045 6691 9.178758 CACCTAATTAATGCTCTAGTTTTCCTT 57.821 33.333 0.00 0.00 0.00 3.36
2110 6756 5.247507 GCATAAAGTACATGCATTGGTCA 57.752 39.130 10.82 0.00 46.47 4.02
2111 6757 5.649557 GCATAAAGTACATGCATTGGTCAA 58.350 37.500 10.82 0.00 46.47 3.18
2112 6758 6.275335 GCATAAAGTACATGCATTGGTCAAT 58.725 36.000 10.82 0.00 46.47 2.57
2113 6759 6.757947 GCATAAAGTACATGCATTGGTCAATT 59.242 34.615 10.82 0.00 46.47 2.32
2114 6760 7.278424 GCATAAAGTACATGCATTGGTCAATTT 59.722 33.333 10.82 0.00 46.47 1.82
2115 6761 9.153721 CATAAAGTACATGCATTGGTCAATTTT 57.846 29.630 0.00 0.00 0.00 1.82
2116 6762 7.656707 AAAGTACATGCATTGGTCAATTTTC 57.343 32.000 0.00 0.00 0.00 2.29
2117 6763 6.594788 AGTACATGCATTGGTCAATTTTCT 57.405 33.333 0.00 0.00 0.00 2.52
2118 6764 6.624423 AGTACATGCATTGGTCAATTTTCTC 58.376 36.000 0.00 0.00 0.00 2.87
2119 6765 5.733620 ACATGCATTGGTCAATTTTCTCT 57.266 34.783 0.00 0.00 0.00 3.10
2120 6766 6.105397 ACATGCATTGGTCAATTTTCTCTT 57.895 33.333 0.00 0.00 0.00 2.85
2121 6767 7.230849 ACATGCATTGGTCAATTTTCTCTTA 57.769 32.000 0.00 0.00 0.00 2.10
2122 6768 7.669427 ACATGCATTGGTCAATTTTCTCTTAA 58.331 30.769 0.00 0.00 0.00 1.85
2123 6769 8.316214 ACATGCATTGGTCAATTTTCTCTTAAT 58.684 29.630 0.00 0.00 0.00 1.40
2124 6770 9.806203 CATGCATTGGTCAATTTTCTCTTAATA 57.194 29.630 0.00 0.00 0.00 0.98
2125 6771 9.807649 ATGCATTGGTCAATTTTCTCTTAATAC 57.192 29.630 0.00 0.00 0.00 1.89
2126 6772 9.023962 TGCATTGGTCAATTTTCTCTTAATACT 57.976 29.630 0.00 0.00 0.00 2.12
2127 6773 9.860898 GCATTGGTCAATTTTCTCTTAATACTT 57.139 29.630 0.00 0.00 0.00 2.24
2129 6775 9.860898 ATTGGTCAATTTTCTCTTAATACTTGC 57.139 29.630 0.00 0.00 0.00 4.01
2130 6776 8.402798 TGGTCAATTTTCTCTTAATACTTGCA 57.597 30.769 0.00 0.00 0.00 4.08
2131 6777 9.023962 TGGTCAATTTTCTCTTAATACTTGCAT 57.976 29.630 0.00 0.00 0.00 3.96
2132 6778 9.294030 GGTCAATTTTCTCTTAATACTTGCATG 57.706 33.333 0.00 0.00 0.00 4.06
2133 6779 8.801913 GTCAATTTTCTCTTAATACTTGCATGC 58.198 33.333 11.82 11.82 0.00 4.06
2134 6780 8.522003 TCAATTTTCTCTTAATACTTGCATGCA 58.478 29.630 18.46 18.46 0.00 3.96
2135 6781 9.142515 CAATTTTCTCTTAATACTTGCATGCAA 57.857 29.630 30.12 30.12 0.00 4.08
2136 6782 9.880157 AATTTTCTCTTAATACTTGCATGCAAT 57.120 25.926 31.96 22.79 35.20 3.56
2153 6799 5.402997 TGCAATGATTTAATGCACCTTGA 57.597 34.783 0.00 0.00 44.52 3.02
2154 6800 5.791666 TGCAATGATTTAATGCACCTTGAA 58.208 33.333 0.00 0.00 44.52 2.69
2155 6801 6.228995 TGCAATGATTTAATGCACCTTGAAA 58.771 32.000 0.00 0.00 44.52 2.69
2156 6802 6.879993 TGCAATGATTTAATGCACCTTGAAAT 59.120 30.769 0.00 0.00 44.52 2.17
2157 6803 7.064847 TGCAATGATTTAATGCACCTTGAAATC 59.935 33.333 0.00 1.22 44.52 2.17
2158 6804 7.279313 GCAATGATTTAATGCACCTTGAAATCT 59.721 33.333 15.69 5.35 39.81 2.40
2159 6805 8.600625 CAATGATTTAATGCACCTTGAAATCTG 58.399 33.333 15.69 7.90 37.39 2.90
2160 6806 7.465353 TGATTTAATGCACCTTGAAATCTGA 57.535 32.000 15.69 0.00 37.39 3.27
2161 6807 7.894708 TGATTTAATGCACCTTGAAATCTGAA 58.105 30.769 15.69 1.53 37.39 3.02
2162 6808 7.814107 TGATTTAATGCACCTTGAAATCTGAAC 59.186 33.333 15.69 0.00 37.39 3.18
2163 6809 6.647334 TTAATGCACCTTGAAATCTGAACA 57.353 33.333 0.00 0.00 0.00 3.18
2164 6810 5.733620 AATGCACCTTGAAATCTGAACAT 57.266 34.783 0.00 0.00 0.00 2.71
2165 6811 4.508461 TGCACCTTGAAATCTGAACATG 57.492 40.909 0.00 0.00 0.00 3.21
2166 6812 3.890756 TGCACCTTGAAATCTGAACATGT 59.109 39.130 0.00 0.00 0.00 3.21
2167 6813 4.232221 GCACCTTGAAATCTGAACATGTG 58.768 43.478 0.00 0.00 0.00 3.21
2168 6814 4.022935 GCACCTTGAAATCTGAACATGTGA 60.023 41.667 0.00 0.00 0.00 3.58
2169 6815 5.336213 GCACCTTGAAATCTGAACATGTGAT 60.336 40.000 0.00 0.00 0.00 3.06
2170 6816 6.090783 CACCTTGAAATCTGAACATGTGATG 58.909 40.000 0.00 0.00 0.00 3.07
2171 6817 5.184479 ACCTTGAAATCTGAACATGTGATGG 59.816 40.000 0.00 0.00 33.60 3.51
2172 6818 5.416639 CCTTGAAATCTGAACATGTGATGGA 59.583 40.000 0.00 0.00 33.60 3.41
2173 6819 6.071784 CCTTGAAATCTGAACATGTGATGGAA 60.072 38.462 0.00 0.00 33.60 3.53
2174 6820 6.897706 TGAAATCTGAACATGTGATGGAAA 57.102 33.333 0.00 0.00 33.60 3.13
2175 6821 7.287512 TGAAATCTGAACATGTGATGGAAAA 57.712 32.000 0.00 0.00 33.60 2.29
2176 6822 7.147312 TGAAATCTGAACATGTGATGGAAAAC 58.853 34.615 0.00 0.00 33.60 2.43
2177 6823 6.653526 AATCTGAACATGTGATGGAAAACA 57.346 33.333 0.00 0.00 33.60 2.83
2178 6824 6.653526 ATCTGAACATGTGATGGAAAACAA 57.346 33.333 0.00 0.00 33.60 2.83
2179 6825 5.830912 TCTGAACATGTGATGGAAAACAAC 58.169 37.500 0.00 0.00 33.60 3.32
2180 6826 4.942852 TGAACATGTGATGGAAAACAACC 58.057 39.130 0.00 0.00 33.60 3.77
2181 6827 4.403752 TGAACATGTGATGGAAAACAACCA 59.596 37.500 0.00 0.00 41.83 3.67
2182 6828 5.105187 TGAACATGTGATGGAAAACAACCAA 60.105 36.000 0.00 0.00 40.93 3.67
2183 6829 5.350504 ACATGTGATGGAAAACAACCAAA 57.649 34.783 0.00 0.00 40.93 3.28
2184 6830 5.927819 ACATGTGATGGAAAACAACCAAAT 58.072 33.333 0.00 0.00 40.93 2.32
2185 6831 6.355747 ACATGTGATGGAAAACAACCAAATT 58.644 32.000 0.00 0.00 40.93 1.82
2186 6832 6.260493 ACATGTGATGGAAAACAACCAAATTG 59.740 34.615 0.00 0.00 40.93 2.32
2187 6833 5.982356 TGTGATGGAAAACAACCAAATTGA 58.018 33.333 0.00 0.00 41.23 2.57
2188 6834 6.047870 TGTGATGGAAAACAACCAAATTGAG 58.952 36.000 0.00 0.00 41.23 3.02
2189 6835 5.050159 GTGATGGAAAACAACCAAATTGAGC 60.050 40.000 0.00 0.00 41.23 4.26
2190 6836 3.802866 TGGAAAACAACCAAATTGAGCC 58.197 40.909 0.00 0.00 41.23 4.70
2191 6837 3.454082 TGGAAAACAACCAAATTGAGCCT 59.546 39.130 0.00 0.00 41.23 4.58
2192 6838 4.080638 TGGAAAACAACCAAATTGAGCCTT 60.081 37.500 0.00 0.00 41.23 4.35
2193 6839 5.129485 TGGAAAACAACCAAATTGAGCCTTA 59.871 36.000 0.00 0.00 41.23 2.69
2194 6840 6.183361 TGGAAAACAACCAAATTGAGCCTTAT 60.183 34.615 0.00 0.00 41.23 1.73
2195 6841 7.015682 TGGAAAACAACCAAATTGAGCCTTATA 59.984 33.333 0.00 0.00 41.23 0.98
2196 6842 7.875554 GGAAAACAACCAAATTGAGCCTTATAA 59.124 33.333 0.00 0.00 41.23 0.98
2197 6843 9.267084 GAAAACAACCAAATTGAGCCTTATAAA 57.733 29.630 0.00 0.00 41.23 1.40
2198 6844 9.620259 AAAACAACCAAATTGAGCCTTATAAAA 57.380 25.926 0.00 0.00 41.23 1.52
2199 6845 9.791801 AAACAACCAAATTGAGCCTTATAAAAT 57.208 25.926 0.00 0.00 41.23 1.82
2200 6846 8.776376 ACAACCAAATTGAGCCTTATAAAATG 57.224 30.769 0.00 0.00 41.23 2.32
2201 6847 7.823799 ACAACCAAATTGAGCCTTATAAAATGG 59.176 33.333 0.00 0.00 41.23 3.16
2202 6848 7.732222 ACCAAATTGAGCCTTATAAAATGGA 57.268 32.000 0.00 0.00 0.00 3.41
2203 6849 8.144862 ACCAAATTGAGCCTTATAAAATGGAA 57.855 30.769 0.00 0.00 0.00 3.53
2204 6850 8.601546 ACCAAATTGAGCCTTATAAAATGGAAA 58.398 29.630 0.00 0.00 0.00 3.13
2205 6851 9.447157 CCAAATTGAGCCTTATAAAATGGAAAA 57.553 29.630 0.00 0.00 0.00 2.29
2236 6882 7.745620 ATTTTGAGATAAGCCCTATAAACCG 57.254 36.000 0.00 0.00 0.00 4.44
2237 6883 6.488769 TTTGAGATAAGCCCTATAAACCGA 57.511 37.500 0.00 0.00 0.00 4.69
2238 6884 6.488769 TTGAGATAAGCCCTATAAACCGAA 57.511 37.500 0.00 0.00 0.00 4.30
2239 6885 6.488769 TGAGATAAGCCCTATAAACCGAAA 57.511 37.500 0.00 0.00 0.00 3.46
2240 6886 6.891388 TGAGATAAGCCCTATAAACCGAAAA 58.109 36.000 0.00 0.00 0.00 2.29
2241 6887 6.990349 TGAGATAAGCCCTATAAACCGAAAAG 59.010 38.462 0.00 0.00 0.00 2.27
2242 6888 7.133133 AGATAAGCCCTATAAACCGAAAAGA 57.867 36.000 0.00 0.00 0.00 2.52
2243 6889 7.571025 AGATAAGCCCTATAAACCGAAAAGAA 58.429 34.615 0.00 0.00 0.00 2.52
2244 6890 7.715686 AGATAAGCCCTATAAACCGAAAAGAAG 59.284 37.037 0.00 0.00 0.00 2.85
2245 6891 4.524053 AGCCCTATAAACCGAAAAGAAGG 58.476 43.478 0.00 0.00 0.00 3.46
2246 6892 3.630769 GCCCTATAAACCGAAAAGAAGGG 59.369 47.826 0.00 0.00 44.43 3.95
2247 6893 4.627013 GCCCTATAAACCGAAAAGAAGGGA 60.627 45.833 8.25 0.00 44.39 4.20
2248 6894 5.123936 CCCTATAAACCGAAAAGAAGGGAG 58.876 45.833 0.00 0.00 44.39 4.30
2277 6923 7.477144 TCATAATAATCAAAGTTGACGCGAT 57.523 32.000 15.93 0.00 40.49 4.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
72 4285 4.273480 CGTCATCTGTTTTGGAACTGAGTT 59.727 41.667 0.00 0.00 43.83 3.01
110 4323 9.387123 GAAATAACTAGCAGAGAAGTTTGTTTG 57.613 33.333 0.00 0.00 37.19 2.93
128 4341 7.225011 ACCTCCTTTTCGAAGAAGAAATAACT 58.775 34.615 16.62 0.00 45.90 2.24
129 4342 7.436430 ACCTCCTTTTCGAAGAAGAAATAAC 57.564 36.000 16.62 0.00 45.90 1.89
133 4346 5.433526 TGAACCTCCTTTTCGAAGAAGAAA 58.566 37.500 16.62 1.42 45.90 2.52
155 4424 0.896940 ATGCAGAGGCCAGGTGTTTG 60.897 55.000 5.01 0.00 40.13 2.93
160 4429 0.395311 CATTGATGCAGAGGCCAGGT 60.395 55.000 5.01 0.00 40.13 4.00
167 4436 8.285394 GGTTGTATACATTACATTGATGCAGAG 58.715 37.037 6.36 0.00 0.00 3.35
285 4556 6.256686 AGAAATCGACTTAGTCATACGTGTC 58.743 40.000 13.14 0.00 32.09 3.67
288 4559 6.127814 TGGAAGAAATCGACTTAGTCATACGT 60.128 38.462 13.14 0.00 32.09 3.57
289 4560 6.263344 TGGAAGAAATCGACTTAGTCATACG 58.737 40.000 13.14 0.00 32.09 3.06
290 4561 9.745880 TTATGGAAGAAATCGACTTAGTCATAC 57.254 33.333 13.14 4.29 32.09 2.39
293 4564 7.608153 TGTTATGGAAGAAATCGACTTAGTCA 58.392 34.615 13.14 0.34 32.09 3.41
294 4565 8.475331 TTGTTATGGAAGAAATCGACTTAGTC 57.525 34.615 1.64 1.64 0.00 2.59
302 4573 5.505173 AGGCATTGTTATGGAAGAAATCG 57.495 39.130 0.00 0.00 32.15 3.34
320 4591 6.262273 AGAACGTTTATTTCTTCTTGAAGGCA 59.738 34.615 0.46 0.00 35.89 4.75
333 4604 4.023536 ACGGTGATGCAAGAACGTTTATTT 60.024 37.500 0.46 0.00 0.00 1.40
341 4612 0.438830 GACGACGGTGATGCAAGAAC 59.561 55.000 0.00 0.00 0.00 3.01
343 4614 0.666274 GTGACGACGGTGATGCAAGA 60.666 55.000 0.00 0.00 0.00 3.02
344 4615 1.781555 GTGACGACGGTGATGCAAG 59.218 57.895 0.00 0.00 0.00 4.01
346 4617 2.430075 CGTGACGACGGTGATGCA 60.430 61.111 0.00 0.00 42.18 3.96
359 4633 2.421751 TCCTTTTTGGTTGGACGTGA 57.578 45.000 0.00 0.00 37.07 4.35
367 4702 4.344968 CCCTTGTCTTCATCCTTTTTGGTT 59.655 41.667 0.00 0.00 37.07 3.67
379 4723 7.004086 ACTATGATGAAAAACCCTTGTCTTCA 58.996 34.615 0.00 0.00 37.36 3.02
380 4724 7.454260 ACTATGATGAAAAACCCTTGTCTTC 57.546 36.000 0.00 0.00 0.00 2.87
393 4737 5.692115 TGGCCTCAGTAACTATGATGAAA 57.308 39.130 3.32 0.00 0.00 2.69
422 4770 0.392998 CTACCGATGTGCTGGCCTTT 60.393 55.000 3.32 0.00 0.00 3.11
498 4850 4.329462 AGAGTCTTGTTCTGACCTTGAC 57.671 45.455 0.00 0.00 35.21 3.18
524 4879 2.038952 ACCTAACTGCTTCATGTGCTGA 59.961 45.455 19.97 5.17 34.27 4.26
528 4883 2.086869 CCCACCTAACTGCTTCATGTG 58.913 52.381 0.00 0.00 0.00 3.21
569 4938 6.918022 GTGCAACTAGTTTTATGGCCAATATC 59.082 38.462 10.96 0.00 0.00 1.63
571 4940 5.712446 TGTGCAACTAGTTTTATGGCCAATA 59.288 36.000 10.96 0.00 38.04 1.90
712 5167 1.225745 GTTTCGTGGCAATCGCTCG 60.226 57.895 0.00 0.00 38.60 5.03
720 5187 5.895636 AATTATTGATGAGTTTCGTGGCA 57.104 34.783 0.00 0.00 0.00 4.92
721 5188 8.682128 TTTAAATTATTGATGAGTTTCGTGGC 57.318 30.769 0.00 0.00 0.00 5.01
751 5224 5.829391 TGTTGGTGTGTGTAGAGTACTTCTA 59.171 40.000 0.00 0.00 37.36 2.10
754 5227 5.105064 AGTTGTTGGTGTGTGTAGAGTACTT 60.105 40.000 0.00 0.00 0.00 2.24
760 5233 4.481368 AGAAGTTGTTGGTGTGTGTAGA 57.519 40.909 0.00 0.00 0.00 2.59
761 5234 4.035208 GGAAGAAGTTGTTGGTGTGTGTAG 59.965 45.833 0.00 0.00 0.00 2.74
768 5241 4.062293 TCGTATGGAAGAAGTTGTTGGTG 58.938 43.478 0.00 0.00 0.00 4.17
790 5263 3.010250 GGATAAACCAGTGTCCCTTCCTT 59.990 47.826 0.00 0.00 38.79 3.36
804 5280 2.106684 GGGTCAGAGATGGGGATAAACC 59.893 54.545 0.00 0.00 38.08 3.27
870 5353 1.202604 TGGTGAACCGAACTTGGACTC 60.203 52.381 0.00 0.00 39.43 3.36
884 5367 3.091545 GGATGGCAAGAGAAATGGTGAA 58.908 45.455 0.00 0.00 0.00 3.18
1013 5568 0.473755 TGCTCTCTTTGGCTTGGACA 59.526 50.000 0.00 0.00 0.00 4.02
1023 5578 1.682257 GAGGCCACCTGCTCTCTTT 59.318 57.895 5.01 0.00 40.92 2.52
1804 6449 4.685169 AGCGAACCATGTAAACAGAATG 57.315 40.909 0.00 0.00 46.00 2.67
1923 6569 5.364735 CCTATAAACCGAAAAGGAGGGAGTA 59.635 44.000 0.00 0.00 45.00 2.59
1924 6570 4.163649 CCTATAAACCGAAAAGGAGGGAGT 59.836 45.833 0.00 0.00 45.00 3.85
1925 6571 4.444449 CCCTATAAACCGAAAAGGAGGGAG 60.444 50.000 0.00 0.00 46.86 4.30
1926 6572 3.457012 CCCTATAAACCGAAAAGGAGGGA 59.543 47.826 0.00 0.00 46.86 4.20
1927 6573 3.816994 CCCTATAAACCGAAAAGGAGGG 58.183 50.000 0.00 0.00 45.00 4.30
1928 6574 3.118000 AGCCCTATAAACCGAAAAGGAGG 60.118 47.826 0.00 0.00 45.00 4.30
1929 6575 4.127907 GAGCCCTATAAACCGAAAAGGAG 58.872 47.826 0.00 0.00 45.00 3.69
1930 6576 3.520317 TGAGCCCTATAAACCGAAAAGGA 59.480 43.478 0.00 0.00 45.00 3.36
1932 6578 6.094881 TGAATTGAGCCCTATAAACCGAAAAG 59.905 38.462 0.00 0.00 0.00 2.27
1933 6579 5.946972 TGAATTGAGCCCTATAAACCGAAAA 59.053 36.000 0.00 0.00 0.00 2.29
1934 6580 5.502079 TGAATTGAGCCCTATAAACCGAAA 58.498 37.500 0.00 0.00 0.00 3.46
1935 6581 5.105567 TGAATTGAGCCCTATAAACCGAA 57.894 39.130 0.00 0.00 0.00 4.30
1936 6582 4.764050 TGAATTGAGCCCTATAAACCGA 57.236 40.909 0.00 0.00 0.00 4.69
1937 6583 5.828299 TTTGAATTGAGCCCTATAAACCG 57.172 39.130 0.00 0.00 0.00 4.44
1938 6584 8.478066 AGATTTTTGAATTGAGCCCTATAAACC 58.522 33.333 0.00 0.00 0.00 3.27
1939 6585 9.521503 GAGATTTTTGAATTGAGCCCTATAAAC 57.478 33.333 0.00 0.00 0.00 2.01
1940 6586 9.253832 TGAGATTTTTGAATTGAGCCCTATAAA 57.746 29.630 0.00 0.00 0.00 1.40
1941 6587 8.686334 GTGAGATTTTTGAATTGAGCCCTATAA 58.314 33.333 0.00 0.00 0.00 0.98
1942 6588 7.285401 GGTGAGATTTTTGAATTGAGCCCTATA 59.715 37.037 0.00 0.00 0.00 1.31
1943 6589 6.097412 GGTGAGATTTTTGAATTGAGCCCTAT 59.903 38.462 0.00 0.00 0.00 2.57
1944 6590 5.418840 GGTGAGATTTTTGAATTGAGCCCTA 59.581 40.000 0.00 0.00 0.00 3.53
1945 6591 4.221482 GGTGAGATTTTTGAATTGAGCCCT 59.779 41.667 0.00 0.00 0.00 5.19
1946 6592 4.021192 TGGTGAGATTTTTGAATTGAGCCC 60.021 41.667 0.00 0.00 0.00 5.19
1947 6593 5.138125 TGGTGAGATTTTTGAATTGAGCC 57.862 39.130 0.00 0.00 0.00 4.70
1948 6594 6.869913 TGATTGGTGAGATTTTTGAATTGAGC 59.130 34.615 0.00 0.00 0.00 4.26
1949 6595 8.821147 TTGATTGGTGAGATTTTTGAATTGAG 57.179 30.769 0.00 0.00 0.00 3.02
1950 6596 7.874016 CCTTGATTGGTGAGATTTTTGAATTGA 59.126 33.333 0.00 0.00 0.00 2.57
1951 6597 7.658575 ACCTTGATTGGTGAGATTTTTGAATTG 59.341 33.333 0.00 0.00 39.17 2.32
1952 6598 7.738847 ACCTTGATTGGTGAGATTTTTGAATT 58.261 30.769 0.00 0.00 39.17 2.17
1953 6599 7.307131 ACCTTGATTGGTGAGATTTTTGAAT 57.693 32.000 0.00 0.00 39.17 2.57
1954 6600 6.729690 ACCTTGATTGGTGAGATTTTTGAA 57.270 33.333 0.00 0.00 39.17 2.69
1955 6601 7.230747 TCTACCTTGATTGGTGAGATTTTTGA 58.769 34.615 0.00 0.00 41.05 2.69
1956 6602 7.452880 TCTACCTTGATTGGTGAGATTTTTG 57.547 36.000 0.00 0.00 41.05 2.44
1957 6603 7.123247 CCATCTACCTTGATTGGTGAGATTTTT 59.877 37.037 0.00 0.00 41.05 1.94
1958 6604 6.604795 CCATCTACCTTGATTGGTGAGATTTT 59.395 38.462 0.00 0.00 41.05 1.82
1959 6605 6.125029 CCATCTACCTTGATTGGTGAGATTT 58.875 40.000 0.00 0.00 41.05 2.17
1960 6606 5.192522 ACCATCTACCTTGATTGGTGAGATT 59.807 40.000 0.00 0.00 41.05 2.40
1961 6607 4.723789 ACCATCTACCTTGATTGGTGAGAT 59.276 41.667 0.00 0.00 41.05 2.75
1962 6608 4.080919 CACCATCTACCTTGATTGGTGAGA 60.081 45.833 13.72 0.00 41.99 3.27
1963 6609 4.080919 TCACCATCTACCTTGATTGGTGAG 60.081 45.833 16.77 0.00 42.49 3.51
1964 6610 3.843619 TCACCATCTACCTTGATTGGTGA 59.156 43.478 16.77 16.77 43.59 4.02
1965 6611 4.194640 CTCACCATCTACCTTGATTGGTG 58.805 47.826 12.94 12.94 41.47 4.17
1966 6612 3.846588 ACTCACCATCTACCTTGATTGGT 59.153 43.478 0.00 0.00 43.66 3.67
1967 6613 4.194640 CACTCACCATCTACCTTGATTGG 58.805 47.826 0.00 0.00 0.00 3.16
1968 6614 4.194640 CCACTCACCATCTACCTTGATTG 58.805 47.826 0.00 0.00 0.00 2.67
1969 6615 3.846588 ACCACTCACCATCTACCTTGATT 59.153 43.478 0.00 0.00 0.00 2.57
1970 6616 3.198635 CACCACTCACCATCTACCTTGAT 59.801 47.826 0.00 0.00 0.00 2.57
1971 6617 2.567169 CACCACTCACCATCTACCTTGA 59.433 50.000 0.00 0.00 0.00 3.02
1972 6618 2.567169 TCACCACTCACCATCTACCTTG 59.433 50.000 0.00 0.00 0.00 3.61
1973 6619 2.902608 TCACCACTCACCATCTACCTT 58.097 47.619 0.00 0.00 0.00 3.50
1974 6620 2.623418 TCACCACTCACCATCTACCT 57.377 50.000 0.00 0.00 0.00 3.08
1975 6621 3.695830 TTTCACCACTCACCATCTACC 57.304 47.619 0.00 0.00 0.00 3.18
1976 6622 7.865706 AAATATTTCACCACTCACCATCTAC 57.134 36.000 0.00 0.00 0.00 2.59
1977 6623 8.877864 AAAAATATTTCACCACTCACCATCTA 57.122 30.769 0.10 0.00 0.00 1.98
1978 6624 7.781324 AAAAATATTTCACCACTCACCATCT 57.219 32.000 0.10 0.00 0.00 2.90
2018 6664 7.283354 AGGAAAACTAGAGCATTAATTAGGTGC 59.717 37.037 13.92 13.92 39.10 5.01
2019 6665 8.738645 AGGAAAACTAGAGCATTAATTAGGTG 57.261 34.615 0.00 0.00 0.00 4.00
2089 6735 8.706492 AAATTGACCAATGCATGTACTTTATG 57.294 30.769 0.00 0.00 0.00 1.90
2090 6736 9.369904 GAAAATTGACCAATGCATGTACTTTAT 57.630 29.630 0.00 0.00 0.00 1.40
2091 6737 8.584157 AGAAAATTGACCAATGCATGTACTTTA 58.416 29.630 0.00 0.00 0.00 1.85
2092 6738 7.444299 AGAAAATTGACCAATGCATGTACTTT 58.556 30.769 0.00 0.00 0.00 2.66
2093 6739 6.996509 AGAAAATTGACCAATGCATGTACTT 58.003 32.000 0.00 0.00 0.00 2.24
2094 6740 6.435277 AGAGAAAATTGACCAATGCATGTACT 59.565 34.615 0.00 0.00 0.00 2.73
2095 6741 6.624423 AGAGAAAATTGACCAATGCATGTAC 58.376 36.000 0.00 0.00 0.00 2.90
2096 6742 6.839124 AGAGAAAATTGACCAATGCATGTA 57.161 33.333 0.00 0.00 0.00 2.29
2097 6743 5.733620 AGAGAAAATTGACCAATGCATGT 57.266 34.783 0.00 0.00 0.00 3.21
2098 6744 8.712285 ATTAAGAGAAAATTGACCAATGCATG 57.288 30.769 0.00 0.00 0.00 4.06
2099 6745 9.807649 GTATTAAGAGAAAATTGACCAATGCAT 57.192 29.630 0.00 0.00 0.00 3.96
2100 6746 9.023962 AGTATTAAGAGAAAATTGACCAATGCA 57.976 29.630 0.00 0.00 0.00 3.96
2101 6747 9.860898 AAGTATTAAGAGAAAATTGACCAATGC 57.139 29.630 0.00 0.00 0.00 3.56
2103 6749 9.860898 GCAAGTATTAAGAGAAAATTGACCAAT 57.139 29.630 0.00 0.00 0.00 3.16
2104 6750 8.855110 TGCAAGTATTAAGAGAAAATTGACCAA 58.145 29.630 0.00 0.00 0.00 3.67
2105 6751 8.402798 TGCAAGTATTAAGAGAAAATTGACCA 57.597 30.769 0.00 0.00 0.00 4.02
2106 6752 9.294030 CATGCAAGTATTAAGAGAAAATTGACC 57.706 33.333 0.00 0.00 0.00 4.02
2107 6753 8.801913 GCATGCAAGTATTAAGAGAAAATTGAC 58.198 33.333 14.21 0.00 0.00 3.18
2108 6754 8.522003 TGCATGCAAGTATTAAGAGAAAATTGA 58.478 29.630 20.30 0.00 0.00 2.57
2109 6755 8.692110 TGCATGCAAGTATTAAGAGAAAATTG 57.308 30.769 20.30 0.00 0.00 2.32
2110 6756 9.880157 ATTGCATGCAAGTATTAAGAGAAAATT 57.120 25.926 34.15 11.77 39.47 1.82
2111 6757 9.309516 CATTGCATGCAAGTATTAAGAGAAAAT 57.690 29.630 34.15 12.14 39.47 1.82
2112 6758 8.522003 TCATTGCATGCAAGTATTAAGAGAAAA 58.478 29.630 34.15 9.52 39.47 2.29
2113 6759 8.054152 TCATTGCATGCAAGTATTAAGAGAAA 57.946 30.769 34.15 10.19 39.47 2.52
2114 6760 7.628769 TCATTGCATGCAAGTATTAAGAGAA 57.371 32.000 34.15 10.64 39.47 2.87
2115 6761 7.812690 ATCATTGCATGCAAGTATTAAGAGA 57.187 32.000 34.15 20.12 39.47 3.10
2116 6762 8.867112 AAATCATTGCATGCAAGTATTAAGAG 57.133 30.769 34.15 16.39 39.47 2.85
2120 6766 8.980610 GCATTAAATCATTGCATGCAAGTATTA 58.019 29.630 34.15 25.22 39.47 0.98
2121 6767 7.496263 TGCATTAAATCATTGCATGCAAGTATT 59.504 29.630 34.15 29.40 40.64 1.89
2122 6768 6.987404 TGCATTAAATCATTGCATGCAAGTAT 59.013 30.769 34.15 26.18 40.64 2.12
2123 6769 6.256104 GTGCATTAAATCATTGCATGCAAGTA 59.744 34.615 34.15 25.25 46.90 2.24
2124 6770 5.064198 GTGCATTAAATCATTGCATGCAAGT 59.936 36.000 34.15 21.32 46.90 3.16
2125 6771 5.498159 GTGCATTAAATCATTGCATGCAAG 58.502 37.500 34.15 25.40 46.90 4.01
2126 6772 4.333095 GGTGCATTAAATCATTGCATGCAA 59.667 37.500 33.57 33.57 46.90 4.08
2127 6773 3.872182 GGTGCATTAAATCATTGCATGCA 59.128 39.130 18.46 18.46 46.90 3.96
2128 6774 4.124238 AGGTGCATTAAATCATTGCATGC 58.876 39.130 11.82 11.82 46.90 4.06
2129 6775 5.813157 TCAAGGTGCATTAAATCATTGCATG 59.187 36.000 4.14 0.11 46.90 4.06
2130 6776 5.979993 TCAAGGTGCATTAAATCATTGCAT 58.020 33.333 4.14 0.00 46.90 3.96
2131 6777 5.402997 TCAAGGTGCATTAAATCATTGCA 57.597 34.783 0.00 0.00 43.63 4.08
2132 6778 6.724694 TTTCAAGGTGCATTAAATCATTGC 57.275 33.333 0.00 0.00 36.91 3.56
2133 6779 8.600625 CAGATTTCAAGGTGCATTAAATCATTG 58.399 33.333 17.06 7.51 38.45 2.82
2134 6780 8.533657 TCAGATTTCAAGGTGCATTAAATCATT 58.466 29.630 17.06 0.00 38.45 2.57
2135 6781 8.070034 TCAGATTTCAAGGTGCATTAAATCAT 57.930 30.769 17.06 6.62 38.45 2.45
2136 6782 7.465353 TCAGATTTCAAGGTGCATTAAATCA 57.535 32.000 17.06 3.49 38.45 2.57
2137 6783 7.814107 TGTTCAGATTTCAAGGTGCATTAAATC 59.186 33.333 0.00 2.14 37.00 2.17
2138 6784 7.669427 TGTTCAGATTTCAAGGTGCATTAAAT 58.331 30.769 0.00 0.00 0.00 1.40
2139 6785 7.048629 TGTTCAGATTTCAAGGTGCATTAAA 57.951 32.000 0.00 0.00 0.00 1.52
2140 6786 6.647334 TGTTCAGATTTCAAGGTGCATTAA 57.353 33.333 0.00 0.00 0.00 1.40
2141 6787 6.209192 ACATGTTCAGATTTCAAGGTGCATTA 59.791 34.615 0.00 0.00 0.00 1.90
2142 6788 5.011329 ACATGTTCAGATTTCAAGGTGCATT 59.989 36.000 0.00 0.00 0.00 3.56
2143 6789 4.525487 ACATGTTCAGATTTCAAGGTGCAT 59.475 37.500 0.00 0.00 0.00 3.96
2144 6790 3.890756 ACATGTTCAGATTTCAAGGTGCA 59.109 39.130 0.00 0.00 0.00 4.57
2145 6791 4.022935 TCACATGTTCAGATTTCAAGGTGC 60.023 41.667 0.00 0.00 0.00 5.01
2146 6792 5.694231 TCACATGTTCAGATTTCAAGGTG 57.306 39.130 0.00 0.00 0.00 4.00
2147 6793 5.184479 CCATCACATGTTCAGATTTCAAGGT 59.816 40.000 0.00 0.00 0.00 3.50
2148 6794 5.416639 TCCATCACATGTTCAGATTTCAAGG 59.583 40.000 0.00 0.00 0.00 3.61
2149 6795 6.505044 TCCATCACATGTTCAGATTTCAAG 57.495 37.500 0.00 0.00 0.00 3.02
2150 6796 6.897706 TTCCATCACATGTTCAGATTTCAA 57.102 33.333 0.00 0.00 0.00 2.69
2151 6797 6.897706 TTTCCATCACATGTTCAGATTTCA 57.102 33.333 0.00 0.00 0.00 2.69
2152 6798 7.147312 TGTTTTCCATCACATGTTCAGATTTC 58.853 34.615 0.00 0.00 0.00 2.17
2153 6799 7.053316 TGTTTTCCATCACATGTTCAGATTT 57.947 32.000 0.00 0.00 0.00 2.17
2154 6800 6.653526 TGTTTTCCATCACATGTTCAGATT 57.346 33.333 0.00 0.00 0.00 2.40
2155 6801 6.449698 GTTGTTTTCCATCACATGTTCAGAT 58.550 36.000 0.00 0.00 0.00 2.90
2156 6802 5.221224 GGTTGTTTTCCATCACATGTTCAGA 60.221 40.000 0.00 0.00 0.00 3.27
2157 6803 4.984161 GGTTGTTTTCCATCACATGTTCAG 59.016 41.667 0.00 0.00 0.00 3.02
2158 6804 4.403752 TGGTTGTTTTCCATCACATGTTCA 59.596 37.500 0.00 0.00 0.00 3.18
2159 6805 4.942852 TGGTTGTTTTCCATCACATGTTC 58.057 39.130 0.00 0.00 0.00 3.18
2160 6806 5.350504 TTGGTTGTTTTCCATCACATGTT 57.649 34.783 0.00 0.00 34.75 2.71
2161 6807 5.350504 TTTGGTTGTTTTCCATCACATGT 57.649 34.783 0.00 0.00 34.75 3.21
2162 6808 6.482641 TCAATTTGGTTGTTTTCCATCACATG 59.517 34.615 0.00 0.00 38.95 3.21
2163 6809 6.590068 TCAATTTGGTTGTTTTCCATCACAT 58.410 32.000 0.00 0.00 38.95 3.21
2164 6810 5.982356 TCAATTTGGTTGTTTTCCATCACA 58.018 33.333 0.00 0.00 38.95 3.58
2165 6811 5.050159 GCTCAATTTGGTTGTTTTCCATCAC 60.050 40.000 0.00 0.00 38.95 3.06
2166 6812 5.055812 GCTCAATTTGGTTGTTTTCCATCA 58.944 37.500 0.00 0.00 38.95 3.07
2167 6813 4.452114 GGCTCAATTTGGTTGTTTTCCATC 59.548 41.667 0.00 0.00 38.95 3.51
2168 6814 4.102996 AGGCTCAATTTGGTTGTTTTCCAT 59.897 37.500 0.00 0.00 38.95 3.41
2169 6815 3.454082 AGGCTCAATTTGGTTGTTTTCCA 59.546 39.130 0.00 0.00 38.95 3.53
2170 6816 4.071961 AGGCTCAATTTGGTTGTTTTCC 57.928 40.909 0.00 0.00 38.95 3.13
2171 6817 8.825667 TTATAAGGCTCAATTTGGTTGTTTTC 57.174 30.769 0.00 0.00 38.95 2.29
2172 6818 9.620259 TTTTATAAGGCTCAATTTGGTTGTTTT 57.380 25.926 0.00 0.00 38.95 2.43
2173 6819 9.791801 ATTTTATAAGGCTCAATTTGGTTGTTT 57.208 25.926 0.00 0.00 38.95 2.83
2174 6820 9.218440 CATTTTATAAGGCTCAATTTGGTTGTT 57.782 29.630 0.00 0.00 38.95 2.83
2175 6821 7.823799 CCATTTTATAAGGCTCAATTTGGTTGT 59.176 33.333 0.00 0.00 38.95 3.32
2176 6822 8.040132 TCCATTTTATAAGGCTCAATTTGGTTG 58.960 33.333 0.00 0.00 39.25 3.77
2177 6823 8.144862 TCCATTTTATAAGGCTCAATTTGGTT 57.855 30.769 0.00 0.00 0.00 3.67
2178 6824 7.732222 TCCATTTTATAAGGCTCAATTTGGT 57.268 32.000 0.00 0.00 0.00 3.67
2179 6825 9.447157 TTTTCCATTTTATAAGGCTCAATTTGG 57.553 29.630 0.00 0.00 0.00 3.28
2210 6856 8.630037 CGGTTTATAGGGCTTATCTCAAAATTT 58.370 33.333 0.00 0.00 0.00 1.82
2211 6857 7.996644 TCGGTTTATAGGGCTTATCTCAAAATT 59.003 33.333 0.00 0.00 0.00 1.82
2212 6858 7.514721 TCGGTTTATAGGGCTTATCTCAAAAT 58.485 34.615 0.00 0.00 0.00 1.82
2213 6859 6.891388 TCGGTTTATAGGGCTTATCTCAAAA 58.109 36.000 0.00 0.00 0.00 2.44
2214 6860 6.488769 TCGGTTTATAGGGCTTATCTCAAA 57.511 37.500 0.00 0.00 0.00 2.69
2215 6861 6.488769 TTCGGTTTATAGGGCTTATCTCAA 57.511 37.500 0.00 0.00 0.00 3.02
2216 6862 6.488769 TTTCGGTTTATAGGGCTTATCTCA 57.511 37.500 0.00 0.00 0.00 3.27
2217 6863 7.215085 TCTTTTCGGTTTATAGGGCTTATCTC 58.785 38.462 0.00 0.00 0.00 2.75
2218 6864 7.133133 TCTTTTCGGTTTATAGGGCTTATCT 57.867 36.000 0.00 0.00 0.00 1.98
2219 6865 7.041303 CCTTCTTTTCGGTTTATAGGGCTTATC 60.041 40.741 0.00 0.00 0.00 1.75
2220 6866 6.771267 CCTTCTTTTCGGTTTATAGGGCTTAT 59.229 38.462 0.00 0.00 0.00 1.73
2221 6867 6.117488 CCTTCTTTTCGGTTTATAGGGCTTA 58.883 40.000 0.00 0.00 0.00 3.09
2222 6868 4.948004 CCTTCTTTTCGGTTTATAGGGCTT 59.052 41.667 0.00 0.00 0.00 4.35
2223 6869 4.524053 CCTTCTTTTCGGTTTATAGGGCT 58.476 43.478 0.00 0.00 0.00 5.19
2224 6870 3.630769 CCCTTCTTTTCGGTTTATAGGGC 59.369 47.826 0.00 0.00 35.11 5.19
2225 6871 5.106876 TCCCTTCTTTTCGGTTTATAGGG 57.893 43.478 0.00 0.00 41.98 3.53
2226 6872 5.742063 ACTCCCTTCTTTTCGGTTTATAGG 58.258 41.667 0.00 0.00 0.00 2.57
2229 6875 8.711170 TGATATACTCCCTTCTTTTCGGTTTAT 58.289 33.333 0.00 0.00 0.00 1.40
2230 6876 8.081517 TGATATACTCCCTTCTTTTCGGTTTA 57.918 34.615 0.00 0.00 0.00 2.01
2231 6877 6.954232 TGATATACTCCCTTCTTTTCGGTTT 58.046 36.000 0.00 0.00 0.00 3.27
2232 6878 6.555463 TGATATACTCCCTTCTTTTCGGTT 57.445 37.500 0.00 0.00 0.00 4.44
2233 6879 6.749036 ATGATATACTCCCTTCTTTTCGGT 57.251 37.500 0.00 0.00 0.00 4.69


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

AutoCloner maintained by Alex Coulton.