Multiple sequence alignment - TraesCS6D01G387800

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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 TraesCS6D01G387800 chr6D 100.000 1697 0 0 836 2532 464533027 464531331 0.000000e+00 3134.0
1 TraesCS6D01G387800 chr6D 93.387 1754 48 17 836 2532 17067353 17069095 0.000000e+00 2534.0
2 TraesCS6D01G387800 chr6D 93.550 1721 55 9 836 2532 82906573 82908261 0.000000e+00 2512.0
3 TraesCS6D01G387800 chr6D 97.517 1007 23 1 836 1840 100359162 100360168 0.000000e+00 1720.0
4 TraesCS6D01G387800 chr6D 100.000 569 0 0 1 569 464533862 464533294 0.000000e+00 1051.0
5 TraesCS6D01G387800 chr6D 96.167 574 8 4 1854 2413 385527339 385527912 0.000000e+00 926.0
6 TraesCS6D01G387800 chr6D 92.570 323 21 1 4 326 464574818 464574499 6.380000e-126 460.0
7 TraesCS6D01G387800 chr6D 97.436 234 6 0 336 569 17067079 17067312 1.410000e-107 399.0
8 TraesCS6D01G387800 chr6D 97.436 234 6 0 336 569 82906291 82906524 1.410000e-107 399.0
9 TraesCS6D01G387800 chr6D 97.436 234 6 0 336 569 100358887 100359120 1.410000e-107 399.0
10 TraesCS6D01G387800 chr6D 76.433 314 42 11 4 315 464609766 464609483 9.440000e-30 141.0
11 TraesCS6D01G387800 chr5D 94.460 1733 38 10 836 2532 45647976 45646266 0.000000e+00 2615.0
12 TraesCS6D01G387800 chr5D 93.829 1734 48 12 836 2532 523329875 523328164 0.000000e+00 2555.0
13 TraesCS6D01G387800 chr5D 93.246 1747 45 11 836 2532 459635530 459633807 0.000000e+00 2505.0
14 TraesCS6D01G387800 chr5D 97.217 1006 25 2 836 1840 543865534 543866537 0.000000e+00 1700.0
15 TraesCS6D01G387800 chr5D 96.713 1004 31 2 839 1840 447966329 447967332 0.000000e+00 1670.0
16 TraesCS6D01G387800 chr5D 98.291 234 4 0 336 569 523330150 523329917 6.520000e-111 411.0
17 TraesCS6D01G387800 chr5D 97.436 234 6 0 336 569 45648255 45648022 1.410000e-107 399.0
18 TraesCS6D01G387800 chr5D 97.436 234 6 0 336 569 79126791 79126558 1.410000e-107 399.0
19 TraesCS6D01G387800 chr1D 95.009 1663 45 5 847 2471 468089715 468088053 0.000000e+00 2577.0
20 TraesCS6D01G387800 chr1D 97.512 1005 24 1 836 1840 490433025 490434028 0.000000e+00 1716.0
21 TraesCS6D01G387800 chr1D 93.660 694 8 15 1854 2532 452656413 452655741 0.000000e+00 1005.0
22 TraesCS6D01G387800 chr1D 98.291 234 4 0 336 569 468090006 468089773 6.520000e-111 411.0
23 TraesCS6D01G387800 chr2D 92.816 1726 53 19 836 2532 107869524 107871207 0.000000e+00 2435.0
24 TraesCS6D01G387800 chr2D 96.825 1008 29 2 836 1840 645194948 645195955 0.000000e+00 1681.0
25 TraesCS6D01G387800 chr2D 91.625 1003 43 19 1545 2530 17089140 17088162 0.000000e+00 1349.0
26 TraesCS6D01G387800 chr3D 93.621 1646 43 21 924 2532 571463629 571462009 0.000000e+00 2401.0
27 TraesCS6D01G387800 chr3D 97.112 1004 28 1 838 1840 611121545 611122548 0.000000e+00 1692.0
28 TraesCS6D01G387800 chr3D 96.915 1005 30 1 836 1840 45527223 45528226 0.000000e+00 1683.0
29 TraesCS6D01G387800 chr3D 94.011 718 18 5 1830 2532 536923391 536924098 0.000000e+00 1064.0
30 TraesCS6D01G387800 chr3D 93.974 697 25 9 1837 2532 611131277 611131957 0.000000e+00 1038.0
31 TraesCS6D01G387800 chr3D 80.159 126 22 3 119 244 515824837 515824959 9.650000e-15 91.6
32 TraesCS6D01G387800 chr7D 94.975 1393 30 9 1178 2532 623633205 623634595 0.000000e+00 2148.0
33 TraesCS6D01G387800 chr7D 91.264 870 39 10 1678 2532 90413064 90413911 0.000000e+00 1151.0
34 TraesCS6D01G387800 chr7D 97.436 234 6 0 336 569 623617886 623618119 1.410000e-107 399.0
35 TraesCS6D01G387800 chr7D 90.196 51 2 2 196 245 8560463 8560415 2.100000e-06 63.9
36 TraesCS6D01G387800 chrUn 97.612 1005 24 0 836 1840 33192964 33193968 0.000000e+00 1724.0
37 TraesCS6D01G387800 chrUn 91.954 870 32 11 1678 2532 95407669 95408515 0.000000e+00 1184.0
38 TraesCS6D01G387800 chrUn 81.967 122 20 1 122 243 399069452 399069333 4.460000e-18 102.0
39 TraesCS6D01G387800 chrUn 81.967 122 20 1 122 243 467735020 467735139 4.460000e-18 102.0
40 TraesCS6D01G387800 chrUn 81.967 122 20 1 122 243 474544596 474544477 4.460000e-18 102.0
41 TraesCS6D01G387800 chr1A 96.931 1010 26 1 836 1840 567958932 567957923 0.000000e+00 1688.0
42 TraesCS6D01G387800 chr3B 94.847 718 20 5 1830 2532 43224615 43225330 0.000000e+00 1105.0
43 TraesCS6D01G387800 chr2B 93.166 717 20 6 1830 2532 786019068 786018367 0.000000e+00 1026.0
44 TraesCS6D01G387800 chr2B 98.276 232 4 0 336 567 770637513 770637744 8.430000e-110 407.0
45 TraesCS6D01G387800 chr2B 97.500 40 1 0 122 161 165173197 165173236 4.520000e-08 69.4
46 TraesCS6D01G387800 chr6A 91.950 323 18 4 4 326 611096069 611095755 1.790000e-121 446.0
47 TraesCS6D01G387800 chr6A 91.860 86 7 0 4 89 611174798 611174713 1.230000e-23 121.0
48 TraesCS6D01G387800 chr6B 91.331 323 23 3 4 326 708351567 708351250 1.080000e-118 436.0
49 TraesCS6D01G387800 chr6B 78.354 328 35 16 4 328 708373178 708372884 2.000000e-41 180.0
50 TraesCS6D01G387800 chr3A 85.039 127 14 5 121 245 9836345 9836468 9.510000e-25 124.0
51 TraesCS6D01G387800 chr2A 95.652 46 0 2 121 165 97565373 97565417 3.490000e-09 73.1


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 TraesCS6D01G387800 chr6D 464531331 464533862 2531 True 2092.5 3134 100.0000 1 2532 2 chr6D.!!$R3 2531
1 TraesCS6D01G387800 chr6D 17067079 17069095 2016 False 1466.5 2534 95.4115 336 2532 2 chr6D.!!$F2 2196
2 TraesCS6D01G387800 chr6D 82906291 82908261 1970 False 1455.5 2512 95.4930 336 2532 2 chr6D.!!$F3 2196
3 TraesCS6D01G387800 chr6D 100358887 100360168 1281 False 1059.5 1720 97.4765 336 1840 2 chr6D.!!$F4 1504
4 TraesCS6D01G387800 chr6D 385527339 385527912 573 False 926.0 926 96.1670 1854 2413 1 chr6D.!!$F1 559
5 TraesCS6D01G387800 chr5D 459633807 459635530 1723 True 2505.0 2505 93.2460 836 2532 1 chr5D.!!$R2 1696
6 TraesCS6D01G387800 chr5D 543865534 543866537 1003 False 1700.0 1700 97.2170 836 1840 1 chr5D.!!$F2 1004
7 TraesCS6D01G387800 chr5D 447966329 447967332 1003 False 1670.0 1670 96.7130 839 1840 1 chr5D.!!$F1 1001
8 TraesCS6D01G387800 chr5D 45646266 45648255 1989 True 1507.0 2615 95.9480 336 2532 2 chr5D.!!$R3 2196
9 TraesCS6D01G387800 chr5D 523328164 523330150 1986 True 1483.0 2555 96.0600 336 2532 2 chr5D.!!$R4 2196
10 TraesCS6D01G387800 chr1D 490433025 490434028 1003 False 1716.0 1716 97.5120 836 1840 1 chr1D.!!$F1 1004
11 TraesCS6D01G387800 chr1D 468088053 468090006 1953 True 1494.0 2577 96.6500 336 2471 2 chr1D.!!$R2 2135
12 TraesCS6D01G387800 chr1D 452655741 452656413 672 True 1005.0 1005 93.6600 1854 2532 1 chr1D.!!$R1 678
13 TraesCS6D01G387800 chr2D 107869524 107871207 1683 False 2435.0 2435 92.8160 836 2532 1 chr2D.!!$F1 1696
14 TraesCS6D01G387800 chr2D 645194948 645195955 1007 False 1681.0 1681 96.8250 836 1840 1 chr2D.!!$F2 1004
15 TraesCS6D01G387800 chr2D 17088162 17089140 978 True 1349.0 1349 91.6250 1545 2530 1 chr2D.!!$R1 985
16 TraesCS6D01G387800 chr3D 571462009 571463629 1620 True 2401.0 2401 93.6210 924 2532 1 chr3D.!!$R1 1608
17 TraesCS6D01G387800 chr3D 611121545 611122548 1003 False 1692.0 1692 97.1120 838 1840 1 chr3D.!!$F4 1002
18 TraesCS6D01G387800 chr3D 45527223 45528226 1003 False 1683.0 1683 96.9150 836 1840 1 chr3D.!!$F1 1004
19 TraesCS6D01G387800 chr3D 536923391 536924098 707 False 1064.0 1064 94.0110 1830 2532 1 chr3D.!!$F3 702
20 TraesCS6D01G387800 chr3D 611131277 611131957 680 False 1038.0 1038 93.9740 1837 2532 1 chr3D.!!$F5 695
21 TraesCS6D01G387800 chr7D 623633205 623634595 1390 False 2148.0 2148 94.9750 1178 2532 1 chr7D.!!$F3 1354
22 TraesCS6D01G387800 chr7D 90413064 90413911 847 False 1151.0 1151 91.2640 1678 2532 1 chr7D.!!$F1 854
23 TraesCS6D01G387800 chrUn 33192964 33193968 1004 False 1724.0 1724 97.6120 836 1840 1 chrUn.!!$F1 1004
24 TraesCS6D01G387800 chrUn 95407669 95408515 846 False 1184.0 1184 91.9540 1678 2532 1 chrUn.!!$F2 854
25 TraesCS6D01G387800 chr1A 567957923 567958932 1009 True 1688.0 1688 96.9310 836 1840 1 chr1A.!!$R1 1004
26 TraesCS6D01G387800 chr3B 43224615 43225330 715 False 1105.0 1105 94.8470 1830 2532 1 chr3B.!!$F1 702
27 TraesCS6D01G387800 chr2B 786018367 786019068 701 True 1026.0 1026 93.1660 1830 2532 1 chr2B.!!$R1 702

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
331 332 0.034574 AGCATCACAACGGGCCAATA 60.035 50.0 4.39 0.0 0.0 1.9 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1773 1815 0.828022 ACGGCCCAACATCTATTCGA 59.172 50.0 0.0 0.0 0.0 3.71 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
17 18 2.203070 AATGAGGACCGCATCGCC 60.203 61.111 11.47 0.00 0.00 5.54
18 19 4.592192 ATGAGGACCGCATCGCCG 62.592 66.667 4.66 0.00 0.00 6.46
20 21 4.814294 GAGGACCGCATCGCCGTT 62.814 66.667 0.00 0.00 0.00 4.44
24 25 4.444838 ACCGCATCGCCGTTGCTA 62.445 61.111 17.04 0.00 37.96 3.49
25 26 3.192230 CCGCATCGCCGTTGCTAA 61.192 61.111 17.04 0.00 37.96 3.09
26 27 2.534019 CCGCATCGCCGTTGCTAAT 61.534 57.895 17.04 0.00 37.96 1.73
27 28 1.218875 CCGCATCGCCGTTGCTAATA 61.219 55.000 17.04 0.00 37.96 0.98
28 29 0.579630 CGCATCGCCGTTGCTAATAA 59.420 50.000 17.04 0.00 37.96 1.40
29 30 1.397190 CGCATCGCCGTTGCTAATAAG 60.397 52.381 17.04 0.00 37.96 1.73
30 31 1.864711 GCATCGCCGTTGCTAATAAGA 59.135 47.619 12.62 0.00 37.14 2.10
31 32 2.096713 GCATCGCCGTTGCTAATAAGAG 60.097 50.000 12.62 0.00 37.14 2.85
32 33 3.381045 CATCGCCGTTGCTAATAAGAGA 58.619 45.455 0.00 0.00 34.43 3.10
33 34 2.805845 TCGCCGTTGCTAATAAGAGAC 58.194 47.619 0.00 0.00 34.43 3.36
34 35 2.164827 TCGCCGTTGCTAATAAGAGACA 59.835 45.455 0.00 0.00 34.43 3.41
35 36 2.281762 CGCCGTTGCTAATAAGAGACAC 59.718 50.000 0.00 0.00 34.43 3.67
36 37 2.608090 GCCGTTGCTAATAAGAGACACC 59.392 50.000 0.00 0.00 33.53 4.16
37 38 3.195661 CCGTTGCTAATAAGAGACACCC 58.804 50.000 0.00 0.00 0.00 4.61
38 39 3.118738 CCGTTGCTAATAAGAGACACCCT 60.119 47.826 0.00 0.00 0.00 4.34
39 40 3.865745 CGTTGCTAATAAGAGACACCCTG 59.134 47.826 0.00 0.00 0.00 4.45
40 41 4.620803 CGTTGCTAATAAGAGACACCCTGT 60.621 45.833 0.00 0.00 0.00 4.00
41 42 5.246307 GTTGCTAATAAGAGACACCCTGTT 58.754 41.667 0.00 0.00 32.63 3.16
42 43 5.499004 TGCTAATAAGAGACACCCTGTTT 57.501 39.130 0.00 0.00 30.34 2.83
43 44 5.488341 TGCTAATAAGAGACACCCTGTTTC 58.512 41.667 0.00 0.00 32.26 2.78
44 45 5.012664 TGCTAATAAGAGACACCCTGTTTCA 59.987 40.000 0.00 0.00 34.31 2.69
45 46 5.938125 GCTAATAAGAGACACCCTGTTTCAA 59.062 40.000 0.00 0.00 34.31 2.69
46 47 6.430000 GCTAATAAGAGACACCCTGTTTCAAA 59.570 38.462 0.00 0.00 34.31 2.69
47 48 7.040686 GCTAATAAGAGACACCCTGTTTCAAAA 60.041 37.037 0.00 0.00 34.31 2.44
48 49 7.839680 AATAAGAGACACCCTGTTTCAAAAT 57.160 32.000 0.00 0.00 34.31 1.82
49 50 8.934023 AATAAGAGACACCCTGTTTCAAAATA 57.066 30.769 0.00 0.00 34.31 1.40
50 51 9.533831 AATAAGAGACACCCTGTTTCAAAATAT 57.466 29.630 0.00 0.00 34.31 1.28
51 52 6.824305 AGAGACACCCTGTTTCAAAATATG 57.176 37.500 0.00 0.00 34.31 1.78
52 53 6.542821 AGAGACACCCTGTTTCAAAATATGA 58.457 36.000 0.00 0.00 34.31 2.15
53 54 6.656693 AGAGACACCCTGTTTCAAAATATGAG 59.343 38.462 0.00 0.00 39.77 2.90
54 55 6.542821 AGACACCCTGTTTCAAAATATGAGA 58.457 36.000 0.00 0.00 39.77 3.27
55 56 6.431234 AGACACCCTGTTTCAAAATATGAGAC 59.569 38.462 0.00 0.00 42.13 3.36
56 57 6.306987 ACACCCTGTTTCAAAATATGAGACT 58.693 36.000 1.61 0.00 42.25 3.24
57 58 6.207417 ACACCCTGTTTCAAAATATGAGACTG 59.793 38.462 1.61 1.23 42.25 3.51
58 59 6.430925 CACCCTGTTTCAAAATATGAGACTGA 59.569 38.462 7.32 0.00 42.25 3.41
59 60 6.656693 ACCCTGTTTCAAAATATGAGACTGAG 59.343 38.462 7.32 0.00 42.25 3.35
60 61 6.094603 CCCTGTTTCAAAATATGAGACTGAGG 59.905 42.308 7.32 4.06 42.25 3.86
61 62 6.656693 CCTGTTTCAAAATATGAGACTGAGGT 59.343 38.462 7.32 0.00 42.25 3.85
62 63 7.175641 CCTGTTTCAAAATATGAGACTGAGGTT 59.824 37.037 7.32 0.00 42.25 3.50
63 64 8.463930 TGTTTCAAAATATGAGACTGAGGTTT 57.536 30.769 1.61 0.00 42.25 3.27
64 65 8.567948 TGTTTCAAAATATGAGACTGAGGTTTC 58.432 33.333 1.61 0.00 42.25 2.78
65 66 8.787852 GTTTCAAAATATGAGACTGAGGTTTCT 58.212 33.333 0.00 0.00 39.46 2.52
66 67 8.924511 TTCAAAATATGAGACTGAGGTTTCTT 57.075 30.769 0.00 0.00 39.77 2.52
67 68 8.327941 TCAAAATATGAGACTGAGGTTTCTTG 57.672 34.615 0.00 0.00 33.04 3.02
68 69 8.156820 TCAAAATATGAGACTGAGGTTTCTTGA 58.843 33.333 0.00 0.00 33.04 3.02
69 70 7.913674 AAATATGAGACTGAGGTTTCTTGAC 57.086 36.000 0.00 0.00 0.00 3.18
70 71 4.963318 ATGAGACTGAGGTTTCTTGACA 57.037 40.909 0.00 0.00 0.00 3.58
71 72 4.753516 TGAGACTGAGGTTTCTTGACAA 57.246 40.909 0.00 0.00 0.00 3.18
72 73 5.097742 TGAGACTGAGGTTTCTTGACAAA 57.902 39.130 0.00 0.00 0.00 2.83
73 74 5.684704 TGAGACTGAGGTTTCTTGACAAAT 58.315 37.500 0.00 0.00 0.00 2.32
74 75 6.826668 TGAGACTGAGGTTTCTTGACAAATA 58.173 36.000 0.00 0.00 0.00 1.40
75 76 7.279615 TGAGACTGAGGTTTCTTGACAAATAA 58.720 34.615 0.00 0.00 0.00 1.40
76 77 7.939039 TGAGACTGAGGTTTCTTGACAAATAAT 59.061 33.333 0.00 0.00 0.00 1.28
77 78 9.436957 GAGACTGAGGTTTCTTGACAAATAATA 57.563 33.333 0.00 0.00 0.00 0.98
78 79 9.442047 AGACTGAGGTTTCTTGACAAATAATAG 57.558 33.333 0.00 0.00 0.00 1.73
79 80 8.567285 ACTGAGGTTTCTTGACAAATAATAGG 57.433 34.615 0.00 0.00 0.00 2.57
80 81 8.164070 ACTGAGGTTTCTTGACAAATAATAGGT 58.836 33.333 0.00 0.00 0.00 3.08
81 82 8.561738 TGAGGTTTCTTGACAAATAATAGGTC 57.438 34.615 0.00 0.00 0.00 3.85
82 83 8.383175 TGAGGTTTCTTGACAAATAATAGGTCT 58.617 33.333 0.00 0.00 32.84 3.85
83 84 9.886132 GAGGTTTCTTGACAAATAATAGGTCTA 57.114 33.333 0.00 0.00 32.84 2.59
130 131 8.709272 AGGTCTACTGTTAAATATACTCCCTC 57.291 38.462 0.00 0.00 0.00 4.30
131 132 7.729431 AGGTCTACTGTTAAATATACTCCCTCC 59.271 40.741 0.00 0.00 0.00 4.30
132 133 7.309073 GGTCTACTGTTAAATATACTCCCTCCG 60.309 44.444 0.00 0.00 0.00 4.63
133 134 7.230309 GTCTACTGTTAAATATACTCCCTCCGT 59.770 40.741 0.00 0.00 0.00 4.69
134 135 6.402456 ACTGTTAAATATACTCCCTCCGTC 57.598 41.667 0.00 0.00 0.00 4.79
135 136 5.303845 ACTGTTAAATATACTCCCTCCGTCC 59.696 44.000 0.00 0.00 0.00 4.79
136 137 5.210430 TGTTAAATATACTCCCTCCGTCCA 58.790 41.667 0.00 0.00 0.00 4.02
137 138 5.662208 TGTTAAATATACTCCCTCCGTCCAA 59.338 40.000 0.00 0.00 0.00 3.53
138 139 6.156602 TGTTAAATATACTCCCTCCGTCCAAA 59.843 38.462 0.00 0.00 0.00 3.28
139 140 5.703730 AAATATACTCCCTCCGTCCAAAA 57.296 39.130 0.00 0.00 0.00 2.44
140 141 5.703730 AATATACTCCCTCCGTCCAAAAA 57.296 39.130 0.00 0.00 0.00 1.94
141 142 5.906772 ATATACTCCCTCCGTCCAAAAAT 57.093 39.130 0.00 0.00 0.00 1.82
142 143 7.383156 AATATACTCCCTCCGTCCAAAAATA 57.617 36.000 0.00 0.00 0.00 1.40
143 144 5.906772 ATACTCCCTCCGTCCAAAAATAT 57.093 39.130 0.00 0.00 0.00 1.28
144 145 4.586306 ACTCCCTCCGTCCAAAAATATT 57.414 40.909 0.00 0.00 0.00 1.28
145 146 4.930696 ACTCCCTCCGTCCAAAAATATTT 58.069 39.130 0.00 0.00 0.00 1.40
146 147 4.705023 ACTCCCTCCGTCCAAAAATATTTG 59.295 41.667 0.39 0.00 44.50 2.32
147 148 4.668636 TCCCTCCGTCCAAAAATATTTGT 58.331 39.130 0.39 0.00 43.59 2.83
148 149 4.703093 TCCCTCCGTCCAAAAATATTTGTC 59.297 41.667 0.39 0.00 43.59 3.18
149 150 4.438200 CCCTCCGTCCAAAAATATTTGTCG 60.438 45.833 0.39 0.00 43.59 4.35
153 154 5.539582 CGTCCAAAAATATTTGTCGGAGA 57.460 39.130 11.75 0.00 43.59 3.71
154 155 5.933790 CGTCCAAAAATATTTGTCGGAGAA 58.066 37.500 11.75 0.00 43.59 2.87
155 156 6.375377 CGTCCAAAAATATTTGTCGGAGAAA 58.625 36.000 11.75 2.59 43.59 2.52
156 157 7.027161 CGTCCAAAAATATTTGTCGGAGAAAT 58.973 34.615 16.10 16.10 43.59 2.17
157 158 7.218204 CGTCCAAAAATATTTGTCGGAGAAATC 59.782 37.037 15.42 0.00 43.59 2.17
158 159 7.218204 GTCCAAAAATATTTGTCGGAGAAATCG 59.782 37.037 15.42 1.36 43.59 3.34
159 160 7.119992 TCCAAAAATATTTGTCGGAGAAATCGA 59.880 33.333 15.42 1.50 43.59 3.59
160 161 7.915397 CCAAAAATATTTGTCGGAGAAATCGAT 59.085 33.333 15.42 3.69 43.59 3.59
161 162 8.736742 CAAAAATATTTGTCGGAGAAATCGATG 58.263 33.333 15.42 6.82 40.84 3.84
162 163 7.553881 AAATATTTGTCGGAGAAATCGATGT 57.446 32.000 15.42 0.00 39.69 3.06
163 164 8.657074 AAATATTTGTCGGAGAAATCGATGTA 57.343 30.769 15.42 0.00 39.69 2.29
164 165 8.833231 AATATTTGTCGGAGAAATCGATGTAT 57.167 30.769 15.42 0.00 39.69 2.29
165 166 6.771188 ATTTGTCGGAGAAATCGATGTATC 57.229 37.500 7.25 0.00 39.69 2.24
166 167 5.515797 TTGTCGGAGAAATCGATGTATCT 57.484 39.130 9.96 8.91 39.69 1.98
167 168 4.860072 TGTCGGAGAAATCGATGTATCTG 58.140 43.478 12.11 12.11 39.69 2.90
168 169 4.230657 GTCGGAGAAATCGATGTATCTGG 58.769 47.826 17.08 7.20 39.69 3.86
169 170 4.023107 GTCGGAGAAATCGATGTATCTGGA 60.023 45.833 17.08 9.15 39.69 3.86
170 171 4.023107 TCGGAGAAATCGATGTATCTGGAC 60.023 45.833 17.08 5.89 0.00 4.02
171 172 4.261614 CGGAGAAATCGATGTATCTGGACA 60.262 45.833 10.69 0.00 0.00 4.02
172 173 5.565637 CGGAGAAATCGATGTATCTGGACAT 60.566 44.000 10.69 0.00 42.82 3.06
173 174 6.349363 CGGAGAAATCGATGTATCTGGACATA 60.349 42.308 10.69 0.00 40.18 2.29
174 175 7.551585 GGAGAAATCGATGTATCTGGACATAT 58.448 38.462 9.96 0.00 40.18 1.78
175 176 8.037758 GGAGAAATCGATGTATCTGGACATATT 58.962 37.037 9.96 0.00 40.18 1.28
176 177 9.429359 GAGAAATCGATGTATCTGGACATATTT 57.571 33.333 11.94 0.00 40.18 1.40
177 178 9.784531 AGAAATCGATGTATCTGGACATATTTT 57.215 29.630 0.00 0.00 40.18 1.82
182 183 9.692749 TCGATGTATCTGGACATATTTTAGTTC 57.307 33.333 0.00 0.00 40.18 3.01
183 184 9.698309 CGATGTATCTGGACATATTTTAGTTCT 57.302 33.333 0.00 0.00 40.18 3.01
215 216 2.367030 TTTTATCCGTTTCCGAGCGA 57.633 45.000 0.00 0.00 35.63 4.93
216 217 1.632422 TTTATCCGTTTCCGAGCGAC 58.368 50.000 0.00 0.00 35.63 5.19
217 218 0.527113 TTATCCGTTTCCGAGCGACA 59.473 50.000 0.00 0.00 35.63 4.35
218 219 0.527113 TATCCGTTTCCGAGCGACAA 59.473 50.000 0.00 0.00 35.63 3.18
219 220 0.736325 ATCCGTTTCCGAGCGACAAG 60.736 55.000 0.00 0.00 35.63 3.16
220 221 1.663702 CCGTTTCCGAGCGACAAGT 60.664 57.895 0.00 0.00 35.63 3.16
221 222 0.387622 CCGTTTCCGAGCGACAAGTA 60.388 55.000 0.00 0.00 35.63 2.24
222 223 1.411394 CGTTTCCGAGCGACAAGTAA 58.589 50.000 0.00 0.00 35.63 2.24
223 224 1.990563 CGTTTCCGAGCGACAAGTAAT 59.009 47.619 0.00 0.00 35.63 1.89
224 225 2.410730 CGTTTCCGAGCGACAAGTAATT 59.589 45.455 0.00 0.00 35.63 1.40
225 226 3.481467 CGTTTCCGAGCGACAAGTAATTC 60.481 47.826 0.00 0.00 35.63 2.17
226 227 2.288961 TCCGAGCGACAAGTAATTCC 57.711 50.000 0.00 0.00 0.00 3.01
227 228 0.921347 CCGAGCGACAAGTAATTCCG 59.079 55.000 0.00 0.00 0.00 4.30
228 229 0.921347 CGAGCGACAAGTAATTCCGG 59.079 55.000 0.00 0.00 0.00 5.14
229 230 1.468565 CGAGCGACAAGTAATTCCGGA 60.469 52.381 0.00 0.00 0.00 5.14
230 231 1.925185 GAGCGACAAGTAATTCCGGAC 59.075 52.381 1.83 0.00 0.00 4.79
231 232 1.274167 AGCGACAAGTAATTCCGGACA 59.726 47.619 1.83 0.00 0.00 4.02
232 233 2.070783 GCGACAAGTAATTCCGGACAA 58.929 47.619 1.83 0.00 0.00 3.18
233 234 2.481185 GCGACAAGTAATTCCGGACAAA 59.519 45.455 1.83 0.00 0.00 2.83
234 235 3.424433 GCGACAAGTAATTCCGGACAAAG 60.424 47.826 1.83 0.00 0.00 2.77
235 236 3.124636 CGACAAGTAATTCCGGACAAAGG 59.875 47.826 1.83 0.00 0.00 3.11
236 237 3.418047 ACAAGTAATTCCGGACAAAGGG 58.582 45.455 1.83 0.00 0.00 3.95
237 238 3.073356 ACAAGTAATTCCGGACAAAGGGA 59.927 43.478 1.83 0.00 0.00 4.20
238 239 3.629142 AGTAATTCCGGACAAAGGGAG 57.371 47.619 1.83 0.00 33.01 4.30
239 240 2.910977 AGTAATTCCGGACAAAGGGAGT 59.089 45.455 1.83 0.00 33.01 3.85
240 241 4.098894 AGTAATTCCGGACAAAGGGAGTA 58.901 43.478 1.83 0.00 33.01 2.59
241 242 4.720273 AGTAATTCCGGACAAAGGGAGTAT 59.280 41.667 1.83 0.00 33.01 2.12
242 243 5.901276 AGTAATTCCGGACAAAGGGAGTATA 59.099 40.000 1.83 0.00 33.01 1.47
243 244 5.906772 AATTCCGGACAAAGGGAGTATAT 57.093 39.130 1.83 0.00 33.01 0.86
244 245 5.906772 ATTCCGGACAAAGGGAGTATATT 57.093 39.130 1.83 0.00 33.01 1.28
245 246 7.383156 AATTCCGGACAAAGGGAGTATATTA 57.617 36.000 1.83 0.00 33.01 0.98
246 247 6.811634 TTCCGGACAAAGGGAGTATATTAA 57.188 37.500 1.83 0.00 33.01 1.40
247 248 6.811634 TCCGGACAAAGGGAGTATATTAAA 57.188 37.500 0.00 0.00 0.00 1.52
248 249 7.197901 TCCGGACAAAGGGAGTATATTAAAA 57.802 36.000 0.00 0.00 0.00 1.52
249 250 7.049754 TCCGGACAAAGGGAGTATATTAAAAC 58.950 38.462 0.00 0.00 0.00 2.43
250 251 6.824704 CCGGACAAAGGGAGTATATTAAAACA 59.175 38.462 0.00 0.00 0.00 2.83
251 252 7.201670 CCGGACAAAGGGAGTATATTAAAACAC 60.202 40.741 0.00 0.00 0.00 3.32
252 253 7.334921 CGGACAAAGGGAGTATATTAAAACACA 59.665 37.037 0.00 0.00 0.00 3.72
253 254 9.016438 GGACAAAGGGAGTATATTAAAACACAA 57.984 33.333 0.00 0.00 0.00 3.33
267 268 8.900983 ATTAAAACACAATAACAAATGCAGGT 57.099 26.923 0.00 0.00 0.00 4.00
268 269 6.601741 AAAACACAATAACAAATGCAGGTG 57.398 33.333 0.00 0.00 0.00 4.00
269 270 4.935352 ACACAATAACAAATGCAGGTGT 57.065 36.364 0.00 0.00 33.77 4.16
270 271 4.619973 ACACAATAACAAATGCAGGTGTG 58.380 39.130 5.86 6.57 40.66 3.82
310 311 4.421033 CTTTCCGAAAAGGTCTAAAGCC 57.579 45.455 0.00 0.00 38.59 4.35
311 312 3.495434 TTCCGAAAAGGTCTAAAGCCA 57.505 42.857 0.00 0.00 41.99 4.75
312 313 3.495434 TCCGAAAAGGTCTAAAGCCAA 57.505 42.857 0.00 0.00 41.99 4.52
313 314 3.408634 TCCGAAAAGGTCTAAAGCCAAG 58.591 45.455 0.00 0.00 41.99 3.61
314 315 2.095212 CCGAAAAGGTCTAAAGCCAAGC 60.095 50.000 0.00 0.00 34.51 4.01
315 316 2.552315 CGAAAAGGTCTAAAGCCAAGCA 59.448 45.455 0.00 0.00 0.00 3.91
316 317 3.191371 CGAAAAGGTCTAAAGCCAAGCAT 59.809 43.478 0.00 0.00 0.00 3.79
317 318 4.672801 CGAAAAGGTCTAAAGCCAAGCATC 60.673 45.833 0.00 0.00 0.00 3.91
318 319 3.439857 AAGGTCTAAAGCCAAGCATCA 57.560 42.857 0.00 0.00 0.00 3.07
319 320 2.716217 AGGTCTAAAGCCAAGCATCAC 58.284 47.619 0.00 0.00 0.00 3.06
320 321 2.040278 AGGTCTAAAGCCAAGCATCACA 59.960 45.455 0.00 0.00 0.00 3.58
321 322 2.819608 GGTCTAAAGCCAAGCATCACAA 59.180 45.455 0.00 0.00 0.00 3.33
322 323 3.366374 GGTCTAAAGCCAAGCATCACAAC 60.366 47.826 0.00 0.00 0.00 3.32
323 324 2.483877 TCTAAAGCCAAGCATCACAACG 59.516 45.455 0.00 0.00 0.00 4.10
324 325 0.314935 AAAGCCAAGCATCACAACGG 59.685 50.000 0.00 0.00 0.00 4.44
325 326 1.526575 AAGCCAAGCATCACAACGGG 61.527 55.000 0.00 0.00 0.00 5.28
326 327 2.568090 CCAAGCATCACAACGGGC 59.432 61.111 0.00 0.00 0.00 6.13
327 328 2.568090 CAAGCATCACAACGGGCC 59.432 61.111 0.00 0.00 0.00 5.80
328 329 2.115052 AAGCATCACAACGGGCCA 59.885 55.556 4.39 0.00 0.00 5.36
329 330 1.530419 AAGCATCACAACGGGCCAA 60.530 52.632 4.39 0.00 0.00 4.52
330 331 0.899717 AAGCATCACAACGGGCCAAT 60.900 50.000 4.39 0.00 0.00 3.16
331 332 0.034574 AGCATCACAACGGGCCAATA 60.035 50.000 4.39 0.00 0.00 1.90
332 333 0.381801 GCATCACAACGGGCCAATAG 59.618 55.000 4.39 0.00 0.00 1.73
333 334 0.381801 CATCACAACGGGCCAATAGC 59.618 55.000 4.39 0.00 42.60 2.97
334 335 0.255890 ATCACAACGGGCCAATAGCT 59.744 50.000 4.39 0.00 43.05 3.32
488 489 2.159421 AGCGATTCGAGTTATGACACGT 60.159 45.455 10.88 0.00 40.17 4.49
984 991 1.229428 CACTGCCGTTGACAAGATGT 58.771 50.000 0.00 0.00 0.00 3.06
998 1005 4.108299 ATGTCCCGATTGCCCGCA 62.108 61.111 0.00 0.00 0.00 5.69
1296 1325 4.951603 AGGTTGAAATTGGAGGGATCAAT 58.048 39.130 0.00 0.00 36.50 2.57
1804 1846 1.304134 GGGCCGTGAGAAAATGGGT 60.304 57.895 0.00 0.00 0.00 4.51
2040 2185 2.223340 GCATTTCCTAGTTGCATGTCCG 60.223 50.000 0.00 0.00 36.40 4.79
2205 2351 7.310664 CCATAGCAATCCACAAATAATAGCAG 58.689 38.462 0.00 0.00 0.00 4.24
2347 2529 8.234546 ACAAGCATACCGATTACAACTTAAAAG 58.765 33.333 0.00 0.00 0.00 2.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.203070 GGCGATGCGGTCCTCATT 60.203 61.111 0.00 0.00 0.00 2.57
1 2 4.592192 CGGCGATGCGGTCCTCAT 62.592 66.667 0.00 0.00 0.00 2.90
3 4 4.814294 AACGGCGATGCGGTCCTC 62.814 66.667 16.62 0.00 41.05 3.71
15 16 2.608090 GGTGTCTCTTATTAGCAACGGC 59.392 50.000 0.00 0.00 41.61 5.68
16 17 3.118738 AGGGTGTCTCTTATTAGCAACGG 60.119 47.826 0.00 0.00 0.00 4.44
17 18 3.865745 CAGGGTGTCTCTTATTAGCAACG 59.134 47.826 0.00 0.00 0.00 4.10
18 19 4.833390 ACAGGGTGTCTCTTATTAGCAAC 58.167 43.478 0.00 0.00 0.00 4.17
19 20 5.499004 AACAGGGTGTCTCTTATTAGCAA 57.501 39.130 0.00 0.00 0.00 3.91
20 21 5.012664 TGAAACAGGGTGTCTCTTATTAGCA 59.987 40.000 0.00 0.00 0.00 3.49
21 22 5.488341 TGAAACAGGGTGTCTCTTATTAGC 58.512 41.667 0.00 0.00 0.00 3.09
22 23 7.979444 TTTGAAACAGGGTGTCTCTTATTAG 57.021 36.000 0.00 0.00 0.00 1.73
23 24 8.934023 ATTTTGAAACAGGGTGTCTCTTATTA 57.066 30.769 0.00 0.00 0.00 0.98
24 25 7.839680 ATTTTGAAACAGGGTGTCTCTTATT 57.160 32.000 0.00 0.00 0.00 1.40
25 26 8.960591 CATATTTTGAAACAGGGTGTCTCTTAT 58.039 33.333 0.00 0.00 0.00 1.73
26 27 8.160765 TCATATTTTGAAACAGGGTGTCTCTTA 58.839 33.333 0.00 0.00 0.00 2.10
27 28 7.004086 TCATATTTTGAAACAGGGTGTCTCTT 58.996 34.615 0.00 0.00 0.00 2.85
28 29 6.542821 TCATATTTTGAAACAGGGTGTCTCT 58.457 36.000 0.00 0.00 0.00 3.10
29 30 6.655003 TCTCATATTTTGAAACAGGGTGTCTC 59.345 38.462 0.00 0.00 32.78 3.36
30 31 6.431234 GTCTCATATTTTGAAACAGGGTGTCT 59.569 38.462 0.00 0.00 32.78 3.41
31 32 6.431234 AGTCTCATATTTTGAAACAGGGTGTC 59.569 38.462 0.00 0.00 32.78 3.67
32 33 6.207417 CAGTCTCATATTTTGAAACAGGGTGT 59.793 38.462 0.00 0.00 32.78 4.16
33 34 6.430925 TCAGTCTCATATTTTGAAACAGGGTG 59.569 38.462 0.00 0.00 32.78 4.61
34 35 6.542821 TCAGTCTCATATTTTGAAACAGGGT 58.457 36.000 0.00 0.00 32.78 4.34
35 36 6.094603 CCTCAGTCTCATATTTTGAAACAGGG 59.905 42.308 0.00 0.00 32.78 4.45
36 37 6.656693 ACCTCAGTCTCATATTTTGAAACAGG 59.343 38.462 0.00 0.00 32.78 4.00
37 38 7.678947 ACCTCAGTCTCATATTTTGAAACAG 57.321 36.000 0.00 0.00 32.78 3.16
38 39 8.463930 AAACCTCAGTCTCATATTTTGAAACA 57.536 30.769 0.00 0.00 32.78 2.83
39 40 8.787852 AGAAACCTCAGTCTCATATTTTGAAAC 58.212 33.333 0.00 0.00 32.78 2.78
40 41 8.924511 AGAAACCTCAGTCTCATATTTTGAAA 57.075 30.769 0.00 0.00 32.78 2.69
41 42 8.786898 CAAGAAACCTCAGTCTCATATTTTGAA 58.213 33.333 0.00 0.00 32.78 2.69
42 43 8.156820 TCAAGAAACCTCAGTCTCATATTTTGA 58.843 33.333 0.00 0.00 0.00 2.69
43 44 8.233190 GTCAAGAAACCTCAGTCTCATATTTTG 58.767 37.037 0.00 0.00 0.00 2.44
44 45 7.939039 TGTCAAGAAACCTCAGTCTCATATTTT 59.061 33.333 0.00 0.00 0.00 1.82
45 46 7.453393 TGTCAAGAAACCTCAGTCTCATATTT 58.547 34.615 0.00 0.00 0.00 1.40
46 47 7.009179 TGTCAAGAAACCTCAGTCTCATATT 57.991 36.000 0.00 0.00 0.00 1.28
47 48 6.611613 TGTCAAGAAACCTCAGTCTCATAT 57.388 37.500 0.00 0.00 0.00 1.78
48 49 6.419484 TTGTCAAGAAACCTCAGTCTCATA 57.581 37.500 0.00 0.00 0.00 2.15
49 50 4.963318 TGTCAAGAAACCTCAGTCTCAT 57.037 40.909 0.00 0.00 0.00 2.90
50 51 4.753516 TTGTCAAGAAACCTCAGTCTCA 57.246 40.909 0.00 0.00 0.00 3.27
51 52 7.730364 TTATTTGTCAAGAAACCTCAGTCTC 57.270 36.000 0.00 0.00 0.00 3.36
52 53 9.442047 CTATTATTTGTCAAGAAACCTCAGTCT 57.558 33.333 0.00 0.00 0.00 3.24
53 54 8.669243 CCTATTATTTGTCAAGAAACCTCAGTC 58.331 37.037 0.00 0.00 0.00 3.51
54 55 8.164070 ACCTATTATTTGTCAAGAAACCTCAGT 58.836 33.333 0.00 0.00 0.00 3.41
55 56 8.567285 ACCTATTATTTGTCAAGAAACCTCAG 57.433 34.615 0.00 0.00 0.00 3.35
56 57 8.383175 AGACCTATTATTTGTCAAGAAACCTCA 58.617 33.333 0.00 0.00 0.00 3.86
57 58 8.794335 AGACCTATTATTTGTCAAGAAACCTC 57.206 34.615 0.00 0.00 0.00 3.85
104 105 9.804977 GAGGGAGTATATTTAACAGTAGACCTA 57.195 37.037 0.00 0.00 0.00 3.08
105 106 7.729431 GGAGGGAGTATATTTAACAGTAGACCT 59.271 40.741 0.00 0.00 0.00 3.85
106 107 7.309073 CGGAGGGAGTATATTTAACAGTAGACC 60.309 44.444 0.00 0.00 0.00 3.85
107 108 7.230309 ACGGAGGGAGTATATTTAACAGTAGAC 59.770 40.741 0.00 0.00 0.00 2.59
108 109 7.293073 ACGGAGGGAGTATATTTAACAGTAGA 58.707 38.462 0.00 0.00 0.00 2.59
109 110 7.309073 GGACGGAGGGAGTATATTTAACAGTAG 60.309 44.444 0.00 0.00 0.00 2.57
110 111 6.491403 GGACGGAGGGAGTATATTTAACAGTA 59.509 42.308 0.00 0.00 0.00 2.74
111 112 5.303845 GGACGGAGGGAGTATATTTAACAGT 59.696 44.000 0.00 0.00 0.00 3.55
112 113 5.303589 TGGACGGAGGGAGTATATTTAACAG 59.696 44.000 0.00 0.00 0.00 3.16
113 114 5.210430 TGGACGGAGGGAGTATATTTAACA 58.790 41.667 0.00 0.00 0.00 2.41
114 115 5.796424 TGGACGGAGGGAGTATATTTAAC 57.204 43.478 0.00 0.00 0.00 2.01
115 116 6.811634 TTTGGACGGAGGGAGTATATTTAA 57.188 37.500 0.00 0.00 0.00 1.52
116 117 6.811634 TTTTGGACGGAGGGAGTATATTTA 57.188 37.500 0.00 0.00 0.00 1.40
117 118 5.703730 TTTTGGACGGAGGGAGTATATTT 57.296 39.130 0.00 0.00 0.00 1.40
118 119 5.703730 TTTTTGGACGGAGGGAGTATATT 57.296 39.130 0.00 0.00 0.00 1.28
119 120 5.906772 ATTTTTGGACGGAGGGAGTATAT 57.093 39.130 0.00 0.00 0.00 0.86
120 121 7.383156 AATATTTTTGGACGGAGGGAGTATA 57.617 36.000 0.00 0.00 0.00 1.47
121 122 5.906772 ATATTTTTGGACGGAGGGAGTAT 57.093 39.130 0.00 0.00 0.00 2.12
122 123 5.703730 AATATTTTTGGACGGAGGGAGTA 57.296 39.130 0.00 0.00 0.00 2.59
123 124 4.586306 AATATTTTTGGACGGAGGGAGT 57.414 40.909 0.00 0.00 0.00 3.85
124 125 4.705023 ACAAATATTTTTGGACGGAGGGAG 59.295 41.667 12.41 0.00 45.34 4.30
125 126 4.668636 ACAAATATTTTTGGACGGAGGGA 58.331 39.130 12.41 0.00 45.34 4.20
126 127 4.438200 CGACAAATATTTTTGGACGGAGGG 60.438 45.833 12.41 0.00 45.34 4.30
127 128 4.658071 CGACAAATATTTTTGGACGGAGG 58.342 43.478 12.41 0.00 45.34 4.30
131 132 5.539582 TCTCCGACAAATATTTTTGGACG 57.460 39.130 12.41 14.85 45.34 4.79
132 133 7.218204 CGATTTCTCCGACAAATATTTTTGGAC 59.782 37.037 12.41 6.00 45.34 4.02
133 134 7.119992 TCGATTTCTCCGACAAATATTTTTGGA 59.880 33.333 12.41 13.96 45.34 3.53
134 135 7.247728 TCGATTTCTCCGACAAATATTTTTGG 58.752 34.615 12.41 4.50 45.34 3.28
135 136 8.736742 CATCGATTTCTCCGACAAATATTTTTG 58.263 33.333 7.04 7.04 46.27 2.44
136 137 8.458843 ACATCGATTTCTCCGACAAATATTTTT 58.541 29.630 0.00 0.00 38.97 1.94
137 138 7.985476 ACATCGATTTCTCCGACAAATATTTT 58.015 30.769 0.00 0.00 38.97 1.82
138 139 7.553881 ACATCGATTTCTCCGACAAATATTT 57.446 32.000 0.00 0.00 38.97 1.40
139 140 8.833231 ATACATCGATTTCTCCGACAAATATT 57.167 30.769 0.00 0.00 38.97 1.28
140 141 8.307483 AGATACATCGATTTCTCCGACAAATAT 58.693 33.333 0.00 0.00 38.97 1.28
141 142 7.595130 CAGATACATCGATTTCTCCGACAAATA 59.405 37.037 0.00 0.00 38.97 1.40
142 143 6.422100 CAGATACATCGATTTCTCCGACAAAT 59.578 38.462 0.00 0.00 38.97 2.32
143 144 5.748630 CAGATACATCGATTTCTCCGACAAA 59.251 40.000 0.00 0.00 38.97 2.83
144 145 5.281727 CAGATACATCGATTTCTCCGACAA 58.718 41.667 0.00 0.00 38.97 3.18
145 146 4.261614 CCAGATACATCGATTTCTCCGACA 60.262 45.833 0.00 0.00 38.97 4.35
146 147 4.023107 TCCAGATACATCGATTTCTCCGAC 60.023 45.833 0.00 0.00 38.97 4.79
147 148 4.023107 GTCCAGATACATCGATTTCTCCGA 60.023 45.833 0.00 0.00 40.53 4.55
148 149 4.230657 GTCCAGATACATCGATTTCTCCG 58.769 47.826 0.00 0.00 0.00 4.63
149 150 5.201713 TGTCCAGATACATCGATTTCTCC 57.798 43.478 0.00 0.00 0.00 3.71
150 151 8.994429 AATATGTCCAGATACATCGATTTCTC 57.006 34.615 0.00 0.00 40.52 2.87
151 152 9.784531 AAAATATGTCCAGATACATCGATTTCT 57.215 29.630 0.00 0.00 40.52 2.52
156 157 9.692749 GAACTAAAATATGTCCAGATACATCGA 57.307 33.333 0.00 0.00 40.52 3.59
157 158 9.698309 AGAACTAAAATATGTCCAGATACATCG 57.302 33.333 0.00 0.00 40.52 3.84
204 205 3.181523 GGAATTACTTGTCGCTCGGAAAC 60.182 47.826 0.00 0.00 0.00 2.78
205 206 2.997986 GGAATTACTTGTCGCTCGGAAA 59.002 45.455 0.00 0.00 0.00 3.13
206 207 2.613691 GGAATTACTTGTCGCTCGGAA 58.386 47.619 0.00 0.00 0.00 4.30
207 208 1.468565 CGGAATTACTTGTCGCTCGGA 60.469 52.381 0.00 0.00 0.00 4.55
208 209 0.921347 CGGAATTACTTGTCGCTCGG 59.079 55.000 0.00 0.00 0.00 4.63
209 210 0.921347 CCGGAATTACTTGTCGCTCG 59.079 55.000 0.00 0.00 0.00 5.03
210 211 1.925185 GTCCGGAATTACTTGTCGCTC 59.075 52.381 5.23 0.00 0.00 5.03
211 212 1.274167 TGTCCGGAATTACTTGTCGCT 59.726 47.619 5.23 0.00 0.00 4.93
212 213 1.717194 TGTCCGGAATTACTTGTCGC 58.283 50.000 5.23 0.00 0.00 5.19
213 214 3.124636 CCTTTGTCCGGAATTACTTGTCG 59.875 47.826 5.23 0.00 0.00 4.35
214 215 3.439129 CCCTTTGTCCGGAATTACTTGTC 59.561 47.826 5.23 0.00 0.00 3.18
215 216 3.073356 TCCCTTTGTCCGGAATTACTTGT 59.927 43.478 5.23 0.00 0.00 3.16
216 217 3.681593 TCCCTTTGTCCGGAATTACTTG 58.318 45.455 5.23 0.00 0.00 3.16
217 218 3.329814 ACTCCCTTTGTCCGGAATTACTT 59.670 43.478 5.23 0.00 0.00 2.24
218 219 2.910977 ACTCCCTTTGTCCGGAATTACT 59.089 45.455 5.23 0.00 0.00 2.24
219 220 3.345508 ACTCCCTTTGTCCGGAATTAC 57.654 47.619 5.23 0.00 0.00 1.89
220 221 7.383156 AATATACTCCCTTTGTCCGGAATTA 57.617 36.000 5.23 0.00 0.00 1.40
221 222 5.906772 ATATACTCCCTTTGTCCGGAATT 57.093 39.130 5.23 0.00 0.00 2.17
222 223 5.906772 AATATACTCCCTTTGTCCGGAAT 57.093 39.130 5.23 0.00 0.00 3.01
223 224 6.811634 TTAATATACTCCCTTTGTCCGGAA 57.188 37.500 5.23 0.00 0.00 4.30
224 225 6.811634 TTTAATATACTCCCTTTGTCCGGA 57.188 37.500 0.00 0.00 0.00 5.14
225 226 6.824704 TGTTTTAATATACTCCCTTTGTCCGG 59.175 38.462 0.00 0.00 0.00 5.14
226 227 7.334921 TGTGTTTTAATATACTCCCTTTGTCCG 59.665 37.037 0.00 0.00 0.00 4.79
227 228 8.570068 TGTGTTTTAATATACTCCCTTTGTCC 57.430 34.615 0.00 0.00 0.00 4.02
241 242 9.988815 ACCTGCATTTGTTATTGTGTTTTAATA 57.011 25.926 0.00 0.00 0.00 0.98
242 243 8.772705 CACCTGCATTTGTTATTGTGTTTTAAT 58.227 29.630 0.00 0.00 0.00 1.40
243 244 7.766278 ACACCTGCATTTGTTATTGTGTTTTAA 59.234 29.630 0.00 0.00 32.19 1.52
244 245 7.223582 CACACCTGCATTTGTTATTGTGTTTTA 59.776 33.333 0.00 0.00 33.76 1.52
245 246 6.036953 CACACCTGCATTTGTTATTGTGTTTT 59.963 34.615 0.00 0.00 33.76 2.43
246 247 5.523188 CACACCTGCATTTGTTATTGTGTTT 59.477 36.000 0.00 0.00 33.76 2.83
247 248 5.049167 CACACCTGCATTTGTTATTGTGTT 58.951 37.500 0.00 0.00 33.76 3.32
248 249 4.619973 CACACCTGCATTTGTTATTGTGT 58.380 39.130 0.00 0.00 36.22 3.72
249 250 3.429543 GCACACCTGCATTTGTTATTGTG 59.570 43.478 0.00 0.00 43.62 3.33
250 251 3.652274 GCACACCTGCATTTGTTATTGT 58.348 40.909 0.00 0.00 43.62 2.71
289 290 3.818773 TGGCTTTAGACCTTTTCGGAAAG 59.181 43.478 9.39 9.39 41.56 2.62
290 291 3.822940 TGGCTTTAGACCTTTTCGGAAA 58.177 40.909 0.00 0.00 36.31 3.13
291 292 3.495434 TGGCTTTAGACCTTTTCGGAA 57.505 42.857 0.00 0.00 36.31 4.30
292 293 3.408634 CTTGGCTTTAGACCTTTTCGGA 58.591 45.455 0.00 0.00 36.31 4.55
293 294 2.095212 GCTTGGCTTTAGACCTTTTCGG 60.095 50.000 0.00 0.00 39.35 4.30
294 295 2.552315 TGCTTGGCTTTAGACCTTTTCG 59.448 45.455 0.00 0.00 0.00 3.46
295 296 4.218417 TGATGCTTGGCTTTAGACCTTTTC 59.782 41.667 0.00 0.00 0.00 2.29
296 297 4.021981 GTGATGCTTGGCTTTAGACCTTTT 60.022 41.667 0.00 0.00 0.00 2.27
297 298 3.507622 GTGATGCTTGGCTTTAGACCTTT 59.492 43.478 0.00 0.00 0.00 3.11
298 299 3.084786 GTGATGCTTGGCTTTAGACCTT 58.915 45.455 0.00 0.00 0.00 3.50
299 300 2.040278 TGTGATGCTTGGCTTTAGACCT 59.960 45.455 0.00 0.00 0.00 3.85
300 301 2.436417 TGTGATGCTTGGCTTTAGACC 58.564 47.619 0.00 0.00 0.00 3.85
301 302 3.667960 CGTTGTGATGCTTGGCTTTAGAC 60.668 47.826 0.00 0.00 0.00 2.59
302 303 2.483877 CGTTGTGATGCTTGGCTTTAGA 59.516 45.455 0.00 0.00 0.00 2.10
303 304 2.414559 CCGTTGTGATGCTTGGCTTTAG 60.415 50.000 0.00 0.00 0.00 1.85
304 305 1.539388 CCGTTGTGATGCTTGGCTTTA 59.461 47.619 0.00 0.00 0.00 1.85
305 306 0.314935 CCGTTGTGATGCTTGGCTTT 59.685 50.000 0.00 0.00 0.00 3.51
306 307 1.526575 CCCGTTGTGATGCTTGGCTT 61.527 55.000 0.00 0.00 0.00 4.35
307 308 1.973281 CCCGTTGTGATGCTTGGCT 60.973 57.895 0.00 0.00 0.00 4.75
308 309 2.568090 CCCGTTGTGATGCTTGGC 59.432 61.111 0.00 0.00 0.00 4.52
309 310 2.568090 GCCCGTTGTGATGCTTGG 59.432 61.111 0.00 0.00 0.00 3.61
310 311 1.804396 TTGGCCCGTTGTGATGCTTG 61.804 55.000 0.00 0.00 0.00 4.01
311 312 0.899717 ATTGGCCCGTTGTGATGCTT 60.900 50.000 0.00 0.00 0.00 3.91
312 313 0.034574 TATTGGCCCGTTGTGATGCT 60.035 50.000 0.00 0.00 0.00 3.79
313 314 0.381801 CTATTGGCCCGTTGTGATGC 59.618 55.000 0.00 0.00 0.00 3.91
314 315 0.381801 GCTATTGGCCCGTTGTGATG 59.618 55.000 0.00 0.00 34.27 3.07
315 316 0.255890 AGCTATTGGCCCGTTGTGAT 59.744 50.000 0.00 0.00 43.05 3.06
316 317 0.392461 GAGCTATTGGCCCGTTGTGA 60.392 55.000 0.00 0.00 43.05 3.58
317 318 1.705337 CGAGCTATTGGCCCGTTGTG 61.705 60.000 0.00 0.00 43.05 3.33
318 319 1.449601 CGAGCTATTGGCCCGTTGT 60.450 57.895 0.00 0.00 43.05 3.32
319 320 3.409856 CGAGCTATTGGCCCGTTG 58.590 61.111 0.00 0.00 43.05 4.10
323 324 1.816224 TGAAAAACGAGCTATTGGCCC 59.184 47.619 0.00 0.00 43.05 5.80
324 325 3.438360 CATGAAAAACGAGCTATTGGCC 58.562 45.455 0.00 0.00 43.05 5.36
325 326 2.854185 GCATGAAAAACGAGCTATTGGC 59.146 45.455 0.00 0.00 42.19 4.52
326 327 3.100817 CGCATGAAAAACGAGCTATTGG 58.899 45.455 0.00 0.00 0.00 3.16
327 328 4.002267 TCGCATGAAAAACGAGCTATTG 57.998 40.909 0.00 0.00 0.00 1.90
328 329 4.678509 TTCGCATGAAAAACGAGCTATT 57.321 36.364 0.00 0.00 37.11 1.73
329 330 4.882671 ATTCGCATGAAAAACGAGCTAT 57.117 36.364 0.00 0.00 37.71 2.97
330 331 4.402583 CAATTCGCATGAAAAACGAGCTA 58.597 39.130 0.00 0.00 37.71 3.32
331 332 3.236816 CAATTCGCATGAAAAACGAGCT 58.763 40.909 0.00 0.00 37.71 4.09
332 333 2.342354 CCAATTCGCATGAAAAACGAGC 59.658 45.455 0.00 0.00 37.71 5.03
333 334 3.820689 TCCAATTCGCATGAAAAACGAG 58.179 40.909 0.00 0.00 37.71 4.18
334 335 3.906014 TCCAATTCGCATGAAAAACGA 57.094 38.095 0.00 0.00 37.71 3.85
488 489 1.471119 CGAGTAACTGCTAGGTCCCA 58.529 55.000 0.00 0.00 0.00 4.37
906 913 0.748367 AGCTAGACATCACTCGCCGA 60.748 55.000 0.00 0.00 30.50 5.54
962 969 0.396435 TCTTGTCAACGGCAGTGGAT 59.604 50.000 0.00 0.00 32.03 3.41
984 991 4.108299 ATGTGCGGGCAATCGGGA 62.108 61.111 0.00 0.00 0.00 5.14
998 1005 1.220206 CGCTTCAGAGGCTCCATGT 59.780 57.895 11.71 0.00 0.00 3.21
1296 1325 0.984230 ATTGAGCTCTTGGGTTCGGA 59.016 50.000 16.19 0.00 0.00 4.55
1465 1496 3.609373 CACAACAATAAAATGCTCCAGCG 59.391 43.478 0.00 0.00 45.83 5.18
1526 1557 8.677148 AACTGAAACTCTAACAAATTCTAGCA 57.323 30.769 0.00 0.00 0.00 3.49
1655 1688 4.251169 AGGGCCCCTGAGAATATCATTAA 58.749 43.478 21.43 0.00 37.28 1.40
1773 1815 0.828022 ACGGCCCAACATCTATTCGA 59.172 50.000 0.00 0.00 0.00 3.71
1804 1846 3.013921 GGGCATGGTTATTTTCTCACGA 58.986 45.455 0.00 0.00 0.00 4.35
2040 2185 1.604147 GCCCCATGCAAACCCACTAC 61.604 60.000 0.00 0.00 40.77 2.73
2467 2656 3.706373 GAGGAGTGAAGGGCGGCA 61.706 66.667 12.47 0.00 0.00 5.69


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

AutoCloner maintained by Alex Coulton.