Multiple sequence alignment - TraesCS2A01G568100

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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 TraesCS2A01G568100 chr2A 100.000 1590 0 0 785 2374 766619214 766617625 0.000000e+00 2937.0
1 TraesCS2A01G568100 chr2A 87.821 1560 106 31 853 2374 84206762 84208275 0.000000e+00 1751.0
2 TraesCS2A01G568100 chr2A 100.000 466 0 0 1 466 766619998 766619533 0.000000e+00 861.0
3 TraesCS2A01G568100 chr2A 98.333 180 3 0 286 465 766612817 766612996 1.370000e-82 316.0
4 TraesCS2A01G568100 chr3D 92.894 1562 65 14 852 2374 460901492 460899938 0.000000e+00 2228.0
5 TraesCS2A01G568100 chr7D 92.372 1560 61 13 853 2374 214764998 214766537 0.000000e+00 2169.0
6 TraesCS2A01G568100 chr7D 94.575 811 39 4 859 1666 465835951 465835143 0.000000e+00 1249.0
7 TraesCS2A01G568100 chr7D 88.919 749 43 14 1658 2374 465835185 465834445 0.000000e+00 887.0
8 TraesCS2A01G568100 chr7D 96.571 175 6 0 291 465 219288437 219288611 8.300000e-75 291.0
9 TraesCS2A01G568100 chr2B 89.375 1553 113 22 853 2372 1903895 1905428 0.000000e+00 1906.0
10 TraesCS2A01G568100 chr2B 83.752 677 93 13 928 1603 335411991 335412651 2.000000e-175 625.0
11 TraesCS2A01G568100 chr2B 76.862 886 117 53 994 1859 75552917 75552100 1.010000e-113 420.0
12 TraesCS2A01G568100 chr4A 88.069 1517 109 35 891 2374 485007466 485008943 0.000000e+00 1733.0
13 TraesCS2A01G568100 chr5D 92.724 1182 40 13 812 1963 367799974 367801139 0.000000e+00 1664.0
14 TraesCS2A01G568100 chr5D 97.068 307 7 2 2070 2374 367801144 367801450 1.260000e-142 516.0
15 TraesCS2A01G568100 chr5D 97.076 171 5 0 295 465 367799727 367799897 2.990000e-74 289.0
16 TraesCS2A01G568100 chr5D 96.667 60 2 0 1870 1929 367801081 367801140 1.500000e-17 100.0
17 TraesCS2A01G568100 chr2D 92.483 1144 40 9 812 1929 648110519 648109396 0.000000e+00 1594.0
18 TraesCS2A01G568100 chr2D 92.532 1098 47 7 853 1929 643052480 643053563 0.000000e+00 1541.0
19 TraesCS2A01G568100 chr2D 97.068 307 7 2 2070 2374 648109392 648109086 1.260000e-142 516.0
20 TraesCS2A01G568100 chr2D 96.417 307 9 2 2070 2374 643053567 643053873 2.720000e-139 505.0
21 TraesCS2A01G568100 chr2D 97.674 172 4 0 294 465 643052219 643052390 1.780000e-76 296.0
22 TraesCS2A01G568100 chr2D 97.674 172 4 0 294 465 648104300 648104471 1.780000e-76 296.0
23 TraesCS2A01G568100 chr2D 97.093 172 5 0 294 465 648110769 648110598 8.300000e-75 291.0
24 TraesCS2A01G568100 chr2D 97.076 171 5 0 295 465 643058659 643058489 2.990000e-74 289.0
25 TraesCS2A01G568100 chr2D 89.130 46 3 2 121 164 193151649 193151604 3.300000e-04 56.5
26 TraesCS2A01G568100 chr7B 86.928 918 76 20 864 1769 455230553 455231438 0.000000e+00 990.0
27 TraesCS2A01G568100 chr7B 93.583 187 12 0 279 465 455261186 455261000 1.800000e-71 279.0
28 TraesCS2A01G568100 chr3A 82.783 697 90 21 918 1603 513533171 513532494 1.570000e-166 595.0
29 TraesCS2A01G568100 chr3A 84.407 295 39 5 919 1211 487474377 487474088 1.390000e-72 283.0
30 TraesCS2A01G568100 chr6D 97.076 171 5 0 295 465 113908818 113908648 2.990000e-74 289.0
31 TraesCS2A01G568100 chr1A 95.522 67 3 0 1703 1769 481626823 481626757 8.970000e-20 108.0
32 TraesCS2A01G568100 chr1A 97.674 43 1 0 1886 1928 330089941 330089983 9.100000e-10 75.0


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 TraesCS2A01G568100 chr2A 766617625 766619998 2373 True 1899.000000 2937 100.00000 1 2374 2 chr2A.!!$R1 2373
1 TraesCS2A01G568100 chr2A 84206762 84208275 1513 False 1751.000000 1751 87.82100 853 2374 1 chr2A.!!$F1 1521
2 TraesCS2A01G568100 chr3D 460899938 460901492 1554 True 2228.000000 2228 92.89400 852 2374 1 chr3D.!!$R1 1522
3 TraesCS2A01G568100 chr7D 214764998 214766537 1539 False 2169.000000 2169 92.37200 853 2374 1 chr7D.!!$F1 1521
4 TraesCS2A01G568100 chr7D 465834445 465835951 1506 True 1068.000000 1249 91.74700 859 2374 2 chr7D.!!$R1 1515
5 TraesCS2A01G568100 chr2B 1903895 1905428 1533 False 1906.000000 1906 89.37500 853 2372 1 chr2B.!!$F1 1519
6 TraesCS2A01G568100 chr2B 335411991 335412651 660 False 625.000000 625 83.75200 928 1603 1 chr2B.!!$F2 675
7 TraesCS2A01G568100 chr2B 75552100 75552917 817 True 420.000000 420 76.86200 994 1859 1 chr2B.!!$R1 865
8 TraesCS2A01G568100 chr4A 485007466 485008943 1477 False 1733.000000 1733 88.06900 891 2374 1 chr4A.!!$F1 1483
9 TraesCS2A01G568100 chr5D 367799727 367801450 1723 False 642.250000 1664 95.88375 295 2374 4 chr5D.!!$F1 2079
10 TraesCS2A01G568100 chr2D 648109086 648110769 1683 True 800.333333 1594 95.54800 294 2374 3 chr2D.!!$R3 2080
11 TraesCS2A01G568100 chr2D 643052219 643053873 1654 False 780.666667 1541 95.54100 294 2374 3 chr2D.!!$F2 2080
12 TraesCS2A01G568100 chr7B 455230553 455231438 885 False 990.000000 990 86.92800 864 1769 1 chr7B.!!$F1 905
13 TraesCS2A01G568100 chr3A 513532494 513533171 677 True 595.000000 595 82.78300 918 1603 1 chr3A.!!$R2 685

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
23 24 0.034896 CAACCTTGTGTCTACCGCCT 59.965 55.0 0.0 0.0 0.0 5.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1785 2031 1.636148 ACATGGTGGCAAAAGCATCT 58.364 45.0 0.0 0.0 36.15 2.9 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
21 22 1.589803 AACAACCTTGTGTCTACCGC 58.410 50.000 0.00 0.00 41.31 5.68
22 23 0.250166 ACAACCTTGTGTCTACCGCC 60.250 55.000 0.00 0.00 40.49 6.13
23 24 0.034896 CAACCTTGTGTCTACCGCCT 59.965 55.000 0.00 0.00 0.00 5.52
24 25 0.763035 AACCTTGTGTCTACCGCCTT 59.237 50.000 0.00 0.00 0.00 4.35
25 26 0.034896 ACCTTGTGTCTACCGCCTTG 59.965 55.000 0.00 0.00 0.00 3.61
26 27 0.320374 CCTTGTGTCTACCGCCTTGA 59.680 55.000 0.00 0.00 0.00 3.02
27 28 1.066143 CCTTGTGTCTACCGCCTTGAT 60.066 52.381 0.00 0.00 0.00 2.57
28 29 2.615493 CCTTGTGTCTACCGCCTTGATT 60.615 50.000 0.00 0.00 0.00 2.57
29 30 2.093306 TGTGTCTACCGCCTTGATTG 57.907 50.000 0.00 0.00 0.00 2.67
30 31 0.727398 GTGTCTACCGCCTTGATTGC 59.273 55.000 0.00 0.00 0.00 3.56
31 32 0.323302 TGTCTACCGCCTTGATTGCA 59.677 50.000 0.00 0.00 0.00 4.08
32 33 0.727398 GTCTACCGCCTTGATTGCAC 59.273 55.000 0.00 0.00 0.00 4.57
33 34 0.323302 TCTACCGCCTTGATTGCACA 59.677 50.000 0.00 0.00 0.00 4.57
34 35 0.447801 CTACCGCCTTGATTGCACAC 59.552 55.000 0.00 0.00 0.00 3.82
35 36 0.958382 TACCGCCTTGATTGCACACC 60.958 55.000 0.00 0.00 0.00 4.16
36 37 2.176546 CGCCTTGATTGCACACCG 59.823 61.111 0.00 0.00 0.00 4.94
37 38 2.616330 CGCCTTGATTGCACACCGT 61.616 57.895 0.00 0.00 0.00 4.83
38 39 1.081242 GCCTTGATTGCACACCGTG 60.081 57.895 0.00 0.00 36.51 4.94
39 40 1.795170 GCCTTGATTGCACACCGTGT 61.795 55.000 0.00 0.00 35.75 4.49
53 54 2.105528 GTGTGTCCCACGTGACGT 59.894 61.111 19.30 4.10 42.36 4.34
62 63 4.640855 ACGTGACGTGGTGAGCCG 62.641 66.667 10.91 0.00 39.18 5.52
64 65 3.986006 GTGACGTGGTGAGCCGGA 61.986 66.667 5.05 0.00 37.67 5.14
65 66 3.986006 TGACGTGGTGAGCCGGAC 61.986 66.667 5.05 0.00 37.67 4.79
66 67 4.736896 GACGTGGTGAGCCGGACC 62.737 72.222 5.05 4.30 37.67 4.46
69 70 2.682494 GTGGTGAGCCGGACCCTA 60.682 66.667 5.05 0.00 37.67 3.53
70 71 2.064581 GTGGTGAGCCGGACCCTAT 61.065 63.158 5.05 0.00 37.67 2.57
71 72 2.063979 TGGTGAGCCGGACCCTATG 61.064 63.158 5.05 0.00 37.67 2.23
72 73 1.760875 GGTGAGCCGGACCCTATGA 60.761 63.158 5.05 0.00 0.00 2.15
73 74 1.122019 GGTGAGCCGGACCCTATGAT 61.122 60.000 5.05 0.00 0.00 2.45
74 75 0.759346 GTGAGCCGGACCCTATGATT 59.241 55.000 5.05 0.00 0.00 2.57
75 76 1.141053 GTGAGCCGGACCCTATGATTT 59.859 52.381 5.05 0.00 0.00 2.17
76 77 1.416401 TGAGCCGGACCCTATGATTTC 59.584 52.381 5.05 0.00 0.00 2.17
77 78 1.694696 GAGCCGGACCCTATGATTTCT 59.305 52.381 5.05 0.00 0.00 2.52
78 79 1.694696 AGCCGGACCCTATGATTTCTC 59.305 52.381 5.05 0.00 0.00 2.87
79 80 1.605712 GCCGGACCCTATGATTTCTCG 60.606 57.143 5.05 0.00 0.00 4.04
80 81 1.687123 CCGGACCCTATGATTTCTCGT 59.313 52.381 0.00 0.00 0.00 4.18
81 82 2.102588 CCGGACCCTATGATTTCTCGTT 59.897 50.000 0.00 0.00 0.00 3.85
82 83 3.431766 CCGGACCCTATGATTTCTCGTTT 60.432 47.826 0.00 0.00 0.00 3.60
83 84 4.202182 CCGGACCCTATGATTTCTCGTTTA 60.202 45.833 0.00 0.00 0.00 2.01
84 85 5.510861 CCGGACCCTATGATTTCTCGTTTAT 60.511 44.000 0.00 0.00 0.00 1.40
85 86 5.405571 CGGACCCTATGATTTCTCGTTTATG 59.594 44.000 0.00 0.00 0.00 1.90
86 87 6.289064 GGACCCTATGATTTCTCGTTTATGT 58.711 40.000 0.00 0.00 0.00 2.29
87 88 7.439381 GGACCCTATGATTTCTCGTTTATGTA 58.561 38.462 0.00 0.00 0.00 2.29
88 89 7.929785 GGACCCTATGATTTCTCGTTTATGTAA 59.070 37.037 0.00 0.00 0.00 2.41
89 90 8.658499 ACCCTATGATTTCTCGTTTATGTAAC 57.342 34.615 0.00 0.00 0.00 2.50
90 91 8.262227 ACCCTATGATTTCTCGTTTATGTAACA 58.738 33.333 0.00 0.00 36.50 2.41
91 92 9.104965 CCCTATGATTTCTCGTTTATGTAACAA 57.895 33.333 0.00 0.00 36.50 2.83
92 93 9.916397 CCTATGATTTCTCGTTTATGTAACAAC 57.084 33.333 0.00 0.00 36.50 3.32
93 94 9.619727 CTATGATTTCTCGTTTATGTAACAACG 57.380 33.333 0.00 0.00 45.75 4.10
94 95 6.301108 TGATTTCTCGTTTATGTAACAACGC 58.699 36.000 0.00 0.00 44.37 4.84
95 96 4.650545 TTCTCGTTTATGTAACAACGCC 57.349 40.909 0.00 0.00 44.37 5.68
96 97 3.916761 TCTCGTTTATGTAACAACGCCT 58.083 40.909 0.00 0.00 44.37 5.52
97 98 3.922240 TCTCGTTTATGTAACAACGCCTC 59.078 43.478 0.00 0.00 44.37 4.70
98 99 3.916761 TCGTTTATGTAACAACGCCTCT 58.083 40.909 0.00 0.00 44.37 3.69
99 100 3.676172 TCGTTTATGTAACAACGCCTCTG 59.324 43.478 0.00 0.00 44.37 3.35
100 101 3.430895 CGTTTATGTAACAACGCCTCTGT 59.569 43.478 0.00 0.00 39.36 3.41
101 102 4.084223 CGTTTATGTAACAACGCCTCTGTT 60.084 41.667 0.00 0.00 39.36 3.16
107 108 3.639162 CAACGCCTCTGTTGCAAAA 57.361 47.368 0.00 0.00 42.34 2.44
108 109 1.919918 CAACGCCTCTGTTGCAAAAA 58.080 45.000 0.00 0.00 42.34 1.94
133 134 3.801114 AAAAACCTGCAACAAGACCTC 57.199 42.857 0.00 0.00 0.00 3.85
134 135 2.736670 AAACCTGCAACAAGACCTCT 57.263 45.000 0.00 0.00 0.00 3.69
135 136 3.857157 AAACCTGCAACAAGACCTCTA 57.143 42.857 0.00 0.00 0.00 2.43
136 137 4.373156 AAACCTGCAACAAGACCTCTAT 57.627 40.909 0.00 0.00 0.00 1.98
137 138 4.373156 AACCTGCAACAAGACCTCTATT 57.627 40.909 0.00 0.00 0.00 1.73
138 139 5.499004 AACCTGCAACAAGACCTCTATTA 57.501 39.130 0.00 0.00 0.00 0.98
139 140 4.833390 ACCTGCAACAAGACCTCTATTAC 58.167 43.478 0.00 0.00 0.00 1.89
140 141 4.286032 ACCTGCAACAAGACCTCTATTACA 59.714 41.667 0.00 0.00 0.00 2.41
141 142 5.221843 ACCTGCAACAAGACCTCTATTACAA 60.222 40.000 0.00 0.00 0.00 2.41
142 143 5.705441 CCTGCAACAAGACCTCTATTACAAA 59.295 40.000 0.00 0.00 0.00 2.83
143 144 6.206634 CCTGCAACAAGACCTCTATTACAAAA 59.793 38.462 0.00 0.00 0.00 2.44
144 145 7.255451 CCTGCAACAAGACCTCTATTACAAAAA 60.255 37.037 0.00 0.00 0.00 1.94
145 146 7.422399 TGCAACAAGACCTCTATTACAAAAAC 58.578 34.615 0.00 0.00 0.00 2.43
146 147 7.067615 TGCAACAAGACCTCTATTACAAAAACA 59.932 33.333 0.00 0.00 0.00 2.83
147 148 7.918562 GCAACAAGACCTCTATTACAAAAACAA 59.081 33.333 0.00 0.00 0.00 2.83
148 149 9.965824 CAACAAGACCTCTATTACAAAAACAAT 57.034 29.630 0.00 0.00 0.00 2.71
150 151 9.965824 ACAAGACCTCTATTACAAAAACAATTG 57.034 29.630 3.24 3.24 36.37 2.32
161 162 9.665719 ATTACAAAAACAATTGAAACAAGTCCT 57.334 25.926 13.59 0.00 34.38 3.85
162 163 7.595311 ACAAAAACAATTGAAACAAGTCCTC 57.405 32.000 13.59 0.00 34.38 3.71
163 164 7.386059 ACAAAAACAATTGAAACAAGTCCTCT 58.614 30.769 13.59 0.00 34.38 3.69
164 165 8.527810 ACAAAAACAATTGAAACAAGTCCTCTA 58.472 29.630 13.59 0.00 34.38 2.43
165 166 9.533253 CAAAAACAATTGAAACAAGTCCTCTAT 57.467 29.630 13.59 0.00 31.84 1.98
167 168 9.533253 AAAACAATTGAAACAAGTCCTCTATTG 57.467 29.630 13.59 12.97 37.90 1.90
168 169 6.681777 ACAATTGAAACAAGTCCTCTATTGC 58.318 36.000 13.59 0.00 36.43 3.56
169 170 6.265196 ACAATTGAAACAAGTCCTCTATTGCA 59.735 34.615 13.59 0.00 36.43 4.08
170 171 6.899393 ATTGAAACAAGTCCTCTATTGCAA 57.101 33.333 0.00 0.00 0.00 4.08
171 172 6.707440 TTGAAACAAGTCCTCTATTGCAAA 57.293 33.333 1.71 0.00 0.00 3.68
172 173 6.707440 TGAAACAAGTCCTCTATTGCAAAA 57.293 33.333 1.71 0.00 0.00 2.44
173 174 7.106439 TGAAACAAGTCCTCTATTGCAAAAA 57.894 32.000 1.71 0.00 0.00 1.94
199 200 9.474313 AAAAACCATAATAAGACCTCTATTGCA 57.526 29.630 0.00 0.00 0.00 4.08
200 201 9.474313 AAAACCATAATAAGACCTCTATTGCAA 57.526 29.630 0.00 0.00 0.00 4.08
201 202 9.474313 AAACCATAATAAGACCTCTATTGCAAA 57.526 29.630 1.71 0.00 0.00 3.68
202 203 9.474313 AACCATAATAAGACCTCTATTGCAAAA 57.526 29.630 1.71 0.00 0.00 2.44
203 204 9.474313 ACCATAATAAGACCTCTATTGCAAAAA 57.526 29.630 1.71 0.00 0.00 1.94
227 228 4.724279 AAAACTGTAACATGACCTCCCT 57.276 40.909 0.00 0.00 0.00 4.20
228 229 4.724279 AAACTGTAACATGACCTCCCTT 57.276 40.909 0.00 0.00 0.00 3.95
229 230 3.703001 ACTGTAACATGACCTCCCTTG 57.297 47.619 0.00 0.00 0.00 3.61
230 231 2.290323 ACTGTAACATGACCTCCCTTGC 60.290 50.000 0.00 0.00 0.00 4.01
231 232 1.702401 TGTAACATGACCTCCCTTGCA 59.298 47.619 0.00 0.00 0.00 4.08
232 233 2.107378 TGTAACATGACCTCCCTTGCAA 59.893 45.455 0.00 0.00 0.00 4.08
233 234 2.380064 AACATGACCTCCCTTGCAAA 57.620 45.000 0.00 0.00 0.00 3.68
234 235 1.915141 ACATGACCTCCCTTGCAAAG 58.085 50.000 0.00 0.00 45.69 2.77
250 251 5.772825 TGCAAAGAAATGTAACAAGAGCT 57.227 34.783 0.00 0.00 0.00 4.09
251 252 5.762045 TGCAAAGAAATGTAACAAGAGCTC 58.238 37.500 5.27 5.27 0.00 4.09
252 253 5.532406 TGCAAAGAAATGTAACAAGAGCTCT 59.468 36.000 11.45 11.45 0.00 4.09
253 254 6.710295 TGCAAAGAAATGTAACAAGAGCTCTA 59.290 34.615 18.59 0.00 0.00 2.43
254 255 7.391554 TGCAAAGAAATGTAACAAGAGCTCTAT 59.608 33.333 18.59 9.21 0.00 1.98
255 256 8.239998 GCAAAGAAATGTAACAAGAGCTCTATT 58.760 33.333 18.59 16.65 0.00 1.73
256 257 9.552114 CAAAGAAATGTAACAAGAGCTCTATTG 57.448 33.333 18.59 15.29 37.75 1.90
257 258 7.313951 AGAAATGTAACAAGAGCTCTATTGC 57.686 36.000 18.59 17.56 35.37 3.56
258 259 6.881065 AGAAATGTAACAAGAGCTCTATTGCA 59.119 34.615 24.18 24.18 35.37 4.08
259 260 7.391554 AGAAATGTAACAAGAGCTCTATTGCAA 59.608 33.333 25.11 0.00 35.37 4.08
260 261 7.452880 AATGTAACAAGAGCTCTATTGCAAA 57.547 32.000 25.11 11.21 35.37 3.68
261 262 6.875948 TGTAACAAGAGCTCTATTGCAAAA 57.124 33.333 18.59 0.41 35.37 2.44
262 263 7.270757 TGTAACAAGAGCTCTATTGCAAAAA 57.729 32.000 18.59 0.07 35.37 1.94
263 264 7.885297 TGTAACAAGAGCTCTATTGCAAAAAT 58.115 30.769 18.59 0.00 35.37 1.82
264 265 9.008965 TGTAACAAGAGCTCTATTGCAAAAATA 57.991 29.630 18.59 0.00 35.37 1.40
265 266 9.840427 GTAACAAGAGCTCTATTGCAAAAATAA 57.160 29.630 18.59 0.00 35.37 1.40
267 268 9.933723 AACAAGAGCTCTATTGCAAAAATAAAT 57.066 25.926 18.59 0.00 35.37 1.40
268 269 9.933723 ACAAGAGCTCTATTGCAAAAATAAATT 57.066 25.926 18.59 0.00 35.37 1.82
358 359 5.123186 CACACTTTGGTCACTGTACTTCAAA 59.877 40.000 0.00 0.00 0.00 2.69
387 388 3.183754 CAATACGGTCACTCAATACGCA 58.816 45.455 0.00 0.00 0.00 5.24
389 390 4.841443 ATACGGTCACTCAATACGCATA 57.159 40.909 0.00 0.00 0.00 3.14
404 405 2.178783 CGCATACACGTGATTGTACGA 58.821 47.619 25.01 0.00 46.46 3.43
465 466 2.226330 CCACTTGTTGACCAATCCGAA 58.774 47.619 0.00 0.00 31.20 4.30
824 825 5.117406 AGGAGTGTTGAATCCCTAATTCC 57.883 43.478 0.00 0.00 42.74 3.01
825 826 4.079730 AGGAGTGTTGAATCCCTAATTCCC 60.080 45.833 0.00 0.00 42.74 3.97
826 827 4.207955 GAGTGTTGAATCCCTAATTCCCC 58.792 47.826 0.00 0.00 42.74 4.81
827 828 3.596046 AGTGTTGAATCCCTAATTCCCCA 59.404 43.478 0.00 0.00 42.74 4.96
828 829 3.699538 GTGTTGAATCCCTAATTCCCCAC 59.300 47.826 0.00 0.00 42.74 4.61
829 830 3.596046 TGTTGAATCCCTAATTCCCCACT 59.404 43.478 0.00 0.00 42.74 4.00
830 831 4.207955 GTTGAATCCCTAATTCCCCACTC 58.792 47.826 0.00 0.00 42.74 3.51
831 832 2.783510 TGAATCCCTAATTCCCCACTCC 59.216 50.000 0.00 0.00 42.74 3.85
832 833 1.834540 ATCCCTAATTCCCCACTCCC 58.165 55.000 0.00 0.00 0.00 4.30
833 834 0.328158 TCCCTAATTCCCCACTCCCC 60.328 60.000 0.00 0.00 0.00 4.81
834 835 0.328548 CCCTAATTCCCCACTCCCCT 60.329 60.000 0.00 0.00 0.00 4.79
835 836 0.846693 CCTAATTCCCCACTCCCCTG 59.153 60.000 0.00 0.00 0.00 4.45
836 837 0.183731 CTAATTCCCCACTCCCCTGC 59.816 60.000 0.00 0.00 0.00 4.85
837 838 0.253630 TAATTCCCCACTCCCCTGCT 60.254 55.000 0.00 0.00 0.00 4.24
838 839 1.867595 AATTCCCCACTCCCCTGCTG 61.868 60.000 0.00 0.00 0.00 4.41
841 842 3.655211 CCCACTCCCCTGCTGCTT 61.655 66.667 0.00 0.00 0.00 3.91
842 843 2.437897 CCACTCCCCTGCTGCTTT 59.562 61.111 0.00 0.00 0.00 3.51
843 844 1.975407 CCACTCCCCTGCTGCTTTG 60.975 63.158 0.00 0.00 0.00 2.77
844 845 2.282745 ACTCCCCTGCTGCTTTGC 60.283 61.111 0.00 0.00 0.00 3.68
845 846 3.437795 CTCCCCTGCTGCTTTGCG 61.438 66.667 0.00 0.00 35.36 4.85
850 851 4.456253 CTGCTGCTTTGCGCCGAG 62.456 66.667 4.18 3.46 38.05 4.63
871 872 4.785453 GACGCCCTTCCCCTGCTG 62.785 72.222 0.00 0.00 0.00 4.41
874 875 4.372999 GCCCTTCCCCTGCTGCTT 62.373 66.667 0.00 0.00 0.00 3.91
875 876 2.362120 CCCTTCCCCTGCTGCTTG 60.362 66.667 0.00 0.00 0.00 4.01
876 877 3.066814 CCTTCCCCTGCTGCTTGC 61.067 66.667 0.00 0.00 43.25 4.01
877 878 3.066814 CTTCCCCTGCTGCTTGCC 61.067 66.667 0.00 0.00 42.00 4.52
1182 1295 1.272784 GCCGTTGCCGTTTTGCTAAC 61.273 55.000 0.00 0.00 0.00 2.34
1193 1306 4.226761 CGTTTTGCTAACTTTGGTGGATC 58.773 43.478 0.00 0.00 0.00 3.36
1378 1492 1.502231 GAAGAGCTGACGTGAGCAAA 58.498 50.000 28.55 0.00 41.83 3.68
1379 1493 2.072298 GAAGAGCTGACGTGAGCAAAT 58.928 47.619 28.55 13.53 41.83 2.32
1785 2031 8.250143 TGATGTAGTTATCCAGCATTCTAAGA 57.750 34.615 0.00 0.00 0.00 2.10
1824 2071 5.627499 TGTAAGCAAGTGCCTATCTTTTG 57.373 39.130 0.00 0.00 43.38 2.44
1849 2096 6.090763 GCTACAAATGGAAGTTAATTTGGCAC 59.909 38.462 19.86 10.02 44.45 5.01
1850 2097 5.923204 ACAAATGGAAGTTAATTTGGCACA 58.077 33.333 19.86 0.00 44.45 4.57
1862 2130 8.584157 AGTTAATTTGGCACATGAAGTTGATTA 58.416 29.630 0.00 0.00 39.30 1.75
1897 2165 6.122850 TGCTGTCATATGAAGTTAATGTGC 57.877 37.500 7.07 2.78 0.00 4.57
1929 2197 6.862711 ATCATCTTGCTGTCATATGAAGTG 57.137 37.500 7.07 1.93 32.34 3.16
1940 2208 7.144722 TGTCATATGAAGTGAATGGTTGAAC 57.855 36.000 7.07 0.00 0.00 3.18
1994 2266 9.959749 GGTTGAAGTTGTTGAAGTTATTATTGA 57.040 29.630 0.00 0.00 0.00 2.57
2058 2346 4.450053 AGATAGGAAGCAGCATCAAAGTC 58.550 43.478 0.00 0.00 0.00 3.01
2060 2348 2.867624 AGGAAGCAGCATCAAAGTCAA 58.132 42.857 0.00 0.00 0.00 3.18
2063 2351 2.574006 AGCAGCATCAAAGTCAAGGA 57.426 45.000 0.00 0.00 0.00 3.36
2064 2352 2.867624 AGCAGCATCAAAGTCAAGGAA 58.132 42.857 0.00 0.00 0.00 3.36
2065 2353 3.225104 AGCAGCATCAAAGTCAAGGAAA 58.775 40.909 0.00 0.00 0.00 3.13
2066 2354 3.830755 AGCAGCATCAAAGTCAAGGAAAT 59.169 39.130 0.00 0.00 0.00 2.17
2067 2355 5.012239 AGCAGCATCAAAGTCAAGGAAATA 58.988 37.500 0.00 0.00 0.00 1.40
2068 2356 5.477984 AGCAGCATCAAAGTCAAGGAAATAA 59.522 36.000 0.00 0.00 0.00 1.40
2264 2557 2.652590 AGATTTCTCATGCCTTGGAGC 58.347 47.619 0.00 0.00 0.00 4.70
2281 2574 7.577616 GCCTTGGAGCTTAAAAAGTACATCATT 60.578 37.037 0.00 0.00 0.00 2.57
2347 2640 6.120220 AGCACAAGATCATCATCTGAATCAA 58.880 36.000 0.00 0.00 38.55 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.132925 GCGGTAGACACAAGGTTGTTAA 58.867 45.455 0.00 0.00 39.91 2.01
1 2 2.548493 GGCGGTAGACACAAGGTTGTTA 60.548 50.000 0.00 0.00 39.91 2.41
2 3 1.589803 GCGGTAGACACAAGGTTGTT 58.410 50.000 0.00 0.00 39.91 2.83
3 4 0.250166 GGCGGTAGACACAAGGTTGT 60.250 55.000 0.00 0.00 43.36 3.32
4 5 0.034896 AGGCGGTAGACACAAGGTTG 59.965 55.000 0.00 0.00 0.00 3.77
5 6 0.763035 AAGGCGGTAGACACAAGGTT 59.237 50.000 0.00 0.00 0.00 3.50
6 7 0.034896 CAAGGCGGTAGACACAAGGT 59.965 55.000 0.00 0.00 0.00 3.50
7 8 0.320374 TCAAGGCGGTAGACACAAGG 59.680 55.000 0.00 0.00 0.00 3.61
8 9 2.386661 ATCAAGGCGGTAGACACAAG 57.613 50.000 0.00 0.00 0.00 3.16
9 10 2.422597 CAATCAAGGCGGTAGACACAA 58.577 47.619 0.00 0.00 0.00 3.33
10 11 1.943968 GCAATCAAGGCGGTAGACACA 60.944 52.381 0.00 0.00 0.00 3.72
11 12 0.727398 GCAATCAAGGCGGTAGACAC 59.273 55.000 0.00 0.00 0.00 3.67
12 13 0.323302 TGCAATCAAGGCGGTAGACA 59.677 50.000 0.00 0.00 0.00 3.41
13 14 0.727398 GTGCAATCAAGGCGGTAGAC 59.273 55.000 0.00 0.00 0.00 2.59
14 15 0.323302 TGTGCAATCAAGGCGGTAGA 59.677 50.000 0.00 0.00 0.00 2.59
15 16 0.447801 GTGTGCAATCAAGGCGGTAG 59.552 55.000 0.00 0.00 0.00 3.18
16 17 0.958382 GGTGTGCAATCAAGGCGGTA 60.958 55.000 0.00 0.00 0.00 4.02
17 18 2.268076 GGTGTGCAATCAAGGCGGT 61.268 57.895 0.00 0.00 0.00 5.68
18 19 2.568090 GGTGTGCAATCAAGGCGG 59.432 61.111 0.00 0.00 0.00 6.13
19 20 2.176546 CGGTGTGCAATCAAGGCG 59.823 61.111 0.00 0.00 0.00 5.52
20 21 1.081242 CACGGTGTGCAATCAAGGC 60.081 57.895 0.00 0.00 0.00 4.35
21 22 0.040157 CACACGGTGTGCAATCAAGG 60.040 55.000 26.40 1.83 41.89 3.61
22 23 3.460114 CACACGGTGTGCAATCAAG 57.540 52.632 26.40 2.56 41.89 3.02
45 46 4.640855 CGGCTCACCACGTCACGT 62.641 66.667 0.00 0.00 42.36 4.49
47 48 3.986006 TCCGGCTCACCACGTCAC 61.986 66.667 0.00 0.00 34.57 3.67
48 49 3.986006 GTCCGGCTCACCACGTCA 61.986 66.667 0.00 0.00 34.57 4.35
49 50 4.736896 GGTCCGGCTCACCACGTC 62.737 72.222 5.94 0.00 34.57 4.34
52 53 2.064581 ATAGGGTCCGGCTCACCAC 61.065 63.158 12.53 2.81 35.35 4.16
53 54 2.063979 CATAGGGTCCGGCTCACCA 61.064 63.158 12.53 0.00 35.35 4.17
54 55 1.122019 ATCATAGGGTCCGGCTCACC 61.122 60.000 0.00 0.00 0.00 4.02
55 56 0.759346 AATCATAGGGTCCGGCTCAC 59.241 55.000 0.00 0.00 0.00 3.51
56 57 1.416401 GAAATCATAGGGTCCGGCTCA 59.584 52.381 0.00 0.00 0.00 4.26
57 58 1.694696 AGAAATCATAGGGTCCGGCTC 59.305 52.381 0.00 0.00 0.00 4.70
58 59 1.694696 GAGAAATCATAGGGTCCGGCT 59.305 52.381 0.00 0.00 0.00 5.52
59 60 1.605712 CGAGAAATCATAGGGTCCGGC 60.606 57.143 0.00 0.00 0.00 6.13
60 61 1.687123 ACGAGAAATCATAGGGTCCGG 59.313 52.381 0.00 0.00 0.00 5.14
61 62 3.454371 AACGAGAAATCATAGGGTCCG 57.546 47.619 0.00 0.00 0.00 4.79
62 63 6.289064 ACATAAACGAGAAATCATAGGGTCC 58.711 40.000 0.00 0.00 0.00 4.46
63 64 8.762426 GTTACATAAACGAGAAATCATAGGGTC 58.238 37.037 0.00 0.00 0.00 4.46
64 65 8.262227 TGTTACATAAACGAGAAATCATAGGGT 58.738 33.333 0.00 0.00 41.30 4.34
65 66 8.657074 TGTTACATAAACGAGAAATCATAGGG 57.343 34.615 0.00 0.00 41.30 3.53
66 67 9.916397 GTTGTTACATAAACGAGAAATCATAGG 57.084 33.333 0.00 0.00 41.30 2.57
79 80 5.144359 CAACAGAGGCGTTGTTACATAAAC 58.856 41.667 8.88 0.00 41.12 2.01
80 81 4.319911 GCAACAGAGGCGTTGTTACATAAA 60.320 41.667 8.88 0.00 46.47 1.40
81 82 3.187637 GCAACAGAGGCGTTGTTACATAA 59.812 43.478 8.88 0.00 46.47 1.90
82 83 2.739913 GCAACAGAGGCGTTGTTACATA 59.260 45.455 8.88 0.00 46.47 2.29
83 84 1.535462 GCAACAGAGGCGTTGTTACAT 59.465 47.619 8.88 0.00 46.47 2.29
84 85 0.941542 GCAACAGAGGCGTTGTTACA 59.058 50.000 8.88 0.00 46.47 2.41
85 86 0.941542 TGCAACAGAGGCGTTGTTAC 59.058 50.000 8.88 5.23 46.47 2.50
86 87 1.669604 TTGCAACAGAGGCGTTGTTA 58.330 45.000 8.88 0.00 46.47 2.41
87 88 0.814457 TTTGCAACAGAGGCGTTGTT 59.186 45.000 0.00 4.21 46.47 2.83
88 89 0.814457 TTTTGCAACAGAGGCGTTGT 59.186 45.000 0.00 0.00 46.47 3.32
113 114 3.365472 AGAGGTCTTGTTGCAGGTTTTT 58.635 40.909 0.00 0.00 0.00 1.94
114 115 3.018423 AGAGGTCTTGTTGCAGGTTTT 57.982 42.857 0.00 0.00 0.00 2.43
115 116 2.736670 AGAGGTCTTGTTGCAGGTTT 57.263 45.000 0.00 0.00 0.00 3.27
116 117 4.373156 AATAGAGGTCTTGTTGCAGGTT 57.627 40.909 0.00 0.00 0.00 3.50
117 118 4.286032 TGTAATAGAGGTCTTGTTGCAGGT 59.714 41.667 0.00 0.00 0.00 4.00
118 119 4.832248 TGTAATAGAGGTCTTGTTGCAGG 58.168 43.478 0.00 0.00 0.00 4.85
119 120 6.801539 TTTGTAATAGAGGTCTTGTTGCAG 57.198 37.500 0.00 0.00 0.00 4.41
120 121 7.067615 TGTTTTTGTAATAGAGGTCTTGTTGCA 59.932 33.333 0.00 0.00 0.00 4.08
121 122 7.422399 TGTTTTTGTAATAGAGGTCTTGTTGC 58.578 34.615 0.00 0.00 0.00 4.17
122 123 9.965824 ATTGTTTTTGTAATAGAGGTCTTGTTG 57.034 29.630 0.00 0.00 0.00 3.33
124 125 9.965824 CAATTGTTTTTGTAATAGAGGTCTTGT 57.034 29.630 0.00 0.00 0.00 3.16
135 136 9.665719 AGGACTTGTTTCAATTGTTTTTGTAAT 57.334 25.926 5.13 0.00 0.00 1.89
136 137 9.145865 GAGGACTTGTTTCAATTGTTTTTGTAA 57.854 29.630 5.13 0.00 0.00 2.41
137 138 8.527810 AGAGGACTTGTTTCAATTGTTTTTGTA 58.472 29.630 5.13 0.00 0.00 2.41
138 139 7.386059 AGAGGACTTGTTTCAATTGTTTTTGT 58.614 30.769 5.13 0.00 0.00 2.83
139 140 7.832503 AGAGGACTTGTTTCAATTGTTTTTG 57.167 32.000 5.13 0.00 0.00 2.44
141 142 9.533253 CAATAGAGGACTTGTTTCAATTGTTTT 57.467 29.630 5.13 0.00 0.00 2.43
142 143 7.653311 GCAATAGAGGACTTGTTTCAATTGTTT 59.347 33.333 5.13 0.00 0.00 2.83
143 144 7.147976 GCAATAGAGGACTTGTTTCAATTGTT 58.852 34.615 5.13 0.00 0.00 2.83
144 145 6.265196 TGCAATAGAGGACTTGTTTCAATTGT 59.735 34.615 5.13 0.00 0.00 2.71
145 146 6.680810 TGCAATAGAGGACTTGTTTCAATTG 58.319 36.000 0.00 0.00 0.00 2.32
146 147 6.899393 TGCAATAGAGGACTTGTTTCAATT 57.101 33.333 0.00 0.00 0.00 2.32
147 148 6.899393 TTGCAATAGAGGACTTGTTTCAAT 57.101 33.333 0.00 0.00 0.00 2.57
148 149 6.707440 TTTGCAATAGAGGACTTGTTTCAA 57.293 33.333 0.00 0.00 0.00 2.69
149 150 6.707440 TTTTGCAATAGAGGACTTGTTTCA 57.293 33.333 0.00 0.00 0.00 2.69
173 174 9.474313 TGCAATAGAGGTCTTATTATGGTTTTT 57.526 29.630 0.00 0.00 0.00 1.94
174 175 9.474313 TTGCAATAGAGGTCTTATTATGGTTTT 57.526 29.630 0.00 0.00 0.00 2.43
175 176 9.474313 TTTGCAATAGAGGTCTTATTATGGTTT 57.526 29.630 0.00 0.00 0.00 3.27
176 177 9.474313 TTTTGCAATAGAGGTCTTATTATGGTT 57.526 29.630 0.00 0.00 0.00 3.67
177 178 9.474313 TTTTTGCAATAGAGGTCTTATTATGGT 57.526 29.630 0.00 0.00 0.00 3.55
205 206 5.061721 AGGGAGGTCATGTTACAGTTTTT 57.938 39.130 0.00 0.00 0.00 1.94
206 207 4.724279 AGGGAGGTCATGTTACAGTTTT 57.276 40.909 0.00 0.00 0.00 2.43
207 208 4.398319 CAAGGGAGGTCATGTTACAGTTT 58.602 43.478 0.00 0.00 0.00 2.66
208 209 3.810743 GCAAGGGAGGTCATGTTACAGTT 60.811 47.826 0.00 0.00 0.00 3.16
209 210 2.290323 GCAAGGGAGGTCATGTTACAGT 60.290 50.000 0.00 0.00 0.00 3.55
210 211 2.290260 TGCAAGGGAGGTCATGTTACAG 60.290 50.000 0.00 0.00 0.00 2.74
211 212 1.702401 TGCAAGGGAGGTCATGTTACA 59.298 47.619 0.00 0.00 0.00 2.41
212 213 2.489938 TGCAAGGGAGGTCATGTTAC 57.510 50.000 0.00 0.00 0.00 2.50
213 214 3.073798 TCTTTGCAAGGGAGGTCATGTTA 59.926 43.478 8.88 0.00 0.00 2.41
214 215 2.158475 TCTTTGCAAGGGAGGTCATGTT 60.158 45.455 8.88 0.00 0.00 2.71
215 216 1.425066 TCTTTGCAAGGGAGGTCATGT 59.575 47.619 8.88 0.00 0.00 3.21
216 217 2.205022 TCTTTGCAAGGGAGGTCATG 57.795 50.000 8.88 0.00 0.00 3.07
217 218 2.978156 TTCTTTGCAAGGGAGGTCAT 57.022 45.000 8.88 0.00 0.00 3.06
218 219 2.746279 TTTCTTTGCAAGGGAGGTCA 57.254 45.000 8.88 0.00 0.00 4.02
219 220 2.893489 ACATTTCTTTGCAAGGGAGGTC 59.107 45.455 8.88 0.00 0.00 3.85
220 221 2.962859 ACATTTCTTTGCAAGGGAGGT 58.037 42.857 8.88 3.31 0.00 3.85
221 222 4.280677 TGTTACATTTCTTTGCAAGGGAGG 59.719 41.667 8.88 2.69 0.00 4.30
222 223 5.452078 TGTTACATTTCTTTGCAAGGGAG 57.548 39.130 8.88 0.00 0.00 4.30
223 224 5.596361 TCTTGTTACATTTCTTTGCAAGGGA 59.404 36.000 8.88 0.00 34.42 4.20
224 225 5.841810 TCTTGTTACATTTCTTTGCAAGGG 58.158 37.500 8.88 2.01 34.42 3.95
225 226 5.403466 GCTCTTGTTACATTTCTTTGCAAGG 59.597 40.000 1.35 1.35 34.42 3.61
226 227 6.211515 AGCTCTTGTTACATTTCTTTGCAAG 58.788 36.000 0.00 0.00 34.80 4.01
227 228 6.039717 AGAGCTCTTGTTACATTTCTTTGCAA 59.960 34.615 11.45 0.00 0.00 4.08
228 229 5.532406 AGAGCTCTTGTTACATTTCTTTGCA 59.468 36.000 11.45 0.00 0.00 4.08
229 230 6.006759 AGAGCTCTTGTTACATTTCTTTGC 57.993 37.500 11.45 0.00 0.00 3.68
230 231 9.552114 CAATAGAGCTCTTGTTACATTTCTTTG 57.448 33.333 23.84 0.00 0.00 2.77
231 232 8.239998 GCAATAGAGCTCTTGTTACATTTCTTT 58.760 33.333 23.84 0.00 0.00 2.52
232 233 7.391554 TGCAATAGAGCTCTTGTTACATTTCTT 59.608 33.333 23.84 0.00 34.99 2.52
233 234 6.881065 TGCAATAGAGCTCTTGTTACATTTCT 59.119 34.615 23.84 0.00 34.99 2.52
234 235 7.076842 TGCAATAGAGCTCTTGTTACATTTC 57.923 36.000 23.84 9.27 34.99 2.17
235 236 7.452880 TTGCAATAGAGCTCTTGTTACATTT 57.547 32.000 23.84 0.00 34.99 2.32
236 237 7.452880 TTTGCAATAGAGCTCTTGTTACATT 57.547 32.000 23.84 11.42 34.99 2.71
237 238 7.452880 TTTTGCAATAGAGCTCTTGTTACAT 57.547 32.000 23.84 4.92 34.99 2.29
238 239 6.875948 TTTTGCAATAGAGCTCTTGTTACA 57.124 33.333 23.84 14.84 34.99 2.41
239 240 9.840427 TTATTTTTGCAATAGAGCTCTTGTTAC 57.160 29.630 23.84 12.46 34.99 2.50
241 242 9.933723 ATTTATTTTTGCAATAGAGCTCTTGTT 57.066 25.926 23.84 14.49 34.99 2.83
242 243 9.933723 AATTTATTTTTGCAATAGAGCTCTTGT 57.066 25.926 23.84 8.62 34.99 3.16
268 269 9.921637 CTTTTCAAAATATAGGTTAGGTTGCAA 57.078 29.630 0.00 0.00 0.00 4.08
269 270 9.303116 TCTTTTCAAAATATAGGTTAGGTTGCA 57.697 29.630 0.00 0.00 0.00 4.08
270 271 9.788960 CTCTTTTCAAAATATAGGTTAGGTTGC 57.211 33.333 0.00 0.00 0.00 4.17
283 284 9.474920 CCAGTGCATTTTACTCTTTTCAAAATA 57.525 29.630 0.00 0.00 32.18 1.40
284 285 7.041848 GCCAGTGCATTTTACTCTTTTCAAAAT 60.042 33.333 0.00 0.00 37.47 1.82
285 286 6.257630 GCCAGTGCATTTTACTCTTTTCAAAA 59.742 34.615 0.00 0.00 37.47 2.44
286 287 5.752955 GCCAGTGCATTTTACTCTTTTCAAA 59.247 36.000 0.00 0.00 37.47 2.69
287 288 5.288804 GCCAGTGCATTTTACTCTTTTCAA 58.711 37.500 0.00 0.00 37.47 2.69
288 289 4.556501 CGCCAGTGCATTTTACTCTTTTCA 60.557 41.667 0.00 0.00 37.32 2.69
289 290 3.914364 CGCCAGTGCATTTTACTCTTTTC 59.086 43.478 0.00 0.00 37.32 2.29
290 291 3.305335 CCGCCAGTGCATTTTACTCTTTT 60.305 43.478 0.00 0.00 37.32 2.27
291 292 2.228822 CCGCCAGTGCATTTTACTCTTT 59.771 45.455 0.00 0.00 37.32 2.52
292 293 1.812571 CCGCCAGTGCATTTTACTCTT 59.187 47.619 0.00 0.00 37.32 2.85
404 405 0.389426 GGCGTACGGTGAACAGTGAT 60.389 55.000 18.39 0.00 0.00 3.06
789 790 5.535029 TCAACACTCCTATTATAGGGTGGT 58.465 41.667 27.48 23.33 46.24 4.16
790 791 6.494666 TTCAACACTCCTATTATAGGGTGG 57.505 41.667 27.48 18.11 46.24 4.61
798 799 8.437575 GGAATTAGGGATTCAACACTCCTATTA 58.562 37.037 1.72 0.00 44.91 0.98
800 801 6.183361 GGGAATTAGGGATTCAACACTCCTAT 60.183 42.308 1.72 0.00 44.91 2.57
801 802 5.132144 GGGAATTAGGGATTCAACACTCCTA 59.868 44.000 1.72 0.00 44.91 2.94
802 803 4.079730 GGGAATTAGGGATTCAACACTCCT 60.080 45.833 1.72 0.00 44.91 3.69
803 804 4.207955 GGGAATTAGGGATTCAACACTCC 58.792 47.826 1.72 0.00 44.91 3.85
804 805 4.207955 GGGGAATTAGGGATTCAACACTC 58.792 47.826 1.72 0.00 44.91 3.51
805 806 3.596046 TGGGGAATTAGGGATTCAACACT 59.404 43.478 1.72 0.00 44.91 3.55
806 807 3.699538 GTGGGGAATTAGGGATTCAACAC 59.300 47.826 1.72 5.56 44.91 3.32
807 808 3.596046 AGTGGGGAATTAGGGATTCAACA 59.404 43.478 1.72 0.00 44.91 3.33
808 809 4.207955 GAGTGGGGAATTAGGGATTCAAC 58.792 47.826 1.72 0.00 44.91 3.18
809 810 3.204382 GGAGTGGGGAATTAGGGATTCAA 59.796 47.826 1.72 0.00 44.91 2.69
810 811 2.783510 GGAGTGGGGAATTAGGGATTCA 59.216 50.000 1.72 0.00 44.91 2.57
824 825 3.215587 AAAGCAGCAGGGGAGTGGG 62.216 63.158 0.00 0.00 0.00 4.61
825 826 1.975407 CAAAGCAGCAGGGGAGTGG 60.975 63.158 0.00 0.00 0.00 4.00
826 827 2.633509 GCAAAGCAGCAGGGGAGTG 61.634 63.158 0.00 0.00 0.00 3.51
827 828 2.282745 GCAAAGCAGCAGGGGAGT 60.283 61.111 0.00 0.00 0.00 3.85
828 829 3.437795 CGCAAAGCAGCAGGGGAG 61.438 66.667 0.00 0.00 0.00 4.30
854 855 4.785453 CAGCAGGGGAAGGGCGTC 62.785 72.222 0.00 0.00 0.00 5.19
857 858 4.372999 AAGCAGCAGGGGAAGGGC 62.373 66.667 0.00 0.00 0.00 5.19
887 888 4.201122 CAGCAGGGAGATGGGGGC 62.201 72.222 0.00 0.00 0.00 5.80
888 889 4.201122 GCAGCAGGGAGATGGGGG 62.201 72.222 0.00 0.00 33.21 5.40
889 890 2.220786 AAAGCAGCAGGGAGATGGGG 62.221 60.000 0.00 0.00 33.21 4.96
890 891 0.750911 GAAAGCAGCAGGGAGATGGG 60.751 60.000 0.00 0.00 33.21 4.00
891 892 0.750911 GGAAAGCAGCAGGGAGATGG 60.751 60.000 0.00 0.00 33.21 3.51
892 893 1.094073 CGGAAAGCAGCAGGGAGATG 61.094 60.000 0.00 0.00 36.50 2.90
893 894 1.222936 CGGAAAGCAGCAGGGAGAT 59.777 57.895 0.00 0.00 0.00 2.75
894 895 2.665000 CGGAAAGCAGCAGGGAGA 59.335 61.111 0.00 0.00 0.00 3.71
1182 1295 4.342092 ACTTCCACAAAAGATCCACCAAAG 59.658 41.667 0.00 0.00 0.00 2.77
1193 1306 4.097741 TCACCATCACAACTTCCACAAAAG 59.902 41.667 0.00 0.00 0.00 2.27
1378 1492 6.954684 ACCTCCACCTACATATCTTCGATTAT 59.045 38.462 0.00 0.00 0.00 1.28
1379 1493 6.208797 CACCTCCACCTACATATCTTCGATTA 59.791 42.308 0.00 0.00 0.00 1.75
1715 1956 7.948278 ACTACATCAACTTCAGACTTACAAC 57.052 36.000 0.00 0.00 0.00 3.32
1785 2031 1.636148 ACATGGTGGCAAAAGCATCT 58.364 45.000 0.00 0.00 36.15 2.90
1824 2071 6.090763 GTGCCAAATTAACTTCCATTTGTAGC 59.909 38.462 0.00 0.00 38.29 3.58
1827 2074 5.923204 TGTGCCAAATTAACTTCCATTTGT 58.077 33.333 0.00 0.00 38.29 2.83
1850 2097 9.357652 GCAAAATGTACACATAATCAACTTCAT 57.642 29.630 0.00 0.00 35.10 2.57
1862 2130 7.628769 TCATATGACAGCAAAATGTACACAT 57.371 32.000 0.00 0.00 38.41 3.21
1872 2140 7.028962 GCACATTAACTTCATATGACAGCAAA 58.971 34.615 4.48 5.30 0.00 3.68
1929 2197 6.042143 ACAACATCAACAAGTTCAACCATTC 58.958 36.000 0.00 0.00 0.00 2.67
1994 2266 9.964354 ACTGGTTATGCATATGTTCATATATGT 57.036 29.630 7.36 0.00 41.14 2.29
2022 2294 7.337938 TGCTTCCTATCTTCATATGACAACAA 58.662 34.615 4.48 0.00 0.00 2.83
2058 2346 7.925483 TGTTCTGAATTGTTGGTTATTTCCTTG 59.075 33.333 0.00 0.00 0.00 3.61
2060 2348 7.595819 TGTTCTGAATTGTTGGTTATTTCCT 57.404 32.000 0.00 0.00 0.00 3.36
2068 2356 9.466497 AGATATGTTATGTTCTGAATTGTTGGT 57.534 29.630 0.00 0.00 0.00 3.67
2245 2538 2.652590 AGCTCCAAGGCATGAGAAATC 58.347 47.619 0.00 0.00 34.17 2.17
2281 2574 5.978919 GCACTTCAATGTTTGACATCTTCAA 59.021 36.000 0.00 0.00 42.83 2.69
2347 2640 3.715097 GCCTGCAGGTCCAGAGCT 61.715 66.667 32.81 0.00 40.20 4.09


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

AutoCloner maintained by Alex Coulton.