Multiple sequence alignment - TraesCS4D01G324900

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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 TraesCS4D01G324900 chr4D 100.000 2312 0 0 1 2312 485393527 485395838 0.000000e+00 4270.0
1 TraesCS4D01G324900 chr4D 94.885 1994 38 8 341 2312 445488353 445490304 0.000000e+00 3059.0
2 TraesCS4D01G324900 chr4D 97.076 342 10 0 1 342 461842454 461842795 5.540000e-161 577.0
3 TraesCS4D01G324900 chr4D 95.906 342 14 0 1 342 489155187 489155528 2.600000e-154 555.0
4 TraesCS4D01G324900 chr4D 94.340 53 0 2 1637 1688 445489564 445489614 6.850000e-11 78.7
5 TraesCS4D01G324900 chr1A 94.471 1266 51 10 343 1607 26479589 26480836 0.000000e+00 1932.0
6 TraesCS4D01G324900 chr1A 97.172 495 12 1 1820 2312 26480859 26481353 0.000000e+00 835.0
7 TraesCS4D01G324900 chr1A 92.690 342 23 2 1 342 577316086 577316425 2.060000e-135 492.0
8 TraesCS4D01G324900 chr1A 94.737 76 0 1 1646 1717 26480794 26480869 5.220000e-22 115.0
9 TraesCS4D01G324900 chr3D 92.427 1294 62 13 342 1619 354004241 354002968 0.000000e+00 1814.0
10 TraesCS4D01G324900 chr3D 89.962 1315 64 12 342 1619 5461276 5462559 0.000000e+00 1635.0
11 TraesCS4D01G324900 chr3D 94.100 661 28 4 1650 2310 5462522 5463171 0.000000e+00 994.0
12 TraesCS4D01G324900 chr3D 95.897 390 13 2 1923 2312 354002683 354002297 1.510000e-176 628.0
13 TraesCS4D01G324900 chr3D 92.982 342 23 1 1 342 512695561 512695221 4.440000e-137 497.0
14 TraesCS4D01G324900 chr3D 94.352 301 11 3 1650 1945 354003009 354002710 7.530000e-125 457.0
15 TraesCS4D01G324900 chr7A 91.225 1208 57 12 342 1548 74974729 74973570 0.000000e+00 1598.0
16 TraesCS4D01G324900 chr7A 87.905 1174 78 19 343 1483 709016892 709015750 0.000000e+00 1323.0
17 TraesCS4D01G324900 chr7A 88.235 544 38 9 1793 2312 12342740 12343281 5.420000e-176 627.0
18 TraesCS4D01G324900 chr7A 93.862 391 20 3 1923 2312 74973207 74972820 9.200000e-164 586.0
19 TraesCS4D01G324900 chr7A 88.693 283 11 10 1665 1945 74973497 74973234 2.220000e-85 326.0
20 TraesCS4D01G324900 chr7A 90.476 63 4 2 1650 1711 9744978 9744917 5.290000e-12 82.4
21 TraesCS4D01G324900 chr7A 97.143 35 0 1 1650 1684 74973523 74973490 8.920000e-05 58.4
22 TraesCS4D01G324900 chr4A 94.112 1002 33 2 343 1319 744186881 744185881 0.000000e+00 1500.0
23 TraesCS4D01G324900 chr4A 96.048 582 20 1 1731 2312 744185622 744185044 0.000000e+00 944.0
24 TraesCS4D01G324900 chr4A 94.853 272 8 3 1413 1684 744185855 744185590 9.880000e-114 420.0
25 TraesCS4D01G324900 chr3B 87.239 1246 92 19 343 1570 216203408 216204604 0.000000e+00 1358.0
26 TraesCS4D01G324900 chr6B 88.031 1153 91 16 343 1483 703850168 703851285 0.000000e+00 1321.0
27 TraesCS4D01G324900 chr6B 91.045 536 32 8 1792 2312 668926486 668927020 0.000000e+00 710.0
28 TraesCS4D01G324900 chr5B 88.982 1071 80 16 341 1379 442745403 442746467 0.000000e+00 1290.0
29 TraesCS4D01G324900 chr5B 93.831 616 37 1 723 1338 376514250 376514864 0.000000e+00 926.0
30 TraesCS4D01G324900 chr5B 93.506 616 39 1 723 1338 376510547 376511161 0.000000e+00 915.0
31 TraesCS4D01G324900 chr1B 89.140 930 70 9 642 1570 599266573 599267472 0.000000e+00 1129.0
32 TraesCS4D01G324900 chr1B 89.286 224 18 4 1364 1583 680927906 680927685 2.260000e-70 276.0
33 TraesCS4D01G324900 chr1D 91.963 535 29 6 1792 2312 406566511 406567045 0.000000e+00 737.0
34 TraesCS4D01G324900 chr1D 95.322 342 15 1 1 342 467104132 467103792 2.020000e-150 542.0
35 TraesCS4D01G324900 chr1D 93.252 326 20 2 17 342 346878934 346879257 1.610000e-131 479.0
36 TraesCS4D01G324900 chr2D 91.589 535 30 7 1792 2312 474437544 474437011 0.000000e+00 725.0
37 TraesCS4D01G324900 chr2D 88.948 561 49 7 336 892 474438751 474438200 0.000000e+00 680.0
38 TraesCS4D01G324900 chr2D 91.837 343 25 3 1 342 37836341 37836001 2.080000e-130 475.0
39 TraesCS4D01G324900 chr7D 88.971 544 33 10 1793 2312 12982995 12983535 0.000000e+00 647.0
40 TraesCS4D01G324900 chr5D 93.567 342 21 1 1 342 65105141 65104801 2.050000e-140 508.0
41 TraesCS4D01G324900 chr5D 92.727 330 23 1 1 330 65995505 65995177 2.080000e-130 475.0


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 TraesCS4D01G324900 chr4D 485393527 485395838 2311 False 4270.000000 4270 100.000000 1 2312 1 chr4D.!!$F2 2311
1 TraesCS4D01G324900 chr4D 445488353 445490304 1951 False 1568.850000 3059 94.612500 341 2312 2 chr4D.!!$F4 1971
2 TraesCS4D01G324900 chr1A 26479589 26481353 1764 False 960.666667 1932 95.460000 343 2312 3 chr1A.!!$F2 1969
3 TraesCS4D01G324900 chr3D 5461276 5463171 1895 False 1314.500000 1635 92.031000 342 2310 2 chr3D.!!$F1 1968
4 TraesCS4D01G324900 chr3D 354002297 354004241 1944 True 966.333333 1814 94.225333 342 2312 3 chr3D.!!$R2 1970
5 TraesCS4D01G324900 chr7A 709015750 709016892 1142 True 1323.000000 1323 87.905000 343 1483 1 chr7A.!!$R2 1140
6 TraesCS4D01G324900 chr7A 74972820 74974729 1909 True 642.100000 1598 92.730750 342 2312 4 chr7A.!!$R3 1970
7 TraesCS4D01G324900 chr7A 12342740 12343281 541 False 627.000000 627 88.235000 1793 2312 1 chr7A.!!$F1 519
8 TraesCS4D01G324900 chr4A 744185044 744186881 1837 True 954.666667 1500 95.004333 343 2312 3 chr4A.!!$R1 1969
9 TraesCS4D01G324900 chr3B 216203408 216204604 1196 False 1358.000000 1358 87.239000 343 1570 1 chr3B.!!$F1 1227
10 TraesCS4D01G324900 chr6B 703850168 703851285 1117 False 1321.000000 1321 88.031000 343 1483 1 chr6B.!!$F2 1140
11 TraesCS4D01G324900 chr6B 668926486 668927020 534 False 710.000000 710 91.045000 1792 2312 1 chr6B.!!$F1 520
12 TraesCS4D01G324900 chr5B 442745403 442746467 1064 False 1290.000000 1290 88.982000 341 1379 1 chr5B.!!$F1 1038
13 TraesCS4D01G324900 chr5B 376510547 376514864 4317 False 920.500000 926 93.668500 723 1338 2 chr5B.!!$F2 615
14 TraesCS4D01G324900 chr1B 599266573 599267472 899 False 1129.000000 1129 89.140000 642 1570 1 chr1B.!!$F1 928
15 TraesCS4D01G324900 chr1D 406566511 406567045 534 False 737.000000 737 91.963000 1792 2312 1 chr1D.!!$F2 520
16 TraesCS4D01G324900 chr2D 474437011 474438751 1740 True 702.500000 725 90.268500 336 2312 2 chr2D.!!$R2 1976
17 TraesCS4D01G324900 chr7D 12982995 12983535 540 False 647.000000 647 88.971000 1793 2312 1 chr7D.!!$F1 519

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
82 83 0.108329 CTGTGTAACCCTACCGCCAG 60.108 60.0 0.0 0.0 34.36 4.85 F
110 111 0.250597 GCGGTAGGGTCCTGTGTTTT 60.251 55.0 0.0 0.0 0.00 2.43 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1182 1305 0.963962 CTTGGTGCCTGCTCATGTTT 59.036 50.000 0.00 0.00 0.00 2.83 R
1940 5880 8.465999 ACTACAGAATCTATGAGACTCTTTGTG 58.534 37.037 3.68 2.19 26.66 3.33 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
20 21 2.723124 AACGAAATGTGCAATGGACC 57.277 45.000 1.68 0.00 0.00 4.46
21 22 1.909700 ACGAAATGTGCAATGGACCT 58.090 45.000 1.68 0.00 0.00 3.85
22 23 1.541147 ACGAAATGTGCAATGGACCTG 59.459 47.619 1.68 0.00 0.00 4.00
23 24 1.135315 CGAAATGTGCAATGGACCTGG 60.135 52.381 1.68 0.00 0.00 4.45
24 25 0.609662 AAATGTGCAATGGACCTGGC 59.390 50.000 1.68 0.00 0.00 4.85
25 26 1.597797 AATGTGCAATGGACCTGGCG 61.598 55.000 1.68 0.00 0.00 5.69
26 27 3.443045 GTGCAATGGACCTGGCGG 61.443 66.667 0.00 0.00 0.00 6.13
28 29 2.270850 GCAATGGACCTGGCGGTA 59.729 61.111 0.00 0.00 45.73 4.02
29 30 1.819632 GCAATGGACCTGGCGGTAG 60.820 63.158 0.00 0.00 45.73 3.18
30 31 1.153168 CAATGGACCTGGCGGTAGG 60.153 63.158 0.00 0.00 45.73 3.18
36 37 2.267961 CCTGGCGGTAGGTTCACC 59.732 66.667 0.00 0.00 32.99 4.02
37 38 2.267961 CTGGCGGTAGGTTCACCC 59.732 66.667 0.00 0.00 34.90 4.61
39 40 0.974010 CTGGCGGTAGGTTCACCCTA 60.974 60.000 0.00 0.00 43.87 3.53
44 45 4.039042 TAGGTTCACCCTACCGCC 57.961 61.111 0.00 0.00 43.87 6.13
45 46 1.078891 TAGGTTCACCCTACCGCCA 59.921 57.895 0.00 0.00 43.87 5.69
46 47 0.325860 TAGGTTCACCCTACCGCCAT 60.326 55.000 0.00 0.00 43.87 4.40
47 48 1.153229 GGTTCACCCTACCGCCATC 60.153 63.158 0.00 0.00 0.00 3.51
48 49 1.520787 GTTCACCCTACCGCCATCG 60.521 63.158 0.00 0.00 0.00 3.84
61 62 4.609018 CATCGGGGCAGGCGGTAG 62.609 72.222 0.00 0.00 0.00 3.18
71 72 4.196965 GGCGGTAGGCTGTGTAAC 57.803 61.111 0.00 0.00 42.94 2.50
72 73 1.449070 GGCGGTAGGCTGTGTAACC 60.449 63.158 0.00 0.00 42.94 2.85
73 74 1.449070 GCGGTAGGCTGTGTAACCC 60.449 63.158 0.00 0.00 39.11 4.11
74 75 1.896122 GCGGTAGGCTGTGTAACCCT 61.896 60.000 0.00 0.00 39.11 4.34
75 76 1.477553 CGGTAGGCTGTGTAACCCTA 58.522 55.000 0.00 0.00 34.36 3.53
76 77 1.135721 CGGTAGGCTGTGTAACCCTAC 59.864 57.143 0.00 7.39 45.47 3.18
77 78 2.975732 GTAGGCTGTGTAACCCTACC 57.024 55.000 0.00 0.00 42.46 3.18
78 79 1.135721 GTAGGCTGTGTAACCCTACCG 59.864 57.143 0.00 0.00 42.46 4.02
79 80 1.449070 GGCTGTGTAACCCTACCGC 60.449 63.158 0.00 0.00 34.36 5.68
80 81 1.449070 GCTGTGTAACCCTACCGCC 60.449 63.158 0.00 0.00 34.36 6.13
81 82 1.976898 CTGTGTAACCCTACCGCCA 59.023 57.895 0.00 0.00 34.36 5.69
82 83 0.108329 CTGTGTAACCCTACCGCCAG 60.108 60.000 0.00 0.00 34.36 4.85
83 84 1.219935 GTGTAACCCTACCGCCAGG 59.780 63.158 0.00 0.00 45.13 4.45
98 99 4.798682 AGGTCCCCTGGCGGTAGG 62.799 72.222 0.00 0.00 37.59 3.18
104 105 3.470888 CCTGGCGGTAGGGTCCTG 61.471 72.222 0.00 0.00 34.06 3.86
105 106 2.683933 CTGGCGGTAGGGTCCTGT 60.684 66.667 0.00 0.00 0.00 4.00
106 107 3.000819 TGGCGGTAGGGTCCTGTG 61.001 66.667 0.00 0.00 0.00 3.66
107 108 3.001406 GGCGGTAGGGTCCTGTGT 61.001 66.667 0.00 0.00 0.00 3.72
108 109 2.590114 GGCGGTAGGGTCCTGTGTT 61.590 63.158 0.00 0.00 0.00 3.32
109 110 1.373812 GCGGTAGGGTCCTGTGTTT 59.626 57.895 0.00 0.00 0.00 2.83
110 111 0.250597 GCGGTAGGGTCCTGTGTTTT 60.251 55.000 0.00 0.00 0.00 2.43
111 112 1.816572 GCGGTAGGGTCCTGTGTTTTT 60.817 52.381 0.00 0.00 0.00 1.94
112 113 2.148768 CGGTAGGGTCCTGTGTTTTTC 58.851 52.381 0.00 0.00 0.00 2.29
113 114 2.511659 GGTAGGGTCCTGTGTTTTTCC 58.488 52.381 0.00 0.00 0.00 3.13
114 115 2.158579 GGTAGGGTCCTGTGTTTTTCCA 60.159 50.000 0.00 0.00 0.00 3.53
115 116 2.364972 AGGGTCCTGTGTTTTTCCAG 57.635 50.000 0.00 0.00 0.00 3.86
116 117 1.569072 AGGGTCCTGTGTTTTTCCAGT 59.431 47.619 0.00 0.00 0.00 4.00
117 118 1.681264 GGGTCCTGTGTTTTTCCAGTG 59.319 52.381 0.00 0.00 0.00 3.66
118 119 2.375146 GGTCCTGTGTTTTTCCAGTGT 58.625 47.619 0.00 0.00 0.00 3.55
119 120 3.547746 GGTCCTGTGTTTTTCCAGTGTA 58.452 45.455 0.00 0.00 0.00 2.90
120 121 3.949113 GGTCCTGTGTTTTTCCAGTGTAA 59.051 43.478 0.00 0.00 0.00 2.41
121 122 4.399934 GGTCCTGTGTTTTTCCAGTGTAAA 59.600 41.667 0.00 0.00 0.00 2.01
122 123 5.449999 GGTCCTGTGTTTTTCCAGTGTAAAG 60.450 44.000 0.00 0.00 0.00 1.85
123 124 4.097286 TCCTGTGTTTTTCCAGTGTAAAGC 59.903 41.667 0.00 0.00 0.00 3.51
124 125 4.097892 CCTGTGTTTTTCCAGTGTAAAGCT 59.902 41.667 0.00 0.00 0.00 3.74
125 126 5.394115 CCTGTGTTTTTCCAGTGTAAAGCTT 60.394 40.000 0.00 0.00 0.00 3.74
126 127 5.646606 TGTGTTTTTCCAGTGTAAAGCTTC 58.353 37.500 0.00 0.00 0.00 3.86
127 128 5.417580 TGTGTTTTTCCAGTGTAAAGCTTCT 59.582 36.000 0.00 0.00 0.00 2.85
128 129 5.743872 GTGTTTTTCCAGTGTAAAGCTTCTG 59.256 40.000 0.00 2.34 0.00 3.02
129 130 5.417580 TGTTTTTCCAGTGTAAAGCTTCTGT 59.582 36.000 0.00 0.00 0.00 3.41
130 131 6.600032 TGTTTTTCCAGTGTAAAGCTTCTGTA 59.400 34.615 0.00 0.00 0.00 2.74
131 132 7.121463 TGTTTTTCCAGTGTAAAGCTTCTGTAA 59.879 33.333 0.00 0.00 0.00 2.41
132 133 6.613755 TTTCCAGTGTAAAGCTTCTGTAAC 57.386 37.500 0.00 0.00 0.00 2.50
133 134 4.304110 TCCAGTGTAAAGCTTCTGTAACG 58.696 43.478 0.00 0.00 0.00 3.18
134 135 4.038282 TCCAGTGTAAAGCTTCTGTAACGA 59.962 41.667 0.00 0.00 0.00 3.85
135 136 4.748102 CCAGTGTAAAGCTTCTGTAACGAA 59.252 41.667 0.00 0.00 0.00 3.85
136 137 5.235616 CCAGTGTAAAGCTTCTGTAACGAAA 59.764 40.000 0.00 0.00 0.00 3.46
137 138 6.238266 CCAGTGTAAAGCTTCTGTAACGAAAA 60.238 38.462 0.00 0.00 0.00 2.29
138 139 7.184106 CAGTGTAAAGCTTCTGTAACGAAAAA 58.816 34.615 0.00 0.00 0.00 1.94
152 153 3.890313 AAAAAGCAAGGGGCCTGG 58.110 55.556 0.84 0.00 46.50 4.45
153 154 2.519622 AAAAAGCAAGGGGCCTGGC 61.520 57.895 11.05 11.05 46.50 4.85
154 155 3.772420 AAAAGCAAGGGGCCTGGCA 62.772 57.895 22.05 0.00 45.12 4.92
155 156 4.691359 AAGCAAGGGGCCTGGCAG 62.691 66.667 22.05 7.75 45.12 4.85
157 158 4.047125 GCAAGGGGCCTGGCAGTA 62.047 66.667 22.05 0.00 42.37 2.74
158 159 2.273449 CAAGGGGCCTGGCAGTAG 59.727 66.667 22.05 0.00 0.00 2.57
159 160 3.017581 AAGGGGCCTGGCAGTAGG 61.018 66.667 22.05 0.00 40.95 3.18
160 161 3.891432 AAGGGGCCTGGCAGTAGGT 62.891 63.158 22.05 0.00 40.11 3.08
161 162 4.115199 GGGGCCTGGCAGTAGGTG 62.115 72.222 22.05 0.00 40.11 4.00
190 191 4.569180 CATGGGGGCTGGCGGTAG 62.569 72.222 0.00 0.00 0.00 3.18
196 197 4.468689 GGCTGGCGGTAGGGTGTC 62.469 72.222 0.00 0.00 0.00 3.67
197 198 3.391382 GCTGGCGGTAGGGTGTCT 61.391 66.667 0.00 0.00 0.00 3.41
198 199 2.579201 CTGGCGGTAGGGTGTCTG 59.421 66.667 0.00 0.00 0.00 3.51
199 200 1.982395 CTGGCGGTAGGGTGTCTGA 60.982 63.158 0.00 0.00 0.00 3.27
200 201 2.227089 CTGGCGGTAGGGTGTCTGAC 62.227 65.000 0.00 0.00 0.00 3.51
201 202 2.577593 GCGGTAGGGTGTCTGACC 59.422 66.667 5.17 0.00 45.28 4.02
208 209 2.577593 GGTGTCTGACCCTACCGC 59.422 66.667 5.17 0.00 39.10 5.68
209 210 2.577593 GTGTCTGACCCTACCGCC 59.422 66.667 5.17 0.00 0.00 6.13
210 211 2.118732 TGTCTGACCCTACCGCCA 59.881 61.111 5.17 0.00 0.00 5.69
211 212 1.982395 TGTCTGACCCTACCGCCAG 60.982 63.158 5.17 0.00 0.00 4.85
212 213 2.363795 TCTGACCCTACCGCCAGG 60.364 66.667 0.00 0.00 45.13 4.45
218 219 2.687566 CCTACCGCCAGGGACCTT 60.688 66.667 0.00 0.00 43.47 3.50
219 220 2.584608 CTACCGCCAGGGACCTTG 59.415 66.667 0.00 0.00 43.47 3.61
220 221 3.006728 TACCGCCAGGGACCTTGG 61.007 66.667 18.34 18.34 43.47 3.61
231 232 3.007323 ACCTTGGCGGTAGGGTCC 61.007 66.667 5.31 0.00 46.73 4.46
232 233 2.687566 CCTTGGCGGTAGGGTCCT 60.688 66.667 0.00 0.00 0.00 3.85
233 234 2.732619 CCTTGGCGGTAGGGTCCTC 61.733 68.421 0.00 0.00 0.00 3.71
234 235 1.686110 CTTGGCGGTAGGGTCCTCT 60.686 63.158 0.00 0.00 0.00 3.69
235 236 1.961180 CTTGGCGGTAGGGTCCTCTG 61.961 65.000 0.00 0.00 0.00 3.35
236 237 2.363925 GGCGGTAGGGTCCTCTGT 60.364 66.667 0.00 0.00 0.00 3.41
237 238 1.988406 GGCGGTAGGGTCCTCTGTT 60.988 63.158 0.00 0.00 0.00 3.16
238 239 1.551019 GGCGGTAGGGTCCTCTGTTT 61.551 60.000 0.00 0.00 0.00 2.83
239 240 0.323957 GCGGTAGGGTCCTCTGTTTT 59.676 55.000 0.00 0.00 0.00 2.43
240 241 1.944430 GCGGTAGGGTCCTCTGTTTTG 60.944 57.143 0.00 0.00 0.00 2.44
241 242 1.346722 CGGTAGGGTCCTCTGTTTTGT 59.653 52.381 0.00 0.00 0.00 2.83
242 243 2.224450 CGGTAGGGTCCTCTGTTTTGTT 60.224 50.000 0.00 0.00 0.00 2.83
243 244 3.146847 GGTAGGGTCCTCTGTTTTGTTG 58.853 50.000 0.00 0.00 0.00 3.33
244 245 3.434596 GGTAGGGTCCTCTGTTTTGTTGT 60.435 47.826 0.00 0.00 0.00 3.32
245 246 3.382083 AGGGTCCTCTGTTTTGTTGTT 57.618 42.857 0.00 0.00 0.00 2.83
246 247 3.708451 AGGGTCCTCTGTTTTGTTGTTT 58.292 40.909 0.00 0.00 0.00 2.83
247 248 3.699538 AGGGTCCTCTGTTTTGTTGTTTC 59.300 43.478 0.00 0.00 0.00 2.78
248 249 3.699538 GGGTCCTCTGTTTTGTTGTTTCT 59.300 43.478 0.00 0.00 0.00 2.52
249 250 4.885325 GGGTCCTCTGTTTTGTTGTTTCTA 59.115 41.667 0.00 0.00 0.00 2.10
250 251 5.008712 GGGTCCTCTGTTTTGTTGTTTCTAG 59.991 44.000 0.00 0.00 0.00 2.43
251 252 5.589050 GGTCCTCTGTTTTGTTGTTTCTAGT 59.411 40.000 0.00 0.00 0.00 2.57
252 253 6.095021 GGTCCTCTGTTTTGTTGTTTCTAGTT 59.905 38.462 0.00 0.00 0.00 2.24
253 254 7.187480 GTCCTCTGTTTTGTTGTTTCTAGTTC 58.813 38.462 0.00 0.00 0.00 3.01
254 255 6.882140 TCCTCTGTTTTGTTGTTTCTAGTTCA 59.118 34.615 0.00 0.00 0.00 3.18
255 256 7.556275 TCCTCTGTTTTGTTGTTTCTAGTTCAT 59.444 33.333 0.00 0.00 0.00 2.57
256 257 8.190784 CCTCTGTTTTGTTGTTTCTAGTTCATT 58.809 33.333 0.00 0.00 0.00 2.57
257 258 9.573133 CTCTGTTTTGTTGTTTCTAGTTCATTT 57.427 29.630 0.00 0.00 0.00 2.32
258 259 9.352784 TCTGTTTTGTTGTTTCTAGTTCATTTG 57.647 29.630 0.00 0.00 0.00 2.32
259 260 8.472683 TGTTTTGTTGTTTCTAGTTCATTTGG 57.527 30.769 0.00 0.00 0.00 3.28
260 261 8.091449 TGTTTTGTTGTTTCTAGTTCATTTGGT 58.909 29.630 0.00 0.00 0.00 3.67
261 262 8.931775 GTTTTGTTGTTTCTAGTTCATTTGGTT 58.068 29.630 0.00 0.00 0.00 3.67
262 263 8.472683 TTTGTTGTTTCTAGTTCATTTGGTTG 57.527 30.769 0.00 0.00 0.00 3.77
263 264 6.039616 TGTTGTTTCTAGTTCATTTGGTTGC 58.960 36.000 0.00 0.00 0.00 4.17
264 265 6.127479 TGTTGTTTCTAGTTCATTTGGTTGCT 60.127 34.615 0.00 0.00 0.00 3.91
265 266 6.463995 TGTTTCTAGTTCATTTGGTTGCTT 57.536 33.333 0.00 0.00 0.00 3.91
266 267 6.272318 TGTTTCTAGTTCATTTGGTTGCTTG 58.728 36.000 0.00 0.00 0.00 4.01
267 268 6.127479 TGTTTCTAGTTCATTTGGTTGCTTGT 60.127 34.615 0.00 0.00 0.00 3.16
268 269 6.463995 TTCTAGTTCATTTGGTTGCTTGTT 57.536 33.333 0.00 0.00 0.00 2.83
269 270 6.463995 TCTAGTTCATTTGGTTGCTTGTTT 57.536 33.333 0.00 0.00 0.00 2.83
270 271 6.872920 TCTAGTTCATTTGGTTGCTTGTTTT 58.127 32.000 0.00 0.00 0.00 2.43
271 272 6.978080 TCTAGTTCATTTGGTTGCTTGTTTTC 59.022 34.615 0.00 0.00 0.00 2.29
272 273 4.566360 AGTTCATTTGGTTGCTTGTTTTCG 59.434 37.500 0.00 0.00 0.00 3.46
273 274 4.377839 TCATTTGGTTGCTTGTTTTCGA 57.622 36.364 0.00 0.00 0.00 3.71
274 275 4.748892 TCATTTGGTTGCTTGTTTTCGAA 58.251 34.783 0.00 0.00 0.00 3.71
275 276 5.355596 TCATTTGGTTGCTTGTTTTCGAAT 58.644 33.333 0.00 0.00 0.00 3.34
276 277 5.814705 TCATTTGGTTGCTTGTTTTCGAATT 59.185 32.000 0.00 0.00 0.00 2.17
277 278 5.710613 TTTGGTTGCTTGTTTTCGAATTC 57.289 34.783 0.00 0.00 0.00 2.17
278 279 4.377839 TGGTTGCTTGTTTTCGAATTCA 57.622 36.364 6.22 0.00 0.00 2.57
279 280 4.748892 TGGTTGCTTGTTTTCGAATTCAA 58.251 34.783 6.22 6.99 0.00 2.69
280 281 5.355596 TGGTTGCTTGTTTTCGAATTCAAT 58.644 33.333 6.22 0.00 0.00 2.57
281 282 6.507900 TGGTTGCTTGTTTTCGAATTCAATA 58.492 32.000 6.22 6.14 0.00 1.90
282 283 7.151308 TGGTTGCTTGTTTTCGAATTCAATAT 58.849 30.769 6.22 0.00 0.00 1.28
283 284 7.116090 TGGTTGCTTGTTTTCGAATTCAATATG 59.884 33.333 6.22 6.26 0.00 1.78
284 285 7.328249 GGTTGCTTGTTTTCGAATTCAATATGA 59.672 33.333 6.22 0.00 0.00 2.15
285 286 7.795431 TGCTTGTTTTCGAATTCAATATGAC 57.205 32.000 6.22 0.00 0.00 3.06
286 287 7.366513 TGCTTGTTTTCGAATTCAATATGACA 58.633 30.769 6.22 0.00 0.00 3.58
287 288 7.538334 TGCTTGTTTTCGAATTCAATATGACAG 59.462 33.333 6.22 4.59 0.00 3.51
288 289 7.461938 GCTTGTTTTCGAATTCAATATGACAGC 60.462 37.037 6.22 9.16 0.00 4.40
289 290 6.907741 TGTTTTCGAATTCAATATGACAGCA 58.092 32.000 6.22 0.00 0.00 4.41
290 291 7.366513 TGTTTTCGAATTCAATATGACAGCAA 58.633 30.769 6.22 0.00 0.00 3.91
291 292 8.028354 TGTTTTCGAATTCAATATGACAGCAAT 58.972 29.630 6.22 0.00 0.00 3.56
292 293 9.502145 GTTTTCGAATTCAATATGACAGCAATA 57.498 29.630 6.22 0.00 0.00 1.90
294 295 9.882996 TTTCGAATTCAATATGACAGCAATATC 57.117 29.630 6.22 0.00 0.00 1.63
295 296 8.606040 TCGAATTCAATATGACAGCAATATCA 57.394 30.769 6.22 0.00 0.00 2.15
296 297 8.498358 TCGAATTCAATATGACAGCAATATCAC 58.502 33.333 6.22 0.00 0.00 3.06
297 298 8.284693 CGAATTCAATATGACAGCAATATCACA 58.715 33.333 6.22 0.00 0.00 3.58
298 299 9.955208 GAATTCAATATGACAGCAATATCACAA 57.045 29.630 0.00 0.00 0.00 3.33
299 300 9.740239 AATTCAATATGACAGCAATATCACAAC 57.260 29.630 0.00 0.00 0.00 3.32
300 301 7.862512 TCAATATGACAGCAATATCACAACA 57.137 32.000 0.00 0.00 0.00 3.33
301 302 8.278729 TCAATATGACAGCAATATCACAACAA 57.721 30.769 0.00 0.00 0.00 2.83
302 303 8.400186 TCAATATGACAGCAATATCACAACAAG 58.600 33.333 0.00 0.00 0.00 3.16
303 304 7.870509 ATATGACAGCAATATCACAACAAGT 57.129 32.000 0.00 0.00 0.00 3.16
304 305 6.579666 ATGACAGCAATATCACAACAAGTT 57.420 33.333 0.00 0.00 0.00 2.66
305 306 6.389830 TGACAGCAATATCACAACAAGTTT 57.610 33.333 0.00 0.00 0.00 2.66
306 307 6.804677 TGACAGCAATATCACAACAAGTTTT 58.195 32.000 0.00 0.00 0.00 2.43
307 308 7.264221 TGACAGCAATATCACAACAAGTTTTT 58.736 30.769 0.00 0.00 0.00 1.94
308 309 7.434897 TGACAGCAATATCACAACAAGTTTTTC 59.565 33.333 0.00 0.00 0.00 2.29
309 310 7.264221 ACAGCAATATCACAACAAGTTTTTCA 58.736 30.769 0.00 0.00 0.00 2.69
310 311 7.763528 ACAGCAATATCACAACAAGTTTTTCAA 59.236 29.630 0.00 0.00 0.00 2.69
311 312 8.602328 CAGCAATATCACAACAAGTTTTTCAAA 58.398 29.630 0.00 0.00 0.00 2.69
312 313 9.328845 AGCAATATCACAACAAGTTTTTCAAAT 57.671 25.926 0.00 0.00 0.00 2.32
318 319 9.814899 ATCACAACAAGTTTTTCAAATATGACA 57.185 25.926 0.00 0.00 34.61 3.58
319 320 9.299963 TCACAACAAGTTTTTCAAATATGACAG 57.700 29.630 0.00 0.00 34.61 3.51
320 321 8.057742 CACAACAAGTTTTTCAAATATGACAGC 58.942 33.333 0.00 0.00 34.61 4.40
321 322 7.763528 ACAACAAGTTTTTCAAATATGACAGCA 59.236 29.630 0.00 0.00 34.61 4.41
322 323 8.602328 CAACAAGTTTTTCAAATATGACAGCAA 58.398 29.630 0.00 0.00 34.61 3.91
323 324 8.891671 ACAAGTTTTTCAAATATGACAGCAAT 57.108 26.923 0.00 0.00 34.61 3.56
324 325 9.979578 ACAAGTTTTTCAAATATGACAGCAATA 57.020 25.926 0.00 0.00 34.61 1.90
330 331 9.791820 TTTTCAAATATGACAGCAATATCACAG 57.208 29.630 0.00 0.00 34.61 3.66
331 332 8.735692 TTCAAATATGACAGCAATATCACAGA 57.264 30.769 0.00 0.00 34.61 3.41
332 333 8.913487 TCAAATATGACAGCAATATCACAGAT 57.087 30.769 0.00 0.00 0.00 2.90
333 334 9.346005 TCAAATATGACAGCAATATCACAGATT 57.654 29.630 0.00 0.00 0.00 2.40
334 335 9.961265 CAAATATGACAGCAATATCACAGATTT 57.039 29.630 0.00 0.00 32.22 2.17
456 457 4.007659 GGGAACAGTGAAAATACGGTCAT 58.992 43.478 0.00 0.00 0.00 3.06
476 477 2.986979 TGCGCCGTAGACCACTCA 60.987 61.111 4.18 0.00 0.00 3.41
495 496 3.417101 TCATACGCCACAAATTTGACCT 58.583 40.909 24.64 0.00 0.00 3.85
529 530 0.321122 CATAGGCGGGCAGAGGATTC 60.321 60.000 3.78 0.00 0.00 2.52
855 970 0.259065 ACAGAGGATCACGAGGGCTA 59.741 55.000 0.00 0.00 37.82 3.93
1045 1168 2.270352 TGCTCGTTTCTTGGTTGGAT 57.730 45.000 0.00 0.00 0.00 3.41
1182 1305 1.004080 GCCTGACTCTCTGCAGCAA 60.004 57.895 9.47 0.00 0.00 3.91
1586 5500 6.261118 GTTGTCAAATGCTATGAAGTGATCC 58.739 40.000 0.00 0.00 0.00 3.36
1587 5501 5.499313 TGTCAAATGCTATGAAGTGATCCA 58.501 37.500 0.00 0.00 0.00 3.41
1588 5502 6.124340 TGTCAAATGCTATGAAGTGATCCAT 58.876 36.000 0.00 0.00 0.00 3.41
1589 5503 6.261603 TGTCAAATGCTATGAAGTGATCCATC 59.738 38.462 0.00 0.00 0.00 3.51
1590 5504 6.485984 GTCAAATGCTATGAAGTGATCCATCT 59.514 38.462 0.00 0.00 0.00 2.90
1591 5505 7.658982 GTCAAATGCTATGAAGTGATCCATCTA 59.341 37.037 0.00 0.00 0.00 1.98
1592 5506 8.380867 TCAAATGCTATGAAGTGATCCATCTAT 58.619 33.333 0.00 0.00 0.00 1.98
1593 5507 8.666573 CAAATGCTATGAAGTGATCCATCTATC 58.333 37.037 0.00 0.00 0.00 2.08
1594 5508 7.736881 ATGCTATGAAGTGATCCATCTATCT 57.263 36.000 0.00 0.00 0.00 1.98
1595 5509 8.835550 ATGCTATGAAGTGATCCATCTATCTA 57.164 34.615 0.00 0.00 0.00 1.98
1596 5510 8.835550 TGCTATGAAGTGATCCATCTATCTAT 57.164 34.615 0.00 0.00 0.00 1.98
1597 5511 8.911965 TGCTATGAAGTGATCCATCTATCTATC 58.088 37.037 0.00 0.00 0.00 2.08
1940 5880 7.913674 AGAATGACAAGAAATTGGTAGACTC 57.086 36.000 0.00 0.00 0.00 3.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.190327 CAGGTCCATTGCACATTTCGTTA 59.810 43.478 0.00 0.00 0.00 3.18
1 2 2.030007 CAGGTCCATTGCACATTTCGTT 60.030 45.455 0.00 0.00 0.00 3.85
2 3 1.541147 CAGGTCCATTGCACATTTCGT 59.459 47.619 0.00 0.00 0.00 3.85
3 4 1.135315 CCAGGTCCATTGCACATTTCG 60.135 52.381 0.00 0.00 0.00 3.46
5 6 0.609662 GCCAGGTCCATTGCACATTT 59.390 50.000 0.00 0.00 0.00 2.32
6 7 1.597797 CGCCAGGTCCATTGCACATT 61.598 55.000 0.00 0.00 0.00 2.71
7 8 2.048023 CGCCAGGTCCATTGCACAT 61.048 57.895 0.00 0.00 0.00 3.21
8 9 2.672651 CGCCAGGTCCATTGCACA 60.673 61.111 0.00 0.00 0.00 4.57
9 10 3.443045 CCGCCAGGTCCATTGCAC 61.443 66.667 0.00 0.00 0.00 4.57
19 20 2.267961 GGTGAACCTACCGCCAGG 59.732 66.667 0.00 0.00 45.13 4.45
20 21 2.267961 GGGTGAACCTACCGCCAG 59.732 66.667 0.00 0.00 41.79 4.85
29 30 1.153229 GATGGCGGTAGGGTGAACC 60.153 63.158 0.00 0.00 40.67 3.62
30 31 1.520787 CGATGGCGGTAGGGTGAAC 60.521 63.158 0.00 0.00 0.00 3.18
31 32 2.897207 CGATGGCGGTAGGGTGAA 59.103 61.111 0.00 0.00 0.00 3.18
44 45 4.609018 CTACCGCCTGCCCCGATG 62.609 72.222 0.00 0.00 0.00 3.84
51 52 2.515996 TTACACAGCCTACCGCCTGC 62.516 60.000 0.00 0.00 38.78 4.85
52 53 0.739813 GTTACACAGCCTACCGCCTG 60.740 60.000 0.00 0.00 38.78 4.85
53 54 1.595357 GTTACACAGCCTACCGCCT 59.405 57.895 0.00 0.00 38.78 5.52
54 55 1.449070 GGTTACACAGCCTACCGCC 60.449 63.158 0.00 0.00 38.78 6.13
55 56 1.449070 GGGTTACACAGCCTACCGC 60.449 63.158 0.00 0.00 40.32 5.68
56 57 4.926207 GGGTTACACAGCCTACCG 57.074 61.111 0.00 0.00 40.32 4.02
61 62 1.449070 GCGGTAGGGTTACACAGCC 60.449 63.158 0.00 0.00 44.40 4.85
62 63 1.449070 GGCGGTAGGGTTACACAGC 60.449 63.158 0.00 0.00 0.00 4.40
63 64 0.108329 CTGGCGGTAGGGTTACACAG 60.108 60.000 0.00 0.00 0.00 3.66
64 65 1.546589 CCTGGCGGTAGGGTTACACA 61.547 60.000 0.00 0.00 34.06 3.72
65 66 1.219935 CCTGGCGGTAGGGTTACAC 59.780 63.158 0.00 0.00 34.06 2.90
66 67 1.229272 ACCTGGCGGTAGGGTTACA 60.229 57.895 0.00 0.00 43.29 2.41
67 68 1.519246 GACCTGGCGGTAGGGTTAC 59.481 63.158 0.00 0.00 45.73 2.50
68 69 1.686800 GGACCTGGCGGTAGGGTTA 60.687 63.158 0.00 0.00 45.73 2.85
69 70 3.007323 GGACCTGGCGGTAGGGTT 61.007 66.667 0.00 0.00 45.73 4.11
87 88 3.470888 CAGGACCCTACCGCCAGG 61.471 72.222 0.00 0.00 45.13 4.45
88 89 2.683933 ACAGGACCCTACCGCCAG 60.684 66.667 0.00 0.00 34.73 4.85
89 90 3.000819 CACAGGACCCTACCGCCA 61.001 66.667 0.00 0.00 34.73 5.69
90 91 2.120737 AAACACAGGACCCTACCGCC 62.121 60.000 0.00 0.00 34.73 6.13
91 92 0.250597 AAAACACAGGACCCTACCGC 60.251 55.000 0.00 0.00 34.73 5.68
92 93 2.148768 GAAAAACACAGGACCCTACCG 58.851 52.381 0.00 0.00 34.73 4.02
93 94 2.158579 TGGAAAAACACAGGACCCTACC 60.159 50.000 0.00 0.00 0.00 3.18
94 95 3.146847 CTGGAAAAACACAGGACCCTAC 58.853 50.000 0.00 0.00 0.00 3.18
95 96 2.781174 ACTGGAAAAACACAGGACCCTA 59.219 45.455 0.00 0.00 39.00 3.53
96 97 1.569072 ACTGGAAAAACACAGGACCCT 59.431 47.619 0.00 0.00 39.00 4.34
97 98 1.681264 CACTGGAAAAACACAGGACCC 59.319 52.381 0.00 0.00 39.00 4.46
98 99 2.375146 ACACTGGAAAAACACAGGACC 58.625 47.619 0.00 0.00 39.00 4.46
99 100 5.570234 TTTACACTGGAAAAACACAGGAC 57.430 39.130 0.00 0.00 39.00 3.85
100 101 4.097286 GCTTTACACTGGAAAAACACAGGA 59.903 41.667 0.00 0.00 39.00 3.86
101 102 4.097892 AGCTTTACACTGGAAAAACACAGG 59.902 41.667 0.00 0.00 39.00 4.00
102 103 5.248870 AGCTTTACACTGGAAAAACACAG 57.751 39.130 0.00 0.00 40.48 3.66
103 104 5.417580 AGAAGCTTTACACTGGAAAAACACA 59.582 36.000 0.00 0.00 0.00 3.72
104 105 5.743872 CAGAAGCTTTACACTGGAAAAACAC 59.256 40.000 0.00 0.00 0.00 3.32
105 106 5.417580 ACAGAAGCTTTACACTGGAAAAACA 59.582 36.000 15.13 0.00 35.08 2.83
106 107 5.891451 ACAGAAGCTTTACACTGGAAAAAC 58.109 37.500 15.13 0.00 35.08 2.43
107 108 7.477494 GTTACAGAAGCTTTACACTGGAAAAA 58.523 34.615 11.11 1.85 35.42 1.94
108 109 6.238266 CGTTACAGAAGCTTTACACTGGAAAA 60.238 38.462 11.11 3.79 35.42 2.29
109 110 5.235616 CGTTACAGAAGCTTTACACTGGAAA 59.764 40.000 11.11 5.76 35.42 3.13
110 111 4.748102 CGTTACAGAAGCTTTACACTGGAA 59.252 41.667 15.13 11.03 35.08 3.53
111 112 4.038282 TCGTTACAGAAGCTTTACACTGGA 59.962 41.667 15.13 5.88 35.08 3.86
112 113 4.304110 TCGTTACAGAAGCTTTACACTGG 58.696 43.478 15.13 0.85 35.08 4.00
113 114 5.900339 TTCGTTACAGAAGCTTTACACTG 57.100 39.130 0.00 5.84 36.58 3.66
114 115 6.913873 TTTTCGTTACAGAAGCTTTACACT 57.086 33.333 0.00 0.00 0.00 3.55
135 136 2.519622 GCCAGGCCCCTTGCTTTTT 61.520 57.895 0.00 0.00 40.92 1.94
136 137 2.924635 GCCAGGCCCCTTGCTTTT 60.925 61.111 0.00 0.00 40.92 2.27
137 138 4.238062 TGCCAGGCCCCTTGCTTT 62.238 61.111 9.64 0.00 40.92 3.51
138 139 4.691359 CTGCCAGGCCCCTTGCTT 62.691 66.667 9.64 0.00 40.92 3.91
140 141 4.047125 TACTGCCAGGCCCCTTGC 62.047 66.667 9.64 3.58 40.16 4.01
141 142 2.273449 CTACTGCCAGGCCCCTTG 59.727 66.667 9.64 0.00 0.00 3.61
142 143 3.017581 CCTACTGCCAGGCCCCTT 61.018 66.667 9.64 0.00 0.00 3.95
143 144 4.354943 ACCTACTGCCAGGCCCCT 62.355 66.667 9.64 0.00 39.53 4.79
144 145 4.115199 CACCTACTGCCAGGCCCC 62.115 72.222 9.64 0.00 39.53 5.80
145 146 4.803908 GCACCTACTGCCAGGCCC 62.804 72.222 9.64 0.00 40.42 5.80
173 174 4.569180 CTACCGCCAGCCCCCATG 62.569 72.222 0.00 0.00 0.00 3.66
179 180 4.468689 GACACCCTACCGCCAGCC 62.469 72.222 0.00 0.00 0.00 4.85
180 181 3.391382 AGACACCCTACCGCCAGC 61.391 66.667 0.00 0.00 0.00 4.85
181 182 1.982395 TCAGACACCCTACCGCCAG 60.982 63.158 0.00 0.00 0.00 4.85
182 183 2.118732 TCAGACACCCTACCGCCA 59.881 61.111 0.00 0.00 0.00 5.69
183 184 2.577593 GTCAGACACCCTACCGCC 59.422 66.667 0.00 0.00 0.00 6.13
184 185 2.577593 GGTCAGACACCCTACCGC 59.422 66.667 2.17 0.00 39.69 5.68
191 192 2.577593 GCGGTAGGGTCAGACACC 59.422 66.667 0.00 0.00 45.97 4.16
192 193 2.227089 CTGGCGGTAGGGTCAGACAC 62.227 65.000 2.17 0.00 42.20 3.67
193 194 1.982395 CTGGCGGTAGGGTCAGACA 60.982 63.158 2.17 0.00 42.20 3.41
194 195 2.722201 CCTGGCGGTAGGGTCAGAC 61.722 68.421 0.00 0.00 42.20 3.51
195 196 2.363795 CCTGGCGGTAGGGTCAGA 60.364 66.667 0.00 0.00 42.20 3.27
201 202 2.687566 AAGGTCCCTGGCGGTAGG 60.688 66.667 0.00 0.00 37.59 3.18
202 203 2.584608 CAAGGTCCCTGGCGGTAG 59.415 66.667 0.00 0.00 0.00 3.18
203 204 3.006728 CCAAGGTCCCTGGCGGTA 61.007 66.667 0.00 0.00 0.00 4.02
216 217 1.686110 AGAGGACCCTACCGCCAAG 60.686 63.158 0.00 0.00 34.73 3.61
217 218 1.987855 CAGAGGACCCTACCGCCAA 60.988 63.158 0.00 0.00 34.73 4.52
218 219 2.363795 CAGAGGACCCTACCGCCA 60.364 66.667 0.00 0.00 34.73 5.69
219 220 1.551019 AAACAGAGGACCCTACCGCC 61.551 60.000 0.00 0.00 34.73 6.13
220 221 0.323957 AAAACAGAGGACCCTACCGC 59.676 55.000 0.00 0.00 34.73 5.68
221 222 1.346722 ACAAAACAGAGGACCCTACCG 59.653 52.381 0.00 0.00 34.73 4.02
222 223 3.146847 CAACAAAACAGAGGACCCTACC 58.853 50.000 0.00 0.00 0.00 3.18
223 224 3.816994 ACAACAAAACAGAGGACCCTAC 58.183 45.455 0.00 0.00 0.00 3.18
224 225 4.513406 AACAACAAAACAGAGGACCCTA 57.487 40.909 0.00 0.00 0.00 3.53
225 226 3.382083 AACAACAAAACAGAGGACCCT 57.618 42.857 0.00 0.00 0.00 4.34
226 227 3.699538 AGAAACAACAAAACAGAGGACCC 59.300 43.478 0.00 0.00 0.00 4.46
227 228 4.983671 AGAAACAACAAAACAGAGGACC 57.016 40.909 0.00 0.00 0.00 4.46
228 229 6.679327 ACTAGAAACAACAAAACAGAGGAC 57.321 37.500 0.00 0.00 0.00 3.85
229 230 6.882140 TGAACTAGAAACAACAAAACAGAGGA 59.118 34.615 0.00 0.00 0.00 3.71
230 231 7.083875 TGAACTAGAAACAACAAAACAGAGG 57.916 36.000 0.00 0.00 0.00 3.69
231 232 9.573133 AAATGAACTAGAAACAACAAAACAGAG 57.427 29.630 0.00 0.00 0.00 3.35
232 233 9.352784 CAAATGAACTAGAAACAACAAAACAGA 57.647 29.630 0.00 0.00 0.00 3.41
233 234 8.594687 CCAAATGAACTAGAAACAACAAAACAG 58.405 33.333 0.00 0.00 0.00 3.16
234 235 8.091449 ACCAAATGAACTAGAAACAACAAAACA 58.909 29.630 0.00 0.00 0.00 2.83
235 236 8.474006 ACCAAATGAACTAGAAACAACAAAAC 57.526 30.769 0.00 0.00 0.00 2.43
236 237 8.930760 CAACCAAATGAACTAGAAACAACAAAA 58.069 29.630 0.00 0.00 0.00 2.44
237 238 7.064016 GCAACCAAATGAACTAGAAACAACAAA 59.936 33.333 0.00 0.00 0.00 2.83
238 239 6.533367 GCAACCAAATGAACTAGAAACAACAA 59.467 34.615 0.00 0.00 0.00 2.83
239 240 6.039616 GCAACCAAATGAACTAGAAACAACA 58.960 36.000 0.00 0.00 0.00 3.33
240 241 6.273071 AGCAACCAAATGAACTAGAAACAAC 58.727 36.000 0.00 0.00 0.00 3.32
241 242 6.463995 AGCAACCAAATGAACTAGAAACAA 57.536 33.333 0.00 0.00 0.00 2.83
242 243 6.127479 ACAAGCAACCAAATGAACTAGAAACA 60.127 34.615 0.00 0.00 0.00 2.83
243 244 6.273071 ACAAGCAACCAAATGAACTAGAAAC 58.727 36.000 0.00 0.00 0.00 2.78
244 245 6.463995 ACAAGCAACCAAATGAACTAGAAA 57.536 33.333 0.00 0.00 0.00 2.52
245 246 6.463995 AACAAGCAACCAAATGAACTAGAA 57.536 33.333 0.00 0.00 0.00 2.10
246 247 6.463995 AAACAAGCAACCAAATGAACTAGA 57.536 33.333 0.00 0.00 0.00 2.43
247 248 6.074888 CGAAAACAAGCAACCAAATGAACTAG 60.075 38.462 0.00 0.00 0.00 2.57
248 249 5.746245 CGAAAACAAGCAACCAAATGAACTA 59.254 36.000 0.00 0.00 0.00 2.24
249 250 4.566360 CGAAAACAAGCAACCAAATGAACT 59.434 37.500 0.00 0.00 0.00 3.01
250 251 4.564769 TCGAAAACAAGCAACCAAATGAAC 59.435 37.500 0.00 0.00 0.00 3.18
251 252 4.748892 TCGAAAACAAGCAACCAAATGAA 58.251 34.783 0.00 0.00 0.00 2.57
252 253 4.377839 TCGAAAACAAGCAACCAAATGA 57.622 36.364 0.00 0.00 0.00 2.57
253 254 5.655893 ATTCGAAAACAAGCAACCAAATG 57.344 34.783 0.00 0.00 0.00 2.32
254 255 5.814705 TGAATTCGAAAACAAGCAACCAAAT 59.185 32.000 0.00 0.00 0.00 2.32
255 256 5.171476 TGAATTCGAAAACAAGCAACCAAA 58.829 33.333 0.00 0.00 0.00 3.28
256 257 4.748892 TGAATTCGAAAACAAGCAACCAA 58.251 34.783 0.00 0.00 0.00 3.67
257 258 4.377839 TGAATTCGAAAACAAGCAACCA 57.622 36.364 0.00 0.00 0.00 3.67
258 259 5.905480 ATTGAATTCGAAAACAAGCAACC 57.095 34.783 19.44 0.00 0.00 3.77
259 260 8.155923 GTCATATTGAATTCGAAAACAAGCAAC 58.844 33.333 19.44 13.26 0.00 4.17
260 261 7.864882 TGTCATATTGAATTCGAAAACAAGCAA 59.135 29.630 19.44 11.16 0.00 3.91
261 262 7.366513 TGTCATATTGAATTCGAAAACAAGCA 58.633 30.769 19.44 13.04 0.00 3.91
262 263 7.461938 GCTGTCATATTGAATTCGAAAACAAGC 60.462 37.037 19.44 13.87 0.00 4.01
263 264 7.538334 TGCTGTCATATTGAATTCGAAAACAAG 59.462 33.333 19.44 10.59 0.00 3.16
264 265 7.366513 TGCTGTCATATTGAATTCGAAAACAA 58.633 30.769 17.87 17.87 0.00 2.83
265 266 6.907741 TGCTGTCATATTGAATTCGAAAACA 58.092 32.000 0.00 2.50 0.00 2.83
266 267 7.795431 TTGCTGTCATATTGAATTCGAAAAC 57.205 32.000 0.00 0.00 0.00 2.43
268 269 9.882996 GATATTGCTGTCATATTGAATTCGAAA 57.117 29.630 0.00 0.00 0.00 3.46
269 270 9.054922 TGATATTGCTGTCATATTGAATTCGAA 57.945 29.630 0.00 0.00 0.00 3.71
270 271 8.498358 GTGATATTGCTGTCATATTGAATTCGA 58.502 33.333 0.00 0.00 0.00 3.71
271 272 8.284693 TGTGATATTGCTGTCATATTGAATTCG 58.715 33.333 0.04 0.00 0.00 3.34
272 273 9.955208 TTGTGATATTGCTGTCATATTGAATTC 57.045 29.630 0.00 0.00 0.00 2.17
273 274 9.740239 GTTGTGATATTGCTGTCATATTGAATT 57.260 29.630 0.00 0.00 0.00 2.17
274 275 8.905850 TGTTGTGATATTGCTGTCATATTGAAT 58.094 29.630 0.00 0.00 0.00 2.57
275 276 8.278729 TGTTGTGATATTGCTGTCATATTGAA 57.721 30.769 0.00 0.00 0.00 2.69
276 277 7.862512 TGTTGTGATATTGCTGTCATATTGA 57.137 32.000 0.00 0.00 0.00 2.57
277 278 8.186163 ACTTGTTGTGATATTGCTGTCATATTG 58.814 33.333 0.00 0.00 0.00 1.90
278 279 8.284945 ACTTGTTGTGATATTGCTGTCATATT 57.715 30.769 0.00 0.00 0.00 1.28
279 280 7.870509 ACTTGTTGTGATATTGCTGTCATAT 57.129 32.000 0.00 0.00 0.00 1.78
280 281 7.686438 AACTTGTTGTGATATTGCTGTCATA 57.314 32.000 0.00 0.00 0.00 2.15
281 282 6.579666 AACTTGTTGTGATATTGCTGTCAT 57.420 33.333 0.00 0.00 0.00 3.06
282 283 6.389830 AAACTTGTTGTGATATTGCTGTCA 57.610 33.333 0.00 0.00 0.00 3.58
283 284 7.434897 TGAAAAACTTGTTGTGATATTGCTGTC 59.565 33.333 0.00 0.00 0.00 3.51
284 285 7.264221 TGAAAAACTTGTTGTGATATTGCTGT 58.736 30.769 0.00 0.00 0.00 4.40
285 286 7.697352 TGAAAAACTTGTTGTGATATTGCTG 57.303 32.000 0.00 0.00 0.00 4.41
286 287 8.715191 TTTGAAAAACTTGTTGTGATATTGCT 57.285 26.923 0.00 0.00 0.00 3.91
292 293 9.814899 TGTCATATTTGAAAAACTTGTTGTGAT 57.185 25.926 0.00 0.00 32.48 3.06
293 294 9.299963 CTGTCATATTTGAAAAACTTGTTGTGA 57.700 29.630 0.00 0.00 32.48 3.58
294 295 8.057742 GCTGTCATATTTGAAAAACTTGTTGTG 58.942 33.333 0.00 0.00 32.48 3.33
295 296 7.763528 TGCTGTCATATTTGAAAAACTTGTTGT 59.236 29.630 0.00 0.00 32.48 3.32
296 297 8.129161 TGCTGTCATATTTGAAAAACTTGTTG 57.871 30.769 0.00 0.00 32.48 3.33
297 298 8.715191 TTGCTGTCATATTTGAAAAACTTGTT 57.285 26.923 0.00 0.00 32.48 2.83
298 299 8.891671 ATTGCTGTCATATTTGAAAAACTTGT 57.108 26.923 0.00 0.00 32.48 3.16
304 305 9.791820 CTGTGATATTGCTGTCATATTTGAAAA 57.208 29.630 0.00 0.00 32.48 2.29
305 306 9.176460 TCTGTGATATTGCTGTCATATTTGAAA 57.824 29.630 0.00 0.00 32.48 2.69
306 307 8.735692 TCTGTGATATTGCTGTCATATTTGAA 57.264 30.769 0.00 0.00 32.48 2.69
307 308 8.913487 ATCTGTGATATTGCTGTCATATTTGA 57.087 30.769 0.00 0.00 0.00 2.69
308 309 9.961265 AAATCTGTGATATTGCTGTCATATTTG 57.039 29.630 0.00 0.00 0.00 2.32
313 314 9.793252 GTTTAAAATCTGTGATATTGCTGTCAT 57.207 29.630 0.00 0.00 0.00 3.06
314 315 8.791675 TGTTTAAAATCTGTGATATTGCTGTCA 58.208 29.630 0.00 0.00 0.00 3.58
315 316 9.624697 TTGTTTAAAATCTGTGATATTGCTGTC 57.375 29.630 0.00 0.00 0.00 3.51
316 317 9.630098 CTTGTTTAAAATCTGTGATATTGCTGT 57.370 29.630 0.00 0.00 0.00 4.40
317 318 9.844790 TCTTGTTTAAAATCTGTGATATTGCTG 57.155 29.630 0.00 0.00 0.00 4.41
319 320 9.846248 ACTCTTGTTTAAAATCTGTGATATTGC 57.154 29.630 0.00 0.00 0.00 3.56
456 457 2.356553 GTGGTCTACGGCGCACAA 60.357 61.111 10.83 0.00 0.00 3.33
476 477 3.153919 ACAGGTCAAATTTGTGGCGTAT 58.846 40.909 17.47 0.00 0.00 3.06
495 496 1.610967 TATGTGGAGCCCGTGGACA 60.611 57.895 0.00 0.00 0.00 4.02
529 530 3.554524 CGCAAAAGGACACTAACACATG 58.445 45.455 0.00 0.00 0.00 3.21
855 970 2.902608 TGGGACATCTGTAGAACACCT 58.097 47.619 0.00 0.00 0.00 4.00
1045 1168 1.078497 CGGCATCCACAGCTTGGTA 60.078 57.895 12.71 3.44 46.97 3.25
1169 1292 2.812591 CTCATGTTTTGCTGCAGAGAGT 59.187 45.455 20.43 0.00 0.00 3.24
1182 1305 0.963962 CTTGGTGCCTGCTCATGTTT 59.036 50.000 0.00 0.00 0.00 2.83
1940 5880 8.465999 ACTACAGAATCTATGAGACTCTTTGTG 58.534 37.037 3.68 2.19 26.66 3.33
2118 6104 2.762327 GGGAATGTGCCACAAAGATCAT 59.238 45.455 0.00 0.00 0.00 2.45


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

AutoCloner maintained by Alex Coulton.