Multiple sequence alignment - TraesCS1B01G215500

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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 TraesCS1B01G215500 chr1B 100.000 3416 0 0 1 3416 391066106 391069521 0.000000e+00 6309.0
1 TraesCS1B01G215500 chr1B 77.778 243 39 13 1839 2080 335735985 335735757 5.950000e-28 135.0
2 TraesCS1B01G215500 chr1A 91.414 2178 96 32 1311 3416 362191282 362193440 0.000000e+00 2902.0
3 TraesCS1B01G215500 chr1A 91.203 1114 62 19 188 1271 362190087 362191194 0.000000e+00 1482.0
4 TraesCS1B01G215500 chr1A 92.857 84 6 0 1858 1941 302197298 302197381 4.630000e-24 122.0
5 TraesCS1B01G215500 chr1D 91.070 1075 59 17 226 1271 289773956 289775022 0.000000e+00 1419.0
6 TraesCS1B01G215500 chr1D 92.680 970 45 13 1311 2264 289775138 289776097 0.000000e+00 1375.0
7 TraesCS1B01G215500 chr1D 86.155 1199 71 40 2302 3416 289776099 289777286 0.000000e+00 1206.0
8 TraesCS1B01G215500 chr1D 96.203 158 6 0 27 184 120951236 120951393 3.380000e-65 259.0
9 TraesCS1B01G215500 chr1D 77.823 248 38 13 1839 2084 238467436 238467668 1.650000e-28 137.0
10 TraesCS1B01G215500 chr1D 93.023 43 1 1 188 230 289772997 289773037 1.020000e-05 62.1
11 TraesCS1B01G215500 chr3D 94.241 191 7 1 1 187 351310326 351310516 4.310000e-74 289.0
12 TraesCS1B01G215500 chrUn 93.194 191 9 2 1 187 99854611 99854801 9.340000e-71 278.0
13 TraesCS1B01G215500 chr7A 93.194 191 9 1 1 187 558646548 558646738 9.340000e-71 278.0
14 TraesCS1B01G215500 chr7A 83.333 240 28 10 354 587 506970425 506970192 9.600000e-51 211.0
15 TraesCS1B01G215500 chr7A 82.629 213 29 7 354 562 506966643 506966435 7.530000e-42 182.0
16 TraesCS1B01G215500 chr4B 93.194 191 9 2 1 187 672321648 672321458 9.340000e-71 278.0
17 TraesCS1B01G215500 chr4B 76.585 205 39 8 388 587 255466898 255466698 1.680000e-18 104.0
18 TraesCS1B01G215500 chr5A 93.122 189 8 2 1 185 687274587 687274774 4.340000e-69 272.0
19 TraesCS1B01G215500 chr4A 94.444 180 4 2 12 187 734992613 734992436 4.340000e-69 272.0
20 TraesCS1B01G215500 chr6B 92.222 180 10 2 12 187 514656465 514656286 5.660000e-63 252.0
21 TraesCS1B01G215500 chr6B 84.553 246 30 6 348 587 650790901 650791144 1.580000e-58 237.0
22 TraesCS1B01G215500 chr6B 84.066 182 24 5 408 586 643338 643159 1.630000e-38 171.0
23 TraesCS1B01G215500 chr3B 90.306 196 14 3 1 192 250470804 250470998 5.660000e-63 252.0
24 TraesCS1B01G215500 chr5B 80.829 193 30 7 400 587 691155105 691154915 9.880000e-31 145.0
25 TraesCS1B01G215500 chr6A 74.000 200 43 9 388 582 356297599 356297404 4.730000e-09 73.1
26 TraesCS1B01G215500 chr5D 87.273 55 5 2 535 587 100736421 100736475 1.020000e-05 62.1


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 TraesCS1B01G215500 chr1B 391066106 391069521 3415 False 6309.000 6309 100.0000 1 3416 1 chr1B.!!$F1 3415
1 TraesCS1B01G215500 chr1A 362190087 362193440 3353 False 2192.000 2902 91.3085 188 3416 2 chr1A.!!$F2 3228
2 TraesCS1B01G215500 chr1D 289772997 289777286 4289 False 1015.525 1419 90.7320 188 3416 4 chr1D.!!$F3 3228

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
178 179 0.307760 AATCATCGAAAATCGCCGCC 59.692 50.0 0.00 0.0 40.21 6.13 F
1373 2407 0.597072 GGTTCTGTCGAGAGTTCGGT 59.403 55.0 9.68 0.0 46.67 4.69 F
1441 2477 1.757574 CATCCTGCACACAAACAACG 58.242 50.0 0.00 0.0 0.00 4.10 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1841 2881 0.754472 AATGGCAAGCAAAGCAGTGT 59.246 45.0 0.00 0.0 0.00 3.55 R
2204 3253 0.179100 CTCAATCGGCACCGTCTCAT 60.179 55.0 9.23 0.0 40.74 2.90 R
2701 3783 0.880278 GCAACCACTCGCTGAACTGA 60.880 55.0 0.00 0.0 0.00 3.41 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
23 24 6.037786 ACATCGTCTCAGAGGAAATTTACA 57.962 37.500 2.58 0.00 30.29 2.41
24 25 6.464222 ACATCGTCTCAGAGGAAATTTACAA 58.536 36.000 2.58 0.00 30.29 2.41
25 26 7.106239 ACATCGTCTCAGAGGAAATTTACAAT 58.894 34.615 2.58 0.00 30.29 2.71
26 27 7.607991 ACATCGTCTCAGAGGAAATTTACAATT 59.392 33.333 2.58 0.00 30.29 2.32
27 28 7.979444 TCGTCTCAGAGGAAATTTACAATTT 57.021 32.000 2.58 0.00 0.00 1.82
28 29 8.029642 TCGTCTCAGAGGAAATTTACAATTTC 57.970 34.615 11.85 11.85 37.31 2.17
29 30 7.659799 TCGTCTCAGAGGAAATTTACAATTTCA 59.340 33.333 18.92 2.88 39.18 2.69
30 31 8.289618 CGTCTCAGAGGAAATTTACAATTTCAA 58.710 33.333 18.92 3.64 39.18 2.69
31 32 9.399403 GTCTCAGAGGAAATTTACAATTTCAAC 57.601 33.333 18.92 13.24 39.18 3.18
32 33 8.289618 TCTCAGAGGAAATTTACAATTTCAACG 58.710 33.333 18.92 8.15 39.18 4.10
33 34 7.367285 TCAGAGGAAATTTACAATTTCAACGG 58.633 34.615 18.92 13.54 39.18 4.44
34 35 7.013846 TCAGAGGAAATTTACAATTTCAACGGT 59.986 33.333 18.92 3.37 39.18 4.83
35 36 7.651704 CAGAGGAAATTTACAATTTCAACGGTT 59.348 33.333 18.92 0.00 39.18 4.44
36 37 7.865889 AGAGGAAATTTACAATTTCAACGGTTC 59.134 33.333 18.92 9.31 39.18 3.62
37 38 6.926826 AGGAAATTTACAATTTCAACGGTTCC 59.073 34.615 18.92 4.85 39.18 3.62
38 39 6.926826 GGAAATTTACAATTTCAACGGTTCCT 59.073 34.615 18.92 0.00 39.18 3.36
39 40 7.115805 GGAAATTTACAATTTCAACGGTTCCTC 59.884 37.037 18.92 0.39 39.18 3.71
40 41 6.642707 ATTTACAATTTCAACGGTTCCTCA 57.357 33.333 0.00 0.00 0.00 3.86
41 42 6.452494 TTTACAATTTCAACGGTTCCTCAA 57.548 33.333 0.00 0.00 0.00 3.02
42 43 4.993029 ACAATTTCAACGGTTCCTCAAA 57.007 36.364 0.00 0.00 0.00 2.69
43 44 4.678622 ACAATTTCAACGGTTCCTCAAAC 58.321 39.130 0.00 0.00 37.12 2.93
56 57 5.869350 GTTCCTCAAACCAATCATAAGTCG 58.131 41.667 0.00 0.00 31.20 4.18
57 58 3.938963 TCCTCAAACCAATCATAAGTCGC 59.061 43.478 0.00 0.00 0.00 5.19
58 59 3.689161 CCTCAAACCAATCATAAGTCGCA 59.311 43.478 0.00 0.00 0.00 5.10
59 60 4.201851 CCTCAAACCAATCATAAGTCGCAG 60.202 45.833 0.00 0.00 0.00 5.18
60 61 4.574892 TCAAACCAATCATAAGTCGCAGA 58.425 39.130 0.00 0.00 0.00 4.26
61 62 5.000591 TCAAACCAATCATAAGTCGCAGAA 58.999 37.500 0.00 0.00 39.69 3.02
62 63 5.471797 TCAAACCAATCATAAGTCGCAGAAA 59.528 36.000 0.00 0.00 39.69 2.52
63 64 5.957842 AACCAATCATAAGTCGCAGAAAA 57.042 34.783 0.00 0.00 39.69 2.29
64 65 6.515272 AACCAATCATAAGTCGCAGAAAAT 57.485 33.333 0.00 0.00 39.69 1.82
65 66 6.124088 ACCAATCATAAGTCGCAGAAAATC 57.876 37.500 0.00 0.00 39.69 2.17
66 67 5.882557 ACCAATCATAAGTCGCAGAAAATCT 59.117 36.000 0.00 0.00 39.69 2.40
67 68 6.037610 ACCAATCATAAGTCGCAGAAAATCTC 59.962 38.462 0.00 0.00 39.69 2.75
68 69 5.896922 ATCATAAGTCGCAGAAAATCTCG 57.103 39.130 0.00 0.00 39.69 4.04
69 70 3.551890 TCATAAGTCGCAGAAAATCTCGC 59.448 43.478 0.00 0.00 39.69 5.03
70 71 2.086054 AAGTCGCAGAAAATCTCGCT 57.914 45.000 0.00 0.00 39.69 4.93
71 72 2.941453 AGTCGCAGAAAATCTCGCTA 57.059 45.000 0.00 0.00 39.69 4.26
72 73 3.232213 AGTCGCAGAAAATCTCGCTAA 57.768 42.857 0.00 0.00 39.69 3.09
73 74 2.924290 AGTCGCAGAAAATCTCGCTAAC 59.076 45.455 0.00 0.00 39.69 2.34
74 75 2.029365 GTCGCAGAAAATCTCGCTAACC 59.971 50.000 0.00 0.00 39.69 2.85
75 76 2.094182 TCGCAGAAAATCTCGCTAACCT 60.094 45.455 0.00 0.00 0.00 3.50
76 77 3.129813 TCGCAGAAAATCTCGCTAACCTA 59.870 43.478 0.00 0.00 0.00 3.08
77 78 3.487574 CGCAGAAAATCTCGCTAACCTAG 59.512 47.826 0.00 0.00 0.00 3.02
90 91 2.943449 AACCTAGCTAGTTCGTGAGC 57.057 50.000 19.31 0.00 39.08 4.26
96 97 2.943449 GCTAGTTCGTGAGCTACCTT 57.057 50.000 0.00 0.00 35.73 3.50
98 99 4.571372 GCTAGTTCGTGAGCTACCTTAT 57.429 45.455 0.00 0.00 35.73 1.73
99 100 4.934515 GCTAGTTCGTGAGCTACCTTATT 58.065 43.478 0.00 0.00 35.73 1.40
100 101 5.349809 GCTAGTTCGTGAGCTACCTTATTT 58.650 41.667 0.00 0.00 35.73 1.40
101 102 5.232414 GCTAGTTCGTGAGCTACCTTATTTG 59.768 44.000 0.00 0.00 35.73 2.32
102 103 3.933332 AGTTCGTGAGCTACCTTATTTGC 59.067 43.478 0.00 0.00 0.00 3.68
103 104 3.887621 TCGTGAGCTACCTTATTTGCT 57.112 42.857 0.00 0.00 38.59 3.91
104 105 4.202245 TCGTGAGCTACCTTATTTGCTT 57.798 40.909 0.00 0.00 35.76 3.91
105 106 4.181578 TCGTGAGCTACCTTATTTGCTTC 58.818 43.478 0.00 0.00 35.76 3.86
106 107 4.081642 TCGTGAGCTACCTTATTTGCTTCT 60.082 41.667 0.00 0.00 35.76 2.85
107 108 4.268884 CGTGAGCTACCTTATTTGCTTCTC 59.731 45.833 0.00 0.00 35.76 2.87
108 109 5.423886 GTGAGCTACCTTATTTGCTTCTCT 58.576 41.667 0.00 0.00 35.76 3.10
109 110 6.574350 GTGAGCTACCTTATTTGCTTCTCTA 58.426 40.000 0.00 0.00 35.76 2.43
110 111 7.213678 GTGAGCTACCTTATTTGCTTCTCTAT 58.786 38.462 0.00 0.00 35.76 1.98
111 112 7.713073 GTGAGCTACCTTATTTGCTTCTCTATT 59.287 37.037 0.00 0.00 35.76 1.73
112 113 8.924303 TGAGCTACCTTATTTGCTTCTCTATTA 58.076 33.333 0.00 0.00 35.76 0.98
113 114 9.198837 GAGCTACCTTATTTGCTTCTCTATTAC 57.801 37.037 0.00 0.00 35.76 1.89
114 115 8.705594 AGCTACCTTATTTGCTTCTCTATTACA 58.294 33.333 0.00 0.00 30.96 2.41
115 116 9.326413 GCTACCTTATTTGCTTCTCTATTACAA 57.674 33.333 0.00 0.00 0.00 2.41
118 119 9.686683 ACCTTATTTGCTTCTCTATTACAATGT 57.313 29.630 0.00 0.00 0.00 2.71
124 125 9.677567 TTTGCTTCTCTATTACAATGTTCAAAC 57.322 29.630 0.00 0.00 0.00 2.93
125 126 7.816640 TGCTTCTCTATTACAATGTTCAAACC 58.183 34.615 0.00 0.00 0.00 3.27
126 127 7.665559 TGCTTCTCTATTACAATGTTCAAACCT 59.334 33.333 0.00 0.00 0.00 3.50
127 128 9.162764 GCTTCTCTATTACAATGTTCAAACCTA 57.837 33.333 0.00 0.00 0.00 3.08
137 138 8.934023 ACAATGTTCAAACCTAGAAATAGGAA 57.066 30.769 8.29 0.00 39.60 3.36
138 139 9.362151 ACAATGTTCAAACCTAGAAATAGGAAA 57.638 29.630 8.29 0.00 39.60 3.13
142 143 9.581289 TGTTCAAACCTAGAAATAGGAAAATCA 57.419 29.630 8.29 0.00 39.60 2.57
143 144 9.841880 GTTCAAACCTAGAAATAGGAAAATCAC 57.158 33.333 8.29 0.00 39.60 3.06
144 145 9.581289 TTCAAACCTAGAAATAGGAAAATCACA 57.419 29.630 8.29 0.00 39.60 3.58
145 146 9.581289 TCAAACCTAGAAATAGGAAAATCACAA 57.419 29.630 8.29 0.00 39.60 3.33
146 147 9.846248 CAAACCTAGAAATAGGAAAATCACAAG 57.154 33.333 8.29 0.00 39.60 3.16
147 148 7.631717 ACCTAGAAATAGGAAAATCACAAGC 57.368 36.000 8.29 0.00 39.60 4.01
148 149 6.316390 ACCTAGAAATAGGAAAATCACAAGCG 59.684 38.462 8.29 0.00 39.60 4.68
149 150 6.538742 CCTAGAAATAGGAAAATCACAAGCGA 59.461 38.462 0.00 0.00 39.60 4.93
150 151 6.428385 AGAAATAGGAAAATCACAAGCGAG 57.572 37.500 0.00 0.00 0.00 5.03
151 152 6.173339 AGAAATAGGAAAATCACAAGCGAGA 58.827 36.000 0.00 0.00 0.00 4.04
152 153 6.825721 AGAAATAGGAAAATCACAAGCGAGAT 59.174 34.615 0.00 0.00 0.00 2.75
153 154 5.998454 ATAGGAAAATCACAAGCGAGATG 57.002 39.130 0.00 0.00 0.00 2.90
154 155 3.942829 AGGAAAATCACAAGCGAGATGA 58.057 40.909 0.00 0.00 0.00 2.92
155 156 4.521146 AGGAAAATCACAAGCGAGATGAT 58.479 39.130 0.00 0.00 34.52 2.45
156 157 5.674525 AGGAAAATCACAAGCGAGATGATA 58.325 37.500 0.00 0.00 32.74 2.15
157 158 6.115446 AGGAAAATCACAAGCGAGATGATAA 58.885 36.000 0.00 0.00 32.74 1.75
158 159 6.037610 AGGAAAATCACAAGCGAGATGATAAC 59.962 38.462 0.00 0.00 32.74 1.89
159 160 6.183360 GGAAAATCACAAGCGAGATGATAACA 60.183 38.462 0.00 0.00 32.74 2.41
160 161 6.741992 AAATCACAAGCGAGATGATAACAA 57.258 33.333 0.00 0.00 32.74 2.83
161 162 6.932356 AATCACAAGCGAGATGATAACAAT 57.068 33.333 0.00 0.00 32.74 2.71
162 163 5.973651 TCACAAGCGAGATGATAACAATC 57.026 39.130 0.00 0.00 0.00 2.67
163 164 5.418676 TCACAAGCGAGATGATAACAATCA 58.581 37.500 0.00 0.00 34.73 2.57
164 165 6.051074 TCACAAGCGAGATGATAACAATCAT 58.949 36.000 0.59 0.59 43.40 2.45
174 175 7.471010 GATGATAACAATCATCGAAAATCGC 57.529 36.000 11.44 0.00 44.89 4.58
175 176 5.747565 TGATAACAATCATCGAAAATCGCC 58.252 37.500 0.00 0.00 40.21 5.54
176 177 2.737467 ACAATCATCGAAAATCGCCG 57.263 45.000 0.00 0.00 40.21 6.46
177 178 1.268032 ACAATCATCGAAAATCGCCGC 60.268 47.619 0.00 0.00 40.21 6.53
178 179 0.307760 AATCATCGAAAATCGCCGCC 59.692 50.000 0.00 0.00 40.21 6.13
179 180 1.831389 ATCATCGAAAATCGCCGCCG 61.831 55.000 0.00 0.00 40.21 6.46
180 181 3.937062 ATCGAAAATCGCCGCCGC 61.937 61.111 0.00 0.00 40.21 6.53
182 183 4.868900 CGAAAATCGCCGCCGCTG 62.869 66.667 0.00 0.00 31.14 5.18
620 1547 3.064958 TGGCTATCGATACGCTATAGTGC 59.935 47.826 13.27 11.11 0.00 4.40
627 1554 4.091075 TCGATACGCTATAGTGCTTACTCG 59.909 45.833 13.27 13.16 0.00 4.18
642 1569 1.967319 ACTCGTCAAACAACAGGCAT 58.033 45.000 0.00 0.00 0.00 4.40
765 1695 4.521146 TCATCTCCTTTTCCATTCTCTGC 58.479 43.478 0.00 0.00 0.00 4.26
889 1821 5.178252 CCATCACGCATTAGGTATTTCTCAG 59.822 44.000 0.00 0.00 0.00 3.35
890 1822 5.592104 TCACGCATTAGGTATTTCTCAGA 57.408 39.130 0.00 0.00 0.00 3.27
899 1831 4.583871 AGGTATTTCTCAGAACAAGCAGG 58.416 43.478 0.00 0.00 0.00 4.85
906 1838 1.272490 TCAGAACAAGCAGGTACTCCG 59.728 52.381 0.00 0.00 34.60 4.63
913 1845 3.770933 ACAAGCAGGTACTCCGGTATTTA 59.229 43.478 0.00 0.00 34.60 1.40
919 1851 5.476614 CAGGTACTCCGGTATTTATAAGCC 58.523 45.833 0.00 0.00 34.60 4.35
1042 1974 2.191400 CCAGGGAAGAGGATGACTTGA 58.809 52.381 0.00 0.00 0.00 3.02
1130 2063 1.269448 GTTTCTTGCTTTCGCCCATCA 59.731 47.619 0.00 0.00 34.43 3.07
1160 2093 9.317936 TCATTCAACTGTTCATATTGCTACTAG 57.682 33.333 0.00 0.00 0.00 2.57
1215 2170 2.324860 CTGTCGACTAAATGTGACGCA 58.675 47.619 17.92 0.00 32.93 5.24
1249 2204 4.880120 TGGCTTGCAAATGATCTCTCTAAG 59.120 41.667 0.00 0.00 0.00 2.18
1254 2209 7.606858 TTGCAAATGATCTCTCTAAGAAGTG 57.393 36.000 0.00 0.00 37.61 3.16
1268 2224 8.559536 TCTCTAAGAAGTGCAGTTGTTAATTTG 58.440 33.333 20.60 11.69 0.00 2.32
1269 2225 8.445275 TCTAAGAAGTGCAGTTGTTAATTTGA 57.555 30.769 20.60 13.38 0.00 2.69
1273 2229 7.547227 AGAAGTGCAGTTGTTAATTTGAAAGT 58.453 30.769 12.53 0.00 0.00 2.66
1275 2231 8.628882 AAGTGCAGTTGTTAATTTGAAAGTAC 57.371 30.769 5.84 0.00 0.00 2.73
1276 2232 7.767261 AGTGCAGTTGTTAATTTGAAAGTACA 58.233 30.769 0.00 0.00 0.00 2.90
1278 2234 8.531530 GTGCAGTTGTTAATTTGAAAGTACAAG 58.468 33.333 0.00 0.00 0.00 3.16
1280 2236 8.743099 GCAGTTGTTAATTTGAAAGTACAAGTC 58.257 33.333 0.00 0.00 0.00 3.01
1281 2237 9.781834 CAGTTGTTAATTTGAAAGTACAAGTCA 57.218 29.630 0.00 0.00 0.00 3.41
1300 2256 8.291032 ACAAGTCATGTACTACTATATTCGAGC 58.709 37.037 0.00 0.00 41.63 5.03
1301 2257 7.981102 AGTCATGTACTACTATATTCGAGCA 57.019 36.000 0.00 0.00 36.36 4.26
1302 2258 8.568676 AGTCATGTACTACTATATTCGAGCAT 57.431 34.615 0.00 0.00 36.36 3.79
1303 2259 8.454894 AGTCATGTACTACTATATTCGAGCATG 58.545 37.037 0.00 0.00 36.36 4.06
1304 2260 8.237949 GTCATGTACTACTATATTCGAGCATGT 58.762 37.037 0.00 0.00 33.78 3.21
1355 2389 9.651718 GCTTTCTTATCGATTTTGTACTTATGG 57.348 33.333 1.71 0.00 0.00 2.74
1362 2396 7.591006 TCGATTTTGTACTTATGGTTCTGTC 57.409 36.000 0.00 0.00 0.00 3.51
1373 2407 0.597072 GGTTCTGTCGAGAGTTCGGT 59.403 55.000 9.68 0.00 46.67 4.69
1423 2459 4.072131 GTTTTCCATGAGAACCAGTAGCA 58.928 43.478 0.00 0.00 32.95 3.49
1441 2477 1.757574 CATCCTGCACACAAACAACG 58.242 50.000 0.00 0.00 0.00 4.10
1458 2498 4.245660 ACAACGACCATGTTCATACTCTG 58.754 43.478 0.00 0.00 0.00 3.35
1498 2538 4.637534 GTGGCTAAAGCATGATTTCTGAGA 59.362 41.667 13.05 0.00 44.36 3.27
1500 2540 5.711506 TGGCTAAAGCATGATTTCTGAGAAA 59.288 36.000 13.05 10.39 44.36 2.52
1696 2736 3.367743 CTGCCATTGCCTGCACGT 61.368 61.111 0.00 0.00 36.33 4.49
1720 2760 3.132801 GCTTCTGCTGCCTCTGCC 61.133 66.667 0.00 0.00 36.33 4.85
1721 2761 2.438075 CTTCTGCTGCCTCTGCCC 60.438 66.667 0.00 0.00 36.33 5.36
1722 2762 4.399395 TTCTGCTGCCTCTGCCCG 62.399 66.667 0.00 0.00 36.33 6.13
1730 2770 4.659172 CCTCTGCCCGTGCCCAAA 62.659 66.667 0.00 0.00 36.33 3.28
1739 2779 2.330041 GTGCCCAAACAACGGTCG 59.670 61.111 0.00 0.00 0.00 4.79
1841 2881 6.899393 ATTGTGCTTCTTTAACCAATCTGA 57.101 33.333 0.00 0.00 0.00 3.27
2198 3247 3.854459 CGCGGCGAAAGAAGAGGC 61.854 66.667 19.16 0.00 0.00 4.70
2202 3251 2.047179 GCGAAAGAAGAGGCCGGT 60.047 61.111 1.90 0.00 0.00 5.28
2203 3252 2.391389 GCGAAAGAAGAGGCCGGTG 61.391 63.158 1.90 0.00 0.00 4.94
2204 3253 1.292223 CGAAAGAAGAGGCCGGTGA 59.708 57.895 1.90 0.00 0.00 4.02
2234 3283 1.517832 CGATTGAGAGGAAGCCGGT 59.482 57.895 1.90 0.00 0.00 5.28
2327 3376 2.989639 CTCCCCCATGACTGCGAA 59.010 61.111 0.00 0.00 0.00 4.70
2335 3384 3.628646 ATGACTGCGAACCCCCTGC 62.629 63.158 0.00 0.00 0.00 4.85
2437 3486 0.606604 ATCAAGTGGCGACGTAGGTT 59.393 50.000 0.00 0.00 0.00 3.50
2438 3487 0.390124 TCAAGTGGCGACGTAGGTTT 59.610 50.000 0.00 0.00 0.00 3.27
2558 3612 3.075283 ACCATGTTGTTAGGGTTGGATGA 59.925 43.478 0.00 0.00 28.74 2.92
2573 3645 4.198028 TGGATGAGATATGAGCGGAATG 57.802 45.455 0.00 0.00 0.00 2.67
2574 3646 3.055602 TGGATGAGATATGAGCGGAATGG 60.056 47.826 0.00 0.00 0.00 3.16
2633 3705 3.709987 ACATTGCACAAGTTTCTTCAGC 58.290 40.909 0.00 0.00 0.00 4.26
2690 3772 1.915078 CTGTGCCCCTAGGAACCAGG 61.915 65.000 11.48 3.12 41.84 4.45
2701 3783 3.352611 AGGAACCAGGCCATATACTCT 57.647 47.619 5.01 0.00 0.00 3.24
2702 3784 3.243724 AGGAACCAGGCCATATACTCTC 58.756 50.000 5.01 0.00 0.00 3.20
2927 4033 3.265791 ACAGGATCGTGATGCTTTTCTC 58.734 45.455 21.63 0.00 37.39 2.87
2959 4065 2.012902 GAATGCATCAGCCCTGTGCC 62.013 60.000 0.00 3.06 42.71 5.01
3002 4113 1.004394 GACCCCGGTTTCTTCTTGGAT 59.996 52.381 0.00 0.00 0.00 3.41
3115 4255 6.861572 TCATCAGTCTTTTAGTAACACGACAG 59.138 38.462 0.00 1.94 0.00 3.51
3158 4298 4.703897 TCAGTGGTGAACTAGGAAAACAG 58.296 43.478 0.00 0.00 36.83 3.16
3221 4361 6.985059 GGGTATACCTTTGCTACTTTCTAGTG 59.015 42.308 21.25 0.00 34.30 2.74
3222 4362 6.479331 GGTATACCTTTGCTACTTTCTAGTGC 59.521 42.308 15.09 0.00 35.78 4.40
3234 4374 6.635030 ACTTTCTAGTGCCCTTTTAACAAG 57.365 37.500 0.00 0.00 31.99 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.037786 TGTAAATTTCCTCTGAGACGATGT 57.962 37.500 6.17 0.00 0.00 3.06
1 2 6.968131 TTGTAAATTTCCTCTGAGACGATG 57.032 37.500 6.17 0.00 0.00 3.84
2 3 8.567285 AAATTGTAAATTTCCTCTGAGACGAT 57.433 30.769 6.17 0.00 0.00 3.73
3 4 7.659799 TGAAATTGTAAATTTCCTCTGAGACGA 59.340 33.333 18.13 0.00 37.25 4.20
4 5 7.806690 TGAAATTGTAAATTTCCTCTGAGACG 58.193 34.615 18.13 0.00 37.25 4.18
5 6 9.399403 GTTGAAATTGTAAATTTCCTCTGAGAC 57.601 33.333 18.13 0.00 37.25 3.36
6 7 8.289618 CGTTGAAATTGTAAATTTCCTCTGAGA 58.710 33.333 18.13 0.98 37.25 3.27
7 8 7.538678 CCGTTGAAATTGTAAATTTCCTCTGAG 59.461 37.037 18.13 0.00 37.25 3.35
8 9 7.013846 ACCGTTGAAATTGTAAATTTCCTCTGA 59.986 33.333 18.13 2.11 37.25 3.27
9 10 7.145323 ACCGTTGAAATTGTAAATTTCCTCTG 58.855 34.615 18.13 11.71 37.25 3.35
10 11 7.284919 ACCGTTGAAATTGTAAATTTCCTCT 57.715 32.000 18.13 0.31 37.25 3.69
11 12 7.115805 GGAACCGTTGAAATTGTAAATTTCCTC 59.884 37.037 18.13 11.96 37.25 3.71
12 13 6.926826 GGAACCGTTGAAATTGTAAATTTCCT 59.073 34.615 18.13 2.03 37.25 3.36
13 14 6.926826 AGGAACCGTTGAAATTGTAAATTTCC 59.073 34.615 18.13 7.10 37.25 3.13
14 15 7.650104 TGAGGAACCGTTGAAATTGTAAATTTC 59.350 33.333 15.36 15.36 38.23 2.17
15 16 7.493367 TGAGGAACCGTTGAAATTGTAAATTT 58.507 30.769 0.00 0.00 0.00 1.82
16 17 7.045126 TGAGGAACCGTTGAAATTGTAAATT 57.955 32.000 0.00 0.00 0.00 1.82
17 18 6.642707 TGAGGAACCGTTGAAATTGTAAAT 57.357 33.333 0.00 0.00 0.00 1.40
18 19 6.452494 TTGAGGAACCGTTGAAATTGTAAA 57.548 33.333 0.00 0.00 0.00 2.01
19 20 6.267070 GTTTGAGGAACCGTTGAAATTGTAA 58.733 36.000 0.00 0.00 31.85 2.41
20 21 5.823353 GTTTGAGGAACCGTTGAAATTGTA 58.177 37.500 0.00 0.00 31.85 2.41
21 22 4.678622 GTTTGAGGAACCGTTGAAATTGT 58.321 39.130 0.00 0.00 31.85 2.71
33 34 5.673818 GCGACTTATGATTGGTTTGAGGAAC 60.674 44.000 0.00 0.00 37.53 3.62
34 35 4.394920 GCGACTTATGATTGGTTTGAGGAA 59.605 41.667 0.00 0.00 0.00 3.36
35 36 3.938963 GCGACTTATGATTGGTTTGAGGA 59.061 43.478 0.00 0.00 0.00 3.71
36 37 3.689161 TGCGACTTATGATTGGTTTGAGG 59.311 43.478 0.00 0.00 0.00 3.86
37 38 4.631377 TCTGCGACTTATGATTGGTTTGAG 59.369 41.667 0.00 0.00 0.00 3.02
38 39 4.574892 TCTGCGACTTATGATTGGTTTGA 58.425 39.130 0.00 0.00 0.00 2.69
39 40 4.944962 TCTGCGACTTATGATTGGTTTG 57.055 40.909 0.00 0.00 0.00 2.93
40 41 5.957842 TTTCTGCGACTTATGATTGGTTT 57.042 34.783 0.00 0.00 0.00 3.27
41 42 5.957842 TTTTCTGCGACTTATGATTGGTT 57.042 34.783 0.00 0.00 0.00 3.67
42 43 5.882557 AGATTTTCTGCGACTTATGATTGGT 59.117 36.000 0.00 0.00 0.00 3.67
43 44 6.369059 AGATTTTCTGCGACTTATGATTGG 57.631 37.500 0.00 0.00 0.00 3.16
44 45 6.125419 CGAGATTTTCTGCGACTTATGATTG 58.875 40.000 0.00 0.00 0.00 2.67
45 46 5.277058 GCGAGATTTTCTGCGACTTATGATT 60.277 40.000 0.00 0.00 0.00 2.57
46 47 4.210120 GCGAGATTTTCTGCGACTTATGAT 59.790 41.667 0.00 0.00 0.00 2.45
47 48 3.551890 GCGAGATTTTCTGCGACTTATGA 59.448 43.478 0.00 0.00 0.00 2.15
48 49 3.553511 AGCGAGATTTTCTGCGACTTATG 59.446 43.478 0.00 0.00 32.86 1.90
49 50 3.786635 AGCGAGATTTTCTGCGACTTAT 58.213 40.909 0.00 0.00 32.86 1.73
50 51 3.232213 AGCGAGATTTTCTGCGACTTA 57.768 42.857 0.00 0.00 32.86 2.24
51 52 2.086054 AGCGAGATTTTCTGCGACTT 57.914 45.000 0.00 0.00 32.86 3.01
52 53 2.924290 GTTAGCGAGATTTTCTGCGACT 59.076 45.455 0.00 0.00 32.86 4.18
53 54 2.029365 GGTTAGCGAGATTTTCTGCGAC 59.971 50.000 0.00 0.00 32.86 5.19
54 55 2.094182 AGGTTAGCGAGATTTTCTGCGA 60.094 45.455 0.00 0.00 32.86 5.10
55 56 2.271800 AGGTTAGCGAGATTTTCTGCG 58.728 47.619 0.00 0.00 32.86 5.18
56 57 3.246463 GCTAGGTTAGCGAGATTTTCTGC 59.754 47.826 0.00 0.00 42.62 4.26
69 70 3.954999 GCTCACGAACTAGCTAGGTTAG 58.045 50.000 24.35 17.64 35.80 2.34
71 72 2.943449 GCTCACGAACTAGCTAGGTT 57.057 50.000 24.35 15.38 35.80 3.50
77 78 2.943449 AAGGTAGCTCACGAACTAGC 57.057 50.000 0.00 0.00 39.08 3.42
78 79 5.232414 GCAAATAAGGTAGCTCACGAACTAG 59.768 44.000 0.00 0.00 0.00 2.57
79 80 5.105473 AGCAAATAAGGTAGCTCACGAACTA 60.105 40.000 0.00 0.00 30.05 2.24
80 81 3.933332 GCAAATAAGGTAGCTCACGAACT 59.067 43.478 0.00 0.00 0.00 3.01
81 82 3.933332 AGCAAATAAGGTAGCTCACGAAC 59.067 43.478 0.00 0.00 30.05 3.95
82 83 4.202245 AGCAAATAAGGTAGCTCACGAA 57.798 40.909 0.00 0.00 30.05 3.85
83 84 3.887621 AGCAAATAAGGTAGCTCACGA 57.112 42.857 0.00 0.00 30.05 4.35
84 85 4.184629 AGAAGCAAATAAGGTAGCTCACG 58.815 43.478 0.00 0.00 36.07 4.35
85 86 5.423886 AGAGAAGCAAATAAGGTAGCTCAC 58.576 41.667 0.00 0.00 36.07 3.51
86 87 5.683876 AGAGAAGCAAATAAGGTAGCTCA 57.316 39.130 0.00 0.00 36.07 4.26
87 88 9.198837 GTAATAGAGAAGCAAATAAGGTAGCTC 57.801 37.037 0.00 0.00 36.07 4.09
88 89 8.705594 TGTAATAGAGAAGCAAATAAGGTAGCT 58.294 33.333 0.00 0.00 39.37 3.32
89 90 8.888579 TGTAATAGAGAAGCAAATAAGGTAGC 57.111 34.615 0.00 0.00 0.00 3.58
92 93 9.686683 ACATTGTAATAGAGAAGCAAATAAGGT 57.313 29.630 0.00 0.00 0.00 3.50
98 99 9.677567 GTTTGAACATTGTAATAGAGAAGCAAA 57.322 29.630 0.00 0.00 0.00 3.68
99 100 8.296713 GGTTTGAACATTGTAATAGAGAAGCAA 58.703 33.333 0.00 0.00 0.00 3.91
100 101 7.665559 AGGTTTGAACATTGTAATAGAGAAGCA 59.334 33.333 0.00 0.00 0.00 3.91
101 102 8.045176 AGGTTTGAACATTGTAATAGAGAAGC 57.955 34.615 0.00 0.00 0.00 3.86
112 113 8.934023 TTCCTATTTCTAGGTTTGAACATTGT 57.066 30.769 0.00 0.00 44.40 2.71
116 117 9.581289 TGATTTTCCTATTTCTAGGTTTGAACA 57.419 29.630 0.00 0.00 44.40 3.18
117 118 9.841880 GTGATTTTCCTATTTCTAGGTTTGAAC 57.158 33.333 0.00 0.00 44.40 3.18
118 119 9.581289 TGTGATTTTCCTATTTCTAGGTTTGAA 57.419 29.630 0.00 0.00 44.40 2.69
119 120 9.581289 TTGTGATTTTCCTATTTCTAGGTTTGA 57.419 29.630 0.00 0.00 44.40 2.69
120 121 9.846248 CTTGTGATTTTCCTATTTCTAGGTTTG 57.154 33.333 0.00 0.00 44.40 2.93
121 122 8.523658 GCTTGTGATTTTCCTATTTCTAGGTTT 58.476 33.333 0.00 0.00 44.40 3.27
122 123 7.148239 CGCTTGTGATTTTCCTATTTCTAGGTT 60.148 37.037 0.00 0.00 44.40 3.50
123 124 6.316390 CGCTTGTGATTTTCCTATTTCTAGGT 59.684 38.462 0.00 0.00 44.40 3.08
124 125 6.538742 TCGCTTGTGATTTTCCTATTTCTAGG 59.461 38.462 0.00 0.00 45.29 3.02
125 126 7.492669 TCTCGCTTGTGATTTTCCTATTTCTAG 59.507 37.037 0.00 0.00 0.00 2.43
126 127 7.327975 TCTCGCTTGTGATTTTCCTATTTCTA 58.672 34.615 0.00 0.00 0.00 2.10
127 128 6.173339 TCTCGCTTGTGATTTTCCTATTTCT 58.827 36.000 0.00 0.00 0.00 2.52
128 129 6.422776 TCTCGCTTGTGATTTTCCTATTTC 57.577 37.500 0.00 0.00 0.00 2.17
129 130 6.599244 TCATCTCGCTTGTGATTTTCCTATTT 59.401 34.615 0.00 0.00 0.00 1.40
130 131 6.115446 TCATCTCGCTTGTGATTTTCCTATT 58.885 36.000 0.00 0.00 0.00 1.73
131 132 5.674525 TCATCTCGCTTGTGATTTTCCTAT 58.325 37.500 0.00 0.00 0.00 2.57
132 133 5.084818 TCATCTCGCTTGTGATTTTCCTA 57.915 39.130 0.00 0.00 0.00 2.94
133 134 3.942829 TCATCTCGCTTGTGATTTTCCT 58.057 40.909 0.00 0.00 0.00 3.36
134 135 4.889832 ATCATCTCGCTTGTGATTTTCC 57.110 40.909 0.00 0.00 28.62 3.13
135 136 6.775088 TGTTATCATCTCGCTTGTGATTTTC 58.225 36.000 0.00 0.00 34.62 2.29
136 137 6.741992 TGTTATCATCTCGCTTGTGATTTT 57.258 33.333 0.00 0.00 34.62 1.82
137 138 6.741992 TTGTTATCATCTCGCTTGTGATTT 57.258 33.333 0.00 0.00 34.62 2.17
138 139 6.539826 TGATTGTTATCATCTCGCTTGTGATT 59.460 34.615 0.00 0.00 35.87 2.57
139 140 6.051074 TGATTGTTATCATCTCGCTTGTGAT 58.949 36.000 0.00 0.00 35.87 3.06
140 141 5.418676 TGATTGTTATCATCTCGCTTGTGA 58.581 37.500 0.00 0.00 35.87 3.58
141 142 5.723492 TGATTGTTATCATCTCGCTTGTG 57.277 39.130 0.00 0.00 35.87 3.33
152 153 5.558083 CGGCGATTTTCGATGATTGTTATCA 60.558 40.000 0.00 0.00 43.74 2.15
153 154 4.840772 CGGCGATTTTCGATGATTGTTATC 59.159 41.667 0.00 0.00 43.74 1.75
154 155 4.772434 CGGCGATTTTCGATGATTGTTAT 58.228 39.130 0.00 0.00 43.74 1.89
155 156 3.545228 GCGGCGATTTTCGATGATTGTTA 60.545 43.478 12.98 0.00 43.74 2.41
156 157 2.791158 GCGGCGATTTTCGATGATTGTT 60.791 45.455 12.98 0.00 43.74 2.83
157 158 1.268032 GCGGCGATTTTCGATGATTGT 60.268 47.619 12.98 0.00 43.74 2.71
158 159 1.388888 GCGGCGATTTTCGATGATTG 58.611 50.000 12.98 0.00 43.74 2.67
159 160 0.307760 GGCGGCGATTTTCGATGATT 59.692 50.000 12.98 0.00 43.74 2.57
160 161 1.831389 CGGCGGCGATTTTCGATGAT 61.831 55.000 29.19 0.00 43.74 2.45
161 162 2.521771 CGGCGGCGATTTTCGATGA 61.522 57.895 29.19 0.00 43.74 2.92
162 163 2.053116 CGGCGGCGATTTTCGATG 60.053 61.111 29.19 0.00 43.74 3.84
163 164 3.937062 GCGGCGGCGATTTTCGAT 61.937 61.111 36.87 0.00 43.74 3.59
165 166 4.868900 CAGCGGCGGCGATTTTCG 62.869 66.667 36.87 13.51 46.35 3.46
182 183 7.206981 ACCAAATATGTATCTTGCATAGTGC 57.793 36.000 0.00 0.00 45.29 4.40
183 184 8.077991 CCAACCAAATATGTATCTTGCATAGTG 58.922 37.037 0.00 0.00 33.05 2.74
184 185 7.231317 CCCAACCAAATATGTATCTTGCATAGT 59.769 37.037 0.00 0.00 33.05 2.12
185 186 7.596494 CCCAACCAAATATGTATCTTGCATAG 58.404 38.462 0.00 0.00 33.05 2.23
186 187 6.015519 GCCCAACCAAATATGTATCTTGCATA 60.016 38.462 0.00 0.00 33.91 3.14
332 1254 7.423844 AGTAGATGATTATGAAGTGACACCA 57.576 36.000 0.84 0.00 0.00 4.17
340 1262 9.751542 AAACGAAGGTAGTAGATGATTATGAAG 57.248 33.333 0.00 0.00 0.00 3.02
566 1491 3.189287 TCACTACCTCCGTTCTCGTTTAC 59.811 47.826 0.00 0.00 35.01 2.01
572 1497 4.142227 TGCTAATTCACTACCTCCGTTCTC 60.142 45.833 0.00 0.00 0.00 2.87
620 1547 2.869801 TGCCTGTTGTTTGACGAGTAAG 59.130 45.455 0.00 0.00 0.00 2.34
627 1554 7.713764 AAAAAGAATATGCCTGTTGTTTGAC 57.286 32.000 0.00 0.00 0.00 3.18
765 1695 3.619233 AACCAACGATTCCTTTGTTCG 57.381 42.857 0.00 0.00 38.76 3.95
863 1795 5.869579 AGAAATACCTAATGCGTGATGGAT 58.130 37.500 0.00 0.00 0.00 3.41
889 1821 0.320697 ACCGGAGTACCTGCTTGTTC 59.679 55.000 9.46 0.00 0.00 3.18
890 1822 1.636148 TACCGGAGTACCTGCTTGTT 58.364 50.000 9.46 0.00 0.00 2.83
899 1831 5.930569 CCTTGGCTTATAAATACCGGAGTAC 59.069 44.000 9.46 0.00 0.00 2.73
906 1838 5.783111 CCAATGCCTTGGCTTATAAATACC 58.217 41.667 13.18 0.00 45.28 2.73
919 1851 3.881688 CAGATTAGAGACCCAATGCCTTG 59.118 47.826 0.00 0.00 0.00 3.61
975 1907 5.010415 CCCTTCTTTCTTTCAGTTTGCAGAT 59.990 40.000 0.00 0.00 0.00 2.90
1130 2063 6.435277 AGCAATATGAACAGTTGAATGAAGGT 59.565 34.615 0.00 0.00 0.00 3.50
1189 2143 4.686554 GTCACATTTAGTCGACAGCTTTCT 59.313 41.667 19.50 0.00 32.25 2.52
1190 2144 4.433022 CGTCACATTTAGTCGACAGCTTTC 60.433 45.833 19.50 0.00 32.25 2.62
1193 2147 2.596452 CGTCACATTTAGTCGACAGCT 58.404 47.619 19.50 0.00 32.25 4.24
1194 2148 1.059264 GCGTCACATTTAGTCGACAGC 59.941 52.381 19.50 3.47 32.25 4.40
1195 2149 2.324860 TGCGTCACATTTAGTCGACAG 58.675 47.619 19.50 4.46 32.25 3.51
1196 2150 2.287970 ACTGCGTCACATTTAGTCGACA 60.288 45.455 19.50 0.48 32.25 4.35
1197 2151 2.325761 ACTGCGTCACATTTAGTCGAC 58.674 47.619 7.70 7.70 0.00 4.20
1198 2152 2.592194 GACTGCGTCACATTTAGTCGA 58.408 47.619 4.20 0.00 32.09 4.20
1215 2170 0.814457 TGCAAGCCAAACAAACGACT 59.186 45.000 0.00 0.00 0.00 4.18
1218 2173 2.606725 TCATTTGCAAGCCAAACAAACG 59.393 40.909 0.00 0.00 45.52 3.60
1249 2204 7.755582 ACTTTCAAATTAACAACTGCACTTC 57.244 32.000 0.00 0.00 0.00 3.01
1254 2209 8.628882 ACTTGTACTTTCAAATTAACAACTGC 57.371 30.769 0.00 0.00 0.00 4.40
1275 2231 8.290325 TGCTCGAATATAGTAGTACATGACTTG 58.710 37.037 0.00 0.00 39.81 3.16
1276 2232 8.392372 TGCTCGAATATAGTAGTACATGACTT 57.608 34.615 0.00 0.00 39.81 3.01
1278 2234 8.237949 ACATGCTCGAATATAGTAGTACATGAC 58.762 37.037 17.57 0.00 36.08 3.06
1280 2236 8.972262 AACATGCTCGAATATAGTAGTACATG 57.028 34.615 2.52 12.68 37.70 3.21
1281 2237 9.982651 AAAACATGCTCGAATATAGTAGTACAT 57.017 29.630 2.52 0.00 0.00 2.29
1304 2260 9.349145 GCGCCAAAGTAATTCTAAGATTAAAAA 57.651 29.630 0.00 0.00 0.00 1.94
1309 2265 6.759497 AAGCGCCAAAGTAATTCTAAGATT 57.241 33.333 2.29 0.00 0.00 2.40
1329 2362 9.651718 CCATAAGTACAAAATCGATAAGAAAGC 57.348 33.333 0.00 0.00 0.00 3.51
1362 2396 3.142951 AGGATATCTGACCGAACTCTCG 58.857 50.000 2.05 0.00 45.02 4.04
1373 2407 7.331026 CCAAAGAACAACACTAGGATATCTGA 58.669 38.462 2.05 0.00 0.00 3.27
1423 2459 1.333619 GTCGTTGTTTGTGTGCAGGAT 59.666 47.619 0.00 0.00 0.00 3.24
1441 2477 6.036517 GTGACAATCAGAGTATGAACATGGTC 59.963 42.308 2.98 2.98 42.53 4.02
1498 2538 2.161855 TGCGAATCCATGAGCAACTTT 58.838 42.857 0.00 0.00 36.60 2.66
1500 2540 1.376543 CTGCGAATCCATGAGCAACT 58.623 50.000 0.00 0.00 39.26 3.16
1717 2757 3.532155 GTTGTTTGGGCACGGGCA 61.532 61.111 13.89 0.00 43.71 5.36
1718 2758 4.639171 CGTTGTTTGGGCACGGGC 62.639 66.667 0.00 0.00 40.13 6.13
1719 2759 3.972276 CCGTTGTTTGGGCACGGG 61.972 66.667 4.08 0.00 39.96 5.28
1721 2761 2.330041 GACCGTTGTTTGGGCACG 59.670 61.111 0.00 0.00 33.37 5.34
1722 2762 2.330041 CGACCGTTGTTTGGGCAC 59.670 61.111 0.00 0.00 32.30 5.01
1730 2770 1.503818 GACATTGGTGCGACCGTTGT 61.504 55.000 10.53 10.53 42.58 3.32
1739 2779 1.538047 ACAGTGATGGACATTGGTGC 58.462 50.000 0.00 0.00 39.93 5.01
1841 2881 0.754472 AATGGCAAGCAAAGCAGTGT 59.246 45.000 0.00 0.00 0.00 3.55
1908 2948 1.179814 AGTTCTTGACGGCGAGGTCT 61.180 55.000 16.62 1.52 37.81 3.85
1998 3038 4.779733 GAGGAGGGGCGGTGGAGA 62.780 72.222 0.00 0.00 0.00 3.71
2075 3115 1.064946 GATCCTGTCGTGGAGCTCG 59.935 63.158 7.83 0.00 39.26 5.03
2198 3247 2.509336 GCACCGTCTCATCACCGG 60.509 66.667 0.00 0.00 46.93 5.28
2202 3251 0.460109 CAATCGGCACCGTCTCATCA 60.460 55.000 9.23 0.00 40.74 3.07
2203 3252 0.179111 TCAATCGGCACCGTCTCATC 60.179 55.000 9.23 0.00 40.74 2.92
2204 3253 0.179100 CTCAATCGGCACCGTCTCAT 60.179 55.000 9.23 0.00 40.74 2.90
2311 3360 2.668632 GTTCGCAGTCATGGGGGA 59.331 61.111 0.00 0.00 39.74 4.81
2335 3384 4.530857 GTCCGGCTCCATGGACGG 62.531 72.222 29.26 29.26 44.68 4.79
2437 3486 4.819630 GGCCATTGACGATAACCATTCTAA 59.180 41.667 0.00 0.00 0.00 2.10
2438 3487 4.385825 GGCCATTGACGATAACCATTCTA 58.614 43.478 0.00 0.00 0.00 2.10
2521 3575 6.677913 ACAACATGGTAAATCTTTTTCGGAG 58.322 36.000 0.00 0.00 0.00 4.63
2558 3612 4.262635 CCAGTTACCATTCCGCTCATATCT 60.263 45.833 0.00 0.00 0.00 1.98
2633 3705 4.363138 TCTGTCGGAAAAGATGATCATCG 58.637 43.478 26.09 16.03 42.48 3.84
2690 3772 3.004839 TCGCTGAACTGAGAGTATATGGC 59.995 47.826 0.00 0.00 0.00 4.40
2701 3783 0.880278 GCAACCACTCGCTGAACTGA 60.880 55.000 0.00 0.00 0.00 3.41
2702 3784 1.159713 TGCAACCACTCGCTGAACTG 61.160 55.000 0.00 0.00 0.00 3.16
2821 3924 3.263489 TGTTCGGTTGGTTCACACTTA 57.737 42.857 0.00 0.00 0.00 2.24
2927 4033 2.229675 TGCATTCGCTGATCACTAGG 57.770 50.000 0.00 0.00 39.64 3.02
3002 4113 6.668283 ACCTTGTTAAGTCCTGCTAAGATCTA 59.332 38.462 0.00 0.00 0.00 1.98
3110 4250 5.744345 GTGTTCACTTCCTATATCACTGTCG 59.256 44.000 0.00 0.00 0.00 4.35
3115 4255 7.276658 CACTGAAGTGTTCACTTCCTATATCAC 59.723 40.741 30.19 12.90 43.94 3.06
3221 4361 4.649088 ATATTCGCCTTGTTAAAAGGGC 57.351 40.909 8.75 8.75 41.02 5.19
3222 4362 7.504924 TCATATATTCGCCTTGTTAAAAGGG 57.495 36.000 3.03 4.35 37.88 3.95
3234 4374 5.122869 ACATCATGCAGTTCATATATTCGCC 59.877 40.000 0.00 0.00 33.19 5.54


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

AutoCloner maintained by Alex Coulton.