Multiple sequence alignment - TraesCS7A01G385100

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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 TraesCS7A01G385100 chr7A 100.000 2562 0 0 1 2562 561590755 561593316 0.000000e+00 4732.0
1 TraesCS7A01G385100 chr7A 78.797 316 39 20 876 1178 190479147 190479447 1.210000e-43 187.0
2 TraesCS7A01G385100 chr7B 81.944 1800 134 81 868 2562 524047392 524049105 0.000000e+00 1347.0
3 TraesCS7A01G385100 chr7B 88.654 379 23 13 446 819 524046930 524047293 6.500000e-121 444.0
4 TraesCS7A01G385100 chr7B 78.778 311 43 11 1 290 384380544 384380236 1.210000e-43 187.0
5 TraesCS7A01G385100 chr7B 87.234 94 12 0 139 232 663743474 663743567 9.690000e-20 108.0
6 TraesCS7A01G385100 chr7B 85.542 83 10 2 211 291 481919216 481919134 4.540000e-13 86.1
7 TraesCS7A01G385100 chr7B 85.714 84 8 4 211 291 560281993 560282075 4.540000e-13 86.1
8 TraesCS7A01G385100 chr7B 84.337 83 11 2 211 291 109232624 109232542 2.110000e-11 80.5
9 TraesCS7A01G385100 chr7D 83.586 1383 110 47 1254 2562 495824424 495825763 0.000000e+00 1188.0
10 TraesCS7A01G385100 chr7D 83.868 1091 59 33 239 1236 495823373 495824439 0.000000e+00 931.0
11 TraesCS7A01G385100 chr7D 90.741 54 3 2 88 140 446365097 446365149 1.270000e-08 71.3
12 TraesCS7A01G385100 chr5B 82.535 647 62 26 1949 2560 144234718 144234088 2.920000e-144 521.0
13 TraesCS7A01G385100 chr5B 75.940 665 84 38 1339 1964 144235363 144234736 3.250000e-69 272.0
14 TraesCS7A01G385100 chr5B 77.597 308 40 19 876 1169 144235654 144235362 2.640000e-35 159.0
15 TraesCS7A01G385100 chr5B 90.000 100 10 0 1 100 263519403 263519304 2.070000e-26 130.0
16 TraesCS7A01G385100 chr5B 85.542 83 10 2 211 291 122795511 122795593 4.540000e-13 86.1
17 TraesCS7A01G385100 chr2B 80.189 636 63 25 1949 2549 191535923 191535316 3.940000e-113 418.0
18 TraesCS7A01G385100 chr2B 76.870 575 79 32 1424 1964 191536495 191535941 2.510000e-70 276.0
19 TraesCS7A01G385100 chr2B 87.931 116 13 1 1 115 118834019 118833904 4.450000e-28 135.0
20 TraesCS7A01G385100 chr1D 80.546 293 39 8 1 277 220077109 220076819 2.580000e-50 209.0
21 TraesCS7A01G385100 chr1D 91.667 96 8 0 1 96 463470787 463470882 1.600000e-27 134.0
22 TraesCS7A01G385100 chr5D 75.194 516 57 35 1445 1919 352938187 352937702 7.280000e-41 178.0
23 TraesCS7A01G385100 chr5D 94.000 50 3 0 91 140 185144570 185144619 2.730000e-10 76.8
24 TraesCS7A01G385100 chr2A 92.708 96 7 0 1 96 29915504 29915599 3.440000e-29 139.0
25 TraesCS7A01G385100 chr2A 91.667 96 8 0 1 96 504326766 504326671 1.600000e-27 134.0
26 TraesCS7A01G385100 chr5A 90.000 100 10 0 1 100 313877468 313877369 2.070000e-26 130.0
27 TraesCS7A01G385100 chr5A 90.000 60 6 0 220 279 670399179 670399120 7.600000e-11 78.7
28 TraesCS7A01G385100 chr5A 95.652 46 2 0 94 139 15013064 15013109 9.830000e-10 75.0
29 TraesCS7A01G385100 chr5A 86.667 60 6 1 81 140 693652352 693652409 5.920000e-07 65.8
30 TraesCS7A01G385100 chr3A 90.000 100 10 0 1 100 510010736 510010835 2.070000e-26 130.0
31 TraesCS7A01G385100 chr3B 86.087 115 15 1 1 115 390224707 390224594 3.460000e-24 122.0
32 TraesCS7A01G385100 chr3B 85.542 83 10 2 211 291 468542477 468542559 4.540000e-13 86.1
33 TraesCS7A01G385100 chr2D 78.146 151 24 7 95 241 519307227 519307082 1.260000e-13 87.9
34 TraesCS7A01G385100 chr6B 97.826 46 1 0 95 140 691796433 691796478 2.110000e-11 80.5
35 TraesCS7A01G385100 chr6A 97.778 45 1 0 92 136 595172282 595172326 7.600000e-11 78.7
36 TraesCS7A01G385100 chr3D 86.111 72 7 2 221 291 47491306 47491375 9.830000e-10 75.0
37 TraesCS7A01G385100 chr4A 87.500 64 5 3 79 139 350081161 350081224 1.270000e-08 71.3
38 TraesCS7A01G385100 chr1A 84.127 63 8 2 74 136 53435272 53435332 2.750000e-05 60.2


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 TraesCS7A01G385100 chr7A 561590755 561593316 2561 False 4732.000000 4732 100.000000 1 2562 1 chr7A.!!$F2 2561
1 TraesCS7A01G385100 chr7B 524046930 524049105 2175 False 895.500000 1347 85.299000 446 2562 2 chr7B.!!$F3 2116
2 TraesCS7A01G385100 chr7D 495823373 495825763 2390 False 1059.500000 1188 83.727000 239 2562 2 chr7D.!!$F2 2323
3 TraesCS7A01G385100 chr5B 144234088 144235654 1566 True 317.333333 521 78.690667 876 2560 3 chr5B.!!$R2 1684
4 TraesCS7A01G385100 chr2B 191535316 191536495 1179 True 347.000000 418 78.529500 1424 2549 2 chr2B.!!$R2 1125

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
242 243 0.174162 TTAGGAACGCGGGAAGTAGC 59.826 55.0 12.47 0.0 0.0 3.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1657 1811 0.808847 GCCGACCCTCCGTTATGAAC 60.809 60.0 0.0 0.0 0.0 3.18 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
31 32 7.264373 AGTCTTTTTAGATATTCCAATGCGG 57.736 36.000 0.00 0.00 0.00 5.69
32 33 7.054124 AGTCTTTTTAGATATTCCAATGCGGA 58.946 34.615 0.00 0.00 44.40 5.54
33 34 7.012421 AGTCTTTTTAGATATTCCAATGCGGAC 59.988 37.037 0.00 0.00 46.36 4.79
34 35 7.012421 GTCTTTTTAGATATTCCAATGCGGACT 59.988 37.037 0.00 0.00 46.36 3.85
35 36 8.208224 TCTTTTTAGATATTCCAATGCGGACTA 58.792 33.333 0.00 0.00 46.36 2.59
36 37 7.724305 TTTTAGATATTCCAATGCGGACTAC 57.276 36.000 0.00 0.00 46.36 2.73
37 38 4.955811 AGATATTCCAATGCGGACTACA 57.044 40.909 0.00 0.00 46.36 2.74
38 39 5.489792 AGATATTCCAATGCGGACTACAT 57.510 39.130 0.00 0.00 46.36 2.29
39 40 6.605471 AGATATTCCAATGCGGACTACATA 57.395 37.500 0.00 0.00 46.36 2.29
40 41 6.398918 AGATATTCCAATGCGGACTACATAC 58.601 40.000 0.00 0.00 46.36 2.39
41 42 2.502213 TCCAATGCGGACTACATACG 57.498 50.000 0.00 0.00 39.64 3.06
42 43 2.025898 TCCAATGCGGACTACATACGA 58.974 47.619 0.00 0.00 39.64 3.43
43 44 2.427812 TCCAATGCGGACTACATACGAA 59.572 45.455 0.00 0.00 39.64 3.85
44 45 2.794910 CCAATGCGGACTACATACGAAG 59.205 50.000 0.00 0.00 36.56 3.79
45 46 2.135664 ATGCGGACTACATACGAAGC 57.864 50.000 0.00 0.00 0.00 3.86
46 47 0.812549 TGCGGACTACATACGAAGCA 59.187 50.000 0.00 0.00 0.00 3.91
47 48 1.202817 TGCGGACTACATACGAAGCAA 59.797 47.619 0.00 0.00 0.00 3.91
48 49 2.264813 GCGGACTACATACGAAGCAAA 58.735 47.619 0.00 0.00 0.00 3.68
49 50 2.669434 GCGGACTACATACGAAGCAAAA 59.331 45.455 0.00 0.00 0.00 2.44
50 51 3.308866 GCGGACTACATACGAAGCAAAAT 59.691 43.478 0.00 0.00 0.00 1.82
51 52 4.505191 GCGGACTACATACGAAGCAAAATA 59.495 41.667 0.00 0.00 0.00 1.40
52 53 5.005971 GCGGACTACATACGAAGCAAAATAA 59.994 40.000 0.00 0.00 0.00 1.40
53 54 6.637365 CGGACTACATACGAAGCAAAATAAG 58.363 40.000 0.00 0.00 0.00 1.73
54 55 6.255020 CGGACTACATACGAAGCAAAATAAGT 59.745 38.462 0.00 0.00 0.00 2.24
55 56 7.399523 GGACTACATACGAAGCAAAATAAGTG 58.600 38.462 0.00 0.00 0.00 3.16
56 57 7.277098 GGACTACATACGAAGCAAAATAAGTGA 59.723 37.037 0.00 0.00 0.00 3.41
57 58 8.542497 ACTACATACGAAGCAAAATAAGTGAA 57.458 30.769 0.00 0.00 0.00 3.18
58 59 9.162764 ACTACATACGAAGCAAAATAAGTGAAT 57.837 29.630 0.00 0.00 0.00 2.57
59 60 9.638300 CTACATACGAAGCAAAATAAGTGAATC 57.362 33.333 0.00 0.00 0.00 2.52
60 61 8.268850 ACATACGAAGCAAAATAAGTGAATCT 57.731 30.769 0.00 0.00 0.00 2.40
61 62 9.378551 ACATACGAAGCAAAATAAGTGAATCTA 57.621 29.630 0.00 0.00 0.00 1.98
62 63 9.638300 CATACGAAGCAAAATAAGTGAATCTAC 57.362 33.333 0.00 0.00 0.00 2.59
63 64 7.667043 ACGAAGCAAAATAAGTGAATCTACA 57.333 32.000 0.00 0.00 0.00 2.74
64 65 8.268850 ACGAAGCAAAATAAGTGAATCTACAT 57.731 30.769 0.00 0.00 0.00 2.29
65 66 8.730680 ACGAAGCAAAATAAGTGAATCTACATT 58.269 29.630 0.00 0.00 0.00 2.71
66 67 9.214953 CGAAGCAAAATAAGTGAATCTACATTC 57.785 33.333 0.00 0.00 39.24 2.67
108 109 8.281212 ACATTTGTATGTACTTCCTCAATTCC 57.719 34.615 0.00 0.00 43.12 3.01
109 110 8.109634 ACATTTGTATGTACTTCCTCAATTCCT 58.890 33.333 0.00 0.00 43.12 3.36
110 111 9.613428 CATTTGTATGTACTTCCTCAATTCCTA 57.387 33.333 0.00 0.00 0.00 2.94
183 184 8.844244 AGAGTATATGTTCAATCATTTTGCTCC 58.156 33.333 0.00 0.00 30.25 4.70
184 185 7.642669 AGTATATGTTCAATCATTTTGCTCCG 58.357 34.615 0.00 0.00 0.00 4.63
185 186 4.789012 ATGTTCAATCATTTTGCTCCGT 57.211 36.364 0.00 0.00 0.00 4.69
186 187 5.895636 ATGTTCAATCATTTTGCTCCGTA 57.104 34.783 0.00 0.00 0.00 4.02
187 188 5.895636 TGTTCAATCATTTTGCTCCGTAT 57.104 34.783 0.00 0.00 0.00 3.06
188 189 6.993786 TGTTCAATCATTTTGCTCCGTATA 57.006 33.333 0.00 0.00 0.00 1.47
189 190 7.566760 TGTTCAATCATTTTGCTCCGTATAT 57.433 32.000 0.00 0.00 0.00 0.86
190 191 8.669946 TGTTCAATCATTTTGCTCCGTATATA 57.330 30.769 0.00 0.00 0.00 0.86
191 192 9.283768 TGTTCAATCATTTTGCTCCGTATATAT 57.716 29.630 0.00 0.00 0.00 0.86
192 193 9.546909 GTTCAATCATTTTGCTCCGTATATATG 57.453 33.333 0.00 0.00 0.00 1.78
193 194 7.751732 TCAATCATTTTGCTCCGTATATATGC 58.248 34.615 0.00 0.00 0.00 3.14
194 195 7.607607 TCAATCATTTTGCTCCGTATATATGCT 59.392 33.333 0.00 0.00 0.00 3.79
195 196 8.882736 CAATCATTTTGCTCCGTATATATGCTA 58.117 33.333 0.00 0.00 0.00 3.49
196 197 9.618890 AATCATTTTGCTCCGTATATATGCTAT 57.381 29.630 0.00 0.00 0.00 2.97
198 199 9.750125 TCATTTTGCTCCGTATATATGCTATAG 57.250 33.333 0.00 0.00 0.00 1.31
199 200 9.534565 CATTTTGCTCCGTATATATGCTATAGT 57.465 33.333 0.84 0.00 0.00 2.12
200 201 8.926715 TTTTGCTCCGTATATATGCTATAGTG 57.073 34.615 0.84 0.00 0.00 2.74
201 202 7.875327 TTGCTCCGTATATATGCTATAGTGA 57.125 36.000 0.84 0.00 0.00 3.41
202 203 7.875327 TGCTCCGTATATATGCTATAGTGAA 57.125 36.000 0.84 0.00 0.00 3.18
203 204 8.465273 TGCTCCGTATATATGCTATAGTGAAT 57.535 34.615 0.84 0.00 0.00 2.57
204 205 8.914011 TGCTCCGTATATATGCTATAGTGAATT 58.086 33.333 0.84 0.00 0.00 2.17
205 206 9.400638 GCTCCGTATATATGCTATAGTGAATTC 57.599 37.037 0.84 0.00 0.00 2.17
235 236 6.796705 AAGATTTATATTTAGGAACGCGGG 57.203 37.500 12.47 0.00 0.00 6.13
236 237 6.105397 AGATTTATATTTAGGAACGCGGGA 57.895 37.500 12.47 0.00 0.00 5.14
237 238 6.527423 AGATTTATATTTAGGAACGCGGGAA 58.473 36.000 12.47 0.00 0.00 3.97
242 243 0.174162 TTAGGAACGCGGGAAGTAGC 59.826 55.000 12.47 0.00 0.00 3.58
245 246 1.872679 GAACGCGGGAAGTAGCTCG 60.873 63.158 12.47 0.00 34.15 5.03
250 251 1.488527 GCGGGAAGTAGCTCGTATTG 58.511 55.000 0.00 0.00 33.40 1.90
304 309 2.035576 AGGAGTACGCGTCACTCTTTTT 59.964 45.455 30.03 18.91 41.78 1.94
388 405 1.363744 CCAAAGCTCACACGAGATCC 58.636 55.000 0.00 0.00 42.34 3.36
405 422 2.258591 CAGACGTGACGGAGGTGG 59.741 66.667 10.66 0.00 0.00 4.61
406 423 3.681835 AGACGTGACGGAGGTGGC 61.682 66.667 10.66 0.00 0.00 5.01
407 424 3.681835 GACGTGACGGAGGTGGCT 61.682 66.667 10.66 0.00 0.00 4.75
408 425 3.222354 GACGTGACGGAGGTGGCTT 62.222 63.158 10.66 0.00 0.00 4.35
536 553 6.346896 AGAATTCAGGGATCGTTACTTAACC 58.653 40.000 8.44 0.00 32.69 2.85
565 582 1.890174 GCCGGGATCCAAAACCAAG 59.110 57.895 15.23 0.00 0.00 3.61
576 593 4.760878 TCCAAAACCAAGGTTAACAAAGC 58.239 39.130 8.10 0.00 37.35 3.51
591 613 3.311106 ACAAAGCATTTTGATCACTGCG 58.689 40.909 14.89 7.00 45.21 5.18
615 637 1.271652 TGCCTGCGGGTCAGATAAAAA 60.272 47.619 14.55 0.00 45.72 1.94
630 652 7.320560 GTCAGATAAAAACGCTTGTTAACTGAC 59.679 37.037 21.11 21.11 37.59 3.51
635 657 0.433492 CGCTTGTTAACTGACGGACG 59.567 55.000 7.22 0.00 0.00 4.79
647 669 1.201647 TGACGGACGGAGAGTTTCATC 59.798 52.381 0.00 0.00 0.00 2.92
649 671 1.202582 ACGGACGGAGAGTTTCATCAG 59.797 52.381 0.00 0.00 0.00 2.90
650 672 1.469940 CGGACGGAGAGTTTCATCAGG 60.470 57.143 0.00 0.00 0.00 3.86
652 674 2.159170 GGACGGAGAGTTTCATCAGGAG 60.159 54.545 0.00 0.00 0.00 3.69
662 684 6.709846 AGAGTTTCATCAGGAGTGAAAGAAAG 59.290 38.462 1.88 0.00 43.83 2.62
671 693 0.318699 GTGAAAGAAAGGTTGCCGGC 60.319 55.000 22.73 22.73 0.00 6.13
680 702 2.516225 GTTGCCGGCCAGGTATCC 60.516 66.667 26.77 0.00 43.70 2.59
740 762 4.547367 CCATCGACTTCCCGGCCC 62.547 72.222 0.00 0.00 0.00 5.80
874 923 4.227134 CCTCCATCCGCACCCGAG 62.227 72.222 0.00 0.00 36.29 4.63
1172 1280 1.854743 CCGCGACATCTTCATGTACAG 59.145 52.381 8.23 0.00 43.79 2.74
1188 1296 2.365408 ACAGGTACGAGCAAGCTAAC 57.635 50.000 0.00 0.00 0.00 2.34
1204 1312 2.351932 GCTAACCTCATCTAGCGCTACC 60.352 54.545 14.45 0.00 31.85 3.18
1233 1361 6.575162 AACCGCAGTTGATTCTCTTTTATT 57.425 33.333 0.00 0.00 33.97 1.40
1234 1362 6.575162 ACCGCAGTTGATTCTCTTTTATTT 57.425 33.333 0.00 0.00 0.00 1.40
1235 1363 6.612306 ACCGCAGTTGATTCTCTTTTATTTC 58.388 36.000 0.00 0.00 0.00 2.17
1236 1364 6.431234 ACCGCAGTTGATTCTCTTTTATTTCT 59.569 34.615 0.00 0.00 0.00 2.52
1237 1365 7.040409 ACCGCAGTTGATTCTCTTTTATTTCTT 60.040 33.333 0.00 0.00 0.00 2.52
1238 1366 7.809806 CCGCAGTTGATTCTCTTTTATTTCTTT 59.190 33.333 0.00 0.00 0.00 2.52
1239 1367 9.185192 CGCAGTTGATTCTCTTTTATTTCTTTT 57.815 29.630 0.00 0.00 0.00 2.27
1286 1414 1.141881 CCACGGGGAGAAGATCACG 59.858 63.158 0.00 0.00 35.59 4.35
1322 1458 1.743623 CTGATGCGGGCGTTGGTTA 60.744 57.895 0.00 0.00 0.00 2.85
1323 1459 1.302383 CTGATGCGGGCGTTGGTTAA 61.302 55.000 0.00 0.00 0.00 2.01
1324 1460 0.678366 TGATGCGGGCGTTGGTTAAT 60.678 50.000 0.00 0.00 0.00 1.40
1325 1461 0.248458 GATGCGGGCGTTGGTTAATG 60.248 55.000 0.00 0.00 0.00 1.90
1326 1462 1.662438 ATGCGGGCGTTGGTTAATGG 61.662 55.000 0.00 0.00 0.00 3.16
1327 1463 2.337246 GCGGGCGTTGGTTAATGGT 61.337 57.895 0.00 0.00 0.00 3.55
1328 1464 1.868987 GCGGGCGTTGGTTAATGGTT 61.869 55.000 0.00 0.00 0.00 3.67
1329 1465 0.169451 CGGGCGTTGGTTAATGGTTC 59.831 55.000 0.00 0.00 0.00 3.62
1400 1536 4.147449 CCATGGACGAGGCGCTCA 62.147 66.667 5.56 0.00 0.00 4.26
1624 1778 6.119144 GATCTTCCTTAGCTAGATCGCTAG 57.881 45.833 7.51 0.00 45.63 3.42
1625 1779 4.328536 TCTTCCTTAGCTAGATCGCTAGG 58.671 47.826 0.00 5.19 43.54 3.02
1626 1780 4.041815 TCTTCCTTAGCTAGATCGCTAGGA 59.958 45.833 11.64 12.10 43.54 2.94
1627 1781 3.945346 TCCTTAGCTAGATCGCTAGGAG 58.055 50.000 11.64 4.57 43.54 3.69
1629 1783 2.116827 TAGCTAGATCGCTAGGAGGC 57.883 55.000 0.00 0.00 43.54 4.70
1631 1785 1.631388 AGCTAGATCGCTAGGAGGCTA 59.369 52.381 0.00 0.00 43.54 3.93
1632 1786 2.040545 AGCTAGATCGCTAGGAGGCTAA 59.959 50.000 0.00 0.00 43.54 3.09
1633 1787 2.820787 GCTAGATCGCTAGGAGGCTAAA 59.179 50.000 0.00 0.00 43.54 1.85
1634 1788 3.256136 GCTAGATCGCTAGGAGGCTAAAA 59.744 47.826 0.00 0.00 43.54 1.52
1636 1790 4.329462 AGATCGCTAGGAGGCTAAAAAG 57.671 45.455 0.00 0.00 0.00 2.27
1637 1791 3.707102 AGATCGCTAGGAGGCTAAAAAGT 59.293 43.478 0.00 0.00 0.00 2.66
1645 1799 5.700722 AGGAGGCTAAAAAGTAAAAACGG 57.299 39.130 0.00 0.00 0.00 4.44
1652 1806 6.800408 GGCTAAAAAGTAAAAACGGACTGATC 59.200 38.462 0.00 0.00 0.00 2.92
1653 1807 7.357303 GCTAAAAAGTAAAAACGGACTGATCA 58.643 34.615 0.00 0.00 0.00 2.92
1654 1808 8.021396 GCTAAAAAGTAAAAACGGACTGATCAT 58.979 33.333 0.00 0.00 0.00 2.45
1657 1811 9.893305 AAAAAGTAAAAACGGACTGATCATAAG 57.107 29.630 0.00 0.00 0.00 1.73
1658 1812 8.617290 AAAGTAAAAACGGACTGATCATAAGT 57.383 30.769 0.00 0.00 0.00 2.24
1666 1820 5.977725 ACGGACTGATCATAAGTTCATAACG 59.022 40.000 0.00 0.00 36.23 3.18
1668 1822 6.513180 GGACTGATCATAAGTTCATAACGGA 58.487 40.000 0.00 0.00 36.23 4.69
1671 1825 5.853936 TGATCATAAGTTCATAACGGAGGG 58.146 41.667 0.00 0.00 36.23 4.30
1675 1829 0.822164 AGTTCATAACGGAGGGTCGG 59.178 55.000 0.00 0.00 36.23 4.79
1762 1924 2.539547 CCTGCATGTTATTGCTGCGTAC 60.540 50.000 0.00 0.00 43.18 3.67
1765 1927 1.327460 CATGTTATTGCTGCGTACGCT 59.673 47.619 36.99 21.36 42.51 5.07
1766 1928 2.281140 TGTTATTGCTGCGTACGCTA 57.719 45.000 36.99 23.39 42.51 4.26
1767 1929 2.608268 TGTTATTGCTGCGTACGCTAA 58.392 42.857 36.99 28.02 42.51 3.09
1768 1930 2.994578 TGTTATTGCTGCGTACGCTAAA 59.005 40.909 36.99 27.43 42.51 1.85
1769 1931 3.061563 TGTTATTGCTGCGTACGCTAAAG 59.938 43.478 36.99 27.51 42.51 1.85
1805 1990 3.096489 GCTCTAGCTGGAGTTCATCAG 57.904 52.381 25.84 1.84 38.21 2.90
1829 2023 0.806241 GCTCTCGAGTCTTCTTCGGT 59.194 55.000 13.13 0.00 0.00 4.69
1872 2066 8.386606 GTGTGTTCTTCTTCTCAATGATATGAC 58.613 37.037 0.00 0.00 0.00 3.06
1937 2131 3.731089 ACTAGACGTATCCTTCTCCGAG 58.269 50.000 0.00 0.00 0.00 4.63
1938 2132 3.387374 ACTAGACGTATCCTTCTCCGAGA 59.613 47.826 0.00 0.00 0.00 4.04
1939 2133 3.495434 AGACGTATCCTTCTCCGAGAT 57.505 47.619 0.00 0.00 0.00 2.75
1940 2134 3.404899 AGACGTATCCTTCTCCGAGATC 58.595 50.000 0.00 0.00 0.00 2.75
1941 2135 3.139850 GACGTATCCTTCTCCGAGATCA 58.860 50.000 0.00 0.00 0.00 2.92
2015 2257 8.778358 TGGCACCAATGTGTTTTTATAATTTTC 58.222 29.630 0.00 0.00 44.65 2.29
2087 2337 4.847633 TGTTCGCAATGAGACTTTTCTTG 58.152 39.130 0.00 0.00 29.47 3.02
2140 2390 1.767759 TCCATCATGTCGCTCTCTGA 58.232 50.000 0.00 0.00 0.00 3.27
2141 2391 2.314246 TCCATCATGTCGCTCTCTGAT 58.686 47.619 0.00 0.00 0.00 2.90
2217 2468 9.751542 ACATCTACCTAGATTTTCTAAATCGTG 57.248 33.333 6.52 4.38 40.91 4.35
2221 2472 6.583562 ACCTAGATTTTCTAAATCGTGGGAG 58.416 40.000 19.89 10.05 32.40 4.30
2223 2474 4.200092 AGATTTTCTAAATCGTGGGAGCC 58.800 43.478 6.52 0.00 0.00 4.70
2227 2478 0.174845 CTAAATCGTGGGAGCCGTGA 59.825 55.000 0.00 0.00 0.00 4.35
2230 2481 2.798148 AATCGTGGGAGCCGTGAACC 62.798 60.000 0.00 0.00 0.00 3.62
2231 2482 4.308458 CGTGGGAGCCGTGAACCA 62.308 66.667 0.00 0.00 0.00 3.67
2239 2490 0.966179 AGCCGTGAACCAAAATTCCC 59.034 50.000 0.00 0.00 0.00 3.97
2260 2511 8.700722 TTCCCGTAAATCAATCATTTTCATTG 57.299 30.769 0.00 0.00 36.09 2.82
2262 2513 6.479660 CCCGTAAATCAATCATTTTCATTGGG 59.520 38.462 0.00 0.00 36.09 4.12
2267 2518 6.746745 ATCAATCATTTTCATTGGGTTTGC 57.253 33.333 0.00 0.00 32.86 3.68
2302 2554 5.652994 TCTTTTTGTGCCTTTACTGTGTT 57.347 34.783 0.00 0.00 0.00 3.32
2305 2557 4.630894 TTTGTGCCTTTACTGTGTTCTG 57.369 40.909 0.00 0.00 0.00 3.02
2524 2818 4.468713 TGGAAAACAGACATGAATGACCA 58.531 39.130 0.00 5.52 0.00 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 8.836413 CCGCATTGGAATATCTAAAAAGACTTA 58.164 33.333 0.00 0.00 42.00 2.24
6 7 7.556275 TCCGCATTGGAATATCTAAAAAGACTT 59.444 33.333 0.00 0.00 46.38 3.01
7 8 7.054124 TCCGCATTGGAATATCTAAAAAGACT 58.946 34.615 0.00 0.00 46.38 3.24
8 9 7.259290 TCCGCATTGGAATATCTAAAAAGAC 57.741 36.000 0.00 0.00 46.38 3.01
23 24 2.502213 TCGTATGTAGTCCGCATTGG 57.498 50.000 0.00 0.00 40.09 3.16
24 25 2.218759 GCTTCGTATGTAGTCCGCATTG 59.781 50.000 0.00 0.00 0.00 2.82
25 26 2.159156 TGCTTCGTATGTAGTCCGCATT 60.159 45.455 0.00 0.00 0.00 3.56
26 27 1.407618 TGCTTCGTATGTAGTCCGCAT 59.592 47.619 0.00 0.00 0.00 4.73
27 28 0.812549 TGCTTCGTATGTAGTCCGCA 59.187 50.000 0.00 0.00 0.00 5.69
28 29 1.917273 TTGCTTCGTATGTAGTCCGC 58.083 50.000 0.00 0.00 0.00 5.54
29 30 6.255020 ACTTATTTTGCTTCGTATGTAGTCCG 59.745 38.462 0.00 0.00 0.00 4.79
30 31 7.277098 TCACTTATTTTGCTTCGTATGTAGTCC 59.723 37.037 0.00 0.00 0.00 3.85
31 32 8.181487 TCACTTATTTTGCTTCGTATGTAGTC 57.819 34.615 0.00 0.00 0.00 2.59
32 33 8.542497 TTCACTTATTTTGCTTCGTATGTAGT 57.458 30.769 0.00 0.00 0.00 2.73
33 34 9.638300 GATTCACTTATTTTGCTTCGTATGTAG 57.362 33.333 0.00 0.00 0.00 2.74
34 35 9.378551 AGATTCACTTATTTTGCTTCGTATGTA 57.621 29.630 0.00 0.00 0.00 2.29
35 36 8.268850 AGATTCACTTATTTTGCTTCGTATGT 57.731 30.769 0.00 0.00 0.00 2.29
36 37 9.638300 GTAGATTCACTTATTTTGCTTCGTATG 57.362 33.333 0.00 0.00 0.00 2.39
37 38 9.378551 TGTAGATTCACTTATTTTGCTTCGTAT 57.621 29.630 0.00 0.00 0.00 3.06
38 39 8.766000 TGTAGATTCACTTATTTTGCTTCGTA 57.234 30.769 0.00 0.00 0.00 3.43
39 40 7.667043 TGTAGATTCACTTATTTTGCTTCGT 57.333 32.000 0.00 0.00 0.00 3.85
40 41 9.214953 GAATGTAGATTCACTTATTTTGCTTCG 57.785 33.333 7.69 0.00 38.33 3.79
82 83 9.391006 GGAATTGAGGAAGTACATACAAATGTA 57.609 33.333 0.00 0.00 44.66 2.29
84 85 8.511604 AGGAATTGAGGAAGTACATACAAATG 57.488 34.615 0.00 0.00 39.17 2.32
157 158 8.844244 GGAGCAAAATGATTGAACATATACTCT 58.156 33.333 0.00 0.00 0.00 3.24
158 159 7.800380 CGGAGCAAAATGATTGAACATATACTC 59.200 37.037 0.00 0.00 0.00 2.59
159 160 7.283127 ACGGAGCAAAATGATTGAACATATACT 59.717 33.333 0.00 0.00 0.00 2.12
160 161 7.417612 ACGGAGCAAAATGATTGAACATATAC 58.582 34.615 0.00 0.00 0.00 1.47
161 162 7.566760 ACGGAGCAAAATGATTGAACATATA 57.433 32.000 0.00 0.00 0.00 0.86
162 163 6.455360 ACGGAGCAAAATGATTGAACATAT 57.545 33.333 0.00 0.00 0.00 1.78
163 164 5.895636 ACGGAGCAAAATGATTGAACATA 57.104 34.783 0.00 0.00 0.00 2.29
164 165 4.789012 ACGGAGCAAAATGATTGAACAT 57.211 36.364 0.00 0.00 0.00 2.71
165 166 5.895636 ATACGGAGCAAAATGATTGAACA 57.104 34.783 0.00 0.00 0.00 3.18
166 167 9.546909 CATATATACGGAGCAAAATGATTGAAC 57.453 33.333 0.00 0.00 0.00 3.18
167 168 8.236586 GCATATATACGGAGCAAAATGATTGAA 58.763 33.333 0.00 0.00 0.00 2.69
168 169 7.607607 AGCATATATACGGAGCAAAATGATTGA 59.392 33.333 0.00 0.00 0.00 2.57
169 170 7.755591 AGCATATATACGGAGCAAAATGATTG 58.244 34.615 0.00 0.00 0.00 2.67
170 171 7.928307 AGCATATATACGGAGCAAAATGATT 57.072 32.000 0.00 0.00 0.00 2.57
172 173 9.750125 CTATAGCATATATACGGAGCAAAATGA 57.250 33.333 0.00 0.00 0.00 2.57
173 174 9.534565 ACTATAGCATATATACGGAGCAAAATG 57.465 33.333 0.00 0.00 0.00 2.32
174 175 9.534565 CACTATAGCATATATACGGAGCAAAAT 57.465 33.333 0.00 0.00 0.00 1.82
175 176 8.745590 TCACTATAGCATATATACGGAGCAAAA 58.254 33.333 0.00 0.00 0.00 2.44
176 177 8.288689 TCACTATAGCATATATACGGAGCAAA 57.711 34.615 0.00 0.00 0.00 3.68
177 178 7.875327 TCACTATAGCATATATACGGAGCAA 57.125 36.000 0.00 0.00 0.00 3.91
178 179 7.875327 TTCACTATAGCATATATACGGAGCA 57.125 36.000 0.00 0.00 0.00 4.26
179 180 9.400638 GAATTCACTATAGCATATATACGGAGC 57.599 37.037 0.00 0.00 0.00 4.70
209 210 8.776470 CCCGCGTTCCTAAATATAAATCTTTTA 58.224 33.333 4.92 0.00 0.00 1.52
210 211 7.499895 TCCCGCGTTCCTAAATATAAATCTTTT 59.500 33.333 4.92 0.00 0.00 2.27
211 212 6.993902 TCCCGCGTTCCTAAATATAAATCTTT 59.006 34.615 4.92 0.00 0.00 2.52
212 213 6.527423 TCCCGCGTTCCTAAATATAAATCTT 58.473 36.000 4.92 0.00 0.00 2.40
213 214 6.105397 TCCCGCGTTCCTAAATATAAATCT 57.895 37.500 4.92 0.00 0.00 2.40
214 215 6.426025 ACTTCCCGCGTTCCTAAATATAAATC 59.574 38.462 4.92 0.00 0.00 2.17
215 216 6.293698 ACTTCCCGCGTTCCTAAATATAAAT 58.706 36.000 4.92 0.00 0.00 1.40
216 217 5.673514 ACTTCCCGCGTTCCTAAATATAAA 58.326 37.500 4.92 0.00 0.00 1.40
217 218 5.280654 ACTTCCCGCGTTCCTAAATATAA 57.719 39.130 4.92 0.00 0.00 0.98
218 219 4.942761 ACTTCCCGCGTTCCTAAATATA 57.057 40.909 4.92 0.00 0.00 0.86
219 220 3.832615 ACTTCCCGCGTTCCTAAATAT 57.167 42.857 4.92 0.00 0.00 1.28
220 221 3.491447 GCTACTTCCCGCGTTCCTAAATA 60.491 47.826 4.92 0.00 0.00 1.40
221 222 2.740904 GCTACTTCCCGCGTTCCTAAAT 60.741 50.000 4.92 0.00 0.00 1.40
222 223 1.404583 GCTACTTCCCGCGTTCCTAAA 60.405 52.381 4.92 0.00 0.00 1.85
223 224 0.174162 GCTACTTCCCGCGTTCCTAA 59.826 55.000 4.92 0.00 0.00 2.69
224 225 0.682209 AGCTACTTCCCGCGTTCCTA 60.682 55.000 4.92 0.00 0.00 2.94
225 226 1.946475 GAGCTACTTCCCGCGTTCCT 61.946 60.000 4.92 0.00 0.00 3.36
226 227 1.518792 GAGCTACTTCCCGCGTTCC 60.519 63.158 4.92 0.00 0.00 3.62
227 228 1.872679 CGAGCTACTTCCCGCGTTC 60.873 63.158 4.92 0.00 0.00 3.95
228 229 1.308069 TACGAGCTACTTCCCGCGTT 61.308 55.000 4.92 0.00 38.39 4.84
229 230 1.099879 ATACGAGCTACTTCCCGCGT 61.100 55.000 4.92 0.00 40.41 6.01
230 231 0.030369 AATACGAGCTACTTCCCGCG 59.970 55.000 0.00 0.00 0.00 6.46
231 232 1.066605 TCAATACGAGCTACTTCCCGC 59.933 52.381 0.00 0.00 0.00 6.13
232 233 3.431922 TTCAATACGAGCTACTTCCCG 57.568 47.619 0.00 0.00 0.00 5.14
233 234 5.602628 AGATTTCAATACGAGCTACTTCCC 58.397 41.667 0.00 0.00 0.00 3.97
234 235 6.508777 AGAGATTTCAATACGAGCTACTTCC 58.491 40.000 0.00 0.00 0.00 3.46
235 236 9.517609 TTTAGAGATTTCAATACGAGCTACTTC 57.482 33.333 0.00 0.00 0.00 3.01
236 237 9.871238 TTTTAGAGATTTCAATACGAGCTACTT 57.129 29.630 0.00 0.00 0.00 2.24
237 238 9.871238 TTTTTAGAGATTTCAATACGAGCTACT 57.129 29.630 0.00 0.00 0.00 2.57
277 279 0.892755 TGACGCGTACTCCTCCATTT 59.107 50.000 13.97 0.00 0.00 2.32
280 282 1.303074 AGTGACGCGTACTCCTCCA 60.303 57.895 13.97 0.00 0.00 3.86
281 283 1.025647 AGAGTGACGCGTACTCCTCC 61.026 60.000 28.93 13.09 44.35 4.30
282 284 0.803740 AAGAGTGACGCGTACTCCTC 59.196 55.000 28.93 22.72 44.35 3.71
283 285 1.245732 AAAGAGTGACGCGTACTCCT 58.754 50.000 28.93 20.92 44.35 3.69
291 296 6.312918 TCATATTAGACCAAAAAGAGTGACGC 59.687 38.462 0.00 0.00 0.00 5.19
304 309 4.635765 GCACTGCACTTTCATATTAGACCA 59.364 41.667 0.00 0.00 0.00 4.02
357 362 2.816601 AGCTTTGGCGATGAGCTGCT 62.817 55.000 0.00 0.00 44.53 4.24
388 405 2.258591 CCACCTCCGTCACGTCTG 59.741 66.667 0.00 0.00 0.00 3.51
432 449 1.539065 CGCCGTATGAAATCCAGCTCT 60.539 52.381 0.00 0.00 0.00 4.09
513 530 6.110707 TGGTTAAGTAACGATCCCTGAATTC 58.889 40.000 0.00 0.00 37.07 2.17
514 531 6.057321 TGGTTAAGTAACGATCCCTGAATT 57.943 37.500 0.00 0.00 37.07 2.17
515 532 5.687166 TGGTTAAGTAACGATCCCTGAAT 57.313 39.130 0.00 0.00 37.07 2.57
528 545 1.072391 CGCACGTGCATGGTTAAGTA 58.928 50.000 37.03 0.00 42.21 2.24
529 546 1.866237 CGCACGTGCATGGTTAAGT 59.134 52.632 37.03 0.00 42.21 2.24
530 547 1.511887 GCGCACGTGCATGGTTAAG 60.512 57.895 37.03 20.49 42.21 1.85
531 548 2.558821 GCGCACGTGCATGGTTAA 59.441 55.556 37.03 0.00 42.21 2.01
554 571 4.223032 TGCTTTGTTAACCTTGGTTTTGGA 59.777 37.500 10.52 0.00 0.00 3.53
565 582 6.346838 GCAGTGATCAAAATGCTTTGTTAACC 60.347 38.462 17.26 0.00 42.26 2.85
576 593 0.813184 AGGCCGCAGTGATCAAAATG 59.187 50.000 0.00 0.00 0.00 2.32
602 624 4.499037 AACAAGCGTTTTTATCTGACCC 57.501 40.909 0.00 0.00 28.09 4.46
615 637 1.494824 GTCCGTCAGTTAACAAGCGT 58.505 50.000 8.61 0.00 0.00 5.07
630 652 1.469940 CCTGATGAAACTCTCCGTCCG 60.470 57.143 0.00 0.00 0.00 4.79
635 657 4.543590 TTCACTCCTGATGAAACTCTCC 57.456 45.455 0.00 0.00 33.16 3.71
647 669 2.294512 GGCAACCTTTCTTTCACTCCTG 59.705 50.000 0.00 0.00 0.00 3.86
649 671 1.266989 CGGCAACCTTTCTTTCACTCC 59.733 52.381 0.00 0.00 0.00 3.85
650 672 1.266989 CCGGCAACCTTTCTTTCACTC 59.733 52.381 0.00 0.00 0.00 3.51
652 674 0.318699 GCCGGCAACCTTTCTTTCAC 60.319 55.000 24.80 0.00 0.00 3.18
662 684 2.516225 GATACCTGGCCGGCAACC 60.516 66.667 30.85 12.03 35.61 3.77
671 693 0.828343 GAGAGGGTCCGGATACCTGG 60.828 65.000 29.02 0.00 39.65 4.45
757 779 2.787567 GGTGGTAGGAGAGGAGCGC 61.788 68.421 0.00 0.00 0.00 5.92
759 781 0.399233 ATGGGTGGTAGGAGAGGAGC 60.399 60.000 0.00 0.00 0.00 4.70
819 841 1.831580 ATACTATACGACGGAGGGCC 58.168 55.000 0.00 0.00 0.00 5.80
988 1088 4.899239 GGCCATCAGCGAGGACGG 62.899 72.222 0.00 0.00 45.17 4.79
1103 1211 1.893786 CAGGAGTCGAGGAAGTGGG 59.106 63.158 0.00 0.00 0.00 4.61
1172 1280 1.203994 TGAGGTTAGCTTGCTCGTACC 59.796 52.381 0.00 5.96 0.00 3.34
1188 1296 1.081108 GCGGTAGCGCTAGATGAGG 60.081 63.158 30.48 4.75 0.00 3.86
1213 1341 8.733857 AAAGAAATAAAAGAGAATCAACTGCG 57.266 30.769 0.00 0.00 37.82 5.18
1241 1369 2.286365 AGAGAATCCACCCGCAAAAA 57.714 45.000 0.00 0.00 33.66 1.94
1242 1370 2.286365 AAGAGAATCCACCCGCAAAA 57.714 45.000 0.00 0.00 33.66 2.44
1243 1371 2.286365 AAAGAGAATCCACCCGCAAA 57.714 45.000 0.00 0.00 33.66 3.68
1244 1372 2.286365 AAAAGAGAATCCACCCGCAA 57.714 45.000 0.00 0.00 33.66 4.85
1245 1373 3.644966 ATAAAAGAGAATCCACCCGCA 57.355 42.857 0.00 0.00 33.66 5.69
1246 1374 4.202020 GGAAATAAAAGAGAATCCACCCGC 60.202 45.833 0.00 0.00 33.66 6.13
1247 1375 4.947388 TGGAAATAAAAGAGAATCCACCCG 59.053 41.667 0.00 0.00 33.66 5.28
1251 1379 4.947388 CCCGTGGAAATAAAAGAGAATCCA 59.053 41.667 0.00 0.00 33.66 3.41
1252 1380 4.338400 CCCCGTGGAAATAAAAGAGAATCC 59.662 45.833 0.00 0.00 33.66 3.01
1286 1414 1.747355 CAGCACCAAGAATCATCACCC 59.253 52.381 0.00 0.00 0.00 4.61
1322 1458 1.603455 CACCCCTGCACGAACCATT 60.603 57.895 0.00 0.00 0.00 3.16
1323 1459 2.034066 CACCCCTGCACGAACCAT 59.966 61.111 0.00 0.00 0.00 3.55
1324 1460 3.164977 TCACCCCTGCACGAACCA 61.165 61.111 0.00 0.00 0.00 3.67
1325 1461 2.668550 GTCACCCCTGCACGAACC 60.669 66.667 0.00 0.00 0.00 3.62
1326 1462 3.041940 CGTCACCCCTGCACGAAC 61.042 66.667 0.00 0.00 35.49 3.95
1327 1463 4.980805 GCGTCACCCCTGCACGAA 62.981 66.667 0.00 0.00 35.49 3.85
1484 1620 4.285149 GTGCATCATCGACGCCGC 62.285 66.667 0.00 0.00 35.37 6.53
1564 1700 4.570663 GCGCCGACGAGCATAGGT 62.571 66.667 0.00 0.00 43.93 3.08
1587 1741 1.869767 GAAGATCGATCCATGGTGCAC 59.130 52.381 21.66 8.80 0.00 4.57
1624 1778 5.240183 AGTCCGTTTTTACTTTTTAGCCTCC 59.760 40.000 0.00 0.00 0.00 4.30
1625 1779 6.017687 TCAGTCCGTTTTTACTTTTTAGCCTC 60.018 38.462 0.00 0.00 0.00 4.70
1626 1780 5.824097 TCAGTCCGTTTTTACTTTTTAGCCT 59.176 36.000 0.00 0.00 0.00 4.58
1627 1781 6.063640 TCAGTCCGTTTTTACTTTTTAGCC 57.936 37.500 0.00 0.00 0.00 3.93
1631 1785 9.893305 CTTATGATCAGTCCGTTTTTACTTTTT 57.107 29.630 0.09 0.00 0.00 1.94
1632 1786 9.063615 ACTTATGATCAGTCCGTTTTTACTTTT 57.936 29.630 0.09 0.00 0.00 2.27
1633 1787 8.617290 ACTTATGATCAGTCCGTTTTTACTTT 57.383 30.769 0.09 0.00 0.00 2.66
1634 1788 8.617290 AACTTATGATCAGTCCGTTTTTACTT 57.383 30.769 0.09 0.00 0.00 2.24
1636 1790 8.025243 TGAACTTATGATCAGTCCGTTTTTAC 57.975 34.615 0.09 0.00 0.00 2.01
1637 1791 8.786826 ATGAACTTATGATCAGTCCGTTTTTA 57.213 30.769 0.09 0.00 0.00 1.52
1645 1799 6.642950 CCTCCGTTATGAACTTATGATCAGTC 59.357 42.308 0.09 0.00 0.00 3.51
1652 1806 4.049186 CGACCCTCCGTTATGAACTTATG 58.951 47.826 0.00 0.00 0.00 1.90
1653 1807 3.069158 CCGACCCTCCGTTATGAACTTAT 59.931 47.826 0.00 0.00 0.00 1.73
1654 1808 2.428171 CCGACCCTCCGTTATGAACTTA 59.572 50.000 0.00 0.00 0.00 2.24
1655 1809 1.206371 CCGACCCTCCGTTATGAACTT 59.794 52.381 0.00 0.00 0.00 2.66
1656 1810 0.822164 CCGACCCTCCGTTATGAACT 59.178 55.000 0.00 0.00 0.00 3.01
1657 1811 0.808847 GCCGACCCTCCGTTATGAAC 60.809 60.000 0.00 0.00 0.00 3.18
1658 1812 1.518774 GCCGACCCTCCGTTATGAA 59.481 57.895 0.00 0.00 0.00 2.57
1668 1822 2.762459 TAGCATTCGGCCGACCCT 60.762 61.111 31.19 24.69 46.50 4.34
1671 1825 1.766143 CTTGCTAGCATTCGGCCGAC 61.766 60.000 31.19 17.57 46.50 4.79
1762 1924 5.277058 GCTGATGATCCACTTTACTTTAGCG 60.277 44.000 0.00 0.00 0.00 4.26
1765 1927 7.187824 AGAGCTGATGATCCACTTTACTTTA 57.812 36.000 0.00 0.00 0.00 1.85
1766 1928 6.059787 AGAGCTGATGATCCACTTTACTTT 57.940 37.500 0.00 0.00 0.00 2.66
1767 1929 5.690464 AGAGCTGATGATCCACTTTACTT 57.310 39.130 0.00 0.00 0.00 2.24
1768 1930 5.221422 GCTAGAGCTGATGATCCACTTTACT 60.221 44.000 0.00 0.00 38.21 2.24
1769 1931 4.987912 GCTAGAGCTGATGATCCACTTTAC 59.012 45.833 0.00 0.00 38.21 2.01
1805 1990 3.000925 CGAAGAAGACTCGAGAGCTAGAC 59.999 52.174 21.68 10.52 0.00 2.59
1829 2023 2.480037 CACACGCTCAGATTAACTTGCA 59.520 45.455 0.00 0.00 0.00 4.08
1872 2066 6.238648 AGTTTACATAGGTTGAAGAAGGGTG 58.761 40.000 0.00 0.00 0.00 4.61
1937 2131 9.323985 AGATTCTTCTTGTAACATAAGCTGATC 57.676 33.333 0.00 0.00 0.00 2.92
1938 2132 9.678260 AAGATTCTTCTTGTAACATAAGCTGAT 57.322 29.630 0.00 0.00 40.74 2.90
1941 2135 9.944376 TGTAAGATTCTTCTTGTAACATAAGCT 57.056 29.630 1.27 0.00 42.25 3.74
2193 2444 8.368668 CCCACGATTTAGAAAATCTAGGTAGAT 58.631 37.037 9.89 0.00 44.54 1.98
2200 2451 5.365619 GGCTCCCACGATTTAGAAAATCTA 58.634 41.667 9.89 0.00 0.00 1.98
2210 2461 0.953960 GTTCACGGCTCCCACGATTT 60.954 55.000 0.00 0.00 34.93 2.17
2215 2466 1.104577 TTTTGGTTCACGGCTCCCAC 61.105 55.000 0.00 0.00 0.00 4.61
2217 2468 0.966179 AATTTTGGTTCACGGCTCCC 59.034 50.000 0.00 0.00 0.00 4.30
2221 2472 3.507597 GGGAATTTTGGTTCACGGC 57.492 52.632 0.00 0.00 0.00 5.68
2227 2478 6.998802 TGATTGATTTACGGGAATTTTGGTT 58.001 32.000 0.00 0.00 0.00 3.67
2230 2481 9.971744 GAAAATGATTGATTTACGGGAATTTTG 57.028 29.630 0.00 0.00 32.76 2.44
2231 2482 9.717942 TGAAAATGATTGATTTACGGGAATTTT 57.282 25.926 0.00 0.00 32.76 1.82
2239 2490 8.477984 AACCCAATGAAAATGATTGATTTACG 57.522 30.769 0.00 0.00 32.76 3.18
2260 2511 4.441792 AGAAACAACTTTCATGCAAACCC 58.558 39.130 0.00 0.00 38.67 4.11
2262 2513 7.802720 ACAAAAAGAAACAACTTTCATGCAAAC 59.197 29.630 0.00 0.00 38.67 2.93
2267 2518 6.092533 AGGCACAAAAAGAAACAACTTTCATG 59.907 34.615 0.00 0.00 38.67 3.07
2319 2580 9.851686 TGAGCCTGAAACATAATGAAGTAATAT 57.148 29.630 0.00 0.00 0.00 1.28
2323 2584 6.038603 GCATGAGCCTGAAACATAATGAAGTA 59.961 38.462 0.00 0.00 33.58 2.24
2328 2589 3.624900 CGCATGAGCCTGAAACATAATG 58.375 45.455 0.00 0.00 37.52 1.90
2329 2590 2.033801 GCGCATGAGCCTGAAACATAAT 59.966 45.455 10.72 0.00 37.52 1.28
2406 2700 3.755378 AGTGAGATGGAAAGATGTGTTGC 59.245 43.478 0.00 0.00 0.00 4.17
2473 2767 1.153449 TGACGGGCGCAAATCTAGG 60.153 57.895 10.83 0.00 0.00 3.02
2476 2770 3.127533 GCTGACGGGCGCAAATCT 61.128 61.111 10.83 0.00 0.00 2.40
2487 2781 4.161333 GTTTTCCAATTGAGATGCTGACG 58.839 43.478 7.12 0.00 0.00 4.35
2524 2818 4.079958 CCTGTATAAAAGGGCAAGTAGGGT 60.080 45.833 0.00 0.00 0.00 4.34


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

AutoCloner maintained by Alex Coulton.