Multiple sequence alignment - TraesCS3A01G440700

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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 TraesCS3A01G440700 chr3A 100.000 2900 0 0 1 2900 683251714 683248815 0.000000e+00 5356.0
1 TraesCS3A01G440700 chr3A 96.226 53 2 0 700 752 716884769 716884821 1.430000e-13 87.9
2 TraesCS3A01G440700 chr3A 97.368 38 1 0 1095 1132 683250559 683250522 6.710000e-07 65.8
3 TraesCS3A01G440700 chr3A 97.368 38 1 0 1156 1193 683250620 683250583 6.710000e-07 65.8
4 TraesCS3A01G440700 chr3B 92.074 1577 84 15 1146 2705 723504726 723503174 0.000000e+00 2182.0
5 TraesCS3A01G440700 chr3B 90.397 906 49 18 1 885 723505804 723504916 0.000000e+00 1157.0
6 TraesCS3A01G440700 chr3B 92.391 184 9 1 917 1095 723504918 723504735 1.030000e-64 257.0
7 TraesCS3A01G440700 chr3B 80.058 346 35 19 1142 1486 800329599 800329911 2.910000e-55 226.0
8 TraesCS3A01G440700 chr3D 87.500 896 74 20 1187 2079 546474104 546473244 0.000000e+00 1000.0
9 TraesCS3A01G440700 chr3D 92.132 394 20 5 2322 2714 546473114 546472731 1.970000e-151 545.0
10 TraesCS3A01G440700 chr3D 86.667 360 20 17 1 338 546475568 546475215 9.810000e-100 374.0
11 TraesCS3A01G440700 chr3D 79.954 439 40 25 626 1045 546474996 546474587 2.200000e-71 279.0
12 TraesCS3A01G440700 chr3D 91.613 155 10 2 2109 2263 546473265 546473114 8.140000e-51 211.0
13 TraesCS3A01G440700 chr1D 81.503 346 30 14 1142 1486 24595325 24595637 1.330000e-63 254.0
14 TraesCS3A01G440700 chr1D 100.000 28 0 0 2306 2333 99458485 99458512 5.000000e-03 52.8
15 TraesCS3A01G440700 chr5B 86.190 210 21 4 845 1048 101089408 101089201 1.350000e-53 220.0
16 TraesCS3A01G440700 chr5B 86.256 211 7 3 2712 2900 306573218 306573008 2.930000e-50 209.0
17 TraesCS3A01G440700 chr5B 92.248 129 10 0 2713 2841 447003015 447002887 1.770000e-42 183.0
18 TraesCS3A01G440700 chr7D 96.241 133 5 0 2712 2844 109615460 109615328 4.870000e-53 219.0
19 TraesCS3A01G440700 chr7D 92.593 135 8 2 2705 2839 104692578 104692446 2.950000e-45 193.0
20 TraesCS3A01G440700 chr7D 96.667 60 2 0 2841 2900 109615309 109615250 1.840000e-17 100.0
21 TraesCS3A01G440700 chr7D 100.000 28 0 0 2306 2333 137017711 137017684 5.000000e-03 52.8
22 TraesCS3A01G440700 chr4A 94.366 142 5 3 2704 2844 686954138 686953999 6.290000e-52 215.0
23 TraesCS3A01G440700 chr4A 95.000 60 3 0 2841 2900 686953980 686953921 8.560000e-16 95.3
24 TraesCS3A01G440700 chr2A 79.480 346 37 16 1142 1486 327142540 327142852 6.290000e-52 215.0
25 TraesCS3A01G440700 chr6A 84.906 212 20 5 845 1048 58747450 58747243 1.360000e-48 204.0
26 TraesCS3A01G440700 chr6A 84.689 209 20 5 845 1045 568831214 568831418 6.340000e-47 198.0
27 TraesCS3A01G440700 chr6A 92.537 134 8 2 2707 2839 557558048 557558180 1.060000e-44 191.0
28 TraesCS3A01G440700 chr6A 90.226 133 9 3 2702 2833 222550301 222550430 1.380000e-38 171.0
29 TraesCS3A01G440700 chr6D 82.692 260 14 15 1228 1486 467432339 467432110 4.900000e-48 202.0
30 TraesCS3A01G440700 chr6D 100.000 30 0 0 2306 2335 363881679 363881650 4.040000e-04 56.5
31 TraesCS3A01G440700 chr6B 92.908 141 7 2 2703 2841 217557536 217557675 4.900000e-48 202.0
32 TraesCS3A01G440700 chr6B 92.908 141 7 2 2703 2841 217577573 217577712 4.900000e-48 202.0
33 TraesCS3A01G440700 chr6B 84.211 209 21 5 845 1045 48306488 48306692 2.950000e-45 193.0
34 TraesCS3A01G440700 chr6B 91.971 137 11 0 2705 2841 57232767 57232903 2.950000e-45 193.0
35 TraesCS3A01G440700 chr1B 84.286 210 25 4 845 1048 638552517 638552310 6.340000e-47 198.0
36 TraesCS3A01G440700 chr1B 100.000 31 0 0 2304 2334 502965988 502966018 1.120000e-04 58.4
37 TraesCS3A01G440700 chr1B 92.500 40 0 2 2298 2334 345408221 345408182 1.000000e-03 54.7
38 TraesCS3A01G440700 chr1A 84.434 212 21 5 845 1048 56507964 56507757 6.340000e-47 198.0
39 TraesCS3A01G440700 chr1A 91.367 139 8 4 2702 2839 513121777 513121912 1.370000e-43 187.0
40 TraesCS3A01G440700 chr1A 90.000 60 6 0 2841 2900 513121936 513121995 8.620000e-11 78.7
41 TraesCS3A01G440700 chr1A 100.000 28 0 0 2306 2333 298639779 298639752 5.000000e-03 52.8
42 TraesCS3A01G440700 chr7A 83.886 211 24 4 845 1048 185850625 185850418 2.950000e-45 193.0
43 TraesCS3A01G440700 chr7B 90.476 126 10 1 2714 2839 152079967 152079844 6.430000e-37 165.0
44 TraesCS3A01G440700 chr5A 97.143 35 1 0 2306 2340 12205203 12205169 3.120000e-05 60.2
45 TraesCS3A01G440700 chr5D 100.000 28 0 0 2306 2333 351336268 351336241 5.000000e-03 52.8


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 TraesCS3A01G440700 chr3A 683248815 683251714 2899 True 1829.200000 5356 98.245333 1 2900 3 chr3A.!!$R1 2899
1 TraesCS3A01G440700 chr3B 723503174 723505804 2630 True 1198.666667 2182 91.620667 1 2705 3 chr3B.!!$R1 2704
2 TraesCS3A01G440700 chr3D 546472731 546475568 2837 True 481.800000 1000 87.573200 1 2714 5 chr3D.!!$R1 2713

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
568 671 0.240945 GTGACCGAATTGGCCAACAG 59.759 55.0 23.27 14.74 43.94 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2311 2809 0.616964 AAAGGTACTCCCTCCGTCCC 60.617 60.0 0.0 0.0 45.47 4.46 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
174 191 6.789959 AGTATACCATAGAGCTTCATCCCTTT 59.210 38.462 0.00 0.00 0.00 3.11
229 246 3.374220 AATGTGTCAACCATTGTGCAG 57.626 42.857 0.00 0.00 31.52 4.41
236 253 3.551485 GTCAACCATTGTGCAGTTTGTTC 59.449 43.478 0.00 0.00 0.00 3.18
252 269 7.798516 GCAGTTTGTTCGTTATATGTGGATATG 59.201 37.037 0.00 0.00 0.00 1.78
283 300 8.601546 TGGAAATTGCAAGATTTAAACCCTATT 58.398 29.630 4.94 0.00 29.75 1.73
299 316 4.142004 ACCCTATTGACCGTCTGATGTTAC 60.142 45.833 0.00 0.00 0.00 2.50
325 349 1.094073 ACATGCTTGCGATCTCCAGC 61.094 55.000 1.93 1.93 0.00 4.85
327 351 0.755079 ATGCTTGCGATCTCCAGCTA 59.245 50.000 9.84 0.00 0.00 3.32
406 497 5.232610 CTGATGAACAGGAGAGAAATTGC 57.767 43.478 0.00 0.00 42.39 3.56
410 501 3.748048 TGAACAGGAGAGAAATTGCGAAG 59.252 43.478 0.00 0.00 0.00 3.79
413 504 2.417933 CAGGAGAGAAATTGCGAAGTGG 59.582 50.000 0.00 0.00 0.00 4.00
459 559 2.972021 TGGATCCTGTCAGTTTGAGTGA 59.028 45.455 14.23 0.00 0.00 3.41
460 560 3.244215 TGGATCCTGTCAGTTTGAGTGAC 60.244 47.826 14.23 8.58 46.17 3.67
473 573 0.610687 GAGTGACTGGGGACTTGAGG 59.389 60.000 0.00 0.00 0.00 3.86
479 579 4.410400 GGGGACTTGAGGGTGGCG 62.410 72.222 0.00 0.00 0.00 5.69
484 584 1.065709 GGACTTGAGGGTGGCGATTAA 60.066 52.381 0.00 0.00 0.00 1.40
511 614 4.878971 TGTAGCTGCAGTCTTTGTGTAAAA 59.121 37.500 16.64 0.00 0.00 1.52
512 615 5.530915 TGTAGCTGCAGTCTTTGTGTAAAAT 59.469 36.000 16.64 0.00 0.00 1.82
513 616 6.708502 TGTAGCTGCAGTCTTTGTGTAAAATA 59.291 34.615 16.64 0.00 0.00 1.40
514 617 6.824305 AGCTGCAGTCTTTGTGTAAAATAT 57.176 33.333 16.64 0.00 0.00 1.28
515 618 7.921786 AGCTGCAGTCTTTGTGTAAAATATA 57.078 32.000 16.64 0.00 0.00 0.86
517 620 8.616076 AGCTGCAGTCTTTGTGTAAAATATATC 58.384 33.333 16.64 0.00 0.00 1.63
558 661 1.067974 TGTTCAGACGTGTGACCGAAT 59.932 47.619 15.88 0.00 0.00 3.34
568 671 0.240945 GTGACCGAATTGGCCAACAG 59.759 55.000 23.27 14.74 43.94 3.16
598 701 3.415212 TGGCTCTTCTGAAGTTTGGATG 58.585 45.455 16.43 2.45 0.00 3.51
602 705 4.805609 GCTCTTCTGAAGTTTGGATGTCCT 60.806 45.833 16.43 0.00 36.82 3.85
605 708 2.373169 TCTGAAGTTTGGATGTCCTGCT 59.627 45.455 0.09 0.00 36.82 4.24
606 709 3.152341 CTGAAGTTTGGATGTCCTGCTT 58.848 45.455 0.09 2.50 36.82 3.91
607 710 2.886523 TGAAGTTTGGATGTCCTGCTTG 59.113 45.455 0.09 0.00 36.82 4.01
608 711 2.664402 AGTTTGGATGTCCTGCTTGT 57.336 45.000 0.09 0.00 36.82 3.16
619 724 3.249805 TGCTTGTTGGCAGAGGGA 58.750 55.556 0.00 0.00 37.29 4.20
685 798 0.841289 AACGTTGTCCAAGGGGAGAA 59.159 50.000 0.00 0.00 46.12 2.87
786 901 2.165301 CCGACCGAATCCGCTGTTC 61.165 63.158 0.00 0.00 0.00 3.18
833 961 2.790791 CGCGGGGAGAAGCAGATCT 61.791 63.158 0.00 0.00 0.00 2.75
877 1005 1.918609 GAGCACACGAGGTAAATCGAC 59.081 52.381 2.78 0.00 45.56 4.20
885 1013 3.754766 GGTAAATCGACCTCGGCTT 57.245 52.632 0.00 0.00 40.29 4.35
894 1022 2.045926 CCTCGGCTTTGGGTCCTG 60.046 66.667 0.00 0.00 0.00 3.86
1035 1173 0.321298 ACGAAGAAATGGGGTCACCG 60.321 55.000 0.00 0.00 44.64 4.94
1045 1183 2.668550 GGTCACCGGGTTCAGCAC 60.669 66.667 6.32 0.00 0.00 4.40
1081 1240 2.618709 GCCAGCTCAATATTTACCGCTT 59.381 45.455 0.00 0.00 0.00 4.68
1085 1244 5.266242 CAGCTCAATATTTACCGCTTTCAC 58.734 41.667 0.00 0.00 0.00 3.18
1098 1287 2.073816 GCTTTCACGGCTAGCAGTTTA 58.926 47.619 18.35 6.74 35.05 2.01
1107 1296 2.415512 GGCTAGCAGTTTACGTTTGGAG 59.584 50.000 18.24 0.00 0.00 3.86
1111 1300 5.106673 GCTAGCAGTTTACGTTTGGAGAAAT 60.107 40.000 10.63 0.00 0.00 2.17
1117 1306 8.231837 GCAGTTTACGTTTGGAGAAATAATACA 58.768 33.333 0.00 0.00 0.00 2.29
1121 1310 6.505044 ACGTTTGGAGAAATAATACAACCC 57.495 37.500 0.00 0.00 0.00 4.11
1122 1311 6.243148 ACGTTTGGAGAAATAATACAACCCT 58.757 36.000 0.00 0.00 0.00 4.34
1125 1314 5.943349 TGGAGAAATAATACAACCCTCGA 57.057 39.130 0.00 0.00 0.00 4.04
1127 1316 7.606135 TGGAGAAATAATACAACCCTCGATA 57.394 36.000 0.00 0.00 0.00 2.92
1128 1317 7.667557 TGGAGAAATAATACAACCCTCGATAG 58.332 38.462 0.00 0.00 0.00 2.08
1130 1319 7.062749 AGAAATAATACAACCCTCGATAGCA 57.937 36.000 0.00 0.00 0.00 3.49
1132 1321 7.604164 AGAAATAATACAACCCTCGATAGCATG 59.396 37.037 0.00 0.00 0.00 4.06
1133 1322 4.955811 AATACAACCCTCGATAGCATGA 57.044 40.909 0.00 0.00 0.00 3.07
1134 1323 2.898729 ACAACCCTCGATAGCATGAG 57.101 50.000 0.00 0.00 0.00 2.90
1135 1324 2.111384 ACAACCCTCGATAGCATGAGT 58.889 47.619 0.00 0.00 0.00 3.41
1136 1325 2.159043 ACAACCCTCGATAGCATGAGTG 60.159 50.000 0.00 0.00 0.00 3.51
1149 1338 2.759191 CATGAGTGCCGCATATACAGT 58.241 47.619 0.00 0.00 0.00 3.55
1152 1341 2.935849 TGAGTGCCGCATATACAGTTTG 59.064 45.455 0.00 0.00 0.00 2.93
1159 1348 5.586643 TGCCGCATATACAGTTTGATGTTTA 59.413 36.000 0.00 0.00 34.56 2.01
1166 1355 9.272901 CATATACAGTTTGATGTTTACGTTTGG 57.727 33.333 0.00 0.00 34.56 3.28
1168 1357 5.816919 ACAGTTTGATGTTTACGTTTGGAG 58.183 37.500 0.00 0.00 0.00 3.86
1181 1370 9.333497 GTTTACGTTTGGAGAAATAATACAACC 57.667 33.333 0.00 0.00 0.00 3.77
1259 1738 3.629855 CGACTACAGTCCAGATGATGTCT 59.370 47.826 3.84 0.00 41.86 3.41
1260 1739 4.097135 CGACTACAGTCCAGATGATGTCTT 59.903 45.833 3.84 0.00 41.86 3.01
1288 1767 2.228582 TGGACAAAAGAATCATGGTGCG 59.771 45.455 0.00 0.00 0.00 5.34
1295 1774 6.767902 ACAAAAGAATCATGGTGCGTAGATAT 59.232 34.615 0.00 0.00 0.00 1.63
1314 1793 9.088512 GTAGATATATTCGCCTTTACCTTGATG 57.911 37.037 0.00 0.00 0.00 3.07
1317 1796 9.601217 GATATATTCGCCTTTACCTTGATGTAT 57.399 33.333 0.00 0.00 0.00 2.29
1318 1797 7.672983 ATATTCGCCTTTACCTTGATGTATG 57.327 36.000 0.00 0.00 0.00 2.39
1319 1798 4.481368 TCGCCTTTACCTTGATGTATGT 57.519 40.909 0.00 0.00 0.00 2.29
1320 1799 4.839121 TCGCCTTTACCTTGATGTATGTT 58.161 39.130 0.00 0.00 0.00 2.71
1321 1800 5.250200 TCGCCTTTACCTTGATGTATGTTT 58.750 37.500 0.00 0.00 0.00 2.83
1322 1801 5.123186 TCGCCTTTACCTTGATGTATGTTTG 59.877 40.000 0.00 0.00 0.00 2.93
1323 1802 5.102313 GCCTTTACCTTGATGTATGTTTGC 58.898 41.667 0.00 0.00 0.00 3.68
1324 1803 5.336372 GCCTTTACCTTGATGTATGTTTGCA 60.336 40.000 0.00 0.00 0.00 4.08
1343 1824 1.878088 CAGTTTGCTCTGTGTCATGCT 59.122 47.619 0.00 0.00 0.00 3.79
1346 1827 2.099141 TTGCTCTGTGTCATGCTACC 57.901 50.000 0.00 0.00 0.00 3.18
1349 1830 1.741732 GCTCTGTGTCATGCTACCCAG 60.742 57.143 0.00 0.00 0.00 4.45
1351 1832 2.760650 CTCTGTGTCATGCTACCCAGTA 59.239 50.000 0.00 0.00 0.00 2.74
1353 1834 1.553248 TGTGTCATGCTACCCAGTACC 59.447 52.381 0.00 0.00 0.00 3.34
1356 1837 1.134491 GTCATGCTACCCAGTACCCAC 60.134 57.143 0.00 0.00 0.00 4.61
1364 1845 4.891566 CAGTACCCACTGCTCGTC 57.108 61.111 0.00 0.00 45.44 4.20
1365 1846 2.268022 CAGTACCCACTGCTCGTCT 58.732 57.895 0.00 0.00 45.44 4.18
1366 1847 1.460504 CAGTACCCACTGCTCGTCTA 58.539 55.000 0.00 0.00 45.44 2.59
1367 1848 1.402259 CAGTACCCACTGCTCGTCTAG 59.598 57.143 0.00 0.00 45.44 2.43
1370 1851 2.438800 ACCCACTGCTCGTCTAGTAT 57.561 50.000 0.00 0.00 0.00 2.12
1374 1855 3.630769 CCCACTGCTCGTCTAGTATGTAA 59.369 47.826 0.00 0.00 0.00 2.41
1378 1859 2.289820 TGCTCGTCTAGTATGTAAGCCG 59.710 50.000 0.00 0.00 0.00 5.52
1413 1894 3.093057 AGTCCTGCACTGATAGTCTGA 57.907 47.619 0.00 0.00 32.26 3.27
1414 1895 3.641046 AGTCCTGCACTGATAGTCTGAT 58.359 45.455 0.00 0.00 32.26 2.90
1415 1896 4.797743 AGTCCTGCACTGATAGTCTGATA 58.202 43.478 0.00 0.00 32.26 2.15
1433 1915 5.074746 TGATACCACTATCTTGGGCTCTA 57.925 43.478 0.00 0.00 41.49 2.43
1692 2174 9.220767 CTTAAAGCCATTGAGTACTTAGAAACT 57.779 33.333 0.00 0.00 0.00 2.66
1695 2177 4.201724 GCCATTGAGTACTTAGAAACTGCG 60.202 45.833 0.00 0.00 0.00 5.18
1731 2213 3.504906 TCAGGGACTACAGTTACGACAAG 59.495 47.826 0.00 0.00 36.02 3.16
1743 2225 1.222115 ACGACAAGCTGAAACGGCTC 61.222 55.000 5.54 0.00 46.32 4.70
1755 2237 0.320508 AACGGCTCGAGGAAGAAACC 60.321 55.000 15.58 3.66 0.00 3.27
1789 2271 3.572584 GAGCAGTTGGAAGAAGCAAATG 58.427 45.455 0.00 0.00 0.00 2.32
1790 2272 2.298163 AGCAGTTGGAAGAAGCAAATGG 59.702 45.455 0.00 0.00 0.00 3.16
1792 2274 3.645884 CAGTTGGAAGAAGCAAATGGTG 58.354 45.455 0.00 0.00 0.00 4.17
1837 2319 1.676916 GGCTGCTTGCTGTCAGATGTA 60.677 52.381 3.32 0.00 42.39 2.29
1839 2321 2.031807 GCTGCTTGCTGTCAGATGTATG 59.968 50.000 3.32 0.00 38.95 2.39
1840 2322 3.528532 CTGCTTGCTGTCAGATGTATGA 58.471 45.455 3.32 0.00 32.26 2.15
1908 2390 6.438186 TGGATGAGATTATGAATGTGGCTA 57.562 37.500 0.00 0.00 0.00 3.93
1921 2403 1.611977 TGTGGCTATTCTCGGTATCGG 59.388 52.381 0.00 0.00 36.95 4.18
1923 2405 2.295349 GTGGCTATTCTCGGTATCGGAA 59.705 50.000 0.00 0.00 36.95 4.30
1933 2415 1.287425 GGTATCGGAAAAGTGGCTCG 58.713 55.000 0.00 0.00 0.00 5.03
1945 2427 1.272769 AGTGGCTCGTTGACTAAGGTC 59.727 52.381 0.00 0.00 42.42 3.85
2034 2532 2.844348 AGGACCCGTTGTATCAGGAATT 59.156 45.455 0.00 0.00 0.00 2.17
2263 2761 3.077359 GTTGAATGAGTCTGTTGGGAGG 58.923 50.000 0.00 0.00 0.00 4.30
2311 2809 8.667987 TTTTGCAAGCTAAAACGTCTATTATG 57.332 30.769 0.00 0.00 0.00 1.90
2421 2919 3.063452 GGTTGAATGTACTGCCATGTACG 59.937 47.826 0.00 0.00 44.01 3.67
2539 3038 5.104776 TGAGAAATGACATTCAGACTAGGGG 60.105 44.000 0.05 0.00 0.00 4.79
2622 3121 3.840666 GGAGAGAATACATCCCTATGCCA 59.159 47.826 0.00 0.00 36.50 4.92
2710 3209 4.442192 CCTGAAAGTGAGGTGCCTATAGAC 60.442 50.000 0.00 0.00 0.00 2.59
2714 3213 5.793030 AAGTGAGGTGCCTATAGACATAC 57.207 43.478 0.00 0.00 0.00 2.39
2715 3214 5.068215 AGTGAGGTGCCTATAGACATACT 57.932 43.478 0.00 0.00 0.00 2.12
2716 3215 6.202202 AGTGAGGTGCCTATAGACATACTA 57.798 41.667 0.00 0.00 35.42 1.82
2717 3216 6.242396 AGTGAGGTGCCTATAGACATACTAG 58.758 44.000 0.00 0.00 34.35 2.57
2718 3217 5.010933 TGAGGTGCCTATAGACATACTAGC 58.989 45.833 0.00 0.00 34.35 3.42
2719 3218 4.011023 AGGTGCCTATAGACATACTAGCG 58.989 47.826 0.00 0.00 34.35 4.26
2720 3219 3.128938 GGTGCCTATAGACATACTAGCGG 59.871 52.174 0.00 0.00 34.35 5.52
2721 3220 3.128938 GTGCCTATAGACATACTAGCGGG 59.871 52.174 0.00 0.00 34.35 6.13
2722 3221 3.245158 TGCCTATAGACATACTAGCGGGT 60.245 47.826 0.00 0.00 34.35 5.28
2723 3222 4.019051 TGCCTATAGACATACTAGCGGGTA 60.019 45.833 0.00 0.00 34.35 3.69
2724 3223 4.575645 GCCTATAGACATACTAGCGGGTAG 59.424 50.000 12.42 12.42 34.35 3.18
2725 3224 5.743117 CCTATAGACATACTAGCGGGTAGT 58.257 45.833 21.95 21.95 44.69 2.73
2726 3225 5.585445 CCTATAGACATACTAGCGGGTAGTG 59.415 48.000 25.63 14.67 42.37 2.74
2727 3226 1.955080 AGACATACTAGCGGGTAGTGC 59.045 52.381 25.63 13.97 42.37 4.40
2728 3227 0.666913 ACATACTAGCGGGTAGTGCG 59.333 55.000 25.63 18.82 42.37 5.34
2729 3228 0.663568 CATACTAGCGGGTAGTGCGC 60.664 60.000 25.63 0.00 42.37 6.09
2812 3311 8.937634 AGTCATCTCAAAATTTGATTAATGGC 57.062 30.769 9.02 13.54 39.30 4.40
2813 3312 8.533657 AGTCATCTCAAAATTTGATTAATGGCA 58.466 29.630 21.41 0.00 39.30 4.92
2814 3313 9.153721 GTCATCTCAAAATTTGATTAATGGCAA 57.846 29.630 17.68 0.00 39.30 4.52
2815 3314 9.722184 TCATCTCAAAATTTGATTAATGGCAAA 57.278 25.926 9.02 0.00 39.30 3.68
2816 3315 9.982291 CATCTCAAAATTTGATTAATGGCAAAG 57.018 29.630 9.02 0.00 39.30 2.77
2817 3316 9.729281 ATCTCAAAATTTGATTAATGGCAAAGT 57.271 25.926 9.02 3.55 39.30 2.66
2820 3319 9.995003 TCAAAATTTGATTAATGGCAAAGTAGT 57.005 25.926 4.03 0.00 37.41 2.73
2831 3330 5.890424 TGGCAAAGTAGTTTATACAAGGC 57.110 39.130 0.00 0.00 0.00 4.35
2832 3331 4.703093 TGGCAAAGTAGTTTATACAAGGCC 59.297 41.667 10.05 10.05 37.07 5.19
2833 3332 4.097437 GGCAAAGTAGTTTATACAAGGCCC 59.903 45.833 0.00 0.00 0.00 5.80
2834 3333 4.948004 GCAAAGTAGTTTATACAAGGCCCT 59.052 41.667 0.00 0.00 0.00 5.19
2835 3334 5.163652 GCAAAGTAGTTTATACAAGGCCCTG 60.164 44.000 0.00 0.00 0.00 4.45
2836 3335 5.774102 AAGTAGTTTATACAAGGCCCTGT 57.226 39.130 12.63 12.63 0.00 4.00
2837 3336 5.774102 AGTAGTTTATACAAGGCCCTGTT 57.226 39.130 13.35 3.49 0.00 3.16
2838 3337 5.497474 AGTAGTTTATACAAGGCCCTGTTG 58.503 41.667 13.35 7.01 0.00 3.33
2839 3338 3.697166 AGTTTATACAAGGCCCTGTTGG 58.303 45.455 13.35 0.00 37.09 3.77
2840 3339 3.075432 AGTTTATACAAGGCCCTGTTGGT 59.925 43.478 13.35 2.25 36.04 3.67
2841 3340 2.799126 TATACAAGGCCCTGTTGGTG 57.201 50.000 13.35 0.00 36.04 4.17
2842 3341 0.777446 ATACAAGGCCCTGTTGGTGT 59.223 50.000 13.35 1.95 36.04 4.16
2843 3342 0.179004 TACAAGGCCCTGTTGGTGTG 60.179 55.000 13.35 0.00 36.04 3.82
2844 3343 1.152777 CAAGGCCCTGTTGGTGTGA 60.153 57.895 0.00 0.00 36.04 3.58
2845 3344 0.754957 CAAGGCCCTGTTGGTGTGAA 60.755 55.000 0.00 0.00 36.04 3.18
2846 3345 0.468029 AAGGCCCTGTTGGTGTGAAG 60.468 55.000 0.00 0.00 36.04 3.02
2847 3346 1.152756 GGCCCTGTTGGTGTGAAGT 60.153 57.895 0.00 0.00 36.04 3.01
2848 3347 0.755327 GGCCCTGTTGGTGTGAAGTT 60.755 55.000 0.00 0.00 36.04 2.66
2849 3348 1.111277 GCCCTGTTGGTGTGAAGTTT 58.889 50.000 0.00 0.00 36.04 2.66
2850 3349 1.480545 GCCCTGTTGGTGTGAAGTTTT 59.519 47.619 0.00 0.00 36.04 2.43
2851 3350 2.093711 GCCCTGTTGGTGTGAAGTTTTT 60.094 45.455 0.00 0.00 36.04 1.94
2852 3351 3.520569 CCCTGTTGGTGTGAAGTTTTTG 58.479 45.455 0.00 0.00 0.00 2.44
2853 3352 3.194542 CCCTGTTGGTGTGAAGTTTTTGA 59.805 43.478 0.00 0.00 0.00 2.69
2854 3353 4.423732 CCTGTTGGTGTGAAGTTTTTGAG 58.576 43.478 0.00 0.00 0.00 3.02
2855 3354 4.157656 CCTGTTGGTGTGAAGTTTTTGAGA 59.842 41.667 0.00 0.00 0.00 3.27
2856 3355 5.336372 CCTGTTGGTGTGAAGTTTTTGAGAA 60.336 40.000 0.00 0.00 0.00 2.87
2857 3356 6.279513 TGTTGGTGTGAAGTTTTTGAGAAT 57.720 33.333 0.00 0.00 0.00 2.40
2858 3357 6.696411 TGTTGGTGTGAAGTTTTTGAGAATT 58.304 32.000 0.00 0.00 0.00 2.17
2859 3358 7.158021 TGTTGGTGTGAAGTTTTTGAGAATTT 58.842 30.769 0.00 0.00 0.00 1.82
2860 3359 7.117523 TGTTGGTGTGAAGTTTTTGAGAATTTG 59.882 33.333 0.00 0.00 0.00 2.32
2861 3360 6.696411 TGGTGTGAAGTTTTTGAGAATTTGT 58.304 32.000 0.00 0.00 0.00 2.83
2862 3361 7.158021 TGGTGTGAAGTTTTTGAGAATTTGTT 58.842 30.769 0.00 0.00 0.00 2.83
2863 3362 7.117523 TGGTGTGAAGTTTTTGAGAATTTGTTG 59.882 33.333 0.00 0.00 0.00 3.33
2864 3363 7.117667 GGTGTGAAGTTTTTGAGAATTTGTTGT 59.882 33.333 0.00 0.00 0.00 3.32
2865 3364 9.134734 GTGTGAAGTTTTTGAGAATTTGTTGTA 57.865 29.630 0.00 0.00 0.00 2.41
2866 3365 9.868277 TGTGAAGTTTTTGAGAATTTGTTGTAT 57.132 25.926 0.00 0.00 0.00 2.29
2868 3367 9.868277 TGAAGTTTTTGAGAATTTGTTGTATGT 57.132 25.926 0.00 0.00 0.00 2.29
2896 3395 5.880054 ATGTGTGTATCTTTGTAGTTGCC 57.120 39.130 0.00 0.00 0.00 4.52
2897 3396 4.709250 TGTGTGTATCTTTGTAGTTGCCA 58.291 39.130 0.00 0.00 0.00 4.92
2898 3397 5.126779 TGTGTGTATCTTTGTAGTTGCCAA 58.873 37.500 0.00 0.00 0.00 4.52
2899 3398 5.238432 TGTGTGTATCTTTGTAGTTGCCAAG 59.762 40.000 0.00 0.00 0.00 3.61
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
50 52 1.884235 AGGCGCAAAGTATATCAGGC 58.116 50.000 10.83 0.00 0.00 4.85
125 127 6.749923 AGCTATCAGCAAAGAAGGTAAAAG 57.250 37.500 0.38 0.00 45.56 2.27
127 129 6.947464 ACTAGCTATCAGCAAAGAAGGTAAA 58.053 36.000 0.00 0.00 45.56 2.01
129 131 7.841282 ATACTAGCTATCAGCAAAGAAGGTA 57.159 36.000 0.00 0.00 45.56 3.08
130 132 6.739331 ATACTAGCTATCAGCAAAGAAGGT 57.261 37.500 0.00 0.00 45.56 3.50
131 133 7.093992 GGTATACTAGCTATCAGCAAAGAAGG 58.906 42.308 2.25 0.00 45.56 3.46
283 300 1.068125 CGGTGTAACATCAGACGGTCA 60.068 52.381 11.27 0.00 39.98 4.02
299 316 4.764336 CGCAAGCATGTGCCGGTG 62.764 66.667 1.90 0.00 41.73 4.94
348 386 3.054139 CAGAGAGGGGATGAAAATCACCA 60.054 47.826 9.58 0.00 46.55 4.17
396 441 1.537202 GCACCACTTCGCAATTTCTCT 59.463 47.619 0.00 0.00 0.00 3.10
459 559 1.847968 CCACCCTCAAGTCCCCAGT 60.848 63.158 0.00 0.00 0.00 4.00
460 560 3.081554 CCACCCTCAAGTCCCCAG 58.918 66.667 0.00 0.00 0.00 4.45
473 573 3.187227 CAGCTACATGATTAATCGCCACC 59.813 47.826 10.80 0.00 0.00 4.61
479 579 6.857777 AAGACTGCAGCTACATGATTAATC 57.142 37.500 15.27 8.60 0.00 1.75
484 584 3.688185 CACAAAGACTGCAGCTACATGAT 59.312 43.478 15.27 0.00 0.00 2.45
513 616 9.388506 CATTATTCCTTAGGAAATCAGCGATAT 57.611 33.333 18.34 0.00 45.41 1.63
514 617 8.375506 ACATTATTCCTTAGGAAATCAGCGATA 58.624 33.333 18.34 0.24 45.41 2.92
515 618 7.227156 ACATTATTCCTTAGGAAATCAGCGAT 58.773 34.615 18.34 1.25 45.41 4.58
517 620 6.867662 ACATTATTCCTTAGGAAATCAGCG 57.132 37.500 18.34 7.28 45.41 5.18
558 661 1.412079 AACAAGCATCTGTTGGCCAA 58.588 45.000 16.05 16.05 38.12 4.52
568 671 2.430465 TCAGAAGAGCCAACAAGCATC 58.570 47.619 0.00 0.00 34.23 3.91
602 705 0.106268 TTTCCCTCTGCCAACAAGCA 60.106 50.000 0.00 0.00 41.46 3.91
605 708 0.260230 TGGTTTCCCTCTGCCAACAA 59.740 50.000 0.00 0.00 0.00 2.83
606 709 0.467290 GTGGTTTCCCTCTGCCAACA 60.467 55.000 0.00 0.00 32.26 3.33
607 710 0.467290 TGTGGTTTCCCTCTGCCAAC 60.467 55.000 0.00 0.00 32.26 3.77
608 711 0.178992 CTGTGGTTTCCCTCTGCCAA 60.179 55.000 0.00 0.00 32.26 4.52
614 719 1.056660 TGGAGTCTGTGGTTTCCCTC 58.943 55.000 0.00 0.00 0.00 4.30
619 724 2.919228 GACTGTTGGAGTCTGTGGTTT 58.081 47.619 0.00 0.00 46.85 3.27
685 798 1.266178 GGCTTTGCCCTACCATTTGT 58.734 50.000 0.00 0.00 44.06 2.83
877 1005 2.045926 CAGGACCCAAAGCCGAGG 60.046 66.667 0.00 0.00 0.00 4.63
1016 1154 0.321298 CGGTGACCCCATTTCTTCGT 60.321 55.000 0.00 0.00 0.00 3.85
1061 1220 4.335315 TGAAAGCGGTAAATATTGAGCTGG 59.665 41.667 0.00 0.00 34.94 4.85
1081 1240 1.000060 ACGTAAACTGCTAGCCGTGAA 60.000 47.619 12.88 1.28 0.00 3.18
1085 1244 1.127951 CCAAACGTAAACTGCTAGCCG 59.872 52.381 13.29 8.69 0.00 5.52
1098 1287 6.243148 AGGGTTGTATTATTTCTCCAAACGT 58.757 36.000 0.00 0.00 0.00 3.99
1107 1296 7.602644 TCATGCTATCGAGGGTTGTATTATTTC 59.397 37.037 0.00 0.00 0.00 2.17
1111 1300 5.538813 ACTCATGCTATCGAGGGTTGTATTA 59.461 40.000 0.00 0.00 33.36 0.98
1117 1306 2.898729 CACTCATGCTATCGAGGGTT 57.101 50.000 0.00 0.00 33.36 4.11
1130 1319 3.475566 AACTGTATATGCGGCACTCAT 57.524 42.857 4.03 1.57 37.59 2.90
1132 1321 3.194861 TCAAACTGTATATGCGGCACTC 58.805 45.455 4.03 0.00 0.00 3.51
1133 1322 3.260475 TCAAACTGTATATGCGGCACT 57.740 42.857 4.03 0.00 0.00 4.40
1134 1323 3.312421 ACATCAAACTGTATATGCGGCAC 59.688 43.478 4.03 0.00 0.00 5.01
1135 1324 3.540617 ACATCAAACTGTATATGCGGCA 58.459 40.909 4.58 4.58 0.00 5.69
1136 1325 4.552166 AACATCAAACTGTATATGCGGC 57.448 40.909 0.00 0.00 0.00 6.53
1137 1326 6.126741 CGTAAACATCAAACTGTATATGCGG 58.873 40.000 0.00 0.00 0.00 5.69
1138 1327 6.701937 ACGTAAACATCAAACTGTATATGCG 58.298 36.000 0.00 0.00 0.00 4.73
1139 1328 8.785101 CAAACGTAAACATCAAACTGTATATGC 58.215 33.333 0.00 0.00 0.00 3.14
1140 1329 9.272901 CCAAACGTAAACATCAAACTGTATATG 57.727 33.333 0.00 0.00 0.00 1.78
1141 1330 9.221933 TCCAAACGTAAACATCAAACTGTATAT 57.778 29.630 0.00 0.00 0.00 0.86
1144 1333 6.762187 TCTCCAAACGTAAACATCAAACTGTA 59.238 34.615 0.00 0.00 0.00 2.74
1159 1348 6.243148 AGGGTTGTATTATTTCTCCAAACGT 58.757 36.000 0.00 0.00 0.00 3.99
1166 1355 5.695363 GCTACCGAGGGTTGTATTATTTCTC 59.305 44.000 0.00 0.00 37.09 2.87
1168 1357 5.362263 TGCTACCGAGGGTTGTATTATTTC 58.638 41.667 0.00 0.00 37.09 2.17
1176 1365 3.039011 AGAATATGCTACCGAGGGTTGT 58.961 45.455 0.00 0.00 37.09 3.32
1181 1370 1.620819 AGCCAGAATATGCTACCGAGG 59.379 52.381 0.00 0.00 35.69 4.63
1203 1682 1.475280 CATGAGGGCATGGTCTTTGTG 59.525 52.381 0.00 0.00 46.45 3.33
1260 1739 6.099557 ACCATGATTCTTTTGTCCAGGAAAAA 59.900 34.615 0.00 0.00 0.00 1.94
1288 1767 9.088512 CATCAAGGTAAAGGCGAATATATCTAC 57.911 37.037 0.00 0.00 0.00 2.59
1295 1774 6.588204 ACATACATCAAGGTAAAGGCGAATA 58.412 36.000 0.00 0.00 0.00 1.75
1322 1801 1.665161 GCATGACACAGAGCAAACTGC 60.665 52.381 0.00 0.00 45.46 4.40
1323 1802 1.878088 AGCATGACACAGAGCAAACTG 59.122 47.619 0.00 0.00 42.78 3.16
1324 1803 2.267174 AGCATGACACAGAGCAAACT 57.733 45.000 0.00 0.00 0.00 2.66
1349 1830 1.461559 ACTAGACGAGCAGTGGGTAC 58.538 55.000 0.00 0.00 0.00 3.34
1351 1832 2.025155 CATACTAGACGAGCAGTGGGT 58.975 52.381 0.00 0.00 0.00 4.51
1353 1834 4.790123 GCTTACATACTAGACGAGCAGTGG 60.790 50.000 0.00 0.00 0.00 4.00
1356 1837 3.607310 CGGCTTACATACTAGACGAGCAG 60.607 52.174 0.00 0.00 45.64 4.24
1358 1839 2.290093 ACGGCTTACATACTAGACGAGC 59.710 50.000 4.15 0.00 45.64 5.03
1359 1840 3.558829 TGACGGCTTACATACTAGACGAG 59.441 47.826 4.15 0.00 45.64 4.18
1360 1841 3.534554 TGACGGCTTACATACTAGACGA 58.465 45.455 4.15 0.00 45.64 4.20
1362 1843 6.074544 AGAATGACGGCTTACATACTAGAC 57.925 41.667 0.00 0.00 0.00 2.59
1363 1844 6.710597 AAGAATGACGGCTTACATACTAGA 57.289 37.500 0.00 0.00 0.00 2.43
1364 1845 6.757010 ACAAAGAATGACGGCTTACATACTAG 59.243 38.462 0.00 0.00 0.00 2.57
1365 1846 6.636705 ACAAAGAATGACGGCTTACATACTA 58.363 36.000 0.00 0.00 0.00 1.82
1366 1847 5.488341 ACAAAGAATGACGGCTTACATACT 58.512 37.500 0.00 0.00 0.00 2.12
1367 1848 5.796350 ACAAAGAATGACGGCTTACATAC 57.204 39.130 0.00 0.00 0.00 2.39
1370 1851 3.500680 GGAACAAAGAATGACGGCTTACA 59.499 43.478 0.00 0.00 0.00 2.41
1374 1855 2.154462 CTGGAACAAAGAATGACGGCT 58.846 47.619 0.00 0.00 38.70 5.52
1378 1859 3.057946 GCAGGACTGGAACAAAGAATGAC 60.058 47.826 1.01 0.00 38.70 3.06
1408 1889 3.643792 AGCCCAAGATAGTGGTATCAGAC 59.356 47.826 0.00 0.00 38.04 3.51
1409 1890 3.898123 GAGCCCAAGATAGTGGTATCAGA 59.102 47.826 0.00 0.00 38.04 3.27
1410 1891 3.900601 AGAGCCCAAGATAGTGGTATCAG 59.099 47.826 0.00 0.00 38.04 2.90
1411 1892 3.928754 AGAGCCCAAGATAGTGGTATCA 58.071 45.455 0.00 0.00 38.04 2.15
1412 1893 6.183360 TGTTTAGAGCCCAAGATAGTGGTATC 60.183 42.308 0.00 0.00 36.90 2.24
1413 1894 5.665812 TGTTTAGAGCCCAAGATAGTGGTAT 59.334 40.000 0.00 0.00 36.90 2.73
1414 1895 5.027460 TGTTTAGAGCCCAAGATAGTGGTA 58.973 41.667 0.00 0.00 36.90 3.25
1415 1896 3.844211 TGTTTAGAGCCCAAGATAGTGGT 59.156 43.478 0.00 0.00 36.90 4.16
1692 2174 2.035469 ATCACCACATTGGCCGCA 59.965 55.556 0.00 0.00 42.67 5.69
1695 2177 1.039233 CCCTGATCACCACATTGGCC 61.039 60.000 0.00 0.00 42.67 5.36
1731 2213 1.355066 CTTCCTCGAGCCGTTTCAGC 61.355 60.000 6.99 0.00 0.00 4.26
1743 2225 2.445438 GCGCTCGGTTTCTTCCTCG 61.445 63.158 0.00 0.00 0.00 4.63
1755 2237 4.519437 TGCTCCATCAGGCGCTCG 62.519 66.667 7.64 0.00 45.91 5.03
1790 2272 1.256812 AACAAGCTTGGGTATGGCAC 58.743 50.000 29.18 0.00 0.00 5.01
1792 2274 2.024414 CCTAACAAGCTTGGGTATGGC 58.976 52.381 29.18 0.00 0.00 4.40
1793 2275 2.654863 CCCTAACAAGCTTGGGTATGG 58.345 52.381 29.18 20.78 35.13 2.74
1798 2280 0.967380 CAGCCCCTAACAAGCTTGGG 60.967 60.000 29.18 21.02 39.37 4.12
1839 2321 8.413229 AGCTTAAGACTATGAGAGAATGAACTC 58.587 37.037 6.67 0.00 37.19 3.01
1840 2322 8.305046 AGCTTAAGACTATGAGAGAATGAACT 57.695 34.615 6.67 0.00 0.00 3.01
1903 2385 2.281539 TCCGATACCGAGAATAGCCA 57.718 50.000 0.00 0.00 38.22 4.75
1908 2390 3.793559 CCACTTTTCCGATACCGAGAAT 58.206 45.455 0.00 0.00 38.22 2.40
1921 2403 3.186613 CCTTAGTCAACGAGCCACTTTTC 59.813 47.826 0.00 0.00 0.00 2.29
1923 2405 2.104281 ACCTTAGTCAACGAGCCACTTT 59.896 45.455 0.00 0.00 0.00 2.66
1933 2415 5.921408 CACTTCACTACAGACCTTAGTCAAC 59.079 44.000 0.00 0.00 46.15 3.18
1945 2427 3.681897 GTCAATGAGCCACTTCACTACAG 59.318 47.826 0.00 0.00 0.00 2.74
2088 2586 8.991243 ACTACATTTTAGTACGATTGCTTACA 57.009 30.769 0.00 0.00 0.00 2.41
2229 2727 9.538508 CAGACTCATTCAACATATCTGATGTAA 57.461 33.333 0.00 0.00 35.22 2.41
2263 2761 1.744522 GTCTTGAGACGGAGGGAGTAC 59.255 57.143 0.00 0.00 35.12 2.73
2311 2809 0.616964 AAAGGTACTCCCTCCGTCCC 60.617 60.000 0.00 0.00 45.47 4.46
2617 3116 0.625683 ATCTGGGAGGGAACTGGCAT 60.626 55.000 0.00 0.00 44.43 4.40
2622 3121 3.049344 GTCCATAATCTGGGAGGGAACT 58.951 50.000 0.00 0.00 45.98 3.01
2710 3209 3.474007 CGCACTACCCGCTAGTATG 57.526 57.895 0.00 0.00 33.53 2.39
2738 3237 4.389576 CACTCTTTGTGGCGCGGC 62.390 66.667 27.61 27.61 42.68 6.53
2739 3238 0.739462 TATCACTCTTTGTGGCGCGG 60.739 55.000 8.83 0.00 46.20 6.46
2740 3239 1.061131 CTTATCACTCTTTGTGGCGCG 59.939 52.381 0.00 0.00 46.20 6.86
2741 3240 1.202076 GCTTATCACTCTTTGTGGCGC 60.202 52.381 0.00 0.00 46.20 6.53
2742 3241 2.350522 AGCTTATCACTCTTTGTGGCG 58.649 47.619 0.00 0.00 46.20 5.69
2743 3242 6.442513 AAATAGCTTATCACTCTTTGTGGC 57.557 37.500 0.00 0.00 46.20 5.01
2744 3243 8.723942 ACTAAATAGCTTATCACTCTTTGTGG 57.276 34.615 0.00 0.00 46.20 4.17
2786 3285 9.374838 GCCATTAATCAAATTTTGAGATGACTT 57.625 29.630 21.93 12.91 43.98 3.01
2787 3286 8.533657 TGCCATTAATCAAATTTTGAGATGACT 58.466 29.630 21.93 5.22 43.98 3.41
2788 3287 8.706492 TGCCATTAATCAAATTTTGAGATGAC 57.294 30.769 21.93 16.10 43.98 3.06
2789 3288 9.722184 TTTGCCATTAATCAAATTTTGAGATGA 57.278 25.926 21.93 11.65 43.98 2.92
2790 3289 9.982291 CTTTGCCATTAATCAAATTTTGAGATG 57.018 29.630 16.34 17.00 43.98 2.90
2791 3290 9.729281 ACTTTGCCATTAATCAAATTTTGAGAT 57.271 25.926 16.34 10.62 43.98 2.75
2794 3293 9.995003 ACTACTTTGCCATTAATCAAATTTTGA 57.005 25.926 13.88 13.88 45.01 2.69
2805 3304 8.463607 GCCTTGTATAAACTACTTTGCCATTAA 58.536 33.333 0.00 0.00 0.00 1.40
2806 3305 7.067737 GGCCTTGTATAAACTACTTTGCCATTA 59.932 37.037 0.00 0.00 34.24 1.90
2807 3306 6.127451 GGCCTTGTATAAACTACTTTGCCATT 60.127 38.462 0.00 0.00 34.24 3.16
2808 3307 5.359860 GGCCTTGTATAAACTACTTTGCCAT 59.640 40.000 0.00 0.00 34.24 4.40
2809 3308 4.703093 GGCCTTGTATAAACTACTTTGCCA 59.297 41.667 0.00 0.00 34.24 4.92
2810 3309 4.097437 GGGCCTTGTATAAACTACTTTGCC 59.903 45.833 0.84 0.00 0.00 4.52
2811 3310 4.948004 AGGGCCTTGTATAAACTACTTTGC 59.052 41.667 0.00 0.00 0.00 3.68
2812 3311 5.944007 ACAGGGCCTTGTATAAACTACTTTG 59.056 40.000 20.60 0.00 0.00 2.77
2813 3312 6.135819 ACAGGGCCTTGTATAAACTACTTT 57.864 37.500 20.60 0.00 0.00 2.66
2814 3313 5.774102 ACAGGGCCTTGTATAAACTACTT 57.226 39.130 20.60 0.00 0.00 2.24
2815 3314 5.497474 CAACAGGGCCTTGTATAAACTACT 58.503 41.667 22.32 0.00 0.00 2.57
2816 3315 4.638865 CCAACAGGGCCTTGTATAAACTAC 59.361 45.833 22.32 0.00 0.00 2.73
2817 3316 4.290196 ACCAACAGGGCCTTGTATAAACTA 59.710 41.667 22.32 0.00 42.05 2.24
2818 3317 3.075432 ACCAACAGGGCCTTGTATAAACT 59.925 43.478 22.32 0.63 42.05 2.66
2819 3318 3.192633 CACCAACAGGGCCTTGTATAAAC 59.807 47.826 22.32 0.00 42.05 2.01
2820 3319 3.181427 ACACCAACAGGGCCTTGTATAAA 60.181 43.478 22.32 0.00 42.05 1.40
2821 3320 2.377193 ACACCAACAGGGCCTTGTATAA 59.623 45.455 22.32 0.00 42.05 0.98
2822 3321 1.989586 ACACCAACAGGGCCTTGTATA 59.010 47.619 22.32 0.00 42.05 1.47
2823 3322 0.777446 ACACCAACAGGGCCTTGTAT 59.223 50.000 22.32 8.82 42.05 2.29
2824 3323 0.179004 CACACCAACAGGGCCTTGTA 60.179 55.000 22.32 0.00 42.05 2.41
2825 3324 1.455587 CACACCAACAGGGCCTTGT 60.456 57.895 16.01 16.01 42.05 3.16
2826 3325 0.754957 TTCACACCAACAGGGCCTTG 60.755 55.000 14.35 14.35 42.05 3.61
2827 3326 0.468029 CTTCACACCAACAGGGCCTT 60.468 55.000 1.32 0.00 42.05 4.35
2828 3327 1.151450 CTTCACACCAACAGGGCCT 59.849 57.895 0.00 0.00 42.05 5.19
2829 3328 0.755327 AACTTCACACCAACAGGGCC 60.755 55.000 0.00 0.00 42.05 5.80
2830 3329 1.111277 AAACTTCACACCAACAGGGC 58.889 50.000 0.00 0.00 42.05 5.19
2831 3330 3.194542 TCAAAAACTTCACACCAACAGGG 59.805 43.478 0.00 0.00 44.81 4.45
2832 3331 4.157656 TCTCAAAAACTTCACACCAACAGG 59.842 41.667 0.00 0.00 0.00 4.00
2833 3332 5.309323 TCTCAAAAACTTCACACCAACAG 57.691 39.130 0.00 0.00 0.00 3.16
2834 3333 5.713792 TTCTCAAAAACTTCACACCAACA 57.286 34.783 0.00 0.00 0.00 3.33
2835 3334 7.117667 ACAAATTCTCAAAAACTTCACACCAAC 59.882 33.333 0.00 0.00 0.00 3.77
2836 3335 7.158021 ACAAATTCTCAAAAACTTCACACCAA 58.842 30.769 0.00 0.00 0.00 3.67
2837 3336 6.696411 ACAAATTCTCAAAAACTTCACACCA 58.304 32.000 0.00 0.00 0.00 4.17
2838 3337 7.117667 ACAACAAATTCTCAAAAACTTCACACC 59.882 33.333 0.00 0.00 0.00 4.16
2839 3338 8.017587 ACAACAAATTCTCAAAAACTTCACAC 57.982 30.769 0.00 0.00 0.00 3.82
2840 3339 9.868277 ATACAACAAATTCTCAAAAACTTCACA 57.132 25.926 0.00 0.00 0.00 3.58
2842 3341 9.868277 ACATACAACAAATTCTCAAAAACTTCA 57.132 25.926 0.00 0.00 0.00 3.02
2870 3369 9.104965 GGCAACTACAAAGATACACACATATAA 57.895 33.333 0.00 0.00 0.00 0.98
2871 3370 8.261522 TGGCAACTACAAAGATACACACATATA 58.738 33.333 0.00 0.00 37.61 0.86
2872 3371 7.109501 TGGCAACTACAAAGATACACACATAT 58.890 34.615 0.00 0.00 37.61 1.78
2873 3372 6.468543 TGGCAACTACAAAGATACACACATA 58.531 36.000 0.00 0.00 37.61 2.29
2874 3373 5.312895 TGGCAACTACAAAGATACACACAT 58.687 37.500 0.00 0.00 37.61 3.21
2875 3374 4.709250 TGGCAACTACAAAGATACACACA 58.291 39.130 0.00 0.00 37.61 3.72
2876 3375 5.682943 TTGGCAACTACAAAGATACACAC 57.317 39.130 0.00 0.00 37.61 3.82
2877 3376 5.940192 CTTGGCAACTACAAAGATACACA 57.060 39.130 0.00 0.00 37.61 3.72


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

AutoCloner maintained by Alex Coulton.