Multiple sequence alignment - TraesCS4D01G091900

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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 TraesCS4D01G091900 chr4D 100.000 2681 0 0 1 2681 66936332 66933652 0.000000e+00 4951.0
1 TraesCS4D01G091900 chr4D 91.660 1163 52 16 665 1817 67238585 67239712 0.000000e+00 1568.0
2 TraesCS4D01G091900 chr4D 89.504 524 27 13 2164 2681 117711381 117710880 2.910000e-179 638.0
3 TraesCS4D01G091900 chr4D 79.337 392 55 18 2001 2372 117710554 117710939 4.430000e-63 252.0
4 TraesCS4D01G091900 chr4D 83.456 272 25 10 181 448 67237992 67238247 4.460000e-58 235.0
5 TraesCS4D01G091900 chr4D 87.958 191 21 2 1 189 67237882 67238072 9.660000e-55 224.0
6 TraesCS4D01G091900 chr4D 86.713 143 5 5 1870 2000 291758508 291758368 2.150000e-31 147.0
7 TraesCS4D01G091900 chr4A 91.150 1209 74 14 564 1766 516342614 516343795 0.000000e+00 1609.0
8 TraesCS4D01G091900 chr4A 89.182 1063 74 20 707 1766 515750535 515749511 0.000000e+00 1288.0
9 TraesCS4D01G091900 chr4A 84.942 259 35 4 177 432 516214114 516214371 2.650000e-65 259.0
10 TraesCS4D01G091900 chr4A 85.417 192 24 4 181 369 515753976 515753786 2.110000e-46 196.0
11 TraesCS4D01G091900 chr4A 90.845 142 9 4 2007 2145 641479888 641479748 1.270000e-43 187.0
12 TraesCS4D01G091900 chr4B 91.652 1138 80 9 603 1736 99040238 99041364 0.000000e+00 1561.0
13 TraesCS4D01G091900 chr4B 92.959 980 56 8 844 1817 99077966 99078938 0.000000e+00 1415.0
14 TraesCS4D01G091900 chr4B 90.325 1106 51 15 758 1817 99048680 99049775 0.000000e+00 1399.0
15 TraesCS4D01G091900 chr4B 96.901 355 9 1 1465 1817 99051869 99052223 6.390000e-166 593.0
16 TraesCS4D01G091900 chr4B 85.609 271 35 4 181 448 99048007 99048276 5.650000e-72 281.0
17 TraesCS4D01G091900 chr4B 83.696 276 41 4 177 449 99051142 99051416 9.520000e-65 257.0
18 TraesCS4D01G091900 chr4B 83.902 205 31 2 1 204 99051037 99051240 7.570000e-46 195.0
19 TraesCS4D01G091900 chr4B 94.595 74 1 3 1746 1817 99041548 99041620 7.850000e-21 111.0
20 TraesCS4D01G091900 chr5A 87.845 543 32 14 2146 2681 670139667 670139152 8.210000e-170 606.0
21 TraesCS4D01G091900 chr5A 75.273 732 105 49 2002 2678 670139954 670139244 2.030000e-71 279.0
22 TraesCS4D01G091900 chr1B 85.584 548 59 14 2146 2678 57224560 57225102 8.380000e-155 556.0
23 TraesCS4D01G091900 chr1B 78.025 405 56 19 2000 2381 57225431 57225037 9.660000e-55 224.0
24 TraesCS4D01G091900 chr6D 87.965 457 42 7 2236 2681 473300737 473301191 6.570000e-146 527.0
25 TraesCS4D01G091900 chr1D 83.748 523 48 14 2164 2678 285110952 285110459 6.760000e-126 460.0
26 TraesCS4D01G091900 chr1D 83.333 144 9 4 1870 2000 433408183 433408042 4.690000e-23 119.0
27 TraesCS4D01G091900 chr1A 81.868 546 75 19 2148 2678 523368895 523368359 3.170000e-119 438.0
28 TraesCS4D01G091900 chr1A 81.157 536 78 18 2158 2678 523367657 523367130 2.480000e-110 409.0
29 TraesCS4D01G091900 chr5B 81.136 546 77 18 2146 2678 65535689 65536221 5.340000e-112 414.0
30 TraesCS4D01G091900 chr5B 93.243 148 8 2 2000 2145 65535336 65535483 1.620000e-52 217.0
31 TraesCS4D01G091900 chr5B 88.514 148 15 2 1999 2145 61361494 61361640 7.630000e-41 178.0
32 TraesCS4D01G091900 chrUn 81.157 536 78 18 2158 2678 410923065 410922538 2.480000e-110 409.0
33 TraesCS4D01G091900 chr7A 82.561 367 45 13 2008 2359 690435478 690435116 3.350000e-79 305.0
34 TraesCS4D01G091900 chr6B 91.837 147 9 3 2001 2145 240249672 240249527 4.530000e-48 202.0
35 TraesCS4D01G091900 chr6B 91.367 139 12 0 2006 2144 183359909 183360047 9.800000e-45 191.0
36 TraesCS4D01G091900 chr7B 82.692 104 4 4 1909 2000 646029221 646029120 2.210000e-11 80.5


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 TraesCS4D01G091900 chr4D 66933652 66936332 2680 True 4951.000000 4951 100.000000 1 2681 1 chr4D.!!$R1 2680
1 TraesCS4D01G091900 chr4D 67237882 67239712 1830 False 675.666667 1568 87.691333 1 1817 3 chr4D.!!$F2 1816
2 TraesCS4D01G091900 chr4D 117710880 117711381 501 True 638.000000 638 89.504000 2164 2681 1 chr4D.!!$R2 517
3 TraesCS4D01G091900 chr4A 516342614 516343795 1181 False 1609.000000 1609 91.150000 564 1766 1 chr4A.!!$F2 1202
4 TraesCS4D01G091900 chr4A 515749511 515753976 4465 True 742.000000 1288 87.299500 181 1766 2 chr4A.!!$R2 1585
5 TraesCS4D01G091900 chr4B 99077966 99078938 972 False 1415.000000 1415 92.959000 844 1817 1 chr4B.!!$F1 973
6 TraesCS4D01G091900 chr4B 99040238 99041620 1382 False 836.000000 1561 93.123500 603 1817 2 chr4B.!!$F2 1214
7 TraesCS4D01G091900 chr4B 99048007 99052223 4216 False 545.000000 1399 88.086600 1 1817 5 chr4B.!!$F3 1816
8 TraesCS4D01G091900 chr5A 670139152 670139954 802 True 442.500000 606 81.559000 2002 2681 2 chr5A.!!$R1 679
9 TraesCS4D01G091900 chr1B 57224560 57225102 542 False 556.000000 556 85.584000 2146 2678 1 chr1B.!!$F1 532
10 TraesCS4D01G091900 chr1A 523367130 523368895 1765 True 423.500000 438 81.512500 2148 2678 2 chr1A.!!$R1 530
11 TraesCS4D01G091900 chr5B 65535336 65536221 885 False 315.500000 414 87.189500 2000 2678 2 chr5B.!!$F2 678
12 TraesCS4D01G091900 chrUn 410922538 410923065 527 True 409.000000 409 81.157000 2158 2678 1 chrUn.!!$R1 520

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
495 2093 0.182061 GGTTTCCCCCTCCGATTACC 59.818 60.0 0.0 0.0 0.0 2.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1909 7811 0.034337 TCTTTCGTTCGGTGGGAAGG 59.966 55.0 0.0 0.0 40.92 3.46 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
40 42 8.474006 ACTTTAAACATTTCAACAAACAGGTC 57.526 30.769 0.00 0.00 0.00 3.85
42 44 3.708563 ACATTTCAACAAACAGGTCGG 57.291 42.857 0.00 0.00 0.00 4.79
43 45 3.020984 ACATTTCAACAAACAGGTCGGT 58.979 40.909 0.00 0.00 0.00 4.69
46 48 2.631160 TCAACAAACAGGTCGGTGAT 57.369 45.000 0.00 0.00 0.00 3.06
100 102 2.562912 CACGGCAACCACAGATGC 59.437 61.111 0.00 0.00 41.82 3.91
108 110 3.129502 CCACAGATGCAGGTGCCG 61.130 66.667 9.70 0.00 41.18 5.69
110 112 4.025858 ACAGATGCAGGTGCCGCT 62.026 61.111 0.00 0.00 41.18 5.52
146 148 4.720902 CCCACCGCCATGCAGTCA 62.721 66.667 0.00 0.00 0.00 3.41
147 149 2.438975 CCACCGCCATGCAGTCAT 60.439 61.111 0.00 0.00 0.00 3.06
148 150 2.475466 CCACCGCCATGCAGTCATC 61.475 63.158 0.00 0.00 0.00 2.92
149 151 1.746239 CACCGCCATGCAGTCATCA 60.746 57.895 0.00 0.00 0.00 3.07
150 152 1.099295 CACCGCCATGCAGTCATCAT 61.099 55.000 0.00 0.00 0.00 2.45
151 153 1.099295 ACCGCCATGCAGTCATCATG 61.099 55.000 0.00 0.00 40.60 3.07
152 154 1.008881 CGCCATGCAGTCATCATGC 60.009 57.895 0.00 0.00 44.11 4.06
153 155 1.362717 GCCATGCAGTCATCATGCC 59.637 57.895 0.00 0.00 43.18 4.40
154 156 1.652563 CCATGCAGTCATCATGCCG 59.347 57.895 0.00 0.00 43.18 5.69
155 157 1.008881 CATGCAGTCATCATGCCGC 60.009 57.895 0.00 0.00 43.18 6.53
156 158 2.191513 ATGCAGTCATCATGCCGCC 61.192 57.895 0.00 0.00 43.18 6.13
157 159 3.945434 GCAGTCATCATGCCGCCG 61.945 66.667 0.00 0.00 37.73 6.46
158 160 2.202919 CAGTCATCATGCCGCCGA 60.203 61.111 0.00 0.00 0.00 5.54
159 161 2.202932 AGTCATCATGCCGCCGAC 60.203 61.111 0.00 0.00 0.00 4.79
160 162 3.630148 GTCATCATGCCGCCGACG 61.630 66.667 0.00 0.00 39.67 5.12
205 207 4.682334 CACTGCCATGCCCCACCA 62.682 66.667 0.00 0.00 0.00 4.17
259 262 3.402681 CATCGTCCCTGCCCCACT 61.403 66.667 0.00 0.00 0.00 4.00
343 346 1.069906 CAAGAGAAAGTGAAACGGCGG 60.070 52.381 13.24 0.00 45.86 6.13
413 417 3.700350 AGGAGGGGAGTGGAGGGG 61.700 72.222 0.00 0.00 0.00 4.79
441 445 4.131088 GGAGTCGTGGGTCGCCTC 62.131 72.222 0.00 0.00 42.74 4.70
442 446 4.477975 GAGTCGTGGGTCGCCTCG 62.478 72.222 0.00 0.00 34.98 4.63
444 448 4.353437 GTCGTGGGTCGCCTCGTT 62.353 66.667 0.00 0.00 39.67 3.85
446 450 3.110178 CGTGGGTCGCCTCGTTTC 61.110 66.667 0.00 0.00 0.00 2.78
448 452 4.011517 TGGGTCGCCTCGTTTCCC 62.012 66.667 0.00 0.00 35.49 3.97
449 453 4.772687 GGGTCGCCTCGTTTCCCC 62.773 72.222 0.00 0.00 31.82 4.81
459 1122 4.277423 CGCCTCGTTTCCCCAATTATTATT 59.723 41.667 0.00 0.00 0.00 1.40
488 2086 2.179427 CAAAGAATGGTTTCCCCCTCC 58.821 52.381 0.00 0.00 31.84 4.30
493 2091 1.901648 ATGGTTTCCCCCTCCGATTA 58.098 50.000 0.00 0.00 0.00 1.75
495 2093 0.182061 GGTTTCCCCCTCCGATTACC 59.818 60.000 0.00 0.00 0.00 2.85
501 2099 3.395604 TCCCCCTCCGATTACCATTAAA 58.604 45.455 0.00 0.00 0.00 1.52
503 2101 3.393278 CCCCCTCCGATTACCATTAAAGA 59.607 47.826 0.00 0.00 0.00 2.52
510 2108 7.385778 TCCGATTACCATTAAAGAAAACCAG 57.614 36.000 0.00 0.00 0.00 4.00
535 2135 2.464157 GAGCTACAAGCACCAGTTCT 57.536 50.000 1.22 0.00 45.56 3.01
537 2137 3.926616 GAGCTACAAGCACCAGTTCTTA 58.073 45.455 1.22 0.00 45.56 2.10
538 2138 3.665190 AGCTACAAGCACCAGTTCTTAC 58.335 45.455 1.22 0.00 45.56 2.34
539 2139 2.412089 GCTACAAGCACCAGTTCTTACG 59.588 50.000 0.00 0.00 41.89 3.18
540 2140 2.902705 ACAAGCACCAGTTCTTACGA 57.097 45.000 0.00 0.00 0.00 3.43
541 2141 2.480845 ACAAGCACCAGTTCTTACGAC 58.519 47.619 0.00 0.00 0.00 4.34
545 2148 1.732259 GCACCAGTTCTTACGACATGG 59.268 52.381 0.00 0.00 0.00 3.66
558 2161 1.678627 CGACATGGAAAACACACCCAA 59.321 47.619 0.00 0.00 33.15 4.12
597 2200 4.097741 CGCCTTGTTTCCCAATATGATTCA 59.902 41.667 0.00 0.00 31.20 2.57
640 2243 2.191513 GCACGCTGGCCATGATCAT 61.192 57.895 5.51 1.18 0.00 2.45
724 3938 1.429463 GCTCAGACACACCTAAACGG 58.571 55.000 0.00 0.00 39.35 4.44
725 3939 1.429463 CTCAGACACACCTAAACGGC 58.571 55.000 0.00 0.00 35.61 5.68
740 3964 1.242076 ACGGCTCAACTGTACGTACT 58.758 50.000 25.12 4.41 35.54 2.73
741 3965 1.198637 ACGGCTCAACTGTACGTACTC 59.801 52.381 25.12 1.60 35.54 2.59
742 3966 1.467035 CGGCTCAACTGTACGTACTCC 60.467 57.143 25.12 13.21 0.00 3.85
743 3967 1.817447 GGCTCAACTGTACGTACTCCT 59.183 52.381 25.12 7.61 0.00 3.69
744 3968 3.012518 GGCTCAACTGTACGTACTCCTA 58.987 50.000 25.12 5.33 0.00 2.94
745 3969 3.181502 GGCTCAACTGTACGTACTCCTAC 60.182 52.174 25.12 9.57 0.00 3.18
797 4021 2.885894 GGCTGCGAACTATAGTCCTACT 59.114 50.000 5.70 0.00 0.00 2.57
798 4022 3.058085 GGCTGCGAACTATAGTCCTACTC 60.058 52.174 5.70 0.00 0.00 2.59
799 4023 3.058085 GCTGCGAACTATAGTCCTACTCC 60.058 52.174 5.70 0.00 0.00 3.85
800 4024 4.391155 CTGCGAACTATAGTCCTACTCCT 58.609 47.826 5.70 0.00 0.00 3.69
801 4025 5.549347 CTGCGAACTATAGTCCTACTCCTA 58.451 45.833 5.70 0.00 0.00 2.94
802 4026 5.303971 TGCGAACTATAGTCCTACTCCTAC 58.696 45.833 5.70 0.00 0.00 3.18
818 4042 4.015084 CTCCTACGTAGAAACTCTTCCCA 58.985 47.826 24.15 0.00 31.28 4.37
913 4153 6.202762 CACCAGCTGAGTAAATCGCAATTATA 59.797 38.462 17.39 0.00 32.21 0.98
914 4154 6.202954 ACCAGCTGAGTAAATCGCAATTATAC 59.797 38.462 17.39 0.00 32.21 1.47
920 4160 7.269316 TGAGTAAATCGCAATTATACCTGTGA 58.731 34.615 0.29 0.29 36.56 3.58
1025 4270 1.583967 CTCTCGACACGATCCACGC 60.584 63.158 0.00 0.00 46.94 5.34
1308 4571 2.183555 GCGGTCCGGTTCGAGAAT 59.816 61.111 14.38 0.00 0.00 2.40
1366 4629 4.065281 GCCTCGCGGTGTGGTACT 62.065 66.667 6.13 0.00 33.61 2.73
1410 4673 2.047655 CTGCCGGCGTTCTACCAA 60.048 61.111 23.90 0.00 0.00 3.67
1860 7762 7.971183 GGAAGAATATCCTCTGGTTTGTATC 57.029 40.000 0.00 0.00 36.50 2.24
1861 7763 7.509546 GGAAGAATATCCTCTGGTTTGTATCA 58.490 38.462 0.00 0.00 36.50 2.15
1862 7764 7.993183 GGAAGAATATCCTCTGGTTTGTATCAA 59.007 37.037 0.00 0.00 36.50 2.57
1863 7765 9.566432 GAAGAATATCCTCTGGTTTGTATCAAT 57.434 33.333 0.00 0.00 0.00 2.57
1869 7771 7.252612 TCCTCTGGTTTGTATCAATAGTTCA 57.747 36.000 0.00 0.00 0.00 3.18
1870 7772 7.685481 TCCTCTGGTTTGTATCAATAGTTCAA 58.315 34.615 0.00 0.00 0.00 2.69
1871 7773 7.824289 TCCTCTGGTTTGTATCAATAGTTCAAG 59.176 37.037 0.00 0.00 0.00 3.02
1872 7774 7.066284 CCTCTGGTTTGTATCAATAGTTCAAGG 59.934 40.741 0.00 0.00 0.00 3.61
1873 7775 7.685481 TCTGGTTTGTATCAATAGTTCAAGGA 58.315 34.615 0.00 0.00 0.00 3.36
1874 7776 7.606456 TCTGGTTTGTATCAATAGTTCAAGGAC 59.394 37.037 0.00 0.00 0.00 3.85
1875 7777 6.657541 TGGTTTGTATCAATAGTTCAAGGACC 59.342 38.462 0.00 0.00 0.00 4.46
1876 7778 6.095021 GGTTTGTATCAATAGTTCAAGGACCC 59.905 42.308 0.00 0.00 0.00 4.46
1877 7779 5.367945 TGTATCAATAGTTCAAGGACCCC 57.632 43.478 0.00 0.00 0.00 4.95
1878 7780 3.560636 ATCAATAGTTCAAGGACCCCG 57.439 47.619 0.00 0.00 0.00 5.73
1879 7781 2.542550 TCAATAGTTCAAGGACCCCGA 58.457 47.619 0.00 0.00 0.00 5.14
1880 7782 3.112263 TCAATAGTTCAAGGACCCCGAT 58.888 45.455 0.00 0.00 0.00 4.18
1881 7783 4.291792 TCAATAGTTCAAGGACCCCGATA 58.708 43.478 0.00 0.00 0.00 2.92
1882 7784 4.717778 TCAATAGTTCAAGGACCCCGATAA 59.282 41.667 0.00 0.00 0.00 1.75
1883 7785 4.684484 ATAGTTCAAGGACCCCGATAAC 57.316 45.455 0.00 0.00 0.00 1.89
1884 7786 2.262637 AGTTCAAGGACCCCGATAACA 58.737 47.619 0.00 0.00 0.00 2.41
1885 7787 2.236395 AGTTCAAGGACCCCGATAACAG 59.764 50.000 0.00 0.00 0.00 3.16
1886 7788 0.539986 TCAAGGACCCCGATAACAGC 59.460 55.000 0.00 0.00 0.00 4.40
1887 7789 0.463833 CAAGGACCCCGATAACAGCC 60.464 60.000 0.00 0.00 0.00 4.85
1888 7790 1.632965 AAGGACCCCGATAACAGCCC 61.633 60.000 0.00 0.00 0.00 5.19
1889 7791 2.509422 GACCCCGATAACAGCCCC 59.491 66.667 0.00 0.00 0.00 5.80
1890 7792 3.456105 GACCCCGATAACAGCCCCG 62.456 68.421 0.00 0.00 0.00 5.73
1891 7793 3.158648 CCCCGATAACAGCCCCGA 61.159 66.667 0.00 0.00 0.00 5.14
1892 7794 2.737881 CCCCGATAACAGCCCCGAA 61.738 63.158 0.00 0.00 0.00 4.30
1893 7795 1.450211 CCCGATAACAGCCCCGAAT 59.550 57.895 0.00 0.00 0.00 3.34
1894 7796 0.884704 CCCGATAACAGCCCCGAATG 60.885 60.000 0.00 0.00 0.00 2.67
1895 7797 0.179056 CCGATAACAGCCCCGAATGT 60.179 55.000 0.00 0.00 0.00 2.71
1896 7798 1.663695 CGATAACAGCCCCGAATGTT 58.336 50.000 0.00 0.00 42.15 2.71
1897 7799 1.597663 CGATAACAGCCCCGAATGTTC 59.402 52.381 0.00 0.00 40.09 3.18
1907 7809 3.050703 CGAATGTTCGGTCTGGAGG 57.949 57.895 7.24 0.00 46.30 4.30
1908 7810 0.460284 CGAATGTTCGGTCTGGAGGG 60.460 60.000 7.24 0.00 46.30 4.30
1909 7811 0.744771 GAATGTTCGGTCTGGAGGGC 60.745 60.000 0.00 0.00 0.00 5.19
1910 7812 2.198304 AATGTTCGGTCTGGAGGGCC 62.198 60.000 0.00 0.00 0.00 5.80
1911 7813 3.003763 GTTCGGTCTGGAGGGCCT 61.004 66.667 5.25 5.25 34.31 5.19
1912 7814 2.203938 TTCGGTCTGGAGGGCCTT 60.204 61.111 7.89 0.00 34.31 4.35
1913 7815 2.291043 TTCGGTCTGGAGGGCCTTC 61.291 63.158 7.89 6.03 34.31 3.46
1914 7816 3.787001 CGGTCTGGAGGGCCTTCC 61.787 72.222 26.78 26.78 37.77 3.46
1924 7826 4.011517 GGCCTTCCCACCGAACGA 62.012 66.667 0.00 0.00 0.00 3.85
1925 7827 2.031465 GCCTTCCCACCGAACGAA 59.969 61.111 0.00 0.00 0.00 3.85
1926 7828 1.598685 GCCTTCCCACCGAACGAAA 60.599 57.895 0.00 0.00 0.00 3.46
1927 7829 1.574702 GCCTTCCCACCGAACGAAAG 61.575 60.000 0.00 0.00 0.00 2.62
1928 7830 0.034337 CCTTCCCACCGAACGAAAGA 59.966 55.000 0.00 0.00 0.00 2.52
1929 7831 1.338769 CCTTCCCACCGAACGAAAGAT 60.339 52.381 0.00 0.00 0.00 2.40
1930 7832 2.423577 CTTCCCACCGAACGAAAGATT 58.576 47.619 0.00 0.00 0.00 2.40
1931 7833 2.088950 TCCCACCGAACGAAAGATTC 57.911 50.000 0.00 0.00 0.00 2.52
1947 7849 2.717530 GATTCGTACAGAAGCGATCGT 58.282 47.619 17.81 0.00 42.92 3.73
1948 7850 1.891178 TTCGTACAGAAGCGATCGTG 58.109 50.000 17.81 9.44 36.97 4.35
1949 7851 1.081094 TCGTACAGAAGCGATCGTGA 58.919 50.000 17.81 0.00 31.76 4.35
1950 7852 1.181001 CGTACAGAAGCGATCGTGAC 58.819 55.000 17.81 8.10 0.00 3.67
1951 7853 1.465187 CGTACAGAAGCGATCGTGACA 60.465 52.381 17.81 0.00 0.00 3.58
1952 7854 2.592194 GTACAGAAGCGATCGTGACAA 58.408 47.619 17.81 0.00 0.00 3.18
1953 7855 1.419374 ACAGAAGCGATCGTGACAAC 58.581 50.000 17.81 0.00 0.00 3.32
1964 7866 2.625375 GTGACAACGAGGGGGAAAC 58.375 57.895 0.00 0.00 0.00 2.78
1965 7867 0.179040 GTGACAACGAGGGGGAAACA 60.179 55.000 0.00 0.00 0.00 2.83
1966 7868 0.179040 TGACAACGAGGGGGAAACAC 60.179 55.000 0.00 0.00 0.00 3.32
1967 7869 1.226030 GACAACGAGGGGGAAACACG 61.226 60.000 0.00 0.00 0.00 4.49
1968 7870 2.281276 AACGAGGGGGAAACACGC 60.281 61.111 0.00 0.00 0.00 5.34
1969 7871 2.814835 AACGAGGGGGAAACACGCT 61.815 57.895 0.00 0.00 0.00 5.07
1970 7872 2.434359 CGAGGGGGAAACACGCTC 60.434 66.667 7.80 7.80 42.49 5.03
1971 7873 2.046217 GAGGGGGAAACACGCTCC 60.046 66.667 6.79 0.00 40.74 4.70
1972 7874 2.852075 AGGGGGAAACACGCTCCA 60.852 61.111 0.00 0.00 34.34 3.86
1973 7875 2.359975 GGGGGAAACACGCTCCAG 60.360 66.667 0.00 0.00 34.34 3.86
1974 7876 2.430367 GGGGAAACACGCTCCAGT 59.570 61.111 0.00 0.00 34.34 4.00
1975 7877 1.671379 GGGGAAACACGCTCCAGTC 60.671 63.158 0.00 0.00 34.34 3.51
1976 7878 1.671379 GGGAAACACGCTCCAGTCC 60.671 63.158 0.00 0.00 34.34 3.85
1977 7879 1.070786 GGAAACACGCTCCAGTCCA 59.929 57.895 0.00 0.00 32.77 4.02
1978 7880 0.534203 GGAAACACGCTCCAGTCCAA 60.534 55.000 0.00 0.00 32.77 3.53
1979 7881 1.305201 GAAACACGCTCCAGTCCAAA 58.695 50.000 0.00 0.00 0.00 3.28
1980 7882 1.002792 GAAACACGCTCCAGTCCAAAC 60.003 52.381 0.00 0.00 0.00 2.93
1981 7883 0.818040 AACACGCTCCAGTCCAAACC 60.818 55.000 0.00 0.00 0.00 3.27
1982 7884 1.966451 CACGCTCCAGTCCAAACCC 60.966 63.158 0.00 0.00 0.00 4.11
1983 7885 2.359975 CGCTCCAGTCCAAACCCC 60.360 66.667 0.00 0.00 0.00 4.95
1984 7886 2.895424 CGCTCCAGTCCAAACCCCT 61.895 63.158 0.00 0.00 0.00 4.79
1985 7887 1.303643 GCTCCAGTCCAAACCCCTG 60.304 63.158 0.00 0.00 0.00 4.45
1986 7888 1.779061 GCTCCAGTCCAAACCCCTGA 61.779 60.000 0.00 0.00 0.00 3.86
1987 7889 0.995024 CTCCAGTCCAAACCCCTGAT 59.005 55.000 0.00 0.00 0.00 2.90
1988 7890 0.991920 TCCAGTCCAAACCCCTGATC 59.008 55.000 0.00 0.00 0.00 2.92
1989 7891 0.392998 CCAGTCCAAACCCCTGATCG 60.393 60.000 0.00 0.00 0.00 3.69
1990 7892 1.026718 CAGTCCAAACCCCTGATCGC 61.027 60.000 0.00 0.00 0.00 4.58
1991 7893 1.201429 AGTCCAAACCCCTGATCGCT 61.201 55.000 0.00 0.00 0.00 4.93
1992 7894 0.539986 GTCCAAACCCCTGATCGCTA 59.460 55.000 0.00 0.00 0.00 4.26
1993 7895 1.065709 GTCCAAACCCCTGATCGCTAA 60.066 52.381 0.00 0.00 0.00 3.09
1994 7896 1.631388 TCCAAACCCCTGATCGCTAAA 59.369 47.619 0.00 0.00 0.00 1.85
1995 7897 1.743394 CCAAACCCCTGATCGCTAAAC 59.257 52.381 0.00 0.00 0.00 2.01
1996 7898 2.432444 CAAACCCCTGATCGCTAAACA 58.568 47.619 0.00 0.00 0.00 2.83
1997 7899 2.817258 CAAACCCCTGATCGCTAAACAA 59.183 45.455 0.00 0.00 0.00 2.83
1998 7900 2.403252 ACCCCTGATCGCTAAACAAG 57.597 50.000 0.00 0.00 0.00 3.16
1999 7901 1.065418 ACCCCTGATCGCTAAACAAGG 60.065 52.381 0.00 0.00 0.00 3.61
2000 7902 1.668419 CCCTGATCGCTAAACAAGGG 58.332 55.000 0.00 0.00 39.48 3.95
2137 8098 4.776322 CACTGCCGGCCGATTGGA 62.776 66.667 30.73 10.78 37.49 3.53
2138 8099 3.797353 ACTGCCGGCCGATTGGAT 61.797 61.111 30.73 3.38 37.49 3.41
2141 8102 4.562425 GCCGGCCGATTGGATCCA 62.562 66.667 30.73 11.44 37.49 3.41
2142 8103 2.281070 CCGGCCGATTGGATCCAG 60.281 66.667 30.73 4.30 37.49 3.86
2143 8104 2.505982 CGGCCGATTGGATCCAGT 59.494 61.111 24.07 12.79 37.49 4.00
2144 8105 1.595382 CGGCCGATTGGATCCAGTC 60.595 63.158 24.07 23.82 37.49 3.51
2145 8106 1.832912 GGCCGATTGGATCCAGTCT 59.167 57.895 28.59 13.28 37.49 3.24
2146 8107 0.533755 GGCCGATTGGATCCAGTCTG 60.534 60.000 28.59 24.39 37.49 3.51
2147 8108 0.465705 GCCGATTGGATCCAGTCTGA 59.534 55.000 28.59 10.35 37.49 3.27
2148 8109 1.134401 GCCGATTGGATCCAGTCTGAA 60.134 52.381 28.59 9.63 37.49 3.02
2149 8110 2.680805 GCCGATTGGATCCAGTCTGAAA 60.681 50.000 28.59 8.92 37.49 2.69
2150 8111 3.609853 CCGATTGGATCCAGTCTGAAAA 58.390 45.455 28.59 8.20 37.49 2.29
2151 8112 4.009675 CCGATTGGATCCAGTCTGAAAAA 58.990 43.478 28.59 7.49 37.49 1.94
2152 8113 4.641989 CCGATTGGATCCAGTCTGAAAAAT 59.358 41.667 28.59 11.83 37.49 1.82
2153 8114 5.449588 CCGATTGGATCCAGTCTGAAAAATG 60.450 44.000 28.59 14.20 37.49 2.32
2154 8115 5.124457 CGATTGGATCCAGTCTGAAAAATGT 59.876 40.000 28.59 0.00 31.64 2.71
2156 8117 5.710513 TGGATCCAGTCTGAAAAATGTTG 57.289 39.130 11.44 0.00 0.00 3.33
2157 8118 5.384336 TGGATCCAGTCTGAAAAATGTTGA 58.616 37.500 11.44 0.00 0.00 3.18
2158 8119 5.832595 TGGATCCAGTCTGAAAAATGTTGAA 59.167 36.000 11.44 0.00 0.00 2.69
2159 8120 6.323482 TGGATCCAGTCTGAAAAATGTTGAAA 59.677 34.615 11.44 0.00 0.00 2.69
2161 8122 6.522625 TCCAGTCTGAAAAATGTTGAAACA 57.477 33.333 0.00 0.00 44.06 2.83
2178 8308 9.645059 TGTTGAAACAATATTTGAAACTGTTGA 57.355 25.926 0.00 0.00 35.67 3.18
2236 8368 7.966246 AAAATGTTAATCAAGCATTTGCAGA 57.034 28.000 5.20 2.92 45.16 4.26
2237 8369 7.966246 AAATGTTAATCAAGCATTTGCAGAA 57.034 28.000 5.20 0.00 45.16 3.02
2238 8370 7.966246 AATGTTAATCAAGCATTTGCAGAAA 57.034 28.000 5.20 0.00 45.16 2.52
2239 8371 7.966246 ATGTTAATCAAGCATTTGCAGAAAA 57.034 28.000 5.20 0.14 45.16 2.29
2240 8372 7.966246 TGTTAATCAAGCATTTGCAGAAAAT 57.034 28.000 5.20 0.00 45.16 1.82
2256 8388 9.809096 TTGCAGAAAATGTTAAACAAGTATTCA 57.191 25.926 0.00 0.00 0.00 2.57
2257 8389 9.809096 TGCAGAAAATGTTAAACAAGTATTCAA 57.191 25.926 0.00 0.00 0.00 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 8.842280 TGTTGAAATGTTTAAAGTAAGGACGAT 58.158 29.630 0.00 0.00 0.00 3.73
8 9 8.844441 TTGTTGAAATGTTTAAAGTAAGGACG 57.156 30.769 0.00 0.00 0.00 4.79
42 44 0.742281 ATGCTCTGCGGTGTCATCAC 60.742 55.000 0.00 0.00 43.19 3.06
43 45 0.741927 CATGCTCTGCGGTGTCATCA 60.742 55.000 0.00 0.00 0.00 3.07
46 48 2.743538 GCATGCTCTGCGGTGTCA 60.744 61.111 11.37 0.00 41.97 3.58
78 80 4.237207 TGTGGTTGCCGTGGCGTA 62.237 61.111 6.37 0.00 45.51 4.42
133 135 1.652563 CATGATGACTGCATGGCGG 59.347 57.895 0.00 0.00 39.48 6.13
134 136 1.008881 GCATGATGACTGCATGGCG 60.009 57.895 0.00 0.00 42.53 5.69
136 138 1.652563 CGGCATGATGACTGCATGG 59.347 57.895 0.00 0.00 42.53 3.66
137 139 1.008881 GCGGCATGATGACTGCATG 60.009 57.895 13.30 0.00 44.52 4.06
138 140 2.191513 GGCGGCATGATGACTGCAT 61.192 57.895 17.80 0.00 41.47 3.96
139 141 2.825387 GGCGGCATGATGACTGCA 60.825 61.111 17.80 0.00 41.47 4.41
140 142 3.945434 CGGCGGCATGATGACTGC 61.945 66.667 10.53 10.77 38.93 4.40
141 143 2.202919 TCGGCGGCATGATGACTG 60.203 61.111 10.53 0.00 0.00 3.51
142 144 2.202932 GTCGGCGGCATGATGACT 60.203 61.111 6.63 0.00 0.00 3.41
143 145 3.630148 CGTCGGCGGCATGATGAC 61.630 66.667 13.62 6.84 0.00 3.06
185 187 4.682334 TGGGGCATGGCAGTGTGG 62.682 66.667 22.06 0.00 0.00 4.17
186 188 3.376078 GTGGGGCATGGCAGTGTG 61.376 66.667 22.06 0.00 0.00 3.82
187 189 4.684134 GGTGGGGCATGGCAGTGT 62.684 66.667 22.06 0.00 0.00 3.55
188 190 4.682334 TGGTGGGGCATGGCAGTG 62.682 66.667 22.06 0.00 0.00 3.66
189 191 4.684134 GTGGTGGGGCATGGCAGT 62.684 66.667 22.06 0.00 0.00 4.40
205 207 1.672356 GGCACGATGACTGCTTGGT 60.672 57.895 0.00 0.00 34.84 3.67
437 441 5.784578 AATAATAATTGGGGAAACGAGGC 57.215 39.130 0.00 0.00 0.00 4.70
488 2086 9.769093 CTTACTGGTTTTCTTTAATGGTAATCG 57.231 33.333 0.00 0.00 0.00 3.34
493 2091 6.616577 TCCCTTACTGGTTTTCTTTAATGGT 58.383 36.000 0.00 0.00 0.00 3.55
495 2093 6.434340 AGCTCCCTTACTGGTTTTCTTTAATG 59.566 38.462 0.00 0.00 0.00 1.90
501 2099 3.908103 TGTAGCTCCCTTACTGGTTTTCT 59.092 43.478 0.00 0.00 0.00 2.52
503 2101 4.652822 CTTGTAGCTCCCTTACTGGTTTT 58.347 43.478 0.00 0.00 0.00 2.43
510 2108 2.025589 GGTGCTTGTAGCTCCCTTAC 57.974 55.000 8.25 0.00 46.26 2.34
534 2134 3.058501 GGGTGTGTTTTCCATGTCGTAAG 60.059 47.826 0.00 0.00 0.00 2.34
535 2135 2.879646 GGGTGTGTTTTCCATGTCGTAA 59.120 45.455 0.00 0.00 0.00 3.18
537 2137 1.314730 GGGTGTGTTTTCCATGTCGT 58.685 50.000 0.00 0.00 0.00 4.34
538 2138 1.313772 TGGGTGTGTTTTCCATGTCG 58.686 50.000 0.00 0.00 0.00 4.35
539 2139 2.693074 AGTTGGGTGTGTTTTCCATGTC 59.307 45.455 0.00 0.00 0.00 3.06
540 2140 2.745968 AGTTGGGTGTGTTTTCCATGT 58.254 42.857 0.00 0.00 0.00 3.21
541 2141 3.888930 AGTAGTTGGGTGTGTTTTCCATG 59.111 43.478 0.00 0.00 0.00 3.66
545 2148 6.519382 AGTAGTAGTAGTTGGGTGTGTTTTC 58.481 40.000 0.00 0.00 0.00 2.29
558 2161 5.012893 ACAAGGCGGTTTAGTAGTAGTAGT 58.987 41.667 0.00 0.00 0.00 2.73
597 2200 7.524038 GCTCGGATAGACTACCACATTAATTCT 60.524 40.741 0.00 0.00 0.00 2.40
612 2215 1.299468 CCAGCGTGCTCGGATAGAC 60.299 63.158 10.52 0.00 37.56 2.59
640 2243 3.901222 TGCAAGATATCCCTGGATTACGA 59.099 43.478 3.59 0.00 36.17 3.43
703 3917 1.335597 CGTTTAGGTGTGTCTGAGCGA 60.336 52.381 0.00 0.00 30.91 4.93
724 3938 3.181502 GGTAGGAGTACGTACAGTTGAGC 60.182 52.174 26.55 13.24 38.59 4.26
725 3939 4.005650 TGGTAGGAGTACGTACAGTTGAG 58.994 47.826 26.55 0.00 38.59 3.02
740 3964 0.249120 CACAGCGAACCATGGTAGGA 59.751 55.000 20.12 0.00 0.00 2.94
741 3965 0.249120 TCACAGCGAACCATGGTAGG 59.751 55.000 20.12 14.20 0.00 3.18
742 3966 2.205074 GATCACAGCGAACCATGGTAG 58.795 52.381 20.12 16.53 0.00 3.18
743 3967 1.134521 GGATCACAGCGAACCATGGTA 60.135 52.381 20.12 0.00 36.57 3.25
744 3968 0.392998 GGATCACAGCGAACCATGGT 60.393 55.000 13.00 13.00 36.57 3.55
745 3969 1.097547 GGGATCACAGCGAACCATGG 61.098 60.000 11.19 11.19 38.32 3.66
797 4021 4.038271 TGGGAAGAGTTTCTACGTAGGA 57.962 45.455 22.01 11.58 33.68 2.94
798 4022 4.645588 AGATGGGAAGAGTTTCTACGTAGG 59.354 45.833 22.01 4.35 33.68 3.18
799 4023 5.504337 CGAGATGGGAAGAGTTTCTACGTAG 60.504 48.000 16.73 16.73 33.68 3.51
800 4024 4.334759 CGAGATGGGAAGAGTTTCTACGTA 59.665 45.833 0.00 0.00 33.68 3.57
801 4025 3.128938 CGAGATGGGAAGAGTTTCTACGT 59.871 47.826 0.00 0.00 33.68 3.57
802 4026 3.489398 CCGAGATGGGAAGAGTTTCTACG 60.489 52.174 0.00 0.00 33.68 3.51
920 4160 2.172419 CGTTCGCGCCGTGATTTT 59.828 55.556 0.00 0.00 0.00 1.82
1003 4248 1.064946 GGATCGTGTCGAGAGCTGG 59.935 63.158 0.00 0.00 39.91 4.85
1180 4443 0.321387 TCGAGCACCACGTAGAGAGT 60.321 55.000 0.00 0.00 0.00 3.24
1545 4808 4.003788 CCGACCTTCACCCGCACT 62.004 66.667 0.00 0.00 0.00 4.40
1698 7424 1.904412 CGTTTGCGATTTGAACCATCG 59.096 47.619 0.00 0.00 45.26 3.84
1827 7729 7.950124 ACCAGAGGATATTCTTCCTTTCAAAAA 59.050 33.333 0.00 0.00 46.35 1.94
1828 7730 7.470192 ACCAGAGGATATTCTTCCTTTCAAAA 58.530 34.615 0.00 0.00 46.35 2.44
1829 7731 7.032598 ACCAGAGGATATTCTTCCTTTCAAA 57.967 36.000 0.00 0.00 46.35 2.69
1830 7732 6.642733 ACCAGAGGATATTCTTCCTTTCAA 57.357 37.500 0.00 0.00 46.35 2.69
1831 7733 6.642733 AACCAGAGGATATTCTTCCTTTCA 57.357 37.500 0.00 0.00 46.35 2.69
1832 7734 6.887002 ACAAACCAGAGGATATTCTTCCTTTC 59.113 38.462 0.00 0.00 46.35 2.62
1833 7735 6.794534 ACAAACCAGAGGATATTCTTCCTTT 58.205 36.000 0.00 0.00 46.35 3.11
1834 7736 6.394345 ACAAACCAGAGGATATTCTTCCTT 57.606 37.500 0.00 0.00 46.35 3.36
1836 7738 7.509546 TGATACAAACCAGAGGATATTCTTCC 58.490 38.462 0.00 0.00 35.90 3.46
1837 7739 8.964476 TTGATACAAACCAGAGGATATTCTTC 57.036 34.615 0.00 0.00 0.00 2.87
1847 7749 7.824289 TCCTTGAACTATTGATACAAACCAGAG 59.176 37.037 0.00 0.00 0.00 3.35
1848 7750 7.606456 GTCCTTGAACTATTGATACAAACCAGA 59.394 37.037 0.00 0.00 0.00 3.86
1849 7751 7.148239 GGTCCTTGAACTATTGATACAAACCAG 60.148 40.741 0.00 0.00 0.00 4.00
1850 7752 6.657541 GGTCCTTGAACTATTGATACAAACCA 59.342 38.462 0.00 0.00 0.00 3.67
1851 7753 6.095021 GGGTCCTTGAACTATTGATACAAACC 59.905 42.308 0.00 0.00 0.00 3.27
1852 7754 6.095021 GGGGTCCTTGAACTATTGATACAAAC 59.905 42.308 0.00 0.00 0.00 2.93
1853 7755 6.184789 GGGGTCCTTGAACTATTGATACAAA 58.815 40.000 0.00 0.00 0.00 2.83
1854 7756 5.628200 CGGGGTCCTTGAACTATTGATACAA 60.628 44.000 0.00 0.00 0.00 2.41
1855 7757 4.141801 CGGGGTCCTTGAACTATTGATACA 60.142 45.833 0.00 0.00 0.00 2.29
1856 7758 4.100498 TCGGGGTCCTTGAACTATTGATAC 59.900 45.833 0.00 0.00 0.00 2.24
1857 7759 4.291792 TCGGGGTCCTTGAACTATTGATA 58.708 43.478 0.00 0.00 0.00 2.15
1858 7760 3.112263 TCGGGGTCCTTGAACTATTGAT 58.888 45.455 0.00 0.00 0.00 2.57
1859 7761 2.542550 TCGGGGTCCTTGAACTATTGA 58.457 47.619 0.00 0.00 0.00 2.57
1860 7762 3.560636 ATCGGGGTCCTTGAACTATTG 57.439 47.619 0.00 0.00 0.00 1.90
1861 7763 4.472108 TGTTATCGGGGTCCTTGAACTATT 59.528 41.667 0.00 0.00 0.00 1.73
1862 7764 4.035112 TGTTATCGGGGTCCTTGAACTAT 58.965 43.478 0.00 0.00 0.00 2.12
1863 7765 3.443052 TGTTATCGGGGTCCTTGAACTA 58.557 45.455 0.00 0.00 0.00 2.24
1864 7766 2.236395 CTGTTATCGGGGTCCTTGAACT 59.764 50.000 0.00 0.00 0.00 3.01
1865 7767 2.629051 CTGTTATCGGGGTCCTTGAAC 58.371 52.381 0.00 0.00 0.00 3.18
1866 7768 1.065709 GCTGTTATCGGGGTCCTTGAA 60.066 52.381 0.00 0.00 0.00 2.69
1867 7769 0.539986 GCTGTTATCGGGGTCCTTGA 59.460 55.000 0.00 0.00 0.00 3.02
1868 7770 0.463833 GGCTGTTATCGGGGTCCTTG 60.464 60.000 0.00 0.00 0.00 3.61
1869 7771 1.632965 GGGCTGTTATCGGGGTCCTT 61.633 60.000 0.00 0.00 0.00 3.36
1870 7772 2.070650 GGGCTGTTATCGGGGTCCT 61.071 63.158 0.00 0.00 0.00 3.85
1871 7773 2.509422 GGGCTGTTATCGGGGTCC 59.491 66.667 0.00 0.00 0.00 4.46
1872 7774 2.509422 GGGGCTGTTATCGGGGTC 59.491 66.667 0.00 0.00 0.00 4.46
1873 7775 3.476419 CGGGGCTGTTATCGGGGT 61.476 66.667 0.00 0.00 0.00 4.95
1874 7776 2.052047 ATTCGGGGCTGTTATCGGGG 62.052 60.000 0.00 0.00 0.00 5.73
1875 7777 0.884704 CATTCGGGGCTGTTATCGGG 60.885 60.000 0.00 0.00 0.00 5.14
1876 7778 0.179056 ACATTCGGGGCTGTTATCGG 60.179 55.000 0.00 0.00 0.00 4.18
1877 7779 1.597663 GAACATTCGGGGCTGTTATCG 59.402 52.381 0.00 0.00 35.80 2.92
1878 7780 1.597663 CGAACATTCGGGGCTGTTATC 59.402 52.381 6.11 0.00 46.30 1.75
1879 7781 1.663695 CGAACATTCGGGGCTGTTAT 58.336 50.000 6.11 0.00 46.30 1.89
1880 7782 3.146783 CGAACATTCGGGGCTGTTA 57.853 52.632 6.11 0.00 46.30 2.41
1881 7783 3.981308 CGAACATTCGGGGCTGTT 58.019 55.556 6.11 0.00 46.30 3.16
1890 7792 0.744771 GCCCTCCAGACCGAACATTC 60.745 60.000 0.00 0.00 0.00 2.67
1891 7793 1.299976 GCCCTCCAGACCGAACATT 59.700 57.895 0.00 0.00 0.00 2.71
1892 7794 2.670148 GGCCCTCCAGACCGAACAT 61.670 63.158 0.00 0.00 0.00 2.71
1893 7795 3.319198 GGCCCTCCAGACCGAACA 61.319 66.667 0.00 0.00 0.00 3.18
1894 7796 2.523453 GAAGGCCCTCCAGACCGAAC 62.523 65.000 0.00 0.00 33.74 3.95
1895 7797 2.203938 AAGGCCCTCCAGACCGAA 60.204 61.111 0.00 0.00 33.74 4.30
1896 7798 2.683933 GAAGGCCCTCCAGACCGA 60.684 66.667 0.00 0.00 33.74 4.69
1897 7799 3.787001 GGAAGGCCCTCCAGACCG 61.787 72.222 16.11 0.00 35.36 4.79
1907 7809 3.540367 TTCGTTCGGTGGGAAGGCC 62.540 63.158 0.00 0.00 39.72 5.19
1908 7810 1.574702 CTTTCGTTCGGTGGGAAGGC 61.575 60.000 0.00 0.00 39.72 4.35
1909 7811 0.034337 TCTTTCGTTCGGTGGGAAGG 59.966 55.000 0.00 0.00 40.92 3.46
1910 7812 2.094762 ATCTTTCGTTCGGTGGGAAG 57.905 50.000 0.00 0.00 34.69 3.46
1911 7813 2.419667 GAATCTTTCGTTCGGTGGGAA 58.580 47.619 0.00 0.00 0.00 3.97
1912 7814 2.088950 GAATCTTTCGTTCGGTGGGA 57.911 50.000 0.00 0.00 0.00 4.37
1923 7825 4.086025 CGATCGCTTCTGTACGAATCTTTC 60.086 45.833 0.26 0.00 42.31 2.62
1924 7826 3.791887 CGATCGCTTCTGTACGAATCTTT 59.208 43.478 0.26 0.00 42.31 2.52
1925 7827 3.181499 ACGATCGCTTCTGTACGAATCTT 60.181 43.478 16.60 0.00 42.31 2.40
1926 7828 2.355132 ACGATCGCTTCTGTACGAATCT 59.645 45.455 16.60 0.00 42.31 2.40
1927 7829 2.464380 CACGATCGCTTCTGTACGAATC 59.536 50.000 16.60 0.00 42.31 2.52
1928 7830 2.096980 TCACGATCGCTTCTGTACGAAT 59.903 45.455 16.60 0.00 42.31 3.34
1929 7831 1.465777 TCACGATCGCTTCTGTACGAA 59.534 47.619 16.60 0.00 42.31 3.85
1930 7832 1.081094 TCACGATCGCTTCTGTACGA 58.919 50.000 16.60 0.00 43.33 3.43
1931 7833 1.181001 GTCACGATCGCTTCTGTACG 58.819 55.000 16.60 0.00 0.00 3.67
1932 7834 2.257974 TGTCACGATCGCTTCTGTAC 57.742 50.000 16.60 6.98 0.00 2.90
1933 7835 2.592194 GTTGTCACGATCGCTTCTGTA 58.408 47.619 16.60 0.00 0.00 2.74
1934 7836 1.419374 GTTGTCACGATCGCTTCTGT 58.581 50.000 16.60 0.00 0.00 3.41
1946 7848 0.179040 TGTTTCCCCCTCGTTGTCAC 60.179 55.000 0.00 0.00 0.00 3.67
1947 7849 0.179040 GTGTTTCCCCCTCGTTGTCA 60.179 55.000 0.00 0.00 0.00 3.58
1948 7850 1.226030 CGTGTTTCCCCCTCGTTGTC 61.226 60.000 0.00 0.00 0.00 3.18
1949 7851 1.227734 CGTGTTTCCCCCTCGTTGT 60.228 57.895 0.00 0.00 0.00 3.32
1950 7852 2.613506 GCGTGTTTCCCCCTCGTTG 61.614 63.158 0.00 0.00 0.00 4.10
1951 7853 2.281276 GCGTGTTTCCCCCTCGTT 60.281 61.111 0.00 0.00 0.00 3.85
1952 7854 3.236003 GAGCGTGTTTCCCCCTCGT 62.236 63.158 0.00 0.00 0.00 4.18
1953 7855 2.434359 GAGCGTGTTTCCCCCTCG 60.434 66.667 0.00 0.00 0.00 4.63
1954 7856 2.046217 GGAGCGTGTTTCCCCCTC 60.046 66.667 0.00 0.00 0.00 4.30
1955 7857 2.852075 TGGAGCGTGTTTCCCCCT 60.852 61.111 0.00 0.00 33.62 4.79
1956 7858 2.359975 CTGGAGCGTGTTTCCCCC 60.360 66.667 0.00 0.00 33.62 5.40
1957 7859 1.671379 GACTGGAGCGTGTTTCCCC 60.671 63.158 0.00 0.00 33.62 4.81
1958 7860 1.671379 GGACTGGAGCGTGTTTCCC 60.671 63.158 0.00 0.00 33.62 3.97
1959 7861 0.534203 TTGGACTGGAGCGTGTTTCC 60.534 55.000 0.00 0.00 35.20 3.13
1960 7862 1.002792 GTTTGGACTGGAGCGTGTTTC 60.003 52.381 0.00 0.00 0.00 2.78
1961 7863 1.021968 GTTTGGACTGGAGCGTGTTT 58.978 50.000 0.00 0.00 0.00 2.83
1962 7864 0.818040 GGTTTGGACTGGAGCGTGTT 60.818 55.000 0.00 0.00 0.00 3.32
1963 7865 1.227853 GGTTTGGACTGGAGCGTGT 60.228 57.895 0.00 0.00 0.00 4.49
1964 7866 1.966451 GGGTTTGGACTGGAGCGTG 60.966 63.158 0.00 0.00 0.00 5.34
1965 7867 2.430367 GGGTTTGGACTGGAGCGT 59.570 61.111 0.00 0.00 0.00 5.07
1966 7868 2.359975 GGGGTTTGGACTGGAGCG 60.360 66.667 0.00 0.00 0.00 5.03
1967 7869 1.303643 CAGGGGTTTGGACTGGAGC 60.304 63.158 0.00 0.00 0.00 4.70
1968 7870 0.995024 ATCAGGGGTTTGGACTGGAG 59.005 55.000 0.00 0.00 33.19 3.86
1969 7871 0.991920 GATCAGGGGTTTGGACTGGA 59.008 55.000 0.00 0.00 33.19 3.86
1970 7872 0.392998 CGATCAGGGGTTTGGACTGG 60.393 60.000 0.00 0.00 33.19 4.00
1971 7873 1.026718 GCGATCAGGGGTTTGGACTG 61.027 60.000 0.00 0.00 0.00 3.51
1972 7874 1.201429 AGCGATCAGGGGTTTGGACT 61.201 55.000 0.00 0.00 0.00 3.85
1973 7875 0.539986 TAGCGATCAGGGGTTTGGAC 59.460 55.000 0.00 0.00 0.00 4.02
1974 7876 1.281419 TTAGCGATCAGGGGTTTGGA 58.719 50.000 0.00 0.00 0.00 3.53
1975 7877 1.743394 GTTTAGCGATCAGGGGTTTGG 59.257 52.381 0.00 0.00 0.00 3.28
1976 7878 2.432444 TGTTTAGCGATCAGGGGTTTG 58.568 47.619 0.00 0.00 0.00 2.93
1977 7879 2.871096 TGTTTAGCGATCAGGGGTTT 57.129 45.000 0.00 0.00 0.00 3.27
1978 7880 2.618045 CCTTGTTTAGCGATCAGGGGTT 60.618 50.000 0.00 0.00 0.00 4.11
1979 7881 1.065418 CCTTGTTTAGCGATCAGGGGT 60.065 52.381 0.00 0.00 0.00 4.95
1980 7882 1.668419 CCTTGTTTAGCGATCAGGGG 58.332 55.000 0.00 0.00 0.00 4.79
1981 7883 1.668419 CCCTTGTTTAGCGATCAGGG 58.332 55.000 0.00 0.00 0.00 4.45
1982 7884 1.017387 GCCCTTGTTTAGCGATCAGG 58.983 55.000 0.00 0.00 0.00 3.86
1983 7885 2.029838 AGCCCTTGTTTAGCGATCAG 57.970 50.000 0.00 0.00 0.00 2.90
1984 7886 3.838244 ATAGCCCTTGTTTAGCGATCA 57.162 42.857 0.00 0.00 0.00 2.92
1985 7887 5.500645 AAAATAGCCCTTGTTTAGCGATC 57.499 39.130 0.00 0.00 0.00 3.69
1986 7888 5.914898 AAAAATAGCCCTTGTTTAGCGAT 57.085 34.783 0.00 0.00 0.00 4.58
2126 8087 1.595382 GACTGGATCCAATCGGCCG 60.595 63.158 22.12 22.12 0.00 6.13
2137 8098 7.111247 TGTTTCAACATTTTTCAGACTGGAT 57.889 32.000 1.81 0.00 33.17 3.41
2138 8099 6.522625 TGTTTCAACATTTTTCAGACTGGA 57.477 33.333 1.81 0.00 33.17 3.86
2152 8113 9.645059 TCAACAGTTTCAAATATTGTTTCAACA 57.355 25.926 0.00 0.00 37.08 3.33
2172 8302 9.965824 AACAGTTTTCAAATACCTATTCAACAG 57.034 29.630 0.00 0.00 0.00 3.16
2174 8304 9.959749 TCAACAGTTTTCAAATACCTATTCAAC 57.040 29.630 0.00 0.00 0.00 3.18
2180 8310 9.295825 ACATGATCAACAGTTTTCAAATACCTA 57.704 29.630 0.00 0.00 0.00 3.08
2181 8311 8.181904 ACATGATCAACAGTTTTCAAATACCT 57.818 30.769 0.00 0.00 0.00 3.08


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

AutoCloner maintained by Alex Coulton.