Multiple sequence alignment - TraesCS6A01G385900

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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 TraesCS6A01G385900 chr6A 100.000 3669 0 0 1 3669 603207564 603203896 0.000000e+00 6776
1 TraesCS6A01G385900 chr6A 94.375 160 6 3 320 478 14625786 14625629 3.660000e-60 243
2 TraesCS6A01G385900 chr6B 88.392 2033 159 46 1672 3669 694166149 694164159 0.000000e+00 2375
3 TraesCS6A01G385900 chr6B 84.315 1154 96 44 149 1267 694167656 694166553 0.000000e+00 1050
4 TraesCS6A01G385900 chr6B 87.052 363 40 4 1311 1669 694166544 694166185 1.590000e-108 403
5 TraesCS6A01G385900 chr6B 75.661 908 125 65 997 1870 585914587 585913742 7.490000e-97 364
6 TraesCS6A01G385900 chr6B 93.711 159 7 3 321 478 25594682 25594526 6.130000e-58 235
7 TraesCS6A01G385900 chr6D 90.473 1606 107 29 2087 3669 456497734 456496152 0.000000e+00 2076
8 TraesCS6A01G385900 chr6D 84.663 802 78 20 1281 2049 456498521 456497732 0.000000e+00 758
9 TraesCS6A01G385900 chr6D 88.376 585 49 12 149 728 456499646 456499076 0.000000e+00 686
10 TraesCS6A01G385900 chr6D 94.375 160 6 3 320 478 14011552 14011395 3.660000e-60 243
11 TraesCS6A01G385900 chr6D 83.012 259 25 13 997 1245 456498769 456498520 2.220000e-52 217
12 TraesCS6A01G385900 chr2B 85.935 583 49 15 3 579 64871046 64870491 3.160000e-165 592
13 TraesCS6A01G385900 chr1B 79.477 726 95 25 1385 2068 684684505 684683792 2.000000e-127 466
14 TraesCS6A01G385900 chr7A 79.428 734 92 31 1385 2068 576771135 576771859 7.180000e-127 464
15 TraesCS6A01G385900 chr7A 79.292 734 93 31 1385 2068 658285689 658284965 3.340000e-125 459
16 TraesCS6A01G385900 chr7A 84.864 403 51 9 1671 2068 658281317 658280920 7.380000e-107 398
17 TraesCS6A01G385900 chrUn 75.838 1134 145 65 997 2068 367151539 367150473 1.200000e-124 457
18 TraesCS6A01G385900 chrUn 76.692 266 39 14 997 1251 396108159 396107906 3.850000e-25 126
19 TraesCS6A01G385900 chrUn 76.692 266 39 14 997 1251 396190261 396190008 3.850000e-25 126
20 TraesCS6A01G385900 chr2A 78.947 741 97 33 1385 2072 735382467 735381733 2.010000e-122 449
21 TraesCS6A01G385900 chr1A 84.864 403 51 9 1671 2068 32542428 32542825 7.380000e-107 398
22 TraesCS6A01G385900 chr1D 94.000 150 8 1 320 468 405132568 405132717 3.690000e-55 226


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 TraesCS6A01G385900 chr6A 603203896 603207564 3668 True 6776.00 6776 100.000000 1 3669 1 chr6A.!!$R2 3668
1 TraesCS6A01G385900 chr6B 694164159 694167656 3497 True 1276.00 2375 86.586333 149 3669 3 chr6B.!!$R3 3520
2 TraesCS6A01G385900 chr6B 585913742 585914587 845 True 364.00 364 75.661000 997 1870 1 chr6B.!!$R2 873
3 TraesCS6A01G385900 chr6D 456496152 456499646 3494 True 934.25 2076 86.631000 149 3669 4 chr6D.!!$R2 3520
4 TraesCS6A01G385900 chr2B 64870491 64871046 555 True 592.00 592 85.935000 3 579 1 chr2B.!!$R1 576
5 TraesCS6A01G385900 chr1B 684683792 684684505 713 True 466.00 466 79.477000 1385 2068 1 chr1B.!!$R1 683
6 TraesCS6A01G385900 chr7A 576771135 576771859 724 False 464.00 464 79.428000 1385 2068 1 chr7A.!!$F1 683
7 TraesCS6A01G385900 chr7A 658280920 658285689 4769 True 428.50 459 82.078000 1385 2068 2 chr7A.!!$R1 683
8 TraesCS6A01G385900 chrUn 367150473 367151539 1066 True 457.00 457 75.838000 997 2068 1 chrUn.!!$R1 1071
9 TraesCS6A01G385900 chr2A 735381733 735382467 734 True 449.00 449 78.947000 1385 2072 1 chr2A.!!$R1 687

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
956 1018 0.739112 CAGGAAGAGAGAACCGCAGC 60.739 60.0 0.0 0.0 0.0 5.25 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2832 7151 0.038166 AACATCGATGCCCAAGGTGT 59.962 50.0 25.11 0.5 0.0 4.16 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
43 44 6.540995 ACTATCATGCTTATGATCAAAGGCT 58.459 36.000 0.00 0.00 41.20 4.58
44 45 7.683578 ACTATCATGCTTATGATCAAAGGCTA 58.316 34.615 0.00 0.00 41.20 3.93
45 46 8.159447 ACTATCATGCTTATGATCAAAGGCTAA 58.841 33.333 0.00 0.00 41.20 3.09
52 53 6.603237 TTATGATCAAAGGCTAACACATCG 57.397 37.500 0.00 0.00 0.00 3.84
53 54 3.937814 TGATCAAAGGCTAACACATCGT 58.062 40.909 0.00 0.00 0.00 3.73
73 74 8.035394 ACATCGTATCAAACAAGAACTACTCAT 58.965 33.333 0.00 0.00 0.00 2.90
74 75 8.535592 CATCGTATCAAACAAGAACTACTCATC 58.464 37.037 0.00 0.00 0.00 2.92
76 77 7.541091 TCGTATCAAACAAGAACTACTCATCAC 59.459 37.037 0.00 0.00 0.00 3.06
77 78 7.328493 CGTATCAAACAAGAACTACTCATCACA 59.672 37.037 0.00 0.00 0.00 3.58
80 81 8.450578 TCAAACAAGAACTACTCATCACAAAT 57.549 30.769 0.00 0.00 0.00 2.32
81 82 8.902806 TCAAACAAGAACTACTCATCACAAATT 58.097 29.630 0.00 0.00 0.00 1.82
84 85 9.778741 AACAAGAACTACTCATCACAAATTAGA 57.221 29.630 0.00 0.00 0.00 2.10
85 86 9.778741 ACAAGAACTACTCATCACAAATTAGAA 57.221 29.630 0.00 0.00 0.00 2.10
102 103 9.769093 CAAATTAGAACCAGATAAAAACTACGG 57.231 33.333 0.00 0.00 0.00 4.02
103 104 6.973229 TTAGAACCAGATAAAAACTACGGC 57.027 37.500 0.00 0.00 0.00 5.68
172 173 0.924090 CGATTCTAGGCAACAGCGAC 59.076 55.000 0.00 0.00 41.41 5.19
232 234 4.449568 TCGCGCAGGCAGCACATA 62.450 61.111 8.75 0.00 46.13 2.29
234 236 4.228097 GCGCAGGCAGCACATACG 62.228 66.667 0.30 0.00 46.13 3.06
246 248 1.804151 GCACATACGAGAACCAAGCAA 59.196 47.619 0.00 0.00 0.00 3.91
261 269 4.760204 ACCAAGCAACACATCTACCTAAAC 59.240 41.667 0.00 0.00 0.00 2.01
316 328 2.638025 TAGGGGAAGGGGATCTGGCC 62.638 65.000 0.00 0.00 0.00 5.36
472 485 1.667830 TTCCCTTCGTCTGCGCAAG 60.668 57.895 13.05 5.11 38.14 4.01
499 515 3.209410 CAGCAAAGGAACAGTCAGAACT 58.791 45.455 0.00 0.00 35.60 3.01
501 517 2.221981 GCAAAGGAACAGTCAGAACTCG 59.778 50.000 0.00 0.00 31.71 4.18
507 523 3.428316 GGAACAGTCAGAACTCGAGATCC 60.428 52.174 21.68 7.38 31.71 3.36
513 533 5.473162 CAGTCAGAACTCGAGATCCATCTAT 59.527 44.000 21.68 0.00 33.00 1.98
514 534 5.705441 AGTCAGAACTCGAGATCCATCTATC 59.295 44.000 21.68 9.77 37.25 2.08
515 535 5.705441 GTCAGAACTCGAGATCCATCTATCT 59.295 44.000 21.68 5.25 38.95 1.98
516 536 6.876789 GTCAGAACTCGAGATCCATCTATCTA 59.123 42.308 21.68 0.00 36.33 1.98
698 718 2.022129 CTTTATAGAGCCGCGCGGG 61.022 63.158 45.81 29.29 39.58 6.13
740 760 2.481471 GGCCCGTTTGATAGGCTGC 61.481 63.158 0.00 0.00 46.31 5.25
830 860 2.034879 CCATATCGCGATGCCCACC 61.035 63.158 31.05 0.00 0.00 4.61
831 861 2.034879 CATATCGCGATGCCCACCC 61.035 63.158 31.05 0.00 0.00 4.61
859 889 1.134995 CACGCAGAGTCCAGCATTCTA 60.135 52.381 6.06 0.00 0.00 2.10
863 893 3.436704 CGCAGAGTCCAGCATTCTAAAAA 59.563 43.478 6.06 0.00 0.00 1.94
886 921 2.852130 AGCCTCCTACTTGGGAATCTT 58.148 47.619 0.00 0.00 34.66 2.40
887 922 2.507471 AGCCTCCTACTTGGGAATCTTG 59.493 50.000 0.00 0.00 34.66 3.02
888 923 2.924421 CCTCCTACTTGGGAATCTTGC 58.076 52.381 0.00 0.00 34.66 4.01
889 924 2.507471 CCTCCTACTTGGGAATCTTGCT 59.493 50.000 0.00 0.00 34.66 3.91
892 927 2.239654 CCTACTTGGGAATCTTGCTCCA 59.760 50.000 0.00 0.00 34.34 3.86
952 1014 4.485554 CGCAGGAAGAGAGAACCG 57.514 61.111 0.00 0.00 0.00 4.44
953 1015 1.807573 CGCAGGAAGAGAGAACCGC 60.808 63.158 0.00 0.00 0.00 5.68
956 1018 0.739112 CAGGAAGAGAGAACCGCAGC 60.739 60.000 0.00 0.00 0.00 5.25
957 1019 1.807573 GGAAGAGAGAACCGCAGCG 60.808 63.158 8.18 8.18 0.00 5.18
958 1020 1.213013 GAAGAGAGAACCGCAGCGA 59.787 57.895 18.75 0.00 0.00 4.93
959 1021 0.800300 GAAGAGAGAACCGCAGCGAG 60.800 60.000 18.75 9.19 0.00 5.03
960 1022 1.244697 AAGAGAGAACCGCAGCGAGA 61.245 55.000 18.75 0.00 0.00 4.04
961 1023 1.226547 GAGAGAACCGCAGCGAGAG 60.227 63.158 18.75 1.41 0.00 3.20
962 1024 1.649390 GAGAGAACCGCAGCGAGAGA 61.649 60.000 18.75 0.00 0.00 3.10
965 1027 1.139734 GAACCGCAGCGAGAGATCA 59.860 57.895 18.75 0.00 0.00 2.92
1027 1104 2.042435 CGGAAGCTCCTCTCCCCT 60.042 66.667 0.00 0.00 33.30 4.79
1100 1178 4.874966 AGAATCTGCTCTCGGATTTTCTTG 59.125 41.667 1.44 0.00 45.67 3.02
1114 1192 0.597568 TTCTTGGGTTGCTTGATGCG 59.402 50.000 0.00 0.00 46.63 4.73
1118 1196 2.700722 TGGGTTGCTTGATGCGTATA 57.299 45.000 0.00 0.00 46.63 1.47
1119 1197 2.560504 TGGGTTGCTTGATGCGTATAG 58.439 47.619 0.00 0.00 46.63 1.31
1120 1198 1.264288 GGGTTGCTTGATGCGTATAGC 59.736 52.381 1.70 1.70 46.63 2.97
1132 1210 1.067495 GCGTATAGCTGGACTGATCCC 60.067 57.143 0.00 0.00 44.04 3.85
1135 1213 0.833834 ATAGCTGGACTGATCCCCCG 60.834 60.000 0.00 0.00 45.59 5.73
1145 1233 0.688487 TGATCCCCCGTTCGTTTCTT 59.312 50.000 0.00 0.00 0.00 2.52
1169 1257 4.529731 GGCAGGGATGGGGGAAGC 62.530 72.222 0.00 0.00 0.00 3.86
1175 1263 4.570874 GATGGGGGAAGCCGAGGC 62.571 72.222 5.89 5.89 42.33 4.70
1255 1343 3.071479 TGTTCGGTAAGCCTCAATCAAC 58.929 45.455 0.00 0.00 0.00 3.18
1261 1349 3.366374 GGTAAGCCTCAATCAACACTTGC 60.366 47.826 0.00 0.00 0.00 4.01
1267 1355 4.397417 GCCTCAATCAACACTTGCTAATCT 59.603 41.667 0.00 0.00 0.00 2.40
1269 1357 5.300969 TCAATCAACACTTGCTAATCTGC 57.699 39.130 0.00 0.00 0.00 4.26
1271 1359 4.959596 ATCAACACTTGCTAATCTGCTG 57.040 40.909 0.00 0.00 0.00 4.41
1272 1360 2.485426 TCAACACTTGCTAATCTGCTGC 59.515 45.455 0.00 0.00 0.00 5.25
1273 1361 2.189594 ACACTTGCTAATCTGCTGCA 57.810 45.000 0.88 0.88 34.69 4.41
1274 1362 1.808945 ACACTTGCTAATCTGCTGCAC 59.191 47.619 0.00 0.00 36.37 4.57
1275 1363 1.131883 CACTTGCTAATCTGCTGCACC 59.868 52.381 0.00 0.00 36.37 5.01
1276 1364 1.004044 ACTTGCTAATCTGCTGCACCT 59.996 47.619 0.00 0.00 36.37 4.00
1277 1365 2.237143 ACTTGCTAATCTGCTGCACCTA 59.763 45.455 0.00 0.00 36.37 3.08
1278 1366 3.118112 ACTTGCTAATCTGCTGCACCTAT 60.118 43.478 0.00 0.00 36.37 2.57
1279 1367 3.117491 TGCTAATCTGCTGCACCTATC 57.883 47.619 0.00 0.00 0.00 2.08
1280 1368 2.435437 TGCTAATCTGCTGCACCTATCA 59.565 45.455 0.00 0.00 0.00 2.15
1281 1369 3.065655 GCTAATCTGCTGCACCTATCAG 58.934 50.000 0.00 0.00 34.79 2.90
1282 1370 3.494048 GCTAATCTGCTGCACCTATCAGT 60.494 47.826 0.00 0.00 34.21 3.41
1294 1382 4.186926 CACCTATCAGTGATTCAGTGTGG 58.813 47.826 18.61 19.04 40.34 4.17
1354 1460 3.618351 AGAATGGGATCAGCAAAGTGAG 58.382 45.455 0.00 0.00 0.00 3.51
1359 1465 3.269178 GGGATCAGCAAAGTGAGAAGAG 58.731 50.000 0.00 0.00 0.00 2.85
1402 1508 8.771920 TTTGATGTGTTTCGTTCATATAGAGT 57.228 30.769 0.00 0.00 0.00 3.24
1449 5600 1.324383 GGTACTGTGTTTTGGGTGGG 58.676 55.000 0.00 0.00 0.00 4.61
1512 5682 6.873997 ACTATGAACTGGAAATGTGTATCGA 58.126 36.000 0.00 0.00 0.00 3.59
1520 5690 6.206634 ACTGGAAATGTGTATCGATTTGTGTT 59.793 34.615 1.71 0.00 0.00 3.32
1521 5691 6.607689 TGGAAATGTGTATCGATTTGTGTTC 58.392 36.000 1.71 1.32 0.00 3.18
1522 5692 6.205658 TGGAAATGTGTATCGATTTGTGTTCA 59.794 34.615 1.71 0.00 0.00 3.18
1523 5693 6.523201 GGAAATGTGTATCGATTTGTGTTCAC 59.477 38.462 1.71 3.49 0.00 3.18
1524 5694 4.639189 TGTGTATCGATTTGTGTTCACG 57.361 40.909 1.71 0.00 0.00 4.35
1525 5695 3.430556 TGTGTATCGATTTGTGTTCACGG 59.569 43.478 1.71 0.00 0.00 4.94
1526 5696 3.430895 GTGTATCGATTTGTGTTCACGGT 59.569 43.478 1.71 0.00 0.00 4.83
1568 5745 1.118356 TTCGCAATTTGGGGCTGGTT 61.118 50.000 12.87 0.00 0.00 3.67
1582 5759 0.253327 CTGGTTAGGACCTCTTGCCC 59.747 60.000 0.00 0.00 46.66 5.36
1618 5824 2.034879 CCTCTGCGAATTGGCGTGT 61.035 57.895 7.98 0.00 35.06 4.49
1627 5833 0.537143 AATTGGCGTGTGGAAGCTCA 60.537 50.000 0.00 0.00 0.00 4.26
1633 5839 1.537202 GCGTGTGGAAGCTCATCTTTT 59.463 47.619 0.00 0.00 34.56 2.27
1648 5854 4.395854 TCATCTTTTGTGATGGTTGATCCG 59.604 41.667 4.91 0.00 42.82 4.18
1689 5956 4.700268 TCATTTTGCGCTGTCACATAAT 57.300 36.364 9.73 0.00 0.00 1.28
1790 6062 1.009389 GCACCTTGACCGTTCTCTCG 61.009 60.000 0.00 0.00 0.00 4.04
1793 6065 0.171455 CCTTGACCGTTCTCTCGAGG 59.829 60.000 13.56 3.44 32.69 4.63
1797 6069 0.109226 GACCGTTCTCTCGAGGGTTG 60.109 60.000 13.10 3.21 30.68 3.77
1798 6070 1.446272 CCGTTCTCTCGAGGGTTGC 60.446 63.158 13.10 2.93 0.00 4.17
1818 6091 2.416747 CGAATTCTCTGTGCAAGGACA 58.583 47.619 3.52 0.00 0.00 4.02
1841 6114 6.047511 AGCTTAGCTGATCAAGGTATATGG 57.952 41.667 5.70 0.00 38.63 2.74
1888 6189 5.808366 AATACCTTCTCTCACACTGTTCA 57.192 39.130 0.00 0.00 0.00 3.18
1889 6190 3.742433 ACCTTCTCTCACACTGTTCAG 57.258 47.619 0.00 0.00 0.00 3.02
1905 6206 6.581166 CACTGTTCAGTGATCATTCAAATGTG 59.419 38.462 23.45 4.28 42.02 3.21
1908 6209 5.535043 TCAGTGATCATTCAAATGTGTCG 57.465 39.130 0.00 0.00 37.65 4.35
1933 6234 6.389906 GTGCATTTGCCCTGTATATAAATCC 58.610 40.000 0.00 0.00 41.18 3.01
1937 6238 4.546829 TGCCCTGTATATAAATCCGTCC 57.453 45.455 0.00 0.00 0.00 4.79
1946 6247 9.537192 CTGTATATAAATCCGTCCTTTACAACA 57.463 33.333 0.00 0.00 0.00 3.33
1965 6266 4.025040 ACATGCATTTTCTCTCAGGTGA 57.975 40.909 0.00 0.00 0.00 4.02
1971 6272 4.094590 GCATTTTCTCTCAGGTGATGTCAG 59.905 45.833 0.00 0.00 0.00 3.51
2002 6303 4.641396 TGTTATGTGGTTCTGACCTTCTG 58.359 43.478 0.00 0.00 46.66 3.02
2092 6396 7.865875 TCCACAATTCGACATACAAAATTTG 57.134 32.000 3.89 3.89 0.00 2.32
2331 6635 2.097825 TGAGGAGCTTACTTACCCGAC 58.902 52.381 0.00 0.00 0.00 4.79
2332 6636 2.291411 TGAGGAGCTTACTTACCCGACT 60.291 50.000 0.00 0.00 0.00 4.18
2337 6641 2.492484 AGCTTACTTACCCGACTGACTG 59.508 50.000 0.00 0.00 0.00 3.51
2338 6642 2.490903 GCTTACTTACCCGACTGACTGA 59.509 50.000 0.00 0.00 0.00 3.41
2339 6643 3.130693 GCTTACTTACCCGACTGACTGAT 59.869 47.826 0.00 0.00 0.00 2.90
2340 6644 4.673441 CTTACTTACCCGACTGACTGATG 58.327 47.826 0.00 0.00 0.00 3.07
2341 6645 2.803956 ACTTACCCGACTGACTGATGA 58.196 47.619 0.00 0.00 0.00 2.92
2342 6646 3.366396 ACTTACCCGACTGACTGATGAT 58.634 45.455 0.00 0.00 0.00 2.45
2343 6647 3.769844 ACTTACCCGACTGACTGATGATT 59.230 43.478 0.00 0.00 0.00 2.57
2347 6651 5.160607 ACCCGACTGACTGATGATTTTTA 57.839 39.130 0.00 0.00 0.00 1.52
2357 6661 7.809665 TGACTGATGATTTTTACTCACATGTG 58.190 34.615 20.18 20.18 0.00 3.21
2359 6663 7.587629 ACTGATGATTTTTACTCACATGTGTG 58.412 34.615 24.63 23.70 46.91 3.82
2361 6665 7.939782 TGATGATTTTTACTCACATGTGTGTT 58.060 30.769 31.67 17.69 45.76 3.32
2366 6670 1.981256 ACTCACATGTGTGTTTCCCC 58.019 50.000 24.13 0.00 45.76 4.81
2367 6671 1.214175 ACTCACATGTGTGTTTCCCCA 59.786 47.619 24.13 3.12 45.76 4.96
2372 6678 3.763360 CACATGTGTGTTTCCCCATGTAT 59.237 43.478 18.03 0.00 44.39 2.29
2373 6679 3.763360 ACATGTGTGTTTCCCCATGTATG 59.237 43.478 0.00 0.00 44.38 2.39
2374 6680 3.517296 TGTGTGTTTCCCCATGTATGT 57.483 42.857 0.00 0.00 0.00 2.29
2432 6738 4.639310 GTGCCAAATCAGATCAGTTCATCT 59.361 41.667 0.00 0.00 33.00 2.90
2443 6749 7.284261 TCAGATCAGTTCATCTAGAGTAAGGTG 59.716 40.741 0.00 0.00 31.47 4.00
2444 6750 7.284261 CAGATCAGTTCATCTAGAGTAAGGTGA 59.716 40.741 0.00 2.21 34.79 4.02
2445 6751 6.761099 TCAGTTCATCTAGAGTAAGGTGAC 57.239 41.667 0.00 0.00 36.35 3.67
2446 6752 6.246163 TCAGTTCATCTAGAGTAAGGTGACA 58.754 40.000 0.00 0.00 36.35 3.58
2447 6753 6.892456 TCAGTTCATCTAGAGTAAGGTGACAT 59.108 38.462 0.00 0.00 36.35 3.06
2451 6758 9.220767 GTTCATCTAGAGTAAGGTGACATTTTT 57.779 33.333 0.00 0.00 36.35 1.94
2462 6769 9.503427 GTAAGGTGACATTTTTATCTATGTTGC 57.497 33.333 0.00 0.00 35.24 4.17
2465 6772 8.462016 AGGTGACATTTTTATCTATGTTGCTTC 58.538 33.333 0.00 0.00 35.24 3.86
2481 6788 7.496529 TGTTGCTTCCTGTATAATTAGATGC 57.503 36.000 0.00 0.00 0.00 3.91
2534 6844 9.460019 TTTGATGTATCATTGTTGATTCCTGTA 57.540 29.630 0.00 0.00 42.61 2.74
2536 6846 9.631257 TGATGTATCATTGTTGATTCCTGTATT 57.369 29.630 0.00 0.00 42.61 1.89
2538 6848 9.631257 ATGTATCATTGTTGATTCCTGTATTCA 57.369 29.630 0.00 0.00 42.61 2.57
2628 6940 5.836821 ATCGAGTACATTAGAGAGCACAA 57.163 39.130 0.00 0.00 0.00 3.33
2632 6944 5.864474 CGAGTACATTAGAGAGCACAAACTT 59.136 40.000 0.00 0.00 0.00 2.66
2661 6973 4.263331 GGAAACAGAAGAGGGTGATACCAA 60.263 45.833 0.00 0.00 41.02 3.67
2703 7015 1.903183 ACCTCTACCCAGCAGTCTTTC 59.097 52.381 0.00 0.00 0.00 2.62
2704 7016 1.208293 CCTCTACCCAGCAGTCTTTCC 59.792 57.143 0.00 0.00 0.00 3.13
2708 7020 0.320697 ACCCAGCAGTCTTTCCGTAC 59.679 55.000 0.00 0.00 0.00 3.67
2733 7051 8.370182 ACTTTCTATTTTCCAGATGCATGTTTT 58.630 29.630 2.46 0.00 0.00 2.43
2776 7095 8.437575 AGTGAGAATCCTTGGTTCTAAAACTTA 58.562 33.333 0.00 0.00 36.13 2.24
2807 7126 0.459489 TTCGCAGTTGCAAGCCTTTT 59.541 45.000 0.00 0.00 42.21 2.27
2819 7138 3.052036 CAAGCCTTTTGAAACGACCATG 58.948 45.455 0.00 0.00 0.00 3.66
2820 7139 2.306847 AGCCTTTTGAAACGACCATGT 58.693 42.857 0.00 0.00 0.00 3.21
2825 7144 4.261405 CCTTTTGAAACGACCATGTAGCAA 60.261 41.667 0.00 0.00 0.00 3.91
2832 7151 1.204704 CGACCATGTAGCAAGGACTGA 59.795 52.381 0.00 0.00 0.00 3.41
2833 7152 2.622436 GACCATGTAGCAAGGACTGAC 58.378 52.381 0.00 0.00 0.00 3.51
2834 7153 1.977854 ACCATGTAGCAAGGACTGACA 59.022 47.619 0.00 0.00 0.00 3.58
2843 7164 1.352622 AAGGACTGACACCTTGGGCA 61.353 55.000 0.00 0.00 44.73 5.36
2846 7167 1.003355 ACTGACACCTTGGGCATCG 60.003 57.895 0.00 0.00 0.00 3.84
2858 7179 4.393062 CCTTGGGCATCGATGTTATGATAC 59.607 45.833 25.47 7.02 0.00 2.24
2892 7213 2.598000 GCGACGAGCTACGATTATCT 57.402 50.000 11.64 0.00 45.77 1.98
2893 7214 2.235020 GCGACGAGCTACGATTATCTG 58.765 52.381 11.64 0.00 45.77 2.90
2894 7215 2.096367 GCGACGAGCTACGATTATCTGA 60.096 50.000 11.64 0.00 45.77 3.27
2895 7216 3.606384 GCGACGAGCTACGATTATCTGAA 60.606 47.826 11.64 0.00 45.77 3.02
2896 7217 4.145276 CGACGAGCTACGATTATCTGAAG 58.855 47.826 11.64 0.00 45.77 3.02
2897 7218 4.318903 CGACGAGCTACGATTATCTGAAGT 60.319 45.833 11.64 0.00 45.77 3.01
2898 7219 5.107568 CGACGAGCTACGATTATCTGAAGTA 60.108 44.000 11.64 0.00 45.77 2.24
2901 7222 7.478322 ACGAGCTACGATTATCTGAAGTAAAA 58.522 34.615 11.64 0.00 45.77 1.52
2905 7226 6.073711 GCTACGATTATCTGAAGTAAAAGGGC 60.074 42.308 0.00 0.00 0.00 5.19
2943 7264 9.970553 ATTATTATTAGCATCATGACTGGATGT 57.029 29.630 0.00 0.00 43.17 3.06
2963 7284 7.292356 TGGATGTAAATGTATGGAGACCAGTAT 59.708 37.037 0.00 0.00 36.75 2.12
2966 7287 4.357918 AATGTATGGAGACCAGTATGCC 57.642 45.455 0.00 0.00 36.75 4.40
2977 7298 6.439636 AGACCAGTATGCCATACACAATAT 57.560 37.500 16.74 0.00 38.21 1.28
3007 7328 6.941857 AGTAGAAGGTTCTTGAATCTTCCTC 58.058 40.000 24.44 19.04 38.70 3.71
3051 7372 8.258007 TCAGTCTTTCGACCAACAGAATATATT 58.742 33.333 0.00 0.00 41.16 1.28
3098 7419 5.950883 TGAAACTCTCGGTCACAGTAATAG 58.049 41.667 0.00 0.00 0.00 1.73
3166 7487 8.251750 TCAGTAAGTAATTTGATGTGCTACAC 57.748 34.615 0.00 0.00 34.56 2.90
3210 7531 0.890996 AGCCAACAACACTAGCAGCC 60.891 55.000 0.00 0.00 0.00 4.85
3257 7584 1.874345 GCAGCAGCAACAGAAGGCAT 61.874 55.000 0.00 0.00 41.58 4.40
3288 7615 1.535685 ATGAGGCTTCATGAGGGCC 59.464 57.895 25.09 25.10 42.41 5.80
3450 7777 1.612442 GTGGAGGCTGGGGTACTCA 60.612 63.158 0.00 0.00 32.98 3.41
3583 7910 4.716977 GGGACCCGGAGAGGTGGT 62.717 72.222 0.73 0.00 41.42 4.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.038271 AGTTTGAAGATGCTGGGAATGA 57.962 40.909 0.00 0.00 0.00 2.57
1 2 5.591472 TGATAGTTTGAAGATGCTGGGAATG 59.409 40.000 0.00 0.00 0.00 2.67
6 7 4.579340 AGCATGATAGTTTGAAGATGCTGG 59.421 41.667 0.00 0.00 43.68 4.85
9 10 7.868775 TCATAAGCATGATAGTTTGAAGATGC 58.131 34.615 0.00 0.00 36.22 3.91
43 44 7.956420 AGTTCTTGTTTGATACGATGTGTTA 57.044 32.000 0.00 0.00 0.00 2.41
44 45 6.861065 AGTTCTTGTTTGATACGATGTGTT 57.139 33.333 0.00 0.00 0.00 3.32
45 46 7.152645 AGTAGTTCTTGTTTGATACGATGTGT 58.847 34.615 0.00 0.00 0.00 3.72
52 53 8.534333 TGTGATGAGTAGTTCTTGTTTGATAC 57.466 34.615 0.00 0.00 0.00 2.24
53 54 9.554395 TTTGTGATGAGTAGTTCTTGTTTGATA 57.446 29.630 0.00 0.00 0.00 2.15
76 77 9.769093 CCGTAGTTTTTATCTGGTTCTAATTTG 57.231 33.333 0.00 0.00 0.00 2.32
77 78 8.456471 GCCGTAGTTTTTATCTGGTTCTAATTT 58.544 33.333 0.00 0.00 0.00 1.82
80 81 6.369615 GTGCCGTAGTTTTTATCTGGTTCTAA 59.630 38.462 0.00 0.00 0.00 2.10
81 82 5.870978 GTGCCGTAGTTTTTATCTGGTTCTA 59.129 40.000 0.00 0.00 0.00 2.10
82 83 4.694037 GTGCCGTAGTTTTTATCTGGTTCT 59.306 41.667 0.00 0.00 0.00 3.01
83 84 4.453136 TGTGCCGTAGTTTTTATCTGGTTC 59.547 41.667 0.00 0.00 0.00 3.62
84 85 4.391155 TGTGCCGTAGTTTTTATCTGGTT 58.609 39.130 0.00 0.00 0.00 3.67
85 86 4.010667 TGTGCCGTAGTTTTTATCTGGT 57.989 40.909 0.00 0.00 0.00 4.00
86 87 4.634004 TGATGTGCCGTAGTTTTTATCTGG 59.366 41.667 0.00 0.00 0.00 3.86
95 96 2.854522 GGCTTGATGTGCCGTAGTT 58.145 52.632 0.00 0.00 41.03 2.24
96 97 4.617875 GGCTTGATGTGCCGTAGT 57.382 55.556 0.00 0.00 41.03 2.73
101 102 2.998279 GCCTGTGGCTTGATGTGCC 61.998 63.158 0.73 0.00 46.69 5.01
102 103 2.570181 GCCTGTGGCTTGATGTGC 59.430 61.111 0.73 0.00 46.69 4.57
122 123 2.910479 TCTGTGGCTCGACGTGGT 60.910 61.111 0.00 0.00 0.00 4.16
159 160 4.077184 CCCCGTCGCTGTTGCCTA 62.077 66.667 0.00 0.00 35.36 3.93
182 183 1.600023 TAGGTTTTCGGTGCTGTTGG 58.400 50.000 0.00 0.00 0.00 3.77
191 192 2.159572 CCGTGATTGCTTAGGTTTTCGG 60.160 50.000 0.00 0.00 0.00 4.30
225 227 1.001974 TGCTTGGTTCTCGTATGTGCT 59.998 47.619 0.00 0.00 0.00 4.40
226 228 1.438651 TGCTTGGTTCTCGTATGTGC 58.561 50.000 0.00 0.00 0.00 4.57
227 229 2.805671 TGTTGCTTGGTTCTCGTATGTG 59.194 45.455 0.00 0.00 0.00 3.21
228 230 2.806244 GTGTTGCTTGGTTCTCGTATGT 59.194 45.455 0.00 0.00 0.00 2.29
229 231 2.805671 TGTGTTGCTTGGTTCTCGTATG 59.194 45.455 0.00 0.00 0.00 2.39
230 232 3.120321 TGTGTTGCTTGGTTCTCGTAT 57.880 42.857 0.00 0.00 0.00 3.06
231 233 2.605837 TGTGTTGCTTGGTTCTCGTA 57.394 45.000 0.00 0.00 0.00 3.43
232 234 1.873591 GATGTGTTGCTTGGTTCTCGT 59.126 47.619 0.00 0.00 0.00 4.18
234 236 3.437049 GGTAGATGTGTTGCTTGGTTCTC 59.563 47.826 0.00 0.00 0.00 2.87
261 269 2.799371 GTCCGTCGACCTAGCTGG 59.201 66.667 10.58 4.16 42.93 4.85
288 297 1.700186 CCCCTTCCCCTATCTTAGCAC 59.300 57.143 0.00 0.00 0.00 4.40
316 328 2.726691 CGCAAGTGTAAGTCCCGCG 61.727 63.158 0.00 0.00 34.89 6.46
472 485 3.128589 TGACTGTTCCTTTGCTGTTGTTC 59.871 43.478 0.00 0.00 0.00 3.18
499 515 5.419471 TCTCGTCTAGATAGATGGATCTCGA 59.581 44.000 8.79 0.00 39.30 4.04
501 517 6.538742 CCTTCTCGTCTAGATAGATGGATCTC 59.461 46.154 22.83 0.00 39.30 2.75
507 523 4.092821 CGCTCCTTCTCGTCTAGATAGATG 59.907 50.000 8.19 9.89 40.00 2.90
513 533 1.096386 GGCGCTCCTTCTCGTCTAGA 61.096 60.000 7.64 0.00 0.00 2.43
514 534 1.357334 GGCGCTCCTTCTCGTCTAG 59.643 63.158 7.64 0.00 0.00 2.43
515 535 2.470362 CGGCGCTCCTTCTCGTCTA 61.470 63.158 7.64 0.00 0.00 2.59
516 536 3.816524 CGGCGCTCCTTCTCGTCT 61.817 66.667 7.64 0.00 0.00 4.18
628 648 2.243736 TCTCTTCTTCCTCCTCTCCTCC 59.756 54.545 0.00 0.00 0.00 4.30
740 760 0.898320 AACAGGTCCACGGAGAGATG 59.102 55.000 0.00 0.00 0.00 2.90
816 846 4.856801 GTGGGTGGGCATCGCGAT 62.857 66.667 17.62 17.62 0.00 4.58
831 861 4.969196 ACTCTGCGTGCCCGTGTG 62.969 66.667 0.00 0.00 36.15 3.82
863 893 3.593780 AGATTCCCAAGTAGGAGGCTTTT 59.406 43.478 0.00 0.00 41.22 2.27
867 897 2.924421 CAAGATTCCCAAGTAGGAGGC 58.076 52.381 0.00 0.00 41.22 4.70
868 898 2.507471 AGCAAGATTCCCAAGTAGGAGG 59.493 50.000 0.00 0.00 41.22 4.30
877 912 1.078214 CGCTGGAGCAAGATTCCCA 60.078 57.895 0.00 0.00 42.21 4.37
936 998 0.739112 CTGCGGTTCTCTCTTCCTGC 60.739 60.000 0.00 0.00 0.00 4.85
950 1012 2.657944 GCTGATCTCTCGCTGCGG 60.658 66.667 23.03 12.92 0.00 5.69
952 1014 1.658102 CGAGCTGATCTCTCGCTGC 60.658 63.158 19.46 0.00 45.32 5.25
953 1015 4.612757 CGAGCTGATCTCTCGCTG 57.387 61.111 19.46 1.59 45.32 5.18
957 1019 1.282570 CGAGCCGAGCTGATCTCTC 59.717 63.158 2.98 0.00 39.88 3.20
958 1020 2.192861 CCGAGCCGAGCTGATCTCT 61.193 63.158 2.98 0.00 39.88 3.10
959 1021 2.334653 CCGAGCCGAGCTGATCTC 59.665 66.667 2.98 0.00 39.88 2.75
960 1022 3.910490 GCCGAGCCGAGCTGATCT 61.910 66.667 2.98 0.00 39.88 2.75
961 1023 3.910490 AGCCGAGCCGAGCTGATC 61.910 66.667 2.98 0.00 39.88 2.92
1027 1104 1.229209 AGAGCTTCTCCGTGGGGAA 60.229 57.895 0.45 0.45 43.27 3.97
1089 1167 2.295909 TCAAGCAACCCAAGAAAATCCG 59.704 45.455 0.00 0.00 0.00 4.18
1091 1169 3.681417 GCATCAAGCAACCCAAGAAAATC 59.319 43.478 0.00 0.00 44.79 2.17
1092 1170 3.667360 GCATCAAGCAACCCAAGAAAAT 58.333 40.909 0.00 0.00 44.79 1.82
1093 1171 2.545532 CGCATCAAGCAACCCAAGAAAA 60.546 45.455 0.00 0.00 46.13 2.29
1100 1178 1.264288 GCTATACGCATCAAGCAACCC 59.736 52.381 0.00 0.00 46.13 4.11
1122 1200 1.896122 AACGAACGGGGGATCAGTCC 61.896 60.000 0.00 0.00 44.29 3.85
1123 1201 0.036671 AAACGAACGGGGGATCAGTC 60.037 55.000 0.00 0.00 0.00 3.51
1127 1205 1.084289 CAAGAAACGAACGGGGGATC 58.916 55.000 0.00 0.00 0.00 3.36
1132 1210 1.126113 CGTCATCAAGAAACGAACGGG 59.874 52.381 0.00 0.00 38.65 5.28
1135 1213 1.529438 TGCCGTCATCAAGAAACGAAC 59.471 47.619 9.14 3.52 38.65 3.95
1145 1233 2.745308 CCCATCCCTGCCGTCATCA 61.745 63.158 0.00 0.00 0.00 3.07
1178 1266 3.964875 GTGGCCACCAGCACAACG 61.965 66.667 26.31 0.00 46.50 4.10
1255 1343 1.131883 GGTGCAGCAGATTAGCAAGTG 59.868 52.381 11.86 0.00 40.35 3.16
1261 1349 4.056740 CACTGATAGGTGCAGCAGATTAG 58.943 47.826 19.63 17.51 36.86 1.73
1267 1355 2.236893 TGAATCACTGATAGGTGCAGCA 59.763 45.455 19.63 4.52 36.86 4.41
1269 1357 3.869832 CACTGAATCACTGATAGGTGCAG 59.130 47.826 0.00 0.00 37.16 4.41
1271 1359 3.620374 CACACTGAATCACTGATAGGTGC 59.380 47.826 13.98 0.00 37.16 5.01
1272 1360 4.186926 CCACACTGAATCACTGATAGGTG 58.813 47.826 13.10 13.10 38.44 4.00
1273 1361 3.840666 ACCACACTGAATCACTGATAGGT 59.159 43.478 0.00 0.48 0.00 3.08
1274 1362 4.478206 ACCACACTGAATCACTGATAGG 57.522 45.455 0.00 0.00 0.00 2.57
1275 1363 6.214191 AGTACCACACTGAATCACTGATAG 57.786 41.667 0.00 0.00 35.62 2.08
1304 1392 7.336427 GGCTGTTCTTGAGACTTACTAGTACTA 59.664 40.741 0.91 1.89 33.84 1.82
1307 1395 6.246919 AGGCTGTTCTTGAGACTTACTAGTA 58.753 40.000 0.00 0.00 33.84 1.82
1308 1396 5.081032 AGGCTGTTCTTGAGACTTACTAGT 58.919 41.667 0.00 0.00 37.31 2.57
1309 1397 5.652994 AGGCTGTTCTTGAGACTTACTAG 57.347 43.478 0.00 0.00 0.00 2.57
1359 1465 5.431179 TCAAAAGATGGGGTAAGAGGTAC 57.569 43.478 0.00 0.00 0.00 3.34
1390 1496 4.945246 TCCTTCGCCAACTCTATATGAAC 58.055 43.478 0.00 0.00 0.00 3.18
1397 1503 2.457598 ACTCATCCTTCGCCAACTCTA 58.542 47.619 0.00 0.00 0.00 2.43
1402 1508 0.250684 TGCAACTCATCCTTCGCCAA 60.251 50.000 0.00 0.00 0.00 4.52
1449 5600 0.738412 CGTTCACCGGGGACATGTAC 60.738 60.000 5.46 0.00 0.00 2.90
1476 5643 8.660295 TTCCAGTTCATAGTACCTTCTTCTTA 57.340 34.615 0.00 0.00 0.00 2.10
1512 5682 1.268335 GCGTCAACCGTGAACACAAAT 60.268 47.619 5.80 0.00 39.32 2.32
1524 5694 2.355481 ACGAGAACGGCGTCAACC 60.355 61.111 15.17 3.10 44.46 3.77
1525 5695 1.659335 TCACGAGAACGGCGTCAAC 60.659 57.895 15.17 8.41 44.46 3.18
1526 5696 1.659335 GTCACGAGAACGGCGTCAA 60.659 57.895 15.17 0.00 44.46 3.18
1568 5745 2.038975 AGCGGGCAAGAGGTCCTA 59.961 61.111 0.00 0.00 39.98 2.94
1618 5824 3.760151 CCATCACAAAAGATGAGCTTCCA 59.240 43.478 5.57 0.00 46.51 3.53
1627 5833 4.156556 CACGGATCAACCATCACAAAAGAT 59.843 41.667 0.00 0.00 38.90 2.40
1633 5839 0.035534 CCCACGGATCAACCATCACA 60.036 55.000 0.00 0.00 38.90 3.58
1662 5868 4.025896 TGTGACAGCGCAAAATGAAAAATG 60.026 37.500 11.47 0.00 0.00 2.32
1689 5956 6.071447 CCCACATCATCCAAACTGAAAATACA 60.071 38.462 0.00 0.00 0.00 2.29
1790 6062 1.734465 CACAGAGAATTCGCAACCCTC 59.266 52.381 11.94 0.00 0.00 4.30
1793 6065 0.874390 TGCACAGAGAATTCGCAACC 59.126 50.000 11.94 0.00 0.00 3.77
1797 6069 1.129437 GTCCTTGCACAGAGAATTCGC 59.871 52.381 0.22 0.22 0.00 4.70
1798 6070 2.414481 CTGTCCTTGCACAGAGAATTCG 59.586 50.000 0.00 0.00 45.92 3.34
1818 6091 5.570439 GCCATATACCTTGATCAGCTAAGCT 60.570 44.000 0.00 0.00 40.77 3.74
1860 6161 6.946583 ACAGTGTGAGAGAAGGTATTACTGTA 59.053 38.462 0.00 0.00 42.88 2.74
1888 6189 4.154737 CACCGACACATTTGAATGATCACT 59.845 41.667 10.48 0.00 39.67 3.41
1889 6190 4.406069 CACCGACACATTTGAATGATCAC 58.594 43.478 10.48 0.00 39.67 3.06
1917 6218 4.820894 AGGACGGATTTATATACAGGGC 57.179 45.455 0.00 0.00 0.00 5.19
1933 6234 5.460646 AGAAAATGCATGTTGTAAAGGACG 58.539 37.500 6.90 0.00 0.00 4.79
1937 6238 6.805271 CCTGAGAGAAAATGCATGTTGTAAAG 59.195 38.462 6.90 1.76 0.00 1.85
1946 6247 4.597004 ACATCACCTGAGAGAAAATGCAT 58.403 39.130 0.00 0.00 0.00 3.96
1965 6266 4.883585 CACATAACAGCATTACCCTGACAT 59.116 41.667 0.00 0.00 34.47 3.06
1971 6272 4.096382 CAGAACCACATAACAGCATTACCC 59.904 45.833 0.00 0.00 0.00 3.69
2002 6303 1.364626 CTGGCGTGCTGAATGACTCC 61.365 60.000 0.00 0.00 0.00 3.85
2068 6372 7.380870 CACAAATTTTGTATGTCGAATTGTGGA 59.619 33.333 14.13 0.00 43.23 4.02
2072 6376 7.003072 GTGCACAAATTTTGTATGTCGAATTG 58.997 34.615 13.17 0.44 43.23 2.32
2077 6381 3.672867 GGGTGCACAAATTTTGTATGTCG 59.327 43.478 20.43 3.69 43.23 4.35
2092 6396 7.068226 ACTGTGATTTATAAATAAGGGGTGCAC 59.932 37.037 8.80 8.80 0.00 4.57
2324 6628 4.819105 AAAATCATCAGTCAGTCGGGTA 57.181 40.909 0.00 0.00 0.00 3.69
2325 6629 3.703001 AAAATCATCAGTCAGTCGGGT 57.297 42.857 0.00 0.00 0.00 5.28
2326 6630 5.178797 AGTAAAAATCATCAGTCAGTCGGG 58.821 41.667 0.00 0.00 0.00 5.14
2331 6635 7.961283 CACATGTGAGTAAAAATCATCAGTCAG 59.039 37.037 21.64 0.00 0.00 3.51
2332 6636 7.445096 ACACATGTGAGTAAAAATCATCAGTCA 59.555 33.333 31.94 0.00 0.00 3.41
2357 6661 5.848406 TGAAAAACATACATGGGGAAACAC 58.152 37.500 0.00 0.00 0.00 3.32
2359 6663 5.245075 TCCTGAAAAACATACATGGGGAAAC 59.755 40.000 0.00 0.00 0.00 2.78
2361 6665 5.004361 TCCTGAAAAACATACATGGGGAA 57.996 39.130 0.00 0.00 0.00 3.97
2372 6678 7.040062 ACCGAAATGATGTTATCCTGAAAAACA 60.040 33.333 0.00 0.00 37.51 2.83
2373 6679 7.312899 ACCGAAATGATGTTATCCTGAAAAAC 58.687 34.615 0.00 0.00 0.00 2.43
2374 6680 7.461182 ACCGAAATGATGTTATCCTGAAAAA 57.539 32.000 0.00 0.00 0.00 1.94
2443 6749 8.462016 ACAGGAAGCAACATAGATAAAAATGTC 58.538 33.333 0.00 0.00 35.30 3.06
2444 6750 8.353423 ACAGGAAGCAACATAGATAAAAATGT 57.647 30.769 0.00 0.00 37.94 2.71
2457 6764 7.282585 AGCATCTAATTATACAGGAAGCAACA 58.717 34.615 2.91 0.00 0.00 3.33
2507 6817 8.974238 ACAGGAATCAACAATGATACATCAAAT 58.026 29.630 0.00 0.00 45.60 2.32
2599 6911 7.282450 TGCTCTCTAATGTACTCGATTACTTCA 59.718 37.037 13.34 0.00 0.00 3.02
2628 6940 5.770162 CCCTCTTCTGTTTCCATGTAAAGTT 59.230 40.000 0.00 0.00 0.00 2.66
2632 6944 4.349636 TCACCCTCTTCTGTTTCCATGTAA 59.650 41.667 0.00 0.00 0.00 2.41
2644 6956 5.429762 TCATGATTTGGTATCACCCTCTTCT 59.570 40.000 0.00 0.00 37.50 2.85
2646 6958 5.044919 TGTCATGATTTGGTATCACCCTCTT 60.045 40.000 0.00 0.00 37.50 2.85
2651 6963 5.360714 ACCATTGTCATGATTTGGTATCACC 59.639 40.000 19.72 0.00 38.87 4.02
2703 7015 5.584649 TGCATCTGGAAAATAGAAAGTACGG 59.415 40.000 0.00 0.00 0.00 4.02
2704 7016 6.662414 TGCATCTGGAAAATAGAAAGTACG 57.338 37.500 0.00 0.00 0.00 3.67
2708 7020 8.767478 AAAACATGCATCTGGAAAATAGAAAG 57.233 30.769 0.00 0.00 0.00 2.62
2742 7060 3.199508 CCAAGGATTCTCACTGAGGACAT 59.800 47.826 6.20 0.00 0.00 3.06
2743 7061 2.568956 CCAAGGATTCTCACTGAGGACA 59.431 50.000 6.20 0.00 0.00 4.02
2744 7062 2.569404 ACCAAGGATTCTCACTGAGGAC 59.431 50.000 6.20 0.00 0.00 3.85
2748 7066 6.433847 TTTAGAACCAAGGATTCTCACTGA 57.566 37.500 7.06 0.00 37.57 3.41
2807 7126 2.037902 TCCTTGCTACATGGTCGTTTCA 59.962 45.455 0.00 0.00 31.64 2.69
2819 7138 2.841442 AAGGTGTCAGTCCTTGCTAC 57.159 50.000 0.00 0.00 42.79 3.58
2825 7144 1.136329 ATGCCCAAGGTGTCAGTCCT 61.136 55.000 0.00 0.00 36.81 3.85
2832 7151 0.038166 AACATCGATGCCCAAGGTGT 59.962 50.000 25.11 0.50 0.00 4.16
2833 7152 2.036958 TAACATCGATGCCCAAGGTG 57.963 50.000 25.11 0.00 0.00 4.00
2834 7153 2.172505 TCATAACATCGATGCCCAAGGT 59.827 45.455 25.11 0.56 0.00 3.50
2878 7199 7.382759 CCCTTTTACTTCAGATAATCGTAGCTC 59.617 40.741 0.00 0.00 0.00 4.09
2883 7204 5.104485 AGGCCCTTTTACTTCAGATAATCGT 60.104 40.000 0.00 0.00 0.00 3.73
2892 7213 2.814097 GCAGTCAGGCCCTTTTACTTCA 60.814 50.000 0.00 0.00 0.00 3.02
2893 7214 1.813178 GCAGTCAGGCCCTTTTACTTC 59.187 52.381 0.00 0.00 0.00 3.01
2894 7215 1.911057 GCAGTCAGGCCCTTTTACTT 58.089 50.000 0.00 0.00 0.00 2.24
2895 7216 3.652581 GCAGTCAGGCCCTTTTACT 57.347 52.632 0.00 0.00 0.00 2.24
2905 7226 8.798859 ATGCTAATAATAATAAGGCAGTCAGG 57.201 34.615 0.00 0.00 0.00 3.86
2917 7238 9.970553 ACATCCAGTCATGATGCTAATAATAAT 57.029 29.630 0.00 0.00 42.68 1.28
2920 7241 9.797642 TTTACATCCAGTCATGATGCTAATAAT 57.202 29.630 0.00 0.00 42.68 1.28
2921 7242 9.797642 ATTTACATCCAGTCATGATGCTAATAA 57.202 29.630 0.00 0.00 42.68 1.40
2922 7243 9.223099 CATTTACATCCAGTCATGATGCTAATA 57.777 33.333 0.00 0.00 42.68 0.98
2923 7244 7.722728 ACATTTACATCCAGTCATGATGCTAAT 59.277 33.333 0.00 0.00 42.68 1.73
2924 7245 7.056006 ACATTTACATCCAGTCATGATGCTAA 58.944 34.615 0.00 0.00 42.68 3.09
2925 7246 6.594744 ACATTTACATCCAGTCATGATGCTA 58.405 36.000 0.00 0.00 42.68 3.49
2936 7257 5.928976 TGGTCTCCATACATTTACATCCAG 58.071 41.667 0.00 0.00 0.00 3.86
2943 7264 5.368230 TGGCATACTGGTCTCCATACATTTA 59.632 40.000 0.00 0.00 30.82 1.40
3084 7405 2.165641 TGGCAGACTATTACTGTGACCG 59.834 50.000 0.00 0.00 37.64 4.79
3098 7419 4.219288 AGAGGATGAAACAAAATGGCAGAC 59.781 41.667 0.00 0.00 0.00 3.51
3166 7487 6.344500 AGGATTACAGAGTGTAGCTGAATTG 58.656 40.000 0.00 0.00 33.92 2.32
3168 7489 6.239176 GCTAGGATTACAGAGTGTAGCTGAAT 60.239 42.308 0.00 0.00 33.92 2.57
3170 7491 4.580995 GCTAGGATTACAGAGTGTAGCTGA 59.419 45.833 0.00 0.00 33.92 4.26
3171 7492 4.261825 GGCTAGGATTACAGAGTGTAGCTG 60.262 50.000 0.00 0.00 33.92 4.24
3172 7493 3.892588 GGCTAGGATTACAGAGTGTAGCT 59.107 47.826 0.00 0.00 33.92 3.32
3173 7494 3.637229 TGGCTAGGATTACAGAGTGTAGC 59.363 47.826 0.00 0.00 33.92 3.58
3174 7495 5.127194 TGTTGGCTAGGATTACAGAGTGTAG 59.873 44.000 0.00 0.00 33.92 2.74
3175 7496 5.020795 TGTTGGCTAGGATTACAGAGTGTA 58.979 41.667 0.00 0.00 0.00 2.90
3276 7603 2.507944 CGGGAGGCCCTCATGAAG 59.492 66.667 13.90 0.00 42.67 3.02
3354 7681 1.153706 CATCGCCGACGGGTACTTT 60.154 57.895 17.22 0.00 40.63 2.66
3407 7734 1.043816 CATGCGGGAGATCTACCAGT 58.956 55.000 24.24 5.87 31.13 4.00
3503 7830 1.405526 GCCTCTTCACCACGCTCATAA 60.406 52.381 0.00 0.00 0.00 1.90
3583 7910 2.895680 GCTGGACATGCTCGAGGA 59.104 61.111 15.58 12.84 0.00 3.71


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

AutoCloner maintained by Alex Coulton.