Multiple sequence alignment - TraesCS1B01G025900

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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 TraesCS1B01G025900 chr1B 100.000 2632 0 0 1 2632 12739743 12737112 0.000000e+00 4824.0
1 TraesCS1B01G025900 chr1B 89.850 1399 96 27 778 2154 12388448 12387074 0.000000e+00 1755.0
2 TraesCS1B01G025900 chr1B 88.223 1384 100 26 739 2095 12976402 12975055 0.000000e+00 1594.0
3 TraesCS1B01G025900 chr1B 88.143 1341 114 25 784 2095 13448753 13447429 0.000000e+00 1554.0
4 TraesCS1B01G025900 chr1B 82.296 1768 213 62 737 2461 12754973 12753263 0.000000e+00 1439.0
5 TraesCS1B01G025900 chr1B 88.316 291 29 3 2172 2461 13082426 13082712 6.970000e-91 344.0
6 TraesCS1B01G025900 chr1B 86.532 297 34 2 1395 1691 13046567 13046857 3.270000e-84 322.0
7 TraesCS1B01G025900 chr1B 95.455 132 6 0 751 882 12401900 12401769 7.380000e-51 211.0
8 TraesCS1B01G025900 chr1A 88.486 1711 145 27 776 2461 10607764 10606081 0.000000e+00 2021.0
9 TraesCS1B01G025900 chr1D 88.980 1343 108 17 734 2052 9364929 9363603 0.000000e+00 1624.0
10 TraesCS1B01G025900 chr1D 87.858 1186 123 14 1283 2461 9367448 9366277 0.000000e+00 1373.0
11 TraesCS1B01G025900 chr1D 87.109 1086 106 17 1283 2362 9395423 9394366 0.000000e+00 1199.0
12 TraesCS1B01G025900 chr1D 80.566 1096 138 39 819 1874 9400583 9399523 0.000000e+00 774.0
13 TraesCS1B01G025900 chr1D 88.252 349 31 5 3 344 361459621 361459966 2.440000e-110 409.0
14 TraesCS1B01G025900 chr1D 84.722 144 20 2 2319 2461 9399972 9399830 2.730000e-30 143.0
15 TraesCS1B01G025900 chr1D 81.034 174 17 8 816 976 9397943 9397773 9.890000e-25 124.0
16 TraesCS1B01G025900 chr6A 99.856 695 1 0 1 695 263508495 263509189 0.000000e+00 1279.0
17 TraesCS1B01G025900 chr6A 96.296 351 4 4 1 344 617836563 617836215 3.800000e-158 568.0
18 TraesCS1B01G025900 chr3B 99.712 695 2 0 1 695 19524258 19524952 0.000000e+00 1273.0
19 TraesCS1B01G025900 chr3B 88.608 79 4 4 618 695 795802791 795802865 1.000000e-14 91.6
20 TraesCS1B01G025900 chr3B 88.608 79 4 4 618 695 795802872 795802798 1.000000e-14 91.6
21 TraesCS1B01G025900 chr3B 87.654 81 4 2 621 695 578628192 578628272 3.610000e-14 89.8
22 TraesCS1B01G025900 chr3A 99.712 695 2 0 1 695 83204218 83204912 0.000000e+00 1273.0
23 TraesCS1B01G025900 chr3A 90.217 184 18 0 2449 2632 20905745 20905928 9.410000e-60 241.0
24 TraesCS1B01G025900 chr5A 99.568 695 3 0 1 695 219437105 219437799 0.000000e+00 1267.0
25 TraesCS1B01G025900 chr5A 90.217 184 18 0 2449 2632 552622821 552623004 9.410000e-60 241.0
26 TraesCS1B01G025900 chr5A 87.500 176 22 0 2449 2624 707078222 707078047 1.240000e-48 204.0
27 TraesCS1B01G025900 chr5B 99.779 453 1 0 1 453 250729112 250729564 0.000000e+00 832.0
28 TraesCS1B01G025900 chr5B 92.491 293 7 1 331 623 530796281 530796004 3.150000e-109 405.0
29 TraesCS1B01G025900 chr5B 93.310 284 4 1 330 613 607017327 607017059 3.150000e-109 405.0
30 TraesCS1B01G025900 chr5B 87.500 80 5 3 621 695 701591527 701591448 1.300000e-13 87.9
31 TraesCS1B01G025900 chr7A 92.491 293 7 1 331 623 116613707 116613430 3.150000e-109 405.0
32 TraesCS1B01G025900 chr4A 92.491 293 7 1 331 623 494634360 494634637 3.150000e-109 405.0
33 TraesCS1B01G025900 chr5D 91.848 184 15 0 2449 2632 549780946 549780763 9.350000e-65 257.0
34 TraesCS1B01G025900 chr7D 91.304 184 16 0 2449 2632 575060558 575060741 4.350000e-63 252.0
35 TraesCS1B01G025900 chr7D 90.217 184 18 0 2449 2632 20337079 20337262 9.410000e-60 241.0
36 TraesCS1B01G025900 chr6D 90.503 179 17 0 2449 2627 468030851 468031029 1.220000e-58 237.0
37 TraesCS1B01G025900 chr6D 86.250 80 6 2 616 690 91174921 91174842 6.040000e-12 82.4
38 TraesCS1B01G025900 chr2B 88.043 184 22 0 2449 2632 80256570 80256753 4.410000e-53 219.0
39 TraesCS1B01G025900 chr6B 87.500 184 17 3 446 623 95569131 95569314 9.550000e-50 207.0
40 TraesCS1B01G025900 chr7B 85.714 84 6 4 618 695 743623599 743623682 1.680000e-12 84.2


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS1B01G025900 chr1B 12737112 12739743 2631 True 4824.0 4824 100.00000 1 2632 1 chr1B.!!$R3 2631
1 TraesCS1B01G025900 chr1B 12387074 12388448 1374 True 1755.0 1755 89.85000 778 2154 1 chr1B.!!$R1 1376
2 TraesCS1B01G025900 chr1B 12975055 12976402 1347 True 1594.0 1594 88.22300 739 2095 1 chr1B.!!$R5 1356
3 TraesCS1B01G025900 chr1B 13447429 13448753 1324 True 1554.0 1554 88.14300 784 2095 1 chr1B.!!$R6 1311
4 TraesCS1B01G025900 chr1B 12753263 12754973 1710 True 1439.0 1439 82.29600 737 2461 1 chr1B.!!$R4 1724
5 TraesCS1B01G025900 chr1A 10606081 10607764 1683 True 2021.0 2021 88.48600 776 2461 1 chr1A.!!$R1 1685
6 TraesCS1B01G025900 chr1D 9363603 9367448 3845 True 1498.5 1624 88.41900 734 2461 2 chr1D.!!$R1 1727
7 TraesCS1B01G025900 chr1D 9394366 9400583 6217 True 560.0 1199 83.35775 816 2461 4 chr1D.!!$R2 1645
8 TraesCS1B01G025900 chr6A 263508495 263509189 694 False 1279.0 1279 99.85600 1 695 1 chr6A.!!$F1 694
9 TraesCS1B01G025900 chr3B 19524258 19524952 694 False 1273.0 1273 99.71200 1 695 1 chr3B.!!$F1 694
10 TraesCS1B01G025900 chr3A 83204218 83204912 694 False 1273.0 1273 99.71200 1 695 1 chr3A.!!$F2 694
11 TraesCS1B01G025900 chr5A 219437105 219437799 694 False 1267.0 1267 99.56800 1 695 1 chr5A.!!$F1 694

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
905 928 0.104855 TAGATCACGCCCACATGCTC 59.895 55.0 0.0 0.0 0.0 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2368 10238 0.889186 GCGACAACAGGTCCAACCAT 60.889 55.0 0.0 0.0 43.95 3.55 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
127 128 9.247126 AGCGGTTTTATTTTGTACGTAAATTTT 57.753 25.926 0.00 0.00 0.00 1.82
803 804 2.609459 ACAGTTGTCGTCAAGCTTTCTG 59.391 45.455 0.00 2.29 33.97 3.02
806 807 4.024556 CAGTTGTCGTCAAGCTTTCTGATT 60.025 41.667 0.00 0.00 33.97 2.57
808 809 5.934625 AGTTGTCGTCAAGCTTTCTGATTAT 59.065 36.000 0.00 0.00 33.97 1.28
809 810 7.063426 CAGTTGTCGTCAAGCTTTCTGATTATA 59.937 37.037 0.00 0.00 33.97 0.98
810 811 7.766278 AGTTGTCGTCAAGCTTTCTGATTATAT 59.234 33.333 0.00 0.00 33.97 0.86
811 812 8.391106 GTTGTCGTCAAGCTTTCTGATTATATT 58.609 33.333 0.00 0.00 33.97 1.28
841 858 4.684134 ACATGCAGGCCACCCACC 62.684 66.667 5.01 0.00 0.00 4.61
847 864 1.227943 CAGGCCACCCACCGATATG 60.228 63.158 5.01 0.00 0.00 1.78
848 865 1.383943 AGGCCACCCACCGATATGA 60.384 57.895 5.01 0.00 0.00 2.15
849 866 0.768221 AGGCCACCCACCGATATGAT 60.768 55.000 5.01 0.00 0.00 2.45
850 867 0.606401 GGCCACCCACCGATATGATG 60.606 60.000 0.00 0.00 0.00 3.07
886 909 4.478203 TGCTACTGCTAGAGATCCAATCT 58.522 43.478 0.00 0.00 40.43 2.40
889 912 5.943416 GCTACTGCTAGAGATCCAATCTAGA 59.057 44.000 17.44 0.00 46.12 2.43
905 928 0.104855 TAGATCACGCCCACATGCTC 59.895 55.000 0.00 0.00 0.00 4.26
906 929 1.153289 GATCACGCCCACATGCTCT 60.153 57.895 0.00 0.00 0.00 4.09
909 932 2.104859 CACGCCCACATGCTCTCTG 61.105 63.158 0.00 0.00 0.00 3.35
921 944 1.270305 TGCTCTCTGCGTGTAAAGCTT 60.270 47.619 0.00 0.00 43.59 3.74
923 946 1.728971 CTCTCTGCGTGTAAAGCTTGG 59.271 52.381 0.00 0.00 43.59 3.61
924 947 1.070134 TCTCTGCGTGTAAAGCTTGGT 59.930 47.619 0.00 0.00 43.59 3.67
925 948 1.195448 CTCTGCGTGTAAAGCTTGGTG 59.805 52.381 0.00 0.00 43.59 4.17
926 949 0.385974 CTGCGTGTAAAGCTTGGTGC 60.386 55.000 0.00 0.87 43.59 5.01
927 950 1.081442 GCGTGTAAAGCTTGGTGCC 60.081 57.895 0.00 0.00 44.23 5.01
928 951 1.579429 CGTGTAAAGCTTGGTGCCC 59.421 57.895 0.00 0.00 44.23 5.36
929 952 1.579429 GTGTAAAGCTTGGTGCCCG 59.421 57.895 0.00 0.00 44.23 6.13
930 953 1.149627 TGTAAAGCTTGGTGCCCGT 59.850 52.632 0.00 0.00 44.23 5.28
931 954 1.169661 TGTAAAGCTTGGTGCCCGTG 61.170 55.000 0.00 0.00 44.23 4.94
932 955 2.265182 TAAAGCTTGGTGCCCGTGC 61.265 57.895 0.00 0.00 44.23 5.34
933 956 2.690653 TAAAGCTTGGTGCCCGTGCT 62.691 55.000 0.00 5.43 44.23 4.40
937 960 3.899981 CTTGGTGCCCGTGCTGCTA 62.900 63.158 0.00 0.00 38.71 3.49
938 961 4.697756 TGGTGCCCGTGCTGCTAC 62.698 66.667 0.00 0.00 38.71 3.58
948 971 1.201998 CGTGCTGCTACTTGCTCATTG 60.202 52.381 0.00 0.00 43.37 2.82
949 972 2.079158 GTGCTGCTACTTGCTCATTGA 58.921 47.619 0.00 0.00 43.37 2.57
956 979 6.566187 GCTGCTACTTGCTCATTGATCTATTG 60.566 42.308 0.00 0.00 43.37 1.90
958 981 6.481313 TGCTACTTGCTCATTGATCTATTGTC 59.519 38.462 0.00 0.00 43.37 3.18
959 982 6.481313 GCTACTTGCTCATTGATCTATTGTCA 59.519 38.462 0.00 0.00 38.95 3.58
971 994 3.838120 TCTATTGTCACTTGTGCTCTCG 58.162 45.455 0.00 0.00 0.00 4.04
976 999 1.005748 CACTTGTGCTCTCGCCTCA 60.006 57.895 0.00 0.00 34.43 3.86
977 1000 1.013005 CACTTGTGCTCTCGCCTCAG 61.013 60.000 0.00 0.00 34.43 3.35
980 1003 2.202544 GTGCTCTCGCCTCAGTCG 60.203 66.667 0.00 0.00 34.43 4.18
981 1004 2.359975 TGCTCTCGCCTCAGTCGA 60.360 61.111 0.00 0.00 34.43 4.20
982 1005 1.750780 TGCTCTCGCCTCAGTCGAT 60.751 57.895 0.00 0.00 35.25 3.59
983 1006 1.008995 GCTCTCGCCTCAGTCGATC 60.009 63.158 0.00 0.00 35.25 3.69
984 1007 1.278337 CTCTCGCCTCAGTCGATCG 59.722 63.158 9.36 9.36 35.25 3.69
985 1008 2.111932 CTCTCGCCTCAGTCGATCGG 62.112 65.000 16.41 0.00 35.25 4.18
988 1011 2.893398 GCCTCAGTCGATCGGGTT 59.107 61.111 16.41 0.00 0.00 4.11
996 1019 2.056223 TCGATCGGGTTGGGACTCC 61.056 63.158 16.41 0.00 0.00 3.85
997 1020 2.355986 CGATCGGGTTGGGACTCCA 61.356 63.158 7.38 0.00 42.25 3.86
1012 1035 2.369203 GACTCCACCCTATAAGAAGCCC 59.631 54.545 0.00 0.00 0.00 5.19
1018 1041 1.073923 CCCTATAAGAAGCCCGGCATT 59.926 52.381 13.15 5.99 0.00 3.56
1022 1045 0.393808 TAAGAAGCCCGGCATTCCAC 60.394 55.000 13.15 0.00 0.00 4.02
1063 4176 1.227853 GCACGAACCAACCCAGTCT 60.228 57.895 0.00 0.00 0.00 3.24
1066 4179 1.129058 ACGAACCAACCCAGTCTCTT 58.871 50.000 0.00 0.00 0.00 2.85
1074 4187 4.712337 ACCAACCCAGTCTCTTCTACATAG 59.288 45.833 0.00 0.00 0.00 2.23
1081 4198 5.883115 CCAGTCTCTTCTACATAGTCAGTCA 59.117 44.000 0.00 0.00 0.00 3.41
1082 4199 6.038161 CCAGTCTCTTCTACATAGTCAGTCAG 59.962 46.154 0.00 0.00 0.00 3.51
1084 4201 6.821665 AGTCTCTTCTACATAGTCAGTCAGTC 59.178 42.308 0.00 0.00 0.00 3.51
1085 4202 6.821665 GTCTCTTCTACATAGTCAGTCAGTCT 59.178 42.308 0.00 0.00 0.00 3.24
1086 4203 7.335924 GTCTCTTCTACATAGTCAGTCAGTCTT 59.664 40.741 0.00 0.00 0.00 3.01
1087 4204 7.885922 TCTCTTCTACATAGTCAGTCAGTCTTT 59.114 37.037 0.00 0.00 0.00 2.52
1092 4229 4.752101 ACATAGTCAGTCAGTCTTTGCAAC 59.248 41.667 0.00 0.00 0.00 4.17
1142 4279 3.047718 GCCGTCGTCGTCATCCTCA 62.048 63.158 0.71 0.00 35.01 3.86
1153 4290 1.066286 GTCATCCTCACAGCAGCTCTT 60.066 52.381 0.00 0.00 0.00 2.85
1187 4324 4.473520 AAGGTGAGCCCGGCATCG 62.474 66.667 13.15 0.00 38.74 3.84
1193 4330 3.682292 GAGCCCGGCATCGTCCTTT 62.682 63.158 13.15 0.00 33.95 3.11
1236 4381 1.134521 CCGATTAAGCCAGTGTAGCCA 60.135 52.381 0.00 0.00 0.00 4.75
1487 4633 2.365068 CGCGTGACTCGACCTGTTG 61.365 63.158 0.00 0.00 42.86 3.33
1488 4634 1.299926 GCGTGACTCGACCTGTTGT 60.300 57.895 0.22 0.00 42.86 3.32
1490 4636 1.601162 GCGTGACTCGACCTGTTGTTA 60.601 52.381 0.22 0.00 42.86 2.41
1493 4640 2.033372 TGACTCGACCTGTTGTTACCA 58.967 47.619 0.00 0.00 0.00 3.25
1687 9524 7.792374 TTTGTTAAACCATTTATGCTTTGCA 57.208 28.000 0.00 0.00 44.86 4.08
1701 9538 2.096466 GCTTTGCAACCAATAAAACGCC 60.096 45.455 0.00 0.00 0.00 5.68
1749 9586 8.511604 ACGAATTCAAATCCAAATCATCTAGT 57.488 30.769 6.22 0.00 0.00 2.57
1750 9587 9.613428 ACGAATTCAAATCCAAATCATCTAGTA 57.387 29.630 6.22 0.00 0.00 1.82
1879 9722 5.302313 TGGTAATGTTAAACCCAGTCCAAAC 59.698 40.000 0.00 0.00 34.69 2.93
1934 9777 6.015940 GGAATCACAAAAGTTTGATCTCCACT 60.016 38.462 10.66 0.00 40.55 4.00
1935 9778 5.756195 TCACAAAAGTTTGATCTCCACTG 57.244 39.130 10.66 0.00 40.55 3.66
2315 10185 1.521457 CCGCGGTGCAGATACATGT 60.521 57.895 19.50 2.69 0.00 3.21
2368 10238 2.358615 CGCTGCACTAAGGCCACA 60.359 61.111 5.01 0.00 0.00 4.17
2371 10241 1.660560 GCTGCACTAAGGCCACATGG 61.661 60.000 5.01 0.00 38.53 3.66
2385 10255 1.608590 CACATGGTTGGACCTGTTGTC 59.391 52.381 0.00 0.00 43.67 3.18
2399 10269 0.028902 GTTGTCGCCCGAATAATGCC 59.971 55.000 0.00 0.00 0.00 4.40
2402 10272 1.144276 TCGCCCGAATAATGCCGAA 59.856 52.632 0.00 0.00 0.00 4.30
2454 10324 3.141398 GTCATTCCAGTTCACTCTGCAA 58.859 45.455 0.00 0.00 34.47 4.08
2461 10331 3.567164 CCAGTTCACTCTGCAACTTGATT 59.433 43.478 0.00 0.00 34.47 2.57
2462 10332 4.756642 CCAGTTCACTCTGCAACTTGATTA 59.243 41.667 0.00 0.00 34.47 1.75
2463 10333 5.334414 CCAGTTCACTCTGCAACTTGATTAC 60.334 44.000 0.00 0.00 34.47 1.89
2464 10334 4.757149 AGTTCACTCTGCAACTTGATTACC 59.243 41.667 0.00 0.00 27.81 2.85
2465 10335 4.623932 TCACTCTGCAACTTGATTACCT 57.376 40.909 0.00 0.00 0.00 3.08
2466 10336 4.318332 TCACTCTGCAACTTGATTACCTG 58.682 43.478 0.00 0.00 0.00 4.00
2467 10337 4.067896 CACTCTGCAACTTGATTACCTGT 58.932 43.478 0.00 0.00 0.00 4.00
2468 10338 4.067896 ACTCTGCAACTTGATTACCTGTG 58.932 43.478 0.00 0.00 0.00 3.66
2469 10339 3.411446 TCTGCAACTTGATTACCTGTGG 58.589 45.455 0.00 0.00 0.00 4.17
2470 10340 2.489329 CTGCAACTTGATTACCTGTGGG 59.511 50.000 0.00 0.00 38.88 4.61
2471 10341 2.107378 TGCAACTTGATTACCTGTGGGA 59.893 45.455 0.00 0.00 36.25 4.37
2472 10342 3.153919 GCAACTTGATTACCTGTGGGAA 58.846 45.455 0.00 0.00 36.25 3.97
2473 10343 3.763897 GCAACTTGATTACCTGTGGGAAT 59.236 43.478 0.00 0.00 36.25 3.01
2474 10344 4.947388 GCAACTTGATTACCTGTGGGAATA 59.053 41.667 0.00 0.00 36.25 1.75
2475 10345 5.417580 GCAACTTGATTACCTGTGGGAATAA 59.582 40.000 0.00 0.00 36.25 1.40
2476 10346 6.071616 GCAACTTGATTACCTGTGGGAATAAA 60.072 38.462 0.00 0.00 36.25 1.40
2477 10347 7.524698 GCAACTTGATTACCTGTGGGAATAAAA 60.525 37.037 0.00 0.00 36.25 1.52
2478 10348 7.462571 ACTTGATTACCTGTGGGAATAAAAC 57.537 36.000 0.00 0.00 36.25 2.43
2479 10349 6.150474 ACTTGATTACCTGTGGGAATAAAACG 59.850 38.462 0.00 0.00 36.25 3.60
2480 10350 5.806818 TGATTACCTGTGGGAATAAAACGA 58.193 37.500 0.00 0.00 36.25 3.85
2481 10351 6.239396 TGATTACCTGTGGGAATAAAACGAA 58.761 36.000 0.00 0.00 36.25 3.85
2482 10352 6.887545 TGATTACCTGTGGGAATAAAACGAAT 59.112 34.615 0.00 0.00 36.25 3.34
2483 10353 6.503589 TTACCTGTGGGAATAAAACGAATG 57.496 37.500 0.00 0.00 36.25 2.67
2484 10354 4.403734 ACCTGTGGGAATAAAACGAATGT 58.596 39.130 0.00 0.00 36.25 2.71
2485 10355 5.562635 ACCTGTGGGAATAAAACGAATGTA 58.437 37.500 0.00 0.00 36.25 2.29
2486 10356 5.413523 ACCTGTGGGAATAAAACGAATGTAC 59.586 40.000 0.00 0.00 36.25 2.90
2487 10357 5.413213 CCTGTGGGAATAAAACGAATGTACA 59.587 40.000 0.00 0.00 33.58 2.90
2488 10358 6.403200 CCTGTGGGAATAAAACGAATGTACAG 60.403 42.308 0.33 0.00 33.58 2.74
2489 10359 5.998981 TGTGGGAATAAAACGAATGTACAGT 59.001 36.000 0.33 0.00 0.00 3.55
2490 10360 7.160049 TGTGGGAATAAAACGAATGTACAGTA 58.840 34.615 0.33 0.00 0.00 2.74
2491 10361 7.332430 TGTGGGAATAAAACGAATGTACAGTAG 59.668 37.037 0.33 1.09 0.00 2.57
2492 10362 7.332678 GTGGGAATAAAACGAATGTACAGTAGT 59.667 37.037 3.10 3.10 0.00 2.73
2493 10363 7.879160 TGGGAATAAAACGAATGTACAGTAGTT 59.121 33.333 14.76 14.76 0.00 2.24
2494 10364 8.724229 GGGAATAAAACGAATGTACAGTAGTTT 58.276 33.333 23.06 23.06 36.18 2.66
2495 10365 9.537848 GGAATAAAACGAATGTACAGTAGTTTG 57.462 33.333 27.20 12.44 35.20 2.93
2500 10370 6.701432 ACGAATGTACAGTAGTTTGTTAGC 57.299 37.500 3.10 0.00 32.56 3.09
2501 10371 6.453092 ACGAATGTACAGTAGTTTGTTAGCT 58.547 36.000 3.10 0.00 32.56 3.32
2502 10372 7.596494 ACGAATGTACAGTAGTTTGTTAGCTA 58.404 34.615 3.10 0.00 32.56 3.32
2503 10373 7.540055 ACGAATGTACAGTAGTTTGTTAGCTAC 59.460 37.037 3.10 0.00 38.20 3.58
2504 10374 7.754027 CGAATGTACAGTAGTTTGTTAGCTACT 59.246 37.037 0.33 0.00 46.05 2.57
2505 10375 9.420551 GAATGTACAGTAGTTTGTTAGCTACTT 57.579 33.333 0.33 0.00 43.61 2.24
2506 10376 9.774413 AATGTACAGTAGTTTGTTAGCTACTTT 57.226 29.630 0.33 0.00 43.61 2.66
2507 10377 8.807667 TGTACAGTAGTTTGTTAGCTACTTTC 57.192 34.615 0.00 0.00 43.61 2.62
2508 10378 8.636213 TGTACAGTAGTTTGTTAGCTACTTTCT 58.364 33.333 0.00 0.00 43.61 2.52
2509 10379 9.127006 GTACAGTAGTTTGTTAGCTACTTTCTC 57.873 37.037 0.00 0.00 43.61 2.87
2510 10380 7.953752 ACAGTAGTTTGTTAGCTACTTTCTCT 58.046 34.615 0.00 0.00 43.61 3.10
2511 10381 8.083462 ACAGTAGTTTGTTAGCTACTTTCTCTC 58.917 37.037 0.00 0.00 43.61 3.20
2512 10382 7.271653 CAGTAGTTTGTTAGCTACTTTCTCTCG 59.728 40.741 0.00 0.00 43.61 4.04
2513 10383 6.328641 AGTTTGTTAGCTACTTTCTCTCGA 57.671 37.500 0.00 0.00 0.00 4.04
2514 10384 6.746120 AGTTTGTTAGCTACTTTCTCTCGAA 58.254 36.000 0.00 0.00 0.00 3.71
2515 10385 6.641723 AGTTTGTTAGCTACTTTCTCTCGAAC 59.358 38.462 0.00 0.00 0.00 3.95
2516 10386 5.700722 TGTTAGCTACTTTCTCTCGAACA 57.299 39.130 0.00 0.00 0.00 3.18
2517 10387 6.080648 TGTTAGCTACTTTCTCTCGAACAA 57.919 37.500 0.00 0.00 0.00 2.83
2518 10388 6.509656 TGTTAGCTACTTTCTCTCGAACAAA 58.490 36.000 0.00 0.00 0.00 2.83
2519 10389 6.982141 TGTTAGCTACTTTCTCTCGAACAAAA 59.018 34.615 0.00 0.00 0.00 2.44
2520 10390 7.656137 TGTTAGCTACTTTCTCTCGAACAAAAT 59.344 33.333 0.00 0.00 0.00 1.82
2521 10391 6.473397 AGCTACTTTCTCTCGAACAAAATG 57.527 37.500 0.00 0.00 0.00 2.32
2522 10392 6.223852 AGCTACTTTCTCTCGAACAAAATGA 58.776 36.000 0.00 0.00 0.00 2.57
2523 10393 6.876257 AGCTACTTTCTCTCGAACAAAATGAT 59.124 34.615 0.00 0.00 0.00 2.45
2524 10394 8.035394 AGCTACTTTCTCTCGAACAAAATGATA 58.965 33.333 0.00 0.00 0.00 2.15
2525 10395 8.656849 GCTACTTTCTCTCGAACAAAATGATAA 58.343 33.333 0.00 0.00 0.00 1.75
2528 10398 9.219603 ACTTTCTCTCGAACAAAATGATAATCA 57.780 29.630 0.00 0.00 0.00 2.57
2530 10400 9.825972 TTTCTCTCGAACAAAATGATAATCAAC 57.174 29.630 0.00 0.00 0.00 3.18
2531 10401 7.974675 TCTCTCGAACAAAATGATAATCAACC 58.025 34.615 0.00 0.00 0.00 3.77
2532 10402 7.824289 TCTCTCGAACAAAATGATAATCAACCT 59.176 33.333 0.00 0.00 0.00 3.50
2533 10403 7.974675 TCTCGAACAAAATGATAATCAACCTC 58.025 34.615 0.00 0.00 0.00 3.85
2534 10404 7.824289 TCTCGAACAAAATGATAATCAACCTCT 59.176 33.333 0.00 0.00 0.00 3.69
2535 10405 9.098355 CTCGAACAAAATGATAATCAACCTCTA 57.902 33.333 0.00 0.00 0.00 2.43
2536 10406 9.613428 TCGAACAAAATGATAATCAACCTCTAT 57.387 29.630 0.00 0.00 0.00 1.98
2537 10407 9.655769 CGAACAAAATGATAATCAACCTCTATG 57.344 33.333 0.00 0.00 0.00 2.23
2540 10410 9.466497 ACAAAATGATAATCAACCTCTATGTGT 57.534 29.630 0.00 0.00 0.00 3.72
2545 10415 8.862325 TGATAATCAACCTCTATGTGTTTTGT 57.138 30.769 0.00 0.00 0.00 2.83
2546 10416 8.946085 TGATAATCAACCTCTATGTGTTTTGTC 58.054 33.333 0.00 0.00 0.00 3.18
2547 10417 6.575162 AATCAACCTCTATGTGTTTTGTCC 57.425 37.500 0.00 0.00 0.00 4.02
2548 10418 5.304686 TCAACCTCTATGTGTTTTGTCCT 57.695 39.130 0.00 0.00 0.00 3.85
2549 10419 5.690865 TCAACCTCTATGTGTTTTGTCCTT 58.309 37.500 0.00 0.00 0.00 3.36
2550 10420 5.530915 TCAACCTCTATGTGTTTTGTCCTTG 59.469 40.000 0.00 0.00 0.00 3.61
2551 10421 3.821033 ACCTCTATGTGTTTTGTCCTTGC 59.179 43.478 0.00 0.00 0.00 4.01
2552 10422 3.820467 CCTCTATGTGTTTTGTCCTTGCA 59.180 43.478 0.00 0.00 0.00 4.08
2553 10423 4.460382 CCTCTATGTGTTTTGTCCTTGCAT 59.540 41.667 0.00 0.00 0.00 3.96
2554 10424 5.375417 TCTATGTGTTTTGTCCTTGCATG 57.625 39.130 0.00 0.00 0.00 4.06
2555 10425 5.069318 TCTATGTGTTTTGTCCTTGCATGA 58.931 37.500 0.00 0.00 0.00 3.07
2556 10426 4.669206 ATGTGTTTTGTCCTTGCATGAA 57.331 36.364 0.00 0.00 0.00 2.57
2557 10427 4.462508 TGTGTTTTGTCCTTGCATGAAA 57.537 36.364 0.00 0.00 0.00 2.69
2558 10428 5.021033 TGTGTTTTGTCCTTGCATGAAAT 57.979 34.783 0.00 0.00 0.00 2.17
2559 10429 6.154203 TGTGTTTTGTCCTTGCATGAAATA 57.846 33.333 0.00 0.00 0.00 1.40
2560 10430 6.757237 TGTGTTTTGTCCTTGCATGAAATAT 58.243 32.000 0.00 0.00 0.00 1.28
2561 10431 7.215789 TGTGTTTTGTCCTTGCATGAAATATT 58.784 30.769 0.00 0.00 0.00 1.28
2562 10432 7.171167 TGTGTTTTGTCCTTGCATGAAATATTG 59.829 33.333 0.00 0.00 0.00 1.90
2563 10433 6.649973 TGTTTTGTCCTTGCATGAAATATTGG 59.350 34.615 0.00 0.00 0.00 3.16
2564 10434 6.602410 TTTGTCCTTGCATGAAATATTGGA 57.398 33.333 0.00 0.00 0.00 3.53
2565 10435 6.795144 TTGTCCTTGCATGAAATATTGGAT 57.205 33.333 0.00 0.00 0.00 3.41
2566 10436 6.795144 TGTCCTTGCATGAAATATTGGATT 57.205 33.333 0.00 0.00 0.00 3.01
2567 10437 7.185318 TGTCCTTGCATGAAATATTGGATTT 57.815 32.000 0.00 0.00 0.00 2.17
2568 10438 7.042950 TGTCCTTGCATGAAATATTGGATTTG 58.957 34.615 0.00 0.00 0.00 2.32
2569 10439 6.018507 GTCCTTGCATGAAATATTGGATTTGC 60.019 38.462 0.00 0.00 0.00 3.68
2570 10440 6.053005 CCTTGCATGAAATATTGGATTTGCT 58.947 36.000 0.00 0.00 0.00 3.91
2571 10441 6.018262 CCTTGCATGAAATATTGGATTTGCTG 60.018 38.462 0.00 0.00 0.00 4.41
2572 10442 6.223351 TGCATGAAATATTGGATTTGCTGA 57.777 33.333 0.00 0.00 0.00 4.26
2573 10443 6.044046 TGCATGAAATATTGGATTTGCTGAC 58.956 36.000 0.00 0.00 0.00 3.51
2574 10444 6.044046 GCATGAAATATTGGATTTGCTGACA 58.956 36.000 0.00 0.00 0.00 3.58
2575 10445 6.200286 GCATGAAATATTGGATTTGCTGACAG 59.800 38.462 0.00 0.00 0.00 3.51
2576 10446 5.653507 TGAAATATTGGATTTGCTGACAGC 58.346 37.500 20.86 20.86 42.82 4.40
2577 10447 5.419788 TGAAATATTGGATTTGCTGACAGCT 59.580 36.000 26.94 8.24 42.97 4.24
2578 10448 6.602803 TGAAATATTGGATTTGCTGACAGCTA 59.397 34.615 26.94 17.95 42.97 3.32
2579 10449 7.286087 TGAAATATTGGATTTGCTGACAGCTAT 59.714 33.333 26.94 19.51 42.97 2.97
2580 10450 4.913335 ATTGGATTTGCTGACAGCTATG 57.087 40.909 26.94 0.00 42.97 2.23
2581 10451 3.354948 TGGATTTGCTGACAGCTATGT 57.645 42.857 26.94 12.16 42.97 2.29
2582 10452 4.486125 TGGATTTGCTGACAGCTATGTA 57.514 40.909 26.94 6.61 42.97 2.29
2583 10453 4.445453 TGGATTTGCTGACAGCTATGTAG 58.555 43.478 26.94 0.00 42.97 2.74
2601 10471 6.624352 ATGTAGCATCAATGTTATCACACC 57.376 37.500 0.00 0.00 35.03 4.16
2602 10472 5.495640 TGTAGCATCAATGTTATCACACCA 58.504 37.500 0.00 0.00 35.03 4.17
2603 10473 5.585844 TGTAGCATCAATGTTATCACACCAG 59.414 40.000 0.00 0.00 35.03 4.00
2604 10474 4.847198 AGCATCAATGTTATCACACCAGA 58.153 39.130 0.00 0.00 35.03 3.86
2605 10475 4.880120 AGCATCAATGTTATCACACCAGAG 59.120 41.667 0.00 0.00 35.03 3.35
2606 10476 4.036027 GCATCAATGTTATCACACCAGAGG 59.964 45.833 0.00 0.00 35.03 3.69
2607 10477 3.609853 TCAATGTTATCACACCAGAGGC 58.390 45.455 0.00 0.00 35.03 4.70
2608 10478 2.315925 ATGTTATCACACCAGAGGCG 57.684 50.000 0.00 0.00 35.03 5.52
2609 10479 0.973632 TGTTATCACACCAGAGGCGT 59.026 50.000 0.00 0.00 0.00 5.68
2610 10480 1.337728 TGTTATCACACCAGAGGCGTG 60.338 52.381 0.00 0.00 37.12 5.34
2611 10481 0.391130 TTATCACACCAGAGGCGTGC 60.391 55.000 0.00 0.00 35.90 5.34
2612 10482 1.540435 TATCACACCAGAGGCGTGCA 61.540 55.000 0.00 0.00 35.90 4.57
2613 10483 2.395988 ATCACACCAGAGGCGTGCAA 62.396 55.000 0.00 0.00 35.90 4.08
2614 10484 2.591715 ACACCAGAGGCGTGCAAC 60.592 61.111 0.00 0.00 34.45 4.17
2615 10485 2.281070 CACCAGAGGCGTGCAACT 60.281 61.111 0.00 0.00 31.75 3.16
2616 10486 2.281070 ACCAGAGGCGTGCAACTG 60.281 61.111 0.00 9.45 31.75 3.16
2617 10487 3.052082 CCAGAGGCGTGCAACTGG 61.052 66.667 17.34 17.34 42.71 4.00
2618 10488 2.281070 CAGAGGCGTGCAACTGGT 60.281 61.111 0.00 0.00 31.75 4.00
2619 10489 2.281070 AGAGGCGTGCAACTGGTG 60.281 61.111 0.00 0.00 31.75 4.17
2620 10490 2.280797 GAGGCGTGCAACTGGTGA 60.281 61.111 0.00 0.00 31.75 4.02
2621 10491 1.891919 GAGGCGTGCAACTGGTGAA 60.892 57.895 0.00 0.00 31.75 3.18
2622 10492 1.228245 AGGCGTGCAACTGGTGAAT 60.228 52.632 0.00 0.00 31.75 2.57
2623 10493 1.081242 GGCGTGCAACTGGTGAATG 60.081 57.895 0.00 0.00 31.75 2.67
2624 10494 1.730547 GCGTGCAACTGGTGAATGC 60.731 57.895 1.32 1.32 40.73 3.56
2625 10495 1.653667 CGTGCAACTGGTGAATGCA 59.346 52.632 0.00 0.00 46.97 3.96
2628 10498 1.618487 TGCAACTGGTGAATGCATGA 58.382 45.000 0.00 0.00 44.52 3.07
2629 10499 1.270274 TGCAACTGGTGAATGCATGAC 59.730 47.619 0.00 0.00 44.52 3.06
2630 10500 1.542915 GCAACTGGTGAATGCATGACT 59.457 47.619 0.00 0.00 39.81 3.41
2631 10501 2.415090 GCAACTGGTGAATGCATGACTC 60.415 50.000 0.00 0.00 39.81 3.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
127 128 5.369833 TCCACTTTTACGACCAATCAAAGA 58.630 37.500 0.00 0.00 0.00 2.52
822 839 3.900862 TGGGTGGCCTGCATGTGT 61.901 61.111 3.32 0.00 0.00 3.72
874 897 3.509575 GGCGTGATCTAGATTGGATCTCT 59.490 47.826 6.70 0.00 40.76 3.10
875 898 3.367910 GGGCGTGATCTAGATTGGATCTC 60.368 52.174 6.70 0.00 40.76 2.75
886 909 0.104855 GAGCATGTGGGCGTGATCTA 59.895 55.000 0.00 0.00 42.10 1.98
889 912 1.153289 GAGAGCATGTGGGCGTGAT 60.153 57.895 0.00 0.00 39.27 3.06
905 928 1.195448 CACCAAGCTTTACACGCAGAG 59.805 52.381 0.00 0.00 0.00 3.35
906 929 1.225855 CACCAAGCTTTACACGCAGA 58.774 50.000 0.00 0.00 0.00 4.26
909 932 1.081442 GGCACCAAGCTTTACACGC 60.081 57.895 0.00 0.00 44.79 5.34
923 946 2.358737 AAGTAGCAGCACGGGCAC 60.359 61.111 14.57 2.66 44.61 5.01
924 947 2.358615 CAAGTAGCAGCACGGGCA 60.359 61.111 14.57 0.00 44.61 5.36
925 948 3.804193 GCAAGTAGCAGCACGGGC 61.804 66.667 0.00 0.00 44.79 6.13
934 957 6.481313 TGACAATAGATCAATGAGCAAGTAGC 59.519 38.462 0.07 0.00 46.19 3.58
935 958 7.710044 AGTGACAATAGATCAATGAGCAAGTAG 59.290 37.037 0.07 0.00 0.00 2.57
936 959 7.559486 AGTGACAATAGATCAATGAGCAAGTA 58.441 34.615 0.07 0.00 0.00 2.24
937 960 6.413052 AGTGACAATAGATCAATGAGCAAGT 58.587 36.000 0.07 0.00 0.00 3.16
938 961 6.922247 AGTGACAATAGATCAATGAGCAAG 57.078 37.500 0.07 0.00 0.00 4.01
948 971 4.502282 CGAGAGCACAAGTGACAATAGATC 59.498 45.833 4.04 0.00 0.00 2.75
949 972 4.428209 CGAGAGCACAAGTGACAATAGAT 58.572 43.478 4.04 0.00 0.00 1.98
971 994 1.519455 CAACCCGATCGACTGAGGC 60.519 63.158 18.66 0.00 0.00 4.70
976 999 1.305046 AGTCCCAACCCGATCGACT 60.305 57.895 18.66 7.14 0.00 4.18
977 1000 1.141234 GAGTCCCAACCCGATCGAC 59.859 63.158 18.66 4.57 0.00 4.20
980 1003 1.221021 GTGGAGTCCCAACCCGATC 59.779 63.158 6.74 0.00 45.59 3.69
981 1004 2.298661 GGTGGAGTCCCAACCCGAT 61.299 63.158 6.74 0.00 44.53 4.18
982 1005 2.926242 GGTGGAGTCCCAACCCGA 60.926 66.667 6.74 0.00 44.53 5.14
996 1019 0.250338 GCCGGGCTTCTTATAGGGTG 60.250 60.000 12.87 0.00 0.00 4.61
997 1020 0.693092 TGCCGGGCTTCTTATAGGGT 60.693 55.000 21.46 0.00 0.00 4.34
1012 1035 0.823356 CCTAATGGGGTGGAATGCCG 60.823 60.000 0.00 0.00 36.79 5.69
1018 1041 1.064017 GTTGATGCCTAATGGGGTGGA 60.064 52.381 0.00 0.00 35.12 4.02
1022 1045 1.479389 GGAGGTTGATGCCTAATGGGG 60.479 57.143 0.00 0.00 39.34 4.96
1026 1049 1.133668 GCTGGGAGGTTGATGCCTAAT 60.134 52.381 0.00 0.00 39.34 1.73
1063 4176 7.575909 GCAAAGACTGACTGACTATGTAGAAGA 60.576 40.741 0.00 0.00 0.00 2.87
1066 4179 5.476945 TGCAAAGACTGACTGACTATGTAGA 59.523 40.000 0.00 0.00 0.00 2.59
1074 4187 2.288666 TGGTTGCAAAGACTGACTGAC 58.711 47.619 0.00 0.00 0.00 3.51
1081 4198 1.251251 GCCTCATGGTTGCAAAGACT 58.749 50.000 0.00 0.00 35.27 3.24
1082 4199 0.244721 GGCCTCATGGTTGCAAAGAC 59.755 55.000 0.00 0.00 35.27 3.01
1084 4201 0.037975 GTGGCCTCATGGTTGCAAAG 60.038 55.000 3.32 0.00 35.27 2.77
1085 4202 0.758310 TGTGGCCTCATGGTTGCAAA 60.758 50.000 3.32 0.00 35.27 3.68
1086 4203 1.152589 TGTGGCCTCATGGTTGCAA 60.153 52.632 3.32 0.00 35.27 4.08
1087 4204 1.604308 CTGTGGCCTCATGGTTGCA 60.604 57.895 8.18 0.00 35.27 4.08
1092 4229 2.753043 GCACCTGTGGCCTCATGG 60.753 66.667 8.18 13.66 0.00 3.66
1142 4279 2.654079 CGAGGGGAAGAGCTGCTGT 61.654 63.158 7.01 0.00 0.00 4.40
1193 4330 4.452455 GCGAGGAGATGAAGAAAGACAAAA 59.548 41.667 0.00 0.00 0.00 2.44
1236 4381 6.239120 GCAGGCAACCATCAATATCAATAAGT 60.239 38.462 0.00 0.00 37.17 2.24
1245 4390 1.005805 ACCTGCAGGCAACCATCAATA 59.994 47.619 33.06 0.00 39.32 1.90
1250 4395 2.993264 GCACCTGCAGGCAACCAT 60.993 61.111 33.06 9.33 41.59 3.55
1280 4426 3.648982 TTGTTGCAGCACGGCGAG 61.649 61.111 16.62 7.03 36.28 5.03
1408 4554 1.602311 CTTGCACTGGAAGCTGTCTT 58.398 50.000 0.00 0.00 37.60 3.01
1409 4555 0.250640 CCTTGCACTGGAAGCTGTCT 60.251 55.000 4.79 0.00 37.60 3.41
1487 4633 5.701290 AGCTAATCGGCATTATTCTGGTAAC 59.299 40.000 0.00 0.00 34.17 2.50
1488 4634 5.865085 AGCTAATCGGCATTATTCTGGTAA 58.135 37.500 0.00 0.00 34.17 2.85
1490 4636 4.357918 AGCTAATCGGCATTATTCTGGT 57.642 40.909 0.00 0.00 34.17 4.00
1493 4640 4.023707 GCACAAGCTAATCGGCATTATTCT 60.024 41.667 0.00 0.00 37.91 2.40
1572 4720 6.808829 ACTCTCATTTCTTCTCTGCATCTAG 58.191 40.000 0.00 0.00 0.00 2.43
1573 4721 6.788598 ACTCTCATTTCTTCTCTGCATCTA 57.211 37.500 0.00 0.00 0.00 1.98
1574 4722 5.680594 ACTCTCATTTCTTCTCTGCATCT 57.319 39.130 0.00 0.00 0.00 2.90
1575 4723 5.064962 CCAACTCTCATTTCTTCTCTGCATC 59.935 44.000 0.00 0.00 0.00 3.91
1687 9524 4.441356 CCATGCATAGGCGTTTTATTGGTT 60.441 41.667 0.00 0.00 45.35 3.67
1701 9538 5.995565 ATTCCATTCCATTCCATGCATAG 57.004 39.130 0.00 0.00 0.00 2.23
1725 9562 9.869844 GTACTAGATGATTTGGATTTGAATTCG 57.130 33.333 0.00 0.00 0.00 3.34
1748 9585 2.953466 TTCGTGCCTCTACATGGTAC 57.047 50.000 0.00 0.00 36.94 3.34
1749 9586 2.102420 CCATTCGTGCCTCTACATGGTA 59.898 50.000 0.00 0.00 0.00 3.25
1750 9587 1.134401 CCATTCGTGCCTCTACATGGT 60.134 52.381 0.00 0.00 0.00 3.55
1864 9707 6.003859 TCTAAAGTGTTTGGACTGGGTTTA 57.996 37.500 0.00 0.00 0.00 2.01
1909 9752 6.015940 AGTGGAGATCAAACTTTTGTGATTCC 60.016 38.462 0.00 6.14 39.18 3.01
2168 10038 2.289195 CCCTTTTGTTGAGTGCATGCAT 60.289 45.455 25.64 12.95 0.00 3.96
2245 10115 2.480555 CAGAACAACATCGCGCCC 59.519 61.111 0.00 0.00 0.00 6.13
2310 10180 2.497675 ACGAGATCCTTGCAGTACATGT 59.502 45.455 2.69 2.69 0.00 3.21
2315 10185 2.167662 TGTGACGAGATCCTTGCAGTA 58.832 47.619 0.00 0.00 0.00 2.74
2366 10236 1.813862 CGACAACAGGTCCAACCATGT 60.814 52.381 0.00 0.95 43.95 3.21
2368 10238 0.889186 GCGACAACAGGTCCAACCAT 60.889 55.000 0.00 0.00 43.95 3.55
2371 10241 2.258726 GGGCGACAACAGGTCCAAC 61.259 63.158 0.00 0.00 43.95 3.77
2417 10287 8.370182 ACTGGAATGACTGCATAAAAAGAAAAT 58.630 29.630 0.00 0.00 33.44 1.82
2428 10298 3.008813 AGAGTGAACTGGAATGACTGCAT 59.991 43.478 0.00 0.00 35.92 3.96
2454 10324 6.150474 CGTTTTATTCCCACAGGTAATCAAGT 59.850 38.462 0.00 0.00 0.00 3.16
2461 10331 5.562635 ACATTCGTTTTATTCCCACAGGTA 58.437 37.500 0.00 0.00 0.00 3.08
2462 10332 4.403734 ACATTCGTTTTATTCCCACAGGT 58.596 39.130 0.00 0.00 0.00 4.00
2463 10333 5.413213 TGTACATTCGTTTTATTCCCACAGG 59.587 40.000 0.00 0.00 0.00 4.00
2464 10334 6.148811 ACTGTACATTCGTTTTATTCCCACAG 59.851 38.462 0.00 0.00 35.72 3.66
2465 10335 5.998981 ACTGTACATTCGTTTTATTCCCACA 59.001 36.000 0.00 0.00 0.00 4.17
2466 10336 6.490566 ACTGTACATTCGTTTTATTCCCAC 57.509 37.500 0.00 0.00 0.00 4.61
2467 10337 7.388437 ACTACTGTACATTCGTTTTATTCCCA 58.612 34.615 0.00 0.00 0.00 4.37
2468 10338 7.838771 ACTACTGTACATTCGTTTTATTCCC 57.161 36.000 0.00 0.00 0.00 3.97
2469 10339 9.537848 CAAACTACTGTACATTCGTTTTATTCC 57.462 33.333 11.59 0.00 0.00 3.01
2474 10344 8.066000 GCTAACAAACTACTGTACATTCGTTTT 58.934 33.333 11.59 3.94 0.00 2.43
2475 10345 7.440255 AGCTAACAAACTACTGTACATTCGTTT 59.560 33.333 9.25 9.25 0.00 3.60
2476 10346 6.927381 AGCTAACAAACTACTGTACATTCGTT 59.073 34.615 0.00 0.00 0.00 3.85
2477 10347 6.453092 AGCTAACAAACTACTGTACATTCGT 58.547 36.000 0.00 0.00 0.00 3.85
2478 10348 6.946229 AGCTAACAAACTACTGTACATTCG 57.054 37.500 0.00 0.00 0.00 3.34
2479 10349 8.983307 AGTAGCTAACAAACTACTGTACATTC 57.017 34.615 0.00 0.00 45.65 2.67
2480 10350 9.774413 AAAGTAGCTAACAAACTACTGTACATT 57.226 29.630 0.00 0.00 46.46 2.71
2481 10351 9.420551 GAAAGTAGCTAACAAACTACTGTACAT 57.579 33.333 0.00 0.00 46.46 2.29
2482 10352 8.636213 AGAAAGTAGCTAACAAACTACTGTACA 58.364 33.333 0.00 0.00 46.46 2.90
2483 10353 9.127006 GAGAAAGTAGCTAACAAACTACTGTAC 57.873 37.037 0.00 0.00 46.46 2.90
2484 10354 9.075678 AGAGAAAGTAGCTAACAAACTACTGTA 57.924 33.333 0.00 0.00 46.46 2.74
2485 10355 7.953752 AGAGAAAGTAGCTAACAAACTACTGT 58.046 34.615 0.00 0.00 46.46 3.55
2486 10356 7.271653 CGAGAGAAAGTAGCTAACAAACTACTG 59.728 40.741 0.00 0.00 46.46 2.74
2487 10357 7.174599 TCGAGAGAAAGTAGCTAACAAACTACT 59.825 37.037 0.00 0.00 42.53 2.57
2488 10358 7.303998 TCGAGAGAAAGTAGCTAACAAACTAC 58.696 38.462 0.00 0.00 37.09 2.73
2489 10359 7.444629 TCGAGAGAAAGTAGCTAACAAACTA 57.555 36.000 0.00 0.00 37.03 2.24
2490 10360 6.328641 TCGAGAGAAAGTAGCTAACAAACT 57.671 37.500 0.00 0.00 37.03 2.66
2506 10376 7.824289 AGGTTGATTATCATTTTGTTCGAGAGA 59.176 33.333 0.00 0.00 39.20 3.10
2507 10377 7.978982 AGGTTGATTATCATTTTGTTCGAGAG 58.021 34.615 0.00 0.00 0.00 3.20
2508 10378 7.824289 AGAGGTTGATTATCATTTTGTTCGAGA 59.176 33.333 0.00 0.00 0.00 4.04
2509 10379 7.978982 AGAGGTTGATTATCATTTTGTTCGAG 58.021 34.615 0.00 0.00 0.00 4.04
2510 10380 7.921786 AGAGGTTGATTATCATTTTGTTCGA 57.078 32.000 0.00 0.00 0.00 3.71
2511 10381 9.655769 CATAGAGGTTGATTATCATTTTGTTCG 57.344 33.333 0.00 0.00 0.00 3.95
2514 10384 9.466497 ACACATAGAGGTTGATTATCATTTTGT 57.534 29.630 0.00 0.00 0.00 2.83
2519 10389 9.466497 ACAAAACACATAGAGGTTGATTATCAT 57.534 29.630 0.00 0.00 0.00 2.45
2520 10390 8.862325 ACAAAACACATAGAGGTTGATTATCA 57.138 30.769 0.00 0.00 0.00 2.15
2521 10391 8.398665 GGACAAAACACATAGAGGTTGATTATC 58.601 37.037 0.00 0.00 0.00 1.75
2522 10392 8.109634 AGGACAAAACACATAGAGGTTGATTAT 58.890 33.333 0.00 0.00 0.00 1.28
2523 10393 7.458397 AGGACAAAACACATAGAGGTTGATTA 58.542 34.615 0.00 0.00 0.00 1.75
2524 10394 6.306987 AGGACAAAACACATAGAGGTTGATT 58.693 36.000 0.00 0.00 0.00 2.57
2525 10395 5.880901 AGGACAAAACACATAGAGGTTGAT 58.119 37.500 0.00 0.00 0.00 2.57
2526 10396 5.304686 AGGACAAAACACATAGAGGTTGA 57.695 39.130 0.00 0.00 0.00 3.18
2527 10397 5.762045 CAAGGACAAAACACATAGAGGTTG 58.238 41.667 0.00 0.00 0.00 3.77
2528 10398 4.278419 GCAAGGACAAAACACATAGAGGTT 59.722 41.667 0.00 0.00 0.00 3.50
2529 10399 3.821033 GCAAGGACAAAACACATAGAGGT 59.179 43.478 0.00 0.00 0.00 3.85
2530 10400 3.820467 TGCAAGGACAAAACACATAGAGG 59.180 43.478 0.00 0.00 0.00 3.69
2531 10401 5.181811 TCATGCAAGGACAAAACACATAGAG 59.818 40.000 0.00 0.00 0.00 2.43
2532 10402 5.069318 TCATGCAAGGACAAAACACATAGA 58.931 37.500 0.00 0.00 0.00 1.98
2533 10403 5.375417 TCATGCAAGGACAAAACACATAG 57.625 39.130 0.00 0.00 0.00 2.23
2534 10404 5.781210 TTCATGCAAGGACAAAACACATA 57.219 34.783 0.00 0.00 0.00 2.29
2535 10405 4.669206 TTCATGCAAGGACAAAACACAT 57.331 36.364 0.00 0.00 0.00 3.21
2536 10406 4.462508 TTTCATGCAAGGACAAAACACA 57.537 36.364 0.00 0.00 0.00 3.72
2537 10407 7.360269 CCAATATTTCATGCAAGGACAAAACAC 60.360 37.037 0.00 0.00 0.00 3.32
2538 10408 6.649973 CCAATATTTCATGCAAGGACAAAACA 59.350 34.615 0.00 0.00 0.00 2.83
2539 10409 6.873076 TCCAATATTTCATGCAAGGACAAAAC 59.127 34.615 0.00 0.00 0.00 2.43
2540 10410 7.002250 TCCAATATTTCATGCAAGGACAAAA 57.998 32.000 0.00 0.00 0.00 2.44
2541 10411 6.602410 TCCAATATTTCATGCAAGGACAAA 57.398 33.333 0.00 0.00 0.00 2.83
2542 10412 6.795144 ATCCAATATTTCATGCAAGGACAA 57.205 33.333 0.00 0.00 0.00 3.18
2543 10413 6.795144 AATCCAATATTTCATGCAAGGACA 57.205 33.333 0.00 0.00 0.00 4.02
2544 10414 6.018507 GCAAATCCAATATTTCATGCAAGGAC 60.019 38.462 0.00 0.00 0.00 3.85
2545 10415 6.050432 GCAAATCCAATATTTCATGCAAGGA 58.950 36.000 0.00 0.00 0.00 3.36
2546 10416 6.018262 CAGCAAATCCAATATTTCATGCAAGG 60.018 38.462 0.00 0.00 0.00 3.61
2547 10417 6.759356 TCAGCAAATCCAATATTTCATGCAAG 59.241 34.615 0.00 0.00 0.00 4.01
2548 10418 6.535865 GTCAGCAAATCCAATATTTCATGCAA 59.464 34.615 0.00 0.00 0.00 4.08
2549 10419 6.044046 GTCAGCAAATCCAATATTTCATGCA 58.956 36.000 0.00 0.00 0.00 3.96
2550 10420 6.044046 TGTCAGCAAATCCAATATTTCATGC 58.956 36.000 0.00 0.00 0.00 4.06
2551 10421 6.200286 GCTGTCAGCAAATCCAATATTTCATG 59.800 38.462 20.16 0.00 41.89 3.07
2552 10422 6.097839 AGCTGTCAGCAAATCCAATATTTCAT 59.902 34.615 26.23 0.00 45.56 2.57
2553 10423 5.419788 AGCTGTCAGCAAATCCAATATTTCA 59.580 36.000 26.23 0.00 45.56 2.69
2554 10424 5.899299 AGCTGTCAGCAAATCCAATATTTC 58.101 37.500 26.23 0.00 45.56 2.17
2555 10425 5.927281 AGCTGTCAGCAAATCCAATATTT 57.073 34.783 26.23 0.00 45.56 1.40
2556 10426 6.548622 ACATAGCTGTCAGCAAATCCAATATT 59.451 34.615 26.23 3.95 45.56 1.28
2557 10427 6.066690 ACATAGCTGTCAGCAAATCCAATAT 58.933 36.000 26.23 9.92 45.56 1.28
2558 10428 5.439721 ACATAGCTGTCAGCAAATCCAATA 58.560 37.500 26.23 8.00 45.56 1.90
2559 10429 4.275810 ACATAGCTGTCAGCAAATCCAAT 58.724 39.130 26.23 5.92 45.56 3.16
2560 10430 3.689347 ACATAGCTGTCAGCAAATCCAA 58.311 40.909 26.23 3.52 45.56 3.53
2561 10431 3.354948 ACATAGCTGTCAGCAAATCCA 57.645 42.857 26.23 4.87 45.56 3.41
2562 10432 3.249559 GCTACATAGCTGTCAGCAAATCC 59.750 47.826 26.23 5.08 45.56 3.01
2563 10433 4.465040 GCTACATAGCTGTCAGCAAATC 57.535 45.455 26.23 5.32 45.56 2.17
2576 10446 7.442062 TGGTGTGATAACATTGATGCTACATAG 59.558 37.037 0.00 0.00 0.00 2.23
2577 10447 7.278875 TGGTGTGATAACATTGATGCTACATA 58.721 34.615 0.00 0.00 0.00 2.29
2578 10448 6.121590 TGGTGTGATAACATTGATGCTACAT 58.878 36.000 0.00 0.00 0.00 2.29
2579 10449 5.495640 TGGTGTGATAACATTGATGCTACA 58.504 37.500 0.00 0.00 0.00 2.74
2580 10450 5.817296 TCTGGTGTGATAACATTGATGCTAC 59.183 40.000 0.00 0.00 0.00 3.58
2581 10451 5.988287 TCTGGTGTGATAACATTGATGCTA 58.012 37.500 0.00 0.00 0.00 3.49
2582 10452 4.847198 TCTGGTGTGATAACATTGATGCT 58.153 39.130 0.00 0.00 0.00 3.79
2583 10453 4.036027 CCTCTGGTGTGATAACATTGATGC 59.964 45.833 0.00 0.00 0.00 3.91
2584 10454 4.036027 GCCTCTGGTGTGATAACATTGATG 59.964 45.833 0.00 0.00 0.00 3.07
2585 10455 4.202441 GCCTCTGGTGTGATAACATTGAT 58.798 43.478 0.00 0.00 0.00 2.57
2586 10456 3.609853 GCCTCTGGTGTGATAACATTGA 58.390 45.455 0.00 0.00 0.00 2.57
2587 10457 2.352651 CGCCTCTGGTGTGATAACATTG 59.647 50.000 0.00 0.00 0.00 2.82
2588 10458 2.027192 ACGCCTCTGGTGTGATAACATT 60.027 45.455 1.68 0.00 45.43 2.71
2589 10459 1.555075 ACGCCTCTGGTGTGATAACAT 59.445 47.619 1.68 0.00 45.43 2.71
2590 10460 0.973632 ACGCCTCTGGTGTGATAACA 59.026 50.000 1.68 0.00 45.43 2.41
2591 10461 3.834732 ACGCCTCTGGTGTGATAAC 57.165 52.632 1.68 0.00 45.43 1.89
2598 10468 2.281070 AGTTGCACGCCTCTGGTG 60.281 61.111 0.00 0.00 39.41 4.17
2599 10469 2.281070 CAGTTGCACGCCTCTGGT 60.281 61.111 0.00 0.00 0.00 4.00
2600 10470 3.052082 CCAGTTGCACGCCTCTGG 61.052 66.667 12.75 12.75 40.83 3.86
2601 10471 2.281070 ACCAGTTGCACGCCTCTG 60.281 61.111 0.00 4.33 0.00 3.35
2602 10472 2.281070 CACCAGTTGCACGCCTCT 60.281 61.111 0.00 0.00 0.00 3.69
2603 10473 1.237285 ATTCACCAGTTGCACGCCTC 61.237 55.000 0.00 0.00 0.00 4.70
2604 10474 1.228245 ATTCACCAGTTGCACGCCT 60.228 52.632 0.00 0.00 0.00 5.52
2605 10475 1.081242 CATTCACCAGTTGCACGCC 60.081 57.895 0.00 0.00 0.00 5.68
2606 10476 1.730547 GCATTCACCAGTTGCACGC 60.731 57.895 0.00 0.00 36.40 5.34
2607 10477 1.653667 TGCATTCACCAGTTGCACG 59.346 52.632 0.00 0.00 41.18 5.34
2610 10480 1.542915 AGTCATGCATTCACCAGTTGC 59.457 47.619 0.00 0.00 36.91 4.17
2611 10481 3.482722 GAGTCATGCATTCACCAGTTG 57.517 47.619 0.00 0.00 0.00 3.16


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

AutoCloner maintained by Alex Coulton.