Multiple sequence alignment - TraesCS2A01G570400

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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 TraesCS2A01G570400 chr2A 100.000 3923 0 0 1 3923 767943879 767947801 0.000000e+00 7245.0
1 TraesCS2A01G570400 chr2A 85.034 441 42 11 2619 3049 767575060 767574634 1.010000e-115 427.0
2 TraesCS2A01G570400 chr2D 91.656 3116 156 52 154 3218 642989977 642993039 0.000000e+00 4218.0
3 TraesCS2A01G570400 chr2D 91.811 403 20 3 2782 3184 643067134 643067523 2.060000e-152 549.0
4 TraesCS2A01G570400 chr2D 89.873 316 30 2 3610 3923 642993589 642993904 4.720000e-109 405.0
5 TraesCS2A01G570400 chr2D 88.571 70 7 1 3519 3587 643067608 643067677 2.510000e-12 84.2
6 TraesCS2A01G570400 chrUn 92.066 1462 87 14 1790 3244 31602239 31603678 0.000000e+00 2030.0
7 TraesCS2A01G570400 chrUn 90.216 787 46 10 154 939 31600507 31601263 0.000000e+00 998.0
8 TraesCS2A01G570400 chrUn 88.504 722 56 18 854 1566 31601261 31601964 0.000000e+00 848.0
9 TraesCS2A01G570400 chrUn 93.410 349 22 1 3261 3609 31603668 31604015 2.090000e-142 516.0
10 TraesCS2A01G570400 chrUn 84.127 441 46 11 2619 3049 183069702 183070128 4.720000e-109 405.0
11 TraesCS2A01G570400 chrUn 84.127 441 46 11 2619 3049 293039576 293040002 4.720000e-109 405.0
12 TraesCS2A01G570400 chrUn 93.878 196 12 0 3726 3921 31604223 31604418 2.960000e-76 296.0
13 TraesCS2A01G570400 chrUn 93.269 104 7 0 44 147 71312960 71312857 1.890000e-33 154.0
14 TraesCS2A01G570400 chrUn 91.071 56 3 2 1 54 31600439 31600494 1.510000e-09 75.0
15 TraesCS2A01G570400 chrUn 100.000 30 0 0 1606 1635 31602016 31602045 5.480000e-04 56.5
16 TraesCS2A01G570400 chr6B 84.824 995 92 26 145 1125 712252063 712253012 0.000000e+00 946.0
17 TraesCS2A01G570400 chr6B 75.038 665 143 20 1812 2472 159951916 159952561 1.780000e-73 287.0
18 TraesCS2A01G570400 chr6B 96.154 52 2 0 3 54 712252016 712252067 6.980000e-13 86.1
19 TraesCS2A01G570400 chr6D 85.193 986 72 42 145 1099 467049321 467050263 0.000000e+00 944.0
20 TraesCS2A01G570400 chr6D 94.845 97 5 0 51 147 319691668 319691572 6.790000e-33 152.0
21 TraesCS2A01G570400 chr6D 90.411 73 3 1 1302 1370 467050272 467050344 4.170000e-15 93.5
22 TraesCS2A01G570400 chr6D 96.154 52 2 0 3 54 467049274 467049325 6.980000e-13 86.1
23 TraesCS2A01G570400 chr6A 89.744 507 39 6 145 643 613343164 613343665 1.540000e-178 636.0
24 TraesCS2A01G570400 chr6A 85.388 219 22 6 675 887 613343665 613343879 6.600000e-53 219.0
25 TraesCS2A01G570400 chr6A 85.950 121 6 2 923 1039 613343882 613343995 6.890000e-23 119.0
26 TraesCS2A01G570400 chr6A 96.154 52 2 0 3 54 613343117 613343168 6.980000e-13 86.1
27 TraesCS2A01G570400 chr5A 83.673 196 28 3 2579 2773 198151491 198151299 8.660000e-42 182.0
28 TraesCS2A01G570400 chr4B 93.333 105 5 2 44 147 658159283 658159180 1.890000e-33 154.0
29 TraesCS2A01G570400 chr1D 94.059 101 6 0 47 147 354518917 354519017 1.890000e-33 154.0
30 TraesCS2A01G570400 chr3D 94.845 97 5 0 51 147 138076240 138076336 6.790000e-33 152.0
31 TraesCS2A01G570400 chr3D 92.453 106 7 1 47 152 175538803 175538907 2.440000e-32 150.0
32 TraesCS2A01G570400 chr3D 90.909 110 10 0 39 148 426879566 426879675 8.780000e-32 148.0
33 TraesCS2A01G570400 chr3D 91.509 106 9 0 42 147 110927872 110927767 3.160000e-31 147.0
34 TraesCS2A01G570400 chr3A 94.845 97 5 0 51 147 156231984 156232080 6.790000e-33 152.0


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 TraesCS2A01G570400 chr2A 767943879 767947801 3922 False 7245.000000 7245 100.0000 1 3923 1 chr2A.!!$F1 3922
1 TraesCS2A01G570400 chr2D 642989977 642993904 3927 False 2311.500000 4218 90.7645 154 3923 2 chr2D.!!$F1 3769
2 TraesCS2A01G570400 chr2D 643067134 643067677 543 False 316.600000 549 90.1910 2782 3587 2 chr2D.!!$F2 805
3 TraesCS2A01G570400 chrUn 31600439 31604418 3979 False 688.500000 2030 92.7350 1 3921 7 chrUn.!!$F3 3920
4 TraesCS2A01G570400 chr6B 712252016 712253012 996 False 516.050000 946 90.4890 3 1125 2 chr6B.!!$F2 1122
5 TraesCS2A01G570400 chr6B 159951916 159952561 645 False 287.000000 287 75.0380 1812 2472 1 chr6B.!!$F1 660
6 TraesCS2A01G570400 chr6D 467049274 467050344 1070 False 374.533333 944 90.5860 3 1370 3 chr6D.!!$F1 1367
7 TraesCS2A01G570400 chr6A 613343117 613343995 878 False 265.025000 636 89.3090 3 1039 4 chr6A.!!$F1 1036

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
982 1147 0.385390 CCTGAAGGTGTGTTGTTGCC 59.615 55.0 0.00 0.00 0.00 4.52 F
1261 1440 1.063806 CTCGTCAGCTGTGTTGCTAC 58.936 55.0 14.67 1.17 41.98 3.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2594 2904 0.955428 TCAATCGGTGGACAGCTTGC 60.955 55.0 0.0 0.0 0.00 4.01 R
3207 3577 0.732571 CCATAGCGCGAATTGTGGTT 59.267 50.0 12.1 0.0 39.91 3.67 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
32 33 5.963586 GTGAAGTGGTTGTTTCTTTACTTCG 59.036 40.000 0.00 0.00 44.10 3.79
56 59 9.778993 TCGTTACTGTTCTTATTATGTACTCAC 57.221 33.333 0.00 0.00 0.00 3.51
57 60 9.784680 CGTTACTGTTCTTATTATGTACTCACT 57.215 33.333 0.00 0.00 0.00 3.41
60 63 7.481642 ACTGTTCTTATTATGTACTCACTCCG 58.518 38.462 0.00 0.00 0.00 4.63
61 64 7.122353 ACTGTTCTTATTATGTACTCACTCCGT 59.878 37.037 0.00 0.00 0.00 4.69
63 66 6.630444 TCTTATTATGTACTCACTCCGTCC 57.370 41.667 0.00 0.00 0.00 4.79
64 67 5.533903 TCTTATTATGTACTCACTCCGTCCC 59.466 44.000 0.00 0.00 0.00 4.46
65 68 2.812836 TATGTACTCACTCCGTCCCA 57.187 50.000 0.00 0.00 0.00 4.37
66 69 1.933021 ATGTACTCACTCCGTCCCAA 58.067 50.000 0.00 0.00 0.00 4.12
67 70 1.707106 TGTACTCACTCCGTCCCAAA 58.293 50.000 0.00 0.00 0.00 3.28
68 71 2.040939 TGTACTCACTCCGTCCCAAAA 58.959 47.619 0.00 0.00 0.00 2.44
69 72 2.635915 TGTACTCACTCCGTCCCAAAAT 59.364 45.455 0.00 0.00 0.00 1.82
70 73 3.833650 TGTACTCACTCCGTCCCAAAATA 59.166 43.478 0.00 0.00 0.00 1.40
71 74 4.283978 TGTACTCACTCCGTCCCAAAATAA 59.716 41.667 0.00 0.00 0.00 1.40
72 75 3.939066 ACTCACTCCGTCCCAAAATAAG 58.061 45.455 0.00 0.00 0.00 1.73
73 76 3.326880 ACTCACTCCGTCCCAAAATAAGT 59.673 43.478 0.00 0.00 0.00 2.24
74 77 3.670625 TCACTCCGTCCCAAAATAAGTG 58.329 45.455 0.00 0.00 35.20 3.16
75 78 3.071892 TCACTCCGTCCCAAAATAAGTGT 59.928 43.478 0.00 0.00 35.37 3.55
76 79 3.435671 CACTCCGTCCCAAAATAAGTGTC 59.564 47.826 0.00 0.00 0.00 3.67
77 80 3.326880 ACTCCGTCCCAAAATAAGTGTCT 59.673 43.478 0.00 0.00 0.00 3.41
78 81 3.933332 CTCCGTCCCAAAATAAGTGTCTC 59.067 47.826 0.00 0.00 0.00 3.36
79 82 3.325425 TCCGTCCCAAAATAAGTGTCTCA 59.675 43.478 0.00 0.00 0.00 3.27
80 83 4.069304 CCGTCCCAAAATAAGTGTCTCAA 58.931 43.478 0.00 0.00 0.00 3.02
81 84 4.083484 CCGTCCCAAAATAAGTGTCTCAAC 60.083 45.833 0.00 0.00 0.00 3.18
82 85 4.755123 CGTCCCAAAATAAGTGTCTCAACT 59.245 41.667 0.00 0.00 0.00 3.16
83 86 5.107065 CGTCCCAAAATAAGTGTCTCAACTC 60.107 44.000 0.00 0.00 0.00 3.01
84 87 5.998363 GTCCCAAAATAAGTGTCTCAACTCT 59.002 40.000 0.00 0.00 0.00 3.24
85 88 7.159372 GTCCCAAAATAAGTGTCTCAACTCTA 58.841 38.462 0.00 0.00 0.00 2.43
86 89 7.332182 GTCCCAAAATAAGTGTCTCAACTCTAG 59.668 40.741 0.00 0.00 0.00 2.43
87 90 7.016268 TCCCAAAATAAGTGTCTCAACTCTAGT 59.984 37.037 0.00 0.00 0.00 2.57
88 91 8.311836 CCCAAAATAAGTGTCTCAACTCTAGTA 58.688 37.037 0.00 0.00 0.00 1.82
89 92 9.877178 CCAAAATAAGTGTCTCAACTCTAGTAT 57.123 33.333 0.00 0.00 0.00 2.12
96 99 9.915629 AAGTGTCTCAACTCTAGTATAACTTTG 57.084 33.333 0.00 0.00 0.00 2.77
97 100 9.080097 AGTGTCTCAACTCTAGTATAACTTTGT 57.920 33.333 0.00 0.00 0.00 2.83
124 127 9.310716 ACTAAAGTTACTACAAAGTTGAGACAC 57.689 33.333 0.00 0.00 37.15 3.67
125 128 9.530633 CTAAAGTTACTACAAAGTTGAGACACT 57.469 33.333 0.00 0.00 37.15 3.55
126 129 8.788325 AAAGTTACTACAAAGTTGAGACACTT 57.212 30.769 0.00 3.42 38.74 3.16
127 130 8.421673 AAGTTACTACAAAGTTGAGACACTTC 57.578 34.615 0.00 0.00 35.87 3.01
128 131 7.783042 AGTTACTACAAAGTTGAGACACTTCT 58.217 34.615 0.00 0.00 35.87 2.85
129 132 8.258708 AGTTACTACAAAGTTGAGACACTTCTT 58.741 33.333 0.00 0.00 35.87 2.52
130 133 8.880750 GTTACTACAAAGTTGAGACACTTCTTT 58.119 33.333 0.00 0.00 35.87 2.52
131 134 7.923414 ACTACAAAGTTGAGACACTTCTTTT 57.077 32.000 0.00 0.00 35.87 2.27
132 135 7.752695 ACTACAAAGTTGAGACACTTCTTTTG 58.247 34.615 0.00 0.00 35.87 2.44
133 136 5.954335 ACAAAGTTGAGACACTTCTTTTGG 58.046 37.500 0.00 0.00 35.87 3.28
134 137 5.105756 ACAAAGTTGAGACACTTCTTTTGGG 60.106 40.000 0.00 0.00 35.87 4.12
135 138 4.503714 AGTTGAGACACTTCTTTTGGGA 57.496 40.909 0.00 0.00 29.47 4.37
136 139 4.200092 AGTTGAGACACTTCTTTTGGGAC 58.800 43.478 0.00 0.00 29.47 4.46
137 140 2.833794 TGAGACACTTCTTTTGGGACG 58.166 47.619 0.00 0.00 29.47 4.79
138 141 2.143925 GAGACACTTCTTTTGGGACGG 58.856 52.381 0.00 0.00 29.47 4.79
139 142 1.766496 AGACACTTCTTTTGGGACGGA 59.234 47.619 0.00 0.00 0.00 4.69
140 143 2.143925 GACACTTCTTTTGGGACGGAG 58.856 52.381 0.00 0.00 0.00 4.63
141 144 1.202770 ACACTTCTTTTGGGACGGAGG 60.203 52.381 0.00 0.00 0.00 4.30
142 145 0.400594 ACTTCTTTTGGGACGGAGGG 59.599 55.000 0.00 0.00 0.00 4.30
143 146 0.690762 CTTCTTTTGGGACGGAGGGA 59.309 55.000 0.00 0.00 0.00 4.20
144 147 0.690762 TTCTTTTGGGACGGAGGGAG 59.309 55.000 0.00 0.00 0.00 4.30
145 148 0.473117 TCTTTTGGGACGGAGGGAGT 60.473 55.000 0.00 0.00 0.00 3.85
271 309 5.588240 TGAGAATTTTGATGATGATGCTGC 58.412 37.500 0.00 0.00 0.00 5.25
343 381 7.556275 TCCGAGCCATAATTTCATTAAACTCTT 59.444 33.333 0.00 0.00 0.00 2.85
508 546 5.684704 CATTATAAGGTCAAGCTGGGAGAA 58.315 41.667 0.00 0.00 0.00 2.87
516 554 3.449018 GTCAAGCTGGGAGAAGACTGATA 59.551 47.826 0.00 0.00 0.00 2.15
523 561 3.012959 TGGGAGAAGACTGATAGGTTCCT 59.987 47.826 0.00 0.00 0.00 3.36
545 583 1.878656 CGTTCAAGCTCCTCCCTCGT 61.879 60.000 0.00 0.00 0.00 4.18
547 585 1.135333 GTTCAAGCTCCTCCCTCGTAG 59.865 57.143 0.00 0.00 0.00 3.51
548 586 0.624254 TCAAGCTCCTCCCTCGTAGA 59.376 55.000 0.00 0.00 0.00 2.59
549 587 0.741915 CAAGCTCCTCCCTCGTAGAC 59.258 60.000 0.00 0.00 0.00 2.59
550 588 0.626916 AAGCTCCTCCCTCGTAGACT 59.373 55.000 0.00 0.00 0.00 3.24
660 702 3.307059 GGCTAGTTCTCATCTTGTGGTGT 60.307 47.826 0.00 0.00 0.00 4.16
667 709 4.510571 TCTCATCTTGTGGTGTGATGATG 58.489 43.478 0.00 0.00 43.48 3.07
764 828 6.524239 GTGTAACAACAGTCGATACATTACGA 59.476 38.462 0.00 0.00 36.32 3.43
765 829 7.460637 GTGTAACAACAGTCGATACATTACGAC 60.461 40.741 10.92 10.92 46.77 4.34
772 836 4.354071 TCGATACATTACGACCGTTTGA 57.646 40.909 0.00 0.00 33.62 2.69
773 837 4.923893 TCGATACATTACGACCGTTTGAT 58.076 39.130 0.00 0.00 33.62 2.57
774 838 4.736307 TCGATACATTACGACCGTTTGATG 59.264 41.667 0.00 6.13 33.62 3.07
775 839 4.085261 CGATACATTACGACCGTTTGATGG 60.085 45.833 0.00 0.00 0.00 3.51
776 840 3.048337 ACATTACGACCGTTTGATGGT 57.952 42.857 0.00 0.00 40.99 3.55
777 841 4.191033 ACATTACGACCGTTTGATGGTA 57.809 40.909 0.00 0.00 37.69 3.25
778 842 3.928375 ACATTACGACCGTTTGATGGTAC 59.072 43.478 0.00 0.00 37.69 3.34
779 843 2.261037 TACGACCGTTTGATGGTACG 57.739 50.000 0.00 0.00 37.69 3.67
789 853 3.620427 TTGATGGTACGCTTGGTGTAT 57.380 42.857 0.00 0.00 31.13 2.29
821 886 3.107601 TGTATGACCTCCAAGCTTAGCT 58.892 45.455 0.00 0.00 42.56 3.32
885 957 5.166398 GCATTGCTTCAAACTTGCTTATCT 58.834 37.500 0.16 0.00 0.00 1.98
941 1099 1.622811 AGTTCTGCTGCTAGCTTGAGT 59.377 47.619 17.23 0.00 42.97 3.41
962 1120 6.016360 TGAGTTGTTTTATGTTGGTCCTGATG 60.016 38.462 0.00 0.00 0.00 3.07
982 1147 0.385390 CCTGAAGGTGTGTTGTTGCC 59.615 55.000 0.00 0.00 0.00 4.52
1059 1233 3.070878 TCAGAGTCACAAGTGCCATGTTA 59.929 43.478 0.00 0.00 0.00 2.41
1166 1344 1.367471 GGCAAGCAAGGTTTGTCCC 59.633 57.895 0.00 0.00 36.75 4.46
1223 1402 8.504005 CACGTATTCTCTCCTTGTGTTAATTTT 58.496 33.333 0.00 0.00 0.00 1.82
1261 1440 1.063806 CTCGTCAGCTGTGTTGCTAC 58.936 55.000 14.67 1.17 41.98 3.58
1418 1607 3.195182 TCTCATCTGCTTCTTCTCAGGTG 59.805 47.826 0.00 0.00 41.51 4.00
1436 1625 4.940046 CAGGTGCTACTCTTCACAATCAAT 59.060 41.667 0.00 0.00 35.04 2.57
1438 1627 6.595326 CAGGTGCTACTCTTCACAATCAATTA 59.405 38.462 0.00 0.00 35.04 1.40
1440 1629 7.831193 AGGTGCTACTCTTCACAATCAATTATT 59.169 33.333 0.00 0.00 35.04 1.40
1441 1630 8.462016 GGTGCTACTCTTCACAATCAATTATTT 58.538 33.333 0.00 0.00 35.04 1.40
1442 1631 9.846248 GTGCTACTCTTCACAATCAATTATTTT 57.154 29.630 0.00 0.00 33.63 1.82
1444 1633 9.508567 GCTACTCTTCACAATCAATTATTTTCC 57.491 33.333 0.00 0.00 0.00 3.13
1447 1636 9.525826 ACTCTTCACAATCAATTATTTTCCTCT 57.474 29.630 0.00 0.00 0.00 3.69
1448 1637 9.784680 CTCTTCACAATCAATTATTTTCCTCTG 57.215 33.333 0.00 0.00 0.00 3.35
1504 1697 3.441572 GGGATGAGATTGTGTCAGGTTTG 59.558 47.826 0.00 0.00 0.00 2.93
1525 1719 4.697514 TGTGACTGCTAGAATAGAATGGC 58.302 43.478 0.00 0.00 42.77 4.40
1536 1730 4.957954 AGAATAGAATGGCATGCTTTGGAA 59.042 37.500 14.49 0.00 0.00 3.53
1590 1805 2.582728 TTGCCTTGCACTCTGTTTTG 57.417 45.000 0.00 0.00 38.71 2.44
1596 1811 4.261572 GCCTTGCACTCTGTTTTGAATGTA 60.262 41.667 0.00 0.00 0.00 2.29
1597 1812 5.215160 CCTTGCACTCTGTTTTGAATGTAC 58.785 41.667 0.00 0.00 0.00 2.90
1598 1813 5.221028 CCTTGCACTCTGTTTTGAATGTACA 60.221 40.000 0.00 0.00 0.00 2.90
1599 1814 5.422666 TGCACTCTGTTTTGAATGTACAG 57.577 39.130 0.33 0.00 40.42 2.74
1600 1815 4.881273 TGCACTCTGTTTTGAATGTACAGT 59.119 37.500 0.33 0.00 40.08 3.55
1601 1816 5.207768 GCACTCTGTTTTGAATGTACAGTG 58.792 41.667 0.00 0.00 40.08 3.66
1602 1817 5.220854 GCACTCTGTTTTGAATGTACAGTGT 60.221 40.000 0.00 0.00 43.43 3.55
1603 1818 6.018262 GCACTCTGTTTTGAATGTACAGTGTA 60.018 38.462 0.00 0.00 41.80 2.90
1604 1819 7.567571 CACTCTGTTTTGAATGTACAGTGTAG 58.432 38.462 0.00 0.00 41.80 2.74
1653 1868 5.812642 GTCAGGACATACTCAACATAAGTGG 59.187 44.000 0.00 0.00 0.00 4.00
1656 1871 7.050377 CAGGACATACTCAACATAAGTGGAAT 58.950 38.462 0.00 0.00 0.00 3.01
1657 1872 7.225538 CAGGACATACTCAACATAAGTGGAATC 59.774 40.741 0.00 0.00 0.00 2.52
1701 1917 2.894763 TTGCCAATGCCATAGATTGC 57.105 45.000 0.00 0.00 36.33 3.56
1702 1918 2.076207 TGCCAATGCCATAGATTGCT 57.924 45.000 0.00 0.00 36.33 3.91
1704 1920 2.101750 TGCCAATGCCATAGATTGCTTG 59.898 45.455 0.00 0.00 36.33 4.01
1721 1937 5.728637 TGCTTGTCTCTGAAGATCAGTTA 57.271 39.130 7.21 0.00 44.58 2.24
1773 2082 5.767816 ATTAACTGAAGCCAAAGTCGTTT 57.232 34.783 0.00 0.00 0.00 3.60
1779 2088 3.923461 TGAAGCCAAAGTCGTTTTTGTTG 59.077 39.130 11.44 0.00 36.54 3.33
1801 2111 1.203038 TGTTGTGATGACAGGGGCAAT 60.203 47.619 0.00 0.00 32.26 3.56
1807 2117 1.866483 ATGACAGGGGCAATGAGGCA 61.866 55.000 0.00 0.00 46.44 4.75
2124 2434 1.085091 CTACTACGACGTGAGCCTGT 58.915 55.000 11.56 2.75 0.00 4.00
2252 2562 3.706373 GAGCTGGCCGTGAAGGGA 61.706 66.667 0.00 0.00 41.48 4.20
2255 2565 3.036429 GCTGGCCGTGAAGGGAGAT 62.036 63.158 0.00 0.00 41.48 2.75
2384 2694 1.497722 GAAGAAGTTCAAGGCGGCG 59.502 57.895 0.51 0.51 32.36 6.46
2492 2802 2.923655 CTCCAGCAACATGTACGTACTG 59.076 50.000 25.12 20.96 0.00 2.74
2541 2851 7.071917 TCTCTCTGAGATGAAATTCCTCCATA 58.928 38.462 8.00 0.00 33.35 2.74
2542 2852 7.733955 TCTCTCTGAGATGAAATTCCTCCATAT 59.266 37.037 8.00 0.00 33.35 1.78
2577 2887 1.317613 GTGTGTGGTCAAAGCATCCA 58.682 50.000 0.00 0.00 0.00 3.41
2594 2904 5.100259 GCATCCAATTCTTCACACAATCTG 58.900 41.667 0.00 0.00 0.00 2.90
2605 2915 1.241165 CACAATCTGCAAGCTGTCCA 58.759 50.000 0.00 0.00 28.86 4.02
2606 2916 1.068748 CACAATCTGCAAGCTGTCCAC 60.069 52.381 0.00 0.00 28.86 4.02
2607 2917 0.524862 CAATCTGCAAGCTGTCCACC 59.475 55.000 0.00 0.00 0.00 4.61
2617 2927 0.734889 GCTGTCCACCGATTGAATGG 59.265 55.000 0.00 0.00 34.58 3.16
2622 2932 0.452987 CCACCGATTGAATGGCACTG 59.547 55.000 0.00 0.00 0.00 3.66
2623 2933 1.167851 CACCGATTGAATGGCACTGT 58.832 50.000 0.00 0.00 0.00 3.55
2633 2943 3.628942 TGAATGGCACTGTAGCAATCATC 59.371 43.478 0.00 0.00 35.83 2.92
2636 2946 2.502947 TGGCACTGTAGCAATCATCTCT 59.497 45.455 4.98 0.00 35.83 3.10
2644 2954 3.690475 AGCAATCATCTCTCACACACA 57.310 42.857 0.00 0.00 0.00 3.72
2653 2963 4.818534 TCTCTCACACACAAGCAATTTC 57.181 40.909 0.00 0.00 0.00 2.17
2662 2972 8.236586 TCACACACAAGCAATTTCTCAATATAC 58.763 33.333 0.00 0.00 0.00 1.47
2673 2983 8.627403 CAATTTCTCAATATACAGTGCCATTCT 58.373 33.333 0.00 0.00 0.00 2.40
2682 3017 9.797642 AATATACAGTGCCATTCTGATTTGATA 57.202 29.630 0.00 0.00 36.81 2.15
2687 3022 5.655532 AGTGCCATTCTGATTTGATAAGCTT 59.344 36.000 3.48 3.48 0.00 3.74
2691 3026 5.747197 CCATTCTGATTTGATAAGCTTGTGC 59.253 40.000 9.86 0.00 40.05 4.57
2703 3038 2.862541 AGCTTGTGCCAGTTTACATGA 58.137 42.857 0.00 0.00 40.80 3.07
2880 3221 1.176619 TGCTTGTGATGCTGCTGCTT 61.177 50.000 17.00 10.47 40.48 3.91
2896 3237 0.321475 GCTTCTCTGCAGCTTCCTGT 60.321 55.000 9.47 0.00 41.26 4.00
2898 3239 0.037882 TTCTCTGCAGCTTCCTGTCG 60.038 55.000 9.47 0.00 41.26 4.35
2984 3325 2.696187 GACCTGACCCTCTTCCTGATAC 59.304 54.545 0.00 0.00 0.00 2.24
3049 3390 7.905265 AGAGTATAGGTGATTCATGGATCAAG 58.095 38.462 18.54 0.00 37.75 3.02
3194 3564 6.926272 GTGGGATTATAGACAGCAGAGTAAAG 59.074 42.308 0.00 0.00 0.00 1.85
3195 3565 6.839134 TGGGATTATAGACAGCAGAGTAAAGA 59.161 38.462 0.00 0.00 0.00 2.52
3198 3568 7.255801 GGATTATAGACAGCAGAGTAAAGAGCT 60.256 40.741 0.00 0.00 37.95 4.09
3199 3569 5.930837 ATAGACAGCAGAGTAAAGAGCTT 57.069 39.130 0.00 0.00 34.61 3.74
3200 3570 4.615588 AGACAGCAGAGTAAAGAGCTTT 57.384 40.909 0.74 0.74 34.61 3.51
3207 3577 7.067008 ACAGCAGAGTAAAGAGCTTTTAAAACA 59.933 33.333 0.26 0.00 34.61 2.83
3219 3896 5.006261 AGCTTTTAAAACAACCACAATTCGC 59.994 36.000 0.00 0.00 0.00 4.70
3231 3908 2.593775 CACAATTCGCGCTATGGTTTTG 59.406 45.455 5.56 2.39 0.00 2.44
3249 3926 8.089115 TGGTTTTGAAAAACTACCACTTTTTG 57.911 30.769 16.03 0.00 45.70 2.44
3370 4047 1.302511 ATCAGGGACACGTGGCAAC 60.303 57.895 25.47 15.72 33.45 4.17
3534 4211 4.699522 AGCGGAACAAGGCGTCCC 62.700 66.667 0.00 0.00 0.00 4.46
3576 4254 1.635817 CCTCCCAACCCGACCATGAT 61.636 60.000 0.00 0.00 0.00 2.45
3643 4439 4.147449 CAGGCTCGTGCGGATCCA 62.147 66.667 13.41 0.00 40.82 3.41
3646 4442 4.819761 GCTCGTGCGGATCCAGCA 62.820 66.667 22.05 22.05 42.99 4.41
3652 4448 2.125512 GCGGATCCAGCAAGTCGT 60.126 61.111 19.44 0.00 34.19 4.34
3706 4503 2.584391 GCCGTCTCCTCCACAACCT 61.584 63.158 0.00 0.00 0.00 3.50
3708 4505 1.293498 CGTCTCCTCCACAACCTGG 59.707 63.158 0.00 0.00 42.29 4.45
3709 4506 1.003233 GTCTCCTCCACAACCTGGC 60.003 63.158 0.00 0.00 40.39 4.85
3711 4508 2.121963 TCCTCCACAACCTGGCCT 60.122 61.111 3.32 0.00 40.39 5.19
3766 4563 7.206981 TGAAATGATTCCTGAAAGTCTGAAC 57.793 36.000 0.00 0.00 34.49 3.18
3826 4623 5.655488 AGACTGACTCAATAACGATGGAAG 58.345 41.667 0.00 0.00 0.00 3.46
3845 4642 4.876679 GGAAGCCTAATGTTGAGGTTAGAC 59.123 45.833 0.00 0.00 36.37 2.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
56 59 3.933332 GAGACACTTATTTTGGGACGGAG 59.067 47.826 0.00 0.00 0.00 4.63
57 60 3.325425 TGAGACACTTATTTTGGGACGGA 59.675 43.478 0.00 0.00 0.00 4.69
58 61 3.670625 TGAGACACTTATTTTGGGACGG 58.329 45.455 0.00 0.00 0.00 4.79
59 62 4.755123 AGTTGAGACACTTATTTTGGGACG 59.245 41.667 0.00 0.00 0.00 4.79
60 63 5.998363 AGAGTTGAGACACTTATTTTGGGAC 59.002 40.000 0.00 0.00 0.00 4.46
61 64 6.187727 AGAGTTGAGACACTTATTTTGGGA 57.812 37.500 0.00 0.00 0.00 4.37
63 66 9.877178 ATACTAGAGTTGAGACACTTATTTTGG 57.123 33.333 0.00 0.00 0.00 3.28
70 73 9.915629 CAAAGTTATACTAGAGTTGAGACACTT 57.084 33.333 0.00 0.00 0.00 3.16
71 74 9.080097 ACAAAGTTATACTAGAGTTGAGACACT 57.920 33.333 0.00 0.00 0.00 3.55
98 101 9.310716 GTGTCTCAACTTTGTAGTAACTTTAGT 57.689 33.333 0.00 0.00 33.17 2.24
99 102 9.530633 AGTGTCTCAACTTTGTAGTAACTTTAG 57.469 33.333 0.00 0.00 33.17 1.85
100 103 9.880157 AAGTGTCTCAACTTTGTAGTAACTTTA 57.120 29.630 0.00 0.00 37.05 1.85
101 104 8.788325 AAGTGTCTCAACTTTGTAGTAACTTT 57.212 30.769 0.00 0.00 37.05 2.66
102 105 8.258708 AGAAGTGTCTCAACTTTGTAGTAACTT 58.741 33.333 0.00 0.00 40.48 2.66
103 106 7.783042 AGAAGTGTCTCAACTTTGTAGTAACT 58.217 34.615 0.00 0.00 40.48 2.24
104 107 8.421673 AAGAAGTGTCTCAACTTTGTAGTAAC 57.578 34.615 0.00 0.00 40.48 2.50
105 108 9.444600 AAAAGAAGTGTCTCAACTTTGTAGTAA 57.555 29.630 0.00 0.00 40.48 2.24
106 109 8.879759 CAAAAGAAGTGTCTCAACTTTGTAGTA 58.120 33.333 0.00 0.00 40.48 1.82
107 110 7.148239 CCAAAAGAAGTGTCTCAACTTTGTAGT 60.148 37.037 0.00 0.00 40.48 2.73
108 111 7.189512 CCAAAAGAAGTGTCTCAACTTTGTAG 58.810 38.462 0.00 0.00 40.48 2.74
109 112 6.094881 CCCAAAAGAAGTGTCTCAACTTTGTA 59.905 38.462 0.00 0.00 40.48 2.41
110 113 5.105756 CCCAAAAGAAGTGTCTCAACTTTGT 60.106 40.000 0.00 0.00 40.48 2.83
111 114 5.125417 TCCCAAAAGAAGTGTCTCAACTTTG 59.875 40.000 0.00 0.00 40.48 2.77
112 115 5.125578 GTCCCAAAAGAAGTGTCTCAACTTT 59.874 40.000 0.00 0.00 40.48 2.66
113 116 4.640647 GTCCCAAAAGAAGTGTCTCAACTT 59.359 41.667 0.00 0.00 43.08 2.66
114 117 4.200092 GTCCCAAAAGAAGTGTCTCAACT 58.800 43.478 0.00 0.00 30.70 3.16
115 118 3.002348 CGTCCCAAAAGAAGTGTCTCAAC 59.998 47.826 0.00 0.00 30.70 3.18
116 119 3.202906 CGTCCCAAAAGAAGTGTCTCAA 58.797 45.455 0.00 0.00 30.70 3.02
117 120 2.484770 CCGTCCCAAAAGAAGTGTCTCA 60.485 50.000 0.00 0.00 30.70 3.27
118 121 2.143925 CCGTCCCAAAAGAAGTGTCTC 58.856 52.381 0.00 0.00 30.70 3.36
119 122 1.766496 TCCGTCCCAAAAGAAGTGTCT 59.234 47.619 0.00 0.00 34.72 3.41
120 123 2.143925 CTCCGTCCCAAAAGAAGTGTC 58.856 52.381 0.00 0.00 0.00 3.67
121 124 1.202770 CCTCCGTCCCAAAAGAAGTGT 60.203 52.381 0.00 0.00 0.00 3.55
122 125 1.523758 CCTCCGTCCCAAAAGAAGTG 58.476 55.000 0.00 0.00 0.00 3.16
123 126 0.400594 CCCTCCGTCCCAAAAGAAGT 59.599 55.000 0.00 0.00 0.00 3.01
124 127 0.690762 TCCCTCCGTCCCAAAAGAAG 59.309 55.000 0.00 0.00 0.00 2.85
125 128 0.690762 CTCCCTCCGTCCCAAAAGAA 59.309 55.000 0.00 0.00 0.00 2.52
126 129 0.473117 ACTCCCTCCGTCCCAAAAGA 60.473 55.000 0.00 0.00 0.00 2.52
127 130 1.066358 GTACTCCCTCCGTCCCAAAAG 60.066 57.143 0.00 0.00 0.00 2.27
128 131 0.978907 GTACTCCCTCCGTCCCAAAA 59.021 55.000 0.00 0.00 0.00 2.44
129 132 0.115745 AGTACTCCCTCCGTCCCAAA 59.884 55.000 0.00 0.00 0.00 3.28
130 133 0.115745 AAGTACTCCCTCCGTCCCAA 59.884 55.000 0.00 0.00 0.00 4.12
131 134 0.613853 CAAGTACTCCCTCCGTCCCA 60.614 60.000 0.00 0.00 0.00 4.37
132 135 0.614134 ACAAGTACTCCCTCCGTCCC 60.614 60.000 0.00 0.00 0.00 4.46
133 136 2.134789 TACAAGTACTCCCTCCGTCC 57.865 55.000 0.00 0.00 0.00 4.79
134 137 2.223758 GCATACAAGTACTCCCTCCGTC 60.224 54.545 0.00 0.00 0.00 4.79
135 138 1.755380 GCATACAAGTACTCCCTCCGT 59.245 52.381 0.00 0.00 0.00 4.69
136 139 1.068741 GGCATACAAGTACTCCCTCCG 59.931 57.143 0.00 0.00 0.00 4.63
137 140 1.416772 GGGCATACAAGTACTCCCTCC 59.583 57.143 7.65 0.35 31.20 4.30
138 141 2.116238 TGGGCATACAAGTACTCCCTC 58.884 52.381 14.41 0.00 33.55 4.30
139 142 1.838077 GTGGGCATACAAGTACTCCCT 59.162 52.381 14.41 0.00 33.55 4.20
140 143 1.838077 AGTGGGCATACAAGTACTCCC 59.162 52.381 7.92 7.92 33.21 4.30
141 144 3.705072 AGTAGTGGGCATACAAGTACTCC 59.295 47.826 0.00 0.00 0.00 3.85
142 145 6.320672 TCTTAGTAGTGGGCATACAAGTACTC 59.679 42.308 0.00 0.00 0.00 2.59
143 146 6.192773 TCTTAGTAGTGGGCATACAAGTACT 58.807 40.000 0.00 0.00 0.00 2.73
144 147 6.461110 TCTTAGTAGTGGGCATACAAGTAC 57.539 41.667 0.00 0.00 0.00 2.73
145 148 7.484993 TTTCTTAGTAGTGGGCATACAAGTA 57.515 36.000 0.00 0.00 0.00 2.24
271 309 9.683069 AAAGCAACTGTATCACATTTTAAAGAG 57.317 29.630 0.00 0.00 0.00 2.85
414 452 0.519077 GTACTTGGTGCTGCTTGCTC 59.481 55.000 0.00 0.73 43.37 4.26
508 546 3.088789 ACGTCAGGAACCTATCAGTCT 57.911 47.619 0.00 0.00 0.00 3.24
516 554 0.759346 AGCTTGAACGTCAGGAACCT 59.241 50.000 0.00 0.00 0.00 3.50
523 561 0.832135 AGGGAGGAGCTTGAACGTCA 60.832 55.000 0.00 0.00 0.00 4.35
660 702 9.752961 CAAATCAATGCTTTATTACCATCATCA 57.247 29.630 0.00 0.00 0.00 3.07
667 709 8.442384 CACCAAACAAATCAATGCTTTATTACC 58.558 33.333 0.00 0.00 0.00 2.85
703 745 2.042831 GCAGCTGGCCACAACTAGG 61.043 63.158 17.12 0.00 36.11 3.02
765 829 0.446222 CCAAGCGTACCATCAAACGG 59.554 55.000 0.00 0.00 39.46 4.44
766 830 1.136085 CACCAAGCGTACCATCAAACG 60.136 52.381 0.00 0.00 41.92 3.60
767 831 1.877443 ACACCAAGCGTACCATCAAAC 59.123 47.619 0.00 0.00 0.00 2.93
768 832 2.264005 ACACCAAGCGTACCATCAAA 57.736 45.000 0.00 0.00 0.00 2.69
769 833 3.620427 ATACACCAAGCGTACCATCAA 57.380 42.857 0.00 0.00 0.00 2.57
770 834 3.620427 AATACACCAAGCGTACCATCA 57.380 42.857 0.00 0.00 0.00 3.07
771 835 7.718272 TTATTAATACACCAAGCGTACCATC 57.282 36.000 0.00 0.00 0.00 3.51
772 836 8.154856 AGATTATTAATACACCAAGCGTACCAT 58.845 33.333 0.00 0.00 0.00 3.55
773 837 7.502696 AGATTATTAATACACCAAGCGTACCA 58.497 34.615 0.00 0.00 0.00 3.25
774 838 7.958053 AGATTATTAATACACCAAGCGTACC 57.042 36.000 0.00 0.00 0.00 3.34
775 839 9.646336 CAAAGATTATTAATACACCAAGCGTAC 57.354 33.333 0.00 0.00 0.00 3.67
776 840 9.386010 ACAAAGATTATTAATACACCAAGCGTA 57.614 29.630 0.00 0.00 0.00 4.42
777 841 8.276252 ACAAAGATTATTAATACACCAAGCGT 57.724 30.769 0.00 0.00 0.00 5.07
789 853 9.120538 GCTTGGAGGTCATACAAAGATTATTAA 57.879 33.333 0.00 0.00 0.00 1.40
821 886 4.591929 TCATTGGATCATCTTGCTGACAA 58.408 39.130 0.00 0.00 0.00 3.18
841 906 4.406649 TGCAGGAGACAATATCAGACATCA 59.593 41.667 0.00 0.00 0.00 3.07
941 1099 4.021544 GGCATCAGGACCAACATAAAACAA 60.022 41.667 0.00 0.00 0.00 2.83
962 1120 0.249031 GCAACAACACACCTTCAGGC 60.249 55.000 0.00 0.00 39.32 4.85
982 1147 2.092538 ACATGATTCCCTCCTGCTTCAG 60.093 50.000 0.00 0.00 0.00 3.02
1166 1344 1.030488 CAGTGAGGCATGCCAGGAAG 61.030 60.000 37.18 20.13 38.92 3.46
1372 1561 2.282745 GGCAGAAGCAGGGCACTT 60.283 61.111 0.00 0.00 44.61 3.16
1418 1607 9.508567 GGAAAATAATTGATTGTGAAGAGTAGC 57.491 33.333 0.00 0.00 0.00 3.58
1436 1625 6.825721 GGAGAAGATGAAGCAGAGGAAAATAA 59.174 38.462 0.00 0.00 0.00 1.40
1438 1627 5.044993 AGGAGAAGATGAAGCAGAGGAAAAT 60.045 40.000 0.00 0.00 0.00 1.82
1440 1629 3.843027 AGGAGAAGATGAAGCAGAGGAAA 59.157 43.478 0.00 0.00 0.00 3.13
1441 1630 3.448934 AGGAGAAGATGAAGCAGAGGAA 58.551 45.455 0.00 0.00 0.00 3.36
1442 1631 3.030291 GAGGAGAAGATGAAGCAGAGGA 58.970 50.000 0.00 0.00 0.00 3.71
1443 1632 3.033184 AGAGGAGAAGATGAAGCAGAGG 58.967 50.000 0.00 0.00 0.00 3.69
1444 1633 4.435425 CAAGAGGAGAAGATGAAGCAGAG 58.565 47.826 0.00 0.00 0.00 3.35
1445 1634 3.369261 GCAAGAGGAGAAGATGAAGCAGA 60.369 47.826 0.00 0.00 0.00 4.26
1446 1635 2.937799 GCAAGAGGAGAAGATGAAGCAG 59.062 50.000 0.00 0.00 0.00 4.24
1447 1636 2.570752 AGCAAGAGGAGAAGATGAAGCA 59.429 45.455 0.00 0.00 0.00 3.91
1448 1637 3.264998 AGCAAGAGGAGAAGATGAAGC 57.735 47.619 0.00 0.00 0.00 3.86
1504 1697 4.697514 TGCCATTCTATTCTAGCAGTCAC 58.302 43.478 0.00 0.00 0.00 3.67
1525 1719 3.737047 GCTGGTGATGATTCCAAAGCATG 60.737 47.826 0.00 0.00 37.69 4.06
1536 1730 3.583054 CCAACTGGCTGGTGATGAT 57.417 52.632 11.36 0.00 34.70 2.45
1558 1752 4.337555 GTGCAAGGCAATCTGAATAGATGT 59.662 41.667 0.00 0.00 42.80 3.06
1590 1805 6.374894 AGGTCTACACTCTACACTGTACATTC 59.625 42.308 0.00 0.00 0.00 2.67
1596 1811 4.471548 ACAAGGTCTACACTCTACACTGT 58.528 43.478 0.00 0.00 0.00 3.55
1597 1812 5.455056 AACAAGGTCTACACTCTACACTG 57.545 43.478 0.00 0.00 0.00 3.66
1598 1813 5.597182 TGAAACAAGGTCTACACTCTACACT 59.403 40.000 0.00 0.00 0.00 3.55
1599 1814 5.839621 TGAAACAAGGTCTACACTCTACAC 58.160 41.667 0.00 0.00 0.00 2.90
1600 1815 6.474140 TTGAAACAAGGTCTACACTCTACA 57.526 37.500 0.00 0.00 0.00 2.74
1601 1816 7.441458 ACATTTGAAACAAGGTCTACACTCTAC 59.559 37.037 0.00 0.00 0.00 2.59
1602 1817 7.506114 ACATTTGAAACAAGGTCTACACTCTA 58.494 34.615 0.00 0.00 0.00 2.43
1603 1818 6.357367 ACATTTGAAACAAGGTCTACACTCT 58.643 36.000 0.00 0.00 0.00 3.24
1604 1819 6.619801 ACATTTGAAACAAGGTCTACACTC 57.380 37.500 0.00 0.00 0.00 3.51
1653 1868 0.813821 GGTCAGGGCTTGCAAGATTC 59.186 55.000 30.39 16.89 0.00 2.52
1656 1871 1.073722 CAGGTCAGGGCTTGCAAGA 59.926 57.895 30.39 5.88 0.00 3.02
1657 1872 1.073722 TCAGGTCAGGGCTTGCAAG 59.926 57.895 22.44 22.44 0.00 4.01
1721 1937 4.996122 GCAGCATCTAGTAGCAATCTGATT 59.004 41.667 10.82 0.00 0.00 2.57
1761 2070 3.430556 ACAACAACAAAAACGACTTTGGC 59.569 39.130 15.11 0.00 40.03 4.52
1773 2082 4.381398 CCCTGTCATCACAACAACAACAAA 60.381 41.667 0.00 0.00 29.82 2.83
1779 2088 0.598065 GCCCCTGTCATCACAACAAC 59.402 55.000 0.00 0.00 29.82 3.32
1801 2111 3.680786 CCGACTCCACGTGCCTCA 61.681 66.667 10.91 0.00 0.00 3.86
1916 2226 1.669760 GAACACCACCGAATCGCCA 60.670 57.895 0.00 0.00 0.00 5.69
2124 2434 1.072505 GGAGGTTGAAGCCGTCCAA 59.927 57.895 0.00 0.00 0.00 3.53
2252 2562 2.610859 ACCACCTTCCCGCCATCT 60.611 61.111 0.00 0.00 0.00 2.90
2288 2598 2.906388 TCGGTCCCGAACACGTCA 60.906 61.111 5.84 0.00 46.01 4.35
2492 2802 9.606631 AGAGATGATAATTAAGGTTGTCAGAAC 57.393 33.333 0.00 0.00 33.62 3.01
2541 2851 5.236282 CACACACAAGATCTTGAGAGACAT 58.764 41.667 36.15 13.71 42.93 3.06
2542 2852 4.502087 CCACACACAAGATCTTGAGAGACA 60.502 45.833 36.15 0.00 42.93 3.41
2577 2887 4.280174 AGCTTGCAGATTGTGTGAAGAATT 59.720 37.500 0.00 0.00 0.00 2.17
2594 2904 0.955428 TCAATCGGTGGACAGCTTGC 60.955 55.000 0.00 0.00 0.00 4.01
2605 2915 2.632377 CTACAGTGCCATTCAATCGGT 58.368 47.619 0.00 0.00 0.00 4.69
2606 2916 1.331756 GCTACAGTGCCATTCAATCGG 59.668 52.381 0.00 0.00 0.00 4.18
2607 2917 2.009051 TGCTACAGTGCCATTCAATCG 58.991 47.619 0.00 0.00 0.00 3.34
2617 2927 3.555139 GTGAGAGATGATTGCTACAGTGC 59.445 47.826 0.00 0.00 0.00 4.40
2622 2932 4.498241 TGTGTGTGAGAGATGATTGCTAC 58.502 43.478 0.00 0.00 0.00 3.58
2623 2933 4.806640 TGTGTGTGAGAGATGATTGCTA 57.193 40.909 0.00 0.00 0.00 3.49
2633 2943 4.274214 TGAGAAATTGCTTGTGTGTGAGAG 59.726 41.667 0.00 0.00 0.00 3.20
2636 2946 4.979943 TTGAGAAATTGCTTGTGTGTGA 57.020 36.364 0.00 0.00 0.00 3.58
2644 2954 6.377996 TGGCACTGTATATTGAGAAATTGCTT 59.622 34.615 0.00 0.00 0.00 3.91
2653 2963 7.741027 AATCAGAATGGCACTGTATATTGAG 57.259 36.000 5.18 0.00 36.16 3.02
2662 2972 5.067413 AGCTTATCAAATCAGAATGGCACTG 59.933 40.000 0.00 0.00 36.16 3.66
2673 2983 4.081406 ACTGGCACAAGCTTATCAAATCA 58.919 39.130 0.00 0.00 38.70 2.57
2682 3017 3.004734 GTCATGTAAACTGGCACAAGCTT 59.995 43.478 0.00 0.00 38.70 3.74
2691 3026 7.323420 TCAGAGATAAGTGTCATGTAAACTGG 58.677 38.462 0.00 0.00 0.00 4.00
2727 3062 4.525487 AGCAGGAGCAAAGATTCATTGAAA 59.475 37.500 2.68 0.00 45.49 2.69
2850 3191 3.881688 GCATCACAAGCATTAGTGGAGAT 59.118 43.478 0.00 0.00 36.43 2.75
2880 3221 1.181741 ACGACAGGAAGCTGCAGAGA 61.182 55.000 20.43 0.00 0.00 3.10
3121 3463 6.725834 AGAGAGAGAAAGAGAGAGAACCAAAT 59.274 38.462 0.00 0.00 0.00 2.32
3125 3467 4.142381 GCAGAGAGAGAAAGAGAGAGAACC 60.142 50.000 0.00 0.00 0.00 3.62
3194 3564 6.636443 CGAATTGTGGTTGTTTTAAAAGCTC 58.364 36.000 0.00 0.00 0.00 4.09
3195 3565 5.006261 GCGAATTGTGGTTGTTTTAAAAGCT 59.994 36.000 0.00 0.00 0.00 3.74
3198 3568 4.259850 GCGCGAATTGTGGTTGTTTTAAAA 60.260 37.500 12.10 0.00 0.00 1.52
3199 3569 3.243177 GCGCGAATTGTGGTTGTTTTAAA 59.757 39.130 12.10 0.00 0.00 1.52
3200 3570 2.789893 GCGCGAATTGTGGTTGTTTTAA 59.210 40.909 12.10 0.00 0.00 1.52
3207 3577 0.732571 CCATAGCGCGAATTGTGGTT 59.267 50.000 12.10 0.00 39.91 3.67
3231 3908 8.251750 AGCTTTTCAAAAAGTGGTAGTTTTTC 57.748 30.769 14.78 0.00 45.48 2.29
3249 3926 5.257082 TGTGGTAGTTTTTGGAGCTTTTC 57.743 39.130 0.00 0.00 0.00 2.29
3253 3930 4.278310 ACTTTGTGGTAGTTTTTGGAGCT 58.722 39.130 0.00 0.00 0.00 4.09
3254 3931 4.649088 ACTTTGTGGTAGTTTTTGGAGC 57.351 40.909 0.00 0.00 0.00 4.70
3255 3932 6.033966 GTCAACTTTGTGGTAGTTTTTGGAG 58.966 40.000 0.00 0.00 33.73 3.86
3256 3933 5.712917 AGTCAACTTTGTGGTAGTTTTTGGA 59.287 36.000 0.00 0.00 33.73 3.53
3258 3935 7.883229 AAAGTCAACTTTGTGGTAGTTTTTG 57.117 32.000 7.32 0.00 43.87 2.44
3259 3936 8.145122 TCAAAAGTCAACTTTGTGGTAGTTTTT 58.855 29.630 8.80 0.00 44.69 1.94
3265 3942 7.831753 TGAAATCAAAAGTCAACTTTGTGGTA 58.168 30.769 8.80 0.00 44.69 3.25
3324 4001 2.943033 GCCCAAACTGTCGTAAGCATAT 59.057 45.455 0.00 0.00 37.18 1.78
3333 4010 2.046285 GGATGGGCCCAAACTGTCG 61.046 63.158 32.58 0.00 0.00 4.35
3359 4036 3.194755 TGTCTATATCTGTTGCCACGTGT 59.805 43.478 15.65 0.00 0.00 4.49
3361 4038 3.447586 AGTGTCTATATCTGTTGCCACGT 59.552 43.478 0.00 0.00 0.00 4.49
3370 4047 8.812329 GTTTTTGACTAGCAGTGTCTATATCTG 58.188 37.037 0.00 0.00 35.63 2.90
3381 4058 7.654520 TGACTATAAACGTTTTTGACTAGCAGT 59.345 33.333 20.19 9.39 0.00 4.40
3634 4430 2.125552 CGACTTGCTGGATCCGCA 60.126 61.111 22.05 22.05 35.22 5.69
3646 4442 2.034879 CATTCCGCTGCCACGACTT 61.035 57.895 0.00 0.00 34.06 3.01
3671 4467 1.437573 GCGACATGATCCCAGACGA 59.562 57.895 0.00 0.00 0.00 4.20
3731 4528 2.519377 ATCATTTCATGCATTGGCGG 57.481 45.000 0.00 0.00 45.35 6.13
3763 4560 5.684550 AAAGTGTACCAAAAGATCCGTTC 57.315 39.130 0.00 0.00 0.00 3.95
3766 4563 5.682943 TGAAAAGTGTACCAAAAGATCCG 57.317 39.130 0.00 0.00 0.00 4.18
3826 4623 4.216411 TGGTCTAACCTCAACATTAGGC 57.784 45.455 0.00 0.00 39.58 3.93


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

AutoCloner maintained by Alex Coulton.