Multiple sequence alignment - TraesCS7D01G149900

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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 TraesCS7D01G149900 chr7D 100.000 7805 0 0 1 7805 98659719 98667523 0.000000e+00 14414.0
1 TraesCS7D01G149900 chr7D 85.841 791 59 8 5081 5850 340198024 340197266 0.000000e+00 791.0
2 TraesCS7D01G149900 chr7D 96.198 263 10 0 4642 4904 555968816 555969078 1.560000e-116 431.0
3 TraesCS7D01G149900 chr7A 96.814 3986 75 20 685 4645 101218930 101222888 0.000000e+00 6610.0
4 TraesCS7D01G149900 chr7A 94.561 2004 63 11 4901 6878 101222885 101224868 0.000000e+00 3055.0
5 TraesCS7D01G149900 chr7A 87.764 711 53 11 6869 7562 101225288 101225981 0.000000e+00 800.0
6 TraesCS7D01G149900 chr7B 94.400 3964 148 37 684 4638 54310615 54314513 0.000000e+00 6023.0
7 TraesCS7D01G149900 chr7B 94.659 1011 40 7 4901 5898 54314517 54315526 0.000000e+00 1555.0
8 TraesCS7D01G149900 chr7B 94.918 669 32 2 1 668 54309961 54310628 0.000000e+00 1046.0
9 TraesCS7D01G149900 chr7B 86.152 816 75 16 6869 7658 54317909 54318712 0.000000e+00 846.0
10 TraesCS7D01G149900 chr7B 91.037 569 31 7 6326 6878 54316927 54317491 0.000000e+00 750.0
11 TraesCS7D01G149900 chr7B 96.372 441 16 0 5897 6337 54315685 54316125 0.000000e+00 726.0
12 TraesCS7D01G149900 chr6D 92.662 2862 189 15 755 3610 450648271 450651117 0.000000e+00 4102.0
13 TraesCS7D01G149900 chr6D 86.094 791 59 12 5081 5850 450173185 450173945 0.000000e+00 804.0
14 TraesCS7D01G149900 chr6D 86.193 507 39 6 5356 5850 13482231 13481744 3.230000e-143 520.0
15 TraesCS7D01G149900 chr6D 91.304 115 10 0 5020 5134 13483392 13483278 2.920000e-34 158.0
16 TraesCS7D01G149900 chr6D 93.902 82 4 1 3650 3731 450651116 450651196 1.060000e-23 122.0
17 TraesCS7D01G149900 chr6B 93.035 2771 176 9 846 3610 684410684 684413443 0.000000e+00 4032.0
18 TraesCS7D01G149900 chr6B 97.244 254 6 1 4650 4903 4952990 4953242 5.600000e-116 429.0
19 TraesCS7D01G149900 chr6B 97.244 254 6 1 4650 4903 4975372 4975624 5.600000e-116 429.0
20 TraesCS7D01G149900 chr6B 96.457 254 8 1 4650 4903 5032767 5033019 1.210000e-112 418.0
21 TraesCS7D01G149900 chr6B 93.902 82 4 1 3650 3731 684413442 684413522 1.060000e-23 122.0
22 TraesCS7D01G149900 chr6A 92.438 2764 204 2 852 3610 596169085 596171848 0.000000e+00 3941.0
23 TraesCS7D01G149900 chr6A 95.038 262 13 0 4643 4904 138271033 138271294 5.640000e-111 412.0
24 TraesCS7D01G149900 chr6A 82.558 258 38 5 6086 6338 3613741 3613996 3.670000e-53 220.0
25 TraesCS7D01G149900 chr6A 81.538 260 37 8 6086 6338 3606032 3606287 3.690000e-48 204.0
26 TraesCS7D01G149900 chr6A 95.122 82 3 1 3650 3731 596171847 596171927 2.290000e-25 128.0
27 TraesCS7D01G149900 chr3B 86.879 846 64 16 5020 5850 775654751 775655564 0.000000e+00 904.0
28 TraesCS7D01G149900 chr3B 89.391 509 51 2 5020 5528 507488942 507489447 8.540000e-179 638.0
29 TraesCS7D01G149900 chr3D 86.391 845 77 10 5020 5850 577278146 577278966 0.000000e+00 889.0
30 TraesCS7D01G149900 chr3D 88.547 585 45 14 5081 5649 583603988 583603410 0.000000e+00 689.0
31 TraesCS7D01G149900 chr1B 85.405 877 74 20 4989 5850 289697716 289696879 0.000000e+00 861.0
32 TraesCS7D01G149900 chr1B 92.520 254 14 2 4938 5186 540991437 540991690 7.450000e-95 359.0
33 TraesCS7D01G149900 chr5D 85.985 792 57 10 5081 5850 127923976 127924735 0.000000e+00 798.0
34 TraesCS7D01G149900 chr5D 86.614 508 36 7 5356 5850 14038534 14038046 4.150000e-147 532.0
35 TraesCS7D01G149900 chr5D 91.304 115 10 0 5020 5134 14039692 14039578 2.920000e-34 158.0
36 TraesCS7D01G149900 chr1D 85.461 791 64 7 5081 5850 415611671 415610911 0.000000e+00 776.0
37 TraesCS7D01G149900 chr1D 86.588 507 37 6 5356 5850 62911805 62911318 1.490000e-146 531.0
38 TraesCS7D01G149900 chr1D 92.000 250 14 3 4938 5181 403038985 403039234 5.800000e-91 346.0
39 TraesCS7D01G149900 chrUn 100.000 399 0 0 2127 2525 478902044 478901646 0.000000e+00 737.0
40 TraesCS7D01G149900 chrUn 86.497 511 39 4 5353 5850 46172955 46173448 1.150000e-147 534.0
41 TraesCS7D01G149900 chr5A 86.275 510 39 11 5353 5850 689188460 689188950 6.940000e-145 525.0
42 TraesCS7D01G149900 chr3A 95.019 261 13 0 4643 4903 335099476 335099736 2.030000e-110 411.0
43 TraesCS7D01G149900 chr3A 80.226 177 26 6 7099 7272 463118163 463118333 2.960000e-24 124.0
44 TraesCS7D01G149900 chr2D 95.038 262 12 1 4642 4903 37526613 37526873 2.030000e-110 411.0
45 TraesCS7D01G149900 chr2D 79.079 239 33 9 7438 7661 622817527 622817291 1.750000e-31 148.0
46 TraesCS7D01G149900 chr2D 80.000 120 11 5 7238 7344 14243403 14243522 8.400000e-10 76.8
47 TraesCS7D01G149900 chr2D 95.000 40 1 1 7245 7283 14199392 14199431 2.350000e-05 62.1
48 TraesCS7D01G149900 chr4A 93.478 276 17 1 4642 4916 562182697 562182972 7.290000e-110 409.0
49 TraesCS7D01G149900 chr4D 91.901 284 21 2 4627 4909 332477752 332477470 5.680000e-106 396.0
50 TraesCS7D01G149900 chr1A 89.883 257 18 3 4938 5186 498139197 498139453 2.720000e-84 324.0


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 TraesCS7D01G149900 chr7D 98659719 98667523 7804 False 14414.000000 14414 100.000000 1 7805 1 chr7D.!!$F1 7804
1 TraesCS7D01G149900 chr7D 340197266 340198024 758 True 791.000000 791 85.841000 5081 5850 1 chr7D.!!$R1 769
2 TraesCS7D01G149900 chr7A 101218930 101225981 7051 False 3488.333333 6610 93.046333 685 7562 3 chr7A.!!$F1 6877
3 TraesCS7D01G149900 chr7B 54309961 54318712 8751 False 1824.333333 6023 92.923000 1 7658 6 chr7B.!!$F1 7657
4 TraesCS7D01G149900 chr6D 450648271 450651196 2925 False 2112.000000 4102 93.282000 755 3731 2 chr6D.!!$F2 2976
5 TraesCS7D01G149900 chr6D 450173185 450173945 760 False 804.000000 804 86.094000 5081 5850 1 chr6D.!!$F1 769
6 TraesCS7D01G149900 chr6D 13481744 13483392 1648 True 339.000000 520 88.748500 5020 5850 2 chr6D.!!$R1 830
7 TraesCS7D01G149900 chr6B 684410684 684413522 2838 False 2077.000000 4032 93.468500 846 3731 2 chr6B.!!$F4 2885
8 TraesCS7D01G149900 chr6A 596169085 596171927 2842 False 2034.500000 3941 93.780000 852 3731 2 chr6A.!!$F4 2879
9 TraesCS7D01G149900 chr3B 775654751 775655564 813 False 904.000000 904 86.879000 5020 5850 1 chr3B.!!$F2 830
10 TraesCS7D01G149900 chr3B 507488942 507489447 505 False 638.000000 638 89.391000 5020 5528 1 chr3B.!!$F1 508
11 TraesCS7D01G149900 chr3D 577278146 577278966 820 False 889.000000 889 86.391000 5020 5850 1 chr3D.!!$F1 830
12 TraesCS7D01G149900 chr3D 583603410 583603988 578 True 689.000000 689 88.547000 5081 5649 1 chr3D.!!$R1 568
13 TraesCS7D01G149900 chr1B 289696879 289697716 837 True 861.000000 861 85.405000 4989 5850 1 chr1B.!!$R1 861
14 TraesCS7D01G149900 chr5D 127923976 127924735 759 False 798.000000 798 85.985000 5081 5850 1 chr5D.!!$F1 769
15 TraesCS7D01G149900 chr5D 14038046 14039692 1646 True 345.000000 532 88.959000 5020 5850 2 chr5D.!!$R1 830
16 TraesCS7D01G149900 chr1D 415610911 415611671 760 True 776.000000 776 85.461000 5081 5850 1 chr1D.!!$R2 769

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
156 157 0.035439 AGCCCACTAATGAACCACCG 60.035 55.000 0.0 0.0 0.00 4.94 F
233 234 0.741221 CAGTTAGCCTTCACGAGCCC 60.741 60.000 0.0 0.0 0.00 5.19 F
1449 1524 0.540923 GTGAGATCCTCTTGCAGGCT 59.459 55.000 0.0 0.0 43.08 4.58 F
1564 1639 1.676916 CCTTGATCACGACATGCACCT 60.677 52.381 0.0 0.0 0.00 4.00 F
1982 2057 2.107204 ACATGGTAATGGATGGGCTCTC 59.893 50.000 0.0 0.0 38.19 3.20 F
3351 3426 2.297033 TGAATTGTTGCAGAAAGGGCTC 59.703 45.455 0.0 0.0 0.00 4.70 F
4491 4574 1.966451 CCGGAAGTCCTGGTGCAAC 60.966 63.158 0.0 0.0 0.00 4.17 F
4668 4753 2.228103 CCCCCGTTTCTTTTTAGTCTGC 59.772 50.000 0.0 0.0 0.00 4.26 F
5205 5424 2.643933 TGTGCAGAAGAGACAGATCG 57.356 50.000 0.0 0.0 0.00 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1314 1389 0.320374 CGGTGTCCTTGAAGTAGGCA 59.680 55.000 0.00 0.00 35.15 4.75 R
2023 2098 2.062519 GAAGCCTTGTCTCGTCTTGTC 58.937 52.381 0.00 0.00 0.00 3.18 R
3351 3426 7.330454 GCTGTGTATACATATTGATCAGGAGTG 59.670 40.741 9.18 0.00 35.97 3.51 R
3596 3673 1.683917 TCTTAGATCCAGGCTTCGAGC 59.316 52.381 0.00 0.00 41.46 5.03 R
3923 4000 3.000727 ACAAGCCGCTTCATACACTTAC 58.999 45.455 1.56 0.00 0.00 2.34 R
4647 4732 2.228103 GCAGACTAAAAAGAAACGGGGG 59.772 50.000 0.00 0.00 0.00 5.40 R
6338 7521 2.290641 CGCCAACAAGCAAAGTAAGACT 59.709 45.455 0.00 0.00 0.00 3.24 R
6539 8535 2.133553 CAGATAAGATGCAGTGGAGCG 58.866 52.381 0.00 0.00 37.31 5.03 R
6859 8871 0.182299 TCAGTGACCACAATGGCACA 59.818 50.000 18.34 7.79 42.67 4.57 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
39 40 2.293122 CGATGCCAACAAGAAGGAAACA 59.707 45.455 0.00 0.00 0.00 2.83
55 56 2.452006 AACAACACTCAAAAGCGTCG 57.548 45.000 0.00 0.00 0.00 5.12
75 76 2.783333 GTCATCGTCGTCTCTGGTAAC 58.217 52.381 0.00 0.00 0.00 2.50
88 89 3.892200 GGTAACGACCGGAGACAAA 57.108 52.632 9.46 0.00 35.52 2.83
151 152 1.398390 CTCGCAAGCCCACTAATGAAC 59.602 52.381 0.00 0.00 37.18 3.18
156 157 0.035439 AGCCCACTAATGAACCACCG 60.035 55.000 0.00 0.00 0.00 4.94
166 167 1.212751 GAACCACCGCAGCCAATTC 59.787 57.895 0.00 0.00 0.00 2.17
167 168 1.228552 AACCACCGCAGCCAATTCT 60.229 52.632 0.00 0.00 0.00 2.40
168 169 1.526575 AACCACCGCAGCCAATTCTG 61.527 55.000 0.00 0.00 37.15 3.02
179 180 1.879796 GCCAATTCTGGGCGGATCTAG 60.880 57.143 0.00 0.00 43.74 2.43
187 188 1.228737 GGCGGATCTAGCTCTCCCT 60.229 63.158 12.11 0.00 34.52 4.20
213 214 1.304381 TCCTTGCCAGGTCATTGCC 60.304 57.895 3.35 0.00 41.69 4.52
215 216 1.607178 CTTGCCAGGTCATTGCCCA 60.607 57.895 0.00 0.00 0.00 5.36
233 234 0.741221 CAGTTAGCCTTCACGAGCCC 60.741 60.000 0.00 0.00 0.00 5.19
314 316 1.617804 CCATGGGCTTGTCAAGGATGT 60.618 52.381 14.40 0.00 0.00 3.06
372 374 3.941483 TGCGAAGAATTTGGAAGAGGATC 59.059 43.478 0.00 0.00 0.00 3.36
463 465 5.282055 TCTCCTCATTGTCATGGTATCAC 57.718 43.478 0.00 0.00 0.00 3.06
465 467 5.027293 TCCTCATTGTCATGGTATCACTG 57.973 43.478 0.00 0.00 0.00 3.66
541 543 7.648908 TCAAAGTGAACATGCAGACAAAAATAG 59.351 33.333 0.00 0.00 0.00 1.73
590 592 2.091409 GCGAACTAAAATAAGCACGCG 58.909 47.619 3.53 3.53 35.73 6.01
594 596 2.004733 ACTAAAATAAGCACGCGGGAC 58.995 47.619 15.48 2.85 0.00 4.46
600 602 1.240256 TAAGCACGCGGGACAAATTT 58.760 45.000 15.48 0.00 0.00 1.82
615 617 8.240682 CGGGACAAATTTTTATGTCATTACTGA 58.759 33.333 9.57 0.00 46.07 3.41
664 666 6.993786 TTTTGCGAGTACATAATGAATGGA 57.006 33.333 0.00 0.00 40.16 3.41
665 667 7.566760 TTTTGCGAGTACATAATGAATGGAT 57.433 32.000 0.00 0.00 40.16 3.41
666 668 6.544038 TTGCGAGTACATAATGAATGGATG 57.456 37.500 0.00 0.00 40.16 3.51
667 669 5.852827 TGCGAGTACATAATGAATGGATGA 58.147 37.500 0.00 0.00 40.16 2.92
668 670 6.466812 TGCGAGTACATAATGAATGGATGAT 58.533 36.000 0.00 0.00 40.16 2.45
669 671 6.936335 TGCGAGTACATAATGAATGGATGATT 59.064 34.615 0.00 0.00 40.16 2.57
670 672 7.445096 TGCGAGTACATAATGAATGGATGATTT 59.555 33.333 0.00 0.00 40.16 2.17
671 673 8.292448 GCGAGTACATAATGAATGGATGATTTT 58.708 33.333 0.00 0.00 40.16 1.82
717 719 6.723298 TGAATTGGTGGTGTAAAAAGACAT 57.277 33.333 0.00 0.00 0.00 3.06
982 1018 1.212935 CTCAATTCCCTTCCCGGATGT 59.787 52.381 0.73 0.00 33.16 3.06
1173 1212 2.686835 GAGGAGAGGCCCAGCTGT 60.687 66.667 13.81 0.00 37.37 4.40
1174 1213 3.007920 AGGAGAGGCCCAGCTGTG 61.008 66.667 13.81 1.33 37.37 3.66
1176 1215 3.715097 GAGAGGCCCAGCTGTGCT 61.715 66.667 20.76 6.97 40.77 4.40
1205 1244 0.981943 GAGGTTTTCCGGAGAAGGGA 59.018 55.000 7.84 0.00 46.35 4.20
1242 1317 3.709141 AGATTACCAGGAGAAGGAGCTTC 59.291 47.826 0.00 0.00 40.45 3.86
1314 1389 2.672996 AAGCCTGCCATCGCGTTT 60.673 55.556 5.77 0.00 38.08 3.60
1410 1485 0.988145 CACATAAGGGCCAGGGGAGA 60.988 60.000 6.18 0.00 0.00 3.71
1422 1497 2.556114 CCAGGGGAGAATGCTGTTTTCT 60.556 50.000 0.00 0.00 36.16 2.52
1442 1517 3.578716 TCTTTGTTCCGTGAGATCCTCTT 59.421 43.478 0.00 0.00 0.00 2.85
1445 1520 1.066858 GTTCCGTGAGATCCTCTTGCA 60.067 52.381 0.00 0.00 0.00 4.08
1449 1524 0.540923 GTGAGATCCTCTTGCAGGCT 59.459 55.000 0.00 0.00 43.08 4.58
1564 1639 1.676916 CCTTGATCACGACATGCACCT 60.677 52.381 0.00 0.00 0.00 4.00
1982 2057 2.107204 ACATGGTAATGGATGGGCTCTC 59.893 50.000 0.00 0.00 38.19 3.20
2023 2098 2.751806 GAGGTTGAAATGCTCTTGGAGG 59.248 50.000 0.00 0.00 0.00 4.30
2125 2200 7.554118 ACTTACTCAAGGTGTTGGATCATTATG 59.446 37.037 0.00 0.00 35.97 1.90
3351 3426 2.297033 TGAATTGTTGCAGAAAGGGCTC 59.703 45.455 0.00 0.00 0.00 4.70
4088 4169 7.256756 AGCTAATTGCAGTGATCAAAGTATC 57.743 36.000 0.00 0.00 45.94 2.24
4090 4171 7.501559 AGCTAATTGCAGTGATCAAAGTATCAT 59.498 33.333 0.00 0.00 45.94 2.45
4189 4272 6.699575 ACTTCATGCTTGTATGTAAATCCC 57.300 37.500 0.00 0.00 0.00 3.85
4491 4574 1.966451 CCGGAAGTCCTGGTGCAAC 60.966 63.158 0.00 0.00 0.00 4.17
4641 4726 9.912634 ATTTTCACAACAAACTGTAATATCAGG 57.087 29.630 0.00 0.00 39.48 3.86
4642 4727 8.458573 TTTCACAACAAACTGTAATATCAGGT 57.541 30.769 0.00 0.00 39.48 4.00
4643 4728 9.562408 TTTCACAACAAACTGTAATATCAGGTA 57.438 29.630 0.00 0.00 39.48 3.08
4644 4729 8.542497 TCACAACAAACTGTAATATCAGGTAC 57.458 34.615 0.00 0.00 39.48 3.34
4645 4730 8.372459 TCACAACAAACTGTAATATCAGGTACT 58.628 33.333 0.00 0.00 39.48 2.73
4646 4731 8.656849 CACAACAAACTGTAATATCAGGTACTC 58.343 37.037 0.00 0.00 39.48 2.59
4647 4732 7.822822 ACAACAAACTGTAATATCAGGTACTCC 59.177 37.037 0.00 0.00 39.48 3.85
4648 4733 6.885922 ACAAACTGTAATATCAGGTACTCCC 58.114 40.000 0.00 0.00 39.48 4.30
4649 4734 6.126854 ACAAACTGTAATATCAGGTACTCCCC 60.127 42.308 0.00 0.00 39.48 4.81
4650 4735 4.490706 ACTGTAATATCAGGTACTCCCCC 58.509 47.826 0.00 0.00 39.48 5.40
4668 4753 2.228103 CCCCCGTTTCTTTTTAGTCTGC 59.772 50.000 0.00 0.00 0.00 4.26
4669 4754 2.882137 CCCCGTTTCTTTTTAGTCTGCA 59.118 45.455 0.00 0.00 0.00 4.41
4670 4755 3.506067 CCCCGTTTCTTTTTAGTCTGCAT 59.494 43.478 0.00 0.00 0.00 3.96
4671 4756 4.698304 CCCCGTTTCTTTTTAGTCTGCATA 59.302 41.667 0.00 0.00 0.00 3.14
4672 4757 5.357032 CCCCGTTTCTTTTTAGTCTGCATAT 59.643 40.000 0.00 0.00 0.00 1.78
4673 4758 6.540914 CCCCGTTTCTTTTTAGTCTGCATATA 59.459 38.462 0.00 0.00 0.00 0.86
4674 4759 7.066525 CCCCGTTTCTTTTTAGTCTGCATATAA 59.933 37.037 0.00 0.00 0.00 0.98
4675 4760 8.122952 CCCGTTTCTTTTTAGTCTGCATATAAG 58.877 37.037 0.00 0.00 0.00 1.73
4676 4761 8.879759 CCGTTTCTTTTTAGTCTGCATATAAGA 58.120 33.333 0.00 0.00 0.00 2.10
4688 4773 9.236006 AGTCTGCATATAAGATTTGTTCAAAGT 57.764 29.630 4.37 0.00 0.00 2.66
4689 4774 9.495754 GTCTGCATATAAGATTTGTTCAAAGTC 57.504 33.333 4.37 3.06 0.00 3.01
4690 4775 9.230122 TCTGCATATAAGATTTGTTCAAAGTCA 57.770 29.630 4.37 0.00 0.00 3.41
4691 4776 9.844790 CTGCATATAAGATTTGTTCAAAGTCAA 57.155 29.630 4.37 0.00 0.00 3.18
4877 4962 9.076596 GTTTGACTTTGACCAAATCTAATATGC 57.923 33.333 0.00 0.00 35.14 3.14
4878 4963 7.936496 TGACTTTGACCAAATCTAATATGCA 57.064 32.000 0.00 0.00 0.00 3.96
4879 4964 7.988737 TGACTTTGACCAAATCTAATATGCAG 58.011 34.615 0.00 0.00 0.00 4.41
4880 4965 7.828717 TGACTTTGACCAAATCTAATATGCAGA 59.171 33.333 0.00 0.00 0.00 4.26
4881 4966 7.989826 ACTTTGACCAAATCTAATATGCAGAC 58.010 34.615 0.00 0.00 0.00 3.51
4882 4967 7.831193 ACTTTGACCAAATCTAATATGCAGACT 59.169 33.333 0.00 0.00 0.00 3.24
4883 4968 9.330063 CTTTGACCAAATCTAATATGCAGACTA 57.670 33.333 0.00 0.00 0.00 2.59
4884 4969 9.679661 TTTGACCAAATCTAATATGCAGACTAA 57.320 29.630 0.00 0.00 0.00 2.24
4885 4970 9.679661 TTGACCAAATCTAATATGCAGACTAAA 57.320 29.630 0.00 0.00 0.00 1.85
4886 4971 9.679661 TGACCAAATCTAATATGCAGACTAAAA 57.320 29.630 0.00 0.00 0.00 1.52
4894 4979 8.879759 TCTAATATGCAGACTAAAAAGAAACGG 58.120 33.333 0.00 0.00 0.00 4.44
4895 4980 7.681939 AATATGCAGACTAAAAAGAAACGGA 57.318 32.000 0.00 0.00 0.00 4.69
4896 4981 5.613358 ATGCAGACTAAAAAGAAACGGAG 57.387 39.130 0.00 0.00 0.00 4.63
4897 4982 3.813166 TGCAGACTAAAAAGAAACGGAGG 59.187 43.478 0.00 0.00 0.00 4.30
4898 4983 3.188667 GCAGACTAAAAAGAAACGGAGGG 59.811 47.826 0.00 0.00 0.00 4.30
4899 4984 4.638304 CAGACTAAAAAGAAACGGAGGGA 58.362 43.478 0.00 0.00 0.00 4.20
4939 5024 4.082081 CCTGCAATGCAAGGTCAAGAATTA 60.082 41.667 9.92 0.00 38.41 1.40
5205 5424 2.643933 TGTGCAGAAGAGACAGATCG 57.356 50.000 0.00 0.00 0.00 3.69
5332 5721 8.123639 TGCTTATATCCTGGTCTACAGTTATC 57.876 38.462 0.00 0.00 46.06 1.75
5368 6359 6.790285 ATGTTCATTCTTTTTGGTTCATGC 57.210 33.333 0.00 0.00 0.00 4.06
5500 6491 8.717717 TGGATTCTGATATTGGATACTTTGAGT 58.282 33.333 0.00 0.00 37.61 3.41
6450 8446 2.797786 GACCTGTAGTCCAGTGTCTCT 58.202 52.381 0.00 0.00 39.84 3.10
6511 8507 7.987458 AGTGTATCAGTACCTTGTGGATTAATG 59.013 37.037 0.00 0.00 37.04 1.90
6536 8532 6.408858 TTTTGATTTATGTCTCAGCGACTC 57.591 37.500 0.00 0.00 43.25 3.36
6539 8535 0.100682 TTATGTCTCAGCGACTCGGC 59.899 55.000 0.00 0.00 43.25 5.54
6558 8554 1.539929 GCGCTCCACTGCATCTTATCT 60.540 52.381 0.00 0.00 0.00 1.98
6590 8586 7.540055 CACTTGAGATCTTTGGCTTACATTTTC 59.460 37.037 0.00 0.00 0.00 2.29
6597 8594 4.662468 TTGGCTTACATTTTCTTGTGCA 57.338 36.364 0.00 0.00 0.00 4.57
6698 8701 3.859443 ACTTTTCAATGTTGTTGCTGCA 58.141 36.364 0.00 0.00 0.00 4.41
6699 8702 4.252073 ACTTTTCAATGTTGTTGCTGCAA 58.748 34.783 11.69 11.69 0.00 4.08
6794 8805 4.156556 CCTTGTGAAGTCCATGTTATGTGG 59.843 45.833 0.00 0.00 38.11 4.17
6801 8812 3.118482 AGTCCATGTTATGTGGCTCTGAG 60.118 47.826 0.00 0.00 36.66 3.35
6885 9336 3.189910 CCATTGTGGTCACTGATGTTCAG 59.810 47.826 3.03 3.03 40.53 3.02
6958 9409 4.579869 AGCTCGTGTATTGTGGAAGAAAT 58.420 39.130 0.00 0.00 0.00 2.17
6972 9423 5.231357 GTGGAAGAAATTTTCGGTCACAAAC 59.769 40.000 18.03 8.91 32.26 2.93
6986 9437 4.973663 GGTCACAAACGAGGTAAACAAATG 59.026 41.667 0.00 0.00 0.00 2.32
6997 9448 3.129638 GGTAAACAAATGAAGCGCCCATA 59.870 43.478 2.29 0.00 0.00 2.74
7001 9452 3.023119 ACAAATGAAGCGCCCATAATGA 58.977 40.909 21.75 0.00 0.00 2.57
7070 9521 3.064900 AGTGCCCAGAGATTCTTGAAC 57.935 47.619 0.00 0.00 0.00 3.18
7077 9528 5.047802 GCCCAGAGATTCTTGAACAAATTCA 60.048 40.000 0.00 0.00 43.28 2.57
7078 9529 6.618811 CCCAGAGATTCTTGAACAAATTCAG 58.381 40.000 0.00 0.00 45.54 3.02
7131 9582 8.833231 TCTGAGAAATTTGAAGAAGTTACGAT 57.167 30.769 0.00 0.00 0.00 3.73
7136 9587 8.290325 AGAAATTTGAAGAAGTTACGATGAACC 58.710 33.333 0.00 0.00 0.00 3.62
7137 9588 7.504924 AATTTGAAGAAGTTACGATGAACCA 57.495 32.000 0.00 0.00 0.00 3.67
7138 9589 6.928979 TTTGAAGAAGTTACGATGAACCAA 57.071 33.333 0.00 0.00 0.00 3.67
7139 9590 6.928979 TTGAAGAAGTTACGATGAACCAAA 57.071 33.333 0.00 0.00 0.00 3.28
7140 9591 6.928979 TGAAGAAGTTACGATGAACCAAAA 57.071 33.333 0.00 0.00 0.00 2.44
7141 9592 7.323049 TGAAGAAGTTACGATGAACCAAAAA 57.677 32.000 0.00 0.00 0.00 1.94
7373 9845 2.491675 GAGGAAACCTCGGAATTGGT 57.508 50.000 1.97 0.00 41.08 3.67
7374 9846 2.084546 GAGGAAACCTCGGAATTGGTG 58.915 52.381 1.97 0.00 41.08 4.17
7460 9935 2.433318 GGCTGCACACTCGTCCTC 60.433 66.667 0.50 0.00 0.00 3.71
7476 9951 1.068083 CTCCATCATCCGGTCCACG 59.932 63.158 0.00 0.00 43.80 4.94
7536 10012 1.268079 GCTCTTGTTTCACCTTCTGGC 59.732 52.381 0.00 0.00 36.63 4.85
7573 10049 0.674581 CTTGTCCATCTCTTGGCGCA 60.675 55.000 10.83 0.00 46.01 6.09
7574 10050 0.035152 TTGTCCATCTCTTGGCGCAT 60.035 50.000 10.83 0.00 46.01 4.73
7575 10051 0.745486 TGTCCATCTCTTGGCGCATG 60.745 55.000 10.83 2.48 46.01 4.06
7576 10052 0.462581 GTCCATCTCTTGGCGCATGA 60.463 55.000 10.83 2.57 46.01 3.07
7577 10053 0.471191 TCCATCTCTTGGCGCATGAT 59.529 50.000 10.83 1.73 46.01 2.45
7578 10054 0.591659 CCATCTCTTGGCGCATGATG 59.408 55.000 10.83 13.93 39.09 3.07
7579 10055 0.040336 CATCTCTTGGCGCATGATGC 60.040 55.000 10.83 7.49 40.69 3.91
7580 10056 0.464916 ATCTCTTGGCGCATGATGCA 60.465 50.000 18.47 0.00 45.36 3.96
7583 10059 1.033202 TCTTGGCGCATGATGCACAT 61.033 50.000 18.47 0.00 45.36 3.21
7589 10068 1.858798 GCGCATGATGCACATCTTGTC 60.859 52.381 18.47 14.67 45.36 3.18
7593 10072 3.315470 GCATGATGCACATCTTGTCATCT 59.685 43.478 13.36 5.12 44.26 2.90
7596 10075 3.943381 TGATGCACATCTTGTCATCTTCC 59.057 43.478 11.66 0.00 36.63 3.46
7598 10077 1.063174 GCACATCTTGTCATCTTCCGC 59.937 52.381 0.00 0.00 0.00 5.54
7606 10085 0.026803 GTCATCTTCCGCACGATTGC 59.973 55.000 0.00 0.00 46.21 3.56
7642 10121 2.871096 TCCATGGTCCCTACAACAAC 57.129 50.000 12.58 0.00 0.00 3.32
7658 10137 7.879160 CCTACAACAACCCACATAAAAGTACTA 59.121 37.037 0.00 0.00 0.00 1.82
7659 10138 7.739498 ACAACAACCCACATAAAAGTACTAG 57.261 36.000 0.00 0.00 0.00 2.57
7660 10139 7.284820 ACAACAACCCACATAAAAGTACTAGT 58.715 34.615 0.00 0.00 0.00 2.57
7661 10140 8.431222 ACAACAACCCACATAAAAGTACTAGTA 58.569 33.333 0.00 0.00 0.00 1.82
7662 10141 9.275398 CAACAACCCACATAAAAGTACTAGTAA 57.725 33.333 3.61 0.00 0.00 2.24
7667 10146 9.719433 ACCCACATAAAAGTACTAGTAATAGGA 57.281 33.333 3.61 0.00 0.00 2.94
7677 10156 9.884814 AAGTACTAGTAATAGGATCTGGATTGT 57.115 33.333 3.61 0.00 0.00 2.71
7678 10157 9.523168 AGTACTAGTAATAGGATCTGGATTGTC 57.477 37.037 3.61 0.00 0.00 3.18
7679 10158 9.298250 GTACTAGTAATAGGATCTGGATTGTCA 57.702 37.037 3.61 0.00 0.00 3.58
7680 10159 8.783660 ACTAGTAATAGGATCTGGATTGTCAA 57.216 34.615 1.80 0.00 0.00 3.18
7681 10160 9.213777 ACTAGTAATAGGATCTGGATTGTCAAA 57.786 33.333 1.80 0.00 0.00 2.69
7687 10166 6.645790 AGGATCTGGATTGTCAAAATATGC 57.354 37.500 0.00 0.00 0.00 3.14
7688 10167 5.537674 AGGATCTGGATTGTCAAAATATGCC 59.462 40.000 0.00 0.00 0.00 4.40
7689 10168 5.279156 GGATCTGGATTGTCAAAATATGCCC 60.279 44.000 0.00 0.00 0.00 5.36
7690 10169 4.870636 TCTGGATTGTCAAAATATGCCCT 58.129 39.130 0.00 0.00 0.00 5.19
7691 10170 5.271598 TCTGGATTGTCAAAATATGCCCTT 58.728 37.500 0.00 0.00 0.00 3.95
7692 10171 5.721000 TCTGGATTGTCAAAATATGCCCTTT 59.279 36.000 0.00 0.00 0.00 3.11
7693 10172 6.213195 TCTGGATTGTCAAAATATGCCCTTTT 59.787 34.615 0.00 0.00 0.00 2.27
7694 10173 6.405538 TGGATTGTCAAAATATGCCCTTTTC 58.594 36.000 0.00 0.00 0.00 2.29
7695 10174 6.213195 TGGATTGTCAAAATATGCCCTTTTCT 59.787 34.615 0.00 0.00 0.00 2.52
7696 10175 6.536224 GGATTGTCAAAATATGCCCTTTTCTG 59.464 38.462 0.00 0.00 0.00 3.02
7697 10176 4.819769 TGTCAAAATATGCCCTTTTCTGC 58.180 39.130 0.00 0.00 0.00 4.26
7698 10177 4.282957 TGTCAAAATATGCCCTTTTCTGCA 59.717 37.500 0.00 0.00 42.52 4.41
7700 10179 5.876460 GTCAAAATATGCCCTTTTCTGCATT 59.124 36.000 2.00 0.00 45.52 3.56
7701 10180 7.041107 GTCAAAATATGCCCTTTTCTGCATTA 58.959 34.615 2.00 0.00 45.52 1.90
7702 10181 7.712205 GTCAAAATATGCCCTTTTCTGCATTAT 59.288 33.333 2.00 0.00 45.52 1.28
7703 10182 8.922237 TCAAAATATGCCCTTTTCTGCATTATA 58.078 29.630 2.00 0.00 45.52 0.98
7704 10183 9.545105 CAAAATATGCCCTTTTCTGCATTATAA 57.455 29.630 2.00 0.00 45.52 0.98
7707 10186 9.715121 AATATGCCCTTTTCTGCATTATAAATG 57.285 29.630 2.00 0.00 45.52 2.32
7708 10187 6.788598 TGCCCTTTTCTGCATTATAAATGA 57.211 33.333 3.86 0.00 31.31 2.57
7709 10188 7.180322 TGCCCTTTTCTGCATTATAAATGAA 57.820 32.000 3.86 0.00 31.31 2.57
7710 10189 7.619050 TGCCCTTTTCTGCATTATAAATGAAA 58.381 30.769 3.86 0.00 31.31 2.69
7711 10190 8.099537 TGCCCTTTTCTGCATTATAAATGAAAA 58.900 29.630 3.86 6.20 33.97 2.29
7712 10191 8.606602 GCCCTTTTCTGCATTATAAATGAAAAG 58.393 33.333 19.08 19.08 44.41 2.27
7713 10192 9.657419 CCCTTTTCTGCATTATAAATGAAAAGT 57.343 29.630 21.91 0.00 43.84 2.66
7741 10220 8.729805 AATTGTTGCTTTAAGAAAACAATGGA 57.270 26.923 25.51 10.51 46.92 3.41
7742 10221 7.769272 TTGTTGCTTTAAGAAAACAATGGAG 57.231 32.000 16.82 0.00 37.54 3.86
7743 10222 6.872920 TGTTGCTTTAAGAAAACAATGGAGT 58.127 32.000 10.00 0.00 29.96 3.85
7744 10223 6.756074 TGTTGCTTTAAGAAAACAATGGAGTG 59.244 34.615 10.00 0.00 29.96 3.51
7745 10224 5.288804 TGCTTTAAGAAAACAATGGAGTGC 58.711 37.500 0.00 0.00 0.00 4.40
7746 10225 5.068987 TGCTTTAAGAAAACAATGGAGTGCT 59.931 36.000 0.00 0.00 0.00 4.40
7747 10226 5.631096 GCTTTAAGAAAACAATGGAGTGCTC 59.369 40.000 0.00 0.00 0.00 4.26
7748 10227 6.707440 TTTAAGAAAACAATGGAGTGCTCA 57.293 33.333 1.41 0.00 0.00 4.26
7749 10228 6.707440 TTAAGAAAACAATGGAGTGCTCAA 57.293 33.333 1.41 0.00 0.00 3.02
7750 10229 4.843220 AGAAAACAATGGAGTGCTCAAG 57.157 40.909 1.41 0.00 0.00 3.02
7751 10230 4.210331 AGAAAACAATGGAGTGCTCAAGT 58.790 39.130 1.41 0.00 0.00 3.16
7752 10231 3.996150 AAACAATGGAGTGCTCAAGTG 57.004 42.857 2.84 2.84 34.96 3.16
7753 10232 2.645838 ACAATGGAGTGCTCAAGTGT 57.354 45.000 4.07 4.07 37.05 3.55
7754 10233 2.936202 ACAATGGAGTGCTCAAGTGTT 58.064 42.857 4.07 0.00 38.54 3.32
7755 10234 2.620115 ACAATGGAGTGCTCAAGTGTTG 59.380 45.455 4.07 0.00 38.54 3.33
7756 10235 1.901591 ATGGAGTGCTCAAGTGTTGG 58.098 50.000 1.41 0.00 0.00 3.77
7757 10236 0.836606 TGGAGTGCTCAAGTGTTGGA 59.163 50.000 1.41 0.00 0.00 3.53
7758 10237 1.421268 TGGAGTGCTCAAGTGTTGGAT 59.579 47.619 1.41 0.00 0.00 3.41
7759 10238 1.808945 GGAGTGCTCAAGTGTTGGATG 59.191 52.381 1.41 0.00 0.00 3.51
7760 10239 2.550855 GGAGTGCTCAAGTGTTGGATGA 60.551 50.000 1.41 0.00 0.00 2.92
7761 10240 3.341823 GAGTGCTCAAGTGTTGGATGAT 58.658 45.455 0.00 0.00 0.00 2.45
7762 10241 4.507710 GAGTGCTCAAGTGTTGGATGATA 58.492 43.478 0.00 0.00 0.00 2.15
7763 10242 4.910195 AGTGCTCAAGTGTTGGATGATAA 58.090 39.130 0.00 0.00 0.00 1.75
7764 10243 4.697352 AGTGCTCAAGTGTTGGATGATAAC 59.303 41.667 0.00 0.00 0.00 1.89
7765 10244 4.697352 GTGCTCAAGTGTTGGATGATAACT 59.303 41.667 0.00 0.00 0.00 2.24
7766 10245 4.696877 TGCTCAAGTGTTGGATGATAACTG 59.303 41.667 0.00 0.00 0.00 3.16
7767 10246 4.697352 GCTCAAGTGTTGGATGATAACTGT 59.303 41.667 0.00 0.00 0.00 3.55
7768 10247 5.391310 GCTCAAGTGTTGGATGATAACTGTG 60.391 44.000 0.00 0.00 0.00 3.66
7769 10248 5.620206 TCAAGTGTTGGATGATAACTGTGT 58.380 37.500 0.00 0.00 0.00 3.72
7770 10249 5.700832 TCAAGTGTTGGATGATAACTGTGTC 59.299 40.000 0.00 0.00 0.00 3.67
7771 10250 5.227569 AGTGTTGGATGATAACTGTGTCA 57.772 39.130 0.00 0.00 0.00 3.58
7772 10251 5.620206 AGTGTTGGATGATAACTGTGTCAA 58.380 37.500 1.05 0.00 0.00 3.18
7773 10252 5.470098 AGTGTTGGATGATAACTGTGTCAAC 59.530 40.000 0.00 0.00 35.29 3.18
7774 10253 4.450757 TGTTGGATGATAACTGTGTCAACG 59.549 41.667 0.00 0.00 36.87 4.10
7775 10254 4.529109 TGGATGATAACTGTGTCAACGA 57.471 40.909 0.00 0.00 0.00 3.85
7776 10255 4.494484 TGGATGATAACTGTGTCAACGAG 58.506 43.478 0.00 0.00 0.00 4.18
7777 10256 4.021456 TGGATGATAACTGTGTCAACGAGT 60.021 41.667 0.00 0.00 0.00 4.18
7778 10257 5.184287 TGGATGATAACTGTGTCAACGAGTA 59.816 40.000 0.00 0.00 0.00 2.59
7779 10258 5.515626 GGATGATAACTGTGTCAACGAGTAC 59.484 44.000 0.00 0.00 0.00 2.73
7780 10259 5.441709 TGATAACTGTGTCAACGAGTACA 57.558 39.130 0.00 0.00 0.00 2.90
7781 10260 5.217393 TGATAACTGTGTCAACGAGTACAC 58.783 41.667 10.52 10.52 44.97 2.90
7788 10267 3.852536 GTGTCAACGAGTACACATCTAGC 59.147 47.826 11.95 0.00 44.30 3.42
7789 10268 3.504520 TGTCAACGAGTACACATCTAGCA 59.495 43.478 0.00 0.00 0.00 3.49
7790 10269 4.022676 TGTCAACGAGTACACATCTAGCAA 60.023 41.667 0.00 0.00 0.00 3.91
7791 10270 4.921515 GTCAACGAGTACACATCTAGCAAA 59.078 41.667 0.00 0.00 0.00 3.68
7792 10271 4.921515 TCAACGAGTACACATCTAGCAAAC 59.078 41.667 0.00 0.00 0.00 2.93
7793 10272 4.785511 ACGAGTACACATCTAGCAAACT 57.214 40.909 0.00 0.00 0.00 2.66
7794 10273 5.892160 ACGAGTACACATCTAGCAAACTA 57.108 39.130 0.00 0.00 0.00 2.24
7795 10274 6.263516 ACGAGTACACATCTAGCAAACTAA 57.736 37.500 0.00 0.00 0.00 2.24
7796 10275 6.864342 ACGAGTACACATCTAGCAAACTAAT 58.136 36.000 0.00 0.00 0.00 1.73
7797 10276 7.993101 ACGAGTACACATCTAGCAAACTAATA 58.007 34.615 0.00 0.00 0.00 0.98
7798 10277 8.129840 ACGAGTACACATCTAGCAAACTAATAG 58.870 37.037 0.00 0.00 0.00 1.73
7799 10278 8.129840 CGAGTACACATCTAGCAAACTAATAGT 58.870 37.037 0.00 0.00 0.00 2.12
7800 10279 9.453325 GAGTACACATCTAGCAAACTAATAGTC 57.547 37.037 0.00 0.00 0.00 2.59
7801 10280 8.967918 AGTACACATCTAGCAAACTAATAGTCA 58.032 33.333 0.00 0.00 0.00 3.41
7802 10281 9.582431 GTACACATCTAGCAAACTAATAGTCAA 57.418 33.333 0.00 0.00 0.00 3.18
7803 10282 8.480643 ACACATCTAGCAAACTAATAGTCAAC 57.519 34.615 0.00 0.00 0.00 3.18
7804 10283 7.275779 ACACATCTAGCAAACTAATAGTCAACG 59.724 37.037 0.00 0.00 0.00 4.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 0.881118 TTCCTTCTTGTTGGCATCGC 59.119 50.000 0.00 0.00 0.00 4.58
39 40 1.647346 TGACGACGCTTTTGAGTGTT 58.353 45.000 0.00 0.00 31.07 3.32
55 56 2.783333 GTTACCAGAGACGACGATGAC 58.217 52.381 0.00 0.00 0.00 3.06
75 76 1.191647 CGAAAGTTTTGTCTCCGGTCG 59.808 52.381 0.00 0.00 0.00 4.79
81 82 5.048991 TGGATTTAGGCGAAAGTTTTGTCTC 60.049 40.000 13.32 0.00 0.00 3.36
88 89 3.434940 AGGTGGATTTAGGCGAAAGTT 57.565 42.857 0.00 0.00 0.00 2.66
151 152 2.703798 CCAGAATTGGCTGCGGTGG 61.704 63.158 0.00 0.00 37.73 4.61
166 167 1.531739 GGAGAGCTAGATCCGCCCAG 61.532 65.000 3.92 0.00 0.00 4.45
167 168 1.531840 GGAGAGCTAGATCCGCCCA 60.532 63.158 3.92 0.00 0.00 5.36
168 169 2.279810 GGGAGAGCTAGATCCGCCC 61.280 68.421 17.72 17.72 36.38 6.13
179 180 2.153034 AGGAGTTAGTGAGGGAGAGC 57.847 55.000 0.00 0.00 0.00 4.09
213 214 0.741221 GGCTCGTGAAGGCTAACTGG 60.741 60.000 0.00 0.00 46.82 4.00
334 336 0.941463 CGCACAAGCAGACTCGTCTT 60.941 55.000 0.00 0.00 42.27 3.01
372 374 3.313526 GGACAAATTCATCTCACCCGATG 59.686 47.826 0.00 0.00 41.64 3.84
414 416 4.625607 ATTTATCCCCACGAGAAGGATC 57.374 45.455 7.47 0.00 40.83 3.36
426 428 7.780271 ACAATGAGGAGAAGTTAATTTATCCCC 59.220 37.037 17.83 9.33 30.77 4.81
463 465 0.897863 TGAATTTTCGCCACCCCCAG 60.898 55.000 0.00 0.00 0.00 4.45
465 467 0.901827 AATGAATTTTCGCCACCCCC 59.098 50.000 0.00 0.00 0.00 5.40
644 646 5.852827 TCATCCATTCATTATGTACTCGCA 58.147 37.500 0.00 0.00 31.99 5.10
676 678 9.204337 ACCAATTCATCCATTCATTAATCTCAA 57.796 29.630 0.00 0.00 0.00 3.02
677 679 8.635328 CACCAATTCATCCATTCATTAATCTCA 58.365 33.333 0.00 0.00 0.00 3.27
678 680 8.086522 CCACCAATTCATCCATTCATTAATCTC 58.913 37.037 0.00 0.00 0.00 2.75
679 681 7.566138 ACCACCAATTCATCCATTCATTAATCT 59.434 33.333 0.00 0.00 0.00 2.40
680 682 7.654520 CACCACCAATTCATCCATTCATTAATC 59.345 37.037 0.00 0.00 0.00 1.75
681 683 7.126115 ACACCACCAATTCATCCATTCATTAAT 59.874 33.333 0.00 0.00 0.00 1.40
682 684 6.440010 ACACCACCAATTCATCCATTCATTAA 59.560 34.615 0.00 0.00 0.00 1.40
683 685 5.957168 ACACCACCAATTCATCCATTCATTA 59.043 36.000 0.00 0.00 0.00 1.90
686 688 3.777087 ACACCACCAATTCATCCATTCA 58.223 40.909 0.00 0.00 0.00 2.57
717 719 2.456577 GGCTTTGGGGAGATTTTAGCA 58.543 47.619 0.00 0.00 0.00 3.49
902 924 4.500116 GACTCGGCGGCCAGAGAC 62.500 72.222 32.45 26.13 37.87 3.36
903 925 4.742649 AGACTCGGCGGCCAGAGA 62.743 66.667 32.45 17.86 37.87 3.10
904 926 4.200283 GAGACTCGGCGGCCAGAG 62.200 72.222 27.53 27.53 40.16 3.35
1314 1389 0.320374 CGGTGTCCTTGAAGTAGGCA 59.680 55.000 0.00 0.00 35.15 4.75
1410 1485 4.111916 CACGGAACAAAGAAAACAGCATT 58.888 39.130 0.00 0.00 0.00 3.56
1982 2057 2.089980 CCTGCAGTCTCATTTCCTTGG 58.910 52.381 13.81 0.00 0.00 3.61
2023 2098 2.062519 GAAGCCTTGTCTCGTCTTGTC 58.937 52.381 0.00 0.00 0.00 3.18
3351 3426 7.330454 GCTGTGTATACATATTGATCAGGAGTG 59.670 40.741 9.18 0.00 35.97 3.51
3596 3673 1.683917 TCTTAGATCCAGGCTTCGAGC 59.316 52.381 0.00 0.00 41.46 5.03
3923 4000 3.000727 ACAAGCCGCTTCATACACTTAC 58.999 45.455 1.56 0.00 0.00 2.34
4090 4171 8.413229 GCCTTAAACATCTGGATTTATAAGCAA 58.587 33.333 0.00 0.00 0.00 3.91
4189 4272 8.983724 GTATAAGTCAAATTAGCTTAGAGGCAG 58.016 37.037 0.00 0.00 34.17 4.85
4647 4732 2.228103 GCAGACTAAAAAGAAACGGGGG 59.772 50.000 0.00 0.00 0.00 5.40
4648 4733 2.882137 TGCAGACTAAAAAGAAACGGGG 59.118 45.455 0.00 0.00 0.00 5.73
4649 4734 4.766404 ATGCAGACTAAAAAGAAACGGG 57.234 40.909 0.00 0.00 0.00 5.28
4650 4735 8.879759 TCTTATATGCAGACTAAAAAGAAACGG 58.120 33.333 0.00 0.00 0.00 4.44
4662 4747 9.236006 ACTTTGAACAAATCTTATATGCAGACT 57.764 29.630 0.00 0.00 0.00 3.24
4663 4748 9.495754 GACTTTGAACAAATCTTATATGCAGAC 57.504 33.333 0.00 0.00 0.00 3.51
4664 4749 9.230122 TGACTTTGAACAAATCTTATATGCAGA 57.770 29.630 0.00 0.00 0.00 4.26
4665 4750 9.844790 TTGACTTTGAACAAATCTTATATGCAG 57.155 29.630 0.00 0.00 0.00 4.41
4836 4921 7.637709 AAAGTCAAACTTTGTCAACTTTGAC 57.362 32.000 24.90 24.90 45.83 3.18
4851 4936 9.076596 GCATATTAGATTTGGTCAAAGTCAAAC 57.923 33.333 2.55 0.00 35.97 2.93
4852 4937 8.801299 TGCATATTAGATTTGGTCAAAGTCAAA 58.199 29.630 2.55 0.00 37.29 2.69
4853 4938 8.347004 TGCATATTAGATTTGGTCAAAGTCAA 57.653 30.769 2.55 0.00 33.32 3.18
4854 4939 7.828717 TCTGCATATTAGATTTGGTCAAAGTCA 59.171 33.333 2.55 0.00 33.32 3.41
4855 4940 8.125448 GTCTGCATATTAGATTTGGTCAAAGTC 58.875 37.037 2.55 1.51 33.32 3.01
4856 4941 7.831193 AGTCTGCATATTAGATTTGGTCAAAGT 59.169 33.333 2.55 0.00 33.32 2.66
4857 4942 8.218338 AGTCTGCATATTAGATTTGGTCAAAG 57.782 34.615 2.55 0.00 33.32 2.77
4858 4943 9.679661 TTAGTCTGCATATTAGATTTGGTCAAA 57.320 29.630 0.00 0.00 34.46 2.69
4859 4944 9.679661 TTTAGTCTGCATATTAGATTTGGTCAA 57.320 29.630 0.00 0.00 0.00 3.18
4860 4945 9.679661 TTTTAGTCTGCATATTAGATTTGGTCA 57.320 29.630 0.00 0.00 0.00 4.02
4868 4953 8.879759 CCGTTTCTTTTTAGTCTGCATATTAGA 58.120 33.333 0.00 0.00 0.00 2.10
4869 4954 8.879759 TCCGTTTCTTTTTAGTCTGCATATTAG 58.120 33.333 0.00 0.00 0.00 1.73
4870 4955 8.780846 TCCGTTTCTTTTTAGTCTGCATATTA 57.219 30.769 0.00 0.00 0.00 0.98
4871 4956 7.148239 CCTCCGTTTCTTTTTAGTCTGCATATT 60.148 37.037 0.00 0.00 0.00 1.28
4872 4957 6.316390 CCTCCGTTTCTTTTTAGTCTGCATAT 59.684 38.462 0.00 0.00 0.00 1.78
4873 4958 5.642063 CCTCCGTTTCTTTTTAGTCTGCATA 59.358 40.000 0.00 0.00 0.00 3.14
4874 4959 4.455877 CCTCCGTTTCTTTTTAGTCTGCAT 59.544 41.667 0.00 0.00 0.00 3.96
4875 4960 3.813166 CCTCCGTTTCTTTTTAGTCTGCA 59.187 43.478 0.00 0.00 0.00 4.41
4876 4961 3.188667 CCCTCCGTTTCTTTTTAGTCTGC 59.811 47.826 0.00 0.00 0.00 4.26
4877 4962 4.638304 TCCCTCCGTTTCTTTTTAGTCTG 58.362 43.478 0.00 0.00 0.00 3.51
4878 4963 4.347292 ACTCCCTCCGTTTCTTTTTAGTCT 59.653 41.667 0.00 0.00 0.00 3.24
4879 4964 4.639334 ACTCCCTCCGTTTCTTTTTAGTC 58.361 43.478 0.00 0.00 0.00 2.59
4880 4965 4.701651 ACTCCCTCCGTTTCTTTTTAGT 57.298 40.909 0.00 0.00 0.00 2.24
4881 4966 5.544650 TGTACTCCCTCCGTTTCTTTTTAG 58.455 41.667 0.00 0.00 0.00 1.85
4882 4967 5.549742 TGTACTCCCTCCGTTTCTTTTTA 57.450 39.130 0.00 0.00 0.00 1.52
4883 4968 4.426736 TGTACTCCCTCCGTTTCTTTTT 57.573 40.909 0.00 0.00 0.00 1.94
4884 4969 4.141551 ACTTGTACTCCCTCCGTTTCTTTT 60.142 41.667 0.00 0.00 0.00 2.27
4885 4970 3.390311 ACTTGTACTCCCTCCGTTTCTTT 59.610 43.478 0.00 0.00 0.00 2.52
4886 4971 2.970640 ACTTGTACTCCCTCCGTTTCTT 59.029 45.455 0.00 0.00 0.00 2.52
4887 4972 2.606378 ACTTGTACTCCCTCCGTTTCT 58.394 47.619 0.00 0.00 0.00 2.52
4888 4973 4.525912 TTACTTGTACTCCCTCCGTTTC 57.474 45.455 0.00 0.00 0.00 2.78
4889 4974 4.961438 TTTACTTGTACTCCCTCCGTTT 57.039 40.909 0.00 0.00 0.00 3.60
4890 4975 4.346127 ACTTTTACTTGTACTCCCTCCGTT 59.654 41.667 0.00 0.00 0.00 4.44
4891 4976 3.899980 ACTTTTACTTGTACTCCCTCCGT 59.100 43.478 0.00 0.00 0.00 4.69
4892 4977 4.532314 ACTTTTACTTGTACTCCCTCCG 57.468 45.455 0.00 0.00 0.00 4.63
4893 4978 6.169094 GGTAACTTTTACTTGTACTCCCTCC 58.831 44.000 0.00 0.00 0.00 4.30
5205 5424 3.088532 TGAACTTGGCCACATTATGACC 58.911 45.455 3.88 0.00 0.00 4.02
5368 6359 6.977502 ACAGAATCAGAATATTCGACTCACTG 59.022 38.462 19.37 19.37 40.19 3.66
5858 6881 4.032960 ACTGATGTTGGATAAGGCAACA 57.967 40.909 0.00 0.00 42.07 3.33
6337 7520 3.496884 CGCCAACAAGCAAAGTAAGACTA 59.503 43.478 0.00 0.00 0.00 2.59
6338 7521 2.290641 CGCCAACAAGCAAAGTAAGACT 59.709 45.455 0.00 0.00 0.00 3.24
6450 8446 7.759489 AGCATAGTAACAGAAACAATTCCAA 57.241 32.000 0.00 0.00 36.12 3.53
6536 8532 2.906182 TAAGATGCAGTGGAGCGCCG 62.906 60.000 2.29 0.00 37.31 6.46
6539 8535 2.133553 CAGATAAGATGCAGTGGAGCG 58.866 52.381 0.00 0.00 37.31 5.03
6558 8554 3.691118 GCCAAAGATCTCAAGTGCATACA 59.309 43.478 0.00 0.00 0.00 2.29
6590 8586 7.164826 GCAAAGTATATCGAAAAGATGCACAAG 59.835 37.037 0.00 0.00 40.40 3.16
6641 8641 5.343249 CAAGGCAAACACTAGAATATTGGC 58.657 41.667 15.45 15.45 44.19 4.52
6779 8790 2.840038 TCAGAGCCACATAACATGGACT 59.160 45.455 0.00 0.00 39.87 3.85
6807 8818 1.293963 CTATGCATCATGGGTCGGCG 61.294 60.000 0.19 0.00 0.00 6.46
6859 8871 0.182299 TCAGTGACCACAATGGCACA 59.818 50.000 18.34 7.79 42.67 4.57
6860 8872 1.200716 CATCAGTGACCACAATGGCAC 59.799 52.381 0.00 11.94 42.67 5.01
6885 9336 1.661112 GCCTCACACGAGTATTCAAGC 59.339 52.381 0.00 0.00 37.59 4.01
6917 9368 0.394216 TCCATCATGGCCCTTTGTCG 60.394 55.000 0.00 0.00 37.47 4.35
6958 9409 2.027003 ACCTCGTTTGTGACCGAAAA 57.973 45.000 0.00 0.00 31.92 2.29
6972 9423 2.505866 GCGCTTCATTTGTTTACCTCG 58.494 47.619 0.00 0.00 0.00 4.63
6986 9437 2.543777 TAGGTCATTATGGGCGCTTC 57.456 50.000 7.64 0.02 0.00 3.86
6997 9448 5.066593 GCATTTAGCTAGCCTTAGGTCATT 58.933 41.667 12.13 0.00 38.51 2.57
7158 9609 4.540359 TGCTCCTGAATTTGGATTTTGG 57.460 40.909 2.25 0.00 32.56 3.28
7244 9698 8.014263 TCCCAGATTGAATATAAGGGTAGTGTA 58.986 37.037 0.00 0.00 36.24 2.90
7295 9764 8.454570 AAATGGTTCTGAATTTGAATTTTGCT 57.545 26.923 0.00 0.00 0.00 3.91
7442 9917 3.226429 GAGGACGAGTGTGCAGCCA 62.226 63.158 0.00 0.00 39.20 4.75
7476 9951 0.884704 TGAAGGAAGAGCGTGCAACC 60.885 55.000 0.00 0.00 0.00 3.77
7536 10012 1.144936 GAAGGTGGAGCGAGATGGG 59.855 63.158 0.00 0.00 0.00 4.00
7573 10049 4.579340 GGAAGATGACAAGATGTGCATCAT 59.421 41.667 13.79 0.00 40.22 2.45
7574 10050 3.943381 GGAAGATGACAAGATGTGCATCA 59.057 43.478 13.79 0.00 40.22 3.07
7575 10051 3.002042 CGGAAGATGACAAGATGTGCATC 59.998 47.826 4.12 4.12 36.29 3.91
7576 10052 2.941064 CGGAAGATGACAAGATGTGCAT 59.059 45.455 0.00 0.00 0.00 3.96
7577 10053 2.349590 CGGAAGATGACAAGATGTGCA 58.650 47.619 0.00 0.00 0.00 4.57
7578 10054 1.063174 GCGGAAGATGACAAGATGTGC 59.937 52.381 0.00 0.00 0.00 4.57
7579 10055 2.094894 GTGCGGAAGATGACAAGATGTG 59.905 50.000 0.00 0.00 0.00 3.21
7580 10056 2.350522 GTGCGGAAGATGACAAGATGT 58.649 47.619 0.00 0.00 0.00 3.06
7583 10059 0.601057 TCGTGCGGAAGATGACAAGA 59.399 50.000 0.00 0.00 0.00 3.02
7589 10068 4.983090 GCAATCGTGCGGAAGATG 57.017 55.556 6.07 2.52 41.93 2.90
7606 10085 3.614159 TGGATTCGAAGGTATACGACG 57.386 47.619 3.35 0.00 38.24 5.12
7611 10090 3.581332 GGGACCATGGATTCGAAGGTATA 59.419 47.826 21.47 0.00 31.57 1.47
7612 10091 2.372172 GGGACCATGGATTCGAAGGTAT 59.628 50.000 21.47 0.00 31.57 2.73
7613 10092 1.766496 GGGACCATGGATTCGAAGGTA 59.234 52.381 21.47 0.00 31.57 3.08
7661 10140 8.800332 GCATATTTTGACAATCCAGATCCTATT 58.200 33.333 0.00 0.00 0.00 1.73
7662 10141 7.395489 GGCATATTTTGACAATCCAGATCCTAT 59.605 37.037 0.00 0.00 31.51 2.57
7663 10142 6.716628 GGCATATTTTGACAATCCAGATCCTA 59.283 38.462 0.00 0.00 31.51 2.94
7664 10143 5.537674 GGCATATTTTGACAATCCAGATCCT 59.462 40.000 0.00 0.00 31.51 3.24
7665 10144 5.279156 GGGCATATTTTGACAATCCAGATCC 60.279 44.000 0.00 0.00 33.62 3.36
7666 10145 5.537674 AGGGCATATTTTGACAATCCAGATC 59.462 40.000 0.00 0.00 33.62 2.75
7667 10146 5.461327 AGGGCATATTTTGACAATCCAGAT 58.539 37.500 0.00 0.00 33.62 2.90
7668 10147 4.870636 AGGGCATATTTTGACAATCCAGA 58.129 39.130 0.00 0.00 33.62 3.86
7669 10148 5.603170 AAGGGCATATTTTGACAATCCAG 57.397 39.130 0.00 0.00 33.62 3.86
7670 10149 6.213195 AGAAAAGGGCATATTTTGACAATCCA 59.787 34.615 0.00 0.00 33.62 3.41
7671 10150 6.536224 CAGAAAAGGGCATATTTTGACAATCC 59.464 38.462 0.00 0.00 33.62 3.01
7672 10151 6.036408 GCAGAAAAGGGCATATTTTGACAATC 59.964 38.462 0.00 0.00 33.62 2.67
7673 10152 5.876460 GCAGAAAAGGGCATATTTTGACAAT 59.124 36.000 0.00 0.00 33.62 2.71
7674 10153 5.221601 TGCAGAAAAGGGCATATTTTGACAA 60.222 36.000 0.00 0.00 33.62 3.18
7675 10154 4.282957 TGCAGAAAAGGGCATATTTTGACA 59.717 37.500 0.00 0.00 33.62 3.58
7676 10155 4.819769 TGCAGAAAAGGGCATATTTTGAC 58.180 39.130 0.00 0.00 34.58 3.18
7685 10164 6.788598 TCATTTATAATGCAGAAAAGGGCA 57.211 33.333 0.00 0.00 45.23 5.36
7686 10165 8.491331 TTTTCATTTATAATGCAGAAAAGGGC 57.509 30.769 0.00 0.00 32.92 5.19
7715 10194 9.171877 TCCATTGTTTTCTTAAAGCAACAATTT 57.828 25.926 12.86 0.00 43.93 1.82
7716 10195 8.729805 TCCATTGTTTTCTTAAAGCAACAATT 57.270 26.923 12.86 0.00 43.93 2.32
7717 10196 7.986889 ACTCCATTGTTTTCTTAAAGCAACAAT 59.013 29.630 9.08 9.08 46.13 2.71
7718 10197 7.277539 CACTCCATTGTTTTCTTAAAGCAACAA 59.722 33.333 7.44 7.44 42.89 2.83
7719 10198 6.756074 CACTCCATTGTTTTCTTAAAGCAACA 59.244 34.615 4.17 0.00 42.89 3.33
7720 10199 6.292328 GCACTCCATTGTTTTCTTAAAGCAAC 60.292 38.462 4.17 0.00 42.89 4.17
7721 10200 5.752955 GCACTCCATTGTTTTCTTAAAGCAA 59.247 36.000 4.50 4.50 43.93 3.91
7722 10201 5.068987 AGCACTCCATTGTTTTCTTAAAGCA 59.931 36.000 0.00 0.00 0.00 3.91
7723 10202 5.532557 AGCACTCCATTGTTTTCTTAAAGC 58.467 37.500 0.00 0.00 0.00 3.51
7724 10203 6.738114 TGAGCACTCCATTGTTTTCTTAAAG 58.262 36.000 0.00 0.00 0.00 1.85
7725 10204 6.707440 TGAGCACTCCATTGTTTTCTTAAA 57.293 33.333 0.00 0.00 0.00 1.52
7726 10205 6.321181 ACTTGAGCACTCCATTGTTTTCTTAA 59.679 34.615 0.00 0.00 0.00 1.85
7727 10206 5.827797 ACTTGAGCACTCCATTGTTTTCTTA 59.172 36.000 0.00 0.00 0.00 2.10
7728 10207 4.646492 ACTTGAGCACTCCATTGTTTTCTT 59.354 37.500 0.00 0.00 0.00 2.52
7729 10208 4.037208 CACTTGAGCACTCCATTGTTTTCT 59.963 41.667 0.00 0.00 0.00 2.52
7730 10209 4.202050 ACACTTGAGCACTCCATTGTTTTC 60.202 41.667 0.00 0.00 0.00 2.29
7731 10210 3.701040 ACACTTGAGCACTCCATTGTTTT 59.299 39.130 0.00 0.00 0.00 2.43
7732 10211 3.290710 ACACTTGAGCACTCCATTGTTT 58.709 40.909 0.00 0.00 0.00 2.83
7733 10212 2.936202 ACACTTGAGCACTCCATTGTT 58.064 42.857 0.00 0.00 0.00 2.83
7734 10213 2.620115 CAACACTTGAGCACTCCATTGT 59.380 45.455 0.00 0.00 0.00 2.71
7735 10214 2.030540 CCAACACTTGAGCACTCCATTG 60.031 50.000 0.00 0.00 0.00 2.82
7736 10215 2.158623 TCCAACACTTGAGCACTCCATT 60.159 45.455 0.00 0.00 0.00 3.16
7737 10216 1.421268 TCCAACACTTGAGCACTCCAT 59.579 47.619 0.00 0.00 0.00 3.41
7738 10217 0.836606 TCCAACACTTGAGCACTCCA 59.163 50.000 0.00 0.00 0.00 3.86
7739 10218 1.808945 CATCCAACACTTGAGCACTCC 59.191 52.381 0.00 0.00 0.00 3.85
7740 10219 2.771089 TCATCCAACACTTGAGCACTC 58.229 47.619 0.00 0.00 0.00 3.51
7741 10220 2.936919 TCATCCAACACTTGAGCACT 57.063 45.000 0.00 0.00 0.00 4.40
7742 10221 4.697352 AGTTATCATCCAACACTTGAGCAC 59.303 41.667 0.00 0.00 0.00 4.40
7743 10222 4.696877 CAGTTATCATCCAACACTTGAGCA 59.303 41.667 0.00 0.00 0.00 4.26
7744 10223 4.697352 ACAGTTATCATCCAACACTTGAGC 59.303 41.667 0.00 0.00 0.00 4.26
7745 10224 5.702670 ACACAGTTATCATCCAACACTTGAG 59.297 40.000 0.00 0.00 0.00 3.02
7746 10225 5.620206 ACACAGTTATCATCCAACACTTGA 58.380 37.500 0.00 0.00 0.00 3.02
7747 10226 5.469760 TGACACAGTTATCATCCAACACTTG 59.530 40.000 0.00 0.00 0.00 3.16
7748 10227 5.620206 TGACACAGTTATCATCCAACACTT 58.380 37.500 0.00 0.00 0.00 3.16
7749 10228 5.227569 TGACACAGTTATCATCCAACACT 57.772 39.130 0.00 0.00 0.00 3.55
7750 10229 5.614668 CGTTGACACAGTTATCATCCAACAC 60.615 44.000 0.00 0.00 34.14 3.32
7751 10230 4.450757 CGTTGACACAGTTATCATCCAACA 59.549 41.667 0.00 0.00 34.14 3.33
7752 10231 4.688879 TCGTTGACACAGTTATCATCCAAC 59.311 41.667 0.00 0.00 0.00 3.77
7753 10232 4.888917 TCGTTGACACAGTTATCATCCAA 58.111 39.130 0.00 0.00 0.00 3.53
7754 10233 4.021456 ACTCGTTGACACAGTTATCATCCA 60.021 41.667 0.00 0.00 0.00 3.41
7755 10234 4.495422 ACTCGTTGACACAGTTATCATCC 58.505 43.478 0.00 0.00 0.00 3.51
7756 10235 6.033619 GTGTACTCGTTGACACAGTTATCATC 59.966 42.308 10.25 0.00 44.38 2.92
7757 10236 5.862323 GTGTACTCGTTGACACAGTTATCAT 59.138 40.000 10.25 0.00 44.38 2.45
7758 10237 5.217393 GTGTACTCGTTGACACAGTTATCA 58.783 41.667 10.25 0.00 44.38 2.15
7759 10238 5.742442 GTGTACTCGTTGACACAGTTATC 57.258 43.478 10.25 0.00 44.38 1.75
7766 10245 3.852536 GCTAGATGTGTACTCGTTGACAC 59.147 47.826 0.00 8.78 45.06 3.67
7767 10246 3.504520 TGCTAGATGTGTACTCGTTGACA 59.495 43.478 0.00 0.00 0.00 3.58
7768 10247 4.092771 TGCTAGATGTGTACTCGTTGAC 57.907 45.455 0.00 0.00 0.00 3.18
7769 10248 4.776795 TTGCTAGATGTGTACTCGTTGA 57.223 40.909 0.00 0.00 0.00 3.18
7770 10249 4.923871 AGTTTGCTAGATGTGTACTCGTTG 59.076 41.667 0.00 0.00 0.00 4.10
7771 10250 5.135508 AGTTTGCTAGATGTGTACTCGTT 57.864 39.130 0.00 0.00 0.00 3.85
7772 10251 4.785511 AGTTTGCTAGATGTGTACTCGT 57.214 40.909 0.00 0.00 0.00 4.18
7773 10252 8.129840 ACTATTAGTTTGCTAGATGTGTACTCG 58.870 37.037 0.00 0.00 0.00 4.18
7774 10253 9.453325 GACTATTAGTTTGCTAGATGTGTACTC 57.547 37.037 0.00 0.00 0.00 2.59
7775 10254 8.967918 TGACTATTAGTTTGCTAGATGTGTACT 58.032 33.333 0.00 0.00 0.00 2.73
7776 10255 9.582431 TTGACTATTAGTTTGCTAGATGTGTAC 57.418 33.333 0.00 0.00 0.00 2.90
7777 10256 9.582431 GTTGACTATTAGTTTGCTAGATGTGTA 57.418 33.333 0.00 0.00 0.00 2.90
7778 10257 7.275779 CGTTGACTATTAGTTTGCTAGATGTGT 59.724 37.037 0.00 0.00 0.00 3.72
7779 10258 7.613146 CGTTGACTATTAGTTTGCTAGATGTG 58.387 38.462 0.00 0.00 0.00 3.21
7780 10259 7.757097 CGTTGACTATTAGTTTGCTAGATGT 57.243 36.000 0.00 0.00 0.00 3.06


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

AutoCloner maintained by Alex Coulton.