Multiple sequence alignment - TraesCS7A01G517800

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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 TraesCS7A01G517800 chr7A 100.000 4817 0 0 1 4817 701668671 701663855 0.000000e+00 8896.0
1 TraesCS7A01G517800 chr7A 88.029 685 61 9 922 1605 162747452 162746788 0.000000e+00 791.0
2 TraesCS7A01G517800 chr7A 87.883 685 62 11 922 1605 3165176 3165840 0.000000e+00 785.0
3 TraesCS7A01G517800 chr7A 87.464 686 60 14 922 1605 14648146 14647485 0.000000e+00 767.0
4 TraesCS7A01G517800 chr7A 85.592 583 54 18 922 1501 58680475 58681030 6.950000e-163 584.0
5 TraesCS7A01G517800 chr7A 90.123 162 16 0 1542 1703 58682578 58682739 1.360000e-50 211.0
6 TraesCS7A01G517800 chr7D 95.358 1508 42 10 2018 3514 611742443 611740953 0.000000e+00 2372.0
7 TraesCS7A01G517800 chr7D 89.782 1282 88 22 753 2021 611743856 611742605 0.000000e+00 1602.0
8 TraesCS7A01G517800 chr7D 90.599 968 47 16 3618 4551 611740954 611739997 0.000000e+00 1243.0
9 TraesCS7A01G517800 chr7D 94.631 298 14 2 4521 4817 611739980 611739684 1.220000e-125 460.0
10 TraesCS7A01G517800 chr7D 81.465 437 45 12 1304 1740 129955206 129954806 4.650000e-85 326.0
11 TraesCS7A01G517800 chr7D 96.000 50 2 0 2018 2067 611742527 611742478 1.110000e-11 82.4
12 TraesCS7A01G517800 chr7B 92.091 1631 102 16 753 2369 701206503 701204886 0.000000e+00 2272.0
13 TraesCS7A01G517800 chr7B 96.143 1115 23 5 2405 3514 701204884 701203785 0.000000e+00 1803.0
14 TraesCS7A01G517800 chr7B 90.688 945 50 19 3618 4535 701203786 701202853 0.000000e+00 1223.0
15 TraesCS7A01G517800 chr7B 83.106 734 116 8 1 730 61050942 61051671 0.000000e+00 662.0
16 TraesCS7A01G517800 chr7B 90.196 306 21 4 4521 4817 701202820 701202515 1.630000e-104 390.0
17 TraesCS7A01G517800 chr2B 92.553 752 56 0 3 754 740556471 740555720 0.000000e+00 1079.0
18 TraesCS7A01G517800 chr6D 91.910 754 61 0 1 754 88690849 88691602 0.000000e+00 1055.0
19 TraesCS7A01G517800 chr1D 85.828 755 98 7 1 753 18417763 18418510 0.000000e+00 793.0
20 TraesCS7A01G517800 chr2A 87.755 686 61 12 922 1605 776739251 776738587 0.000000e+00 780.0
21 TraesCS7A01G517800 chr2A 86.938 689 61 19 922 1605 272399632 272398968 0.000000e+00 747.0
22 TraesCS7A01G517800 chr2A 87.113 582 47 11 922 1501 549132189 549131634 6.800000e-178 634.0
23 TraesCS7A01G517800 chr2A 89.506 162 17 0 1542 1703 549130087 549129926 6.320000e-49 206.0
24 TraesCS7A01G517800 chr2A 95.614 114 5 0 3510 3623 662230319 662230432 2.960000e-42 183.0
25 TraesCS7A01G517800 chr2A 89.552 134 10 3 3513 3646 35967828 35967957 2.980000e-37 167.0
26 TraesCS7A01G517800 chr6A 87.318 686 64 14 922 1605 138551325 138550661 0.000000e+00 763.0
27 TraesCS7A01G517800 chrUn 84.016 732 113 4 7 736 34701830 34702559 0.000000e+00 701.0
28 TraesCS7A01G517800 chr6B 83.425 724 114 6 10 730 91043669 91042949 0.000000e+00 667.0
29 TraesCS7A01G517800 chr6B 82.597 724 120 6 10 730 114958506 114957786 6.800000e-178 634.0
30 TraesCS7A01G517800 chr3A 83.060 732 114 7 10 736 510632438 510631712 0.000000e+00 656.0
31 TraesCS7A01G517800 chr3A 86.278 583 50 19 922 1501 114914863 114914308 1.480000e-169 606.0
32 TraesCS7A01G517800 chr3A 90.123 162 16 0 1542 1703 114912759 114912598 1.360000e-50 211.0
33 TraesCS7A01G517800 chr2D 82.897 725 121 3 1 724 30762790 30763512 0.000000e+00 649.0
34 TraesCS7A01G517800 chr2D 81.465 437 42 12 1304 1740 646016143 646015746 6.010000e-84 322.0
35 TraesCS7A01G517800 chr2D 93.277 119 8 0 3506 3624 87030970 87031088 4.950000e-40 176.0
36 TraesCS7A01G517800 chr2D 89.552 134 12 2 3513 3645 382457278 382457146 8.290000e-38 169.0
37 TraesCS7A01G517800 chr1A 85.935 583 52 19 922 1501 439587763 439588318 3.210000e-166 595.0
38 TraesCS7A01G517800 chr1A 85.223 582 58 12 922 1501 264360718 264360163 1.500000e-159 573.0
39 TraesCS7A01G517800 chr1A 90.123 162 16 0 1542 1703 264358615 264358454 1.360000e-50 211.0
40 TraesCS7A01G517800 chr1A 89.506 162 17 0 1542 1703 439589866 439590027 6.320000e-49 206.0
41 TraesCS7A01G517800 chr1A 92.000 125 8 2 3510 3634 35575936 35575814 1.780000e-39 174.0
42 TraesCS7A01G517800 chr4A 89.506 162 17 0 1542 1703 130611900 130612061 6.320000e-49 206.0
43 TraesCS7A01G517800 chr4A 88.889 162 18 0 1542 1703 122580553 122580714 2.940000e-47 200.0
44 TraesCS7A01G517800 chr5D 94.958 119 5 1 3511 3629 29168202 29168319 8.230000e-43 185.0
45 TraesCS7A01G517800 chr5D 92.683 123 7 1 3512 3634 560426191 560426071 4.950000e-40 176.0
46 TraesCS7A01G517800 chr5A 93.496 123 5 3 3512 3631 363850791 363850913 3.830000e-41 180.0
47 TraesCS7A01G517800 chr5A 94.783 115 6 0 3505 3619 383832121 383832235 3.830000e-41 180.0


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 TraesCS7A01G517800 chr7A 701663855 701668671 4816 True 8896.00 8896 100.0000 1 4817 1 chr7A.!!$R3 4816
1 TraesCS7A01G517800 chr7A 162746788 162747452 664 True 791.00 791 88.0290 922 1605 1 chr7A.!!$R2 683
2 TraesCS7A01G517800 chr7A 3165176 3165840 664 False 785.00 785 87.8830 922 1605 1 chr7A.!!$F1 683
3 TraesCS7A01G517800 chr7A 14647485 14648146 661 True 767.00 767 87.4640 922 1605 1 chr7A.!!$R1 683
4 TraesCS7A01G517800 chr7A 58680475 58682739 2264 False 397.50 584 87.8575 922 1703 2 chr7A.!!$F2 781
5 TraesCS7A01G517800 chr7D 611739684 611743856 4172 True 1151.88 2372 93.2740 753 4817 5 chr7D.!!$R2 4064
6 TraesCS7A01G517800 chr7B 701202515 701206503 3988 True 1422.00 2272 92.2795 753 4817 4 chr7B.!!$R1 4064
7 TraesCS7A01G517800 chr7B 61050942 61051671 729 False 662.00 662 83.1060 1 730 1 chr7B.!!$F1 729
8 TraesCS7A01G517800 chr2B 740555720 740556471 751 True 1079.00 1079 92.5530 3 754 1 chr2B.!!$R1 751
9 TraesCS7A01G517800 chr6D 88690849 88691602 753 False 1055.00 1055 91.9100 1 754 1 chr6D.!!$F1 753
10 TraesCS7A01G517800 chr1D 18417763 18418510 747 False 793.00 793 85.8280 1 753 1 chr1D.!!$F1 752
11 TraesCS7A01G517800 chr2A 776738587 776739251 664 True 780.00 780 87.7550 922 1605 1 chr2A.!!$R2 683
12 TraesCS7A01G517800 chr2A 272398968 272399632 664 True 747.00 747 86.9380 922 1605 1 chr2A.!!$R1 683
13 TraesCS7A01G517800 chr2A 549129926 549132189 2263 True 420.00 634 88.3095 922 1703 2 chr2A.!!$R3 781
14 TraesCS7A01G517800 chr6A 138550661 138551325 664 True 763.00 763 87.3180 922 1605 1 chr6A.!!$R1 683
15 TraesCS7A01G517800 chrUn 34701830 34702559 729 False 701.00 701 84.0160 7 736 1 chrUn.!!$F1 729
16 TraesCS7A01G517800 chr6B 91042949 91043669 720 True 667.00 667 83.4250 10 730 1 chr6B.!!$R1 720
17 TraesCS7A01G517800 chr6B 114957786 114958506 720 True 634.00 634 82.5970 10 730 1 chr6B.!!$R2 720
18 TraesCS7A01G517800 chr3A 510631712 510632438 726 True 656.00 656 83.0600 10 736 1 chr3A.!!$R1 726
19 TraesCS7A01G517800 chr3A 114912598 114914863 2265 True 408.50 606 88.2005 922 1703 2 chr3A.!!$R2 781
20 TraesCS7A01G517800 chr2D 30762790 30763512 722 False 649.00 649 82.8970 1 724 1 chr2D.!!$F1 723
21 TraesCS7A01G517800 chr1A 439587763 439590027 2264 False 400.50 595 87.7205 922 1703 2 chr1A.!!$F1 781
22 TraesCS7A01G517800 chr1A 264358454 264360718 2264 True 392.00 573 87.6730 922 1703 2 chr1A.!!$R2 781

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
748 749 0.250467 GCACCTCTTGAGCTGTTGGA 60.250 55.0 0.00 0.0 0.00 3.53 F
1431 1443 0.321564 TCTGCTACACCACCATGCAC 60.322 55.0 0.00 0.0 0.00 4.57 F
2459 4155 0.245539 GTTGGCAGCTCATGTGCAAT 59.754 50.0 20.92 0.0 43.12 3.56 F
2828 4529 1.089920 CCTCGCTGCTTGCTGTTATT 58.910 50.0 0.00 0.0 40.11 1.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1710 3237 0.102120 TTGGCTTTGAACACTTGCGG 59.898 50.0 0.00 0.00 0.00 5.69 R
3307 5013 1.012486 GCAGGTACCGTGTAGTGCAC 61.012 60.0 9.40 9.40 44.36 4.57 R
3318 5024 1.168714 CAGCTGAAAAGGCAGGTACC 58.831 55.0 8.42 2.73 44.12 3.34 R
4744 6548 0.833287 GCCTATCTGTCTTGCCTCCA 59.167 55.0 0.00 0.00 0.00 3.86 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
58 59 3.977086 AGGTCCATCCTATGCCAGA 57.023 52.632 0.00 0.00 46.10 3.86
64 65 3.262915 GTCCATCCTATGCCAGAATAGCT 59.737 47.826 0.00 0.00 0.00 3.32
75 76 9.926158 CTATGCCAGAATAGCTTATATCCATAG 57.074 37.037 0.00 0.00 0.00 2.23
134 135 2.034687 GCTTGGCTCCTGCTTCCA 59.965 61.111 0.00 0.00 39.59 3.53
228 229 0.947244 CACGATTCCCCTAAGCATGC 59.053 55.000 10.51 10.51 0.00 4.06
447 448 3.525800 AACCTAAAGAACCAGCCATGT 57.474 42.857 0.00 0.00 0.00 3.21
460 461 3.055530 CCAGCCATGTTCTCAACTCTAGT 60.056 47.826 0.00 0.00 0.00 2.57
520 521 2.488153 GGGCAAACTGCTTCGTTAGATT 59.512 45.455 0.00 0.00 44.28 2.40
647 648 2.822561 TCAGAGTGTTTGTTTGCAACCA 59.177 40.909 0.00 0.00 33.82 3.67
694 695 7.284489 TCATTAGTAGTCAAGCTTGGTTTGTTT 59.716 33.333 25.73 8.88 0.00 2.83
748 749 0.250467 GCACCTCTTGAGCTGTTGGA 60.250 55.000 0.00 0.00 0.00 3.53
789 790 3.845259 GATGGCCTGACCCGCGTA 61.845 66.667 3.32 0.00 37.83 4.42
845 846 2.897350 GGCCGGCTCGAATGAAGG 60.897 66.667 28.56 0.00 0.00 3.46
865 866 2.502492 CGATGAGTCCAGGCCCGAT 61.502 63.158 0.00 0.00 0.00 4.18
869 870 2.363795 AGTCCAGGCCCGATCGAA 60.364 61.111 18.66 0.00 0.00 3.71
937 941 0.962855 CACAGCAGACGGAGGAGAGA 60.963 60.000 0.00 0.00 0.00 3.10
946 950 1.822371 ACGGAGGAGAGAAGAGAAAGC 59.178 52.381 0.00 0.00 0.00 3.51
1108 1119 2.203181 TCGTTCCCGCCCGTTTTT 60.203 55.556 0.00 0.00 0.00 1.94
1117 1128 1.019805 CGCCCGTTTTTCCTCTCCTC 61.020 60.000 0.00 0.00 0.00 3.71
1272 1283 6.479990 TCGAATTAGATGCATCTGGTAACTTG 59.520 38.462 34.48 17.27 37.76 3.16
1377 1389 2.811514 ATGGATGGGCGCGTGATCT 61.812 57.895 8.43 0.00 0.00 2.75
1419 1431 4.378356 CGATGCTACTGATCTCTCTGCTAC 60.378 50.000 0.00 0.00 0.00 3.58
1431 1443 0.321564 TCTGCTACACCACCATGCAC 60.322 55.000 0.00 0.00 0.00 4.57
1486 1501 7.066163 CACATCACAGTAGCTGATTTTATCCAA 59.934 37.037 0.00 0.00 35.18 3.53
1544 3067 4.475944 GCTGTGGCTACTGTTTGTTTATG 58.524 43.478 8.81 0.00 35.22 1.90
1613 3140 6.992063 AGGAACATGTTTATTCAGTAGCTG 57.008 37.500 13.36 0.00 0.00 4.24
1614 3141 5.882557 AGGAACATGTTTATTCAGTAGCTGG 59.117 40.000 13.36 0.00 31.51 4.85
1617 3144 6.054860 ACATGTTTATTCAGTAGCTGGTCT 57.945 37.500 0.00 0.00 31.51 3.85
1661 3188 0.674895 GTCCAGATCCACACAGGCAC 60.675 60.000 0.00 0.00 37.29 5.01
1666 3193 1.352017 AGATCCACACAGGCACATCAA 59.648 47.619 0.00 0.00 37.29 2.57
1668 3195 2.064434 TCCACACAGGCACATCAAAA 57.936 45.000 0.00 0.00 37.29 2.44
1687 3214 5.586243 TCAAAATGCCTGTCTGCTAGAATAC 59.414 40.000 0.00 0.00 0.00 1.89
1692 3219 4.054671 GCCTGTCTGCTAGAATACATGTC 58.945 47.826 0.00 0.00 0.00 3.06
1707 3234 4.404507 ACATGTCTGTTGATAAACGTGC 57.595 40.909 0.00 0.00 33.01 5.34
1710 3237 2.223144 TGTCTGTTGATAAACGTGCTGC 59.777 45.455 0.00 0.00 0.00 5.25
1712 3239 0.515127 TGTTGATAAACGTGCTGCCG 59.485 50.000 8.60 8.60 0.00 5.69
1732 3259 1.528161 GCAAGTGTTCAAAGCCAATGC 59.472 47.619 0.00 0.00 37.95 3.56
1762 3289 5.343307 CCAGGATTTGGGGTATTTGAAAG 57.657 43.478 0.00 0.00 43.75 2.62
1788 3315 3.194861 CAAAGGAATGAATGCTGCATGG 58.805 45.455 17.00 0.00 0.00 3.66
1813 3340 6.795593 GCGTTTCTTTGGAAGTATTGTCTTAC 59.204 38.462 0.00 0.00 32.61 2.34
1824 3351 9.036671 GGAAGTATTGTCTTACTAAGAGCATTC 57.963 37.037 0.00 2.93 38.41 2.67
1827 3354 9.593134 AGTATTGTCTTACTAAGAGCATTCTTG 57.407 33.333 0.00 0.00 43.41 3.02
1854 3381 4.336993 TGTGTATAACCATCGGATTTTGGC 59.663 41.667 0.00 0.00 36.41 4.52
1935 3462 8.591072 CCTTGCATTTGGATAATTGATTAGGAT 58.409 33.333 0.00 0.00 0.00 3.24
1938 3465 9.985730 TGCATTTGGATAATTGATTAGGATTTC 57.014 29.630 0.00 0.00 0.00 2.17
1939 3466 9.985730 GCATTTGGATAATTGATTAGGATTTCA 57.014 29.630 0.00 0.00 0.00 2.69
1966 3494 4.705507 AGATCTTGTCATGCATCTTGCTTT 59.294 37.500 0.00 0.00 45.31 3.51
1969 3497 6.330004 TCTTGTCATGCATCTTGCTTTTTA 57.670 33.333 0.00 0.00 45.31 1.52
1970 3498 6.151691 TCTTGTCATGCATCTTGCTTTTTAC 58.848 36.000 0.00 0.00 45.31 2.01
2010 3539 2.887152 AGTTCTCAATGTTTGTGGAGCC 59.113 45.455 0.00 0.00 0.00 4.70
2216 3910 4.020543 TGTTATACCATGCCCTTCCAAAC 58.979 43.478 0.00 0.00 0.00 2.93
2219 3913 2.215942 ACCATGCCCTTCCAAACTAC 57.784 50.000 0.00 0.00 0.00 2.73
2241 3935 3.383698 TCGACTTCTCTTATGAGGGGT 57.616 47.619 5.84 5.28 40.58 4.95
2247 3941 7.562454 TCGACTTCTCTTATGAGGGGTAAATTA 59.438 37.037 5.84 0.00 40.58 1.40
2386 4082 7.413438 GCGAGAGTGATATGTGAAGAATTTGTT 60.413 37.037 0.00 0.00 0.00 2.83
2459 4155 0.245539 GTTGGCAGCTCATGTGCAAT 59.754 50.000 20.92 0.00 43.12 3.56
2471 4167 4.520179 TCATGTGCAATGTTAGCAGATCT 58.480 39.130 0.00 0.00 43.16 2.75
2542 4238 2.945440 GCCTGCTGGGACACATTTGATA 60.945 50.000 12.06 0.00 37.23 2.15
2828 4529 1.089920 CCTCGCTGCTTGCTGTTATT 58.910 50.000 0.00 0.00 40.11 1.40
3156 4862 8.707938 AGCCAAGATATAAAATTCAACTTTGC 57.292 30.769 0.00 0.00 0.00 3.68
3273 4979 6.942576 AGAAGTAACCTGTGCTGATTTGTATT 59.057 34.615 0.00 0.00 0.00 1.89
3338 5044 1.271379 GGTACCTGCCTTTTCAGCTGA 60.271 52.381 13.74 13.74 32.87 4.26
3395 5103 3.951775 TTGTGTCAGGCTGTTTGTTTT 57.048 38.095 15.27 0.00 0.00 2.43
3517 5225 9.959749 CAGAAACTAAGAGATGTTATCTACTCC 57.040 37.037 0.00 0.00 40.38 3.85
3518 5226 9.138596 AGAAACTAAGAGATGTTATCTACTCCC 57.861 37.037 0.00 0.00 40.38 4.30
3519 5227 9.138596 GAAACTAAGAGATGTTATCTACTCCCT 57.861 37.037 0.00 0.00 40.38 4.20
3520 5228 8.700439 AACTAAGAGATGTTATCTACTCCCTC 57.300 38.462 0.00 0.00 40.38 4.30
3521 5229 7.235804 ACTAAGAGATGTTATCTACTCCCTCC 58.764 42.308 0.00 0.00 40.38 4.30
3522 5230 4.658063 AGAGATGTTATCTACTCCCTCCG 58.342 47.826 0.00 0.00 40.38 4.63
3523 5231 4.105057 AGAGATGTTATCTACTCCCTCCGT 59.895 45.833 0.00 0.00 40.38 4.69
3524 5232 4.805744 AGATGTTATCTACTCCCTCCGTT 58.194 43.478 0.00 0.00 38.00 4.44
3525 5233 4.828387 AGATGTTATCTACTCCCTCCGTTC 59.172 45.833 0.00 0.00 38.00 3.95
3526 5234 3.294214 TGTTATCTACTCCCTCCGTTCC 58.706 50.000 0.00 0.00 0.00 3.62
3527 5235 2.267174 TATCTACTCCCTCCGTTCCG 57.733 55.000 0.00 0.00 0.00 4.30
3528 5236 0.549950 ATCTACTCCCTCCGTTCCGA 59.450 55.000 0.00 0.00 0.00 4.55
3529 5237 0.329261 TCTACTCCCTCCGTTCCGAA 59.671 55.000 0.00 0.00 0.00 4.30
3530 5238 1.064166 TCTACTCCCTCCGTTCCGAAT 60.064 52.381 0.00 0.00 0.00 3.34
3531 5239 1.755380 CTACTCCCTCCGTTCCGAATT 59.245 52.381 0.00 0.00 0.00 2.17
3532 5240 1.856629 ACTCCCTCCGTTCCGAATTA 58.143 50.000 0.00 0.00 0.00 1.40
3533 5241 1.479730 ACTCCCTCCGTTCCGAATTAC 59.520 52.381 0.00 0.00 0.00 1.89
3534 5242 1.755380 CTCCCTCCGTTCCGAATTACT 59.245 52.381 0.00 0.00 0.00 2.24
3535 5243 2.167900 CTCCCTCCGTTCCGAATTACTT 59.832 50.000 0.00 0.00 0.00 2.24
3536 5244 2.093869 TCCCTCCGTTCCGAATTACTTG 60.094 50.000 0.00 0.00 0.00 3.16
3537 5245 2.354403 CCCTCCGTTCCGAATTACTTGT 60.354 50.000 0.00 0.00 0.00 3.16
3538 5246 2.928116 CCTCCGTTCCGAATTACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
3539 5247 2.597305 CTCCGTTCCGAATTACTTGTCG 59.403 50.000 0.00 0.00 37.01 4.35
3540 5248 1.060122 CCGTTCCGAATTACTTGTCGC 59.940 52.381 0.00 0.00 35.93 5.19
3541 5249 1.722464 CGTTCCGAATTACTTGTCGCA 59.278 47.619 0.00 0.00 35.93 5.10
3542 5250 2.222508 CGTTCCGAATTACTTGTCGCAG 60.223 50.000 0.00 0.00 35.93 5.18
3543 5251 2.991190 GTTCCGAATTACTTGTCGCAGA 59.009 45.455 0.00 0.00 35.93 4.26
3544 5252 3.520290 TCCGAATTACTTGTCGCAGAT 57.480 42.857 0.00 0.00 40.67 2.90
3545 5253 4.642445 TCCGAATTACTTGTCGCAGATA 57.358 40.909 0.00 0.00 40.67 1.98
3546 5254 5.196341 TCCGAATTACTTGTCGCAGATAT 57.804 39.130 0.00 0.00 40.67 1.63
3547 5255 4.982295 TCCGAATTACTTGTCGCAGATATG 59.018 41.667 0.00 0.00 40.67 1.78
3548 5256 4.150627 CCGAATTACTTGTCGCAGATATGG 59.849 45.833 0.00 0.00 40.67 2.74
3549 5257 4.982295 CGAATTACTTGTCGCAGATATGGA 59.018 41.667 0.00 0.00 40.67 3.41
3550 5258 5.635280 CGAATTACTTGTCGCAGATATGGAT 59.365 40.000 0.00 0.00 40.67 3.41
3551 5259 6.400409 CGAATTACTTGTCGCAGATATGGATG 60.400 42.308 0.00 0.00 40.67 3.51
3552 5260 3.827008 ACTTGTCGCAGATATGGATGT 57.173 42.857 0.00 0.00 40.67 3.06
3553 5261 4.937201 ACTTGTCGCAGATATGGATGTA 57.063 40.909 0.00 0.00 40.67 2.29
3554 5262 5.474578 ACTTGTCGCAGATATGGATGTAT 57.525 39.130 0.00 0.00 40.67 2.29
3555 5263 5.473931 ACTTGTCGCAGATATGGATGTATC 58.526 41.667 0.00 0.00 40.67 2.24
3556 5264 5.244851 ACTTGTCGCAGATATGGATGTATCT 59.755 40.000 0.00 0.00 41.03 1.98
3557 5265 6.434340 ACTTGTCGCAGATATGGATGTATCTA 59.566 38.462 0.00 0.00 38.93 1.98
3558 5266 7.123397 ACTTGTCGCAGATATGGATGTATCTAT 59.877 37.037 0.00 0.00 38.93 1.98
3559 5267 8.519799 TTGTCGCAGATATGGATGTATCTATA 57.480 34.615 1.20 1.20 38.93 1.31
3560 5268 8.697507 TGTCGCAGATATGGATGTATCTATAT 57.302 34.615 9.61 9.61 41.71 0.86
3561 5269 8.571336 TGTCGCAGATATGGATGTATCTATATG 58.429 37.037 13.38 5.41 39.92 1.78
3562 5270 8.572185 GTCGCAGATATGGATGTATCTATATGT 58.428 37.037 13.38 8.25 39.92 2.29
3563 5271 9.793259 TCGCAGATATGGATGTATCTATATGTA 57.207 33.333 13.38 0.00 39.92 2.29
3595 5303 9.347934 GTTCTAGATACATCCATTTCTATGACG 57.652 37.037 0.00 0.00 33.37 4.35
3596 5304 8.863872 TCTAGATACATCCATTTCTATGACGA 57.136 34.615 0.00 0.00 33.37 4.20
3597 5305 8.951243 TCTAGATACATCCATTTCTATGACGAG 58.049 37.037 0.00 0.00 33.37 4.18
3598 5306 7.531857 AGATACATCCATTTCTATGACGAGT 57.468 36.000 0.00 0.00 33.37 4.18
3599 5307 8.637196 AGATACATCCATTTCTATGACGAGTA 57.363 34.615 0.00 0.00 33.37 2.59
3600 5308 9.078990 AGATACATCCATTTCTATGACGAGTAA 57.921 33.333 0.00 0.00 33.37 2.24
3601 5309 9.862371 GATACATCCATTTCTATGACGAGTAAT 57.138 33.333 0.00 0.00 33.37 1.89
3603 5311 8.964476 ACATCCATTTCTATGACGAGTAATTT 57.036 30.769 0.00 0.00 33.37 1.82
3604 5312 8.830580 ACATCCATTTCTATGACGAGTAATTTG 58.169 33.333 0.00 0.00 33.37 2.32
3605 5313 7.786178 TCCATTTCTATGACGAGTAATTTGG 57.214 36.000 0.00 0.00 33.37 3.28
3606 5314 7.561251 TCCATTTCTATGACGAGTAATTTGGA 58.439 34.615 0.00 0.00 33.37 3.53
3607 5315 8.044309 TCCATTTCTATGACGAGTAATTTGGAA 58.956 33.333 0.00 0.00 33.37 3.53
3608 5316 8.840321 CCATTTCTATGACGAGTAATTTGGAAT 58.160 33.333 0.00 0.00 33.37 3.01
3609 5317 9.655769 CATTTCTATGACGAGTAATTTGGAATG 57.344 33.333 0.00 0.00 33.37 2.67
3610 5318 7.786178 TTCTATGACGAGTAATTTGGAATGG 57.214 36.000 0.00 0.00 0.00 3.16
3611 5319 7.119709 TCTATGACGAGTAATTTGGAATGGA 57.880 36.000 0.00 0.00 0.00 3.41
3612 5320 7.210174 TCTATGACGAGTAATTTGGAATGGAG 58.790 38.462 0.00 0.00 0.00 3.86
3613 5321 4.513442 TGACGAGTAATTTGGAATGGAGG 58.487 43.478 0.00 0.00 0.00 4.30
3614 5322 3.877508 GACGAGTAATTTGGAATGGAGGG 59.122 47.826 0.00 0.00 0.00 4.30
3615 5323 3.521937 ACGAGTAATTTGGAATGGAGGGA 59.478 43.478 0.00 0.00 0.00 4.20
3616 5324 4.130118 CGAGTAATTTGGAATGGAGGGAG 58.870 47.826 0.00 0.00 0.00 4.30
3617 5325 4.384208 CGAGTAATTTGGAATGGAGGGAGT 60.384 45.833 0.00 0.00 0.00 3.85
3618 5326 5.163343 CGAGTAATTTGGAATGGAGGGAGTA 60.163 44.000 0.00 0.00 0.00 2.59
3629 5337 9.455144 TGGAATGGAGGGAGTAGTTTATTAATA 57.545 33.333 0.00 0.00 0.00 0.98
3634 5342 9.670442 TGGAGGGAGTAGTTTATTAATATCTGT 57.330 33.333 0.00 0.00 0.00 3.41
3678 5388 4.590222 ACTTCCTGGCAATGATTTTCTGTT 59.410 37.500 0.00 0.00 0.00 3.16
3685 5395 6.522946 TGGCAATGATTTTCTGTTGATTTCA 58.477 32.000 0.00 0.00 0.00 2.69
3704 5414 3.959293 TCACTCGTATACCTTCCTCACA 58.041 45.455 0.00 0.00 0.00 3.58
3708 5418 3.228453 TCGTATACCTTCCTCACATCCC 58.772 50.000 0.00 0.00 0.00 3.85
3829 5539 5.352569 GCAAACAGCTAGATGTAGAACATGT 59.647 40.000 15.12 0.00 38.55 3.21
3838 5548 7.169982 GCTAGATGTAGAACATGTGGACAATAC 59.830 40.741 0.00 0.00 39.27 1.89
3841 5551 5.165676 TGTAGAACATGTGGACAATACGTC 58.834 41.667 0.00 0.00 44.57 4.34
3870 5580 4.943705 AGTTTATGATGCGACAAACATCCT 59.056 37.500 1.61 0.00 42.68 3.24
3910 5633 1.005289 AGTCATGGGAGGCTGGGAT 59.995 57.895 0.00 0.00 0.00 3.85
4018 5741 3.327757 ACCTGGCTGAACTAGTCATGAAA 59.672 43.478 0.00 0.00 40.92 2.69
4099 5824 2.885135 ATGAATGCCTTGGTGAGTCA 57.115 45.000 0.00 0.00 0.00 3.41
4107 5832 3.072330 TGCCTTGGTGAGTCATTGACTAA 59.928 43.478 19.00 9.62 43.53 2.24
4117 5842 3.449018 AGTCATTGACTAACGGCAGAGAT 59.551 43.478 17.63 0.00 41.51 2.75
4182 5908 9.430838 CAGAATATGAAAAGAAAAGCAGATACG 57.569 33.333 0.00 0.00 0.00 3.06
4204 5946 4.703897 GTTAACTGATACTATGGCAGGCA 58.296 43.478 0.00 0.00 34.05 4.75
4205 5947 5.308825 GTTAACTGATACTATGGCAGGCAT 58.691 41.667 14.89 14.89 34.05 4.40
4206 5948 3.413846 ACTGATACTATGGCAGGCATG 57.586 47.619 19.63 11.49 34.05 4.06
4207 5949 2.974794 ACTGATACTATGGCAGGCATGA 59.025 45.455 19.63 5.20 34.05 3.07
4240 5982 2.158445 TCTCCAGGGCTATGTAGGACTC 60.158 54.545 0.00 0.00 0.00 3.36
4339 6081 4.593206 AGACAAAGTAGAGTCCACATCCAA 59.407 41.667 0.00 0.00 35.38 3.53
4369 6111 9.276590 TGTCAATATGTTATGGATCTGTCATTC 57.723 33.333 0.00 0.00 0.00 2.67
4393 6135 8.986477 TCTCTTTTCCTTTTTGAAAACTTCAG 57.014 30.769 0.00 0.00 41.38 3.02
4454 6197 0.526211 CGGGAAGATGACGTGTCTCA 59.474 55.000 0.00 0.00 0.00 3.27
4463 6206 2.126307 CGTGTCTCACTCGCAGGG 60.126 66.667 0.00 0.00 31.34 4.45
4494 6237 1.956477 CCTCACCTTGGTTGGTTCTTG 59.044 52.381 0.00 0.00 38.45 3.02
4506 6253 0.400594 GGTTCTTGGTGCACCCTAGT 59.599 55.000 32.62 0.00 37.36 2.57
4532 6279 7.977818 AGTTTGATAGCATGATATGGAACCTA 58.022 34.615 8.49 0.00 0.00 3.08
4535 6282 9.812347 TTTGATAGCATGATATGGAACCTATTT 57.188 29.630 8.49 0.00 0.00 1.40
4536 6283 9.812347 TTGATAGCATGATATGGAACCTATTTT 57.188 29.630 8.49 0.00 0.00 1.82
4537 6284 9.234827 TGATAGCATGATATGGAACCTATTTTG 57.765 33.333 8.49 0.00 0.00 2.44
4538 6285 6.336842 AGCATGATATGGAACCTATTTTGC 57.663 37.500 0.00 0.00 0.00 3.68
4541 6336 6.985645 GCATGATATGGAACCTATTTTGCAAA 59.014 34.615 8.05 8.05 29.85 3.68
4620 6418 9.574458 TTTTGTCTAATCATAAGAGAGACTTCG 57.426 33.333 11.78 0.00 39.59 3.79
4704 6508 2.787994 CCACCAGCTCCATTGGATATC 58.212 52.381 5.70 0.00 39.08 1.63
4723 6527 6.239714 GGATATCTGCACCTCTTTTCTGGATA 60.240 42.308 2.05 0.00 0.00 2.59
4744 6548 7.888021 TGGATACTGAAAATGACCACATACTTT 59.112 33.333 0.00 0.00 34.85 2.66
4749 6553 5.476599 TGAAAATGACCACATACTTTGGAGG 59.523 40.000 0.00 0.00 37.58 4.30
4750 6554 2.489938 TGACCACATACTTTGGAGGC 57.510 50.000 0.00 0.00 37.58 4.70
4755 6559 2.749621 CCACATACTTTGGAGGCAAGAC 59.250 50.000 0.00 0.00 36.02 3.01
4762 6566 3.054802 ACTTTGGAGGCAAGACAGATAGG 60.055 47.826 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
58 59 5.661312 TGCGGTCCTATGGATATAAGCTATT 59.339 40.000 0.00 0.00 32.73 1.73
64 65 6.666113 TGATACTTGCGGTCCTATGGATATAA 59.334 38.462 0.00 0.00 32.73 0.98
75 76 2.006772 CGCTTGATACTTGCGGTCC 58.993 57.895 0.00 0.00 45.07 4.46
129 130 1.726791 CGAACACGATGGAGTTGGAAG 59.273 52.381 0.00 0.00 0.00 3.46
134 135 0.320421 CCCACGAACACGATGGAGTT 60.320 55.000 0.00 0.00 33.52 3.01
425 426 3.826729 ACATGGCTGGTTCTTTAGGTTTC 59.173 43.478 0.00 0.00 0.00 2.78
447 448 7.674348 TCAAATAGAGGGAACTAGAGTTGAGAA 59.326 37.037 0.00 0.00 44.43 2.87
647 648 5.123227 TGAGAAGAACAACGGAAAGAACAT 58.877 37.500 0.00 0.00 0.00 2.71
694 695 5.192927 TCTTCAAAACAGGAGCAGAAAAGA 58.807 37.500 0.00 0.00 0.00 2.52
779 780 1.674441 CAGAATCTACTACGCGGGTCA 59.326 52.381 12.47 0.00 0.00 4.02
789 790 0.912486 GGCCCACCACAGAATCTACT 59.088 55.000 0.00 0.00 35.26 2.57
845 846 4.554036 GGGCCTGGACTCATCGGC 62.554 72.222 0.84 0.00 41.75 5.54
937 941 0.390472 CGGGAGCTTCGCTTTCTCTT 60.390 55.000 0.00 0.00 39.88 2.85
1095 1106 2.032987 GAGGAAAAACGGGCGGGA 59.967 61.111 0.00 0.00 0.00 5.14
1108 1119 1.054978 TCGGATCGGAGAGGAGAGGA 61.055 60.000 0.00 0.00 43.63 3.71
1377 1389 0.248289 GACACGCTTGGCCCTACTTA 59.752 55.000 0.00 0.00 0.00 2.24
1486 1501 4.394300 CGGCTCAGATTTCAAAGATGAAGT 59.606 41.667 0.00 0.00 45.82 3.01
1521 2579 0.944386 AACAAACAGTAGCCACAGCG 59.056 50.000 0.00 0.00 46.67 5.18
1544 3067 2.294233 TCAGAACAAAAGGATGCAGCAC 59.706 45.455 3.51 0.00 0.00 4.40
1613 3140 4.100344 GTCAATTCCCCTCTCTCTAAGACC 59.900 50.000 0.00 0.00 0.00 3.85
1614 3141 4.202070 CGTCAATTCCCCTCTCTCTAAGAC 60.202 50.000 0.00 0.00 0.00 3.01
1617 3144 3.977312 TCGTCAATTCCCCTCTCTCTAA 58.023 45.455 0.00 0.00 0.00 2.10
1661 3188 3.943381 TCTAGCAGACAGGCATTTTGATG 59.057 43.478 0.00 0.00 35.83 3.07
1666 3193 5.102953 TGTATTCTAGCAGACAGGCATTT 57.897 39.130 0.00 0.00 35.83 2.32
1668 3195 4.102210 ACATGTATTCTAGCAGACAGGCAT 59.898 41.667 0.00 0.00 35.83 4.40
1674 3201 6.333416 TCAACAGACATGTATTCTAGCAGAC 58.667 40.000 0.00 0.00 39.29 3.51
1687 3214 4.397382 CAGCACGTTTATCAACAGACATG 58.603 43.478 0.00 0.00 32.54 3.21
1692 3219 1.464023 CGGCAGCACGTTTATCAACAG 60.464 52.381 0.00 0.00 32.54 3.16
1707 3234 0.936297 GCTTTGAACACTTGCGGCAG 60.936 55.000 1.67 0.12 0.00 4.85
1710 3237 0.102120 TTGGCTTTGAACACTTGCGG 59.898 50.000 0.00 0.00 0.00 5.69
1712 3239 1.528161 GCATTGGCTTTGAACACTTGC 59.472 47.619 0.00 0.00 36.96 4.01
1732 3259 1.188863 CCCAAATCCTGGCCAAGAAG 58.811 55.000 8.44 1.59 44.90 2.85
1751 3278 2.986479 CCTTTGTGCGCTTTCAAATACC 59.014 45.455 19.56 0.00 33.93 2.73
1762 3289 0.994263 GCATTCATTCCTTTGTGCGC 59.006 50.000 0.00 0.00 0.00 6.09
1788 3315 5.358298 AGACAATACTTCCAAAGAAACGC 57.642 39.130 0.00 0.00 0.00 4.84
1813 3340 3.693085 ACACATGCCAAGAATGCTCTTAG 59.307 43.478 0.00 0.00 40.05 2.18
1824 3351 3.250762 CCGATGGTTATACACATGCCAAG 59.749 47.826 0.00 0.00 32.54 3.61
1827 3354 3.120321 TCCGATGGTTATACACATGCC 57.880 47.619 0.00 0.00 0.00 4.40
1854 3381 1.075542 TGAGCTGAAATAACACGGCG 58.924 50.000 4.80 4.80 42.40 6.46
1935 3462 2.751259 GCATGACAAGATCTGGCTGAAA 59.249 45.455 0.00 0.00 32.26 2.69
1938 3465 1.746470 TGCATGACAAGATCTGGCTG 58.254 50.000 0.00 0.00 32.26 4.85
1939 3466 2.172930 AGATGCATGACAAGATCTGGCT 59.827 45.455 2.46 0.00 32.26 4.75
1940 3467 2.573369 AGATGCATGACAAGATCTGGC 58.427 47.619 2.46 0.00 0.00 4.85
1941 3468 3.243101 GCAAGATGCATGACAAGATCTGG 60.243 47.826 2.46 0.00 44.26 3.86
1966 3494 9.865321 AACTTATAATCTCTAAGTGCACGTAAA 57.135 29.630 12.01 0.00 38.94 2.01
1969 3497 7.773149 AGAACTTATAATCTCTAAGTGCACGT 58.227 34.615 12.01 11.40 38.94 4.49
1970 3498 7.915923 TGAGAACTTATAATCTCTAAGTGCACG 59.084 37.037 12.01 0.00 42.07 5.34
2010 3539 5.856986 CACGGGAGAACATTAGTATGTATCG 59.143 44.000 0.00 0.00 44.14 2.92
2216 3910 5.009210 CCCCTCATAAGAGAAGTCGAAGTAG 59.991 48.000 0.00 0.00 44.98 2.57
2219 3913 3.702045 ACCCCTCATAAGAGAAGTCGAAG 59.298 47.826 0.00 0.00 44.98 3.79
2363 4058 8.853077 TCAACAAATTCTTCACATATCACTCT 57.147 30.769 0.00 0.00 0.00 3.24
2419 4115 7.436673 GCCAACAGTGAAACATTTATACAAACA 59.563 33.333 0.00 0.00 41.43 2.83
2459 4155 2.568956 AGCACAGGAAGATCTGCTAACA 59.431 45.455 0.00 0.00 38.22 2.41
2471 4167 3.332485 AGGGGTAACAATAAGCACAGGAA 59.668 43.478 0.00 0.00 39.74 3.36
2542 4238 2.022718 AGCCAAGTGAGGAGACTTCT 57.977 50.000 0.00 0.00 44.43 2.85
2828 4529 9.238368 CACATAGGTTGGTTAAGAAAGGATTTA 57.762 33.333 0.00 0.00 39.27 1.40
3307 5013 1.012486 GCAGGTACCGTGTAGTGCAC 61.012 60.000 9.40 9.40 44.36 4.57
3318 5024 1.168714 CAGCTGAAAAGGCAGGTACC 58.831 55.000 8.42 2.73 44.12 3.34
3338 5044 6.927936 CAGCAAGCAATGTACTGTAGATAGAT 59.072 38.462 0.00 0.00 0.00 1.98
3522 5230 2.991190 TCTGCGACAAGTAATTCGGAAC 59.009 45.455 0.00 0.00 35.02 3.62
3523 5231 3.306917 TCTGCGACAAGTAATTCGGAA 57.693 42.857 0.00 0.00 35.02 4.30
3524 5232 3.520290 ATCTGCGACAAGTAATTCGGA 57.480 42.857 0.00 0.00 35.73 4.55
3525 5233 4.150627 CCATATCTGCGACAAGTAATTCGG 59.849 45.833 0.00 0.00 35.73 4.30
3526 5234 4.982295 TCCATATCTGCGACAAGTAATTCG 59.018 41.667 0.00 0.00 38.31 3.34
3527 5235 6.425114 ACATCCATATCTGCGACAAGTAATTC 59.575 38.462 0.00 0.00 0.00 2.17
3528 5236 6.291377 ACATCCATATCTGCGACAAGTAATT 58.709 36.000 0.00 0.00 0.00 1.40
3529 5237 5.858381 ACATCCATATCTGCGACAAGTAAT 58.142 37.500 0.00 0.00 0.00 1.89
3530 5238 5.276461 ACATCCATATCTGCGACAAGTAA 57.724 39.130 0.00 0.00 0.00 2.24
3531 5239 4.937201 ACATCCATATCTGCGACAAGTA 57.063 40.909 0.00 0.00 0.00 2.24
3532 5240 3.827008 ACATCCATATCTGCGACAAGT 57.173 42.857 0.00 0.00 0.00 3.16
3533 5241 5.718146 AGATACATCCATATCTGCGACAAG 58.282 41.667 0.00 0.00 39.87 3.16
3534 5242 5.728637 AGATACATCCATATCTGCGACAA 57.271 39.130 0.00 0.00 39.87 3.18
3535 5243 8.571336 CATATAGATACATCCATATCTGCGACA 58.429 37.037 5.70 0.00 41.17 4.35
3536 5244 8.572185 ACATATAGATACATCCATATCTGCGAC 58.428 37.037 5.70 0.00 41.17 5.19
3537 5245 8.697507 ACATATAGATACATCCATATCTGCGA 57.302 34.615 5.70 0.00 41.17 5.10
3569 5277 9.347934 CGTCATAGAAATGGATGTATCTAGAAC 57.652 37.037 0.00 0.00 33.61 3.01
3570 5278 9.297037 TCGTCATAGAAATGGATGTATCTAGAA 57.703 33.333 0.00 0.00 33.61 2.10
3571 5279 8.863872 TCGTCATAGAAATGGATGTATCTAGA 57.136 34.615 0.00 0.00 33.61 2.43
3572 5280 8.735315 ACTCGTCATAGAAATGGATGTATCTAG 58.265 37.037 0.00 0.00 33.61 2.43
3573 5281 8.637196 ACTCGTCATAGAAATGGATGTATCTA 57.363 34.615 0.00 0.00 33.61 1.98
3574 5282 7.531857 ACTCGTCATAGAAATGGATGTATCT 57.468 36.000 0.00 0.00 33.61 1.98
3575 5283 9.862371 ATTACTCGTCATAGAAATGGATGTATC 57.138 33.333 0.00 0.00 33.61 2.24
3578 5286 8.830580 CAAATTACTCGTCATAGAAATGGATGT 58.169 33.333 0.00 0.00 33.61 3.06
3579 5287 8.285394 CCAAATTACTCGTCATAGAAATGGATG 58.715 37.037 0.00 0.00 33.61 3.51
3580 5288 8.210946 TCCAAATTACTCGTCATAGAAATGGAT 58.789 33.333 0.00 0.00 33.61 3.41
3581 5289 7.561251 TCCAAATTACTCGTCATAGAAATGGA 58.439 34.615 0.00 0.00 33.61 3.41
3582 5290 7.786178 TCCAAATTACTCGTCATAGAAATGG 57.214 36.000 0.00 0.00 33.61 3.16
3583 5291 9.655769 CATTCCAAATTACTCGTCATAGAAATG 57.344 33.333 0.00 0.00 0.00 2.32
3584 5292 8.840321 CCATTCCAAATTACTCGTCATAGAAAT 58.160 33.333 0.00 0.00 0.00 2.17
3585 5293 8.044309 TCCATTCCAAATTACTCGTCATAGAAA 58.956 33.333 0.00 0.00 0.00 2.52
3586 5294 7.561251 TCCATTCCAAATTACTCGTCATAGAA 58.439 34.615 0.00 0.00 0.00 2.10
3587 5295 7.119709 TCCATTCCAAATTACTCGTCATAGA 57.880 36.000 0.00 0.00 0.00 1.98
3588 5296 6.425114 CCTCCATTCCAAATTACTCGTCATAG 59.575 42.308 0.00 0.00 0.00 2.23
3589 5297 6.288294 CCTCCATTCCAAATTACTCGTCATA 58.712 40.000 0.00 0.00 0.00 2.15
3590 5298 5.126067 CCTCCATTCCAAATTACTCGTCAT 58.874 41.667 0.00 0.00 0.00 3.06
3591 5299 4.513442 CCTCCATTCCAAATTACTCGTCA 58.487 43.478 0.00 0.00 0.00 4.35
3592 5300 3.877508 CCCTCCATTCCAAATTACTCGTC 59.122 47.826 0.00 0.00 0.00 4.20
3593 5301 3.521937 TCCCTCCATTCCAAATTACTCGT 59.478 43.478 0.00 0.00 0.00 4.18
3594 5302 4.130118 CTCCCTCCATTCCAAATTACTCG 58.870 47.826 0.00 0.00 0.00 4.18
3595 5303 5.117406 ACTCCCTCCATTCCAAATTACTC 57.883 43.478 0.00 0.00 0.00 2.59
3596 5304 5.731678 ACTACTCCCTCCATTCCAAATTACT 59.268 40.000 0.00 0.00 0.00 2.24
3597 5305 6.002653 ACTACTCCCTCCATTCCAAATTAC 57.997 41.667 0.00 0.00 0.00 1.89
3598 5306 6.652205 AACTACTCCCTCCATTCCAAATTA 57.348 37.500 0.00 0.00 0.00 1.40
3599 5307 5.536497 AACTACTCCCTCCATTCCAAATT 57.464 39.130 0.00 0.00 0.00 1.82
3600 5308 5.536497 AAACTACTCCCTCCATTCCAAAT 57.464 39.130 0.00 0.00 0.00 2.32
3601 5309 6.652205 ATAAACTACTCCCTCCATTCCAAA 57.348 37.500 0.00 0.00 0.00 3.28
3602 5310 6.652205 AATAAACTACTCCCTCCATTCCAA 57.348 37.500 0.00 0.00 0.00 3.53
3603 5311 7.758820 TTAATAAACTACTCCCTCCATTCCA 57.241 36.000 0.00 0.00 0.00 3.53
3608 5316 9.670442 ACAGATATTAATAAACTACTCCCTCCA 57.330 33.333 0.00 0.00 0.00 3.86
3678 5388 5.655090 TGAGGAAGGTATACGAGTGAAATCA 59.345 40.000 0.00 0.00 0.00 2.57
3685 5395 3.890147 GGATGTGAGGAAGGTATACGAGT 59.110 47.826 0.00 0.00 0.00 4.18
3704 5414 6.472887 TCTTCAAGAATAAAACAGACGGGAT 58.527 36.000 0.00 0.00 0.00 3.85
3708 5418 6.455646 CGGGATCTTCAAGAATAAAACAGACG 60.456 42.308 0.00 0.00 0.00 4.18
3829 5539 3.581024 ACTTAAGCGACGTATTGTCCA 57.419 42.857 1.29 0.00 45.23 4.02
3838 5548 3.242016 TCGCATCATAAACTTAAGCGACG 59.758 43.478 1.29 0.00 46.32 5.12
3841 5551 4.514545 TGTCGCATCATAAACTTAAGCG 57.485 40.909 1.29 0.00 44.45 4.68
3870 5580 1.405105 GAGTGTGAAGCAGTTTGGCAA 59.595 47.619 0.00 0.00 35.83 4.52
3910 5633 3.227614 GGGCAAAAGAGTTTCCACCTTA 58.772 45.455 0.00 0.00 0.00 2.69
4018 5741 8.454293 CTCGACGTGAGCTATAAATCAAATAT 57.546 34.615 0.00 0.00 38.03 1.28
4077 5802 3.084039 GACTCACCAAGGCATTCATTCA 58.916 45.455 0.00 0.00 30.88 2.57
4078 5803 3.084039 TGACTCACCAAGGCATTCATTC 58.916 45.455 0.00 0.00 38.45 2.67
4079 5804 3.159213 TGACTCACCAAGGCATTCATT 57.841 42.857 0.00 0.00 38.45 2.57
4080 5805 2.885135 TGACTCACCAAGGCATTCAT 57.115 45.000 0.00 0.00 38.45 2.57
4099 5824 5.305644 AGGAATATCTCTGCCGTTAGTCAAT 59.694 40.000 0.00 0.00 0.00 2.57
4107 5832 2.289320 GCATCAGGAATATCTCTGCCGT 60.289 50.000 1.60 0.00 0.00 5.68
4117 5842 3.266772 ACCAAAGGTCAGCATCAGGAATA 59.733 43.478 0.00 0.00 0.00 1.75
4182 5908 4.703897 TGCCTGCCATAGTATCAGTTAAC 58.296 43.478 0.00 0.00 0.00 2.01
4204 5946 3.262915 CCTGGAGAAGAGTTCAACCTCAT 59.737 47.826 0.00 0.00 33.75 2.90
4205 5947 2.634940 CCTGGAGAAGAGTTCAACCTCA 59.365 50.000 0.00 0.00 33.75 3.86
4206 5948 2.027653 CCCTGGAGAAGAGTTCAACCTC 60.028 54.545 0.00 0.00 32.37 3.85
4207 5949 1.981495 CCCTGGAGAAGAGTTCAACCT 59.019 52.381 0.00 0.00 32.37 3.50
4240 5982 4.436852 CCACGAAATGTTATCAGGAAACCG 60.437 45.833 0.00 0.00 0.00 4.44
4339 6081 7.577303 ACAGATCCATAACATATTGACAAGGT 58.423 34.615 0.00 0.00 0.00 3.50
4369 6111 8.763049 ACTGAAGTTTTCAAAAAGGAAAAGAG 57.237 30.769 1.66 0.35 44.75 2.85
4393 6135 5.761726 TCTGGAATGCATCATCATAACAGAC 59.238 40.000 0.00 0.00 35.90 3.51
4454 6197 4.230603 CAATCATGCCCTGCGAGT 57.769 55.556 0.00 0.00 0.00 4.18
4494 6237 3.629142 ATCAAACTACTAGGGTGCACC 57.371 47.619 28.57 28.57 40.67 5.01
4506 6253 7.977818 AGGTTCCATATCATGCTATCAAACTA 58.022 34.615 9.03 0.00 0.00 2.24
4537 6284 3.425193 CACTTCCGTACTTTGCAATTTGC 59.575 43.478 14.49 14.49 45.29 3.68
4538 6285 4.675114 GTCACTTCCGTACTTTGCAATTTG 59.325 41.667 0.00 0.00 0.00 2.32
4541 6336 3.740115 AGTCACTTCCGTACTTTGCAAT 58.260 40.909 0.00 0.00 0.00 3.56
4551 6346 5.470047 AATCAGTTTCTAGTCACTTCCGT 57.530 39.130 0.00 0.00 0.00 4.69
4554 6349 5.872070 CCAGGAATCAGTTTCTAGTCACTTC 59.128 44.000 0.00 0.00 34.56 3.01
4620 6418 5.820947 ACATGTCCTAAAATTACGGTCATCC 59.179 40.000 0.00 0.00 0.00 3.51
4665 6469 3.686016 TGGCAGACCAACCTTTATTCTC 58.314 45.455 0.00 0.00 45.37 2.87
4704 6508 3.937706 CAGTATCCAGAAAAGAGGTGCAG 59.062 47.826 0.00 0.00 0.00 4.41
4723 6527 6.068010 TCCAAAGTATGTGGTCATTTTCAGT 58.932 36.000 0.00 0.00 46.47 3.41
4736 6540 3.327757 TCTGTCTTGCCTCCAAAGTATGT 59.672 43.478 0.00 0.00 0.00 2.29
4737 6541 3.942829 TCTGTCTTGCCTCCAAAGTATG 58.057 45.455 0.00 0.00 0.00 2.39
4744 6548 0.833287 GCCTATCTGTCTTGCCTCCA 59.167 55.000 0.00 0.00 0.00 3.86
4749 6553 3.801698 TCTTCATGCCTATCTGTCTTGC 58.198 45.455 0.00 0.00 0.00 4.01
4750 6554 4.141756 ACCTCTTCATGCCTATCTGTCTTG 60.142 45.833 0.00 0.00 0.00 3.02
4755 6559 2.437281 ACCACCTCTTCATGCCTATCTG 59.563 50.000 0.00 0.00 0.00 2.90
4762 6566 4.336713 GGATCTTAAACCACCTCTTCATGC 59.663 45.833 0.00 0.00 0.00 4.06


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

AutoCloner maintained by Alex Coulton.