Multiple sequence alignment - TraesCS6B01G006900

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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 TraesCS6B01G006900 chr6B 100.000 3581 0 0 1 3581 4586934 4583354 0.000000e+00 6613
1 TraesCS6B01G006900 chr6B 100.000 3094 0 0 3848 6941 4583087 4579994 0.000000e+00 5714
2 TraesCS6B01G006900 chr6B 88.670 2330 219 26 3871 6186 4794587 4792289 0.000000e+00 2798
3 TraesCS6B01G006900 chr6B 87.271 2349 222 33 3849 6186 4536401 4534119 0.000000e+00 2610
4 TraesCS6B01G006900 chr6B 87.336 2140 194 32 765 2877 4560561 4558472 0.000000e+00 2379
5 TraesCS6B01G006900 chr6B 88.170 1995 174 34 759 2726 4538785 4536826 0.000000e+00 2320
6 TraesCS6B01G006900 chr6B 89.337 1191 110 11 4999 6186 4556657 4555481 0.000000e+00 1480
7 TraesCS6B01G006900 chr6B 86.974 1213 124 17 1327 2526 4797352 4796161 0.000000e+00 1334
8 TraesCS6B01G006900 chr6B 85.152 1118 105 19 3854 4967 4557717 4556657 0.000000e+00 1088
9 TraesCS6B01G006900 chr6B 87.035 833 61 13 2769 3581 4795494 4794689 0.000000e+00 896
10 TraesCS6B01G006900 chr6B 87.517 753 67 11 6189 6941 4555407 4554682 0.000000e+00 845
11 TraesCS6B01G006900 chr6B 86.747 747 61 18 6194 6939 4792211 4791502 0.000000e+00 797
12 TraesCS6B01G006900 chr6B 86.303 752 68 18 6194 6941 4534041 4533321 0.000000e+00 785
13 TraesCS6B01G006900 chr6B 86.994 692 53 9 2906 3581 4558472 4557802 0.000000e+00 745
14 TraesCS6B01G006900 chr6B 100.000 358 0 0 1 358 4562266 4561909 0.000000e+00 662
15 TraesCS6B01G006900 chr6B 85.646 627 43 6 1 584 4798710 4798088 3.560000e-172 616
16 TraesCS6B01G006900 chr6B 90.933 386 19 7 759 1139 4797727 4797353 8.030000e-139 505
17 TraesCS6B01G006900 chr6B 91.193 352 28 2 3231 3581 4536830 4536481 6.300000e-130 475
18 TraesCS6B01G006900 chr6B 93.373 166 9 1 421 584 4560982 4560817 1.930000e-60 244
19 TraesCS6B01G006900 chr6B 88.554 166 6 5 610 763 4797940 4797776 9.190000e-44 189
20 TraesCS6B01G006900 chr6B 83.871 186 18 2 2598 2775 4796165 4795984 4.310000e-37 167
21 TraesCS6B01G006900 chr6B 95.588 68 3 0 359 426 4561068 4561001 7.360000e-20 110
22 TraesCS6B01G006900 chr6D 89.523 2348 202 22 3849 6186 2070137 2072450 0.000000e+00 2933
23 TraesCS6B01G006900 chr6D 87.739 2357 203 30 3849 6186 2032821 2035110 0.000000e+00 2673
24 TraesCS6B01G006900 chr6D 87.643 1489 145 20 1308 2772 2067407 2068880 0.000000e+00 1694
25 TraesCS6B01G006900 chr6D 88.073 1308 118 22 871 2161 2029549 2030835 0.000000e+00 1517
26 TraesCS6B01G006900 chr6D 90.533 750 56 7 6194 6941 2072528 2073264 0.000000e+00 977
27 TraesCS6B01G006900 chr6D 88.842 717 60 6 2882 3581 2069345 2070058 0.000000e+00 863
28 TraesCS6B01G006900 chr6D 86.782 749 59 14 6194 6941 2035189 2035898 0.000000e+00 798
29 TraesCS6B01G006900 chr6D 87.129 707 76 7 2157 2854 2031022 2031722 0.000000e+00 787
30 TraesCS6B01G006900 chr6D 92.566 417 24 7 3169 3581 2032328 2032741 6.000000e-165 592
31 TraesCS6B01G006900 chr6D 91.365 359 29 2 1 358 2065881 2066238 2.250000e-134 490
32 TraesCS6B01G006900 chr6D 88.161 397 21 14 878 1270 2066957 2067331 3.820000e-122 449
33 TraesCS6B01G006900 chr6D 90.625 320 27 2 42 358 2028471 2028790 8.320000e-114 422
34 TraesCS6B01G006900 chr6D 92.265 181 14 0 3002 3182 2031790 2031970 2.480000e-64 257
35 TraesCS6B01G006900 chr6D 94.578 166 7 1 421 584 2066366 2066531 8.930000e-64 255
36 TraesCS6B01G006900 chr6D 93.706 143 9 0 610 752 2066591 2066733 1.520000e-51 215
37 TraesCS6B01G006900 chr6D 82.158 241 32 9 350 584 2028820 2029055 5.490000e-46 196
38 TraesCS6B01G006900 chr6D 93.590 78 5 0 759 836 2066785 2066862 4.400000e-22 117
39 TraesCS6B01G006900 chr6A 89.211 2345 220 19 3849 6186 822201 819883 0.000000e+00 2898
40 TraesCS6B01G006900 chr6A 87.202 2352 212 36 3849 6186 864568 862292 0.000000e+00 2593
41 TraesCS6B01G006900 chr6A 86.176 1577 156 28 1319 2870 866527 864988 0.000000e+00 1648
42 TraesCS6B01G006900 chr6A 88.304 855 88 7 1308 2156 824746 823898 0.000000e+00 1014
43 TraesCS6B01G006900 chr6A 89.037 748 70 7 6194 6941 862214 861479 0.000000e+00 917
44 TraesCS6B01G006900 chr6A 89.017 692 39 12 2909 3581 822951 822278 0.000000e+00 822
45 TraesCS6B01G006900 chr6A 86.490 681 72 11 2171 2846 823622 822957 0.000000e+00 730
46 TraesCS6B01G006900 chr6A 89.118 533 31 11 759 1275 825338 824817 7.590000e-179 638
47 TraesCS6B01G006900 chr6A 89.810 422 27 7 881 1291 867285 866869 1.710000e-145 527
48 TraesCS6B01G006900 chr6A 93.056 360 21 4 1 358 868717 868360 2.220000e-144 523
49 TraesCS6B01G006900 chr6A 86.842 456 26 9 6486 6941 819563 819142 4.870000e-131 479
50 TraesCS6B01G006900 chr6A 95.357 280 13 0 3302 3581 864923 864644 4.940000e-121 446
51 TraesCS6B01G006900 chr6A 90.291 206 19 1 1 205 827686 827481 1.150000e-67 268
52 TraesCS6B01G006900 chr6A 92.661 109 8 0 250 358 825813 825705 2.590000e-34 158
53 TraesCS6B01G006900 chr2D 83.594 1213 156 25 4953 6146 633681135 633682323 0.000000e+00 1098
54 TraesCS6B01G006900 chr2D 81.638 1111 171 19 3849 4945 633679114 633680205 0.000000e+00 891
55 TraesCS6B01G006900 chr2D 82.241 839 119 19 1228 2053 633675354 633676175 0.000000e+00 697
56 TraesCS6B01G006900 chr2D 84.096 459 45 13 760 1216 633674156 633674588 1.080000e-112 418
57 TraesCS6B01G006900 chr2D 82.526 475 56 17 3113 3576 633678579 633679037 6.530000e-105 392
58 TraesCS6B01G006900 chr2D 88.018 217 26 0 6725 6941 633682924 633683140 2.480000e-64 257
59 TraesCS6B01G006900 chr3A 81.958 848 119 23 5059 5886 581615672 581614839 0.000000e+00 688
60 TraesCS6B01G006900 chr3A 79.479 921 159 23 4973 5874 581848556 581847647 1.640000e-175 627
61 TraesCS6B01G006900 chr3A 83.514 552 83 7 5059 5606 581840858 581840311 6.210000e-140 508
62 TraesCS6B01G006900 chr3A 79.701 335 67 1 2402 2735 581842840 581842506 2.500000e-59 241
63 TraesCS6B01G006900 chr3D 83.163 588 84 12 5059 5639 441253360 441252781 2.220000e-144 523
64 TraesCS6B01G006900 chr3D 80.306 457 82 8 1488 1940 441158740 441158288 8.620000e-89 339
65 TraesCS6B01G006900 chr3D 88.043 276 22 10 3298 3564 441262217 441261944 4.040000e-82 316
66 TraesCS6B01G006900 chr3D 88.321 137 13 2 6807 6940 441183017 441182881 2.000000e-35 161
67 TraesCS6B01G006900 chr3D 80.233 172 23 7 1018 1181 441256416 441256248 1.220000e-22 119
68 TraesCS6B01G006900 chrUn 75.393 573 121 14 3920 4486 108221465 108220907 6.910000e-65 259
69 TraesCS6B01G006900 chr5D 82.414 290 29 10 1 268 547831382 547831093 4.190000e-57 233


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 TraesCS6B01G006900 chr6B 4579994 4586934 6940 True 6163.500000 6613 100.000000 1 6941 2 chr6B.!!$R3 6940
1 TraesCS6B01G006900 chr6B 4533321 4538785 5464 True 1547.500000 2610 88.234250 759 6941 4 chr6B.!!$R1 6182
2 TraesCS6B01G006900 chr6B 4554682 4562266 7584 True 944.125000 2379 90.662125 1 6941 8 chr6B.!!$R2 6940
3 TraesCS6B01G006900 chr6B 4791502 4798710 7208 True 912.750000 2798 87.303750 1 6939 8 chr6B.!!$R4 6938
4 TraesCS6B01G006900 chr6D 2028471 2035898 7427 False 905.250000 2673 88.417125 42 6941 8 chr6D.!!$F1 6899
5 TraesCS6B01G006900 chr6D 2065881 2073264 7383 False 888.111111 2933 90.882333 1 6941 9 chr6D.!!$F2 6940
6 TraesCS6B01G006900 chr6A 861479 868717 7238 True 1109.000000 2593 90.106333 1 6941 6 chr6A.!!$R2 6940
7 TraesCS6B01G006900 chr6A 819142 827686 8544 True 875.875000 2898 88.991750 1 6941 8 chr6A.!!$R1 6940
8 TraesCS6B01G006900 chr2D 633674156 633683140 8984 False 625.500000 1098 83.685500 760 6941 6 chr2D.!!$F1 6181
9 TraesCS6B01G006900 chr3A 581614839 581615672 833 True 688.000000 688 81.958000 5059 5886 1 chr3A.!!$R1 827
10 TraesCS6B01G006900 chr3A 581847647 581848556 909 True 627.000000 627 79.479000 4973 5874 1 chr3A.!!$R2 901
11 TraesCS6B01G006900 chr3A 581840311 581842840 2529 True 374.500000 508 81.607500 2402 5606 2 chr3A.!!$R3 3204
12 TraesCS6B01G006900 chr3D 441252781 441256416 3635 True 321.000000 523 81.698000 1018 5639 2 chr3D.!!$R4 4621
13 TraesCS6B01G006900 chrUn 108220907 108221465 558 True 259.000000 259 75.393000 3920 4486 1 chrUn.!!$R1 566

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
533 3024 1.003718 AGCCTCTTAACCACGTGGC 60.004 57.895 34.26 17.7 39.44 5.01 F
1577 5908 0.249868 GCTATACGCTGCCATCCACA 60.250 55.000 0.00 0.0 35.14 4.17 F
1778 6109 0.534412 CTCCGAGCAACTCCATGTCT 59.466 55.000 0.00 0.0 0.00 3.41 F
3221 10466 0.611062 TACACGGAGACACCCTGAGG 60.611 60.000 0.00 0.0 40.04 3.86 F
4110 11408 1.071542 TGCGAGTGGATTGAAAGGTGA 59.928 47.619 0.00 0.0 0.00 4.02 F
4641 12103 0.383949 TGTTTCTTTGGCGTGCCTTC 59.616 50.000 12.84 0.0 36.94 3.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1742 6073 0.880278 GAGCAACGGTGAGCACTTCA 60.880 55.000 3.55 0.0 0.00 3.02 R
2854 8246 0.923358 TTTGGGGGCCTACATAGTGG 59.077 55.000 0.84 0.0 0.00 4.00 R
3268 10515 1.678101 GAGGGCATCCTTTCCATTTCG 59.322 52.381 0.00 0.0 45.05 3.46 R
4621 12083 0.102300 AAGGCACGCCAAAGAAACAC 59.898 50.000 11.35 0.0 38.92 3.32 R
5571 14047 2.233431 CTCAGGGAGGAAGTCTGTTGAG 59.767 54.545 0.00 0.0 0.00 3.02 R
6619 15218 2.756760 ACTGCCTTAATGGTTGAGCATG 59.243 45.455 0.00 0.0 38.35 4.06 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
388 2853 1.745232 AATCGCGTGGGCTGATTAAA 58.255 45.000 5.77 0.00 39.14 1.52
446 2935 2.112998 ACGTTGGAGGGGATTCGAATA 58.887 47.619 11.38 0.00 0.00 1.75
448 2937 3.899360 ACGTTGGAGGGGATTCGAATATA 59.101 43.478 11.38 0.00 0.00 0.86
476 2967 1.301716 GTCTCGCAGCAAAGACCCA 60.302 57.895 12.15 0.00 36.69 4.51
484 2975 1.212751 GCAAAGACCCATCCAACGC 59.787 57.895 0.00 0.00 0.00 4.84
498 2989 6.329496 CCATCCAACGCAGTGTTTTATATTT 58.671 36.000 0.00 0.00 45.00 1.40
533 3024 1.003718 AGCCTCTTAACCACGTGGC 60.004 57.895 34.26 17.70 39.44 5.01
604 3095 9.985730 TTAATGATCATTGATTAAGAAATGCCC 57.014 29.630 27.59 4.05 34.44 5.36
605 3096 6.409524 TGATCATTGATTAAGAAATGCCCC 57.590 37.500 0.00 2.32 34.44 5.80
608 3099 6.164417 TCATTGATTAAGAAATGCCCCATG 57.836 37.500 7.65 0.00 34.44 3.66
671 3563 7.443259 TTGTTTGTCCTTTAACCTAGCATAC 57.557 36.000 0.00 0.00 0.00 2.39
697 3589 7.807433 CCAAACTGATTCAACGAAATATCAACA 59.193 33.333 0.00 0.00 0.00 3.33
720 3704 5.907197 TGTGCTTTCGCTATAGCTTATTC 57.093 39.130 21.98 9.19 38.22 1.75
722 3706 4.444720 GTGCTTTCGCTATAGCTTATTCGT 59.555 41.667 21.98 0.00 38.22 3.85
917 4105 1.142474 GCAAGCACTAAACCGTACGT 58.858 50.000 15.21 0.00 0.00 3.57
1119 4320 4.444306 CCTCCTTCTTCTGGTAACACAACA 60.444 45.833 0.00 0.00 46.17 3.33
1139 4341 7.119699 CACAACACATATCCTCTTAGCTTTTCA 59.880 37.037 0.00 0.00 0.00 2.69
1216 4424 2.967459 TGTGTTTACTTGAGCATGCG 57.033 45.000 13.01 0.00 0.00 4.73
1218 4426 3.073678 TGTGTTTACTTGAGCATGCGAT 58.926 40.909 13.01 0.00 0.00 4.58
1220 4428 4.693095 TGTGTTTACTTGAGCATGCGATTA 59.307 37.500 13.01 0.00 0.00 1.75
1221 4429 5.353956 TGTGTTTACTTGAGCATGCGATTAT 59.646 36.000 13.01 1.90 0.00 1.28
1222 4430 6.128035 TGTGTTTACTTGAGCATGCGATTATT 60.128 34.615 13.01 0.00 0.00 1.40
1224 4432 8.070171 GTGTTTACTTGAGCATGCGATTATTAT 58.930 33.333 13.01 0.00 0.00 1.28
1225 4433 8.282592 TGTTTACTTGAGCATGCGATTATTATC 58.717 33.333 13.01 1.95 0.00 1.75
1347 5672 6.778834 TGTTGGAGCACATGAAATTGATAT 57.221 33.333 0.00 0.00 0.00 1.63
1400 5731 3.320826 TCGACTGTGGATTGAGAAACAGA 59.679 43.478 8.54 0.00 42.09 3.41
1419 5750 2.628657 AGAAGTTCCTACAACGACAGCT 59.371 45.455 0.00 0.00 0.00 4.24
1577 5908 0.249868 GCTATACGCTGCCATCCACA 60.250 55.000 0.00 0.00 35.14 4.17
1580 5911 1.311859 ATACGCTGCCATCCACAATG 58.688 50.000 0.00 0.00 34.93 2.82
1597 5928 7.735917 TCCACAATGGGTAAGAAGTATCTATG 58.264 38.462 0.00 0.00 38.32 2.23
1677 6008 2.751806 CTCTTTCTGTTTGGGCTCCATC 59.248 50.000 0.00 0.00 31.53 3.51
1717 6048 5.476945 GGGATATGGTGAACTTGACAAACTT 59.523 40.000 0.00 0.00 0.00 2.66
1718 6049 6.349363 GGGATATGGTGAACTTGACAAACTTC 60.349 42.308 0.00 0.00 0.00 3.01
1726 6057 5.186797 TGAACTTGACAAACTTCAACCCAAT 59.813 36.000 5.77 0.00 32.02 3.16
1731 6062 2.102925 ACAAACTTCAACCCAATGGCTG 59.897 45.455 0.00 0.00 33.59 4.85
1735 6066 3.762247 CAACCCAATGGCTGCGGG 61.762 66.667 8.57 8.57 46.22 6.13
1742 6073 2.683465 AATGGCTGCGGGATGGAGT 61.683 57.895 0.00 0.00 38.50 3.85
1745 6076 2.268920 GCTGCGGGATGGAGTGAA 59.731 61.111 0.00 0.00 38.50 3.18
1778 6109 0.534412 CTCCGAGCAACTCCATGTCT 59.466 55.000 0.00 0.00 0.00 3.41
1890 6221 9.567776 TCAATACTTCTGTTTCAATCAACCTTA 57.432 29.630 0.00 0.00 0.00 2.69
1899 6230 7.751732 TGTTTCAATCAACCTTATTGATCGAG 58.248 34.615 2.78 0.00 41.62 4.04
2124 6501 4.081642 GTGATGAGTAGTCAGGGTTGCTAA 60.082 45.833 6.39 0.00 35.66 3.09
2140 6517 4.364415 TGCTAAATCCCGTACAAATTGC 57.636 40.909 0.00 0.00 0.00 3.56
2278 7136 1.686236 ACCCCTGGATGAACCTCAAT 58.314 50.000 0.00 0.00 39.86 2.57
2311 7169 2.003548 GGAGACCCTCCCTGGCAAT 61.004 63.158 1.60 0.00 44.36 3.56
2323 7184 4.079253 TCCCTGGCAATAACTTCTTCAAC 58.921 43.478 0.00 0.00 0.00 3.18
2424 7291 3.448686 CCAATGTAGACACTAAGAGCCG 58.551 50.000 0.00 0.00 0.00 5.52
2429 7296 0.612174 AGACACTAAGAGCCGGCAGA 60.612 55.000 31.54 9.44 0.00 4.26
2467 7334 0.911769 TTGCCGAGATCAATGGGAGT 59.088 50.000 0.00 0.00 0.00 3.85
2608 7475 2.687935 TGCAACCTTTCTCCTGAACAAC 59.312 45.455 0.00 0.00 31.02 3.32
2653 7520 0.728542 TGATCAACGCGTACGAGCTA 59.271 50.000 21.65 5.17 43.93 3.32
2692 7559 4.930696 TGGATAACCTCACTACTGACTCA 58.069 43.478 0.00 0.00 37.04 3.41
2729 7605 6.400409 GCTGATGTATATACTGCACGTTCATG 60.400 42.308 13.89 0.00 0.00 3.07
2750 7626 8.628882 TCATGACACACTTATCATTTAGTACG 57.371 34.615 0.00 0.00 33.18 3.67
2751 7627 8.248253 TCATGACACACTTATCATTTAGTACGT 58.752 33.333 0.00 0.00 33.18 3.57
2752 7628 9.511144 CATGACACACTTATCATTTAGTACGTA 57.489 33.333 0.00 0.00 33.18 3.57
2767 7643 8.998558 TTTAGTACGTATATGACAGATTCACG 57.001 34.615 0.00 4.30 36.92 4.35
2821 8213 2.360852 ACCTCCAGCTGCATGCAC 60.361 61.111 18.46 13.93 45.94 4.57
2822 8214 2.360726 CCTCCAGCTGCATGCACA 60.361 61.111 18.46 0.00 45.94 4.57
2823 8215 1.753078 CCTCCAGCTGCATGCACAT 60.753 57.895 18.46 5.01 45.94 3.21
2854 8246 6.619801 AAGAAATGTTAATGAGCGGGATAC 57.380 37.500 0.00 0.00 0.00 2.24
2881 8308 0.837272 TAGGCCCCCAAAGATTCTCG 59.163 55.000 0.00 0.00 0.00 4.04
2893 8320 4.559862 AAGATTCTCGACTCCATTTGGT 57.440 40.909 0.00 0.00 36.34 3.67
2897 8324 6.051717 AGATTCTCGACTCCATTTGGTATTG 58.948 40.000 0.00 0.00 36.34 1.90
2899 8326 4.755411 TCTCGACTCCATTTGGTATTGTC 58.245 43.478 0.00 1.75 36.34 3.18
2901 8328 4.250464 TCGACTCCATTTGGTATTGTCAC 58.750 43.478 0.00 0.00 36.34 3.67
2902 8329 3.062099 CGACTCCATTTGGTATTGTCACG 59.938 47.826 0.00 0.00 36.34 4.35
2905 8332 5.253330 ACTCCATTTGGTATTGTCACGATT 58.747 37.500 0.00 0.00 36.34 3.34
2907 8334 4.331443 TCCATTTGGTATTGTCACGATTCG 59.669 41.667 4.14 4.14 36.34 3.34
2999 8438 1.692173 ATTGCCAATGAGCCATGGCC 61.692 55.000 33.14 23.56 46.14 5.36
3030 8471 8.562892 CCATAGTTGAGGAATGAATTCATACAC 58.437 37.037 21.00 15.12 38.53 2.90
3083 9347 6.985645 ACTTGCATCTGAAATAACTTTGCAAA 59.014 30.769 12.14 12.14 38.90 3.68
3102 9366 5.186603 TGCAAATTGTTAATATGACCTGCCA 59.813 36.000 0.00 0.00 0.00 4.92
3186 10431 7.200434 ACTTCCAGTATACTTCATTCATGGT 57.800 36.000 1.56 0.00 0.00 3.55
3204 10449 8.418597 TTCATGGTAGGTATCTCCTTGTATAC 57.581 38.462 0.00 0.00 45.67 1.47
3217 10462 2.519771 TGTATACACGGAGACACCCT 57.480 50.000 0.08 0.00 34.64 4.34
3221 10466 0.611062 TACACGGAGACACCCTGAGG 60.611 60.000 0.00 0.00 40.04 3.86
3240 10487 5.912892 TGAGGAAATCCAAACCTTGAAAAC 58.087 37.500 1.67 0.00 38.89 2.43
3255 10502 8.850007 ACCTTGAAAACTAACCTCTATCTTTC 57.150 34.615 0.00 0.00 0.00 2.62
3268 10515 6.183360 ACCTCTATCTTTCGAAGTCCAATCTC 60.183 42.308 0.00 0.00 0.00 2.75
3361 10625 9.905713 ATAAGCCCTATAACCAACATATACATG 57.094 33.333 0.00 0.00 38.21 3.21
3451 10720 2.500229 ACCACTACAATTTGACACGGG 58.500 47.619 2.79 0.00 0.00 5.28
3520 10789 2.731976 GGTTTGACTTGCGACTACTCAG 59.268 50.000 0.00 0.00 0.00 3.35
3550 10819 5.147032 ACCAGAATCCAAGGATTGTTTCAA 58.853 37.500 18.52 0.00 46.99 2.69
3929 11220 5.801380 TGTTTCTTACCGGCTAAGATCTTT 58.199 37.500 14.36 0.00 40.53 2.52
4046 11343 6.143758 GTCAGCTCGATGAAATCACTAGATTC 59.856 42.308 0.00 0.00 45.97 2.52
4076 11374 6.265577 ACTTGTTGTAACATGAGTTGCTTTC 58.734 36.000 15.00 0.00 40.49 2.62
4110 11408 1.071542 TGCGAGTGGATTGAAAGGTGA 59.928 47.619 0.00 0.00 0.00 4.02
4126 11424 6.038161 TGAAAGGTGAATTAGCCGTATCATTG 59.962 38.462 0.00 0.00 0.00 2.82
4148 11446 9.281371 CATTGATGAACATGGTATCACTAGAAT 57.719 33.333 0.00 0.00 31.11 2.40
4151 11449 8.923270 TGATGAACATGGTATCACTAGAATACA 58.077 33.333 16.48 7.76 0.00 2.29
4225 11533 3.971245 TGTTGGCATATTTTTGACCCC 57.029 42.857 0.00 0.00 0.00 4.95
4236 11544 3.703001 TTTTGACCCCAAGCACAAAAA 57.297 38.095 0.00 0.00 38.61 1.94
4237 11545 2.682155 TTGACCCCAAGCACAAAAAC 57.318 45.000 0.00 0.00 0.00 2.43
4343 11659 9.923143 CTGAATGCATATTTGGTTGATGATATT 57.077 29.630 0.00 0.00 0.00 1.28
4352 11668 8.861033 ATTTGGTTGATGATATTGATTTCACG 57.139 30.769 0.00 0.00 0.00 4.35
4455 11771 3.511362 TCAGGCTGGTTTGCTTGAA 57.489 47.368 15.73 0.00 44.16 2.69
4468 11784 5.174943 GGTTTGCTTGAATTAAGGTTTGACG 59.825 40.000 0.00 0.00 36.87 4.35
4473 11789 4.481930 TGAATTAAGGTTTGACGTGCTG 57.518 40.909 0.00 0.00 0.00 4.41
4479 11795 2.846193 AGGTTTGACGTGCTGTATTGT 58.154 42.857 0.00 0.00 0.00 2.71
4487 11803 2.551887 ACGTGCTGTATTGTGCAATTCA 59.448 40.909 2.56 3.73 41.10 2.57
4634 12096 2.808244 ACACATTGTGTTTCTTTGGCG 58.192 42.857 16.62 0.00 45.08 5.69
4641 12103 0.383949 TGTTTCTTTGGCGTGCCTTC 59.616 50.000 12.84 0.00 36.94 3.46
4662 12125 2.095059 CCCAAACAAGAGCTACACATGC 60.095 50.000 0.00 0.00 0.00 4.06
4734 12238 5.450592 TGCATAAACTCTTGTCAAATGCA 57.549 34.783 13.72 13.72 40.18 3.96
4739 12248 7.756722 GCATAAACTCTTGTCAAATGCAACTAT 59.243 33.333 11.16 0.00 36.42 2.12
4742 12251 6.639632 ACTCTTGTCAAATGCAACTATGTT 57.360 33.333 0.00 0.00 0.00 2.71
4743 12252 6.441274 ACTCTTGTCAAATGCAACTATGTTG 58.559 36.000 6.12 6.12 0.00 3.33
4812 12325 8.116669 TGGTTCTTATTTATCCAAATGTACCCA 58.883 33.333 0.00 0.00 35.88 4.51
4813 12326 8.973182 GGTTCTTATTTATCCAAATGTACCCAA 58.027 33.333 0.00 0.00 35.88 4.12
4815 12328 9.762381 TTCTTATTTATCCAAATGTACCCAAGT 57.238 29.630 0.00 0.00 35.88 3.16
4818 12331 7.582667 ATTTATCCAAATGTACCCAAGTAGC 57.417 36.000 0.00 0.00 33.01 3.58
4819 12332 4.584638 ATCCAAATGTACCCAAGTAGCA 57.415 40.909 0.00 0.00 0.00 3.49
4820 12333 4.584638 TCCAAATGTACCCAAGTAGCAT 57.415 40.909 0.00 0.00 0.00 3.79
4821 12334 5.702065 TCCAAATGTACCCAAGTAGCATA 57.298 39.130 0.00 0.00 0.00 3.14
4822 12335 6.260700 TCCAAATGTACCCAAGTAGCATAT 57.739 37.500 0.00 0.00 0.00 1.78
4823 12336 7.381789 TCCAAATGTACCCAAGTAGCATATA 57.618 36.000 0.00 0.00 0.00 0.86
4824 12337 7.221450 TCCAAATGTACCCAAGTAGCATATAC 58.779 38.462 0.00 0.00 0.00 1.47
4825 12338 7.071950 TCCAAATGTACCCAAGTAGCATATACT 59.928 37.037 0.00 0.00 0.00 2.12
4826 12339 8.372459 CCAAATGTACCCAAGTAGCATATACTA 58.628 37.037 0.00 0.00 0.00 1.82
4827 12340 9.424319 CAAATGTACCCAAGTAGCATATACTAG 57.576 37.037 0.00 0.00 0.00 2.57
4828 12341 6.585695 TGTACCCAAGTAGCATATACTAGC 57.414 41.667 0.00 0.00 0.00 3.42
4829 12342 6.072649 TGTACCCAAGTAGCATATACTAGCA 58.927 40.000 0.00 0.00 0.00 3.49
4830 12343 6.724441 TGTACCCAAGTAGCATATACTAGCAT 59.276 38.462 0.00 0.00 0.00 3.79
4831 12344 6.287589 ACCCAAGTAGCATATACTAGCATC 57.712 41.667 0.00 0.00 0.00 3.91
4832 12345 6.019748 ACCCAAGTAGCATATACTAGCATCT 58.980 40.000 0.00 0.00 0.00 2.90
4833 12346 7.182760 ACCCAAGTAGCATATACTAGCATCTA 58.817 38.462 0.00 0.00 0.00 1.98
4894 12437 7.296628 ACATGAGAGGAAGATAATGACCTAC 57.703 40.000 0.00 0.00 32.53 3.18
4948 12493 6.599638 GCAGTCTGTTAATTTAGAGGTTGGAT 59.400 38.462 0.93 0.00 0.00 3.41
4982 13449 7.056844 AGAACTATTAGAGGGTTAGTCATGC 57.943 40.000 0.00 0.00 0.00 4.06
4990 13457 5.983540 AGAGGGTTAGTCATGCTAGAAAAG 58.016 41.667 0.00 0.00 0.00 2.27
5049 13516 9.035607 CGTTGTAGCTAATATGTTTGAGAGATT 57.964 33.333 0.00 0.00 0.00 2.40
5147 13618 6.473397 ACTGCTCAAATAAGAAGAAGAACG 57.527 37.500 0.00 0.00 0.00 3.95
5227 13698 9.445878 CTAGTATTGATGTGCATAATCTGGAAT 57.554 33.333 12.10 7.40 0.00 3.01
5287 13758 0.968405 TCCCCTTTCATTGCTGCAAC 59.032 50.000 18.51 0.00 0.00 4.17
5395 13871 6.127814 CCATGAGGATTATGCCATGTATGAAC 60.128 42.308 0.00 0.00 35.79 3.18
5436 13912 6.340522 TGTTGACATCAGACGATTCACATAT 58.659 36.000 0.00 0.00 0.00 1.78
5607 14084 4.607239 TCCCTGAGGTATAAGACGAAACT 58.393 43.478 0.00 0.00 0.00 2.66
5626 14105 6.128035 CGAAACTAACATGGTCAAATCATGGA 60.128 38.462 5.28 0.00 44.42 3.41
5716 14226 7.775397 ATAAATGCAATTGGCTTGTATGTTC 57.225 32.000 7.72 0.00 45.15 3.18
5728 14238 8.180706 TGGCTTGTATGTTCGGTAACTATATA 57.819 34.615 0.00 0.00 36.51 0.86
5869 14379 5.946942 TCTTCAACAGCTCATAAGAGGAT 57.053 39.130 0.00 0.00 42.33 3.24
5874 14384 5.645067 TCAACAGCTCATAAGAGGATGTTTG 59.355 40.000 0.00 0.00 42.33 2.93
5992 14505 7.749539 AATCAATAAATTTTAACCTTCGGCG 57.250 32.000 0.00 0.00 0.00 6.46
6008 14521 2.739913 TCGGCGAAACCTAAAATCAGTG 59.260 45.455 7.35 0.00 35.61 3.66
6054 14568 6.857437 AATTCAGGGTTTTAATTCCTCCAG 57.143 37.500 0.00 0.00 0.00 3.86
6061 14575 6.613679 AGGGTTTTAATTCCTCCAGAACAAAA 59.386 34.615 0.00 0.00 37.29 2.44
6082 14597 4.718940 AAACCAAAACAGACACCTTGAG 57.281 40.909 0.00 0.00 0.00 3.02
6088 14603 1.888215 ACAGACACCTTGAGCACATG 58.112 50.000 0.00 0.00 0.00 3.21
6190 14710 8.621532 TCATAGGAATGTCCATAAGTAAATGC 57.378 34.615 0.00 0.00 39.61 3.56
6192 14712 9.017509 CATAGGAATGTCCATAAGTAAATGCAT 57.982 33.333 0.00 0.00 39.61 3.96
6193 14713 7.902920 AGGAATGTCCATAAGTAAATGCATT 57.097 32.000 5.99 5.99 39.61 3.56
6222 14814 5.974108 TGCCTAGACTGTTATTGTTACTCC 58.026 41.667 0.00 0.00 0.00 3.85
6388 14986 4.744570 TGAGGAAAGCATAGTTACACTCG 58.255 43.478 0.00 0.00 0.00 4.18
6439 15038 2.479566 AAGCATCTTTCGAAGCCAGA 57.520 45.000 0.00 0.00 34.53 3.86
6586 15185 9.035607 TCTCGAATATCAAAGCTCAGTTTTATC 57.964 33.333 0.00 0.00 0.00 1.75
6660 15259 5.061311 GCAGTGTGCATAATTTGTTAGCTTG 59.939 40.000 0.00 0.00 44.26 4.01
6713 15323 1.988293 TAATTGTGGTGGTGGTGGTG 58.012 50.000 0.00 0.00 0.00 4.17
6714 15324 0.758685 AATTGTGGTGGTGGTGGTGG 60.759 55.000 0.00 0.00 0.00 4.61
6715 15325 1.943730 ATTGTGGTGGTGGTGGTGGT 61.944 55.000 0.00 0.00 0.00 4.16
6716 15326 2.518349 GTGGTGGTGGTGGTGGTG 60.518 66.667 0.00 0.00 0.00 4.17
6717 15327 3.814906 TGGTGGTGGTGGTGGTGG 61.815 66.667 0.00 0.00 0.00 4.61
6718 15328 3.816090 GGTGGTGGTGGTGGTGGT 61.816 66.667 0.00 0.00 0.00 4.16
6719 15329 2.518349 GTGGTGGTGGTGGTGGTG 60.518 66.667 0.00 0.00 0.00 4.17
6720 15330 3.814906 TGGTGGTGGTGGTGGTGG 61.815 66.667 0.00 0.00 0.00 4.61
6721 15331 3.816090 GGTGGTGGTGGTGGTGGT 61.816 66.667 0.00 0.00 0.00 4.16
6722 15332 2.518349 GTGGTGGTGGTGGTGGTG 60.518 66.667 0.00 0.00 0.00 4.17
6723 15333 3.814906 TGGTGGTGGTGGTGGTGG 61.815 66.667 0.00 0.00 0.00 4.61
6724 15334 3.816090 GGTGGTGGTGGTGGTGGT 61.816 66.667 0.00 0.00 0.00 4.16
6725 15335 2.453812 GGTGGTGGTGGTGGTGGTA 61.454 63.158 0.00 0.00 0.00 3.25
6726 15336 1.072505 GTGGTGGTGGTGGTGGTAG 59.927 63.158 0.00 0.00 0.00 3.18
6727 15337 1.384783 TGGTGGTGGTGGTGGTAGT 60.385 57.895 0.00 0.00 0.00 2.73
6728 15338 0.105090 TGGTGGTGGTGGTGGTAGTA 60.105 55.000 0.00 0.00 0.00 1.82
6729 15339 0.611714 GGTGGTGGTGGTGGTAGTAG 59.388 60.000 0.00 0.00 0.00 2.57
6730 15340 1.345063 GTGGTGGTGGTGGTAGTAGT 58.655 55.000 0.00 0.00 0.00 2.73
6838 15505 5.887598 TGCTATGCACATATCAAGGAACTTT 59.112 36.000 0.00 0.00 39.70 2.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
388 2853 4.774200 AGCCACTAAGCAAAGGATCATTTT 59.226 37.500 1.88 0.00 34.23 1.82
446 2935 0.176449 TGCGAGACATGTGCTGCTAT 59.824 50.000 1.15 0.00 0.00 2.97
448 2937 1.740664 CTGCGAGACATGTGCTGCT 60.741 57.895 1.15 0.00 0.00 4.24
476 2967 6.151985 TCCAAATATAAAACACTGCGTTGGAT 59.848 34.615 0.00 0.00 37.63 3.41
484 2975 7.328277 TCCGGAATCCAAATATAAAACACTG 57.672 36.000 0.00 0.00 0.00 3.66
498 2989 1.224315 CTGGTGCATCCGGAATCCA 59.776 57.895 9.01 13.63 45.09 3.41
533 3024 5.514204 CAGCAAAAAGACAGTCAAGTTGAAG 59.486 40.000 7.25 6.10 0.00 3.02
585 3076 5.662208 ACATGGGGCATTTCTTAATCAATGA 59.338 36.000 9.81 0.00 32.91 2.57
586 3077 5.756347 CACATGGGGCATTTCTTAATCAATG 59.244 40.000 0.00 3.41 34.09 2.82
587 3078 5.662208 TCACATGGGGCATTTCTTAATCAAT 59.338 36.000 0.00 0.00 0.00 2.57
588 3079 5.022122 TCACATGGGGCATTTCTTAATCAA 58.978 37.500 0.00 0.00 0.00 2.57
589 3080 4.608269 TCACATGGGGCATTTCTTAATCA 58.392 39.130 0.00 0.00 0.00 2.57
591 3082 5.426185 ACATTCACATGGGGCATTTCTTAAT 59.574 36.000 0.00 0.00 34.27 1.40
592 3083 4.776837 ACATTCACATGGGGCATTTCTTAA 59.223 37.500 0.00 0.00 34.27 1.85
595 3086 2.823959 ACATTCACATGGGGCATTTCT 58.176 42.857 0.00 0.00 34.27 2.52
597 3088 4.370094 AAAACATTCACATGGGGCATTT 57.630 36.364 0.00 0.00 34.27 2.32
598 3089 4.041938 AGAAAAACATTCACATGGGGCATT 59.958 37.500 0.00 0.00 34.27 3.56
600 3091 2.971330 AGAAAAACATTCACATGGGGCA 59.029 40.909 0.00 0.00 34.27 5.36
671 3563 7.807433 TGTTGATATTTCGTTGAATCAGTTTGG 59.193 33.333 0.00 0.00 30.53 3.28
720 3704 1.497278 CAACCATGCAACTCGGACG 59.503 57.895 0.00 0.00 0.00 4.79
739 3735 0.655733 AGGAACACGTGCGTTTTGAG 59.344 50.000 17.22 0.00 0.00 3.02
876 4064 0.758734 CCCATGACTTGGCCTCGATA 59.241 55.000 3.32 0.00 44.97 2.92
1119 4320 7.398024 ACAACTGAAAAGCTAAGAGGATATGT 58.602 34.615 0.00 0.00 0.00 2.29
1139 4341 7.363968 GCTTAAAGGACTGTAGGATCTACAACT 60.364 40.741 8.80 5.43 0.00 3.16
1224 4432 7.446931 TGGATGTTCAAATTACTGTAAAGCTGA 59.553 33.333 4.11 5.17 0.00 4.26
1225 4433 7.592938 TGGATGTTCAAATTACTGTAAAGCTG 58.407 34.615 4.11 3.01 0.00 4.24
1262 5224 1.478510 GCACTGGCTACTCAGAAGCTA 59.521 52.381 0.00 0.00 39.97 3.32
1275 5237 0.392193 ATCACTAGCTGTGCACTGGC 60.392 55.000 23.15 22.32 45.81 4.85
1400 5731 2.288886 GGAGCTGTCGTTGTAGGAACTT 60.289 50.000 0.00 0.00 41.75 2.66
1419 5750 1.259142 TTGAATCGTAGCCCGGTGGA 61.259 55.000 0.00 0.00 37.11 4.02
1577 5908 7.038658 GCTCTCCATAGATACTTCTTACCCATT 60.039 40.741 0.00 0.00 33.17 3.16
1580 5911 5.186215 GGCTCTCCATAGATACTTCTTACCC 59.814 48.000 0.00 0.00 33.17 3.69
1677 6008 2.018542 TCCCAGAAATTAACGCCGAG 57.981 50.000 0.00 0.00 0.00 4.63
1726 6057 4.100084 CACTCCATCCCGCAGCCA 62.100 66.667 0.00 0.00 0.00 4.75
1731 6062 2.109126 GCACTTCACTCCATCCCGC 61.109 63.158 0.00 0.00 0.00 6.13
1742 6073 0.880278 GAGCAACGGTGAGCACTTCA 60.880 55.000 3.55 0.00 0.00 3.02
1745 6076 2.031163 GGAGCAACGGTGAGCACT 59.969 61.111 3.55 0.00 0.00 4.40
1778 6109 2.158871 ACCGAAGTTTACCAAGCAGACA 60.159 45.455 0.00 0.00 0.00 3.41
1890 6221 4.879197 TGCCATATCTGACTCGATCAAT 57.121 40.909 0.00 0.00 36.69 2.57
1899 6230 2.545526 CGGTGATGTTGCCATATCTGAC 59.454 50.000 0.00 0.00 0.00 3.51
1925 6256 2.240667 CCCCTCATCTCACCTTGTGATT 59.759 50.000 0.00 0.00 41.94 2.57
2097 6474 4.332683 ACCCTGACTACTCATCACCTTA 57.667 45.455 0.00 0.00 0.00 2.69
2124 6501 5.968528 TTACTTGCAATTTGTACGGGATT 57.031 34.783 0.00 0.00 0.00 3.01
2140 6517 4.023536 ACGGTACAGTTTGGCATTTACTTG 60.024 41.667 0.00 0.00 0.00 3.16
2240 7095 3.259876 GGGTAGTCTGTGGTGTGATTGTA 59.740 47.826 0.00 0.00 0.00 2.41
2278 7136 5.596763 AGGGTCTCCACTTTATTGGTAGTA 58.403 41.667 0.00 0.00 37.93 1.82
2311 7169 4.022068 ACCGACGGTATGTTGAAGAAGTTA 60.022 41.667 20.23 0.00 32.11 2.24
2323 7184 1.139989 GCATGATGACCGACGGTATG 58.860 55.000 21.79 20.05 35.25 2.39
2356 7217 4.346730 TCCCGGAGTAGTTCATGTCTAAA 58.653 43.478 0.73 0.00 0.00 1.85
2424 7291 3.379688 GTGAAAGATTGGGAGAATCTGCC 59.620 47.826 14.29 14.29 42.53 4.85
2429 7296 4.221482 GGCAAAGTGAAAGATTGGGAGAAT 59.779 41.667 0.00 0.00 0.00 2.40
2608 7475 4.363990 AGTGTCGAGCTGCCCGTG 62.364 66.667 2.92 0.00 0.00 4.94
2653 7520 2.662866 TCCATCCGAACGAGGAAGTAT 58.337 47.619 0.00 0.00 44.50 2.12
2749 7625 5.281609 CGATCACGTGAATCTGTCATATACG 59.718 44.000 24.13 8.24 38.90 3.06
2750 7626 6.604029 CGATCACGTGAATCTGTCATATAC 57.396 41.667 24.13 0.73 38.90 1.47
2767 7643 6.489675 ACTGAATAAATTGCATCACGATCAC 58.510 36.000 0.00 0.00 0.00 3.06
2823 8215 9.781834 CCGCTCATTAACATTTCTTTATAAACA 57.218 29.630 0.00 0.00 0.00 2.83
2846 8238 1.067071 GCCTACATAGTGGTATCCCGC 60.067 57.143 0.00 0.00 41.87 6.13
2854 8246 0.923358 TTTGGGGGCCTACATAGTGG 59.077 55.000 0.84 0.00 0.00 4.00
2881 8308 4.250464 TCGTGACAATACCAAATGGAGTC 58.750 43.478 6.42 8.81 38.94 3.36
2893 8320 6.656314 ACTTTAATGCGAATCGTGACAATA 57.344 33.333 4.07 0.00 0.00 1.90
2897 8324 5.697848 ACTACTTTAATGCGAATCGTGAC 57.302 39.130 4.07 0.00 0.00 3.67
2899 8326 7.445900 TTCTACTACTTTAATGCGAATCGTG 57.554 36.000 4.07 0.00 0.00 4.35
2901 8328 7.891782 TGTTTCTACTACTTTAATGCGAATCG 58.108 34.615 0.00 0.00 0.00 3.34
2902 8329 9.690434 CTTGTTTCTACTACTTTAATGCGAATC 57.310 33.333 0.00 0.00 0.00 2.52
2905 8332 8.597662 AACTTGTTTCTACTACTTTAATGCGA 57.402 30.769 0.00 0.00 0.00 5.10
2961 8400 5.068591 GGCAATTTGACCTTTATATTCCGGT 59.931 40.000 0.00 0.00 0.00 5.28
2999 8438 7.337689 TGAATTCATTCCTCAACTATGGTCTTG 59.662 37.037 3.38 0.00 35.97 3.02
3083 9347 6.772716 CCTAAGTGGCAGGTCATATTAACAAT 59.227 38.462 0.00 0.00 0.00 2.71
3102 9366 1.912043 AGCATCTCCAACAGCCTAAGT 59.088 47.619 0.00 0.00 0.00 2.24
3167 10039 9.862371 GATACCTACCATGAATGAAGTATACTG 57.138 37.037 6.06 0.00 0.00 2.74
3217 10462 5.660864 AGTTTTCAAGGTTTGGATTTCCTCA 59.339 36.000 0.00 0.00 36.82 3.86
3221 10466 7.497595 AGGTTAGTTTTCAAGGTTTGGATTTC 58.502 34.615 0.00 0.00 0.00 2.17
3240 10487 6.452494 TGGACTTCGAAAGATAGAGGTTAG 57.548 41.667 0.00 0.00 41.60 2.34
3255 10502 3.521560 TCCATTTCGAGATTGGACTTCG 58.478 45.455 8.49 0.00 33.86 3.79
3268 10515 1.678101 GAGGGCATCCTTTCCATTTCG 59.322 52.381 0.00 0.00 45.05 3.46
3520 10789 2.026822 TCCTTGGATTCTGGTTGCTCTC 60.027 50.000 0.00 0.00 0.00 3.20
3881 11171 7.004555 TGACCAAGTGTCTGTATAGTGAAAT 57.995 36.000 0.00 0.00 44.75 2.17
4046 11343 7.535258 GCAACTCATGTTACAACAAGTTCTATG 59.465 37.037 8.52 2.41 43.03 2.23
4110 11408 7.308770 CCATGTTCATCAATGATACGGCTAATT 60.309 37.037 0.00 0.00 36.56 1.40
4126 11424 9.935241 ATGTATTCTAGTGATACCATGTTCATC 57.065 33.333 13.00 0.00 0.00 2.92
4174 11472 8.495148 CGCAATAAGTGTGTAGCATATCATAAA 58.505 33.333 0.00 0.00 32.74 1.40
4176 11474 7.375053 TCGCAATAAGTGTGTAGCATATCATA 58.625 34.615 0.00 0.00 38.94 2.15
4188 11486 4.734854 GCCAACATAATCGCAATAAGTGTG 59.265 41.667 0.00 0.00 39.24 3.82
4366 11682 8.611757 GTTTGACAAGTTGCTGGAAAATAATTT 58.388 29.630 1.81 0.00 0.00 1.82
4367 11683 7.768120 TGTTTGACAAGTTGCTGGAAAATAATT 59.232 29.630 1.81 0.00 0.00 1.40
4455 11771 5.472137 ACAATACAGCACGTCAAACCTTAAT 59.528 36.000 0.00 0.00 0.00 1.40
4468 11784 5.162794 TCAATGAATTGCACAATACAGCAC 58.837 37.500 0.00 0.00 41.05 4.40
4513 11961 2.558359 AGCCTATTGGTGTGTTTTCAGC 59.442 45.455 0.00 0.00 36.52 4.26
4516 11965 4.546570 GTTGAGCCTATTGGTGTGTTTTC 58.453 43.478 0.00 0.00 35.27 2.29
4621 12083 0.102300 AAGGCACGCCAAAGAAACAC 59.898 50.000 11.35 0.00 38.92 3.32
4626 12088 2.282180 GGGAAGGCACGCCAAAGA 60.282 61.111 11.35 0.00 38.92 2.52
4634 12096 0.315251 GCTCTTGTTTGGGAAGGCAC 59.685 55.000 0.00 0.00 0.00 5.01
4641 12103 2.095059 GCATGTGTAGCTCTTGTTTGGG 60.095 50.000 0.00 0.00 0.00 4.12
4662 12125 3.133691 TGCTGCACAAGTAGAAAGTGAG 58.866 45.455 0.00 0.00 35.33 3.51
4734 12238 1.133637 TGGGTGCCACACAACATAGTT 60.134 47.619 0.00 0.00 37.92 2.24
4739 12248 1.959985 CTAATTGGGTGCCACACAACA 59.040 47.619 15.96 5.21 45.29 3.33
4742 12251 1.133637 ACACTAATTGGGTGCCACACA 60.134 47.619 0.00 0.00 38.14 3.72
4743 12252 1.269448 CACACTAATTGGGTGCCACAC 59.731 52.381 11.57 0.00 43.76 3.82
4786 12295 8.116669 TGGGTACATTTGGATAAATAAGAACCA 58.883 33.333 0.00 0.00 34.81 3.67
4787 12296 8.528044 TGGGTACATTTGGATAAATAAGAACC 57.472 34.615 0.00 0.00 34.81 3.62
4816 12329 9.961264 TGTAGTTACTAGATGCTAGTATATGCT 57.039 33.333 13.36 0.00 30.99 3.79
4860 12403 1.205655 TCCTCTCATGTTGAAGGCTCG 59.794 52.381 0.00 0.00 30.16 5.03
4894 12437 5.694231 TTCAAATCGCATCCCATTATGAG 57.306 39.130 0.00 0.00 0.00 2.90
4948 12493 9.725206 AACCCTCTAATAGTTCTTATAAGGACA 57.275 33.333 23.16 11.37 36.97 4.02
4982 13449 8.265055 TGATTGTAACATACCTCCCTTTTCTAG 58.735 37.037 0.00 0.00 0.00 2.43
5015 13482 5.535406 ACATATTAGCTACAACGGCTCTACT 59.465 40.000 0.00 0.00 40.74 2.57
5068 13538 5.739935 GCCTTCCAATCTTGTGACACAAATT 60.740 40.000 20.91 18.20 37.69 1.82
5287 13758 9.743057 TTGTTGTTTCATGTCTACCTATTTTTG 57.257 29.630 0.00 0.00 0.00 2.44
5395 13871 4.455877 GTCAACATGTAGGGAAGTTTCCTG 59.544 45.833 13.55 0.00 46.72 3.86
5571 14047 2.233431 CTCAGGGAGGAAGTCTGTTGAG 59.767 54.545 0.00 0.00 0.00 3.02
5599 14076 6.236017 TGATTTGACCATGTTAGTTTCGTC 57.764 37.500 0.00 0.00 0.00 4.20
5607 14084 7.614974 TGAAGAATCCATGATTTGACCATGTTA 59.385 33.333 0.00 0.00 39.66 2.41
5688 14176 7.434897 ACATACAAGCCAATTGCATTTATTACG 59.565 33.333 0.00 0.00 43.15 3.18
6061 14575 3.119137 GCTCAAGGTGTCTGTTTTGGTTT 60.119 43.478 0.00 0.00 0.00 3.27
6082 14597 4.097892 CCAAGGGTTAATTAGACCATGTGC 59.902 45.833 14.70 0.00 38.98 4.57
6088 14603 6.256643 TGTATCCCAAGGGTTAATTAGACC 57.743 41.667 4.80 7.79 36.47 3.85
6164 14684 9.236006 GCATTTACTTATGGACATTCCTATGAT 57.764 33.333 0.00 0.00 37.46 2.45
6165 14685 8.217111 TGCATTTACTTATGGACATTCCTATGA 58.783 33.333 0.00 0.00 37.46 2.15
6166 14686 8.394971 TGCATTTACTTATGGACATTCCTATG 57.605 34.615 0.00 0.00 37.46 2.23
6167 14687 9.592196 AATGCATTTACTTATGGACATTCCTAT 57.408 29.630 5.99 0.00 37.46 2.57
6168 14688 8.995027 AATGCATTTACTTATGGACATTCCTA 57.005 30.769 5.99 0.00 37.46 2.94
6169 14689 7.902920 AATGCATTTACTTATGGACATTCCT 57.097 32.000 5.99 0.00 37.46 3.36
6171 14691 9.241317 CTCAAATGCATTTACTTATGGACATTC 57.759 33.333 23.69 0.00 0.00 2.67
6172 14692 8.752187 ACTCAAATGCATTTACTTATGGACATT 58.248 29.630 23.69 0.00 0.00 2.71
6222 14814 4.853196 CACCAACTCAAATGCATTTACTCG 59.147 41.667 23.69 12.04 0.00 4.18
6276 14869 7.290248 TGCATCTAAGGCCTTACTTCTTACTAT 59.710 37.037 21.68 0.00 32.02 2.12
6298 14891 4.261741 GGTTGTGACTTCAAGAATGTGCAT 60.262 41.667 0.00 0.00 0.00 3.96
6439 15038 9.853177 TTTCCTCTAGAGTTGATTTCTTTCTTT 57.147 29.630 18.42 0.00 0.00 2.52
6530 15129 4.279169 TGATGCTTTTCCTTCTCTTTGTGG 59.721 41.667 0.00 0.00 0.00 4.17
6619 15218 2.756760 ACTGCCTTAATGGTTGAGCATG 59.243 45.455 0.00 0.00 38.35 4.06
6698 15297 3.018193 ACCACCACCACCACCACA 61.018 61.111 0.00 0.00 0.00 4.17
6713 15323 2.812658 ACTACTACTACCACCACCACC 58.187 52.381 0.00 0.00 0.00 4.61
6714 15324 4.593956 ACTACTACTACTACCACCACCAC 58.406 47.826 0.00 0.00 0.00 4.16
6715 15325 4.934797 ACTACTACTACTACCACCACCA 57.065 45.455 0.00 0.00 0.00 4.17
6716 15326 5.012893 ACAACTACTACTACTACCACCACC 58.987 45.833 0.00 0.00 0.00 4.61
6717 15327 5.105997 CCACAACTACTACTACTACCACCAC 60.106 48.000 0.00 0.00 0.00 4.16
6718 15328 5.012239 CCACAACTACTACTACTACCACCA 58.988 45.833 0.00 0.00 0.00 4.17
6719 15329 5.012893 ACCACAACTACTACTACTACCACC 58.987 45.833 0.00 0.00 0.00 4.61
6720 15330 6.015940 ACAACCACAACTACTACTACTACCAC 60.016 42.308 0.00 0.00 0.00 4.16
6721 15331 6.070656 ACAACCACAACTACTACTACTACCA 58.929 40.000 0.00 0.00 0.00 3.25
6722 15332 6.581171 ACAACCACAACTACTACTACTACC 57.419 41.667 0.00 0.00 0.00 3.18
6723 15333 8.233190 CACTACAACCACAACTACTACTACTAC 58.767 40.741 0.00 0.00 0.00 2.73
6724 15334 7.391554 CCACTACAACCACAACTACTACTACTA 59.608 40.741 0.00 0.00 0.00 1.82
6725 15335 6.208204 CCACTACAACCACAACTACTACTACT 59.792 42.308 0.00 0.00 0.00 2.57
6726 15336 6.015940 ACCACTACAACCACAACTACTACTAC 60.016 42.308 0.00 0.00 0.00 2.73
6727 15337 6.016024 CACCACTACAACCACAACTACTACTA 60.016 42.308 0.00 0.00 0.00 1.82
6728 15338 4.897670 ACCACTACAACCACAACTACTACT 59.102 41.667 0.00 0.00 0.00 2.57
6729 15339 4.986659 CACCACTACAACCACAACTACTAC 59.013 45.833 0.00 0.00 0.00 2.73
6730 15340 4.039488 CCACCACTACAACCACAACTACTA 59.961 45.833 0.00 0.00 0.00 1.82
6838 15505 9.196552 CTGCATCAAGACATACGAGATTATTAA 57.803 33.333 0.00 0.00 0.00 1.40
6841 15508 6.015095 TCCTGCATCAAGACATACGAGATTAT 60.015 38.462 0.00 0.00 0.00 1.28
6853 15521 3.540314 AGTCATCTCCTGCATCAAGAC 57.460 47.619 0.00 0.00 0.00 3.01


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

AutoCloner maintained by Alex Coulton.