Multiple sequence alignment - TraesCS3D01G477900

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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 TraesCS3D01G477900 chr3D 100.000 2693 0 0 1 2693 577753800 577751108 0.000000e+00 4974.0
1 TraesCS3D01G477900 chr3D 94.147 1606 88 6 797 2398 577779877 577778274 0.000000e+00 2440.0
2 TraesCS3D01G477900 chr3D 91.623 1134 66 7 765 1876 577669002 577667876 0.000000e+00 1541.0
3 TraesCS3D01G477900 chr3D 84.294 1649 175 37 797 2398 578040812 578042423 0.000000e+00 1533.0
4 TraesCS3D01G477900 chr3D 86.963 652 65 8 3 635 193216695 193217345 0.000000e+00 715.0
5 TraesCS3D01G477900 chr3D 92.944 496 25 3 1 496 577673176 577672691 0.000000e+00 713.0
6 TraesCS3D01G477900 chr3D 90.942 276 11 5 493 768 577669385 577669124 2.550000e-95 359.0
7 TraesCS3D01G477900 chr3D 74.463 419 84 17 1963 2370 501416331 501416737 2.780000e-35 159.0
8 TraesCS3D01G477900 chr3D 88.800 125 8 1 676 794 577780164 577780040 6.010000e-32 148.0
9 TraesCS3D01G477900 chr3D 88.000 125 8 2 676 794 578040525 578040648 1.010000e-29 141.0
10 TraesCS3D01G477900 chr3B 84.490 1657 179 37 797 2398 770964974 770963341 0.000000e+00 1565.0
11 TraesCS3D01G477900 chr3B 90.428 1097 87 12 797 1876 771241744 771242839 0.000000e+00 1428.0
12 TraesCS3D01G477900 chr3B 90.429 909 57 10 797 1694 771178210 771179099 0.000000e+00 1170.0
13 TraesCS3D01G477900 chr3B 97.826 46 0 1 683 728 771177920 771177964 7.990000e-11 78.7
14 TraesCS3D01G477900 chr3A 88.406 1242 91 17 681 1876 713308631 713307397 0.000000e+00 1447.0
15 TraesCS3D01G477900 chr3A 86.616 919 89 11 988 1876 713342779 713341865 0.000000e+00 985.0
16 TraesCS3D01G477900 chr3A 89.542 612 50 5 797 1398 713418378 713417771 0.000000e+00 763.0
17 TraesCS3D01G477900 chr3A 85.377 424 51 3 227 640 86080109 86080531 1.920000e-116 429.0
18 TraesCS3D01G477900 chr3A 82.729 469 58 4 1430 1875 713417772 713417304 1.940000e-106 396.0
19 TraesCS3D01G477900 chr3A 86.780 295 24 10 2400 2693 720439555 720439275 5.600000e-82 315.0
20 TraesCS3D01G477900 chr3A 81.613 310 48 7 1877 2185 713417253 713416952 5.760000e-62 248.0
21 TraesCS3D01G477900 chr3A 90.756 119 5 1 682 794 713419079 713418961 1.290000e-33 154.0
22 TraesCS3D01G477900 chr5D 88.855 655 50 9 1 635 490718258 490718909 0.000000e+00 784.0
23 TraesCS3D01G477900 chr5D 86.923 650 47 10 1 635 352175188 352174562 0.000000e+00 695.0
24 TraesCS3D01G477900 chr5D 84.405 622 60 17 1 586 236867075 236866455 6.470000e-161 577.0
25 TraesCS3D01G477900 chr5D 74.054 185 43 5 1904 2085 414812545 414812727 1.340000e-08 71.3
26 TraesCS3D01G477900 chr2D 87.957 656 57 5 1 635 406418193 406417539 0.000000e+00 754.0
27 TraesCS3D01G477900 chr2D 85.163 492 53 10 11 484 232635669 232635180 1.120000e-133 486.0
28 TraesCS3D01G477900 chr2D 82.292 288 43 8 2402 2686 37867813 37867531 2.680000e-60 243.0
29 TraesCS3D01G477900 chr2D 97.143 35 0 1 2212 2245 639978638 639978604 1.040000e-04 58.4
30 TraesCS3D01G477900 chr4D 86.503 652 69 6 2 635 224999210 224998560 0.000000e+00 699.0
31 TraesCS3D01G477900 chr4A 85.650 669 56 11 1 636 708006650 708007311 0.000000e+00 667.0
32 TraesCS3D01G477900 chr4A 86.944 360 44 2 1 359 710109957 710110314 4.180000e-108 401.0
33 TraesCS3D01G477900 chr7B 83.383 668 70 15 1 635 284261445 284262104 5.000000e-162 580.0
34 TraesCS3D01G477900 chr7B 82.563 671 81 15 1 635 311459182 311459852 2.340000e-155 558.0
35 TraesCS3D01G477900 chr7B 73.445 418 87 14 1916 2324 728071811 728071409 4.680000e-28 135.0
36 TraesCS3D01G477900 chr1B 83.134 670 78 18 1 635 608945249 608945918 1.800000e-161 579.0
37 TraesCS3D01G477900 chr5B 81.832 666 90 19 1 639 272699239 272698578 5.110000e-147 531.0
38 TraesCS3D01G477900 chr5A 86.588 425 47 5 223 637 684429674 684429250 6.790000e-126 460.0
39 TraesCS3D01G477900 chr6B 86.486 407 43 5 241 635 663010006 663009600 1.140000e-118 436.0
40 TraesCS3D01G477900 chr6D 90.390 333 29 3 1 332 230426282 230425952 4.120000e-118 435.0
41 TraesCS3D01G477900 chr6D 82.639 288 42 8 2402 2686 156816524 156816242 5.760000e-62 248.0
42 TraesCS3D01G477900 chr6D 90.698 43 4 0 1967 2009 5879005 5879047 1.040000e-04 58.4
43 TraesCS3D01G477900 chr7D 88.081 344 29 6 1 334 365138769 365139110 5.400000e-107 398.0
44 TraesCS3D01G477900 chr7D 82.034 295 44 9 2400 2690 422208963 422209252 2.680000e-60 243.0
45 TraesCS3D01G477900 chr7D 81.882 287 48 4 2402 2687 162170512 162170795 3.470000e-59 239.0
46 TraesCS3D01G477900 chr7D 94.059 101 6 0 1 101 610672461 610672561 1.290000e-33 154.0
47 TraesCS3D01G477900 chr1D 81.911 293 49 4 2402 2693 12287378 12287089 7.450000e-61 244.0
48 TraesCS3D01G477900 chr1A 82.847 274 43 4 2402 2674 551179685 551179415 2.680000e-60 243.0
49 TraesCS3D01G477900 chr1A 82.545 275 42 6 2402 2674 287576552 287576822 1.250000e-58 237.0
50 TraesCS3D01G477900 chr2A 81.145 297 48 8 2397 2691 378839409 378839699 5.800000e-57 231.0
51 TraesCS3D01G477900 chr2A 75.168 149 28 5 2212 2358 765591557 765591416 8.050000e-06 62.1
52 TraesCS3D01G477900 chr2B 79.195 149 28 3 2155 2301 789858186 789858039 1.710000e-17 100.0


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 TraesCS3D01G477900 chr3D 577751108 577753800 2692 True 4974.00 4974 100.000000 1 2693 1 chr3D.!!$R1 2692
1 TraesCS3D01G477900 chr3D 577778274 577780164 1890 True 1294.00 2440 91.473500 676 2398 2 chr3D.!!$R3 1722
2 TraesCS3D01G477900 chr3D 577667876 577673176 5300 True 871.00 1541 91.836333 1 1876 3 chr3D.!!$R2 1875
3 TraesCS3D01G477900 chr3D 578040525 578042423 1898 False 837.00 1533 86.147000 676 2398 2 chr3D.!!$F3 1722
4 TraesCS3D01G477900 chr3D 193216695 193217345 650 False 715.00 715 86.963000 3 635 1 chr3D.!!$F1 632
5 TraesCS3D01G477900 chr3B 770963341 770964974 1633 True 1565.00 1565 84.490000 797 2398 1 chr3B.!!$R1 1601
6 TraesCS3D01G477900 chr3B 771241744 771242839 1095 False 1428.00 1428 90.428000 797 1876 1 chr3B.!!$F1 1079
7 TraesCS3D01G477900 chr3B 771177920 771179099 1179 False 624.35 1170 94.127500 683 1694 2 chr3B.!!$F2 1011
8 TraesCS3D01G477900 chr3A 713307397 713308631 1234 True 1447.00 1447 88.406000 681 1876 1 chr3A.!!$R1 1195
9 TraesCS3D01G477900 chr3A 713341865 713342779 914 True 985.00 985 86.616000 988 1876 1 chr3A.!!$R2 888
10 TraesCS3D01G477900 chr3A 713416952 713419079 2127 True 390.25 763 86.160000 682 2185 4 chr3A.!!$R4 1503
11 TraesCS3D01G477900 chr5D 490718258 490718909 651 False 784.00 784 88.855000 1 635 1 chr5D.!!$F2 634
12 TraesCS3D01G477900 chr5D 352174562 352175188 626 True 695.00 695 86.923000 1 635 1 chr5D.!!$R2 634
13 TraesCS3D01G477900 chr5D 236866455 236867075 620 True 577.00 577 84.405000 1 586 1 chr5D.!!$R1 585
14 TraesCS3D01G477900 chr2D 406417539 406418193 654 True 754.00 754 87.957000 1 635 1 chr2D.!!$R3 634
15 TraesCS3D01G477900 chr4D 224998560 224999210 650 True 699.00 699 86.503000 2 635 1 chr4D.!!$R1 633
16 TraesCS3D01G477900 chr4A 708006650 708007311 661 False 667.00 667 85.650000 1 636 1 chr4A.!!$F1 635
17 TraesCS3D01G477900 chr7B 284261445 284262104 659 False 580.00 580 83.383000 1 635 1 chr7B.!!$F1 634
18 TraesCS3D01G477900 chr7B 311459182 311459852 670 False 558.00 558 82.563000 1 635 1 chr7B.!!$F2 634
19 TraesCS3D01G477900 chr1B 608945249 608945918 669 False 579.00 579 83.134000 1 635 1 chr1B.!!$F1 634
20 TraesCS3D01G477900 chr5B 272698578 272699239 661 True 531.00 531 81.832000 1 639 1 chr5B.!!$R1 638

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
283 328 1.645402 AACCTGTGCAACCTGGGAGT 61.645 55.0 0.00 0.0 34.37 3.85 F
1210 5364 0.103572 GGCGTACGAAATGCTAGGGA 59.896 55.0 21.65 0.0 40.23 4.20 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1250 5404 0.607217 TGGTCGGAGCTCGTAGTCAA 60.607 55.0 7.83 0.0 40.32 3.18 R
2398 6649 0.102481 ACGCACGGGCATTCTACTAG 59.898 55.0 11.77 0.0 41.24 2.57 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
41 42 7.031372 TGAACTCCGTGAAACTATGTATGTAC 58.969 38.462 0.00 0.00 31.75 2.90
283 328 1.645402 AACCTGTGCAACCTGGGAGT 61.645 55.000 0.00 0.00 34.37 3.85
415 503 4.752146 GTTAGCCACCTAACGTGACTAAT 58.248 43.478 2.66 0.00 45.54 1.73
517 3916 3.549221 CGGCAAAGAACATGTTTACCGTT 60.549 43.478 13.36 1.91 38.49 4.44
650 4049 5.415077 CCTGTAGTGTATATTCCCGGTAGAG 59.585 48.000 0.00 0.00 0.00 2.43
760 4174 5.106118 GGGCCTTTGAGAAGAAGAATGTTAC 60.106 44.000 0.84 0.00 34.71 2.50
958 5109 9.668497 ATTTCCTATTAACTTTGGTGAGTACTC 57.332 33.333 16.32 16.32 0.00 2.59
1210 5364 0.103572 GGCGTACGAAATGCTAGGGA 59.896 55.000 21.65 0.00 40.23 4.20
1224 5378 1.827969 CTAGGGAGATATGGCTTCCCG 59.172 57.143 3.30 0.00 44.95 5.14
1356 5510 1.177256 ACTACAACACTCGGGTCGCT 61.177 55.000 0.00 0.00 0.00 4.93
1428 5582 2.423577 GTCTTTATTGCGTGGGTCAGT 58.576 47.619 0.00 0.00 0.00 3.41
1442 5596 4.224370 GTGGGTCAGTATAAAGGAGGTTGA 59.776 45.833 0.00 0.00 0.00 3.18
1550 5704 0.820226 TGAGGCTCGTCTCCAAGATG 59.180 55.000 10.42 0.00 33.04 2.90
1617 5797 4.048504 CGTAGGATTGATGATGCACGTTA 58.951 43.478 0.00 0.00 31.39 3.18
1620 5800 3.118261 AGGATTGATGATGCACGTTACCT 60.118 43.478 0.00 0.00 0.00 3.08
1763 5957 1.794701 GTTACGAGGTTTTGGACGGTC 59.205 52.381 0.00 0.00 0.00 4.79
1825 6021 7.095439 TGTGGCACAAAAAGAAACTTTTACTTG 60.095 33.333 19.74 7.45 44.16 3.16
1931 6178 3.454587 AACCGAAGACACGCTGCCA 62.455 57.895 0.00 0.00 0.00 4.92
1950 6197 2.611964 ATCATCGCCCCTCCCTCACT 62.612 60.000 0.00 0.00 0.00 3.41
1972 6219 6.744537 CACTAGAGTCATGCTAAATTTGTTGC 59.255 38.462 0.00 3.53 0.00 4.17
1978 6225 7.829725 AGTCATGCTAAATTTGTTGCATTAGA 58.170 30.769 18.76 13.80 43.24 2.10
1979 6226 8.472413 AGTCATGCTAAATTTGTTGCATTAGAT 58.528 29.630 18.76 8.36 43.24 1.98
2023 6272 0.036388 CCCCACAGATACAACACGCT 60.036 55.000 0.00 0.00 0.00 5.07
2053 6302 2.840974 CGTTGCCGGTGAAGAGAAT 58.159 52.632 1.90 0.00 0.00 2.40
2080 6329 3.893753 TTGAAAGGATCCCACCTGAAA 57.106 42.857 8.55 0.00 40.49 2.69
2152 6401 2.093973 ACTAGCACCAACTGAATCTCGG 60.094 50.000 0.00 0.00 0.00 4.63
2208 6458 0.102300 TGACGGTAGATGCATCACCG 59.898 55.000 39.33 39.33 46.74 4.94
2237 6488 1.619332 CTAGGCGGGGAGAACCTTATC 59.381 57.143 0.00 0.00 40.03 1.75
2248 6499 6.749036 GGAGAACCTTATCCCATCTTTAGA 57.251 41.667 0.00 0.00 32.46 2.10
2293 6544 6.891388 TCCTCAGTAAGACACAAACCTAAAA 58.109 36.000 0.00 0.00 0.00 1.52
2306 6557 7.711339 ACACAAACCTAAAACAAACTCACAAAA 59.289 29.630 0.00 0.00 0.00 2.44
2411 6662 9.245481 ACTTACATATAGACTAGTAGAATGCCC 57.755 37.037 3.59 0.00 0.00 5.36
2412 6663 6.761099 ACATATAGACTAGTAGAATGCCCG 57.239 41.667 3.59 0.00 0.00 6.13
2413 6664 6.246919 ACATATAGACTAGTAGAATGCCCGT 58.753 40.000 3.59 0.00 0.00 5.28
2414 6665 6.151312 ACATATAGACTAGTAGAATGCCCGTG 59.849 42.308 3.59 0.00 0.00 4.94
2415 6666 1.409427 AGACTAGTAGAATGCCCGTGC 59.591 52.381 3.59 0.00 38.26 5.34
2416 6667 0.102481 ACTAGTAGAATGCCCGTGCG 59.898 55.000 3.59 0.00 41.78 5.34
2417 6668 0.102481 CTAGTAGAATGCCCGTGCGT 59.898 55.000 0.00 0.00 41.78 5.24
2419 6670 1.019278 AGTAGAATGCCCGTGCGTTG 61.019 55.000 0.86 0.00 46.55 4.10
2420 6671 2.395360 TAGAATGCCCGTGCGTTGC 61.395 57.895 0.86 0.00 46.55 4.17
2421 6672 4.776647 GAATGCCCGTGCGTTGCC 62.777 66.667 0.86 0.00 46.55 4.52
2436 6687 3.764885 GTTGCCACGAGCTTATGAAAT 57.235 42.857 0.00 0.00 44.23 2.17
2437 6688 4.875544 GTTGCCACGAGCTTATGAAATA 57.124 40.909 0.00 0.00 44.23 1.40
2438 6689 5.424121 GTTGCCACGAGCTTATGAAATAT 57.576 39.130 0.00 0.00 44.23 1.28
2439 6690 5.821204 GTTGCCACGAGCTTATGAAATATT 58.179 37.500 0.00 0.00 44.23 1.28
2440 6691 6.265577 GTTGCCACGAGCTTATGAAATATTT 58.734 36.000 0.00 0.00 44.23 1.40
2441 6692 6.060028 TGCCACGAGCTTATGAAATATTTC 57.940 37.500 19.37 19.37 44.23 2.17
2442 6693 5.140177 GCCACGAGCTTATGAAATATTTCG 58.860 41.667 20.45 11.04 38.07 3.46
2443 6694 5.140177 CCACGAGCTTATGAAATATTTCGC 58.860 41.667 20.45 17.22 40.01 4.70
2444 6695 5.050091 CCACGAGCTTATGAAATATTTCGCT 60.050 40.000 21.13 21.13 40.01 4.93
2445 6696 5.842843 CACGAGCTTATGAAATATTTCGCTG 59.157 40.000 24.17 19.13 40.01 5.18
2446 6697 5.050091 ACGAGCTTATGAAATATTTCGCTGG 60.050 40.000 24.17 23.74 40.01 4.85
2447 6698 5.177511 CGAGCTTATGAAATATTTCGCTGGA 59.822 40.000 24.17 9.50 40.01 3.86
2448 6699 6.551385 AGCTTATGAAATATTTCGCTGGAG 57.449 37.500 20.63 15.15 40.01 3.86
2449 6700 6.058183 AGCTTATGAAATATTTCGCTGGAGT 58.942 36.000 20.63 4.82 40.01 3.85
2450 6701 6.543831 AGCTTATGAAATATTTCGCTGGAGTT 59.456 34.615 20.63 11.41 40.01 3.01
2451 6702 7.715249 AGCTTATGAAATATTTCGCTGGAGTTA 59.285 33.333 20.63 5.00 40.01 2.24
2452 6703 8.507249 GCTTATGAAATATTTCGCTGGAGTTAT 58.493 33.333 20.45 9.51 40.01 1.89
2503 6754 8.812147 TTACATGTATAGAAAAGATAGCACGG 57.188 34.615 6.36 0.00 0.00 4.94
2504 6755 6.223852 ACATGTATAGAAAAGATAGCACGGG 58.776 40.000 0.00 0.00 0.00 5.28
2505 6756 4.628074 TGTATAGAAAAGATAGCACGGGC 58.372 43.478 0.00 0.00 41.61 6.13
2506 6757 3.838244 ATAGAAAAGATAGCACGGGCA 57.162 42.857 14.57 0.00 44.61 5.36
2507 6758 1.739067 AGAAAAGATAGCACGGGCAC 58.261 50.000 14.57 2.32 44.61 5.01
2508 6759 1.003118 AGAAAAGATAGCACGGGCACA 59.997 47.619 14.57 0.00 44.61 4.57
2509 6760 1.810151 GAAAAGATAGCACGGGCACAA 59.190 47.619 14.57 0.00 44.61 3.33
2510 6761 2.128771 AAAGATAGCACGGGCACAAT 57.871 45.000 14.57 1.15 44.61 2.71
2511 6762 2.128771 AAGATAGCACGGGCACAATT 57.871 45.000 14.57 0.00 44.61 2.32
2512 6763 1.382522 AGATAGCACGGGCACAATTG 58.617 50.000 14.57 3.24 44.61 2.32
2513 6764 1.094785 GATAGCACGGGCACAATTGT 58.905 50.000 14.57 4.92 44.61 2.71
2530 6781 7.060383 ACAATTGTGTGATTATTGAAACCCA 57.940 32.000 11.07 0.00 36.31 4.51
2531 6782 6.928492 ACAATTGTGTGATTATTGAAACCCAC 59.072 34.615 11.07 0.00 36.31 4.61
2532 6783 6.916360 ATTGTGTGATTATTGAAACCCACT 57.084 33.333 0.00 0.00 0.00 4.00
2533 6784 6.723298 TTGTGTGATTATTGAAACCCACTT 57.277 33.333 0.00 0.00 0.00 3.16
2534 6785 6.325919 TGTGTGATTATTGAAACCCACTTC 57.674 37.500 0.00 0.00 0.00 3.01
2535 6786 5.830457 TGTGTGATTATTGAAACCCACTTCA 59.170 36.000 0.00 0.00 33.48 3.02
2536 6787 6.149633 GTGTGATTATTGAAACCCACTTCAC 58.850 40.000 0.00 0.00 35.07 3.18
2537 6788 5.830457 TGTGATTATTGAAACCCACTTCACA 59.170 36.000 0.00 0.00 38.75 3.58
2538 6789 6.493115 TGTGATTATTGAAACCCACTTCACAT 59.507 34.615 0.00 0.00 36.85 3.21
2539 6790 6.808212 GTGATTATTGAAACCCACTTCACATG 59.192 38.462 0.00 0.00 35.07 3.21
2540 6791 3.665745 ATTGAAACCCACTTCACATGC 57.334 42.857 0.00 0.00 35.07 4.06
2541 6792 2.064434 TGAAACCCACTTCACATGCA 57.936 45.000 0.00 0.00 30.31 3.96
2542 6793 2.382882 TGAAACCCACTTCACATGCAA 58.617 42.857 0.00 0.00 30.31 4.08
2543 6794 2.964464 TGAAACCCACTTCACATGCAAT 59.036 40.909 0.00 0.00 30.31 3.56
2573 6824 7.250569 AGTTGATATAAAATGGCAGTTTCACG 58.749 34.615 16.93 0.00 0.00 4.35
2574 6825 6.130298 TGATATAAAATGGCAGTTTCACGG 57.870 37.500 16.93 0.00 0.00 4.94
2575 6826 5.650266 TGATATAAAATGGCAGTTTCACGGT 59.350 36.000 16.93 0.17 0.00 4.83
2576 6827 2.507339 AAAATGGCAGTTTCACGGTG 57.493 45.000 7.16 0.56 0.00 4.94
2577 6828 1.398692 AAATGGCAGTTTCACGGTGT 58.601 45.000 8.17 0.00 0.00 4.16
2578 6829 2.264005 AATGGCAGTTTCACGGTGTA 57.736 45.000 8.17 0.00 0.00 2.90
2579 6830 1.519408 ATGGCAGTTTCACGGTGTAC 58.481 50.000 8.17 7.88 0.00 2.90
2580 6831 0.178301 TGGCAGTTTCACGGTGTACA 59.822 50.000 8.17 0.00 0.00 2.90
2581 6832 0.584876 GGCAGTTTCACGGTGTACAC 59.415 55.000 18.01 18.01 0.00 2.90
2582 6833 1.292061 GCAGTTTCACGGTGTACACA 58.708 50.000 26.51 3.90 0.00 3.72
2583 6834 1.871039 GCAGTTTCACGGTGTACACAT 59.129 47.619 26.51 11.97 0.00 3.21
2584 6835 3.061322 GCAGTTTCACGGTGTACACATA 58.939 45.455 26.51 6.54 0.00 2.29
2585 6836 3.495377 GCAGTTTCACGGTGTACACATAA 59.505 43.478 26.51 11.93 0.00 1.90
2586 6837 4.024725 GCAGTTTCACGGTGTACACATAAA 60.025 41.667 26.51 16.51 0.00 1.40
2587 6838 5.675970 CAGTTTCACGGTGTACACATAAAG 58.324 41.667 26.51 14.00 0.00 1.85
2588 6839 5.464057 CAGTTTCACGGTGTACACATAAAGA 59.536 40.000 26.51 13.61 0.00 2.52
2589 6840 5.694910 AGTTTCACGGTGTACACATAAAGAG 59.305 40.000 26.51 10.89 0.00 2.85
2590 6841 4.859304 TCACGGTGTACACATAAAGAGT 57.141 40.909 26.51 11.42 0.00 3.24
2591 6842 4.552355 TCACGGTGTACACATAAAGAGTG 58.448 43.478 26.51 20.34 42.56 3.51
2592 6843 4.278919 TCACGGTGTACACATAAAGAGTGA 59.721 41.667 26.51 21.85 40.16 3.41
2593 6844 5.047590 TCACGGTGTACACATAAAGAGTGAT 60.048 40.000 26.51 0.00 40.16 3.06
2594 6845 5.062183 CACGGTGTACACATAAAGAGTGATG 59.938 44.000 26.51 4.87 40.16 3.07
2595 6846 5.047590 ACGGTGTACACATAAAGAGTGATGA 60.048 40.000 26.51 0.00 40.16 2.92
2596 6847 6.042777 CGGTGTACACATAAAGAGTGATGAT 58.957 40.000 26.51 0.00 40.16 2.45
2597 6848 6.199154 CGGTGTACACATAAAGAGTGATGATC 59.801 42.308 26.51 2.95 40.16 2.92
2598 6849 6.480320 GGTGTACACATAAAGAGTGATGATCC 59.520 42.308 26.51 0.00 40.16 3.36
2599 6850 7.041721 GTGTACACATAAAGAGTGATGATCCA 58.958 38.462 21.14 0.00 40.16 3.41
2600 6851 7.549134 GTGTACACATAAAGAGTGATGATCCAA 59.451 37.037 21.14 0.00 40.16 3.53
2601 6852 6.992063 ACACATAAAGAGTGATGATCCAAC 57.008 37.500 0.00 0.00 40.16 3.77
2602 6853 5.582269 ACACATAAAGAGTGATGATCCAACG 59.418 40.000 0.00 0.00 40.16 4.10
2603 6854 5.812127 CACATAAAGAGTGATGATCCAACGA 59.188 40.000 0.00 0.00 39.30 3.85
2604 6855 6.313658 CACATAAAGAGTGATGATCCAACGAA 59.686 38.462 0.00 0.00 39.30 3.85
2605 6856 7.011763 CACATAAAGAGTGATGATCCAACGAAT 59.988 37.037 0.00 0.00 39.30 3.34
2606 6857 8.204160 ACATAAAGAGTGATGATCCAACGAATA 58.796 33.333 0.00 0.00 0.00 1.75
2607 6858 9.045223 CATAAAGAGTGATGATCCAACGAATAA 57.955 33.333 0.00 0.00 0.00 1.40
2608 6859 9.784531 ATAAAGAGTGATGATCCAACGAATAAT 57.215 29.630 0.00 0.00 0.00 1.28
2609 6860 7.721286 AAGAGTGATGATCCAACGAATAATC 57.279 36.000 0.00 0.00 0.00 1.75
2610 6861 7.060383 AGAGTGATGATCCAACGAATAATCT 57.940 36.000 0.00 0.00 0.00 2.40
2611 6862 6.927936 AGAGTGATGATCCAACGAATAATCTG 59.072 38.462 0.00 0.00 0.00 2.90
2612 6863 6.586344 AGTGATGATCCAACGAATAATCTGT 58.414 36.000 0.00 0.00 0.00 3.41
2613 6864 7.050377 AGTGATGATCCAACGAATAATCTGTT 58.950 34.615 0.00 0.00 0.00 3.16
2614 6865 8.204160 AGTGATGATCCAACGAATAATCTGTTA 58.796 33.333 0.00 0.00 0.00 2.41
2615 6866 8.276325 GTGATGATCCAACGAATAATCTGTTAC 58.724 37.037 0.00 0.00 0.00 2.50
2616 6867 7.984617 TGATGATCCAACGAATAATCTGTTACA 59.015 33.333 0.00 0.00 0.00 2.41
2617 6868 8.731275 ATGATCCAACGAATAATCTGTTACAA 57.269 30.769 0.00 0.00 0.00 2.41
2618 6869 8.554835 TGATCCAACGAATAATCTGTTACAAA 57.445 30.769 0.00 0.00 0.00 2.83
2619 6870 9.173021 TGATCCAACGAATAATCTGTTACAAAT 57.827 29.630 0.00 0.00 0.00 2.32
2633 6884 9.739276 ATCTGTTACAAATTAAGATCCACTTGA 57.261 29.630 0.00 0.00 39.38 3.02
2634 6885 9.739276 TCTGTTACAAATTAAGATCCACTTGAT 57.261 29.630 0.00 0.00 39.38 2.57
2635 6886 9.778993 CTGTTACAAATTAAGATCCACTTGATG 57.221 33.333 0.00 0.00 39.38 3.07
2636 6887 8.243426 TGTTACAAATTAAGATCCACTTGATGC 58.757 33.333 0.00 0.00 39.38 3.91
2637 6888 5.883661 ACAAATTAAGATCCACTTGATGCG 58.116 37.500 0.00 0.00 39.38 4.73
2638 6889 5.647658 ACAAATTAAGATCCACTTGATGCGA 59.352 36.000 0.00 0.00 39.38 5.10
2639 6890 6.319658 ACAAATTAAGATCCACTTGATGCGAT 59.680 34.615 0.00 0.00 39.38 4.58
2640 6891 6.949352 AATTAAGATCCACTTGATGCGATT 57.051 33.333 0.00 0.00 39.38 3.34
2641 6892 8.344831 CAAATTAAGATCCACTTGATGCGATTA 58.655 33.333 0.00 0.00 39.38 1.75
2642 6893 8.450578 AATTAAGATCCACTTGATGCGATTAA 57.549 30.769 0.00 0.00 39.38 1.40
2643 6894 5.998454 AAGATCCACTTGATGCGATTAAG 57.002 39.130 0.00 0.00 37.45 1.85
2644 6895 5.282055 AGATCCACTTGATGCGATTAAGA 57.718 39.130 7.37 0.00 32.41 2.10
2645 6896 5.862845 AGATCCACTTGATGCGATTAAGAT 58.137 37.500 7.37 0.00 32.41 2.40
2646 6897 6.997655 AGATCCACTTGATGCGATTAAGATA 58.002 36.000 7.37 0.00 32.41 1.98
2647 6898 7.095910 AGATCCACTTGATGCGATTAAGATAG 58.904 38.462 7.37 0.00 32.41 2.08
2648 6899 6.161855 TCCACTTGATGCGATTAAGATAGT 57.838 37.500 7.37 0.00 31.08 2.12
2649 6900 6.216569 TCCACTTGATGCGATTAAGATAGTC 58.783 40.000 7.37 0.00 31.08 2.59
2650 6901 6.040955 TCCACTTGATGCGATTAAGATAGTCT 59.959 38.462 7.37 0.00 31.08 3.24
2651 6902 6.364706 CCACTTGATGCGATTAAGATAGTCTC 59.635 42.308 7.37 0.00 31.08 3.36
2652 6903 6.087423 CACTTGATGCGATTAAGATAGTCTCG 59.913 42.308 7.37 0.00 31.08 4.04
2661 6912 8.098629 CGATTAAGATAGTCTCGCACAATATC 57.901 38.462 0.00 0.00 0.00 1.63
2662 6913 7.750903 CGATTAAGATAGTCTCGCACAATATCA 59.249 37.037 0.00 0.00 0.00 2.15
2663 6914 8.978564 ATTAAGATAGTCTCGCACAATATCAG 57.021 34.615 0.00 0.00 0.00 2.90
2664 6915 6.641169 AAGATAGTCTCGCACAATATCAGA 57.359 37.500 0.00 0.00 0.00 3.27
2665 6916 6.641169 AGATAGTCTCGCACAATATCAGAA 57.359 37.500 0.00 0.00 0.00 3.02
2666 6917 7.043961 AGATAGTCTCGCACAATATCAGAAA 57.956 36.000 0.00 0.00 0.00 2.52
2667 6918 7.665690 AGATAGTCTCGCACAATATCAGAAAT 58.334 34.615 0.00 0.00 0.00 2.17
2668 6919 5.980698 AGTCTCGCACAATATCAGAAATG 57.019 39.130 0.00 0.00 0.00 2.32
2669 6920 5.423015 AGTCTCGCACAATATCAGAAATGT 58.577 37.500 0.00 0.00 0.00 2.71
2670 6921 5.877012 AGTCTCGCACAATATCAGAAATGTT 59.123 36.000 0.00 0.00 0.00 2.71
2671 6922 5.961843 GTCTCGCACAATATCAGAAATGTTG 59.038 40.000 0.00 0.00 0.00 3.33
2672 6923 5.643348 TCTCGCACAATATCAGAAATGTTGT 59.357 36.000 0.00 0.00 34.42 3.32
2673 6924 5.868257 TCGCACAATATCAGAAATGTTGTC 58.132 37.500 0.00 0.00 32.31 3.18
2674 6925 5.643348 TCGCACAATATCAGAAATGTTGTCT 59.357 36.000 0.00 0.00 32.31 3.41
2675 6926 5.735892 CGCACAATATCAGAAATGTTGTCTG 59.264 40.000 0.00 0.00 43.28 3.51
2676 6927 6.615088 GCACAATATCAGAAATGTTGTCTGT 58.385 36.000 1.67 0.00 42.63 3.41
2677 6928 7.412891 CGCACAATATCAGAAATGTTGTCTGTA 60.413 37.037 1.67 0.00 42.63 2.74
2678 6929 7.693951 GCACAATATCAGAAATGTTGTCTGTAC 59.306 37.037 1.67 0.00 42.63 2.90
2679 6930 8.177663 CACAATATCAGAAATGTTGTCTGTACC 58.822 37.037 1.67 0.00 42.63 3.34
2680 6931 8.103305 ACAATATCAGAAATGTTGTCTGTACCT 58.897 33.333 1.67 0.00 42.63 3.08
2681 6932 8.950210 CAATATCAGAAATGTTGTCTGTACCTT 58.050 33.333 1.67 0.00 42.63 3.50
2682 6933 8.723942 ATATCAGAAATGTTGTCTGTACCTTC 57.276 34.615 1.67 0.00 42.63 3.46
2683 6934 5.924356 TCAGAAATGTTGTCTGTACCTTCA 58.076 37.500 1.67 0.00 42.63 3.02
2684 6935 6.533730 TCAGAAATGTTGTCTGTACCTTCAT 58.466 36.000 1.67 0.00 42.63 2.57
2685 6936 6.998074 TCAGAAATGTTGTCTGTACCTTCATT 59.002 34.615 1.67 0.00 42.63 2.57
2686 6937 7.173218 TCAGAAATGTTGTCTGTACCTTCATTC 59.827 37.037 1.67 0.00 42.63 2.67
2687 6938 6.998074 AGAAATGTTGTCTGTACCTTCATTCA 59.002 34.615 0.00 0.00 0.00 2.57
2688 6939 6.560253 AATGTTGTCTGTACCTTCATTCAC 57.440 37.500 0.00 0.00 0.00 3.18
2689 6940 5.029807 TGTTGTCTGTACCTTCATTCACA 57.970 39.130 0.00 0.00 0.00 3.58
2690 6941 4.814234 TGTTGTCTGTACCTTCATTCACAC 59.186 41.667 0.00 0.00 0.00 3.82
2691 6942 3.649073 TGTCTGTACCTTCATTCACACG 58.351 45.455 0.00 0.00 0.00 4.49
2692 6943 3.319689 TGTCTGTACCTTCATTCACACGA 59.680 43.478 0.00 0.00 0.00 4.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
41 42 8.980481 AACACATAGGGTATTAAAAGATCCAG 57.020 34.615 0.00 0.00 0.00 3.86
517 3916 3.907260 CTGCCCGGCAAAGAGAGCA 62.907 63.158 14.45 0.00 38.41 4.26
547 3946 2.668212 CTCTTTGCCGTCCGCCAA 60.668 61.111 0.00 0.00 36.24 4.52
641 4040 2.505982 CATGTGGCCTCTACCGGG 59.494 66.667 6.32 0.00 0.00 5.73
679 4078 2.925578 TTTGAATCATGCAAGGCGAG 57.074 45.000 0.00 0.00 0.00 5.03
802 4931 9.699410 AATCTTTACATTCATTGAGGTGGAATA 57.301 29.630 3.98 0.00 30.53 1.75
1250 5404 0.607217 TGGTCGGAGCTCGTAGTCAA 60.607 55.000 7.83 0.00 40.32 3.18
1428 5582 2.101783 TCGCGGTCAACCTCCTTTATA 58.898 47.619 6.13 0.00 0.00 0.98
1442 5596 4.241555 GCTCATCCCCATCGCGGT 62.242 66.667 6.13 0.00 0.00 5.68
1550 5704 1.986378 CGTGATCGAAGACTTGTGTCC 59.014 52.381 0.00 0.00 42.51 4.02
1741 5934 2.627699 ACCGTCCAAAACCTCGTAACTA 59.372 45.455 0.00 0.00 0.00 2.24
1745 5939 1.039068 TGACCGTCCAAAACCTCGTA 58.961 50.000 0.00 0.00 0.00 3.43
1931 6178 2.143419 GTGAGGGAGGGGCGATGAT 61.143 63.158 0.00 0.00 0.00 2.45
1950 6197 6.816134 TGCAACAAATTTAGCATGACTCTA 57.184 33.333 0.00 0.00 31.05 2.43
1972 6219 7.331440 GCATGATGACTTCCTGACTATCTAATG 59.669 40.741 0.00 0.00 0.00 1.90
1978 6225 6.552725 TCTTAGCATGATGACTTCCTGACTAT 59.447 38.462 0.00 0.00 0.00 2.12
1979 6226 5.893824 TCTTAGCATGATGACTTCCTGACTA 59.106 40.000 0.00 0.00 0.00 2.59
2053 6302 8.518720 TCAGGTGGGATCCTTTCAATATATAA 57.481 34.615 12.58 0.00 35.37 0.98
2080 6329 5.721876 TTGTTCATCTTCGTTTACGTGTT 57.278 34.783 0.00 0.00 40.80 3.32
2152 6401 1.677052 GTGTGTCTCCGGTAGATCTCC 59.323 57.143 0.00 0.00 36.36 3.71
2208 6458 2.430367 CCCGCCTAGCCCCATTAC 59.570 66.667 0.00 0.00 0.00 1.89
2237 6488 1.802880 CGACGGCACTCTAAAGATGGG 60.803 57.143 0.00 0.00 0.00 4.00
2293 6544 6.367695 GCTTTTAGGTGTTTTTGTGAGTTTGT 59.632 34.615 0.00 0.00 0.00 2.83
2306 6557 1.880027 CTTGCTCCGCTTTTAGGTGTT 59.120 47.619 0.00 0.00 0.00 3.32
2398 6649 0.102481 ACGCACGGGCATTCTACTAG 59.898 55.000 11.77 0.00 41.24 2.57
2399 6650 0.533491 AACGCACGGGCATTCTACTA 59.467 50.000 11.77 0.00 41.24 1.82
2400 6651 1.019278 CAACGCACGGGCATTCTACT 61.019 55.000 11.77 0.00 41.24 2.57
2401 6652 1.423845 CAACGCACGGGCATTCTAC 59.576 57.895 11.77 0.00 41.24 2.59
2402 6653 2.395360 GCAACGCACGGGCATTCTA 61.395 57.895 11.77 0.00 41.24 2.10
2403 6654 3.737172 GCAACGCACGGGCATTCT 61.737 61.111 11.77 0.00 41.24 2.40
2404 6655 4.776647 GGCAACGCACGGGCATTC 62.777 66.667 11.77 0.00 41.24 2.67
2415 6666 8.658045 GAAATATTTCATAAGCTCGTGGCAACG 61.658 40.741 20.89 7.50 42.66 4.10
2416 6667 3.764885 ATTTCATAAGCTCGTGGCAAC 57.235 42.857 0.00 0.00 44.79 4.17
2417 6668 6.449635 AAATATTTCATAAGCTCGTGGCAA 57.550 33.333 0.00 0.00 44.79 4.52
2418 6669 5.277297 CGAAATATTTCATAAGCTCGTGGCA 60.277 40.000 24.23 0.00 39.12 4.92
2419 6670 5.140177 CGAAATATTTCATAAGCTCGTGGC 58.860 41.667 24.23 0.00 37.01 5.01
2420 6671 5.050091 AGCGAAATATTTCATAAGCTCGTGG 60.050 40.000 24.23 7.68 37.01 4.94
2421 6672 5.842843 CAGCGAAATATTTCATAAGCTCGTG 59.157 40.000 24.23 11.87 37.01 4.35
2422 6673 5.050091 CCAGCGAAATATTTCATAAGCTCGT 60.050 40.000 24.23 5.06 37.01 4.18
2423 6674 5.177511 TCCAGCGAAATATTTCATAAGCTCG 59.822 40.000 24.23 17.24 37.01 5.03
2424 6675 6.203723 ACTCCAGCGAAATATTTCATAAGCTC 59.796 38.462 24.23 7.13 37.01 4.09
2425 6676 6.058183 ACTCCAGCGAAATATTTCATAAGCT 58.942 36.000 24.23 20.62 37.01 3.74
2426 6677 6.305693 ACTCCAGCGAAATATTTCATAAGC 57.694 37.500 24.23 19.05 37.01 3.09
2477 6728 9.256477 CCGTGCTATCTTTTCTATACATGTAAA 57.744 33.333 10.14 0.00 0.00 2.01
2478 6729 7.870954 CCCGTGCTATCTTTTCTATACATGTAA 59.129 37.037 10.14 0.00 0.00 2.41
2479 6730 7.375834 CCCGTGCTATCTTTTCTATACATGTA 58.624 38.462 8.27 8.27 0.00 2.29
2480 6731 6.223852 CCCGTGCTATCTTTTCTATACATGT 58.776 40.000 2.69 2.69 0.00 3.21
2481 6732 5.120830 GCCCGTGCTATCTTTTCTATACATG 59.879 44.000 0.00 0.00 33.53 3.21
2482 6733 5.221641 TGCCCGTGCTATCTTTTCTATACAT 60.222 40.000 0.00 0.00 38.71 2.29
2483 6734 4.100344 TGCCCGTGCTATCTTTTCTATACA 59.900 41.667 0.00 0.00 38.71 2.29
2484 6735 4.448060 GTGCCCGTGCTATCTTTTCTATAC 59.552 45.833 0.00 0.00 38.71 1.47
2485 6736 4.100344 TGTGCCCGTGCTATCTTTTCTATA 59.900 41.667 0.00 0.00 38.71 1.31
2486 6737 3.118408 TGTGCCCGTGCTATCTTTTCTAT 60.118 43.478 0.00 0.00 38.71 1.98
2487 6738 2.235155 TGTGCCCGTGCTATCTTTTCTA 59.765 45.455 0.00 0.00 38.71 2.10
2488 6739 1.003118 TGTGCCCGTGCTATCTTTTCT 59.997 47.619 0.00 0.00 38.71 2.52
2489 6740 1.448985 TGTGCCCGTGCTATCTTTTC 58.551 50.000 0.00 0.00 38.71 2.29
2490 6741 1.904287 TTGTGCCCGTGCTATCTTTT 58.096 45.000 0.00 0.00 38.71 2.27
2491 6742 2.128771 ATTGTGCCCGTGCTATCTTT 57.871 45.000 0.00 0.00 38.71 2.52
2492 6743 1.745087 CAATTGTGCCCGTGCTATCTT 59.255 47.619 0.00 0.00 38.71 2.40
2493 6744 1.340017 ACAATTGTGCCCGTGCTATCT 60.340 47.619 11.07 0.00 38.71 1.98
2494 6745 1.094785 ACAATTGTGCCCGTGCTATC 58.905 50.000 11.07 0.00 38.71 2.08
2495 6746 0.810648 CACAATTGTGCCCGTGCTAT 59.189 50.000 24.69 0.00 39.39 2.97
2496 6747 2.252556 CACAATTGTGCCCGTGCTA 58.747 52.632 24.69 0.00 39.39 3.49
2497 6748 3.041701 CACAATTGTGCCCGTGCT 58.958 55.556 24.69 0.00 39.39 4.40
2506 6757 6.928492 GTGGGTTTCAATAATCACACAATTGT 59.072 34.615 4.92 4.92 38.21 2.71
2507 6758 7.153985 AGTGGGTTTCAATAATCACACAATTG 58.846 34.615 3.24 3.24 39.97 2.32
2508 6759 7.301868 AGTGGGTTTCAATAATCACACAATT 57.698 32.000 4.84 0.00 39.97 2.32
2509 6760 6.916360 AGTGGGTTTCAATAATCACACAAT 57.084 33.333 4.84 0.00 39.97 2.71
2510 6761 6.322456 TGAAGTGGGTTTCAATAATCACACAA 59.678 34.615 4.84 0.00 39.97 3.33
2511 6762 5.830457 TGAAGTGGGTTTCAATAATCACACA 59.170 36.000 4.84 0.00 39.97 3.72
2512 6763 6.149633 GTGAAGTGGGTTTCAATAATCACAC 58.850 40.000 0.00 0.00 38.69 3.82
2513 6764 5.830457 TGTGAAGTGGGTTTCAATAATCACA 59.170 36.000 0.00 0.00 41.44 3.58
2514 6765 6.325919 TGTGAAGTGGGTTTCAATAATCAC 57.674 37.500 0.00 0.00 38.69 3.06
2515 6766 6.572119 GCATGTGAAGTGGGTTTCAATAATCA 60.572 38.462 0.00 0.00 38.69 2.57
2516 6767 5.807011 GCATGTGAAGTGGGTTTCAATAATC 59.193 40.000 0.00 0.00 38.69 1.75
2517 6768 5.245751 TGCATGTGAAGTGGGTTTCAATAAT 59.754 36.000 0.00 0.00 38.69 1.28
2518 6769 4.586421 TGCATGTGAAGTGGGTTTCAATAA 59.414 37.500 0.00 0.00 38.69 1.40
2519 6770 4.148079 TGCATGTGAAGTGGGTTTCAATA 58.852 39.130 0.00 0.00 38.69 1.90
2520 6771 2.964464 TGCATGTGAAGTGGGTTTCAAT 59.036 40.909 0.00 0.00 38.69 2.57
2521 6772 2.382882 TGCATGTGAAGTGGGTTTCAA 58.617 42.857 0.00 0.00 38.69 2.69
2522 6773 2.064434 TGCATGTGAAGTGGGTTTCA 57.936 45.000 0.00 0.00 34.83 2.69
2523 6774 3.243839 ACATTGCATGTGAAGTGGGTTTC 60.244 43.478 6.61 0.00 43.01 2.78
2524 6775 2.699846 ACATTGCATGTGAAGTGGGTTT 59.300 40.909 6.61 0.00 43.01 3.27
2525 6776 2.318908 ACATTGCATGTGAAGTGGGTT 58.681 42.857 6.61 0.00 43.01 4.11
2526 6777 1.999648 ACATTGCATGTGAAGTGGGT 58.000 45.000 6.61 0.00 43.01 4.51
2527 6778 4.883585 ACTATACATTGCATGTGAAGTGGG 59.116 41.667 10.77 0.00 44.60 4.61
2528 6779 6.093909 TCAACTATACATTGCATGTGAAGTGG 59.906 38.462 10.77 10.64 44.60 4.00
2529 6780 7.075674 TCAACTATACATTGCATGTGAAGTG 57.924 36.000 10.77 8.83 44.60 3.16
2530 6781 7.870509 ATCAACTATACATTGCATGTGAAGT 57.129 32.000 10.77 10.35 44.60 3.01
2547 6798 8.394877 CGTGAAACTGCCATTTTATATCAACTA 58.605 33.333 0.00 0.00 31.75 2.24
2548 6799 7.250569 CGTGAAACTGCCATTTTATATCAACT 58.749 34.615 0.00 0.00 31.75 3.16
2549 6800 6.472163 CCGTGAAACTGCCATTTTATATCAAC 59.528 38.462 0.00 0.00 31.75 3.18
2550 6801 6.151985 ACCGTGAAACTGCCATTTTATATCAA 59.848 34.615 0.00 0.00 31.75 2.57
2551 6802 5.650266 ACCGTGAAACTGCCATTTTATATCA 59.350 36.000 0.00 0.00 31.75 2.15
2552 6803 5.971202 CACCGTGAAACTGCCATTTTATATC 59.029 40.000 0.00 0.00 31.75 1.63
2553 6804 5.417580 ACACCGTGAAACTGCCATTTTATAT 59.582 36.000 5.28 0.00 31.75 0.86
2554 6805 4.762765 ACACCGTGAAACTGCCATTTTATA 59.237 37.500 5.28 0.00 31.75 0.98
2555 6806 3.572255 ACACCGTGAAACTGCCATTTTAT 59.428 39.130 5.28 0.00 31.75 1.40
2556 6807 2.952978 ACACCGTGAAACTGCCATTTTA 59.047 40.909 5.28 0.00 31.75 1.52
2557 6808 1.754226 ACACCGTGAAACTGCCATTTT 59.246 42.857 5.28 0.00 31.75 1.82
2558 6809 1.398692 ACACCGTGAAACTGCCATTT 58.601 45.000 5.28 0.00 31.75 2.32
2559 6810 1.877443 GTACACCGTGAAACTGCCATT 59.123 47.619 5.28 0.00 31.75 3.16
2560 6811 1.202710 TGTACACCGTGAAACTGCCAT 60.203 47.619 5.28 0.00 31.75 4.40
2561 6812 0.178301 TGTACACCGTGAAACTGCCA 59.822 50.000 5.28 0.00 31.75 4.92
2562 6813 0.584876 GTGTACACCGTGAAACTGCC 59.415 55.000 15.42 0.00 31.75 4.85
2563 6814 1.292061 TGTGTACACCGTGAAACTGC 58.708 50.000 22.91 0.00 31.75 4.40
2564 6815 5.464057 TCTTTATGTGTACACCGTGAAACTG 59.536 40.000 22.91 7.46 31.75 3.16
2565 6816 5.603596 TCTTTATGTGTACACCGTGAAACT 58.396 37.500 22.91 1.02 31.75 2.66
2566 6817 5.464389 ACTCTTTATGTGTACACCGTGAAAC 59.536 40.000 22.91 3.82 0.00 2.78
2567 6818 5.464057 CACTCTTTATGTGTACACCGTGAAA 59.536 40.000 22.91 15.06 0.00 2.69
2568 6819 4.986034 CACTCTTTATGTGTACACCGTGAA 59.014 41.667 22.91 13.06 0.00 3.18
2569 6820 4.278919 TCACTCTTTATGTGTACACCGTGA 59.721 41.667 22.91 17.71 36.83 4.35
2570 6821 4.552355 TCACTCTTTATGTGTACACCGTG 58.448 43.478 22.91 16.08 36.83 4.94
2571 6822 4.859304 TCACTCTTTATGTGTACACCGT 57.141 40.909 22.91 13.94 36.83 4.83
2572 6823 5.407502 TCATCACTCTTTATGTGTACACCG 58.592 41.667 22.91 6.75 36.83 4.94
2573 6824 6.480320 GGATCATCACTCTTTATGTGTACACC 59.520 42.308 22.91 6.06 36.83 4.16
2574 6825 7.041721 TGGATCATCACTCTTTATGTGTACAC 58.958 38.462 19.36 19.36 36.83 2.90
2575 6826 7.181569 TGGATCATCACTCTTTATGTGTACA 57.818 36.000 0.00 0.00 36.83 2.90
2576 6827 7.254117 CGTTGGATCATCACTCTTTATGTGTAC 60.254 40.741 0.00 0.00 36.83 2.90
2577 6828 6.756542 CGTTGGATCATCACTCTTTATGTGTA 59.243 38.462 0.00 0.00 36.83 2.90
2578 6829 5.582269 CGTTGGATCATCACTCTTTATGTGT 59.418 40.000 0.00 0.00 36.83 3.72
2579 6830 5.812127 TCGTTGGATCATCACTCTTTATGTG 59.188 40.000 0.00 0.00 36.82 3.21
2580 6831 5.977635 TCGTTGGATCATCACTCTTTATGT 58.022 37.500 0.00 0.00 0.00 2.29
2581 6832 6.908870 TTCGTTGGATCATCACTCTTTATG 57.091 37.500 0.00 0.00 0.00 1.90
2582 6833 9.784531 ATTATTCGTTGGATCATCACTCTTTAT 57.215 29.630 0.00 0.00 0.00 1.40
2583 6834 9.261180 GATTATTCGTTGGATCATCACTCTTTA 57.739 33.333 0.00 0.00 0.00 1.85
2584 6835 7.989741 AGATTATTCGTTGGATCATCACTCTTT 59.010 33.333 0.00 0.00 0.00 2.52
2585 6836 7.440556 CAGATTATTCGTTGGATCATCACTCTT 59.559 37.037 0.00 0.00 0.00 2.85
2586 6837 6.927936 CAGATTATTCGTTGGATCATCACTCT 59.072 38.462 0.00 0.00 0.00 3.24
2587 6838 6.703607 ACAGATTATTCGTTGGATCATCACTC 59.296 38.462 0.00 0.00 0.00 3.51
2588 6839 6.586344 ACAGATTATTCGTTGGATCATCACT 58.414 36.000 0.00 0.00 0.00 3.41
2589 6840 6.851222 ACAGATTATTCGTTGGATCATCAC 57.149 37.500 0.00 0.00 0.00 3.06
2590 6841 7.984617 TGTAACAGATTATTCGTTGGATCATCA 59.015 33.333 0.00 0.00 0.00 3.07
2591 6842 8.365399 TGTAACAGATTATTCGTTGGATCATC 57.635 34.615 0.00 0.00 0.00 2.92
2592 6843 8.731275 TTGTAACAGATTATTCGTTGGATCAT 57.269 30.769 0.00 0.00 0.00 2.45
2593 6844 8.554835 TTTGTAACAGATTATTCGTTGGATCA 57.445 30.769 0.00 0.00 0.00 2.92
2607 6858 9.739276 TCAAGTGGATCTTAATTTGTAACAGAT 57.261 29.630 0.00 0.00 34.66 2.90
2608 6859 9.739276 ATCAAGTGGATCTTAATTTGTAACAGA 57.261 29.630 0.00 0.00 34.66 3.41
2609 6860 9.778993 CATCAAGTGGATCTTAATTTGTAACAG 57.221 33.333 0.00 0.00 32.57 3.16
2610 6861 8.243426 GCATCAAGTGGATCTTAATTTGTAACA 58.757 33.333 0.00 0.00 32.57 2.41
2611 6862 7.429340 CGCATCAAGTGGATCTTAATTTGTAAC 59.571 37.037 0.00 0.00 32.57 2.50
2612 6863 7.335673 TCGCATCAAGTGGATCTTAATTTGTAA 59.664 33.333 0.00 0.00 32.57 2.41
2613 6864 6.821160 TCGCATCAAGTGGATCTTAATTTGTA 59.179 34.615 0.00 0.00 32.57 2.41
2614 6865 5.647658 TCGCATCAAGTGGATCTTAATTTGT 59.352 36.000 0.00 0.00 32.57 2.83
2615 6866 6.122850 TCGCATCAAGTGGATCTTAATTTG 57.877 37.500 0.00 0.00 32.57 2.32
2616 6867 6.949352 ATCGCATCAAGTGGATCTTAATTT 57.051 33.333 0.00 0.00 32.57 1.82
2617 6868 6.949352 AATCGCATCAAGTGGATCTTAATT 57.051 33.333 0.00 0.00 32.57 1.40
2618 6869 7.933577 TCTTAATCGCATCAAGTGGATCTTAAT 59.066 33.333 0.00 0.00 32.57 1.40
2619 6870 7.272244 TCTTAATCGCATCAAGTGGATCTTAA 58.728 34.615 0.00 0.00 32.57 1.85
2620 6871 6.816136 TCTTAATCGCATCAAGTGGATCTTA 58.184 36.000 0.00 0.00 32.57 2.10
2621 6872 5.674525 TCTTAATCGCATCAAGTGGATCTT 58.325 37.500 0.00 0.00 32.57 2.40
2622 6873 5.282055 TCTTAATCGCATCAAGTGGATCT 57.718 39.130 0.00 0.00 32.57 2.75
2623 6874 6.870965 ACTATCTTAATCGCATCAAGTGGATC 59.129 38.462 0.00 0.00 32.57 3.36
2624 6875 6.763355 ACTATCTTAATCGCATCAAGTGGAT 58.237 36.000 0.00 0.00 36.39 3.41
2625 6876 6.040955 AGACTATCTTAATCGCATCAAGTGGA 59.959 38.462 0.00 0.00 0.00 4.02
2626 6877 6.219473 AGACTATCTTAATCGCATCAAGTGG 58.781 40.000 0.00 0.00 0.00 4.00
2627 6878 6.087423 CGAGACTATCTTAATCGCATCAAGTG 59.913 42.308 0.00 0.00 0.00 3.16
2628 6879 6.146216 CGAGACTATCTTAATCGCATCAAGT 58.854 40.000 0.00 0.00 0.00 3.16
2629 6880 6.609907 CGAGACTATCTTAATCGCATCAAG 57.390 41.667 0.00 0.00 0.00 3.02
2636 6887 7.750903 TGATATTGTGCGAGACTATCTTAATCG 59.249 37.037 0.00 0.00 36.51 3.34
2637 6888 8.972262 TGATATTGTGCGAGACTATCTTAATC 57.028 34.615 0.00 0.00 0.00 1.75
2638 6889 8.797438 TCTGATATTGTGCGAGACTATCTTAAT 58.203 33.333 0.00 0.00 0.00 1.40
2639 6890 8.166422 TCTGATATTGTGCGAGACTATCTTAA 57.834 34.615 0.00 0.00 0.00 1.85
2640 6891 7.745620 TCTGATATTGTGCGAGACTATCTTA 57.254 36.000 0.00 0.00 0.00 2.10
2641 6892 6.641169 TCTGATATTGTGCGAGACTATCTT 57.359 37.500 0.00 0.00 0.00 2.40
2642 6893 6.641169 TTCTGATATTGTGCGAGACTATCT 57.359 37.500 0.00 0.00 0.00 1.98
2643 6894 7.383572 ACATTTCTGATATTGTGCGAGACTATC 59.616 37.037 0.00 0.00 0.00 2.08
2644 6895 7.212976 ACATTTCTGATATTGTGCGAGACTAT 58.787 34.615 0.00 0.00 0.00 2.12
2645 6896 6.573434 ACATTTCTGATATTGTGCGAGACTA 58.427 36.000 0.00 0.00 0.00 2.59
2646 6897 5.423015 ACATTTCTGATATTGTGCGAGACT 58.577 37.500 0.00 0.00 0.00 3.24
2647 6898 5.725110 ACATTTCTGATATTGTGCGAGAC 57.275 39.130 0.00 0.00 0.00 3.36
2648 6899 5.643348 ACAACATTTCTGATATTGTGCGAGA 59.357 36.000 0.00 0.00 32.42 4.04
2649 6900 5.872635 ACAACATTTCTGATATTGTGCGAG 58.127 37.500 0.00 0.00 32.42 5.03
2650 6901 5.643348 AGACAACATTTCTGATATTGTGCGA 59.357 36.000 0.00 0.00 33.76 5.10
2651 6902 5.735892 CAGACAACATTTCTGATATTGTGCG 59.264 40.000 0.00 0.00 42.81 5.34
2652 6903 6.615088 ACAGACAACATTTCTGATATTGTGC 58.385 36.000 6.37 0.00 42.81 4.57
2653 6904 8.177663 GGTACAGACAACATTTCTGATATTGTG 58.822 37.037 6.37 0.00 42.81 3.33
2654 6905 8.103305 AGGTACAGACAACATTTCTGATATTGT 58.897 33.333 6.37 0.00 42.81 2.71
2655 6906 8.498054 AGGTACAGACAACATTTCTGATATTG 57.502 34.615 6.37 0.00 42.81 1.90
2656 6907 9.167311 GAAGGTACAGACAACATTTCTGATATT 57.833 33.333 6.37 0.00 42.81 1.28
2657 6908 8.321353 TGAAGGTACAGACAACATTTCTGATAT 58.679 33.333 6.37 0.00 42.81 1.63
2658 6909 7.676004 TGAAGGTACAGACAACATTTCTGATA 58.324 34.615 6.37 0.00 42.81 2.15
2659 6910 6.533730 TGAAGGTACAGACAACATTTCTGAT 58.466 36.000 6.37 0.00 42.81 2.90
2660 6911 5.924356 TGAAGGTACAGACAACATTTCTGA 58.076 37.500 6.37 0.00 42.81 3.27
2661 6912 6.808008 ATGAAGGTACAGACAACATTTCTG 57.192 37.500 0.00 0.00 45.21 3.02
2662 6913 6.998074 TGAATGAAGGTACAGACAACATTTCT 59.002 34.615 0.00 0.00 30.24 2.52
2663 6914 7.078228 GTGAATGAAGGTACAGACAACATTTC 58.922 38.462 0.00 0.00 30.24 2.17
2664 6915 6.545666 TGTGAATGAAGGTACAGACAACATTT 59.454 34.615 0.00 0.00 30.24 2.32
2665 6916 6.017109 GTGTGAATGAAGGTACAGACAACATT 60.017 38.462 0.00 0.00 31.61 2.71
2666 6917 5.470098 GTGTGAATGAAGGTACAGACAACAT 59.530 40.000 0.00 0.00 0.00 2.71
2667 6918 4.814234 GTGTGAATGAAGGTACAGACAACA 59.186 41.667 0.00 0.00 0.00 3.33
2668 6919 4.084537 CGTGTGAATGAAGGTACAGACAAC 60.085 45.833 0.00 0.00 0.00 3.32
2669 6920 4.055360 CGTGTGAATGAAGGTACAGACAA 58.945 43.478 0.00 0.00 0.00 3.18
2670 6921 3.319689 TCGTGTGAATGAAGGTACAGACA 59.680 43.478 0.00 0.00 0.00 3.41
2671 6922 3.909430 TCGTGTGAATGAAGGTACAGAC 58.091 45.455 0.00 0.00 0.00 3.51


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

AutoCloner maintained by Alex Coulton.