Multiple sequence alignment - TraesCS3D01G505300

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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 TraesCS3D01G505300 chr3D 100.000 2777 0 0 1 2777 592759986 592762762 0.000000e+00 5129.0
1 TraesCS3D01G505300 chr3A 93.277 2231 99 12 101 2310 723567187 723564987 0.000000e+00 3241.0
2 TraesCS3D01G505300 chr3A 88.279 401 14 6 2410 2777 723565004 723564604 1.520000e-122 449.0
3 TraesCS3D01G505300 chr3A 82.128 235 36 6 2527 2757 32096251 32096019 2.180000e-46 196.0
4 TraesCS3D01G505300 chr3A 88.199 161 19 0 2531 2691 501225638 501225798 2.820000e-45 193.0
5 TraesCS3D01G505300 chr3B 89.762 1973 88 34 375 2310 794397268 794395373 0.000000e+00 2420.0
6 TraesCS3D01G505300 chr3B 83.632 391 35 11 2413 2777 794395388 794395001 9.530000e-90 340.0
7 TraesCS3D01G505300 chr5D 78.645 871 112 48 1061 1898 437056585 437057414 6.860000e-141 510.0
8 TraesCS3D01G505300 chr5D 81.081 592 70 14 1000 1576 436971617 436972181 4.250000e-118 435.0
9 TraesCS3D01G505300 chr5D 79.424 243 23 9 2535 2753 494082939 494083178 2.230000e-31 147.0
10 TraesCS3D01G505300 chr5D 98.734 79 1 0 2331 2409 440922085 440922163 1.040000e-29 141.0
11 TraesCS3D01G505300 chr5D 76.020 196 35 8 794 984 436955554 436955742 1.060000e-14 91.6
12 TraesCS3D01G505300 chr5B 77.918 874 124 45 1060 1900 531274693 531275530 5.380000e-132 481.0
13 TraesCS3D01G505300 chr5B 81.588 592 73 13 1000 1576 531187285 531187855 9.070000e-125 457.0
14 TraesCS3D01G505300 chr5B 76.961 204 32 10 788 984 531157415 531157610 4.890000e-18 102.0
15 TraesCS3D01G505300 chr5A 81.302 599 73 13 993 1576 552232705 552233279 1.520000e-122 449.0
16 TraesCS3D01G505300 chr5A 78.541 713 97 36 1213 1898 552322101 552322784 4.280000e-113 418.0
17 TraesCS3D01G505300 chr5A 78.541 713 97 36 1213 1898 552362524 552363207 4.280000e-113 418.0
18 TraesCS3D01G505300 chr5A 86.364 220 26 4 2534 2752 631862033 631862249 1.290000e-58 237.0
19 TraesCS3D01G505300 chr5A 75.000 204 38 8 788 984 552165274 552165471 6.370000e-12 82.4
20 TraesCS3D01G505300 chr2B 85.780 218 29 2 2538 2755 278907473 278907258 2.150000e-56 230.0
21 TraesCS3D01G505300 chr2B 87.273 165 20 1 2527 2691 636775622 636775459 1.310000e-43 187.0
22 TraesCS3D01G505300 chr4A 88.750 160 17 1 2591 2750 545602866 545603024 7.850000e-46 195.0
23 TraesCS3D01G505300 chr4D 87.654 162 18 2 2532 2691 51076343 51076182 1.310000e-43 187.0
24 TraesCS3D01G505300 chr6D 86.335 161 21 1 2531 2691 389297448 389297289 1.020000e-39 174.0


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 TraesCS3D01G505300 chr3D 592759986 592762762 2776 False 5129 5129 100.000 1 2777 1 chr3D.!!$F1 2776
1 TraesCS3D01G505300 chr3A 723564604 723567187 2583 True 1845 3241 90.778 101 2777 2 chr3A.!!$R2 2676
2 TraesCS3D01G505300 chr3B 794395001 794397268 2267 True 1380 2420 86.697 375 2777 2 chr3B.!!$R1 2402
3 TraesCS3D01G505300 chr5D 437056585 437057414 829 False 510 510 78.645 1061 1898 1 chr5D.!!$F3 837
4 TraesCS3D01G505300 chr5D 436971617 436972181 564 False 435 435 81.081 1000 1576 1 chr5D.!!$F2 576
5 TraesCS3D01G505300 chr5B 531274693 531275530 837 False 481 481 77.918 1060 1900 1 chr5B.!!$F3 840
6 TraesCS3D01G505300 chr5B 531187285 531187855 570 False 457 457 81.588 1000 1576 1 chr5B.!!$F2 576
7 TraesCS3D01G505300 chr5A 552232705 552233279 574 False 449 449 81.302 993 1576 1 chr5A.!!$F2 583
8 TraesCS3D01G505300 chr5A 552322101 552322784 683 False 418 418 78.541 1213 1898 1 chr5A.!!$F3 685
9 TraesCS3D01G505300 chr5A 552362524 552363207 683 False 418 418 78.541 1213 1898 1 chr5A.!!$F4 685

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
244 245 0.264359 AGAGATGAGGAGGAGGGGTG 59.736 60.0 0.00 0.0 0.0 4.61 F
664 676 0.321653 AAGTTGAAGCCCGGCAGTAG 60.322 55.0 13.15 0.0 0.0 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1744 1841 1.064314 AGTCAGGTCTATCTCGCTGGT 60.064 52.381 0.0 0.0 0.0 4.0 R
2331 2469 1.355043 AGTTCGACTCCTACCTCCTGT 59.645 52.381 0.0 0.0 0.0 4.0 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
23 24 2.511600 CACCCGTTGGATCTCCGC 60.512 66.667 0.00 0.00 39.43 5.54
24 25 3.782443 ACCCGTTGGATCTCCGCC 61.782 66.667 0.00 0.00 39.43 6.13
25 26 3.470888 CCCGTTGGATCTCCGCCT 61.471 66.667 0.00 0.00 39.43 5.52
26 27 2.202932 CCGTTGGATCTCCGCCTG 60.203 66.667 0.00 0.00 39.43 4.85
27 28 2.892425 CGTTGGATCTCCGCCTGC 60.892 66.667 0.00 0.00 39.43 4.85
28 29 2.892425 GTTGGATCTCCGCCTGCG 60.892 66.667 4.20 4.20 39.43 5.18
29 30 4.838152 TTGGATCTCCGCCTGCGC 62.838 66.667 5.91 0.00 39.43 6.09
32 33 4.959596 GATCTCCGCCTGCGCCTC 62.960 72.222 4.18 0.00 38.24 4.70
57 58 4.688966 GCCCGGCCCATCGATCTC 62.689 72.222 0.00 0.00 0.00 2.75
58 59 2.919856 CCCGGCCCATCGATCTCT 60.920 66.667 0.00 0.00 0.00 3.10
59 60 2.341543 CCGGCCCATCGATCTCTG 59.658 66.667 0.00 0.00 0.00 3.35
60 61 2.341543 CGGCCCATCGATCTCTGG 59.658 66.667 0.00 0.00 0.00 3.86
61 62 2.031768 GGCCCATCGATCTCTGGC 59.968 66.667 13.66 13.66 41.42 4.85
62 63 2.811514 GGCCCATCGATCTCTGGCA 61.812 63.158 20.23 0.00 43.96 4.92
63 64 1.146930 GCCCATCGATCTCTGGCAA 59.853 57.895 16.02 0.00 41.76 4.52
64 65 1.162800 GCCCATCGATCTCTGGCAAC 61.163 60.000 16.02 0.00 41.76 4.17
65 66 0.467384 CCCATCGATCTCTGGCAACT 59.533 55.000 0.00 0.00 37.61 3.16
66 67 1.579698 CCATCGATCTCTGGCAACTG 58.420 55.000 0.00 0.00 37.61 3.16
67 68 0.935898 CATCGATCTCTGGCAACTGC 59.064 55.000 0.00 0.00 41.14 4.40
68 69 0.529337 ATCGATCTCTGGCAACTGCG 60.529 55.000 0.00 0.00 43.26 5.18
69 70 2.806856 CGATCTCTGGCAACTGCGC 61.807 63.158 0.00 0.00 43.26 6.09
77 78 3.286751 GCAACTGCGCCACTGGAA 61.287 61.111 4.18 0.00 0.00 3.53
78 79 2.629656 GCAACTGCGCCACTGGAAT 61.630 57.895 4.18 0.00 0.00 3.01
79 80 1.503542 CAACTGCGCCACTGGAATC 59.496 57.895 4.18 0.00 0.00 2.52
80 81 2.034879 AACTGCGCCACTGGAATCG 61.035 57.895 4.18 0.00 0.00 3.34
81 82 3.197790 CTGCGCCACTGGAATCGG 61.198 66.667 4.18 0.00 0.00 4.18
86 87 4.473520 CCACTGGAATCGGCGCCT 62.474 66.667 26.68 5.36 0.00 5.52
87 88 3.197790 CACTGGAATCGGCGCCTG 61.198 66.667 26.68 18.23 0.00 4.85
88 89 3.706373 ACTGGAATCGGCGCCTGT 61.706 61.111 26.68 10.08 0.00 4.00
89 90 2.892425 CTGGAATCGGCGCCTGTC 60.892 66.667 26.68 17.88 0.00 3.51
90 91 3.664025 CTGGAATCGGCGCCTGTCA 62.664 63.158 26.68 13.95 0.00 3.58
91 92 2.203070 GGAATCGGCGCCTGTCAT 60.203 61.111 26.68 8.08 0.00 3.06
92 93 2.537560 GGAATCGGCGCCTGTCATG 61.538 63.158 26.68 7.77 0.00 3.07
93 94 3.173390 GAATCGGCGCCTGTCATGC 62.173 63.158 26.68 5.80 0.00 4.06
106 107 3.344215 CATGCGAGGATCAGCGGC 61.344 66.667 8.27 0.00 37.43 6.53
124 125 2.282391 GCCACCACCTGATGCACA 60.282 61.111 0.00 0.00 0.00 4.57
174 175 0.905357 CTCGAACTCCCCACCATCTT 59.095 55.000 0.00 0.00 0.00 2.40
179 180 0.842030 ACTCCCCACCATCTTGCTCA 60.842 55.000 0.00 0.00 0.00 4.26
218 219 4.221422 GCTCGCGGGCTGTGGATA 62.221 66.667 26.87 0.00 0.00 2.59
220 221 1.665916 CTCGCGGGCTGTGGATATG 60.666 63.158 6.13 0.00 0.00 1.78
223 224 2.281761 CGGGCTGTGGATATGGGC 60.282 66.667 0.00 0.00 0.00 5.36
227 228 1.748403 GCTGTGGATATGGGCGAGA 59.252 57.895 0.00 0.00 0.00 4.04
244 245 0.264359 AGAGATGAGGAGGAGGGGTG 59.736 60.000 0.00 0.00 0.00 4.61
351 352 3.151958 TAAGCTCATCGCCTCCGCC 62.152 63.158 0.00 0.00 40.39 6.13
403 404 3.761752 ACCAATCGAGGTGGGTAATTTTG 59.238 43.478 19.22 2.09 41.30 2.44
409 410 1.967779 AGGTGGGTAATTTTGTGGTGC 59.032 47.619 0.00 0.00 0.00 5.01
521 530 8.871686 AAAGCATATATGACCCGAAAATTTTC 57.128 30.769 19.08 19.08 0.00 2.29
561 573 2.794910 CCAGTGATAGCGTACCAAATCG 59.205 50.000 0.00 0.00 0.00 3.34
579 591 2.217750 TCGTGAAACCATTGTCCACAG 58.782 47.619 0.00 0.00 0.00 3.66
581 593 0.950836 TGAAACCATTGTCCACAGCG 59.049 50.000 0.00 0.00 0.00 5.18
585 597 0.324614 ACCATTGTCCACAGCGATGA 59.675 50.000 8.12 0.00 31.13 2.92
586 598 0.729116 CCATTGTCCACAGCGATGAC 59.271 55.000 8.12 0.00 31.13 3.06
593 605 3.684305 TGTCCACAGCGATGACAATTAAG 59.316 43.478 8.12 0.00 36.16 1.85
597 609 4.277258 CACAGCGATGACAATTAAGCATC 58.723 43.478 8.12 0.00 36.07 3.91
606 618 8.908678 CGATGACAATTAAGCATCCAATAAATG 58.091 33.333 0.00 0.00 36.04 2.32
613 625 2.916111 GCATCCAATAAATGCGTACCG 58.084 47.619 0.00 0.00 40.05 4.02
658 670 3.506067 AGAAACAATAAGTTGAAGCCCGG 59.494 43.478 0.00 0.00 41.19 5.73
659 671 1.173913 ACAATAAGTTGAAGCCCGGC 58.826 50.000 0.00 0.00 38.71 6.13
660 672 1.173043 CAATAAGTTGAAGCCCGGCA 58.827 50.000 13.15 0.00 37.53 5.69
661 673 1.133025 CAATAAGTTGAAGCCCGGCAG 59.867 52.381 13.15 0.00 37.53 4.85
662 674 0.328258 ATAAGTTGAAGCCCGGCAGT 59.672 50.000 13.15 0.00 0.00 4.40
663 675 0.978151 TAAGTTGAAGCCCGGCAGTA 59.022 50.000 13.15 0.00 0.00 2.74
664 676 0.321653 AAGTTGAAGCCCGGCAGTAG 60.322 55.000 13.15 0.00 0.00 2.57
665 677 1.745489 GTTGAAGCCCGGCAGTAGG 60.745 63.158 13.15 0.00 0.00 3.18
676 688 3.207677 GCAGTAGGCATCATCCGAG 57.792 57.895 0.00 0.00 43.97 4.63
677 689 0.676184 GCAGTAGGCATCATCCGAGA 59.324 55.000 0.00 0.00 43.97 4.04
678 690 1.069204 GCAGTAGGCATCATCCGAGAA 59.931 52.381 0.00 0.00 43.97 2.87
679 691 2.748605 CAGTAGGCATCATCCGAGAAC 58.251 52.381 0.00 0.00 0.00 3.01
680 692 1.689273 AGTAGGCATCATCCGAGAACC 59.311 52.381 0.00 0.00 0.00 3.62
681 693 0.673985 TAGGCATCATCCGAGAACCG 59.326 55.000 0.00 0.00 38.18 4.44
774 786 1.412710 GACAGAAGGGATATGGACGCA 59.587 52.381 0.00 0.00 0.00 5.24
784 796 3.187227 GGATATGGACGCAGCAATTACTG 59.813 47.826 0.92 0.92 40.80 2.74
908 923 2.890766 GCGTTTGACCCCTCCCTCA 61.891 63.158 0.00 0.00 0.00 3.86
983 999 1.480137 CCTGTGCCAAGAAACACCAAA 59.520 47.619 0.00 0.00 35.90 3.28
984 1000 2.539476 CTGTGCCAAGAAACACCAAAC 58.461 47.619 0.00 0.00 35.90 2.93
1209 1279 2.257371 CCGTCAGTCGAGCCGAAA 59.743 61.111 0.00 0.00 42.86 3.46
1744 1841 4.166144 AGTTGAAGAAAAAGGAGGAGACCA 59.834 41.667 0.00 0.00 0.00 4.02
1750 1847 1.831652 AAAGGAGGAGACCACCAGCG 61.832 60.000 6.98 0.00 0.00 5.18
1759 1856 0.386113 GACCACCAGCGAGATAGACC 59.614 60.000 0.00 0.00 0.00 3.85
1795 1893 1.069358 AGCTAGCTCCGATTTGTAGGC 59.931 52.381 12.68 0.00 0.00 3.93
1809 1907 4.487714 TTGTAGGCTCCGATCATTTCTT 57.512 40.909 0.00 0.00 0.00 2.52
1813 1911 1.594862 GGCTCCGATCATTTCTTCGTG 59.405 52.381 0.00 0.00 33.60 4.35
1956 2069 8.596781 TGAGATTAGGTTTCTAGCTAGTCTTT 57.403 34.615 20.10 6.69 45.66 2.52
2155 2286 5.699458 CCCGTGACTGTTTAGTTCAGTTTAT 59.301 40.000 0.00 0.00 44.68 1.40
2233 2370 1.140312 GGATATCTTGCTGGGTCCCA 58.860 55.000 11.11 11.11 0.00 4.37
2282 2420 1.559682 GATAACCAGCCTGGAGTCCAA 59.440 52.381 19.90 0.00 40.96 3.53
2292 2430 2.158900 CCTGGAGTCCAATGAGCGTTAT 60.159 50.000 14.17 0.00 30.80 1.89
2293 2431 3.126831 CTGGAGTCCAATGAGCGTTATC 58.873 50.000 14.17 0.00 30.80 1.75
2294 2432 2.499693 TGGAGTCCAATGAGCGTTATCA 59.500 45.455 10.20 0.00 0.00 2.15
2295 2433 3.134623 TGGAGTCCAATGAGCGTTATCAT 59.865 43.478 10.20 0.00 41.72 2.45
2297 2435 4.576463 GGAGTCCAATGAGCGTTATCATTT 59.424 41.667 3.60 0.00 45.44 2.32
2298 2436 5.758296 GGAGTCCAATGAGCGTTATCATTTA 59.242 40.000 3.60 1.07 45.44 1.40
2299 2437 6.428159 GGAGTCCAATGAGCGTTATCATTTAT 59.572 38.462 3.60 0.00 45.44 1.40
2300 2438 7.041098 GGAGTCCAATGAGCGTTATCATTTATT 60.041 37.037 3.60 0.92 45.44 1.40
2301 2439 8.225603 AGTCCAATGAGCGTTATCATTTATTT 57.774 30.769 9.12 0.00 45.44 1.40
2302 2440 8.345565 AGTCCAATGAGCGTTATCATTTATTTC 58.654 33.333 9.12 2.16 45.44 2.17
2303 2441 8.345565 GTCCAATGAGCGTTATCATTTATTTCT 58.654 33.333 9.12 0.00 45.44 2.52
2304 2442 8.902806 TCCAATGAGCGTTATCATTTATTTCTT 58.097 29.630 9.12 0.00 45.44 2.52
2305 2443 9.520204 CCAATGAGCGTTATCATTTATTTCTTT 57.480 29.630 9.12 0.00 45.44 2.52
2337 2475 6.648879 TTTTGACTGGGAAATTTACAGGAG 57.351 37.500 20.29 8.79 36.57 3.69
2338 2476 4.301072 TGACTGGGAAATTTACAGGAGG 57.699 45.455 20.29 3.69 36.57 4.30
2339 2477 3.655777 TGACTGGGAAATTTACAGGAGGT 59.344 43.478 20.29 6.17 36.57 3.85
2340 2478 4.847512 TGACTGGGAAATTTACAGGAGGTA 59.152 41.667 20.29 5.40 36.57 3.08
2341 2479 5.045869 TGACTGGGAAATTTACAGGAGGTAG 60.046 44.000 20.29 4.05 36.57 3.18
2342 2480 4.227527 ACTGGGAAATTTACAGGAGGTAGG 59.772 45.833 20.29 1.80 36.57 3.18
2343 2481 4.440808 TGGGAAATTTACAGGAGGTAGGA 58.559 43.478 2.10 0.00 32.49 2.94
2344 2482 4.473559 TGGGAAATTTACAGGAGGTAGGAG 59.526 45.833 2.10 0.00 32.49 3.69
2345 2483 4.473922 GGGAAATTTACAGGAGGTAGGAGT 59.526 45.833 2.10 0.00 32.49 3.85
2346 2484 5.396548 GGGAAATTTACAGGAGGTAGGAGTC 60.397 48.000 2.10 0.00 32.49 3.36
2347 2485 5.340439 AAATTTACAGGAGGTAGGAGTCG 57.660 43.478 0.00 0.00 32.49 4.18
2348 2486 3.726557 TTTACAGGAGGTAGGAGTCGA 57.273 47.619 0.00 0.00 32.49 4.20
2349 2487 3.726557 TTACAGGAGGTAGGAGTCGAA 57.273 47.619 0.00 0.00 32.49 3.71
2350 2488 1.836802 ACAGGAGGTAGGAGTCGAAC 58.163 55.000 0.00 0.00 0.00 3.95
2351 2489 1.355043 ACAGGAGGTAGGAGTCGAACT 59.645 52.381 0.00 0.00 0.00 3.01
2352 2490 2.018515 CAGGAGGTAGGAGTCGAACTC 58.981 57.143 6.50 6.50 44.32 3.01
2353 2491 1.634459 AGGAGGTAGGAGTCGAACTCA 59.366 52.381 14.26 0.00 46.79 3.41
2354 2492 1.744522 GGAGGTAGGAGTCGAACTCAC 59.255 57.143 14.26 6.98 46.79 3.51
2355 2493 2.618559 GGAGGTAGGAGTCGAACTCACT 60.619 54.545 14.26 11.49 46.79 3.41
2356 2494 3.370315 GGAGGTAGGAGTCGAACTCACTA 60.370 52.174 14.26 10.79 46.79 2.74
2357 2495 3.608796 AGGTAGGAGTCGAACTCACTAC 58.391 50.000 20.11 20.11 46.79 2.73
2359 2497 2.883122 AGGAGTCGAACTCACTACCT 57.117 50.000 14.26 0.00 46.79 3.08
2360 2498 2.438411 AGGAGTCGAACTCACTACCTG 58.562 52.381 14.26 0.00 46.79 4.00
2361 2499 2.161030 GGAGTCGAACTCACTACCTGT 58.839 52.381 14.26 0.00 46.79 4.00
2362 2500 2.557490 GGAGTCGAACTCACTACCTGTT 59.443 50.000 14.26 0.00 46.79 3.16
2363 2501 3.566523 GAGTCGAACTCACTACCTGTTG 58.433 50.000 9.30 0.00 44.45 3.33
2364 2502 2.957006 AGTCGAACTCACTACCTGTTGT 59.043 45.455 0.00 0.00 0.00 3.32
2365 2503 3.004524 AGTCGAACTCACTACCTGTTGTC 59.995 47.826 0.00 0.00 0.00 3.18
2366 2504 2.295349 TCGAACTCACTACCTGTTGTCC 59.705 50.000 0.00 0.00 0.00 4.02
2367 2505 2.609737 CGAACTCACTACCTGTTGTCCC 60.610 54.545 0.00 0.00 0.00 4.46
2368 2506 2.097110 ACTCACTACCTGTTGTCCCA 57.903 50.000 0.00 0.00 0.00 4.37
2369 2507 2.621070 ACTCACTACCTGTTGTCCCAT 58.379 47.619 0.00 0.00 0.00 4.00
2370 2508 2.979678 ACTCACTACCTGTTGTCCCATT 59.020 45.455 0.00 0.00 0.00 3.16
2371 2509 4.164981 ACTCACTACCTGTTGTCCCATTA 58.835 43.478 0.00 0.00 0.00 1.90
2372 2510 4.783227 ACTCACTACCTGTTGTCCCATTAT 59.217 41.667 0.00 0.00 0.00 1.28
2373 2511 5.104900 ACTCACTACCTGTTGTCCCATTATC 60.105 44.000 0.00 0.00 0.00 1.75
2374 2512 4.119862 CACTACCTGTTGTCCCATTATCG 58.880 47.826 0.00 0.00 0.00 2.92
2375 2513 2.038387 ACCTGTTGTCCCATTATCGC 57.962 50.000 0.00 0.00 0.00 4.58
2376 2514 1.559682 ACCTGTTGTCCCATTATCGCT 59.440 47.619 0.00 0.00 0.00 4.93
2377 2515 2.026262 ACCTGTTGTCCCATTATCGCTT 60.026 45.455 0.00 0.00 0.00 4.68
2378 2516 2.614057 CCTGTTGTCCCATTATCGCTTC 59.386 50.000 0.00 0.00 0.00 3.86
2379 2517 3.535561 CTGTTGTCCCATTATCGCTTCT 58.464 45.455 0.00 0.00 0.00 2.85
2380 2518 3.531538 TGTTGTCCCATTATCGCTTCTC 58.468 45.455 0.00 0.00 0.00 2.87
2381 2519 3.055458 TGTTGTCCCATTATCGCTTCTCA 60.055 43.478 0.00 0.00 0.00 3.27
2382 2520 3.459232 TGTCCCATTATCGCTTCTCAG 57.541 47.619 0.00 0.00 0.00 3.35
2383 2521 3.031013 TGTCCCATTATCGCTTCTCAGA 58.969 45.455 0.00 0.00 0.00 3.27
2384 2522 3.643320 TGTCCCATTATCGCTTCTCAGAT 59.357 43.478 0.00 0.00 0.00 2.90
2385 2523 4.241681 GTCCCATTATCGCTTCTCAGATC 58.758 47.826 0.00 0.00 0.00 2.75
2386 2524 3.259374 TCCCATTATCGCTTCTCAGATCC 59.741 47.826 0.00 0.00 0.00 3.36
2387 2525 3.007290 CCCATTATCGCTTCTCAGATCCA 59.993 47.826 0.00 0.00 0.00 3.41
2388 2526 3.993081 CCATTATCGCTTCTCAGATCCAC 59.007 47.826 0.00 0.00 0.00 4.02
2389 2527 3.735237 TTATCGCTTCTCAGATCCACC 57.265 47.619 0.00 0.00 0.00 4.61
2390 2528 1.786937 ATCGCTTCTCAGATCCACCT 58.213 50.000 0.00 0.00 0.00 4.00
2391 2529 2.437085 TCGCTTCTCAGATCCACCTA 57.563 50.000 0.00 0.00 0.00 3.08
2392 2530 2.302260 TCGCTTCTCAGATCCACCTAG 58.698 52.381 0.00 0.00 0.00 3.02
2393 2531 2.028130 CGCTTCTCAGATCCACCTAGT 58.972 52.381 0.00 0.00 0.00 2.57
2394 2532 2.034053 CGCTTCTCAGATCCACCTAGTC 59.966 54.545 0.00 0.00 0.00 2.59
2395 2533 3.295973 GCTTCTCAGATCCACCTAGTCT 58.704 50.000 0.00 0.00 0.00 3.24
2396 2534 4.465886 GCTTCTCAGATCCACCTAGTCTA 58.534 47.826 0.00 0.00 0.00 2.59
2397 2535 4.518970 GCTTCTCAGATCCACCTAGTCTAG 59.481 50.000 0.00 0.00 0.00 2.43
2398 2536 5.690865 CTTCTCAGATCCACCTAGTCTAGT 58.309 45.833 6.15 0.00 0.00 2.57
2399 2537 5.718801 TCTCAGATCCACCTAGTCTAGTT 57.281 43.478 6.15 0.00 0.00 2.24
2400 2538 6.080969 TCTCAGATCCACCTAGTCTAGTTT 57.919 41.667 6.15 0.00 0.00 2.66
2401 2539 6.123651 TCTCAGATCCACCTAGTCTAGTTTC 58.876 44.000 6.15 0.00 0.00 2.78
2402 2540 5.827756 TCAGATCCACCTAGTCTAGTTTCA 58.172 41.667 6.15 0.00 0.00 2.69
2403 2541 6.253758 TCAGATCCACCTAGTCTAGTTTCAA 58.746 40.000 6.15 0.00 0.00 2.69
2404 2542 6.378564 TCAGATCCACCTAGTCTAGTTTCAAG 59.621 42.308 6.15 0.00 0.00 3.02
2405 2543 6.153680 CAGATCCACCTAGTCTAGTTTCAAGT 59.846 42.308 6.15 0.00 0.00 3.16
2406 2544 7.339721 CAGATCCACCTAGTCTAGTTTCAAGTA 59.660 40.741 6.15 0.00 0.00 2.24
2407 2545 7.558444 AGATCCACCTAGTCTAGTTTCAAGTAG 59.442 40.741 6.15 0.00 34.04 2.57
2408 2546 5.418209 TCCACCTAGTCTAGTTTCAAGTAGC 59.582 44.000 6.15 0.00 33.02 3.58
2515 2655 5.997746 CAGTTTCAAGATGGTTCCTCTTACA 59.002 40.000 4.26 0.00 31.82 2.41
2558 2707 6.025280 CGAAAATGATAAATCCCGAACGTTT 58.975 36.000 0.46 0.00 0.00 3.60
2562 2711 3.685756 TGATAAATCCCGAACGTTTGGAC 59.314 43.478 32.33 14.79 33.23 4.02
2609 2758 5.843673 TTTCATGGCAACTTTAGTTCACA 57.156 34.783 0.00 0.00 35.83 3.58
2641 2790 2.880443 ACCATGGCAACTTTCTGTCAT 58.120 42.857 13.04 0.00 42.35 3.06
2659 2808 5.989249 TGTCATGAAAACGAATTGAGACAG 58.011 37.500 0.00 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 2.511600 GCGGAGATCCAACGGGTG 60.512 66.667 0.00 0.00 35.14 4.61
7 8 3.782443 GGCGGAGATCCAACGGGT 61.782 66.667 0.00 0.00 35.14 5.28
8 9 3.470888 AGGCGGAGATCCAACGGG 61.471 66.667 0.00 0.00 35.14 5.28
9 10 2.202932 CAGGCGGAGATCCAACGG 60.203 66.667 0.00 0.00 35.14 4.44
11 12 2.892425 CGCAGGCGGAGATCCAAC 60.892 66.667 5.63 0.00 35.14 3.77
12 13 4.838152 GCGCAGGCGGAGATCCAA 62.838 66.667 16.06 0.00 40.19 3.53
40 41 4.688966 GAGATCGATGGGCCGGGC 62.689 72.222 22.00 22.00 0.00 6.13
41 42 2.919856 AGAGATCGATGGGCCGGG 60.920 66.667 0.54 0.00 0.00 5.73
42 43 2.341543 CAGAGATCGATGGGCCGG 59.658 66.667 0.54 0.00 0.00 6.13
43 44 2.341543 CCAGAGATCGATGGGCCG 59.658 66.667 0.54 0.00 32.63 6.13
44 45 2.031768 GCCAGAGATCGATGGGCC 59.968 66.667 17.70 0.00 38.70 5.80
45 46 1.146930 TTGCCAGAGATCGATGGGC 59.853 57.895 17.70 11.18 44.82 5.36
46 47 0.467384 AGTTGCCAGAGATCGATGGG 59.533 55.000 17.70 0.00 37.05 4.00
47 48 1.579698 CAGTTGCCAGAGATCGATGG 58.420 55.000 0.54 13.30 39.73 3.51
48 49 0.935898 GCAGTTGCCAGAGATCGATG 59.064 55.000 0.54 0.00 34.31 3.84
49 50 0.529337 CGCAGTTGCCAGAGATCGAT 60.529 55.000 0.00 0.00 37.91 3.59
50 51 1.153765 CGCAGTTGCCAGAGATCGA 60.154 57.895 0.00 0.00 37.91 3.59
51 52 2.806856 GCGCAGTTGCCAGAGATCG 61.807 63.158 0.30 0.00 37.91 3.69
52 53 3.096791 GCGCAGTTGCCAGAGATC 58.903 61.111 0.30 0.00 37.91 2.75
60 61 2.533391 GATTCCAGTGGCGCAGTTGC 62.533 60.000 10.83 0.00 37.78 4.17
61 62 1.503542 GATTCCAGTGGCGCAGTTG 59.496 57.895 10.83 3.23 0.00 3.16
62 63 2.034879 CGATTCCAGTGGCGCAGTT 61.035 57.895 10.83 0.00 0.00 3.16
63 64 2.434884 CGATTCCAGTGGCGCAGT 60.435 61.111 10.83 0.00 0.00 4.40
64 65 3.197790 CCGATTCCAGTGGCGCAG 61.198 66.667 10.83 0.00 0.00 5.18
69 70 4.473520 AGGCGCCGATTCCAGTGG 62.474 66.667 23.20 1.40 0.00 4.00
70 71 3.197790 CAGGCGCCGATTCCAGTG 61.198 66.667 23.20 7.30 0.00 3.66
71 72 3.665675 GACAGGCGCCGATTCCAGT 62.666 63.158 23.20 11.93 0.00 4.00
72 73 2.892425 GACAGGCGCCGATTCCAG 60.892 66.667 23.20 8.65 0.00 3.86
73 74 3.030168 ATGACAGGCGCCGATTCCA 62.030 57.895 23.20 15.98 0.00 3.53
74 75 2.203070 ATGACAGGCGCCGATTCC 60.203 61.111 23.20 10.49 0.00 3.01
75 76 3.017323 CATGACAGGCGCCGATTC 58.983 61.111 23.20 18.71 0.00 2.52
76 77 3.204827 GCATGACAGGCGCCGATT 61.205 61.111 23.20 9.31 0.00 3.34
83 84 0.879400 CTGATCCTCGCATGACAGGC 60.879 60.000 1.00 1.00 0.00 4.85
84 85 0.879400 GCTGATCCTCGCATGACAGG 60.879 60.000 0.00 0.00 0.00 4.00
85 86 1.213733 CGCTGATCCTCGCATGACAG 61.214 60.000 0.00 0.00 0.00 3.51
86 87 1.227060 CGCTGATCCTCGCATGACA 60.227 57.895 0.00 0.00 0.00 3.58
87 88 1.953138 CCGCTGATCCTCGCATGAC 60.953 63.158 0.00 0.00 0.00 3.06
88 89 2.418777 CCGCTGATCCTCGCATGA 59.581 61.111 0.00 0.00 0.00 3.07
89 90 3.344215 GCCGCTGATCCTCGCATG 61.344 66.667 0.00 0.00 0.00 4.06
90 91 4.957684 CGCCGCTGATCCTCGCAT 62.958 66.667 0.00 0.00 0.00 4.73
106 107 3.434319 GTGCATCAGGTGGTGGCG 61.434 66.667 0.00 0.00 0.00 5.69
149 150 2.182030 GGGGAGTTCGAGTCGCAG 59.818 66.667 7.92 0.00 32.71 5.18
152 153 1.605058 ATGGTGGGGAGTTCGAGTCG 61.605 60.000 6.09 6.09 0.00 4.18
174 175 2.331893 CGGCCAAAATCGGTGAGCA 61.332 57.895 2.24 0.00 0.00 4.26
179 180 0.673644 CTCTCACGGCCAAAATCGGT 60.674 55.000 2.24 0.00 0.00 4.69
206 207 2.281761 GCCCATATCCACAGCCCG 60.282 66.667 0.00 0.00 0.00 6.13
218 219 0.831288 CCTCCTCATCTCTCGCCCAT 60.831 60.000 0.00 0.00 0.00 4.00
220 221 1.152652 TCCTCCTCATCTCTCGCCC 60.153 63.158 0.00 0.00 0.00 6.13
223 224 0.539438 CCCCTCCTCCTCATCTCTCG 60.539 65.000 0.00 0.00 0.00 4.04
227 228 1.316266 CCACCCCTCCTCCTCATCT 59.684 63.158 0.00 0.00 0.00 2.90
244 245 1.484637 GGTTATCTACTCCCCTCCCCC 60.485 61.905 0.00 0.00 0.00 5.40
351 352 7.326789 CCTAAACAAAATTATGATAGCATGGCG 59.673 37.037 3.11 0.00 35.94 5.69
382 383 3.761752 ACAAAATTACCCACCTCGATTGG 59.238 43.478 6.28 6.28 0.00 3.16
403 404 3.238232 TGATCAGCAGAAGCACCAC 57.762 52.632 0.00 0.00 45.49 4.16
442 444 7.786178 TGCTGCATAATAAGAATACGAAGTT 57.214 32.000 0.00 0.00 37.78 2.66
444 446 8.167345 CAGATGCTGCATAATAAGAATACGAAG 58.833 37.037 16.23 0.00 0.00 3.79
445 447 7.118245 CCAGATGCTGCATAATAAGAATACGAA 59.882 37.037 16.23 0.00 0.00 3.85
446 448 6.591448 CCAGATGCTGCATAATAAGAATACGA 59.409 38.462 16.23 0.00 0.00 3.43
447 449 6.674037 GCCAGATGCTGCATAATAAGAATACG 60.674 42.308 16.23 0.00 36.87 3.06
515 524 3.012518 CACGGCATCCAGAGAGAAAATT 58.987 45.455 0.00 0.00 0.00 1.82
516 525 2.636830 CACGGCATCCAGAGAGAAAAT 58.363 47.619 0.00 0.00 0.00 1.82
521 530 1.521010 CAGCACGGCATCCAGAGAG 60.521 63.158 0.00 0.00 0.00 3.20
561 573 1.334960 CGCTGTGGACAATGGTTTCAC 60.335 52.381 1.91 1.91 34.32 3.18
579 591 3.969117 TGGATGCTTAATTGTCATCGC 57.031 42.857 9.02 0.00 37.93 4.58
581 593 8.706035 GCATTTATTGGATGCTTAATTGTCATC 58.294 33.333 2.07 7.47 44.92 2.92
585 597 6.572519 ACGCATTTATTGGATGCTTAATTGT 58.427 32.000 7.39 0.00 45.88 2.71
586 598 7.114811 GGTACGCATTTATTGGATGCTTAATTG 59.885 37.037 7.39 0.00 45.88 2.32
613 625 9.462606 TTCTCCTATTTTAGTTTTCCAAGGATC 57.537 33.333 0.00 0.00 31.77 3.36
658 670 0.676184 TCTCGGATGATGCCTACTGC 59.324 55.000 0.00 0.00 41.77 4.40
659 671 2.546795 GGTTCTCGGATGATGCCTACTG 60.547 54.545 0.00 0.00 0.00 2.74
660 672 1.689273 GGTTCTCGGATGATGCCTACT 59.311 52.381 0.00 0.00 0.00 2.57
661 673 1.603172 CGGTTCTCGGATGATGCCTAC 60.603 57.143 0.00 0.00 34.75 3.18
662 674 0.673985 CGGTTCTCGGATGATGCCTA 59.326 55.000 0.00 0.00 34.75 3.93
663 675 1.043116 TCGGTTCTCGGATGATGCCT 61.043 55.000 0.00 0.00 39.77 4.75
664 676 0.876342 GTCGGTTCTCGGATGATGCC 60.876 60.000 0.00 0.00 39.77 4.40
665 677 1.209275 CGTCGGTTCTCGGATGATGC 61.209 60.000 0.00 0.00 39.77 3.91
666 678 0.100682 ACGTCGGTTCTCGGATGATG 59.899 55.000 0.00 0.00 39.77 3.07
667 679 0.100682 CACGTCGGTTCTCGGATGAT 59.899 55.000 0.00 0.00 39.77 2.45
668 680 0.956902 TCACGTCGGTTCTCGGATGA 60.957 55.000 0.00 0.00 39.77 2.92
669 681 0.109458 TTCACGTCGGTTCTCGGATG 60.109 55.000 0.00 0.00 39.77 3.51
670 682 0.170561 CTTCACGTCGGTTCTCGGAT 59.829 55.000 0.00 0.00 39.77 4.18
671 683 0.886043 TCTTCACGTCGGTTCTCGGA 60.886 55.000 0.00 0.00 39.77 4.55
672 684 0.728466 GTCTTCACGTCGGTTCTCGG 60.728 60.000 0.00 0.00 39.77 4.63
673 685 0.040692 TGTCTTCACGTCGGTTCTCG 60.041 55.000 0.00 0.00 40.90 4.04
674 686 2.251893 GATGTCTTCACGTCGGTTCTC 58.748 52.381 0.00 0.00 0.00 2.87
675 687 1.067776 GGATGTCTTCACGTCGGTTCT 60.068 52.381 0.00 0.00 39.22 3.01
676 688 1.336517 TGGATGTCTTCACGTCGGTTC 60.337 52.381 0.00 0.00 39.22 3.62
677 689 0.677288 TGGATGTCTTCACGTCGGTT 59.323 50.000 0.00 0.00 39.22 4.44
678 690 0.243907 CTGGATGTCTTCACGTCGGT 59.756 55.000 0.00 0.00 39.22 4.69
679 691 0.243907 ACTGGATGTCTTCACGTCGG 59.756 55.000 0.00 0.00 39.22 4.79
680 692 1.986378 GAACTGGATGTCTTCACGTCG 59.014 52.381 0.00 0.00 39.22 5.12
681 693 3.026630 TGAACTGGATGTCTTCACGTC 57.973 47.619 0.00 0.00 37.77 4.34
784 796 2.206750 TCACGGCCTTAATTCGTATGC 58.793 47.619 0.00 0.00 35.23 3.14
908 923 3.924922 ACTTATACAAGGGATCGGAGGT 58.075 45.455 0.00 0.00 35.97 3.85
983 999 2.562298 CCCATTAATGGTTGTGCTGTGT 59.438 45.455 28.62 0.00 46.65 3.72
984 1000 2.094078 CCCCATTAATGGTTGTGCTGTG 60.094 50.000 28.62 12.73 46.65 3.66
1260 1333 3.256383 TGTAGAACTTACGCTGGCAGTAA 59.744 43.478 17.16 7.72 33.58 2.24
1744 1841 1.064314 AGTCAGGTCTATCTCGCTGGT 60.064 52.381 0.00 0.00 0.00 4.00
1750 1847 4.207165 AGCTTGAGAGTCAGGTCTATCTC 58.793 47.826 0.00 0.00 38.91 2.75
1788 1886 4.442706 GAAGAAATGATCGGAGCCTACAA 58.557 43.478 0.00 0.00 0.00 2.41
1795 1893 4.033990 TCTCACGAAGAAATGATCGGAG 57.966 45.455 0.00 4.30 0.00 4.63
1956 2069 3.865164 GCACTACATCACATCGATCAACA 59.135 43.478 0.00 0.00 29.21 3.33
2155 2286 3.439558 GGTAGGTGAGATATCCTCCCCAA 60.440 52.174 0.00 0.00 41.31 4.12
2233 2370 6.672266 TTACTCTTCCTCTGATTTGACTGT 57.328 37.500 0.00 0.00 0.00 3.55
2313 2451 6.041523 CCTCCTGTAAATTTCCCAGTCAAAAA 59.958 38.462 13.68 0.00 0.00 1.94
2314 2452 5.538433 CCTCCTGTAAATTTCCCAGTCAAAA 59.462 40.000 13.68 0.00 0.00 2.44
2315 2453 5.076873 CCTCCTGTAAATTTCCCAGTCAAA 58.923 41.667 13.68 0.00 0.00 2.69
2316 2454 4.105697 ACCTCCTGTAAATTTCCCAGTCAA 59.894 41.667 13.68 2.78 0.00 3.18
2317 2455 3.655777 ACCTCCTGTAAATTTCCCAGTCA 59.344 43.478 13.68 3.34 0.00 3.41
2318 2456 4.302559 ACCTCCTGTAAATTTCCCAGTC 57.697 45.455 13.68 0.00 0.00 3.51
2319 2457 4.227527 CCTACCTCCTGTAAATTTCCCAGT 59.772 45.833 13.68 2.95 0.00 4.00
2320 2458 4.473559 TCCTACCTCCTGTAAATTTCCCAG 59.526 45.833 9.69 9.69 0.00 4.45
2321 2459 4.440808 TCCTACCTCCTGTAAATTTCCCA 58.559 43.478 0.00 0.00 0.00 4.37
2322 2460 4.473922 ACTCCTACCTCCTGTAAATTTCCC 59.526 45.833 0.00 0.00 0.00 3.97
2323 2461 5.672503 GACTCCTACCTCCTGTAAATTTCC 58.327 45.833 0.00 0.00 0.00 3.13
2324 2462 5.126707 TCGACTCCTACCTCCTGTAAATTTC 59.873 44.000 0.00 0.00 0.00 2.17
2325 2463 5.021458 TCGACTCCTACCTCCTGTAAATTT 58.979 41.667 0.00 0.00 0.00 1.82
2326 2464 4.607239 TCGACTCCTACCTCCTGTAAATT 58.393 43.478 0.00 0.00 0.00 1.82
2327 2465 4.246712 TCGACTCCTACCTCCTGTAAAT 57.753 45.455 0.00 0.00 0.00 1.40
2328 2466 3.726557 TCGACTCCTACCTCCTGTAAA 57.273 47.619 0.00 0.00 0.00 2.01
2329 2467 3.009916 AGTTCGACTCCTACCTCCTGTAA 59.990 47.826 0.00 0.00 0.00 2.41
2330 2468 2.575279 AGTTCGACTCCTACCTCCTGTA 59.425 50.000 0.00 0.00 0.00 2.74
2331 2469 1.355043 AGTTCGACTCCTACCTCCTGT 59.645 52.381 0.00 0.00 0.00 4.00
2332 2470 2.018515 GAGTTCGACTCCTACCTCCTG 58.981 57.143 4.29 0.00 39.28 3.86
2333 2471 1.634459 TGAGTTCGACTCCTACCTCCT 59.366 52.381 11.01 0.00 44.44 3.69
2334 2472 1.744522 GTGAGTTCGACTCCTACCTCC 59.255 57.143 11.01 0.00 44.44 4.30
2335 2473 2.713877 AGTGAGTTCGACTCCTACCTC 58.286 52.381 11.01 0.00 44.44 3.85
2336 2474 2.883122 AGTGAGTTCGACTCCTACCT 57.117 50.000 11.01 2.20 44.44 3.08
2338 2476 3.374678 CAGGTAGTGAGTTCGACTCCTAC 59.625 52.174 20.11 20.11 44.44 3.18
2339 2477 3.008813 ACAGGTAGTGAGTTCGACTCCTA 59.991 47.826 11.01 9.33 44.44 2.94
2340 2478 2.224818 ACAGGTAGTGAGTTCGACTCCT 60.225 50.000 11.01 10.02 44.44 3.69
2341 2479 2.161030 ACAGGTAGTGAGTTCGACTCC 58.839 52.381 11.01 4.78 44.44 3.85
2342 2480 3.004524 ACAACAGGTAGTGAGTTCGACTC 59.995 47.826 7.74 7.74 45.26 3.36
2343 2481 2.957006 ACAACAGGTAGTGAGTTCGACT 59.043 45.455 0.00 0.00 0.00 4.18
2344 2482 3.306818 GACAACAGGTAGTGAGTTCGAC 58.693 50.000 0.00 0.00 0.00 4.20
2345 2483 2.295349 GGACAACAGGTAGTGAGTTCGA 59.705 50.000 0.00 0.00 0.00 3.71
2346 2484 2.609737 GGGACAACAGGTAGTGAGTTCG 60.610 54.545 0.00 0.00 0.00 3.95
2347 2485 2.367567 TGGGACAACAGGTAGTGAGTTC 59.632 50.000 0.00 0.00 31.92 3.01
2348 2486 2.404559 TGGGACAACAGGTAGTGAGTT 58.595 47.619 0.00 0.00 31.92 3.01
2349 2487 2.097110 TGGGACAACAGGTAGTGAGT 57.903 50.000 0.00 0.00 31.92 3.41
2363 2501 3.735237 TCTGAGAAGCGATAATGGGAC 57.265 47.619 0.00 0.00 0.00 4.46
2364 2502 3.259374 GGATCTGAGAAGCGATAATGGGA 59.741 47.826 0.00 0.00 0.00 4.37
2365 2503 3.007290 TGGATCTGAGAAGCGATAATGGG 59.993 47.826 0.00 0.00 0.00 4.00
2366 2504 3.993081 GTGGATCTGAGAAGCGATAATGG 59.007 47.826 0.00 0.00 0.00 3.16
2367 2505 3.993081 GGTGGATCTGAGAAGCGATAATG 59.007 47.826 0.00 0.00 0.00 1.90
2368 2506 3.900601 AGGTGGATCTGAGAAGCGATAAT 59.099 43.478 0.00 0.00 0.00 1.28
2369 2507 3.300388 AGGTGGATCTGAGAAGCGATAA 58.700 45.455 0.00 0.00 0.00 1.75
2370 2508 2.950781 AGGTGGATCTGAGAAGCGATA 58.049 47.619 0.00 0.00 0.00 2.92
2371 2509 1.786937 AGGTGGATCTGAGAAGCGAT 58.213 50.000 0.00 0.00 0.00 4.58
2372 2510 2.302260 CTAGGTGGATCTGAGAAGCGA 58.698 52.381 0.00 0.00 0.00 4.93
2373 2511 2.028130 ACTAGGTGGATCTGAGAAGCG 58.972 52.381 0.00 0.00 0.00 4.68
2374 2512 3.295973 AGACTAGGTGGATCTGAGAAGC 58.704 50.000 0.00 0.00 0.00 3.86
2375 2513 5.690865 ACTAGACTAGGTGGATCTGAGAAG 58.309 45.833 14.03 0.00 0.00 2.85
2376 2514 5.718801 ACTAGACTAGGTGGATCTGAGAA 57.281 43.478 14.03 0.00 0.00 2.87
2377 2515 5.718801 AACTAGACTAGGTGGATCTGAGA 57.281 43.478 14.03 0.00 0.00 3.27
2378 2516 5.888724 TGAAACTAGACTAGGTGGATCTGAG 59.111 44.000 14.03 0.00 0.00 3.35
2379 2517 5.827756 TGAAACTAGACTAGGTGGATCTGA 58.172 41.667 14.03 0.00 0.00 3.27
2380 2518 6.153680 ACTTGAAACTAGACTAGGTGGATCTG 59.846 42.308 14.03 3.10 0.00 2.90
2381 2519 6.257586 ACTTGAAACTAGACTAGGTGGATCT 58.742 40.000 14.03 0.00 0.00 2.75
2382 2520 6.532988 ACTTGAAACTAGACTAGGTGGATC 57.467 41.667 14.03 2.89 0.00 3.36
2383 2521 6.097129 GCTACTTGAAACTAGACTAGGTGGAT 59.903 42.308 14.03 0.00 0.00 3.41
2384 2522 5.418209 GCTACTTGAAACTAGACTAGGTGGA 59.582 44.000 14.03 0.00 0.00 4.02
2385 2523 5.419471 AGCTACTTGAAACTAGACTAGGTGG 59.581 44.000 14.03 4.31 0.00 4.61
2386 2524 6.151312 TGAGCTACTTGAAACTAGACTAGGTG 59.849 42.308 14.03 0.00 0.00 4.00
2387 2525 6.246919 TGAGCTACTTGAAACTAGACTAGGT 58.753 40.000 14.03 4.10 0.00 3.08
2388 2526 6.761099 TGAGCTACTTGAAACTAGACTAGG 57.239 41.667 14.03 0.00 0.00 3.02
2406 2544 9.028284 TCCTTCAATCAAAGAAATAAATGAGCT 57.972 29.630 0.00 0.00 0.00 4.09
2407 2545 9.080915 GTCCTTCAATCAAAGAAATAAATGAGC 57.919 33.333 0.00 0.00 0.00 4.26
2408 2546 9.578439 GGTCCTTCAATCAAAGAAATAAATGAG 57.422 33.333 0.00 0.00 0.00 2.90
2558 2707 2.554344 GGGTGGTCATGCTTAAAGTCCA 60.554 50.000 0.00 0.00 0.00 4.02
2562 2711 2.107950 TCGGGTGGTCATGCTTAAAG 57.892 50.000 0.00 0.00 0.00 1.85
2609 2758 1.876497 GCCATGGTTGCCAACATCGT 61.876 55.000 14.67 0.00 36.95 3.73
2641 2790 5.504010 GCAACTCTGTCTCAATTCGTTTTCA 60.504 40.000 0.00 0.00 0.00 2.69
2659 2808 7.704899 ACTTTAGTTGTTAAAACATGGCAACTC 59.295 33.333 10.85 5.61 44.10 3.01


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

AutoCloner maintained by Alex Coulton.