Multiple sequence alignment - TraesCS7D01G249100

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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 TraesCS7D01G249100 chr7D 100.000 3049 0 0 400 3448 220506650 220509698 0.000000e+00 5631
1 TraesCS7D01G249100 chr7D 100.000 118 0 0 1 118 220506251 220506368 5.790000e-53 219
2 TraesCS7D01G249100 chr7D 94.958 119 4 2 1 118 68785173 68785056 5.880000e-43 185
3 TraesCS7D01G249100 chr7A 95.337 1780 67 6 785 2552 232742031 232743806 0.000000e+00 2813
4 TraesCS7D01G249100 chr7A 92.794 902 46 10 2549 3446 232744062 232744948 0.000000e+00 1288
5 TraesCS7D01G249100 chr7A 94.628 242 12 1 403 644 138990909 138990669 1.170000e-99 374
6 TraesCS7D01G249100 chr7A 90.845 142 13 0 652 793 12119444 12119585 1.260000e-44 191
7 TraesCS7D01G249100 chr7B 94.448 1693 57 13 1734 3407 178419392 178417718 0.000000e+00 2571
8 TraesCS7D01G249100 chr7B 93.948 727 22 5 960 1675 178420109 178419394 0.000000e+00 1079
9 TraesCS7D01G249100 chr3D 81.442 652 104 11 1819 2464 523840268 523840908 5.100000e-143 518
10 TraesCS7D01G249100 chr3D 95.510 245 7 2 400 644 9074754 9074514 4.170000e-104 388
11 TraesCS7D01G249100 chr2D 96.234 239 9 0 400 638 577626396 577626634 3.230000e-105 392
12 TraesCS7D01G249100 chr2D 94.309 246 13 1 400 645 63907255 63907499 3.250000e-100 375
13 TraesCS7D01G249100 chr4D 95.062 243 10 2 400 641 481007857 481008098 6.980000e-102 381
14 TraesCS7D01G249100 chr4D 94.872 117 5 1 1 116 481007750 481007866 7.600000e-42 182
15 TraesCS7D01G249100 chr4D 94.118 119 6 1 1 118 295011602 295011484 2.730000e-41 180
16 TraesCS7D01G249100 chr5D 95.417 240 7 2 400 636 398650284 398650046 2.510000e-101 379
17 TraesCS7D01G249100 chr5D 84.364 275 41 2 1082 1355 381910318 381910591 5.670000e-68 268
18 TraesCS7D01G249100 chr3B 83.698 411 57 9 998 1405 691351157 691351560 2.510000e-101 379
19 TraesCS7D01G249100 chr3B 90.845 142 13 0 652 793 760558138 760557997 1.260000e-44 191
20 TraesCS7D01G249100 chr3B 90.780 141 13 0 652 792 59362737 59362597 4.540000e-44 189
21 TraesCS7D01G249100 chr6D 95.726 234 9 1 400 633 47179943 47180175 3.250000e-100 375
22 TraesCS7D01G249100 chr6D 94.167 120 5 2 1 118 47179835 47179954 7.600000e-42 182
23 TraesCS7D01G249100 chr6D 94.118 119 5 2 1 118 114167611 114167728 2.730000e-41 180
24 TraesCS7D01G249100 chr3A 82.517 429 72 3 2038 2464 658750428 658750855 1.170000e-99 374
25 TraesCS7D01G249100 chr2A 94.167 240 10 2 408 646 765376749 765376513 2.530000e-96 363
26 TraesCS7D01G249100 chr2A 90.780 141 13 0 652 792 777253058 777252918 4.540000e-44 189
27 TraesCS7D01G249100 chr4B 93.966 232 13 1 400 631 659716331 659716561 1.970000e-92 350
28 TraesCS7D01G249100 chr5B 84.364 275 41 2 1082 1355 458144862 458145135 5.670000e-68 268
29 TraesCS7D01G249100 chr5A 84.000 275 42 2 1082 1355 482118619 482118892 2.640000e-66 263
30 TraesCS7D01G249100 chr5A 89.474 152 15 1 652 803 568113394 568113244 1.260000e-44 191
31 TraesCS7D01G249100 chrUn 83.534 249 39 2 1082 1329 479539660 479539907 7.440000e-57 231
32 TraesCS7D01G249100 chr6B 91.549 142 12 0 652 793 123701572 123701431 2.710000e-46 196
33 TraesCS7D01G249100 chr6B 90.780 141 13 0 652 792 12748764 12748624 4.540000e-44 189
34 TraesCS7D01G249100 chr2B 91.549 142 12 0 652 793 40498724 40498865 2.710000e-46 196
35 TraesCS7D01G249100 chr2B 89.189 148 14 2 652 798 16225416 16225270 2.110000e-42 183
36 TraesCS7D01G249100 chr6A 94.958 119 5 1 1 118 14132040 14132158 5.880000e-43 185
37 TraesCS7D01G249100 chr1D 94.958 119 5 1 1 118 478501105 478501223 5.880000e-43 185
38 TraesCS7D01G249100 chr1D 94.167 120 5 2 1 118 34587763 34587882 7.600000e-42 182
39 TraesCS7D01G249100 chr1A 94.118 119 6 1 1 118 22343251 22343133 2.730000e-41 180


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 TraesCS7D01G249100 chr7D 220506251 220509698 3447 False 2925.0 5631 100.0000 1 3448 2 chr7D.!!$F1 3447
1 TraesCS7D01G249100 chr7A 232742031 232744948 2917 False 2050.5 2813 94.0655 785 3446 2 chr7A.!!$F2 2661
2 TraesCS7D01G249100 chr7B 178417718 178420109 2391 True 1825.0 2571 94.1980 960 3407 2 chr7B.!!$R1 2447
3 TraesCS7D01G249100 chr3D 523840268 523840908 640 False 518.0 518 81.4420 1819 2464 1 chr3D.!!$F1 645

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
51 52 0.038166 TGAAACAGATGGACCAGGCC 59.962 55.0 0.00 0.0 0.00 5.19 F
53 54 0.251341 AAACAGATGGACCAGGCCAC 60.251 55.0 5.01 0.0 41.56 5.01 F
890 891 0.622665 CAACCAGCTCCCATTCCTCT 59.377 55.0 0.00 0.0 0.00 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1473 1477 0.893270 CATCCGGAAAGCCCACACAA 60.893 55.000 9.01 0.0 34.14 3.33 R
1742 1762 4.596212 TGAGATGCCACTCCTGATTATCAT 59.404 41.667 0.00 0.0 36.22 2.45 R
2449 2472 0.323999 TGGATCTGGCATGCAGCTTT 60.324 50.000 21.36 0.0 44.79 3.51 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
32 33 4.148825 GCACCGGCGGTCAGATCT 62.149 66.667 31.82 1.90 31.02 2.75
33 34 2.202797 CACCGGCGGTCAGATCTG 60.203 66.667 31.82 17.07 31.02 2.90
34 35 2.362503 ACCGGCGGTCAGATCTGA 60.363 61.111 28.83 21.67 37.24 3.27
35 36 1.982395 ACCGGCGGTCAGATCTGAA 60.982 57.895 28.83 8.77 41.85 3.02
36 37 1.218047 CCGGCGGTCAGATCTGAAA 59.782 57.895 26.70 3.20 41.85 2.69
37 38 1.084370 CCGGCGGTCAGATCTGAAAC 61.084 60.000 26.70 20.18 41.85 2.78
38 39 0.389817 CGGCGGTCAGATCTGAAACA 60.390 55.000 26.70 1.98 41.85 2.83
39 40 1.363744 GGCGGTCAGATCTGAAACAG 58.636 55.000 26.70 16.94 41.85 3.16
40 41 1.066858 GGCGGTCAGATCTGAAACAGA 60.067 52.381 26.70 0.75 44.99 3.41
50 51 1.003580 TCTGAAACAGATGGACCAGGC 59.996 52.381 0.00 0.00 35.39 4.85
51 52 0.038166 TGAAACAGATGGACCAGGCC 59.962 55.000 0.00 0.00 0.00 5.19
52 53 0.038166 GAAACAGATGGACCAGGCCA 59.962 55.000 5.01 0.00 43.23 5.36
53 54 0.251341 AAACAGATGGACCAGGCCAC 60.251 55.000 5.01 0.00 41.56 5.01
54 55 2.142292 AACAGATGGACCAGGCCACC 62.142 60.000 5.01 3.18 41.56 4.61
55 56 3.402681 AGATGGACCAGGCCACCG 61.403 66.667 5.01 0.00 41.56 4.94
56 57 3.717294 GATGGACCAGGCCACCGT 61.717 66.667 5.01 3.94 41.56 4.83
57 58 2.285069 ATGGACCAGGCCACCGTA 60.285 61.111 5.01 0.00 41.56 4.02
58 59 2.311688 GATGGACCAGGCCACCGTAG 62.312 65.000 5.01 0.00 41.56 3.51
71 72 4.867599 CGTAGGAGCGCCCCGAAC 62.868 72.222 2.29 4.94 34.66 3.95
72 73 4.867599 GTAGGAGCGCCCCGAACG 62.868 72.222 2.29 0.00 34.66 3.95
101 102 4.410400 GACCACCCGGGGAAGCAG 62.410 72.222 27.92 8.80 42.91 4.24
104 105 4.785453 CACCCGGGGAAGCAGCTC 62.785 72.222 27.92 0.00 0.00 4.09
107 108 4.479993 CCGGGGAAGCAGCTCCTG 62.480 72.222 0.00 0.00 35.63 3.86
420 421 3.462678 GTCGCCCCCTGAGTCCTC 61.463 72.222 0.00 0.00 0.00 3.71
504 505 2.841988 GCTGCGGGGAGGAGAGAT 60.842 66.667 0.00 0.00 41.23 2.75
505 506 2.866726 GCTGCGGGGAGGAGAGATC 61.867 68.421 0.00 0.00 41.23 2.75
506 507 2.123251 TGCGGGGAGGAGAGATCC 60.123 66.667 0.00 0.00 35.99 3.36
510 511 2.920384 GGGAGGAGAGATCCCGCC 60.920 72.222 1.34 1.34 46.85 6.13
511 512 3.299190 GGAGGAGAGATCCCGCCG 61.299 72.222 0.00 0.00 34.04 6.46
512 513 3.984749 GAGGAGAGATCCCGCCGC 61.985 72.222 0.00 0.00 0.00 6.53
564 565 3.086600 GGGCAGGAGAGGTGGGAG 61.087 72.222 0.00 0.00 0.00 4.30
565 566 2.039624 GGCAGGAGAGGTGGGAGA 59.960 66.667 0.00 0.00 0.00 3.71
566 567 2.063378 GGCAGGAGAGGTGGGAGAG 61.063 68.421 0.00 0.00 0.00 3.20
567 568 2.063378 GCAGGAGAGGTGGGAGAGG 61.063 68.421 0.00 0.00 0.00 3.69
568 569 1.382420 CAGGAGAGGTGGGAGAGGG 60.382 68.421 0.00 0.00 0.00 4.30
569 570 1.547755 AGGAGAGGTGGGAGAGGGA 60.548 63.158 0.00 0.00 0.00 4.20
570 571 1.075600 GGAGAGGTGGGAGAGGGAG 60.076 68.421 0.00 0.00 0.00 4.30
571 572 1.760480 GAGAGGTGGGAGAGGGAGC 60.760 68.421 0.00 0.00 0.00 4.70
572 573 2.766229 GAGGTGGGAGAGGGAGCC 60.766 72.222 0.00 0.00 0.00 4.70
573 574 4.787280 AGGTGGGAGAGGGAGCCG 62.787 72.222 0.00 0.00 0.00 5.52
574 575 4.779733 GGTGGGAGAGGGAGCCGA 62.780 72.222 0.00 0.00 0.00 5.54
575 576 3.151022 GTGGGAGAGGGAGCCGAG 61.151 72.222 0.00 0.00 0.00 4.63
576 577 4.465446 TGGGAGAGGGAGCCGAGG 62.465 72.222 0.00 0.00 0.00 4.63
595 596 4.778143 CTTGGCGGCGCTAGGGTT 62.778 66.667 32.30 0.00 0.00 4.11
596 597 4.770874 TTGGCGGCGCTAGGGTTC 62.771 66.667 32.30 13.58 0.00 3.62
636 637 3.077556 CGACCCAGGGGAGAGGTG 61.078 72.222 11.37 0.00 38.96 4.00
637 638 2.689034 GACCCAGGGGAGAGGTGG 60.689 72.222 11.37 0.00 38.96 4.61
640 641 2.366167 CCAGGGGAGAGGTGGGAG 60.366 72.222 0.00 0.00 0.00 4.30
641 642 2.780693 CAGGGGAGAGGTGGGAGA 59.219 66.667 0.00 0.00 0.00 3.71
642 643 1.382420 CAGGGGAGAGGTGGGAGAG 60.382 68.421 0.00 0.00 0.00 3.20
643 644 2.041405 GGGGAGAGGTGGGAGAGG 60.041 72.222 0.00 0.00 0.00 3.69
644 645 2.041405 GGGAGAGGTGGGAGAGGG 60.041 72.222 0.00 0.00 0.00 4.30
645 646 2.041405 GGAGAGGTGGGAGAGGGG 60.041 72.222 0.00 0.00 0.00 4.79
646 647 2.637640 GGAGAGGTGGGAGAGGGGA 61.638 68.421 0.00 0.00 0.00 4.81
647 648 1.075600 GAGAGGTGGGAGAGGGGAG 60.076 68.421 0.00 0.00 0.00 4.30
648 649 1.547755 AGAGGTGGGAGAGGGGAGA 60.548 63.158 0.00 0.00 0.00 3.71
649 650 1.075600 GAGGTGGGAGAGGGGAGAG 60.076 68.421 0.00 0.00 0.00 3.20
650 651 2.041405 GGTGGGAGAGGGGAGAGG 60.041 72.222 0.00 0.00 0.00 3.69
651 652 2.766229 GTGGGAGAGGGGAGAGGC 60.766 72.222 0.00 0.00 0.00 4.70
652 653 3.284251 TGGGAGAGGGGAGAGGCA 61.284 66.667 0.00 0.00 0.00 4.75
653 654 2.041265 GGGAGAGGGGAGAGGCAA 59.959 66.667 0.00 0.00 0.00 4.52
654 655 1.616628 GGGAGAGGGGAGAGGCAAA 60.617 63.158 0.00 0.00 0.00 3.68
655 656 1.208165 GGGAGAGGGGAGAGGCAAAA 61.208 60.000 0.00 0.00 0.00 2.44
656 657 0.698818 GGAGAGGGGAGAGGCAAAAA 59.301 55.000 0.00 0.00 0.00 1.94
750 751 9.884636 TTTAATTTCTCAAATCGATGACCTAGA 57.115 29.630 0.00 0.00 0.00 2.43
751 752 9.884636 TTAATTTCTCAAATCGATGACCTAGAA 57.115 29.630 0.00 1.98 0.00 2.10
752 753 8.970859 AATTTCTCAAATCGATGACCTAGAAT 57.029 30.769 0.00 0.00 0.00 2.40
753 754 8.970859 ATTTCTCAAATCGATGACCTAGAATT 57.029 30.769 0.00 0.00 0.00 2.17
755 756 8.873215 TTCTCAAATCGATGACCTAGAATTAC 57.127 34.615 0.00 0.00 0.00 1.89
756 757 7.139392 TCTCAAATCGATGACCTAGAATTACG 58.861 38.462 0.00 0.00 0.00 3.18
757 758 5.690409 TCAAATCGATGACCTAGAATTACGC 59.310 40.000 0.00 0.00 0.00 4.42
758 759 3.263602 TCGATGACCTAGAATTACGCG 57.736 47.619 3.53 3.53 0.00 6.01
759 760 2.874086 TCGATGACCTAGAATTACGCGA 59.126 45.455 15.93 0.00 0.00 5.87
760 761 3.313249 TCGATGACCTAGAATTACGCGAA 59.687 43.478 15.93 2.74 0.00 4.70
761 762 4.023450 TCGATGACCTAGAATTACGCGAAT 60.023 41.667 15.93 5.44 0.00 3.34
762 763 4.088638 CGATGACCTAGAATTACGCGAATG 59.911 45.833 15.93 0.00 0.00 2.67
763 764 4.642445 TGACCTAGAATTACGCGAATGA 57.358 40.909 15.93 0.00 0.00 2.57
764 765 4.357142 TGACCTAGAATTACGCGAATGAC 58.643 43.478 15.93 6.83 0.00 3.06
765 766 4.097437 TGACCTAGAATTACGCGAATGACT 59.903 41.667 15.93 13.09 0.00 3.41
766 767 5.007385 ACCTAGAATTACGCGAATGACTT 57.993 39.130 15.93 0.00 0.00 3.01
767 768 6.140303 ACCTAGAATTACGCGAATGACTTA 57.860 37.500 15.93 0.00 0.00 2.24
768 769 6.746120 ACCTAGAATTACGCGAATGACTTAT 58.254 36.000 15.93 0.00 0.00 1.73
769 770 7.879070 ACCTAGAATTACGCGAATGACTTATA 58.121 34.615 15.93 0.00 0.00 0.98
770 771 7.806960 ACCTAGAATTACGCGAATGACTTATAC 59.193 37.037 15.93 0.00 0.00 1.47
771 772 7.806487 CCTAGAATTACGCGAATGACTTATACA 59.194 37.037 15.93 0.00 0.00 2.29
772 773 7.390918 AGAATTACGCGAATGACTTATACAC 57.609 36.000 15.93 0.00 0.00 2.90
773 774 7.201145 AGAATTACGCGAATGACTTATACACT 58.799 34.615 15.93 0.00 0.00 3.55
774 775 6.749216 ATTACGCGAATGACTTATACACTG 57.251 37.500 15.93 0.00 0.00 3.66
775 776 3.444916 ACGCGAATGACTTATACACTGG 58.555 45.455 15.93 0.00 0.00 4.00
776 777 2.794910 CGCGAATGACTTATACACTGGG 59.205 50.000 0.00 0.00 0.00 4.45
777 778 3.737047 CGCGAATGACTTATACACTGGGT 60.737 47.826 0.00 0.00 0.00 4.51
778 779 3.802685 GCGAATGACTTATACACTGGGTC 59.197 47.826 0.00 0.00 0.00 4.46
779 780 4.042398 CGAATGACTTATACACTGGGTCG 58.958 47.826 0.00 0.00 0.00 4.79
780 781 4.369182 GAATGACTTATACACTGGGTCGG 58.631 47.826 0.00 0.00 0.00 4.79
781 782 3.090210 TGACTTATACACTGGGTCGGA 57.910 47.619 0.00 0.00 0.00 4.55
782 783 3.021695 TGACTTATACACTGGGTCGGAG 58.978 50.000 0.00 0.00 0.00 4.63
783 784 2.361438 GACTTATACACTGGGTCGGAGG 59.639 54.545 0.00 0.00 0.00 4.30
787 788 1.797018 TACACTGGGTCGGAGGGAGT 61.797 60.000 0.00 0.00 0.00 3.85
794 795 1.476652 GGGTCGGAGGGAGTAGTAGAC 60.477 61.905 0.00 0.00 0.00 2.59
797 798 3.553904 GTCGGAGGGAGTAGTAGACATT 58.446 50.000 0.00 0.00 0.00 2.71
798 799 3.315749 GTCGGAGGGAGTAGTAGACATTG 59.684 52.174 0.00 0.00 0.00 2.82
799 800 2.034812 CGGAGGGAGTAGTAGACATTGC 59.965 54.545 0.00 0.00 0.00 3.56
806 807 2.840651 AGTAGTAGACATTGCCCTGCTT 59.159 45.455 3.42 0.00 0.00 3.91
825 826 1.916506 TCAAATGACGGAAATGCCCA 58.083 45.000 0.00 0.00 0.00 5.36
826 827 1.818060 TCAAATGACGGAAATGCCCAG 59.182 47.619 0.00 0.00 0.00 4.45
883 884 4.284550 GCCACCAACCAGCTCCCA 62.285 66.667 0.00 0.00 0.00 4.37
890 891 0.622665 CAACCAGCTCCCATTCCTCT 59.377 55.000 0.00 0.00 0.00 3.69
900 901 2.045047 TCCCATTCCTCTTCTCACCTCT 59.955 50.000 0.00 0.00 0.00 3.69
905 906 1.006519 TCCTCTTCTCACCTCTCCAGG 59.993 57.143 0.00 0.00 46.87 4.45
944 945 4.309950 AAGCCCACCACCGACGAC 62.310 66.667 0.00 0.00 0.00 4.34
953 954 4.312152 ACCGACGACCCCCTCCTT 62.312 66.667 0.00 0.00 0.00 3.36
954 955 3.459063 CCGACGACCCCCTCCTTC 61.459 72.222 0.00 0.00 0.00 3.46
955 956 3.459063 CGACGACCCCCTCCTTCC 61.459 72.222 0.00 0.00 0.00 3.46
1438 1442 5.472137 TCATCTGCCAGTAACAGTTTTAACC 59.528 40.000 0.00 0.00 36.50 2.85
1473 1477 2.351706 TTCAAGCCAGGGTTAAACGT 57.648 45.000 2.79 0.00 0.00 3.99
1660 1677 8.410673 TTCTGTACAACTGACTAGAGATCTTT 57.589 34.615 0.00 0.00 0.00 2.52
1682 1702 9.125026 TCTTTAGAAGATTCATTCTAATTGCCC 57.875 33.333 9.13 0.00 46.10 5.36
1701 1721 3.104512 CCCTACATGTTCACTGGGAGTA 58.895 50.000 2.30 0.00 36.90 2.59
1711 1731 4.649088 TCACTGGGAGTATAACACATCG 57.351 45.455 0.00 0.00 0.00 3.84
1719 1739 7.879070 TGGGAGTATAACACATCGTATAGTTC 58.121 38.462 0.00 0.00 0.00 3.01
1767 1787 3.947612 AATCAGGAGTGGCATCTCATT 57.052 42.857 15.59 7.12 36.30 2.57
1951 1974 1.073284 GCCCTTCCTGTTTACTGGTCA 59.927 52.381 5.81 0.00 36.48 4.02
1989 2012 9.607988 TTCTTCTGTCAGTTGTTGTTAATTAGA 57.392 29.630 0.00 0.00 0.00 2.10
2123 2146 4.406456 AGTTATTGGAACAGAATGCCACA 58.594 39.130 0.00 0.00 42.53 4.17
2535 2559 5.116680 GGTAACGCTAGAAGTATTGTATGCG 59.883 44.000 0.00 0.00 42.45 4.73
2592 2875 1.656429 CGACTGTTGCGTTTGTGTAGC 60.656 52.381 0.00 0.00 0.00 3.58
2751 3043 5.592282 TGATAATTCATCGCCCTTTGCTTTA 59.408 36.000 0.00 0.00 36.33 1.85
2752 3044 4.799564 AATTCATCGCCCTTTGCTTTAA 57.200 36.364 0.00 0.00 38.05 1.52
2753 3045 3.569250 TTCATCGCCCTTTGCTTTAAC 57.431 42.857 0.00 0.00 38.05 2.01
2769 3061 7.667043 TGCTTTAACATAAGTTCACTACTGG 57.333 36.000 0.00 0.00 39.15 4.00
2831 3123 4.083431 CCATTGCTCTCTTGTTCTGTGAAG 60.083 45.833 0.00 0.00 0.00 3.02
2896 3189 2.163211 GAGAGATCTTGCCTTGGTTTGC 59.837 50.000 0.00 0.00 0.00 3.68
2958 3252 8.034215 TGGCATTTTCTCTATTTTGGTGTAATG 58.966 33.333 0.00 0.00 0.00 1.90
2960 3254 8.863049 GCATTTTCTCTATTTTGGTGTAATGTG 58.137 33.333 0.00 0.00 0.00 3.21
2961 3255 9.912634 CATTTTCTCTATTTTGGTGTAATGTGT 57.087 29.630 0.00 0.00 0.00 3.72
2962 3256 9.912634 ATTTTCTCTATTTTGGTGTAATGTGTG 57.087 29.630 0.00 0.00 0.00 3.82
2963 3257 8.684386 TTTCTCTATTTTGGTGTAATGTGTGA 57.316 30.769 0.00 0.00 0.00 3.58
2964 3258 7.667043 TCTCTATTTTGGTGTAATGTGTGAC 57.333 36.000 0.00 0.00 0.00 3.67
2965 3259 6.367695 TCTCTATTTTGGTGTAATGTGTGACG 59.632 38.462 0.00 0.00 0.00 4.35
2966 3260 5.992829 TCTATTTTGGTGTAATGTGTGACGT 59.007 36.000 0.00 0.00 0.00 4.34
2967 3261 4.966965 TTTTGGTGTAATGTGTGACGTT 57.033 36.364 0.00 0.00 0.00 3.99
2968 3262 6.621316 ATTTTGGTGTAATGTGTGACGTTA 57.379 33.333 0.00 0.00 0.00 3.18
2969 3263 6.432607 TTTTGGTGTAATGTGTGACGTTAA 57.567 33.333 0.00 0.00 32.02 2.01
3044 3338 2.848694 AGATATATGGGAGCATGGGTGG 59.151 50.000 0.00 0.00 0.00 4.61
3110 3405 9.294030 CCTCAAAATCTATTGTGAATTTACAGC 57.706 33.333 3.07 0.00 33.86 4.40
3135 3430 1.202698 ACAAGTGTGGGAGTTCAGAGC 60.203 52.381 0.00 0.00 0.00 4.09
3201 3503 1.407437 CGGCTTATCCAAGTGCCTTCT 60.407 52.381 0.00 0.00 42.90 2.85
3372 3674 1.715931 TCACCAACATCCCCCATCTTT 59.284 47.619 0.00 0.00 0.00 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 4.148825 AGATCTGACCGCCGGTGC 62.149 66.667 16.53 6.10 35.25 5.01
16 17 2.202797 CAGATCTGACCGCCGGTG 60.203 66.667 16.53 8.42 35.25 4.94
17 18 1.541310 TTTCAGATCTGACCGCCGGT 61.541 55.000 25.07 9.43 39.66 5.28
18 19 1.084370 GTTTCAGATCTGACCGCCGG 61.084 60.000 25.07 0.00 39.66 6.13
19 20 0.389817 TGTTTCAGATCTGACCGCCG 60.390 55.000 25.07 0.00 39.66 6.46
20 21 1.066858 TCTGTTTCAGATCTGACCGCC 60.067 52.381 25.07 12.89 39.66 6.13
21 22 2.370281 TCTGTTTCAGATCTGACCGC 57.630 50.000 25.07 16.99 39.66 5.68
22 23 3.118992 TCCATCTGTTTCAGATCTGACCG 60.119 47.826 25.07 11.66 46.83 4.79
23 24 4.187694 GTCCATCTGTTTCAGATCTGACC 58.812 47.826 25.07 17.93 46.83 4.02
24 25 4.187694 GGTCCATCTGTTTCAGATCTGAC 58.812 47.826 25.07 15.50 46.83 3.51
25 26 3.840078 TGGTCCATCTGTTTCAGATCTGA 59.160 43.478 21.67 21.67 46.83 3.27
26 27 4.190001 CTGGTCCATCTGTTTCAGATCTG 58.810 47.826 17.07 17.07 46.83 2.90
27 28 3.199508 CCTGGTCCATCTGTTTCAGATCT 59.800 47.826 8.98 0.00 46.83 2.75
28 29 3.539604 CCTGGTCCATCTGTTTCAGATC 58.460 50.000 8.98 0.61 46.83 2.75
30 31 1.003580 GCCTGGTCCATCTGTTTCAGA 59.996 52.381 1.92 1.92 44.99 3.27
31 32 1.457346 GCCTGGTCCATCTGTTTCAG 58.543 55.000 0.00 0.00 0.00 3.02
32 33 0.038166 GGCCTGGTCCATCTGTTTCA 59.962 55.000 0.00 0.00 0.00 2.69
33 34 0.038166 TGGCCTGGTCCATCTGTTTC 59.962 55.000 3.32 0.00 0.00 2.78
34 35 0.251341 GTGGCCTGGTCCATCTGTTT 60.251 55.000 3.32 0.00 38.57 2.83
35 36 1.380302 GTGGCCTGGTCCATCTGTT 59.620 57.895 3.32 0.00 38.57 3.16
36 37 2.606587 GGTGGCCTGGTCCATCTGT 61.607 63.158 3.32 0.00 38.57 3.41
37 38 2.273449 GGTGGCCTGGTCCATCTG 59.727 66.667 3.32 0.00 38.57 2.90
38 39 2.815684 TACGGTGGCCTGGTCCATCT 62.816 60.000 15.37 7.70 38.57 2.90
39 40 2.311688 CTACGGTGGCCTGGTCCATC 62.312 65.000 3.32 10.76 38.57 3.51
40 41 2.285069 TACGGTGGCCTGGTCCAT 60.285 61.111 3.32 1.30 38.57 3.41
41 42 3.000819 CTACGGTGGCCTGGTCCA 61.001 66.667 3.32 5.85 0.00 4.02
42 43 3.782443 CCTACGGTGGCCTGGTCC 61.782 72.222 3.32 0.21 0.00 4.46
43 44 2.682494 TCCTACGGTGGCCTGGTC 60.682 66.667 3.32 0.00 0.00 4.02
44 45 2.683933 CTCCTACGGTGGCCTGGT 60.684 66.667 3.32 1.22 0.00 4.00
45 46 4.162690 GCTCCTACGGTGGCCTGG 62.163 72.222 3.32 0.00 0.00 4.45
46 47 4.514577 CGCTCCTACGGTGGCCTG 62.515 72.222 3.32 0.00 0.00 4.85
54 55 4.867599 GTTCGGGGCGCTCCTACG 62.868 72.222 26.87 11.92 35.24 3.51
55 56 4.867599 CGTTCGGGGCGCTCCTAC 62.868 72.222 26.87 20.67 35.33 3.18
84 85 4.410400 CTGCTTCCCCGGGTGGTC 62.410 72.222 21.85 6.42 0.00 4.02
87 88 4.785453 GAGCTGCTTCCCCGGGTG 62.785 72.222 21.85 11.48 0.00 4.61
90 91 4.479993 CAGGAGCTGCTTCCCCGG 62.480 72.222 4.36 0.00 38.02 5.73
403 404 3.462678 GAGGACTCAGGGGGCGAC 61.463 72.222 0.00 0.00 0.00 5.19
487 488 2.841988 ATCTCTCCTCCCCGCAGC 60.842 66.667 0.00 0.00 0.00 5.25
488 489 2.206536 GGATCTCTCCTCCCCGCAG 61.207 68.421 0.00 0.00 38.65 5.18
489 490 2.123251 GGATCTCTCCTCCCCGCA 60.123 66.667 0.00 0.00 38.65 5.69
490 491 2.920384 GGGATCTCTCCTCCCCGC 60.920 72.222 0.00 0.00 45.80 6.13
494 495 3.299190 CGGCGGGATCTCTCCTCC 61.299 72.222 0.00 0.00 41.74 4.30
495 496 3.984749 GCGGCGGGATCTCTCCTC 61.985 72.222 9.78 0.00 41.74 3.71
547 548 3.086600 CTCCCACCTCTCCTGCCC 61.087 72.222 0.00 0.00 0.00 5.36
548 549 2.039624 TCTCCCACCTCTCCTGCC 59.960 66.667 0.00 0.00 0.00 4.85
549 550 2.063378 CCTCTCCCACCTCTCCTGC 61.063 68.421 0.00 0.00 0.00 4.85
550 551 1.382420 CCCTCTCCCACCTCTCCTG 60.382 68.421 0.00 0.00 0.00 3.86
551 552 1.547755 TCCCTCTCCCACCTCTCCT 60.548 63.158 0.00 0.00 0.00 3.69
552 553 1.075600 CTCCCTCTCCCACCTCTCC 60.076 68.421 0.00 0.00 0.00 3.71
553 554 1.760480 GCTCCCTCTCCCACCTCTC 60.760 68.421 0.00 0.00 0.00 3.20
554 555 2.366570 GCTCCCTCTCCCACCTCT 59.633 66.667 0.00 0.00 0.00 3.69
555 556 2.766229 GGCTCCCTCTCCCACCTC 60.766 72.222 0.00 0.00 0.00 3.85
556 557 4.787280 CGGCTCCCTCTCCCACCT 62.787 72.222 0.00 0.00 0.00 4.00
557 558 4.779733 TCGGCTCCCTCTCCCACC 62.780 72.222 0.00 0.00 0.00 4.61
558 559 3.151022 CTCGGCTCCCTCTCCCAC 61.151 72.222 0.00 0.00 0.00 4.61
559 560 4.465446 CCTCGGCTCCCTCTCCCA 62.465 72.222 0.00 0.00 0.00 4.37
578 579 4.778143 AACCCTAGCGCCGCCAAG 62.778 66.667 4.98 3.36 0.00 3.61
579 580 4.770874 GAACCCTAGCGCCGCCAA 62.771 66.667 4.98 0.00 0.00 4.52
619 620 3.077556 CACCTCTCCCCTGGGTCG 61.078 72.222 12.71 1.83 36.47 4.79
620 621 2.689034 CCACCTCTCCCCTGGGTC 60.689 72.222 12.71 0.00 36.47 4.46
621 622 4.354943 CCCACCTCTCCCCTGGGT 62.355 72.222 12.71 0.00 40.04 4.51
622 623 4.024984 TCCCACCTCTCCCCTGGG 62.025 72.222 5.50 5.50 45.58 4.45
623 624 2.366167 CTCCCACCTCTCCCCTGG 60.366 72.222 0.00 0.00 0.00 4.45
624 625 1.382420 CTCTCCCACCTCTCCCCTG 60.382 68.421 0.00 0.00 0.00 4.45
625 626 2.641746 CCTCTCCCACCTCTCCCCT 61.642 68.421 0.00 0.00 0.00 4.79
626 627 2.041405 CCTCTCCCACCTCTCCCC 60.041 72.222 0.00 0.00 0.00 4.81
627 628 2.041405 CCCTCTCCCACCTCTCCC 60.041 72.222 0.00 0.00 0.00 4.30
628 629 2.041405 CCCCTCTCCCACCTCTCC 60.041 72.222 0.00 0.00 0.00 3.71
629 630 1.075600 CTCCCCTCTCCCACCTCTC 60.076 68.421 0.00 0.00 0.00 3.20
630 631 1.547755 TCTCCCCTCTCCCACCTCT 60.548 63.158 0.00 0.00 0.00 3.69
631 632 1.075600 CTCTCCCCTCTCCCACCTC 60.076 68.421 0.00 0.00 0.00 3.85
632 633 2.641746 CCTCTCCCCTCTCCCACCT 61.642 68.421 0.00 0.00 0.00 4.00
633 634 2.041405 CCTCTCCCCTCTCCCACC 60.041 72.222 0.00 0.00 0.00 4.61
634 635 2.766229 GCCTCTCCCCTCTCCCAC 60.766 72.222 0.00 0.00 0.00 4.61
635 636 2.415962 TTTGCCTCTCCCCTCTCCCA 62.416 60.000 0.00 0.00 0.00 4.37
636 637 1.208165 TTTTGCCTCTCCCCTCTCCC 61.208 60.000 0.00 0.00 0.00 4.30
637 638 0.698818 TTTTTGCCTCTCCCCTCTCC 59.301 55.000 0.00 0.00 0.00 3.71
724 725 9.884636 TCTAGGTCATCGATTTGAGAAATTAAA 57.115 29.630 0.00 0.00 0.00 1.52
725 726 9.884636 TTCTAGGTCATCGATTTGAGAAATTAA 57.115 29.630 0.00 0.00 0.00 1.40
727 728 8.970859 ATTCTAGGTCATCGATTTGAGAAATT 57.029 30.769 0.00 0.00 0.00 1.82
728 729 8.970859 AATTCTAGGTCATCGATTTGAGAAAT 57.029 30.769 0.00 0.00 0.00 2.17
729 730 9.314321 GTAATTCTAGGTCATCGATTTGAGAAA 57.686 33.333 0.00 0.00 0.00 2.52
730 731 7.648112 CGTAATTCTAGGTCATCGATTTGAGAA 59.352 37.037 0.00 1.49 0.00 2.87
731 732 7.139392 CGTAATTCTAGGTCATCGATTTGAGA 58.861 38.462 0.00 0.00 0.00 3.27
732 733 6.129062 GCGTAATTCTAGGTCATCGATTTGAG 60.129 42.308 0.00 0.00 0.00 3.02
733 734 5.690409 GCGTAATTCTAGGTCATCGATTTGA 59.310 40.000 0.00 0.00 0.00 2.69
734 735 5.387444 CGCGTAATTCTAGGTCATCGATTTG 60.387 44.000 0.00 0.00 0.00 2.32
735 736 4.680110 CGCGTAATTCTAGGTCATCGATTT 59.320 41.667 0.00 0.00 0.00 2.17
736 737 4.023450 TCGCGTAATTCTAGGTCATCGATT 60.023 41.667 5.77 0.00 0.00 3.34
737 738 3.501062 TCGCGTAATTCTAGGTCATCGAT 59.499 43.478 5.77 0.00 0.00 3.59
738 739 2.874086 TCGCGTAATTCTAGGTCATCGA 59.126 45.455 5.77 0.00 0.00 3.59
739 740 3.263602 TCGCGTAATTCTAGGTCATCG 57.736 47.619 5.77 0.00 0.00 3.84
740 741 5.117287 GTCATTCGCGTAATTCTAGGTCATC 59.883 44.000 5.77 0.00 0.00 2.92
741 742 4.982916 GTCATTCGCGTAATTCTAGGTCAT 59.017 41.667 5.77 0.00 0.00 3.06
742 743 4.097437 AGTCATTCGCGTAATTCTAGGTCA 59.903 41.667 5.77 0.00 0.00 4.02
743 744 4.608951 AGTCATTCGCGTAATTCTAGGTC 58.391 43.478 5.77 0.00 0.00 3.85
744 745 4.650754 AGTCATTCGCGTAATTCTAGGT 57.349 40.909 5.77 0.00 0.00 3.08
745 746 7.806487 TGTATAAGTCATTCGCGTAATTCTAGG 59.194 37.037 5.77 0.00 0.00 3.02
746 747 8.628279 GTGTATAAGTCATTCGCGTAATTCTAG 58.372 37.037 5.77 0.00 0.00 2.43
747 748 8.347771 AGTGTATAAGTCATTCGCGTAATTCTA 58.652 33.333 5.77 0.00 0.00 2.10
748 749 7.167635 CAGTGTATAAGTCATTCGCGTAATTCT 59.832 37.037 5.77 3.48 0.00 2.40
749 750 7.274367 CAGTGTATAAGTCATTCGCGTAATTC 58.726 38.462 5.77 1.33 0.00 2.17
750 751 6.200286 CCAGTGTATAAGTCATTCGCGTAATT 59.800 38.462 5.77 0.00 0.00 1.40
751 752 5.690409 CCAGTGTATAAGTCATTCGCGTAAT 59.310 40.000 5.77 1.63 0.00 1.89
752 753 5.038683 CCAGTGTATAAGTCATTCGCGTAA 58.961 41.667 5.77 0.00 0.00 3.18
753 754 4.498513 CCCAGTGTATAAGTCATTCGCGTA 60.499 45.833 5.77 0.00 0.00 4.42
754 755 3.444916 CCAGTGTATAAGTCATTCGCGT 58.555 45.455 5.77 0.00 0.00 6.01
755 756 2.794910 CCCAGTGTATAAGTCATTCGCG 59.205 50.000 0.00 0.00 0.00 5.87
756 757 3.793559 ACCCAGTGTATAAGTCATTCGC 58.206 45.455 0.00 0.00 0.00 4.70
757 758 4.042398 CGACCCAGTGTATAAGTCATTCG 58.958 47.826 0.00 0.00 0.00 3.34
758 759 4.098960 TCCGACCCAGTGTATAAGTCATTC 59.901 45.833 0.00 0.00 0.00 2.67
759 760 4.028131 TCCGACCCAGTGTATAAGTCATT 58.972 43.478 0.00 0.00 0.00 2.57
760 761 3.637229 CTCCGACCCAGTGTATAAGTCAT 59.363 47.826 0.00 0.00 0.00 3.06
761 762 3.021695 CTCCGACCCAGTGTATAAGTCA 58.978 50.000 0.00 0.00 0.00 3.41
762 763 2.361438 CCTCCGACCCAGTGTATAAGTC 59.639 54.545 0.00 0.00 0.00 3.01
763 764 2.385803 CCTCCGACCCAGTGTATAAGT 58.614 52.381 0.00 0.00 0.00 2.24
764 765 1.687123 CCCTCCGACCCAGTGTATAAG 59.313 57.143 0.00 0.00 0.00 1.73
765 766 1.288633 TCCCTCCGACCCAGTGTATAA 59.711 52.381 0.00 0.00 0.00 0.98
766 767 0.928505 TCCCTCCGACCCAGTGTATA 59.071 55.000 0.00 0.00 0.00 1.47
767 768 0.397254 CTCCCTCCGACCCAGTGTAT 60.397 60.000 0.00 0.00 0.00 2.29
768 769 1.000019 CTCCCTCCGACCCAGTGTA 60.000 63.158 0.00 0.00 0.00 2.90
769 770 1.797018 TACTCCCTCCGACCCAGTGT 61.797 60.000 0.00 0.00 0.00 3.55
770 771 1.000019 TACTCCCTCCGACCCAGTG 60.000 63.158 0.00 0.00 0.00 3.66
771 772 1.306970 CTACTCCCTCCGACCCAGT 59.693 63.158 0.00 0.00 0.00 4.00
772 773 0.549950 TACTACTCCCTCCGACCCAG 59.450 60.000 0.00 0.00 0.00 4.45
773 774 0.549950 CTACTACTCCCTCCGACCCA 59.450 60.000 0.00 0.00 0.00 4.51
774 775 0.842635 TCTACTACTCCCTCCGACCC 59.157 60.000 0.00 0.00 0.00 4.46
775 776 1.211457 TGTCTACTACTCCCTCCGACC 59.789 57.143 0.00 0.00 0.00 4.79
776 777 2.706339 TGTCTACTACTCCCTCCGAC 57.294 55.000 0.00 0.00 0.00 4.79
777 778 3.552875 CAATGTCTACTACTCCCTCCGA 58.447 50.000 0.00 0.00 0.00 4.55
778 779 2.034812 GCAATGTCTACTACTCCCTCCG 59.965 54.545 0.00 0.00 0.00 4.63
779 780 2.365941 GGCAATGTCTACTACTCCCTCC 59.634 54.545 0.00 0.00 0.00 4.30
780 781 2.365941 GGGCAATGTCTACTACTCCCTC 59.634 54.545 0.00 0.00 0.00 4.30
781 782 2.022918 AGGGCAATGTCTACTACTCCCT 60.023 50.000 0.00 0.00 37.99 4.20
782 783 2.103263 CAGGGCAATGTCTACTACTCCC 59.897 54.545 0.00 0.00 0.00 4.30
783 784 2.483889 GCAGGGCAATGTCTACTACTCC 60.484 54.545 0.00 0.00 0.00 3.85
787 788 2.837591 TGAAGCAGGGCAATGTCTACTA 59.162 45.455 0.00 0.00 0.00 1.82
794 795 2.613691 GTCATTTGAAGCAGGGCAATG 58.386 47.619 0.00 0.00 0.00 2.82
797 798 1.243342 CCGTCATTTGAAGCAGGGCA 61.243 55.000 0.00 0.00 0.00 5.36
798 799 0.960364 TCCGTCATTTGAAGCAGGGC 60.960 55.000 0.00 0.00 0.00 5.19
799 800 1.533625 TTCCGTCATTTGAAGCAGGG 58.466 50.000 0.00 0.00 0.00 4.45
806 807 1.818060 CTGGGCATTTCCGTCATTTGA 59.182 47.619 0.00 0.00 34.94 2.69
883 884 3.373830 CTGGAGAGGTGAGAAGAGGAAT 58.626 50.000 0.00 0.00 0.00 3.01
890 891 2.313041 TGATCTCCTGGAGAGGTGAGAA 59.687 50.000 28.67 6.26 43.53 2.87
900 901 3.838271 GCCGCGTGATCTCCTGGA 61.838 66.667 4.92 0.00 0.00 3.86
905 906 4.933064 CCCTCGCCGCGTGATCTC 62.933 72.222 16.03 0.00 0.00 2.75
942 943 0.043485 AAGAGAGGAAGGAGGGGGTC 59.957 60.000 0.00 0.00 0.00 4.46
944 945 0.692756 GGAAGAGAGGAAGGAGGGGG 60.693 65.000 0.00 0.00 0.00 5.40
946 947 1.494960 CTGGAAGAGAGGAAGGAGGG 58.505 60.000 0.00 0.00 34.07 4.30
953 954 0.618968 GGGGAAGCTGGAAGAGAGGA 60.619 60.000 0.00 0.00 34.07 3.71
954 955 0.620121 AGGGGAAGCTGGAAGAGAGG 60.620 60.000 0.00 0.00 34.07 3.69
955 956 0.829990 GAGGGGAAGCTGGAAGAGAG 59.170 60.000 0.00 0.00 34.07 3.20
1022 1023 1.576421 GCCAACAGGAGCAGAAACG 59.424 57.895 0.00 0.00 0.00 3.60
1089 1090 3.901797 CTCCCACCCCTTGTCGCAC 62.902 68.421 0.00 0.00 0.00 5.34
1213 1214 1.988406 GGTAGTCCCAGAAGCCGGT 60.988 63.158 1.90 0.00 0.00 5.28
1259 1260 3.744719 CGAACCCACGAGGCTCGA 61.745 66.667 40.35 0.00 43.74 4.04
1473 1477 0.893270 CATCCGGAAAGCCCACACAA 60.893 55.000 9.01 0.00 34.14 3.33
1660 1677 8.713971 TGTAGGGCAATTAGAATGAATCTTCTA 58.286 33.333 0.00 0.00 39.71 2.10
1682 1702 6.757010 GTGTTATACTCCCAGTGAACATGTAG 59.243 42.308 0.00 0.00 37.55 2.74
1701 1721 8.958119 ACATTTGGAACTATACGATGTGTTAT 57.042 30.769 0.00 0.00 0.00 1.89
1729 1749 9.844257 CTCCTGATTATCATCTTTAGGTTTCTT 57.156 33.333 0.00 0.00 0.00 2.52
1742 1762 4.596212 TGAGATGCCACTCCTGATTATCAT 59.404 41.667 0.00 0.00 36.22 2.45
1767 1787 5.424252 CCTGTAGGAGTAACCATCCAGTAAA 59.576 44.000 0.00 0.00 42.04 2.01
1951 1974 7.238486 ACTGACAGAAGAACATATCAGACTT 57.762 36.000 10.08 0.00 37.57 3.01
2003 2026 7.609056 ACAAGCAGATTCAAAATCAATAGCTT 58.391 30.769 0.00 11.99 36.14 3.74
2123 2146 2.099141 TCGCTGCTTCAAATGCTAGT 57.901 45.000 0.00 0.00 0.00 2.57
2449 2472 0.323999 TGGATCTGGCATGCAGCTTT 60.324 50.000 21.36 0.00 44.79 3.51
2592 2875 5.699458 CGGGCTTACATAAATAGGTTACAGG 59.301 44.000 0.00 0.00 0.00 4.00
2736 3028 5.185056 AACTTATGTTAAAGCAAAGGGCGAT 59.815 36.000 0.00 0.00 40.41 4.58
2751 3043 6.062095 AGCAAACCAGTAGTGAACTTATGTT 58.938 36.000 0.00 0.00 35.76 2.71
2752 3044 5.621193 AGCAAACCAGTAGTGAACTTATGT 58.379 37.500 0.00 0.00 35.76 2.29
2753 3045 5.122396 GGAGCAAACCAGTAGTGAACTTATG 59.878 44.000 0.00 0.00 35.76 1.90
2769 3061 2.440409 ACATCCATGACAGGAGCAAAC 58.560 47.619 0.00 0.00 41.90 2.93
2874 3167 3.683802 CAAACCAAGGCAAGATCTCTCT 58.316 45.455 0.00 0.00 0.00 3.10
2896 3189 3.134458 GTGGTCCACAGAACTCAGAAAG 58.866 50.000 17.59 0.00 34.08 2.62
2958 3252 7.270579 GCCTCTGAAAATTAATTAACGTCACAC 59.729 37.037 0.01 0.00 0.00 3.82
2960 3254 7.302524 TGCCTCTGAAAATTAATTAACGTCAC 58.697 34.615 0.01 0.00 0.00 3.67
2961 3255 7.389330 TCTGCCTCTGAAAATTAATTAACGTCA 59.611 33.333 0.01 3.97 0.00 4.35
2962 3256 7.748847 TCTGCCTCTGAAAATTAATTAACGTC 58.251 34.615 0.01 0.00 0.00 4.34
2963 3257 7.681939 TCTGCCTCTGAAAATTAATTAACGT 57.318 32.000 0.01 0.00 0.00 3.99
2964 3258 8.850452 GTTTCTGCCTCTGAAAATTAATTAACG 58.150 33.333 0.01 0.00 34.21 3.18
2965 3259 9.691362 TGTTTCTGCCTCTGAAAATTAATTAAC 57.309 29.630 0.01 0.00 34.21 2.01
2968 3262 9.211485 CAATGTTTCTGCCTCTGAAAATTAATT 57.789 29.630 0.00 0.00 34.21 1.40
2969 3263 8.587608 TCAATGTTTCTGCCTCTGAAAATTAAT 58.412 29.630 1.43 0.00 34.21 1.40
3015 3309 8.443176 CCCATGCTCCCATATATCTGTTTATAT 58.557 37.037 0.00 0.00 0.00 0.86
3026 3320 2.431687 TCCACCCATGCTCCCATATA 57.568 50.000 0.00 0.00 0.00 0.86
3051 3345 4.678509 TTTTATGTTCGCTGTGATGTCC 57.321 40.909 0.00 0.00 0.00 4.02
3060 3355 6.348213 GGTGTTGACTGTATTTTATGTTCGCT 60.348 38.462 0.00 0.00 0.00 4.93
3110 3405 3.659786 TGAACTCCCACACTTGTTATCG 58.340 45.455 0.00 0.00 0.00 2.92
3135 3430 6.648310 CCATCTGTAGTGCTGTAAGAATATGG 59.352 42.308 0.00 0.00 34.07 2.74
3201 3503 2.429930 CAGCTGACGGTCCCCAAA 59.570 61.111 8.42 0.00 0.00 3.28
3260 3562 4.816925 GGAAAAAGACACAGCTCACTAGTT 59.183 41.667 0.00 0.00 0.00 2.24
3309 3611 4.142491 CGCCTTGTTTGAATGCCAGTAATA 60.142 41.667 0.00 0.00 0.00 0.98
3372 3674 0.415429 AAGAAGCTGGAGGAGGAGGA 59.585 55.000 0.00 0.00 0.00 3.71


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

AutoCloner maintained by Alex Coulton.