Multiple sequence alignment - TraesCS6D01G299100

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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 TraesCS6D01G299100 chr6D 100.000 2894 0 0 1 2894 409654084 409656977 0.000000e+00 5345
1 TraesCS6D01G299100 chr6D 77.866 759 119 28 1132 1860 409519042 409519781 2.670000e-115 425
2 TraesCS6D01G299100 chr6D 80.678 590 70 35 1132 1702 409584183 409584747 4.460000e-113 418
3 TraesCS6D01G299100 chr6D 80.783 562 73 20 1132 1683 409516321 409516857 9.650000e-110 407
4 TraesCS6D01G299100 chr6D 95.808 167 7 0 2512 2678 260024676 260024510 1.320000e-68 270
5 TraesCS6D01G299100 chr6D 95.758 165 7 0 2514 2678 392278741 392278577 1.710000e-67 267
6 TraesCS6D01G299100 chr6B 88.908 1731 82 38 810 2515 615605132 615606777 0.000000e+00 2032
7 TraesCS6D01G299100 chr6B 89.140 442 24 15 2 427 615602667 615603100 1.970000e-146 529
8 TraesCS6D01G299100 chr6B 82.075 530 65 24 1132 1655 615167071 615167576 2.670000e-115 425
9 TraesCS6D01G299100 chr6B 80.782 588 70 26 1132 1702 615230326 615230887 1.240000e-113 420
10 TraesCS6D01G299100 chr6B 80.586 546 76 23 1132 1671 615275459 615275980 7.520000e-106 394
11 TraesCS6D01G299100 chr6B 89.844 256 12 8 587 835 615604693 615604941 1.670000e-82 316
12 TraesCS6D01G299100 chr6B 92.647 204 7 3 2675 2870 615606783 615606986 1.310000e-73 287
13 TraesCS6D01G299100 chr6B 92.683 82 6 0 1132 1213 615294926 615295007 5.070000e-23 119
14 TraesCS6D01G299100 chr6B 83.721 129 9 3 674 796 615604913 615605035 8.480000e-21 111
15 TraesCS6D01G299100 chr6A 90.884 1459 70 30 521 1947 555088375 555089802 0.000000e+00 1899
16 TraesCS6D01G299100 chr6A 86.642 539 36 13 2000 2515 555089946 555090471 5.410000e-157 564
17 TraesCS6D01G299100 chr6A 81.885 541 66 19 1132 1665 554855592 554856107 7.410000e-116 427
18 TraesCS6D01G299100 chr6A 93.651 252 13 2 139 390 555086938 555087186 9.790000e-100 374
19 TraesCS6D01G299100 chr6A 95.808 167 7 0 2512 2678 370675438 370675604 1.320000e-68 270
20 TraesCS6D01G299100 chr6A 91.463 164 13 1 2697 2860 555090499 555090661 1.040000e-54 224
21 TraesCS6D01G299100 chr6A 94.595 111 3 1 1 108 555086524 555086634 4.960000e-38 169
22 TraesCS6D01G299100 chr7B 91.123 383 27 3 1115 1493 213254287 213254666 1.990000e-141 512
23 TraesCS6D01G299100 chr7B 95.808 167 5 2 2514 2679 483770606 483770771 4.750000e-68 268
24 TraesCS6D01G299100 chr2B 90.078 383 31 3 1115 1493 84773208 84772829 9.320000e-135 490
25 TraesCS6D01G299100 chr2B 95.783 166 7 0 2514 2679 184952919 184952754 4.750000e-68 268
26 TraesCS6D01G299100 chr1B 89.556 383 28 5 1115 1493 559573460 559573086 2.610000e-130 475
27 TraesCS6D01G299100 chr5A 89.034 383 35 4 1115 1493 340598283 340597904 4.370000e-128 468
28 TraesCS6D01G299100 chr5D 95.322 171 7 1 2509 2678 6083356 6083526 1.320000e-68 270
29 TraesCS6D01G299100 chr2D 95.758 165 7 0 2514 2678 194458781 194458617 1.710000e-67 267
30 TraesCS6D01G299100 chr5B 94.643 168 9 0 2511 2678 93472268 93472101 7.950000e-66 261
31 TraesCS6D01G299100 chr1D 91.979 187 11 4 2511 2696 465958719 465958536 2.860000e-65 259


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 TraesCS6D01G299100 chr6D 409654084 409656977 2893 False 5345 5345 100.0000 1 2894 1 chr6D.!!$F2 2893
1 TraesCS6D01G299100 chr6D 409584183 409584747 564 False 418 418 80.6780 1132 1702 1 chr6D.!!$F1 570
2 TraesCS6D01G299100 chr6D 409516321 409519781 3460 False 416 425 79.3245 1132 1860 2 chr6D.!!$F3 728
3 TraesCS6D01G299100 chr6B 615602667 615606986 4319 False 655 2032 88.8520 2 2870 5 chr6B.!!$F5 2868
4 TraesCS6D01G299100 chr6B 615167071 615167576 505 False 425 425 82.0750 1132 1655 1 chr6B.!!$F1 523
5 TraesCS6D01G299100 chr6B 615230326 615230887 561 False 420 420 80.7820 1132 1702 1 chr6B.!!$F2 570
6 TraesCS6D01G299100 chr6B 615275459 615275980 521 False 394 394 80.5860 1132 1671 1 chr6B.!!$F3 539
7 TraesCS6D01G299100 chr6A 555086524 555090661 4137 False 646 1899 91.4470 1 2860 5 chr6A.!!$F3 2859
8 TraesCS6D01G299100 chr6A 554855592 554856107 515 False 427 427 81.8850 1132 1665 1 chr6A.!!$F2 533

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
919 3657 0.591994 CATCTGCTCACTCGCTCTCG 60.592 60.0 0.0 0.0 0.0 4.04 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2695 8376 0.250467 GTTGCCTGTCCTCTGCTTCA 60.25 55.0 0.0 0.0 0.0 3.02 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
308 594 1.597027 GTTAGCACCGTGGCACAGT 60.597 57.895 19.09 9.94 41.80 3.55
312 598 2.477176 GCACCGTGGCACAGTTTCA 61.477 57.895 19.09 0.00 41.80 2.69
314 600 0.667993 CACCGTGGCACAGTTTCATT 59.332 50.000 19.09 0.00 41.80 2.57
327 614 6.515035 GCACAGTTTCATTAAGCTGGTTTAGT 60.515 38.462 8.16 0.00 45.37 2.24
372 659 4.808077 TTTTGCACCGTCACGTAATAAA 57.192 36.364 0.00 0.00 0.00 1.40
373 660 3.791993 TTGCACCGTCACGTAATAAAC 57.208 42.857 0.00 0.00 0.00 2.01
375 662 3.391965 TGCACCGTCACGTAATAAACTT 58.608 40.909 0.00 0.00 0.00 2.66
376 663 3.184783 TGCACCGTCACGTAATAAACTTG 59.815 43.478 0.00 0.00 0.00 3.16
377 664 3.423907 GCACCGTCACGTAATAAACTTGG 60.424 47.826 0.00 0.00 0.00 3.61
395 682 5.281727 ACTTGGTTTCTGAATCGAAAAAGC 58.718 37.500 0.00 0.00 34.93 3.51
403 690 8.792538 GTTTCTGAATCGAAAAAGCAATCATAG 58.207 33.333 0.00 0.00 34.93 2.23
407 694 7.693952 TGAATCGAAAAAGCAATCATAGTACC 58.306 34.615 0.00 0.00 0.00 3.34
409 696 5.172934 TCGAAAAAGCAATCATAGTACCGT 58.827 37.500 0.00 0.00 0.00 4.83
414 701 4.873746 AGCAATCATAGTACCGTAGCAT 57.126 40.909 0.00 0.00 0.00 3.79
416 703 4.039245 AGCAATCATAGTACCGTAGCATGT 59.961 41.667 0.00 0.00 0.00 3.21
417 704 5.243060 AGCAATCATAGTACCGTAGCATGTA 59.757 40.000 0.00 0.00 0.00 2.29
418 705 5.924254 GCAATCATAGTACCGTAGCATGTAA 59.076 40.000 0.00 0.00 0.00 2.41
420 707 6.896021 ATCATAGTACCGTAGCATGTAAGT 57.104 37.500 0.00 0.00 0.00 2.24
421 708 7.991084 ATCATAGTACCGTAGCATGTAAGTA 57.009 36.000 0.00 0.00 0.00 2.24
425 712 6.814506 AGTACCGTAGCATGTAAGTATAGG 57.185 41.667 0.00 0.00 0.00 2.57
426 713 6.537355 AGTACCGTAGCATGTAAGTATAGGA 58.463 40.000 0.00 0.00 0.00 2.94
428 715 5.135383 ACCGTAGCATGTAAGTATAGGACA 58.865 41.667 0.00 0.00 0.00 4.02
429 716 5.595542 ACCGTAGCATGTAAGTATAGGACAA 59.404 40.000 0.00 0.00 0.00 3.18
430 717 6.150318 CCGTAGCATGTAAGTATAGGACAAG 58.850 44.000 0.00 0.00 0.00 3.16
431 718 6.150318 CGTAGCATGTAAGTATAGGACAAGG 58.850 44.000 0.00 0.00 0.00 3.61
432 719 6.016527 CGTAGCATGTAAGTATAGGACAAGGA 60.017 42.308 0.00 0.00 0.00 3.36
433 720 6.808321 AGCATGTAAGTATAGGACAAGGAA 57.192 37.500 0.00 0.00 0.00 3.36
434 721 7.195374 AGCATGTAAGTATAGGACAAGGAAA 57.805 36.000 0.00 0.00 0.00 3.13
435 722 7.806180 AGCATGTAAGTATAGGACAAGGAAAT 58.194 34.615 0.00 0.00 0.00 2.17
436 723 7.934120 AGCATGTAAGTATAGGACAAGGAAATC 59.066 37.037 0.00 0.00 0.00 2.17
437 724 7.095607 GCATGTAAGTATAGGACAAGGAAATCG 60.096 40.741 0.00 0.00 0.00 3.34
438 725 7.414222 TGTAAGTATAGGACAAGGAAATCGT 57.586 36.000 0.00 0.00 0.00 3.73
439 726 7.262772 TGTAAGTATAGGACAAGGAAATCGTG 58.737 38.462 0.00 0.00 0.00 4.35
440 727 5.934402 AGTATAGGACAAGGAAATCGTGT 57.066 39.130 0.00 0.00 40.66 4.49
441 728 6.295719 AGTATAGGACAAGGAAATCGTGTT 57.704 37.500 0.00 0.00 38.17 3.32
442 729 6.708285 AGTATAGGACAAGGAAATCGTGTTT 58.292 36.000 0.00 0.00 38.17 2.83
443 730 7.166167 AGTATAGGACAAGGAAATCGTGTTTT 58.834 34.615 0.00 0.00 38.17 2.43
444 731 8.316214 AGTATAGGACAAGGAAATCGTGTTTTA 58.684 33.333 0.00 0.00 38.17 1.52
445 732 5.941948 AGGACAAGGAAATCGTGTTTTAG 57.058 39.130 0.00 0.00 38.17 1.85
446 733 5.374071 AGGACAAGGAAATCGTGTTTTAGT 58.626 37.500 0.00 0.00 38.17 2.24
447 734 5.238650 AGGACAAGGAAATCGTGTTTTAGTG 59.761 40.000 0.00 0.00 38.17 2.74
448 735 5.008316 GGACAAGGAAATCGTGTTTTAGTGT 59.992 40.000 0.00 0.00 38.17 3.55
449 736 6.445357 ACAAGGAAATCGTGTTTTAGTGTT 57.555 33.333 0.00 0.00 34.49 3.32
450 737 6.859017 ACAAGGAAATCGTGTTTTAGTGTTT 58.141 32.000 0.00 0.00 34.49 2.83
455 742 6.634035 GGAAATCGTGTTTTAGTGTTTACCAC 59.366 38.462 0.00 0.00 44.89 4.16
457 744 3.876320 TCGTGTTTTAGTGTTTACCACCC 59.124 43.478 0.00 0.00 45.74 4.61
483 770 4.967036 AGATAGGAATAGGTTTCAGCTGC 58.033 43.478 9.47 0.00 0.00 5.25
493 780 5.644977 AGGTTTCAGCTGCCTTTTAATAC 57.355 39.130 9.47 0.00 0.00 1.89
718 3228 9.950496 ACTTGATTCTACTGAATAAATGACAGT 57.050 29.630 0.00 0.00 42.43 3.55
732 3245 1.742831 TGACAGTGTGCCACAAAAGAC 59.257 47.619 0.00 0.00 36.74 3.01
797 3315 3.743396 GGGACACGTATAGAGTACTACGG 59.257 52.174 17.60 10.38 43.73 4.02
800 3318 5.523916 GGACACGTATAGAGTACTACGGAAA 59.476 44.000 17.60 0.00 43.73 3.13
803 3328 8.077836 ACACGTATAGAGTACTACGGAAATAC 57.922 38.462 17.60 8.81 43.73 1.89
828 3562 3.934457 AATTTTGTCCAAGTAAGGCGG 57.066 42.857 0.00 0.00 0.00 6.13
919 3657 0.591994 CATCTGCTCACTCGCTCTCG 60.592 60.000 0.00 0.00 0.00 4.04
920 3658 2.335052 ATCTGCTCACTCGCTCTCGC 62.335 60.000 0.00 0.00 35.26 5.03
972 3710 1.469308 ACAAGAACGTGCGTCCAAAAA 59.531 42.857 0.00 0.00 0.00 1.94
1061 3799 1.808390 ACGATAACGCAAGCCGACC 60.808 57.895 0.00 0.00 43.96 4.79
1233 3977 2.652496 GCGCTCATCTCCGTCGTC 60.652 66.667 0.00 0.00 0.00 4.20
1656 4415 3.702048 CTCAACTTCCCGGCCGGA 61.702 66.667 45.44 27.72 39.68 5.14
1926 7469 4.023980 TCATTACCTCGTTCTCCTCATGT 58.976 43.478 0.00 0.00 0.00 3.21
1949 7492 7.915508 TGTTCCATTGCGACTACATAATAAAG 58.084 34.615 0.00 0.00 0.00 1.85
1951 7494 6.288294 TCCATTGCGACTACATAATAAAGCT 58.712 36.000 0.00 0.00 0.00 3.74
1983 7637 9.288124 CAAAATGAGTTCAATAAACGATATGCA 57.712 29.630 0.00 0.00 43.02 3.96
1984 7638 8.841444 AAATGAGTTCAATAAACGATATGCAC 57.159 30.769 0.00 0.00 43.02 4.57
1985 7639 6.976636 TGAGTTCAATAAACGATATGCACA 57.023 33.333 0.00 0.00 43.02 4.57
1986 7640 7.371126 TGAGTTCAATAAACGATATGCACAA 57.629 32.000 0.00 0.00 43.02 3.33
1987 7641 7.984391 TGAGTTCAATAAACGATATGCACAAT 58.016 30.769 0.00 0.00 43.02 2.71
1988 7642 7.909641 TGAGTTCAATAAACGATATGCACAATG 59.090 33.333 0.00 0.00 43.02 2.82
1989 7643 7.761409 AGTTCAATAAACGATATGCACAATGT 58.239 30.769 0.00 0.00 43.02 2.71
1990 7644 8.243426 AGTTCAATAAACGATATGCACAATGTT 58.757 29.630 0.00 0.00 43.02 2.71
1991 7645 8.523464 GTTCAATAAACGATATGCACAATGTTC 58.477 33.333 0.00 0.00 0.00 3.18
1992 7646 7.192913 TCAATAAACGATATGCACAATGTTCC 58.807 34.615 0.00 0.00 0.00 3.62
1993 7647 6.691754 ATAAACGATATGCACAATGTTCCA 57.308 33.333 0.00 0.00 0.00 3.53
1994 7648 5.581126 AAACGATATGCACAATGTTCCAT 57.419 34.783 0.00 2.54 0.00 3.41
1995 7649 4.556942 ACGATATGCACAATGTTCCATG 57.443 40.909 0.00 0.00 0.00 3.66
1996 7650 3.316029 ACGATATGCACAATGTTCCATGG 59.684 43.478 4.97 4.97 0.00 3.66
1997 7651 3.304861 CGATATGCACAATGTTCCATGGG 60.305 47.826 13.02 0.00 0.00 4.00
1998 7652 1.941377 ATGCACAATGTTCCATGGGT 58.059 45.000 13.02 0.00 0.00 4.51
1999 7653 1.714541 TGCACAATGTTCCATGGGTT 58.285 45.000 13.02 0.00 0.00 4.11
2000 7654 2.881734 TGCACAATGTTCCATGGGTTA 58.118 42.857 13.02 0.00 0.00 2.85
2001 7655 3.439154 TGCACAATGTTCCATGGGTTAT 58.561 40.909 13.02 0.61 0.00 1.89
2013 7667 4.410883 TCCATGGGTTATATCCGACAGTTT 59.589 41.667 13.02 0.00 0.00 2.66
2077 7737 3.786809 CTGCTTCACAATGTGCAGG 57.213 52.632 14.33 5.62 46.24 4.85
2102 7762 8.592998 GGTATCGTTTTGTACTGTTCATCTAAG 58.407 37.037 0.00 0.00 0.00 2.18
2141 7801 2.607187 CTAAACTCTGGGTGCAGTACG 58.393 52.381 0.00 0.00 0.00 3.67
2156 7816 2.431057 CAGTACGGCAGTCCTTATCCTT 59.569 50.000 0.00 0.00 0.00 3.36
2176 7836 5.297527 TCCTTGTTATTACTCATCGCTCGTA 59.702 40.000 0.00 0.00 0.00 3.43
2191 7851 5.402398 TCGCTCGTATCCATGAGATATTTG 58.598 41.667 0.00 0.00 39.80 2.32
2261 7921 0.110486 ACGATCACAACCCCAAAGCT 59.890 50.000 0.00 0.00 0.00 3.74
2265 7925 1.619654 TCACAACCCCAAAGCTGATG 58.380 50.000 0.00 0.00 0.00 3.07
2274 7934 3.795623 CCAAAGCTGATGAAGATTGGG 57.204 47.619 2.19 0.00 39.03 4.12
2275 7935 2.159142 CCAAAGCTGATGAAGATTGGGC 60.159 50.000 2.19 0.00 38.55 5.36
2330 8006 5.289193 TCTTAATTAATCCACCGTCGTTTCG 59.711 40.000 0.00 0.00 0.00 3.46
2381 8062 4.974645 TTGACCACAGATACTTTCCACT 57.025 40.909 0.00 0.00 0.00 4.00
2387 8068 4.163078 CCACAGATACTTTCCACTGGATCT 59.837 45.833 0.00 0.00 35.08 2.75
2388 8069 5.114780 CACAGATACTTTCCACTGGATCTG 58.885 45.833 18.40 18.40 38.83 2.90
2389 8070 5.026121 ACAGATACTTTCCACTGGATCTGA 58.974 41.667 23.78 0.00 36.49 3.27
2390 8071 5.664908 ACAGATACTTTCCACTGGATCTGAT 59.335 40.000 23.78 11.23 36.49 2.90
2392 8073 3.533606 ACTTTCCACTGGATCTGATCG 57.466 47.619 11.28 1.70 0.00 3.69
2393 8074 3.099905 ACTTTCCACTGGATCTGATCGA 58.900 45.455 11.28 6.86 0.00 3.59
2394 8075 3.708631 ACTTTCCACTGGATCTGATCGAT 59.291 43.478 11.28 0.00 34.25 3.59
2395 8076 3.740631 TTCCACTGGATCTGATCGATG 57.259 47.619 0.54 8.94 30.84 3.84
2396 8077 1.966354 TCCACTGGATCTGATCGATGG 59.034 52.381 19.59 19.59 30.84 3.51
2408 8089 4.816385 TCTGATCGATGGTGGAAAATAAGC 59.184 41.667 0.54 0.00 0.00 3.09
2410 8091 5.132502 TGATCGATGGTGGAAAATAAGCAT 58.867 37.500 0.54 0.00 37.23 3.79
2411 8092 6.295249 TGATCGATGGTGGAAAATAAGCATA 58.705 36.000 0.54 0.00 34.79 3.14
2413 8094 6.618287 TCGATGGTGGAAAATAAGCATAAG 57.382 37.500 0.00 0.00 34.79 1.73
2414 8095 6.119536 TCGATGGTGGAAAATAAGCATAAGT 58.880 36.000 0.00 0.00 34.79 2.24
2415 8096 7.276658 TCGATGGTGGAAAATAAGCATAAGTA 58.723 34.615 0.00 0.00 34.79 2.24
2416 8097 7.225931 TCGATGGTGGAAAATAAGCATAAGTAC 59.774 37.037 0.00 0.00 34.79 2.73
2419 8100 8.726870 TGGTGGAAAATAAGCATAAGTACTAC 57.273 34.615 0.00 0.00 0.00 2.73
2515 8196 4.021544 TGGTCCAAATCCAATGCAAAGTAC 60.022 41.667 0.00 0.00 31.50 2.73
2516 8197 4.220602 GGTCCAAATCCAATGCAAAGTACT 59.779 41.667 0.00 0.00 0.00 2.73
2518 8199 4.462483 TCCAAATCCAATGCAAAGTACTCC 59.538 41.667 0.00 0.00 0.00 3.85
2519 8200 4.381932 CCAAATCCAATGCAAAGTACTCCC 60.382 45.833 0.00 0.00 0.00 4.30
2520 8201 4.322057 AATCCAATGCAAAGTACTCCCT 57.678 40.909 0.00 0.00 0.00 4.20
2521 8202 3.350219 TCCAATGCAAAGTACTCCCTC 57.650 47.619 0.00 0.00 0.00 4.30
2522 8203 2.026262 TCCAATGCAAAGTACTCCCTCC 60.026 50.000 0.00 0.00 0.00 4.30
2523 8204 2.009774 CAATGCAAAGTACTCCCTCCG 58.990 52.381 0.00 0.00 0.00 4.63
2524 8205 1.276622 ATGCAAAGTACTCCCTCCGT 58.723 50.000 0.00 0.00 0.00 4.69
2525 8206 1.053424 TGCAAAGTACTCCCTCCGTT 58.947 50.000 0.00 0.00 0.00 4.44
2526 8207 1.001633 TGCAAAGTACTCCCTCCGTTC 59.998 52.381 0.00 0.00 0.00 3.95
2527 8208 1.675116 GCAAAGTACTCCCTCCGTTCC 60.675 57.143 0.00 0.00 0.00 3.62
2528 8209 1.900486 CAAAGTACTCCCTCCGTTCCT 59.100 52.381 0.00 0.00 0.00 3.36
2529 8210 3.094572 CAAAGTACTCCCTCCGTTCCTA 58.905 50.000 0.00 0.00 0.00 2.94
2530 8211 3.463048 AAGTACTCCCTCCGTTCCTAA 57.537 47.619 0.00 0.00 0.00 2.69
2531 8212 3.463048 AGTACTCCCTCCGTTCCTAAA 57.537 47.619 0.00 0.00 0.00 1.85
2532 8213 3.991683 AGTACTCCCTCCGTTCCTAAAT 58.008 45.455 0.00 0.00 0.00 1.40
2533 8214 5.134725 AGTACTCCCTCCGTTCCTAAATA 57.865 43.478 0.00 0.00 0.00 1.40
2534 8215 5.713807 AGTACTCCCTCCGTTCCTAAATAT 58.286 41.667 0.00 0.00 0.00 1.28
2535 8216 6.141790 AGTACTCCCTCCGTTCCTAAATATT 58.858 40.000 0.00 0.00 0.00 1.28
2536 8217 5.970501 ACTCCCTCCGTTCCTAAATATTT 57.029 39.130 5.89 5.89 0.00 1.40
2537 8218 5.681639 ACTCCCTCCGTTCCTAAATATTTG 58.318 41.667 11.05 1.40 0.00 2.32
2538 8219 5.191124 ACTCCCTCCGTTCCTAAATATTTGT 59.809 40.000 11.05 0.00 0.00 2.83
2539 8220 5.677567 TCCCTCCGTTCCTAAATATTTGTC 58.322 41.667 11.05 0.00 0.00 3.18
2540 8221 5.427481 TCCCTCCGTTCCTAAATATTTGTCT 59.573 40.000 11.05 0.00 0.00 3.41
2541 8222 6.069847 TCCCTCCGTTCCTAAATATTTGTCTT 60.070 38.462 11.05 0.00 0.00 3.01
2542 8223 6.602009 CCCTCCGTTCCTAAATATTTGTCTTT 59.398 38.462 11.05 0.00 0.00 2.52
2543 8224 7.201705 CCCTCCGTTCCTAAATATTTGTCTTTC 60.202 40.741 11.05 0.00 0.00 2.62
2544 8225 7.553044 CCTCCGTTCCTAAATATTTGTCTTTCT 59.447 37.037 11.05 0.00 0.00 2.52
2545 8226 9.595823 CTCCGTTCCTAAATATTTGTCTTTCTA 57.404 33.333 11.05 0.00 0.00 2.10
2546 8227 9.595823 TCCGTTCCTAAATATTTGTCTTTCTAG 57.404 33.333 11.05 0.00 0.00 2.43
2547 8228 9.595823 CCGTTCCTAAATATTTGTCTTTCTAGA 57.404 33.333 11.05 0.00 0.00 2.43
2564 8245 9.436957 TCTTTCTAGACATTTCAAATGGACTAC 57.563 33.333 14.70 1.26 0.00 2.73
2565 8246 9.219603 CTTTCTAGACATTTCAAATGGACTACA 57.780 33.333 14.70 3.48 0.00 2.74
2566 8247 9.567776 TTTCTAGACATTTCAAATGGACTACAA 57.432 29.630 14.70 8.52 0.00 2.41
2567 8248 8.547967 TCTAGACATTTCAAATGGACTACAAC 57.452 34.615 14.70 0.00 0.00 3.32
2568 8249 8.154203 TCTAGACATTTCAAATGGACTACAACA 58.846 33.333 14.70 0.00 0.00 3.33
2569 8250 7.765695 AGACATTTCAAATGGACTACAACAT 57.234 32.000 14.70 0.00 0.00 2.71
2570 8251 8.862325 AGACATTTCAAATGGACTACAACATA 57.138 30.769 14.70 0.00 0.00 2.29
2571 8252 8.730680 AGACATTTCAAATGGACTACAACATAC 58.269 33.333 14.70 0.00 0.00 2.39
2572 8253 7.526608 ACATTTCAAATGGACTACAACATACG 58.473 34.615 14.70 0.00 0.00 3.06
2573 8254 6.489127 TTTCAAATGGACTACAACATACGG 57.511 37.500 0.00 0.00 0.00 4.02
2574 8255 5.408880 TCAAATGGACTACAACATACGGA 57.591 39.130 0.00 0.00 0.00 4.69
2575 8256 5.984725 TCAAATGGACTACAACATACGGAT 58.015 37.500 0.00 0.00 0.00 4.18
2576 8257 5.815222 TCAAATGGACTACAACATACGGATG 59.185 40.000 5.94 5.94 39.16 3.51
2578 8259 6.474140 AATGGACTACAACATACGGATGTA 57.526 37.500 15.10 0.00 45.93 2.29
2579 8260 6.665992 ATGGACTACAACATACGGATGTAT 57.334 37.500 15.10 8.21 45.93 2.29
2594 8275 9.817809 ATACGGATGTATGTAGCCATATTTTAG 57.182 33.333 0.00 0.00 39.81 1.85
2595 8276 7.903145 ACGGATGTATGTAGCCATATTTTAGA 58.097 34.615 0.00 0.00 36.02 2.10
2596 8277 8.035394 ACGGATGTATGTAGCCATATTTTAGAG 58.965 37.037 0.00 0.00 36.02 2.43
2597 8278 8.035394 CGGATGTATGTAGCCATATTTTAGAGT 58.965 37.037 0.00 0.00 36.02 3.24
2598 8279 9.155975 GGATGTATGTAGCCATATTTTAGAGTG 57.844 37.037 0.00 0.00 36.02 3.51
2599 8280 9.712305 GATGTATGTAGCCATATTTTAGAGTGT 57.288 33.333 0.00 0.00 36.02 3.55
2605 8286 9.982651 TGTAGCCATATTTTAGAGTGTAGATTC 57.017 33.333 0.00 0.00 0.00 2.52
2606 8287 9.982651 GTAGCCATATTTTAGAGTGTAGATTCA 57.017 33.333 0.00 0.00 0.00 2.57
2607 8288 8.894768 AGCCATATTTTAGAGTGTAGATTCAC 57.105 34.615 0.00 0.00 38.46 3.18
2608 8289 7.934120 AGCCATATTTTAGAGTGTAGATTCACC 59.066 37.037 0.00 0.00 38.91 4.02
2609 8290 7.173390 GCCATATTTTAGAGTGTAGATTCACCC 59.827 40.741 0.00 0.00 38.91 4.61
2610 8291 8.210946 CCATATTTTAGAGTGTAGATTCACCCA 58.789 37.037 0.00 0.00 38.91 4.51
2611 8292 9.784531 CATATTTTAGAGTGTAGATTCACCCAT 57.215 33.333 0.00 0.00 38.91 4.00
2614 8295 8.934023 TTTTAGAGTGTAGATTCACCCATTTT 57.066 30.769 0.00 0.00 38.91 1.82
2616 8297 9.444600 TTTAGAGTGTAGATTCACCCATTTTAC 57.555 33.333 0.00 0.00 38.91 2.01
2617 8298 7.259088 AGAGTGTAGATTCACCCATTTTACT 57.741 36.000 0.00 0.00 38.91 2.24
2618 8299 7.690256 AGAGTGTAGATTCACCCATTTTACTT 58.310 34.615 0.00 0.00 38.91 2.24
2619 8300 7.824779 AGAGTGTAGATTCACCCATTTTACTTC 59.175 37.037 0.00 0.00 38.91 3.01
2620 8301 6.594159 AGTGTAGATTCACCCATTTTACTTCG 59.406 38.462 0.00 0.00 38.91 3.79
2621 8302 6.370718 GTGTAGATTCACCCATTTTACTTCGT 59.629 38.462 0.00 0.00 32.81 3.85
2622 8303 7.546667 GTGTAGATTCACCCATTTTACTTCGTA 59.453 37.037 0.00 0.00 32.81 3.43
2623 8304 8.262227 TGTAGATTCACCCATTTTACTTCGTAT 58.738 33.333 0.00 0.00 0.00 3.06
2624 8305 7.553881 AGATTCACCCATTTTACTTCGTATG 57.446 36.000 0.00 0.00 0.00 2.39
2625 8306 7.110155 AGATTCACCCATTTTACTTCGTATGT 58.890 34.615 0.00 0.00 0.00 2.29
2626 8307 8.262227 AGATTCACCCATTTTACTTCGTATGTA 58.738 33.333 0.00 0.00 0.00 2.29
2627 8308 8.795842 ATTCACCCATTTTACTTCGTATGTAA 57.204 30.769 0.00 0.00 0.00 2.41
2628 8309 8.795842 TTCACCCATTTTACTTCGTATGTAAT 57.204 30.769 0.00 0.00 31.13 1.89
2629 8310 8.428186 TCACCCATTTTACTTCGTATGTAATC 57.572 34.615 0.00 0.00 31.13 1.75
2630 8311 8.041919 TCACCCATTTTACTTCGTATGTAATCA 58.958 33.333 0.00 0.00 31.13 2.57
2631 8312 8.120465 CACCCATTTTACTTCGTATGTAATCAC 58.880 37.037 0.00 0.00 31.13 3.06
2632 8313 8.044908 ACCCATTTTACTTCGTATGTAATCACT 58.955 33.333 0.00 0.00 31.13 3.41
2633 8314 8.889717 CCCATTTTACTTCGTATGTAATCACTT 58.110 33.333 0.00 0.00 31.13 3.16
2634 8315 9.702726 CCATTTTACTTCGTATGTAATCACTTG 57.297 33.333 0.00 0.00 31.13 3.16
2672 8353 8.947115 AGAAAGACAAATATTTAGAAACGGAGG 58.053 33.333 0.00 0.00 0.00 4.30
2673 8354 7.625828 AAGACAAATATTTAGAAACGGAGGG 57.374 36.000 0.00 0.00 0.00 4.30
2695 8376 4.324719 GGAGTATACTCGATCTGGATCCCT 60.325 50.000 23.35 0.00 43.76 4.20
2792 8479 1.440938 CGTCCAAAACCTCGCAACCA 61.441 55.000 0.00 0.00 0.00 3.67
2847 8534 2.315155 AGGCTAGAGAAAGGGACCTGTA 59.685 50.000 0.00 0.00 0.00 2.74
2884 8571 2.527442 GTACACGTACGTACCCAGAC 57.473 55.000 22.34 8.90 36.54 3.51
2888 8575 0.889186 ACGTACGTACCCAGACGGTT 60.889 55.000 21.41 0.00 45.36 4.44
2889 8576 0.179189 CGTACGTACCCAGACGGTTC 60.179 60.000 19.67 0.00 45.36 3.62
2891 8578 2.505557 CGTACCCAGACGGTTCGC 60.506 66.667 0.00 0.00 45.36 4.70
2892 8579 2.505557 GTACCCAGACGGTTCGCG 60.506 66.667 0.00 0.00 45.36 5.87
2893 8580 4.424566 TACCCAGACGGTTCGCGC 62.425 66.667 0.00 0.00 45.36 6.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
63 64 0.807275 CGTGCATGCGAGATGGAGAA 60.807 55.000 14.09 0.00 0.00 2.87
308 594 5.180492 CGGTGACTAAACCAGCTTAATGAAA 59.820 40.000 0.00 0.00 40.53 2.69
312 598 3.007635 GCGGTGACTAAACCAGCTTAAT 58.992 45.455 0.00 0.00 40.53 1.40
314 600 1.621814 AGCGGTGACTAAACCAGCTTA 59.378 47.619 6.82 0.00 43.06 3.09
327 614 4.451900 AGAAAAGAAAAGAGAAGCGGTGA 58.548 39.130 0.00 0.00 0.00 4.02
372 659 5.163561 TGCTTTTTCGATTCAGAAACCAAGT 60.164 36.000 0.00 0.00 39.53 3.16
373 660 5.280945 TGCTTTTTCGATTCAGAAACCAAG 58.719 37.500 0.00 6.93 39.53 3.61
375 662 4.909696 TGCTTTTTCGATTCAGAAACCA 57.090 36.364 0.00 1.47 39.53 3.67
376 663 5.920273 TGATTGCTTTTTCGATTCAGAAACC 59.080 36.000 0.00 0.00 39.53 3.27
377 664 6.991485 TGATTGCTTTTTCGATTCAGAAAC 57.009 33.333 0.00 0.00 39.53 2.78
395 682 7.145985 ACTTACATGCTACGGTACTATGATTG 58.854 38.462 11.65 5.67 0.00 2.67
403 690 6.205464 TGTCCTATACTTACATGCTACGGTAC 59.795 42.308 0.00 0.00 0.00 3.34
407 694 6.016527 TCCTTGTCCTATACTTACATGCTACG 60.017 42.308 0.00 0.00 0.00 3.51
409 696 7.907841 TTCCTTGTCCTATACTTACATGCTA 57.092 36.000 0.00 0.00 0.00 3.49
414 701 7.093640 ACACGATTTCCTTGTCCTATACTTACA 60.094 37.037 0.00 0.00 0.00 2.41
416 703 7.414222 ACACGATTTCCTTGTCCTATACTTA 57.586 36.000 0.00 0.00 0.00 2.24
417 704 6.295719 ACACGATTTCCTTGTCCTATACTT 57.704 37.500 0.00 0.00 0.00 2.24
418 705 5.934402 ACACGATTTCCTTGTCCTATACT 57.066 39.130 0.00 0.00 0.00 2.12
420 707 8.316214 ACTAAAACACGATTTCCTTGTCCTATA 58.684 33.333 0.00 0.00 0.00 1.31
421 708 7.119262 CACTAAAACACGATTTCCTTGTCCTAT 59.881 37.037 0.00 0.00 0.00 2.57
425 712 6.056428 ACACTAAAACACGATTTCCTTGTC 57.944 37.500 0.00 0.00 0.00 3.18
426 713 6.445357 AACACTAAAACACGATTTCCTTGT 57.555 33.333 0.00 0.00 0.00 3.16
428 715 7.067251 TGGTAAACACTAAAACACGATTTCCTT 59.933 33.333 0.00 0.00 0.00 3.36
429 716 6.543100 TGGTAAACACTAAAACACGATTTCCT 59.457 34.615 0.00 0.00 0.00 3.36
430 717 6.634035 GTGGTAAACACTAAAACACGATTTCC 59.366 38.462 0.00 0.00 46.72 3.13
431 718 7.599054 GTGGTAAACACTAAAACACGATTTC 57.401 36.000 0.00 0.00 46.72 2.17
441 728 8.948255 CCTATCTCAGGGGTGGTAAACACTAAA 61.948 44.444 0.00 0.00 42.86 1.85
442 729 7.543905 CCTATCTCAGGGGTGGTAAACACTAA 61.544 46.154 0.00 0.00 42.86 2.24
443 730 6.106834 CCTATCTCAGGGGTGGTAAACACTA 61.107 48.000 0.00 0.00 42.86 2.74
444 731 5.368578 CCTATCTCAGGGGTGGTAAACACT 61.369 50.000 0.00 0.00 42.86 3.55
445 732 3.118371 CCTATCTCAGGGGTGGTAAACAC 60.118 52.174 0.00 0.00 41.74 3.32
446 733 3.112263 CCTATCTCAGGGGTGGTAAACA 58.888 50.000 0.00 0.00 41.26 2.83
447 734 3.381335 TCCTATCTCAGGGGTGGTAAAC 58.619 50.000 0.00 0.00 45.58 2.01
448 735 3.788116 TCCTATCTCAGGGGTGGTAAA 57.212 47.619 0.00 0.00 45.58 2.01
449 736 3.788116 TTCCTATCTCAGGGGTGGTAA 57.212 47.619 0.00 0.00 45.58 2.85
450 737 4.202792 CCTATTCCTATCTCAGGGGTGGTA 60.203 50.000 0.00 0.00 45.58 3.25
455 742 4.907875 TGAAACCTATTCCTATCTCAGGGG 59.092 45.833 0.00 0.00 45.58 4.79
516 1482 6.206634 CCTTTGATGTGGTGCTCTAGTAAAAA 59.793 38.462 0.00 0.00 0.00 1.94
517 1483 5.705441 CCTTTGATGTGGTGCTCTAGTAAAA 59.295 40.000 0.00 0.00 0.00 1.52
518 1484 5.012664 TCCTTTGATGTGGTGCTCTAGTAAA 59.987 40.000 0.00 0.00 0.00 2.01
527 2676 3.698040 AGATTCATCCTTTGATGTGGTGC 59.302 43.478 2.77 0.00 46.96 5.01
647 3153 6.558771 TCATAATATGTGGCGATTTTGAGG 57.441 37.500 0.00 0.00 0.00 3.86
718 3228 1.295792 GACTCGTCTTTTGTGGCACA 58.704 50.000 17.96 17.96 0.00 4.57
732 3245 4.330074 GGTGTCATTTATTCAGTGGACTCG 59.670 45.833 0.00 0.00 0.00 4.18
800 3318 9.869757 GCCTTACTTGGACAAAATTAAATGTAT 57.130 29.630 0.00 0.00 0.00 2.29
803 3328 6.310224 CCGCCTTACTTGGACAAAATTAAATG 59.690 38.462 0.00 0.00 0.00 2.32
920 3658 3.702048 TGGAAACGGGGAGAGCCG 61.702 66.667 0.00 0.00 33.83 5.52
972 3710 1.571215 GGACGACGTGCGGGATTTTT 61.571 55.000 4.58 0.00 46.49 1.94
977 3715 2.520465 TAGTAGGACGACGTGCGGGA 62.520 60.000 14.02 0.81 46.49 5.14
978 3716 1.442526 ATAGTAGGACGACGTGCGGG 61.443 60.000 14.02 0.00 46.49 6.13
982 3720 3.979495 GCCATTTATAGTAGGACGACGTG 59.021 47.826 4.58 0.00 0.00 4.49
983 3721 3.633525 TGCCATTTATAGTAGGACGACGT 59.366 43.478 0.00 0.00 0.00 4.34
984 3722 4.227538 CTGCCATTTATAGTAGGACGACG 58.772 47.826 0.00 0.00 0.00 5.12
985 3723 3.988517 GCTGCCATTTATAGTAGGACGAC 59.011 47.826 0.00 0.00 0.00 4.34
1061 3799 2.943345 GCGTTCGTGTGCTGAGGTG 61.943 63.158 0.00 0.00 0.00 4.00
1258 4002 2.664851 CGACAGCTCCGGTTGCAA 60.665 61.111 20.41 0.00 0.00 4.08
1926 7469 6.765989 AGCTTTATTATGTAGTCGCAATGGAA 59.234 34.615 0.00 0.00 0.00 3.53
1988 7642 4.202326 ACTGTCGGATATAACCCATGGAAC 60.202 45.833 15.22 0.00 0.00 3.62
1989 7643 3.971305 ACTGTCGGATATAACCCATGGAA 59.029 43.478 15.22 0.00 0.00 3.53
1990 7644 3.583228 ACTGTCGGATATAACCCATGGA 58.417 45.455 15.22 0.00 0.00 3.41
1991 7645 4.351874 AACTGTCGGATATAACCCATGG 57.648 45.455 4.14 4.14 0.00 3.66
1992 7646 4.447724 CGAAACTGTCGGATATAACCCATG 59.552 45.833 0.00 0.00 46.45 3.66
1993 7647 4.628074 CGAAACTGTCGGATATAACCCAT 58.372 43.478 0.00 0.00 46.45 4.00
1994 7648 4.049546 CGAAACTGTCGGATATAACCCA 57.950 45.455 0.00 0.00 46.45 4.51
2037 7691 5.684626 CAGTCTTTGTGTGAAAGAATCTTGC 59.315 40.000 0.00 0.00 37.93 4.01
2077 7737 9.350357 TCTTAGATGAACAGTACAAAACGATAC 57.650 33.333 0.00 0.00 0.00 2.24
2102 7762 7.067728 AGTTTAGCGAGTACAAAACGATTTTC 58.932 34.615 0.00 0.00 37.02 2.29
2141 7801 6.592870 AGTAATAACAAGGATAAGGACTGCC 58.407 40.000 0.00 0.00 0.00 4.85
2156 7816 5.239963 TGGATACGAGCGATGAGTAATAACA 59.760 40.000 0.00 0.00 42.51 2.41
2176 7836 3.415212 CGGTGCCAAATATCTCATGGAT 58.585 45.455 0.00 0.00 36.27 3.41
2261 7921 1.227102 CGGGGCCCAATCTTCATCA 59.773 57.895 26.86 0.00 0.00 3.07
2265 7925 2.440247 CCACGGGGCCCAATCTTC 60.440 66.667 26.86 3.25 0.00 2.87
2275 7935 2.812178 CGTTTCTACGCCACGGGG 60.812 66.667 0.00 0.00 41.41 5.73
2330 8006 1.658409 GCAACTGCTTCAACCGTGC 60.658 57.895 0.00 0.00 38.21 5.34
2353 8029 4.021102 AGTATCTGTGGTCAAAAGTGGG 57.979 45.455 0.00 0.00 0.00 4.61
2381 8062 2.086610 TCCACCATCGATCAGATCCA 57.913 50.000 4.73 0.00 37.52 3.41
2387 8068 4.522114 TGCTTATTTTCCACCATCGATCA 58.478 39.130 0.00 0.00 0.00 2.92
2388 8069 5.695851 ATGCTTATTTTCCACCATCGATC 57.304 39.130 0.00 0.00 0.00 3.69
2389 8070 6.772716 ACTTATGCTTATTTTCCACCATCGAT 59.227 34.615 0.00 0.00 0.00 3.59
2390 8071 6.119536 ACTTATGCTTATTTTCCACCATCGA 58.880 36.000 0.00 0.00 0.00 3.59
2392 8073 8.451908 AGTACTTATGCTTATTTTCCACCATC 57.548 34.615 0.00 0.00 0.00 3.51
2393 8074 9.338622 GTAGTACTTATGCTTATTTTCCACCAT 57.661 33.333 0.00 0.00 0.00 3.55
2394 8075 8.545472 AGTAGTACTTATGCTTATTTTCCACCA 58.455 33.333 0.00 0.00 0.00 4.17
2395 8076 8.959705 AGTAGTACTTATGCTTATTTTCCACC 57.040 34.615 0.00 0.00 0.00 4.61
2515 8196 5.681639 ACAAATATTTAGGAACGGAGGGAG 58.318 41.667 0.00 0.00 0.00 4.30
2516 8197 5.427481 AGACAAATATTTAGGAACGGAGGGA 59.573 40.000 0.00 0.00 0.00 4.20
2518 8199 7.553044 AGAAAGACAAATATTTAGGAACGGAGG 59.447 37.037 0.00 0.00 0.00 4.30
2519 8200 8.494016 AGAAAGACAAATATTTAGGAACGGAG 57.506 34.615 0.00 0.00 0.00 4.63
2520 8201 9.595823 CTAGAAAGACAAATATTTAGGAACGGA 57.404 33.333 0.00 0.00 0.00 4.69
2521 8202 9.595823 TCTAGAAAGACAAATATTTAGGAACGG 57.404 33.333 0.00 0.00 0.00 4.44
2538 8219 9.436957 GTAGTCCATTTGAAATGTCTAGAAAGA 57.563 33.333 15.93 1.84 0.00 2.52
2539 8220 9.219603 TGTAGTCCATTTGAAATGTCTAGAAAG 57.780 33.333 15.93 0.00 0.00 2.62
2540 8221 9.567776 TTGTAGTCCATTTGAAATGTCTAGAAA 57.432 29.630 15.93 11.59 0.00 2.52
2541 8222 8.999431 GTTGTAGTCCATTTGAAATGTCTAGAA 58.001 33.333 15.93 16.70 0.00 2.10
2542 8223 8.154203 TGTTGTAGTCCATTTGAAATGTCTAGA 58.846 33.333 15.93 12.79 0.00 2.43
2543 8224 8.322906 TGTTGTAGTCCATTTGAAATGTCTAG 57.677 34.615 15.93 1.90 0.00 2.43
2544 8225 8.862325 ATGTTGTAGTCCATTTGAAATGTCTA 57.138 30.769 15.93 13.97 0.00 2.59
2545 8226 7.765695 ATGTTGTAGTCCATTTGAAATGTCT 57.234 32.000 15.93 14.81 0.00 3.41
2546 8227 7.692291 CGTATGTTGTAGTCCATTTGAAATGTC 59.308 37.037 15.93 9.10 0.00 3.06
2547 8228 7.361713 CCGTATGTTGTAGTCCATTTGAAATGT 60.362 37.037 15.93 1.43 0.00 2.71
2548 8229 6.966632 CCGTATGTTGTAGTCCATTTGAAATG 59.033 38.462 10.84 10.84 0.00 2.32
2549 8230 6.882140 TCCGTATGTTGTAGTCCATTTGAAAT 59.118 34.615 0.00 0.00 0.00 2.17
2550 8231 6.231951 TCCGTATGTTGTAGTCCATTTGAAA 58.768 36.000 0.00 0.00 0.00 2.69
2551 8232 5.795972 TCCGTATGTTGTAGTCCATTTGAA 58.204 37.500 0.00 0.00 0.00 2.69
2552 8233 5.408880 TCCGTATGTTGTAGTCCATTTGA 57.591 39.130 0.00 0.00 0.00 2.69
2553 8234 5.584649 ACATCCGTATGTTGTAGTCCATTTG 59.415 40.000 0.00 0.00 44.07 2.32
2554 8235 5.741011 ACATCCGTATGTTGTAGTCCATTT 58.259 37.500 0.00 0.00 44.07 2.32
2555 8236 5.353394 ACATCCGTATGTTGTAGTCCATT 57.647 39.130 0.00 0.00 44.07 3.16
2556 8237 6.455647 CATACATCCGTATGTTGTAGTCCAT 58.544 40.000 0.00 0.00 46.70 3.41
2557 8238 5.838529 CATACATCCGTATGTTGTAGTCCA 58.161 41.667 0.00 0.00 46.70 4.02
2568 8249 9.817809 CTAAAATATGGCTACATACATCCGTAT 57.182 33.333 0.00 0.00 42.05 3.06
2569 8250 9.027202 TCTAAAATATGGCTACATACATCCGTA 57.973 33.333 0.00 0.00 42.05 4.02
2570 8251 7.903145 TCTAAAATATGGCTACATACATCCGT 58.097 34.615 0.00 0.00 42.05 4.69
2571 8252 8.035394 ACTCTAAAATATGGCTACATACATCCG 58.965 37.037 0.00 0.00 42.05 4.18
2572 8253 9.155975 CACTCTAAAATATGGCTACATACATCC 57.844 37.037 0.00 0.00 42.05 3.51
2573 8254 9.712305 ACACTCTAAAATATGGCTACATACATC 57.288 33.333 0.00 0.00 42.05 3.06
2579 8260 9.982651 GAATCTACACTCTAAAATATGGCTACA 57.017 33.333 0.00 0.00 0.00 2.74
2580 8261 9.982651 TGAATCTACACTCTAAAATATGGCTAC 57.017 33.333 0.00 0.00 0.00 3.58
2581 8262 9.982651 GTGAATCTACACTCTAAAATATGGCTA 57.017 33.333 0.00 0.00 37.73 3.93
2582 8263 7.934120 GGTGAATCTACACTCTAAAATATGGCT 59.066 37.037 0.00 0.00 40.22 4.75
2583 8264 7.173390 GGGTGAATCTACACTCTAAAATATGGC 59.827 40.741 0.00 0.00 38.14 4.40
2584 8265 8.210946 TGGGTGAATCTACACTCTAAAATATGG 58.789 37.037 0.00 0.00 41.33 2.74
2585 8266 9.784531 ATGGGTGAATCTACACTCTAAAATATG 57.215 33.333 0.00 0.00 41.33 1.78
2588 8269 9.533831 AAAATGGGTGAATCTACACTCTAAAAT 57.466 29.630 0.00 0.00 41.33 1.82
2589 8270 8.934023 AAAATGGGTGAATCTACACTCTAAAA 57.066 30.769 0.00 0.00 41.33 1.52
2590 8271 9.444600 GTAAAATGGGTGAATCTACACTCTAAA 57.555 33.333 0.00 0.00 41.33 1.85
2591 8272 8.822805 AGTAAAATGGGTGAATCTACACTCTAA 58.177 33.333 0.00 0.00 41.33 2.10
2592 8273 8.375493 AGTAAAATGGGTGAATCTACACTCTA 57.625 34.615 0.00 0.00 41.33 2.43
2593 8274 7.259088 AGTAAAATGGGTGAATCTACACTCT 57.741 36.000 0.00 0.00 41.33 3.24
2594 8275 7.201530 CGAAGTAAAATGGGTGAATCTACACTC 60.202 40.741 0.00 0.00 41.16 3.51
2595 8276 6.594159 CGAAGTAAAATGGGTGAATCTACACT 59.406 38.462 0.00 0.00 40.22 3.55
2596 8277 6.370718 ACGAAGTAAAATGGGTGAATCTACAC 59.629 38.462 0.00 0.00 41.94 2.90
2597 8278 6.469410 ACGAAGTAAAATGGGTGAATCTACA 58.531 36.000 0.00 0.00 41.94 2.74
2598 8279 6.980051 ACGAAGTAAAATGGGTGAATCTAC 57.020 37.500 0.00 0.00 41.94 2.59
2646 8327 8.947115 CCTCCGTTTCTAAATATTTGTCTTTCT 58.053 33.333 11.05 0.00 0.00 2.52
2647 8328 8.182227 CCCTCCGTTTCTAAATATTTGTCTTTC 58.818 37.037 11.05 0.00 0.00 2.62
2648 8329 7.886446 TCCCTCCGTTTCTAAATATTTGTCTTT 59.114 33.333 11.05 0.00 0.00 2.52
2649 8330 7.399634 TCCCTCCGTTTCTAAATATTTGTCTT 58.600 34.615 11.05 0.00 0.00 3.01
2650 8331 6.954232 TCCCTCCGTTTCTAAATATTTGTCT 58.046 36.000 11.05 0.00 0.00 3.41
2651 8332 6.822170 ACTCCCTCCGTTTCTAAATATTTGTC 59.178 38.462 11.05 0.00 0.00 3.18
2652 8333 6.718294 ACTCCCTCCGTTTCTAAATATTTGT 58.282 36.000 11.05 0.00 0.00 2.83
2653 8334 8.904099 ATACTCCCTCCGTTTCTAAATATTTG 57.096 34.615 11.05 1.65 0.00 2.32
2654 8335 9.993454 GTATACTCCCTCCGTTTCTAAATATTT 57.007 33.333 5.89 5.89 0.00 1.40
2655 8336 9.377238 AGTATACTCCCTCCGTTTCTAAATATT 57.623 33.333 0.00 0.00 0.00 1.28
2656 8337 8.953223 AGTATACTCCCTCCGTTTCTAAATAT 57.047 34.615 0.00 0.00 0.00 1.28
2657 8338 7.173907 CGAGTATACTCCCTCCGTTTCTAAATA 59.826 40.741 24.01 0.00 39.79 1.40
2658 8339 6.016443 CGAGTATACTCCCTCCGTTTCTAAAT 60.016 42.308 24.01 0.00 39.79 1.40
2659 8340 5.297776 CGAGTATACTCCCTCCGTTTCTAAA 59.702 44.000 24.01 0.00 39.79 1.85
2660 8341 4.818546 CGAGTATACTCCCTCCGTTTCTAA 59.181 45.833 24.01 0.00 39.79 2.10
2661 8342 4.101585 TCGAGTATACTCCCTCCGTTTCTA 59.898 45.833 24.01 0.00 39.79 2.10
2662 8343 3.118112 TCGAGTATACTCCCTCCGTTTCT 60.118 47.826 24.01 0.00 39.79 2.52
2663 8344 3.209410 TCGAGTATACTCCCTCCGTTTC 58.791 50.000 24.01 0.00 39.79 2.78
2664 8345 3.287867 TCGAGTATACTCCCTCCGTTT 57.712 47.619 24.01 0.00 39.79 3.60
2665 8346 3.072768 AGATCGAGTATACTCCCTCCGTT 59.927 47.826 24.01 10.04 39.79 4.44
2666 8347 2.638855 AGATCGAGTATACTCCCTCCGT 59.361 50.000 24.01 6.66 39.79 4.69
2667 8348 3.004171 CAGATCGAGTATACTCCCTCCG 58.996 54.545 24.01 14.43 39.79 4.63
2668 8349 3.009253 TCCAGATCGAGTATACTCCCTCC 59.991 52.174 24.01 12.46 39.79 4.30
2669 8350 4.289238 TCCAGATCGAGTATACTCCCTC 57.711 50.000 24.01 19.72 39.79 4.30
2670 8351 4.324719 GGATCCAGATCGAGTATACTCCCT 60.325 50.000 24.01 16.29 39.79 4.20
2671 8352 3.949113 GGATCCAGATCGAGTATACTCCC 59.051 52.174 24.01 13.54 39.79 4.30
2672 8353 3.949113 GGGATCCAGATCGAGTATACTCC 59.051 52.174 24.01 12.30 39.79 3.85
2673 8354 4.638421 CAGGGATCCAGATCGAGTATACTC 59.362 50.000 21.00 21.00 38.69 2.59
2695 8376 0.250467 GTTGCCTGTCCTCTGCTTCA 60.250 55.000 0.00 0.00 0.00 3.02
2792 8479 2.196749 CGTCAATATTCAGCGCTGTCT 58.803 47.619 34.70 24.63 0.00 3.41
2865 8552 1.201921 CGTCTGGGTACGTACGTGTAC 60.202 57.143 30.25 20.62 43.15 2.90
2867 8554 1.577328 CCGTCTGGGTACGTACGTGT 61.577 60.000 30.25 7.45 41.27 4.49
2868 8555 1.135315 CCGTCTGGGTACGTACGTG 59.865 63.158 30.25 13.53 41.27 4.49


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

AutoCloner maintained by Alex Coulton.