Multiple sequence alignment - TraesCS5B01G259000

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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 TraesCS5B01G259000 chr5B 100.000 3294 0 0 1 3294 441528920 441525627 0.000000e+00 6083
1 TraesCS5B01G259000 chr5B 88.507 670 58 9 2633 3291 679553766 679554427 0.000000e+00 793
2 TraesCS5B01G259000 chr5D 87.869 2572 152 63 23 2513 371635292 371632800 0.000000e+00 2874
3 TraesCS5B01G259000 chr5D 85.496 131 16 3 2508 2637 371631162 371631034 2.060000e-27 134
4 TraesCS5B01G259000 chr3D 90.342 673 48 8 2630 3291 50379569 50378903 0.000000e+00 867
5 TraesCS5B01G259000 chr3D 77.818 559 55 31 2788 3294 389081002 389080461 6.960000e-72 281
6 TraesCS5B01G259000 chr2A 90.214 654 44 10 876 1528 369204535 369203901 0.000000e+00 835
7 TraesCS5B01G259000 chr2A 87.084 511 36 10 1544 2024 369202540 369202030 4.800000e-153 551
8 TraesCS5B01G259000 chr2A 80.593 371 45 15 2933 3294 700646285 700646637 9.070000e-66 261
9 TraesCS5B01G259000 chr1D 89.318 674 58 7 2631 3294 422070316 422069647 0.000000e+00 833
10 TraesCS5B01G259000 chr7B 89.458 664 58 6 2641 3294 164170122 164170783 0.000000e+00 828
11 TraesCS5B01G259000 chr3B 88.018 676 46 15 2630 3294 79780962 79780311 0.000000e+00 767
12 TraesCS5B01G259000 chr3A 87.798 672 60 13 2636 3294 423536089 423535427 0.000000e+00 767
13 TraesCS5B01G259000 chr2B 87.500 672 69 8 2636 3294 782458419 782459088 0.000000e+00 761
14 TraesCS5B01G259000 chr6B 86.446 664 69 10 2641 3294 533275350 533276002 0.000000e+00 708
15 TraesCS5B01G259000 chr7D 85.778 675 76 13 2634 3294 3331691 3331023 0.000000e+00 697
16 TraesCS5B01G259000 chr7D 83.731 670 71 20 2636 3294 222124390 222125032 1.690000e-167 599
17 TraesCS5B01G259000 chrUn 85.994 664 74 13 2639 3291 282593518 282594173 0.000000e+00 693
18 TraesCS5B01G259000 chr6D 90.551 508 38 6 2797 3294 392578490 392578997 0.000000e+00 664
19 TraesCS5B01G259000 chr2D 87.931 464 26 8 1424 1869 296704652 296705103 1.350000e-143 520
20 TraesCS5B01G259000 chr2D 93.119 218 15 0 1211 1428 296699401 296699618 1.470000e-83 320
21 TraesCS5B01G259000 chr2D 92.857 84 5 1 1129 1212 296697566 296697648 1.610000e-23 121
22 TraesCS5B01G259000 chr2D 84.746 118 16 2 876 992 296697453 296697569 2.080000e-22 117
23 TraesCS5B01G259000 chr1A 82.917 240 36 4 3057 3291 366363491 366363252 9.260000e-51 211


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 TraesCS5B01G259000 chr5B 441525627 441528920 3293 True 6083 6083 100.0000 1 3294 1 chr5B.!!$R1 3293
1 TraesCS5B01G259000 chr5B 679553766 679554427 661 False 793 793 88.5070 2633 3291 1 chr5B.!!$F1 658
2 TraesCS5B01G259000 chr5D 371631034 371635292 4258 True 1504 2874 86.6825 23 2637 2 chr5D.!!$R1 2614
3 TraesCS5B01G259000 chr3D 50378903 50379569 666 True 867 867 90.3420 2630 3291 1 chr3D.!!$R1 661
4 TraesCS5B01G259000 chr3D 389080461 389081002 541 True 281 281 77.8180 2788 3294 1 chr3D.!!$R2 506
5 TraesCS5B01G259000 chr2A 369202030 369204535 2505 True 693 835 88.6490 876 2024 2 chr2A.!!$R1 1148
6 TraesCS5B01G259000 chr1D 422069647 422070316 669 True 833 833 89.3180 2631 3294 1 chr1D.!!$R1 663
7 TraesCS5B01G259000 chr7B 164170122 164170783 661 False 828 828 89.4580 2641 3294 1 chr7B.!!$F1 653
8 TraesCS5B01G259000 chr3B 79780311 79780962 651 True 767 767 88.0180 2630 3294 1 chr3B.!!$R1 664
9 TraesCS5B01G259000 chr3A 423535427 423536089 662 True 767 767 87.7980 2636 3294 1 chr3A.!!$R1 658
10 TraesCS5B01G259000 chr2B 782458419 782459088 669 False 761 761 87.5000 2636 3294 1 chr2B.!!$F1 658
11 TraesCS5B01G259000 chr6B 533275350 533276002 652 False 708 708 86.4460 2641 3294 1 chr6B.!!$F1 653
12 TraesCS5B01G259000 chr7D 3331023 3331691 668 True 697 697 85.7780 2634 3294 1 chr7D.!!$R1 660
13 TraesCS5B01G259000 chr7D 222124390 222125032 642 False 599 599 83.7310 2636 3294 1 chr7D.!!$F1 658
14 TraesCS5B01G259000 chrUn 282593518 282594173 655 False 693 693 85.9940 2639 3291 1 chrUn.!!$F1 652
15 TraesCS5B01G259000 chr6D 392578490 392578997 507 False 664 664 90.5510 2797 3294 1 chr6D.!!$F1 497

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
147 148 0.460987 CTGGTCCGGTGATGCTCTTC 60.461 60.0 0.0 0.0 0.0 2.87 F
703 739 0.723414 CGCATTGGACACACTAGCTG 59.277 55.0 0.0 0.0 0.0 4.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1544 2917 0.031585 CGACTTCTTGACCACCACGA 59.968 55.0 0.0 0.0 0.00 4.35 R
2565 3992 0.035317 TGCAGACGCCTCATTCTTGT 59.965 50.0 0.0 0.0 37.32 3.16 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
27 28 4.738998 CCCCCACCGCTTGATGCA 62.739 66.667 0.00 0.00 43.06 3.96
36 37 1.980772 GCTTGATGCACCCCTGCTT 60.981 57.895 0.00 0.00 44.57 3.91
43 44 4.785453 CACCCCTGCTTCGCCCTC 62.785 72.222 0.00 0.00 0.00 4.30
117 118 1.440518 CATCGTCGCTCCGTATCCG 60.441 63.158 0.00 0.00 0.00 4.18
128 129 1.300233 CGTATCCGGGAGCAAGAGC 60.300 63.158 0.00 0.00 42.56 4.09
139 140 3.059982 CAAGAGCTGGTCCGGTGA 58.940 61.111 0.00 0.00 0.00 4.02
147 148 0.460987 CTGGTCCGGTGATGCTCTTC 60.461 60.000 0.00 0.00 0.00 2.87
160 161 2.602267 TCTTCGAGCGGGGGTTGA 60.602 61.111 0.00 0.00 0.00 3.18
202 203 2.904866 CGAGCCTCCTCCTCTCCG 60.905 72.222 0.00 0.00 34.49 4.63
250 251 3.847709 GTTCGCTGCGAGCTGCTC 61.848 66.667 27.72 19.53 46.63 4.26
362 363 2.512286 ATGAGCGGCATGACGTGG 60.512 61.111 24.28 0.00 35.42 4.94
363 364 4.758251 TGAGCGGCATGACGTGGG 62.758 66.667 24.28 0.00 35.98 4.61
364 365 4.451150 GAGCGGCATGACGTGGGA 62.451 66.667 24.28 0.00 35.98 4.37
365 366 4.457496 AGCGGCATGACGTGGGAG 62.457 66.667 24.28 0.00 35.98 4.30
367 368 4.758251 CGGCATGACGTGGGAGCA 62.758 66.667 14.35 0.00 0.00 4.26
370 371 3.190849 CATGACGTGGGAGCAGCG 61.191 66.667 0.00 0.00 0.00 5.18
466 467 3.726517 CAACAACCGCGGCAGGAG 61.727 66.667 28.58 13.25 34.73 3.69
547 565 4.357947 ACATGCGCGACAGGACGT 62.358 61.111 12.10 0.00 33.22 4.34
548 566 3.842126 CATGCGCGACAGGACGTG 61.842 66.667 12.10 0.00 44.86 4.49
585 603 2.278206 CAGGATCGACAGGACGCG 60.278 66.667 3.53 3.53 0.00 6.01
623 652 2.793322 GCTAGCGTTGACGAGCAGC 61.793 63.158 7.85 8.00 43.02 5.25
642 671 4.864334 CAGAGTGGCGGCCCATCC 62.864 72.222 17.97 3.09 44.51 3.51
684 720 1.883021 CCCAAAATGCGTCTGTCCC 59.117 57.895 0.00 0.00 0.00 4.46
692 728 2.264480 CGTCTGTCCCGCATTGGA 59.736 61.111 0.00 0.00 42.00 3.53
699 735 2.367529 TCCCGCATTGGACACACTA 58.632 52.632 0.00 0.00 42.00 2.74
703 739 0.723414 CGCATTGGACACACTAGCTG 59.277 55.000 0.00 0.00 0.00 4.24
750 786 2.180204 CCGCTCGGCCGATTCAAAT 61.180 57.895 31.19 0.00 0.00 2.32
756 792 3.194861 CTCGGCCGATTCAAATAGACAA 58.805 45.455 31.19 0.00 0.00 3.18
792 828 2.184167 CGCCCGTTTGGTTCACTGT 61.184 57.895 0.00 0.00 36.04 3.55
799 835 2.223249 CGTTTGGTTCACTGTGTTGGAG 60.223 50.000 7.79 0.00 0.00 3.86
803 839 1.065551 GGTTCACTGTGTTGGAGTTGC 59.934 52.381 7.79 0.00 0.00 4.17
809 845 4.067896 CACTGTGTTGGAGTTGCTCTAAT 58.932 43.478 0.00 0.00 33.81 1.73
884 920 9.783081 AAAGCTTAAAACCATTGATGATTTTCT 57.217 25.926 0.00 0.00 0.00 2.52
893 929 5.105877 CCATTGATGATTTTCTGTGTGCTCT 60.106 40.000 0.00 0.00 0.00 4.09
927 964 1.751544 TGCACTGATGGGAGCATGC 60.752 57.895 10.51 10.51 31.05 4.06
1011 1048 1.162181 CCGGAGGCACACATATGCTG 61.162 60.000 0.00 3.33 46.14 4.41
1464 1501 1.337821 CCGCTGACGAGAACTGTTAC 58.662 55.000 0.00 0.00 43.93 2.50
1465 1502 1.337821 CGCTGACGAGAACTGTTACC 58.662 55.000 0.00 0.00 43.93 2.85
1466 1503 1.335597 CGCTGACGAGAACTGTTACCA 60.336 52.381 0.00 0.00 43.93 3.25
1467 1504 2.671351 CGCTGACGAGAACTGTTACCAT 60.671 50.000 0.00 0.00 43.93 3.55
1468 1505 2.668457 GCTGACGAGAACTGTTACCATG 59.332 50.000 0.00 0.00 0.00 3.66
1469 1506 3.614150 GCTGACGAGAACTGTTACCATGA 60.614 47.826 0.00 0.00 0.00 3.07
1528 1565 3.998156 CGAAGGTCGACAGGGAGA 58.002 61.111 18.91 0.00 43.74 3.71
1532 2905 1.744522 GAAGGTCGACAGGGAGAGTAC 59.255 57.143 18.91 0.00 0.00 2.73
1595 2977 4.504916 CGCGGAGGAGCTGGAGTG 62.505 72.222 0.00 0.00 34.40 3.51
1599 2981 2.587247 GGAGGAGCTGGAGTGCACA 61.587 63.158 21.04 0.00 34.99 4.57
1646 3028 2.357517 GTCCGTGGCTGTGGAGTG 60.358 66.667 0.00 0.00 34.21 3.51
1668 3050 2.507324 GAAGAGGAGCGCGTGGAC 60.507 66.667 8.43 0.00 0.00 4.02
1697 3079 4.143333 CCTGTACGCGAGGGTGGG 62.143 72.222 15.93 2.97 0.00 4.61
1869 3251 2.627945 CTCGCCATTTGCAAGGTACTA 58.372 47.619 0.00 0.00 38.49 1.82
1870 3252 2.609459 CTCGCCATTTGCAAGGTACTAG 59.391 50.000 0.00 0.00 38.49 2.57
1884 3287 3.639094 AGGTACTAGCATCATGTCTGACC 59.361 47.826 5.17 0.00 36.02 4.02
1903 3313 1.600663 CCCAGTCGACGCTATTAGCAG 60.601 57.143 15.64 10.40 42.58 4.24
1904 3314 1.065701 CCAGTCGACGCTATTAGCAGT 59.934 52.381 15.64 13.22 42.58 4.40
1919 3333 3.498774 AGCAGTTCTCCAGTTCACAAT 57.501 42.857 0.00 0.00 0.00 2.71
2074 3490 0.027455 CGCAGTTTTCACAAGACGCA 59.973 50.000 0.00 0.00 0.00 5.24
2077 3493 2.920490 GCAGTTTTCACAAGACGCAAAA 59.080 40.909 0.00 0.00 0.00 2.44
2103 3519 1.839424 TCCTGAATCTCTCACGCTGA 58.161 50.000 0.00 0.00 0.00 4.26
2106 3522 0.456824 TGAATCTCTCACGCTGACGC 60.457 55.000 0.00 0.00 45.53 5.19
2114 3530 3.044305 ACGCTGACGCTTGGCTTC 61.044 61.111 0.00 0.00 45.53 3.86
2166 3582 0.108424 AGAGAGATTCACGGCTGCAC 60.108 55.000 0.50 0.00 0.00 4.57
2167 3583 0.108424 GAGAGATTCACGGCTGCACT 60.108 55.000 0.50 0.00 0.00 4.40
2198 3614 4.973055 CGGCGGTCGTTGTTGGGA 62.973 66.667 0.00 0.00 0.00 4.37
2223 3639 3.399440 AGCAGCTGTTGATAGGCTATC 57.601 47.619 24.48 24.48 34.71 2.08
2242 3662 1.007387 GGTCCTGCAACCAAAAGCG 60.007 57.895 2.53 0.00 39.27 4.68
2304 3727 4.265085 TGTCGCGTAAACAATAATCCGTAC 59.735 41.667 5.77 0.00 0.00 3.67
2305 3728 4.265085 GTCGCGTAAACAATAATCCGTACA 59.735 41.667 5.77 0.00 0.00 2.90
2306 3729 5.042593 TCGCGTAAACAATAATCCGTACAT 58.957 37.500 5.77 0.00 0.00 2.29
2307 3730 5.051574 TCGCGTAAACAATAATCCGTACATG 60.052 40.000 5.77 0.00 0.00 3.21
2308 3731 4.901881 GCGTAAACAATAATCCGTACATGC 59.098 41.667 0.00 0.00 0.00 4.06
2309 3732 5.502706 GCGTAAACAATAATCCGTACATGCA 60.503 40.000 0.00 0.00 0.00 3.96
2310 3733 6.126741 CGTAAACAATAATCCGTACATGCAG 58.873 40.000 0.00 0.00 0.00 4.41
2315 3738 6.919721 ACAATAATCCGTACATGCAGTTTTT 58.080 32.000 0.00 0.00 0.00 1.94
2431 3858 0.629058 ATTTGGAATACCGGGTGCCT 59.371 50.000 10.66 0.00 39.42 4.75
2481 3908 0.096454 CTCACGCTGTGCACATGATG 59.904 55.000 22.00 17.65 32.98 3.07
2510 3937 3.329520 ACTCCCTGCATGTAGGTTGTAAA 59.670 43.478 25.92 5.79 36.02 2.01
2523 3950 4.846779 GGTTGTAAAGCTTTCCATCACA 57.153 40.909 16.57 11.29 42.05 3.58
2524 3951 4.798574 GGTTGTAAAGCTTTCCATCACAG 58.201 43.478 16.57 0.00 42.05 3.66
2525 3952 4.518970 GGTTGTAAAGCTTTCCATCACAGA 59.481 41.667 16.57 2.96 42.05 3.41
2526 3953 5.009610 GGTTGTAAAGCTTTCCATCACAGAA 59.990 40.000 16.57 0.00 42.05 3.02
2527 3954 5.947228 TGTAAAGCTTTCCATCACAGAAG 57.053 39.130 16.57 0.00 0.00 2.85
2528 3955 3.930634 AAAGCTTTCCATCACAGAAGC 57.069 42.857 5.69 0.00 43.57 3.86
2529 3956 2.574006 AGCTTTCCATCACAGAAGCA 57.426 45.000 9.28 0.00 45.17 3.91
2530 3957 2.867624 AGCTTTCCATCACAGAAGCAA 58.132 42.857 9.28 0.00 45.17 3.91
2531 3958 3.225104 AGCTTTCCATCACAGAAGCAAA 58.775 40.909 9.28 0.00 45.17 3.68
2532 3959 3.638160 AGCTTTCCATCACAGAAGCAAAA 59.362 39.130 9.28 0.00 45.17 2.44
2533 3960 3.737774 GCTTTCCATCACAGAAGCAAAAC 59.262 43.478 2.37 0.00 42.94 2.43
2534 3961 4.301628 CTTTCCATCACAGAAGCAAAACC 58.698 43.478 0.00 0.00 0.00 3.27
2535 3962 3.228188 TCCATCACAGAAGCAAAACCT 57.772 42.857 0.00 0.00 0.00 3.50
2536 3963 2.886523 TCCATCACAGAAGCAAAACCTG 59.113 45.455 0.00 0.00 0.00 4.00
2548 3975 3.251917 CAAAACCTGCAAATTTTCCGC 57.748 42.857 4.92 0.00 0.00 5.54
2549 3976 2.611225 AAACCTGCAAATTTTCCGCA 57.389 40.000 2.16 2.16 0.00 5.69
2550 3977 2.611225 AACCTGCAAATTTTCCGCAA 57.389 40.000 3.61 0.00 34.75 4.85
2551 3978 2.611225 ACCTGCAAATTTTCCGCAAA 57.389 40.000 3.61 0.00 34.75 3.68
2552 3979 2.911484 ACCTGCAAATTTTCCGCAAAA 58.089 38.095 3.61 0.00 34.75 2.44
2553 3980 2.611751 ACCTGCAAATTTTCCGCAAAAC 59.388 40.909 3.61 0.00 34.24 2.43
2554 3981 2.611292 CCTGCAAATTTTCCGCAAAACA 59.389 40.909 3.61 0.00 34.24 2.83
2555 3982 3.250521 CCTGCAAATTTTCCGCAAAACAT 59.749 39.130 3.61 0.00 34.24 2.71
2556 3983 4.206698 TGCAAATTTTCCGCAAAACATG 57.793 36.364 0.00 0.00 34.24 3.21
2557 3984 3.873361 TGCAAATTTTCCGCAAAACATGA 59.127 34.783 0.00 0.00 34.24 3.07
2558 3985 4.210629 GCAAATTTTCCGCAAAACATGAC 58.789 39.130 0.00 0.00 34.24 3.06
2559 3986 4.444468 CAAATTTTCCGCAAAACATGACG 58.556 39.130 0.00 0.00 34.24 4.35
2560 3987 2.853731 TTTTCCGCAAAACATGACGT 57.146 40.000 0.00 0.00 0.00 4.34
2561 3988 3.965292 TTTTCCGCAAAACATGACGTA 57.035 38.095 0.00 0.00 0.00 3.57
2562 3989 2.953640 TTCCGCAAAACATGACGTAC 57.046 45.000 0.00 0.00 0.00 3.67
2563 3990 2.157834 TCCGCAAAACATGACGTACT 57.842 45.000 0.00 0.00 0.00 2.73
2564 3991 3.300852 TCCGCAAAACATGACGTACTA 57.699 42.857 0.00 0.00 0.00 1.82
2565 3992 3.651206 TCCGCAAAACATGACGTACTAA 58.349 40.909 0.00 0.00 0.00 2.24
2566 3993 3.429543 TCCGCAAAACATGACGTACTAAC 59.570 43.478 0.00 0.00 0.00 2.34
2567 3994 3.184783 CCGCAAAACATGACGTACTAACA 59.815 43.478 0.00 0.00 0.00 2.41
2568 3995 4.318903 CCGCAAAACATGACGTACTAACAA 60.319 41.667 0.00 0.00 0.00 2.83
2569 3996 4.838642 CGCAAAACATGACGTACTAACAAG 59.161 41.667 0.00 0.00 0.00 3.16
2570 3997 5.332732 CGCAAAACATGACGTACTAACAAGA 60.333 40.000 0.00 0.00 0.00 3.02
2571 3998 6.423862 GCAAAACATGACGTACTAACAAGAA 58.576 36.000 0.00 0.00 0.00 2.52
2572 3999 7.075741 GCAAAACATGACGTACTAACAAGAAT 58.924 34.615 0.00 0.00 0.00 2.40
2573 4000 7.059488 GCAAAACATGACGTACTAACAAGAATG 59.941 37.037 0.00 0.00 0.00 2.67
2574 4001 7.956420 AAACATGACGTACTAACAAGAATGA 57.044 32.000 0.00 0.00 0.00 2.57
2575 4002 7.582435 AACATGACGTACTAACAAGAATGAG 57.418 36.000 0.00 0.00 0.00 2.90
2576 4003 6.100004 ACATGACGTACTAACAAGAATGAGG 58.900 40.000 0.00 0.00 0.00 3.86
2577 4004 4.491676 TGACGTACTAACAAGAATGAGGC 58.508 43.478 0.00 0.00 0.00 4.70
2578 4005 3.508762 ACGTACTAACAAGAATGAGGCG 58.491 45.455 0.00 0.00 0.00 5.52
2579 4006 3.057033 ACGTACTAACAAGAATGAGGCGT 60.057 43.478 0.00 0.00 0.00 5.68
2580 4007 3.546670 CGTACTAACAAGAATGAGGCGTC 59.453 47.826 0.00 0.00 0.00 5.19
2581 4008 3.963428 ACTAACAAGAATGAGGCGTCT 57.037 42.857 8.06 0.00 0.00 4.18
2582 4009 3.589988 ACTAACAAGAATGAGGCGTCTG 58.410 45.455 8.06 0.00 0.00 3.51
2583 4010 1.160137 AACAAGAATGAGGCGTCTGC 58.840 50.000 8.06 0.00 41.71 4.26
2584 4011 0.035317 ACAAGAATGAGGCGTCTGCA 59.965 50.000 8.06 0.00 45.35 4.41
2585 4012 1.159285 CAAGAATGAGGCGTCTGCAA 58.841 50.000 8.06 0.00 45.35 4.08
2586 4013 1.536766 CAAGAATGAGGCGTCTGCAAA 59.463 47.619 8.06 0.00 45.35 3.68
2587 4014 1.160137 AGAATGAGGCGTCTGCAAAC 58.840 50.000 8.06 0.00 45.35 2.93
2588 4015 0.874390 GAATGAGGCGTCTGCAAACA 59.126 50.000 8.06 0.00 45.35 2.83
2589 4016 1.266718 GAATGAGGCGTCTGCAAACAA 59.733 47.619 8.06 0.00 45.35 2.83
2590 4017 0.877071 ATGAGGCGTCTGCAAACAAG 59.123 50.000 8.06 0.00 45.35 3.16
2591 4018 1.081840 GAGGCGTCTGCAAACAAGC 60.082 57.895 0.00 0.00 45.35 4.01
2592 4019 1.785041 GAGGCGTCTGCAAACAAGCA 61.785 55.000 0.00 0.00 45.35 3.91
2593 4020 1.174712 AGGCGTCTGCAAACAAGCAT 61.175 50.000 0.00 0.00 44.68 3.79
2594 4021 0.730494 GGCGTCTGCAAACAAGCATC 60.730 55.000 0.00 0.00 44.68 3.91
2595 4022 1.061799 GCGTCTGCAAACAAGCATCG 61.062 55.000 0.00 0.00 44.68 3.84
2596 4023 0.453282 CGTCTGCAAACAAGCATCGG 60.453 55.000 0.00 0.00 44.68 4.18
2597 4024 0.730494 GTCTGCAAACAAGCATCGGC 60.730 55.000 0.00 0.00 44.68 5.54
2608 4035 3.450028 GCATCGGCTCACTTTCTCT 57.550 52.632 0.00 0.00 36.96 3.10
2609 4036 1.285578 GCATCGGCTCACTTTCTCTC 58.714 55.000 0.00 0.00 36.96 3.20
2610 4037 1.933247 CATCGGCTCACTTTCTCTCC 58.067 55.000 0.00 0.00 0.00 3.71
2611 4038 0.457851 ATCGGCTCACTTTCTCTCCG 59.542 55.000 0.00 0.00 38.34 4.63
2612 4039 1.153745 CGGCTCACTTTCTCTCCGG 60.154 63.158 0.00 0.00 33.85 5.14
2613 4040 1.595993 CGGCTCACTTTCTCTCCGGA 61.596 60.000 2.93 2.93 33.85 5.14
2614 4041 0.174617 GGCTCACTTTCTCTCCGGAG 59.825 60.000 26.32 26.32 40.73 4.63
2615 4042 1.178276 GCTCACTTTCTCTCCGGAGA 58.822 55.000 31.67 31.67 45.75 3.71
2623 4050 2.989253 TCTCCGGAGAGCACGCAA 60.989 61.111 30.49 5.50 40.22 4.85
2624 4051 2.048222 CTCCGGAGAGCACGCAAA 60.048 61.111 28.21 0.00 32.13 3.68
2625 4052 1.448540 CTCCGGAGAGCACGCAAAT 60.449 57.895 28.21 0.00 32.13 2.32
2626 4053 1.003839 TCCGGAGAGCACGCAAATT 60.004 52.632 0.00 0.00 0.00 1.82
2627 4054 1.135315 CCGGAGAGCACGCAAATTG 59.865 57.895 0.00 0.00 0.00 2.32
2628 4055 1.512734 CGGAGAGCACGCAAATTGC 60.513 57.895 8.09 8.09 40.69 3.56
2629 4056 1.580942 GGAGAGCACGCAAATTGCA 59.419 52.632 18.65 0.00 45.36 4.08
2630 4057 0.171903 GGAGAGCACGCAAATTGCAT 59.828 50.000 18.65 0.00 45.36 3.96
2631 4058 1.265568 GAGAGCACGCAAATTGCATG 58.734 50.000 18.65 14.43 45.36 4.06
2632 4059 0.599558 AGAGCACGCAAATTGCATGT 59.400 45.000 18.65 5.73 45.36 3.21
2633 4060 0.986992 GAGCACGCAAATTGCATGTC 59.013 50.000 18.65 9.25 45.36 3.06
2637 4064 2.985809 GCACGCAAATTGCATGTCTTAA 59.014 40.909 18.65 0.00 45.36 1.85
2667 4095 1.133136 AGCAGACCCCGTATATCACCT 60.133 52.381 0.00 0.00 0.00 4.00
2669 4099 3.097614 GCAGACCCCGTATATCACCTAT 58.902 50.000 0.00 0.00 0.00 2.57
2709 4140 3.129113 AGTTTACGGAAAAACGGCTTTGT 59.871 39.130 0.00 0.00 42.83 2.83
2779 4210 8.301730 TGTAAAACGGAATATTCACGGATATC 57.698 34.615 22.07 13.56 0.00 1.63
2818 4270 4.357947 GCGGTGTCTGCTCGACCA 62.358 66.667 4.63 0.00 42.13 4.02
2822 4274 1.364171 GTGTCTGCTCGACCACAGT 59.636 57.895 5.52 0.00 42.13 3.55
2836 4288 4.619227 CAGTCCACGCCAACCCGT 62.619 66.667 0.00 0.00 43.11 5.28
3091 4679 2.621998 CAATGGTGCTCAATGAGATCCC 59.378 50.000 15.38 10.03 0.00 3.85
3122 4710 3.450457 TGAAAGTGGGTGTTTGCATCTTT 59.550 39.130 0.00 0.00 0.00 2.52
3127 4715 4.220602 AGTGGGTGTTTGCATCTTTAATCC 59.779 41.667 0.00 0.00 0.00 3.01
3180 4775 2.693591 TCTCTAGCTGGTTTGATACGGG 59.306 50.000 0.00 0.00 0.00 5.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 1.941999 GAAGCAGGGGTGCATCAAGC 61.942 60.000 0.00 0.00 45.96 4.01
19 20 1.651240 CGAAGCAGGGGTGCATCAAG 61.651 60.000 0.00 0.00 37.25 3.02
20 21 1.675310 CGAAGCAGGGGTGCATCAA 60.675 57.895 0.00 0.00 37.25 2.57
21 22 2.046023 CGAAGCAGGGGTGCATCA 60.046 61.111 0.00 0.00 37.25 3.07
55 56 4.925861 GGAGCATGGGAGGCGAGC 62.926 72.222 0.00 0.00 36.08 5.03
128 129 0.460987 GAAGAGCATCACCGGACCAG 60.461 60.000 9.46 0.00 37.82 4.00
346 347 4.758251 CCCACGTCATGCCGCTCA 62.758 66.667 0.00 0.00 0.00 4.26
352 353 3.503363 GCTGCTCCCACGTCATGC 61.503 66.667 0.00 0.00 0.00 4.06
353 354 3.190849 CGCTGCTCCCACGTCATG 61.191 66.667 0.00 0.00 0.00 3.07
354 355 4.457496 CCGCTGCTCCCACGTCAT 62.457 66.667 0.00 0.00 0.00 3.06
361 362 4.767255 CTGTGTCCCGCTGCTCCC 62.767 72.222 0.00 0.00 0.00 4.30
362 363 4.767255 CCTGTGTCCCGCTGCTCC 62.767 72.222 0.00 0.00 0.00 4.70
363 364 3.695606 TCCTGTGTCCCGCTGCTC 61.696 66.667 0.00 0.00 0.00 4.26
364 365 4.008933 GTCCTGTGTCCCGCTGCT 62.009 66.667 0.00 0.00 0.00 4.24
366 367 3.991051 ACGTCCTGTGTCCCGCTG 61.991 66.667 0.00 0.00 0.00 5.18
367 368 3.991051 CACGTCCTGTGTCCCGCT 61.991 66.667 0.00 0.00 43.88 5.52
562 580 4.498520 CTGTCGATCCTGCCGCGT 62.499 66.667 4.92 0.00 0.00 6.01
570 588 4.570663 CCCGCGTCCTGTCGATCC 62.571 72.222 4.92 0.00 0.00 3.36
599 617 2.100631 CGTCAACGCTAGCCCCAAG 61.101 63.158 9.66 0.00 0.00 3.61
600 618 2.047655 CGTCAACGCTAGCCCCAA 60.048 61.111 9.66 0.00 0.00 4.12
601 619 2.992689 TCGTCAACGCTAGCCCCA 60.993 61.111 9.66 0.00 39.60 4.96
604 633 2.126071 TGCTCGTCAACGCTAGCC 60.126 61.111 9.66 0.00 38.10 3.93
613 642 1.583477 CACTCTGAGCTGCTCGTCA 59.417 57.895 23.35 7.49 32.35 4.35
623 652 3.746949 GATGGGCCGCCACTCTGAG 62.747 68.421 12.58 2.45 0.00 3.35
654 690 2.028203 GCATTTTGGGCATGTGTAACCT 60.028 45.455 0.00 0.00 34.36 3.50
659 695 0.038343 GACGCATTTTGGGCATGTGT 60.038 50.000 1.85 1.85 45.86 3.72
684 720 0.723414 CAGCTAGTGTGTCCAATGCG 59.277 55.000 0.00 0.00 0.00 4.73
687 723 2.260822 AGGTCAGCTAGTGTGTCCAAT 58.739 47.619 11.20 0.00 0.00 3.16
692 728 5.483685 TTCATTTAGGTCAGCTAGTGTGT 57.516 39.130 0.00 0.00 0.00 3.72
731 767 4.830765 TTGAATCGGCCGAGCGGG 62.831 66.667 33.87 0.00 39.58 6.13
735 771 2.821546 TGTCTATTTGAATCGGCCGAG 58.178 47.619 33.87 17.01 0.00 4.63
763 799 2.466520 AAACGGGCGCGGATTTTGTC 62.467 55.000 27.52 0.00 0.00 3.18
776 812 1.099689 AACACAGTGAACCAAACGGG 58.900 50.000 7.81 0.00 44.81 5.28
778 814 1.740585 TCCAACACAGTGAACCAAACG 59.259 47.619 7.81 0.00 0.00 3.60
788 824 3.838244 TTAGAGCAACTCCAACACAGT 57.162 42.857 0.00 0.00 0.00 3.55
792 828 3.953712 TCGATTAGAGCAACTCCAACA 57.046 42.857 0.00 0.00 0.00 3.33
799 835 2.096013 GGCCTTGTTCGATTAGAGCAAC 59.904 50.000 0.00 0.00 43.57 4.17
803 839 0.931005 GCGGCCTTGTTCGATTAGAG 59.069 55.000 0.00 0.00 0.00 2.43
809 845 2.712325 TAAACCGCGGCCTTGTTCGA 62.712 55.000 28.58 0.00 0.00 3.71
905 942 1.302752 GCTCCCATCAGTGCACACA 60.303 57.895 21.04 4.71 0.00 3.72
911 948 0.107361 TCAGCATGCTCCCATCAGTG 60.107 55.000 19.68 4.14 34.76 3.66
912 949 0.180642 CTCAGCATGCTCCCATCAGT 59.819 55.000 19.68 0.00 34.76 3.41
913 950 0.535328 CCTCAGCATGCTCCCATCAG 60.535 60.000 19.68 4.75 34.76 2.90
914 951 0.984432 TCCTCAGCATGCTCCCATCA 60.984 55.000 19.68 0.00 34.76 3.07
927 964 4.869440 CGCGCCTGCTCTCCTCAG 62.869 72.222 0.00 0.00 39.65 3.35
1131 1168 2.042843 AGCTCCTCCACCCTACGG 60.043 66.667 0.00 0.00 0.00 4.02
1410 1447 2.128507 GTGGAGGAGGGCGAGGTAG 61.129 68.421 0.00 0.00 0.00 3.18
1464 1501 0.108207 GCTCCTCCTCATGGTCATGG 59.892 60.000 10.61 2.67 39.24 3.66
1465 1502 0.249784 CGCTCCTCCTCATGGTCATG 60.250 60.000 4.67 4.67 40.09 3.07
1466 1503 0.689080 ACGCTCCTCCTCATGGTCAT 60.689 55.000 0.00 0.00 34.23 3.06
1467 1504 1.305297 ACGCTCCTCCTCATGGTCA 60.305 57.895 0.00 0.00 34.23 4.02
1468 1505 1.439644 GACGCTCCTCCTCATGGTC 59.560 63.158 0.00 0.00 34.23 4.02
1469 1506 2.060980 GGACGCTCCTCCTCATGGT 61.061 63.158 0.00 0.00 32.53 3.55
1528 1565 3.507009 GACGCTCTCGCCGGTACT 61.507 66.667 1.90 0.00 39.84 2.73
1544 2917 0.031585 CGACTTCTTGACCACCACGA 59.968 55.000 0.00 0.00 0.00 4.35
1588 2970 2.030540 CCATGTCTTTTGTGCACTCCAG 60.031 50.000 19.41 10.59 0.00 3.86
1595 2977 0.319813 GCACCCCATGTCTTTTGTGC 60.320 55.000 0.00 0.00 41.75 4.57
1599 2981 2.625823 CGCGCACCCCATGTCTTTT 61.626 57.895 8.75 0.00 0.00 2.27
1624 3006 2.338620 CACAGCCACGGACTTCGA 59.661 61.111 0.00 0.00 42.43 3.71
1630 3012 4.314440 GCACTCCACAGCCACGGA 62.314 66.667 0.00 0.00 0.00 4.69
1676 3058 4.189188 CCCTCGCGTACAGGTCCG 62.189 72.222 5.77 0.00 0.00 4.79
1869 3251 1.209019 GACTGGGTCAGACATGATGCT 59.791 52.381 0.00 0.00 37.87 3.79
1870 3252 1.661341 GACTGGGTCAGACATGATGC 58.339 55.000 0.00 0.00 37.87 3.91
1884 3287 1.065701 ACTGCTAATAGCGTCGACTGG 59.934 52.381 14.70 0.00 46.26 4.00
1903 3313 3.560068 ACGAACATTGTGAACTGGAGAAC 59.440 43.478 0.00 0.00 0.00 3.01
1904 3314 3.804036 ACGAACATTGTGAACTGGAGAA 58.196 40.909 0.00 0.00 0.00 2.87
1919 3333 9.701098 ATGAATTTGAAGTTACTACTACGAACA 57.299 29.630 0.00 0.00 33.17 3.18
2015 3431 0.891904 TTTTGGTTAGGAGCGCCACC 60.892 55.000 9.88 9.28 36.29 4.61
2024 3440 7.277174 AGACAGAAGAACATTTTTGGTTAGG 57.723 36.000 0.00 0.00 0.00 2.69
2027 3443 7.610865 TGAAAGACAGAAGAACATTTTTGGTT 58.389 30.769 0.00 0.00 0.00 3.67
2077 3493 3.741344 CGTGAGAGATTCAGGAAACGTTT 59.259 43.478 14.57 14.57 42.85 3.60
2103 3519 2.430921 CGACGAGAAGCCAAGCGT 60.431 61.111 0.00 0.00 39.99 5.07
2106 3522 3.181967 CGCCGACGAGAAGCCAAG 61.182 66.667 0.00 0.00 43.93 3.61
2126 3542 0.933796 GAAGTAGAAGCATGCCGAGC 59.066 55.000 15.66 0.97 0.00 5.03
2183 3599 1.024579 ATGATCCCAACAACGACCGC 61.025 55.000 0.00 0.00 0.00 5.68
2184 3600 2.201732 CTATGATCCCAACAACGACCG 58.798 52.381 0.00 0.00 0.00 4.79
2185 3601 1.940613 GCTATGATCCCAACAACGACC 59.059 52.381 0.00 0.00 0.00 4.79
2186 3602 2.609459 CTGCTATGATCCCAACAACGAC 59.391 50.000 0.00 0.00 0.00 4.34
2189 3605 2.357009 CAGCTGCTATGATCCCAACAAC 59.643 50.000 0.00 0.00 0.00 3.32
2193 3609 2.239402 TCAACAGCTGCTATGATCCCAA 59.761 45.455 15.27 0.00 0.00 4.12
2197 3613 3.683822 GCCTATCAACAGCTGCTATGATC 59.316 47.826 24.96 13.14 34.54 2.92
2198 3614 3.327172 AGCCTATCAACAGCTGCTATGAT 59.673 43.478 24.73 24.73 34.99 2.45
2223 3639 1.007387 GCTTTTGGTTGCAGGACCG 60.007 57.895 3.17 0.00 42.83 4.79
2242 3662 2.802816 AGAAGACGTGCTTGAATCACAC 59.197 45.455 0.00 0.00 36.83 3.82
2283 3706 4.419280 TGTACGGATTATTGTTTACGCGA 58.581 39.130 15.93 0.00 0.00 5.87
2315 3738 5.642063 CGAGCTCTCCTACCAACATTAAAAA 59.358 40.000 12.85 0.00 0.00 1.94
2412 3839 0.629058 AGGCACCCGGTATTCCAAAT 59.371 50.000 0.00 0.00 0.00 2.32
2416 3843 0.106149 CAGTAGGCACCCGGTATTCC 59.894 60.000 0.00 0.00 0.00 3.01
2422 3849 3.000819 TGGTCAGTAGGCACCCGG 61.001 66.667 0.00 0.00 0.00 5.73
2431 3858 1.000607 GAACAGAGCGTGTGGTCAGTA 60.001 52.381 0.00 0.00 45.10 2.74
2469 3896 3.398406 AGTTCGTTACATCATGTGCACA 58.602 40.909 24.08 24.08 0.00 4.57
2481 3908 2.094762 ACATGCAGGGAGTTCGTTAC 57.905 50.000 2.31 0.00 0.00 2.50
2510 3937 2.574006 TGCTTCTGTGATGGAAAGCT 57.426 45.000 7.38 0.00 0.00 3.74
2513 3940 3.960102 AGGTTTTGCTTCTGTGATGGAAA 59.040 39.130 0.00 0.00 0.00 3.13
2514 3941 3.318839 CAGGTTTTGCTTCTGTGATGGAA 59.681 43.478 0.00 0.00 0.00 3.53
2515 3942 2.886523 CAGGTTTTGCTTCTGTGATGGA 59.113 45.455 0.00 0.00 0.00 3.41
2516 3943 3.293311 CAGGTTTTGCTTCTGTGATGG 57.707 47.619 0.00 0.00 0.00 3.51
2528 3955 2.611292 TGCGGAAAATTTGCAGGTTTTG 59.389 40.909 13.69 4.53 34.03 2.44
2529 3956 2.911484 TGCGGAAAATTTGCAGGTTTT 58.089 38.095 9.92 9.92 34.03 2.43
2530 3957 2.611225 TGCGGAAAATTTGCAGGTTT 57.389 40.000 0.00 0.00 34.03 3.27
2531 3958 2.611225 TTGCGGAAAATTTGCAGGTT 57.389 40.000 0.00 0.00 40.15 3.50
2532 3959 2.611225 TTTGCGGAAAATTTGCAGGT 57.389 40.000 0.00 0.00 40.15 4.00
2533 3960 2.611292 TGTTTTGCGGAAAATTTGCAGG 59.389 40.909 18.03 0.00 40.15 4.85
2534 3961 3.940657 TGTTTTGCGGAAAATTTGCAG 57.059 38.095 18.03 0.00 40.15 4.41
2535 3962 3.873361 TCATGTTTTGCGGAAAATTTGCA 59.127 34.783 18.03 11.32 33.63 4.08
2536 3963 4.210629 GTCATGTTTTGCGGAAAATTTGC 58.789 39.130 18.03 5.87 33.63 3.68
2537 3964 4.026145 ACGTCATGTTTTGCGGAAAATTTG 60.026 37.500 18.03 16.85 33.63 2.32
2538 3965 4.116238 ACGTCATGTTTTGCGGAAAATTT 58.884 34.783 18.03 6.08 33.63 1.82
2539 3966 3.712187 ACGTCATGTTTTGCGGAAAATT 58.288 36.364 18.03 6.43 33.63 1.82
2540 3967 3.363341 ACGTCATGTTTTGCGGAAAAT 57.637 38.095 18.03 0.00 33.63 1.82
2541 3968 2.853731 ACGTCATGTTTTGCGGAAAA 57.146 40.000 11.06 11.06 31.79 2.29
2542 3969 2.873472 AGTACGTCATGTTTTGCGGAAA 59.127 40.909 0.00 0.00 31.79 3.13
2543 3970 2.485903 AGTACGTCATGTTTTGCGGAA 58.514 42.857 0.00 0.00 31.79 4.30
2544 3971 2.157834 AGTACGTCATGTTTTGCGGA 57.842 45.000 0.00 0.00 31.79 5.54
2545 3972 3.184783 TGTTAGTACGTCATGTTTTGCGG 59.815 43.478 0.00 0.00 31.79 5.69
2546 3973 4.377911 TGTTAGTACGTCATGTTTTGCG 57.622 40.909 0.00 0.00 0.00 4.85
2547 3974 5.981174 TCTTGTTAGTACGTCATGTTTTGC 58.019 37.500 0.00 0.00 0.00 3.68
2548 3975 8.279800 TCATTCTTGTTAGTACGTCATGTTTTG 58.720 33.333 0.00 0.00 0.00 2.44
2549 3976 8.373048 TCATTCTTGTTAGTACGTCATGTTTT 57.627 30.769 0.00 0.00 0.00 2.43
2550 3977 7.117812 CCTCATTCTTGTTAGTACGTCATGTTT 59.882 37.037 0.00 0.00 0.00 2.83
2551 3978 6.590292 CCTCATTCTTGTTAGTACGTCATGTT 59.410 38.462 0.00 0.00 0.00 2.71
2552 3979 6.100004 CCTCATTCTTGTTAGTACGTCATGT 58.900 40.000 0.00 0.00 0.00 3.21
2553 3980 5.005779 GCCTCATTCTTGTTAGTACGTCATG 59.994 44.000 0.00 0.00 0.00 3.07
2554 3981 5.109903 GCCTCATTCTTGTTAGTACGTCAT 58.890 41.667 0.00 0.00 0.00 3.06
2555 3982 4.491676 GCCTCATTCTTGTTAGTACGTCA 58.508 43.478 0.00 0.00 0.00 4.35
2556 3983 3.546670 CGCCTCATTCTTGTTAGTACGTC 59.453 47.826 0.00 0.00 0.00 4.34
2557 3984 3.057033 ACGCCTCATTCTTGTTAGTACGT 60.057 43.478 0.00 0.00 0.00 3.57
2558 3985 3.508762 ACGCCTCATTCTTGTTAGTACG 58.491 45.455 0.00 0.00 0.00 3.67
2559 3986 4.563184 CAGACGCCTCATTCTTGTTAGTAC 59.437 45.833 0.00 0.00 0.00 2.73
2560 3987 4.744570 CAGACGCCTCATTCTTGTTAGTA 58.255 43.478 0.00 0.00 0.00 1.82
2561 3988 3.589988 CAGACGCCTCATTCTTGTTAGT 58.410 45.455 0.00 0.00 0.00 2.24
2562 3989 2.349886 GCAGACGCCTCATTCTTGTTAG 59.650 50.000 0.00 0.00 0.00 2.34
2563 3990 2.289382 TGCAGACGCCTCATTCTTGTTA 60.289 45.455 0.00 0.00 37.32 2.41
2564 3991 1.160137 GCAGACGCCTCATTCTTGTT 58.840 50.000 0.00 0.00 0.00 2.83
2565 3992 0.035317 TGCAGACGCCTCATTCTTGT 59.965 50.000 0.00 0.00 37.32 3.16
2566 3993 1.159285 TTGCAGACGCCTCATTCTTG 58.841 50.000 0.00 0.00 37.32 3.02
2567 3994 1.537202 GTTTGCAGACGCCTCATTCTT 59.463 47.619 0.00 0.00 37.32 2.52
2568 3995 1.160137 GTTTGCAGACGCCTCATTCT 58.840 50.000 0.00 0.00 37.32 2.40
2569 3996 0.874390 TGTTTGCAGACGCCTCATTC 59.126 50.000 2.59 0.00 37.32 2.67
2570 3997 1.267806 CTTGTTTGCAGACGCCTCATT 59.732 47.619 2.59 0.00 37.32 2.57
2571 3998 0.877071 CTTGTTTGCAGACGCCTCAT 59.123 50.000 2.59 0.00 37.32 2.90
2572 3999 1.785041 GCTTGTTTGCAGACGCCTCA 61.785 55.000 2.59 0.00 37.32 3.86
2573 4000 1.081840 GCTTGTTTGCAGACGCCTC 60.082 57.895 2.59 0.00 37.32 4.70
2574 4001 1.174712 ATGCTTGTTTGCAGACGCCT 61.175 50.000 2.59 0.00 46.71 5.52
2575 4002 0.730494 GATGCTTGTTTGCAGACGCC 60.730 55.000 2.59 0.00 46.71 5.68
2576 4003 1.061799 CGATGCTTGTTTGCAGACGC 61.062 55.000 2.59 1.74 46.71 5.19
2577 4004 0.453282 CCGATGCTTGTTTGCAGACG 60.453 55.000 2.59 0.00 46.71 4.18
2578 4005 0.730494 GCCGATGCTTGTTTGCAGAC 60.730 55.000 0.00 0.00 46.71 3.51
2579 4006 1.580942 GCCGATGCTTGTTTGCAGA 59.419 52.632 0.00 0.00 46.71 4.26
2580 4007 4.157817 GCCGATGCTTGTTTGCAG 57.842 55.556 0.00 0.00 46.71 4.41
2590 4017 1.285578 GAGAGAAAGTGAGCCGATGC 58.714 55.000 0.00 0.00 37.95 3.91
2591 4018 1.800655 CGGAGAGAAAGTGAGCCGATG 60.801 57.143 0.00 0.00 41.11 3.84
2592 4019 0.457851 CGGAGAGAAAGTGAGCCGAT 59.542 55.000 0.00 0.00 41.11 4.18
2593 4020 1.595993 CCGGAGAGAAAGTGAGCCGA 61.596 60.000 0.00 0.00 41.11 5.54
2594 4021 1.153745 CCGGAGAGAAAGTGAGCCG 60.154 63.158 0.00 0.00 38.54 5.52
2595 4022 0.174617 CTCCGGAGAGAAAGTGAGCC 59.825 60.000 28.21 0.00 43.39 4.70
2596 4023 1.178276 TCTCCGGAGAGAAAGTGAGC 58.822 55.000 30.49 0.00 46.33 4.26
2606 4033 1.888436 ATTTGCGTGCTCTCCGGAGA 61.888 55.000 31.67 31.67 41.86 3.71
2607 4034 1.021390 AATTTGCGTGCTCTCCGGAG 61.021 55.000 26.32 26.32 42.18 4.63
2608 4035 1.003839 AATTTGCGTGCTCTCCGGA 60.004 52.632 2.93 2.93 0.00 5.14
2609 4036 1.135315 CAATTTGCGTGCTCTCCGG 59.865 57.895 0.00 0.00 0.00 5.14
2610 4037 1.512734 GCAATTTGCGTGCTCTCCG 60.513 57.895 5.49 0.00 39.00 4.63
2611 4038 4.465413 GCAATTTGCGTGCTCTCC 57.535 55.556 5.49 0.00 39.00 3.71
2620 4047 5.579511 AGATGCTTTAAGACATGCAATTTGC 59.420 36.000 14.49 14.49 45.29 3.68
2621 4048 7.033791 AGAGATGCTTTAAGACATGCAATTTG 58.966 34.615 0.00 0.00 38.96 2.32
2622 4049 7.166691 AGAGATGCTTTAAGACATGCAATTT 57.833 32.000 0.00 0.00 38.96 1.82
2623 4050 6.770746 AGAGATGCTTTAAGACATGCAATT 57.229 33.333 0.00 0.00 38.96 2.32
2624 4051 6.017275 GCTAGAGATGCTTTAAGACATGCAAT 60.017 38.462 0.00 0.00 38.96 3.56
2625 4052 5.295292 GCTAGAGATGCTTTAAGACATGCAA 59.705 40.000 0.00 0.00 38.96 4.08
2626 4053 4.813161 GCTAGAGATGCTTTAAGACATGCA 59.187 41.667 0.00 0.00 39.83 3.96
2627 4054 4.813161 TGCTAGAGATGCTTTAAGACATGC 59.187 41.667 0.00 0.09 0.00 4.06
2628 4055 6.200665 GTCTGCTAGAGATGCTTTAAGACATG 59.799 42.308 0.00 0.00 32.49 3.21
2629 4056 6.279882 GTCTGCTAGAGATGCTTTAAGACAT 58.720 40.000 0.00 0.00 32.49 3.06
2630 4057 5.394663 GGTCTGCTAGAGATGCTTTAAGACA 60.395 44.000 0.00 0.00 33.21 3.41
2631 4058 5.047188 GGTCTGCTAGAGATGCTTTAAGAC 58.953 45.833 0.00 0.00 31.63 3.01
2632 4059 4.100189 GGGTCTGCTAGAGATGCTTTAAGA 59.900 45.833 0.00 0.00 31.63 2.10
2633 4060 4.376146 GGGTCTGCTAGAGATGCTTTAAG 58.624 47.826 0.00 0.00 31.63 1.85
2637 4064 1.127343 GGGGTCTGCTAGAGATGCTT 58.873 55.000 0.00 0.00 31.63 3.91
2667 4095 7.556733 AAACTGTAAACGAGTTTTGTGGATA 57.443 32.000 6.53 0.00 40.04 2.59
2669 4099 5.883503 AAACTGTAAACGAGTTTTGTGGA 57.116 34.783 6.53 0.00 40.04 4.02
2779 4210 1.232119 AGCGGAACTGTAAAAACGGG 58.768 50.000 0.00 0.00 0.00 5.28
2818 4270 4.619227 CGGGTTGGCGTGGACTGT 62.619 66.667 0.00 0.00 0.00 3.55
2822 4274 0.674269 GATTTACGGGTTGGCGTGGA 60.674 55.000 0.00 0.00 0.00 4.02
2957 4501 9.705290 AATTATTTAGTTTGCTTCGGTGATTTT 57.295 25.926 0.00 0.00 0.00 1.82
3091 4679 0.111253 ACCCACTTTCAGCTTCAGGG 59.889 55.000 0.00 0.00 40.66 4.45
3122 4710 0.935942 TCAGACCTACCGGGGGATTA 59.064 55.000 20.29 0.00 40.03 1.75
3127 4715 1.272807 TTTCTTCAGACCTACCGGGG 58.727 55.000 6.32 0.00 40.03 5.73
3180 4775 1.732259 CTTCTGCGACAATGTGGGTAC 59.268 52.381 0.00 0.00 0.00 3.34
3262 6204 4.081309 AGCAATCCCTGAAAAACATCATGG 60.081 41.667 0.00 0.00 36.69 3.66


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

AutoCloner maintained by Alex Coulton.