Multiple sequence alignment - TraesCS2D01G214800

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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 TraesCS2D01G214800 chr2D 100.000 6938 0 0 1 6938 176171325 176164388 0.000000e+00 12813.0
1 TraesCS2D01G214800 chr2D 88.333 60 5 2 6527 6584 448447195 448447254 3.470000e-08 71.3
2 TraesCS2D01G214800 chr2A 97.073 4441 72 16 1 4420 187965570 187961167 0.000000e+00 7428.0
3 TraesCS2D01G214800 chr2A 96.345 1368 33 5 4412 5765 187957284 187955920 0.000000e+00 2233.0
4 TraesCS2D01G214800 chr2A 86.832 805 41 18 5996 6763 187955525 187954749 0.000000e+00 839.0
5 TraesCS2D01G214800 chr2A 95.154 227 8 1 5764 5987 187955816 187955590 8.560000e-94 355.0
6 TraesCS2D01G214800 chr2B 95.525 2838 77 20 129 2944 233274969 233272160 0.000000e+00 4492.0
7 TraesCS2D01G214800 chr2B 92.301 2208 94 17 4330 6510 233271649 233269491 0.000000e+00 3066.0
8 TraesCS2D01G214800 chr2B 88.512 383 24 9 3964 4330 233272064 233271686 4.940000e-121 446.0
9 TraesCS2D01G214800 chr2B 95.506 89 3 1 1 88 233275062 233274974 2.610000e-29 141.0
10 TraesCS2D01G214800 chr2B 91.753 97 6 1 6546 6642 233269489 233269395 4.370000e-27 134.0
11 TraesCS2D01G214800 chr2B 89.216 102 6 4 2972 3073 233272165 233272069 9.450000e-24 122.0
12 TraesCS2D01G214800 chr4A 81.269 331 53 9 5285 5607 671920620 671920291 6.900000e-65 259.0
13 TraesCS2D01G214800 chr6B 88.199 161 9 3 6778 6938 594649485 594649635 4.270000e-42 183.0
14 TraesCS2D01G214800 chr6B 88.199 161 9 3 6778 6938 594650799 594650649 4.270000e-42 183.0
15 TraesCS2D01G214800 chr6B 94.231 104 5 1 6663 6766 594649125 594649227 2.590000e-34 158.0
16 TraesCS2D01G214800 chr6B 96.471 85 2 1 6682 6766 594651140 594651057 9.380000e-29 139.0
17 TraesCS2D01G214800 chr6B 92.593 54 2 2 6533 6584 642350320 642350267 7.460000e-10 76.8
18 TraesCS2D01G214800 chr3D 85.393 89 12 1 4016 4104 573607933 573608020 2.660000e-14 91.6
19 TraesCS2D01G214800 chr5A 96.078 51 2 0 6532 6582 313877741 313877691 4.460000e-12 84.2
20 TraesCS2D01G214800 chr4D 91.667 60 5 0 5858 5917 67461937 67461878 4.460000e-12 84.2
21 TraesCS2D01G214800 chr4B 90.625 64 5 1 5855 5917 99964870 99964807 4.460000e-12 84.2
22 TraesCS2D01G214800 chr4B 94.000 50 3 0 6527 6576 570739601 570739650 7.460000e-10 76.8
23 TraesCS2D01G214800 chr7B 92.593 54 3 1 6532 6584 500725953 500726006 7.460000e-10 76.8
24 TraesCS2D01G214800 chr1D 94.118 51 2 1 6532 6581 489299983 489300033 7.460000e-10 76.8
25 TraesCS2D01G214800 chr1D 94.118 51 2 1 6532 6581 489432871 489432921 7.460000e-10 76.8
26 TraesCS2D01G214800 chr5B 95.652 46 2 0 6531 6576 21154006 21154051 2.680000e-09 75.0
27 TraesCS2D01G214800 chr7A 90.566 53 3 2 4011 4062 7428086 7428137 1.250000e-07 69.4


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 TraesCS2D01G214800 chr2D 176164388 176171325 6937 True 12813.000000 12813 100.0000 1 6938 1 chr2D.!!$R1 6937
1 TraesCS2D01G214800 chr2A 187954749 187965570 10821 True 2713.750000 7428 93.8510 1 6763 4 chr2A.!!$R1 6762
2 TraesCS2D01G214800 chr2B 233269395 233275062 5667 True 1400.166667 4492 92.1355 1 6642 6 chr2B.!!$R1 6641

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
990 1014 2.689553 TTTCATATCTGCTGGCGACA 57.310 45.000 0.0 0.0 39.59 4.35 F
1189 1213 4.796606 AGTAGCATTATGGATTTGGCAGT 58.203 39.130 0.0 0.0 0.00 4.40 F
2548 2576 1.267261 TGACGGGGCACAAAATTTACG 59.733 47.619 0.0 0.0 0.00 3.18 F
3563 3605 1.266178 ATAAACCCAAGCCAAGCACC 58.734 50.000 0.0 0.0 0.00 5.01 F
4003 4045 1.743394 GGCCTTGTTCGGTTAATCCTG 59.257 52.381 0.0 0.0 0.00 3.86 F
5457 9461 0.863144 CAAAACAATGCCTGCTGTGC 59.137 50.000 0.0 0.0 0.00 4.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2329 2355 1.595109 CTCCACAGCACGCAGACAA 60.595 57.895 0.00 0.00 0.00 3.18 R
2993 3024 4.517285 TCCACCAGAGACATTAAAGATGC 58.483 43.478 0.00 0.00 0.00 3.91 R
4067 4109 0.750546 GAGGTGGATTTTACGGGGGC 60.751 60.000 0.00 0.00 0.00 5.80 R
5445 9449 0.256752 TAGGATTGCACAGCAGGCAT 59.743 50.000 0.00 0.00 41.58 4.40 R
5673 9687 0.383231 GCTGTTCAGGGTATGCATGC 59.617 55.000 11.82 11.82 0.00 4.06 R
6774 10993 0.029834 GCATATGCCTTGCCTTCGTG 59.970 55.000 17.26 0.00 33.95 4.35 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
43 44 6.855836 TGATTCTGAAATGTCTGCCAAATAC 58.144 36.000 0.00 0.00 0.00 1.89
47 48 3.193267 TGAAATGTCTGCCAAATACTGCC 59.807 43.478 0.00 0.00 0.00 4.85
399 408 5.092554 TGATCCCAGATTGCTTTTACGTA 57.907 39.130 0.00 0.00 0.00 3.57
990 1014 2.689553 TTTCATATCTGCTGGCGACA 57.310 45.000 0.00 0.00 39.59 4.35
1185 1209 6.176183 CCTCCTAGTAGCATTATGGATTTGG 58.824 44.000 0.00 0.00 0.00 3.28
1189 1213 4.796606 AGTAGCATTATGGATTTGGCAGT 58.203 39.130 0.00 0.00 0.00 4.40
2329 2355 6.888632 AGGACACAAGAGATAAGCATCAATTT 59.111 34.615 0.00 0.00 33.21 1.82
2443 2471 4.326826 AGGATTGTTTCTCTTTCGCATCA 58.673 39.130 0.00 0.00 0.00 3.07
2532 2560 6.860080 TCCTGTAGGTTTAGTTCTTATGACG 58.140 40.000 0.00 0.00 36.34 4.35
2548 2576 1.267261 TGACGGGGCACAAAATTTACG 59.733 47.619 0.00 0.00 0.00 3.18
2671 2700 3.410631 TGAATTCGCCTTCCTGTTGTA 57.589 42.857 0.04 0.00 0.00 2.41
3034 3065 8.598202 TGGTGGATATGTCTGTAAAAGTACTA 57.402 34.615 0.00 0.00 0.00 1.82
3035 3066 9.209048 TGGTGGATATGTCTGTAAAAGTACTAT 57.791 33.333 0.00 0.00 0.00 2.12
3074 3105 9.851686 ATACTAAATGTTCCTAAGCATCATCAA 57.148 29.630 0.00 0.00 0.00 2.57
3493 3535 1.344438 AGCAAATCTGACACGAGGACA 59.656 47.619 0.00 0.00 0.00 4.02
3563 3605 1.266178 ATAAACCCAAGCCAAGCACC 58.734 50.000 0.00 0.00 0.00 5.01
3592 3634 7.459394 TTCTCTAAAACTAACAGAACACACG 57.541 36.000 0.00 0.00 0.00 4.49
3593 3635 6.567050 TCTCTAAAACTAACAGAACACACGT 58.433 36.000 0.00 0.00 0.00 4.49
3594 3636 7.037438 TCTCTAAAACTAACAGAACACACGTT 58.963 34.615 0.00 0.00 38.33 3.99
3595 3637 7.546667 TCTCTAAAACTAACAGAACACACGTTT 59.453 33.333 0.00 0.00 34.75 3.60
3596 3638 8.700722 TCTAAAACTAACAGAACACACGTTTA 57.299 30.769 0.00 0.00 34.75 2.01
3597 3639 9.316730 TCTAAAACTAACAGAACACACGTTTAT 57.683 29.630 0.00 0.00 34.75 1.40
3598 3640 9.365311 CTAAAACTAACAGAACACACGTTTATG 57.635 33.333 0.00 0.00 34.75 1.90
3599 3641 5.338614 ACTAACAGAACACACGTTTATGC 57.661 39.130 0.00 0.00 34.75 3.14
3600 3642 4.812091 ACTAACAGAACACACGTTTATGCA 59.188 37.500 0.00 0.00 34.75 3.96
3601 3643 3.878086 ACAGAACACACGTTTATGCAG 57.122 42.857 0.00 0.00 34.75 4.41
3602 3644 3.202906 ACAGAACACACGTTTATGCAGT 58.797 40.909 0.00 0.00 34.75 4.40
3758 3800 1.939974 TGACTGTCTGTGTTCTGTGC 58.060 50.000 9.51 0.00 0.00 4.57
3763 3805 3.127548 ACTGTCTGTGTTCTGTGCTTTTG 59.872 43.478 0.00 0.00 0.00 2.44
3764 3806 3.081061 TGTCTGTGTTCTGTGCTTTTGT 58.919 40.909 0.00 0.00 0.00 2.83
3765 3807 3.119884 TGTCTGTGTTCTGTGCTTTTGTG 60.120 43.478 0.00 0.00 0.00 3.33
3766 3808 3.081061 TCTGTGTTCTGTGCTTTTGTGT 58.919 40.909 0.00 0.00 0.00 3.72
3815 3857 2.028658 TCTGAGTCTGACAACCTGATGC 60.029 50.000 10.88 0.00 0.00 3.91
3831 3873 3.821600 CTGATGCGGTCTGGTAGTATAGT 59.178 47.826 0.00 0.00 0.00 2.12
3869 3911 6.119536 TCGAGGCAGAAATTGTATGGTTATT 58.880 36.000 0.00 0.00 0.00 1.40
4003 4045 1.743394 GGCCTTGTTCGGTTAATCCTG 59.257 52.381 0.00 0.00 0.00 3.86
4067 4109 2.599597 CCCCTCAATCCCTGCCAG 59.400 66.667 0.00 0.00 0.00 4.85
4128 4171 5.252164 AGGCTTTGTTTGGTTACTAGGGATA 59.748 40.000 0.00 0.00 0.00 2.59
4681 8681 3.156288 AGATCATTATGCCATGCTGCT 57.844 42.857 0.00 0.00 0.00 4.24
4778 8778 2.957402 AGTGGTCTTCATTTCTGCCA 57.043 45.000 0.00 0.00 0.00 4.92
5046 9046 3.917988 GCAGGTTTGCTTCAGCTTAATT 58.082 40.909 0.00 0.00 46.95 1.40
5445 9449 9.995003 ATTATCTACAATTTCAAGGCAAAACAA 57.005 25.926 0.00 0.00 0.00 2.83
5457 9461 0.863144 CAAAACAATGCCTGCTGTGC 59.137 50.000 0.00 0.00 0.00 4.57
5632 9646 7.311364 TCAAAGTGTACTTTCTTGGTGTAAC 57.689 36.000 7.02 0.00 43.72 2.50
5673 9687 7.736893 AGCTGGTTTAGTATCTTATTACTGGG 58.263 38.462 0.00 0.00 34.35 4.45
5720 9734 7.094975 TGGTAACATGTGTACAGAATAAGTTGC 60.095 37.037 0.00 3.55 46.17 4.17
5729 9743 5.007385 ACAGAATAAGTTGCGGGTAGTAG 57.993 43.478 0.00 0.00 0.00 2.57
5747 9761 4.817517 AGTAGTTCCAATACACAGTTCCG 58.182 43.478 0.00 0.00 0.00 4.30
5785 9904 4.864916 AATACTGCTGAACGTGCTAATG 57.135 40.909 0.00 0.00 0.00 1.90
5925 10047 3.332919 GCTGAAAGATCTGCTGAGTTCA 58.667 45.455 0.00 13.11 44.50 3.18
5984 10106 1.712081 GCATGTAGTGTCGCTGCAG 59.288 57.895 10.11 10.11 42.87 4.41
5992 10114 4.278419 TGTAGTGTCGCTGCAGATACATAT 59.722 41.667 20.43 14.50 34.88 1.78
6084 10269 2.328099 GGACTGCTTGTCGCCCTTG 61.328 63.158 4.78 0.00 46.24 3.61
6094 10279 3.916359 TGTCGCCCTTGTATTTCCATA 57.084 42.857 0.00 0.00 0.00 2.74
6161 10357 5.647658 CCAGTGCATTAAGACCACTATTTCA 59.352 40.000 0.00 0.00 37.70 2.69
6429 10633 2.554032 GGCATCTGGGACGATTATTTGG 59.446 50.000 0.00 0.00 0.00 3.28
6464 10668 0.689623 CAGTGGGAGCCTTTCTCAGT 59.310 55.000 0.00 0.00 40.74 3.41
6465 10669 1.902508 CAGTGGGAGCCTTTCTCAGTA 59.097 52.381 0.00 0.00 37.89 2.74
6492 10698 8.771920 TGTTGAAAGTATCCACTACTGTTATG 57.228 34.615 0.00 0.00 39.87 1.90
6515 10722 8.644374 ATGAAGTCTTCTATCTATACCACTCC 57.356 38.462 13.67 0.00 0.00 3.85
6516 10723 7.005296 TGAAGTCTTCTATCTATACCACTCCC 58.995 42.308 13.67 0.00 0.00 4.30
6517 10724 5.894653 AGTCTTCTATCTATACCACTCCCC 58.105 45.833 0.00 0.00 0.00 4.81
6518 10725 5.018149 GTCTTCTATCTATACCACTCCCCC 58.982 50.000 0.00 0.00 0.00 5.40
6519 10726 4.926987 TCTTCTATCTATACCACTCCCCCT 59.073 45.833 0.00 0.00 0.00 4.79
6520 10727 4.676799 TCTATCTATACCACTCCCCCTG 57.323 50.000 0.00 0.00 0.00 4.45
6521 10728 3.995077 TCTATCTATACCACTCCCCCTGT 59.005 47.826 0.00 0.00 0.00 4.00
6522 10729 2.471815 TCTATACCACTCCCCCTGTG 57.528 55.000 0.00 0.00 35.39 3.66
6523 10730 1.934480 TCTATACCACTCCCCCTGTGA 59.066 52.381 0.00 0.00 37.60 3.58
6524 10731 2.316677 TCTATACCACTCCCCCTGTGAA 59.683 50.000 0.00 0.00 37.60 3.18
6525 10732 2.053747 ATACCACTCCCCCTGTGAAA 57.946 50.000 0.00 0.00 37.60 2.69
6526 10733 1.822425 TACCACTCCCCCTGTGAAAA 58.178 50.000 0.00 0.00 37.60 2.29
6527 10734 1.158007 ACCACTCCCCCTGTGAAAAT 58.842 50.000 0.00 0.00 37.60 1.82
6528 10735 2.354328 ACCACTCCCCCTGTGAAAATA 58.646 47.619 0.00 0.00 37.60 1.40
6529 10736 2.041216 ACCACTCCCCCTGTGAAAATAC 59.959 50.000 0.00 0.00 37.60 1.89
6530 10737 2.620627 CCACTCCCCCTGTGAAAATACC 60.621 54.545 0.00 0.00 37.60 2.73
6537 10744 2.620627 CCCTGTGAAAATACCACTCCCC 60.621 54.545 0.00 0.00 35.66 4.81
6542 10749 2.041081 TGAAAATACCACTCCCCCTGTG 59.959 50.000 0.00 0.00 35.39 3.66
6562 10769 7.494625 CCCTGTGAAGAAATATAAGAGCGTTTA 59.505 37.037 0.00 0.00 0.00 2.01
6563 10770 9.046296 CCTGTGAAGAAATATAAGAGCGTTTAT 57.954 33.333 2.15 2.15 0.00 1.40
6628 10835 0.669932 GCTATGCATCTCAGGGAGCG 60.670 60.000 0.19 0.00 0.00 5.03
6642 10849 0.243095 GGAGCGTAACTGAACCGACT 59.757 55.000 0.00 0.00 0.00 4.18
6643 10850 1.615502 GAGCGTAACTGAACCGACTC 58.384 55.000 0.00 0.00 0.00 3.36
6644 10851 0.956633 AGCGTAACTGAACCGACTCA 59.043 50.000 0.00 0.00 0.00 3.41
6645 10852 1.058404 GCGTAACTGAACCGACTCAC 58.942 55.000 0.00 0.00 0.00 3.51
6649 10856 3.725490 GTAACTGAACCGACTCACCTTT 58.275 45.455 0.00 0.00 0.00 3.11
6650 10857 2.240493 ACTGAACCGACTCACCTTTG 57.760 50.000 0.00 0.00 0.00 2.77
6699 10918 1.202770 CCTGTGAAAAGGAACCGGTCT 60.203 52.381 8.04 0.00 40.02 3.85
6734 10953 5.794945 CACCAATGCTTATTTGTAGTGAACG 59.205 40.000 0.00 0.00 0.00 3.95
6741 10960 6.649141 TGCTTATTTGTAGTGAACGTCAGATT 59.351 34.615 0.00 0.00 0.00 2.40
6764 10983 4.702020 CATGTCACCATGCATGCG 57.298 55.556 21.69 16.19 41.88 4.73
6765 10984 2.099994 CATGTCACCATGCATGCGA 58.900 52.632 21.69 16.11 41.88 5.10
6766 10985 0.028902 CATGTCACCATGCATGCGAG 59.971 55.000 21.69 12.41 41.88 5.03
6767 10986 1.099295 ATGTCACCATGCATGCGAGG 61.099 55.000 21.69 22.45 0.00 4.63
6768 10987 1.746615 GTCACCATGCATGCGAGGT 60.747 57.895 23.64 23.64 33.91 3.85
6769 10988 0.461870 GTCACCATGCATGCGAGGTA 60.462 55.000 27.19 15.95 32.01 3.08
6770 10989 0.461870 TCACCATGCATGCGAGGTAC 60.462 55.000 27.19 0.00 32.01 3.34
6772 10991 0.462581 ACCATGCATGCGAGGTACTG 60.463 55.000 26.73 6.71 41.55 2.74
6773 10992 0.462581 CCATGCATGCGAGGTACTGT 60.463 55.000 21.69 0.00 41.55 3.55
6774 10993 0.933097 CATGCATGCGAGGTACTGTC 59.067 55.000 14.93 0.00 41.55 3.51
6775 10994 0.536724 ATGCATGCGAGGTACTGTCA 59.463 50.000 14.09 0.00 41.55 3.58
6776 10995 0.389817 TGCATGCGAGGTACTGTCAC 60.390 55.000 14.09 0.00 41.55 3.67
6777 10996 1.413767 GCATGCGAGGTACTGTCACG 61.414 60.000 0.00 0.00 41.55 4.35
6778 10997 0.170339 CATGCGAGGTACTGTCACGA 59.830 55.000 0.00 0.00 41.55 4.35
6779 10998 0.885879 ATGCGAGGTACTGTCACGAA 59.114 50.000 0.00 0.00 41.55 3.85
6780 10999 0.240145 TGCGAGGTACTGTCACGAAG 59.760 55.000 0.00 0.00 41.55 3.79
6781 11000 0.456312 GCGAGGTACTGTCACGAAGG 60.456 60.000 0.00 0.00 41.55 3.46
6782 11001 0.456312 CGAGGTACTGTCACGAAGGC 60.456 60.000 0.00 0.00 41.55 4.35
6783 11002 0.601558 GAGGTACTGTCACGAAGGCA 59.398 55.000 0.00 0.00 41.55 4.75
6784 11003 1.000506 GAGGTACTGTCACGAAGGCAA 59.999 52.381 0.00 0.00 41.55 4.52
6785 11004 1.000955 AGGTACTGTCACGAAGGCAAG 59.999 52.381 0.00 0.00 37.18 4.01
6786 11005 1.429463 GTACTGTCACGAAGGCAAGG 58.571 55.000 0.00 0.00 0.00 3.61
6787 11006 0.320421 TACTGTCACGAAGGCAAGGC 60.320 55.000 0.00 0.00 0.00 4.35
6788 11007 1.597854 CTGTCACGAAGGCAAGGCA 60.598 57.895 0.00 0.00 0.00 4.75
6789 11008 0.957395 CTGTCACGAAGGCAAGGCAT 60.957 55.000 0.00 0.00 0.00 4.40
6790 11009 0.323302 TGTCACGAAGGCAAGGCATA 59.677 50.000 0.00 0.00 0.00 3.14
6791 11010 1.065491 TGTCACGAAGGCAAGGCATAT 60.065 47.619 0.00 0.00 0.00 1.78
6792 11011 1.331756 GTCACGAAGGCAAGGCATATG 59.668 52.381 0.00 0.00 0.00 1.78
6793 11012 0.029834 CACGAAGGCAAGGCATATGC 59.970 55.000 19.79 19.79 43.08 3.14
6794 11013 0.394216 ACGAAGGCAAGGCATATGCA 60.394 50.000 28.07 0.00 45.60 3.96
6795 11014 0.029834 CGAAGGCAAGGCATATGCAC 59.970 55.000 28.07 17.34 45.60 4.57
6796 11015 1.396653 GAAGGCAAGGCATATGCACT 58.603 50.000 28.07 19.19 45.60 4.40
6797 11016 1.066605 GAAGGCAAGGCATATGCACTG 59.933 52.381 28.07 22.98 45.60 3.66
6798 11017 0.033796 AGGCAAGGCATATGCACTGT 60.034 50.000 28.07 7.59 45.60 3.55
6799 11018 0.383231 GGCAAGGCATATGCACTGTC 59.617 55.000 28.07 20.80 45.60 3.51
6800 11019 1.097232 GCAAGGCATATGCACTGTCA 58.903 50.000 28.07 0.00 43.29 3.58
6801 11020 1.202222 GCAAGGCATATGCACTGTCAC 60.202 52.381 28.07 9.67 43.29 3.67
6802 11021 1.402968 CAAGGCATATGCACTGTCACC 59.597 52.381 28.07 8.95 44.36 4.02
6803 11022 0.620030 AGGCATATGCACTGTCACCA 59.380 50.000 28.07 0.00 44.36 4.17
6804 11023 1.004628 AGGCATATGCACTGTCACCAA 59.995 47.619 28.07 0.00 44.36 3.67
6805 11024 1.402968 GGCATATGCACTGTCACCAAG 59.597 52.381 28.07 0.00 44.36 3.61
6806 11025 1.202222 GCATATGCACTGTCACCAAGC 60.202 52.381 22.84 0.00 41.59 4.01
6807 11026 1.402968 CATATGCACTGTCACCAAGCC 59.597 52.381 0.00 0.00 0.00 4.35
6808 11027 0.692476 TATGCACTGTCACCAAGCCT 59.308 50.000 0.00 0.00 0.00 4.58
6809 11028 0.892358 ATGCACTGTCACCAAGCCTG 60.892 55.000 0.00 0.00 0.00 4.85
6818 11037 3.777556 CCAAGCCTGGTCCAAACC 58.222 61.111 0.00 0.00 46.66 3.27
6827 11046 3.339547 GGTCCAAACCAGCTTAGCA 57.660 52.632 7.07 0.00 45.68 3.49
6828 11047 1.616159 GGTCCAAACCAGCTTAGCAA 58.384 50.000 7.07 0.00 45.68 3.91
6829 11048 1.960689 GGTCCAAACCAGCTTAGCAAA 59.039 47.619 7.07 0.00 45.68 3.68
6830 11049 2.562738 GGTCCAAACCAGCTTAGCAAAT 59.437 45.455 7.07 0.00 45.68 2.32
6831 11050 3.761752 GGTCCAAACCAGCTTAGCAAATA 59.238 43.478 7.07 0.00 45.68 1.40
6832 11051 4.142381 GGTCCAAACCAGCTTAGCAAATAG 60.142 45.833 7.07 0.00 45.68 1.73
6833 11052 3.443681 TCCAAACCAGCTTAGCAAATAGC 59.556 43.478 7.07 0.00 46.19 2.97
6850 11069 3.470567 CAACGGCGCACTCGAGAC 61.471 66.667 21.68 9.83 38.10 3.36
6860 11079 3.268986 CTCGAGACGAGCACCACT 58.731 61.111 6.58 0.00 46.75 4.00
6861 11080 2.467962 CTCGAGACGAGCACCACTA 58.532 57.895 6.58 0.00 46.75 2.74
6862 11081 0.097325 CTCGAGACGAGCACCACTAC 59.903 60.000 6.58 0.00 46.75 2.73
6863 11082 0.604511 TCGAGACGAGCACCACTACA 60.605 55.000 0.00 0.00 0.00 2.74
6864 11083 0.452184 CGAGACGAGCACCACTACAT 59.548 55.000 0.00 0.00 0.00 2.29
6865 11084 1.532090 CGAGACGAGCACCACTACATC 60.532 57.143 0.00 0.00 0.00 3.06
6866 11085 1.746220 GAGACGAGCACCACTACATCT 59.254 52.381 0.00 0.00 0.00 2.90
6867 11086 2.164624 GAGACGAGCACCACTACATCTT 59.835 50.000 0.00 0.00 0.00 2.40
6868 11087 2.164624 AGACGAGCACCACTACATCTTC 59.835 50.000 0.00 0.00 0.00 2.87
6869 11088 2.164624 GACGAGCACCACTACATCTTCT 59.835 50.000 0.00 0.00 0.00 2.85
6870 11089 2.094494 ACGAGCACCACTACATCTTCTG 60.094 50.000 0.00 0.00 0.00 3.02
6871 11090 2.736719 CGAGCACCACTACATCTTCTGG 60.737 54.545 0.00 0.00 0.00 3.86
6872 11091 2.234908 GAGCACCACTACATCTTCTGGT 59.765 50.000 0.00 0.00 37.51 4.00
6873 11092 2.639839 AGCACCACTACATCTTCTGGTT 59.360 45.455 0.00 0.00 34.64 3.67
6874 11093 3.073062 AGCACCACTACATCTTCTGGTTT 59.927 43.478 0.00 0.00 34.64 3.27
6875 11094 3.437049 GCACCACTACATCTTCTGGTTTC 59.563 47.826 0.00 0.00 34.64 2.78
6876 11095 3.679980 CACCACTACATCTTCTGGTTTCG 59.320 47.826 0.00 0.00 34.64 3.46
6877 11096 3.323979 ACCACTACATCTTCTGGTTTCGT 59.676 43.478 0.00 0.00 32.88 3.85
6878 11097 4.525487 ACCACTACATCTTCTGGTTTCGTA 59.475 41.667 0.00 0.00 32.88 3.43
6879 11098 5.011329 ACCACTACATCTTCTGGTTTCGTAA 59.989 40.000 0.00 0.00 32.88 3.18
6880 11099 5.929992 CCACTACATCTTCTGGTTTCGTAAA 59.070 40.000 0.00 0.00 0.00 2.01
6881 11100 6.425721 CCACTACATCTTCTGGTTTCGTAAAA 59.574 38.462 0.00 0.00 0.00 1.52
6882 11101 7.119262 CCACTACATCTTCTGGTTTCGTAAAAT 59.881 37.037 0.00 0.00 0.00 1.82
6883 11102 8.169268 CACTACATCTTCTGGTTTCGTAAAATC 58.831 37.037 0.00 0.00 0.00 2.17
6884 11103 6.165659 ACATCTTCTGGTTTCGTAAAATCG 57.834 37.500 0.00 0.00 0.00 3.34
6885 11104 5.121768 ACATCTTCTGGTTTCGTAAAATCGG 59.878 40.000 0.00 0.00 33.79 4.18
6886 11105 3.434299 TCTTCTGGTTTCGTAAAATCGGC 59.566 43.478 0.00 0.00 32.73 5.54
6887 11106 2.768698 TCTGGTTTCGTAAAATCGGCA 58.231 42.857 0.00 0.00 32.73 5.69
6888 11107 3.340034 TCTGGTTTCGTAAAATCGGCAT 58.660 40.909 0.00 0.00 32.73 4.40
6889 11108 3.754323 TCTGGTTTCGTAAAATCGGCATT 59.246 39.130 0.00 0.00 32.73 3.56
6890 11109 3.827625 TGGTTTCGTAAAATCGGCATTG 58.172 40.909 0.00 0.00 0.00 2.82
6891 11110 2.596862 GGTTTCGTAAAATCGGCATTGC 59.403 45.455 0.00 0.00 0.00 3.56
6892 11111 2.553079 TTCGTAAAATCGGCATTGCC 57.447 45.000 18.10 18.10 46.75 4.52
6902 11121 3.142838 GCATTGCCCTGTGCCGAT 61.143 61.111 0.00 0.00 40.16 4.18
6903 11122 1.823470 GCATTGCCCTGTGCCGATA 60.823 57.895 0.00 0.00 40.16 2.92
6904 11123 1.383456 GCATTGCCCTGTGCCGATAA 61.383 55.000 0.00 0.00 40.16 1.75
6905 11124 0.664761 CATTGCCCTGTGCCGATAAG 59.335 55.000 0.00 0.00 40.16 1.73
6906 11125 0.466189 ATTGCCCTGTGCCGATAAGG 60.466 55.000 0.00 0.00 44.97 2.69
6915 11134 2.904905 CCGATAAGGCCCCGTGAA 59.095 61.111 0.00 0.00 0.00 3.18
6916 11135 1.227556 CCGATAAGGCCCCGTGAAG 60.228 63.158 0.00 0.00 0.00 3.02
6917 11136 1.520666 CGATAAGGCCCCGTGAAGT 59.479 57.895 0.00 0.00 0.00 3.01
6918 11137 0.529992 CGATAAGGCCCCGTGAAGTC 60.530 60.000 0.00 0.00 0.00 3.01
6919 11138 0.831307 GATAAGGCCCCGTGAAGTCT 59.169 55.000 0.00 0.00 0.00 3.24
6920 11139 0.541863 ATAAGGCCCCGTGAAGTCTG 59.458 55.000 0.00 0.00 0.00 3.51
6921 11140 2.180159 TAAGGCCCCGTGAAGTCTGC 62.180 60.000 0.00 0.00 0.00 4.26
6922 11141 4.021925 GGCCCCGTGAAGTCTGCT 62.022 66.667 0.00 0.00 0.00 4.24
6923 11142 2.435059 GCCCCGTGAAGTCTGCTC 60.435 66.667 0.00 0.00 0.00 4.26
6924 11143 2.125912 CCCCGTGAAGTCTGCTCG 60.126 66.667 0.00 0.00 0.00 5.03
6925 11144 2.125912 CCCGTGAAGTCTGCTCGG 60.126 66.667 13.56 13.56 40.72 4.63
6926 11145 2.125912 CCGTGAAGTCTGCTCGGG 60.126 66.667 12.80 0.00 37.92 5.14
6927 11146 2.125912 CGTGAAGTCTGCTCGGGG 60.126 66.667 0.00 0.00 0.00 5.73
6928 11147 2.266055 GTGAAGTCTGCTCGGGGG 59.734 66.667 0.00 0.00 0.00 5.40
6929 11148 3.706373 TGAAGTCTGCTCGGGGGC 61.706 66.667 0.00 0.00 0.00 5.80
6930 11149 4.821589 GAAGTCTGCTCGGGGGCG 62.822 72.222 0.00 0.00 34.52 6.13
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
43 44 3.972227 CCGACAAAGAGTGGGCAG 58.028 61.111 0.00 0.00 39.36 4.85
47 48 3.615496 CCGTATTTACCGACAAAGAGTGG 59.385 47.826 0.00 0.00 0.00 4.00
100 102 3.601443 AGCAGTAACTCAGCCAGTAAG 57.399 47.619 0.00 0.00 32.30 2.34
365 374 6.470278 CAATCTGGGATCAGCACTTCATATA 58.530 40.000 0.00 0.00 40.69 0.86
366 375 5.314529 CAATCTGGGATCAGCACTTCATAT 58.685 41.667 0.00 0.00 40.69 1.78
399 408 4.352009 TGGCATAAGATCCACAATGGTTT 58.648 39.130 0.00 0.00 39.03 3.27
453 462 1.340088 TCTTGCATGGCCACAAATGT 58.660 45.000 8.16 0.00 0.00 2.71
990 1014 3.118884 GCATTGTTCTCATGCCCTGAAAT 60.119 43.478 0.00 0.00 35.44 2.17
1185 1209 6.150140 ACAAGGAGTCAAATCTCAAATACTGC 59.850 38.462 0.00 0.00 36.30 4.40
1756 1780 0.901827 TCCAGCTTCCGCATCTTGTA 59.098 50.000 0.00 0.00 39.10 2.41
1860 1886 9.196139 CCCATATTTGAACCCTACATTCTTAAA 57.804 33.333 0.00 0.00 0.00 1.52
2329 2355 1.595109 CTCCACAGCACGCAGACAA 60.595 57.895 0.00 0.00 0.00 3.18
2532 2560 4.769859 TTCTACGTAAATTTTGTGCCCC 57.230 40.909 0.00 0.00 0.00 5.80
2671 2700 9.965902 AAGTTTAATCATTTAGATCCTCACAGT 57.034 29.630 0.00 0.00 35.39 3.55
2971 3002 9.159364 GATGCACATCACATTGTAGACATATAT 57.841 33.333 5.76 0.00 37.74 0.86
2972 3003 8.370182 AGATGCACATCACATTGTAGACATATA 58.630 33.333 12.87 0.00 40.22 0.86
2993 3024 4.517285 TCCACCAGAGACATTAAAGATGC 58.483 43.478 0.00 0.00 0.00 3.91
3068 3099 4.518590 CACACCATGGTTTACACTTGATGA 59.481 41.667 16.84 0.00 0.00 2.92
3493 3535 6.662755 TCAATTCTTCCTGTATTGCTGGTAT 58.337 36.000 0.00 0.00 34.66 2.73
3588 3630 2.843401 TGGGTACTGCATAAACGTGT 57.157 45.000 0.00 0.00 0.00 4.49
3589 3631 3.938963 AGAATGGGTACTGCATAAACGTG 59.061 43.478 0.00 0.00 0.00 4.49
3590 3632 3.938963 CAGAATGGGTACTGCATAAACGT 59.061 43.478 0.00 0.00 0.00 3.99
3591 3633 4.536364 CAGAATGGGTACTGCATAAACG 57.464 45.455 0.00 0.00 0.00 3.60
3693 3735 2.290071 GCTGGTTAGTAGGCAGGAAACA 60.290 50.000 0.00 0.00 0.00 2.83
3766 3808 7.973388 GTGCTTACCATTATTGTTGCTAATCAA 59.027 33.333 0.00 0.00 0.00 2.57
3815 3857 6.317140 TGTTCTACAACTATACTACCAGACCG 59.683 42.308 0.00 0.00 33.17 4.79
3831 3873 3.089284 TGCCTCGAGATCTGTTCTACAA 58.911 45.455 15.71 0.00 33.74 2.41
3869 3911 1.434188 CTGCCTATACCACCCCATGA 58.566 55.000 0.00 0.00 0.00 3.07
4067 4109 0.750546 GAGGTGGATTTTACGGGGGC 60.751 60.000 0.00 0.00 0.00 5.80
4128 4171 6.094302 AGTGATGATTCCACTAGGGGATTAT 58.906 40.000 16.34 6.18 42.51 1.28
4266 4334 1.175983 AATCCACGGAGGCGCAAAAA 61.176 50.000 10.83 0.00 37.29 1.94
4267 4335 1.582610 GAATCCACGGAGGCGCAAAA 61.583 55.000 10.83 0.00 37.29 2.44
4268 4336 2.033448 AATCCACGGAGGCGCAAA 59.967 55.556 10.83 0.00 37.29 3.68
4681 8681 9.834628 GTCAAATAACGAAATCAGTTAAATGGA 57.165 29.630 2.65 0.00 37.57 3.41
5046 9046 4.778213 AATGAGCAAAGGGTAGCATAGA 57.222 40.909 0.00 0.00 0.00 1.98
5310 9311 5.887598 TCTGATGTGCTTAAATTATGCTGGT 59.112 36.000 11.33 0.00 0.00 4.00
5389 9393 7.616673 TGCATTGTAACAAACGAAAAAGATTG 58.383 30.769 0.00 0.00 0.00 2.67
5395 9399 6.093404 TCACTTGCATTGTAACAAACGAAAA 58.907 32.000 0.00 0.00 0.00 2.29
5445 9449 0.256752 TAGGATTGCACAGCAGGCAT 59.743 50.000 0.00 0.00 41.58 4.40
5457 9461 3.313526 CCGATGAAGGCAAGTTAGGATTG 59.686 47.826 0.00 0.00 0.00 2.67
5632 9646 4.058817 ACCAGCTTCGTTCAGTTAAAGAG 58.941 43.478 0.00 0.00 0.00 2.85
5673 9687 0.383231 GCTGTTCAGGGTATGCATGC 59.617 55.000 11.82 11.82 0.00 4.06
5702 9716 3.244284 ACCCGCAACTTATTCTGTACACA 60.244 43.478 0.00 0.00 0.00 3.72
5703 9717 3.332034 ACCCGCAACTTATTCTGTACAC 58.668 45.455 0.00 0.00 0.00 2.90
5708 9722 5.007385 ACTACTACCCGCAACTTATTCTG 57.993 43.478 0.00 0.00 0.00 3.02
5720 9734 4.159135 ACTGTGTATTGGAACTACTACCCG 59.841 45.833 0.00 0.00 0.00 5.28
5729 9743 2.774687 ACCGGAACTGTGTATTGGAAC 58.225 47.619 9.46 0.00 0.00 3.62
5747 9761 5.506317 GCAGTATTAGATGCAATGGTCAACC 60.506 44.000 0.00 0.00 42.11 3.77
5785 9904 9.801873 ACTGTTCATGCAATAAACATAAATACC 57.198 29.630 11.00 0.00 0.00 2.73
5922 10044 4.524802 AATACCTCAATGGCCTGATGAA 57.475 40.909 3.32 0.00 40.22 2.57
5925 10047 4.803329 AGAAATACCTCAATGGCCTGAT 57.197 40.909 3.32 0.00 40.22 2.90
5971 10093 5.705905 AGTATATGTATCTGCAGCGACACTA 59.294 40.000 19.05 12.53 0.00 2.74
6030 10208 5.931441 AAGAAACAGCATACAGTGAGAAC 57.069 39.130 0.00 0.00 0.00 3.01
6084 10269 6.913873 TGCTTCGGTTTACTATGGAAATAC 57.086 37.500 0.00 0.00 0.00 1.89
6094 10279 3.058224 GCAACAAGATGCTTCGGTTTACT 60.058 43.478 9.07 0.00 43.06 2.24
6151 10336 3.009033 TGGAGACCAGGTTGAAATAGTGG 59.991 47.826 0.00 0.00 0.00 4.00
6161 10357 6.884836 GTCTTAACAATATTGGAGACCAGGTT 59.115 38.462 24.07 10.57 33.81 3.50
6429 10633 5.258051 TCCCACTGGGACACAATAAATAAC 58.742 41.667 13.39 0.00 46.17 1.89
6446 10650 2.327325 TACTGAGAAAGGCTCCCACT 57.673 50.000 0.00 0.00 43.26 4.00
6465 10669 9.959721 ATAACAGTAGTGGATACTTTCAACAAT 57.040 29.630 1.92 0.00 42.30 2.71
6492 10698 6.434965 GGGGAGTGGTATAGATAGAAGACTTC 59.565 46.154 7.14 7.14 0.00 3.01
6510 10717 2.041081 TGGTATTTTCACAGGGGGAGTG 59.959 50.000 0.00 0.00 38.32 3.51
6511 10718 2.041216 GTGGTATTTTCACAGGGGGAGT 59.959 50.000 0.00 0.00 35.39 3.85
6512 10719 2.308866 AGTGGTATTTTCACAGGGGGAG 59.691 50.000 0.00 0.00 37.58 4.30
6513 10720 2.307686 GAGTGGTATTTTCACAGGGGGA 59.692 50.000 0.00 0.00 37.58 4.81
6514 10721 2.620627 GGAGTGGTATTTTCACAGGGGG 60.621 54.545 0.00 0.00 37.58 5.40
6515 10722 2.620627 GGGAGTGGTATTTTCACAGGGG 60.621 54.545 0.00 0.00 37.58 4.79
6516 10723 2.620627 GGGGAGTGGTATTTTCACAGGG 60.621 54.545 0.00 0.00 37.58 4.45
6517 10724 2.620627 GGGGGAGTGGTATTTTCACAGG 60.621 54.545 0.00 0.00 37.58 4.00
6518 10725 2.308866 AGGGGGAGTGGTATTTTCACAG 59.691 50.000 0.00 0.00 37.58 3.66
6519 10726 2.041081 CAGGGGGAGTGGTATTTTCACA 59.959 50.000 0.00 0.00 37.58 3.58
6520 10727 2.041216 ACAGGGGGAGTGGTATTTTCAC 59.959 50.000 0.00 0.00 35.51 3.18
6521 10728 2.041081 CACAGGGGGAGTGGTATTTTCA 59.959 50.000 0.00 0.00 33.43 2.69
6522 10729 2.307686 TCACAGGGGGAGTGGTATTTTC 59.692 50.000 0.00 0.00 37.58 2.29
6523 10730 2.354328 TCACAGGGGGAGTGGTATTTT 58.646 47.619 0.00 0.00 37.58 1.82
6524 10731 2.053747 TCACAGGGGGAGTGGTATTT 57.946 50.000 0.00 0.00 37.58 1.40
6525 10732 1.916181 CTTCACAGGGGGAGTGGTATT 59.084 52.381 0.00 0.00 37.58 1.89
6526 10733 1.080498 TCTTCACAGGGGGAGTGGTAT 59.920 52.381 0.00 0.00 37.58 2.73
6527 10734 0.490017 TCTTCACAGGGGGAGTGGTA 59.510 55.000 0.00 0.00 37.58 3.25
6528 10735 0.401395 TTCTTCACAGGGGGAGTGGT 60.401 55.000 0.00 0.00 37.58 4.16
6529 10736 0.771127 TTTCTTCACAGGGGGAGTGG 59.229 55.000 0.00 0.00 37.58 4.00
6530 10737 2.887151 ATTTCTTCACAGGGGGAGTG 57.113 50.000 0.00 0.00 38.32 3.51
6537 10744 6.910536 AACGCTCTTATATTTCTTCACAGG 57.089 37.500 0.00 0.00 0.00 4.00
6628 10835 3.382048 AAGGTGAGTCGGTTCAGTTAC 57.618 47.619 0.00 0.00 0.00 2.50
6642 10849 3.132925 GTGCCGTTTACTACAAAGGTGA 58.867 45.455 0.00 0.00 0.00 4.02
6643 10850 2.873472 TGTGCCGTTTACTACAAAGGTG 59.127 45.455 0.00 0.00 0.00 4.00
6644 10851 3.196939 TGTGCCGTTTACTACAAAGGT 57.803 42.857 0.00 0.00 0.00 3.50
6645 10852 4.691685 TGTATGTGCCGTTTACTACAAAGG 59.308 41.667 0.00 0.00 0.00 3.11
6649 10856 4.093703 GCATTGTATGTGCCGTTTACTACA 59.906 41.667 0.00 0.00 36.61 2.74
6650 10857 4.093703 TGCATTGTATGTGCCGTTTACTAC 59.906 41.667 0.00 0.00 41.83 2.73
6680 10899 2.256117 AGACCGGTTCCTTTTCACAG 57.744 50.000 9.42 0.00 0.00 3.66
6734 10953 4.009675 TGGTGACATGCCTAAAATCTGAC 58.990 43.478 0.00 0.00 33.40 3.51
6763 10982 0.456312 GCCTTCGTGACAGTACCTCG 60.456 60.000 0.00 0.00 0.00 4.63
6764 10983 0.601558 TGCCTTCGTGACAGTACCTC 59.398 55.000 0.00 0.00 0.00 3.85
6765 10984 1.000955 CTTGCCTTCGTGACAGTACCT 59.999 52.381 0.00 0.00 0.00 3.08
6766 10985 1.429463 CTTGCCTTCGTGACAGTACC 58.571 55.000 0.00 0.00 0.00 3.34
6767 10986 1.429463 CCTTGCCTTCGTGACAGTAC 58.571 55.000 0.00 0.00 0.00 2.73
6768 10987 0.320421 GCCTTGCCTTCGTGACAGTA 60.320 55.000 0.00 0.00 0.00 2.74
6769 10988 1.598130 GCCTTGCCTTCGTGACAGT 60.598 57.895 0.00 0.00 0.00 3.55
6770 10989 0.957395 ATGCCTTGCCTTCGTGACAG 60.957 55.000 0.00 0.00 0.00 3.51
6771 10990 0.323302 TATGCCTTGCCTTCGTGACA 59.677 50.000 0.00 0.00 0.00 3.58
6772 10991 1.331756 CATATGCCTTGCCTTCGTGAC 59.668 52.381 0.00 0.00 0.00 3.67
6773 10992 1.667236 CATATGCCTTGCCTTCGTGA 58.333 50.000 0.00 0.00 0.00 4.35
6774 10993 0.029834 GCATATGCCTTGCCTTCGTG 59.970 55.000 17.26 0.00 33.95 4.35
6775 10994 0.394216 TGCATATGCCTTGCCTTCGT 60.394 50.000 24.54 0.00 39.39 3.85
6776 10995 0.029834 GTGCATATGCCTTGCCTTCG 59.970 55.000 24.54 0.00 39.39 3.79
6777 10996 1.066605 CAGTGCATATGCCTTGCCTTC 59.933 52.381 24.54 5.43 39.39 3.46
6778 10997 1.108776 CAGTGCATATGCCTTGCCTT 58.891 50.000 24.54 0.06 39.39 4.35
6779 10998 0.033796 ACAGTGCATATGCCTTGCCT 60.034 50.000 24.54 9.69 39.39 4.75
6780 10999 0.383231 GACAGTGCATATGCCTTGCC 59.617 55.000 24.54 11.53 39.39 4.52
6781 11000 1.097232 TGACAGTGCATATGCCTTGC 58.903 50.000 24.54 16.69 41.18 4.01
6782 11001 1.402968 GGTGACAGTGCATATGCCTTG 59.597 52.381 24.54 22.30 41.18 3.61
6783 11002 1.004628 TGGTGACAGTGCATATGCCTT 59.995 47.619 24.54 10.08 36.49 4.35
6784 11003 0.620030 TGGTGACAGTGCATATGCCT 59.380 50.000 24.54 17.40 36.49 4.75
6785 11004 1.402968 CTTGGTGACAGTGCATATGCC 59.597 52.381 24.54 15.47 44.54 4.40
6786 11005 1.202222 GCTTGGTGACAGTGCATATGC 60.202 52.381 21.09 21.09 44.54 3.14
6787 11006 1.402968 GGCTTGGTGACAGTGCATATG 59.597 52.381 0.00 0.00 44.54 1.78
6788 11007 1.283029 AGGCTTGGTGACAGTGCATAT 59.717 47.619 0.00 0.00 44.54 1.78
6789 11008 0.692476 AGGCTTGGTGACAGTGCATA 59.308 50.000 0.00 0.00 44.54 3.14
6790 11009 0.892358 CAGGCTTGGTGACAGTGCAT 60.892 55.000 0.00 0.00 44.54 3.96
6791 11010 1.526686 CAGGCTTGGTGACAGTGCA 60.527 57.895 0.00 0.00 44.54 4.57
6792 11011 2.263741 CCAGGCTTGGTGACAGTGC 61.264 63.158 6.72 0.00 44.54 4.40
6793 11012 4.069869 CCAGGCTTGGTGACAGTG 57.930 61.111 6.72 0.00 44.54 3.66
6809 11028 1.616159 TTGCTAAGCTGGTTTGGACC 58.384 50.000 0.00 0.00 46.71 4.46
6810 11029 3.942130 ATTTGCTAAGCTGGTTTGGAC 57.058 42.857 0.00 0.00 0.00 4.02
6811 11030 3.443681 GCTATTTGCTAAGCTGGTTTGGA 59.556 43.478 0.00 0.00 38.95 3.53
6812 11031 3.193267 TGCTATTTGCTAAGCTGGTTTGG 59.807 43.478 0.00 0.00 43.37 3.28
6813 11032 4.439305 TGCTATTTGCTAAGCTGGTTTG 57.561 40.909 0.00 0.00 43.37 2.93
6814 11033 4.615912 CGTTGCTATTTGCTAAGCTGGTTT 60.616 41.667 0.00 0.00 43.37 3.27
6815 11034 3.119849 CGTTGCTATTTGCTAAGCTGGTT 60.120 43.478 0.00 0.00 43.37 3.67
6816 11035 2.420022 CGTTGCTATTTGCTAAGCTGGT 59.580 45.455 0.00 0.00 43.37 4.00
6817 11036 2.223340 CCGTTGCTATTTGCTAAGCTGG 60.223 50.000 0.00 0.00 43.37 4.85
6818 11037 2.792542 GCCGTTGCTATTTGCTAAGCTG 60.793 50.000 0.00 0.00 43.37 4.24
6819 11038 1.401905 GCCGTTGCTATTTGCTAAGCT 59.598 47.619 0.00 0.00 43.37 3.74
6820 11039 1.827578 GCCGTTGCTATTTGCTAAGC 58.172 50.000 0.00 0.00 43.37 3.09
6821 11040 1.856014 GCGCCGTTGCTATTTGCTAAG 60.856 52.381 0.00 0.00 43.37 2.18
6822 11041 0.098025 GCGCCGTTGCTATTTGCTAA 59.902 50.000 0.00 0.00 43.37 3.09
6823 11042 1.021920 TGCGCCGTTGCTATTTGCTA 61.022 50.000 4.18 0.00 43.37 3.49
6824 11043 2.331893 TGCGCCGTTGCTATTTGCT 61.332 52.632 4.18 0.00 43.37 3.91
6825 11044 2.152078 GTGCGCCGTTGCTATTTGC 61.152 57.895 4.18 0.00 43.25 3.68
6826 11045 0.521242 GAGTGCGCCGTTGCTATTTG 60.521 55.000 4.18 0.00 35.36 2.32
6827 11046 1.794222 GAGTGCGCCGTTGCTATTT 59.206 52.632 4.18 0.00 35.36 1.40
6828 11047 2.452813 CGAGTGCGCCGTTGCTATT 61.453 57.895 4.18 0.00 35.36 1.73
6829 11048 2.885644 CGAGTGCGCCGTTGCTAT 60.886 61.111 4.18 0.00 35.36 2.97
6830 11049 3.964221 CTCGAGTGCGCCGTTGCTA 62.964 63.158 4.18 0.00 37.46 3.49
6833 11052 3.470567 GTCTCGAGTGCGCCGTTG 61.471 66.667 13.13 0.00 37.46 4.10
6844 11063 0.604511 TGTAGTGGTGCTCGTCTCGA 60.605 55.000 0.00 0.00 0.00 4.04
6845 11064 0.452184 ATGTAGTGGTGCTCGTCTCG 59.548 55.000 0.00 0.00 0.00 4.04
6846 11065 1.746220 AGATGTAGTGGTGCTCGTCTC 59.254 52.381 0.00 0.00 0.00 3.36
6847 11066 1.840737 AGATGTAGTGGTGCTCGTCT 58.159 50.000 0.00 0.00 0.00 4.18
6848 11067 2.164624 AGAAGATGTAGTGGTGCTCGTC 59.835 50.000 0.00 0.00 0.00 4.20
6849 11068 2.094494 CAGAAGATGTAGTGGTGCTCGT 60.094 50.000 0.00 0.00 0.00 4.18
6850 11069 2.534298 CAGAAGATGTAGTGGTGCTCG 58.466 52.381 0.00 0.00 0.00 5.03
6851 11070 2.234908 ACCAGAAGATGTAGTGGTGCTC 59.765 50.000 0.00 0.00 41.88 4.26
6852 11071 2.260822 ACCAGAAGATGTAGTGGTGCT 58.739 47.619 0.00 0.00 41.88 4.40
6853 11072 2.770164 ACCAGAAGATGTAGTGGTGC 57.230 50.000 0.00 0.00 41.88 5.01
6854 11073 3.679980 CGAAACCAGAAGATGTAGTGGTG 59.320 47.826 0.00 0.00 42.67 4.17
6855 11074 3.323979 ACGAAACCAGAAGATGTAGTGGT 59.676 43.478 0.00 0.00 45.50 4.16
6856 11075 3.926616 ACGAAACCAGAAGATGTAGTGG 58.073 45.455 0.00 0.00 36.05 4.00
6857 11076 7.416154 TTTTACGAAACCAGAAGATGTAGTG 57.584 36.000 0.00 0.00 0.00 2.74
6858 11077 7.063074 CGATTTTACGAAACCAGAAGATGTAGT 59.937 37.037 0.00 0.00 35.09 2.73
6859 11078 7.391786 CGATTTTACGAAACCAGAAGATGTAG 58.608 38.462 0.00 0.00 35.09 2.74
6860 11079 6.311935 CCGATTTTACGAAACCAGAAGATGTA 59.688 38.462 0.00 0.00 35.09 2.29
6861 11080 5.121768 CCGATTTTACGAAACCAGAAGATGT 59.878 40.000 0.00 0.00 35.09 3.06
6862 11081 5.560148 CCGATTTTACGAAACCAGAAGATG 58.440 41.667 0.00 0.00 35.09 2.90
6863 11082 4.094442 GCCGATTTTACGAAACCAGAAGAT 59.906 41.667 0.00 0.00 35.09 2.40
6864 11083 3.434299 GCCGATTTTACGAAACCAGAAGA 59.566 43.478 0.00 0.00 35.09 2.87
6865 11084 3.187637 TGCCGATTTTACGAAACCAGAAG 59.812 43.478 0.00 0.00 35.09 2.85
6866 11085 3.139850 TGCCGATTTTACGAAACCAGAA 58.860 40.909 0.00 0.00 35.09 3.02
6867 11086 2.768698 TGCCGATTTTACGAAACCAGA 58.231 42.857 0.00 0.00 35.09 3.86
6868 11087 3.757745 ATGCCGATTTTACGAAACCAG 57.242 42.857 0.00 0.00 35.09 4.00
6869 11088 3.827625 CAATGCCGATTTTACGAAACCA 58.172 40.909 0.00 0.00 35.09 3.67
6870 11089 2.596862 GCAATGCCGATTTTACGAAACC 59.403 45.455 0.00 0.00 35.09 3.27
6871 11090 2.596862 GGCAATGCCGATTTTACGAAAC 59.403 45.455 9.14 0.00 39.62 2.78
6872 11091 2.869897 GGCAATGCCGATTTTACGAAA 58.130 42.857 9.14 0.00 39.62 3.46
6873 11092 2.553079 GGCAATGCCGATTTTACGAA 57.447 45.000 9.14 0.00 39.62 3.85
6898 11117 1.227556 CTTCACGGGGCCTTATCGG 60.228 63.158 0.84 0.00 0.00 4.18
6899 11118 0.529992 GACTTCACGGGGCCTTATCG 60.530 60.000 0.84 0.00 0.00 2.92
6900 11119 0.831307 AGACTTCACGGGGCCTTATC 59.169 55.000 0.84 0.00 0.00 1.75
6901 11120 0.541863 CAGACTTCACGGGGCCTTAT 59.458 55.000 0.84 0.00 0.00 1.73
6902 11121 1.980052 CAGACTTCACGGGGCCTTA 59.020 57.895 0.84 0.00 0.00 2.69
6903 11122 2.750350 CAGACTTCACGGGGCCTT 59.250 61.111 0.84 0.00 0.00 4.35
6904 11123 4.021925 GCAGACTTCACGGGGCCT 62.022 66.667 0.84 0.00 0.00 5.19
6905 11124 3.959991 GAGCAGACTTCACGGGGCC 62.960 68.421 0.00 0.00 0.00 5.80
6906 11125 2.435059 GAGCAGACTTCACGGGGC 60.435 66.667 0.00 0.00 0.00 5.80
6907 11126 2.125912 CGAGCAGACTTCACGGGG 60.126 66.667 0.00 0.00 0.00 5.73
6908 11127 2.125912 CCGAGCAGACTTCACGGG 60.126 66.667 3.18 0.00 39.92 5.28
6909 11128 2.125912 CCCGAGCAGACTTCACGG 60.126 66.667 4.10 4.10 42.67 4.94
6910 11129 2.125912 CCCCGAGCAGACTTCACG 60.126 66.667 0.00 0.00 0.00 4.35
6911 11130 2.266055 CCCCCGAGCAGACTTCAC 59.734 66.667 0.00 0.00 0.00 3.18
6912 11131 3.706373 GCCCCCGAGCAGACTTCA 61.706 66.667 0.00 0.00 0.00 3.02
6913 11132 4.821589 CGCCCCCGAGCAGACTTC 62.822 72.222 0.00 0.00 36.29 3.01


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

AutoCloner maintained by Alex Coulton.