Multiple sequence alignment - TraesCS7A01G451600

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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 TraesCS7A01G451600 chr7A 100.000 2456 0 0 1 2456 644705293 644707748 0.000000e+00 4536.0
1 TraesCS7A01G451600 chr7A 84.777 381 41 5 984 1360 644681527 644681894 1.390000e-97 366.0
2 TraesCS7A01G451600 chr7A 100.000 40 0 0 514 553 538957962 538958001 9.420000e-10 75.0
3 TraesCS7A01G451600 chr7A 97.561 41 1 0 513 553 210817139 210817179 1.220000e-08 71.3
4 TraesCS7A01G451600 chr7B 85.841 1808 141 52 561 2327 608374918 608376651 0.000000e+00 1814.0
5 TraesCS7A01G451600 chr7B 83.641 379 45 12 986 1360 608364295 608364660 8.410000e-90 340.0
6 TraesCS7A01G451600 chr7B 91.667 84 6 1 1538 1621 608364878 608364960 5.550000e-22 115.0
7 TraesCS7A01G451600 chr7D 88.029 1537 116 37 554 2079 560579902 560581381 0.000000e+00 1757.0
8 TraesCS7A01G451600 chr7D 84.906 530 41 21 1 496 560578786 560579310 1.310000e-137 499.0
9 TraesCS7A01G451600 chr7D 83.690 374 44 4 984 1353 560576102 560576462 1.090000e-88 337.0
10 TraesCS7A01G451600 chr7D 77.165 254 22 20 1383 1621 560576537 560576769 5.550000e-22 115.0
11 TraesCS7A01G451600 chr7D 97.561 41 1 0 513 553 24639045 24639085 1.220000e-08 71.3
12 TraesCS7A01G451600 chr4B 86.555 357 30 6 1000 1356 413191281 413190943 6.410000e-101 377.0
13 TraesCS7A01G451600 chr4A 84.211 380 39 7 983 1360 137894685 137895045 1.400000e-92 350.0
14 TraesCS7A01G451600 chr4D 90.698 215 17 2 1172 1383 335174749 335174535 1.440000e-72 283.0
15 TraesCS7A01G451600 chr3D 100.000 41 0 0 513 553 606385611 606385571 2.620000e-10 76.8
16 TraesCS7A01G451600 chr3A 100.000 41 0 0 513 553 737665945 737665985 2.620000e-10 76.8
17 TraesCS7A01G451600 chr1D 100.000 41 0 0 513 553 63427420 63427380 2.620000e-10 76.8
18 TraesCS7A01G451600 chr6D 97.674 43 1 0 511 553 53777629 53777671 9.420000e-10 75.0
19 TraesCS7A01G451600 chr5D 95.745 47 1 1 514 559 487877335 487877289 9.420000e-10 75.0
20 TraesCS7A01G451600 chr2D 97.561 41 1 0 513 553 637889941 637889901 1.220000e-08 71.3


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 TraesCS7A01G451600 chr7A 644705293 644707748 2455 False 4536.0 4536 100.0000 1 2456 1 chr7A.!!$F4 2455
1 TraesCS7A01G451600 chr7B 608374918 608376651 1733 False 1814.0 1814 85.8410 561 2327 1 chr7B.!!$F1 1766
2 TraesCS7A01G451600 chr7B 608364295 608364960 665 False 227.5 340 87.6540 986 1621 2 chr7B.!!$F2 635
3 TraesCS7A01G451600 chr7D 560576102 560581381 5279 False 677.0 1757 83.4475 1 2079 4 chr7D.!!$F2 2078

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
788 4041 0.246086 TCGGTTGGCATGGAAAATGC 59.754 50.0 1.65 1.65 43.85 3.56 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2044 5411 0.392998 GTCCATTGCATCCCACGTCT 60.393 55.0 0.0 0.0 0.0 4.18 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
53 2739 1.270518 CCGCCATTAGACCTCTCATGG 60.271 57.143 10.17 10.17 45.86 3.66
77 2763 5.916318 AGAGCTCCTTGAAACTAGATCATG 58.084 41.667 10.93 3.26 0.00 3.07
79 2765 5.426504 AGCTCCTTGAAACTAGATCATGTG 58.573 41.667 0.00 0.83 0.00 3.21
92 2778 8.442632 ACTAGATCATGTGTGGATATGTTTTG 57.557 34.615 0.00 0.00 0.00 2.44
128 2814 7.891183 ATCTGTGTAACTTTAGTGCTACAAG 57.109 36.000 0.00 0.00 38.04 3.16
131 2817 7.437267 TCTGTGTAACTTTAGTGCTACAAGAAC 59.563 37.037 0.00 0.00 38.04 3.01
136 2822 5.681639 ACTTTAGTGCTACAAGAACCAACT 58.318 37.500 0.00 0.00 0.00 3.16
152 2838 2.056906 AACTCCCTGCTTGGTTCGCT 62.057 55.000 0.00 0.00 0.00 4.93
178 2864 3.998913 TGATGCCAGTTGTCCTAATGA 57.001 42.857 0.00 0.00 0.00 2.57
179 2865 4.508551 TGATGCCAGTTGTCCTAATGAT 57.491 40.909 0.00 0.00 0.00 2.45
191 2877 6.032956 TGTCCTAATGATGTCGTAAGTTGT 57.967 37.500 0.00 0.00 39.48 3.32
196 2882 7.121611 TCCTAATGATGTCGTAAGTTGTCTACA 59.878 37.037 0.00 0.00 39.48 2.74
216 2902 5.410355 ACAATGACCGTAAAGTAGGCTAA 57.590 39.130 0.00 0.00 0.00 3.09
262 2954 9.988815 AATAGTGAGTAGCTTAACAATATCCAG 57.011 33.333 0.00 0.00 0.00 3.86
266 2958 7.650104 GTGAGTAGCTTAACAATATCCAGAGTC 59.350 40.741 0.00 0.00 0.00 3.36
267 2959 6.740110 AGTAGCTTAACAATATCCAGAGTCG 58.260 40.000 0.00 0.00 0.00 4.18
301 3020 8.863872 ATACTTTGTAACATTGTAGGAAAGCT 57.136 30.769 11.44 0.00 0.00 3.74
304 3023 8.784043 ACTTTGTAACATTGTAGGAAAGCTTAG 58.216 33.333 0.00 0.00 0.00 2.18
311 3030 6.708949 ACATTGTAGGAAAGCTTAGTTTTCGA 59.291 34.615 13.75 3.74 34.41 3.71
322 3041 2.922740 AGTTTTCGAGGTAGCCAACA 57.077 45.000 0.00 0.00 0.00 3.33
326 3045 4.222145 AGTTTTCGAGGTAGCCAACATAGA 59.778 41.667 0.00 0.00 0.00 1.98
334 3053 3.749609 GGTAGCCAACATAGAAACAACGT 59.250 43.478 0.00 0.00 0.00 3.99
365 3084 9.398170 CAACTTCCAAAGTAATATTGACAACTG 57.602 33.333 0.00 0.00 41.91 3.16
371 3090 7.912250 CCAAAGTAATATTGACAACTGAGCATC 59.088 37.037 0.00 0.00 0.00 3.91
373 3092 7.545362 AGTAATATTGACAACTGAGCATCAC 57.455 36.000 0.00 0.00 42.56 3.06
374 3093 7.334090 AGTAATATTGACAACTGAGCATCACT 58.666 34.615 0.00 0.00 42.56 3.41
384 3103 3.378742 ACTGAGCATCACTAAGGTAGACG 59.621 47.826 0.00 0.00 42.56 4.18
415 3134 9.088512 CATAGTGAAGTGTACACCTTAGATTTC 57.911 37.037 22.28 16.58 38.82 2.17
422 3141 6.032717 GTGTACACCTTAGATTTCGAGGTAC 58.967 44.000 15.42 0.00 41.72 3.34
441 3160 5.491078 AGGTACCCAACTTAGAAATCATGGA 59.509 40.000 8.74 0.00 0.00 3.41
469 3188 1.108727 TTTGGACTGCTGCCAACCAG 61.109 55.000 15.45 0.00 44.58 4.00
496 3215 2.697431 GCAACGGTATGCAACTTCAA 57.303 45.000 0.00 0.00 45.70 2.69
497 3216 2.584791 GCAACGGTATGCAACTTCAAG 58.415 47.619 0.00 0.00 45.70 3.02
500 3219 3.120321 ACGGTATGCAACTTCAAGACA 57.880 42.857 0.00 0.00 0.00 3.41
501 3220 3.067106 ACGGTATGCAACTTCAAGACAG 58.933 45.455 0.00 0.00 0.00 3.51
502 3221 3.244078 ACGGTATGCAACTTCAAGACAGA 60.244 43.478 0.00 0.00 0.00 3.41
503 3222 3.123621 CGGTATGCAACTTCAAGACAGAC 59.876 47.826 0.00 0.00 0.00 3.51
505 3224 4.083802 GGTATGCAACTTCAAGACAGACAC 60.084 45.833 0.00 0.00 0.00 3.67
506 3225 1.933181 TGCAACTTCAAGACAGACACG 59.067 47.619 0.00 0.00 0.00 4.49
508 3227 1.261619 CAACTTCAAGACAGACACGCC 59.738 52.381 0.00 0.00 0.00 5.68
509 3228 0.249911 ACTTCAAGACAGACACGCCC 60.250 55.000 0.00 0.00 0.00 6.13
510 3229 1.284982 CTTCAAGACAGACACGCCCG 61.285 60.000 0.00 0.00 0.00 6.13
530 3249 5.243426 CCGTGTTTAAGGGGTCATATTTG 57.757 43.478 0.00 0.00 0.00 2.32
531 3250 4.439563 CCGTGTTTAAGGGGTCATATTTGC 60.440 45.833 0.00 0.00 0.00 3.68
532 3251 4.398044 CGTGTTTAAGGGGTCATATTTGCT 59.602 41.667 0.00 0.00 0.00 3.91
533 3252 5.587043 CGTGTTTAAGGGGTCATATTTGCTA 59.413 40.000 0.00 0.00 0.00 3.49
535 3254 7.425606 GTGTTTAAGGGGTCATATTTGCTATG 58.574 38.462 0.00 0.00 38.91 2.23
536 3255 7.068226 GTGTTTAAGGGGTCATATTTGCTATGT 59.932 37.037 0.00 0.00 38.70 2.29
537 3256 7.284489 TGTTTAAGGGGTCATATTTGCTATGTC 59.716 37.037 0.00 0.00 38.70 3.06
538 3257 4.373156 AGGGGTCATATTTGCTATGTCC 57.627 45.455 0.86 0.86 42.19 4.02
539 3258 3.074412 GGGGTCATATTTGCTATGTCCG 58.926 50.000 3.01 0.00 43.20 4.79
540 3259 3.074412 GGGTCATATTTGCTATGTCCGG 58.926 50.000 0.00 0.00 43.20 5.14
542 3261 3.403038 GTCATATTTGCTATGTCCGGCT 58.597 45.455 0.00 0.00 38.70 5.52
543 3262 3.187227 GTCATATTTGCTATGTCCGGCTG 59.813 47.826 0.00 0.00 38.70 4.85
545 3264 4.039852 TCATATTTGCTATGTCCGGCTGTA 59.960 41.667 0.00 0.00 38.70 2.74
546 3265 2.309528 TTTGCTATGTCCGGCTGTAG 57.690 50.000 0.00 0.00 0.00 2.74
547 3266 1.480789 TTGCTATGTCCGGCTGTAGA 58.519 50.000 0.00 0.00 0.00 2.59
548 3267 1.704641 TGCTATGTCCGGCTGTAGAT 58.295 50.000 0.00 0.00 0.00 1.98
550 3269 1.937108 GCTATGTCCGGCTGTAGATGC 60.937 57.143 0.00 0.00 0.00 3.91
551 3270 1.615883 CTATGTCCGGCTGTAGATGCT 59.384 52.381 0.00 0.00 0.00 3.79
552 3271 0.390860 ATGTCCGGCTGTAGATGCTC 59.609 55.000 0.00 0.00 0.00 4.26
556 3809 0.529337 CCGGCTGTAGATGCTCAGTG 60.529 60.000 0.00 0.00 34.57 3.66
564 3817 4.336280 TGTAGATGCTCAGTGTGTAGACT 58.664 43.478 0.00 0.00 0.00 3.24
709 3962 4.454161 TGGTATGGAAAGTGAAATGACACG 59.546 41.667 0.00 0.00 44.35 4.49
721 3974 2.148916 ATGACACGAAGACAGCGAAA 57.851 45.000 0.00 0.00 0.00 3.46
747 4000 1.914531 ATACCAAACGAAACCGCGGC 61.915 55.000 28.58 8.36 35.12 6.53
788 4041 0.246086 TCGGTTGGCATGGAAAATGC 59.754 50.000 1.65 1.65 43.85 3.56
808 4061 2.514803 CAGAAACCGGAAACAAGGGAT 58.485 47.619 9.46 0.00 0.00 3.85
835 4096 1.588139 GGTGGAAGGCGTATCGTCG 60.588 63.158 0.00 0.00 36.23 5.12
836 4097 1.138247 GTGGAAGGCGTATCGTCGT 59.862 57.895 0.00 0.00 36.23 4.34
837 4098 0.864797 GTGGAAGGCGTATCGTCGTC 60.865 60.000 1.64 1.64 39.02 4.20
839 4100 1.653533 GAAGGCGTATCGTCGTCGG 60.654 63.158 1.55 0.00 40.52 4.79
840 4101 2.315038 GAAGGCGTATCGTCGTCGGT 62.315 60.000 1.55 0.00 40.52 4.69
842 4103 1.368137 GGCGTATCGTCGTCGGTAC 60.368 63.158 14.27 14.27 46.36 3.34
848 4109 4.778842 GTATCGTCGTCGGTACTAAAGA 57.221 45.455 16.49 0.00 46.33 2.52
849 4110 3.665173 ATCGTCGTCGGTACTAAAGAC 57.335 47.619 1.55 0.00 37.69 3.01
850 4111 1.732259 TCGTCGTCGGTACTAAAGACC 59.268 52.381 1.55 0.00 37.69 3.85
880 4141 1.892209 GAAGCGAAAGGACCTTCCAA 58.108 50.000 7.34 0.00 39.61 3.53
896 4157 4.261363 CCTTCCAAGTTCTGAAACTGAAGC 60.261 45.833 10.56 0.00 45.07 3.86
899 4160 4.336433 TCCAAGTTCTGAAACTGAAGCAAG 59.664 41.667 0.00 0.00 45.07 4.01
900 4161 3.978718 AGTTCTGAAACTGAAGCAAGC 57.021 42.857 0.00 0.00 44.13 4.01
901 4162 2.289002 AGTTCTGAAACTGAAGCAAGCG 59.711 45.455 0.00 0.00 44.13 4.68
902 4163 0.588252 TCTGAAACTGAAGCAAGCGC 59.412 50.000 0.00 0.00 38.99 5.92
903 4164 0.723790 CTGAAACTGAAGCAAGCGCG 60.724 55.000 0.00 0.00 45.49 6.86
904 4165 2.050985 AAACTGAAGCAAGCGCGC 60.051 55.556 26.66 26.66 45.49 6.86
910 4171 3.977092 GAAGCAAGCGCGCGTTACC 62.977 63.158 32.35 19.07 45.49 2.85
947 4209 5.517411 CGTCCTGTATAAATTGAACGTAGCA 59.483 40.000 0.00 0.00 0.00 3.49
959 4221 1.441515 CGTAGCACGTACACAGCGT 60.442 57.895 0.00 0.00 43.90 5.07
973 4237 2.974698 GCGTCACAGCCAGCACTT 60.975 61.111 0.00 0.00 0.00 3.16
975 4239 2.641559 GTCACAGCCAGCACTTGC 59.358 61.111 0.00 0.00 42.49 4.01
1017 4281 2.688666 ATGGCTTCCTCCGGCTCA 60.689 61.111 0.00 0.00 0.00 4.26
1466 4797 1.216710 CCCCGTGAAGCTGAGAGTC 59.783 63.158 0.00 0.00 0.00 3.36
1511 4867 3.162666 TGTAGGTTCTCGTGAATCCTGT 58.837 45.455 21.34 4.53 36.18 4.00
1654 5012 9.726438 ATAATAGTTTCTCTGCCATATTACACC 57.274 33.333 0.00 0.00 0.00 4.16
1655 5013 5.435686 AGTTTCTCTGCCATATTACACCA 57.564 39.130 0.00 0.00 0.00 4.17
1656 5014 6.006275 AGTTTCTCTGCCATATTACACCAT 57.994 37.500 0.00 0.00 0.00 3.55
1718 5077 6.176183 ACACACAAACCCAATCAAAATCAAA 58.824 32.000 0.00 0.00 0.00 2.69
1733 5092 7.211573 TCAAAATCAAAGACTAGACACGGTAA 58.788 34.615 0.00 0.00 0.00 2.85
1754 5113 7.275920 GGTAAATATCAGAGTGGAATCACAGT 58.724 38.462 0.00 0.00 45.91 3.55
1771 5130 3.692101 CACAGTGTAAGACAAACCAACCA 59.308 43.478 0.00 0.00 0.00 3.67
1774 5133 2.937799 GTGTAAGACAAACCAACCACGA 59.062 45.455 0.00 0.00 0.00 4.35
1823 5183 2.027625 AAGTTGTAGAGCGCGCCAC 61.028 57.895 30.33 23.11 0.00 5.01
1876 5237 2.001269 CCCCTCTTTCCCCATCGGT 61.001 63.158 0.00 0.00 0.00 4.69
1930 5297 4.184629 CTGTGAAGGTAGATAGTTGTGGC 58.815 47.826 0.00 0.00 0.00 5.01
1967 5334 3.813143 CGCCATGCCATGCACGAA 61.813 61.111 11.52 0.00 43.04 3.85
1997 5364 3.114616 CGGCTCACGTCAAGGCTG 61.115 66.667 16.15 6.31 37.18 4.85
1998 5365 2.743928 GGCTCACGTCAAGGCTGG 60.744 66.667 12.36 0.00 36.45 4.85
1999 5366 2.031163 GCTCACGTCAAGGCTGGT 59.969 61.111 0.00 0.00 0.00 4.00
2000 5367 2.320587 GCTCACGTCAAGGCTGGTG 61.321 63.158 0.00 0.00 0.00 4.17
2001 5368 1.669115 CTCACGTCAAGGCTGGTGG 60.669 63.158 0.00 0.00 0.00 4.61
2075 5445 1.862008 GCAATGGACGAACGTTTGCAA 60.862 47.619 21.75 0.00 0.00 4.08
2104 5474 3.507233 TGTTTGATGAAATGCCTCCTGAC 59.493 43.478 0.00 0.00 0.00 3.51
2153 5523 1.243902 AACCTAAATGCCACGTGGTG 58.756 50.000 33.92 16.99 37.57 4.17
2154 5524 0.398696 ACCTAAATGCCACGTGGTGA 59.601 50.000 33.92 21.97 35.23 4.02
2157 5527 2.151202 CTAAATGCCACGTGGTGAGTT 58.849 47.619 33.92 26.06 35.23 3.01
2160 5530 0.108585 ATGCCACGTGGTGAGTTTCT 59.891 50.000 33.92 8.70 35.23 2.52
2162 5532 1.139256 TGCCACGTGGTGAGTTTCTTA 59.861 47.619 33.92 6.77 35.23 2.10
2181 5551 4.639310 TCTTACTCTAATCTGGTGTCGGAC 59.361 45.833 0.00 0.00 0.00 4.79
2203 5573 5.243207 ACGAAAGTTATCCGGTTTTGAGAT 58.757 37.500 0.00 0.00 46.40 2.75
2221 5591 5.579047 TGAGATTTGAGGGGCTTAATTTCA 58.421 37.500 0.00 0.00 0.00 2.69
2224 5594 5.779771 AGATTTGAGGGGCTTAATTTCAACA 59.220 36.000 0.00 0.00 0.00 3.33
2225 5595 5.878406 TTTGAGGGGCTTAATTTCAACAA 57.122 34.783 0.00 0.00 0.00 2.83
2262 5632 5.900865 AGGAGCGTATATAGACTTTAGGC 57.099 43.478 0.00 0.00 0.00 3.93
2267 5637 6.812998 AGCGTATATAGACTTTAGGCAAACA 58.187 36.000 0.00 0.00 31.08 2.83
2293 5663 8.343168 TGACGGACCAAAAATATATGTTTCTT 57.657 30.769 0.00 0.00 0.00 2.52
2327 5697 2.930040 CGTCTACCGAGTTGATGCATTT 59.070 45.455 0.00 0.00 39.56 2.32
2328 5698 3.242091 CGTCTACCGAGTTGATGCATTTG 60.242 47.826 0.00 0.00 39.56 2.32
2329 5699 3.932710 GTCTACCGAGTTGATGCATTTGA 59.067 43.478 0.00 0.00 0.00 2.69
2330 5700 3.932710 TCTACCGAGTTGATGCATTTGAC 59.067 43.478 0.00 0.01 0.00 3.18
2331 5701 1.812571 ACCGAGTTGATGCATTTGACC 59.187 47.619 0.00 0.00 0.00 4.02
2332 5702 1.811965 CCGAGTTGATGCATTTGACCA 59.188 47.619 0.00 0.00 0.00 4.02
2333 5703 2.159476 CCGAGTTGATGCATTTGACCAG 60.159 50.000 0.00 0.00 0.00 4.00
2334 5704 2.743664 CGAGTTGATGCATTTGACCAGA 59.256 45.455 0.00 0.00 0.00 3.86
2335 5705 3.376234 CGAGTTGATGCATTTGACCAGAT 59.624 43.478 0.00 0.00 0.00 2.90
2336 5706 4.495349 CGAGTTGATGCATTTGACCAGATC 60.495 45.833 0.00 0.00 0.00 2.75
2337 5707 4.597004 AGTTGATGCATTTGACCAGATCT 58.403 39.130 0.00 0.00 0.00 2.75
2338 5708 4.639310 AGTTGATGCATTTGACCAGATCTC 59.361 41.667 0.00 0.00 0.00 2.75
2339 5709 4.498894 TGATGCATTTGACCAGATCTCT 57.501 40.909 0.00 0.00 0.00 3.10
2340 5710 4.449131 TGATGCATTTGACCAGATCTCTC 58.551 43.478 0.00 0.00 0.00 3.20
2341 5711 4.163649 TGATGCATTTGACCAGATCTCTCT 59.836 41.667 0.00 0.00 0.00 3.10
2342 5712 4.134379 TGCATTTGACCAGATCTCTCTC 57.866 45.455 0.00 0.00 0.00 3.20
2343 5713 3.773667 TGCATTTGACCAGATCTCTCTCT 59.226 43.478 0.00 0.00 0.00 3.10
2344 5714 4.141981 TGCATTTGACCAGATCTCTCTCTC 60.142 45.833 0.00 0.00 0.00 3.20
2345 5715 4.099881 GCATTTGACCAGATCTCTCTCTCT 59.900 45.833 0.00 0.00 0.00 3.10
2346 5716 5.737063 GCATTTGACCAGATCTCTCTCTCTC 60.737 48.000 0.00 0.00 0.00 3.20
2347 5717 4.860802 TTGACCAGATCTCTCTCTCTCT 57.139 45.455 0.00 0.00 0.00 3.10
2348 5718 4.422073 TGACCAGATCTCTCTCTCTCTC 57.578 50.000 0.00 0.00 0.00 3.20
2349 5719 4.040047 TGACCAGATCTCTCTCTCTCTCT 58.960 47.826 0.00 0.00 0.00 3.10
2350 5720 4.101585 TGACCAGATCTCTCTCTCTCTCTC 59.898 50.000 0.00 0.00 0.00 3.20
2351 5721 4.302067 ACCAGATCTCTCTCTCTCTCTCT 58.698 47.826 0.00 0.00 0.00 3.10
2352 5722 4.346418 ACCAGATCTCTCTCTCTCTCTCTC 59.654 50.000 0.00 0.00 0.00 3.20
2353 5723 4.592351 CCAGATCTCTCTCTCTCTCTCTCT 59.408 50.000 0.00 0.00 0.00 3.10
2354 5724 5.279406 CCAGATCTCTCTCTCTCTCTCTCTC 60.279 52.000 0.00 0.00 0.00 3.20
2355 5725 5.539574 CAGATCTCTCTCTCTCTCTCTCTCT 59.460 48.000 0.00 0.00 0.00 3.10
2356 5726 5.774690 AGATCTCTCTCTCTCTCTCTCTCTC 59.225 48.000 0.00 0.00 0.00 3.20
2357 5727 5.136068 TCTCTCTCTCTCTCTCTCTCTCT 57.864 47.826 0.00 0.00 0.00 3.10
2358 5728 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2359 5729 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2360 5730 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2361 5731 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2362 5732 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2363 5733 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2364 5734 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2365 5735 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2366 5736 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2367 5737 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2368 5738 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2369 5739 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2370 5740 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2371 5741 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2372 5742 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2373 5743 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2374 5744 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2375 5745 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2376 5746 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2377 5747 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2378 5748 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2379 5749 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2380 5750 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2381 5751 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2382 5752 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2383 5753 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2384 5754 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2385 5755 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2386 5756 5.523588 TCTCTCTCTCTCTCTCTCTCTCTT 58.476 45.833 0.00 0.00 0.00 2.85
2387 5757 5.960811 TCTCTCTCTCTCTCTCTCTCTCTTT 59.039 44.000 0.00 0.00 0.00 2.52
2388 5758 6.441924 TCTCTCTCTCTCTCTCTCTCTCTTTT 59.558 42.308 0.00 0.00 0.00 2.27
2389 5759 6.409704 TCTCTCTCTCTCTCTCTCTCTTTTG 58.590 44.000 0.00 0.00 0.00 2.44
2390 5760 6.213397 TCTCTCTCTCTCTCTCTCTCTTTTGA 59.787 42.308 0.00 0.00 0.00 2.69
2391 5761 6.962182 TCTCTCTCTCTCTCTCTCTTTTGAT 58.038 40.000 0.00 0.00 0.00 2.57
2392 5762 6.825213 TCTCTCTCTCTCTCTCTCTTTTGATG 59.175 42.308 0.00 0.00 0.00 3.07
2393 5763 6.720309 TCTCTCTCTCTCTCTCTTTTGATGA 58.280 40.000 0.00 0.00 0.00 2.92
2394 5764 7.348815 TCTCTCTCTCTCTCTCTTTTGATGAT 58.651 38.462 0.00 0.00 0.00 2.45
2395 5765 7.283807 TCTCTCTCTCTCTCTCTTTTGATGATG 59.716 40.741 0.00 0.00 0.00 3.07
2396 5766 6.321945 TCTCTCTCTCTCTCTTTTGATGATGG 59.678 42.308 0.00 0.00 0.00 3.51
2397 5767 5.021033 TCTCTCTCTCTTTTGATGATGGC 57.979 43.478 0.00 0.00 0.00 4.40
2398 5768 4.468868 TCTCTCTCTCTTTTGATGATGGCA 59.531 41.667 0.00 0.00 0.00 4.92
2399 5769 5.130643 TCTCTCTCTCTTTTGATGATGGCAT 59.869 40.000 0.00 0.00 37.47 4.40
2400 5770 5.752650 TCTCTCTCTTTTGATGATGGCATT 58.247 37.500 0.00 0.00 34.11 3.56
2401 5771 6.185511 TCTCTCTCTTTTGATGATGGCATTT 58.814 36.000 0.00 0.00 34.11 2.32
2402 5772 6.318144 TCTCTCTCTTTTGATGATGGCATTTC 59.682 38.462 0.00 2.85 34.11 2.17
2403 5773 6.185511 TCTCTCTTTTGATGATGGCATTTCT 58.814 36.000 0.00 0.00 34.11 2.52
2404 5774 6.318144 TCTCTCTTTTGATGATGGCATTTCTC 59.682 38.462 0.00 0.00 34.11 2.87
2405 5775 6.185511 TCTCTTTTGATGATGGCATTTCTCT 58.814 36.000 0.00 0.00 34.11 3.10
2406 5776 6.662234 TCTCTTTTGATGATGGCATTTCTCTT 59.338 34.615 0.00 0.00 34.11 2.85
2407 5777 7.177921 TCTCTTTTGATGATGGCATTTCTCTTT 59.822 33.333 0.00 0.00 34.11 2.52
2408 5778 7.673180 TCTTTTGATGATGGCATTTCTCTTTT 58.327 30.769 0.00 0.00 34.11 2.27
2409 5779 8.152246 TCTTTTGATGATGGCATTTCTCTTTTT 58.848 29.630 0.00 0.00 34.11 1.94
2432 5802 6.872585 TTTTTAGGAATGGCCATGAGATTT 57.127 33.333 21.63 1.96 40.02 2.17
2433 5803 6.469782 TTTTAGGAATGGCCATGAGATTTC 57.530 37.500 21.63 12.65 40.02 2.17
2434 5804 3.967467 AGGAATGGCCATGAGATTTCT 57.033 42.857 21.63 4.76 40.02 2.52
2435 5805 3.830121 AGGAATGGCCATGAGATTTCTC 58.170 45.455 21.63 10.23 40.44 2.87
2436 5806 3.462579 AGGAATGGCCATGAGATTTCTCT 59.537 43.478 21.63 9.03 40.57 3.10
2437 5807 3.819902 GGAATGGCCATGAGATTTCTCTC 59.180 47.826 21.63 8.64 41.61 3.20
2449 5819 6.243811 GAGATTTCTCTCATCATGAATGGC 57.756 41.667 0.00 0.00 46.13 4.40
2450 5820 4.755629 AGATTTCTCTCATCATGAATGGCG 59.244 41.667 0.00 0.00 35.94 5.69
2451 5821 3.825143 TTCTCTCATCATGAATGGCGA 57.175 42.857 0.00 0.00 35.94 5.54
2452 5822 4.347360 TTCTCTCATCATGAATGGCGAT 57.653 40.909 0.00 0.00 35.94 4.58
2453 5823 3.660865 TCTCTCATCATGAATGGCGATG 58.339 45.455 0.00 0.00 38.29 3.84
2454 5824 3.070590 TCTCTCATCATGAATGGCGATGT 59.929 43.478 0.00 0.00 38.15 3.06
2455 5825 4.281688 TCTCTCATCATGAATGGCGATGTA 59.718 41.667 0.00 0.00 38.15 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 2715 2.093658 TGAGAGGTCTAATGGCGGAAAC 60.094 50.000 0.00 0.00 0.00 2.78
53 2739 5.590530 TGATCTAGTTTCAAGGAGCTCTC 57.409 43.478 14.64 3.76 0.00 3.20
63 2749 7.795047 ACATATCCACACATGATCTAGTTTCA 58.205 34.615 0.00 1.55 0.00 2.69
77 2763 8.419076 AAAAGTTTGTCAAAACATATCCACAC 57.581 30.769 0.00 0.00 46.80 3.82
104 2790 7.667557 TCTTGTAGCACTAAAGTTACACAGAT 58.332 34.615 0.00 0.00 0.00 2.90
109 2795 6.584488 TGGTTCTTGTAGCACTAAAGTTACA 58.416 36.000 0.00 0.00 0.00 2.41
128 2814 2.646121 CCAAGCAGGGAGTTGGTTC 58.354 57.895 0.00 0.00 38.77 3.62
136 2822 0.889186 GAAAGCGAACCAAGCAGGGA 60.889 55.000 0.10 0.00 43.89 4.20
152 2838 2.170166 GGACAACTGGCATCATGGAAA 58.830 47.619 0.00 0.00 0.00 3.13
178 2864 5.867716 GGTCATTGTAGACAACTTACGACAT 59.132 40.000 0.00 0.00 40.29 3.06
179 2865 5.224888 GGTCATTGTAGACAACTTACGACA 58.775 41.667 0.00 0.00 40.29 4.35
191 2877 4.708421 AGCCTACTTTACGGTCATTGTAGA 59.292 41.667 0.00 0.00 31.82 2.59
299 3018 2.968675 TGGCTACCTCGAAAACTAAGC 58.031 47.619 0.00 0.00 0.00 3.09
301 3020 4.339872 TGTTGGCTACCTCGAAAACTAA 57.660 40.909 0.00 0.00 0.00 2.24
304 3023 4.501071 TCTATGTTGGCTACCTCGAAAAC 58.499 43.478 0.00 0.00 0.00 2.43
311 3030 4.000988 CGTTGTTTCTATGTTGGCTACCT 58.999 43.478 0.00 0.00 0.00 3.08
322 3041 8.836268 TGGAAGTTGTATAACGTTGTTTCTAT 57.164 30.769 11.99 0.00 41.71 1.98
326 3045 7.764331 ACTTTGGAAGTTGTATAACGTTGTTT 58.236 30.769 11.99 0.00 39.04 2.83
365 3084 3.243134 GGTCGTCTACCTTAGTGATGCTC 60.243 52.174 0.00 0.00 45.75 4.26
384 3103 4.463186 AGGTGTACACTTCACTATGAGGTC 59.537 45.833 24.55 3.71 34.25 3.85
422 3141 4.098501 GCCTTCCATGATTTCTAAGTTGGG 59.901 45.833 0.00 0.00 0.00 4.12
441 3160 1.410153 CAGCAGTCCAAAAGTTGCCTT 59.590 47.619 0.00 0.00 37.26 4.35
481 3200 3.123621 GTCTGTCTTGAAGTTGCATACCG 59.876 47.826 0.00 0.00 0.00 4.02
505 3224 2.032987 ACCCCTTAAACACGGGCG 59.967 61.111 0.00 0.00 40.86 6.13
506 3225 0.323087 ATGACCCCTTAAACACGGGC 60.323 55.000 0.00 0.00 40.86 6.13
508 3227 4.439563 GCAAATATGACCCCTTAAACACGG 60.440 45.833 0.00 0.00 0.00 4.94
509 3228 4.398044 AGCAAATATGACCCCTTAAACACG 59.602 41.667 0.00 0.00 0.00 4.49
510 3229 5.914898 AGCAAATATGACCCCTTAAACAC 57.085 39.130 0.00 0.00 0.00 3.32
512 3231 7.255486 GGACATAGCAAATATGACCCCTTAAAC 60.255 40.741 2.05 0.00 45.52 2.01
514 3233 6.303839 GGACATAGCAAATATGACCCCTTAA 58.696 40.000 2.05 0.00 45.52 1.85
516 3235 4.729868 GGACATAGCAAATATGACCCCTT 58.270 43.478 2.05 0.00 45.52 3.95
517 3236 4.373156 GGACATAGCAAATATGACCCCT 57.627 45.455 2.05 0.00 45.52 4.79
520 3239 2.484264 GCCGGACATAGCAAATATGACC 59.516 50.000 5.05 4.46 46.84 4.02
521 3240 3.187227 CAGCCGGACATAGCAAATATGAC 59.813 47.826 5.05 0.00 43.54 3.06
522 3241 3.181455 ACAGCCGGACATAGCAAATATGA 60.181 43.478 5.05 0.00 43.54 2.15
523 3242 3.141398 ACAGCCGGACATAGCAAATATG 58.859 45.455 5.05 0.00 45.86 1.78
524 3243 3.492102 ACAGCCGGACATAGCAAATAT 57.508 42.857 5.05 0.00 0.00 1.28
525 3244 3.639561 TCTACAGCCGGACATAGCAAATA 59.360 43.478 5.05 0.00 0.00 1.40
526 3245 2.434336 TCTACAGCCGGACATAGCAAAT 59.566 45.455 5.05 0.00 0.00 2.32
527 3246 1.828595 TCTACAGCCGGACATAGCAAA 59.171 47.619 5.05 0.00 0.00 3.68
529 3248 1.341209 CATCTACAGCCGGACATAGCA 59.659 52.381 5.05 0.00 0.00 3.49
530 3249 1.937108 GCATCTACAGCCGGACATAGC 60.937 57.143 5.05 0.00 0.00 2.97
531 3250 1.615883 AGCATCTACAGCCGGACATAG 59.384 52.381 5.05 2.39 0.00 2.23
532 3251 1.613925 GAGCATCTACAGCCGGACATA 59.386 52.381 5.05 0.00 0.00 2.29
533 3252 0.390860 GAGCATCTACAGCCGGACAT 59.609 55.000 5.05 0.00 0.00 3.06
535 3254 0.249238 CTGAGCATCTACAGCCGGAC 60.249 60.000 5.05 0.00 34.92 4.79
536 3255 0.684479 ACTGAGCATCTACAGCCGGA 60.684 55.000 5.05 0.00 37.61 5.14
537 3256 0.529337 CACTGAGCATCTACAGCCGG 60.529 60.000 0.00 0.00 37.61 6.13
538 3257 0.174389 ACACTGAGCATCTACAGCCG 59.826 55.000 0.00 0.00 37.61 5.52
539 3258 1.066573 ACACACTGAGCATCTACAGCC 60.067 52.381 0.00 0.00 37.61 4.85
540 3259 2.376808 ACACACTGAGCATCTACAGC 57.623 50.000 0.00 0.00 37.61 4.40
542 3261 4.336280 AGTCTACACACTGAGCATCTACA 58.664 43.478 0.00 0.00 34.92 2.74
543 3262 4.495019 CGAGTCTACACACTGAGCATCTAC 60.495 50.000 0.00 0.00 34.92 2.59
545 3264 2.421775 CGAGTCTACACACTGAGCATCT 59.578 50.000 0.00 0.00 34.92 2.90
546 3265 2.478709 CCGAGTCTACACACTGAGCATC 60.479 54.545 0.00 0.00 0.00 3.91
547 3266 1.474478 CCGAGTCTACACACTGAGCAT 59.526 52.381 0.00 0.00 0.00 3.79
548 3267 0.881796 CCGAGTCTACACACTGAGCA 59.118 55.000 0.00 0.00 0.00 4.26
550 3269 0.171455 GCCCGAGTCTACACACTGAG 59.829 60.000 0.00 0.00 0.00 3.35
551 3270 1.248785 GGCCCGAGTCTACACACTGA 61.249 60.000 0.00 0.00 0.00 3.41
552 3271 1.215647 GGCCCGAGTCTACACACTG 59.784 63.158 0.00 0.00 0.00 3.66
556 3809 1.668101 CCTCTGGCCCGAGTCTACAC 61.668 65.000 21.26 0.00 0.00 2.90
564 3817 0.541863 GAAAGATTCCTCTGGCCCGA 59.458 55.000 0.00 0.00 0.00 5.14
590 3843 6.324254 TGAATCCATTCACCAAATGCATCATA 59.676 34.615 0.00 0.00 42.96 2.15
709 3962 4.268884 GGTATGTCATCTTTCGCTGTCTTC 59.731 45.833 0.00 0.00 0.00 2.87
721 3974 3.682858 CGGTTTCGTTTGGTATGTCATCT 59.317 43.478 0.00 0.00 0.00 2.90
726 3979 0.513820 CGCGGTTTCGTTTGGTATGT 59.486 50.000 0.00 0.00 38.89 2.29
747 4000 4.579454 TTTGTCTCCTAATCGATACCCG 57.421 45.455 0.00 0.00 40.25 5.28
788 4041 1.975660 TCCCTTGTTTCCGGTTTCTG 58.024 50.000 0.00 0.00 0.00 3.02
835 4096 2.821969 TCTGGTGGTCTTTAGTACCGAC 59.178 50.000 0.00 0.00 40.08 4.79
836 4097 3.159213 TCTGGTGGTCTTTAGTACCGA 57.841 47.619 0.00 0.00 40.08 4.69
837 4098 3.947910 TTCTGGTGGTCTTTAGTACCG 57.052 47.619 0.00 0.00 40.08 4.02
839 4100 4.224370 TCCCATTCTGGTGGTCTTTAGTAC 59.776 45.833 0.00 0.00 37.57 2.73
840 4101 4.431378 TCCCATTCTGGTGGTCTTTAGTA 58.569 43.478 0.00 0.00 37.57 1.82
842 4103 4.265073 CTTCCCATTCTGGTGGTCTTTAG 58.735 47.826 0.00 0.00 37.57 1.85
843 4104 3.561313 GCTTCCCATTCTGGTGGTCTTTA 60.561 47.826 0.00 0.00 37.57 1.85
847 4108 1.026718 CGCTTCCCATTCTGGTGGTC 61.027 60.000 0.00 0.00 37.57 4.02
848 4109 1.002134 CGCTTCCCATTCTGGTGGT 60.002 57.895 0.00 0.00 37.57 4.16
849 4110 0.322456 TTCGCTTCCCATTCTGGTGG 60.322 55.000 0.00 0.00 35.17 4.61
850 4111 1.470098 CTTTCGCTTCCCATTCTGGTG 59.530 52.381 0.00 0.00 35.17 4.17
861 4122 1.807142 CTTGGAAGGTCCTTTCGCTTC 59.193 52.381 5.36 0.00 37.46 3.86
864 4125 1.535896 GAACTTGGAAGGTCCTTTCGC 59.464 52.381 5.36 0.00 36.75 4.70
865 4126 2.808543 CAGAACTTGGAAGGTCCTTTCG 59.191 50.000 5.36 0.00 43.86 3.46
869 4130 3.459969 AGTTTCAGAACTTGGAAGGTCCT 59.540 43.478 0.63 0.00 43.48 3.85
870 4131 3.565902 CAGTTTCAGAACTTGGAAGGTCC 59.434 47.826 0.63 0.00 43.48 4.46
880 4141 2.289002 CGCTTGCTTCAGTTTCAGAACT 59.711 45.455 0.00 0.00 46.85 3.01
910 4171 2.352915 GGACGATGAGAGCGAGCG 60.353 66.667 0.00 0.00 0.00 5.03
918 4179 6.475727 ACGTTCAATTTATACAGGACGATGAG 59.524 38.462 0.00 0.00 0.00 2.90
956 4218 2.974698 AAGTGCTGGCTGTGACGC 60.975 61.111 0.00 0.00 0.00 5.19
981 4245 1.982660 TGGTACTGATCGCCTCTAGG 58.017 55.000 0.00 0.00 38.53 3.02
995 4259 4.857251 CGGAGGAAGCCATGGTAC 57.143 61.111 14.67 5.05 0.00 3.34
1317 4587 1.383803 GAGCATGTCCCCCTCCTCT 60.384 63.158 0.00 0.00 0.00 3.69
1377 4656 3.414700 CCGTCAAGAGCACCACGC 61.415 66.667 0.00 0.00 42.91 5.34
1379 4658 3.414700 CGCCGTCAAGAGCACCAC 61.415 66.667 0.00 0.00 0.00 4.16
1428 4755 2.044946 CCAAGCCCCTTCCTTCCG 60.045 66.667 0.00 0.00 0.00 4.30
1505 4861 3.928005 ACTCATGAAGCATCACAGGAT 57.072 42.857 0.00 0.00 38.69 3.24
1538 4894 2.032528 CCTCCCAGCTTCGCAACA 59.967 61.111 0.00 0.00 0.00 3.33
1672 5030 9.263538 TGTGTCACGTTTACTCATAAAGTTAAT 57.736 29.630 0.00 0.00 39.55 1.40
1673 5031 8.542132 GTGTGTCACGTTTACTCATAAAGTTAA 58.458 33.333 0.00 0.00 39.55 2.01
1686 5044 2.708051 TGGGTTTGTGTGTCACGTTTA 58.292 42.857 0.00 0.00 37.14 2.01
1718 5077 7.012515 CACTCTGATATTTACCGTGTCTAGTCT 59.987 40.741 0.00 0.00 0.00 3.24
1733 5092 6.305272 ACACTGTGATTCCACTCTGATATT 57.695 37.500 15.86 0.00 43.55 1.28
1754 5113 3.263489 TCGTGGTTGGTTTGTCTTACA 57.737 42.857 0.00 0.00 0.00 2.41
1981 5348 2.743928 CCAGCCTTGACGTGAGCC 60.744 66.667 0.00 0.00 0.00 4.70
2044 5411 0.392998 GTCCATTGCATCCCACGTCT 60.393 55.000 0.00 0.00 0.00 4.18
2075 5445 3.256631 GGCATTTCATCAAACAGGTCACT 59.743 43.478 0.00 0.00 0.00 3.41
2104 5474 3.017581 CTTCCCCCACCCCCTCTG 61.018 72.222 0.00 0.00 0.00 3.35
2154 5524 6.350277 CCGACACCAGATTAGAGTAAGAAACT 60.350 42.308 0.00 0.00 42.80 2.66
2157 5527 5.125097 GTCCGACACCAGATTAGAGTAAGAA 59.875 44.000 0.00 0.00 0.00 2.52
2160 5530 3.376234 CGTCCGACACCAGATTAGAGTAA 59.624 47.826 0.00 0.00 0.00 2.24
2162 5532 1.743958 CGTCCGACACCAGATTAGAGT 59.256 52.381 0.00 0.00 0.00 3.24
2170 5540 2.427232 TAACTTTCGTCCGACACCAG 57.573 50.000 0.00 0.00 0.00 4.00
2181 5551 5.796350 ATCTCAAAACCGGATAACTTTCG 57.204 39.130 9.46 0.00 0.00 3.46
2203 5573 5.878406 TTGTTGAAATTAAGCCCCTCAAA 57.122 34.783 0.00 0.00 0.00 2.69
2244 5614 7.384115 TCATGTTTGCCTAAAGTCTATATACGC 59.616 37.037 0.00 0.00 0.00 4.42
2246 5616 8.700644 CGTCATGTTTGCCTAAAGTCTATATAC 58.299 37.037 0.00 0.00 0.00 1.47
2258 5628 0.687920 TGGTCCGTCATGTTTGCCTA 59.312 50.000 0.00 0.00 0.00 3.93
2262 5632 7.973388 ACATATATTTTTGGTCCGTCATGTTTG 59.027 33.333 0.00 0.00 0.00 2.93
2267 5637 8.519799 AGAAACATATATTTTTGGTCCGTCAT 57.480 30.769 1.59 0.00 0.00 3.06
2293 5663 7.325660 ACTCGGTAGACGTTATCATAAAAGA 57.674 36.000 0.00 0.00 44.69 2.52
2304 5674 1.271379 TGCATCAACTCGGTAGACGTT 59.729 47.619 0.00 0.00 44.69 3.99
2327 5697 4.040047 AGAGAGAGAGAGAGATCTGGTCA 58.960 47.826 0.00 0.00 0.00 4.02
2328 5698 4.346418 AGAGAGAGAGAGAGAGATCTGGTC 59.654 50.000 0.00 0.00 0.00 4.02
2329 5699 4.302067 AGAGAGAGAGAGAGAGATCTGGT 58.698 47.826 0.00 0.00 0.00 4.00
2330 5700 4.592351 AGAGAGAGAGAGAGAGAGATCTGG 59.408 50.000 0.00 0.00 0.00 3.86
2331 5701 5.539574 AGAGAGAGAGAGAGAGAGAGATCTG 59.460 48.000 0.00 0.00 0.00 2.90
2332 5702 5.714863 AGAGAGAGAGAGAGAGAGAGATCT 58.285 45.833 0.00 0.00 0.00 2.75
2333 5703 5.774690 AGAGAGAGAGAGAGAGAGAGAGATC 59.225 48.000 0.00 0.00 0.00 2.75
2334 5704 5.714863 AGAGAGAGAGAGAGAGAGAGAGAT 58.285 45.833 0.00 0.00 0.00 2.75
2335 5705 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2336 5706 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2337 5707 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2338 5708 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2339 5709 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2340 5710 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2341 5711 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2342 5712 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2343 5713 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2344 5714 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2345 5715 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2346 5716 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2347 5717 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2348 5718 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2349 5719 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2350 5720 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2351 5721 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2352 5722 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2353 5723 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2354 5724 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2355 5725 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2356 5726 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2357 5727 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2358 5728 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2359 5729 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2360 5730 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2361 5731 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2362 5732 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2363 5733 5.136068 AGAGAGAGAGAGAGAGAGAGAGA 57.864 47.826 0.00 0.00 0.00 3.10
2364 5734 5.867903 AAGAGAGAGAGAGAGAGAGAGAG 57.132 47.826 0.00 0.00 0.00 3.20
2365 5735 6.213397 TCAAAAGAGAGAGAGAGAGAGAGAGA 59.787 42.308 0.00 0.00 0.00 3.10
2366 5736 6.409704 TCAAAAGAGAGAGAGAGAGAGAGAG 58.590 44.000 0.00 0.00 0.00 3.20
2367 5737 6.373005 TCAAAAGAGAGAGAGAGAGAGAGA 57.627 41.667 0.00 0.00 0.00 3.10
2368 5738 6.825213 TCATCAAAAGAGAGAGAGAGAGAGAG 59.175 42.308 0.00 0.00 0.00 3.20
2369 5739 6.720309 TCATCAAAAGAGAGAGAGAGAGAGA 58.280 40.000 0.00 0.00 0.00 3.10
2370 5740 7.423199 CATCATCAAAAGAGAGAGAGAGAGAG 58.577 42.308 0.00 0.00 0.00 3.20
2371 5741 6.321945 CCATCATCAAAAGAGAGAGAGAGAGA 59.678 42.308 0.00 0.00 0.00 3.10
2372 5742 6.509656 CCATCATCAAAAGAGAGAGAGAGAG 58.490 44.000 0.00 0.00 0.00 3.20
2373 5743 5.163426 GCCATCATCAAAAGAGAGAGAGAGA 60.163 44.000 0.00 0.00 0.00 3.10
2374 5744 5.051816 GCCATCATCAAAAGAGAGAGAGAG 58.948 45.833 0.00 0.00 0.00 3.20
2375 5745 4.468868 TGCCATCATCAAAAGAGAGAGAGA 59.531 41.667 0.00 0.00 0.00 3.10
2376 5746 4.767478 TGCCATCATCAAAAGAGAGAGAG 58.233 43.478 0.00 0.00 0.00 3.20
2377 5747 4.831674 TGCCATCATCAAAAGAGAGAGA 57.168 40.909 0.00 0.00 0.00 3.10
2378 5748 6.319152 AGAAATGCCATCATCAAAAGAGAGAG 59.681 38.462 0.00 0.00 31.27 3.20
2379 5749 6.185511 AGAAATGCCATCATCAAAAGAGAGA 58.814 36.000 0.00 0.00 31.27 3.10
2380 5750 6.319152 AGAGAAATGCCATCATCAAAAGAGAG 59.681 38.462 0.00 0.00 31.27 3.20
2381 5751 6.185511 AGAGAAATGCCATCATCAAAAGAGA 58.814 36.000 0.00 0.00 31.27 3.10
2382 5752 6.452494 AGAGAAATGCCATCATCAAAAGAG 57.548 37.500 0.00 0.00 31.27 2.85
2383 5753 6.845758 AAGAGAAATGCCATCATCAAAAGA 57.154 33.333 0.00 0.00 31.27 2.52
2384 5754 7.900782 AAAAGAGAAATGCCATCATCAAAAG 57.099 32.000 0.00 0.00 31.27 2.27
2409 5779 6.669154 AGAAATCTCATGGCCATTCCTAAAAA 59.331 34.615 17.92 0.00 35.26 1.94
2410 5780 6.197168 AGAAATCTCATGGCCATTCCTAAAA 58.803 36.000 17.92 0.00 35.26 1.52
2411 5781 5.769835 AGAAATCTCATGGCCATTCCTAAA 58.230 37.500 17.92 0.00 35.26 1.85
2412 5782 5.133322 AGAGAAATCTCATGGCCATTCCTAA 59.867 40.000 17.92 0.00 45.21 2.69
2413 5783 4.662179 AGAGAAATCTCATGGCCATTCCTA 59.338 41.667 17.92 2.00 45.21 2.94
2414 5784 3.462579 AGAGAAATCTCATGGCCATTCCT 59.537 43.478 17.92 7.49 45.21 3.36
2415 5785 3.819902 GAGAGAAATCTCATGGCCATTCC 59.180 47.826 17.92 5.31 45.21 3.01
2416 5786 4.458397 TGAGAGAAATCTCATGGCCATTC 58.542 43.478 17.92 11.18 45.21 2.67
2417 5787 4.515028 TGAGAGAAATCTCATGGCCATT 57.485 40.909 17.92 0.00 45.21 3.16
2426 5796 5.107026 CGCCATTCATGATGAGAGAAATCTC 60.107 44.000 0.00 2.10 38.03 2.75
2427 5797 4.755629 CGCCATTCATGATGAGAGAAATCT 59.244 41.667 0.00 0.00 38.03 2.40
2428 5798 4.753610 TCGCCATTCATGATGAGAGAAATC 59.246 41.667 0.00 0.00 38.03 2.17
2429 5799 4.711399 TCGCCATTCATGATGAGAGAAAT 58.289 39.130 0.00 0.00 38.03 2.17
2430 5800 4.141233 TCGCCATTCATGATGAGAGAAA 57.859 40.909 0.00 0.00 38.03 2.52
2431 5801 3.825143 TCGCCATTCATGATGAGAGAA 57.175 42.857 0.00 0.00 38.03 2.87
2432 5802 3.070590 ACATCGCCATTCATGATGAGAGA 59.929 43.478 8.30 0.00 41.54 3.10
2433 5803 3.400255 ACATCGCCATTCATGATGAGAG 58.600 45.455 8.30 0.00 41.54 3.20
2434 5804 3.480505 ACATCGCCATTCATGATGAGA 57.519 42.857 8.30 0.00 41.54 3.27


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

AutoCloner maintained by Alex Coulton.