Multiple sequence alignment - TraesCS4B01G091000

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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 TraesCS4B01G091000 chr4B 100.000 5079 0 0 1 5079 93743740 93738662 0.000000e+00 9380.0
1 TraesCS4B01G091000 chr4B 99.408 169 1 0 4359 4527 664170923 664170755 1.780000e-79 307.0
2 TraesCS4B01G091000 chr4B 89.238 223 12 4 3347 3569 211590750 211590960 8.380000e-68 268.0
3 TraesCS4B01G091000 chr4B 100.000 33 0 0 3607 3639 211590980 211591012 1.530000e-05 62.1
4 TraesCS4B01G091000 chr4A 89.898 2554 186 32 1 2525 533009788 533012298 0.000000e+00 3221.0
5 TraesCS4B01G091000 chr4A 96.459 1864 55 5 2504 4361 533014214 533016072 0.000000e+00 3066.0
6 TraesCS4B01G091000 chr4A 95.122 287 11 2 4523 4806 533016074 533016360 2.790000e-122 449.0
7 TraesCS4B01G091000 chr4A 94.012 167 10 0 4360 4526 517406633 517406467 2.350000e-63 254.0
8 TraesCS4B01G091000 chr4A 95.000 80 4 0 4908 4987 533016413 533016492 5.340000e-25 126.0
9 TraesCS4B01G091000 chr4D 88.338 1998 151 39 1 1933 63235676 63233696 0.000000e+00 2324.0
10 TraesCS4B01G091000 chr4D 95.016 1224 36 11 1950 3164 63232844 63231637 0.000000e+00 1899.0
11 TraesCS4B01G091000 chr4D 94.024 1071 38 4 3298 4363 63231527 63230478 0.000000e+00 1600.0
12 TraesCS4B01G091000 chr4D 96.959 296 9 0 4520 4815 63230481 63230186 9.820000e-137 497.0
13 TraesCS4B01G091000 chr4D 82.671 277 26 11 4802 5078 63228743 63228489 5.120000e-55 226.0
14 TraesCS4B01G091000 chr4D 94.521 73 4 0 3163 3235 63231601 63231529 4.160000e-21 113.0
15 TraesCS4B01G091000 chr7B 96.407 167 6 0 4360 4526 384970820 384970654 5.010000e-70 276.0
16 TraesCS4B01G091000 chr6B 94.578 166 9 0 4358 4523 720912053 720912218 1.810000e-64 257.0
17 TraesCS4B01G091000 chr5B 94.545 165 9 0 4358 4522 490757409 490757573 6.530000e-64 255.0
18 TraesCS4B01G091000 chr5B 90.811 185 14 3 4355 4538 82456984 82456802 1.410000e-60 244.0
19 TraesCS4B01G091000 chrUn 93.529 170 10 1 4358 4527 141680743 141680911 8.440000e-63 252.0
20 TraesCS4B01G091000 chr3B 93.529 170 10 1 4357 4525 112325132 112325301 8.440000e-63 252.0
21 TraesCS4B01G091000 chr1D 93.064 173 10 2 4360 4531 415400244 415400073 8.440000e-63 252.0
22 TraesCS4B01G091000 chr5A 81.783 258 39 3 4821 5078 24200238 24200487 5.150000e-50 209.0
23 TraesCS4B01G091000 chr5A 91.071 56 3 2 5022 5076 450214440 450214494 1.960000e-09 75.0
24 TraesCS4B01G091000 chr5D 83.246 191 30 1 4826 5014 424623230 424623420 1.880000e-39 174.0
25 TraesCS4B01G091000 chr3A 76.953 256 36 6 4824 5078 658056385 658056152 1.920000e-24 124.0
26 TraesCS4B01G091000 chr1B 87.500 80 8 2 4908 4987 523044264 523044187 1.950000e-14 91.6
27 TraesCS4B01G091000 chr1A 94.286 35 1 1 4826 4859 505093024 505092990 9.000000e-03 52.8


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 TraesCS4B01G091000 chr4B 93738662 93743740 5078 True 9380.000000 9380 100.00000 1 5079 1 chr4B.!!$R1 5078
1 TraesCS4B01G091000 chr4A 533009788 533016492 6704 False 1715.500000 3221 94.11975 1 4987 4 chr4A.!!$F1 4986
2 TraesCS4B01G091000 chr4D 63228489 63235676 7187 True 1109.833333 2324 91.92150 1 5078 6 chr4D.!!$R1 5077

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
725 762 0.176680 CATCACGAGGAGAGGGTTGG 59.823 60.000 0.00 0.0 0.00 3.77 F
1511 1582 1.464997 GTTTCAGATGGACGCCTTCAC 59.535 52.381 12.12 1.6 31.13 3.18 F
2567 5415 1.164411 CTTGGTTCATTAGTGGCGCA 58.836 50.000 10.83 0.0 0.00 6.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1855 1926 1.066502 TCTGCGAATGATGAACCGGAA 60.067 47.619 9.46 0.0 0.0 4.30 R
2659 5507 3.942829 TGATCAGGTTGTGCTAAGGAAG 58.057 45.455 0.00 0.0 0.0 3.46 R
4362 7257 1.209504 TGCATTTAGGAACGGAGGGAG 59.790 52.381 0.00 0.0 0.0 4.30 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
54 55 2.623878 TGGCTCGTTTTGACCACTTA 57.376 45.000 0.00 0.00 0.00 2.24
55 56 3.134574 TGGCTCGTTTTGACCACTTAT 57.865 42.857 0.00 0.00 0.00 1.73
56 57 3.071479 TGGCTCGTTTTGACCACTTATC 58.929 45.455 0.00 0.00 0.00 1.75
57 58 2.093783 GGCTCGTTTTGACCACTTATCG 59.906 50.000 0.00 0.00 0.00 2.92
78 81 0.387750 GAGTCGTCGGGTTTAAGCGT 60.388 55.000 0.00 0.00 0.00 5.07
99 109 4.552767 CGTTGAGATCAAATATTCGTGCCC 60.553 45.833 0.00 0.00 37.63 5.36
117 129 4.047125 CCCAACGGGCCTCACCAT 62.047 66.667 0.84 0.00 42.05 3.55
118 130 2.035626 CCAACGGGCCTCACCATT 59.964 61.111 0.84 0.00 42.05 3.16
122 134 3.727258 CGGGCCTCACCATTGGGA 61.727 66.667 7.78 0.84 42.05 4.37
150 162 6.207614 GCAGATAAAACAGAAGGAAAAGGAGT 59.792 38.462 0.00 0.00 0.00 3.85
153 165 8.166726 AGATAAAACAGAAGGAAAAGGAGTCAT 58.833 33.333 0.00 0.00 0.00 3.06
155 167 4.713792 ACAGAAGGAAAAGGAGTCATGT 57.286 40.909 0.00 0.00 0.00 3.21
169 181 2.297315 AGTCATGTCAGCTTGAACTCGA 59.703 45.455 0.00 0.00 31.80 4.04
187 199 9.333724 TGAACTCGAAAACTTAGGTTAGAAAAT 57.666 29.630 0.00 0.00 34.90 1.82
188 200 9.595357 GAACTCGAAAACTTAGGTTAGAAAATG 57.405 33.333 0.00 0.00 34.90 2.32
216 228 2.254152 AAGATACTCAGGAGCACCCA 57.746 50.000 0.00 0.00 37.41 4.51
218 230 2.551270 AGATACTCAGGAGCACCCAAA 58.449 47.619 0.00 0.00 37.41 3.28
228 240 4.454948 CACCCAAACTCTCGTGCA 57.545 55.556 0.00 0.00 0.00 4.57
231 243 1.371183 CCCAAACTCTCGTGCAGGA 59.629 57.895 9.07 9.07 0.00 3.86
232 244 0.951040 CCCAAACTCTCGTGCAGGAC 60.951 60.000 4.68 0.00 0.00 3.85
277 292 4.203226 TGTTACTCACATGCTTCCAACAA 58.797 39.130 0.00 0.00 0.00 2.83
314 329 2.729194 ACTCGTAGTGATGAGCCTTCT 58.271 47.619 0.00 0.00 41.77 2.85
325 340 3.051940 TGAGCCTTCTATGATGTCCCT 57.948 47.619 0.00 0.00 0.00 4.20
464 501 0.700564 ATCCACCAGCCTGACATGTT 59.299 50.000 0.00 0.00 0.00 2.71
488 525 0.591659 GTTCACCGACTCCTTTTGGC 59.408 55.000 0.00 0.00 40.12 4.52
564 601 2.224185 CCGACGATATGGGTTGATTCCA 60.224 50.000 0.00 0.00 38.82 3.53
567 604 1.800586 CGATATGGGTTGATTCCAGCG 59.199 52.381 0.00 0.00 37.75 5.18
569 606 2.325583 TATGGGTTGATTCCAGCGAC 57.674 50.000 0.00 0.00 37.75 5.19
573 610 2.032634 GTTGATTCCAGCGACGGCA 61.033 57.895 0.00 0.00 43.41 5.69
591 628 4.849329 ACGACCGGCGAGCGAATC 62.849 66.667 23.62 0.00 44.57 2.52
592 629 4.847516 CGACCGGCGAGCGAATCA 62.848 66.667 9.30 0.00 44.57 2.57
602 639 1.212616 GAGCGAATCAGAATGGGACG 58.787 55.000 0.00 0.00 36.16 4.79
609 646 1.995626 CAGAATGGGACGGGAGGGT 60.996 63.158 0.00 0.00 0.00 4.34
611 648 1.993391 GAATGGGACGGGAGGGTGA 60.993 63.158 0.00 0.00 0.00 4.02
623 660 0.820871 GAGGGTGACAGAGGCTACAG 59.179 60.000 0.00 0.00 0.00 2.74
692 729 2.932622 GCCGACATTGATGTGAGTGAGT 60.933 50.000 0.57 0.00 41.95 3.41
725 762 0.176680 CATCACGAGGAGAGGGTTGG 59.823 60.000 0.00 0.00 0.00 3.77
838 879 6.041182 GGAGTTAAAGCTTTTTAAGGGTGGAA 59.959 38.462 18.47 0.00 0.00 3.53
839 880 7.256190 GGAGTTAAAGCTTTTTAAGGGTGGAAT 60.256 37.037 18.47 0.00 0.00 3.01
840 881 8.029782 AGTTAAAGCTTTTTAAGGGTGGAATT 57.970 30.769 18.47 0.00 0.00 2.17
841 882 9.150028 AGTTAAAGCTTTTTAAGGGTGGAATTA 57.850 29.630 18.47 0.00 0.00 1.40
842 883 9.938280 GTTAAAGCTTTTTAAGGGTGGAATTAT 57.062 29.630 18.47 0.00 0.00 1.28
846 887 8.306313 AGCTTTTTAAGGGTGGAATTATAAGG 57.694 34.615 0.00 0.00 0.00 2.69
848 889 9.192642 GCTTTTTAAGGGTGGAATTATAAGGTA 57.807 33.333 0.00 0.00 0.00 3.08
882 925 5.692928 AGATGCTCTGCTCTTAATGGAATT 58.307 37.500 0.00 0.00 41.28 2.17
903 946 9.561069 GGAATTATAAAGCTAGATCCAGTTTGA 57.439 33.333 0.00 0.00 0.00 2.69
950 1011 2.099062 GCAATTGCCTCGTCTGCG 59.901 61.111 20.06 0.00 35.60 5.18
1149 1219 2.441901 CTGCTCCTCCTCCTCGCT 60.442 66.667 0.00 0.00 0.00 4.93
1328 1398 2.047179 GAGGAGTTGCGGGTGGAC 60.047 66.667 0.00 0.00 0.00 4.02
1458 1528 4.893524 ACGGGTGGATTTCTTTTTCTTTCT 59.106 37.500 0.00 0.00 0.00 2.52
1511 1582 1.464997 GTTTCAGATGGACGCCTTCAC 59.535 52.381 12.12 1.60 31.13 3.18
1597 1668 2.499289 CTCTTAGCACTCCATGACAGGT 59.501 50.000 0.00 0.00 0.00 4.00
1598 1669 3.701542 CTCTTAGCACTCCATGACAGGTA 59.298 47.826 0.00 0.00 0.00 3.08
1599 1670 3.701542 TCTTAGCACTCCATGACAGGTAG 59.298 47.826 0.00 0.00 0.00 3.18
1606 1677 5.118990 CACTCCATGACAGGTAGTAATTGG 58.881 45.833 0.00 0.00 0.00 3.16
1616 1687 2.704065 GGTAGTAATTGGAGCCCTGCTA 59.296 50.000 0.00 0.00 39.88 3.49
1692 1763 1.663695 AACGGGACTGTTGACTGTTG 58.336 50.000 0.00 0.00 0.00 3.33
1751 1822 5.523552 TGCATTTGTTGTATCTATCCGTGAG 59.476 40.000 0.00 0.00 0.00 3.51
1820 1891 1.496429 ACTAATGGGCTCTGGATTGGG 59.504 52.381 0.00 0.00 0.00 4.12
1851 1922 7.060383 TGTGTACCATTTGATTTGGACATTT 57.940 32.000 0.00 0.00 37.69 2.32
2156 3067 9.330063 TGACATACTGCTTATTTTCCTAATGAG 57.670 33.333 0.00 0.00 0.00 2.90
2162 3073 9.301897 ACTGCTTATTTTCCTAATGAGAGTTTT 57.698 29.630 0.00 0.00 0.00 2.43
2235 3146 2.557924 TGGCCTGTTAGCATTGTTTGAG 59.442 45.455 3.32 0.00 0.00 3.02
2419 3330 4.448537 TGGGCCTAATTCAAAATTCACG 57.551 40.909 4.53 0.00 0.00 4.35
2564 5412 2.790433 TGGTCTTGGTTCATTAGTGGC 58.210 47.619 0.00 0.00 0.00 5.01
2567 5415 1.164411 CTTGGTTCATTAGTGGCGCA 58.836 50.000 10.83 0.00 0.00 6.09
2605 5453 3.578688 GCTACAAAAGCCAGTCAAATGG 58.421 45.455 0.00 0.00 46.25 3.16
2683 5531 3.776969 TCCTTAGCACAACCTGATCATCT 59.223 43.478 0.00 0.00 0.00 2.90
2757 5608 9.601217 GACCTTTAGTCTTCATAGATAAAAGCA 57.399 33.333 0.00 0.00 42.69 3.91
3056 5907 4.525912 AATTCTGGATGTCAAAGTTGGC 57.474 40.909 0.00 0.00 0.00 4.52
3273 6163 7.108841 GTCTGGTATATAAGACTTGACCACA 57.891 40.000 7.16 0.00 39.79 4.17
3360 6250 7.361201 GCATCTAATTGAACTTGTGCACTTCTA 60.361 37.037 19.41 10.79 0.00 2.10
3393 6283 9.173939 CTTGTTAGTTTCTGTCATTTGTCATTC 57.826 33.333 0.00 0.00 0.00 2.67
3436 6326 9.643693 AATATTACAGTTTTTGAGCAGATTTGG 57.356 29.630 0.00 0.00 0.00 3.28
3457 6347 5.192927 TGGTAAAAACCTATCCTGCATCAG 58.807 41.667 0.00 0.00 0.00 2.90
3535 6425 2.812011 GGCAAAAAGTGACGACATAGGT 59.188 45.455 0.00 0.00 0.00 3.08
3604 6494 9.162764 TCTGTATTTTCCAGCTCTTAATACAAC 57.837 33.333 15.44 0.00 39.68 3.32
3676 6566 4.451629 ACCACCTCTGTAATGTAACTCG 57.548 45.455 0.00 0.00 0.00 4.18
3840 6730 5.453903 GGTCATGCACAGGTAATGACTATCT 60.454 44.000 18.88 0.00 46.11 1.98
3844 6734 6.985188 TGCACAGGTAATGACTATCTTTTC 57.015 37.500 0.00 0.00 0.00 2.29
3973 6863 2.545532 CGACTCCATGAAGAGGATGCTC 60.546 54.545 6.03 6.03 38.26 4.26
4114 7004 0.238289 CACTGCATTTCCACGGTGAC 59.762 55.000 10.28 0.00 44.34 3.67
4121 7011 0.179234 TTTCCACGGTGACTGCTTGA 59.821 50.000 10.28 0.00 0.00 3.02
4143 7033 5.655974 TGAGTCTGCATGATAAGAGAGAAGT 59.344 40.000 0.00 0.00 0.00 3.01
4149 7039 9.360901 TCTGCATGATAAGAGAGAAGTATAACT 57.639 33.333 0.00 0.00 0.00 2.24
4268 7158 2.288666 TGAAATGAGTTATGCCTCGGC 58.711 47.619 0.00 0.00 42.35 5.54
4359 7254 2.401766 CCTGCTGTGCCAACCGATC 61.402 63.158 0.00 0.00 0.00 3.69
4360 7255 1.376424 CTGCTGTGCCAACCGATCT 60.376 57.895 0.00 0.00 0.00 2.75
4361 7256 0.108186 CTGCTGTGCCAACCGATCTA 60.108 55.000 0.00 0.00 0.00 1.98
4362 7257 0.391130 TGCTGTGCCAACCGATCTAC 60.391 55.000 0.00 0.00 0.00 2.59
4363 7258 0.108138 GCTGTGCCAACCGATCTACT 60.108 55.000 0.00 0.00 0.00 2.57
4364 7259 1.927895 CTGTGCCAACCGATCTACTC 58.072 55.000 0.00 0.00 0.00 2.59
4365 7260 0.535335 TGTGCCAACCGATCTACTCC 59.465 55.000 0.00 0.00 0.00 3.85
4366 7261 0.179081 GTGCCAACCGATCTACTCCC 60.179 60.000 0.00 0.00 0.00 4.30
4367 7262 0.325296 TGCCAACCGATCTACTCCCT 60.325 55.000 0.00 0.00 0.00 4.20
4368 7263 0.389757 GCCAACCGATCTACTCCCTC 59.610 60.000 0.00 0.00 0.00 4.30
4369 7264 1.041437 CCAACCGATCTACTCCCTCC 58.959 60.000 0.00 0.00 0.00 4.30
4370 7265 0.669077 CAACCGATCTACTCCCTCCG 59.331 60.000 0.00 0.00 0.00 4.63
4371 7266 0.258194 AACCGATCTACTCCCTCCGT 59.742 55.000 0.00 0.00 0.00 4.69
4372 7267 0.258194 ACCGATCTACTCCCTCCGTT 59.742 55.000 0.00 0.00 0.00 4.44
4373 7268 0.953003 CCGATCTACTCCCTCCGTTC 59.047 60.000 0.00 0.00 0.00 3.95
4374 7269 0.953003 CGATCTACTCCCTCCGTTCC 59.047 60.000 0.00 0.00 0.00 3.62
4375 7270 1.477195 CGATCTACTCCCTCCGTTCCT 60.477 57.143 0.00 0.00 0.00 3.36
4376 7271 2.224475 CGATCTACTCCCTCCGTTCCTA 60.224 54.545 0.00 0.00 0.00 2.94
4377 7272 3.746751 CGATCTACTCCCTCCGTTCCTAA 60.747 52.174 0.00 0.00 0.00 2.69
4378 7273 3.744940 TCTACTCCCTCCGTTCCTAAA 57.255 47.619 0.00 0.00 0.00 1.85
4379 7274 4.261411 TCTACTCCCTCCGTTCCTAAAT 57.739 45.455 0.00 0.00 0.00 1.40
4380 7275 3.958798 TCTACTCCCTCCGTTCCTAAATG 59.041 47.826 0.00 0.00 0.00 2.32
4381 7276 1.209747 ACTCCCTCCGTTCCTAAATGC 59.790 52.381 0.00 0.00 0.00 3.56
4382 7277 1.209504 CTCCCTCCGTTCCTAAATGCA 59.790 52.381 0.00 0.00 0.00 3.96
4383 7278 1.631388 TCCCTCCGTTCCTAAATGCAA 59.369 47.619 0.00 0.00 0.00 4.08
4384 7279 2.017049 CCCTCCGTTCCTAAATGCAAG 58.983 52.381 0.00 0.00 0.00 4.01
4385 7280 2.618045 CCCTCCGTTCCTAAATGCAAGT 60.618 50.000 0.00 0.00 0.00 3.16
4386 7281 2.678336 CCTCCGTTCCTAAATGCAAGTC 59.322 50.000 0.00 0.00 0.00 3.01
4387 7282 3.600388 CTCCGTTCCTAAATGCAAGTCT 58.400 45.455 0.00 0.00 0.00 3.24
4388 7283 4.003648 CTCCGTTCCTAAATGCAAGTCTT 58.996 43.478 0.00 0.00 0.00 3.01
4389 7284 4.394729 TCCGTTCCTAAATGCAAGTCTTT 58.605 39.130 0.00 0.00 0.00 2.52
4390 7285 4.825085 TCCGTTCCTAAATGCAAGTCTTTT 59.175 37.500 0.00 0.00 0.00 2.27
4391 7286 5.300792 TCCGTTCCTAAATGCAAGTCTTTTT 59.699 36.000 0.00 0.00 0.00 1.94
4392 7287 6.487331 TCCGTTCCTAAATGCAAGTCTTTTTA 59.513 34.615 0.00 0.00 0.00 1.52
4393 7288 6.801862 CCGTTCCTAAATGCAAGTCTTTTTAG 59.198 38.462 7.85 7.85 0.00 1.85
4394 7289 7.308348 CCGTTCCTAAATGCAAGTCTTTTTAGA 60.308 37.037 14.10 1.97 0.00 2.10
4395 7290 8.237267 CGTTCCTAAATGCAAGTCTTTTTAGAT 58.763 33.333 14.10 0.00 0.00 1.98
4461 7356 9.677567 TTTAAAGTGTAGATTCACTCATTTTGC 57.322 29.630 0.00 0.00 46.25 3.68
4462 7357 7.516198 AAAGTGTAGATTCACTCATTTTGCT 57.484 32.000 0.00 0.00 46.25 3.91
4463 7358 6.734104 AGTGTAGATTCACTCATTTTGCTC 57.266 37.500 0.00 0.00 44.07 4.26
4464 7359 5.645497 AGTGTAGATTCACTCATTTTGCTCC 59.355 40.000 0.00 0.00 44.07 4.70
4465 7360 4.631377 TGTAGATTCACTCATTTTGCTCCG 59.369 41.667 0.00 0.00 0.00 4.63
4466 7361 3.679389 AGATTCACTCATTTTGCTCCGT 58.321 40.909 0.00 0.00 0.00 4.69
4467 7362 4.832248 AGATTCACTCATTTTGCTCCGTA 58.168 39.130 0.00 0.00 0.00 4.02
4468 7363 5.431765 AGATTCACTCATTTTGCTCCGTAT 58.568 37.500 0.00 0.00 0.00 3.06
4469 7364 4.944962 TTCACTCATTTTGCTCCGTATG 57.055 40.909 0.00 0.00 0.00 2.39
4470 7365 3.937814 TCACTCATTTTGCTCCGTATGT 58.062 40.909 0.00 0.00 0.00 2.29
4471 7366 5.079689 TCACTCATTTTGCTCCGTATGTA 57.920 39.130 0.00 0.00 0.00 2.29
4472 7367 5.109210 TCACTCATTTTGCTCCGTATGTAG 58.891 41.667 0.00 0.00 0.00 2.74
4473 7368 5.105513 TCACTCATTTTGCTCCGTATGTAGA 60.106 40.000 0.00 0.00 0.00 2.59
4474 7369 5.005779 CACTCATTTTGCTCCGTATGTAGAC 59.994 44.000 0.00 0.00 0.00 2.59
4475 7370 5.105310 ACTCATTTTGCTCCGTATGTAGACT 60.105 40.000 0.00 0.00 0.00 3.24
4476 7371 6.096423 ACTCATTTTGCTCCGTATGTAGACTA 59.904 38.462 0.00 0.00 0.00 2.59
4477 7372 7.050970 TCATTTTGCTCCGTATGTAGACTAT 57.949 36.000 0.00 0.00 0.00 2.12
4478 7373 8.173542 TCATTTTGCTCCGTATGTAGACTATA 57.826 34.615 0.00 0.00 0.00 1.31
4479 7374 8.297426 TCATTTTGCTCCGTATGTAGACTATAG 58.703 37.037 0.00 0.00 0.00 1.31
4480 7375 7.578310 TTTTGCTCCGTATGTAGACTATAGT 57.422 36.000 4.68 4.68 0.00 2.12
4481 7376 6.555812 TTGCTCCGTATGTAGACTATAGTG 57.444 41.667 10.90 0.00 0.00 2.74
4482 7377 5.001874 TGCTCCGTATGTAGACTATAGTGG 58.998 45.833 10.90 2.64 0.00 4.00
4483 7378 5.221783 TGCTCCGTATGTAGACTATAGTGGA 60.222 44.000 10.90 7.10 0.00 4.02
4484 7379 5.704515 GCTCCGTATGTAGACTATAGTGGAA 59.295 44.000 10.90 0.00 0.00 3.53
4485 7380 6.374894 GCTCCGTATGTAGACTATAGTGGAAT 59.625 42.308 10.90 1.53 0.00 3.01
4486 7381 7.414319 GCTCCGTATGTAGACTATAGTGGAATC 60.414 44.444 10.90 0.00 0.00 2.52
4487 7382 7.687388 TCCGTATGTAGACTATAGTGGAATCT 58.313 38.462 10.90 3.16 0.00 2.40
4488 7383 7.823310 TCCGTATGTAGACTATAGTGGAATCTC 59.177 40.741 10.90 0.00 0.00 2.75
4489 7384 7.825270 CCGTATGTAGACTATAGTGGAATCTCT 59.175 40.741 10.90 1.66 0.00 3.10
4490 7385 9.872721 CGTATGTAGACTATAGTGGAATCTCTA 57.127 37.037 10.90 0.64 0.00 2.43
4516 7411 8.959705 AAAAGACTTATATTTAGGAACGGAGG 57.040 34.615 0.00 0.00 0.00 4.30
4517 7412 6.667558 AGACTTATATTTAGGAACGGAGGG 57.332 41.667 0.00 0.00 0.00 4.30
4518 7413 6.379579 AGACTTATATTTAGGAACGGAGGGA 58.620 40.000 0.00 0.00 0.00 4.20
4554 7449 5.336990 CGAAGTTTGAATAAGCGTCTGTTTG 59.663 40.000 0.00 0.00 0.00 2.93
4631 7527 0.734889 AGGTCGTGGTCGTATAACCG 59.265 55.000 0.00 0.00 42.62 4.44
4778 7676 8.621532 TGTGAATTTAAGCACAGAGAAGTTAT 57.378 30.769 0.00 0.00 39.86 1.89
4782 7680 9.548208 GAATTTAAGCACAGAGAAGTTATGAAC 57.452 33.333 0.00 0.00 0.00 3.18
4859 9213 1.138671 CAATACCCAAAAGCCGCCG 59.861 57.895 0.00 0.00 0.00 6.46
4894 9250 4.388499 GCGTCCGGGTGTGTCCAT 62.388 66.667 0.00 0.00 38.11 3.41
4895 9251 2.434185 CGTCCGGGTGTGTCCATG 60.434 66.667 0.00 0.00 38.11 3.66
4896 9252 2.938086 CGTCCGGGTGTGTCCATGA 61.938 63.158 0.00 0.00 38.11 3.07
4897 9253 1.373435 GTCCGGGTGTGTCCATGAA 59.627 57.895 0.00 0.00 38.11 2.57
4898 9254 0.953960 GTCCGGGTGTGTCCATGAAC 60.954 60.000 0.00 0.00 38.11 3.18
4899 9255 1.072332 CCGGGTGTGTCCATGAACA 59.928 57.895 0.00 0.00 38.11 3.18
4906 9271 3.244078 GGTGTGTCCATGAACAGTGACTA 60.244 47.826 0.00 0.00 35.97 2.59
4944 9309 2.616376 CGTTCTCCACAACCATGAAACA 59.384 45.455 0.00 0.00 0.00 2.83
4957 9322 4.219507 ACCATGAAACACAAACTTCACACA 59.780 37.500 0.00 0.00 34.52 3.72
5001 9366 8.746052 TGCAAATAAAAGCCTACATACTATGT 57.254 30.769 6.90 6.90 46.92 2.29
5002 9367 9.839817 TGCAAATAAAAGCCTACATACTATGTA 57.160 29.630 8.36 8.36 44.38 2.29
5009 9374 8.722622 AAAGCCTACATACTATGTACATAGGT 57.277 34.615 35.01 27.23 43.83 3.08
5010 9375 9.818270 AAAGCCTACATACTATGTACATAGGTA 57.182 33.333 35.01 26.98 43.83 3.08
5035 9400 5.733620 AGGTAAAACTACTCATTGTCGGA 57.266 39.130 0.00 0.00 0.00 4.55
5071 9436 3.303928 GCCCGGCGCTAGGTAGAT 61.304 66.667 18.31 0.00 0.00 1.98
5072 9437 2.651361 CCCGGCGCTAGGTAGATG 59.349 66.667 18.31 2.44 0.00 2.90
5078 9443 0.179056 GCGCTAGGTAGATGGGCAAA 60.179 55.000 0.00 0.00 39.08 3.68
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
54 55 0.680921 TAAACCCGACGACTCCCGAT 60.681 55.000 0.00 0.00 41.76 4.18
55 56 0.893270 TTAAACCCGACGACTCCCGA 60.893 55.000 0.00 0.00 41.76 5.14
56 57 0.457337 CTTAAACCCGACGACTCCCG 60.457 60.000 0.00 0.00 45.44 5.14
57 58 0.738762 GCTTAAACCCGACGACTCCC 60.739 60.000 0.00 0.00 0.00 4.30
78 81 3.882888 GGGGCACGAATATTTGATCTCAA 59.117 43.478 9.79 0.00 0.00 3.02
105 117 3.704231 CTCCCAATGGTGAGGCCCG 62.704 68.421 0.00 0.00 36.04 6.13
113 125 4.263905 TGTTTTATCTGCTCTCCCAATGGT 60.264 41.667 0.00 0.00 0.00 3.55
117 129 4.908601 TCTGTTTTATCTGCTCTCCCAA 57.091 40.909 0.00 0.00 0.00 4.12
118 130 4.323792 CCTTCTGTTTTATCTGCTCTCCCA 60.324 45.833 0.00 0.00 0.00 4.37
122 134 6.432472 CCTTTTCCTTCTGTTTTATCTGCTCT 59.568 38.462 0.00 0.00 0.00 4.09
150 162 3.385193 TTCGAGTTCAAGCTGACATGA 57.615 42.857 0.00 0.00 0.00 3.07
153 165 3.531538 AGTTTTCGAGTTCAAGCTGACA 58.468 40.909 0.00 0.00 0.00 3.58
155 167 4.750098 CCTAAGTTTTCGAGTTCAAGCTGA 59.250 41.667 0.00 0.00 0.00 4.26
169 181 5.010213 TGCGCCATTTTCTAACCTAAGTTTT 59.990 36.000 4.18 0.00 37.42 2.43
198 210 2.237392 GTTTGGGTGCTCCTGAGTATCT 59.763 50.000 4.53 0.00 34.92 1.98
204 216 0.687354 GAGAGTTTGGGTGCTCCTGA 59.313 55.000 4.53 0.00 36.20 3.86
206 218 1.122019 ACGAGAGTTTGGGTGCTCCT 61.122 55.000 4.53 0.00 46.40 3.69
216 228 0.034059 CCTGTCCTGCACGAGAGTTT 59.966 55.000 8.63 0.00 46.40 2.66
228 240 1.611851 CTCCTGAGCACCCTGTCCT 60.612 63.158 0.00 0.00 0.00 3.85
231 243 3.325753 GCCTCCTGAGCACCCTGT 61.326 66.667 0.00 0.00 0.00 4.00
232 244 4.106925 GGCCTCCTGAGCACCCTG 62.107 72.222 0.00 0.00 0.00 4.45
277 292 3.822996 CGAGTGTTATCGTGTCTCTTGT 58.177 45.455 0.00 0.00 37.91 3.16
302 317 3.326006 GGGACATCATAGAAGGCTCATCA 59.674 47.826 0.00 0.00 0.00 3.07
314 329 4.590647 CAGCTAGAGGAAAGGGACATCATA 59.409 45.833 0.00 0.00 0.00 2.15
325 340 3.324246 CTCCCCCAGCTAGAGGAAA 57.676 57.895 0.00 0.00 0.00 3.13
442 457 1.267574 ATGTCAGGCTGGTGGATCGT 61.268 55.000 15.73 0.00 0.00 3.73
488 525 0.034089 CCTCCTAGCTTGGTTTGGGG 60.034 60.000 14.12 6.37 0.00 4.96
546 583 2.806745 CGCTGGAATCAACCCATATCGT 60.807 50.000 0.00 0.00 32.49 3.73
573 610 4.430765 ATTCGCTCGCCGGTCGTT 62.431 61.111 16.00 0.81 39.67 3.85
581 618 0.530650 TCCCATTCTGATTCGCTCGC 60.531 55.000 0.00 0.00 0.00 5.03
591 628 1.995626 ACCCTCCCGTCCCATTCTG 60.996 63.158 0.00 0.00 0.00 3.02
592 629 1.995626 CACCCTCCCGTCCCATTCT 60.996 63.158 0.00 0.00 0.00 2.40
602 639 1.001760 TAGCCTCTGTCACCCTCCC 59.998 63.158 0.00 0.00 0.00 4.30
609 646 0.178932 ACACCCTGTAGCCTCTGTCA 60.179 55.000 0.00 0.00 0.00 3.58
611 648 0.178932 TGACACCCTGTAGCCTCTGT 60.179 55.000 0.00 0.00 0.00 3.41
623 660 4.736896 GTCGTCCCGCTGACACCC 62.737 72.222 4.43 0.00 44.71 4.61
643 680 1.597461 GGCGTCCACCTAGCTTCTT 59.403 57.895 0.00 0.00 0.00 2.52
647 684 2.678934 TTCGGCGTCCACCTAGCT 60.679 61.111 6.85 0.00 0.00 3.32
684 721 1.699634 CCTCTTTTCCCCACTCACTCA 59.300 52.381 0.00 0.00 0.00 3.41
692 729 0.039618 GTGATGGCCTCTTTTCCCCA 59.960 55.000 3.32 0.00 0.00 4.96
860 901 7.684937 ATAATTCCATTAAGAGCAGAGCATC 57.315 36.000 0.00 0.00 0.00 3.91
861 902 9.578576 TTTATAATTCCATTAAGAGCAGAGCAT 57.421 29.630 0.00 0.00 0.00 3.79
862 903 8.978874 TTTATAATTCCATTAAGAGCAGAGCA 57.021 30.769 0.00 0.00 0.00 4.26
863 904 8.020244 GCTTTATAATTCCATTAAGAGCAGAGC 58.980 37.037 0.00 0.00 32.76 4.09
864 905 9.282569 AGCTTTATAATTCCATTAAGAGCAGAG 57.717 33.333 0.00 0.00 33.86 3.35
934 979 1.699656 CTCCGCAGACGAGGCAATTG 61.700 60.000 0.00 0.00 43.93 2.32
937 998 4.742201 GCTCCGCAGACGAGGCAA 62.742 66.667 0.00 0.00 43.93 4.52
950 1011 0.460311 TTTCTCGGATTCCTCGCTCC 59.540 55.000 0.30 0.00 0.00 4.70
1173 1243 0.036306 GGAGGCGGAAGTGGAAGAAA 59.964 55.000 0.00 0.00 0.00 2.52
1224 1294 2.298729 GGAAGAGATCTCGAAGGATGGG 59.701 54.545 16.97 0.00 34.09 4.00
1359 1429 3.195698 GCGTTGATGGAGTCGCCC 61.196 66.667 0.00 0.00 42.33 6.13
1370 1440 2.313267 GAGTTTGGGAACGCGTTGA 58.687 52.632 31.89 10.19 40.75 3.18
1409 1479 4.213564 ACTTCAGTGTGAATCCAGGATC 57.786 45.455 1.11 0.00 35.59 3.36
1414 1484 4.509970 CGTAACAACTTCAGTGTGAATCCA 59.490 41.667 0.00 0.00 35.59 3.41
1464 1534 2.069273 CTCACAAACACATCTCGGGTC 58.931 52.381 0.00 0.00 0.00 4.46
1468 1538 4.274069 CAACAACTCACAAACACATCTCG 58.726 43.478 0.00 0.00 0.00 4.04
1597 1668 2.972713 CCTAGCAGGGCTCCAATTACTA 59.027 50.000 0.00 0.00 40.44 1.82
1598 1669 1.771255 CCTAGCAGGGCTCCAATTACT 59.229 52.381 0.00 0.00 40.44 2.24
1599 1670 2.262423 CCTAGCAGGGCTCCAATTAC 57.738 55.000 0.00 0.00 40.44 1.89
1616 1687 5.775701 CAGGTCCATTATACTACTACAGCCT 59.224 44.000 0.00 0.00 0.00 4.58
1692 1763 1.202359 GCTCAGCTACTGCACCTAGTC 60.202 57.143 0.00 0.00 42.74 2.59
1751 1822 6.016777 CCAGTTCCATTAATCTTGACCTATGC 60.017 42.308 0.00 0.00 0.00 3.14
1798 1869 3.138283 CCCAATCCAGAGCCCATTAGTAA 59.862 47.826 0.00 0.00 0.00 2.24
1855 1926 1.066502 TCTGCGAATGATGAACCGGAA 60.067 47.619 9.46 0.00 0.00 4.30
1857 1928 1.586422 ATCTGCGAATGATGAACCGG 58.414 50.000 0.00 0.00 0.00 5.28
1858 1929 4.794248 TTAATCTGCGAATGATGAACCG 57.206 40.909 0.00 0.00 0.00 4.44
1860 1931 6.546395 ACAGTTTAATCTGCGAATGATGAAC 58.454 36.000 12.51 0.00 38.84 3.18
1866 1937 6.092122 TCAACCTACAGTTTAATCTGCGAATG 59.908 38.462 12.51 6.91 36.18 2.67
2019 2926 4.589216 AATGTGTGACCAAACATCCAAG 57.411 40.909 6.30 0.00 35.99 3.61
2116 3024 9.726438 AAGCAGTATGTCATTTAGTTAGAAAGT 57.274 29.630 0.00 0.00 39.31 2.66
2144 3055 7.518188 ACTGAGGAAAACTCTCATTAGGAAAA 58.482 34.615 0.00 0.00 46.72 2.29
2156 3067 7.051000 AGCTCCATTTATACTGAGGAAAACTC 58.949 38.462 0.00 0.00 46.78 3.01
2235 3146 1.783071 TTTGGGTTCCCACACTTTCC 58.217 50.000 10.41 0.00 35.60 3.13
2564 5412 5.283060 AGCCTCGCTAAAATAATAATGCG 57.717 39.130 0.00 0.00 43.95 4.73
2605 5453 7.515643 AGTTCACAACACGCAGTTAATATTAC 58.484 34.615 0.00 0.00 41.61 1.89
2659 5507 3.942829 TGATCAGGTTGTGCTAAGGAAG 58.057 45.455 0.00 0.00 0.00 3.46
2965 5816 9.548208 GAAAAGTTCAGTAGCATAGAAATCAAC 57.452 33.333 0.00 0.00 0.00 3.18
3056 5907 4.039603 ACCTTTCTCAAATGAAGGAGGG 57.960 45.455 8.25 0.00 31.55 4.30
3269 6159 6.798482 TGCTAATTTCAGAAGCAATATGTGG 58.202 36.000 0.00 0.00 42.96 4.17
3416 6306 6.463995 TTACCAAATCTGCTCAAAAACTGT 57.536 33.333 0.00 0.00 0.00 3.55
3436 6326 9.555727 TTATACTGATGCAGGATAGGTTTTTAC 57.444 33.333 0.00 0.00 38.37 2.01
3535 6425 9.467796 TCTTTAGACAACTTGATCAGATCTCTA 57.532 33.333 11.83 6.38 0.00 2.43
3604 6494 3.081804 GGGAGTGGGTTATTGACTTGTG 58.918 50.000 0.00 0.00 0.00 3.33
3973 6863 4.097437 ACAATTGCATCAACCTGCTCATAG 59.903 41.667 5.05 0.00 42.75 2.23
4114 7004 4.439968 TCTTATCATGCAGACTCAAGCAG 58.560 43.478 0.00 0.00 44.94 4.24
4121 7011 7.838079 ATACTTCTCTCTTATCATGCAGACT 57.162 36.000 0.00 0.00 0.00 3.24
4143 7033 6.551736 GCAAAATCGCCTTTCTTCAGTTATA 58.448 36.000 0.00 0.00 0.00 0.98
4189 7079 8.510358 TCTCCATGGATAGGAAATATTGAGAA 57.490 34.615 16.63 0.00 34.08 2.87
4268 7158 6.374333 ACTGTTATTTGGCTATGTGGTAAGTG 59.626 38.462 0.00 0.00 0.00 3.16
4345 7240 1.471676 GGAGTAGATCGGTTGGCACAG 60.472 57.143 0.00 0.00 42.39 3.66
4359 7254 3.492829 GCATTTAGGAACGGAGGGAGTAG 60.493 52.174 0.00 0.00 0.00 2.57
4360 7255 2.433239 GCATTTAGGAACGGAGGGAGTA 59.567 50.000 0.00 0.00 0.00 2.59
4361 7256 1.209747 GCATTTAGGAACGGAGGGAGT 59.790 52.381 0.00 0.00 0.00 3.85
4362 7257 1.209504 TGCATTTAGGAACGGAGGGAG 59.790 52.381 0.00 0.00 0.00 4.30
4363 7258 1.281419 TGCATTTAGGAACGGAGGGA 58.719 50.000 0.00 0.00 0.00 4.20
4364 7259 2.017049 CTTGCATTTAGGAACGGAGGG 58.983 52.381 0.00 0.00 0.00 4.30
4365 7260 2.678336 GACTTGCATTTAGGAACGGAGG 59.322 50.000 0.00 0.00 0.00 4.30
4366 7261 3.600388 AGACTTGCATTTAGGAACGGAG 58.400 45.455 0.00 0.00 0.00 4.63
4367 7262 3.695830 AGACTTGCATTTAGGAACGGA 57.304 42.857 0.00 0.00 0.00 4.69
4368 7263 4.766404 AAAGACTTGCATTTAGGAACGG 57.234 40.909 0.00 0.00 0.00 4.44
4369 7264 7.581476 TCTAAAAAGACTTGCATTTAGGAACG 58.419 34.615 12.84 0.00 36.48 3.95
4441 7336 5.446473 CGGAGCAAAATGAGTGAATCTACAC 60.446 44.000 0.00 0.00 40.60 2.90
4442 7337 4.631377 CGGAGCAAAATGAGTGAATCTACA 59.369 41.667 0.00 0.00 0.00 2.74
4443 7338 4.631813 ACGGAGCAAAATGAGTGAATCTAC 59.368 41.667 0.00 0.00 0.00 2.59
4444 7339 4.832248 ACGGAGCAAAATGAGTGAATCTA 58.168 39.130 0.00 0.00 0.00 1.98
4445 7340 3.679389 ACGGAGCAAAATGAGTGAATCT 58.321 40.909 0.00 0.00 0.00 2.40
4446 7341 5.065218 ACATACGGAGCAAAATGAGTGAATC 59.935 40.000 0.00 0.00 0.00 2.52
4447 7342 4.943705 ACATACGGAGCAAAATGAGTGAAT 59.056 37.500 0.00 0.00 0.00 2.57
4448 7343 4.323417 ACATACGGAGCAAAATGAGTGAA 58.677 39.130 0.00 0.00 0.00 3.18
4449 7344 3.937814 ACATACGGAGCAAAATGAGTGA 58.062 40.909 0.00 0.00 0.00 3.41
4450 7345 5.005779 GTCTACATACGGAGCAAAATGAGTG 59.994 44.000 0.00 0.00 0.00 3.51
4451 7346 5.105310 AGTCTACATACGGAGCAAAATGAGT 60.105 40.000 0.00 0.00 0.00 3.41
4452 7347 5.352284 AGTCTACATACGGAGCAAAATGAG 58.648 41.667 0.00 0.00 0.00 2.90
4453 7348 5.339008 AGTCTACATACGGAGCAAAATGA 57.661 39.130 0.00 0.00 0.00 2.57
4454 7349 8.082852 ACTATAGTCTACATACGGAGCAAAATG 58.917 37.037 0.00 0.00 0.00 2.32
4455 7350 8.082852 CACTATAGTCTACATACGGAGCAAAAT 58.917 37.037 1.26 0.00 0.00 1.82
4456 7351 7.423199 CACTATAGTCTACATACGGAGCAAAA 58.577 38.462 1.26 0.00 0.00 2.44
4457 7352 6.016527 CCACTATAGTCTACATACGGAGCAAA 60.017 42.308 1.26 0.00 0.00 3.68
4458 7353 5.472478 CCACTATAGTCTACATACGGAGCAA 59.528 44.000 1.26 0.00 0.00 3.91
4459 7354 5.001874 CCACTATAGTCTACATACGGAGCA 58.998 45.833 1.26 0.00 0.00 4.26
4460 7355 5.243981 TCCACTATAGTCTACATACGGAGC 58.756 45.833 1.26 0.00 0.00 4.70
4461 7356 7.825270 AGATTCCACTATAGTCTACATACGGAG 59.175 40.741 1.26 0.00 0.00 4.63
4462 7357 7.687388 AGATTCCACTATAGTCTACATACGGA 58.313 38.462 1.26 1.26 0.00 4.69
4463 7358 7.825270 AGAGATTCCACTATAGTCTACATACGG 59.175 40.741 1.26 0.00 0.00 4.02
4464 7359 8.780846 AGAGATTCCACTATAGTCTACATACG 57.219 38.462 1.26 0.00 0.00 3.06
4490 7385 9.392259 CCTCCGTTCCTAAATATAAGTCTTTTT 57.608 33.333 0.00 0.00 0.00 1.94
4491 7386 7.991460 CCCTCCGTTCCTAAATATAAGTCTTTT 59.009 37.037 0.00 0.00 0.00 2.27
4492 7387 7.346436 TCCCTCCGTTCCTAAATATAAGTCTTT 59.654 37.037 0.00 0.00 0.00 2.52
4493 7388 6.842807 TCCCTCCGTTCCTAAATATAAGTCTT 59.157 38.462 0.00 0.00 0.00 3.01
4494 7389 6.379579 TCCCTCCGTTCCTAAATATAAGTCT 58.620 40.000 0.00 0.00 0.00 3.24
4495 7390 6.267242 ACTCCCTCCGTTCCTAAATATAAGTC 59.733 42.308 0.00 0.00 0.00 3.01
4496 7391 6.141790 ACTCCCTCCGTTCCTAAATATAAGT 58.858 40.000 0.00 0.00 0.00 2.24
4497 7392 6.667558 ACTCCCTCCGTTCCTAAATATAAG 57.332 41.667 0.00 0.00 0.00 1.73
4498 7393 7.068702 TGTACTCCCTCCGTTCCTAAATATAA 58.931 38.462 0.00 0.00 0.00 0.98
4499 7394 6.613699 TGTACTCCCTCCGTTCCTAAATATA 58.386 40.000 0.00 0.00 0.00 0.86
4500 7395 5.461327 TGTACTCCCTCCGTTCCTAAATAT 58.539 41.667 0.00 0.00 0.00 1.28
4501 7396 4.870636 TGTACTCCCTCCGTTCCTAAATA 58.129 43.478 0.00 0.00 0.00 1.40
4502 7397 3.716431 TGTACTCCCTCCGTTCCTAAAT 58.284 45.455 0.00 0.00 0.00 1.40
4503 7398 3.173953 TGTACTCCCTCCGTTCCTAAA 57.826 47.619 0.00 0.00 0.00 1.85
4504 7399 2.905415 TGTACTCCCTCCGTTCCTAA 57.095 50.000 0.00 0.00 0.00 2.69
4505 7400 4.353191 AGATATGTACTCCCTCCGTTCCTA 59.647 45.833 0.00 0.00 0.00 2.94
4506 7401 3.140519 AGATATGTACTCCCTCCGTTCCT 59.859 47.826 0.00 0.00 0.00 3.36
4507 7402 3.498334 AGATATGTACTCCCTCCGTTCC 58.502 50.000 0.00 0.00 0.00 3.62
4508 7403 4.320348 CGAAGATATGTACTCCCTCCGTTC 60.320 50.000 0.00 0.00 0.00 3.95
4509 7404 3.568853 CGAAGATATGTACTCCCTCCGTT 59.431 47.826 0.00 0.00 0.00 4.44
4510 7405 3.147629 CGAAGATATGTACTCCCTCCGT 58.852 50.000 0.00 0.00 0.00 4.69
4511 7406 3.409570 TCGAAGATATGTACTCCCTCCG 58.590 50.000 0.00 0.00 0.00 4.63
4512 7407 4.828387 ACTTCGAAGATATGTACTCCCTCC 59.172 45.833 31.08 0.00 35.04 4.30
4513 7408 6.394025 AACTTCGAAGATATGTACTCCCTC 57.606 41.667 31.08 0.00 35.04 4.30
4514 7409 6.380274 TCAAACTTCGAAGATATGTACTCCCT 59.620 38.462 31.08 0.99 35.04 4.20
4515 7410 6.570692 TCAAACTTCGAAGATATGTACTCCC 58.429 40.000 31.08 0.00 35.04 4.30
4516 7411 8.649973 ATTCAAACTTCGAAGATATGTACTCC 57.350 34.615 31.08 0.00 35.04 3.85
4554 7449 6.169094 TCTCATTTCAAGGAAGATGACAGTC 58.831 40.000 0.00 0.00 0.00 3.51
4631 7527 3.412386 AGTGGTAGATTGGAAAGTGTGC 58.588 45.455 0.00 0.00 0.00 4.57
4681 7577 7.586747 CATTCCTATAGGACTTCTTACGTCTC 58.413 42.308 21.57 0.00 45.39 3.36
4778 7676 4.381411 TGTTACACATCCATGAACGTTCA 58.619 39.130 31.41 31.41 42.14 3.18
4782 7680 4.944962 ACATGTTACACATCCATGAACG 57.055 40.909 5.91 0.00 36.53 3.95
4815 7713 6.505272 GGTTGTAGATGCTCTAAGTAACGAT 58.495 40.000 0.00 0.00 29.58 3.73
4817 7715 4.733887 CGGTTGTAGATGCTCTAAGTAACG 59.266 45.833 0.00 0.00 29.58 3.18
4825 9179 2.698855 ATTGCGGTTGTAGATGCTCT 57.301 45.000 0.00 0.00 0.00 4.09
4826 9180 2.544267 GGTATTGCGGTTGTAGATGCTC 59.456 50.000 0.00 0.00 0.00 4.26
4859 9213 3.050275 GTCCACAAGCGTCTGGGC 61.050 66.667 0.00 0.00 0.00 5.36
4880 9236 1.373435 GTTCATGGACACACCCGGA 59.627 57.895 0.73 0.00 38.00 5.14
4881 9237 0.955428 CTGTTCATGGACACACCCGG 60.955 60.000 1.52 0.00 38.00 5.73
4882 9238 0.250295 ACTGTTCATGGACACACCCG 60.250 55.000 1.52 0.00 38.00 5.28
4883 9239 1.202758 TCACTGTTCATGGACACACCC 60.203 52.381 1.52 0.00 38.00 4.61
4884 9240 1.873591 GTCACTGTTCATGGACACACC 59.126 52.381 1.52 0.00 39.54 4.16
4885 9241 2.838736 AGTCACTGTTCATGGACACAC 58.161 47.619 1.52 0.36 32.79 3.82
4886 9242 3.895041 TCTAGTCACTGTTCATGGACACA 59.105 43.478 1.52 0.00 32.79 3.72
4887 9243 4.238514 GTCTAGTCACTGTTCATGGACAC 58.761 47.826 1.52 0.00 32.79 3.67
4888 9244 3.895041 TGTCTAGTCACTGTTCATGGACA 59.105 43.478 6.66 6.66 32.79 4.02
4889 9245 4.238514 GTGTCTAGTCACTGTTCATGGAC 58.761 47.826 12.18 0.00 35.68 4.02
4890 9246 3.258372 GGTGTCTAGTCACTGTTCATGGA 59.742 47.826 17.69 0.00 38.28 3.41
4891 9247 3.006859 TGGTGTCTAGTCACTGTTCATGG 59.993 47.826 17.69 0.00 38.28 3.66
4892 9248 3.990469 GTGGTGTCTAGTCACTGTTCATG 59.010 47.826 17.69 0.00 38.28 3.07
4893 9249 3.641436 TGTGGTGTCTAGTCACTGTTCAT 59.359 43.478 17.69 0.00 38.28 2.57
4894 9250 3.028130 TGTGGTGTCTAGTCACTGTTCA 58.972 45.455 17.69 6.43 38.28 3.18
4895 9251 3.381949 GTGTGGTGTCTAGTCACTGTTC 58.618 50.000 17.69 4.13 38.28 3.18
4896 9252 2.102588 GGTGTGGTGTCTAGTCACTGTT 59.897 50.000 17.69 0.00 38.28 3.16
4897 9253 1.687123 GGTGTGGTGTCTAGTCACTGT 59.313 52.381 17.69 0.00 38.28 3.55
4898 9254 1.686587 TGGTGTGGTGTCTAGTCACTG 59.313 52.381 17.69 0.00 38.28 3.66
4899 9255 2.082140 TGGTGTGGTGTCTAGTCACT 57.918 50.000 17.69 0.00 38.28 3.41
4906 9271 1.828979 ACGTTTTTGGTGTGGTGTCT 58.171 45.000 0.00 0.00 0.00 3.41
4944 9309 5.850557 TGGATTTGATGTGTGAAGTTTGT 57.149 34.783 0.00 0.00 0.00 2.83
5006 9371 9.281371 GACAATGAGTAGTTTTACCTTTTACCT 57.719 33.333 0.00 0.00 0.00 3.08
5008 9373 8.225777 CCGACAATGAGTAGTTTTACCTTTTAC 58.774 37.037 0.00 0.00 0.00 2.01
5009 9374 8.149647 TCCGACAATGAGTAGTTTTACCTTTTA 58.850 33.333 0.00 0.00 0.00 1.52
5010 9375 6.993902 TCCGACAATGAGTAGTTTTACCTTTT 59.006 34.615 0.00 0.00 0.00 2.27
5014 9379 5.717119 TCTCCGACAATGAGTAGTTTTACC 58.283 41.667 0.00 0.00 0.00 2.85
5056 9421 2.651361 CCATCTACCTAGCGCCGG 59.349 66.667 2.29 7.98 0.00 6.13


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

AutoCloner maintained by Alex Coulton.