Multiple sequence alignment - TraesCS4A01G116400

Loading Multiple Alignment...

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 TraesCS4A01G116400 chr4A 100.000 2567 0 0 1 2567 141123674 141126240 0.000000e+00 4741.0
1 TraesCS4A01G116400 chr4B 91.088 1526 96 22 497 1998 408953525 408952016 0.000000e+00 2028.0
2 TraesCS4A01G116400 chr4B 88.293 410 34 5 3 404 408954059 408953656 1.790000e-131 479.0
3 TraesCS4A01G116400 chr4B 86.842 76 5 4 2051 2126 408952026 408951956 2.120000e-11 80.5
4 TraesCS4A01G116400 chr1B 93.180 1217 64 9 573 1788 135960178 135961376 0.000000e+00 1770.0
5 TraesCS4A01G116400 chr1B 90.465 409 28 4 1 401 135958745 135959150 1.750000e-146 529.0
6 TraesCS4A01G116400 chr1B 93.750 304 12 5 1779 2081 135962055 135962352 1.400000e-122 449.0
7 TraesCS4A01G116400 chr2D 95.495 888 33 5 1196 2081 407224489 407225371 0.000000e+00 1411.0
8 TraesCS4A01G116400 chr2D 89.346 657 52 8 553 1207 407223829 407224469 0.000000e+00 809.0
9 TraesCS4A01G116400 chr2D 98.864 440 4 1 2128 2567 630263508 630263946 0.000000e+00 784.0
10 TraesCS4A01G116400 chr2D 89.731 409 32 3 1 401 407220918 407221324 4.900000e-142 514.0
11 TraesCS4A01G116400 chr4D 95.383 888 33 5 1196 2081 329000224 328999343 0.000000e+00 1406.0
12 TraesCS4A01G116400 chr4D 90.812 653 43 7 556 1207 329001072 329000436 0.000000e+00 857.0
13 TraesCS4A01G116400 chr4D 88.592 412 34 4 1 404 329005166 329004760 2.970000e-134 488.0
14 TraesCS4A01G116400 chr7D 82.798 1151 137 34 657 1795 113714448 113715549 0.000000e+00 972.0
15 TraesCS4A01G116400 chr7D 82.916 1118 120 34 736 1833 113721033 113722099 0.000000e+00 941.0
16 TraesCS4A01G116400 chr7B 82.077 1194 139 35 655 1832 73233347 73234481 0.000000e+00 950.0
17 TraesCS4A01G116400 chr7B 81.658 1194 141 36 655 1832 73311082 73312213 0.000000e+00 920.0
18 TraesCS4A01G116400 chr7B 84.158 909 95 21 887 1785 73334806 73335675 0.000000e+00 835.0
19 TraesCS4A01G116400 chr7B 98.636 440 3 1 2128 2567 662741383 662740947 0.000000e+00 776.0
20 TraesCS4A01G116400 chr7A 82.597 1109 129 30 740 1835 118578328 118579385 0.000000e+00 920.0
21 TraesCS4A01G116400 chr7A 81.432 1201 151 42 655 1838 118573635 118574780 0.000000e+00 917.0
22 TraesCS4A01G116400 chrUn 98.866 441 2 2 2128 2567 30304789 30304351 0.000000e+00 784.0
23 TraesCS4A01G116400 chrUn 90.465 409 28 4 1 401 326355481 326355886 1.750000e-146 529.0
24 TraesCS4A01G116400 chrUn 93.491 169 8 3 1779 1946 377052961 377053127 5.480000e-62 248.0
25 TraesCS4A01G116400 chr3B 98.864 440 2 1 2128 2567 201489362 201489798 0.000000e+00 782.0
26 TraesCS4A01G116400 chr3D 98.643 442 2 2 2126 2567 24161810 24162247 0.000000e+00 780.0
27 TraesCS4A01G116400 chr2A 98.639 441 4 2 2128 2567 419792404 419792843 0.000000e+00 780.0
28 TraesCS4A01G116400 chr5D 98.636 440 3 1 2128 2567 503327138 503327574 0.000000e+00 776.0
29 TraesCS4A01G116400 chr5D 98.409 440 4 1 2128 2567 6239655 6239219 0.000000e+00 771.0
30 TraesCS4A01G116400 chr1A 98.636 440 3 1 2128 2567 554451584 554451148 0.000000e+00 776.0


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 TraesCS4A01G116400 chr4A 141123674 141126240 2566 False 4741.000000 4741 100.000000 1 2567 1 chr4A.!!$F1 2566
1 TraesCS4A01G116400 chr4B 408951956 408954059 2103 True 862.500000 2028 88.741000 3 2126 3 chr4B.!!$R1 2123
2 TraesCS4A01G116400 chr1B 135958745 135962352 3607 False 916.000000 1770 92.465000 1 2081 3 chr1B.!!$F1 2080
3 TraesCS4A01G116400 chr2D 407220918 407225371 4453 False 911.333333 1411 91.524000 1 2081 3 chr2D.!!$F2 2080
4 TraesCS4A01G116400 chr4D 328999343 329005166 5823 True 917.000000 1406 91.595667 1 2081 3 chr4D.!!$R1 2080
5 TraesCS4A01G116400 chr7D 113714448 113715549 1101 False 972.000000 972 82.798000 657 1795 1 chr7D.!!$F1 1138
6 TraesCS4A01G116400 chr7D 113721033 113722099 1066 False 941.000000 941 82.916000 736 1833 1 chr7D.!!$F2 1097
7 TraesCS4A01G116400 chr7B 73233347 73234481 1134 False 950.000000 950 82.077000 655 1832 1 chr7B.!!$F1 1177
8 TraesCS4A01G116400 chr7B 73311082 73312213 1131 False 920.000000 920 81.658000 655 1832 1 chr7B.!!$F2 1177
9 TraesCS4A01G116400 chr7B 73334806 73335675 869 False 835.000000 835 84.158000 887 1785 1 chr7B.!!$F3 898
10 TraesCS4A01G116400 chr7A 118573635 118579385 5750 False 918.500000 920 82.014500 655 1838 2 chr7A.!!$F1 1183

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
451 461 0.034337 TTAAAAGACAGTCGGCGGCT 59.966 50.0 8.88 8.88 0.0 5.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2373 12412 0.693092 TTTATCTCCCCCACCTCCCG 60.693 60.0 0.0 0.0 0.0 5.14 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
44 45 7.726216 TGATAAGGATGTGAAAGATGTATCGT 58.274 34.615 0.00 0.00 0.00 3.73
46 47 5.860941 AGGATGTGAAAGATGTATCGTCT 57.139 39.130 0.00 0.00 0.00 4.18
82 83 7.011295 GTCCAATCTGATGAAGATGAAGAAGAC 59.989 40.741 0.00 0.00 45.37 3.01
137 138 6.073276 CGTGGATTTGTCTGAAAATAGTGACA 60.073 38.462 0.00 0.00 37.62 3.58
152 153 4.134379 AGTGACAATGATGCTGAGTAGG 57.866 45.455 0.00 0.00 0.00 3.18
173 174 2.449525 CGCAGCATTGTTGGCATGC 61.450 57.895 9.90 9.90 41.29 4.06
177 178 1.517694 GCATTGTTGGCATGCCTCG 60.518 57.895 35.53 18.27 35.44 4.63
182 183 1.377202 GTTGGCATGCCTCGGAGAA 60.377 57.895 35.53 18.79 34.09 2.87
188 189 1.135575 GCATGCCTCGGAGAAACTTTG 60.136 52.381 6.36 0.00 34.09 2.77
194 195 1.457303 CTCGGAGAAACTTTGCGACTG 59.543 52.381 0.00 0.00 34.67 3.51
205 206 0.872451 TTGCGACTGTGTGTACGGTG 60.872 55.000 0.00 0.00 46.22 4.94
214 215 4.038282 ACTGTGTGTACGGTGAAGATGTAA 59.962 41.667 0.00 0.00 44.58 2.41
232 233 7.115414 AGATGTAATTTTCAAGCTTAGAGCCT 58.885 34.615 0.00 0.00 43.77 4.58
233 234 6.500684 TGTAATTTTCAAGCTTAGAGCCTG 57.499 37.500 0.00 0.00 43.77 4.85
252 254 4.748600 GCCTGTAGTCGAGTTTGTAAAACT 59.251 41.667 5.10 5.10 0.00 2.66
263 265 1.292061 TGTAAAACTGCGCAACGACT 58.708 45.000 13.05 0.00 0.00 4.18
276 278 0.107410 AACGACTGGAAGGTTGCACA 60.107 50.000 0.00 0.00 39.30 4.57
297 299 6.151691 CACATAATTTTGACAACAGGAGGTG 58.848 40.000 2.69 0.00 0.00 4.00
314 316 4.759183 GGAGGTGATATCTGAAAGGCATTC 59.241 45.833 3.98 0.00 38.60 2.67
320 322 7.283127 GGTGATATCTGAAAGGCATTCTTGTAA 59.717 37.037 3.98 0.00 38.92 2.41
367 377 3.122613 CGAGAGACTTTGTGCATCTGAAC 59.877 47.826 0.00 0.00 0.00 3.18
374 384 3.991999 TGCATCTGAACTGCAGGC 58.008 55.556 19.93 10.28 44.30 4.85
393 403 1.780860 GCGCAACATTGAAACAGTGAC 59.219 47.619 0.30 0.00 0.00 3.67
401 411 7.434897 GCAACATTGAAACAGTGACTAATTTGA 59.565 33.333 0.00 0.00 0.00 2.69
404 414 7.649306 ACATTGAAACAGTGACTAATTTGAAGC 59.351 33.333 0.00 0.00 0.00 3.86
405 415 5.747565 TGAAACAGTGACTAATTTGAAGCG 58.252 37.500 0.00 0.00 0.00 4.68
406 416 3.813529 ACAGTGACTAATTTGAAGCGC 57.186 42.857 0.00 0.00 0.00 5.92
407 417 2.157668 ACAGTGACTAATTTGAAGCGCG 59.842 45.455 0.00 0.00 0.00 6.86
409 419 2.412089 AGTGACTAATTTGAAGCGCGTC 59.588 45.455 16.84 16.84 0.00 5.19
419 429 0.999406 GAAGCGCGTCTTCTGCAATA 59.001 50.000 25.72 0.00 45.99 1.90
423 433 1.267087 GCGCGTCTTCTGCAATAAGTC 60.267 52.381 8.43 2.99 0.00 3.01
424 434 1.324736 CGCGTCTTCTGCAATAAGTCC 59.675 52.381 0.00 1.50 0.00 3.85
426 436 2.280628 CGTCTTCTGCAATAAGTCCCC 58.719 52.381 8.01 0.00 0.00 4.81
428 438 3.619979 CGTCTTCTGCAATAAGTCCCCTT 60.620 47.826 8.01 0.00 34.56 3.95
429 439 3.691609 GTCTTCTGCAATAAGTCCCCTTG 59.308 47.826 8.01 0.00 31.89 3.61
430 440 2.806945 TCTGCAATAAGTCCCCTTGG 57.193 50.000 0.00 0.00 31.89 3.61
431 441 2.274542 TCTGCAATAAGTCCCCTTGGA 58.725 47.619 0.00 0.00 38.75 3.53
432 442 2.852449 TCTGCAATAAGTCCCCTTGGAT 59.148 45.455 0.00 0.00 44.28 3.41
433 443 3.269381 TCTGCAATAAGTCCCCTTGGATT 59.731 43.478 0.00 0.00 44.28 3.01
434 444 4.476846 TCTGCAATAAGTCCCCTTGGATTA 59.523 41.667 0.00 0.00 44.28 1.75
436 446 5.584913 TGCAATAAGTCCCCTTGGATTAAA 58.415 37.500 0.00 0.00 44.28 1.52
437 447 6.019748 TGCAATAAGTCCCCTTGGATTAAAA 58.980 36.000 0.00 0.00 44.28 1.52
438 448 6.154363 TGCAATAAGTCCCCTTGGATTAAAAG 59.846 38.462 0.00 0.00 44.28 2.27
440 450 7.630728 GCAATAAGTCCCCTTGGATTAAAAGAC 60.631 40.741 0.00 0.00 44.28 3.01
443 453 4.354087 AGTCCCCTTGGATTAAAAGACAGT 59.646 41.667 0.00 0.00 44.28 3.55
444 454 4.700692 GTCCCCTTGGATTAAAAGACAGTC 59.299 45.833 0.00 0.00 44.28 3.51
445 455 3.689649 CCCCTTGGATTAAAAGACAGTCG 59.310 47.826 0.00 0.00 0.00 4.18
446 456 3.689649 CCCTTGGATTAAAAGACAGTCGG 59.310 47.826 0.00 0.00 0.00 4.79
447 457 3.127030 CCTTGGATTAAAAGACAGTCGGC 59.873 47.826 0.00 0.00 0.00 5.54
449 459 1.664151 GGATTAAAAGACAGTCGGCGG 59.336 52.381 7.21 0.00 0.00 6.13
450 460 1.062148 GATTAAAAGACAGTCGGCGGC 59.938 52.381 1.71 1.71 0.00 6.53
451 461 0.034337 TTAAAAGACAGTCGGCGGCT 59.966 50.000 8.88 8.88 0.00 5.52
452 462 0.389426 TAAAAGACAGTCGGCGGCTC 60.389 55.000 12.87 0.59 0.00 4.70
454 464 2.100879 AAAGACAGTCGGCGGCTCTT 62.101 55.000 12.87 11.01 0.00 2.85
455 465 2.493907 AAGACAGTCGGCGGCTCTTC 62.494 60.000 12.87 11.62 0.00 2.87
456 466 3.282745 GACAGTCGGCGGCTCTTCA 62.283 63.158 12.87 0.00 0.00 3.02
457 467 2.811317 CAGTCGGCGGCTCTTCAC 60.811 66.667 12.87 0.00 0.00 3.18
458 468 3.303135 AGTCGGCGGCTCTTCACA 61.303 61.111 8.88 0.00 0.00 3.58
459 469 2.357034 GTCGGCGGCTCTTCACAA 60.357 61.111 3.23 0.00 0.00 3.33
460 470 2.048222 TCGGCGGCTCTTCACAAG 60.048 61.111 7.21 0.00 0.00 3.16
477 3993 4.690748 TCACAAGAGCATTGTACTACAAGC 59.309 41.667 7.67 10.26 41.94 4.01
480 3996 5.049405 ACAAGAGCATTGTACTACAAGCAAC 60.049 40.000 17.96 13.50 41.94 4.17
481 3997 3.679980 AGAGCATTGTACTACAAGCAACG 59.320 43.478 17.96 0.00 41.94 4.10
485 4001 4.242475 CATTGTACTACAAGCAACGGAGA 58.758 43.478 7.67 0.00 41.94 3.71
635 5081 5.163499 GGAGACTATGAGTCCGTCATTCTTT 60.163 44.000 3.00 0.00 46.18 2.52
770 5225 6.663734 ACCCTGTAATGATAAAAGCTTAGCT 58.336 36.000 0.00 0.00 42.56 3.32
874 5345 1.152567 CAAGCTTCACCAACCCCCA 60.153 57.895 0.00 0.00 0.00 4.96
882 5353 2.015726 ACCAACCCCCACCTTGGAA 61.016 57.895 3.44 0.00 40.96 3.53
967 5449 0.239347 GCCACAGCTCAACACATCAC 59.761 55.000 0.00 0.00 35.50 3.06
979 5461 1.667830 ACATCACTTGCACCGGTCG 60.668 57.895 2.59 1.09 0.00 4.79
980 5462 1.374125 CATCACTTGCACCGGTCGA 60.374 57.895 2.59 0.00 0.00 4.20
1007 10092 2.029623 GATCATCACAGCAATGGCCTT 58.970 47.619 3.32 0.00 42.56 4.35
1259 10567 1.606606 GTCAAAGCATAACACGCAGC 58.393 50.000 0.00 0.00 0.00 5.25
1405 10713 0.742281 CTCGCACATCAAGGTGGAGG 60.742 60.000 0.00 0.00 39.19 4.30
1597 10906 5.163205 TGAGAGGGAACATACATGGTTATGG 60.163 44.000 0.00 0.00 38.66 2.74
1704 11022 1.085091 GCATTGAGCAGAGTGTGGAG 58.915 55.000 0.00 0.00 44.79 3.86
1904 11942 2.699846 ACAGTGTGTTGGCATTTTCCAT 59.300 40.909 0.00 0.00 35.77 3.41
1937 11976 3.314553 CTTTTTCTGGCAAGTGCATCTG 58.685 45.455 5.52 0.00 44.36 2.90
2019 12058 6.615264 TCTCTCTGCTAATGAAATGAATGC 57.385 37.500 0.00 0.00 0.00 3.56
2040 12079 2.574006 AGCAACAGCTGGATCTTTCA 57.426 45.000 19.93 0.00 37.19 2.69
2041 12080 2.867624 AGCAACAGCTGGATCTTTCAA 58.132 42.857 19.93 0.00 37.19 2.69
2085 12124 6.348868 CGAAAAGAAAATCAGGAAGCTAGCTT 60.349 38.462 29.71 29.71 39.23 3.74
2091 12130 5.885449 AATCAGGAAGCTAGCTTGATACT 57.115 39.130 33.91 21.36 36.26 2.12
2092 12131 4.927978 TCAGGAAGCTAGCTTGATACTC 57.072 45.455 33.91 18.14 36.26 2.59
2093 12132 3.639094 TCAGGAAGCTAGCTTGATACTCC 59.361 47.826 33.91 25.72 36.26 3.85
2094 12133 3.386078 CAGGAAGCTAGCTTGATACTCCA 59.614 47.826 33.91 0.00 36.26 3.86
2095 12134 3.386402 AGGAAGCTAGCTTGATACTCCAC 59.614 47.826 33.91 15.58 36.26 4.02
2102 12141 7.338710 AGCTAGCTTGATACTCCACAATTTAA 58.661 34.615 12.68 0.00 0.00 1.52
2103 12142 7.497249 AGCTAGCTTGATACTCCACAATTTAAG 59.503 37.037 12.68 0.00 0.00 1.85
2123 12162 5.493133 AAGACTGCAAGACGTCTAGATAG 57.507 43.478 20.39 16.34 39.44 2.08
2126 12165 6.526526 AGACTGCAAGACGTCTAGATAGATA 58.473 40.000 20.39 0.00 38.63 1.98
2127 12166 6.993308 AGACTGCAAGACGTCTAGATAGATAA 59.007 38.462 20.39 0.00 38.63 1.75
2128 12167 7.499563 AGACTGCAAGACGTCTAGATAGATAAA 59.500 37.037 20.39 0.00 38.63 1.40
2129 12168 7.997482 ACTGCAAGACGTCTAGATAGATAAAA 58.003 34.615 20.39 0.00 37.43 1.52
2130 12169 8.467598 ACTGCAAGACGTCTAGATAGATAAAAA 58.532 33.333 20.39 0.00 37.43 1.94
2131 12170 8.630278 TGCAAGACGTCTAGATAGATAAAAAC 57.370 34.615 20.39 0.00 34.39 2.43
2132 12171 8.467598 TGCAAGACGTCTAGATAGATAAAAACT 58.532 33.333 20.39 0.00 34.39 2.66
2133 12172 9.303537 GCAAGACGTCTAGATAGATAAAAACTT 57.696 33.333 20.39 0.00 34.39 2.66
2272 12311 9.640952 TTTGAGGATTAATATTTCACTAAGGGG 57.359 33.333 0.00 0.00 0.00 4.79
2273 12312 8.575736 TGAGGATTAATATTTCACTAAGGGGA 57.424 34.615 0.00 0.00 0.00 4.81
2274 12313 9.009675 TGAGGATTAATATTTCACTAAGGGGAA 57.990 33.333 0.00 0.00 0.00 3.97
2275 12314 9.286170 GAGGATTAATATTTCACTAAGGGGAAC 57.714 37.037 0.00 0.00 0.00 3.62
2276 12315 8.787818 AGGATTAATATTTCACTAAGGGGAACA 58.212 33.333 0.00 0.00 0.00 3.18
2277 12316 9.588096 GGATTAATATTTCACTAAGGGGAACAT 57.412 33.333 0.00 0.00 0.00 2.71
2282 12321 6.893020 ATTTCACTAAGGGGAACATAGAGT 57.107 37.500 0.00 0.00 0.00 3.24
2283 12322 5.934402 TTCACTAAGGGGAACATAGAGTC 57.066 43.478 0.00 0.00 0.00 3.36
2284 12323 4.942944 TCACTAAGGGGAACATAGAGTCA 58.057 43.478 0.00 0.00 0.00 3.41
2285 12324 4.956700 TCACTAAGGGGAACATAGAGTCAG 59.043 45.833 0.00 0.00 0.00 3.51
2286 12325 4.956700 CACTAAGGGGAACATAGAGTCAGA 59.043 45.833 0.00 0.00 0.00 3.27
2287 12326 5.068460 CACTAAGGGGAACATAGAGTCAGAG 59.932 48.000 0.00 0.00 0.00 3.35
2288 12327 3.767309 AGGGGAACATAGAGTCAGAGT 57.233 47.619 0.00 0.00 0.00 3.24
2289 12328 4.883021 AGGGGAACATAGAGTCAGAGTA 57.117 45.455 0.00 0.00 0.00 2.59
2290 12329 5.208294 AGGGGAACATAGAGTCAGAGTAA 57.792 43.478 0.00 0.00 0.00 2.24
2291 12330 5.590818 AGGGGAACATAGAGTCAGAGTAAA 58.409 41.667 0.00 0.00 0.00 2.01
2292 12331 6.206042 AGGGGAACATAGAGTCAGAGTAAAT 58.794 40.000 0.00 0.00 0.00 1.40
2293 12332 7.363031 AGGGGAACATAGAGTCAGAGTAAATA 58.637 38.462 0.00 0.00 0.00 1.40
2294 12333 7.844779 AGGGGAACATAGAGTCAGAGTAAATAA 59.155 37.037 0.00 0.00 0.00 1.40
2295 12334 8.483758 GGGGAACATAGAGTCAGAGTAAATAAA 58.516 37.037 0.00 0.00 0.00 1.40
2296 12335 9.886132 GGGAACATAGAGTCAGAGTAAATAAAA 57.114 33.333 0.00 0.00 0.00 1.52
2382 12421 2.853235 AAAAGTAAGACGGGAGGTGG 57.147 50.000 0.00 0.00 0.00 4.61
2383 12422 0.981943 AAAGTAAGACGGGAGGTGGG 59.018 55.000 0.00 0.00 0.00 4.61
2384 12423 0.908180 AAGTAAGACGGGAGGTGGGG 60.908 60.000 0.00 0.00 0.00 4.96
2385 12424 2.039951 TAAGACGGGAGGTGGGGG 59.960 66.667 0.00 0.00 0.00 5.40
2386 12425 2.560083 TAAGACGGGAGGTGGGGGA 61.560 63.158 0.00 0.00 0.00 4.81
2387 12426 2.525284 TAAGACGGGAGGTGGGGGAG 62.525 65.000 0.00 0.00 0.00 4.30
2388 12427 4.393778 GACGGGAGGTGGGGGAGA 62.394 72.222 0.00 0.00 0.00 3.71
2389 12428 3.695825 ACGGGAGGTGGGGGAGAT 61.696 66.667 0.00 0.00 0.00 2.75
2390 12429 2.308118 GACGGGAGGTGGGGGAGATA 62.308 65.000 0.00 0.00 0.00 1.98
2391 12430 1.074775 CGGGAGGTGGGGGAGATAA 60.075 63.158 0.00 0.00 0.00 1.75
2392 12431 0.693092 CGGGAGGTGGGGGAGATAAA 60.693 60.000 0.00 0.00 0.00 1.40
2393 12432 1.603634 GGGAGGTGGGGGAGATAAAA 58.396 55.000 0.00 0.00 0.00 1.52
2394 12433 1.927371 GGGAGGTGGGGGAGATAAAAA 59.073 52.381 0.00 0.00 0.00 1.94
2395 12434 2.357881 GGGAGGTGGGGGAGATAAAAAC 60.358 54.545 0.00 0.00 0.00 2.43
2396 12435 2.581246 GGAGGTGGGGGAGATAAAAACT 59.419 50.000 0.00 0.00 0.00 2.66
2397 12436 3.011369 GGAGGTGGGGGAGATAAAAACTT 59.989 47.826 0.00 0.00 0.00 2.66
2398 12437 4.510386 GGAGGTGGGGGAGATAAAAACTTT 60.510 45.833 0.00 0.00 0.00 2.66
2399 12438 5.084519 GAGGTGGGGGAGATAAAAACTTTT 58.915 41.667 0.00 0.00 0.00 2.27
2400 12439 4.838423 AGGTGGGGGAGATAAAAACTTTTG 59.162 41.667 0.00 0.00 0.00 2.44
2401 12440 4.020573 GGTGGGGGAGATAAAAACTTTTGG 60.021 45.833 0.00 0.00 0.00 3.28
2402 12441 4.836175 GTGGGGGAGATAAAAACTTTTGGA 59.164 41.667 0.00 0.00 0.00 3.53
2403 12442 5.483937 GTGGGGGAGATAAAAACTTTTGGAT 59.516 40.000 0.00 0.00 0.00 3.41
2404 12443 6.666113 GTGGGGGAGATAAAAACTTTTGGATA 59.334 38.462 0.00 0.00 0.00 2.59
2405 12444 7.344612 GTGGGGGAGATAAAAACTTTTGGATAT 59.655 37.037 0.00 0.00 0.00 1.63
2406 12445 8.570470 TGGGGGAGATAAAAACTTTTGGATATA 58.430 33.333 0.00 0.00 0.00 0.86
2407 12446 9.601810 GGGGGAGATAAAAACTTTTGGATATAT 57.398 33.333 0.00 0.00 0.00 0.86
2419 12458 9.801873 AACTTTTGGATATATTGATTCGGTTTG 57.198 29.630 0.00 0.00 0.00 2.93
2420 12459 9.184523 ACTTTTGGATATATTGATTCGGTTTGA 57.815 29.630 0.00 0.00 0.00 2.69
2434 12473 7.524294 ATTCGGTTTGAATTGCAAATACATC 57.476 32.000 1.71 0.00 45.06 3.06
2435 12474 7.095910 ATTCGGTTTGAATTGCAAATACATCA 58.904 30.769 1.71 0.66 45.06 3.07
2436 12475 7.601886 ATTCGGTTTGAATTGCAAATACATCAA 59.398 29.630 1.71 7.02 45.06 2.57
2442 12481 9.806203 TTTGAATTGCAAATACATCAAGGATAG 57.194 29.630 1.71 0.00 41.37 2.08
2443 12482 8.750515 TGAATTGCAAATACATCAAGGATAGA 57.249 30.769 1.71 0.00 0.00 1.98
2444 12483 9.187996 TGAATTGCAAATACATCAAGGATAGAA 57.812 29.630 1.71 0.00 0.00 2.10
2447 12486 8.750515 TTGCAAATACATCAAGGATAGAATCA 57.249 30.769 0.00 0.00 0.00 2.57
2448 12487 8.750515 TGCAAATACATCAAGGATAGAATCAA 57.249 30.769 0.00 0.00 0.00 2.57
2449 12488 9.358406 TGCAAATACATCAAGGATAGAATCAAT 57.642 29.630 0.00 0.00 0.00 2.57
2459 12498 9.910267 TCAAGGATAGAATCAATTCAATTCTGA 57.090 29.630 17.28 7.58 42.12 3.27
2481 12520 3.905900 GCAATAAGCAAGCGAGGTC 57.094 52.632 0.00 0.00 44.79 3.85
2482 12521 1.373570 GCAATAAGCAAGCGAGGTCT 58.626 50.000 0.00 0.00 44.79 3.85
2483 12522 1.328986 GCAATAAGCAAGCGAGGTCTC 59.671 52.381 0.00 0.00 44.79 3.36
2484 12523 2.898705 CAATAAGCAAGCGAGGTCTCT 58.101 47.619 0.00 0.00 0.00 3.10
2485 12524 2.863137 CAATAAGCAAGCGAGGTCTCTC 59.137 50.000 0.00 0.00 36.69 3.20
2486 12525 1.545841 TAAGCAAGCGAGGTCTCTCA 58.454 50.000 0.00 0.00 39.95 3.27
2487 12526 0.681733 AAGCAAGCGAGGTCTCTCAA 59.318 50.000 0.00 0.00 39.95 3.02
2488 12527 0.681733 AGCAAGCGAGGTCTCTCAAA 59.318 50.000 0.00 0.00 39.95 2.69
2489 12528 1.277557 AGCAAGCGAGGTCTCTCAAAT 59.722 47.619 0.00 0.00 39.95 2.32
2490 12529 2.497675 AGCAAGCGAGGTCTCTCAAATA 59.502 45.455 0.00 0.00 39.95 1.40
2491 12530 2.863137 GCAAGCGAGGTCTCTCAAATAG 59.137 50.000 0.00 0.00 39.95 1.73
2492 12531 3.429547 GCAAGCGAGGTCTCTCAAATAGA 60.430 47.826 0.00 0.00 39.95 1.98
2504 12543 6.862944 CTCTCAAATAGAGTCGAACTGAAC 57.137 41.667 0.00 0.00 45.85 3.18
2505 12544 6.576662 TCTCAAATAGAGTCGAACTGAACT 57.423 37.500 0.00 0.00 44.98 3.01
2506 12545 6.382608 TCTCAAATAGAGTCGAACTGAACTG 58.617 40.000 0.00 0.00 44.98 3.16
2507 12546 4.923871 TCAAATAGAGTCGAACTGAACTGC 59.076 41.667 0.00 0.00 0.00 4.40
2508 12547 4.792521 AATAGAGTCGAACTGAACTGCT 57.207 40.909 0.00 0.00 0.00 4.24
2509 12548 5.899120 AATAGAGTCGAACTGAACTGCTA 57.101 39.130 0.00 0.00 0.00 3.49
2510 12549 3.840890 AGAGTCGAACTGAACTGCTAG 57.159 47.619 0.00 0.00 0.00 3.42
2511 12550 3.413327 AGAGTCGAACTGAACTGCTAGA 58.587 45.455 0.00 0.00 0.00 2.43
2512 12551 3.189702 AGAGTCGAACTGAACTGCTAGAC 59.810 47.826 0.00 0.00 0.00 2.59
2513 12552 3.150767 AGTCGAACTGAACTGCTAGACT 58.849 45.455 0.00 0.00 33.47 3.24
2514 12553 4.325119 AGTCGAACTGAACTGCTAGACTA 58.675 43.478 0.00 0.00 36.15 2.59
2515 12554 4.154556 AGTCGAACTGAACTGCTAGACTAC 59.845 45.833 0.00 0.00 36.15 2.73
2516 12555 3.124806 TCGAACTGAACTGCTAGACTACG 59.875 47.826 0.00 0.00 0.00 3.51
2517 12556 3.120269 CGAACTGAACTGCTAGACTACGT 60.120 47.826 0.00 0.00 0.00 3.57
2518 12557 4.613167 CGAACTGAACTGCTAGACTACGTT 60.613 45.833 0.00 0.00 0.00 3.99
2519 12558 4.162096 ACTGAACTGCTAGACTACGTTG 57.838 45.455 0.00 0.00 0.00 4.10
2520 12559 3.819337 ACTGAACTGCTAGACTACGTTGA 59.181 43.478 3.44 0.00 0.00 3.18
2521 12560 4.083217 ACTGAACTGCTAGACTACGTTGAG 60.083 45.833 3.44 0.00 0.00 3.02
2522 12561 3.819337 TGAACTGCTAGACTACGTTGAGT 59.181 43.478 3.44 0.00 0.00 3.41
2523 12562 3.833545 ACTGCTAGACTACGTTGAGTG 57.166 47.619 3.44 0.00 0.00 3.51
2524 12563 3.409570 ACTGCTAGACTACGTTGAGTGA 58.590 45.455 3.44 0.00 0.00 3.41
2525 12564 4.011023 ACTGCTAGACTACGTTGAGTGAT 58.989 43.478 3.44 0.00 0.00 3.06
2526 12565 4.142578 ACTGCTAGACTACGTTGAGTGATG 60.143 45.833 3.44 0.00 0.00 3.07
2527 12566 4.007659 TGCTAGACTACGTTGAGTGATGA 58.992 43.478 3.44 0.00 0.00 2.92
2528 12567 4.457949 TGCTAGACTACGTTGAGTGATGAA 59.542 41.667 3.44 0.00 0.00 2.57
2529 12568 4.794246 GCTAGACTACGTTGAGTGATGAAC 59.206 45.833 3.44 0.00 0.00 3.18
2530 12569 5.392165 GCTAGACTACGTTGAGTGATGAACT 60.392 44.000 3.44 0.00 43.85 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 7.348080 AGACGATACATCTTTCACATCCTTA 57.652 36.000 0.00 0.00 0.00 2.69
44 45 0.178068 GATTGGACTGCGGCCTTAGA 59.822 55.000 0.00 0.00 0.00 2.10
46 47 0.107703 CAGATTGGACTGCGGCCTTA 60.108 55.000 0.00 0.00 0.00 2.69
82 83 6.473131 CACCATACACCATTTCATCAATTTCG 59.527 38.462 0.00 0.00 0.00 3.46
137 138 2.366590 TGCGATCCTACTCAGCATCATT 59.633 45.455 0.00 0.00 32.43 2.57
152 153 0.101759 ATGCCAACAATGCTGCGATC 59.898 50.000 0.00 0.00 0.00 3.69
173 174 0.790814 GTCGCAAAGTTTCTCCGAGG 59.209 55.000 0.00 0.00 0.00 4.63
177 178 1.940613 ACACAGTCGCAAAGTTTCTCC 59.059 47.619 0.00 0.00 0.00 3.71
182 183 1.591158 CGTACACACAGTCGCAAAGTT 59.409 47.619 0.00 0.00 0.00 2.66
188 189 0.595567 TTCACCGTACACACAGTCGC 60.596 55.000 0.00 0.00 0.00 5.19
194 195 6.476243 AAATTACATCTTCACCGTACACAC 57.524 37.500 0.00 0.00 0.00 3.82
205 206 7.912773 GGCTCTAAGCTTGAAAATTACATCTTC 59.087 37.037 9.86 0.00 41.99 2.87
232 233 4.207635 CGCAGTTTTACAAACTCGACTACA 59.792 41.667 12.13 0.00 0.00 2.74
233 234 4.685020 CGCAGTTTTACAAACTCGACTAC 58.315 43.478 12.13 0.00 0.00 2.73
252 254 2.664851 CCTTCCAGTCGTTGCGCA 60.665 61.111 5.66 5.66 0.00 6.09
263 265 5.069648 TGTCAAAATTATGTGCAACCTTCCA 59.930 36.000 0.00 0.00 34.36 3.53
276 278 9.125026 GATATCACCTCCTGTTGTCAAAATTAT 57.875 33.333 0.00 0.00 0.00 1.28
297 299 7.716998 TCCTTACAAGAATGCCTTTCAGATATC 59.283 37.037 0.00 0.00 36.75 1.63
314 316 9.319143 CACAGATAGGATAAGTTTCCTTACAAG 57.681 37.037 10.60 6.56 43.88 3.16
338 340 1.728971 CACAAAGTCTCTCGGATGCAC 59.271 52.381 0.00 0.00 0.00 4.57
374 384 3.338818 AGTCACTGTTTCAATGTTGCG 57.661 42.857 0.00 0.00 0.00 4.85
382 392 5.747565 CGCTTCAAATTAGTCACTGTTTCA 58.252 37.500 0.00 0.00 0.00 2.69
401 411 1.394917 CTTATTGCAGAAGACGCGCTT 59.605 47.619 5.73 11.12 40.25 4.68
404 414 1.324736 GGACTTATTGCAGAAGACGCG 59.675 52.381 15.27 3.53 0.00 6.01
405 415 1.666189 GGGACTTATTGCAGAAGACGC 59.334 52.381 15.27 13.27 0.00 5.19
406 416 2.093447 AGGGGACTTATTGCAGAAGACG 60.093 50.000 15.27 0.00 37.44 4.18
407 417 3.636153 AGGGGACTTATTGCAGAAGAC 57.364 47.619 15.27 9.92 37.44 3.01
423 433 3.689649 CGACTGTCTTTTAATCCAAGGGG 59.310 47.826 6.21 0.00 0.00 4.79
424 434 3.689649 CCGACTGTCTTTTAATCCAAGGG 59.310 47.826 6.21 0.00 0.00 3.95
426 436 3.181520 CGCCGACTGTCTTTTAATCCAAG 60.182 47.826 6.21 0.00 0.00 3.61
428 438 2.343101 CGCCGACTGTCTTTTAATCCA 58.657 47.619 6.21 0.00 0.00 3.41
429 439 1.664151 CCGCCGACTGTCTTTTAATCC 59.336 52.381 6.21 0.00 0.00 3.01
430 440 1.062148 GCCGCCGACTGTCTTTTAATC 59.938 52.381 6.21 0.00 0.00 1.75
431 441 1.084289 GCCGCCGACTGTCTTTTAAT 58.916 50.000 6.21 0.00 0.00 1.40
432 442 0.034337 AGCCGCCGACTGTCTTTTAA 59.966 50.000 6.21 0.00 0.00 1.52
433 443 0.389426 GAGCCGCCGACTGTCTTTTA 60.389 55.000 6.21 0.00 0.00 1.52
434 444 1.668151 GAGCCGCCGACTGTCTTTT 60.668 57.895 6.21 0.00 0.00 2.27
436 446 2.493907 GAAGAGCCGCCGACTGTCTT 62.494 60.000 6.21 0.00 0.00 3.01
437 447 2.992114 AAGAGCCGCCGACTGTCT 60.992 61.111 6.21 0.00 0.00 3.41
438 448 2.507324 GAAGAGCCGCCGACTGTC 60.507 66.667 0.00 0.00 0.00 3.51
440 450 2.811317 GTGAAGAGCCGCCGACTG 60.811 66.667 0.00 0.00 0.00 3.51
443 453 2.048222 CTTGTGAAGAGCCGCCGA 60.048 61.111 0.00 0.00 0.00 5.54
444 454 2.048222 TCTTGTGAAGAGCCGCCG 60.048 61.111 0.00 0.00 32.71 6.46
450 460 6.646653 TTGTAGTACAATGCTCTTGTGAAGAG 59.353 38.462 11.75 8.69 44.18 2.85
451 461 6.096673 TGTAGTACAATGCTCTTGTGAAGA 57.903 37.500 13.39 0.00 34.11 2.87
452 462 6.619446 GCTTGTAGTACAATGCTCTTGTGAAG 60.619 42.308 15.91 1.29 37.48 3.02
454 464 4.690748 GCTTGTAGTACAATGCTCTTGTGA 59.309 41.667 15.91 0.00 37.48 3.58
455 465 4.452114 TGCTTGTAGTACAATGCTCTTGTG 59.548 41.667 24.79 11.47 37.48 3.33
456 466 4.641396 TGCTTGTAGTACAATGCTCTTGT 58.359 39.130 24.79 9.62 37.48 3.16
457 467 5.385617 GTTGCTTGTAGTACAATGCTCTTG 58.614 41.667 24.79 12.52 37.48 3.02
458 468 4.152402 CGTTGCTTGTAGTACAATGCTCTT 59.848 41.667 24.79 0.00 37.48 2.85
459 469 3.679980 CGTTGCTTGTAGTACAATGCTCT 59.320 43.478 24.79 0.00 37.48 4.09
460 470 3.181520 CCGTTGCTTGTAGTACAATGCTC 60.182 47.826 24.79 19.34 37.48 4.26
463 473 4.242475 TCTCCGTTGCTTGTAGTACAATG 58.758 43.478 15.91 11.09 37.48 2.82
464 474 4.530710 TCTCCGTTGCTTGTAGTACAAT 57.469 40.909 15.91 0.00 37.48 2.71
466 476 3.508402 TGATCTCCGTTGCTTGTAGTACA 59.492 43.478 0.00 0.00 0.00 2.90
470 3982 2.668457 GTGTGATCTCCGTTGCTTGTAG 59.332 50.000 0.00 0.00 0.00 2.74
477 3993 2.733552 CACTTCTGTGTGATCTCCGTTG 59.266 50.000 0.00 0.00 40.12 4.10
480 3996 1.546029 TCCACTTCTGTGTGATCTCCG 59.454 52.381 0.00 0.00 42.34 4.63
481 3997 2.672478 CGTCCACTTCTGTGTGATCTCC 60.672 54.545 0.00 0.00 42.34 3.71
485 4001 0.667487 CGCGTCCACTTCTGTGTGAT 60.667 55.000 0.00 0.00 42.34 3.06
537 4983 8.668510 AGAAACACTGAAGTAATGCATATAGG 57.331 34.615 0.00 0.00 0.00 2.57
540 4986 7.334421 ACGAAGAAACACTGAAGTAATGCATAT 59.666 33.333 0.00 0.00 0.00 1.78
619 5065 7.497909 AGTTAAAGAAAAAGAATGACGGACTCA 59.502 33.333 0.00 0.00 0.00 3.41
732 5186 0.249868 CAGGGTCTGAAAGCACGACA 60.250 55.000 0.00 0.00 32.44 4.35
734 5188 1.334160 TACAGGGTCTGAAAGCACGA 58.666 50.000 1.59 0.00 35.18 4.35
874 5345 4.686122 CGCCATAAATAGAGGTTCCAAGGT 60.686 45.833 0.00 0.00 0.00 3.50
882 5353 2.700897 AGTGAGCGCCATAAATAGAGGT 59.299 45.455 2.29 0.00 0.00 3.85
909 5380 0.538287 GCTGCTTGGTTTCCTGGAGT 60.538 55.000 0.00 0.00 0.00 3.85
967 5449 2.432628 GGACTCGACCGGTGCAAG 60.433 66.667 14.63 9.06 0.00 4.01
979 5461 3.257469 TGCTGTGATGATCAAGGACTC 57.743 47.619 0.00 0.00 0.00 3.36
980 5462 3.708403 TTGCTGTGATGATCAAGGACT 57.292 42.857 0.00 0.00 0.00 3.85
1007 10092 1.762858 TGGGTCCAACTGTCGGTGA 60.763 57.895 0.00 0.00 0.00 4.02
1533 10842 2.897972 GGGTTGGCGACGAGGTAT 59.102 61.111 0.00 0.00 0.00 2.73
1597 10906 4.718961 ACCAGGGACAGCATAATCATAAC 58.281 43.478 0.00 0.00 0.00 1.89
1688 11006 1.762370 TCAACTCCACACTCTGCTCAA 59.238 47.619 0.00 0.00 0.00 3.02
1704 11022 5.225899 ACACGACCTTTTAACTTGTCAAC 57.774 39.130 0.00 0.00 0.00 3.18
1855 11893 6.241207 TCCTATTTGAAAAGAGCAAACGAG 57.759 37.500 0.00 0.00 37.98 4.18
1904 11942 3.743899 GCCAGAAAAAGGTGATGCCAAAA 60.744 43.478 0.00 0.00 40.61 2.44
2085 12124 6.472016 TGCAGTCTTAAATTGTGGAGTATCA 58.528 36.000 0.00 0.00 36.25 2.15
2091 12130 4.213270 CGTCTTGCAGTCTTAAATTGTGGA 59.787 41.667 0.00 0.00 0.00 4.02
2092 12131 4.024048 ACGTCTTGCAGTCTTAAATTGTGG 60.024 41.667 0.00 0.00 0.00 4.17
2093 12132 5.050091 AGACGTCTTGCAGTCTTAAATTGTG 60.050 40.000 13.58 0.00 44.46 3.33
2094 12133 5.057149 AGACGTCTTGCAGTCTTAAATTGT 58.943 37.500 13.58 0.00 44.46 2.71
2095 12134 5.597813 AGACGTCTTGCAGTCTTAAATTG 57.402 39.130 13.58 0.00 44.46 2.32
2103 12142 5.682943 ATCTATCTAGACGTCTTGCAGTC 57.317 43.478 25.44 0.00 34.72 3.51
2246 12285 9.640952 CCCCTTAGTGAAATATTAATCCTCAAA 57.359 33.333 0.00 0.00 0.00 2.69
2247 12286 9.009675 TCCCCTTAGTGAAATATTAATCCTCAA 57.990 33.333 0.00 0.00 0.00 3.02
2248 12287 8.575736 TCCCCTTAGTGAAATATTAATCCTCA 57.424 34.615 0.00 0.00 0.00 3.86
2249 12288 9.286170 GTTCCCCTTAGTGAAATATTAATCCTC 57.714 37.037 0.00 0.00 0.00 3.71
2250 12289 8.787818 TGTTCCCCTTAGTGAAATATTAATCCT 58.212 33.333 0.00 0.00 0.00 3.24
2251 12290 8.990163 TGTTCCCCTTAGTGAAATATTAATCC 57.010 34.615 0.00 0.00 0.00 3.01
2256 12295 9.004231 ACTCTATGTTCCCCTTAGTGAAATATT 57.996 33.333 0.00 0.00 0.00 1.28
2257 12296 8.568617 ACTCTATGTTCCCCTTAGTGAAATAT 57.431 34.615 0.00 0.00 0.00 1.28
2258 12297 7.622081 TGACTCTATGTTCCCCTTAGTGAAATA 59.378 37.037 0.00 0.00 0.00 1.40
2259 12298 6.443849 TGACTCTATGTTCCCCTTAGTGAAAT 59.556 38.462 0.00 0.00 0.00 2.17
2260 12299 5.783360 TGACTCTATGTTCCCCTTAGTGAAA 59.217 40.000 0.00 0.00 0.00 2.69
2261 12300 5.338632 TGACTCTATGTTCCCCTTAGTGAA 58.661 41.667 0.00 0.00 0.00 3.18
2262 12301 4.942944 TGACTCTATGTTCCCCTTAGTGA 58.057 43.478 0.00 0.00 0.00 3.41
2263 12302 4.956700 TCTGACTCTATGTTCCCCTTAGTG 59.043 45.833 0.00 0.00 0.00 2.74
2264 12303 5.205056 CTCTGACTCTATGTTCCCCTTAGT 58.795 45.833 0.00 0.00 0.00 2.24
2265 12304 5.205056 ACTCTGACTCTATGTTCCCCTTAG 58.795 45.833 0.00 0.00 0.00 2.18
2266 12305 5.208294 ACTCTGACTCTATGTTCCCCTTA 57.792 43.478 0.00 0.00 0.00 2.69
2267 12306 4.067944 ACTCTGACTCTATGTTCCCCTT 57.932 45.455 0.00 0.00 0.00 3.95
2268 12307 3.767309 ACTCTGACTCTATGTTCCCCT 57.233 47.619 0.00 0.00 0.00 4.79
2269 12308 5.934402 TTTACTCTGACTCTATGTTCCCC 57.066 43.478 0.00 0.00 0.00 4.81
2270 12309 9.886132 TTTTATTTACTCTGACTCTATGTTCCC 57.114 33.333 0.00 0.00 0.00 3.97
2362 12401 2.224695 CCCACCTCCCGTCTTACTTTTT 60.225 50.000 0.00 0.00 0.00 1.94
2363 12402 1.350019 CCCACCTCCCGTCTTACTTTT 59.650 52.381 0.00 0.00 0.00 2.27
2364 12403 0.981943 CCCACCTCCCGTCTTACTTT 59.018 55.000 0.00 0.00 0.00 2.66
2365 12404 0.908180 CCCCACCTCCCGTCTTACTT 60.908 60.000 0.00 0.00 0.00 2.24
2366 12405 1.305887 CCCCACCTCCCGTCTTACT 60.306 63.158 0.00 0.00 0.00 2.24
2367 12406 2.364780 CCCCCACCTCCCGTCTTAC 61.365 68.421 0.00 0.00 0.00 2.34
2368 12407 2.039951 CCCCCACCTCCCGTCTTA 59.960 66.667 0.00 0.00 0.00 2.10
2369 12408 3.925914 CTCCCCCACCTCCCGTCTT 62.926 68.421 0.00 0.00 0.00 3.01
2370 12409 4.400251 CTCCCCCACCTCCCGTCT 62.400 72.222 0.00 0.00 0.00 4.18
2371 12410 2.308118 TATCTCCCCCACCTCCCGTC 62.308 65.000 0.00 0.00 0.00 4.79
2372 12411 1.893588 TTATCTCCCCCACCTCCCGT 61.894 60.000 0.00 0.00 0.00 5.28
2373 12412 0.693092 TTTATCTCCCCCACCTCCCG 60.693 60.000 0.00 0.00 0.00 5.14
2374 12413 1.603634 TTTTATCTCCCCCACCTCCC 58.396 55.000 0.00 0.00 0.00 4.30
2375 12414 2.581246 AGTTTTTATCTCCCCCACCTCC 59.419 50.000 0.00 0.00 0.00 4.30
2376 12415 4.317530 AAGTTTTTATCTCCCCCACCTC 57.682 45.455 0.00 0.00 0.00 3.85
2377 12416 4.759793 AAAGTTTTTATCTCCCCCACCT 57.240 40.909 0.00 0.00 0.00 4.00
2378 12417 4.020573 CCAAAAGTTTTTATCTCCCCCACC 60.021 45.833 0.00 0.00 0.00 4.61
2379 12418 4.836175 TCCAAAAGTTTTTATCTCCCCCAC 59.164 41.667 0.00 0.00 0.00 4.61
2380 12419 5.081315 TCCAAAAGTTTTTATCTCCCCCA 57.919 39.130 0.00 0.00 0.00 4.96
2381 12420 7.914427 ATATCCAAAAGTTTTTATCTCCCCC 57.086 36.000 0.00 0.00 0.00 5.40
2393 12432 9.801873 CAAACCGAATCAATATATCCAAAAGTT 57.198 29.630 0.00 0.00 0.00 2.66
2394 12433 9.184523 TCAAACCGAATCAATATATCCAAAAGT 57.815 29.630 0.00 0.00 0.00 2.66
2398 12437 9.964303 CAATTCAAACCGAATCAATATATCCAA 57.036 29.630 0.00 0.00 43.83 3.53
2399 12438 8.081633 GCAATTCAAACCGAATCAATATATCCA 58.918 33.333 0.00 0.00 43.83 3.41
2400 12439 8.081633 TGCAATTCAAACCGAATCAATATATCC 58.918 33.333 0.00 0.00 43.83 2.59
2401 12440 9.462174 TTGCAATTCAAACCGAATCAATATATC 57.538 29.630 0.00 0.00 43.83 1.63
2402 12441 9.814899 TTTGCAATTCAAACCGAATCAATATAT 57.185 25.926 0.00 0.00 43.83 0.86
2403 12442 9.814899 ATTTGCAATTCAAACCGAATCAATATA 57.185 25.926 0.00 0.00 46.36 0.86
2404 12443 8.721019 ATTTGCAATTCAAACCGAATCAATAT 57.279 26.923 0.00 0.00 46.36 1.28
2405 12444 9.081997 GTATTTGCAATTCAAACCGAATCAATA 57.918 29.630 0.00 0.00 46.36 1.90
2406 12445 7.601886 TGTATTTGCAATTCAAACCGAATCAAT 59.398 29.630 0.00 0.00 46.36 2.57
2407 12446 6.925718 TGTATTTGCAATTCAAACCGAATCAA 59.074 30.769 0.00 0.00 46.36 2.57
2408 12447 6.450545 TGTATTTGCAATTCAAACCGAATCA 58.549 32.000 0.00 0.00 46.36 2.57
2409 12448 6.942886 TGTATTTGCAATTCAAACCGAATC 57.057 33.333 0.00 0.00 46.36 2.52
2410 12449 7.095910 TGATGTATTTGCAATTCAAACCGAAT 58.904 30.769 0.00 0.00 46.36 3.34
2411 12450 6.450545 TGATGTATTTGCAATTCAAACCGAA 58.549 32.000 0.00 0.00 46.36 4.30
2412 12451 6.018589 TGATGTATTTGCAATTCAAACCGA 57.981 33.333 0.00 0.00 46.36 4.69
2413 12452 6.183360 CCTTGATGTATTTGCAATTCAAACCG 60.183 38.462 0.00 0.00 46.36 4.44
2414 12453 6.873076 TCCTTGATGTATTTGCAATTCAAACC 59.127 34.615 0.00 0.00 46.36 3.27
2415 12454 7.887996 TCCTTGATGTATTTGCAATTCAAAC 57.112 32.000 0.00 0.00 46.36 2.93
2417 12456 9.187996 TCTATCCTTGATGTATTTGCAATTCAA 57.812 29.630 0.00 4.77 0.00 2.69
2418 12457 8.750515 TCTATCCTTGATGTATTTGCAATTCA 57.249 30.769 0.00 0.29 0.00 2.57
2421 12460 9.358406 TGATTCTATCCTTGATGTATTTGCAAT 57.642 29.630 0.00 0.00 0.00 3.56
2422 12461 8.750515 TGATTCTATCCTTGATGTATTTGCAA 57.249 30.769 0.00 0.00 0.00 4.08
2423 12462 8.750515 TTGATTCTATCCTTGATGTATTTGCA 57.249 30.769 0.00 0.00 0.00 4.08
2433 12472 9.910267 TCAGAATTGAATTGATTCTATCCTTGA 57.090 29.630 11.39 5.64 40.82 3.02
2461 12500 6.899155 AGAGACCTCGCTTGCTTATTGCAA 62.899 45.833 0.00 0.00 45.85 4.08
2462 12501 5.494103 AGAGACCTCGCTTGCTTATTGCA 62.494 47.826 0.00 0.00 41.67 4.08
2463 12502 1.328986 GAGACCTCGCTTGCTTATTGC 59.671 52.381 0.00 0.00 43.25 3.56
2464 12503 2.863137 GAGAGACCTCGCTTGCTTATTG 59.137 50.000 0.00 0.00 34.09 1.90
2465 12504 2.497675 TGAGAGACCTCGCTTGCTTATT 59.502 45.455 2.69 0.00 42.33 1.40
2466 12505 2.103373 TGAGAGACCTCGCTTGCTTAT 58.897 47.619 2.69 0.00 42.33 1.73
2467 12506 1.545841 TGAGAGACCTCGCTTGCTTA 58.454 50.000 2.69 0.00 42.33 3.09
2468 12507 0.681733 TTGAGAGACCTCGCTTGCTT 59.318 50.000 2.69 0.00 42.33 3.91
2469 12508 0.681733 TTTGAGAGACCTCGCTTGCT 59.318 50.000 2.69 0.00 42.33 3.91
2470 12509 1.731720 ATTTGAGAGACCTCGCTTGC 58.268 50.000 2.69 0.00 42.33 4.01
2471 12510 4.377839 TCTATTTGAGAGACCTCGCTTG 57.622 45.455 2.69 0.00 42.33 4.01
2482 12521 6.382608 CAGTTCAGTTCGACTCTATTTGAGA 58.617 40.000 2.03 0.00 45.39 3.27
2484 12523 4.923871 GCAGTTCAGTTCGACTCTATTTGA 59.076 41.667 0.00 0.00 0.00 2.69
2485 12524 4.926238 AGCAGTTCAGTTCGACTCTATTTG 59.074 41.667 0.00 0.00 0.00 2.32
2486 12525 5.140747 AGCAGTTCAGTTCGACTCTATTT 57.859 39.130 0.00 0.00 0.00 1.40
2487 12526 4.792521 AGCAGTTCAGTTCGACTCTATT 57.207 40.909 0.00 0.00 0.00 1.73
2488 12527 5.065474 GTCTAGCAGTTCAGTTCGACTCTAT 59.935 44.000 0.00 0.00 0.00 1.98
2489 12528 4.392445 GTCTAGCAGTTCAGTTCGACTCTA 59.608 45.833 0.00 0.00 0.00 2.43
2490 12529 3.189702 GTCTAGCAGTTCAGTTCGACTCT 59.810 47.826 0.00 0.00 0.00 3.24
2491 12530 3.189702 AGTCTAGCAGTTCAGTTCGACTC 59.810 47.826 0.00 0.00 0.00 3.36
2492 12531 3.150767 AGTCTAGCAGTTCAGTTCGACT 58.849 45.455 0.00 0.00 0.00 4.18
2493 12532 3.562567 AGTCTAGCAGTTCAGTTCGAC 57.437 47.619 0.00 0.00 0.00 4.20
2494 12533 3.124806 CGTAGTCTAGCAGTTCAGTTCGA 59.875 47.826 0.00 0.00 0.00 3.71
2495 12534 3.120269 ACGTAGTCTAGCAGTTCAGTTCG 60.120 47.826 0.00 0.00 29.74 3.95
2496 12535 4.422546 ACGTAGTCTAGCAGTTCAGTTC 57.577 45.455 0.00 0.00 29.74 3.01
2497 12536 4.277672 TCAACGTAGTCTAGCAGTTCAGTT 59.722 41.667 0.00 0.00 45.00 3.16
2498 12537 3.819337 TCAACGTAGTCTAGCAGTTCAGT 59.181 43.478 0.00 0.00 45.00 3.41
2499 12538 4.083217 ACTCAACGTAGTCTAGCAGTTCAG 60.083 45.833 0.00 0.00 45.00 3.02
2500 12539 3.819337 ACTCAACGTAGTCTAGCAGTTCA 59.181 43.478 0.00 0.00 45.00 3.18
2501 12540 4.083431 TCACTCAACGTAGTCTAGCAGTTC 60.083 45.833 0.00 0.00 45.00 3.01
2502 12541 3.819337 TCACTCAACGTAGTCTAGCAGTT 59.181 43.478 0.00 0.00 45.00 3.16
2503 12542 3.409570 TCACTCAACGTAGTCTAGCAGT 58.590 45.455 0.00 0.00 45.00 4.40
2504 12543 4.095036 TCATCACTCAACGTAGTCTAGCAG 59.905 45.833 0.00 0.00 45.00 4.24
2505 12544 4.007659 TCATCACTCAACGTAGTCTAGCA 58.992 43.478 0.00 0.00 45.00 3.49
2506 12545 4.617808 TCATCACTCAACGTAGTCTAGC 57.382 45.455 0.00 0.00 45.00 3.42
2507 12546 6.184580 AGTTCATCACTCAACGTAGTCTAG 57.815 41.667 0.00 0.00 45.00 2.43


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

AutoCloner maintained by Alex Coulton.