Multiple sequence alignment - TraesCS6D01G141400

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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 TraesCS6D01G141400 chr6D 100.000 8506 0 0 1 8506 110877726 110886231 0.000000e+00 15708.0
1 TraesCS6D01G141400 chr6D 91.667 72 6 0 528 599 110752886 110752957 5.430000e-17 100.0
2 TraesCS6D01G141400 chr6B 95.502 5024 151 29 757 5752 199759937 199764913 0.000000e+00 7956.0
3 TraesCS6D01G141400 chr6B 97.591 1702 28 8 5827 7523 199764913 199766606 0.000000e+00 2904.0
4 TraesCS6D01G141400 chr6B 91.150 1017 52 14 7503 8506 199766690 199767681 0.000000e+00 1345.0
5 TraesCS6D01G141400 chr6B 96.000 250 7 2 425 674 199757262 199757508 3.700000e-108 403.0
6 TraesCS6D01G141400 chr6B 93.074 231 13 2 2 229 199756886 199757116 1.370000e-87 335.0
7 TraesCS6D01G141400 chr6B 93.452 168 3 7 262 426 152082801 152082639 8.530000e-60 243.0
8 TraesCS6D01G141400 chr6B 93.293 164 8 2 257 420 450843589 450843749 1.100000e-58 239.0
9 TraesCS6D01G141400 chr6B 96.739 92 1 2 3696 3785 694537978 694538069 1.480000e-32 152.0
10 TraesCS6D01G141400 chr6B 94.737 38 1 1 728 764 199757580 199757617 3.320000e-04 58.4
11 TraesCS6D01G141400 chr6A 97.052 4003 97 14 3850 7846 135244618 135248605 0.000000e+00 6719.0
12 TraesCS6D01G141400 chr6A 97.203 1752 30 7 2175 3911 135242871 135244618 0.000000e+00 2946.0
13 TraesCS6D01G141400 chr6A 93.097 1550 57 25 368 1897 135239149 135240668 0.000000e+00 2224.0
14 TraesCS6D01G141400 chr6A 92.874 435 28 2 7899 8333 135248913 135249344 5.600000e-176 628.0
15 TraesCS6D01G141400 chr6A 98.233 283 4 1 1896 2178 135240906 135241187 2.130000e-135 494.0
16 TraesCS6D01G141400 chr6A 93.534 232 12 2 1 229 135233231 135233462 8.180000e-90 342.0
17 TraesCS6D01G141400 chr6A 90.909 66 6 0 8335 8400 135249879 135249944 1.180000e-13 89.8
18 TraesCS6D01G141400 chr6A 93.750 48 3 0 7861 7908 135248590 135248637 1.180000e-08 73.1
19 TraesCS6D01G141400 chr6A 91.489 47 4 0 8329 8375 25316201 25316155 1.980000e-06 65.8
20 TraesCS6D01G141400 chr2D 92.571 175 9 3 262 435 362930808 362930979 1.830000e-61 248.0
21 TraesCS6D01G141400 chr2D 92.857 168 8 3 259 426 624881949 624881786 3.070000e-59 241.0
22 TraesCS6D01G141400 chr3B 92.941 170 8 3 258 426 23408404 23408570 2.370000e-60 244.0
23 TraesCS6D01G141400 chr3B 93.373 166 8 2 262 427 112325298 112325136 8.530000e-60 243.0
24 TraesCS6D01G141400 chr7B 92.442 172 10 2 258 429 114143321 114143489 8.530000e-60 243.0
25 TraesCS6D01G141400 chr7B 90.909 154 11 3 3110 3262 665284788 665284939 4.030000e-48 204.0
26 TraesCS6D01G141400 chr7D 91.954 174 10 3 254 427 379768803 379768972 3.070000e-59 241.0
27 TraesCS6D01G141400 chr7D 89.697 165 12 5 3111 3270 464086605 464086441 1.120000e-48 206.0
28 TraesCS6D01G141400 chr7D 97.727 88 1 1 3698 3785 33478539 33478453 5.320000e-32 150.0
29 TraesCS6D01G141400 chr5D 91.860 172 11 2 257 428 53583243 53583075 3.970000e-58 237.0
30 TraesCS6D01G141400 chr5D 87.730 163 19 1 3112 3273 521631653 521631491 1.130000e-43 189.0
31 TraesCS6D01G141400 chr4A 95.775 142 5 1 3111 3251 682754625 682754766 2.390000e-55 228.0
32 TraesCS6D01G141400 chr1B 91.613 155 9 3 3111 3264 687309559 687309408 2.410000e-50 211.0
33 TraesCS6D01G141400 chr3D 90.506 158 12 3 3107 3263 488863582 488863427 1.120000e-48 206.0
34 TraesCS6D01G141400 chr1D 90.446 157 12 3 3106 3261 319068526 319068680 4.030000e-48 204.0
35 TraesCS6D01G141400 chr4B 97.727 88 2 0 3698 3785 514055581 514055494 1.480000e-32 152.0
36 TraesCS6D01G141400 chrUn 97.701 87 2 0 3698 3784 22143677 22143591 5.320000e-32 150.0
37 TraesCS6D01G141400 chrUn 91.489 47 4 0 8329 8375 182435147 182435101 1.980000e-06 65.8
38 TraesCS6D01G141400 chrUn 91.489 47 4 0 8329 8375 182464639 182464593 1.980000e-06 65.8
39 TraesCS6D01G141400 chrUn 91.489 47 4 0 8329 8375 301691233 301691279 1.980000e-06 65.8
40 TraesCS6D01G141400 chr5A 97.701 87 2 0 3698 3784 480631455 480631541 5.320000e-32 150.0
41 TraesCS6D01G141400 chr2B 97.701 87 2 0 3698 3784 385567519 385567605 5.320000e-32 150.0
42 TraesCS6D01G141400 chr4D 90.654 107 7 2 3682 3785 437825625 437825519 1.150000e-28 139.0
43 TraesCS6D01G141400 chr4D 91.489 47 4 0 8329 8375 85394047 85394001 1.980000e-06 65.8
44 TraesCS6D01G141400 chr4D 91.489 47 4 0 8329 8375 241389419 241389465 1.980000e-06 65.8
45 TraesCS6D01G141400 chr4D 91.489 47 4 0 8329 8375 450996913 450996867 1.980000e-06 65.8
46 TraesCS6D01G141400 chr4D 91.489 47 4 0 8329 8375 451004781 451004827 1.980000e-06 65.8
47 TraesCS6D01G141400 chr1A 89.362 47 5 0 8329 8375 68949116 68949070 9.220000e-05 60.2


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 TraesCS6D01G141400 chr6D 110877726 110886231 8505 False 15708.000000 15708 100.000000 1 8506 1 chr6D.!!$F2 8505
1 TraesCS6D01G141400 chr6B 199756886 199767681 10795 False 2166.900000 7956 94.675667 2 8506 6 chr6B.!!$F3 8504
2 TraesCS6D01G141400 chr6A 135239149 135249944 10795 False 1881.985714 6719 94.731143 368 8400 7 chr6A.!!$F2 8032

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
275 361 1.067776 CGCATATACTCCCTCCGTTCC 60.068 57.143 0.00 0.00 0.00 3.62 F
1537 3999 0.449388 CCGTCTGGCTGAAAATCTGC 59.551 55.000 0.00 1.11 40.10 4.26 F
2309 6709 1.280710 TGGTTGTGGTCTGTGTGAACT 59.719 47.619 0.00 0.00 32.49 3.01 F
3254 7674 0.623723 GCCCTTGGGTTGGTCTCATA 59.376 55.000 7.61 0.00 0.00 2.15 F
3255 7675 1.215423 GCCCTTGGGTTGGTCTCATAT 59.785 52.381 7.61 0.00 0.00 1.78 F
3501 7931 1.406887 GGACTGCAATAAGGAAGCGGA 60.407 52.381 0.00 0.00 38.03 5.54 F
4455 8952 1.427809 TGTATCATCTGGGCTGGAGG 58.572 55.000 0.00 0.00 0.00 4.30 F
5753 10250 2.219445 GGAACAGGAACGTCACGTAAAC 59.781 50.000 1.57 0.00 39.99 2.01 F
6762 11263 2.031682 GTGCCATATGATGACGCCTTTC 60.032 50.000 3.65 0.00 0.00 2.62 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1555 4017 0.112218 CCACCCCTTGTGTCCATGAA 59.888 55.000 0.00 0.0 43.85 2.57 R
2569 6970 7.215789 ACAAAAACCATGATTAATGCTGTTCA 58.784 30.769 0.00 0.0 34.67 3.18 R
4042 8539 4.783227 AGGGTGTTATGTGTCATACTCCTT 59.217 41.667 0.00 0.0 0.00 3.36 R
4455 8952 1.303309 ATATCAAGCTTGGCAGACGC 58.697 50.000 25.73 0.0 37.44 5.19 R
5128 9625 3.931468 CACAGGTTTTTGCATGTTCAACA 59.069 39.130 0.00 0.0 30.45 3.33 R
5239 9736 5.504665 CGAATAGAATTGCTCGCCAGAAATT 60.505 40.000 0.00 0.0 40.25 1.82 R
6155 10655 0.681733 AGCAGAGAAAGCCGAACTCA 59.318 50.000 0.00 0.0 33.69 3.41 R
6956 11457 0.385390 CGAGCAGTTGGTGGCTTTTT 59.615 50.000 0.00 0.0 41.22 1.94 R
7855 12465 0.037697 TGTGGACACGTACCTGATGC 60.038 55.000 11.33 0.0 0.00 3.91 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
40 41 5.297029 AGACAAACTCCTGCTTTAAGTTCAC 59.703 40.000 0.00 0.00 32.24 3.18
51 52 7.380602 CCTGCTTTAAGTTCACTTCAAAATGAG 59.619 37.037 0.00 0.00 37.40 2.90
80 83 8.466086 AAACAACAACTCAGATTTGAAGTTTC 57.534 30.769 7.48 0.00 33.48 2.78
132 135 7.569485 TCTGTAAACACTATCCCATATTACCCA 59.431 37.037 0.00 0.00 0.00 4.51
184 187 4.800784 ACCGAAAACCAAACATATTTCCG 58.199 39.130 0.00 0.00 0.00 4.30
229 233 7.667575 AAATACTTCCTCTCATGAAGCTAGA 57.332 36.000 0.00 0.00 42.35 2.43
230 234 6.899393 ATACTTCCTCTCATGAAGCTAGAG 57.101 41.667 0.00 3.80 42.35 2.43
233 237 6.191315 ACTTCCTCTCATGAAGCTAGAGTTA 58.809 40.000 9.14 0.00 42.35 2.24
234 238 6.838612 ACTTCCTCTCATGAAGCTAGAGTTAT 59.161 38.462 9.14 0.00 42.35 1.89
235 239 6.892658 TCCTCTCATGAAGCTAGAGTTATC 57.107 41.667 9.14 0.00 35.93 1.75
239 325 5.471797 TCTCATGAAGCTAGAGTTATCGAGG 59.528 44.000 0.00 0.00 0.00 4.63
258 344 7.677454 TCGAGGAGTACTAATTATTATCGCA 57.323 36.000 0.00 0.00 0.00 5.10
260 346 9.387257 TCGAGGAGTACTAATTATTATCGCATA 57.613 33.333 0.00 0.00 0.00 3.14
270 356 9.915629 CTAATTATTATCGCATATACTCCCTCC 57.084 37.037 0.00 0.00 0.00 4.30
271 357 4.920640 ATTATCGCATATACTCCCTCCG 57.079 45.455 0.00 0.00 0.00 4.63
272 358 2.217510 ATCGCATATACTCCCTCCGT 57.782 50.000 0.00 0.00 0.00 4.69
273 359 1.991121 TCGCATATACTCCCTCCGTT 58.009 50.000 0.00 0.00 0.00 4.44
274 360 1.884579 TCGCATATACTCCCTCCGTTC 59.115 52.381 0.00 0.00 0.00 3.95
275 361 1.067776 CGCATATACTCCCTCCGTTCC 60.068 57.143 0.00 0.00 0.00 3.62
276 362 2.249139 GCATATACTCCCTCCGTTCCT 58.751 52.381 0.00 0.00 0.00 3.36
277 363 3.428532 GCATATACTCCCTCCGTTCCTA 58.571 50.000 0.00 0.00 0.00 2.94
278 364 3.830755 GCATATACTCCCTCCGTTCCTAA 59.169 47.826 0.00 0.00 0.00 2.69
281 367 6.154021 GCATATACTCCCTCCGTTCCTAAATA 59.846 42.308 0.00 0.00 0.00 1.40
282 368 7.147707 GCATATACTCCCTCCGTTCCTAAATAT 60.148 40.741 0.00 0.00 0.00 1.28
283 369 9.417561 CATATACTCCCTCCGTTCCTAAATATA 57.582 37.037 0.00 0.00 0.00 0.86
285 371 6.667558 ACTCCCTCCGTTCCTAAATATAAG 57.332 41.667 0.00 0.00 0.00 1.73
286 372 6.141790 ACTCCCTCCGTTCCTAAATATAAGT 58.858 40.000 0.00 0.00 0.00 2.24
287 373 6.267242 ACTCCCTCCGTTCCTAAATATAAGTC 59.733 42.308 0.00 0.00 0.00 3.01
288 374 6.379579 TCCCTCCGTTCCTAAATATAAGTCT 58.620 40.000 0.00 0.00 0.00 3.24
289 375 6.842807 TCCCTCCGTTCCTAAATATAAGTCTT 59.157 38.462 0.00 0.00 0.00 3.01
291 377 7.991460 CCCTCCGTTCCTAAATATAAGTCTTTT 59.009 37.037 0.00 0.00 0.00 2.27
292 378 9.392259 CCTCCGTTCCTAAATATAAGTCTTTTT 57.608 33.333 0.00 0.00 0.00 1.94
322 408 5.006153 TCCATTGTGGACTACATACGAAG 57.994 43.478 0.00 0.00 42.67 3.79
323 409 3.555956 CCATTGTGGACTACATACGAAGC 59.444 47.826 0.00 0.00 40.96 3.86
324 410 3.945981 TTGTGGACTACATACGAAGCA 57.054 42.857 0.00 0.00 39.48 3.91
325 411 3.945981 TGTGGACTACATACGAAGCAA 57.054 42.857 0.00 0.00 33.42 3.91
326 412 4.260139 TGTGGACTACATACGAAGCAAA 57.740 40.909 0.00 0.00 33.42 3.68
327 413 4.633175 TGTGGACTACATACGAAGCAAAA 58.367 39.130 0.00 0.00 33.42 2.44
328 414 5.242434 TGTGGACTACATACGAAGCAAAAT 58.758 37.500 0.00 0.00 33.42 1.82
329 415 5.121611 TGTGGACTACATACGAAGCAAAATG 59.878 40.000 0.00 0.00 33.42 2.32
330 416 5.350365 GTGGACTACATACGAAGCAAAATGA 59.650 40.000 0.00 0.00 0.00 2.57
331 417 5.580691 TGGACTACATACGAAGCAAAATGAG 59.419 40.000 0.00 0.00 0.00 2.90
332 418 5.581085 GGACTACATACGAAGCAAAATGAGT 59.419 40.000 0.00 0.00 0.00 3.41
333 419 6.408858 ACTACATACGAAGCAAAATGAGTG 57.591 37.500 0.00 0.00 0.00 3.51
334 420 6.163476 ACTACATACGAAGCAAAATGAGTGA 58.837 36.000 0.00 0.00 0.00 3.41
335 421 5.940192 ACATACGAAGCAAAATGAGTGAA 57.060 34.783 0.00 0.00 0.00 3.18
336 422 6.500684 ACATACGAAGCAAAATGAGTGAAT 57.499 33.333 0.00 0.00 0.00 2.57
337 423 6.546395 ACATACGAAGCAAAATGAGTGAATC 58.454 36.000 0.00 0.00 0.00 2.52
338 424 6.372659 ACATACGAAGCAAAATGAGTGAATCT 59.627 34.615 0.00 0.00 0.00 2.40
339 425 7.549134 ACATACGAAGCAAAATGAGTGAATCTA 59.451 33.333 0.00 0.00 0.00 1.98
340 426 6.170675 ACGAAGCAAAATGAGTGAATCTAC 57.829 37.500 0.00 0.00 0.00 2.59
341 427 5.700832 ACGAAGCAAAATGAGTGAATCTACA 59.299 36.000 0.00 0.00 0.00 2.74
342 428 6.017933 CGAAGCAAAATGAGTGAATCTACAC 58.982 40.000 0.00 0.00 40.60 2.90
343 429 5.886960 AGCAAAATGAGTGAATCTACACC 57.113 39.130 0.00 0.00 41.12 4.16
344 430 4.702131 AGCAAAATGAGTGAATCTACACCC 59.298 41.667 0.00 0.00 41.12 4.61
345 431 4.702131 GCAAAATGAGTGAATCTACACCCT 59.298 41.667 0.00 0.00 41.12 4.34
346 432 5.880332 GCAAAATGAGTGAATCTACACCCTA 59.120 40.000 0.00 0.00 41.12 3.53
347 433 6.374333 GCAAAATGAGTGAATCTACACCCTAA 59.626 38.462 0.00 0.00 41.12 2.69
348 434 7.094377 GCAAAATGAGTGAATCTACACCCTAAA 60.094 37.037 0.00 0.00 41.12 1.85
349 435 8.792633 CAAAATGAGTGAATCTACACCCTAAAA 58.207 33.333 0.00 0.00 41.12 1.52
350 436 9.533831 AAAATGAGTGAATCTACACCCTAAAAT 57.466 29.630 0.00 0.00 41.12 1.82
353 439 9.784531 ATGAGTGAATCTACACCCTAAAATATG 57.215 33.333 0.00 0.00 41.12 1.78
354 440 8.768397 TGAGTGAATCTACACCCTAAAATATGT 58.232 33.333 0.00 0.00 41.12 2.29
355 441 8.964476 AGTGAATCTACACCCTAAAATATGTG 57.036 34.615 0.00 0.00 41.12 3.21
356 442 8.548877 AGTGAATCTACACCCTAAAATATGTGT 58.451 33.333 0.00 0.00 43.76 3.72
357 443 8.827677 GTGAATCTACACCCTAAAATATGTGTC 58.172 37.037 0.00 0.00 41.76 3.67
358 444 8.768397 TGAATCTACACCCTAAAATATGTGTCT 58.232 33.333 0.00 0.00 41.76 3.41
378 464 9.123902 TGTGTCTATATACAACCGTATGTAGTT 57.876 33.333 12.97 0.00 44.28 2.24
379 465 9.956720 GTGTCTATATACAACCGTATGTAGTTT 57.043 33.333 12.97 0.00 44.28 2.66
380 466 9.955208 TGTCTATATACAACCGTATGTAGTTTG 57.045 33.333 12.97 0.00 44.28 2.93
386 473 4.687483 ACAACCGTATGTAGTTTGTAGTGC 59.313 41.667 0.00 0.00 0.00 4.40
395 482 9.582431 GTATGTAGTTTGTAGTGCAATCTCTAA 57.418 33.333 7.69 0.00 37.97 2.10
401 488 8.560374 AGTTTGTAGTGCAATCTCTAAAAAGAC 58.440 33.333 0.00 0.00 36.89 3.01
402 489 8.560374 GTTTGTAGTGCAATCTCTAAAAAGACT 58.440 33.333 0.00 0.00 36.89 3.24
403 490 8.677148 TTGTAGTGCAATCTCTAAAAAGACTT 57.323 30.769 0.00 0.00 31.07 3.01
405 492 9.204570 TGTAGTGCAATCTCTAAAAAGACTTAC 57.795 33.333 0.00 0.00 0.00 2.34
421 508 5.021458 AGACTTACATTTAGGAACGGAGGA 58.979 41.667 0.00 0.00 0.00 3.71
443 530 2.436173 AGTAGTAGGCTGCCAAATCTCC 59.564 50.000 22.65 4.39 0.00 3.71
518 605 2.106684 AGTGAGAGGAGGGGTTTTGAAC 59.893 50.000 0.00 0.00 0.00 3.18
706 803 1.620822 GCCTGATCACAAGTTGGGTT 58.379 50.000 4.74 0.00 0.00 4.11
1056 3514 4.284860 CCTCATCGCCGCGATCCA 62.285 66.667 25.03 13.64 45.19 3.41
1060 3518 3.849951 ATCGCCGCGATCCACCTT 61.850 61.111 22.39 0.00 43.45 3.50
1212 3674 3.458163 CCGGCTAGGGTTCGCTGA 61.458 66.667 0.00 0.00 34.47 4.26
1347 3809 1.535462 CACCCCTTTTAAGTGCGTGAG 59.465 52.381 0.00 0.00 0.00 3.51
1537 3999 0.449388 CCGTCTGGCTGAAAATCTGC 59.551 55.000 0.00 1.11 40.10 4.26
1544 4006 3.954200 TGGCTGAAAATCTGCAGACATA 58.046 40.909 20.97 0.00 44.79 2.29
1545 4007 3.691118 TGGCTGAAAATCTGCAGACATAC 59.309 43.478 20.97 11.77 44.79 2.39
1553 4015 7.862372 TGAAAATCTGCAGACATACTTGTTTTC 59.138 33.333 26.28 26.28 35.79 2.29
1555 4017 7.516198 AATCTGCAGACATACTTGTTTTCTT 57.484 32.000 20.97 0.61 35.79 2.52
1556 4018 6.942532 TCTGCAGACATACTTGTTTTCTTT 57.057 33.333 13.74 0.00 35.79 2.52
1557 4019 6.959361 TCTGCAGACATACTTGTTTTCTTTC 58.041 36.000 13.74 0.00 35.79 2.62
1558 4020 6.542005 TCTGCAGACATACTTGTTTTCTTTCA 59.458 34.615 13.74 0.00 35.79 2.69
1559 4021 7.229306 TCTGCAGACATACTTGTTTTCTTTCAT 59.771 33.333 13.74 0.00 35.79 2.57
1560 4022 7.140705 TGCAGACATACTTGTTTTCTTTCATG 58.859 34.615 0.00 0.00 35.79 3.07
1561 4023 6.583806 GCAGACATACTTGTTTTCTTTCATGG 59.416 38.462 0.00 0.00 35.79 3.66
1562 4024 7.522073 GCAGACATACTTGTTTTCTTTCATGGA 60.522 37.037 0.00 0.00 35.79 3.41
1563 4025 7.805071 CAGACATACTTGTTTTCTTTCATGGAC 59.195 37.037 0.00 0.00 35.79 4.02
1569 4031 5.261209 TGTTTTCTTTCATGGACACAAGG 57.739 39.130 0.00 0.00 0.00 3.61
1613 4075 4.559704 CGGGGTGATGATTAGTCTTCTAGC 60.560 50.000 3.34 0.74 31.62 3.42
1802 4268 6.763610 AGTTAACTGTTGAGAGAAAGGACAAG 59.236 38.462 7.48 0.00 0.00 3.16
2240 6636 6.420604 CCAAAGCTTAACATTGTTTAGTGTGG 59.579 38.462 14.90 14.52 0.00 4.17
2242 6638 3.911964 GCTTAACATTGTTTAGTGTGGCG 59.088 43.478 14.90 0.00 0.00 5.69
2309 6709 1.280710 TGGTTGTGGTCTGTGTGAACT 59.719 47.619 0.00 0.00 32.49 3.01
2353 6754 8.140628 AGATGTGCTACAGACTACATAAATCAG 58.859 37.037 0.00 0.00 34.18 2.90
2569 6970 8.637196 TTTTTGTTGGGTTTACCTTTCAATTT 57.363 26.923 0.00 0.00 41.11 1.82
2570 6971 7.617041 TTTGTTGGGTTTACCTTTCAATTTG 57.383 32.000 0.00 0.00 41.11 2.32
2571 6972 6.546428 TGTTGGGTTTACCTTTCAATTTGA 57.454 33.333 0.00 0.00 41.11 2.69
2572 6973 6.947464 TGTTGGGTTTACCTTTCAATTTGAA 58.053 32.000 7.74 7.74 41.11 2.69
2573 6974 6.819146 TGTTGGGTTTACCTTTCAATTTGAAC 59.181 34.615 11.30 0.00 41.11 3.18
2574 6975 6.546428 TGGGTTTACCTTTCAATTTGAACA 57.454 33.333 11.30 0.98 41.11 3.18
2575 6976 6.578023 TGGGTTTACCTTTCAATTTGAACAG 58.422 36.000 11.30 11.31 41.11 3.16
2576 6977 5.465390 GGGTTTACCTTTCAATTTGAACAGC 59.535 40.000 11.30 2.47 35.89 4.40
2577 6978 6.045955 GGTTTACCTTTCAATTTGAACAGCA 58.954 36.000 11.30 0.00 35.89 4.41
2578 6979 6.705825 GGTTTACCTTTCAATTTGAACAGCAT 59.294 34.615 11.30 6.49 35.89 3.79
2579 6980 7.226523 GGTTTACCTTTCAATTTGAACAGCATT 59.773 33.333 11.30 3.72 35.89 3.56
2580 6981 9.255304 GTTTACCTTTCAATTTGAACAGCATTA 57.745 29.630 11.30 0.00 35.89 1.90
2581 6982 9.823647 TTTACCTTTCAATTTGAACAGCATTAA 57.176 25.926 11.30 7.35 35.89 1.40
2582 6983 9.995003 TTACCTTTCAATTTGAACAGCATTAAT 57.005 25.926 11.30 0.00 35.89 1.40
2583 6984 8.538409 ACCTTTCAATTTGAACAGCATTAATC 57.462 30.769 11.30 0.00 35.89 1.75
2584 6985 8.149647 ACCTTTCAATTTGAACAGCATTAATCA 58.850 29.630 11.30 0.00 35.89 2.57
3016 7436 2.394632 ACCTGACACGGATATGCCTTA 58.605 47.619 0.00 0.00 0.00 2.69
3254 7674 0.623723 GCCCTTGGGTTGGTCTCATA 59.376 55.000 7.61 0.00 0.00 2.15
3255 7675 1.215423 GCCCTTGGGTTGGTCTCATAT 59.785 52.381 7.61 0.00 0.00 1.78
3501 7931 1.406887 GGACTGCAATAAGGAAGCGGA 60.407 52.381 0.00 0.00 38.03 5.54
3914 8405 2.912967 CACATGCGAGCAAAAGATGAAC 59.087 45.455 0.57 0.00 0.00 3.18
3941 8432 2.553028 GGGAAGTGCAAACATCAGGAGA 60.553 50.000 0.00 0.00 0.00 3.71
3964 8455 8.161699 AGAAGTTAACTAGCTCTATCTGCTAC 57.838 38.462 8.92 0.00 41.46 3.58
4039 8536 6.628844 GCTGCAGGAGGACATTATTTTGAAAT 60.629 38.462 17.12 0.00 0.00 2.17
4040 8537 6.632909 TGCAGGAGGACATTATTTTGAAATG 58.367 36.000 0.00 0.00 39.68 2.32
4041 8538 6.044682 GCAGGAGGACATTATTTTGAAATGG 58.955 40.000 0.00 0.00 38.41 3.16
4042 8539 6.127366 GCAGGAGGACATTATTTTGAAATGGA 60.127 38.462 0.00 0.00 38.41 3.41
4455 8952 1.427809 TGTATCATCTGGGCTGGAGG 58.572 55.000 0.00 0.00 0.00 4.30
4484 8981 4.860907 GCCAAGCTTGATATTGTTGTTCTG 59.139 41.667 28.05 6.62 0.00 3.02
4843 9340 7.706179 TGTCTGAACAATTTGAATTTCACTTCC 59.294 33.333 2.79 0.00 30.70 3.46
5128 9625 3.434309 CAACAAGATGTGGGATTCCCTT 58.566 45.455 22.38 5.35 45.70 3.95
5239 9736 2.369860 CCTCTATGCATTCTGTGGGCTA 59.630 50.000 3.54 0.00 0.00 3.93
5661 10158 4.500499 AGGAGATGTCCCAGAGATTTTG 57.500 45.455 5.02 0.00 45.26 2.44
5752 10249 2.472816 GGAACAGGAACGTCACGTAAA 58.527 47.619 1.57 0.00 39.99 2.01
5753 10250 2.219445 GGAACAGGAACGTCACGTAAAC 59.781 50.000 1.57 0.00 39.99 2.01
5927 10425 2.658285 TCAAGAATGATGGCCATGGAC 58.342 47.619 26.56 15.32 35.24 4.02
5941 10439 4.644685 GGCCATGGACAATGTGTATTAACT 59.355 41.667 18.40 0.00 34.11 2.24
5946 10444 9.778741 CCATGGACAATGTGTATTAACTACTAT 57.221 33.333 5.56 0.00 34.11 2.12
6196 10696 6.082984 GCTCTAATCAGCAGAAGTGTTTTTC 58.917 40.000 0.00 0.00 39.43 2.29
6332 10832 2.979678 AGCTCTCTTGAACCCTAAACCA 59.020 45.455 0.00 0.00 0.00 3.67
6762 11263 2.031682 GTGCCATATGATGACGCCTTTC 60.032 50.000 3.65 0.00 0.00 2.62
6956 11457 3.953712 TTCACTGAAGACATTCGCCTA 57.046 42.857 0.00 0.00 38.34 3.93
7090 11591 2.148446 TCTCCATTGCCAAATCCAGG 57.852 50.000 0.00 0.00 0.00 4.45
7235 11736 5.163364 TGTTGAGCTGGAGGATTAAGATCTC 60.163 44.000 0.00 0.00 32.66 2.75
7337 11840 5.050431 CACATATTCGTCGTGATTGCCATTA 60.050 40.000 0.00 0.00 32.23 1.90
7505 12112 3.250762 ACGGTGTGAATTGATGTTGACAG 59.749 43.478 0.00 0.00 0.00 3.51
7506 12113 3.498018 CGGTGTGAATTGATGTTGACAGA 59.502 43.478 0.00 0.00 0.00 3.41
7507 12114 4.611355 CGGTGTGAATTGATGTTGACAGAC 60.611 45.833 0.00 0.00 0.00 3.51
7508 12115 4.275689 GGTGTGAATTGATGTTGACAGACA 59.724 41.667 0.00 0.00 0.00 3.41
7509 12116 5.048504 GGTGTGAATTGATGTTGACAGACAT 60.049 40.000 0.00 3.79 42.68 3.06
7528 12135 5.009854 ACATGTATTATGCTTTTGTGGCC 57.990 39.130 0.00 0.00 0.00 5.36
7574 12181 5.648960 ACTTCTGGGAGAACGTTTTTGTAAA 59.351 36.000 0.46 0.00 29.89 2.01
7581 12190 6.974048 GGGAGAACGTTTTTGTAAAGCTAAAA 59.026 34.615 0.46 0.00 31.38 1.52
7599 12208 7.777095 AGCTAAAATTGTTTTGTTGTAGTGGA 58.223 30.769 0.00 0.00 34.19 4.02
7600 12209 7.704899 AGCTAAAATTGTTTTGTTGTAGTGGAC 59.295 33.333 0.00 0.00 34.19 4.02
7612 12221 2.502130 TGTAGTGGACCATCGGCATTAA 59.498 45.455 0.00 0.00 0.00 1.40
7613 12222 3.135712 TGTAGTGGACCATCGGCATTAAT 59.864 43.478 0.00 0.00 0.00 1.40
7614 12223 3.297134 AGTGGACCATCGGCATTAATT 57.703 42.857 0.00 0.00 0.00 1.40
7615 12224 4.431416 AGTGGACCATCGGCATTAATTA 57.569 40.909 0.00 0.00 0.00 1.40
7854 12464 3.210358 ACGTGTCCACACTTTTTGTTG 57.790 42.857 8.19 0.00 44.34 3.33
7855 12465 2.094957 ACGTGTCCACACTTTTTGTTGG 60.095 45.455 8.19 0.00 44.34 3.77
7890 12502 3.651423 GTCCACACCTAATTAGCCCCTAT 59.349 47.826 6.99 0.00 0.00 2.57
8064 12971 0.723414 CATGCATTCTCGTTGACGCT 59.277 50.000 0.00 0.00 39.60 5.07
8095 13002 3.367292 CGAAGGCTACCCGTAACTGTAAA 60.367 47.826 0.00 0.00 35.76 2.01
8102 13009 3.791245 ACCCGTAACTGTAAACAAACGA 58.209 40.909 11.60 0.00 32.05 3.85
8125 13032 2.890474 GCTACACCGCCATCCACG 60.890 66.667 0.00 0.00 0.00 4.94
8247 13154 9.162764 GAACCTTGTTCTGCATATTTTAGAGTA 57.837 33.333 0.00 0.00 0.00 2.59
8254 13161 9.372369 GTTCTGCATATTTTAGAGTAGTGAAGT 57.628 33.333 0.00 0.00 0.00 3.01
8258 13165 9.890629 TGCATATTTTAGAGTAGTGAAGTTCAT 57.109 29.630 9.18 1.24 0.00 2.57
8402 13842 8.872845 GGTTAATTCCAAAATAGCATCAACTTG 58.127 33.333 0.00 0.00 0.00 3.16
8407 13847 4.858692 CCAAAATAGCATCAACTTGGTTCG 59.141 41.667 0.00 0.00 0.00 3.95
8415 13855 4.466828 CATCAACTTGGTTCGCTTAGTTG 58.533 43.478 0.00 0.00 45.44 3.16
8421 13861 0.796927 GGTTCGCTTAGTTGTGAGCC 59.203 55.000 0.00 0.00 39.79 4.70
8461 13901 6.130298 TGAGTTCGAGCTTTGAATTTTTCA 57.870 33.333 2.39 5.71 38.04 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.765182 AGTTTGTCTTATTGGGTCAGAGTTG 59.235 40.000 0.00 0.00 0.00 3.16
2 3 5.513267 GGAGTTTGTCTTATTGGGTCAGAGT 60.513 44.000 0.00 0.00 0.00 3.24
3 4 4.938226 GGAGTTTGTCTTATTGGGTCAGAG 59.062 45.833 0.00 0.00 0.00 3.35
4 5 4.597507 AGGAGTTTGTCTTATTGGGTCAGA 59.402 41.667 0.00 0.00 0.00 3.27
5 6 4.697352 CAGGAGTTTGTCTTATTGGGTCAG 59.303 45.833 0.00 0.00 0.00 3.51
6 7 4.651778 CAGGAGTTTGTCTTATTGGGTCA 58.348 43.478 0.00 0.00 0.00 4.02
7 8 3.440522 GCAGGAGTTTGTCTTATTGGGTC 59.559 47.826 0.00 0.00 0.00 4.46
19 20 5.757850 AGTGAACTTAAAGCAGGAGTTTG 57.242 39.130 0.00 0.00 34.02 2.93
20 21 5.885912 TGAAGTGAACTTAAAGCAGGAGTTT 59.114 36.000 0.00 0.00 36.11 2.66
73 76 9.109393 TGCCACTGAACATATTATAGAAACTTC 57.891 33.333 0.00 0.00 0.00 3.01
80 83 7.716998 ACTTCCTTGCCACTGAACATATTATAG 59.283 37.037 0.00 0.00 0.00 1.31
84 87 4.666512 ACTTCCTTGCCACTGAACATATT 58.333 39.130 0.00 0.00 0.00 1.28
158 161 7.372714 GGAAATATGTTTGGTTTTCGGTAACT 58.627 34.615 0.00 0.00 0.00 2.24
233 237 8.277490 TGCGATAATAATTAGTACTCCTCGAT 57.723 34.615 14.45 0.00 0.00 3.59
234 238 7.677454 TGCGATAATAATTAGTACTCCTCGA 57.323 36.000 14.45 0.00 0.00 4.04
256 342 2.249139 AGGAACGGAGGGAGTATATGC 58.751 52.381 0.00 0.00 0.00 3.14
257 343 6.607004 ATTTAGGAACGGAGGGAGTATATG 57.393 41.667 0.00 0.00 0.00 1.78
260 346 7.954620 ACTTATATTTAGGAACGGAGGGAGTAT 59.045 37.037 0.00 0.00 0.00 2.12
262 348 6.141790 ACTTATATTTAGGAACGGAGGGAGT 58.858 40.000 0.00 0.00 0.00 3.85
263 349 6.494146 AGACTTATATTTAGGAACGGAGGGAG 59.506 42.308 0.00 0.00 0.00 4.30
265 351 6.667558 AGACTTATATTTAGGAACGGAGGG 57.332 41.667 0.00 0.00 0.00 4.30
300 386 4.679639 GCTTCGTATGTAGTCCACAATGGA 60.680 45.833 0.00 0.00 45.98 3.41
301 387 3.555956 GCTTCGTATGTAGTCCACAATGG 59.444 47.826 0.00 0.00 41.55 3.16
302 388 4.180817 TGCTTCGTATGTAGTCCACAATG 58.819 43.478 0.00 0.00 41.55 2.82
303 389 4.465632 TGCTTCGTATGTAGTCCACAAT 57.534 40.909 0.00 0.00 41.55 2.71
304 390 3.945981 TGCTTCGTATGTAGTCCACAA 57.054 42.857 0.00 0.00 41.55 3.33
305 391 3.945981 TTGCTTCGTATGTAGTCCACA 57.054 42.857 0.00 0.00 42.69 4.17
306 392 5.350365 TCATTTTGCTTCGTATGTAGTCCAC 59.650 40.000 0.00 0.00 0.00 4.02
307 393 5.483811 TCATTTTGCTTCGTATGTAGTCCA 58.516 37.500 0.00 0.00 0.00 4.02
308 394 5.581085 ACTCATTTTGCTTCGTATGTAGTCC 59.419 40.000 0.00 0.00 0.00 3.85
309 395 6.310467 TCACTCATTTTGCTTCGTATGTAGTC 59.690 38.462 0.00 0.00 0.00 2.59
310 396 6.163476 TCACTCATTTTGCTTCGTATGTAGT 58.837 36.000 0.00 0.00 0.00 2.73
311 397 6.647212 TCACTCATTTTGCTTCGTATGTAG 57.353 37.500 0.00 0.00 0.00 2.74
312 398 7.549134 AGATTCACTCATTTTGCTTCGTATGTA 59.451 33.333 0.00 0.00 0.00 2.29
313 399 5.940192 TTCACTCATTTTGCTTCGTATGT 57.060 34.783 0.00 0.00 0.00 2.29
314 400 6.779117 AGATTCACTCATTTTGCTTCGTATG 58.221 36.000 0.00 0.00 0.00 2.39
315 401 6.992063 AGATTCACTCATTTTGCTTCGTAT 57.008 33.333 0.00 0.00 0.00 3.06
316 402 6.871492 TGTAGATTCACTCATTTTGCTTCGTA 59.129 34.615 0.00 0.00 0.00 3.43
317 403 5.700832 TGTAGATTCACTCATTTTGCTTCGT 59.299 36.000 0.00 0.00 0.00 3.85
318 404 6.017933 GTGTAGATTCACTCATTTTGCTTCG 58.982 40.000 0.00 0.00 35.68 3.79
319 405 6.317857 GGTGTAGATTCACTCATTTTGCTTC 58.682 40.000 0.00 0.00 38.28 3.86
320 406 5.183904 GGGTGTAGATTCACTCATTTTGCTT 59.816 40.000 0.00 0.00 38.54 3.91
321 407 4.702131 GGGTGTAGATTCACTCATTTTGCT 59.298 41.667 0.00 0.00 38.54 3.91
322 408 4.702131 AGGGTGTAGATTCACTCATTTTGC 59.298 41.667 0.00 0.00 40.86 3.68
323 409 7.921786 TTAGGGTGTAGATTCACTCATTTTG 57.078 36.000 0.00 0.00 40.86 2.44
324 410 8.934023 TTTTAGGGTGTAGATTCACTCATTTT 57.066 30.769 0.00 0.00 40.86 1.82
327 413 9.784531 CATATTTTAGGGTGTAGATTCACTCAT 57.215 33.333 0.00 0.00 40.86 2.90
328 414 8.768397 ACATATTTTAGGGTGTAGATTCACTCA 58.232 33.333 0.00 0.00 40.86 3.41
329 415 9.046296 CACATATTTTAGGGTGTAGATTCACTC 57.954 37.037 0.00 0.00 38.92 3.51
330 416 8.548877 ACACATATTTTAGGGTGTAGATTCACT 58.451 33.333 0.00 0.00 42.24 3.41
331 417 8.732746 ACACATATTTTAGGGTGTAGATTCAC 57.267 34.615 0.00 0.00 42.24 3.18
332 418 8.768397 AGACACATATTTTAGGGTGTAGATTCA 58.232 33.333 0.00 0.00 43.91 2.57
351 437 9.293404 ACTACATACGGTTGTATATAGACACAT 57.707 33.333 0.00 0.00 39.42 3.21
352 438 8.681486 ACTACATACGGTTGTATATAGACACA 57.319 34.615 0.00 0.00 39.42 3.72
353 439 9.956720 AAACTACATACGGTTGTATATAGACAC 57.043 33.333 0.00 0.00 39.42 3.67
354 440 9.955208 CAAACTACATACGGTTGTATATAGACA 57.045 33.333 7.52 0.00 39.42 3.41
355 441 9.956720 ACAAACTACATACGGTTGTATATAGAC 57.043 33.333 7.52 0.00 39.42 2.59
359 445 9.740239 CACTACAAACTACATACGGTTGTATAT 57.260 33.333 1.67 0.00 39.28 0.86
360 446 7.701924 GCACTACAAACTACATACGGTTGTATA 59.298 37.037 1.67 0.00 39.28 1.47
361 447 6.532657 GCACTACAAACTACATACGGTTGTAT 59.467 38.462 1.67 0.00 42.03 2.29
362 448 5.863397 GCACTACAAACTACATACGGTTGTA 59.137 40.000 0.00 0.00 34.29 2.41
363 449 4.687483 GCACTACAAACTACATACGGTTGT 59.313 41.667 0.00 0.00 37.04 3.32
364 450 4.687018 TGCACTACAAACTACATACGGTTG 59.313 41.667 0.00 0.00 0.00 3.77
365 451 4.885413 TGCACTACAAACTACATACGGTT 58.115 39.130 0.00 0.00 0.00 4.44
366 452 4.524316 TGCACTACAAACTACATACGGT 57.476 40.909 0.00 0.00 0.00 4.83
378 464 8.677148 AAGTCTTTTTAGAGATTGCACTACAA 57.323 30.769 0.00 0.00 44.01 2.41
379 465 9.204570 GTAAGTCTTTTTAGAGATTGCACTACA 57.795 33.333 0.00 0.00 0.00 2.74
380 466 9.204570 TGTAAGTCTTTTTAGAGATTGCACTAC 57.795 33.333 0.00 0.00 0.00 2.73
382 468 8.854614 ATGTAAGTCTTTTTAGAGATTGCACT 57.145 30.769 0.00 0.00 0.00 4.40
395 482 6.653740 CCTCCGTTCCTAAATGTAAGTCTTTT 59.346 38.462 0.00 0.00 0.00 2.27
401 488 5.731591 ACTTCCTCCGTTCCTAAATGTAAG 58.268 41.667 0.00 0.00 0.00 2.34
402 489 5.750352 ACTTCCTCCGTTCCTAAATGTAA 57.250 39.130 0.00 0.00 0.00 2.41
403 490 5.954150 ACTACTTCCTCCGTTCCTAAATGTA 59.046 40.000 0.00 0.00 0.00 2.29
405 492 5.340439 ACTACTTCCTCCGTTCCTAAATG 57.660 43.478 0.00 0.00 0.00 2.32
410 497 2.949508 GCCTACTACTTCCTCCGTTCCT 60.950 54.545 0.00 0.00 0.00 3.36
411 498 1.408340 GCCTACTACTTCCTCCGTTCC 59.592 57.143 0.00 0.00 0.00 3.62
421 508 3.118223 GGAGATTTGGCAGCCTACTACTT 60.118 47.826 14.15 0.00 0.00 2.24
443 530 3.758554 CCTCGGCATTTCCATATTAAGGG 59.241 47.826 0.00 0.00 34.01 3.95
492 579 5.970640 TCAAAACCCCTCCTCTCACTATTAT 59.029 40.000 0.00 0.00 0.00 1.28
493 580 5.347124 TCAAAACCCCTCCTCTCACTATTA 58.653 41.667 0.00 0.00 0.00 0.98
508 595 0.927537 GTTTGCTGCGTTCAAAACCC 59.072 50.000 0.00 0.00 35.49 4.11
824 3276 9.319143 CTAAATATATTCTATCCGAAAGCCCAG 57.681 37.037 0.00 0.00 34.79 4.45
1056 3514 2.606826 GGTCGGGTGGAGGAAGGT 60.607 66.667 0.00 0.00 0.00 3.50
1212 3674 1.805945 GCTTCTCGTTCATCGCCGT 60.806 57.895 0.00 0.00 39.67 5.68
1347 3809 3.808174 GGCACGACTATAAGGAAATCACC 59.192 47.826 0.00 0.00 0.00 4.02
1537 3999 7.805071 GTCCATGAAAGAAAACAAGTATGTCTG 59.195 37.037 0.00 0.00 39.40 3.51
1544 4006 5.913137 TGTGTCCATGAAAGAAAACAAGT 57.087 34.783 0.00 0.00 0.00 3.16
1545 4007 5.750067 CCTTGTGTCCATGAAAGAAAACAAG 59.250 40.000 14.16 14.16 38.59 3.16
1553 4015 1.888512 CACCCCTTGTGTCCATGAAAG 59.111 52.381 0.00 0.00 40.26 2.62
1555 4017 0.112218 CCACCCCTTGTGTCCATGAA 59.888 55.000 0.00 0.00 43.85 2.57
1556 4018 1.065410 ACCACCCCTTGTGTCCATGA 61.065 55.000 0.00 0.00 43.85 3.07
1557 4019 0.609131 GACCACCCCTTGTGTCCATG 60.609 60.000 0.00 0.00 43.85 3.66
1558 4020 1.065410 TGACCACCCCTTGTGTCCAT 61.065 55.000 0.00 0.00 43.85 3.41
1559 4021 1.694525 TGACCACCCCTTGTGTCCA 60.695 57.895 0.00 0.00 43.85 4.02
1560 4022 1.073199 CTGACCACCCCTTGTGTCC 59.927 63.158 0.00 0.00 43.85 4.02
1561 4023 1.073199 CCTGACCACCCCTTGTGTC 59.927 63.158 0.00 0.00 43.85 3.67
1562 4024 1.286305 AACCTGACCACCCCTTGTGT 61.286 55.000 0.00 0.00 43.85 3.72
1563 4025 0.823356 CAACCTGACCACCCCTTGTG 60.823 60.000 0.00 0.00 45.01 3.33
1569 4031 3.014623 GCTAATAACAACCTGACCACCC 58.985 50.000 0.00 0.00 0.00 4.61
1613 4075 1.202463 AGTTATGGCTAGACGCAGCAG 60.202 52.381 0.00 0.00 43.67 4.24
1698 4160 6.098409 CCCAGCTCAAATTCTTCCTAGTACTA 59.902 42.308 1.89 1.89 0.00 1.82
1802 4268 6.641723 GCTCCTGAAACTACTTATAACGGATC 59.358 42.308 0.00 0.00 0.00 3.36
2240 6636 5.269459 ACGCTTTCATATGTTCATATCGC 57.731 39.130 1.90 3.74 0.00 4.58
2242 6638 7.078228 GGGAAACGCTTTCATATGTTCATATC 58.922 38.462 1.90 0.00 41.43 1.63
2309 6709 3.965379 TCTAAGTATCCAACACCGCAA 57.035 42.857 0.00 0.00 0.00 4.85
2568 6969 7.714377 ACAAAAACCATGATTAATGCTGTTCAA 59.286 29.630 0.00 0.00 34.67 2.69
2569 6970 7.215789 ACAAAAACCATGATTAATGCTGTTCA 58.784 30.769 0.00 0.00 34.67 3.18
2570 6971 7.656707 ACAAAAACCATGATTAATGCTGTTC 57.343 32.000 0.00 0.00 34.67 3.18
2571 6972 8.367156 AGTACAAAAACCATGATTAATGCTGTT 58.633 29.630 0.00 0.00 34.67 3.16
2572 6973 7.895759 AGTACAAAAACCATGATTAATGCTGT 58.104 30.769 0.00 0.00 34.67 4.40
2573 6974 8.761575 AAGTACAAAAACCATGATTAATGCTG 57.238 30.769 0.00 0.00 34.67 4.41
3016 7436 7.801104 TGATACACCTTTGATACATACCACAT 58.199 34.615 0.00 0.00 0.00 3.21
3914 8405 5.389859 TGATGTTTGCACTTCCCAAATAG 57.610 39.130 0.00 0.00 34.99 1.73
3941 8432 6.766944 TCGTAGCAGATAGAGCTAGTTAACTT 59.233 38.462 14.49 0.00 44.54 2.66
4039 8536 5.338056 GGTGTTATGTGTCATACTCCTTCCA 60.338 44.000 0.00 0.00 0.00 3.53
4040 8537 5.116882 GGTGTTATGTGTCATACTCCTTCC 58.883 45.833 0.00 0.00 0.00 3.46
4041 8538 5.104900 AGGGTGTTATGTGTCATACTCCTTC 60.105 44.000 0.00 0.00 0.00 3.46
4042 8539 4.783227 AGGGTGTTATGTGTCATACTCCTT 59.217 41.667 0.00 0.00 0.00 3.36
4455 8952 1.303309 ATATCAAGCTTGGCAGACGC 58.697 50.000 25.73 0.00 37.44 5.19
4484 8981 6.152379 GTCTTCATTGTTGAAATCACCTTCC 58.848 40.000 0.00 0.00 41.22 3.46
4843 9340 7.011482 GGTGGATAATGCTTCTTGTACACTAAG 59.989 40.741 10.67 10.67 33.08 2.18
5067 9564 7.545965 CGAGGATCTAAAACAACAGAACAGTAT 59.454 37.037 0.00 0.00 0.00 2.12
5128 9625 3.931468 CACAGGTTTTTGCATGTTCAACA 59.069 39.130 0.00 0.00 30.45 3.33
5239 9736 5.504665 CGAATAGAATTGCTCGCCAGAAATT 60.505 40.000 0.00 0.00 40.25 1.82
5308 9805 5.999205 AGATATCAAATGCACCCAAACAA 57.001 34.783 5.32 0.00 0.00 2.83
5412 9909 6.706295 ACCAATTTCAAAACTCCAAAACAGA 58.294 32.000 0.00 0.00 0.00 3.41
5752 10249 4.589374 CCTTTCTCCTGATAATACTCCCGT 59.411 45.833 0.00 0.00 0.00 5.28
5753 10250 4.833380 TCCTTTCTCCTGATAATACTCCCG 59.167 45.833 0.00 0.00 0.00 5.14
5767 10264 4.328536 GAGGTTTTTCTCCTCCTTTCTCC 58.671 47.826 0.98 0.00 43.90 3.71
6155 10655 0.681733 AGCAGAGAAAGCCGAACTCA 59.318 50.000 0.00 0.00 33.69 3.41
6332 10832 8.367156 TGATTAGTTAATGCAGCCTTTTTCTTT 58.633 29.630 0.00 0.00 0.00 2.52
6762 11263 2.203401 CATGGTATGCGGCAAAAATGG 58.797 47.619 6.82 0.00 0.00 3.16
6956 11457 0.385390 CGAGCAGTTGGTGGCTTTTT 59.615 50.000 0.00 0.00 41.22 1.94
7085 11586 1.975327 CTCACCTTCGAAGCCTGGA 59.025 57.895 19.99 11.84 0.00 3.86
7090 11591 1.743252 CTGGGCTCACCTTCGAAGC 60.743 63.158 19.99 8.64 41.11 3.86
7396 11901 9.210329 TGTTGAAATTATACAAAGAAGCGAGTA 57.790 29.630 0.00 0.00 0.00 2.59
7444 11949 4.083003 TCTGCACAAATTAAGCTAAACGGG 60.083 41.667 0.00 0.00 0.00 5.28
7505 12112 5.043248 GGCCACAAAAGCATAATACATGTC 58.957 41.667 0.00 0.00 0.00 3.06
7506 12113 4.465660 TGGCCACAAAAGCATAATACATGT 59.534 37.500 0.00 2.69 0.00 3.21
7507 12114 5.008619 TGGCCACAAAAGCATAATACATG 57.991 39.130 0.00 0.00 0.00 3.21
7508 12115 5.874897 ATGGCCACAAAAGCATAATACAT 57.125 34.783 8.16 0.00 0.00 2.29
7509 12116 5.674052 AATGGCCACAAAAGCATAATACA 57.326 34.783 8.16 0.00 0.00 2.29
7528 12135 2.428544 TGGACCCCAACCGATTAATG 57.571 50.000 0.00 0.00 0.00 1.90
7574 12181 7.704899 GTCCACTACAACAAAACAATTTTAGCT 59.295 33.333 0.00 0.00 0.00 3.32
7581 12190 5.278266 CGATGGTCCACTACAACAAAACAAT 60.278 40.000 0.00 0.00 0.00 2.71
7593 12202 4.431416 AATTAATGCCGATGGTCCACTA 57.569 40.909 0.00 0.00 0.00 2.74
7594 12203 3.297134 AATTAATGCCGATGGTCCACT 57.703 42.857 0.00 0.00 0.00 4.00
7599 12208 6.350949 GGCCAATAATAATTAATGCCGATGGT 60.351 38.462 0.00 0.00 0.00 3.55
7600 12209 6.042143 GGCCAATAATAATTAATGCCGATGG 58.958 40.000 0.00 0.00 0.00 3.51
7612 12221 8.253113 CACTTGACAAAAGAGGCCAATAATAAT 58.747 33.333 5.01 0.00 0.00 1.28
7613 12222 7.450014 TCACTTGACAAAAGAGGCCAATAATAA 59.550 33.333 5.01 0.00 0.00 1.40
7614 12223 6.945435 TCACTTGACAAAAGAGGCCAATAATA 59.055 34.615 5.01 0.00 0.00 0.98
7615 12224 5.774690 TCACTTGACAAAAGAGGCCAATAAT 59.225 36.000 5.01 0.00 0.00 1.28
7795 12405 1.201921 CGTAAGCTGGCATTCGTTGAC 60.202 52.381 0.00 0.00 0.00 3.18
7854 12464 0.739813 GTGGACACGTACCTGATGCC 60.740 60.000 11.33 0.00 0.00 4.40
7855 12465 0.037697 TGTGGACACGTACCTGATGC 60.038 55.000 11.33 0.00 0.00 3.91
7896 12508 6.432472 AGGTGAAGGCTTAGAAGAAAAATCAG 59.568 38.462 0.00 0.00 0.00 2.90
8064 12971 0.673644 GGTAGCCTTCGCAGCTTTGA 60.674 55.000 0.00 0.00 41.83 2.69
8095 13002 2.423577 GGTGTAGCCATCTTCGTTTGT 58.576 47.619 0.00 0.00 37.17 2.83
8119 13026 2.158711 AGATTGTGATCATGGCGTGGAT 60.159 45.455 6.90 0.00 34.60 3.41
8125 13032 3.538591 TGACAGAGATTGTGATCATGGC 58.461 45.455 0.00 0.00 41.05 4.40
8200 13107 4.108570 TCCCATTTTTACCTCTCTAGCCA 58.891 43.478 0.00 0.00 0.00 4.75
8402 13842 0.796927 GGCTCACAACTAAGCGAACC 59.203 55.000 0.00 0.00 39.47 3.62
8407 13847 5.880054 TGAAAATAGGCTCACAACTAAGC 57.120 39.130 0.00 0.00 37.80 3.09
8421 13861 8.302965 TCGAACTCATGAGCATATGAAAATAG 57.697 34.615 22.83 0.00 36.69 1.73


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

AutoCloner maintained by Alex Coulton.