Multiple sequence alignment - TraesCS5B01G232700

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 TraesCS5B01G232700 chr5B 100.000 3076 0 0 1 3076 410721400 410724475 0.000000e+00 5681
1 TraesCS5B01G232700 chr5B 95.417 851 38 1 1222 2072 410598658 410597809 0.000000e+00 1354
2 TraesCS5B01G232700 chr5B 96.852 667 19 1 2412 3076 541680544 541681210 0.000000e+00 1114
3 TraesCS5B01G232700 chr5B 96.252 667 25 0 2410 3076 375644757 375645423 0.000000e+00 1094
4 TraesCS5B01G232700 chr5B 95.808 668 27 1 2410 3076 427282324 427282991 0.000000e+00 1077
5 TraesCS5B01G232700 chr5B 93.478 322 21 0 159 480 302238748 302239069 2.150000e-131 479
6 TraesCS5B01G232700 chr5B 94.043 235 14 0 246 480 410694533 410694767 1.050000e-94 357
7 TraesCS5B01G232700 chr5D 90.192 1927 62 38 537 2390 350219738 350221610 0.000000e+00 2394
8 TraesCS5B01G232700 chr5D 91.259 1064 67 19 1015 2072 349981730 349980687 0.000000e+00 1426
9 TraesCS5B01G232700 chr5A 90.309 1651 77 33 783 2390 450540669 450542279 0.000000e+00 2085
10 TraesCS5B01G232700 chr5A 90.628 1067 69 18 1015 2072 450474859 450473815 0.000000e+00 1387
11 TraesCS5B01G232700 chr5A 96.246 666 24 1 2412 3076 526391048 526390383 0.000000e+00 1090
12 TraesCS5B01G232700 chr5A 86.150 426 33 10 783 1207 450508238 450508638 1.310000e-118 436
13 TraesCS5B01G232700 chr5A 94.595 111 5 1 647 756 450540569 450540679 1.470000e-38 171
14 TraesCS5B01G232700 chr6B 97.455 668 15 2 2410 3076 469774700 469775366 0.000000e+00 1138
15 TraesCS5B01G232700 chr6B 96.073 662 25 1 2415 3076 570903119 570902459 0.000000e+00 1077
16 TraesCS5B01G232700 chr6B 84.472 483 70 5 1465 1946 624496390 624495912 3.590000e-129 472
17 TraesCS5B01G232700 chr6B 91.720 157 13 0 1 157 671269 671113 5.160000e-53 219
18 TraesCS5B01G232700 chr2B 97.156 668 18 1 2410 3076 724750557 724751224 0.000000e+00 1127
19 TraesCS5B01G232700 chr4B 96.418 670 21 3 2409 3076 413113225 413112557 0.000000e+00 1101
20 TraesCS5B01G232700 chr4B 93.478 322 21 0 159 480 615081289 615080968 2.150000e-131 479
21 TraesCS5B01G232700 chr4B 94.737 228 12 0 253 480 615132736 615132509 3.770000e-94 355
22 TraesCS5B01G232700 chr4B 96.815 157 5 0 1 157 615127573 615127417 2.350000e-66 263
23 TraesCS5B01G232700 chr4B 94.194 155 9 0 1 155 558622336 558622182 1.430000e-58 237
24 TraesCS5B01G232700 chr4B 91.613 155 13 0 1 155 558616205 558616359 6.680000e-52 215
25 TraesCS5B01G232700 chr2A 96.263 669 23 2 2409 3076 13793911 13794578 0.000000e+00 1096
26 TraesCS5B01G232700 chr2A 95.342 322 15 0 159 480 369832465 369832786 2.120000e-141 512
27 TraesCS5B01G232700 chr2A 94.643 224 12 0 257 480 369816713 369816936 6.310000e-92 348
28 TraesCS5B01G232700 chr2A 96.178 157 6 0 1 157 369830608 369830764 1.090000e-64 257
29 TraesCS5B01G232700 chr6A 95.679 324 13 1 159 482 575550024 575550346 1.260000e-143 520
30 TraesCS5B01G232700 chr6A 82.149 605 76 16 1458 2034 559132737 559132137 9.910000e-135 490
31 TraesCS5B01G232700 chr6A 85.288 469 64 5 1458 1925 559002791 559002327 2.150000e-131 479
32 TraesCS5B01G232700 chr6A 93.421 228 15 0 253 480 575542997 575543224 3.800000e-89 339
33 TraesCS5B01G232700 chr6A 96.815 157 5 0 1 157 575548172 575548328 2.350000e-66 263
34 TraesCS5B01G232700 chr2D 95.046 323 15 1 159 480 542151300 542150978 9.840000e-140 507
35 TraesCS5B01G232700 chr2D 96.137 233 8 1 248 480 542186277 542186046 2.240000e-101 379
36 TraesCS5B01G232700 chr2D 96.129 155 6 0 3 157 542153510 542153356 1.420000e-63 254
37 TraesCS5B01G232700 chr6D 84.286 490 72 5 1458 1946 414256791 414256306 9.980000e-130 473
38 TraesCS5B01G232700 chr1A 93.043 230 15 1 250 478 583881300 583881529 4.910000e-88 335
39 TraesCS5B01G232700 chr1A 94.180 189 10 1 292 480 585343633 585343820 1.400000e-73 287
40 TraesCS5B01G232700 chr7A 91.150 226 19 1 255 480 727414937 727414713 3.850000e-79 305
41 TraesCS5B01G232700 chr7A 90.647 139 11 2 159 297 664409944 664410080 1.880000e-42 183
42 TraesCS5B01G232700 chr1D 92.488 213 15 1 268 480 232351690 232351901 1.390000e-78 303
43 TraesCS5B01G232700 chr1D 92.574 202 14 1 279 480 232365682 232365882 3.880000e-74 289
44 TraesCS5B01G232700 chr3D 92.157 204 15 1 277 480 225354412 225354210 1.400000e-73 287
45 TraesCS5B01G232700 chr3D 91.613 155 13 0 1 155 396423347 396423193 6.680000e-52 215
46 TraesCS5B01G232700 chr4A 95.541 157 7 0 1 157 137900596 137900752 5.090000e-63 252
47 TraesCS5B01G232700 chr3A 94.904 157 8 0 1 157 729338812 729338656 2.370000e-61 246
48 TraesCS5B01G232700 chr3A 85.882 170 18 6 159 324 729335613 729335446 3.150000e-40 176
49 TraesCS5B01G232700 chr4D 92.903 155 11 0 1 155 446436982 446437136 3.090000e-55 226


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 TraesCS5B01G232700 chr5B 410721400 410724475 3075 False 5681.0 5681 100.0000 1 3076 1 chr5B.!!$F4 3075
1 TraesCS5B01G232700 chr5B 410597809 410598658 849 True 1354.0 1354 95.4170 1222 2072 1 chr5B.!!$R1 850
2 TraesCS5B01G232700 chr5B 541680544 541681210 666 False 1114.0 1114 96.8520 2412 3076 1 chr5B.!!$F6 664
3 TraesCS5B01G232700 chr5B 375644757 375645423 666 False 1094.0 1094 96.2520 2410 3076 1 chr5B.!!$F2 666
4 TraesCS5B01G232700 chr5B 427282324 427282991 667 False 1077.0 1077 95.8080 2410 3076 1 chr5B.!!$F5 666
5 TraesCS5B01G232700 chr5D 350219738 350221610 1872 False 2394.0 2394 90.1920 537 2390 1 chr5D.!!$F1 1853
6 TraesCS5B01G232700 chr5D 349980687 349981730 1043 True 1426.0 1426 91.2590 1015 2072 1 chr5D.!!$R1 1057
7 TraesCS5B01G232700 chr5A 450473815 450474859 1044 True 1387.0 1387 90.6280 1015 2072 1 chr5A.!!$R1 1057
8 TraesCS5B01G232700 chr5A 450540569 450542279 1710 False 1128.0 2085 92.4520 647 2390 2 chr5A.!!$F2 1743
9 TraesCS5B01G232700 chr5A 526390383 526391048 665 True 1090.0 1090 96.2460 2412 3076 1 chr5A.!!$R2 664
10 TraesCS5B01G232700 chr6B 469774700 469775366 666 False 1138.0 1138 97.4550 2410 3076 1 chr6B.!!$F1 666
11 TraesCS5B01G232700 chr6B 570902459 570903119 660 True 1077.0 1077 96.0730 2415 3076 1 chr6B.!!$R2 661
12 TraesCS5B01G232700 chr2B 724750557 724751224 667 False 1127.0 1127 97.1560 2410 3076 1 chr2B.!!$F1 666
13 TraesCS5B01G232700 chr4B 413112557 413113225 668 True 1101.0 1101 96.4180 2409 3076 1 chr4B.!!$R1 667
14 TraesCS5B01G232700 chr2A 13793911 13794578 667 False 1096.0 1096 96.2630 2409 3076 1 chr2A.!!$F1 667
15 TraesCS5B01G232700 chr2A 369830608 369832786 2178 False 384.5 512 95.7600 1 480 2 chr2A.!!$F3 479
16 TraesCS5B01G232700 chr6A 559132137 559132737 600 True 490.0 490 82.1490 1458 2034 1 chr6A.!!$R2 576
17 TraesCS5B01G232700 chr6A 575548172 575550346 2174 False 391.5 520 96.2470 1 482 2 chr6A.!!$F2 481
18 TraesCS5B01G232700 chr2D 542150978 542153510 2532 True 380.5 507 95.5875 3 480 2 chr2D.!!$R2 477
19 TraesCS5B01G232700 chr3A 729335446 729338812 3366 True 211.0 246 90.3930 1 324 2 chr3A.!!$R1 323

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
400 2520 0.039165 GAAAGGCTCCCGCACAAAAG 60.039 55.0 0.0 0.0 38.1 2.27 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2397 5957 0.400213 TGCCCTAACACCCTGTCAAG 59.6 55.0 0.0 0.0 0.0 3.02 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 5.187186 CCTTGAGTAGGTGTGGTTATAGTGT 59.813 44.000 0.00 0.00 39.39 3.55
88 89 3.018856 GTTGATCTTGACATCCATGGCA 58.981 45.455 6.96 0.00 45.84 4.92
108 109 3.503748 GCACAGGTCAAATAGTTTCTGCT 59.496 43.478 0.00 0.00 0.00 4.24
125 126 2.686405 CTGCTATCAATGGCAAGCTCAA 59.314 45.455 9.32 0.00 43.77 3.02
193 2313 1.003355 CTGGCTCTCTTTTCCGGCA 60.003 57.895 0.00 0.00 0.00 5.69
259 2379 4.515191 ACAAGTGCTGATAACGTGTGAAAT 59.485 37.500 0.00 0.00 38.54 2.17
297 2417 9.452287 TGAAGTGTCTTATTTCATTGATGATCA 57.548 29.630 0.00 0.00 36.56 2.92
298 2418 9.713740 GAAGTGTCTTATTTCATTGATGATCAC 57.286 33.333 0.00 0.00 36.56 3.06
299 2419 8.797350 AGTGTCTTATTTCATTGATGATCACA 57.203 30.769 0.00 0.00 36.56 3.58
300 2420 8.671921 AGTGTCTTATTTCATTGATGATCACAC 58.328 33.333 0.00 0.00 36.56 3.82
301 2421 8.453320 GTGTCTTATTTCATTGATGATCACACA 58.547 33.333 0.00 0.00 36.56 3.72
302 2422 9.181061 TGTCTTATTTCATTGATGATCACACAT 57.819 29.630 0.00 0.00 36.56 3.21
312 2432 9.673454 CATTGATGATCACACATTTATACAAGG 57.327 33.333 0.00 0.00 0.00 3.61
313 2433 7.806409 TGATGATCACACATTTATACAAGGG 57.194 36.000 0.00 0.00 0.00 3.95
314 2434 6.772233 TGATGATCACACATTTATACAAGGGG 59.228 38.462 0.00 0.00 0.00 4.79
315 2435 6.320434 TGATCACACATTTATACAAGGGGA 57.680 37.500 0.00 0.00 0.00 4.81
316 2436 6.726379 TGATCACACATTTATACAAGGGGAA 58.274 36.000 0.00 0.00 0.00 3.97
317 2437 6.601613 TGATCACACATTTATACAAGGGGAAC 59.398 38.462 0.00 0.00 0.00 3.62
329 2449 2.188469 GGGAACCGGCGCTTATGA 59.812 61.111 7.64 0.00 40.86 2.15
330 2450 1.887707 GGGAACCGGCGCTTATGAG 60.888 63.158 7.64 0.00 40.86 2.90
331 2451 1.143183 GGAACCGGCGCTTATGAGA 59.857 57.895 7.64 0.00 0.00 3.27
332 2452 0.461339 GGAACCGGCGCTTATGAGAA 60.461 55.000 7.64 0.00 0.00 2.87
333 2453 0.931005 GAACCGGCGCTTATGAGAAG 59.069 55.000 7.64 0.00 0.00 2.85
334 2454 0.535335 AACCGGCGCTTATGAGAAGA 59.465 50.000 7.64 0.00 0.00 2.87
335 2455 0.753262 ACCGGCGCTTATGAGAAGAT 59.247 50.000 7.64 0.00 0.00 2.40
336 2456 1.143305 CCGGCGCTTATGAGAAGATG 58.857 55.000 7.64 0.00 0.00 2.90
337 2457 0.510359 CGGCGCTTATGAGAAGATGC 59.490 55.000 7.64 0.00 0.00 3.91
338 2458 0.510359 GGCGCTTATGAGAAGATGCG 59.490 55.000 7.64 0.00 45.12 4.73
340 2460 0.510359 CGCTTATGAGAAGATGCGCC 59.490 55.000 4.18 0.00 37.13 6.53
341 2461 1.871408 CGCTTATGAGAAGATGCGCCT 60.871 52.381 4.18 0.00 37.13 5.52
342 2462 1.530293 GCTTATGAGAAGATGCGCCTG 59.470 52.381 4.18 0.00 0.00 4.85
343 2463 2.831333 CTTATGAGAAGATGCGCCTGT 58.169 47.619 4.18 0.00 0.00 4.00
344 2464 2.988010 TATGAGAAGATGCGCCTGTT 57.012 45.000 4.18 0.00 0.00 3.16
345 2465 1.661341 ATGAGAAGATGCGCCTGTTC 58.339 50.000 13.54 13.54 0.00 3.18
346 2466 0.737367 TGAGAAGATGCGCCTGTTCG 60.737 55.000 15.06 0.00 0.00 3.95
347 2467 0.458543 GAGAAGATGCGCCTGTTCGA 60.459 55.000 15.06 0.00 0.00 3.71
348 2468 0.459237 AGAAGATGCGCCTGTTCGAG 60.459 55.000 15.06 0.00 0.00 4.04
349 2469 1.424493 GAAGATGCGCCTGTTCGAGG 61.424 60.000 4.18 0.00 46.13 4.63
350 2470 2.859273 AAGATGCGCCTGTTCGAGGG 62.859 60.000 4.18 0.00 43.07 4.30
355 2475 2.514824 GCCTGTTCGAGGGGATGC 60.515 66.667 4.87 0.00 43.07 3.91
356 2476 2.202932 CCTGTTCGAGGGGATGCG 60.203 66.667 0.00 0.00 38.36 4.73
357 2477 2.721167 CCTGTTCGAGGGGATGCGA 61.721 63.158 0.00 0.00 38.36 5.10
358 2478 1.227089 CTGTTCGAGGGGATGCGAG 60.227 63.158 0.00 0.00 37.85 5.03
359 2479 2.107141 GTTCGAGGGGATGCGAGG 59.893 66.667 0.00 0.00 37.85 4.63
360 2480 2.043349 TTCGAGGGGATGCGAGGA 60.043 61.111 0.00 0.00 37.85 3.71
361 2481 2.127869 TTCGAGGGGATGCGAGGAG 61.128 63.158 0.00 0.00 37.85 3.69
378 2498 4.811761 GCGAATGCGACGGTTGCC 62.812 66.667 17.40 1.72 40.82 4.52
379 2499 3.118454 CGAATGCGACGGTTGCCT 61.118 61.111 17.40 5.08 40.82 4.75
380 2500 2.480555 GAATGCGACGGTTGCCTG 59.519 61.111 17.40 0.00 0.00 4.85
381 2501 3.039202 GAATGCGACGGTTGCCTGG 62.039 63.158 17.40 0.00 0.00 4.45
382 2502 3.545124 AATGCGACGGTTGCCTGGA 62.545 57.895 17.40 0.00 0.00 3.86
383 2503 3.545124 ATGCGACGGTTGCCTGGAA 62.545 57.895 17.40 0.00 0.00 3.53
384 2504 2.975799 GCGACGGTTGCCTGGAAA 60.976 61.111 9.28 0.00 0.00 3.13
385 2505 2.966309 GCGACGGTTGCCTGGAAAG 61.966 63.158 9.28 0.00 0.00 2.62
386 2506 2.325082 CGACGGTTGCCTGGAAAGG 61.325 63.158 0.00 0.00 0.00 3.11
394 2514 4.033776 CCTGGAAAGGCTCCCGCA 62.034 66.667 0.00 0.00 44.69 5.69
395 2515 2.747855 CTGGAAAGGCTCCCGCAC 60.748 66.667 0.00 0.00 44.69 5.34
396 2516 3.551496 CTGGAAAGGCTCCCGCACA 62.551 63.158 0.00 0.00 44.69 4.57
397 2517 2.282180 GGAAAGGCTCCCGCACAA 60.282 61.111 0.00 0.00 38.44 3.33
398 2518 1.901464 GGAAAGGCTCCCGCACAAA 60.901 57.895 0.00 0.00 38.44 2.83
399 2519 1.460273 GGAAAGGCTCCCGCACAAAA 61.460 55.000 0.00 0.00 38.44 2.44
400 2520 0.039165 GAAAGGCTCCCGCACAAAAG 60.039 55.000 0.00 0.00 38.10 2.27
401 2521 0.467290 AAAGGCTCCCGCACAAAAGA 60.467 50.000 0.00 0.00 38.10 2.52
402 2522 0.890996 AAGGCTCCCGCACAAAAGAG 60.891 55.000 0.00 0.00 38.10 2.85
403 2523 2.335712 GGCTCCCGCACAAAAGAGG 61.336 63.158 0.00 0.00 38.10 3.69
404 2524 2.982744 GCTCCCGCACAAAAGAGGC 61.983 63.158 0.00 0.00 35.78 4.70
408 2528 4.741781 CGCACAAAAGAGGCGGCG 62.742 66.667 0.51 0.51 46.46 6.46
409 2529 4.404654 GCACAAAAGAGGCGGCGG 62.405 66.667 9.78 0.00 0.00 6.13
410 2530 2.978010 CACAAAAGAGGCGGCGGT 60.978 61.111 9.78 0.00 0.00 5.68
411 2531 2.203294 ACAAAAGAGGCGGCGGTT 60.203 55.556 9.78 0.00 0.00 4.44
412 2532 2.255252 CAAAAGAGGCGGCGGTTG 59.745 61.111 9.78 2.98 0.00 3.77
413 2533 3.670377 AAAAGAGGCGGCGGTTGC 61.670 61.111 9.78 0.00 41.71 4.17
414 2534 4.643387 AAAGAGGCGGCGGTTGCT 62.643 61.111 9.78 0.00 42.25 3.91
415 2535 4.643387 AAGAGGCGGCGGTTGCTT 62.643 61.111 9.78 0.83 42.25 3.91
421 2541 3.181967 CGGCGGTTGCTTCGAGAG 61.182 66.667 0.00 0.00 42.25 3.20
422 2542 2.815647 GGCGGTTGCTTCGAGAGG 60.816 66.667 0.00 0.00 42.25 3.69
423 2543 2.261671 GCGGTTGCTTCGAGAGGA 59.738 61.111 0.00 0.00 38.39 3.71
424 2544 1.153549 GCGGTTGCTTCGAGAGGAT 60.154 57.895 0.00 0.00 38.39 3.24
425 2545 1.148759 GCGGTTGCTTCGAGAGGATC 61.149 60.000 0.00 0.00 38.39 3.36
426 2546 0.528684 CGGTTGCTTCGAGAGGATCC 60.529 60.000 2.48 2.48 33.66 3.36
427 2547 0.179070 GGTTGCTTCGAGAGGATCCC 60.179 60.000 8.55 0.00 33.66 3.85
428 2548 0.528684 GTTGCTTCGAGAGGATCCCG 60.529 60.000 8.55 5.23 33.66 5.14
429 2549 0.970937 TTGCTTCGAGAGGATCCCGT 60.971 55.000 8.55 0.00 33.66 5.28
430 2550 1.066587 GCTTCGAGAGGATCCCGTG 59.933 63.158 8.55 4.51 33.66 4.94
431 2551 1.066587 CTTCGAGAGGATCCCGTGC 59.933 63.158 8.55 0.00 33.66 5.34
432 2552 1.667154 CTTCGAGAGGATCCCGTGCA 61.667 60.000 8.55 0.00 33.66 4.57
433 2553 1.043116 TTCGAGAGGATCCCGTGCAT 61.043 55.000 8.55 0.00 33.66 3.96
434 2554 1.300465 CGAGAGGATCCCGTGCATG 60.300 63.158 8.55 0.00 33.66 4.06
435 2555 1.596477 GAGAGGATCCCGTGCATGC 60.596 63.158 11.82 11.82 33.66 4.06
436 2556 2.037620 GAGAGGATCCCGTGCATGCT 62.038 60.000 20.33 0.00 33.66 3.79
437 2557 1.890979 GAGGATCCCGTGCATGCTG 60.891 63.158 20.33 11.33 0.00 4.41
438 2558 2.124570 GGATCCCGTGCATGCTGT 60.125 61.111 20.33 0.00 0.00 4.40
439 2559 1.750399 GGATCCCGTGCATGCTGTT 60.750 57.895 20.33 0.05 0.00 3.16
440 2560 0.463654 GGATCCCGTGCATGCTGTTA 60.464 55.000 20.33 0.87 0.00 2.41
441 2561 1.597742 GATCCCGTGCATGCTGTTAT 58.402 50.000 20.33 6.06 0.00 1.89
442 2562 1.949525 GATCCCGTGCATGCTGTTATT 59.050 47.619 20.33 0.00 0.00 1.40
443 2563 1.832883 TCCCGTGCATGCTGTTATTT 58.167 45.000 20.33 0.00 0.00 1.40
444 2564 2.992593 TCCCGTGCATGCTGTTATTTA 58.007 42.857 20.33 0.00 0.00 1.40
445 2565 2.680841 TCCCGTGCATGCTGTTATTTAC 59.319 45.455 20.33 4.81 0.00 2.01
446 2566 2.421775 CCCGTGCATGCTGTTATTTACA 59.578 45.455 20.33 0.00 34.95 2.41
447 2567 3.119673 CCCGTGCATGCTGTTATTTACAA 60.120 43.478 20.33 0.00 36.02 2.41
448 2568 3.851403 CCGTGCATGCTGTTATTTACAAC 59.149 43.478 20.33 2.71 36.02 3.32
449 2569 4.471373 CGTGCATGCTGTTATTTACAACA 58.529 39.130 20.33 0.00 37.26 3.33
450 2570 4.914504 CGTGCATGCTGTTATTTACAACAA 59.085 37.500 20.33 0.00 36.50 2.83
451 2571 5.059587 CGTGCATGCTGTTATTTACAACAAG 59.940 40.000 20.33 0.00 36.50 3.16
452 2572 5.345741 GTGCATGCTGTTATTTACAACAAGG 59.654 40.000 20.33 0.00 36.50 3.61
453 2573 5.242615 TGCATGCTGTTATTTACAACAAGGA 59.757 36.000 20.33 0.00 36.50 3.36
454 2574 6.071447 TGCATGCTGTTATTTACAACAAGGAT 60.071 34.615 20.33 0.00 36.50 3.24
455 2575 6.813152 GCATGCTGTTATTTACAACAAGGATT 59.187 34.615 11.37 0.00 36.50 3.01
456 2576 7.973388 GCATGCTGTTATTTACAACAAGGATTA 59.027 33.333 11.37 0.00 36.50 1.75
459 2579 9.461312 TGCTGTTATTTACAACAAGGATTATCT 57.539 29.630 0.00 0.00 37.93 1.98
460 2580 9.937175 GCTGTTATTTACAACAAGGATTATCTC 57.063 33.333 0.00 0.00 37.93 2.75
489 2609 9.744468 ATAATTAAATCCTAACAAAACCATCGC 57.256 29.630 0.00 0.00 0.00 4.58
490 2610 6.827586 TTAAATCCTAACAAAACCATCGCT 57.172 33.333 0.00 0.00 0.00 4.93
491 2611 7.925043 TTAAATCCTAACAAAACCATCGCTA 57.075 32.000 0.00 0.00 0.00 4.26
492 2612 6.436843 AAATCCTAACAAAACCATCGCTAG 57.563 37.500 0.00 0.00 0.00 3.42
493 2613 4.546829 TCCTAACAAAACCATCGCTAGT 57.453 40.909 0.00 0.00 0.00 2.57
494 2614 4.901868 TCCTAACAAAACCATCGCTAGTT 58.098 39.130 0.00 0.00 0.00 2.24
495 2615 4.933400 TCCTAACAAAACCATCGCTAGTTC 59.067 41.667 0.00 0.00 0.00 3.01
496 2616 3.806316 AACAAAACCATCGCTAGTTCG 57.194 42.857 0.00 0.00 0.00 3.95
497 2617 3.034721 ACAAAACCATCGCTAGTTCGA 57.965 42.857 0.00 0.00 43.09 3.71
498 2618 3.395639 ACAAAACCATCGCTAGTTCGAA 58.604 40.909 0.00 0.00 42.15 3.71
499 2619 3.432252 ACAAAACCATCGCTAGTTCGAAG 59.568 43.478 0.00 0.00 42.15 3.79
500 2620 3.587797 AAACCATCGCTAGTTCGAAGA 57.412 42.857 0.00 0.00 42.15 2.87
501 2621 2.853731 ACCATCGCTAGTTCGAAGAG 57.146 50.000 0.00 0.00 42.15 2.85
502 2622 1.202313 ACCATCGCTAGTTCGAAGAGC 60.202 52.381 18.05 18.05 42.15 4.09
505 2625 4.403976 GCTAGTTCGAAGAGCGGG 57.596 61.111 14.38 0.00 44.46 6.13
506 2626 1.807886 GCTAGTTCGAAGAGCGGGA 59.192 57.895 14.38 0.00 44.46 5.14
507 2627 0.248702 GCTAGTTCGAAGAGCGGGAG 60.249 60.000 14.38 0.00 44.46 4.30
508 2628 1.096416 CTAGTTCGAAGAGCGGGAGT 58.904 55.000 0.00 0.00 44.46 3.85
509 2629 2.286872 CTAGTTCGAAGAGCGGGAGTA 58.713 52.381 0.00 0.00 44.46 2.59
510 2630 1.542492 AGTTCGAAGAGCGGGAGTAA 58.458 50.000 0.00 0.00 44.46 2.24
511 2631 1.201880 AGTTCGAAGAGCGGGAGTAAC 59.798 52.381 0.00 0.00 44.46 2.50
512 2632 1.068055 GTTCGAAGAGCGGGAGTAACA 60.068 52.381 0.00 0.00 41.33 2.41
513 2633 0.524862 TCGAAGAGCGGGAGTAACAC 59.475 55.000 0.00 0.00 41.33 3.32
514 2634 0.526662 CGAAGAGCGGGAGTAACACT 59.473 55.000 0.00 0.00 36.03 3.55
515 2635 1.732732 CGAAGAGCGGGAGTAACACTG 60.733 57.143 0.00 0.00 36.03 3.66
516 2636 0.608640 AAGAGCGGGAGTAACACTGG 59.391 55.000 0.00 0.00 0.00 4.00
517 2637 1.218316 GAGCGGGAGTAACACTGGG 59.782 63.158 0.00 0.00 0.00 4.45
518 2638 1.535687 AGCGGGAGTAACACTGGGT 60.536 57.895 0.00 0.00 0.00 4.51
519 2639 1.375523 GCGGGAGTAACACTGGGTG 60.376 63.158 0.00 0.00 39.75 4.61
520 2640 1.375523 CGGGAGTAACACTGGGTGC 60.376 63.158 0.00 0.00 36.98 5.01
521 2641 1.002502 GGGAGTAACACTGGGTGCC 60.003 63.158 0.00 0.00 36.98 5.01
522 2642 1.758592 GGAGTAACACTGGGTGCCA 59.241 57.895 0.00 0.00 36.98 4.92
523 2643 0.605589 GGAGTAACACTGGGTGCCAC 60.606 60.000 0.00 0.00 36.98 5.01
524 2644 0.107831 GAGTAACACTGGGTGCCACA 59.892 55.000 0.00 0.00 36.98 4.17
525 2645 0.771127 AGTAACACTGGGTGCCACAT 59.229 50.000 0.00 0.00 36.98 3.21
526 2646 1.982226 AGTAACACTGGGTGCCACATA 59.018 47.619 0.00 0.00 36.98 2.29
527 2647 2.081462 GTAACACTGGGTGCCACATAC 58.919 52.381 0.00 0.00 36.98 2.39
528 2648 0.251165 AACACTGGGTGCCACATACC 60.251 55.000 0.00 0.00 36.98 2.73
553 2673 1.822615 AAAAACTGGGTGCCACAGC 59.177 52.632 0.00 0.00 39.55 4.40
607 2727 1.878953 GGTGACCAATGGGCTATACG 58.121 55.000 6.71 0.00 37.90 3.06
608 2728 1.542547 GGTGACCAATGGGCTATACGG 60.543 57.143 6.71 0.00 37.90 4.02
609 2729 0.107831 TGACCAATGGGCTATACGGC 59.892 55.000 6.71 0.00 37.90 5.68
610 2730 0.949105 GACCAATGGGCTATACGGCG 60.949 60.000 4.80 4.80 39.52 6.46
611 2731 1.671054 CCAATGGGCTATACGGCGG 60.671 63.158 13.24 0.00 39.52 6.13
613 2733 2.890766 AATGGGCTATACGGCGGGG 61.891 63.158 13.24 0.00 39.52 5.73
618 2738 3.552384 CTATACGGCGGGGGCCAA 61.552 66.667 13.24 0.00 0.00 4.52
619 2739 3.088561 TATACGGCGGGGGCCAAA 61.089 61.111 13.24 0.00 0.00 3.28
620 2740 2.406002 CTATACGGCGGGGGCCAAAT 62.406 60.000 13.24 0.65 0.00 2.32
621 2741 2.684192 TATACGGCGGGGGCCAAATG 62.684 60.000 13.24 0.00 0.00 2.32
719 2860 2.484742 GGTCAACCACCCGAGTTAAT 57.515 50.000 0.00 0.00 39.69 1.40
720 2861 3.615224 GGTCAACCACCCGAGTTAATA 57.385 47.619 0.00 0.00 39.69 0.98
761 2907 3.056607 TCAGGTTACAGTTACGGTTAGCC 60.057 47.826 0.00 0.00 0.00 3.93
905 3051 4.401202 TCACTCACACTGACTACTCAAACA 59.599 41.667 0.00 0.00 0.00 2.83
907 3053 3.702330 TCACACTGACTACTCAAACACG 58.298 45.455 0.00 0.00 0.00 4.49
934 3085 1.372582 CGCTTGCAGAGAAGCCATAA 58.627 50.000 2.60 0.00 44.73 1.90
951 3102 4.521146 CCATAAAGCAACCTGAGATCAGT 58.479 43.478 8.93 0.00 42.27 3.41
952 3103 4.946157 CCATAAAGCAACCTGAGATCAGTT 59.054 41.667 8.93 1.42 42.27 3.16
953 3104 5.065731 CCATAAAGCAACCTGAGATCAGTTC 59.934 44.000 8.93 0.00 42.27 3.01
954 3105 2.777832 AGCAACCTGAGATCAGTTCC 57.222 50.000 8.93 0.00 42.27 3.62
955 3106 1.980765 AGCAACCTGAGATCAGTTCCA 59.019 47.619 8.93 0.00 42.27 3.53
956 3107 2.027377 AGCAACCTGAGATCAGTTCCAG 60.027 50.000 8.93 0.00 42.27 3.86
957 3108 2.938756 GCAACCTGAGATCAGTTCCAGG 60.939 54.545 8.93 0.00 43.26 4.45
958 3109 0.908198 ACCTGAGATCAGTTCCAGGC 59.092 55.000 8.93 0.00 42.26 4.85
1121 3282 4.054369 TGGGGATTCTTCCAGGTGAATAT 58.946 43.478 9.42 0.00 44.60 1.28
1137 3298 5.822519 GGTGAATATGCAACTCCATAACTCA 59.177 40.000 0.00 0.00 31.96 3.41
1148 3309 7.651808 CAACTCCATAACTCAATCAACAACTT 58.348 34.615 0.00 0.00 0.00 2.66
1155 3316 4.863491 ACTCAATCAACAACTTGCATGAC 58.137 39.130 6.60 0.00 0.00 3.06
1157 3318 3.635836 TCAATCAACAACTTGCATGACCA 59.364 39.130 6.60 0.00 0.00 4.02
1187 3348 5.957842 TGAATAGTTTCATGCCGTTCTTT 57.042 34.783 0.00 0.00 36.94 2.52
1189 3350 6.378582 TGAATAGTTTCATGCCGTTCTTTTC 58.621 36.000 0.00 0.00 36.94 2.29
1190 3351 5.957842 ATAGTTTCATGCCGTTCTTTTCA 57.042 34.783 0.00 0.00 0.00 2.69
1200 3361 3.285745 CCGTTCTTTTCAAGTTGTACGC 58.714 45.455 2.11 0.00 0.00 4.42
1256 3425 1.191489 TTCTGGACCACGGCATCTCA 61.191 55.000 0.00 0.00 0.00 3.27
1701 3942 2.271940 CTGCTCTTCCAGGACGACT 58.728 57.895 0.00 0.00 0.00 4.18
2074 4990 3.869272 GCTCATCGCCACCGCTTG 61.869 66.667 0.00 0.00 0.00 4.01
2075 4991 2.125552 CTCATCGCCACCGCTTGA 60.126 61.111 0.00 0.00 0.00 3.02
2076 4992 2.434185 TCATCGCCACCGCTTGAC 60.434 61.111 0.00 0.00 0.00 3.18
2078 4994 2.031919 ATCGCCACCGCTTGACAA 59.968 55.556 0.00 0.00 0.00 3.18
2086 5002 0.454196 ACCGCTTGACAACAACAACC 59.546 50.000 0.00 0.00 32.27 3.77
2090 5006 1.797348 GCTTGACAACAACAACCACGG 60.797 52.381 0.00 0.00 32.27 4.94
2094 5012 2.282407 GACAACAACAACCACGGTACT 58.718 47.619 0.00 0.00 0.00 2.73
2132 5050 0.971959 TACGTGGCCTCGGTTATGGT 60.972 55.000 28.94 10.42 34.94 3.55
2175 5094 3.069289 TGCTTGAGAGTTCGTACGTCTA 58.931 45.455 16.05 1.09 0.00 2.59
2206 5756 1.352056 GCCGAATAAACGAGCCTGC 59.648 57.895 0.00 0.00 35.09 4.85
2207 5757 1.090052 GCCGAATAAACGAGCCTGCT 61.090 55.000 0.00 0.00 35.09 4.24
2208 5758 0.652592 CCGAATAAACGAGCCTGCTG 59.347 55.000 0.00 0.00 35.09 4.41
2209 5759 0.652592 CGAATAAACGAGCCTGCTGG 59.347 55.000 5.03 5.03 35.09 4.85
2234 5787 2.224695 TGTGCTACGCCTAGCTAGGATA 60.225 50.000 38.74 27.37 46.63 2.59
2308 5865 2.288457 TGAGAGCTGTACTGTTCTGTGC 60.288 50.000 20.92 9.51 0.00 4.57
2384 5944 1.618837 GCCTCCTTGTGTGAGAGTACA 59.381 52.381 0.00 0.00 31.26 2.90
2393 5953 3.924918 TGTGAGAGTACACAGCTCTTC 57.075 47.619 0.00 0.00 44.29 2.87
2394 5954 3.222603 TGTGAGAGTACACAGCTCTTCA 58.777 45.455 0.00 0.00 44.29 3.02
2395 5955 3.829026 TGTGAGAGTACACAGCTCTTCAT 59.171 43.478 0.00 0.00 44.29 2.57
2396 5956 5.010282 TGTGAGAGTACACAGCTCTTCATA 58.990 41.667 0.00 0.00 44.29 2.15
2397 5957 5.106118 TGTGAGAGTACACAGCTCTTCATAC 60.106 44.000 0.00 0.00 44.29 2.39
2398 5958 5.124776 GTGAGAGTACACAGCTCTTCATACT 59.875 44.000 0.00 0.00 42.74 2.12
2399 5959 5.712446 TGAGAGTACACAGCTCTTCATACTT 59.288 40.000 0.00 0.00 42.74 2.24
2400 5960 5.960113 AGAGTACACAGCTCTTCATACTTG 58.040 41.667 0.00 0.00 40.08 3.16
2401 5961 5.712446 AGAGTACACAGCTCTTCATACTTGA 59.288 40.000 0.00 0.00 40.08 3.02
2402 5962 5.715070 AGTACACAGCTCTTCATACTTGAC 58.285 41.667 0.00 0.00 0.00 3.18
2403 5963 4.607293 ACACAGCTCTTCATACTTGACA 57.393 40.909 0.00 0.00 0.00 3.58
2404 5964 4.564041 ACACAGCTCTTCATACTTGACAG 58.436 43.478 0.00 0.00 0.00 3.51
2405 5965 3.931468 CACAGCTCTTCATACTTGACAGG 59.069 47.826 0.00 0.00 0.00 4.00
2406 5966 3.055530 ACAGCTCTTCATACTTGACAGGG 60.056 47.826 0.00 0.00 0.00 4.45
2407 5967 3.055530 CAGCTCTTCATACTTGACAGGGT 60.056 47.826 0.00 0.00 0.00 4.34
2431 5992 2.892425 GCATCTCCAGCCGTTCGG 60.892 66.667 6.90 6.90 0.00 4.30
2460 6022 0.249911 CGCCTAAATAGAGCGGCCTT 60.250 55.000 0.00 0.00 45.88 4.35
2568 6130 0.250338 AACTTGGTCGTTCCTGCTCC 60.250 55.000 0.00 0.00 37.07 4.70
2983 6703 1.798234 TTCGTCCGAAGCAGGTCGAA 61.798 55.000 18.02 18.02 43.86 3.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
44 45 0.464373 GCGGCCAGGAATCTGATCAA 60.464 55.000 2.24 0.00 43.49 2.57
88 89 6.711277 TGATAGCAGAAACTATTTGACCTGT 58.289 36.000 0.00 0.00 32.95 4.00
108 109 5.664294 ATTTGTTGAGCTTGCCATTGATA 57.336 34.783 0.00 0.00 0.00 2.15
157 158 3.834813 GCCAGAAGGGAAGAAAGGAAAAT 59.165 43.478 0.00 0.00 40.01 1.82
203 2323 0.744414 ACGCATAGGCAAATCACGCT 60.744 50.000 0.00 0.00 41.24 5.07
271 2391 9.452287 TGATCATCAATGAAATAAGACACTTCA 57.548 29.630 0.00 0.00 40.69 3.02
286 2406 9.673454 CCTTGTATAAATGTGTGATCATCAATG 57.327 33.333 0.00 0.00 0.00 2.82
287 2407 8.853126 CCCTTGTATAAATGTGTGATCATCAAT 58.147 33.333 0.00 0.00 0.00 2.57
288 2408 7.285172 CCCCTTGTATAAATGTGTGATCATCAA 59.715 37.037 0.00 0.00 0.00 2.57
289 2409 6.772233 CCCCTTGTATAAATGTGTGATCATCA 59.228 38.462 0.00 2.13 0.00 3.07
290 2410 6.998074 TCCCCTTGTATAAATGTGTGATCATC 59.002 38.462 0.00 0.00 0.00 2.92
291 2411 6.910191 TCCCCTTGTATAAATGTGTGATCAT 58.090 36.000 0.00 0.00 0.00 2.45
292 2412 6.320434 TCCCCTTGTATAAATGTGTGATCA 57.680 37.500 0.00 0.00 0.00 2.92
293 2413 6.039382 GGTTCCCCTTGTATAAATGTGTGATC 59.961 42.308 0.00 0.00 0.00 2.92
294 2414 5.891551 GGTTCCCCTTGTATAAATGTGTGAT 59.108 40.000 0.00 0.00 0.00 3.06
295 2415 5.258051 GGTTCCCCTTGTATAAATGTGTGA 58.742 41.667 0.00 0.00 0.00 3.58
296 2416 4.095782 CGGTTCCCCTTGTATAAATGTGTG 59.904 45.833 0.00 0.00 0.00 3.82
297 2417 4.266714 CGGTTCCCCTTGTATAAATGTGT 58.733 43.478 0.00 0.00 0.00 3.72
298 2418 3.630312 CCGGTTCCCCTTGTATAAATGTG 59.370 47.826 0.00 0.00 0.00 3.21
299 2419 3.893521 CCGGTTCCCCTTGTATAAATGT 58.106 45.455 0.00 0.00 0.00 2.71
300 2420 2.621526 GCCGGTTCCCCTTGTATAAATG 59.378 50.000 1.90 0.00 0.00 2.32
301 2421 2.747135 CGCCGGTTCCCCTTGTATAAAT 60.747 50.000 1.90 0.00 0.00 1.40
302 2422 1.407162 CGCCGGTTCCCCTTGTATAAA 60.407 52.381 1.90 0.00 0.00 1.40
303 2423 0.178533 CGCCGGTTCCCCTTGTATAA 59.821 55.000 1.90 0.00 0.00 0.98
304 2424 1.824658 CGCCGGTTCCCCTTGTATA 59.175 57.895 1.90 0.00 0.00 1.47
305 2425 2.587889 CGCCGGTTCCCCTTGTAT 59.412 61.111 1.90 0.00 0.00 2.29
306 2426 4.397832 GCGCCGGTTCCCCTTGTA 62.398 66.667 1.90 0.00 0.00 2.41
308 2428 2.886730 ATAAGCGCCGGTTCCCCTTG 62.887 60.000 4.18 0.00 0.00 3.61
309 2429 2.676265 ATAAGCGCCGGTTCCCCTT 61.676 57.895 4.18 1.48 0.00 3.95
310 2430 3.087906 ATAAGCGCCGGTTCCCCT 61.088 61.111 4.18 0.00 0.00 4.79
311 2431 2.900337 CATAAGCGCCGGTTCCCC 60.900 66.667 4.18 0.00 0.00 4.81
312 2432 1.887707 CTCATAAGCGCCGGTTCCC 60.888 63.158 4.18 0.00 0.00 3.97
313 2433 0.461339 TTCTCATAAGCGCCGGTTCC 60.461 55.000 4.18 0.00 0.00 3.62
314 2434 0.931005 CTTCTCATAAGCGCCGGTTC 59.069 55.000 4.18 0.00 0.00 3.62
315 2435 0.535335 TCTTCTCATAAGCGCCGGTT 59.465 50.000 6.80 6.80 0.00 4.44
316 2436 0.753262 ATCTTCTCATAAGCGCCGGT 59.247 50.000 2.29 0.00 0.00 5.28
317 2437 1.143305 CATCTTCTCATAAGCGCCGG 58.857 55.000 2.29 0.00 0.00 6.13
318 2438 0.510359 GCATCTTCTCATAAGCGCCG 59.490 55.000 2.29 0.00 0.00 6.46
319 2439 0.510359 CGCATCTTCTCATAAGCGCC 59.490 55.000 2.29 0.00 38.68 6.53
321 2441 0.510359 GGCGCATCTTCTCATAAGCG 59.490 55.000 10.83 0.00 46.99 4.68
322 2442 1.530293 CAGGCGCATCTTCTCATAAGC 59.470 52.381 10.83 0.00 0.00 3.09
323 2443 2.831333 ACAGGCGCATCTTCTCATAAG 58.169 47.619 10.83 0.00 0.00 1.73
324 2444 2.988010 ACAGGCGCATCTTCTCATAA 57.012 45.000 10.83 0.00 0.00 1.90
325 2445 2.799562 CGAACAGGCGCATCTTCTCATA 60.800 50.000 10.83 0.00 0.00 2.15
326 2446 1.661341 GAACAGGCGCATCTTCTCAT 58.339 50.000 10.83 0.00 0.00 2.90
327 2447 0.737367 CGAACAGGCGCATCTTCTCA 60.737 55.000 10.83 0.00 0.00 3.27
328 2448 0.458543 TCGAACAGGCGCATCTTCTC 60.459 55.000 10.83 0.00 0.00 2.87
329 2449 0.459237 CTCGAACAGGCGCATCTTCT 60.459 55.000 10.83 0.00 0.00 2.85
330 2450 1.424493 CCTCGAACAGGCGCATCTTC 61.424 60.000 10.83 4.54 34.56 2.87
331 2451 1.448540 CCTCGAACAGGCGCATCTT 60.449 57.895 10.83 0.00 34.56 2.40
332 2452 2.185350 CCTCGAACAGGCGCATCT 59.815 61.111 10.83 0.00 34.56 2.90
333 2453 2.892425 CCCTCGAACAGGCGCATC 60.892 66.667 10.83 0.15 41.80 3.91
334 2454 4.473520 CCCCTCGAACAGGCGCAT 62.474 66.667 10.83 0.00 41.80 4.73
336 2456 4.162690 ATCCCCTCGAACAGGCGC 62.163 66.667 0.00 0.00 41.80 6.53
337 2457 2.202932 CATCCCCTCGAACAGGCG 60.203 66.667 0.00 0.00 41.80 5.52
338 2458 2.514824 GCATCCCCTCGAACAGGC 60.515 66.667 0.00 0.00 41.80 4.85
339 2459 2.202932 CGCATCCCCTCGAACAGG 60.203 66.667 0.00 0.00 43.01 4.00
340 2460 1.227089 CTCGCATCCCCTCGAACAG 60.227 63.158 0.00 0.00 34.07 3.16
341 2461 2.721167 CCTCGCATCCCCTCGAACA 61.721 63.158 0.00 0.00 34.07 3.18
342 2462 2.107141 CCTCGCATCCCCTCGAAC 59.893 66.667 0.00 0.00 34.07 3.95
343 2463 2.043349 TCCTCGCATCCCCTCGAA 60.043 61.111 0.00 0.00 34.07 3.71
344 2464 2.519541 CTCCTCGCATCCCCTCGA 60.520 66.667 0.00 0.00 0.00 4.04
345 2465 4.292178 GCTCCTCGCATCCCCTCG 62.292 72.222 0.00 0.00 38.92 4.63
346 2466 4.292178 CGCTCCTCGCATCCCCTC 62.292 72.222 0.00 0.00 39.08 4.30
347 2467 4.841617 TCGCTCCTCGCATCCCCT 62.842 66.667 0.00 0.00 39.08 4.79
348 2468 3.170490 ATTCGCTCCTCGCATCCCC 62.170 63.158 0.00 0.00 39.08 4.81
349 2469 1.958205 CATTCGCTCCTCGCATCCC 60.958 63.158 0.00 0.00 39.08 3.85
350 2470 2.602322 GCATTCGCTCCTCGCATCC 61.602 63.158 0.00 0.00 39.08 3.51
351 2471 2.934428 GCATTCGCTCCTCGCATC 59.066 61.111 0.00 0.00 39.08 3.91
352 2472 2.963854 CGCATTCGCTCCTCGCAT 60.964 61.111 0.00 0.00 39.08 4.73
353 2473 4.128388 TCGCATTCGCTCCTCGCA 62.128 61.111 0.00 0.00 39.08 5.10
354 2474 3.621394 GTCGCATTCGCTCCTCGC 61.621 66.667 0.00 0.00 38.27 5.03
355 2475 3.315521 CGTCGCATTCGCTCCTCG 61.316 66.667 0.00 0.00 40.15 4.63
356 2476 2.956964 CCGTCGCATTCGCTCCTC 60.957 66.667 0.00 0.00 35.30 3.71
357 2477 3.296709 AACCGTCGCATTCGCTCCT 62.297 57.895 0.00 0.00 35.30 3.69
358 2478 2.813908 AACCGTCGCATTCGCTCC 60.814 61.111 0.00 0.00 35.30 4.70
359 2479 2.395690 CAACCGTCGCATTCGCTC 59.604 61.111 0.00 0.00 35.30 5.03
360 2480 3.788766 GCAACCGTCGCATTCGCT 61.789 61.111 0.00 0.00 35.30 4.93
361 2481 4.811761 GGCAACCGTCGCATTCGC 62.812 66.667 0.00 0.00 35.26 4.70
362 2482 3.118454 AGGCAACCGTCGCATTCG 61.118 61.111 0.00 0.00 37.17 3.34
363 2483 2.480555 CAGGCAACCGTCGCATTC 59.519 61.111 0.00 0.00 37.17 2.67
364 2484 3.055719 CCAGGCAACCGTCGCATT 61.056 61.111 0.00 0.00 37.17 3.56
365 2485 3.545124 TTCCAGGCAACCGTCGCAT 62.545 57.895 0.00 0.00 37.17 4.73
366 2486 3.758973 TTTCCAGGCAACCGTCGCA 62.759 57.895 0.00 0.00 37.17 5.10
367 2487 2.966309 CTTTCCAGGCAACCGTCGC 61.966 63.158 0.00 0.00 37.17 5.19
368 2488 2.325082 CCTTTCCAGGCAACCGTCG 61.325 63.158 0.00 0.00 31.53 5.12
369 2489 3.668386 CCTTTCCAGGCAACCGTC 58.332 61.111 0.00 0.00 31.53 4.79
387 2507 2.680913 CGCCTCTTTTGTGCGGGAG 61.681 63.158 0.00 0.00 44.29 4.30
388 2508 2.668212 CGCCTCTTTTGTGCGGGA 60.668 61.111 0.00 0.00 44.29 5.14
392 2512 4.404654 CCGCCGCCTCTTTTGTGC 62.405 66.667 0.00 0.00 0.00 4.57
393 2513 2.551912 AACCGCCGCCTCTTTTGTG 61.552 57.895 0.00 0.00 0.00 3.33
394 2514 2.203294 AACCGCCGCCTCTTTTGT 60.203 55.556 0.00 0.00 0.00 2.83
395 2515 2.255252 CAACCGCCGCCTCTTTTG 59.745 61.111 0.00 0.00 0.00 2.44
396 2516 3.670377 GCAACCGCCGCCTCTTTT 61.670 61.111 0.00 0.00 0.00 2.27
397 2517 4.643387 AGCAACCGCCGCCTCTTT 62.643 61.111 0.00 0.00 39.83 2.52
398 2518 4.643387 AAGCAACCGCCGCCTCTT 62.643 61.111 0.00 0.00 39.83 2.85
404 2524 3.181967 CTCTCGAAGCAACCGCCG 61.182 66.667 0.00 0.00 39.83 6.46
405 2525 2.579684 ATCCTCTCGAAGCAACCGCC 62.580 60.000 0.00 0.00 39.83 6.13
406 2526 1.148759 GATCCTCTCGAAGCAACCGC 61.149 60.000 0.00 0.00 38.99 5.68
407 2527 0.528684 GGATCCTCTCGAAGCAACCG 60.529 60.000 3.84 0.00 0.00 4.44
408 2528 0.179070 GGGATCCTCTCGAAGCAACC 60.179 60.000 12.58 0.00 0.00 3.77
409 2529 0.528684 CGGGATCCTCTCGAAGCAAC 60.529 60.000 12.58 0.00 44.60 4.17
410 2530 0.970937 ACGGGATCCTCTCGAAGCAA 60.971 55.000 12.58 0.00 44.60 3.91
411 2531 1.379977 ACGGGATCCTCTCGAAGCA 60.380 57.895 12.58 0.00 44.60 3.91
412 2532 1.066587 CACGGGATCCTCTCGAAGC 59.933 63.158 12.58 0.00 44.60 3.86
413 2533 1.066587 GCACGGGATCCTCTCGAAG 59.933 63.158 12.58 6.71 44.60 3.79
414 2534 1.043116 ATGCACGGGATCCTCTCGAA 61.043 55.000 12.58 0.00 44.60 3.71
415 2535 1.455773 ATGCACGGGATCCTCTCGA 60.456 57.895 12.58 0.00 44.60 4.04
417 2537 1.596477 GCATGCACGGGATCCTCTC 60.596 63.158 14.21 0.00 0.00 3.20
418 2538 2.068821 AGCATGCACGGGATCCTCT 61.069 57.895 21.98 0.00 0.00 3.69
419 2539 1.890979 CAGCATGCACGGGATCCTC 60.891 63.158 21.98 0.55 0.00 3.71
420 2540 2.191375 CAGCATGCACGGGATCCT 59.809 61.111 21.98 0.00 0.00 3.24
421 2541 0.463654 TAACAGCATGCACGGGATCC 60.464 55.000 21.98 1.92 42.53 3.36
422 2542 1.597742 ATAACAGCATGCACGGGATC 58.402 50.000 21.98 0.00 42.53 3.36
423 2543 2.057137 AATAACAGCATGCACGGGAT 57.943 45.000 21.98 3.34 42.53 3.85
424 2544 1.832883 AAATAACAGCATGCACGGGA 58.167 45.000 21.98 0.72 42.53 5.14
425 2545 2.421775 TGTAAATAACAGCATGCACGGG 59.578 45.455 21.98 8.76 42.53 5.28
426 2546 3.755965 TGTAAATAACAGCATGCACGG 57.244 42.857 21.98 11.43 42.53 4.94
427 2547 4.471373 TGTTGTAAATAACAGCATGCACG 58.529 39.130 21.98 13.14 43.49 5.34
428 2548 5.345741 CCTTGTTGTAAATAACAGCATGCAC 59.654 40.000 21.98 7.03 46.96 4.57
429 2549 5.242615 TCCTTGTTGTAAATAACAGCATGCA 59.757 36.000 21.98 0.00 46.96 3.96
430 2550 5.708948 TCCTTGTTGTAAATAACAGCATGC 58.291 37.500 10.51 10.51 46.96 4.06
433 2553 9.461312 AGATAATCCTTGTTGTAAATAACAGCA 57.539 29.630 0.00 0.00 46.24 4.41
434 2554 9.937175 GAGATAATCCTTGTTGTAAATAACAGC 57.063 33.333 0.00 0.00 41.18 4.40
463 2583 9.744468 GCGATGGTTTTGTTAGGATTTAATTAT 57.256 29.630 0.00 0.00 0.00 1.28
464 2584 8.962679 AGCGATGGTTTTGTTAGGATTTAATTA 58.037 29.630 0.00 0.00 0.00 1.40
465 2585 7.836842 AGCGATGGTTTTGTTAGGATTTAATT 58.163 30.769 0.00 0.00 0.00 1.40
466 2586 7.404671 AGCGATGGTTTTGTTAGGATTTAAT 57.595 32.000 0.00 0.00 0.00 1.40
467 2587 6.827586 AGCGATGGTTTTGTTAGGATTTAA 57.172 33.333 0.00 0.00 0.00 1.52
468 2588 7.107542 ACTAGCGATGGTTTTGTTAGGATTTA 58.892 34.615 0.00 0.00 29.10 1.40
469 2589 5.944007 ACTAGCGATGGTTTTGTTAGGATTT 59.056 36.000 0.00 0.00 29.10 2.17
470 2590 5.497474 ACTAGCGATGGTTTTGTTAGGATT 58.503 37.500 0.00 0.00 29.10 3.01
471 2591 5.099042 ACTAGCGATGGTTTTGTTAGGAT 57.901 39.130 0.00 0.00 29.10 3.24
472 2592 4.546829 ACTAGCGATGGTTTTGTTAGGA 57.453 40.909 0.00 0.00 29.10 2.94
473 2593 4.201685 CGAACTAGCGATGGTTTTGTTAGG 60.202 45.833 3.31 0.00 29.10 2.69
474 2594 4.624024 TCGAACTAGCGATGGTTTTGTTAG 59.376 41.667 3.31 0.00 35.01 2.34
475 2595 4.558178 TCGAACTAGCGATGGTTTTGTTA 58.442 39.130 3.31 0.00 35.01 2.41
476 2596 3.395639 TCGAACTAGCGATGGTTTTGTT 58.604 40.909 3.31 0.00 35.01 2.83
477 2597 3.034721 TCGAACTAGCGATGGTTTTGT 57.965 42.857 3.31 0.00 35.01 2.83
478 2598 3.678072 TCTTCGAACTAGCGATGGTTTTG 59.322 43.478 3.31 0.28 40.35 2.44
479 2599 3.921677 TCTTCGAACTAGCGATGGTTTT 58.078 40.909 3.31 0.00 40.35 2.43
480 2600 3.512680 CTCTTCGAACTAGCGATGGTTT 58.487 45.455 3.31 0.00 40.35 3.27
481 2601 2.735762 GCTCTTCGAACTAGCGATGGTT 60.736 50.000 0.71 0.71 40.35 3.67
482 2602 1.202313 GCTCTTCGAACTAGCGATGGT 60.202 52.381 10.96 0.00 40.35 3.55
483 2603 1.482278 GCTCTTCGAACTAGCGATGG 58.518 55.000 10.96 0.00 40.35 3.51
488 2608 0.248702 CTCCCGCTCTTCGAACTAGC 60.249 60.000 14.88 14.88 41.67 3.42
489 2609 1.096416 ACTCCCGCTCTTCGAACTAG 58.904 55.000 0.00 0.00 41.67 2.57
490 2610 2.408271 TACTCCCGCTCTTCGAACTA 57.592 50.000 0.00 0.00 41.67 2.24
491 2611 1.201880 GTTACTCCCGCTCTTCGAACT 59.798 52.381 0.00 0.00 41.67 3.01
492 2612 1.068055 TGTTACTCCCGCTCTTCGAAC 60.068 52.381 0.00 0.00 41.67 3.95
493 2613 1.068055 GTGTTACTCCCGCTCTTCGAA 60.068 52.381 0.00 0.00 41.67 3.71
494 2614 0.524862 GTGTTACTCCCGCTCTTCGA 59.475 55.000 0.00 0.00 41.67 3.71
495 2615 0.526662 AGTGTTACTCCCGCTCTTCG 59.473 55.000 0.00 0.00 38.08 3.79
496 2616 1.404315 CCAGTGTTACTCCCGCTCTTC 60.404 57.143 0.00 0.00 0.00 2.87
497 2617 0.608640 CCAGTGTTACTCCCGCTCTT 59.391 55.000 0.00 0.00 0.00 2.85
498 2618 1.258445 CCCAGTGTTACTCCCGCTCT 61.258 60.000 0.00 0.00 0.00 4.09
499 2619 1.218316 CCCAGTGTTACTCCCGCTC 59.782 63.158 0.00 0.00 0.00 5.03
500 2620 1.535687 ACCCAGTGTTACTCCCGCT 60.536 57.895 0.00 0.00 0.00 5.52
501 2621 1.375523 CACCCAGTGTTACTCCCGC 60.376 63.158 0.00 0.00 0.00 6.13
502 2622 1.375523 GCACCCAGTGTTACTCCCG 60.376 63.158 0.00 0.00 35.75 5.14
503 2623 1.002502 GGCACCCAGTGTTACTCCC 60.003 63.158 0.00 0.00 35.75 4.30
504 2624 0.605589 GTGGCACCCAGTGTTACTCC 60.606 60.000 6.29 0.00 35.75 3.85
505 2625 0.107831 TGTGGCACCCAGTGTTACTC 59.892 55.000 16.26 0.00 35.75 2.59
506 2626 0.771127 ATGTGGCACCCAGTGTTACT 59.229 50.000 16.26 0.00 35.75 2.24
507 2627 2.081462 GTATGTGGCACCCAGTGTTAC 58.919 52.381 16.26 2.38 35.75 2.50
508 2628 1.003812 GGTATGTGGCACCCAGTGTTA 59.996 52.381 16.26 0.00 35.75 2.41
509 2629 0.251165 GGTATGTGGCACCCAGTGTT 60.251 55.000 16.26 0.00 35.75 3.32
510 2630 1.378762 GGTATGTGGCACCCAGTGT 59.621 57.895 16.26 0.00 35.75 3.55
511 2631 4.319133 GGTATGTGGCACCCAGTG 57.681 61.111 16.26 0.00 32.34 3.66
535 2655 1.822615 GCTGTGGCACCCAGTTTTT 59.177 52.632 16.26 0.00 38.54 1.94
538 2658 4.954970 CCGCTGTGGCACCCAGTT 62.955 66.667 16.26 0.00 38.60 3.16
608 2728 2.296814 GACAATCATTTGGCCCCCGC 62.297 60.000 0.00 0.00 34.53 6.13
609 2729 1.815866 GACAATCATTTGGCCCCCG 59.184 57.895 0.00 0.00 34.53 5.73
614 2734 6.018832 CGGAATTATTTGGACAATCATTTGGC 60.019 38.462 0.00 0.00 40.42 4.52
615 2735 7.010367 CACGGAATTATTTGGACAATCATTTGG 59.990 37.037 0.00 0.00 37.15 3.28
616 2736 7.464444 GCACGGAATTATTTGGACAATCATTTG 60.464 37.037 0.00 0.00 38.86 2.32
617 2737 6.534793 GCACGGAATTATTTGGACAATCATTT 59.465 34.615 0.00 0.00 0.00 2.32
618 2738 6.042143 GCACGGAATTATTTGGACAATCATT 58.958 36.000 0.00 0.00 0.00 2.57
619 2739 5.360714 AGCACGGAATTATTTGGACAATCAT 59.639 36.000 0.00 0.00 0.00 2.45
620 2740 4.704540 AGCACGGAATTATTTGGACAATCA 59.295 37.500 0.00 0.00 0.00 2.57
621 2741 5.036737 CAGCACGGAATTATTTGGACAATC 58.963 41.667 0.00 0.00 0.00 2.67
717 2858 6.112734 TGAGCGTATCAGTGTTGGAATTATT 58.887 36.000 0.00 0.00 32.77 1.40
718 2859 5.670485 TGAGCGTATCAGTGTTGGAATTAT 58.330 37.500 0.00 0.00 32.77 1.28
719 2860 5.079689 TGAGCGTATCAGTGTTGGAATTA 57.920 39.130 0.00 0.00 32.77 1.40
720 2861 3.937814 TGAGCGTATCAGTGTTGGAATT 58.062 40.909 0.00 0.00 32.77 2.17
771 2917 4.357996 GCCGTAACTGTATGTAACCTCTC 58.642 47.826 0.00 0.00 0.00 3.20
772 2918 3.181493 CGCCGTAACTGTATGTAACCTCT 60.181 47.826 0.00 0.00 0.00 3.69
774 2920 2.736400 GCGCCGTAACTGTATGTAACCT 60.736 50.000 0.00 0.00 0.00 3.50
775 2921 1.589779 GCGCCGTAACTGTATGTAACC 59.410 52.381 0.00 0.00 0.00 2.85
776 2922 1.253545 CGCGCCGTAACTGTATGTAAC 59.746 52.381 0.00 0.00 0.00 2.50
777 2923 1.547909 CGCGCCGTAACTGTATGTAA 58.452 50.000 0.00 0.00 0.00 2.41
778 2924 0.866906 GCGCGCCGTAACTGTATGTA 60.867 55.000 23.24 0.00 0.00 2.29
779 2925 2.162754 GCGCGCCGTAACTGTATGT 61.163 57.895 23.24 0.00 0.00 2.29
780 2926 1.487452 ATGCGCGCCGTAACTGTATG 61.487 55.000 30.77 0.00 0.00 2.39
781 2927 1.213094 GATGCGCGCCGTAACTGTAT 61.213 55.000 30.77 12.00 0.00 2.29
785 2931 0.528901 TATTGATGCGCGCCGTAACT 60.529 50.000 30.77 11.45 0.00 2.24
934 3085 2.373169 TGGAACTGATCTCAGGTTGCTT 59.627 45.455 11.66 0.00 45.35 3.91
1017 3178 1.606480 CCCATGTCGATGATCGGGAAG 60.606 57.143 15.48 3.42 40.88 3.46
1064 3225 4.783621 GCAGCAGGTCCATCGCCA 62.784 66.667 0.00 0.00 0.00 5.69
1094 3255 1.635487 CCTGGAAGAATCCCCAGTTCA 59.365 52.381 15.12 0.00 46.47 3.18
1121 3282 5.069318 TGTTGATTGAGTTATGGAGTTGCA 58.931 37.500 0.00 0.00 0.00 4.08
1137 3298 4.624015 CTTGGTCATGCAAGTTGTTGATT 58.376 39.130 4.48 0.00 35.46 2.57
1155 3316 4.707030 TGAAACTATTCATGCAGCTTGG 57.293 40.909 8.37 0.00 40.59 3.61
1187 3348 4.036262 AGCAAAATCAGCGTACAACTTGAA 59.964 37.500 0.00 0.00 37.01 2.69
1189 3350 3.888934 AGCAAAATCAGCGTACAACTTG 58.111 40.909 0.00 0.00 37.01 3.16
1190 3351 4.568152 AAGCAAAATCAGCGTACAACTT 57.432 36.364 0.00 0.00 37.01 2.66
1200 3361 3.739300 CCACAAGAGCAAAGCAAAATCAG 59.261 43.478 0.00 0.00 0.00 2.90
1256 3425 1.513158 CTCGTCCATCAGCTCCGTT 59.487 57.895 0.00 0.00 0.00 4.44
2074 4990 2.282407 AGTACCGTGGTTGTTGTTGTC 58.718 47.619 0.00 0.00 0.00 3.18
2075 4991 2.282407 GAGTACCGTGGTTGTTGTTGT 58.718 47.619 0.00 0.00 0.00 3.32
2076 4992 1.600485 GGAGTACCGTGGTTGTTGTTG 59.400 52.381 0.00 0.00 0.00 3.33
2078 4994 3.692424 GGAGTACCGTGGTTGTTGT 57.308 52.632 0.00 0.00 0.00 3.32
2090 5006 0.528470 AGAGCAGAGCAACGGAGTAC 59.472 55.000 0.00 0.00 45.00 2.73
2094 5012 2.973899 GGAGAGCAGAGCAACGGA 59.026 61.111 0.00 0.00 0.00 4.69
2175 5094 2.561478 ATTCGGCACCAAACAGTACT 57.439 45.000 0.00 0.00 0.00 2.73
2234 5787 7.117812 CGAAAATGACAAACACTCCTACTACAT 59.882 37.037 0.00 0.00 0.00 2.29
2384 5944 3.055530 CCCTGTCAAGTATGAAGAGCTGT 60.056 47.826 0.00 0.00 37.30 4.40
2385 5945 3.055530 ACCCTGTCAAGTATGAAGAGCTG 60.056 47.826 0.00 0.00 37.30 4.24
2386 5946 3.055530 CACCCTGTCAAGTATGAAGAGCT 60.056 47.826 0.00 0.00 37.30 4.09
2387 5947 3.265791 CACCCTGTCAAGTATGAAGAGC 58.734 50.000 0.00 0.00 37.30 4.09
2388 5948 4.543590 ACACCCTGTCAAGTATGAAGAG 57.456 45.455 0.00 0.00 37.30 2.85
2389 5949 4.974645 AACACCCTGTCAAGTATGAAGA 57.025 40.909 0.00 0.00 37.30 2.87
2390 5950 5.178797 CCTAACACCCTGTCAAGTATGAAG 58.821 45.833 0.00 0.00 37.30 3.02
2391 5951 4.019681 CCCTAACACCCTGTCAAGTATGAA 60.020 45.833 0.00 0.00 37.30 2.57
2392 5952 3.517901 CCCTAACACCCTGTCAAGTATGA 59.482 47.826 0.00 0.00 0.00 2.15
2393 5953 3.873910 CCCTAACACCCTGTCAAGTATG 58.126 50.000 0.00 0.00 0.00 2.39
2394 5954 2.238898 GCCCTAACACCCTGTCAAGTAT 59.761 50.000 0.00 0.00 0.00 2.12
2395 5955 1.626825 GCCCTAACACCCTGTCAAGTA 59.373 52.381 0.00 0.00 0.00 2.24
2396 5956 0.400594 GCCCTAACACCCTGTCAAGT 59.599 55.000 0.00 0.00 0.00 3.16
2397 5957 0.400213 TGCCCTAACACCCTGTCAAG 59.600 55.000 0.00 0.00 0.00 3.02
2398 5958 1.004277 GATGCCCTAACACCCTGTCAA 59.996 52.381 0.00 0.00 0.00 3.18
2399 5959 0.618458 GATGCCCTAACACCCTGTCA 59.382 55.000 0.00 0.00 0.00 3.58
2400 5960 0.912486 AGATGCCCTAACACCCTGTC 59.088 55.000 0.00 0.00 0.00 3.51
2401 5961 0.912486 GAGATGCCCTAACACCCTGT 59.088 55.000 0.00 0.00 0.00 4.00
2402 5962 0.181350 GGAGATGCCCTAACACCCTG 59.819 60.000 0.00 0.00 0.00 4.45
2403 5963 0.253160 TGGAGATGCCCTAACACCCT 60.253 55.000 0.00 0.00 34.97 4.34
2404 5964 0.181350 CTGGAGATGCCCTAACACCC 59.819 60.000 0.00 0.00 34.97 4.61
2405 5965 0.464554 GCTGGAGATGCCCTAACACC 60.465 60.000 0.00 0.00 34.97 4.16
2406 5966 0.464554 GGCTGGAGATGCCCTAACAC 60.465 60.000 0.00 0.00 44.32 3.32
2407 5967 1.915228 GGCTGGAGATGCCCTAACA 59.085 57.895 0.00 0.00 44.32 2.41
2568 6130 0.732538 GGATTTGCGGCGTCTTTTGG 60.733 55.000 9.37 0.00 0.00 3.28
2846 6408 3.916544 CAGCGCGGCCTCATCCTA 61.917 66.667 8.83 0.00 0.00 2.94
2983 6703 2.571212 TGAAGAACAACGCCATCAAGT 58.429 42.857 0.00 0.00 0.00 3.16


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

AutoCloner maintained by Alex Coulton.