Multiple sequence alignment - TraesCS2B01G441500

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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 TraesCS2B01G441500 chr2B 100.000 3254 0 0 1 3254 633583818 633587071 0.000000e+00 6010.0
1 TraesCS2B01G441500 chr2B 81.766 1404 235 16 985 2379 633575357 633576748 0.000000e+00 1155.0
2 TraesCS2B01G441500 chr2B 79.119 1408 246 26 1075 2462 632988268 632989647 0.000000e+00 928.0
3 TraesCS2B01G441500 chr2B 79.375 800 136 17 1546 2339 633254581 633255357 1.330000e-148 536.0
4 TraesCS2B01G441500 chr2D 91.474 1900 106 25 707 2571 533668169 533670047 0.000000e+00 2560.0
5 TraesCS2B01G441500 chr2D 83.099 1994 252 42 706 2655 533662145 533664097 0.000000e+00 1736.0
6 TraesCS2B01G441500 chr2D 83.152 1656 207 49 981 2598 533831245 533832866 0.000000e+00 1447.0
7 TraesCS2B01G441500 chr2D 81.839 1718 245 45 739 2427 534134920 534136599 0.000000e+00 1382.0
8 TraesCS2B01G441500 chr2D 82.658 1332 210 11 1076 2400 533658365 533659682 0.000000e+00 1160.0
9 TraesCS2B01G441500 chr2D 78.672 1838 309 55 981 2765 533251709 533253516 0.000000e+00 1146.0
10 TraesCS2B01G441500 chr2D 78.992 1547 268 34 834 2339 533165106 533166636 0.000000e+00 1003.0
11 TraesCS2B01G441500 chr2D 92.394 447 23 6 2797 3237 533670870 533671311 7.660000e-176 627.0
12 TraesCS2B01G441500 chr2D 87.763 523 27 14 2308 2799 533670314 533670830 7.830000e-161 577.0
13 TraesCS2B01G441500 chr2D 98.571 70 1 0 637 706 533662027 533662096 1.230000e-24 124.0
14 TraesCS2B01G441500 chr2A 79.438 1673 286 37 834 2468 677545964 677547616 0.000000e+00 1131.0
15 TraesCS2B01G441500 chr2A 81.148 366 49 9 222 569 155746964 155746601 3.200000e-70 276.0
16 TraesCS2B01G441500 chr2A 89.157 83 9 0 56 138 155747054 155746972 1.600000e-18 104.0
17 TraesCS2B01G441500 chrUn 81.648 1335 216 17 1083 2406 26138819 26140135 0.000000e+00 1081.0
18 TraesCS2B01G441500 chr5A 99.126 572 5 0 1 572 370170893 370170322 0.000000e+00 1029.0
19 TraesCS2B01G441500 chr5A 93.761 577 34 2 1 575 282626825 282627401 0.000000e+00 865.0
20 TraesCS2B01G441500 chr7D 78.915 1290 190 54 834 2106 78799534 78798310 0.000000e+00 800.0
21 TraesCS2B01G441500 chr7B 78.505 1284 201 49 837 2106 26034727 26033505 0.000000e+00 773.0
22 TraesCS2B01G441500 chr6A 82.916 439 56 10 151 571 221347445 221347882 8.520000e-101 377.0
23 TraesCS2B01G441500 chr6A 79.944 354 51 7 222 557 35994658 35994307 3.240000e-60 243.0
24 TraesCS2B01G441500 chr6A 97.183 71 2 0 56 126 221347398 221347468 1.590000e-23 121.0
25 TraesCS2B01G441500 chr6A 93.617 47 2 1 1 47 221347324 221347369 5.830000e-08 69.4
26 TraesCS2B01G441500 chr6B 83.750 400 47 5 182 563 300719130 300718731 2.390000e-96 363.0
27 TraesCS2B01G441500 chr6B 87.081 209 22 5 371 576 675432870 675432664 7.020000e-57 231.0
28 TraesCS2B01G441500 chr6B 90.361 83 8 0 56 138 300719207 300719125 3.430000e-20 110.0
29 TraesCS2B01G441500 chr5D 81.481 459 70 9 126 578 137059771 137059322 2.390000e-96 363.0
30 TraesCS2B01G441500 chr4A 82.596 339 40 3 229 549 567666146 567666483 6.870000e-72 281.0
31 TraesCS2B01G441500 chr4A 88.442 199 20 3 365 562 513557937 513557741 1.510000e-58 237.0
32 TraesCS2B01G441500 chr6D 78.993 457 52 18 151 571 161976707 161977155 4.140000e-69 272.0
33 TraesCS2B01G441500 chr6D 97.183 71 2 0 56 126 161976660 161976730 1.590000e-23 121.0
34 TraesCS2B01G441500 chr6D 95.745 47 1 1 1 47 161976586 161976631 1.250000e-09 75.0


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 TraesCS2B01G441500 chr2B 633583818 633587071 3253 False 6010.000000 6010 100.000000 1 3254 1 chr2B.!!$F4 3253
1 TraesCS2B01G441500 chr2B 633575357 633576748 1391 False 1155.000000 1155 81.766000 985 2379 1 chr2B.!!$F3 1394
2 TraesCS2B01G441500 chr2B 632988268 632989647 1379 False 928.000000 928 79.119000 1075 2462 1 chr2B.!!$F1 1387
3 TraesCS2B01G441500 chr2B 633254581 633255357 776 False 536.000000 536 79.375000 1546 2339 1 chr2B.!!$F2 793
4 TraesCS2B01G441500 chr2D 533831245 533832866 1621 False 1447.000000 1447 83.152000 981 2598 1 chr2D.!!$F3 1617
5 TraesCS2B01G441500 chr2D 534134920 534136599 1679 False 1382.000000 1382 81.839000 739 2427 1 chr2D.!!$F4 1688
6 TraesCS2B01G441500 chr2D 533668169 533671311 3142 False 1254.666667 2560 90.543667 707 3237 3 chr2D.!!$F6 2530
7 TraesCS2B01G441500 chr2D 533251709 533253516 1807 False 1146.000000 1146 78.672000 981 2765 1 chr2D.!!$F2 1784
8 TraesCS2B01G441500 chr2D 533658365 533664097 5732 False 1006.666667 1736 88.109333 637 2655 3 chr2D.!!$F5 2018
9 TraesCS2B01G441500 chr2D 533165106 533166636 1530 False 1003.000000 1003 78.992000 834 2339 1 chr2D.!!$F1 1505
10 TraesCS2B01G441500 chr2A 677545964 677547616 1652 False 1131.000000 1131 79.438000 834 2468 1 chr2A.!!$F1 1634
11 TraesCS2B01G441500 chrUn 26138819 26140135 1316 False 1081.000000 1081 81.648000 1083 2406 1 chrUn.!!$F1 1323
12 TraesCS2B01G441500 chr5A 370170322 370170893 571 True 1029.000000 1029 99.126000 1 572 1 chr5A.!!$R1 571
13 TraesCS2B01G441500 chr5A 282626825 282627401 576 False 865.000000 865 93.761000 1 575 1 chr5A.!!$F1 574
14 TraesCS2B01G441500 chr7D 78798310 78799534 1224 True 800.000000 800 78.915000 834 2106 1 chr7D.!!$R1 1272
15 TraesCS2B01G441500 chr7B 26033505 26034727 1222 True 773.000000 773 78.505000 837 2106 1 chr7B.!!$R1 1269

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
442 443 0.178961 GAAGGAGGGGGTTTTGTGCT 60.179 55.0 0.00 0.0 0.00 4.40 F
485 486 0.179124 GGAGCTCCGCACTTGAGTAG 60.179 60.0 19.06 0.0 32.31 2.57 F
492 493 0.458543 CGCACTTGAGTAGATGCCGT 60.459 55.0 0.00 0.0 34.49 5.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1428 4575 0.320073 TACGCTTGTCCGTTGAAGGG 60.320 55.0 0.00 0.00 42.20 3.95 R
2051 5276 0.542232 AGTCACCTTGTACTCCGCCT 60.542 55.0 0.00 0.00 0.00 5.52 R
2396 6176 0.676782 CCAGGGATTGTTCCGGACAC 60.677 60.0 1.83 6.75 43.63 3.67 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
146 147 3.730963 CGTTGTTGCGAGCTCTGTCTATA 60.731 47.826 12.85 0.00 0.00 1.31
421 422 6.657541 GGGTCAAAATCCTGACAACATTACTA 59.342 38.462 6.12 0.00 46.31 1.82
424 425 7.606456 GTCAAAATCCTGACAACATTACTAGGA 59.394 37.037 0.00 0.00 44.32 2.94
425 426 8.160765 TCAAAATCCTGACAACATTACTAGGAA 58.839 33.333 0.00 0.00 37.81 3.36
427 428 5.677319 TCCTGACAACATTACTAGGAAGG 57.323 43.478 0.00 0.00 31.80 3.46
428 429 5.338632 TCCTGACAACATTACTAGGAAGGA 58.661 41.667 6.31 0.00 31.80 3.36
429 430 5.422331 TCCTGACAACATTACTAGGAAGGAG 59.578 44.000 6.31 0.79 31.80 3.69
430 431 5.395768 CCTGACAACATTACTAGGAAGGAGG 60.396 48.000 6.31 0.00 0.00 4.30
431 432 4.469945 TGACAACATTACTAGGAAGGAGGG 59.530 45.833 6.31 0.00 0.00 4.30
432 433 3.780850 ACAACATTACTAGGAAGGAGGGG 59.219 47.826 6.31 0.00 0.00 4.79
433 434 3.061909 ACATTACTAGGAAGGAGGGGG 57.938 52.381 6.31 0.00 0.00 5.40
434 435 2.321296 ACATTACTAGGAAGGAGGGGGT 59.679 50.000 6.31 0.00 0.00 4.95
435 436 3.246758 ACATTACTAGGAAGGAGGGGGTT 60.247 47.826 6.31 0.00 0.00 4.11
436 437 3.590432 TTACTAGGAAGGAGGGGGTTT 57.410 47.619 0.00 0.00 0.00 3.27
438 439 1.993301 ACTAGGAAGGAGGGGGTTTTG 59.007 52.381 0.00 0.00 0.00 2.44
439 440 1.993301 CTAGGAAGGAGGGGGTTTTGT 59.007 52.381 0.00 0.00 0.00 2.83
440 441 0.482887 AGGAAGGAGGGGGTTTTGTG 59.517 55.000 0.00 0.00 0.00 3.33
442 443 0.178961 GAAGGAGGGGGTTTTGTGCT 60.179 55.000 0.00 0.00 0.00 4.40
443 444 1.074889 GAAGGAGGGGGTTTTGTGCTA 59.925 52.381 0.00 0.00 0.00 3.49
444 445 1.154430 AGGAGGGGGTTTTGTGCTAA 58.846 50.000 0.00 0.00 0.00 3.09
445 446 1.716503 AGGAGGGGGTTTTGTGCTAAT 59.283 47.619 0.00 0.00 0.00 1.73
447 448 2.525368 GAGGGGGTTTTGTGCTAATGT 58.475 47.619 0.00 0.00 0.00 2.71
448 449 2.231235 GAGGGGGTTTTGTGCTAATGTG 59.769 50.000 0.00 0.00 0.00 3.21
449 450 1.967779 GGGGGTTTTGTGCTAATGTGT 59.032 47.619 0.00 0.00 0.00 3.72
450 451 2.288763 GGGGGTTTTGTGCTAATGTGTG 60.289 50.000 0.00 0.00 0.00 3.82
451 452 2.364002 GGGGTTTTGTGCTAATGTGTGT 59.636 45.455 0.00 0.00 0.00 3.72
452 453 3.181470 GGGGTTTTGTGCTAATGTGTGTT 60.181 43.478 0.00 0.00 0.00 3.32
453 454 4.438148 GGGTTTTGTGCTAATGTGTGTTT 58.562 39.130 0.00 0.00 0.00 2.83
454 455 5.452077 GGGGTTTTGTGCTAATGTGTGTTTA 60.452 40.000 0.00 0.00 0.00 2.01
455 456 6.043411 GGGTTTTGTGCTAATGTGTGTTTAA 58.957 36.000 0.00 0.00 0.00 1.52
457 458 6.754675 GGTTTTGTGCTAATGTGTGTTTAAGT 59.245 34.615 0.00 0.00 0.00 2.24
458 459 7.276878 GGTTTTGTGCTAATGTGTGTTTAAGTT 59.723 33.333 0.00 0.00 0.00 2.66
460 461 5.277825 TGTGCTAATGTGTGTTTAAGTTGC 58.722 37.500 0.00 0.00 0.00 4.17
462 463 6.261158 TGTGCTAATGTGTGTTTAAGTTGCTA 59.739 34.615 0.00 0.00 0.00 3.49
464 465 6.485313 TGCTAATGTGTGTTTAAGTTGCTAGT 59.515 34.615 0.00 0.00 0.00 2.57
465 466 6.797033 GCTAATGTGTGTTTAAGTTGCTAGTG 59.203 38.462 0.00 0.00 0.00 2.74
466 467 5.689383 ATGTGTGTTTAAGTTGCTAGTGG 57.311 39.130 0.00 0.00 0.00 4.00
467 468 3.880490 TGTGTGTTTAAGTTGCTAGTGGG 59.120 43.478 0.00 0.00 0.00 4.61
468 469 4.131596 GTGTGTTTAAGTTGCTAGTGGGA 58.868 43.478 0.00 0.00 0.00 4.37
469 470 4.213482 GTGTGTTTAAGTTGCTAGTGGGAG 59.787 45.833 0.00 0.00 0.00 4.30
471 472 3.072476 TGTTTAAGTTGCTAGTGGGAGCT 59.928 43.478 0.00 0.00 43.27 4.09
473 474 0.615850 AAGTTGCTAGTGGGAGCTCC 59.384 55.000 25.59 25.59 43.27 4.70
474 475 1.153549 GTTGCTAGTGGGAGCTCCG 60.154 63.158 26.36 13.24 43.27 4.63
475 476 3.019003 TTGCTAGTGGGAGCTCCGC 62.019 63.158 26.36 22.46 46.19 5.54
481 482 2.922503 TGGGAGCTCCGCACTTGA 60.923 61.111 26.36 1.21 38.76 3.02
482 483 2.125350 GGGAGCTCCGCACTTGAG 60.125 66.667 26.36 0.00 36.71 3.02
484 485 1.605058 GGGAGCTCCGCACTTGAGTA 61.605 60.000 26.36 0.00 36.71 2.59
485 486 0.179124 GGAGCTCCGCACTTGAGTAG 60.179 60.000 19.06 0.00 32.31 2.57
486 487 0.811915 GAGCTCCGCACTTGAGTAGA 59.188 55.000 0.87 0.00 32.31 2.59
487 488 1.407258 GAGCTCCGCACTTGAGTAGAT 59.593 52.381 0.87 0.00 32.31 1.98
488 489 1.135915 AGCTCCGCACTTGAGTAGATG 59.864 52.381 0.00 0.00 32.31 2.90
491 492 1.148157 CCGCACTTGAGTAGATGCCG 61.148 60.000 0.00 0.00 34.49 5.69
492 493 0.458543 CGCACTTGAGTAGATGCCGT 60.459 55.000 0.00 0.00 34.49 5.68
493 494 1.726853 GCACTTGAGTAGATGCCGTT 58.273 50.000 0.00 0.00 31.71 4.44
494 495 1.661112 GCACTTGAGTAGATGCCGTTC 59.339 52.381 0.00 0.00 31.71 3.95
495 496 2.930887 GCACTTGAGTAGATGCCGTTCA 60.931 50.000 0.00 0.00 31.71 3.18
497 498 2.563179 ACTTGAGTAGATGCCGTTCACT 59.437 45.455 0.00 0.00 0.00 3.41
498 499 3.762288 ACTTGAGTAGATGCCGTTCACTA 59.238 43.478 0.00 0.00 0.00 2.74
500 501 3.086282 TGAGTAGATGCCGTTCACTACA 58.914 45.455 0.00 0.00 38.02 2.74
501 502 3.128764 TGAGTAGATGCCGTTCACTACAG 59.871 47.826 0.00 0.00 38.02 2.74
502 503 3.353557 AGTAGATGCCGTTCACTACAGA 58.646 45.455 0.00 0.00 38.02 3.41
503 504 3.954904 AGTAGATGCCGTTCACTACAGAT 59.045 43.478 0.00 0.00 38.02 2.90
505 506 2.101582 AGATGCCGTTCACTACAGATCC 59.898 50.000 0.00 0.00 0.00 3.36
506 507 1.262417 TGCCGTTCACTACAGATCCA 58.738 50.000 0.00 0.00 0.00 3.41
507 508 1.621317 TGCCGTTCACTACAGATCCAA 59.379 47.619 0.00 0.00 0.00 3.53
508 509 2.000447 GCCGTTCACTACAGATCCAAC 59.000 52.381 0.00 0.00 0.00 3.77
509 510 2.259618 CCGTTCACTACAGATCCAACG 58.740 52.381 0.00 0.00 37.07 4.10
510 511 2.259618 CGTTCACTACAGATCCAACGG 58.740 52.381 0.00 0.00 34.42 4.44
511 512 2.618053 GTTCACTACAGATCCAACGGG 58.382 52.381 0.00 0.00 0.00 5.28
521 522 2.703405 TCCAACGGGATGGGATTCA 58.297 52.632 4.60 0.00 41.05 2.57
522 523 0.995803 TCCAACGGGATGGGATTCAA 59.004 50.000 4.60 0.00 41.05 2.69
523 524 1.064758 TCCAACGGGATGGGATTCAAG 60.065 52.381 4.60 0.00 41.05 3.02
525 526 2.446435 CAACGGGATGGGATTCAAGTT 58.554 47.619 0.00 0.00 0.00 2.66
526 527 2.825532 CAACGGGATGGGATTCAAGTTT 59.174 45.455 0.00 0.00 0.00 2.66
527 528 2.723273 ACGGGATGGGATTCAAGTTTC 58.277 47.619 0.00 0.00 0.00 2.78
528 529 2.024414 CGGGATGGGATTCAAGTTTCC 58.976 52.381 0.00 0.00 0.00 3.13
530 531 3.026694 GGGATGGGATTCAAGTTTCCAG 58.973 50.000 0.00 0.00 33.43 3.86
532 533 4.540715 GGATGGGATTCAAGTTTCCAGAT 58.459 43.478 0.00 0.00 33.43 2.90
533 534 4.958581 GGATGGGATTCAAGTTTCCAGATT 59.041 41.667 0.00 0.00 33.43 2.40
534 535 5.423290 GGATGGGATTCAAGTTTCCAGATTT 59.577 40.000 0.00 0.00 33.43 2.17
535 536 6.070596 GGATGGGATTCAAGTTTCCAGATTTT 60.071 38.462 0.00 0.00 33.43 1.82
536 537 6.345096 TGGGATTCAAGTTTCCAGATTTTC 57.655 37.500 0.00 0.00 33.43 2.29
537 538 5.837979 TGGGATTCAAGTTTCCAGATTTTCA 59.162 36.000 0.00 0.00 33.43 2.69
538 539 6.159293 GGGATTCAAGTTTCCAGATTTTCAC 58.841 40.000 0.00 0.00 33.43 3.18
539 540 6.015095 GGGATTCAAGTTTCCAGATTTTCACT 60.015 38.462 0.00 0.00 33.43 3.41
540 541 6.865205 GGATTCAAGTTTCCAGATTTTCACTG 59.135 38.462 0.00 0.00 35.43 3.66
542 543 7.403312 TTCAAGTTTCCAGATTTTCACTGAA 57.597 32.000 0.00 0.00 37.54 3.02
543 544 7.403312 TCAAGTTTCCAGATTTTCACTGAAA 57.597 32.000 0.00 0.00 37.54 2.69
544 545 8.010733 TCAAGTTTCCAGATTTTCACTGAAAT 57.989 30.769 5.03 0.00 37.54 2.17
545 546 8.137437 TCAAGTTTCCAGATTTTCACTGAAATC 58.863 33.333 5.03 5.69 43.24 2.17
546 547 7.587037 AGTTTCCAGATTTTCACTGAAATCA 57.413 32.000 5.03 0.00 44.60 2.57
548 549 8.139989 AGTTTCCAGATTTTCACTGAAATCAAG 58.860 33.333 5.03 5.08 44.60 3.02
549 550 7.587037 TTCCAGATTTTCACTGAAATCAAGT 57.413 32.000 5.03 0.00 44.60 3.16
551 552 8.010733 TCCAGATTTTCACTGAAATCAAGTTT 57.989 30.769 5.03 0.00 44.60 2.66
552 553 8.477256 TCCAGATTTTCACTGAAATCAAGTTTT 58.523 29.630 5.03 0.00 44.60 2.43
555 556 9.305925 AGATTTTCACTGAAATCAAGTTTTCAC 57.694 29.630 5.03 0.00 44.60 3.18
556 557 9.305925 GATTTTCACTGAAATCAAGTTTTCACT 57.694 29.630 5.03 0.00 42.71 3.41
557 558 8.687824 TTTTCACTGAAATCAAGTTTTCACTC 57.312 30.769 5.03 0.00 39.91 3.51
559 560 5.815222 TCACTGAAATCAAGTTTTCACTCGA 59.185 36.000 2.97 0.00 39.91 4.04
560 561 6.483307 TCACTGAAATCAAGTTTTCACTCGAT 59.517 34.615 2.97 0.00 39.91 3.59
562 563 7.742089 CACTGAAATCAAGTTTTCACTCGATAC 59.258 37.037 2.97 0.00 39.91 2.24
563 564 7.657761 ACTGAAATCAAGTTTTCACTCGATACT 59.342 33.333 2.97 0.00 39.91 2.12
564 565 8.378172 TGAAATCAAGTTTTCACTCGATACTT 57.622 30.769 2.97 0.00 39.91 2.24
565 566 8.495949 TGAAATCAAGTTTTCACTCGATACTTC 58.504 33.333 2.97 0.00 39.91 3.01
566 567 6.633668 ATCAAGTTTTCACTCGATACTTCG 57.366 37.500 0.00 0.00 46.87 3.79
567 568 4.384846 TCAAGTTTTCACTCGATACTTCGC 59.615 41.667 0.00 0.00 45.10 4.70
568 569 3.251571 AGTTTTCACTCGATACTTCGCC 58.748 45.455 0.00 0.00 45.10 5.54
569 570 3.056749 AGTTTTCACTCGATACTTCGCCT 60.057 43.478 0.00 0.00 45.10 5.52
572 573 2.366533 TCACTCGATACTTCGCCTTCT 58.633 47.619 0.00 0.00 45.10 2.85
574 575 3.192844 TCACTCGATACTTCGCCTTCTTT 59.807 43.478 0.00 0.00 45.10 2.52
576 577 4.389077 CACTCGATACTTCGCCTTCTTTTT 59.611 41.667 0.00 0.00 45.10 1.94
597 598 6.730960 TTTTTGAGACGTGTACAGAAGTTT 57.269 33.333 0.00 0.00 0.00 2.66
598 599 6.730960 TTTTGAGACGTGTACAGAAGTTTT 57.269 33.333 0.00 0.00 0.00 2.43
599 600 5.961395 TTGAGACGTGTACAGAAGTTTTC 57.039 39.130 0.00 1.07 0.00 2.29
600 601 5.258456 TGAGACGTGTACAGAAGTTTTCT 57.742 39.130 0.00 0.00 41.70 2.52
601 602 5.657474 TGAGACGTGTACAGAAGTTTTCTT 58.343 37.500 0.00 0.00 43.55 2.52
602 603 6.103997 TGAGACGTGTACAGAAGTTTTCTTT 58.896 36.000 0.00 0.00 40.61 2.52
603 604 6.592607 TGAGACGTGTACAGAAGTTTTCTTTT 59.407 34.615 0.00 0.00 40.61 2.27
604 605 7.118680 TGAGACGTGTACAGAAGTTTTCTTTTT 59.881 33.333 0.00 0.00 40.61 1.94
605 606 7.241376 AGACGTGTACAGAAGTTTTCTTTTTG 58.759 34.615 0.00 0.00 40.61 2.44
606 607 7.118680 AGACGTGTACAGAAGTTTTCTTTTTGA 59.881 33.333 0.00 0.00 40.61 2.69
608 609 7.118680 ACGTGTACAGAAGTTTTCTTTTTGAGA 59.881 33.333 0.00 0.00 40.61 3.27
609 610 7.960738 CGTGTACAGAAGTTTTCTTTTTGAGAA 59.039 33.333 0.00 0.00 42.56 2.87
700 3727 0.471022 TTTGTTTTGAGGGAGGGGCC 60.471 55.000 0.00 0.00 0.00 5.80
722 3798 7.095355 GGGCCGACATAGTATAATGTAAAACAG 60.095 40.741 0.00 0.00 40.17 3.16
795 3882 2.414058 TTGCGCCACAGTAACATTTG 57.586 45.000 4.18 0.00 0.00 2.32
910 4009 1.324736 GGTATTTCTCTTCACGCGCAG 59.675 52.381 5.73 2.42 0.00 5.18
966 4068 4.263018 TCTAGCCCAGATTGATGAATCG 57.737 45.455 0.00 0.00 42.61 3.34
968 4070 3.784511 AGCCCAGATTGATGAATCGAT 57.215 42.857 0.00 0.00 42.61 3.59
1019 4145 0.636101 ATGGAGGAGGAGAGCTCTGT 59.364 55.000 23.91 8.10 0.00 3.41
1277 4415 3.483869 GGCAGATCCCCGCTTCCT 61.484 66.667 0.00 0.00 0.00 3.36
1295 4433 3.343617 TCCTTAAGTTCCATTTCGCCAG 58.656 45.455 0.97 0.00 0.00 4.85
1336 4474 3.812019 CGGTCGACCTGTCCCTCG 61.812 72.222 30.92 12.27 0.00 4.63
1428 4575 0.538287 GCTACATGGCCCATTCTCCC 60.538 60.000 0.00 0.00 0.00 4.30
1488 4642 2.672996 GTGTGCAATCCGGCCACT 60.673 61.111 2.24 0.00 34.34 4.00
1530 4684 1.733402 CTCACGCCAAGGTGCCAAAA 61.733 55.000 0.00 0.00 37.83 2.44
1774 4932 2.099756 GGTATGCTGAAACCCATGAAGC 59.900 50.000 0.00 0.00 0.00 3.86
1885 5046 1.106285 GATTGGATTGTCACAGGGGC 58.894 55.000 0.00 0.00 0.00 5.80
1906 5067 2.292267 GCTTGCACTATGCTACCACAT 58.708 47.619 2.02 0.00 45.31 3.21
1923 5084 4.726825 ACCACATCCCTAGGTATTGTTGAT 59.273 41.667 8.29 0.00 32.92 2.57
2238 5463 3.131933 TCTTCTCAGACTCATTAGCAGGC 59.868 47.826 0.00 0.00 0.00 4.85
2241 5466 1.227089 AGACTCATTAGCAGGCGCG 60.227 57.895 0.00 0.00 45.49 6.86
2258 5483 1.369091 GCGGATGGGCAGTAGTGTTG 61.369 60.000 0.00 0.00 0.00 3.33
2300 5536 2.977914 TCTTCGAGGAATTGGCTCTTG 58.022 47.619 0.00 0.00 0.00 3.02
2305 5541 3.077359 CGAGGAATTGGCTCTTGTTCTT 58.923 45.455 0.00 0.00 0.00 2.52
2396 6176 2.751259 TGCTCCTGCTAGCTTGATTTTG 59.249 45.455 17.23 2.02 43.19 2.44
2400 6180 3.753272 TCCTGCTAGCTTGATTTTGTGTC 59.247 43.478 17.23 0.00 0.00 3.67
2439 6221 9.998106 TGGTAACCTTAGAGATTAAGCATATTC 57.002 33.333 0.00 0.00 0.00 1.75
2452 6234 8.647143 ATTAAGCATATTCCAATTTTCAACGG 57.353 30.769 0.00 0.00 0.00 4.44
2462 6244 5.478679 TCCAATTTTCAACGGACATGGTTAT 59.521 36.000 0.00 0.00 0.00 1.89
2505 6313 9.308000 AGTTTCATGTGGTCAATATTTAAGGAA 57.692 29.630 0.00 0.00 0.00 3.36
2561 6373 9.875708 TTTATTATGGATTATGTGCCCTAAGTT 57.124 29.630 0.00 0.00 0.00 2.66
2649 6473 9.888878 CATAATGCCTATTTGATGTTAGTTCTG 57.111 33.333 0.00 0.00 0.00 3.02
2693 6517 8.236585 TGCCATTAATTGAGCAAGTATACATT 57.763 30.769 5.50 0.00 31.33 2.71
2760 6584 2.421619 AGTTCTGCAAGCTAAGCTGTC 58.578 47.619 11.76 9.09 39.62 3.51
2799 6623 3.837355 AGTTTTCTTGAAGCTGGGTGAT 58.163 40.909 0.00 0.00 0.00 3.06
2800 6624 4.218312 AGTTTTCTTGAAGCTGGGTGATT 58.782 39.130 0.00 0.00 0.00 2.57
2801 6625 4.651045 AGTTTTCTTGAAGCTGGGTGATTT 59.349 37.500 0.00 0.00 0.00 2.17
2802 6626 4.589216 TTTCTTGAAGCTGGGTGATTTG 57.411 40.909 0.00 0.00 0.00 2.32
2842 6708 2.033049 GCCATTCAATCTGCTAGTGCTG 59.967 50.000 0.00 0.00 40.48 4.41
2858 6724 2.094442 GTGCTGACACTCCCTCTAGTTC 60.094 54.545 0.00 0.00 43.85 3.01
2864 6730 3.949113 GACACTCCCTCTAGTTCGATTCT 59.051 47.826 0.00 0.00 0.00 2.40
2865 6731 4.345854 ACACTCCCTCTAGTTCGATTCTT 58.654 43.478 0.00 0.00 0.00 2.52
2866 6732 4.158764 ACACTCCCTCTAGTTCGATTCTTG 59.841 45.833 0.00 0.00 0.00 3.02
2867 6733 4.158764 CACTCCCTCTAGTTCGATTCTTGT 59.841 45.833 0.00 0.00 0.00 3.16
2868 6734 4.773149 ACTCCCTCTAGTTCGATTCTTGTT 59.227 41.667 0.00 0.00 0.00 2.83
2872 6738 6.649557 TCCCTCTAGTTCGATTCTTGTTTTTC 59.350 38.462 0.00 0.00 0.00 2.29
2903 6769 4.277672 AGCAATGCCTACAGATTAAGCATG 59.722 41.667 0.00 0.00 43.08 4.06
2913 6779 8.677300 CCTACAGATTAAGCATGTTGTAATTGT 58.323 33.333 0.00 6.46 0.00 2.71
2923 6789 8.340618 AGCATGTTGTAATTGTGAAGATAACT 57.659 30.769 0.00 0.00 0.00 2.24
2925 6791 7.426456 GCATGTTGTAATTGTGAAGATAACTCG 59.574 37.037 0.00 0.00 0.00 4.18
2978 6844 2.363680 TGGCACGAATTTGTTCCATGTT 59.636 40.909 12.66 0.00 29.91 2.71
3020 6886 2.039216 TCCGGCTTTCTTGGTCATAACA 59.961 45.455 0.00 0.00 0.00 2.41
3022 6888 3.065371 CCGGCTTTCTTGGTCATAACATC 59.935 47.826 0.00 0.00 0.00 3.06
3099 6969 7.261325 TGTAAACGTGTTTGGTGTACTACTTA 58.739 34.615 8.19 0.00 34.23 2.24
3137 7007 3.126858 TGTTGCAACGCCTATTTGATCTC 59.873 43.478 23.79 0.00 0.00 2.75
3153 7023 1.139095 CTCGGTCCTCAGCGGTAAC 59.861 63.158 0.00 0.00 43.94 2.50
3185 7055 9.535878 GAGGTGAACTAGTTCCTTTTATCTATG 57.464 37.037 28.43 0.00 38.77 2.23
3200 7070 7.751047 TTTATCTATGTTTGTCGTAGCTGAC 57.249 36.000 0.00 0.00 39.37 3.51
3228 7098 7.549615 TTCTGATGAATCTATGTGAGCTTTG 57.450 36.000 0.00 0.00 0.00 2.77
3230 7100 5.748402 TGATGAATCTATGTGAGCTTTGGT 58.252 37.500 0.00 0.00 0.00 3.67
3232 7102 6.317140 TGATGAATCTATGTGAGCTTTGGTTC 59.683 38.462 0.00 0.00 0.00 3.62
3234 7104 4.574674 ATCTATGTGAGCTTTGGTTCCA 57.425 40.909 0.00 0.00 0.00 3.53
3235 7105 3.674997 TCTATGTGAGCTTTGGTTCCAC 58.325 45.455 0.00 0.00 0.00 4.02
3236 7106 2.363306 ATGTGAGCTTTGGTTCCACA 57.637 45.000 4.81 4.81 0.00 4.17
3238 7108 2.665165 TGTGAGCTTTGGTTCCACAAT 58.335 42.857 0.06 0.00 0.00 2.71
3239 7109 2.622942 TGTGAGCTTTGGTTCCACAATC 59.377 45.455 0.06 0.00 0.00 2.67
3240 7110 2.887152 GTGAGCTTTGGTTCCACAATCT 59.113 45.455 0.00 0.00 0.00 2.40
3241 7111 2.886523 TGAGCTTTGGTTCCACAATCTG 59.113 45.455 0.00 0.00 0.00 2.90
3242 7112 3.149196 GAGCTTTGGTTCCACAATCTGA 58.851 45.455 0.00 0.00 0.00 3.27
3243 7113 2.887152 AGCTTTGGTTCCACAATCTGAC 59.113 45.455 0.00 0.00 0.00 3.51
3244 7114 2.622942 GCTTTGGTTCCACAATCTGACA 59.377 45.455 0.00 0.00 0.00 3.58
3245 7115 3.256631 GCTTTGGTTCCACAATCTGACAT 59.743 43.478 0.00 0.00 0.00 3.06
3246 7116 4.262164 GCTTTGGTTCCACAATCTGACATT 60.262 41.667 0.00 0.00 0.00 2.71
3247 7117 5.048083 GCTTTGGTTCCACAATCTGACATTA 60.048 40.000 0.00 0.00 0.00 1.90
3248 7118 6.516527 GCTTTGGTTCCACAATCTGACATTAA 60.517 38.462 0.00 0.00 0.00 1.40
3249 7119 7.537596 TTTGGTTCCACAATCTGACATTAAT 57.462 32.000 0.00 0.00 0.00 1.40
3250 7120 8.642935 TTTGGTTCCACAATCTGACATTAATA 57.357 30.769 0.00 0.00 0.00 0.98
3251 7121 7.624360 TGGTTCCACAATCTGACATTAATAC 57.376 36.000 0.00 0.00 0.00 1.89
3252 7122 7.402054 TGGTTCCACAATCTGACATTAATACT 58.598 34.615 0.00 0.00 0.00 2.12
3253 7123 7.888021 TGGTTCCACAATCTGACATTAATACTT 59.112 33.333 0.00 0.00 0.00 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
146 147 0.329596 GGTTCCAAGGTGAGGCAGAT 59.670 55.000 0.00 0.00 0.00 2.90
216 217 3.374402 ACAGCCAGCGCTCGTAGT 61.374 61.111 7.13 0.48 43.95 2.73
421 422 0.482887 CACAAAACCCCCTCCTTCCT 59.517 55.000 0.00 0.00 0.00 3.36
424 425 1.154430 TAGCACAAAACCCCCTCCTT 58.846 50.000 0.00 0.00 0.00 3.36
425 426 1.154430 TTAGCACAAAACCCCCTCCT 58.846 50.000 0.00 0.00 0.00 3.69
427 428 2.231235 CACATTAGCACAAAACCCCCTC 59.769 50.000 0.00 0.00 0.00 4.30
428 429 2.247358 CACATTAGCACAAAACCCCCT 58.753 47.619 0.00 0.00 0.00 4.79
429 430 1.967779 ACACATTAGCACAAAACCCCC 59.032 47.619 0.00 0.00 0.00 5.40
430 431 2.364002 ACACACATTAGCACAAAACCCC 59.636 45.455 0.00 0.00 0.00 4.95
431 432 3.726291 ACACACATTAGCACAAAACCC 57.274 42.857 0.00 0.00 0.00 4.11
432 433 6.754675 ACTTAAACACACATTAGCACAAAACC 59.245 34.615 0.00 0.00 0.00 3.27
433 434 7.749539 ACTTAAACACACATTAGCACAAAAC 57.250 32.000 0.00 0.00 0.00 2.43
434 435 7.201478 GCAACTTAAACACACATTAGCACAAAA 60.201 33.333 0.00 0.00 0.00 2.44
435 436 6.254589 GCAACTTAAACACACATTAGCACAAA 59.745 34.615 0.00 0.00 0.00 2.83
436 437 5.746245 GCAACTTAAACACACATTAGCACAA 59.254 36.000 0.00 0.00 0.00 3.33
438 439 5.519722 AGCAACTTAAACACACATTAGCAC 58.480 37.500 0.00 0.00 0.00 4.40
439 440 5.766150 AGCAACTTAAACACACATTAGCA 57.234 34.783 0.00 0.00 0.00 3.49
440 441 6.797033 CACTAGCAACTTAAACACACATTAGC 59.203 38.462 0.00 0.00 0.00 3.09
442 443 6.205853 CCCACTAGCAACTTAAACACACATTA 59.794 38.462 0.00 0.00 0.00 1.90
443 444 5.009610 CCCACTAGCAACTTAAACACACATT 59.990 40.000 0.00 0.00 0.00 2.71
444 445 4.518970 CCCACTAGCAACTTAAACACACAT 59.481 41.667 0.00 0.00 0.00 3.21
445 446 3.880490 CCCACTAGCAACTTAAACACACA 59.120 43.478 0.00 0.00 0.00 3.72
447 448 4.385825 CTCCCACTAGCAACTTAAACACA 58.614 43.478 0.00 0.00 0.00 3.72
448 449 3.188667 GCTCCCACTAGCAACTTAAACAC 59.811 47.826 0.00 0.00 42.30 3.32
449 450 3.072476 AGCTCCCACTAGCAACTTAAACA 59.928 43.478 0.00 0.00 45.30 2.83
450 451 3.676093 AGCTCCCACTAGCAACTTAAAC 58.324 45.455 0.00 0.00 45.30 2.01
451 452 3.307480 GGAGCTCCCACTAGCAACTTAAA 60.307 47.826 23.19 0.00 45.30 1.52
452 453 2.236395 GGAGCTCCCACTAGCAACTTAA 59.764 50.000 23.19 0.00 45.30 1.85
453 454 1.831736 GGAGCTCCCACTAGCAACTTA 59.168 52.381 23.19 0.00 45.30 2.24
454 455 0.615850 GGAGCTCCCACTAGCAACTT 59.384 55.000 23.19 0.00 45.30 2.66
455 456 1.608717 CGGAGCTCCCACTAGCAACT 61.609 60.000 27.20 0.00 45.30 3.16
457 458 3.298958 CGGAGCTCCCACTAGCAA 58.701 61.111 27.20 0.00 45.30 3.91
471 472 0.175760 GGCATCTACTCAAGTGCGGA 59.824 55.000 0.00 0.00 34.79 5.54
473 474 0.458543 ACGGCATCTACTCAAGTGCG 60.459 55.000 0.00 0.00 34.79 5.34
474 475 1.661112 GAACGGCATCTACTCAAGTGC 59.339 52.381 0.00 0.00 33.84 4.40
475 476 2.668457 GTGAACGGCATCTACTCAAGTG 59.332 50.000 0.00 0.00 0.00 3.16
476 477 2.563179 AGTGAACGGCATCTACTCAAGT 59.437 45.455 0.00 0.00 0.00 3.16
477 478 3.238108 AGTGAACGGCATCTACTCAAG 57.762 47.619 0.00 0.00 0.00 3.02
479 480 3.086282 TGTAGTGAACGGCATCTACTCA 58.914 45.455 14.64 0.00 34.76 3.41
481 482 3.353557 TCTGTAGTGAACGGCATCTACT 58.646 45.455 14.64 0.00 34.76 2.57
482 483 3.777465 TCTGTAGTGAACGGCATCTAC 57.223 47.619 0.00 0.00 34.14 2.59
484 485 2.101582 GGATCTGTAGTGAACGGCATCT 59.898 50.000 0.00 0.00 34.14 2.90
485 486 2.159099 TGGATCTGTAGTGAACGGCATC 60.159 50.000 0.00 0.00 34.14 3.91
486 487 1.831106 TGGATCTGTAGTGAACGGCAT 59.169 47.619 0.00 0.00 34.14 4.40
487 488 1.262417 TGGATCTGTAGTGAACGGCA 58.738 50.000 0.00 0.00 34.14 5.69
488 489 2.000447 GTTGGATCTGTAGTGAACGGC 59.000 52.381 0.00 0.00 34.14 5.68
491 492 2.232941 TCCCGTTGGATCTGTAGTGAAC 59.767 50.000 0.00 0.00 35.03 3.18
492 493 2.531771 TCCCGTTGGATCTGTAGTGAA 58.468 47.619 0.00 0.00 35.03 3.18
493 494 2.225382 TCCCGTTGGATCTGTAGTGA 57.775 50.000 0.00 0.00 35.03 3.41
505 506 2.128771 ACTTGAATCCCATCCCGTTG 57.871 50.000 0.00 0.00 0.00 4.10
506 507 2.899303 AACTTGAATCCCATCCCGTT 57.101 45.000 0.00 0.00 0.00 4.44
507 508 2.620627 GGAAACTTGAATCCCATCCCGT 60.621 50.000 0.00 0.00 0.00 5.28
508 509 2.024414 GGAAACTTGAATCCCATCCCG 58.976 52.381 0.00 0.00 0.00 5.14
509 510 3.026694 CTGGAAACTTGAATCCCATCCC 58.973 50.000 0.00 0.00 34.68 3.85
510 511 3.968265 TCTGGAAACTTGAATCCCATCC 58.032 45.455 0.00 0.00 34.68 3.51
511 512 6.535963 AAATCTGGAAACTTGAATCCCATC 57.464 37.500 0.00 0.00 34.68 3.51
512 513 6.497954 TGAAAATCTGGAAACTTGAATCCCAT 59.502 34.615 0.00 0.00 34.68 4.00
513 514 5.837979 TGAAAATCTGGAAACTTGAATCCCA 59.162 36.000 0.00 0.00 34.68 4.37
514 515 6.015095 AGTGAAAATCTGGAAACTTGAATCCC 60.015 38.462 0.00 0.00 34.68 3.85
515 516 6.865205 CAGTGAAAATCTGGAAACTTGAATCC 59.135 38.462 0.00 0.00 36.21 3.01
516 517 7.651808 TCAGTGAAAATCTGGAAACTTGAATC 58.348 34.615 0.00 0.00 34.15 2.52
517 518 7.587037 TCAGTGAAAATCTGGAAACTTGAAT 57.413 32.000 0.00 0.00 34.15 2.57
519 520 7.403312 TTTCAGTGAAAATCTGGAAACTTGA 57.597 32.000 15.92 0.00 34.15 3.02
520 521 7.922278 TGATTTCAGTGAAAATCTGGAAACTTG 59.078 33.333 21.57 0.00 43.17 3.16
521 522 8.010733 TGATTTCAGTGAAAATCTGGAAACTT 57.989 30.769 21.57 1.18 43.17 2.66
522 523 7.587037 TGATTTCAGTGAAAATCTGGAAACT 57.413 32.000 21.57 1.70 43.17 2.66
523 524 7.922811 ACTTGATTTCAGTGAAAATCTGGAAAC 59.077 33.333 21.57 6.36 43.17 2.78
525 526 7.587037 ACTTGATTTCAGTGAAAATCTGGAA 57.413 32.000 21.57 9.51 43.17 3.53
526 527 7.587037 AACTTGATTTCAGTGAAAATCTGGA 57.413 32.000 21.57 0.00 43.17 3.86
527 528 8.652810 AAAACTTGATTTCAGTGAAAATCTGG 57.347 30.769 21.57 12.96 43.17 3.86
528 529 9.304731 TGAAAACTTGATTTCAGTGAAAATCTG 57.695 29.630 21.57 14.21 42.68 2.90
530 531 9.305925 AGTGAAAACTTGATTTCAGTGAAAATC 57.694 29.630 21.57 17.85 46.73 2.17
538 539 8.023050 AGTATCGAGTGAAAACTTGATTTCAG 57.977 34.615 12.61 0.00 46.73 3.02
539 540 7.962964 AGTATCGAGTGAAAACTTGATTTCA 57.037 32.000 12.61 0.00 44.68 2.69
540 541 8.867248 GAAGTATCGAGTGAAAACTTGATTTC 57.133 34.615 12.61 8.59 40.37 2.17
574 575 6.730960 AAACTTCTGTACACGTCTCAAAAA 57.269 33.333 0.00 0.00 0.00 1.94
576 577 6.103997 AGAAAACTTCTGTACACGTCTCAAA 58.896 36.000 0.00 0.00 38.91 2.69
577 578 5.657474 AGAAAACTTCTGTACACGTCTCAA 58.343 37.500 0.00 0.00 38.91 3.02
578 579 5.258456 AGAAAACTTCTGTACACGTCTCA 57.742 39.130 0.00 0.00 38.91 3.27
579 580 6.585389 AAAGAAAACTTCTGTACACGTCTC 57.415 37.500 0.00 0.00 40.59 3.36
580 581 6.980051 AAAAGAAAACTTCTGTACACGTCT 57.020 33.333 0.00 0.00 40.59 4.18
581 582 7.238571 TCAAAAAGAAAACTTCTGTACACGTC 58.761 34.615 0.00 0.00 40.59 4.34
582 583 7.118680 TCTCAAAAAGAAAACTTCTGTACACGT 59.881 33.333 0.00 0.00 40.59 4.49
583 584 7.461107 TCTCAAAAAGAAAACTTCTGTACACG 58.539 34.615 0.00 0.00 40.59 4.49
625 626 9.740239 CATGTCTCTTTTCTCAATTCTCAAAAA 57.260 29.630 0.00 0.00 0.00 1.94
626 627 8.906867 ACATGTCTCTTTTCTCAATTCTCAAAA 58.093 29.630 0.00 0.00 0.00 2.44
627 628 8.347771 CACATGTCTCTTTTCTCAATTCTCAAA 58.652 33.333 0.00 0.00 0.00 2.69
629 630 6.072838 GCACATGTCTCTTTTCTCAATTCTCA 60.073 38.462 0.00 0.00 0.00 3.27
630 631 6.072838 TGCACATGTCTCTTTTCTCAATTCTC 60.073 38.462 0.00 0.00 0.00 2.87
631 632 5.766670 TGCACATGTCTCTTTTCTCAATTCT 59.233 36.000 0.00 0.00 0.00 2.40
632 633 6.005583 TGCACATGTCTCTTTTCTCAATTC 57.994 37.500 0.00 0.00 0.00 2.17
634 635 5.311265 TCTGCACATGTCTCTTTTCTCAAT 58.689 37.500 0.00 0.00 0.00 2.57
636 637 4.341366 TCTGCACATGTCTCTTTTCTCA 57.659 40.909 0.00 0.00 0.00 3.27
638 639 4.514441 CACTTCTGCACATGTCTCTTTTCT 59.486 41.667 0.00 0.00 0.00 2.52
639 640 4.512944 TCACTTCTGCACATGTCTCTTTTC 59.487 41.667 0.00 0.00 0.00 2.29
640 641 4.454678 TCACTTCTGCACATGTCTCTTTT 58.545 39.130 0.00 0.00 0.00 2.27
700 3727 7.095355 GGCCCTGTTTTACATTATACTATGTCG 60.095 40.741 0.00 0.00 39.39 4.35
910 4009 0.675837 GGTAGCAGACGGTTTTCCCC 60.676 60.000 0.00 0.00 36.42 4.81
966 4068 5.728637 AAGGAACAAGGGATTCACAAATC 57.271 39.130 0.00 0.00 40.56 2.17
968 4070 6.462347 GCTTAAAGGAACAAGGGATTCACAAA 60.462 38.462 0.00 0.00 0.00 2.83
1019 4145 2.202395 GCCCTTGCCTTCTTGTGCA 61.202 57.895 0.00 0.00 35.27 4.57
1140 4278 1.153349 GAAGCGGTGGATGGACCTC 60.153 63.158 0.00 0.00 39.86 3.85
1147 4285 3.987404 GCACTTGAAGCGGTGGAT 58.013 55.556 0.00 0.00 34.41 3.41
1277 4415 1.466950 CGCTGGCGAAATGGAACTTAA 59.533 47.619 9.51 0.00 42.83 1.85
1336 4474 3.056328 GTCGGGTGGCAGGAAAGC 61.056 66.667 0.00 0.00 0.00 3.51
1428 4575 0.320073 TACGCTTGTCCGTTGAAGGG 60.320 55.000 0.00 0.00 42.20 3.95
1488 4642 0.615331 GCAGATCAACCCACCTCTCA 59.385 55.000 0.00 0.00 0.00 3.27
1774 4932 2.447887 GCACAGCATCGTCGTCCAG 61.448 63.158 0.00 0.00 0.00 3.86
1906 5067 7.743116 TGTTCTTATCAACAATACCTAGGGA 57.257 36.000 14.81 4.35 33.21 4.20
1923 5084 6.099845 GGGATGTATCCTCCTTCTTGTTCTTA 59.900 42.308 10.53 0.00 46.35 2.10
2040 5262 0.755327 ACTCCGCCTTGGTTTTGCTT 60.755 50.000 0.00 0.00 39.52 3.91
2051 5276 0.542232 AGTCACCTTGTACTCCGCCT 60.542 55.000 0.00 0.00 0.00 5.52
2238 5463 2.586079 CACTACTGCCCATCCGCG 60.586 66.667 0.00 0.00 0.00 6.46
2241 5466 2.482326 GCAACACTACTGCCCATCC 58.518 57.895 0.00 0.00 33.51 3.51
2258 5483 1.068954 GCACAAGCTTGAGTTGTAGGC 60.069 52.381 32.50 16.54 35.93 3.93
2285 5521 4.074970 TGAAGAACAAGAGCCAATTCCTC 58.925 43.478 0.00 0.00 0.00 3.71
2300 5536 3.378427 ACAAACTGTTCAGCCTGAAGAAC 59.622 43.478 7.55 0.00 43.31 3.01
2305 5541 2.564771 CAGACAAACTGTTCAGCCTGA 58.435 47.619 0.00 0.00 41.30 3.86
2396 6176 0.676782 CCAGGGATTGTTCCGGACAC 60.677 60.000 1.83 6.75 43.63 3.67
2400 6180 1.680860 GGTTACCAGGGATTGTTCCGG 60.681 57.143 0.00 0.00 43.63 5.14
2439 6221 3.658757 ACCATGTCCGTTGAAAATTGG 57.341 42.857 0.00 0.00 0.00 3.16
2505 6313 5.163216 TGGCCAAGAAAACCAGATTTCATTT 60.163 36.000 0.61 0.00 40.89 2.32
2507 6315 3.903090 TGGCCAAGAAAACCAGATTTCAT 59.097 39.130 0.61 0.00 40.89 2.57
2542 6354 6.569127 TTAGAACTTAGGGCACATAATCCA 57.431 37.500 0.00 0.00 0.00 3.41
2561 6373 6.321435 CAGACTACACTCACCACCATATTAGA 59.679 42.308 0.00 0.00 0.00 2.10
2649 6473 2.537730 GCAATGAGTCGCCGAAATCTTC 60.538 50.000 0.00 0.00 0.00 2.87
2675 6499 9.956720 GCAGATAAAATGTATACTTGCTCAATT 57.043 29.630 4.17 0.00 0.00 2.32
2693 6517 7.336679 TCATTAGCTACAGCAAAAGCAGATAAA 59.663 33.333 3.70 0.00 45.16 1.40
2700 6524 6.324819 TGAATTCATTAGCTACAGCAAAAGC 58.675 36.000 3.38 0.00 45.16 3.51
2714 6538 5.102953 ACTGTAGCAGCCTGAATTCATTA 57.897 39.130 8.96 0.00 34.37 1.90
2760 6584 7.886338 AGAAAACTTTATAGGAAAGCTGGTTG 58.114 34.615 0.00 0.00 0.00 3.77
2775 6599 5.197451 TCACCCAGCTTCAAGAAAACTTTA 58.803 37.500 0.00 0.00 0.00 1.85
2799 6623 7.946207 TGGCACTATTTAAGTTGATTCACAAA 58.054 30.769 0.00 0.00 40.36 2.83
2800 6624 7.517614 TGGCACTATTTAAGTTGATTCACAA 57.482 32.000 0.00 0.00 35.76 3.33
2801 6625 7.701539 ATGGCACTATTTAAGTTGATTCACA 57.298 32.000 0.00 0.00 35.76 3.58
2802 6626 8.243426 TGAATGGCACTATTTAAGTTGATTCAC 58.757 33.333 0.00 0.00 35.76 3.18
2842 6708 3.949113 AGAATCGAACTAGAGGGAGTGTC 59.051 47.826 0.00 0.00 0.00 3.67
2858 6724 5.103290 TCCGGAAAGAAAAACAAGAATCG 57.897 39.130 0.00 0.00 0.00 3.34
2864 6730 4.367450 CATTGCTCCGGAAAGAAAAACAA 58.633 39.130 5.23 0.67 0.00 2.83
2865 6731 3.798548 GCATTGCTCCGGAAAGAAAAACA 60.799 43.478 5.23 0.00 0.00 2.83
2866 6732 2.731451 GCATTGCTCCGGAAAGAAAAAC 59.269 45.455 5.23 0.00 0.00 2.43
2867 6733 2.288763 GGCATTGCTCCGGAAAGAAAAA 60.289 45.455 5.23 0.00 0.00 1.94
2868 6734 1.272212 GGCATTGCTCCGGAAAGAAAA 59.728 47.619 5.23 0.00 0.00 2.29
2872 6738 1.017387 GTAGGCATTGCTCCGGAAAG 58.983 55.000 5.23 0.00 0.00 2.62
2913 6779 7.870954 ACAACAACACTAATCGAGTTATCTTCA 59.129 33.333 0.00 0.00 35.64 3.02
2923 6789 6.073980 GCTAGACAAACAACAACACTAATCGA 60.074 38.462 0.00 0.00 0.00 3.59
2925 6791 7.190920 AGCTAGACAAACAACAACACTAATC 57.809 36.000 0.00 0.00 0.00 1.75
2932 6798 5.154222 GGCAATAGCTAGACAAACAACAAC 58.846 41.667 0.00 0.00 41.70 3.32
3001 6867 3.941483 AGATGTTATGACCAAGAAAGCCG 59.059 43.478 0.00 0.00 0.00 5.52
3020 6886 7.472543 GTTTACAACAATCGCATTCCTTAGAT 58.527 34.615 0.00 0.00 0.00 1.98
3022 6888 5.732647 CGTTTACAACAATCGCATTCCTTAG 59.267 40.000 0.00 0.00 0.00 2.18
3052 6918 5.373981 AGTACTACACTGCACTCACTAAC 57.626 43.478 0.00 0.00 35.62 2.34
3137 7007 2.202570 CGTTACCGCTGAGGACCG 60.203 66.667 3.87 0.00 45.00 4.79
3153 7023 2.416162 GGAACTAGTTCACCTCAGAGCG 60.416 54.545 31.30 0.00 41.20 5.03
3156 7026 5.888982 AAAAGGAACTAGTTCACCTCAGA 57.111 39.130 31.30 0.00 38.49 3.27
3161 7031 9.668497 AACATAGATAAAAGGAACTAGTTCACC 57.332 33.333 31.30 19.11 38.49 4.02
3191 7061 4.742167 ATTCATCAGAATTCGTCAGCTACG 59.258 41.667 0.00 8.77 41.64 3.51
3200 7070 6.645827 AGCTCACATAGATTCATCAGAATTCG 59.354 38.462 0.00 0.00 44.30 3.34
3228 7098 7.865706 AGTATTAATGTCAGATTGTGGAACC 57.134 36.000 0.00 0.00 34.36 3.62


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

AutoCloner maintained by Alex Coulton.