Multiple sequence alignment - TraesCS6B01G385000

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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 TraesCS6B01G385000 chr6B 100.000 3137 0 0 1 3137 659807994 659811130 0.000000e+00 5794.0
1 TraesCS6B01G385000 chr6B 91.897 506 39 2 1634 2138 659653862 659653358 0.000000e+00 706.0
2 TraesCS6B01G385000 chr6B 81.720 93 12 5 2423 2512 254697 254787 4.340000e-09 73.1
3 TraesCS6B01G385000 chr6A 91.477 1584 103 13 569 2138 584757794 584759359 0.000000e+00 2148.0
4 TraesCS6B01G385000 chr6A 91.905 1433 91 9 746 2160 584695519 584694094 0.000000e+00 1980.0
5 TraesCS6B01G385000 chr6A 90.126 1509 96 17 746 2226 584593395 584594878 0.000000e+00 1912.0
6 TraesCS6B01G385000 chr6A 92.706 754 49 1 1391 2138 584717354 584716601 0.000000e+00 1083.0
7 TraesCS6B01G385000 chr6A 91.566 581 39 5 674 1244 584717945 584717365 0.000000e+00 793.0
8 TraesCS6B01G385000 chr6A 92.059 340 19 6 1 334 584757178 584757515 3.660000e-129 472.0
9 TraesCS6B01G385000 chr6A 87.651 332 33 8 1 326 584698752 584698423 2.280000e-101 379.0
10 TraesCS6B01G385000 chr6A 86.275 255 31 4 2091 2344 584761581 584761832 1.110000e-69 274.0
11 TraesCS6B01G385000 chr6A 86.508 126 12 3 335 455 17893689 17893564 1.960000e-27 134.0
12 TraesCS6B01G385000 chr3D 90.648 1636 101 28 634 2233 502158029 502159648 0.000000e+00 2126.0
13 TraesCS6B01G385000 chr3D 87.903 124 11 3 336 455 427051957 427052080 3.260000e-30 143.0
14 TraesCS6B01G385000 chr3B 90.898 1593 102 23 669 2233 663573413 663574990 0.000000e+00 2098.0
15 TraesCS6B01G385000 chr3B 86.290 124 14 2 334 455 11177489 11177611 7.060000e-27 132.0
16 TraesCS6B01G385000 chr6D 91.529 1511 100 14 674 2159 436637995 436639502 0.000000e+00 2056.0
17 TraesCS6B01G385000 chr6D 89.941 1521 84 24 746 2226 436420921 436422412 0.000000e+00 1897.0
18 TraesCS6B01G385000 chr6D 90.401 698 25 9 627 1312 436474536 436473869 0.000000e+00 880.0
19 TraesCS6B01G385000 chr6D 92.793 222 16 0 577 798 436552812 436552591 3.900000e-84 322.0
20 TraesCS6B01G385000 chr6D 93.035 201 12 1 11 211 436531960 436531762 3.060000e-75 292.0
21 TraesCS6B01G385000 chr6D 93.269 104 7 0 2091 2194 436639772 436639875 1.510000e-33 154.0
22 TraesCS6B01G385000 chr6D 89.431 123 9 4 334 455 86735751 86735870 5.420000e-33 152.0
23 TraesCS6B01G385000 chr6D 93.243 74 5 0 264 337 436474676 436474603 3.310000e-20 110.0
24 TraesCS6B01G385000 chr5A 92.475 691 45 5 2450 3137 14252924 14252238 0.000000e+00 981.0
25 TraesCS6B01G385000 chr5A 87.903 124 9 4 335 453 641588899 641588777 1.170000e-29 141.0
26 TraesCS6B01G385000 chr4A 89.316 702 40 24 2441 3137 618280360 618281031 0.000000e+00 848.0
27 TraesCS6B01G385000 chr7A 89.608 664 49 14 2485 3134 638712764 638713421 0.000000e+00 826.0
28 TraesCS6B01G385000 chr7A 87.402 127 10 4 335 455 32629536 32629410 1.170000e-29 141.0
29 TraesCS6B01G385000 chr2B 86.314 643 78 9 2499 3137 159880951 159880315 0.000000e+00 691.0
30 TraesCS6B01G385000 chr2B 92.593 54 3 1 3080 3132 63045684 63045737 3.350000e-10 76.8
31 TraesCS6B01G385000 chr5D 92.841 447 26 4 2693 3137 447661570 447662012 0.000000e+00 643.0
32 TraesCS6B01G385000 chr5D 93.913 230 13 1 2450 2678 447639442 447639671 2.320000e-91 346.0
33 TraesCS6B01G385000 chr5D 89.474 76 6 2 455 529 452502704 452502630 9.260000e-16 95.3
34 TraesCS6B01G385000 chrUn 88.742 151 14 2 2989 3137 34776870 34777019 6.910000e-42 182.0
35 TraesCS6B01G385000 chrUn 86.765 68 4 4 2450 2514 232546348 232546413 1.560000e-08 71.3
36 TraesCS6B01G385000 chr1D 80.469 256 33 11 1992 2233 414876457 414876709 2.490000e-41 180.0
37 TraesCS6B01G385000 chr2D 86.614 127 11 3 335 455 27452083 27452209 5.460000e-28 135.0
38 TraesCS6B01G385000 chr2D 87.288 118 13 2 335 452 590244830 590244945 1.960000e-27 134.0
39 TraesCS6B01G385000 chr2D 90.741 54 5 0 2456 2509 310712256 310712309 4.340000e-09 73.1
40 TraesCS6B01G385000 chr2A 84.173 139 16 4 323 455 156617251 156617113 2.540000e-26 130.0
41 TraesCS6B01G385000 chr2A 87.097 62 6 2 2450 2510 732005124 732005064 5.610000e-08 69.4
42 TraesCS6B01G385000 chr7B 90.164 61 4 2 2454 2513 484275680 484275739 9.330000e-11 78.7
43 TraesCS6B01G385000 chr1B 89.474 57 4 2 2456 2511 629755760 629755705 1.560000e-08 71.3
44 TraesCS6B01G385000 chr7D 94.737 38 2 0 2994 3031 136316754 136316717 3.380000e-05 60.2
45 TraesCS6B01G385000 chr5B 94.737 38 2 0 2994 3031 411805998 411806035 3.380000e-05 60.2
46 TraesCS6B01G385000 chr4B 94.737 38 2 0 2994 3031 57410802 57410839 3.380000e-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 TraesCS6B01G385000 chr6B 659807994 659811130 3136 False 5794.000000 5794 100.000 1 3137 1 chr6B.!!$F2 3136
1 TraesCS6B01G385000 chr6B 659653358 659653862 504 True 706.000000 706 91.897 1634 2138 1 chr6B.!!$R1 504
2 TraesCS6B01G385000 chr6A 584593395 584594878 1483 False 1912.000000 1912 90.126 746 2226 1 chr6A.!!$F1 1480
3 TraesCS6B01G385000 chr6A 584694094 584698752 4658 True 1179.500000 1980 89.778 1 2160 2 chr6A.!!$R2 2159
4 TraesCS6B01G385000 chr6A 584757178 584761832 4654 False 964.666667 2148 89.937 1 2344 3 chr6A.!!$F2 2343
5 TraesCS6B01G385000 chr6A 584716601 584717945 1344 True 938.000000 1083 92.136 674 2138 2 chr6A.!!$R3 1464
6 TraesCS6B01G385000 chr3D 502158029 502159648 1619 False 2126.000000 2126 90.648 634 2233 1 chr3D.!!$F2 1599
7 TraesCS6B01G385000 chr3B 663573413 663574990 1577 False 2098.000000 2098 90.898 669 2233 1 chr3B.!!$F2 1564
8 TraesCS6B01G385000 chr6D 436420921 436422412 1491 False 1897.000000 1897 89.941 746 2226 1 chr6D.!!$F2 1480
9 TraesCS6B01G385000 chr6D 436637995 436639875 1880 False 1105.000000 2056 92.399 674 2194 2 chr6D.!!$F3 1520
10 TraesCS6B01G385000 chr6D 436473869 436474676 807 True 495.000000 880 91.822 264 1312 2 chr6D.!!$R3 1048
11 TraesCS6B01G385000 chr5A 14252238 14252924 686 True 981.000000 981 92.475 2450 3137 1 chr5A.!!$R1 687
12 TraesCS6B01G385000 chr4A 618280360 618281031 671 False 848.000000 848 89.316 2441 3137 1 chr4A.!!$F1 696
13 TraesCS6B01G385000 chr7A 638712764 638713421 657 False 826.000000 826 89.608 2485 3134 1 chr7A.!!$F1 649
14 TraesCS6B01G385000 chr2B 159880315 159880951 636 True 691.000000 691 86.314 2499 3137 1 chr2B.!!$R1 638

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
515 528 0.031515 TGGACTGGGGATATCACCGT 60.032 55.0 19.27 18.41 44.25 4.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2369 7758 0.404426 GGGGAGTGTGGCTAGGTTTT 59.596 55.0 0.0 0.0 0.0 2.43 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
295 308 7.573968 AAGTGATAAAGAAGAAAGTGCAAGT 57.426 32.000 0.00 0.00 0.00 3.16
328 341 6.683974 ATTGGATTCTCCGTTGATTTACTG 57.316 37.500 0.00 0.00 40.17 2.74
329 342 5.414789 TGGATTCTCCGTTGATTTACTGA 57.585 39.130 0.00 0.00 40.17 3.41
330 343 5.175859 TGGATTCTCCGTTGATTTACTGAC 58.824 41.667 0.00 0.00 40.17 3.51
331 344 4.267928 GGATTCTCCGTTGATTTACTGACG 59.732 45.833 0.00 0.00 35.44 4.35
358 371 5.798015 TTTTTAACACAGTACAGACGCAA 57.202 34.783 0.00 0.00 0.00 4.85
360 373 1.217882 AACACAGTACAGACGCAAGC 58.782 50.000 0.00 0.00 45.62 4.01
361 374 0.104120 ACACAGTACAGACGCAAGCA 59.896 50.000 0.00 0.00 45.62 3.91
362 375 0.508641 CACAGTACAGACGCAAGCAC 59.491 55.000 0.00 0.00 45.62 4.40
363 376 0.389391 ACAGTACAGACGCAAGCACT 59.611 50.000 0.00 0.00 45.62 4.40
364 377 1.063806 CAGTACAGACGCAAGCACTC 58.936 55.000 0.00 0.00 45.62 3.51
365 378 0.673985 AGTACAGACGCAAGCACTCA 59.326 50.000 0.00 0.00 45.62 3.41
366 379 1.273606 AGTACAGACGCAAGCACTCAT 59.726 47.619 0.00 0.00 45.62 2.90
367 380 2.492088 AGTACAGACGCAAGCACTCATA 59.508 45.455 0.00 0.00 45.62 2.15
368 381 1.714794 ACAGACGCAAGCACTCATAC 58.285 50.000 0.00 0.00 45.62 2.39
369 382 1.000843 ACAGACGCAAGCACTCATACA 59.999 47.619 0.00 0.00 45.62 2.29
370 383 2.274437 CAGACGCAAGCACTCATACAT 58.726 47.619 0.00 0.00 45.62 2.29
371 384 3.119137 ACAGACGCAAGCACTCATACATA 60.119 43.478 0.00 0.00 45.62 2.29
372 385 3.243877 CAGACGCAAGCACTCATACATAC 59.756 47.826 0.00 0.00 45.62 2.39
373 386 2.193447 ACGCAAGCACTCATACATACG 58.807 47.619 0.00 0.00 45.62 3.06
374 387 2.193447 CGCAAGCACTCATACATACGT 58.807 47.619 0.00 0.00 0.00 3.57
375 388 2.034591 CGCAAGCACTCATACATACGTG 60.035 50.000 0.00 0.00 0.00 4.49
382 395 5.561199 CACTCATACATACGTGCATACAC 57.439 43.478 0.00 0.00 43.76 2.90
383 396 5.281727 CACTCATACATACGTGCATACACT 58.718 41.667 0.00 0.00 45.10 3.55
384 397 5.399596 CACTCATACATACGTGCATACACTC 59.600 44.000 0.00 0.00 45.10 3.51
385 398 5.067283 ACTCATACATACGTGCATACACTCA 59.933 40.000 0.00 0.00 45.10 3.41
386 399 5.278604 TCATACATACGTGCATACACTCAC 58.721 41.667 0.00 0.00 45.10 3.51
387 400 3.868757 ACATACGTGCATACACTCACT 57.131 42.857 0.00 0.00 45.10 3.41
388 401 3.770666 ACATACGTGCATACACTCACTC 58.229 45.455 0.00 0.00 45.10 3.51
389 402 2.933495 TACGTGCATACACTCACTCC 57.067 50.000 0.00 0.00 45.10 3.85
390 403 1.257743 ACGTGCATACACTCACTCCT 58.742 50.000 0.00 0.00 45.10 3.69
391 404 2.443416 ACGTGCATACACTCACTCCTA 58.557 47.619 0.00 0.00 45.10 2.94
392 405 3.024547 ACGTGCATACACTCACTCCTAT 58.975 45.455 0.00 0.00 45.10 2.57
393 406 4.204799 ACGTGCATACACTCACTCCTATA 58.795 43.478 0.00 0.00 45.10 1.31
394 407 4.276183 ACGTGCATACACTCACTCCTATAG 59.724 45.833 0.00 0.00 45.10 1.31
395 408 4.276183 CGTGCATACACTCACTCCTATAGT 59.724 45.833 0.00 0.00 45.10 2.12
396 409 5.469084 CGTGCATACACTCACTCCTATAGTA 59.531 44.000 0.00 0.00 45.10 1.82
397 410 6.149640 CGTGCATACACTCACTCCTATAGTAT 59.850 42.308 0.00 0.00 45.10 2.12
398 411 7.333672 CGTGCATACACTCACTCCTATAGTATA 59.666 40.741 0.00 0.00 45.10 1.47
399 412 8.452534 GTGCATACACTCACTCCTATAGTATAC 58.547 40.741 0.00 0.00 43.85 1.47
400 413 8.161425 TGCATACACTCACTCCTATAGTATACA 58.839 37.037 5.50 0.00 35.76 2.29
401 414 8.452534 GCATACACTCACTCCTATAGTATACAC 58.547 40.741 5.50 0.00 35.76 2.90
402 415 9.503399 CATACACTCACTCCTATAGTATACACA 57.497 37.037 5.50 0.00 35.76 3.72
403 416 7.804843 ACACTCACTCCTATAGTATACACAC 57.195 40.000 5.50 0.00 35.76 3.82
404 417 7.344134 ACACTCACTCCTATAGTATACACACA 58.656 38.462 5.50 0.00 35.76 3.72
405 418 7.282675 ACACTCACTCCTATAGTATACACACAC 59.717 40.741 5.50 0.00 35.76 3.82
406 419 6.771749 ACTCACTCCTATAGTATACACACACC 59.228 42.308 5.50 0.00 35.76 4.16
407 420 6.066690 TCACTCCTATAGTATACACACACCC 58.933 44.000 5.50 0.00 35.76 4.61
408 421 6.069331 CACTCCTATAGTATACACACACCCT 58.931 44.000 5.50 0.00 35.76 4.34
409 422 7.072834 TCACTCCTATAGTATACACACACCCTA 59.927 40.741 5.50 0.00 35.76 3.53
410 423 7.889073 CACTCCTATAGTATACACACACCCTAT 59.111 40.741 5.50 0.00 35.76 2.57
411 424 8.108364 ACTCCTATAGTATACACACACCCTATC 58.892 40.741 5.50 0.00 36.36 2.08
412 425 7.408543 TCCTATAGTATACACACACCCTATCC 58.591 42.308 5.50 0.00 0.00 2.59
413 426 6.318144 CCTATAGTATACACACACCCTATCCG 59.682 46.154 5.50 0.00 0.00 4.18
414 427 3.907221 AGTATACACACACCCTATCCGT 58.093 45.455 5.50 0.00 0.00 4.69
415 428 3.635373 AGTATACACACACCCTATCCGTG 59.365 47.826 5.50 0.00 37.26 4.94
416 429 1.927487 TACACACACCCTATCCGTGT 58.073 50.000 0.00 0.00 45.21 4.49
420 433 1.898154 ACACCCTATCCGTGTGAGC 59.102 57.895 0.00 0.00 42.75 4.26
421 434 0.902984 ACACCCTATCCGTGTGAGCA 60.903 55.000 0.00 0.00 42.75 4.26
422 435 0.460284 CACCCTATCCGTGTGAGCAC 60.460 60.000 0.00 0.00 41.97 4.40
423 436 1.144057 CCCTATCCGTGTGAGCACC 59.856 63.158 0.00 0.00 42.39 5.01
424 437 1.330655 CCCTATCCGTGTGAGCACCT 61.331 60.000 0.00 0.00 42.39 4.00
425 438 0.103208 CCTATCCGTGTGAGCACCTC 59.897 60.000 0.00 0.00 42.39 3.85
426 439 0.103208 CTATCCGTGTGAGCACCTCC 59.897 60.000 0.00 0.00 42.39 4.30
427 440 1.663379 TATCCGTGTGAGCACCTCCG 61.663 60.000 0.00 0.00 42.39 4.63
428 441 3.680786 CCGTGTGAGCACCTCCGA 61.681 66.667 0.00 0.00 42.39 4.55
429 442 2.126307 CGTGTGAGCACCTCCGAG 60.126 66.667 0.00 0.00 42.39 4.63
430 443 2.626780 CGTGTGAGCACCTCCGAGA 61.627 63.158 0.00 0.00 42.39 4.04
431 444 1.214062 GTGTGAGCACCTCCGAGAG 59.786 63.158 0.00 0.00 39.61 3.20
432 445 1.074951 TGTGAGCACCTCCGAGAGA 59.925 57.895 0.00 0.00 0.00 3.10
433 446 1.244697 TGTGAGCACCTCCGAGAGAC 61.245 60.000 0.00 0.00 0.00 3.36
434 447 0.963355 GTGAGCACCTCCGAGAGACT 60.963 60.000 0.00 0.00 0.00 3.24
435 448 0.962855 TGAGCACCTCCGAGAGACTG 60.963 60.000 0.00 0.22 0.00 3.51
436 449 0.678366 GAGCACCTCCGAGAGACTGA 60.678 60.000 0.00 0.00 0.00 3.41
437 450 0.679640 AGCACCTCCGAGAGACTGAG 60.680 60.000 0.00 0.00 0.00 3.35
438 451 0.963355 GCACCTCCGAGAGACTGAGT 60.963 60.000 0.00 0.00 0.00 3.41
439 452 1.091537 CACCTCCGAGAGACTGAGTC 58.908 60.000 3.98 3.98 0.00 3.36
440 453 0.391927 ACCTCCGAGAGACTGAGTCG 60.392 60.000 6.99 0.00 37.67 4.18
442 455 2.795297 CCGAGAGACTGAGTCGGC 59.205 66.667 6.99 3.72 46.18 5.54
443 456 2.041115 CCGAGAGACTGAGTCGGCA 61.041 63.158 6.99 0.00 46.18 5.69
444 457 1.380403 CCGAGAGACTGAGTCGGCAT 61.380 60.000 6.99 0.00 46.18 4.40
445 458 1.300481 CGAGAGACTGAGTCGGCATA 58.700 55.000 6.99 0.00 37.67 3.14
446 459 1.876799 CGAGAGACTGAGTCGGCATAT 59.123 52.381 6.99 0.00 37.67 1.78
447 460 2.095969 CGAGAGACTGAGTCGGCATATC 60.096 54.545 6.99 0.00 37.67 1.63
448 461 2.881513 GAGAGACTGAGTCGGCATATCA 59.118 50.000 6.99 0.00 37.67 2.15
449 462 3.495331 AGAGACTGAGTCGGCATATCAT 58.505 45.455 6.99 0.00 37.67 2.45
450 463 3.505680 AGAGACTGAGTCGGCATATCATC 59.494 47.826 6.99 0.00 37.67 2.92
451 464 3.495331 AGACTGAGTCGGCATATCATCT 58.505 45.455 6.99 0.00 37.67 2.90
452 465 3.894427 AGACTGAGTCGGCATATCATCTT 59.106 43.478 6.99 0.00 37.67 2.40
453 466 3.986572 GACTGAGTCGGCATATCATCTTG 59.013 47.826 0.00 0.00 0.00 3.02
454 467 3.638627 ACTGAGTCGGCATATCATCTTGA 59.361 43.478 0.00 0.00 0.00 3.02
455 468 4.282957 ACTGAGTCGGCATATCATCTTGAT 59.717 41.667 0.00 0.00 40.72 2.57
456 469 5.478332 ACTGAGTCGGCATATCATCTTGATA 59.522 40.000 0.00 0.05 42.83 2.15
457 470 6.015095 ACTGAGTCGGCATATCATCTTGATAA 60.015 38.462 0.00 0.00 42.05 1.75
458 471 6.758254 TGAGTCGGCATATCATCTTGATAAA 58.242 36.000 1.64 0.00 42.05 1.40
459 472 7.389232 TGAGTCGGCATATCATCTTGATAAAT 58.611 34.615 1.64 0.00 42.05 1.40
460 473 7.879677 TGAGTCGGCATATCATCTTGATAAATT 59.120 33.333 1.64 0.00 42.05 1.82
461 474 8.261492 AGTCGGCATATCATCTTGATAAATTC 57.739 34.615 1.64 0.00 42.05 2.17
462 475 7.879677 AGTCGGCATATCATCTTGATAAATTCA 59.120 33.333 1.64 0.00 42.05 2.57
463 476 8.173775 GTCGGCATATCATCTTGATAAATTCAG 58.826 37.037 1.64 0.00 42.05 3.02
464 477 7.335171 TCGGCATATCATCTTGATAAATTCAGG 59.665 37.037 1.64 0.00 42.05 3.86
465 478 7.335171 CGGCATATCATCTTGATAAATTCAGGA 59.665 37.037 1.64 0.00 42.05 3.86
466 479 9.017509 GGCATATCATCTTGATAAATTCAGGAA 57.982 33.333 1.64 0.00 42.96 3.36
473 486 9.338291 CATCTTGATAAATTCAGGAATAATGCG 57.662 33.333 0.00 0.00 42.96 4.73
474 487 8.675705 TCTTGATAAATTCAGGAATAATGCGA 57.324 30.769 0.00 0.00 37.50 5.10
475 488 9.119418 TCTTGATAAATTCAGGAATAATGCGAA 57.881 29.630 0.00 0.00 37.50 4.70
476 489 9.390795 CTTGATAAATTCAGGAATAATGCGAAG 57.609 33.333 0.00 0.00 33.37 3.79
477 490 8.675705 TGATAAATTCAGGAATAATGCGAAGA 57.324 30.769 0.00 0.00 0.00 2.87
478 491 8.559536 TGATAAATTCAGGAATAATGCGAAGAC 58.440 33.333 0.00 0.00 0.00 3.01
479 492 5.757850 AATTCAGGAATAATGCGAAGACC 57.242 39.130 0.00 0.00 0.00 3.85
480 493 3.904800 TCAGGAATAATGCGAAGACCA 57.095 42.857 0.00 0.00 0.00 4.02
481 494 4.422073 TCAGGAATAATGCGAAGACCAT 57.578 40.909 0.00 0.00 0.00 3.55
482 495 4.129380 TCAGGAATAATGCGAAGACCATG 58.871 43.478 0.00 0.00 0.00 3.66
483 496 4.129380 CAGGAATAATGCGAAGACCATGA 58.871 43.478 0.00 0.00 0.00 3.07
484 497 4.024556 CAGGAATAATGCGAAGACCATGAC 60.025 45.833 0.00 0.00 0.00 3.06
485 498 4.130118 GGAATAATGCGAAGACCATGACT 58.870 43.478 0.00 0.00 0.00 3.41
486 499 4.576463 GGAATAATGCGAAGACCATGACTT 59.424 41.667 0.00 0.00 0.00 3.01
487 500 5.277538 GGAATAATGCGAAGACCATGACTTC 60.278 44.000 16.92 16.92 39.92 3.01
488 501 2.768253 ATGCGAAGACCATGACTTCA 57.232 45.000 22.52 11.87 42.39 3.02
489 502 2.542020 TGCGAAGACCATGACTTCAA 57.458 45.000 22.52 13.06 42.39 2.69
490 503 2.143122 TGCGAAGACCATGACTTCAAC 58.857 47.619 22.52 16.99 42.39 3.18
491 504 1.464997 GCGAAGACCATGACTTCAACC 59.535 52.381 22.52 12.32 42.39 3.77
492 505 2.076863 CGAAGACCATGACTTCAACCC 58.923 52.381 22.52 6.08 42.39 4.11
493 506 2.289694 CGAAGACCATGACTTCAACCCT 60.290 50.000 22.52 0.00 42.39 4.34
494 507 2.867109 AGACCATGACTTCAACCCTG 57.133 50.000 0.00 0.00 0.00 4.45
495 508 2.338809 AGACCATGACTTCAACCCTGA 58.661 47.619 0.00 0.00 0.00 3.86
496 509 2.915604 AGACCATGACTTCAACCCTGAT 59.084 45.455 0.00 0.00 0.00 2.90
497 510 3.012518 GACCATGACTTCAACCCTGATG 58.987 50.000 0.00 0.00 33.85 3.07
498 511 2.291153 ACCATGACTTCAACCCTGATGG 60.291 50.000 0.00 0.00 41.37 3.51
499 512 2.025981 CCATGACTTCAACCCTGATGGA 60.026 50.000 0.00 0.00 38.00 3.41
500 513 2.859165 TGACTTCAACCCTGATGGAC 57.141 50.000 0.00 0.00 38.00 4.02
501 514 2.338809 TGACTTCAACCCTGATGGACT 58.661 47.619 0.00 0.00 38.00 3.85
502 515 2.038952 TGACTTCAACCCTGATGGACTG 59.961 50.000 0.00 0.00 38.00 3.51
503 516 1.352352 ACTTCAACCCTGATGGACTGG 59.648 52.381 0.00 0.00 38.00 4.00
511 524 2.624495 CCTGATGGACTGGGGATATCA 58.376 52.381 4.83 0.00 34.55 2.15
512 525 2.304180 CCTGATGGACTGGGGATATCAC 59.696 54.545 4.83 0.00 34.55 3.06
513 526 2.304180 CTGATGGACTGGGGATATCACC 59.696 54.545 17.82 17.82 40.76 4.02
514 527 1.276421 GATGGACTGGGGATATCACCG 59.724 57.143 19.27 15.47 44.25 4.94
515 528 0.031515 TGGACTGGGGATATCACCGT 60.032 55.000 19.27 18.41 44.25 4.83
516 529 0.680061 GGACTGGGGATATCACCGTC 59.320 60.000 27.22 27.22 44.25 4.79
517 530 0.680061 GACTGGGGATATCACCGTCC 59.320 60.000 25.91 13.19 44.25 4.79
524 537 3.938289 GGATATCACCGTCCCTCTAAC 57.062 52.381 4.83 0.00 0.00 2.34
525 538 2.561858 GGATATCACCGTCCCTCTAACC 59.438 54.545 4.83 0.00 0.00 2.85
526 539 2.832643 TATCACCGTCCCTCTAACCA 57.167 50.000 0.00 0.00 0.00 3.67
527 540 2.176247 ATCACCGTCCCTCTAACCAT 57.824 50.000 0.00 0.00 0.00 3.55
528 541 1.481871 TCACCGTCCCTCTAACCATC 58.518 55.000 0.00 0.00 0.00 3.51
529 542 1.006758 TCACCGTCCCTCTAACCATCT 59.993 52.381 0.00 0.00 0.00 2.90
530 543 2.242965 TCACCGTCCCTCTAACCATCTA 59.757 50.000 0.00 0.00 0.00 1.98
531 544 2.623889 CACCGTCCCTCTAACCATCTAG 59.376 54.545 0.00 0.00 0.00 2.43
532 545 2.240279 CCGTCCCTCTAACCATCTAGG 58.760 57.143 0.00 0.00 45.67 3.02
543 556 2.802787 CCATCTAGGTTCGCTACAGG 57.197 55.000 0.00 0.00 0.00 4.00
544 557 1.269831 CCATCTAGGTTCGCTACAGGC 60.270 57.143 0.00 0.00 37.64 4.85
545 558 1.409064 CATCTAGGTTCGCTACAGGCA 59.591 52.381 0.00 0.00 41.91 4.75
546 559 1.103803 TCTAGGTTCGCTACAGGCAG 58.896 55.000 0.00 0.00 41.91 4.85
547 560 1.103803 CTAGGTTCGCTACAGGCAGA 58.896 55.000 0.00 0.00 41.91 4.26
548 561 0.815734 TAGGTTCGCTACAGGCAGAC 59.184 55.000 0.00 0.00 41.91 3.51
549 562 1.448013 GGTTCGCTACAGGCAGACC 60.448 63.158 0.00 0.00 41.91 3.85
607 620 3.700538 AGAGGCAAATTGCTATGGACAA 58.299 40.909 18.04 0.00 44.28 3.18
923 4007 3.904479 TCGCATCCATCGCTCGCT 61.904 61.111 0.00 0.00 0.00 4.93
1497 4602 3.399181 GTCGAGGTGCCCATCCCA 61.399 66.667 0.00 0.00 0.00 4.37
1701 4812 0.036388 GGGAACTTCGAGCCATCACA 60.036 55.000 0.00 0.00 0.00 3.58
1866 4977 0.467384 CCATGATCGCCAAGGACTCT 59.533 55.000 0.00 0.00 35.72 3.24
1867 4978 1.688735 CCATGATCGCCAAGGACTCTA 59.311 52.381 0.00 0.00 35.72 2.43
2148 7529 1.683917 GAGATGTGATACGGGCTCTGT 59.316 52.381 0.00 0.00 0.00 3.41
2160 7541 5.784578 ACGGGCTCTGTTTATTTTTCTTT 57.215 34.783 0.00 0.00 0.00 2.52
2162 7543 6.909909 ACGGGCTCTGTTTATTTTTCTTTAG 58.090 36.000 0.00 0.00 0.00 1.85
2164 7545 6.625081 CGGGCTCTGTTTATTTTTCTTTAGGG 60.625 42.308 0.00 0.00 0.00 3.53
2165 7546 6.210784 GGGCTCTGTTTATTTTTCTTTAGGGT 59.789 38.462 0.00 0.00 0.00 4.34
2196 7584 9.917129 TTACTTGAACTATCGTTTTAGATGTCA 57.083 29.630 1.21 0.00 32.39 3.58
2197 7585 8.827177 ACTTGAACTATCGTTTTAGATGTCAA 57.173 30.769 0.00 0.00 32.39 3.18
2240 7628 9.213777 TGATCACTTATTCCTATTACCAGTCTT 57.786 33.333 0.00 0.00 0.00 3.01
2241 7629 9.482627 GATCACTTATTCCTATTACCAGTCTTG 57.517 37.037 0.00 0.00 0.00 3.02
2242 7630 7.272978 TCACTTATTCCTATTACCAGTCTTGC 58.727 38.462 0.00 0.00 0.00 4.01
2243 7631 7.047891 CACTTATTCCTATTACCAGTCTTGCA 58.952 38.462 0.00 0.00 0.00 4.08
2252 7641 2.843701 ACCAGTCTTGCAAAGTCTCAG 58.156 47.619 0.00 0.00 46.34 3.35
2264 7653 8.560355 TTGCAAAGTCTCAGTTAATGCTAATA 57.440 30.769 0.00 0.00 33.66 0.98
2265 7654 8.737168 TGCAAAGTCTCAGTTAATGCTAATAT 57.263 30.769 0.00 0.00 33.66 1.28
2278 7667 9.209175 GTTAATGCTAATATCCGTGAGATCTTT 57.791 33.333 0.00 0.00 36.33 2.52
2279 7668 9.778741 TTAATGCTAATATCCGTGAGATCTTTT 57.221 29.630 0.00 0.00 36.33 2.27
2280 7669 7.897575 ATGCTAATATCCGTGAGATCTTTTC 57.102 36.000 0.00 0.00 36.33 2.29
2281 7670 6.223852 TGCTAATATCCGTGAGATCTTTTCC 58.776 40.000 0.00 0.00 36.33 3.13
2282 7671 5.346281 GCTAATATCCGTGAGATCTTTTCCG 59.654 44.000 0.00 0.00 36.33 4.30
2289 7678 3.610242 CGTGAGATCTTTTCCGTTGAGAG 59.390 47.826 0.00 0.00 0.00 3.20
2290 7679 3.369451 GTGAGATCTTTTCCGTTGAGAGC 59.631 47.826 0.00 0.00 0.00 4.09
2304 7693 5.334260 CCGTTGAGAGCCGTGTAAAATTTTA 60.334 40.000 6.54 6.54 0.00 1.52
2309 7698 8.736751 TGAGAGCCGTGTAAAATTTTATTTTC 57.263 30.769 13.54 2.16 0.00 2.29
2335 7724 8.486383 CAGTATTTTCTTATTCTCTCTCGCATG 58.514 37.037 0.00 0.00 0.00 4.06
2357 7746 8.434733 CATGTAATGTCATCTGATTGAGACTT 57.565 34.615 7.76 0.58 40.20 3.01
2358 7747 7.838771 TGTAATGTCATCTGATTGAGACTTG 57.161 36.000 7.76 0.00 31.75 3.16
2359 7748 7.614494 TGTAATGTCATCTGATTGAGACTTGA 58.386 34.615 7.76 0.00 31.75 3.02
2360 7749 8.262933 TGTAATGTCATCTGATTGAGACTTGAT 58.737 33.333 7.76 0.00 31.75 2.57
2361 7750 9.107177 GTAATGTCATCTGATTGAGACTTGATT 57.893 33.333 7.76 3.53 31.75 2.57
2363 7752 9.676861 AATGTCATCTGATTGAGACTTGATTAA 57.323 29.630 7.76 0.00 31.75 1.40
2364 7753 9.676861 ATGTCATCTGATTGAGACTTGATTAAA 57.323 29.630 7.76 0.00 31.75 1.52
2365 7754 9.676861 TGTCATCTGATTGAGACTTGATTAAAT 57.323 29.630 7.76 0.00 31.75 1.40
2375 7764 8.924511 TGAGACTTGATTAAATCTCAAAACCT 57.075 30.769 8.73 0.00 43.47 3.50
2378 7767 8.951243 AGACTTGATTAAATCTCAAAACCTAGC 58.049 33.333 0.00 0.00 32.53 3.42
2379 7768 8.056407 ACTTGATTAAATCTCAAAACCTAGCC 57.944 34.615 0.00 0.00 32.53 3.93
2380 7769 7.669722 ACTTGATTAAATCTCAAAACCTAGCCA 59.330 33.333 0.00 0.00 32.53 4.75
2381 7770 7.391148 TGATTAAATCTCAAAACCTAGCCAC 57.609 36.000 0.00 0.00 0.00 5.01
2382 7771 6.945435 TGATTAAATCTCAAAACCTAGCCACA 59.055 34.615 0.00 0.00 0.00 4.17
2383 7772 6.569179 TTAAATCTCAAAACCTAGCCACAC 57.431 37.500 0.00 0.00 0.00 3.82
2384 7773 4.373156 AATCTCAAAACCTAGCCACACT 57.627 40.909 0.00 0.00 0.00 3.55
2385 7774 3.402628 TCTCAAAACCTAGCCACACTC 57.597 47.619 0.00 0.00 0.00 3.51
2386 7775 2.038557 TCTCAAAACCTAGCCACACTCC 59.961 50.000 0.00 0.00 0.00 3.85
2387 7776 1.073284 TCAAAACCTAGCCACACTCCC 59.927 52.381 0.00 0.00 0.00 4.30
2388 7777 0.404426 AAAACCTAGCCACACTCCCC 59.596 55.000 0.00 0.00 0.00 4.81
2389 7778 0.475828 AAACCTAGCCACACTCCCCT 60.476 55.000 0.00 0.00 0.00 4.79
2390 7779 0.416231 AACCTAGCCACACTCCCCTA 59.584 55.000 0.00 0.00 0.00 3.53
2391 7780 0.642710 ACCTAGCCACACTCCCCTAT 59.357 55.000 0.00 0.00 0.00 2.57
2392 7781 1.009675 ACCTAGCCACACTCCCCTATT 59.990 52.381 0.00 0.00 0.00 1.73
2393 7782 2.249214 ACCTAGCCACACTCCCCTATTA 59.751 50.000 0.00 0.00 0.00 0.98
2394 7783 3.116317 ACCTAGCCACACTCCCCTATTAT 60.116 47.826 0.00 0.00 0.00 1.28
2395 7784 4.109106 ACCTAGCCACACTCCCCTATTATA 59.891 45.833 0.00 0.00 0.00 0.98
2396 7785 4.466726 CCTAGCCACACTCCCCTATTATAC 59.533 50.000 0.00 0.00 0.00 1.47
2397 7786 3.248888 AGCCACACTCCCCTATTATACC 58.751 50.000 0.00 0.00 0.00 2.73
2398 7787 2.976882 GCCACACTCCCCTATTATACCA 59.023 50.000 0.00 0.00 0.00 3.25
2399 7788 3.393278 GCCACACTCCCCTATTATACCAA 59.607 47.826 0.00 0.00 0.00 3.67
2400 7789 4.505039 GCCACACTCCCCTATTATACCAAG 60.505 50.000 0.00 0.00 0.00 3.61
2419 7808 5.106317 ACCAAGCAAAGTTTATACATCGTGG 60.106 40.000 0.00 0.00 0.00 4.94
2526 7915 1.207329 GATTCAGTAGGGTCAACGCCT 59.793 52.381 0.00 0.00 0.00 5.52
2577 7968 1.218047 CCCGACGCCATCTTCTTGA 59.782 57.895 0.00 0.00 0.00 3.02
2602 7993 2.363306 AACTCCAACTGCCATTGACA 57.637 45.000 0.00 0.00 0.00 3.58
2623 8014 4.899239 GACATGCCCCGCCTCGAG 62.899 72.222 5.13 5.13 0.00 4.04
2665 8056 4.349503 ATGTTGCTGCCCTCGCCA 62.350 61.111 0.00 0.00 0.00 5.69
2868 8264 0.710567 CGAGCTTGCGAACTGTACTG 59.289 55.000 0.00 0.00 0.00 2.74
2984 8389 0.863144 TCGCTCACCGTAGCAAAAAC 59.137 50.000 0.00 0.00 42.91 2.43
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
336 349 5.728344 GCTTGCGTCTGTACTGTGTTAAAAA 60.728 40.000 0.00 0.00 0.00 1.94
337 350 4.260456 GCTTGCGTCTGTACTGTGTTAAAA 60.260 41.667 0.00 0.00 0.00 1.52
338 351 3.246699 GCTTGCGTCTGTACTGTGTTAAA 59.753 43.478 0.00 0.00 0.00 1.52
339 352 2.798283 GCTTGCGTCTGTACTGTGTTAA 59.202 45.455 0.00 0.00 0.00 2.01
340 353 2.223852 TGCTTGCGTCTGTACTGTGTTA 60.224 45.455 0.00 0.00 0.00 2.41
341 354 1.217882 GCTTGCGTCTGTACTGTGTT 58.782 50.000 0.00 0.00 0.00 3.32
342 355 0.104120 TGCTTGCGTCTGTACTGTGT 59.896 50.000 0.00 0.00 0.00 3.72
343 356 0.508641 GTGCTTGCGTCTGTACTGTG 59.491 55.000 0.00 0.00 0.00 3.66
344 357 0.389391 AGTGCTTGCGTCTGTACTGT 59.611 50.000 0.00 0.00 0.00 3.55
345 358 1.063806 GAGTGCTTGCGTCTGTACTG 58.936 55.000 0.00 0.00 29.71 2.74
346 359 0.673985 TGAGTGCTTGCGTCTGTACT 59.326 50.000 0.00 0.00 32.11 2.73
347 360 1.714794 ATGAGTGCTTGCGTCTGTAC 58.285 50.000 0.00 0.00 0.00 2.90
348 361 2.230266 TGTATGAGTGCTTGCGTCTGTA 59.770 45.455 0.00 0.00 0.00 2.74
349 362 1.000843 TGTATGAGTGCTTGCGTCTGT 59.999 47.619 0.00 0.00 0.00 3.41
350 363 1.713597 TGTATGAGTGCTTGCGTCTG 58.286 50.000 0.00 0.00 0.00 3.51
351 364 2.680312 ATGTATGAGTGCTTGCGTCT 57.320 45.000 0.00 0.00 0.00 4.18
352 365 2.216488 CGTATGTATGAGTGCTTGCGTC 59.784 50.000 0.00 0.00 0.00 5.19
353 366 2.193447 CGTATGTATGAGTGCTTGCGT 58.807 47.619 0.00 0.00 0.00 5.24
354 367 2.034591 CACGTATGTATGAGTGCTTGCG 60.035 50.000 0.00 0.00 32.01 4.85
355 368 3.575858 CACGTATGTATGAGTGCTTGC 57.424 47.619 0.00 0.00 0.00 4.01
360 373 5.561199 GTGTATGCACGTATGTATGAGTG 57.439 43.478 0.00 0.00 35.75 3.51
369 382 8.174737 ACTATAGGAGTGAGTGTATGCACGTAT 61.175 40.741 8.36 0.00 43.04 3.06
370 383 6.910796 ACTATAGGAGTGAGTGTATGCACGTA 60.911 42.308 8.36 0.00 43.04 3.57
371 384 6.151090 ACTATAGGAGTGAGTGTATGCACGT 61.151 44.000 8.36 0.00 43.04 4.49
372 385 4.276183 ACTATAGGAGTGAGTGTATGCACG 59.724 45.833 8.36 0.00 43.04 5.34
373 386 5.776173 ACTATAGGAGTGAGTGTATGCAC 57.224 43.478 5.71 5.71 40.54 4.57
374 387 8.161425 TGTATACTATAGGAGTGAGTGTATGCA 58.839 37.037 4.43 0.00 39.39 3.96
375 388 8.452534 GTGTATACTATAGGAGTGAGTGTATGC 58.547 40.741 4.43 0.00 39.39 3.14
376 389 9.503399 TGTGTATACTATAGGAGTGAGTGTATG 57.497 37.037 4.43 0.00 39.39 2.39
377 390 9.504708 GTGTGTATACTATAGGAGTGAGTGTAT 57.495 37.037 4.43 0.00 39.39 2.29
378 391 8.488668 TGTGTGTATACTATAGGAGTGAGTGTA 58.511 37.037 4.43 0.00 39.39 2.90
379 392 7.282675 GTGTGTGTATACTATAGGAGTGAGTGT 59.717 40.741 4.43 0.00 39.39 3.55
380 393 7.255173 GGTGTGTGTATACTATAGGAGTGAGTG 60.255 44.444 4.43 0.00 39.39 3.51
381 394 6.771749 GGTGTGTGTATACTATAGGAGTGAGT 59.228 42.308 4.43 0.00 39.39 3.41
382 395 6.207025 GGGTGTGTGTATACTATAGGAGTGAG 59.793 46.154 4.43 0.00 39.39 3.51
383 396 6.066690 GGGTGTGTGTATACTATAGGAGTGA 58.933 44.000 4.43 0.00 39.39 3.41
384 397 6.069331 AGGGTGTGTGTATACTATAGGAGTG 58.931 44.000 4.43 0.00 39.39 3.51
385 398 6.277064 AGGGTGTGTGTATACTATAGGAGT 57.723 41.667 4.43 0.00 42.69 3.85
386 399 7.556996 GGATAGGGTGTGTGTATACTATAGGAG 59.443 44.444 4.43 0.00 0.00 3.69
387 400 7.408543 GGATAGGGTGTGTGTATACTATAGGA 58.591 42.308 4.43 0.00 0.00 2.94
388 401 6.318144 CGGATAGGGTGTGTGTATACTATAGG 59.682 46.154 4.43 0.00 0.00 2.57
389 402 6.883217 ACGGATAGGGTGTGTGTATACTATAG 59.117 42.308 4.17 0.00 0.00 1.31
390 403 6.656270 CACGGATAGGGTGTGTGTATACTATA 59.344 42.308 4.17 0.00 0.00 1.31
391 404 5.475909 CACGGATAGGGTGTGTGTATACTAT 59.524 44.000 4.17 0.00 0.00 2.12
392 405 4.823442 CACGGATAGGGTGTGTGTATACTA 59.177 45.833 4.17 0.00 0.00 1.82
393 406 3.635373 CACGGATAGGGTGTGTGTATACT 59.365 47.826 4.17 0.00 0.00 2.12
394 407 3.382546 ACACGGATAGGGTGTGTGTATAC 59.617 47.826 0.00 0.00 46.22 1.47
395 408 3.634504 ACACGGATAGGGTGTGTGTATA 58.365 45.455 0.00 0.00 46.22 1.47
396 409 2.463752 ACACGGATAGGGTGTGTGTAT 58.536 47.619 0.00 0.00 46.22 2.29
397 410 1.927487 ACACGGATAGGGTGTGTGTA 58.073 50.000 0.00 0.00 46.22 2.90
398 411 2.754648 ACACGGATAGGGTGTGTGT 58.245 52.632 0.00 0.00 46.22 3.72
404 417 1.898154 GTGCTCACACGGATAGGGT 59.102 57.895 0.00 0.00 36.98 4.34
405 418 4.835927 GTGCTCACACGGATAGGG 57.164 61.111 0.00 0.00 36.98 3.53
413 426 1.214062 CTCTCGGAGGTGCTCACAC 59.786 63.158 4.96 0.00 46.66 3.82
414 427 1.074951 TCTCTCGGAGGTGCTCACA 59.925 57.895 4.96 0.00 31.08 3.58
415 428 0.963355 AGTCTCTCGGAGGTGCTCAC 60.963 60.000 4.96 0.00 31.08 3.51
416 429 0.962855 CAGTCTCTCGGAGGTGCTCA 60.963 60.000 4.96 0.00 31.08 4.26
417 430 0.678366 TCAGTCTCTCGGAGGTGCTC 60.678 60.000 4.96 0.00 0.00 4.26
418 431 0.679640 CTCAGTCTCTCGGAGGTGCT 60.680 60.000 4.96 0.00 35.32 4.40
419 432 0.963355 ACTCAGTCTCTCGGAGGTGC 60.963 60.000 4.96 0.00 41.46 5.01
420 433 1.091537 GACTCAGTCTCTCGGAGGTG 58.908 60.000 4.96 0.00 41.46 4.00
421 434 0.391927 CGACTCAGTCTCTCGGAGGT 60.392 60.000 2.61 0.00 41.46 3.85
422 435 2.389386 CGACTCAGTCTCTCGGAGG 58.611 63.158 2.61 0.00 41.46 4.30
426 439 1.300481 TATGCCGACTCAGTCTCTCG 58.700 55.000 2.61 0.00 0.00 4.04
427 440 2.881513 TGATATGCCGACTCAGTCTCTC 59.118 50.000 2.61 0.00 0.00 3.20
428 441 2.937519 TGATATGCCGACTCAGTCTCT 58.062 47.619 2.61 0.00 0.00 3.10
429 442 3.505680 AGATGATATGCCGACTCAGTCTC 59.494 47.826 2.61 0.00 0.00 3.36
430 443 3.495331 AGATGATATGCCGACTCAGTCT 58.505 45.455 2.61 0.00 0.00 3.24
431 444 3.932545 AGATGATATGCCGACTCAGTC 57.067 47.619 0.00 0.00 0.00 3.51
432 445 3.638627 TCAAGATGATATGCCGACTCAGT 59.361 43.478 0.00 0.00 0.00 3.41
433 446 4.248691 TCAAGATGATATGCCGACTCAG 57.751 45.455 0.00 0.00 0.00 3.35
434 447 4.879197 ATCAAGATGATATGCCGACTCA 57.121 40.909 0.00 0.00 34.88 3.41
435 448 7.840342 ATTTATCAAGATGATATGCCGACTC 57.160 36.000 1.21 0.00 38.94 3.36
436 449 7.879677 TGAATTTATCAAGATGATATGCCGACT 59.120 33.333 1.21 0.00 38.94 4.18
437 450 8.032952 TGAATTTATCAAGATGATATGCCGAC 57.967 34.615 1.21 0.00 38.94 4.79
438 451 7.335171 CCTGAATTTATCAAGATGATATGCCGA 59.665 37.037 1.21 0.00 38.94 5.54
439 452 7.335171 TCCTGAATTTATCAAGATGATATGCCG 59.665 37.037 1.21 0.00 38.94 5.69
440 453 8.571461 TCCTGAATTTATCAAGATGATATGCC 57.429 34.615 1.21 0.00 38.94 4.40
447 460 9.338291 CGCATTATTCCTGAATTTATCAAGATG 57.662 33.333 0.00 0.00 37.67 2.90
448 461 9.288576 TCGCATTATTCCTGAATTTATCAAGAT 57.711 29.630 0.00 0.00 37.67 2.40
449 462 8.675705 TCGCATTATTCCTGAATTTATCAAGA 57.324 30.769 0.00 0.00 37.67 3.02
450 463 9.390795 CTTCGCATTATTCCTGAATTTATCAAG 57.609 33.333 0.00 0.00 37.67 3.02
451 464 9.119418 TCTTCGCATTATTCCTGAATTTATCAA 57.881 29.630 0.00 0.00 37.67 2.57
452 465 8.559536 GTCTTCGCATTATTCCTGAATTTATCA 58.440 33.333 0.00 0.00 36.38 2.15
453 466 8.017946 GGTCTTCGCATTATTCCTGAATTTATC 58.982 37.037 0.00 0.00 32.50 1.75
454 467 7.502226 TGGTCTTCGCATTATTCCTGAATTTAT 59.498 33.333 0.00 0.00 32.50 1.40
455 468 6.826231 TGGTCTTCGCATTATTCCTGAATTTA 59.174 34.615 0.00 0.00 32.50 1.40
456 469 5.652014 TGGTCTTCGCATTATTCCTGAATTT 59.348 36.000 0.00 0.00 32.50 1.82
457 470 5.192927 TGGTCTTCGCATTATTCCTGAATT 58.807 37.500 0.00 0.00 32.50 2.17
458 471 4.780815 TGGTCTTCGCATTATTCCTGAAT 58.219 39.130 0.00 0.00 34.93 2.57
459 472 4.214986 TGGTCTTCGCATTATTCCTGAA 57.785 40.909 0.00 0.00 0.00 3.02
460 473 3.904800 TGGTCTTCGCATTATTCCTGA 57.095 42.857 0.00 0.00 0.00 3.86
461 474 4.024556 GTCATGGTCTTCGCATTATTCCTG 60.025 45.833 0.00 0.00 0.00 3.86
462 475 4.130118 GTCATGGTCTTCGCATTATTCCT 58.870 43.478 0.00 0.00 0.00 3.36
463 476 4.130118 AGTCATGGTCTTCGCATTATTCC 58.870 43.478 0.00 0.00 0.00 3.01
464 477 5.294306 TGAAGTCATGGTCTTCGCATTATTC 59.706 40.000 18.97 0.00 42.68 1.75
465 478 5.185454 TGAAGTCATGGTCTTCGCATTATT 58.815 37.500 18.97 0.00 42.68 1.40
466 479 4.769688 TGAAGTCATGGTCTTCGCATTAT 58.230 39.130 18.97 0.00 42.68 1.28
467 480 4.200838 TGAAGTCATGGTCTTCGCATTA 57.799 40.909 18.97 6.06 42.68 1.90
468 481 3.057969 TGAAGTCATGGTCTTCGCATT 57.942 42.857 18.97 0.00 42.68 3.56
469 482 2.744202 GTTGAAGTCATGGTCTTCGCAT 59.256 45.455 18.97 0.00 42.68 4.73
470 483 2.143122 GTTGAAGTCATGGTCTTCGCA 58.857 47.619 18.97 10.63 42.68 5.10
471 484 1.464997 GGTTGAAGTCATGGTCTTCGC 59.535 52.381 18.97 15.51 42.68 4.70
472 485 2.076863 GGGTTGAAGTCATGGTCTTCG 58.923 52.381 18.97 0.00 42.68 3.79
473 486 3.077359 CAGGGTTGAAGTCATGGTCTTC 58.923 50.000 18.09 18.09 40.89 2.87
474 487 2.711009 TCAGGGTTGAAGTCATGGTCTT 59.289 45.455 0.00 0.00 0.00 3.01
475 488 2.338809 TCAGGGTTGAAGTCATGGTCT 58.661 47.619 0.00 0.00 0.00 3.85
476 489 2.859165 TCAGGGTTGAAGTCATGGTC 57.141 50.000 0.00 0.00 0.00 4.02
477 490 2.291153 CCATCAGGGTTGAAGTCATGGT 60.291 50.000 0.00 0.00 36.78 3.55
478 491 2.025981 TCCATCAGGGTTGAAGTCATGG 60.026 50.000 0.00 0.00 36.78 3.66
479 492 3.012518 GTCCATCAGGGTTGAAGTCATG 58.987 50.000 0.00 0.00 36.78 3.07
480 493 2.915604 AGTCCATCAGGGTTGAAGTCAT 59.084 45.455 0.00 0.00 36.78 3.06
481 494 2.038952 CAGTCCATCAGGGTTGAAGTCA 59.961 50.000 0.00 0.00 36.78 3.41
482 495 2.616510 CCAGTCCATCAGGGTTGAAGTC 60.617 54.545 0.00 0.00 36.78 3.01
483 496 1.352352 CCAGTCCATCAGGGTTGAAGT 59.648 52.381 0.00 0.00 36.78 3.01
484 497 1.340405 CCCAGTCCATCAGGGTTGAAG 60.340 57.143 0.00 0.00 37.98 3.02
485 498 0.698238 CCCAGTCCATCAGGGTTGAA 59.302 55.000 0.00 0.00 37.98 2.69
486 499 1.207488 CCCCAGTCCATCAGGGTTGA 61.207 60.000 0.00 0.00 40.75 3.18
487 500 1.207488 TCCCCAGTCCATCAGGGTTG 61.207 60.000 0.00 0.00 40.75 3.77
488 501 0.253820 ATCCCCAGTCCATCAGGGTT 60.254 55.000 0.00 0.00 40.75 4.11
489 502 0.647738 TATCCCCAGTCCATCAGGGT 59.352 55.000 0.00 0.00 40.75 4.34
490 503 1.912043 GATATCCCCAGTCCATCAGGG 59.088 57.143 0.00 0.00 41.84 4.45
491 504 2.304180 GTGATATCCCCAGTCCATCAGG 59.696 54.545 0.00 0.00 0.00 3.86
492 505 2.304180 GGTGATATCCCCAGTCCATCAG 59.696 54.545 0.00 0.00 0.00 2.90
493 506 2.338809 GGTGATATCCCCAGTCCATCA 58.661 52.381 0.00 0.00 0.00 3.07
494 507 1.276421 CGGTGATATCCCCAGTCCATC 59.724 57.143 5.02 0.00 0.00 3.51
495 508 1.352083 CGGTGATATCCCCAGTCCAT 58.648 55.000 5.02 0.00 0.00 3.41
496 509 0.031515 ACGGTGATATCCCCAGTCCA 60.032 55.000 5.02 0.00 0.00 4.02
497 510 0.680061 GACGGTGATATCCCCAGTCC 59.320 60.000 13.95 2.73 0.00 3.85
498 511 0.680061 GGACGGTGATATCCCCAGTC 59.320 60.000 15.54 15.54 0.00 3.51
499 512 2.836020 GGACGGTGATATCCCCAGT 58.164 57.895 5.02 3.58 0.00 4.00
504 517 2.561858 GGTTAGAGGGACGGTGATATCC 59.438 54.545 0.00 0.00 0.00 2.59
505 518 3.228453 TGGTTAGAGGGACGGTGATATC 58.772 50.000 0.00 0.00 0.00 1.63
506 519 3.323774 TGGTTAGAGGGACGGTGATAT 57.676 47.619 0.00 0.00 0.00 1.63
507 520 2.832643 TGGTTAGAGGGACGGTGATA 57.167 50.000 0.00 0.00 0.00 2.15
508 521 2.040178 GATGGTTAGAGGGACGGTGAT 58.960 52.381 0.00 0.00 0.00 3.06
509 522 1.006758 AGATGGTTAGAGGGACGGTGA 59.993 52.381 0.00 0.00 0.00 4.02
510 523 1.486211 AGATGGTTAGAGGGACGGTG 58.514 55.000 0.00 0.00 0.00 4.94
511 524 2.424523 CCTAGATGGTTAGAGGGACGGT 60.425 54.545 0.00 0.00 0.00 4.83
512 525 2.240279 CCTAGATGGTTAGAGGGACGG 58.760 57.143 0.00 0.00 0.00 4.79
524 537 1.269831 GCCTGTAGCGAACCTAGATGG 60.270 57.143 0.00 0.00 42.93 3.51
525 538 2.141535 GCCTGTAGCGAACCTAGATG 57.858 55.000 0.00 0.00 0.00 2.90
531 544 3.376922 AAGGTCTGCCTGTAGCGAACC 62.377 57.143 0.00 0.00 46.33 3.62
532 545 0.037232 AAGGTCTGCCTGTAGCGAAC 60.037 55.000 0.00 0.00 46.33 3.95
533 546 0.685097 AAAGGTCTGCCTGTAGCGAA 59.315 50.000 0.00 0.00 46.33 4.70
534 547 0.685097 AAAAGGTCTGCCTGTAGCGA 59.315 50.000 0.00 0.00 46.33 4.93
535 548 1.523758 AAAAAGGTCTGCCTGTAGCG 58.476 50.000 0.00 0.00 46.33 4.26
554 567 0.317436 CCTGCAGCGCACGTTAAAAA 60.317 50.000 11.47 0.00 33.79 1.94
555 568 1.281353 CCTGCAGCGCACGTTAAAA 59.719 52.632 11.47 0.00 33.79 1.52
556 569 2.942879 CCTGCAGCGCACGTTAAA 59.057 55.556 11.47 0.00 33.79 1.52
557 570 3.722295 GCCTGCAGCGCACGTTAA 61.722 61.111 18.68 0.00 33.79 2.01
566 579 4.129737 TACGAGTCCGCCTGCAGC 62.130 66.667 8.66 2.87 39.95 5.25
567 580 1.374343 TACTACGAGTCCGCCTGCAG 61.374 60.000 6.78 6.78 39.95 4.41
568 581 1.374343 CTACTACGAGTCCGCCTGCA 61.374 60.000 0.00 0.00 39.95 4.41
569 582 1.094073 TCTACTACGAGTCCGCCTGC 61.094 60.000 0.00 0.00 39.95 4.85
570 583 0.938713 CTCTACTACGAGTCCGCCTG 59.061 60.000 0.00 0.00 39.95 4.85
573 586 1.094073 TGCCTCTACTACGAGTCCGC 61.094 60.000 0.00 0.00 39.95 5.54
580 593 4.449068 CCATAGCAATTTGCCTCTACTACG 59.551 45.833 17.51 0.00 46.52 3.51
694 3722 2.878580 ACGACATGCGGACGTAATTAA 58.121 42.857 12.85 0.00 46.49 1.40
704 3732 1.931172 CTAACCCTAAACGACATGCGG 59.069 52.381 12.85 0.00 46.49 5.69
905 3989 3.696426 GCGAGCGATGGATGCGAC 61.696 66.667 0.00 0.00 37.44 5.19
1497 4602 4.394712 CCGGAGCCGTGCTTCCTT 62.395 66.667 8.25 0.00 39.88 3.36
1632 4743 1.675219 GCGGAACTGGTCCTTGGTA 59.325 57.895 10.54 0.00 45.36 3.25
1689 4800 1.216444 GTGCTCTGTGATGGCTCGA 59.784 57.895 0.00 0.00 0.00 4.04
1866 4977 2.574929 CCGTAGCAAGCCCGTGTA 59.425 61.111 0.00 0.00 0.00 2.90
1867 4978 4.388499 CCCGTAGCAAGCCCGTGT 62.388 66.667 0.00 0.00 0.00 4.49
2007 5118 0.443869 CGTTGCCACCGATCTTCTTG 59.556 55.000 0.00 0.00 0.00 3.02
2139 5250 6.322491 CCTAAAGAAAAATAAACAGAGCCCG 58.678 40.000 0.00 0.00 0.00 6.13
2196 7584 7.648142 AGTGATCAAAATTGTGTATTCGTGTT 58.352 30.769 0.00 0.00 0.00 3.32
2197 7585 7.202016 AGTGATCAAAATTGTGTATTCGTGT 57.798 32.000 0.00 0.00 0.00 4.49
2233 7621 2.843701 ACTGAGACTTTGCAAGACTGG 58.156 47.619 0.00 0.00 33.75 4.00
2240 7628 8.737168 ATATTAGCATTAACTGAGACTTTGCA 57.263 30.769 0.00 0.00 0.00 4.08
2241 7629 8.286097 GGATATTAGCATTAACTGAGACTTTGC 58.714 37.037 0.00 0.00 0.00 3.68
2242 7630 8.491152 CGGATATTAGCATTAACTGAGACTTTG 58.509 37.037 0.00 0.00 0.00 2.77
2243 7631 8.204836 ACGGATATTAGCATTAACTGAGACTTT 58.795 33.333 0.00 0.00 0.00 2.66
2252 7641 8.764524 AAGATCTCACGGATATTAGCATTAAC 57.235 34.615 0.00 0.00 34.53 2.01
2264 7653 3.056107 TCAACGGAAAAGATCTCACGGAT 60.056 43.478 0.00 0.00 37.37 4.18
2265 7654 2.297880 TCAACGGAAAAGATCTCACGGA 59.702 45.455 0.00 0.00 0.00 4.69
2278 7667 0.675083 TTACACGGCTCTCAACGGAA 59.325 50.000 0.00 0.00 0.00 4.30
2279 7668 0.675083 TTTACACGGCTCTCAACGGA 59.325 50.000 0.00 0.00 0.00 4.69
2280 7669 1.504359 TTTTACACGGCTCTCAACGG 58.496 50.000 0.00 0.00 0.00 4.44
2281 7670 3.806316 AATTTTACACGGCTCTCAACG 57.194 42.857 0.00 0.00 0.00 4.10
2282 7671 8.515473 AAATAAAATTTTACACGGCTCTCAAC 57.485 30.769 12.74 0.00 0.00 3.18
2309 7698 7.993821 TGCGAGAGAGAATAAGAAAATACTG 57.006 36.000 0.00 0.00 0.00 2.74
2317 7706 7.043961 ACATTACATGCGAGAGAGAATAAGA 57.956 36.000 0.00 0.00 0.00 2.10
2318 7707 6.920210 TGACATTACATGCGAGAGAGAATAAG 59.080 38.462 0.00 0.00 0.00 1.73
2321 7710 5.268118 TGACATTACATGCGAGAGAGAAT 57.732 39.130 0.00 0.00 0.00 2.40
2326 7715 4.614946 TCAGATGACATTACATGCGAGAG 58.385 43.478 0.00 0.00 0.00 3.20
2335 7724 8.659925 ATCAAGTCTCAATCAGATGACATTAC 57.340 34.615 2.98 0.00 32.08 1.89
2352 7741 8.951243 GCTAGGTTTTGAGATTTAATCAAGTCT 58.049 33.333 7.74 0.00 37.91 3.24
2353 7742 8.184848 GGCTAGGTTTTGAGATTTAATCAAGTC 58.815 37.037 7.74 0.00 37.91 3.01
2354 7743 7.669722 TGGCTAGGTTTTGAGATTTAATCAAGT 59.330 33.333 7.74 0.00 37.91 3.16
2355 7744 7.970614 GTGGCTAGGTTTTGAGATTTAATCAAG 59.029 37.037 7.74 0.00 37.91 3.02
2356 7745 7.450014 TGTGGCTAGGTTTTGAGATTTAATCAA 59.550 33.333 7.74 0.00 34.93 2.57
2357 7746 6.945435 TGTGGCTAGGTTTTGAGATTTAATCA 59.055 34.615 7.74 0.00 0.00 2.57
2358 7747 7.121315 AGTGTGGCTAGGTTTTGAGATTTAATC 59.879 37.037 0.00 0.00 0.00 1.75
2359 7748 6.948309 AGTGTGGCTAGGTTTTGAGATTTAAT 59.052 34.615 0.00 0.00 0.00 1.40
2360 7749 6.303839 AGTGTGGCTAGGTTTTGAGATTTAA 58.696 36.000 0.00 0.00 0.00 1.52
2361 7750 5.876357 AGTGTGGCTAGGTTTTGAGATTTA 58.124 37.500 0.00 0.00 0.00 1.40
2362 7751 4.729868 AGTGTGGCTAGGTTTTGAGATTT 58.270 39.130 0.00 0.00 0.00 2.17
2363 7752 4.327680 GAGTGTGGCTAGGTTTTGAGATT 58.672 43.478 0.00 0.00 0.00 2.40
2364 7753 3.307762 GGAGTGTGGCTAGGTTTTGAGAT 60.308 47.826 0.00 0.00 0.00 2.75
2365 7754 2.038557 GGAGTGTGGCTAGGTTTTGAGA 59.961 50.000 0.00 0.00 0.00 3.27
2366 7755 2.427506 GGAGTGTGGCTAGGTTTTGAG 58.572 52.381 0.00 0.00 0.00 3.02
2367 7756 1.073284 GGGAGTGTGGCTAGGTTTTGA 59.927 52.381 0.00 0.00 0.00 2.69
2368 7757 1.534729 GGGAGTGTGGCTAGGTTTTG 58.465 55.000 0.00 0.00 0.00 2.44
2369 7758 0.404426 GGGGAGTGTGGCTAGGTTTT 59.596 55.000 0.00 0.00 0.00 2.43
2370 7759 0.475828 AGGGGAGTGTGGCTAGGTTT 60.476 55.000 0.00 0.00 0.00 3.27
2371 7760 0.416231 TAGGGGAGTGTGGCTAGGTT 59.584 55.000 0.00 0.00 0.00 3.50
2372 7761 0.642710 ATAGGGGAGTGTGGCTAGGT 59.357 55.000 0.00 0.00 0.00 3.08
2373 7762 1.807814 AATAGGGGAGTGTGGCTAGG 58.192 55.000 0.00 0.00 0.00 3.02
2374 7763 4.466726 GGTATAATAGGGGAGTGTGGCTAG 59.533 50.000 0.00 0.00 0.00 3.42
2375 7764 4.140639 TGGTATAATAGGGGAGTGTGGCTA 60.141 45.833 0.00 0.00 0.00 3.93
2376 7765 3.248888 GGTATAATAGGGGAGTGTGGCT 58.751 50.000 0.00 0.00 0.00 4.75
2377 7766 2.976882 TGGTATAATAGGGGAGTGTGGC 59.023 50.000 0.00 0.00 0.00 5.01
2378 7767 4.505039 GCTTGGTATAATAGGGGAGTGTGG 60.505 50.000 0.00 0.00 0.00 4.17
2379 7768 4.102524 TGCTTGGTATAATAGGGGAGTGTG 59.897 45.833 0.00 0.00 0.00 3.82
2380 7769 4.303794 TGCTTGGTATAATAGGGGAGTGT 58.696 43.478 0.00 0.00 0.00 3.55
2381 7770 4.974645 TGCTTGGTATAATAGGGGAGTG 57.025 45.455 0.00 0.00 0.00 3.51
2382 7771 5.432060 ACTTTGCTTGGTATAATAGGGGAGT 59.568 40.000 0.00 0.00 0.00 3.85
2383 7772 5.941788 ACTTTGCTTGGTATAATAGGGGAG 58.058 41.667 0.00 0.00 0.00 4.30
2384 7773 5.987019 ACTTTGCTTGGTATAATAGGGGA 57.013 39.130 0.00 0.00 0.00 4.81
2385 7774 8.706322 ATAAACTTTGCTTGGTATAATAGGGG 57.294 34.615 0.00 0.00 0.00 4.79
2391 7780 9.386010 ACGATGTATAAACTTTGCTTGGTATAA 57.614 29.630 0.00 0.00 0.00 0.98
2392 7781 8.822855 CACGATGTATAAACTTTGCTTGGTATA 58.177 33.333 0.00 0.00 0.00 1.47
2393 7782 7.201696 CCACGATGTATAAACTTTGCTTGGTAT 60.202 37.037 0.00 0.00 0.00 2.73
2394 7783 6.092944 CCACGATGTATAAACTTTGCTTGGTA 59.907 38.462 0.00 0.00 0.00 3.25
2395 7784 5.106317 CCACGATGTATAAACTTTGCTTGGT 60.106 40.000 0.00 0.00 0.00 3.67
2396 7785 5.123186 TCCACGATGTATAAACTTTGCTTGG 59.877 40.000 0.00 0.00 0.00 3.61
2397 7786 6.176975 TCCACGATGTATAAACTTTGCTTG 57.823 37.500 0.00 0.00 0.00 4.01
2398 7787 5.354234 CCTCCACGATGTATAAACTTTGCTT 59.646 40.000 0.00 0.00 0.00 3.91
2399 7788 4.876107 CCTCCACGATGTATAAACTTTGCT 59.124 41.667 0.00 0.00 0.00 3.91
2400 7789 4.634443 ACCTCCACGATGTATAAACTTTGC 59.366 41.667 0.00 0.00 0.00 3.68
2431 7820 3.616821 CGCTGACATCGTTATTTTCAGGA 59.383 43.478 0.00 0.00 35.28 3.86
2432 7821 3.785505 GCGCTGACATCGTTATTTTCAGG 60.786 47.826 0.00 0.00 35.28 3.86
2442 7831 2.105128 GCCTAGCGCTGACATCGT 59.895 61.111 22.90 0.00 0.00 3.73
2491 7880 4.511246 ATCGGGTGGCTGGCATGG 62.511 66.667 7.33 0.00 0.00 3.66
2526 7915 0.388006 CAGATCGTGCGGTGTGTACA 60.388 55.000 0.00 0.00 31.89 2.90
2577 7968 4.405358 TCAATGGCAGTTGGAGTTTTTCTT 59.595 37.500 0.00 0.00 0.00 2.52
2602 7993 3.757248 GAGGCGGGGCATGTCGATT 62.757 63.158 8.88 0.00 0.00 3.34
2628 8019 2.482333 CGAGACGAATCGAGGGGCT 61.482 63.158 10.55 0.00 45.56 5.19
2855 8251 1.198408 CCGAGTACAGTACAGTTCGCA 59.802 52.381 13.37 0.00 0.00 5.10
2896 8292 1.161563 TTTTGCTCGACCAACGGACC 61.162 55.000 0.00 0.00 42.82 4.46
3033 8441 0.737367 CGACATGCTGACGATGGTGT 60.737 55.000 0.00 0.00 37.72 4.16


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

AutoCloner maintained by Alex Coulton.