Multiple sequence alignment - TraesCS1A01G434700

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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 TraesCS1A01G434700 chr1A 100.000 4367 0 0 1 4367 585355263 585350897 0.000000e+00 8065.0
1 TraesCS1A01G434700 chr1A 74.727 550 121 13 2496 3030 7836315 7836861 3.400000e-56 230.0
2 TraesCS1A01G434700 chr1A 74.182 550 121 17 2496 3030 8328771 8329314 4.430000e-50 209.0
3 TraesCS1A01G434700 chr1A 73.046 627 143 20 2423 3030 8343616 8344235 9.580000e-47 198.0
4 TraesCS1A01G434700 chr1D 95.741 2747 105 6 412 3148 487331791 487329047 0.000000e+00 4414.0
5 TraesCS1A01G434700 chr1D 92.749 662 42 4 3146 3803 487324730 487324071 0.000000e+00 952.0
6 TraesCS1A01G434700 chr1D 91.557 379 27 2 1 376 487332120 487331744 6.470000e-143 518.0
7 TraesCS1A01G434700 chr1D 94.545 55 3 0 3805 3859 487323993 487323939 7.780000e-13 86.1
8 TraesCS1A01G434700 chr2A 82.753 2470 372 28 1046 3475 754569198 754566743 0.000000e+00 2152.0
9 TraesCS1A01G434700 chr2A 94.286 35 1 1 287 321 686032506 686032539 8.000000e-03 52.8
10 TraesCS1A01G434700 chr2D 82.957 2394 370 21 1058 3423 623392927 623390544 0.000000e+00 2126.0
11 TraesCS1A01G434700 chr2D 92.449 490 35 2 3878 4367 46937523 46938010 0.000000e+00 699.0
12 TraesCS1A01G434700 chr2B 82.441 2483 371 36 1019 3475 765297984 765295541 0.000000e+00 2109.0
13 TraesCS1A01G434700 chr2B 100.000 30 0 0 345 374 513201345 513201374 6.100000e-04 56.5
14 TraesCS1A01G434700 chr7A 92.203 513 37 3 3855 4367 16525991 16526500 0.000000e+00 723.0
15 TraesCS1A01G434700 chr3D 92.245 490 37 1 3878 4367 461316177 461316665 0.000000e+00 693.0
16 TraesCS1A01G434700 chr7D 92.245 490 33 3 3878 4367 17513196 17513680 0.000000e+00 689.0
17 TraesCS1A01G434700 chr7D 92.632 475 34 1 3893 4367 593909536 593910009 0.000000e+00 682.0
18 TraesCS1A01G434700 chr5D 91.650 491 39 2 3878 4367 544469722 544470211 0.000000e+00 678.0
19 TraesCS1A01G434700 chr4D 91.616 489 40 1 3878 4366 311199209 311199696 0.000000e+00 675.0
20 TraesCS1A01G434700 chrUn 91.411 489 40 2 3878 4366 342613223 342612737 0.000000e+00 669.0
21 TraesCS1A01G434700 chr5B 90.707 495 42 3 3873 4366 286883099 286882608 0.000000e+00 656.0
22 TraesCS1A01G434700 chr5B 74.539 542 127 9 2496 3030 549549608 549550145 4.390000e-55 226.0
23 TraesCS1A01G434700 chr5B 73.801 584 133 14 2496 3063 13774501 13773922 3.420000e-51 213.0
24 TraesCS1A01G434700 chr7B 90.164 61 5 1 297 356 679996391 679996331 1.300000e-10 78.7
25 TraesCS1A01G434700 chr7B 82.667 75 13 0 294 368 12195397 12195323 2.820000e-07 67.6


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 TraesCS1A01G434700 chr1A 585350897 585355263 4366 True 8065.00 8065 100.000 1 4367 1 chr1A.!!$R1 4366
1 TraesCS1A01G434700 chr1A 7836315 7836861 546 False 230.00 230 74.727 2496 3030 1 chr1A.!!$F1 534
2 TraesCS1A01G434700 chr1A 8328771 8329314 543 False 209.00 209 74.182 2496 3030 1 chr1A.!!$F2 534
3 TraesCS1A01G434700 chr1D 487329047 487332120 3073 True 2466.00 4414 93.649 1 3148 2 chr1D.!!$R2 3147
4 TraesCS1A01G434700 chr1D 487323939 487324730 791 True 519.05 952 93.647 3146 3859 2 chr1D.!!$R1 713
5 TraesCS1A01G434700 chr2A 754566743 754569198 2455 True 2152.00 2152 82.753 1046 3475 1 chr2A.!!$R1 2429
6 TraesCS1A01G434700 chr2D 623390544 623392927 2383 True 2126.00 2126 82.957 1058 3423 1 chr2D.!!$R1 2365
7 TraesCS1A01G434700 chr2B 765295541 765297984 2443 True 2109.00 2109 82.441 1019 3475 1 chr2B.!!$R1 2456
8 TraesCS1A01G434700 chr7A 16525991 16526500 509 False 723.00 723 92.203 3855 4367 1 chr7A.!!$F1 512
9 TraesCS1A01G434700 chr5B 549549608 549550145 537 False 226.00 226 74.539 2496 3030 1 chr5B.!!$F1 534
10 TraesCS1A01G434700 chr5B 13773922 13774501 579 True 213.00 213 73.801 2496 3063 1 chr5B.!!$R1 567

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
480 484 0.620556 TTCAGAGGTGATGGGGAAGC 59.379 55.0 0.00 0.00 30.85 3.86 F
1282 1301 0.167470 CTCATCGTGCAAGCTTGTGG 59.833 55.0 26.55 15.98 0.00 4.17 F
1364 1383 0.247736 GCCAACACCACAACCAACAA 59.752 50.0 0.00 0.00 0.00 2.83 F
2900 2958 0.676782 GTCACGGACTTTGGGATGGG 60.677 60.0 0.00 0.00 0.00 4.00 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1325 1344 0.681564 TTTTGTGGACCAAGCCGTGT 60.682 50.0 0.00 0.00 33.75 4.49 R
3248 3306 0.811616 CTCACTCATTGTAGGCCGGC 60.812 60.0 21.18 21.18 0.00 6.13 R
3293 3351 0.033504 TGGAGGCGTCTCAACTTCAC 59.966 55.0 20.37 0.00 41.69 3.18 R
3891 4040 0.107361 TCGTCGAGATACAGAGGCCA 60.107 55.0 5.01 0.00 0.00 5.36 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
73 74 7.650834 AATTGTTATTTTATGCACACACCAC 57.349 32.000 0.00 0.00 0.00 4.16
76 77 5.216648 GTTATTTTATGCACACACCACGTT 58.783 37.500 0.00 0.00 0.00 3.99
165 169 3.308438 TGTGGCTTCTCCGTTTAGTAC 57.692 47.619 0.00 0.00 37.80 2.73
184 188 6.932356 AGTACCGAAATCGACTAGAATGTA 57.068 37.500 4.04 0.00 43.02 2.29
185 189 7.507733 AGTACCGAAATCGACTAGAATGTAT 57.492 36.000 4.04 0.00 43.02 2.29
191 195 7.268659 CCGAAATCGACTAGAATGTATTCTACG 59.731 40.741 9.64 12.08 42.63 3.51
289 293 5.526846 GTGCAGTCGTACTAATACTACTCCT 59.473 44.000 0.00 0.00 35.66 3.69
291 295 6.037940 TGCAGTCGTACTAATACTACTCCTTG 59.962 42.308 0.00 0.00 35.66 3.61
292 296 6.038050 GCAGTCGTACTAATACTACTCCTTGT 59.962 42.308 0.00 0.00 35.66 3.16
297 301 6.541641 CGTACTAATACTACTCCTTGTGTCCT 59.458 42.308 0.00 0.00 0.00 3.85
309 313 8.788325 ACTCCTTGTGTCCTATAATGTAAAAC 57.212 34.615 0.00 0.00 0.00 2.43
310 314 7.548075 ACTCCTTGTGTCCTATAATGTAAAACG 59.452 37.037 0.00 0.00 0.00 3.60
351 355 9.642343 ACTAGTGTCATAGAACATCCTACATTA 57.358 33.333 0.00 0.00 0.00 1.90
354 358 8.370940 AGTGTCATAGAACATCCTACATTATGG 58.629 37.037 0.00 0.00 0.00 2.74
355 359 8.367911 GTGTCATAGAACATCCTACATTATGGA 58.632 37.037 0.00 0.00 36.72 3.41
356 360 8.933653 TGTCATAGAACATCCTACATTATGGAA 58.066 33.333 0.00 0.00 35.81 3.53
357 361 9.950496 GTCATAGAACATCCTACATTATGGAAT 57.050 33.333 0.00 0.00 35.81 3.01
358 362 9.948964 TCATAGAACATCCTACATTATGGAATG 57.051 33.333 0.00 0.00 46.77 2.67
359 363 9.170734 CATAGAACATCCTACATTATGGAATGG 57.829 37.037 0.00 0.00 45.83 3.16
360 364 7.392766 AGAACATCCTACATTATGGAATGGA 57.607 36.000 0.00 0.00 45.83 3.41
366 370 5.832539 CTACATTATGGAATGGAGGGAGT 57.167 43.478 2.44 0.00 46.58 3.85
367 371 6.935240 CTACATTATGGAATGGAGGGAGTA 57.065 41.667 2.44 0.00 46.58 2.59
368 372 5.832539 ACATTATGGAATGGAGGGAGTAG 57.167 43.478 0.00 0.00 45.83 2.57
369 373 5.227593 ACATTATGGAATGGAGGGAGTAGT 58.772 41.667 0.00 0.00 45.83 2.73
370 374 5.672194 ACATTATGGAATGGAGGGAGTAGTT 59.328 40.000 0.00 0.00 45.83 2.24
371 375 5.630415 TTATGGAATGGAGGGAGTAGTTG 57.370 43.478 0.00 0.00 0.00 3.16
372 376 1.559682 TGGAATGGAGGGAGTAGTTGC 59.440 52.381 0.00 0.00 0.00 4.17
373 377 1.840635 GGAATGGAGGGAGTAGTTGCT 59.159 52.381 0.00 0.00 0.00 3.91
374 378 3.039011 GGAATGGAGGGAGTAGTTGCTA 58.961 50.000 0.00 0.00 0.00 3.49
375 379 3.454812 GGAATGGAGGGAGTAGTTGCTAA 59.545 47.826 0.00 0.00 0.00 3.09
376 380 4.443598 GGAATGGAGGGAGTAGTTGCTAAG 60.444 50.000 0.00 0.00 0.00 2.18
377 381 3.185880 TGGAGGGAGTAGTTGCTAAGT 57.814 47.619 0.00 0.00 0.00 2.24
378 382 3.517612 TGGAGGGAGTAGTTGCTAAGTT 58.482 45.455 0.00 0.00 0.00 2.66
379 383 3.908103 TGGAGGGAGTAGTTGCTAAGTTT 59.092 43.478 0.00 0.00 0.00 2.66
380 384 4.349930 TGGAGGGAGTAGTTGCTAAGTTTT 59.650 41.667 0.00 0.00 0.00 2.43
381 385 5.544948 TGGAGGGAGTAGTTGCTAAGTTTTA 59.455 40.000 0.00 0.00 0.00 1.52
382 386 5.873712 GGAGGGAGTAGTTGCTAAGTTTTAC 59.126 44.000 0.00 0.00 0.00 2.01
383 387 6.295745 GGAGGGAGTAGTTGCTAAGTTTTACT 60.296 42.308 0.00 0.00 0.00 2.24
384 388 6.699366 AGGGAGTAGTTGCTAAGTTTTACTC 58.301 40.000 0.00 0.00 37.40 2.59
385 389 6.964741 GGAGTAGTTGCTAAGTTTTACTCC 57.035 41.667 11.44 11.44 45.58 3.85
386 390 5.873712 GGAGTAGTTGCTAAGTTTTACTCCC 59.126 44.000 14.57 1.53 45.79 4.30
387 391 6.295745 GGAGTAGTTGCTAAGTTTTACTCCCT 60.296 42.308 14.57 0.00 45.79 4.20
388 392 7.075851 AGTAGTTGCTAAGTTTTACTCCCTT 57.924 36.000 0.00 0.00 0.00 3.95
389 393 7.160049 AGTAGTTGCTAAGTTTTACTCCCTTC 58.840 38.462 0.00 0.00 0.00 3.46
390 394 4.995487 AGTTGCTAAGTTTTACTCCCTTCG 59.005 41.667 0.00 0.00 0.00 3.79
391 395 4.612264 TGCTAAGTTTTACTCCCTTCGT 57.388 40.909 0.00 0.00 0.00 3.85
392 396 4.964593 TGCTAAGTTTTACTCCCTTCGTT 58.035 39.130 0.00 0.00 0.00 3.85
393 397 4.992951 TGCTAAGTTTTACTCCCTTCGTTC 59.007 41.667 0.00 0.00 0.00 3.95
394 398 4.391216 GCTAAGTTTTACTCCCTTCGTTCC 59.609 45.833 0.00 0.00 0.00 3.62
395 399 4.426736 AAGTTTTACTCCCTTCGTTCCA 57.573 40.909 0.00 0.00 0.00 3.53
396 400 4.635699 AGTTTTACTCCCTTCGTTCCAT 57.364 40.909 0.00 0.00 0.00 3.41
397 401 5.750352 AGTTTTACTCCCTTCGTTCCATA 57.250 39.130 0.00 0.00 0.00 2.74
398 402 5.731591 AGTTTTACTCCCTTCGTTCCATAG 58.268 41.667 0.00 0.00 0.00 2.23
399 403 5.247792 AGTTTTACTCCCTTCGTTCCATAGT 59.752 40.000 0.00 0.00 0.00 2.12
400 404 4.730949 TTACTCCCTTCGTTCCATAGTG 57.269 45.455 0.00 0.00 0.00 2.74
401 405 2.537143 ACTCCCTTCGTTCCATAGTGT 58.463 47.619 0.00 0.00 0.00 3.55
402 406 3.705051 ACTCCCTTCGTTCCATAGTGTA 58.295 45.455 0.00 0.00 0.00 2.90
403 407 4.091549 ACTCCCTTCGTTCCATAGTGTAA 58.908 43.478 0.00 0.00 0.00 2.41
404 408 4.159879 ACTCCCTTCGTTCCATAGTGTAAG 59.840 45.833 0.00 0.00 0.00 2.34
405 409 4.346730 TCCCTTCGTTCCATAGTGTAAGA 58.653 43.478 0.00 0.00 0.00 2.10
406 410 4.960469 TCCCTTCGTTCCATAGTGTAAGAT 59.040 41.667 0.00 0.00 0.00 2.40
407 411 5.050490 CCCTTCGTTCCATAGTGTAAGATG 58.950 45.833 0.00 0.00 0.00 2.90
408 412 5.395324 CCCTTCGTTCCATAGTGTAAGATGT 60.395 44.000 0.00 0.00 0.00 3.06
409 413 5.749109 CCTTCGTTCCATAGTGTAAGATGTC 59.251 44.000 0.00 0.00 0.00 3.06
410 414 5.258456 TCGTTCCATAGTGTAAGATGTCC 57.742 43.478 0.00 0.00 0.00 4.02
411 415 4.707934 TCGTTCCATAGTGTAAGATGTCCA 59.292 41.667 0.00 0.00 0.00 4.02
412 416 5.043903 CGTTCCATAGTGTAAGATGTCCAG 58.956 45.833 0.00 0.00 0.00 3.86
413 417 5.394224 CGTTCCATAGTGTAAGATGTCCAGT 60.394 44.000 0.00 0.00 0.00 4.00
414 418 5.598416 TCCATAGTGTAAGATGTCCAGTG 57.402 43.478 0.00 0.00 0.00 3.66
415 419 5.023452 TCCATAGTGTAAGATGTCCAGTGT 58.977 41.667 0.00 0.00 0.00 3.55
416 420 5.127194 TCCATAGTGTAAGATGTCCAGTGTC 59.873 44.000 0.00 0.00 0.00 3.67
417 421 5.105351 CCATAGTGTAAGATGTCCAGTGTCA 60.105 44.000 0.00 0.00 0.00 3.58
418 422 4.955811 AGTGTAAGATGTCCAGTGTCAA 57.044 40.909 0.00 0.00 0.00 3.18
419 423 5.290493 AGTGTAAGATGTCCAGTGTCAAA 57.710 39.130 0.00 0.00 0.00 2.69
420 424 5.680619 AGTGTAAGATGTCCAGTGTCAAAA 58.319 37.500 0.00 0.00 0.00 2.44
421 425 6.119536 AGTGTAAGATGTCCAGTGTCAAAAA 58.880 36.000 0.00 0.00 0.00 1.94
448 452 5.455872 TCTTATTTATGAGACGGAGGGAGT 58.544 41.667 0.00 0.00 0.00 3.85
463 467 5.984323 CGGAGGGAGTAGCTACTAAAAATTC 59.016 44.000 26.11 16.16 36.50 2.17
466 470 7.147707 GGAGGGAGTAGCTACTAAAAATTCAGA 60.148 40.741 26.11 0.00 36.50 3.27
471 475 8.135382 AGTAGCTACTAAAAATTCAGAGGTGA 57.865 34.615 24.97 0.00 34.13 4.02
475 479 6.038714 GCTACTAAAAATTCAGAGGTGATGGG 59.961 42.308 0.00 0.00 30.85 4.00
477 481 4.402616 AAAAATTCAGAGGTGATGGGGA 57.597 40.909 0.00 0.00 30.85 4.81
478 482 4.402616 AAAATTCAGAGGTGATGGGGAA 57.597 40.909 0.00 0.00 30.85 3.97
480 484 0.620556 TTCAGAGGTGATGGGGAAGC 59.379 55.000 0.00 0.00 30.85 3.86
521 534 6.140737 GCATAGTTTTAAATAGCGTGTCATGC 59.859 38.462 9.12 9.12 0.00 4.06
561 574 1.688197 CAAATGGATGGCCCGCTATTT 59.312 47.619 0.00 5.34 37.93 1.40
565 578 1.111277 GGATGGCCCGCTATTTTGTT 58.889 50.000 0.00 0.00 0.00 2.83
605 618 5.088739 GCATGTGAATATACATTTAGCGGC 58.911 41.667 0.00 0.00 39.17 6.53
611 624 0.884704 ATACATTTAGCGGCGCCCTG 60.885 55.000 30.40 21.68 0.00 4.45
632 645 5.238006 TGCTTAAACCGTTATAATGTGGC 57.762 39.130 4.04 0.63 0.00 5.01
635 648 5.721876 TTAAACCGTTATAATGTGGCTCG 57.278 39.130 4.04 0.00 0.00 5.03
647 660 4.632538 ATGTGGCTCGGCTATTTAAAAC 57.367 40.909 0.00 0.00 0.00 2.43
667 680 7.992180 AAAACTTTGATTAGAAGTGCACAAG 57.008 32.000 21.04 12.46 37.41 3.16
727 740 2.143925 GCATTATTGTAGGCGGAGTCC 58.856 52.381 0.00 0.00 0.00 3.85
773 786 6.263168 ACTTCAACTTACTTCAGTCCCATTTG 59.737 38.462 0.00 0.00 0.00 2.32
892 905 7.101054 CAGGAAATGAATCATTGAACACCATT 58.899 34.615 9.47 0.00 34.04 3.16
1149 1165 0.954452 CGCTTGGCTTCTTCCAAACT 59.046 50.000 0.00 0.00 44.73 2.66
1151 1167 1.603931 GCTTGGCTTCTTCCAAACTGC 60.604 52.381 0.00 0.00 44.73 4.40
1282 1301 0.167470 CTCATCGTGCAAGCTTGTGG 59.833 55.000 26.55 15.98 0.00 4.17
1364 1383 0.247736 GCCAACACCACAACCAACAA 59.752 50.000 0.00 0.00 0.00 2.83
1406 1425 2.904434 ACGATGGAAACCTTGTCCTACT 59.096 45.455 0.00 0.00 36.03 2.57
1598 1626 5.323382 TCTGGCAATAATGGTGGTCATAT 57.677 39.130 0.00 0.00 34.44 1.78
1644 1672 3.697166 GTCCCAACAATATTGGTCCAGT 58.303 45.455 19.37 0.00 37.88 4.00
1670 1698 0.912487 TGGGGAGGCCGATACTTTGT 60.912 55.000 0.00 0.00 0.00 2.83
1806 1834 2.835580 TGGACGTTTCCGGTCAAATA 57.164 45.000 0.00 0.00 46.37 1.40
1846 1877 3.091545 GAGGGATCACAAGATTGGCAAA 58.908 45.455 3.01 0.00 33.72 3.68
1946 1977 1.377366 CCATCCTGCAGCTGCTTGAG 61.377 60.000 36.61 25.82 42.66 3.02
2191 2231 4.055360 CACCGCATATTCCTACGATCAAA 58.945 43.478 0.00 0.00 0.00 2.69
2217 2257 3.655486 CTGCTTCATTTGGCATGACAAA 58.345 40.909 28.25 28.25 43.69 2.83
2265 2305 3.941483 ACAATATTCTTCACCTTCGCCTG 59.059 43.478 0.00 0.00 0.00 4.85
2296 2336 7.683437 AAAGAAGTGCAAAGTAGTAATACCC 57.317 36.000 0.00 0.00 0.00 3.69
2315 2355 1.479389 CCATAGAAGGGGGCCAATCAC 60.479 57.143 4.39 0.00 0.00 3.06
2373 2413 7.750229 TGGTTTGATATTTCTATGGATGCTC 57.250 36.000 0.00 0.00 0.00 4.26
2395 2435 1.683319 GGATGAGAAAAGGGAGGTGGC 60.683 57.143 0.00 0.00 0.00 5.01
2753 2811 2.684881 GCATGGTGTTGGATTGGACTAG 59.315 50.000 0.00 0.00 0.00 2.57
2865 2923 4.551388 CGGAGAACATACTTCTAGATGGC 58.449 47.826 10.16 0.00 0.00 4.40
2884 2942 3.646162 TGGCTCTTTCACTCCTAAAGTCA 59.354 43.478 0.00 0.00 35.45 3.41
2900 2958 0.676782 GTCACGGACTTTGGGATGGG 60.677 60.000 0.00 0.00 0.00 4.00
3001 3059 3.252974 GTGGAACTCCTATCACACCAG 57.747 52.381 0.00 0.00 36.82 4.00
3041 3099 5.449177 GCTATGGCATGGTTTTGTTAGAGAC 60.449 44.000 10.98 0.00 38.54 3.36
3053 3111 7.769044 GGTTTTGTTAGAGACTATATCAGGCAA 59.231 37.037 0.00 0.00 32.94 4.52
3077 3135 3.515901 AGGAACTCGAGTAAGCAATCCTT 59.484 43.478 22.81 11.27 32.25 3.36
3080 3138 4.116747 ACTCGAGTAAGCAATCCTTCTG 57.883 45.455 18.46 0.00 34.95 3.02
3192 3250 3.117701 TGTTGGGTGAAGTGAATCAGGAA 60.118 43.478 0.00 0.00 0.00 3.36
3248 3306 6.016360 TGGTGTATTCAAGATGTTGAGTTTGG 60.016 38.462 5.92 0.00 43.66 3.28
3293 3351 1.258982 GCAGTTTCTCGAGTGTGTGTG 59.741 52.381 13.13 5.26 0.00 3.82
3356 3414 0.109132 GCGGGACAGCCAAATTCAAG 60.109 55.000 0.00 0.00 35.15 3.02
3408 3471 9.712305 CTGGTTTAATCTCCTTATATGGTAGTG 57.288 37.037 4.67 0.00 0.00 2.74
3439 3509 8.641499 TGTTGCTTTATTTTCCTTTGTACAAG 57.359 30.769 8.56 3.50 0.00 3.16
3479 3549 5.479027 TCCCCAACTGGCTATAAAAGTTTTC 59.521 40.000 3.60 0.00 31.88 2.29
3482 3552 6.868339 CCCAACTGGCTATAAAAGTTTTCTTG 59.132 38.462 3.60 0.00 40.37 3.02
3518 3588 9.385902 CAAATACGCAGATCTTGGTTAAATATG 57.614 33.333 0.00 0.00 0.00 1.78
3543 3613 6.096001 GCCTTTTCATGACATCTCTTGGTTAT 59.904 38.462 0.00 0.00 0.00 1.89
3550 3620 9.817809 TCATGACATCTCTTGGTTATAGTTTAC 57.182 33.333 0.00 0.00 0.00 2.01
3607 3680 6.164176 GCAAATCGCTACTATAGGTATTGGT 58.836 40.000 4.43 0.00 37.77 3.67
3619 3692 9.603189 ACTATAGGTATTGGTGAATACTAGCTT 57.397 33.333 4.43 0.00 42.53 3.74
3622 3695 6.821388 AGGTATTGGTGAATACTAGCTTCAG 58.179 40.000 8.24 0.00 42.53 3.02
3654 3727 0.965866 ACATTCGGGAGAGCGACTCA 60.966 55.000 13.97 0.00 46.54 3.41
3689 3762 0.682209 CCACCCTTGAGCCCTGATTG 60.682 60.000 0.00 0.00 0.00 2.67
3697 3770 1.338105 TGAGCCCTGATTGACGTTGAG 60.338 52.381 0.00 0.00 0.00 3.02
3702 3775 2.996621 CCCTGATTGACGTTGAGAGAAC 59.003 50.000 0.00 0.00 0.00 3.01
3706 3779 2.417339 TTGACGTTGAGAGAACGGAG 57.583 50.000 11.27 0.00 46.86 4.63
3710 3783 0.171455 CGTTGAGAGAACGGAGGGAG 59.829 60.000 0.00 0.00 39.73 4.30
3722 3795 1.666011 GAGGGAGACGTGTCAGCAA 59.334 57.895 15.28 0.00 0.00 3.91
3741 3814 4.023707 AGCAACACTATGACAAGAGTTTGC 60.024 41.667 19.38 19.38 39.38 3.68
3800 3873 0.533755 CCATCAGAGATGGCGAACCC 60.534 60.000 12.64 0.00 33.59 4.11
3803 3876 1.079127 CAGAGATGGCGAACCCGTT 60.079 57.895 0.00 0.00 38.24 4.44
3846 3995 5.046591 CCACCCTAGATTTGTTGTAGAGACA 60.047 44.000 0.00 0.00 0.00 3.41
3847 3996 5.869888 CACCCTAGATTTGTTGTAGAGACAC 59.130 44.000 0.00 0.00 34.48 3.67
3900 4049 0.251787 GAAAACCCCATGGCCTCTGT 60.252 55.000 6.09 0.00 33.59 3.41
3905 4054 0.689623 CCCCATGGCCTCTGTATCTC 59.310 60.000 6.09 0.00 0.00 2.75
3919 4068 1.718178 GTATCTCGACGATGCATGCAG 59.282 52.381 26.69 15.79 35.14 4.41
3930 4079 3.735820 CGATGCATGCAGCCACTTTATTT 60.736 43.478 28.76 6.01 44.83 1.40
3944 4093 9.855021 AGCCACTTTATTTATTATTCACACAAC 57.145 29.630 0.00 0.00 0.00 3.32
3957 4106 5.554822 TTCACACAACACCTTACAAAGTC 57.445 39.130 0.00 0.00 0.00 3.01
3985 4134 1.272769 AGTCAGACTAAAGCCACCGTC 59.727 52.381 0.00 0.00 0.00 4.79
4000 4149 1.204941 ACCGTCTAGGCAACATCTGTC 59.795 52.381 0.00 0.00 46.52 3.51
4008 4157 2.076863 GGCAACATCTGTCGCTACTTT 58.923 47.619 0.00 0.00 0.00 2.66
4013 4162 5.502544 GCAACATCTGTCGCTACTTTTATCC 60.503 44.000 0.00 0.00 0.00 2.59
4030 4179 5.715439 TTATCCAGTTGATGAAGGGATGT 57.285 39.130 7.91 0.00 38.72 3.06
4061 4210 5.191722 TCTGGGCCTAATATCAAAACAGACT 59.808 40.000 4.53 0.00 0.00 3.24
4077 4226 3.251571 CAGACTTCGTAGCCAAACCTAC 58.748 50.000 0.00 0.00 35.46 3.18
4089 4238 3.684697 GCCAAACCTACCATCTAAGACCC 60.685 52.174 0.00 0.00 0.00 4.46
4160 4309 0.034059 CACTTCTCAACCAGGACGCT 59.966 55.000 0.00 0.00 0.00 5.07
4163 4312 0.468226 TTCTCAACCAGGACGCTTGT 59.532 50.000 0.00 0.00 0.00 3.16
4174 4323 0.454600 GACGCTTGTCCGGTATGAGA 59.545 55.000 0.00 0.00 36.58 3.27
4183 4332 2.185867 GGTATGAGACCGCCGCAA 59.814 61.111 0.00 0.00 38.87 4.85
4240 4389 2.046285 CATCAACCTTGCCCGGTCC 61.046 63.158 0.00 0.00 35.89 4.46
4254 4403 4.357947 GTCCAGCTGCCGTCGACA 62.358 66.667 17.16 0.00 0.00 4.35
4264 4413 2.257371 CGTCGACACCACCACGAT 59.743 61.111 17.16 0.00 38.27 3.73
4274 4423 2.046892 ACCACGATGCCAGACAGC 60.047 61.111 0.00 0.00 0.00 4.40
4300 4449 2.185350 CCTGCGCGAGTCCATCTT 59.815 61.111 12.10 0.00 0.00 2.40
4314 4463 0.299895 CATCTTCGCACATCAGACGC 59.700 55.000 0.00 0.00 0.00 5.19
4332 4481 4.421479 CGAGTCTTCACGGCGCCT 62.421 66.667 26.68 8.92 0.00 5.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
41 42 7.561722 TGTGCATAAAATAACAATTAGCCCCTA 59.438 33.333 0.00 0.00 0.00 3.53
73 74 0.316360 CGTTCCGACACCCAAAAACG 60.316 55.000 0.00 0.00 34.38 3.60
76 77 1.161563 GCTCGTTCCGACACCCAAAA 61.162 55.000 0.00 0.00 0.00 2.44
147 151 1.203052 CGGTACTAAACGGAGAAGCCA 59.797 52.381 0.00 0.00 35.94 4.75
148 152 1.474077 TCGGTACTAAACGGAGAAGCC 59.526 52.381 0.00 0.00 32.91 4.35
165 169 7.268659 CGTAGAATACATTCTAGTCGATTTCGG 59.731 40.741 11.14 0.00 46.65 4.30
184 188 7.154656 TGCTTCAGTATTGCATATCGTAGAAT 58.845 34.615 0.00 0.00 43.58 2.40
185 189 6.512297 TGCTTCAGTATTGCATATCGTAGAA 58.488 36.000 0.00 0.00 43.58 2.10
268 272 7.065563 ACACAAGGAGTAGTATTAGTACGACTG 59.934 40.741 14.37 5.36 43.82 3.51
317 321 9.239002 GATGTTCTATGACACTAGTGTAATGTC 57.761 37.037 29.31 17.66 45.05 3.06
321 325 7.956328 AGGATGTTCTATGACACTAGTGTAA 57.044 36.000 27.98 21.94 45.05 2.41
337 341 6.656693 CCTCCATTCCATAATGTAGGATGTTC 59.343 42.308 4.23 0.00 46.92 3.18
351 355 2.173569 GCAACTACTCCCTCCATTCCAT 59.826 50.000 0.00 0.00 0.00 3.41
352 356 1.559682 GCAACTACTCCCTCCATTCCA 59.440 52.381 0.00 0.00 0.00 3.53
353 357 1.840635 AGCAACTACTCCCTCCATTCC 59.159 52.381 0.00 0.00 0.00 3.01
354 358 4.162509 ACTTAGCAACTACTCCCTCCATTC 59.837 45.833 0.00 0.00 0.00 2.67
355 359 4.104831 ACTTAGCAACTACTCCCTCCATT 58.895 43.478 0.00 0.00 0.00 3.16
356 360 3.725634 ACTTAGCAACTACTCCCTCCAT 58.274 45.455 0.00 0.00 0.00 3.41
357 361 3.185880 ACTTAGCAACTACTCCCTCCA 57.814 47.619 0.00 0.00 0.00 3.86
358 362 4.554960 AAACTTAGCAACTACTCCCTCC 57.445 45.455 0.00 0.00 0.00 4.30
359 363 6.699366 AGTAAAACTTAGCAACTACTCCCTC 58.301 40.000 0.00 0.00 0.00 4.30
360 364 6.295745 GGAGTAAAACTTAGCAACTACTCCCT 60.296 42.308 12.95 0.00 45.05 4.20
361 365 5.873712 GGAGTAAAACTTAGCAACTACTCCC 59.126 44.000 12.95 0.00 45.05 4.30
362 366 6.964741 GGAGTAAAACTTAGCAACTACTCC 57.035 41.667 9.63 9.63 44.79 3.85
363 367 6.699366 AGGGAGTAAAACTTAGCAACTACTC 58.301 40.000 0.00 0.00 36.23 2.59
364 368 6.683312 AGGGAGTAAAACTTAGCAACTACT 57.317 37.500 0.00 0.00 0.00 2.57
365 369 6.090493 CGAAGGGAGTAAAACTTAGCAACTAC 59.910 42.308 0.00 0.00 0.00 2.73
366 370 6.161381 CGAAGGGAGTAAAACTTAGCAACTA 58.839 40.000 0.00 0.00 0.00 2.24
367 371 4.995487 CGAAGGGAGTAAAACTTAGCAACT 59.005 41.667 0.00 0.00 0.00 3.16
368 372 4.753610 ACGAAGGGAGTAAAACTTAGCAAC 59.246 41.667 0.00 0.00 0.00 4.17
369 373 4.964593 ACGAAGGGAGTAAAACTTAGCAA 58.035 39.130 0.00 0.00 0.00 3.91
370 374 4.612264 ACGAAGGGAGTAAAACTTAGCA 57.388 40.909 0.00 0.00 0.00 3.49
371 375 4.391216 GGAACGAAGGGAGTAAAACTTAGC 59.609 45.833 0.00 0.00 0.00 3.09
372 376 5.544650 TGGAACGAAGGGAGTAAAACTTAG 58.455 41.667 0.00 0.00 0.00 2.18
373 377 5.549742 TGGAACGAAGGGAGTAAAACTTA 57.450 39.130 0.00 0.00 0.00 2.24
374 378 4.426736 TGGAACGAAGGGAGTAAAACTT 57.573 40.909 0.00 0.00 0.00 2.66
375 379 4.635699 ATGGAACGAAGGGAGTAAAACT 57.364 40.909 0.00 0.00 0.00 2.66
376 380 5.350640 CACTATGGAACGAAGGGAGTAAAAC 59.649 44.000 0.00 0.00 0.00 2.43
377 381 5.012354 ACACTATGGAACGAAGGGAGTAAAA 59.988 40.000 0.00 0.00 0.00 1.52
378 382 4.529377 ACACTATGGAACGAAGGGAGTAAA 59.471 41.667 0.00 0.00 0.00 2.01
379 383 4.091549 ACACTATGGAACGAAGGGAGTAA 58.908 43.478 0.00 0.00 0.00 2.24
380 384 3.705051 ACACTATGGAACGAAGGGAGTA 58.295 45.455 0.00 0.00 0.00 2.59
381 385 2.537143 ACACTATGGAACGAAGGGAGT 58.463 47.619 0.00 0.00 0.00 3.85
382 386 4.401519 TCTTACACTATGGAACGAAGGGAG 59.598 45.833 0.00 0.00 0.00 4.30
383 387 4.346730 TCTTACACTATGGAACGAAGGGA 58.653 43.478 0.00 0.00 0.00 4.20
384 388 4.730949 TCTTACACTATGGAACGAAGGG 57.269 45.455 0.00 0.00 0.00 3.95
385 389 5.661458 ACATCTTACACTATGGAACGAAGG 58.339 41.667 0.00 0.00 0.00 3.46
386 390 5.749109 GGACATCTTACACTATGGAACGAAG 59.251 44.000 0.00 0.00 0.00 3.79
387 391 5.186215 TGGACATCTTACACTATGGAACGAA 59.814 40.000 0.00 0.00 0.00 3.85
388 392 4.707934 TGGACATCTTACACTATGGAACGA 59.292 41.667 0.00 0.00 0.00 3.85
389 393 5.006153 TGGACATCTTACACTATGGAACG 57.994 43.478 0.00 0.00 0.00 3.95
390 394 5.812642 CACTGGACATCTTACACTATGGAAC 59.187 44.000 0.00 0.00 0.00 3.62
391 395 5.483937 ACACTGGACATCTTACACTATGGAA 59.516 40.000 0.00 0.00 0.00 3.53
392 396 5.023452 ACACTGGACATCTTACACTATGGA 58.977 41.667 0.00 0.00 0.00 3.41
393 397 5.105351 TGACACTGGACATCTTACACTATGG 60.105 44.000 0.00 0.00 0.00 2.74
394 398 5.965922 TGACACTGGACATCTTACACTATG 58.034 41.667 0.00 0.00 0.00 2.23
395 399 6.605471 TTGACACTGGACATCTTACACTAT 57.395 37.500 0.00 0.00 0.00 2.12
396 400 6.413783 TTTGACACTGGACATCTTACACTA 57.586 37.500 0.00 0.00 0.00 2.74
397 401 4.955811 TTGACACTGGACATCTTACACT 57.044 40.909 0.00 0.00 0.00 3.55
398 402 6.371809 TTTTTGACACTGGACATCTTACAC 57.628 37.500 0.00 0.00 0.00 2.90
418 422 8.893727 CCTCCGTCTCATAAATAAGATGTTTTT 58.106 33.333 0.00 0.00 0.00 1.94
419 423 7.499232 CCCTCCGTCTCATAAATAAGATGTTTT 59.501 37.037 0.00 0.00 0.00 2.43
420 424 6.992715 CCCTCCGTCTCATAAATAAGATGTTT 59.007 38.462 0.00 0.00 0.00 2.83
421 425 6.326583 TCCCTCCGTCTCATAAATAAGATGTT 59.673 38.462 0.00 0.00 0.00 2.71
422 426 5.839063 TCCCTCCGTCTCATAAATAAGATGT 59.161 40.000 0.00 0.00 0.00 3.06
423 427 6.015010 ACTCCCTCCGTCTCATAAATAAGATG 60.015 42.308 0.00 0.00 0.00 2.90
424 428 6.078664 ACTCCCTCCGTCTCATAAATAAGAT 58.921 40.000 0.00 0.00 0.00 2.40
425 429 5.455872 ACTCCCTCCGTCTCATAAATAAGA 58.544 41.667 0.00 0.00 0.00 2.10
426 430 5.793030 ACTCCCTCCGTCTCATAAATAAG 57.207 43.478 0.00 0.00 0.00 1.73
427 431 5.243283 GCTACTCCCTCCGTCTCATAAATAA 59.757 44.000 0.00 0.00 0.00 1.40
428 432 4.765856 GCTACTCCCTCCGTCTCATAAATA 59.234 45.833 0.00 0.00 0.00 1.40
429 433 3.574826 GCTACTCCCTCCGTCTCATAAAT 59.425 47.826 0.00 0.00 0.00 1.40
430 434 2.957006 GCTACTCCCTCCGTCTCATAAA 59.043 50.000 0.00 0.00 0.00 1.40
431 435 2.175069 AGCTACTCCCTCCGTCTCATAA 59.825 50.000 0.00 0.00 0.00 1.90
432 436 1.775459 AGCTACTCCCTCCGTCTCATA 59.225 52.381 0.00 0.00 0.00 2.15
443 447 6.987404 CCTCTGAATTTTTAGTAGCTACTCCC 59.013 42.308 29.28 11.99 37.73 4.30
448 452 7.987458 CCATCACCTCTGAATTTTTAGTAGCTA 59.013 37.037 0.00 0.00 0.00 3.32
463 467 0.107312 CAGCTTCCCCATCACCTCTG 60.107 60.000 0.00 0.00 0.00 3.35
466 470 1.142688 AACCAGCTTCCCCATCACCT 61.143 55.000 0.00 0.00 0.00 4.00
471 475 0.252375 ATTGCAACCAGCTTCCCCAT 60.252 50.000 0.00 0.00 45.94 4.00
475 479 3.674410 GCTTCTAATTGCAACCAGCTTCC 60.674 47.826 0.00 0.00 45.94 3.46
477 481 2.892852 TGCTTCTAATTGCAACCAGCTT 59.107 40.909 0.00 0.00 45.94 3.74
478 482 2.517959 TGCTTCTAATTGCAACCAGCT 58.482 42.857 0.00 0.00 45.94 4.24
480 484 5.824904 ACTATGCTTCTAATTGCAACCAG 57.175 39.130 0.00 1.49 42.74 4.00
521 534 7.592533 CCATTTGAACAGAATATCGCTATTTGG 59.407 37.037 0.00 0.00 0.00 3.28
561 574 7.761704 ACATGCAATTATACGGCAAAATAACAA 59.238 29.630 0.00 0.00 41.43 2.83
565 578 7.032377 TCACATGCAATTATACGGCAAAATA 57.968 32.000 0.00 0.00 41.43 1.40
605 618 1.375551 ATAACGGTTTAAGCAGGGCG 58.624 50.000 0.00 0.00 0.00 6.13
611 624 5.494632 AGCCACATTATAACGGTTTAAGC 57.505 39.130 0.00 0.00 0.00 3.09
647 660 6.304356 TGACTTGTGCACTTCTAATCAAAG 57.696 37.500 19.41 11.85 0.00 2.77
667 680 0.733729 ACACTACGCGGAGAGATGAC 59.266 55.000 28.55 0.00 0.00 3.06
727 740 9.757227 TGAAGTTACAAAATTTAAGAATGGGTG 57.243 29.630 0.00 0.00 0.00 4.61
841 854 5.962433 TGTTTCTCACCTAGTGTAGTATGC 58.038 41.667 0.00 0.00 34.79 3.14
892 905 7.528205 CGCCCCTTTATAGAAGTATAATCCCAA 60.528 40.741 0.00 0.00 32.28 4.12
1149 1165 0.389025 TGTCAGAGAACTTGCTCGCA 59.611 50.000 0.00 0.00 39.87 5.10
1151 1167 2.219674 GTGTTGTCAGAGAACTTGCTCG 59.780 50.000 11.51 0.00 39.87 5.03
1241 1260 4.137543 GAGGTTGGCGATAGGATTTTCAT 58.862 43.478 0.00 0.00 0.00 2.57
1325 1344 0.681564 TTTTGTGGACCAAGCCGTGT 60.682 50.000 0.00 0.00 33.75 4.49
1364 1383 4.057428 GGAGAGCAGCGACGGTGT 62.057 66.667 26.05 14.15 33.19 4.16
1406 1425 5.657745 ACATTGGATGAATTGGATGCACTAA 59.342 36.000 0.00 0.00 0.00 2.24
1516 1544 1.072331 GTTCTTCCTGGAGACAAGGCA 59.928 52.381 0.00 0.00 42.06 4.75
1598 1626 9.275398 ACGAGTTAAACATAGAAACAATGGTAA 57.725 29.630 0.00 0.00 0.00 2.85
1644 1672 2.914734 ATCGGCCTCCCCAATCTCCA 62.915 60.000 0.00 0.00 0.00 3.86
1670 1698 2.100197 CTACGGTCTCTGGGATGTTGA 58.900 52.381 0.00 0.00 0.00 3.18
1693 1721 2.604912 TCAAGTGAGAGCCTGGTCTA 57.395 50.000 0.00 0.00 0.00 2.59
1699 1727 2.373169 TGGTGAAATCAAGTGAGAGCCT 59.627 45.455 0.00 0.00 0.00 4.58
1806 1834 1.157870 CGAACCACACGAGCACCTTT 61.158 55.000 0.00 0.00 0.00 3.11
1846 1877 2.949177 TTTGGTGCAGTGTAGATGGT 57.051 45.000 0.00 0.00 0.00 3.55
1905 1936 2.057830 TGGGACATCGTTGCAGACT 58.942 52.632 0.00 0.00 0.00 3.24
1946 1977 1.272769 GTGATCGTATGGAGTAGCCCC 59.727 57.143 0.00 0.00 34.97 5.80
2115 2155 3.907260 ATCTGCGGTGGTGGCTGTG 62.907 63.158 0.00 0.00 0.00 3.66
2127 2167 1.736126 ACAAGTGAGCATTCATCTGCG 59.264 47.619 0.00 0.00 46.86 5.18
2191 2231 0.828762 TGCCAAATGAAGCAGCCACT 60.829 50.000 0.00 0.00 33.08 4.00
2296 2336 1.496429 AGTGATTGGCCCCCTTCTATG 59.504 52.381 0.00 0.00 0.00 2.23
2309 2349 3.507233 ACCAATAGCAACACCAGTGATTG 59.493 43.478 4.48 6.74 0.00 2.67
2315 2355 1.246649 TGCACCAATAGCAACACCAG 58.753 50.000 0.00 0.00 39.39 4.00
2373 2413 2.356535 CCACCTCCCTTTTCTCATCCAG 60.357 54.545 0.00 0.00 0.00 3.86
2395 2435 3.633525 CCACCCTGAACATTATCACCATG 59.366 47.826 0.00 0.00 0.00 3.66
2753 2811 3.053917 TCCAAGGGCTATTTGGTACCTTC 60.054 47.826 14.36 0.00 44.35 3.46
2795 2853 1.539388 CCCGACAACTAGCATGCAAAA 59.461 47.619 21.98 3.70 0.00 2.44
2865 2923 4.022242 TCCGTGACTTTAGGAGTGAAAGAG 60.022 45.833 2.31 0.00 39.19 2.85
2884 2942 2.075355 TTGCCCATCCCAAAGTCCGT 62.075 55.000 0.00 0.00 0.00 4.69
3001 3059 5.123820 TGCCATAGCTGTAAACATCAACTTC 59.876 40.000 0.00 0.00 40.80 3.01
3041 3099 4.038042 TCGAGTTCCTGTTGCCTGATATAG 59.962 45.833 0.00 0.00 0.00 1.31
3053 3111 3.368531 GGATTGCTTACTCGAGTTCCTGT 60.369 47.826 25.44 6.08 0.00 4.00
3157 3215 4.406456 TCACCCAACAACTTTGCATCTAT 58.594 39.130 0.00 0.00 0.00 1.98
3192 3250 4.706962 ACTTTGCAAACTCTTTCAACCTCT 59.293 37.500 8.05 0.00 0.00 3.69
3248 3306 0.811616 CTCACTCATTGTAGGCCGGC 60.812 60.000 21.18 21.18 0.00 6.13
3293 3351 0.033504 TGGAGGCGTCTCAACTTCAC 59.966 55.000 20.37 0.00 41.69 3.18
3498 3568 4.516698 AGGCATATTTAACCAAGATCTGCG 59.483 41.667 0.00 0.00 0.00 5.18
3518 3588 3.760684 ACCAAGAGATGTCATGAAAAGGC 59.239 43.478 0.00 0.00 0.00 4.35
3583 3653 6.090898 CACCAATACCTATAGTAGCGATTTGC 59.909 42.308 0.00 0.00 46.98 3.68
3588 3658 7.886970 AGTATTCACCAATACCTATAGTAGCGA 59.113 37.037 0.00 0.00 43.93 4.93
3619 3692 7.505258 TCCCGAATGTATTGATTGATTACTGA 58.495 34.615 0.00 0.00 0.00 3.41
3622 3695 7.360438 GCTCTCCCGAATGTATTGATTGATTAC 60.360 40.741 0.00 0.00 0.00 1.89
3654 3727 1.883926 GGTGGGTGCGTGTTTAGATTT 59.116 47.619 0.00 0.00 0.00 2.17
3689 3762 0.109226 CCCTCCGTTCTCTCAACGTC 60.109 60.000 6.18 0.00 41.64 4.34
3697 3770 1.242665 ACACGTCTCCCTCCGTTCTC 61.243 60.000 0.00 0.00 34.59 2.87
3702 3775 2.878429 CTGACACGTCTCCCTCCG 59.122 66.667 0.00 0.00 0.00 4.63
3706 3779 1.069090 TGTTGCTGACACGTCTCCC 59.931 57.895 0.00 0.00 32.00 4.30
3722 3795 3.067106 CCGCAAACTCTTGTCATAGTGT 58.933 45.455 0.00 0.00 34.79 3.55
3727 3800 3.057969 TGATCCGCAAACTCTTGTCAT 57.942 42.857 0.00 0.00 34.79 3.06
3729 3802 3.251004 ACTTTGATCCGCAAACTCTTGTC 59.749 43.478 0.00 0.00 41.37 3.18
3741 3814 4.095610 GCGTAAATTCCAACTTTGATCCG 58.904 43.478 0.00 0.00 0.00 4.18
3800 3873 0.744414 AATGCCACCTCCGATCAACG 60.744 55.000 0.00 0.00 42.18 4.10
3803 3876 1.134220 GGTTAATGCCACCTCCGATCA 60.134 52.381 0.00 0.00 0.00 2.92
3875 4024 1.379843 CCATGGGGTTTTCCTCCGG 60.380 63.158 2.85 0.00 40.45 5.14
3876 4025 2.052104 GCCATGGGGTTTTCCTCCG 61.052 63.158 15.13 0.00 40.45 4.63
3883 4032 1.215423 GATACAGAGGCCATGGGGTTT 59.785 52.381 15.13 0.00 36.17 3.27
3884 4033 0.846693 GATACAGAGGCCATGGGGTT 59.153 55.000 15.13 0.00 36.17 4.11
3890 4039 0.955178 CGTCGAGATACAGAGGCCAT 59.045 55.000 5.01 0.00 0.00 4.40
3891 4040 0.107361 TCGTCGAGATACAGAGGCCA 60.107 55.000 5.01 0.00 0.00 5.36
3900 4049 1.932156 GCTGCATGCATCGTCGAGATA 60.932 52.381 22.97 0.00 42.31 1.98
3905 4054 3.197092 TGGCTGCATGCATCGTCG 61.197 61.111 22.97 10.36 45.15 5.12
3919 4068 9.632807 TGTTGTGTGAATAATAAATAAAGTGGC 57.367 29.630 0.00 0.00 0.00 5.01
3930 4079 9.344772 ACTTTGTAAGGTGTTGTGTGAATAATA 57.655 29.630 0.00 0.00 0.00 0.98
3944 4093 6.481976 TGACTGTTGTATGACTTTGTAAGGTG 59.518 38.462 0.00 0.00 0.00 4.00
3957 4106 5.120830 GTGGCTTTAGTCTGACTGTTGTATG 59.879 44.000 20.19 4.87 0.00 2.39
4000 4149 6.238211 CCTTCATCAACTGGATAAAAGTAGCG 60.238 42.308 0.00 0.00 33.95 4.26
4008 4157 5.715439 ACATCCCTTCATCAACTGGATAA 57.285 39.130 0.00 0.00 34.12 1.75
4013 4162 6.118170 ACTATCAACATCCCTTCATCAACTG 58.882 40.000 0.00 0.00 0.00 3.16
4030 4179 7.387265 TTTGATATTAGGCCCAGACTATCAA 57.613 36.000 14.03 14.03 35.13 2.57
4061 4210 2.835764 AGATGGTAGGTTTGGCTACGAA 59.164 45.455 0.00 0.00 0.00 3.85
4138 4287 1.301716 TCCTGGTTGAGAAGTGCGC 60.302 57.895 0.00 0.00 0.00 6.09
4183 4332 1.803453 ATGGATTGGTGGCAGGTGGT 61.803 55.000 0.00 0.00 0.00 4.16
4240 4389 4.662961 TGGTGTCGACGGCAGCTG 62.663 66.667 29.08 10.11 35.60 4.24
4254 4403 2.347490 GTCTGGCATCGTGGTGGT 59.653 61.111 0.00 0.00 0.00 4.16
4300 4449 3.683587 CTCGGCGTCTGATGTGCGA 62.684 63.158 6.85 0.00 0.00 5.10


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

AutoCloner maintained by Alex Coulton.