Multiple sequence alignment - TraesCS7D01G210800

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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 TraesCS7D01G210800 chr7D 100.000 2501 0 0 1 2501 168812839 168810339 0.000000e+00 4619.0
1 TraesCS7D01G210800 chr7B 93.281 1533 60 14 982 2501 134304395 134302893 0.000000e+00 2220.0
2 TraesCS7D01G210800 chr7B 91.224 980 68 8 18 981 134306853 134305876 0.000000e+00 1317.0
3 TraesCS7D01G210800 chr7A 90.206 970 78 13 18 981 171283091 171282133 0.000000e+00 1249.0
4 TraesCS7D01G210800 chr7A 89.392 773 40 16 1737 2501 171273609 171272871 0.000000e+00 935.0
5 TraesCS7D01G210800 chr7A 91.074 661 44 9 984 1634 171274126 171273471 0.000000e+00 880.0
6 TraesCS7D01G210800 chr1D 86.624 471 42 11 18 482 2454345 2454800 3.710000e-138 501.0
7 TraesCS7D01G210800 chr1D 93.258 89 4 2 1738 1825 298605794 298605707 2.020000e-26 130.0
8 TraesCS7D01G210800 chr1D 86.667 120 10 3 1738 1856 385051944 385051830 7.260000e-26 128.0
9 TraesCS7D01G210800 chr1D 92.683 41 2 1 2462 2501 413790380 413790340 9.660000e-05 58.4
10 TraesCS7D01G210800 chr1B 93.258 89 4 2 1738 1825 402041846 402041759 2.020000e-26 130.0
11 TraesCS7D01G210800 chr1B 86.667 120 10 3 1738 1856 517506943 517506829 7.260000e-26 128.0
12 TraesCS7D01G210800 chr1B 80.435 92 13 5 2272 2362 351170391 351170478 5.770000e-07 65.8
13 TraesCS7D01G210800 chr6B 81.915 94 12 3 2395 2487 118952739 118952828 9.590000e-10 75.0
14 TraesCS7D01G210800 chr2D 100.000 28 0 0 2473 2500 121545393 121545366 4.000000e-03 52.8


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 TraesCS7D01G210800 chr7D 168810339 168812839 2500 True 4619.0 4619 100.0000 1 2501 1 chr7D.!!$R1 2500
1 TraesCS7D01G210800 chr7B 134302893 134306853 3960 True 1768.5 2220 92.2525 18 2501 2 chr7B.!!$R1 2483
2 TraesCS7D01G210800 chr7A 171282133 171283091 958 True 1249.0 1249 90.2060 18 981 1 chr7A.!!$R1 963
3 TraesCS7D01G210800 chr7A 171272871 171274126 1255 True 907.5 935 90.2330 984 2501 2 chr7A.!!$R2 1517

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
447 454 0.76489 TTTGGACAGGTGTGCTAGCT 59.235 50.0 17.23 0.0 37.28 3.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1606 3346 0.17668 ATAGCTCAGCAGGTTCCACG 59.823 55.0 0.0 0.0 0.0 4.94 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
23 24 3.728373 GTTCCCCATGGCCTCCGT 61.728 66.667 6.09 0.00 0.00 4.69
316 323 1.148759 GAGTTTCCGGATGAGCTCGC 61.149 60.000 4.15 3.37 0.00 5.03
439 446 1.002468 CTGCGAAGTTTTGGACAGGTG 60.002 52.381 0.00 0.00 0.00 4.00
440 447 1.021968 GCGAAGTTTTGGACAGGTGT 58.978 50.000 0.00 0.00 0.00 4.16
441 448 1.268539 GCGAAGTTTTGGACAGGTGTG 60.269 52.381 0.00 0.00 0.00 3.82
442 449 1.268539 CGAAGTTTTGGACAGGTGTGC 60.269 52.381 0.00 0.00 36.87 4.57
443 450 2.024414 GAAGTTTTGGACAGGTGTGCT 58.976 47.619 3.16 0.00 37.28 4.40
444 451 3.211045 GAAGTTTTGGACAGGTGTGCTA 58.789 45.455 3.16 0.00 37.28 3.49
445 452 2.851195 AGTTTTGGACAGGTGTGCTAG 58.149 47.619 3.16 0.00 37.28 3.42
446 453 1.266989 GTTTTGGACAGGTGTGCTAGC 59.733 52.381 8.10 8.10 37.28 3.42
447 454 0.764890 TTTGGACAGGTGTGCTAGCT 59.235 50.000 17.23 0.00 37.28 3.32
457 464 1.198637 GTGTGCTAGCTGGCTTCTTTG 59.801 52.381 23.43 0.00 0.00 2.77
459 466 2.290514 TGTGCTAGCTGGCTTCTTTGAT 60.291 45.455 23.43 0.00 0.00 2.57
461 468 3.012518 TGCTAGCTGGCTTCTTTGATTC 58.987 45.455 23.43 0.00 0.00 2.52
462 469 3.277715 GCTAGCTGGCTTCTTTGATTCT 58.722 45.455 15.78 0.00 0.00 2.40
463 470 3.065095 GCTAGCTGGCTTCTTTGATTCTG 59.935 47.826 15.78 0.00 0.00 3.02
464 471 1.817447 AGCTGGCTTCTTTGATTCTGC 59.183 47.619 0.00 0.00 0.00 4.26
465 472 1.542915 GCTGGCTTCTTTGATTCTGCA 59.457 47.619 0.00 0.00 0.00 4.41
467 474 3.553508 GCTGGCTTCTTTGATTCTGCAAA 60.554 43.478 0.00 0.00 36.43 3.68
470 477 3.370061 GGCTTCTTTGATTCTGCAAATGC 59.630 43.478 0.00 0.00 37.16 3.56
471 478 4.243270 GCTTCTTTGATTCTGCAAATGCT 58.757 39.130 6.97 0.00 42.66 3.79
472 479 4.326548 GCTTCTTTGATTCTGCAAATGCTC 59.673 41.667 6.97 0.00 42.66 4.26
473 480 5.710984 CTTCTTTGATTCTGCAAATGCTCT 58.289 37.500 6.97 0.00 42.66 4.09
478 485 6.519679 TTGATTCTGCAAATGCTCTGTAAT 57.480 33.333 6.97 0.05 42.66 1.89
479 486 6.127810 TGATTCTGCAAATGCTCTGTAATC 57.872 37.500 6.97 8.66 42.66 1.75
480 487 4.970662 TTCTGCAAATGCTCTGTAATCC 57.029 40.909 6.97 0.00 42.66 3.01
481 488 3.282021 TCTGCAAATGCTCTGTAATCCC 58.718 45.455 6.97 0.00 42.66 3.85
482 489 2.360165 CTGCAAATGCTCTGTAATCCCC 59.640 50.000 6.97 0.00 42.66 4.81
483 490 1.683385 GCAAATGCTCTGTAATCCCCC 59.317 52.381 0.00 0.00 38.21 5.40
484 491 2.949963 GCAAATGCTCTGTAATCCCCCA 60.950 50.000 0.00 0.00 38.21 4.96
487 494 5.327732 CAAATGCTCTGTAATCCCCCATAT 58.672 41.667 0.00 0.00 0.00 1.78
510 526 7.664552 ATTAGATCTGAATTTGGCATTTGGA 57.335 32.000 5.18 0.00 0.00 3.53
520 536 2.795329 TGGCATTTGGACTCCTTTCTC 58.205 47.619 0.00 0.00 0.00 2.87
523 539 2.675348 GCATTTGGACTCCTTTCTCTCG 59.325 50.000 0.00 0.00 0.00 4.04
553 569 6.891361 TGATGAACTGGAATATTGTGACCATT 59.109 34.615 0.00 0.00 0.00 3.16
573 589 2.507484 TGATTGGAGCAGGTTCTTGTG 58.493 47.619 0.00 0.00 0.00 3.33
603 619 4.261072 CCAAATCCAAATGAGATGCTCTCG 60.261 45.833 8.15 0.00 46.25 4.04
622 638 2.341101 GGAGGCCGAGACTGACGAA 61.341 63.158 0.00 0.00 0.00 3.85
845 861 3.802418 GACGGGTTCACCAGCACGT 62.802 63.158 0.00 0.00 40.22 4.49
865 881 2.033793 CTCGCCGGAGAAGCTCATA 58.966 57.895 9.83 0.00 43.27 2.15
883 899 6.211584 AGCTCATATACGTCCTGGAAATGTAT 59.788 38.462 16.77 16.77 0.00 2.29
894 910 4.080356 CCTGGAAATGTATGAGGTCCTTGA 60.080 45.833 0.00 0.00 0.00 3.02
898 914 5.338381 GGAAATGTATGAGGTCCTTGACAGA 60.338 44.000 0.00 0.00 33.68 3.41
902 918 1.722034 TGAGGTCCTTGACAGAGCTT 58.278 50.000 0.00 0.00 41.94 3.74
903 919 1.620819 TGAGGTCCTTGACAGAGCTTC 59.379 52.381 0.00 0.00 41.94 3.86
996 2492 1.686325 AAGCCGTGATCACCGCCTAT 61.686 55.000 28.19 16.28 36.45 2.57
1011 2507 1.073722 CTATGCCATGCACCCGGAT 59.926 57.895 0.73 0.00 43.04 4.18
1047 2543 1.741145 GTGTCTTGTGGAAACAACCGT 59.259 47.619 0.00 0.00 46.06 4.83
1127 2626 1.515521 GACTGGGTGTTGCCTTTCCG 61.516 60.000 0.00 0.00 37.43 4.30
1491 2995 0.464916 AGTTTTCTCCCGTGGCGTTT 60.465 50.000 0.00 0.00 0.00 3.60
1503 3243 2.931325 CGTGGCGTTTTGGTTATAGCTA 59.069 45.455 0.00 0.00 0.00 3.32
1504 3244 3.558418 CGTGGCGTTTTGGTTATAGCTAT 59.442 43.478 11.77 11.77 0.00 2.97
1505 3245 4.034742 CGTGGCGTTTTGGTTATAGCTATT 59.965 41.667 12.39 0.00 0.00 1.73
1506 3246 5.448089 CGTGGCGTTTTGGTTATAGCTATTT 60.448 40.000 12.39 0.00 0.00 1.40
1507 3247 5.741982 GTGGCGTTTTGGTTATAGCTATTTG 59.258 40.000 12.39 0.00 0.00 2.32
1508 3248 4.738252 GGCGTTTTGGTTATAGCTATTTGC 59.262 41.667 12.39 2.66 43.29 3.68
1520 3260 2.340337 GCTATTTGCTGTTTGGCTTGG 58.660 47.619 0.00 0.00 38.95 3.61
1521 3261 2.289010 GCTATTTGCTGTTTGGCTTGGT 60.289 45.455 0.00 0.00 38.95 3.67
1522 3262 3.803368 GCTATTTGCTGTTTGGCTTGGTT 60.803 43.478 0.00 0.00 38.95 3.67
1523 3263 2.021355 TTTGCTGTTTGGCTTGGTTG 57.979 45.000 0.00 0.00 0.00 3.77
1524 3264 0.461693 TTGCTGTTTGGCTTGGTTGC 60.462 50.000 0.00 0.00 0.00 4.17
1550 3290 6.210287 TGCAATGCATATTTGTCATTCTCA 57.790 33.333 2.72 3.63 31.71 3.27
1551 3291 6.811954 TGCAATGCATATTTGTCATTCTCAT 58.188 32.000 2.72 0.00 31.71 2.90
1552 3292 6.699642 TGCAATGCATATTTGTCATTCTCATG 59.300 34.615 2.72 0.00 31.71 3.07
1553 3293 6.145534 GCAATGCATATTTGTCATTCTCATGG 59.854 38.462 0.00 0.00 31.55 3.66
1554 3294 7.430441 CAATGCATATTTGTCATTCTCATGGA 58.570 34.615 0.00 0.00 31.55 3.41
1555 3295 7.776618 ATGCATATTTGTCATTCTCATGGAT 57.223 32.000 0.00 0.00 0.00 3.41
1556 3296 7.210718 TGCATATTTGTCATTCTCATGGATC 57.789 36.000 0.00 0.00 0.00 3.36
1557 3297 7.002276 TGCATATTTGTCATTCTCATGGATCT 58.998 34.615 0.00 0.00 0.00 2.75
1558 3298 7.040686 TGCATATTTGTCATTCTCATGGATCTG 60.041 37.037 0.00 0.00 0.00 2.90
1559 3299 7.174426 GCATATTTGTCATTCTCATGGATCTGA 59.826 37.037 0.00 0.00 0.00 3.27
1560 3300 9.063615 CATATTTGTCATTCTCATGGATCTGAA 57.936 33.333 0.00 0.00 0.00 3.02
1561 3301 9.809395 ATATTTGTCATTCTCATGGATCTGAAT 57.191 29.630 0.00 0.00 0.00 2.57
1562 3302 7.949690 TTTGTCATTCTCATGGATCTGAATT 57.050 32.000 0.00 0.00 0.00 2.17
1563 3303 9.636789 ATTTGTCATTCTCATGGATCTGAATTA 57.363 29.630 0.00 0.00 0.00 1.40
1564 3304 8.672823 TTGTCATTCTCATGGATCTGAATTAG 57.327 34.615 0.00 0.00 0.00 1.73
1565 3305 7.799081 TGTCATTCTCATGGATCTGAATTAGT 58.201 34.615 0.00 0.00 0.00 2.24
1566 3306 8.927411 TGTCATTCTCATGGATCTGAATTAGTA 58.073 33.333 0.00 0.00 0.00 1.82
1567 3307 9.202273 GTCATTCTCATGGATCTGAATTAGTAC 57.798 37.037 0.00 0.00 0.00 2.73
1568 3308 8.084684 TCATTCTCATGGATCTGAATTAGTACG 58.915 37.037 0.00 0.00 0.00 3.67
1569 3309 7.582667 TTCTCATGGATCTGAATTAGTACGA 57.417 36.000 0.00 0.00 0.00 3.43
1570 3310 7.767250 TCTCATGGATCTGAATTAGTACGAT 57.233 36.000 0.00 0.00 0.00 3.73
1571 3311 8.183104 TCTCATGGATCTGAATTAGTACGATT 57.817 34.615 0.00 0.00 0.00 3.34
1572 3312 8.642432 TCTCATGGATCTGAATTAGTACGATTT 58.358 33.333 0.00 0.00 0.00 2.17
1573 3313 8.593492 TCATGGATCTGAATTAGTACGATTTG 57.407 34.615 0.00 0.00 0.00 2.32
1574 3314 8.204160 TCATGGATCTGAATTAGTACGATTTGT 58.796 33.333 0.00 0.00 0.00 2.83
1575 3315 8.491152 CATGGATCTGAATTAGTACGATTTGTC 58.509 37.037 0.00 0.00 0.00 3.18
1576 3316 6.695713 TGGATCTGAATTAGTACGATTTGTCG 59.304 38.462 0.00 0.00 39.31 4.35
1577 3317 5.944049 TCTGAATTAGTACGATTTGTCGC 57.056 39.130 0.00 0.00 36.44 5.19
1578 3318 5.404096 TCTGAATTAGTACGATTTGTCGCA 58.596 37.500 0.00 0.00 36.44 5.10
1579 3319 5.865013 TCTGAATTAGTACGATTTGTCGCAA 59.135 36.000 0.00 0.00 36.44 4.85
1580 3320 6.533723 TCTGAATTAGTACGATTTGTCGCAAT 59.466 34.615 0.00 0.00 36.44 3.56
1581 3321 6.474364 TGAATTAGTACGATTTGTCGCAATG 58.526 36.000 0.00 0.00 36.44 2.82
1582 3322 6.311690 TGAATTAGTACGATTTGTCGCAATGA 59.688 34.615 0.00 0.00 36.44 2.57
1583 3323 6.656314 ATTAGTACGATTTGTCGCAATGAA 57.344 33.333 0.00 0.00 36.44 2.57
1584 3324 6.469139 TTAGTACGATTTGTCGCAATGAAA 57.531 33.333 0.00 0.00 36.44 2.69
1585 3325 4.708601 AGTACGATTTGTCGCAATGAAAC 58.291 39.130 0.00 0.00 36.44 2.78
1586 3326 3.896648 ACGATTTGTCGCAATGAAACT 57.103 38.095 0.00 0.00 36.44 2.66
1587 3327 4.223320 ACGATTTGTCGCAATGAAACTT 57.777 36.364 0.00 0.00 36.44 2.66
1588 3328 3.974401 ACGATTTGTCGCAATGAAACTTG 59.026 39.130 0.00 0.00 36.44 3.16
1589 3329 3.181550 CGATTTGTCGCAATGAAACTTGC 60.182 43.478 0.00 0.00 46.35 4.01
1598 3338 5.086888 GCAATGAAACTTGCTTCTTTTGG 57.913 39.130 1.72 0.00 46.32 3.28
1599 3339 4.571984 GCAATGAAACTTGCTTCTTTTGGT 59.428 37.500 1.72 0.00 46.32 3.67
1600 3340 5.752955 GCAATGAAACTTGCTTCTTTTGGTA 59.247 36.000 1.72 0.00 46.32 3.25
1601 3341 6.257630 GCAATGAAACTTGCTTCTTTTGGTAA 59.742 34.615 1.72 0.00 46.32 2.85
1602 3342 7.041848 GCAATGAAACTTGCTTCTTTTGGTAAT 60.042 33.333 1.72 0.00 46.32 1.89
1603 3343 8.829612 CAATGAAACTTGCTTCTTTTGGTAATT 58.170 29.630 0.00 0.00 0.00 1.40
1604 3344 8.962884 ATGAAACTTGCTTCTTTTGGTAATTT 57.037 26.923 0.00 0.00 0.00 1.82
1605 3345 8.785329 TGAAACTTGCTTCTTTTGGTAATTTT 57.215 26.923 0.00 0.00 0.00 1.82
1606 3346 8.878769 TGAAACTTGCTTCTTTTGGTAATTTTC 58.121 29.630 0.00 0.00 32.24 2.29
1607 3347 7.463469 AACTTGCTTCTTTTGGTAATTTTCG 57.537 32.000 0.00 0.00 0.00 3.46
1608 3348 6.569780 ACTTGCTTCTTTTGGTAATTTTCGT 58.430 32.000 0.00 0.00 0.00 3.85
1609 3349 6.475402 ACTTGCTTCTTTTGGTAATTTTCGTG 59.525 34.615 0.00 0.00 0.00 4.35
1610 3350 5.285651 TGCTTCTTTTGGTAATTTTCGTGG 58.714 37.500 0.00 0.00 0.00 4.94
1611 3351 5.067936 TGCTTCTTTTGGTAATTTTCGTGGA 59.932 36.000 0.00 0.00 0.00 4.02
1612 3352 5.980715 GCTTCTTTTGGTAATTTTCGTGGAA 59.019 36.000 0.00 0.00 0.00 3.53
1613 3353 6.074516 GCTTCTTTTGGTAATTTTCGTGGAAC 60.075 38.462 0.00 0.00 0.00 3.62
1614 3354 5.834169 TCTTTTGGTAATTTTCGTGGAACC 58.166 37.500 0.00 0.00 0.00 3.62
1615 3355 5.595133 TCTTTTGGTAATTTTCGTGGAACCT 59.405 36.000 0.00 0.00 0.00 3.50
1616 3356 4.839668 TTGGTAATTTTCGTGGAACCTG 57.160 40.909 0.00 0.00 0.00 4.00
1617 3357 2.554893 TGGTAATTTTCGTGGAACCTGC 59.445 45.455 0.00 0.00 0.00 4.85
1618 3358 2.817844 GGTAATTTTCGTGGAACCTGCT 59.182 45.455 0.00 0.00 0.00 4.24
1619 3359 3.365969 GGTAATTTTCGTGGAACCTGCTG 60.366 47.826 0.00 0.00 0.00 4.41
1620 3360 2.270352 ATTTTCGTGGAACCTGCTGA 57.730 45.000 0.00 0.00 0.00 4.26
1621 3361 1.593196 TTTTCGTGGAACCTGCTGAG 58.407 50.000 0.00 0.00 0.00 3.35
1622 3362 0.884704 TTTCGTGGAACCTGCTGAGC 60.885 55.000 0.00 0.00 0.00 4.26
1623 3363 1.758440 TTCGTGGAACCTGCTGAGCT 61.758 55.000 5.83 0.00 0.00 4.09
1624 3364 0.898326 TCGTGGAACCTGCTGAGCTA 60.898 55.000 5.83 0.00 0.00 3.32
1625 3365 0.176680 CGTGGAACCTGCTGAGCTAT 59.823 55.000 5.83 0.00 0.00 2.97
1626 3366 1.804372 CGTGGAACCTGCTGAGCTATC 60.804 57.143 5.83 0.00 0.00 2.08
1627 3367 0.833287 TGGAACCTGCTGAGCTATCC 59.167 55.000 5.83 8.55 0.00 2.59
1628 3368 1.127343 GGAACCTGCTGAGCTATCCT 58.873 55.000 5.83 0.00 0.00 3.24
1629 3369 1.488393 GGAACCTGCTGAGCTATCCTT 59.512 52.381 5.83 0.00 0.00 3.36
1630 3370 2.700897 GGAACCTGCTGAGCTATCCTTA 59.299 50.000 5.83 0.00 0.00 2.69
1631 3371 3.493524 GGAACCTGCTGAGCTATCCTTAC 60.494 52.174 5.83 0.00 0.00 2.34
1632 3372 3.039252 ACCTGCTGAGCTATCCTTACT 57.961 47.619 5.83 0.00 0.00 2.24
1633 3373 4.186077 ACCTGCTGAGCTATCCTTACTA 57.814 45.455 5.83 0.00 0.00 1.82
1634 3374 4.746466 ACCTGCTGAGCTATCCTTACTAT 58.254 43.478 5.83 0.00 0.00 2.12
1635 3375 5.151454 ACCTGCTGAGCTATCCTTACTATT 58.849 41.667 5.83 0.00 0.00 1.73
1636 3376 6.315714 ACCTGCTGAGCTATCCTTACTATTA 58.684 40.000 5.83 0.00 0.00 0.98
1637 3377 6.435904 ACCTGCTGAGCTATCCTTACTATTAG 59.564 42.308 5.83 0.00 0.00 1.73
1638 3378 6.435904 CCTGCTGAGCTATCCTTACTATTAGT 59.564 42.308 5.83 1.30 0.00 2.24
1639 3379 7.612244 CCTGCTGAGCTATCCTTACTATTAGTA 59.388 40.741 5.83 0.00 0.00 1.82
1640 3380 8.568676 TGCTGAGCTATCCTTACTATTAGTAG 57.431 38.462 5.83 0.00 31.47 2.57
1641 3381 7.121463 TGCTGAGCTATCCTTACTATTAGTAGC 59.879 40.741 5.83 5.08 31.47 3.58
1642 3382 7.121463 GCTGAGCTATCCTTACTATTAGTAGCA 59.879 40.741 13.68 0.00 36.45 3.49
1643 3383 8.935614 TGAGCTATCCTTACTATTAGTAGCAA 57.064 34.615 13.68 2.71 36.45 3.91
1644 3384 9.363401 TGAGCTATCCTTACTATTAGTAGCAAA 57.637 33.333 13.68 2.44 36.45 3.68
1660 3400 6.438763 AGTAGCAAAAGAGTTTGTATGTTGC 58.561 36.000 0.00 0.00 45.06 4.17
1661 3401 5.261209 AGCAAAAGAGTTTGTATGTTGCA 57.739 34.783 8.05 0.00 45.06 4.08
1662 3402 5.659463 AGCAAAAGAGTTTGTATGTTGCAA 58.341 33.333 0.00 0.00 45.06 4.08
1663 3403 6.282930 AGCAAAAGAGTTTGTATGTTGCAAT 58.717 32.000 0.59 0.00 45.06 3.56
1664 3404 6.201425 AGCAAAAGAGTTTGTATGTTGCAATG 59.799 34.615 0.59 0.00 45.06 2.82
1665 3405 6.564499 GCAAAAGAGTTTGTATGTTGCAATGG 60.564 38.462 0.59 0.00 45.06 3.16
1666 3406 6.403866 AAAGAGTTTGTATGTTGCAATGGA 57.596 33.333 0.59 0.00 0.00 3.41
1667 3407 6.403866 AAGAGTTTGTATGTTGCAATGGAA 57.596 33.333 0.59 0.00 0.00 3.53
1668 3408 6.017400 AGAGTTTGTATGTTGCAATGGAAG 57.983 37.500 0.59 0.00 0.00 3.46
1669 3409 4.559153 AGTTTGTATGTTGCAATGGAAGC 58.441 39.130 0.59 0.00 0.00 3.86
1670 3410 4.039004 AGTTTGTATGTTGCAATGGAAGCA 59.961 37.500 0.59 0.00 40.85 3.91
1671 3411 4.804868 TTGTATGTTGCAATGGAAGCAT 57.195 36.364 0.59 2.61 42.33 3.79
1672 3412 5.911378 TTGTATGTTGCAATGGAAGCATA 57.089 34.783 0.59 1.54 42.33 3.14
1673 3413 5.247507 TGTATGTTGCAATGGAAGCATAC 57.752 39.130 20.46 20.46 42.33 2.39
1674 3414 4.704057 TGTATGTTGCAATGGAAGCATACA 59.296 37.500 23.70 23.70 43.25 2.29
1675 3415 5.360429 TGTATGTTGCAATGGAAGCATACAT 59.640 36.000 23.70 13.63 41.73 2.29
1676 3416 4.804868 TGTTGCAATGGAAGCATACATT 57.195 36.364 0.59 0.00 42.33 2.71
1677 3417 5.149973 TGTTGCAATGGAAGCATACATTT 57.850 34.783 0.59 0.00 42.33 2.32
1678 3418 5.549347 TGTTGCAATGGAAGCATACATTTT 58.451 33.333 0.59 0.00 42.33 1.82
1679 3419 6.695429 TGTTGCAATGGAAGCATACATTTTA 58.305 32.000 0.59 0.00 42.33 1.52
1680 3420 7.329499 TGTTGCAATGGAAGCATACATTTTAT 58.671 30.769 0.59 0.00 42.33 1.40
1681 3421 7.823310 TGTTGCAATGGAAGCATACATTTTATT 59.177 29.630 0.59 0.00 42.33 1.40
1682 3422 8.330302 GTTGCAATGGAAGCATACATTTTATTC 58.670 33.333 0.59 0.00 42.33 1.75
1683 3423 7.784037 TGCAATGGAAGCATACATTTTATTCT 58.216 30.769 0.00 0.00 37.02 2.40
1684 3424 8.911965 TGCAATGGAAGCATACATTTTATTCTA 58.088 29.630 0.00 0.00 37.02 2.10
1685 3425 9.918630 GCAATGGAAGCATACATTTTATTCTAT 57.081 29.630 0.00 0.00 35.26 1.98
1688 3428 8.995027 TGGAAGCATACATTTTATTCTATGGT 57.005 30.769 0.00 0.00 0.00 3.55
1689 3429 9.420118 TGGAAGCATACATTTTATTCTATGGTT 57.580 29.630 0.00 0.00 39.07 3.67
1690 3430 9.899226 GGAAGCATACATTTTATTCTATGGTTC 57.101 33.333 15.31 15.31 45.20 3.62
1720 3460 8.926374 ACCAATCCTCAATAAAATTCATATGCA 58.074 29.630 0.00 0.00 0.00 3.96
1721 3461 9.938280 CCAATCCTCAATAAAATTCATATGCAT 57.062 29.630 3.79 3.79 0.00 3.96
1726 3466 9.976511 CCTCAATAAAATTCATATGCATCAAGT 57.023 29.630 0.19 0.00 0.00 3.16
1740 3480 3.961182 CATCAAGTGCCATTGTCATAGC 58.039 45.455 0.00 0.00 0.00 2.97
1741 3481 3.354948 TCAAGTGCCATTGTCATAGCT 57.645 42.857 0.00 0.00 0.00 3.32
1861 3602 4.157840 GCCCATTTTTGTGGAACCTACTAG 59.842 45.833 0.00 0.00 42.02 2.57
2014 3758 3.128589 TGTTTGCTCGCTTCTTTCTTGTT 59.871 39.130 0.00 0.00 0.00 2.83
2015 3759 3.609103 TTGCTCGCTTCTTTCTTGTTC 57.391 42.857 0.00 0.00 0.00 3.18
2016 3760 1.873591 TGCTCGCTTCTTTCTTGTTCC 59.126 47.619 0.00 0.00 0.00 3.62
2017 3761 1.197949 GCTCGCTTCTTTCTTGTTCCC 59.802 52.381 0.00 0.00 0.00 3.97
2018 3762 2.772287 CTCGCTTCTTTCTTGTTCCCT 58.228 47.619 0.00 0.00 0.00 4.20
2019 3763 2.739379 CTCGCTTCTTTCTTGTTCCCTC 59.261 50.000 0.00 0.00 0.00 4.30
2020 3764 1.807142 CGCTTCTTTCTTGTTCCCTCC 59.193 52.381 0.00 0.00 0.00 4.30
2021 3765 2.163509 GCTTCTTTCTTGTTCCCTCCC 58.836 52.381 0.00 0.00 0.00 4.30
2022 3766 2.796557 CTTCTTTCTTGTTCCCTCCCC 58.203 52.381 0.00 0.00 0.00 4.81
2023 3767 1.827792 TCTTTCTTGTTCCCTCCCCA 58.172 50.000 0.00 0.00 0.00 4.96
2112 3869 3.943671 TTTCCCTTGTTGGACTGAGAA 57.056 42.857 0.00 0.00 38.35 2.87
2128 3885 5.199723 ACTGAGAACATCTCTAGCAGATCA 58.800 41.667 8.68 0.00 43.73 2.92
2154 3911 1.379527 GGTCCATACCGCAAAAGAGG 58.620 55.000 0.00 0.00 35.62 3.69
2177 3934 7.222161 AGGTTTCCGATATACCCTAAAACATC 58.778 38.462 0.00 0.00 32.20 3.06
2181 3938 4.561938 CCGATATACCCTAAAACATCGGCA 60.562 45.833 7.77 0.00 45.68 5.69
2195 3952 4.711980 GGCACGACTATGTCTCGG 57.288 61.111 0.00 0.00 35.37 4.63
2197 3954 0.525668 GGCACGACTATGTCTCGGTG 60.526 60.000 0.00 0.00 35.37 4.94
2201 3958 1.135373 ACGACTATGTCTCGGTGCAAG 60.135 52.381 0.00 0.00 35.37 4.01
2410 4175 8.943594 TGTTAAATGTGTATAGGGAAAAACCT 57.056 30.769 0.00 0.00 44.75 3.50
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 4.856801 CGGAGGCCATGGGGAACG 62.857 72.222 15.13 0.00 35.59 3.95
6 7 3.728373 ACGGAGGCCATGGGGAAC 61.728 66.667 15.13 0.00 35.59 3.62
7 8 3.727258 CACGGAGGCCATGGGGAA 61.727 66.667 15.13 0.00 35.59 3.97
107 108 1.959226 GAGCTTGTGGACGGCGAAA 60.959 57.895 16.62 0.00 0.00 3.46
272 279 1.144936 CGAGAAGACATCAGGCCCC 59.855 63.158 0.00 0.00 0.00 5.80
341 348 3.029570 CAGTGAGATCTCATGGAGGACA 58.970 50.000 27.51 0.00 42.18 4.02
431 438 1.078848 CCAGCTAGCACACCTGTCC 60.079 63.158 18.83 0.00 0.00 4.02
439 446 1.813513 TCAAAGAAGCCAGCTAGCAC 58.186 50.000 18.83 5.87 34.23 4.40
440 447 2.795231 ATCAAAGAAGCCAGCTAGCA 57.205 45.000 18.83 0.00 34.23 3.49
441 448 3.065095 CAGAATCAAAGAAGCCAGCTAGC 59.935 47.826 6.62 6.62 0.00 3.42
442 449 3.065095 GCAGAATCAAAGAAGCCAGCTAG 59.935 47.826 0.00 0.00 0.00 3.42
443 450 3.012518 GCAGAATCAAAGAAGCCAGCTA 58.987 45.455 0.00 0.00 0.00 3.32
444 451 1.817447 GCAGAATCAAAGAAGCCAGCT 59.183 47.619 0.00 0.00 0.00 4.24
445 452 1.542915 TGCAGAATCAAAGAAGCCAGC 59.457 47.619 0.00 0.00 0.00 4.85
446 453 3.928727 TTGCAGAATCAAAGAAGCCAG 57.071 42.857 0.00 0.00 0.00 4.85
447 454 4.562082 CATTTGCAGAATCAAAGAAGCCA 58.438 39.130 0.00 0.00 39.06 4.75
448 455 3.370061 GCATTTGCAGAATCAAAGAAGCC 59.630 43.478 0.00 0.00 39.06 4.35
449 456 4.243270 AGCATTTGCAGAATCAAAGAAGC 58.757 39.130 5.20 0.00 45.16 3.86
451 458 5.010314 ACAGAGCATTTGCAGAATCAAAGAA 59.990 36.000 5.20 0.00 45.16 2.52
457 464 5.506982 GGGATTACAGAGCATTTGCAGAATC 60.507 44.000 5.20 6.00 45.16 2.52
459 466 3.696051 GGGATTACAGAGCATTTGCAGAA 59.304 43.478 5.20 0.00 45.16 3.02
461 468 2.360165 GGGGATTACAGAGCATTTGCAG 59.640 50.000 5.20 0.00 45.16 4.41
462 469 2.378038 GGGGATTACAGAGCATTTGCA 58.622 47.619 5.20 0.00 45.16 4.08
463 470 1.683385 GGGGGATTACAGAGCATTTGC 59.317 52.381 0.00 0.00 42.49 3.68
464 471 3.017048 TGGGGGATTACAGAGCATTTG 57.983 47.619 0.00 0.00 0.00 2.32
465 472 3.979501 ATGGGGGATTACAGAGCATTT 57.020 42.857 0.00 0.00 0.00 2.32
467 474 6.032039 TCTAATATGGGGGATTACAGAGCAT 58.968 40.000 0.00 0.00 0.00 3.79
470 477 7.621285 TCAGATCTAATATGGGGGATTACAGAG 59.379 40.741 0.00 0.00 0.00 3.35
471 478 7.487338 TCAGATCTAATATGGGGGATTACAGA 58.513 38.462 0.00 0.00 0.00 3.41
472 479 7.739995 TCAGATCTAATATGGGGGATTACAG 57.260 40.000 0.00 0.00 0.00 2.74
473 480 8.700145 ATTCAGATCTAATATGGGGGATTACA 57.300 34.615 0.00 0.00 0.00 2.41
478 485 6.750930 GCCAAATTCAGATCTAATATGGGGGA 60.751 42.308 12.81 0.00 0.00 4.81
479 486 5.420104 GCCAAATTCAGATCTAATATGGGGG 59.580 44.000 12.81 3.59 0.00 5.40
480 487 6.012113 TGCCAAATTCAGATCTAATATGGGG 58.988 40.000 12.81 4.65 0.00 4.96
481 488 7.713734 ATGCCAAATTCAGATCTAATATGGG 57.286 36.000 12.81 5.83 0.00 4.00
482 489 9.419297 CAAATGCCAAATTCAGATCTAATATGG 57.581 33.333 0.00 2.22 0.00 2.74
483 490 9.419297 CCAAATGCCAAATTCAGATCTAATATG 57.581 33.333 0.00 0.00 0.00 1.78
484 491 9.370930 TCCAAATGCCAAATTCAGATCTAATAT 57.629 29.630 0.00 0.00 0.00 1.28
487 494 6.664816 AGTCCAAATGCCAAATTCAGATCTAA 59.335 34.615 0.00 0.00 0.00 2.10
510 526 1.181786 CAGCTCCGAGAGAAAGGAGT 58.818 55.000 12.39 0.00 43.96 3.85
520 536 0.820226 TCCAGTTCATCAGCTCCGAG 59.180 55.000 0.00 0.00 0.00 4.63
523 539 5.008415 CACAATATTCCAGTTCATCAGCTCC 59.992 44.000 0.00 0.00 0.00 4.70
527 543 5.882000 TGGTCACAATATTCCAGTTCATCAG 59.118 40.000 0.00 0.00 0.00 2.90
553 569 2.507484 CACAAGAACCTGCTCCAATCA 58.493 47.619 0.00 0.00 0.00 2.57
603 619 3.827898 CGTCAGTCTCGGCCTCCC 61.828 72.222 0.00 0.00 0.00 4.30
616 632 3.619929 TCTCGTAACTGATCGATTCGTCA 59.380 43.478 5.89 8.27 35.57 4.35
634 650 0.031585 TCCACCACTTGACGTTCTCG 59.968 55.000 0.00 0.00 43.34 4.04
642 658 2.099652 CTCCGCTGTCCACCACTTGA 62.100 60.000 0.00 0.00 0.00 3.02
644 660 2.743718 CTCCGCTGTCCACCACTT 59.256 61.111 0.00 0.00 0.00 3.16
845 861 4.135153 GAGCTTCTCCGGCGAGCA 62.135 66.667 18.62 0.55 38.85 4.26
865 881 4.654262 ACCTCATACATTTCCAGGACGTAT 59.346 41.667 0.00 0.00 0.00 3.06
883 899 1.620819 GAAGCTCTGTCAAGGACCTCA 59.379 52.381 0.00 0.00 0.00 3.86
894 910 3.334054 GCCCAGGGGAAGCTCTGT 61.334 66.667 7.91 0.00 37.50 3.41
996 2492 4.818863 CCATCCGGGTGCATGGCA 62.819 66.667 9.99 0.00 33.37 4.92
1011 2507 1.285950 CACGAAGAGAGTGCGTCCA 59.714 57.895 0.00 0.00 35.90 4.02
1047 2543 1.078072 GGTGTGGTGGTGTGTGTCA 60.078 57.895 0.00 0.00 0.00 3.58
1127 2626 2.194271 CGTCGAAGTAGCCCTGATTTC 58.806 52.381 0.00 0.00 0.00 2.17
1503 3243 2.563702 CAACCAAGCCAAACAGCAAAT 58.436 42.857 0.00 0.00 34.23 2.32
1504 3244 2.011046 GCAACCAAGCCAAACAGCAAA 61.011 47.619 0.00 0.00 34.23 3.68
1505 3245 0.461693 GCAACCAAGCCAAACAGCAA 60.462 50.000 0.00 0.00 34.23 3.91
1506 3246 1.143620 GCAACCAAGCCAAACAGCA 59.856 52.632 0.00 0.00 34.23 4.41
1507 3247 4.032356 GCAACCAAGCCAAACAGC 57.968 55.556 0.00 0.00 0.00 4.40
1527 3267 6.210287 TGAGAATGACAAATATGCATTGCA 57.790 33.333 14.72 14.72 44.86 4.08
1528 3268 6.145534 CCATGAGAATGACAAATATGCATTGC 59.854 38.462 3.54 0.46 35.14 3.56
1529 3269 7.430441 TCCATGAGAATGACAAATATGCATTG 58.570 34.615 3.54 0.00 35.14 2.82
1530 3270 7.591421 TCCATGAGAATGACAAATATGCATT 57.409 32.000 3.54 0.00 36.59 3.56
1531 3271 7.670140 AGATCCATGAGAATGACAAATATGCAT 59.330 33.333 3.79 3.79 0.00 3.96
1532 3272 7.002276 AGATCCATGAGAATGACAAATATGCA 58.998 34.615 0.00 0.00 0.00 3.96
1533 3273 7.174426 TCAGATCCATGAGAATGACAAATATGC 59.826 37.037 0.00 0.00 0.00 3.14
1534 3274 8.617290 TCAGATCCATGAGAATGACAAATATG 57.383 34.615 0.00 0.00 0.00 1.78
1535 3275 9.809395 ATTCAGATCCATGAGAATGACAAATAT 57.191 29.630 0.00 0.00 30.13 1.28
1536 3276 9.636789 AATTCAGATCCATGAGAATGACAAATA 57.363 29.630 0.00 0.00 31.58 1.40
1537 3277 8.534954 AATTCAGATCCATGAGAATGACAAAT 57.465 30.769 0.00 0.00 31.58 2.32
1538 3278 7.949690 AATTCAGATCCATGAGAATGACAAA 57.050 32.000 0.00 0.00 31.58 2.83
1539 3279 8.270030 ACTAATTCAGATCCATGAGAATGACAA 58.730 33.333 0.00 0.00 31.58 3.18
1540 3280 7.799081 ACTAATTCAGATCCATGAGAATGACA 58.201 34.615 0.00 0.00 31.58 3.58
1541 3281 9.202273 GTACTAATTCAGATCCATGAGAATGAC 57.798 37.037 0.00 0.00 31.58 3.06
1542 3282 8.084684 CGTACTAATTCAGATCCATGAGAATGA 58.915 37.037 0.00 0.00 31.58 2.57
1543 3283 8.084684 TCGTACTAATTCAGATCCATGAGAATG 58.915 37.037 0.00 0.00 31.58 2.67
1544 3284 8.183104 TCGTACTAATTCAGATCCATGAGAAT 57.817 34.615 0.00 0.00 32.45 2.40
1545 3285 7.582667 TCGTACTAATTCAGATCCATGAGAA 57.417 36.000 0.00 0.00 0.00 2.87
1546 3286 7.767250 ATCGTACTAATTCAGATCCATGAGA 57.233 36.000 0.00 0.00 0.00 3.27
1547 3287 8.706936 CAAATCGTACTAATTCAGATCCATGAG 58.293 37.037 0.00 0.00 0.00 2.90
1548 3288 8.204160 ACAAATCGTACTAATTCAGATCCATGA 58.796 33.333 0.00 0.00 0.00 3.07
1549 3289 8.370493 ACAAATCGTACTAATTCAGATCCATG 57.630 34.615 0.00 0.00 0.00 3.66
1550 3290 7.382488 CGACAAATCGTACTAATTCAGATCCAT 59.618 37.037 0.00 0.00 43.66 3.41
1551 3291 6.695713 CGACAAATCGTACTAATTCAGATCCA 59.304 38.462 0.00 0.00 43.66 3.41
1552 3292 7.095024 CGACAAATCGTACTAATTCAGATCC 57.905 40.000 0.00 0.00 43.66 3.36
1568 3308 4.297944 GCAAGTTTCATTGCGACAAATC 57.702 40.909 0.00 0.00 45.43 2.17
1577 3317 7.769272 TTACCAAAAGAAGCAAGTTTCATTG 57.231 32.000 0.00 4.47 0.00 2.82
1578 3318 8.962884 AATTACCAAAAGAAGCAAGTTTCATT 57.037 26.923 0.00 0.00 0.00 2.57
1579 3319 8.962884 AAATTACCAAAAGAAGCAAGTTTCAT 57.037 26.923 0.00 0.00 0.00 2.57
1580 3320 8.785329 AAAATTACCAAAAGAAGCAAGTTTCA 57.215 26.923 0.00 0.00 0.00 2.69
1581 3321 8.055986 CGAAAATTACCAAAAGAAGCAAGTTTC 58.944 33.333 0.00 0.00 30.74 2.78
1582 3322 7.547722 ACGAAAATTACCAAAAGAAGCAAGTTT 59.452 29.630 0.00 0.00 0.00 2.66
1583 3323 7.010091 CACGAAAATTACCAAAAGAAGCAAGTT 59.990 33.333 0.00 0.00 0.00 2.66
1584 3324 6.475402 CACGAAAATTACCAAAAGAAGCAAGT 59.525 34.615 0.00 0.00 0.00 3.16
1585 3325 6.074356 CCACGAAAATTACCAAAAGAAGCAAG 60.074 38.462 0.00 0.00 0.00 4.01
1586 3326 5.751028 CCACGAAAATTACCAAAAGAAGCAA 59.249 36.000 0.00 0.00 0.00 3.91
1587 3327 5.067936 TCCACGAAAATTACCAAAAGAAGCA 59.932 36.000 0.00 0.00 0.00 3.91
1588 3328 5.525199 TCCACGAAAATTACCAAAAGAAGC 58.475 37.500 0.00 0.00 0.00 3.86
1589 3329 6.419710 GGTTCCACGAAAATTACCAAAAGAAG 59.580 38.462 0.00 0.00 0.00 2.85
1590 3330 6.097129 AGGTTCCACGAAAATTACCAAAAGAA 59.903 34.615 0.00 0.00 0.00 2.52
1591 3331 5.595133 AGGTTCCACGAAAATTACCAAAAGA 59.405 36.000 0.00 0.00 0.00 2.52
1592 3332 5.689961 CAGGTTCCACGAAAATTACCAAAAG 59.310 40.000 0.00 0.00 0.00 2.27
1593 3333 5.593010 CAGGTTCCACGAAAATTACCAAAA 58.407 37.500 0.00 0.00 0.00 2.44
1594 3334 4.500035 GCAGGTTCCACGAAAATTACCAAA 60.500 41.667 0.00 0.00 0.00 3.28
1595 3335 3.004944 GCAGGTTCCACGAAAATTACCAA 59.995 43.478 0.00 0.00 0.00 3.67
1596 3336 2.554893 GCAGGTTCCACGAAAATTACCA 59.445 45.455 0.00 0.00 0.00 3.25
1597 3337 2.817844 AGCAGGTTCCACGAAAATTACC 59.182 45.455 0.00 0.00 0.00 2.85
1598 3338 3.500680 TCAGCAGGTTCCACGAAAATTAC 59.499 43.478 0.00 0.00 0.00 1.89
1599 3339 3.745799 TCAGCAGGTTCCACGAAAATTA 58.254 40.909 0.00 0.00 0.00 1.40
1600 3340 2.554032 CTCAGCAGGTTCCACGAAAATT 59.446 45.455 0.00 0.00 0.00 1.82
1601 3341 2.154462 CTCAGCAGGTTCCACGAAAAT 58.846 47.619 0.00 0.00 0.00 1.82
1602 3342 1.593196 CTCAGCAGGTTCCACGAAAA 58.407 50.000 0.00 0.00 0.00 2.29
1603 3343 0.884704 GCTCAGCAGGTTCCACGAAA 60.885 55.000 0.00 0.00 0.00 3.46
1604 3344 1.301716 GCTCAGCAGGTTCCACGAA 60.302 57.895 0.00 0.00 0.00 3.85
1605 3345 0.898326 TAGCTCAGCAGGTTCCACGA 60.898 55.000 0.00 0.00 0.00 4.35
1606 3346 0.176680 ATAGCTCAGCAGGTTCCACG 59.823 55.000 0.00 0.00 0.00 4.94
1607 3347 1.474143 GGATAGCTCAGCAGGTTCCAC 60.474 57.143 0.00 0.00 32.18 4.02
1608 3348 0.833287 GGATAGCTCAGCAGGTTCCA 59.167 55.000 0.00 0.00 32.18 3.53
1609 3349 1.127343 AGGATAGCTCAGCAGGTTCC 58.873 55.000 0.00 0.00 32.10 3.62
1610 3350 2.998316 AAGGATAGCTCAGCAGGTTC 57.002 50.000 0.00 0.00 0.00 3.62
1611 3351 3.379452 AGTAAGGATAGCTCAGCAGGTT 58.621 45.455 0.00 0.00 0.00 3.50
1612 3352 3.039252 AGTAAGGATAGCTCAGCAGGT 57.961 47.619 0.00 0.00 0.00 4.00
1613 3353 5.736951 AATAGTAAGGATAGCTCAGCAGG 57.263 43.478 0.00 0.00 0.00 4.85
1614 3354 7.461182 ACTAATAGTAAGGATAGCTCAGCAG 57.539 40.000 0.00 0.00 0.00 4.24
1615 3355 7.121463 GCTACTAATAGTAAGGATAGCTCAGCA 59.879 40.741 0.00 0.00 32.63 4.41
1616 3356 7.121463 TGCTACTAATAGTAAGGATAGCTCAGC 59.879 40.741 10.71 0.00 35.64 4.26
1617 3357 8.568676 TGCTACTAATAGTAAGGATAGCTCAG 57.431 38.462 10.71 0.00 35.64 3.35
1618 3358 8.935614 TTGCTACTAATAGTAAGGATAGCTCA 57.064 34.615 10.71 0.00 35.64 4.26
1634 3374 8.073768 GCAACATACAAACTCTTTTGCTACTAA 58.926 33.333 0.00 0.00 45.32 2.24
1635 3375 7.227711 TGCAACATACAAACTCTTTTGCTACTA 59.772 33.333 0.00 0.00 45.32 1.82
1636 3376 6.039270 TGCAACATACAAACTCTTTTGCTACT 59.961 34.615 0.00 0.00 45.32 2.57
1637 3377 6.205784 TGCAACATACAAACTCTTTTGCTAC 58.794 36.000 0.00 0.00 45.32 3.58
1638 3378 6.384258 TGCAACATACAAACTCTTTTGCTA 57.616 33.333 0.00 0.00 45.32 3.49
1639 3379 5.261209 TGCAACATACAAACTCTTTTGCT 57.739 34.783 0.00 0.00 45.32 3.91
1640 3380 5.964887 TTGCAACATACAAACTCTTTTGC 57.035 34.783 0.00 0.00 45.32 3.68
1641 3381 6.700960 TCCATTGCAACATACAAACTCTTTTG 59.299 34.615 0.00 0.00 46.61 2.44
1642 3382 6.815089 TCCATTGCAACATACAAACTCTTTT 58.185 32.000 0.00 0.00 0.00 2.27
1643 3383 6.403866 TCCATTGCAACATACAAACTCTTT 57.596 33.333 0.00 0.00 0.00 2.52
1644 3384 6.403866 TTCCATTGCAACATACAAACTCTT 57.596 33.333 0.00 0.00 0.00 2.85
1645 3385 5.565439 GCTTCCATTGCAACATACAAACTCT 60.565 40.000 0.00 0.00 0.00 3.24
1646 3386 4.622740 GCTTCCATTGCAACATACAAACTC 59.377 41.667 0.00 0.00 0.00 3.01
1647 3387 4.039004 TGCTTCCATTGCAACATACAAACT 59.961 37.500 0.00 0.00 37.51 2.66
1648 3388 4.305769 TGCTTCCATTGCAACATACAAAC 58.694 39.130 0.00 0.00 37.51 2.93
1649 3389 4.597404 TGCTTCCATTGCAACATACAAA 57.403 36.364 0.00 0.00 37.51 2.83
1650 3390 4.804868 ATGCTTCCATTGCAACATACAA 57.195 36.364 0.00 0.00 44.01 2.41
1651 3391 4.704057 TGTATGCTTCCATTGCAACATACA 59.296 37.500 23.70 23.70 44.40 2.29
1652 3392 5.247507 TGTATGCTTCCATTGCAACATAC 57.752 39.130 20.46 20.46 44.01 2.39
1653 3393 6.468333 AATGTATGCTTCCATTGCAACATA 57.532 33.333 0.00 0.81 44.01 2.29
1654 3394 5.347620 AATGTATGCTTCCATTGCAACAT 57.652 34.783 0.00 1.90 44.01 2.71
1655 3395 4.804868 AATGTATGCTTCCATTGCAACA 57.195 36.364 0.00 0.00 44.01 3.33
1656 3396 7.775397 ATAAAATGTATGCTTCCATTGCAAC 57.225 32.000 0.00 0.00 44.01 4.17
1657 3397 8.259411 AGAATAAAATGTATGCTTCCATTGCAA 58.741 29.630 0.00 0.00 44.01 4.08
1658 3398 7.784037 AGAATAAAATGTATGCTTCCATTGCA 58.216 30.769 0.00 0.00 44.95 4.08
1659 3399 9.918630 ATAGAATAAAATGTATGCTTCCATTGC 57.081 29.630 0.00 0.00 31.89 3.56
1662 3402 9.592196 ACCATAGAATAAAATGTATGCTTCCAT 57.408 29.630 0.00 0.00 35.44 3.41
1663 3403 8.995027 ACCATAGAATAAAATGTATGCTTCCA 57.005 30.769 0.00 0.00 0.00 3.53
1664 3404 9.899226 GAACCATAGAATAAAATGTATGCTTCC 57.101 33.333 0.00 0.00 0.00 3.46
1694 3434 8.926374 TGCATATGAATTTTATTGAGGATTGGT 58.074 29.630 6.97 0.00 0.00 3.67
1695 3435 9.938280 ATGCATATGAATTTTATTGAGGATTGG 57.062 29.630 6.97 0.00 0.00 3.16
1700 3440 9.976511 ACTTGATGCATATGAATTTTATTGAGG 57.023 29.630 6.97 0.00 0.00 3.86
1719 3459 3.630769 AGCTATGACAATGGCACTTGATG 59.369 43.478 13.95 1.76 42.48 3.07
1720 3460 3.894759 AGCTATGACAATGGCACTTGAT 58.105 40.909 13.95 4.01 42.48 2.57
1721 3461 3.354948 AGCTATGACAATGGCACTTGA 57.645 42.857 13.95 0.00 42.48 3.02
1722 3462 3.428452 CCAAGCTATGACAATGGCACTTG 60.428 47.826 10.05 10.05 42.48 3.16
1723 3463 2.756760 CCAAGCTATGACAATGGCACTT 59.243 45.455 0.00 0.00 42.48 3.16
1724 3464 2.025981 TCCAAGCTATGACAATGGCACT 60.026 45.455 0.00 0.00 42.48 4.40
1725 3465 2.368439 TCCAAGCTATGACAATGGCAC 58.632 47.619 0.00 0.00 42.48 5.01
1726 3466 2.804986 TCCAAGCTATGACAATGGCA 57.195 45.000 0.00 0.00 42.48 4.92
1727 3467 4.660789 AATTCCAAGCTATGACAATGGC 57.339 40.909 0.00 0.00 40.44 4.40
1728 3468 5.766222 GCTAATTCCAAGCTATGACAATGG 58.234 41.667 0.00 0.00 37.01 3.16
1739 3479 2.232208 AGCCAAACAGCTAATTCCAAGC 59.768 45.455 0.00 0.00 42.70 4.01
1740 3480 4.240096 CAAGCCAAACAGCTAATTCCAAG 58.760 43.478 0.00 0.00 44.11 3.61
1741 3481 3.006752 CCAAGCCAAACAGCTAATTCCAA 59.993 43.478 0.00 0.00 44.11 3.53
1827 3568 5.358922 CACAAAAATGGGCAAGAGAAGAAA 58.641 37.500 0.00 0.00 0.00 2.52
2020 3764 4.586235 GACATGGGGCGGGATGGG 62.586 72.222 0.00 0.00 0.00 4.00
2021 3765 3.482232 GAGACATGGGGCGGGATGG 62.482 68.421 0.00 0.00 0.00 3.51
2022 3766 2.111878 GAGACATGGGGCGGGATG 59.888 66.667 0.00 0.00 0.00 3.51
2023 3767 3.171388 GGAGACATGGGGCGGGAT 61.171 66.667 0.00 0.00 0.00 3.85
2094 3851 2.123589 TGTTCTCAGTCCAACAAGGGA 58.876 47.619 0.00 0.00 38.24 4.20
2095 3852 2.638480 TGTTCTCAGTCCAACAAGGG 57.362 50.000 0.00 0.00 38.24 3.95
2112 3869 6.326064 ACCTTTACATGATCTGCTAGAGATGT 59.674 38.462 0.00 13.31 41.91 3.06
2128 3885 3.637911 TTGCGGTATGGACCTTTACAT 57.362 42.857 0.00 0.00 44.46 2.29
2154 3911 7.113704 CGATGTTTTAGGGTATATCGGAAAC 57.886 40.000 0.00 0.00 35.20 2.78
2177 3934 1.298413 CCGAGACATAGTCGTGCCG 60.298 63.158 0.00 0.00 37.67 5.69
2181 3938 0.885879 TTGCACCGAGACATAGTCGT 59.114 50.000 0.00 0.00 37.67 4.34
2195 3952 1.066908 AGAGCTCTATCTCGCTTGCAC 59.933 52.381 16.50 0.00 38.12 4.57
2197 3954 2.050477 GAGAGCTCTATCTCGCTTGC 57.950 55.000 18.25 0.00 36.64 4.01
2230 3987 0.663153 CTGTGCCGGCCTATTTAAGC 59.337 55.000 26.77 3.17 0.00 3.09


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

AutoCloner maintained by Alex Coulton.