Multiple sequence alignment - TraesCS7A01G225000

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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 TraesCS7A01G225000 chr7A 100.000 2405 0 0 1 2405 194291642 194289238 0.000000e+00 4442
1 TraesCS7A01G225000 chr7D 90.144 1177 57 25 497 1670 189910119 189911239 0.000000e+00 1476
2 TraesCS7A01G225000 chr7D 90.045 442 27 7 6 445 189909682 189910108 7.510000e-155 556
3 TraesCS7A01G225000 chr7D 90.000 380 20 10 2038 2405 189912405 189912778 2.160000e-130 475
4 TraesCS7A01G225000 chr7D 87.879 330 18 8 1717 2027 189911231 189911557 3.780000e-98 368
5 TraesCS7A01G225000 chr7B 87.660 1175 71 42 491 1650 334453496 334454611 0.000000e+00 1299
6 TraesCS7A01G225000 chr7B 82.873 724 74 27 1711 2403 334454608 334455312 2.640000e-169 604
7 TraesCS7A01G225000 chr7B 89.234 418 23 10 1 418 334453095 334453490 9.920000e-139 503
8 TraesCS7A01G225000 chr4B 92.037 540 25 11 1111 1650 624107964 624107443 0.000000e+00 743
9 TraesCS7A01G225000 chr4B 82.407 216 17 9 1720 1931 624107437 624107239 4.110000e-38 169


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 TraesCS7A01G225000 chr7A 194289238 194291642 2404 True 4442.00 4442 100.000 1 2405 1 chr7A.!!$R1 2404
1 TraesCS7A01G225000 chr7D 189909682 189912778 3096 False 718.75 1476 89.517 6 2405 4 chr7D.!!$F1 2399
2 TraesCS7A01G225000 chr7B 334453095 334455312 2217 False 802.00 1299 86.589 1 2403 3 chr7B.!!$F1 2402
3 TraesCS7A01G225000 chr4B 624107239 624107964 725 True 456.00 743 87.222 1111 1931 2 chr4B.!!$R1 820

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
484 486 0.106569 CTGGGGCTATGCATTGACCA 60.107 55.0 30.45 23.79 31.84 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1487 1504 0.627986 AGCAGCAGGGAAAGGCTAAT 59.372 50.0 0.0 0.0 38.56 1.73 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
28 30 2.700773 GGCGCGAGGAAAAAGGCAT 61.701 57.895 12.10 0.00 0.00 4.40
46 48 2.671070 GCATGGGTTTGACGTGAAATCC 60.671 50.000 21.33 21.33 36.72 3.01
51 53 2.095919 GGTTTGACGTGAAATCCCTTCG 60.096 50.000 2.88 0.00 36.78 3.79
211 213 1.836802 TGGCTTTGGGAAACTTTTGCT 59.163 42.857 0.00 0.00 0.00 3.91
335 337 2.322355 AAGAGATGCCGGTGAATGAG 57.678 50.000 1.90 0.00 0.00 2.90
344 346 1.462616 CGGTGAATGAGCCCATTTCA 58.537 50.000 0.00 0.00 42.66 2.69
345 347 1.133025 CGGTGAATGAGCCCATTTCAC 59.867 52.381 12.07 12.07 42.66 3.18
357 359 1.533625 CATTTCACCCTGCTCGGAAA 58.466 50.000 0.00 0.00 34.17 3.13
358 360 1.470098 CATTTCACCCTGCTCGGAAAG 59.530 52.381 0.00 0.00 33.28 2.62
397 399 5.929697 AGATGCGGATATTGTTATGTGTG 57.070 39.130 0.00 0.00 0.00 3.82
402 404 3.250762 CGGATATTGTTATGTGTGGCTGG 59.749 47.826 0.00 0.00 0.00 4.85
406 408 1.246649 TGTTATGTGTGGCTGGCAAG 58.753 50.000 5.14 0.00 0.00 4.01
429 431 3.966543 CCCGCTTGTCCTTGGGGT 61.967 66.667 0.00 0.00 38.03 4.95
430 432 2.359975 CCGCTTGTCCTTGGGGTC 60.360 66.667 0.00 0.00 0.00 4.46
431 433 2.429930 CGCTTGTCCTTGGGGTCA 59.570 61.111 0.00 0.00 0.00 4.02
432 434 1.002134 CGCTTGTCCTTGGGGTCAT 60.002 57.895 0.00 0.00 31.32 3.06
434 436 0.890683 GCTTGTCCTTGGGGTCATTG 59.109 55.000 0.00 0.00 31.32 2.82
435 437 0.890683 CTTGTCCTTGGGGTCATTGC 59.109 55.000 0.00 0.00 31.32 3.56
437 439 2.361104 TCCTTGGGGTCATTGCGC 60.361 61.111 0.00 0.00 0.00 6.09
440 442 4.292145 TTGGGGTCATTGCGCCCA 62.292 61.111 4.18 0.00 46.59 5.36
442 444 4.740822 GGGGTCATTGCGCCCACT 62.741 66.667 4.18 0.00 46.59 4.00
444 446 1.377987 GGGTCATTGCGCCCACTTA 60.378 57.895 4.18 0.00 44.23 2.24
445 447 0.751643 GGGTCATTGCGCCCACTTAT 60.752 55.000 4.18 0.00 44.23 1.73
446 448 1.102978 GGTCATTGCGCCCACTTATT 58.897 50.000 4.18 0.00 0.00 1.40
447 449 1.476488 GGTCATTGCGCCCACTTATTT 59.524 47.619 4.18 0.00 0.00 1.40
448 450 2.479560 GGTCATTGCGCCCACTTATTTC 60.480 50.000 4.18 0.00 0.00 2.17
450 452 1.132262 CATTGCGCCCACTTATTTCGT 59.868 47.619 4.18 0.00 0.00 3.85
451 453 1.240256 TTGCGCCCACTTATTTCGTT 58.760 45.000 4.18 0.00 0.00 3.85
452 454 2.096220 TGCGCCCACTTATTTCGTTA 57.904 45.000 4.18 0.00 0.00 3.18
453 455 1.733360 TGCGCCCACTTATTTCGTTAC 59.267 47.619 4.18 0.00 0.00 2.50
454 456 1.267186 GCGCCCACTTATTTCGTTACG 60.267 52.381 0.00 0.00 0.00 3.18
455 457 2.261345 CGCCCACTTATTTCGTTACGA 58.739 47.619 2.33 2.33 0.00 3.43
456 458 2.280708 CGCCCACTTATTTCGTTACGAG 59.719 50.000 7.69 0.00 37.14 4.18
457 459 3.514645 GCCCACTTATTTCGTTACGAGA 58.485 45.455 7.69 3.62 37.14 4.04
458 460 3.305361 GCCCACTTATTTCGTTACGAGAC 59.695 47.826 7.69 0.00 37.14 3.36
459 461 4.487948 CCCACTTATTTCGTTACGAGACA 58.512 43.478 7.69 0.00 37.14 3.41
460 462 5.107133 CCCACTTATTTCGTTACGAGACAT 58.893 41.667 7.69 4.66 37.14 3.06
461 463 5.231568 CCCACTTATTTCGTTACGAGACATC 59.768 44.000 7.69 0.00 37.14 3.06
462 464 5.803461 CCACTTATTTCGTTACGAGACATCA 59.197 40.000 7.69 0.00 37.14 3.07
463 465 6.237490 CCACTTATTTCGTTACGAGACATCAC 60.237 42.308 7.69 0.00 37.14 3.06
464 466 5.510674 ACTTATTTCGTTACGAGACATCACG 59.489 40.000 7.69 0.00 37.14 4.35
465 467 1.609932 TTCGTTACGAGACATCACGC 58.390 50.000 7.69 0.00 37.14 5.34
466 468 0.800631 TCGTTACGAGACATCACGCT 59.199 50.000 2.33 0.00 33.30 5.07
467 469 0.907837 CGTTACGAGACATCACGCTG 59.092 55.000 0.00 0.00 33.30 5.18
468 470 1.269166 GTTACGAGACATCACGCTGG 58.731 55.000 0.00 0.00 33.30 4.85
469 471 0.172578 TTACGAGACATCACGCTGGG 59.827 55.000 0.00 0.00 33.30 4.45
470 472 1.663379 TACGAGACATCACGCTGGGG 61.663 60.000 0.00 0.00 33.30 4.96
471 473 2.512515 GAGACATCACGCTGGGGC 60.513 66.667 0.00 0.00 0.00 5.80
472 474 3.005539 AGACATCACGCTGGGGCT 61.006 61.111 0.00 0.00 36.09 5.19
473 475 1.676678 GAGACATCACGCTGGGGCTA 61.677 60.000 0.00 0.00 36.09 3.93
474 476 1.050988 AGACATCACGCTGGGGCTAT 61.051 55.000 0.00 0.00 36.09 2.97
475 477 0.882042 GACATCACGCTGGGGCTATG 60.882 60.000 0.00 0.00 36.09 2.23
476 478 2.111878 ATCACGCTGGGGCTATGC 59.888 61.111 0.00 0.00 36.09 3.14
477 479 2.745308 ATCACGCTGGGGCTATGCA 61.745 57.895 0.00 0.00 36.09 3.96
478 480 2.060567 ATCACGCTGGGGCTATGCAT 62.061 55.000 3.79 3.79 36.09 3.96
479 481 1.825191 CACGCTGGGGCTATGCATT 60.825 57.895 3.54 0.00 36.09 3.56
480 482 1.825191 ACGCTGGGGCTATGCATTG 60.825 57.895 3.54 3.55 36.09 2.82
481 483 1.526686 CGCTGGGGCTATGCATTGA 60.527 57.895 12.54 0.00 36.09 2.57
482 484 1.789078 CGCTGGGGCTATGCATTGAC 61.789 60.000 12.54 9.06 36.09 3.18
483 485 1.458639 GCTGGGGCTATGCATTGACC 61.459 60.000 23.37 23.37 35.22 4.02
484 486 0.106569 CTGGGGCTATGCATTGACCA 60.107 55.000 30.45 23.79 31.84 4.02
485 487 0.557238 TGGGGCTATGCATTGACCAT 59.443 50.000 30.45 0.00 31.84 3.55
486 488 0.963962 GGGGCTATGCATTGACCATG 59.036 55.000 30.45 3.87 31.84 3.66
502 504 4.713814 TGACCATGCTCTGAAGAGATTAGT 59.286 41.667 11.56 2.86 44.74 2.24
507 509 5.929058 TGCTCTGAAGAGATTAGTGATGT 57.071 39.130 11.56 0.00 44.74 3.06
509 511 5.186603 TGCTCTGAAGAGATTAGTGATGTGT 59.813 40.000 11.56 0.00 44.74 3.72
565 568 2.094762 TTGGCGGTAGAAAGAGCTTC 57.905 50.000 0.00 0.00 0.00 3.86
567 570 2.453521 TGGCGGTAGAAAGAGCTTCTA 58.546 47.619 0.00 0.00 42.90 2.10
570 573 4.052608 GGCGGTAGAAAGAGCTTCTATTC 58.947 47.826 0.00 0.00 46.09 1.75
571 574 4.052608 GCGGTAGAAAGAGCTTCTATTCC 58.947 47.826 0.00 0.00 46.09 3.01
591 594 9.993454 CTATTCCATTTTACTAGTAAGTACCCC 57.007 37.037 14.73 0.00 37.94 4.95
592 595 6.469782 TCCATTTTACTAGTAAGTACCCCG 57.530 41.667 14.73 2.19 37.94 5.73
593 596 5.957774 TCCATTTTACTAGTAAGTACCCCGT 59.042 40.000 14.73 0.00 37.94 5.28
594 597 7.122715 TCCATTTTACTAGTAAGTACCCCGTA 58.877 38.462 14.73 0.00 37.94 4.02
595 598 7.285401 TCCATTTTACTAGTAAGTACCCCGTAG 59.715 40.741 14.73 0.00 37.94 3.51
599 602 5.179452 ACTAGTAAGTACCCCGTAGTTGA 57.821 43.478 0.00 0.00 34.15 3.18
605 608 4.532314 AGTACCCCGTAGTTGAGAAAAG 57.468 45.455 0.00 0.00 0.00 2.27
611 614 1.464997 CGTAGTTGAGAAAAGGCAGCC 59.535 52.381 1.84 1.84 0.00 4.85
635 638 5.757320 CCGATCTATTGCAAGAATCTCAACT 59.243 40.000 4.94 0.00 0.00 3.16
636 639 6.259608 CCGATCTATTGCAAGAATCTCAACTT 59.740 38.462 4.94 0.00 0.00 2.66
851 861 1.266989 GCACGACAAAAGAGAAAGGGG 59.733 52.381 0.00 0.00 0.00 4.79
855 865 3.136992 ACGACAAAAGAGAAAGGGGGTAA 59.863 43.478 0.00 0.00 0.00 2.85
965 976 4.736896 GCAGCAAGCCAAGCAGCC 62.737 66.667 0.00 0.00 38.40 4.85
966 977 3.299977 CAGCAAGCCAAGCAGCCA 61.300 61.111 0.00 0.00 33.54 4.75
979 994 1.865788 GCAGCCAAAGCCAACGATCA 61.866 55.000 0.00 0.00 41.25 2.92
980 995 0.813184 CAGCCAAAGCCAACGATCAT 59.187 50.000 0.00 0.00 41.25 2.45
985 1000 0.392998 AAAGCCAACGATCATCGCCT 60.393 50.000 7.05 0.00 45.12 5.52
986 1001 0.811616 AAGCCAACGATCATCGCCTC 60.812 55.000 7.05 0.00 45.12 4.70
987 1002 2.589492 GCCAACGATCATCGCCTCG 61.589 63.158 7.05 0.00 45.12 4.63
989 1004 1.209275 CCAACGATCATCGCCTCGTC 61.209 60.000 7.05 0.00 46.59 4.20
990 1005 1.298413 AACGATCATCGCCTCGTCG 60.298 57.895 7.05 0.00 46.59 5.12
991 1006 1.989966 AACGATCATCGCCTCGTCGT 61.990 55.000 7.05 0.00 46.59 4.34
992 1007 1.722852 CGATCATCGCCTCGTCGTC 60.723 63.158 0.00 0.00 31.14 4.20
993 1008 1.722852 GATCATCGCCTCGTCGTCG 60.723 63.158 0.00 0.00 38.55 5.12
994 1009 2.376231 GATCATCGCCTCGTCGTCGT 62.376 60.000 1.33 0.00 38.33 4.34
995 1010 2.376231 ATCATCGCCTCGTCGTCGTC 62.376 60.000 1.33 0.00 38.33 4.20
996 1011 4.219846 ATCGCCTCGTCGTCGTCG 62.220 66.667 5.50 5.50 38.33 5.12
1096 1111 1.219393 GAGGACTACAGCACCAGGC 59.781 63.158 0.00 0.00 45.30 4.85
1276 1291 2.526873 AGTGGGGCGAGGACAAGT 60.527 61.111 0.00 0.00 0.00 3.16
1361 1376 2.505337 CGCGCTGCCGTACAAGTA 60.505 61.111 5.56 0.00 36.67 2.24
1362 1377 2.785105 CGCGCTGCCGTACAAGTAC 61.785 63.158 5.56 0.29 36.67 2.73
1409 1424 1.293924 CTCAAGTCCATGTGATCGCC 58.706 55.000 3.31 0.00 0.00 5.54
1444 1461 2.358003 GGCTCAGCTGCTCGTGTT 60.358 61.111 9.47 0.00 0.00 3.32
1459 1476 1.266842 CGTGTTTGTCCATGATACGCG 60.267 52.381 3.53 3.53 36.57 6.01
1487 1504 0.391228 TTGTTAGTCTGCTCGTGCCA 59.609 50.000 7.05 0.00 38.71 4.92
1489 1506 1.001974 TGTTAGTCTGCTCGTGCCATT 59.998 47.619 7.05 0.00 38.71 3.16
1658 1676 8.976353 GGTAGATGGACAGATCATACTGATTAT 58.024 37.037 0.00 0.00 37.20 1.28
1664 1682 7.933577 TGGACAGATCATACTGATTATTGTTCC 59.066 37.037 0.00 0.00 37.20 3.62
1665 1683 7.933577 GGACAGATCATACTGATTATTGTTCCA 59.066 37.037 0.00 0.00 37.20 3.53
1666 1684 8.899427 ACAGATCATACTGATTATTGTTCCAG 57.101 34.615 0.00 0.00 37.20 3.86
1667 1685 7.935755 ACAGATCATACTGATTATTGTTCCAGG 59.064 37.037 0.00 0.00 37.20 4.45
1668 1686 8.152898 CAGATCATACTGATTATTGTTCCAGGA 58.847 37.037 0.00 0.00 37.20 3.86
1669 1687 8.717717 AGATCATACTGATTATTGTTCCAGGAA 58.282 33.333 0.00 0.00 37.20 3.36
1670 1688 9.512588 GATCATACTGATTATTGTTCCAGGAAT 57.487 33.333 4.80 0.00 37.20 3.01
1671 1689 9.872684 ATCATACTGATTATTGTTCCAGGAATT 57.127 29.630 4.80 0.00 32.13 2.17
1672 1690 9.699410 TCATACTGATTATTGTTCCAGGAATTT 57.301 29.630 4.80 0.00 0.00 1.82
1673 1691 9.740239 CATACTGATTATTGTTCCAGGAATTTG 57.260 33.333 4.80 0.00 0.00 2.32
1674 1692 7.781324 ACTGATTATTGTTCCAGGAATTTGT 57.219 32.000 4.80 0.00 0.00 2.83
1675 1693 7.830739 ACTGATTATTGTTCCAGGAATTTGTC 58.169 34.615 4.80 0.83 0.00 3.18
1676 1694 7.451255 ACTGATTATTGTTCCAGGAATTTGTCA 59.549 33.333 4.80 5.21 0.00 3.58
1677 1695 7.829725 TGATTATTGTTCCAGGAATTTGTCAG 58.170 34.615 4.80 0.00 0.00 3.51
1678 1696 7.669304 TGATTATTGTTCCAGGAATTTGTCAGA 59.331 33.333 4.80 0.00 0.00 3.27
1679 1697 5.972107 ATTGTTCCAGGAATTTGTCAGAG 57.028 39.130 4.80 0.00 0.00 3.35
1680 1698 4.705110 TGTTCCAGGAATTTGTCAGAGA 57.295 40.909 4.80 0.00 0.00 3.10
1681 1699 5.047566 TGTTCCAGGAATTTGTCAGAGAA 57.952 39.130 4.80 0.00 0.00 2.87
1682 1700 5.445069 TGTTCCAGGAATTTGTCAGAGAAA 58.555 37.500 4.80 0.00 0.00 2.52
1683 1701 5.890985 TGTTCCAGGAATTTGTCAGAGAAAA 59.109 36.000 4.80 0.00 0.00 2.29
1684 1702 6.039717 TGTTCCAGGAATTTGTCAGAGAAAAG 59.960 38.462 4.80 0.00 0.00 2.27
1685 1703 5.072741 TCCAGGAATTTGTCAGAGAAAAGG 58.927 41.667 0.00 0.00 0.00 3.11
1686 1704 5.072741 CCAGGAATTTGTCAGAGAAAAGGA 58.927 41.667 0.00 0.00 0.00 3.36
1687 1705 5.536161 CCAGGAATTTGTCAGAGAAAAGGAA 59.464 40.000 0.00 0.00 0.00 3.36
1688 1706 6.442112 CAGGAATTTGTCAGAGAAAAGGAAC 58.558 40.000 0.00 0.00 0.00 3.62
1689 1707 5.536538 AGGAATTTGTCAGAGAAAAGGAACC 59.463 40.000 0.00 0.00 0.00 3.62
1690 1708 5.536538 GGAATTTGTCAGAGAAAAGGAACCT 59.463 40.000 0.00 0.00 0.00 3.50
1691 1709 6.294231 GGAATTTGTCAGAGAAAAGGAACCTC 60.294 42.308 0.00 0.00 0.00 3.85
1692 1710 3.771577 TGTCAGAGAAAAGGAACCTCC 57.228 47.619 0.00 0.00 36.58 4.30
1693 1711 3.045634 TGTCAGAGAAAAGGAACCTCCA 58.954 45.455 0.00 0.00 39.61 3.86
1694 1712 3.458118 TGTCAGAGAAAAGGAACCTCCAA 59.542 43.478 0.00 0.00 39.61 3.53
1695 1713 4.104738 TGTCAGAGAAAAGGAACCTCCAAT 59.895 41.667 0.00 0.00 39.61 3.16
1696 1714 5.309543 TGTCAGAGAAAAGGAACCTCCAATA 59.690 40.000 0.00 0.00 39.61 1.90
1697 1715 5.644206 GTCAGAGAAAAGGAACCTCCAATAC 59.356 44.000 0.00 0.00 39.61 1.89
1698 1716 5.309543 TCAGAGAAAAGGAACCTCCAATACA 59.690 40.000 0.00 0.00 39.61 2.29
1699 1717 6.012508 TCAGAGAAAAGGAACCTCCAATACAT 60.013 38.462 0.00 0.00 39.61 2.29
1700 1718 7.182026 TCAGAGAAAAGGAACCTCCAATACATA 59.818 37.037 0.00 0.00 39.61 2.29
1701 1719 7.281100 CAGAGAAAAGGAACCTCCAATACATAC 59.719 40.741 0.00 0.00 39.61 2.39
1702 1720 7.027874 AGAAAAGGAACCTCCAATACATACA 57.972 36.000 0.00 0.00 39.61 2.29
1703 1721 7.643123 AGAAAAGGAACCTCCAATACATACAT 58.357 34.615 0.00 0.00 39.61 2.29
1704 1722 8.778059 AGAAAAGGAACCTCCAATACATACATA 58.222 33.333 0.00 0.00 39.61 2.29
1705 1723 8.980481 AAAAGGAACCTCCAATACATACATAG 57.020 34.615 0.00 0.00 39.61 2.23
1706 1724 6.115448 AGGAACCTCCAATACATACATAGC 57.885 41.667 0.00 0.00 39.61 2.97
1707 1725 5.846714 AGGAACCTCCAATACATACATAGCT 59.153 40.000 0.00 0.00 39.61 3.32
1708 1726 6.330250 AGGAACCTCCAATACATACATAGCTT 59.670 38.462 0.00 0.00 39.61 3.74
1709 1727 6.998673 GGAACCTCCAATACATACATAGCTTT 59.001 38.462 0.00 0.00 36.28 3.51
1710 1728 7.502561 GGAACCTCCAATACATACATAGCTTTT 59.497 37.037 0.00 0.00 36.28 2.27
1711 1729 8.451908 AACCTCCAATACATACATAGCTTTTC 57.548 34.615 0.00 0.00 0.00 2.29
1712 1730 7.573710 ACCTCCAATACATACATAGCTTTTCA 58.426 34.615 0.00 0.00 0.00 2.69
1713 1731 8.220559 ACCTCCAATACATACATAGCTTTTCAT 58.779 33.333 0.00 0.00 0.00 2.57
1714 1732 8.509690 CCTCCAATACATACATAGCTTTTCATG 58.490 37.037 0.00 0.00 0.00 3.07
1715 1733 7.874940 TCCAATACATACATAGCTTTTCATGC 58.125 34.615 0.00 0.00 0.00 4.06
1716 1734 7.720957 TCCAATACATACATAGCTTTTCATGCT 59.279 33.333 0.00 0.00 43.79 3.79
1717 1735 8.355169 CCAATACATACATAGCTTTTCATGCTT 58.645 33.333 0.00 0.00 41.46 3.91
1786 1804 5.235305 ACCTTCAAAATACATAGCTTGCG 57.765 39.130 0.00 0.00 0.00 4.85
1800 1832 4.392921 AGCTTGCGAGATAGTATGTGTT 57.607 40.909 4.70 0.00 0.00 3.32
1822 1854 8.743714 GTGTTTTTCTTGGGATAAGAAGATGAT 58.256 33.333 0.00 0.00 37.54 2.45
1845 1877 3.366679 CCTGAGTAAATTGTGCCAAGCTG 60.367 47.826 0.00 0.00 0.00 4.24
1931 1973 6.004574 ACAAGGAAAAGGATACAGAAAGACC 58.995 40.000 0.00 0.00 41.41 3.85
1939 1997 6.821616 AGGATACAGAAAGACCTCATCATT 57.178 37.500 0.00 0.00 41.41 2.57
1989 2047 9.631452 AAACACTCACATATACAGATATCATCG 57.369 33.333 5.32 0.00 0.00 3.84
2118 3021 5.799936 CACTGTTTCGTCAACTGAAAACAAT 59.200 36.000 9.72 0.23 37.10 2.71
2119 3022 6.307800 CACTGTTTCGTCAACTGAAAACAATT 59.692 34.615 9.72 0.83 37.10 2.32
2187 3090 7.778470 ATCTTGATTTGACTCGACCTTTATC 57.222 36.000 0.00 0.00 0.00 1.75
2216 3119 3.906720 TTGGCTGGTCCTAATAGTGAC 57.093 47.619 0.00 1.80 35.26 3.67
2320 3228 5.638657 GCCAGAATAGCTATCTTCATGTGAG 59.361 44.000 6.72 0.00 0.00 3.51
2323 3231 7.208777 CAGAATAGCTATCTTCATGTGAGTGT 58.791 38.462 6.72 0.00 0.00 3.55
2328 3236 7.117285 AGCTATCTTCATGTGAGTGTCATAA 57.883 36.000 0.00 0.00 0.00 1.90
2329 3237 7.733969 AGCTATCTTCATGTGAGTGTCATAAT 58.266 34.615 0.00 0.00 0.00 1.28
2371 3279 1.348036 GCACCCAGAGACTTTACCAGT 59.652 52.381 0.00 0.00 39.07 4.00
2372 3280 2.224548 GCACCCAGAGACTTTACCAGTT 60.225 50.000 0.00 0.00 35.01 3.16
2396 3313 2.158711 CCTAATCTGGATCTTGCAGGCA 60.159 50.000 0.00 0.00 36.40 4.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 2.223947 ACGTCAAACCCATGCCTTTTTC 60.224 45.455 0.00 0.00 0.00 2.29
28 30 1.144093 AGGGATTTCACGTCAAACCCA 59.856 47.619 19.23 0.00 38.42 4.51
51 53 1.639298 GGCCAATCCTCGCGATATGC 61.639 60.000 10.36 7.27 41.47 3.14
335 337 2.409870 CGAGCAGGGTGAAATGGGC 61.410 63.158 0.00 0.00 0.00 5.36
357 359 1.787057 CTACGAGCGAGATTCCGGCT 61.787 60.000 0.00 0.00 40.29 5.52
358 360 1.370657 CTACGAGCGAGATTCCGGC 60.371 63.158 0.00 0.00 0.00 6.13
359 361 0.875728 ATCTACGAGCGAGATTCCGG 59.124 55.000 0.00 0.00 28.94 5.14
360 362 1.957089 CATCTACGAGCGAGATTCCG 58.043 55.000 0.00 0.00 31.05 4.30
361 363 1.692296 GCATCTACGAGCGAGATTCC 58.308 55.000 0.00 0.00 31.05 3.01
384 386 3.078891 TGCCAGCCACACATAACAATA 57.921 42.857 0.00 0.00 0.00 1.90
411 413 3.966543 CCCCAAGGACAAGCGGGT 61.967 66.667 0.00 0.00 36.92 5.28
418 420 1.303236 CGCAATGACCCCAAGGACA 60.303 57.895 0.00 0.00 42.14 4.02
419 421 2.700773 GCGCAATGACCCCAAGGAC 61.701 63.158 0.30 0.00 36.73 3.85
429 431 1.400142 CGAAATAAGTGGGCGCAATGA 59.600 47.619 10.83 0.00 0.00 2.57
430 432 1.132262 ACGAAATAAGTGGGCGCAATG 59.868 47.619 10.83 0.00 0.00 2.82
431 433 1.459450 ACGAAATAAGTGGGCGCAAT 58.541 45.000 10.83 0.00 0.00 3.56
432 434 1.240256 AACGAAATAAGTGGGCGCAA 58.760 45.000 10.83 0.00 0.00 4.85
434 436 1.267186 CGTAACGAAATAAGTGGGCGC 60.267 52.381 0.00 0.00 0.00 6.53
435 437 2.261345 TCGTAACGAAATAAGTGGGCG 58.739 47.619 0.00 0.00 31.06 6.13
437 439 4.487948 TGTCTCGTAACGAAATAAGTGGG 58.512 43.478 0.00 0.00 34.74 4.61
440 442 5.510674 CGTGATGTCTCGTAACGAAATAAGT 59.489 40.000 0.00 0.00 36.38 2.24
441 443 5.552104 GCGTGATGTCTCGTAACGAAATAAG 60.552 44.000 3.41 0.00 36.38 1.73
442 444 4.263677 GCGTGATGTCTCGTAACGAAATAA 59.736 41.667 3.41 0.00 36.38 1.40
444 446 2.597305 GCGTGATGTCTCGTAACGAAAT 59.403 45.455 3.41 0.00 36.38 2.17
445 447 1.980844 GCGTGATGTCTCGTAACGAAA 59.019 47.619 3.41 0.00 36.38 3.46
446 448 1.198408 AGCGTGATGTCTCGTAACGAA 59.802 47.619 3.41 0.00 36.38 3.85
447 449 0.800631 AGCGTGATGTCTCGTAACGA 59.199 50.000 3.41 0.00 36.38 3.85
448 450 0.907837 CAGCGTGATGTCTCGTAACG 59.092 55.000 6.38 0.00 35.55 3.18
450 452 0.172578 CCCAGCGTGATGTCTCGTAA 59.827 55.000 6.38 0.00 35.55 3.18
451 453 1.663379 CCCCAGCGTGATGTCTCGTA 61.663 60.000 6.38 0.00 35.55 3.43
452 454 2.573869 CCCAGCGTGATGTCTCGT 59.426 61.111 6.38 0.00 35.55 4.18
453 455 2.202797 CCCCAGCGTGATGTCTCG 60.203 66.667 0.53 0.53 36.12 4.04
454 456 1.676678 TAGCCCCAGCGTGATGTCTC 61.677 60.000 0.00 0.00 46.67 3.36
455 457 1.050988 ATAGCCCCAGCGTGATGTCT 61.051 55.000 0.00 0.00 46.67 3.41
456 458 0.882042 CATAGCCCCAGCGTGATGTC 60.882 60.000 0.00 0.00 46.67 3.06
457 459 1.146930 CATAGCCCCAGCGTGATGT 59.853 57.895 0.00 0.00 46.67 3.06
458 460 2.256591 GCATAGCCCCAGCGTGATG 61.257 63.158 0.00 0.00 46.67 3.07
459 461 2.060567 ATGCATAGCCCCAGCGTGAT 62.061 55.000 0.00 0.00 46.67 3.06
460 462 2.269520 AATGCATAGCCCCAGCGTGA 62.270 55.000 0.00 0.00 46.67 4.35
461 463 1.825191 AATGCATAGCCCCAGCGTG 60.825 57.895 0.00 0.00 46.67 5.34
462 464 1.825191 CAATGCATAGCCCCAGCGT 60.825 57.895 0.00 0.00 46.67 5.07
463 465 1.526686 TCAATGCATAGCCCCAGCG 60.527 57.895 0.00 0.00 46.67 5.18
464 466 1.458639 GGTCAATGCATAGCCCCAGC 61.459 60.000 0.00 0.00 40.32 4.85
465 467 0.106569 TGGTCAATGCATAGCCCCAG 60.107 55.000 0.00 0.00 0.00 4.45
466 468 0.557238 ATGGTCAATGCATAGCCCCA 59.443 50.000 0.00 4.65 0.00 4.96
467 469 0.963962 CATGGTCAATGCATAGCCCC 59.036 55.000 0.00 0.00 0.00 5.80
476 478 3.870274 TCTCTTCAGAGCATGGTCAATG 58.130 45.455 25.71 16.30 41.80 2.82
477 479 4.774660 ATCTCTTCAGAGCATGGTCAAT 57.225 40.909 25.71 4.20 41.80 2.57
478 480 4.564782 AATCTCTTCAGAGCATGGTCAA 57.435 40.909 25.71 11.92 41.80 3.18
479 481 4.713814 ACTAATCTCTTCAGAGCATGGTCA 59.286 41.667 25.71 4.20 41.80 4.02
480 482 5.049167 CACTAATCTCTTCAGAGCATGGTC 58.951 45.833 17.19 17.19 41.80 4.02
481 483 4.713814 TCACTAATCTCTTCAGAGCATGGT 59.286 41.667 0.00 0.00 41.80 3.55
482 484 5.273674 TCACTAATCTCTTCAGAGCATGG 57.726 43.478 0.00 0.00 41.80 3.66
483 485 6.201234 CACATCACTAATCTCTTCAGAGCATG 59.799 42.308 0.00 0.00 41.80 4.06
484 486 6.127111 ACACATCACTAATCTCTTCAGAGCAT 60.127 38.462 0.00 0.00 41.80 3.79
485 487 5.186603 ACACATCACTAATCTCTTCAGAGCA 59.813 40.000 0.00 0.00 41.80 4.26
486 488 5.659463 ACACATCACTAATCTCTTCAGAGC 58.341 41.667 0.00 0.00 41.80 4.09
487 489 9.814899 ATTTACACATCACTAATCTCTTCAGAG 57.185 33.333 0.00 0.00 43.36 3.35
488 490 9.809096 GATTTACACATCACTAATCTCTTCAGA 57.191 33.333 0.00 0.00 0.00 3.27
489 491 9.814899 AGATTTACACATCACTAATCTCTTCAG 57.185 33.333 0.00 0.00 31.74 3.02
507 509 9.593134 AGCACAAACACATTTTAAAGATTTACA 57.407 25.926 0.00 0.00 0.00 2.41
565 568 9.993454 GGGGTACTTACTAGTAAAATGGAATAG 57.007 37.037 15.95 4.16 38.55 1.73
567 570 7.126268 ACGGGGTACTTACTAGTAAAATGGAAT 59.874 37.037 15.95 0.00 38.55 3.01
570 573 6.225981 ACGGGGTACTTACTAGTAAAATGG 57.774 41.667 15.95 7.32 38.55 3.16
571 574 8.000780 ACTACGGGGTACTTACTAGTAAAATG 57.999 38.462 15.95 7.65 38.55 2.32
583 586 4.262765 CCTTTTCTCAACTACGGGGTACTT 60.263 45.833 0.00 0.00 0.00 2.24
584 587 3.260128 CCTTTTCTCAACTACGGGGTACT 59.740 47.826 0.00 0.00 0.00 2.73
585 588 3.593096 CCTTTTCTCAACTACGGGGTAC 58.407 50.000 0.00 0.00 0.00 3.34
586 589 2.027837 GCCTTTTCTCAACTACGGGGTA 60.028 50.000 0.00 0.00 0.00 3.69
587 590 1.271217 GCCTTTTCTCAACTACGGGGT 60.271 52.381 0.00 0.00 0.00 4.95
588 591 1.271163 TGCCTTTTCTCAACTACGGGG 60.271 52.381 0.00 0.00 0.00 5.73
589 592 2.076863 CTGCCTTTTCTCAACTACGGG 58.923 52.381 0.00 0.00 0.00 5.28
590 593 1.464997 GCTGCCTTTTCTCAACTACGG 59.535 52.381 0.00 0.00 0.00 4.02
591 594 1.464997 GGCTGCCTTTTCTCAACTACG 59.535 52.381 12.43 0.00 0.00 3.51
592 595 1.813178 GGGCTGCCTTTTCTCAACTAC 59.187 52.381 19.68 0.00 0.00 2.73
593 596 1.610624 CGGGCTGCCTTTTCTCAACTA 60.611 52.381 19.68 0.00 0.00 2.24
594 597 0.890996 CGGGCTGCCTTTTCTCAACT 60.891 55.000 19.68 0.00 0.00 3.16
595 598 0.889186 TCGGGCTGCCTTTTCTCAAC 60.889 55.000 19.68 0.00 0.00 3.18
599 602 1.204146 TAGATCGGGCTGCCTTTTCT 58.796 50.000 19.68 18.23 0.00 2.52
605 608 0.819259 TTGCAATAGATCGGGCTGCC 60.819 55.000 11.05 11.05 31.92 4.85
611 614 5.757320 AGTTGAGATTCTTGCAATAGATCGG 59.243 40.000 0.00 0.00 0.00 4.18
635 638 7.432869 ACAAATGCTATTCAGTTTTGTGCTAA 58.567 30.769 0.00 0.00 38.10 3.09
636 639 6.980593 ACAAATGCTATTCAGTTTTGTGCTA 58.019 32.000 0.00 0.00 38.10 3.49
736 740 0.320050 TTTTCAATGCTTTCCGGGCC 59.680 50.000 0.00 0.00 0.00 5.80
773 777 1.080298 TAATTCGCGCGGTTTGATGT 58.920 45.000 31.69 9.23 0.00 3.06
862 872 3.562635 CCACGTCGGCTTTCCTTC 58.437 61.111 0.00 0.00 0.00 3.46
918 928 3.818787 CTGAGCCCACAATGCGGC 61.819 66.667 3.94 3.94 46.09 6.53
962 973 1.098050 GATGATCGTTGGCTTTGGCT 58.902 50.000 0.00 0.00 38.73 4.75
963 974 0.248215 CGATGATCGTTGGCTTTGGC 60.248 55.000 6.68 0.00 34.72 4.52
964 975 0.248215 GCGATGATCGTTGGCTTTGG 60.248 55.000 16.83 0.00 42.81 3.28
965 976 0.248215 GGCGATGATCGTTGGCTTTG 60.248 55.000 19.15 0.00 42.81 2.77
966 977 0.392998 AGGCGATGATCGTTGGCTTT 60.393 50.000 22.50 5.19 42.81 3.51
985 1000 2.503158 CATTGCCGACGACGACGA 60.503 61.111 20.63 0.00 42.66 4.20
986 1001 3.541831 CCATTGCCGACGACGACG 61.542 66.667 12.66 12.66 42.66 5.12
987 1002 2.126228 TCCATTGCCGACGACGAC 60.126 61.111 9.28 0.00 42.66 4.34
988 1003 2.180769 CTCCATTGCCGACGACGA 59.819 61.111 9.28 0.00 42.66 4.20
989 1004 2.629050 ATCCTCCATTGCCGACGACG 62.629 60.000 0.00 0.00 39.43 5.12
990 1005 0.876342 GATCCTCCATTGCCGACGAC 60.876 60.000 0.00 0.00 0.00 4.34
991 1006 1.326951 TGATCCTCCATTGCCGACGA 61.327 55.000 0.00 0.00 0.00 4.20
992 1007 1.143838 TGATCCTCCATTGCCGACG 59.856 57.895 0.00 0.00 0.00 5.12
993 1008 0.179000 AGTGATCCTCCATTGCCGAC 59.821 55.000 0.00 0.00 0.00 4.79
994 1009 0.911769 AAGTGATCCTCCATTGCCGA 59.088 50.000 0.00 0.00 0.00 5.54
995 1010 1.303309 GAAGTGATCCTCCATTGCCG 58.697 55.000 0.00 0.00 0.00 5.69
996 1011 1.303309 CGAAGTGATCCTCCATTGCC 58.697 55.000 0.00 0.00 0.00 4.52
997 1012 1.303309 CCGAAGTGATCCTCCATTGC 58.697 55.000 0.00 0.00 0.00 3.56
998 1013 1.303309 GCCGAAGTGATCCTCCATTG 58.697 55.000 0.00 0.00 0.00 2.82
1039 1054 2.266055 CTTCACCACCGCCTCCTC 59.734 66.667 0.00 0.00 0.00 3.71
1040 1055 4.021925 GCTTCACCACCGCCTCCT 62.022 66.667 0.00 0.00 0.00 3.69
1154 1169 4.116328 CGCCCTGCTTCTCGTCGA 62.116 66.667 0.00 0.00 0.00 4.20
1266 1281 1.864862 CAGCAGCAACTTGTCCTCG 59.135 57.895 0.00 0.00 0.00 4.63
1444 1461 0.809636 CTGCCGCGTATCATGGACAA 60.810 55.000 4.92 0.00 0.00 3.18
1487 1504 0.627986 AGCAGCAGGGAAAGGCTAAT 59.372 50.000 0.00 0.00 38.56 1.73
1489 1506 0.911525 AGAGCAGCAGGGAAAGGCTA 60.912 55.000 0.00 0.00 38.56 3.93
1626 1644 5.411831 TGATCTGTCCATCTACCATATGC 57.588 43.478 0.00 0.00 0.00 3.14
1658 1676 5.047566 TCTCTGACAAATTCCTGGAACAA 57.952 39.130 12.11 0.00 38.70 2.83
1664 1682 6.442112 GTTCCTTTTCTCTGACAAATTCCTG 58.558 40.000 0.00 0.00 0.00 3.86
1665 1683 5.536538 GGTTCCTTTTCTCTGACAAATTCCT 59.463 40.000 0.00 0.00 0.00 3.36
1666 1684 5.536538 AGGTTCCTTTTCTCTGACAAATTCC 59.463 40.000 0.00 0.00 0.00 3.01
1667 1685 6.294231 GGAGGTTCCTTTTCTCTGACAAATTC 60.294 42.308 0.00 0.00 32.53 2.17
1668 1686 5.536538 GGAGGTTCCTTTTCTCTGACAAATT 59.463 40.000 0.00 0.00 32.53 1.82
1669 1687 5.073428 GGAGGTTCCTTTTCTCTGACAAAT 58.927 41.667 0.00 0.00 32.53 2.32
1670 1688 4.080015 TGGAGGTTCCTTTTCTCTGACAAA 60.080 41.667 0.00 0.00 37.46 2.83
1671 1689 3.458118 TGGAGGTTCCTTTTCTCTGACAA 59.542 43.478 0.00 0.00 37.46 3.18
1672 1690 3.045634 TGGAGGTTCCTTTTCTCTGACA 58.954 45.455 0.00 0.00 37.46 3.58
1673 1691 3.771577 TGGAGGTTCCTTTTCTCTGAC 57.228 47.619 0.00 0.00 37.46 3.51
1674 1692 5.309543 TGTATTGGAGGTTCCTTTTCTCTGA 59.690 40.000 0.00 0.00 37.46 3.27
1675 1693 5.560724 TGTATTGGAGGTTCCTTTTCTCTG 58.439 41.667 0.00 0.00 37.46 3.35
1676 1694 5.843019 TGTATTGGAGGTTCCTTTTCTCT 57.157 39.130 0.00 0.00 37.46 3.10
1677 1695 7.110155 TGTATGTATTGGAGGTTCCTTTTCTC 58.890 38.462 0.00 0.00 37.46 2.87
1678 1696 7.027874 TGTATGTATTGGAGGTTCCTTTTCT 57.972 36.000 0.00 0.00 37.46 2.52
1679 1697 7.881775 ATGTATGTATTGGAGGTTCCTTTTC 57.118 36.000 0.00 0.00 37.46 2.29
1680 1698 7.502561 GCTATGTATGTATTGGAGGTTCCTTTT 59.497 37.037 0.00 0.00 37.46 2.27
1681 1699 6.998673 GCTATGTATGTATTGGAGGTTCCTTT 59.001 38.462 0.00 0.00 37.46 3.11
1682 1700 6.330250 AGCTATGTATGTATTGGAGGTTCCTT 59.670 38.462 0.00 0.00 37.46 3.36
1683 1701 5.846714 AGCTATGTATGTATTGGAGGTTCCT 59.153 40.000 0.00 0.00 37.46 3.36
1684 1702 6.115448 AGCTATGTATGTATTGGAGGTTCC 57.885 41.667 0.00 0.00 36.96 3.62
1685 1703 8.451908 AAAAGCTATGTATGTATTGGAGGTTC 57.548 34.615 0.00 0.00 0.00 3.62
1686 1704 8.052748 TGAAAAGCTATGTATGTATTGGAGGTT 58.947 33.333 0.00 0.00 0.00 3.50
1687 1705 7.573710 TGAAAAGCTATGTATGTATTGGAGGT 58.426 34.615 0.00 0.00 0.00 3.85
1688 1706 8.509690 CATGAAAAGCTATGTATGTATTGGAGG 58.490 37.037 0.00 0.00 0.00 4.30
1689 1707 8.019669 GCATGAAAAGCTATGTATGTATTGGAG 58.980 37.037 0.00 0.00 0.00 3.86
1690 1708 7.720957 AGCATGAAAAGCTATGTATGTATTGGA 59.279 33.333 0.00 0.00 41.32 3.53
1691 1709 7.879070 AGCATGAAAAGCTATGTATGTATTGG 58.121 34.615 0.00 0.00 41.32 3.16
1694 1712 9.559732 TGTAAGCATGAAAAGCTATGTATGTAT 57.440 29.630 0.00 0.00 42.53 2.29
1695 1713 8.956533 TGTAAGCATGAAAAGCTATGTATGTA 57.043 30.769 0.00 0.00 42.53 2.29
1696 1714 7.012704 CCTGTAAGCATGAAAAGCTATGTATGT 59.987 37.037 0.00 0.00 42.53 2.29
1697 1715 7.227314 TCCTGTAAGCATGAAAAGCTATGTATG 59.773 37.037 0.00 0.00 42.53 2.39
1698 1716 7.282585 TCCTGTAAGCATGAAAAGCTATGTAT 58.717 34.615 0.00 0.00 42.53 2.29
1699 1717 6.649155 TCCTGTAAGCATGAAAAGCTATGTA 58.351 36.000 0.00 0.00 42.53 2.29
1700 1718 5.500234 TCCTGTAAGCATGAAAAGCTATGT 58.500 37.500 0.00 0.00 42.53 2.29
1701 1719 6.261118 GTTCCTGTAAGCATGAAAAGCTATG 58.739 40.000 0.00 0.00 42.53 2.23
1702 1720 5.358160 GGTTCCTGTAAGCATGAAAAGCTAT 59.642 40.000 0.00 0.00 42.53 2.97
1703 1721 4.700213 GGTTCCTGTAAGCATGAAAAGCTA 59.300 41.667 0.00 0.00 42.53 3.32
1704 1722 3.507622 GGTTCCTGTAAGCATGAAAAGCT 59.492 43.478 0.00 0.00 45.97 3.74
1705 1723 3.507622 AGGTTCCTGTAAGCATGAAAAGC 59.492 43.478 0.00 0.00 38.08 3.51
1706 1724 5.241506 TGAAGGTTCCTGTAAGCATGAAAAG 59.758 40.000 0.00 0.00 38.08 2.27
1707 1725 5.136828 TGAAGGTTCCTGTAAGCATGAAAA 58.863 37.500 0.00 0.00 38.08 2.29
1708 1726 4.724399 TGAAGGTTCCTGTAAGCATGAAA 58.276 39.130 0.00 0.00 38.08 2.69
1709 1727 4.365514 TGAAGGTTCCTGTAAGCATGAA 57.634 40.909 0.00 0.00 38.08 2.57
1710 1728 4.365514 TTGAAGGTTCCTGTAAGCATGA 57.634 40.909 0.00 0.00 38.08 3.07
1711 1729 5.647658 TGTATTGAAGGTTCCTGTAAGCATG 59.352 40.000 0.00 0.00 38.08 4.06
1712 1730 5.815581 TGTATTGAAGGTTCCTGTAAGCAT 58.184 37.500 0.00 0.00 38.08 3.79
1713 1731 5.235850 TGTATTGAAGGTTCCTGTAAGCA 57.764 39.130 0.00 0.00 38.08 3.91
1714 1732 6.017852 GCTATGTATTGAAGGTTCCTGTAAGC 60.018 42.308 0.00 0.00 35.75 3.09
1715 1733 7.275920 AGCTATGTATTGAAGGTTCCTGTAAG 58.724 38.462 0.00 0.00 0.00 2.34
1716 1734 7.195374 AGCTATGTATTGAAGGTTCCTGTAA 57.805 36.000 0.00 0.00 0.00 2.41
1717 1735 6.808321 AGCTATGTATTGAAGGTTCCTGTA 57.192 37.500 0.00 0.00 0.00 2.74
1718 1736 5.700402 AGCTATGTATTGAAGGTTCCTGT 57.300 39.130 0.00 0.00 0.00 4.00
1756 1774 8.107095 AGCTATGTATTTTGAAGGTTCCTGTAA 58.893 33.333 0.00 0.00 0.00 2.41
1757 1775 7.630082 AGCTATGTATTTTGAAGGTTCCTGTA 58.370 34.615 0.00 0.00 0.00 2.74
1758 1776 6.485171 AGCTATGTATTTTGAAGGTTCCTGT 58.515 36.000 0.00 0.00 0.00 4.00
1786 1804 8.738645 ATCCCAAGAAAAACACATACTATCTC 57.261 34.615 0.00 0.00 0.00 2.75
1800 1832 7.776969 CAGGATCATCTTCTTATCCCAAGAAAA 59.223 37.037 0.00 0.00 40.11 2.29
1975 2033 8.535335 AGTCCATTTTAGCGATGATATCTGTAT 58.465 33.333 3.98 0.00 0.00 2.29
1989 2047 6.228616 ACTTCTCCTCTAGTCCATTTTAGC 57.771 41.667 0.00 0.00 0.00 3.09
1997 2055 2.423446 ACCGACTTCTCCTCTAGTCC 57.577 55.000 0.00 0.00 37.98 3.85
1998 2056 4.753107 CAGATACCGACTTCTCCTCTAGTC 59.247 50.000 0.00 0.00 37.90 2.59
2118 3021 1.206849 TGTCAGCACATGAGCCGATAA 59.793 47.619 11.77 0.00 39.07 1.75
2119 3022 0.823460 TGTCAGCACATGAGCCGATA 59.177 50.000 11.77 2.51 39.07 2.92
2252 3155 4.837972 AGGCCACTGTTCTATCTCTTTTC 58.162 43.478 5.01 0.00 0.00 2.29
2254 3157 6.567602 ATTAGGCCACTGTTCTATCTCTTT 57.432 37.500 5.01 0.00 0.00 2.52
2257 3165 7.389053 CCAATAATTAGGCCACTGTTCTATCTC 59.611 40.741 5.01 0.00 0.00 2.75
2261 3169 6.119536 CACCAATAATTAGGCCACTGTTCTA 58.880 40.000 5.01 0.00 0.00 2.10
2335 3243 4.985538 TGGGTGCTCAGAACTTAGATTTT 58.014 39.130 0.00 0.00 0.00 1.82
2336 3244 4.287067 TCTGGGTGCTCAGAACTTAGATTT 59.713 41.667 0.00 0.00 40.43 2.17
2337 3245 3.840666 TCTGGGTGCTCAGAACTTAGATT 59.159 43.478 0.00 0.00 40.43 2.40
2338 3246 3.445008 TCTGGGTGCTCAGAACTTAGAT 58.555 45.455 0.00 0.00 40.43 1.98
2339 3247 2.828520 CTCTGGGTGCTCAGAACTTAGA 59.171 50.000 3.18 0.00 42.46 2.10
2340 3248 2.828520 TCTCTGGGTGCTCAGAACTTAG 59.171 50.000 3.18 0.00 42.46 2.18
2371 3279 5.195940 CCTGCAAGATCCAGATTAGGAAAA 58.804 41.667 0.00 0.00 41.92 2.29
2372 3280 4.785301 CCTGCAAGATCCAGATTAGGAAA 58.215 43.478 0.00 0.00 41.92 3.13


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

AutoCloner maintained by Alex Coulton.