Multiple sequence alignment - TraesCS4A01G254900

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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 TraesCS4A01G254900 chr4A 100.000 2813 0 0 1 2813 567039089 567036277 0.000000e+00 5195.0
1 TraesCS4A01G254900 chr4A 87.647 1279 103 19 428 1679 567470442 567471692 0.000000e+00 1435.0
2 TraesCS4A01G254900 chr4A 95.000 40 2 0 192 231 37028883 37028844 2.340000e-06 63.9
3 TraesCS4A01G254900 chr4D 88.636 1672 134 28 1 1658 35521407 35523036 0.000000e+00 1984.0
4 TraesCS4A01G254900 chr4D 88.454 1637 118 35 65 1688 35173221 35171643 0.000000e+00 1910.0
5 TraesCS4A01G254900 chr4B 89.114 1433 103 23 260 1679 51125999 51124607 0.000000e+00 1733.0
6 TraesCS4A01G254900 chr4B 89.157 1328 101 10 364 1688 51748464 51749751 0.000000e+00 1615.0
7 TraesCS4A01G254900 chr5D 90.209 1052 51 10 1807 2813 113747452 113748496 0.000000e+00 1325.0
8 TraesCS4A01G254900 chr5D 85.124 242 31 3 2256 2494 525465394 525465155 2.800000e-60 243.0
9 TraesCS4A01G254900 chr5D 100.000 36 0 0 1828 1863 499260658 499260693 1.810000e-07 67.6
10 TraesCS4A01G254900 chr5D 100.000 34 0 0 1828 1861 227774255 227774288 2.340000e-06 63.9
11 TraesCS4A01G254900 chr6D 90.379 1029 56 11 1824 2812 429976718 429975693 0.000000e+00 1312.0
12 TraesCS4A01G254900 chr1A 88.547 1039 74 11 1815 2812 427505622 427506656 0.000000e+00 1218.0
13 TraesCS4A01G254900 chr1B 88.377 1041 75 15 1812 2813 368076454 368077487 0.000000e+00 1210.0
14 TraesCS4A01G254900 chr1B 82.584 356 42 9 1828 2166 551719210 551719562 2.120000e-76 296.0
15 TraesCS4A01G254900 chr2B 85.643 599 58 15 2220 2812 583671220 583670644 3.100000e-169 604.0
16 TraesCS4A01G254900 chr3B 86.355 557 59 10 2261 2812 727054610 727054066 2.410000e-165 592.0
17 TraesCS4A01G254900 chr3B 82.137 599 63 24 2219 2813 792879206 792878648 9.120000e-130 473.0
18 TraesCS4A01G254900 chr7B 85.484 558 57 11 2256 2811 60374533 60373998 6.800000e-156 560.0
19 TraesCS4A01G254900 chr3D 84.725 563 66 13 2252 2813 591724026 591724569 1.910000e-151 545.0
20 TraesCS4A01G254900 chr3D 100.000 34 0 0 1828 1861 27687193 27687226 2.340000e-06 63.9
21 TraesCS4A01G254900 chr7D 82.920 363 40 11 1828 2168 612285219 612285581 9.790000e-80 307.0
22 TraesCS4A01G254900 chr7D 82.143 364 43 10 1828 2169 228439296 228439659 2.740000e-75 292.0
23 TraesCS4A01G254900 chr7D 78.916 166 33 2 2576 2740 621608425 621608589 8.240000e-21 111.0
24 TraesCS4A01G254900 chr1D 82.825 361 39 14 1830 2169 400973023 400973381 4.550000e-78 302.0
25 TraesCS4A01G254900 chr1D 100.000 36 0 0 1828 1863 379466767 379466732 1.810000e-07 67.6
26 TraesCS4A01G254900 chr5A 86.347 271 27 5 2233 2494 651810887 651810618 1.280000e-73 287.0
27 TraesCS4A01G254900 chr7A 81.768 362 43 10 1828 2168 567385645 567386004 5.930000e-72 281.0
28 TraesCS4A01G254900 chr2A 100.000 35 0 0 1828 1862 1891093 1891127 6.500000e-07 65.8
29 TraesCS4A01G254900 chr2A 97.143 35 1 0 1828 1862 11195300 11195334 3.030000e-05 60.2
30 TraesCS4A01G254900 chr6B 95.122 41 1 1 1692 1732 590670405 590670444 2.340000e-06 63.9
31 TraesCS4A01G254900 chr5B 94.872 39 2 0 192 230 513849295 513849333 8.410000e-06 62.1


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 TraesCS4A01G254900 chr4A 567036277 567039089 2812 True 5195 5195 100.000 1 2813 1 chr4A.!!$R2 2812
1 TraesCS4A01G254900 chr4A 567470442 567471692 1250 False 1435 1435 87.647 428 1679 1 chr4A.!!$F1 1251
2 TraesCS4A01G254900 chr4D 35521407 35523036 1629 False 1984 1984 88.636 1 1658 1 chr4D.!!$F1 1657
3 TraesCS4A01G254900 chr4D 35171643 35173221 1578 True 1910 1910 88.454 65 1688 1 chr4D.!!$R1 1623
4 TraesCS4A01G254900 chr4B 51124607 51125999 1392 True 1733 1733 89.114 260 1679 1 chr4B.!!$R1 1419
5 TraesCS4A01G254900 chr4B 51748464 51749751 1287 False 1615 1615 89.157 364 1688 1 chr4B.!!$F1 1324
6 TraesCS4A01G254900 chr5D 113747452 113748496 1044 False 1325 1325 90.209 1807 2813 1 chr5D.!!$F1 1006
7 TraesCS4A01G254900 chr6D 429975693 429976718 1025 True 1312 1312 90.379 1824 2812 1 chr6D.!!$R1 988
8 TraesCS4A01G254900 chr1A 427505622 427506656 1034 False 1218 1218 88.547 1815 2812 1 chr1A.!!$F1 997
9 TraesCS4A01G254900 chr1B 368076454 368077487 1033 False 1210 1210 88.377 1812 2813 1 chr1B.!!$F1 1001
10 TraesCS4A01G254900 chr2B 583670644 583671220 576 True 604 604 85.643 2220 2812 1 chr2B.!!$R1 592
11 TraesCS4A01G254900 chr3B 727054066 727054610 544 True 592 592 86.355 2261 2812 1 chr3B.!!$R1 551
12 TraesCS4A01G254900 chr3B 792878648 792879206 558 True 473 473 82.137 2219 2813 1 chr3B.!!$R2 594
13 TraesCS4A01G254900 chr7B 60373998 60374533 535 True 560 560 85.484 2256 2811 1 chr7B.!!$R1 555
14 TraesCS4A01G254900 chr3D 591724026 591724569 543 False 545 545 84.725 2252 2813 1 chr3D.!!$F2 561

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
622 634 0.242825 GGACGGTCGATGTCTTGTGA 59.757 55.0 17.02 0.0 36.58 3.58 F
889 921 0.466555 TCCCAAAGGAACACCAACCG 60.467 55.0 0.00 0.0 40.08 4.44 F
936 968 0.678950 CCACGGCAAAGGGTGAAATT 59.321 50.0 0.00 0.0 36.25 1.82 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1688 1752 0.250770 GTCAGTTGGGGGAGTTCCAC 60.251 60.0 0.0 0.0 40.15 4.02 R
1690 1754 0.771755 AAGTCAGTTGGGGGAGTTCC 59.228 55.0 0.0 0.0 0.00 3.62 R
2674 2834 0.859232 CAACACTCCCACTTTCGACG 59.141 55.0 0.0 0.0 0.00 5.12 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
34 35 2.467880 TGTCATCCTACTGGTTCCCTC 58.532 52.381 0.00 0.00 34.23 4.30
51 52 2.381911 CCTCTTATTGCCATGCTTGGT 58.618 47.619 19.05 3.23 45.57 3.67
70 71 5.450818 TGGTAACTAAAGATGCCATCCTT 57.549 39.130 0.00 0.00 37.61 3.36
136 137 1.957877 TCATACCTGACGTGTGACACA 59.042 47.619 16.74 3.56 37.65 3.72
140 141 2.210116 ACCTGACGTGTGACACATTTC 58.790 47.619 16.74 11.43 33.40 2.17
155 156 8.398665 GTGACACATTTCTTAAGGATAATCCAC 58.601 37.037 1.85 0.05 39.61 4.02
238 239 3.827898 CTCAGGGCCGACTCGACC 61.828 72.222 0.00 0.00 0.00 4.79
264 265 6.993786 TCATGTGTTTGCGGAAATATAAGA 57.006 33.333 5.09 0.90 0.00 2.10
289 290 2.102578 GGAAATGAGGGATGTGGTTGG 58.897 52.381 0.00 0.00 0.00 3.77
293 294 2.933287 AGGGATGTGGTTGGCCGA 60.933 61.111 0.00 0.00 37.67 5.54
296 297 1.303317 GGATGTGGTTGGCCGAACT 60.303 57.895 10.11 0.00 37.67 3.01
297 298 0.893727 GGATGTGGTTGGCCGAACTT 60.894 55.000 10.11 0.00 37.67 2.66
302 303 0.323629 TGGTTGGCCGAACTTAGAGG 59.676 55.000 10.11 0.00 37.67 3.69
327 328 0.321653 GTTCACCGGCTCTGTCCAAT 60.322 55.000 0.00 0.00 0.00 3.16
345 346 1.926561 ATGACACATCGACGGACATG 58.073 50.000 0.00 0.00 0.00 3.21
353 354 1.302192 CGACGGACATGTGGGGTTT 60.302 57.895 1.15 0.00 0.00 3.27
407 408 8.367911 TCTCATACGCTATCCTTTTATGACAAT 58.632 33.333 0.00 0.00 0.00 2.71
503 514 0.882927 TTTTGTTCCAGTCGAGGGCG 60.883 55.000 0.00 0.00 39.35 6.13
523 534 0.303493 ACGTGATGCACAACGTTGAC 59.697 50.000 33.66 23.69 34.56 3.18
524 535 0.717896 CGTGATGCACAACGTTGACG 60.718 55.000 33.66 25.48 38.71 4.35
525 536 0.991770 GTGATGCACAACGTTGACGC 60.992 55.000 33.66 30.55 37.29 5.19
526 537 1.440353 GATGCACAACGTTGACGCC 60.440 57.895 33.66 18.24 44.43 5.68
527 538 2.111932 GATGCACAACGTTGACGCCA 62.112 55.000 33.66 21.97 44.43 5.69
528 539 1.719725 ATGCACAACGTTGACGCCAA 61.720 50.000 33.66 19.27 44.43 4.52
529 540 1.226435 GCACAACGTTGACGCCAAA 60.226 52.632 33.66 0.00 44.43 3.28
530 541 0.593773 GCACAACGTTGACGCCAAAT 60.594 50.000 33.66 6.62 44.43 2.32
531 542 1.119635 CACAACGTTGACGCCAAATG 58.880 50.000 33.66 15.24 44.43 2.32
532 543 0.736053 ACAACGTTGACGCCAAATGT 59.264 45.000 33.66 5.79 44.43 2.71
533 544 1.133407 ACAACGTTGACGCCAAATGTT 59.867 42.857 33.66 4.50 44.43 2.71
534 545 1.516453 CAACGTTGACGCCAAATGTTG 59.484 47.619 23.90 13.60 44.43 3.33
535 546 1.018148 ACGTTGACGCCAAATGTTGA 58.982 45.000 3.05 0.00 44.43 3.18
547 558 3.236816 CAAATGTTGACAACTGATCGCC 58.763 45.455 18.73 0.00 0.00 5.54
619 631 4.496670 GGGACGGTCGATGTCTTG 57.503 61.111 17.02 0.00 36.58 3.02
620 632 1.590147 GGGACGGTCGATGTCTTGT 59.410 57.895 17.02 0.00 36.58 3.16
621 633 0.736325 GGGACGGTCGATGTCTTGTG 60.736 60.000 17.02 0.00 36.58 3.33
622 634 0.242825 GGACGGTCGATGTCTTGTGA 59.757 55.000 17.02 0.00 36.58 3.58
623 635 1.337821 GACGGTCGATGTCTTGTGAC 58.662 55.000 12.08 0.00 43.20 3.67
624 636 0.959553 ACGGTCGATGTCTTGTGACT 59.040 50.000 0.00 0.00 43.29 3.41
635 647 2.677836 GTCTTGTGACTTTGTGAGCACA 59.322 45.455 0.00 0.00 39.19 4.57
639 651 4.071961 TGTGACTTTGTGAGCACATACT 57.928 40.909 3.90 0.00 41.52 2.12
715 727 4.084328 CCTCTCCGTAATCGCAATGATTTC 60.084 45.833 0.00 0.00 45.06 2.17
716 728 4.438148 TCTCCGTAATCGCAATGATTTCA 58.562 39.130 0.00 0.00 45.06 2.69
720 732 5.527214 TCCGTAATCGCAATGATTTCAGAAT 59.473 36.000 0.00 0.00 45.06 2.40
722 734 5.114572 CGTAATCGCAATGATTTCAGAATGC 59.885 40.000 0.00 5.97 45.06 3.56
723 735 3.425577 TCGCAATGATTTCAGAATGCC 57.574 42.857 9.02 0.00 34.76 4.40
724 736 3.018856 TCGCAATGATTTCAGAATGCCT 58.981 40.909 9.02 0.00 34.76 4.75
728 740 4.348656 CAATGATTTCAGAATGCCTCGTG 58.651 43.478 0.00 0.00 34.76 4.35
734 746 1.738099 AGAATGCCTCGTGTCGTGC 60.738 57.895 0.00 0.00 0.00 5.34
809 835 1.951130 CGAGCACGCACACAAGTCT 60.951 57.895 0.00 0.00 0.00 3.24
854 885 4.262079 GGAGCACTATTACTACGAAGCCAT 60.262 45.833 0.00 0.00 0.00 4.40
889 921 0.466555 TCCCAAAGGAACACCAACCG 60.467 55.000 0.00 0.00 40.08 4.44
895 927 2.265904 GGAACACCAACCGAAGCCC 61.266 63.158 0.00 0.00 0.00 5.19
936 968 0.678950 CCACGGCAAAGGGTGAAATT 59.321 50.000 0.00 0.00 36.25 1.82
1318 1372 2.424302 CACCACGACCCGTTCCTT 59.576 61.111 0.00 0.00 38.32 3.36
1330 1384 2.098831 GTTCCTTGCCGCCTACGTC 61.099 63.158 0.00 0.00 37.70 4.34
1453 1516 1.883021 CATTTGGAGCGGTTGGACC 59.117 57.895 0.00 0.00 34.05 4.46
1593 1656 3.866582 GGTGATCCCGGCCAGGAG 61.867 72.222 14.46 5.03 45.00 3.69
1688 1752 2.764010 TGTAGTGCACCCTACCATGTAG 59.236 50.000 14.63 0.00 37.16 2.74
1689 1753 1.952621 AGTGCACCCTACCATGTAGT 58.047 50.000 14.63 0.00 0.00 2.73
1690 1754 1.555075 AGTGCACCCTACCATGTAGTG 59.445 52.381 14.63 0.00 0.00 2.74
1705 1769 4.821935 GTGGAACTCCCCCAACTG 57.178 61.111 0.00 0.00 35.12 3.16
1706 1770 2.151369 GTGGAACTCCCCCAACTGA 58.849 57.895 0.00 0.00 35.12 3.41
1707 1771 0.250770 GTGGAACTCCCCCAACTGAC 60.251 60.000 0.00 0.00 35.12 3.51
1708 1772 0.401395 TGGAACTCCCCCAACTGACT 60.401 55.000 0.00 0.00 34.29 3.41
1709 1773 0.771755 GGAACTCCCCCAACTGACTT 59.228 55.000 0.00 0.00 0.00 3.01
1710 1774 1.982958 GGAACTCCCCCAACTGACTTA 59.017 52.381 0.00 0.00 0.00 2.24
1711 1775 2.576648 GGAACTCCCCCAACTGACTTAT 59.423 50.000 0.00 0.00 0.00 1.73
1712 1776 3.778629 GGAACTCCCCCAACTGACTTATA 59.221 47.826 0.00 0.00 0.00 0.98
1713 1777 4.412528 GGAACTCCCCCAACTGACTTATAT 59.587 45.833 0.00 0.00 0.00 0.86
1714 1778 5.104067 GGAACTCCCCCAACTGACTTATATT 60.104 44.000 0.00 0.00 0.00 1.28
1715 1779 6.402981 AACTCCCCCAACTGACTTATATTT 57.597 37.500 0.00 0.00 0.00 1.40
1716 1780 6.002653 ACTCCCCCAACTGACTTATATTTC 57.997 41.667 0.00 0.00 0.00 2.17
1717 1781 5.031066 TCCCCCAACTGACTTATATTTCG 57.969 43.478 0.00 0.00 0.00 3.46
1718 1782 4.134563 CCCCCAACTGACTTATATTTCGG 58.865 47.826 0.00 0.00 0.00 4.30
1719 1783 4.141574 CCCCCAACTGACTTATATTTCGGA 60.142 45.833 0.00 0.00 0.00 4.55
1720 1784 5.433526 CCCCAACTGACTTATATTTCGGAA 58.566 41.667 0.00 0.00 0.00 4.30
1721 1785 5.296035 CCCCAACTGACTTATATTTCGGAAC 59.704 44.000 0.00 0.00 0.00 3.62
1722 1786 5.878116 CCCAACTGACTTATATTTCGGAACA 59.122 40.000 0.00 0.00 0.00 3.18
1723 1787 6.037172 CCCAACTGACTTATATTTCGGAACAG 59.963 42.308 0.00 0.00 0.00 3.16
1724 1788 6.816640 CCAACTGACTTATATTTCGGAACAGA 59.183 38.462 0.00 0.00 0.00 3.41
1725 1789 7.495934 CCAACTGACTTATATTTCGGAACAGAT 59.504 37.037 0.00 0.00 0.00 2.90
1726 1790 8.331022 CAACTGACTTATATTTCGGAACAGATG 58.669 37.037 0.00 0.00 0.00 2.90
1727 1791 7.556844 ACTGACTTATATTTCGGAACAGATGT 58.443 34.615 0.00 0.00 0.00 3.06
1728 1792 8.692710 ACTGACTTATATTTCGGAACAGATGTA 58.307 33.333 0.00 0.00 0.00 2.29
1729 1793 9.529325 CTGACTTATATTTCGGAACAGATGTAA 57.471 33.333 0.00 0.00 0.00 2.41
1737 1801 8.658499 ATTTCGGAACAGATGTAATAGTAACC 57.342 34.615 0.00 0.00 0.00 2.85
1738 1802 7.414222 TTCGGAACAGATGTAATAGTAACCT 57.586 36.000 0.00 0.00 0.00 3.50
1739 1803 8.523915 TTCGGAACAGATGTAATAGTAACCTA 57.476 34.615 0.00 0.00 0.00 3.08
1740 1804 8.701908 TCGGAACAGATGTAATAGTAACCTAT 57.298 34.615 0.00 0.00 35.33 2.57
1741 1805 9.797642 TCGGAACAGATGTAATAGTAACCTATA 57.202 33.333 0.00 0.00 32.57 1.31
1757 1821 9.971922 AGTAACCTATAACCAATGTAACGATAC 57.028 33.333 0.00 0.00 0.00 2.24
1758 1822 9.971922 GTAACCTATAACCAATGTAACGATACT 57.028 33.333 4.39 0.00 32.98 2.12
1760 1824 9.971922 AACCTATAACCAATGTAACGATACTAC 57.028 33.333 4.39 0.00 32.98 2.73
1761 1825 9.359653 ACCTATAACCAATGTAACGATACTACT 57.640 33.333 4.39 0.00 32.98 2.57
1762 1826 9.622004 CCTATAACCAATGTAACGATACTACTG 57.378 37.037 4.39 0.00 32.98 2.74
1763 1827 7.941795 ATAACCAATGTAACGATACTACTGC 57.058 36.000 4.39 0.00 32.98 4.40
1764 1828 5.333299 ACCAATGTAACGATACTACTGCA 57.667 39.130 4.39 0.00 32.98 4.41
1765 1829 5.348986 ACCAATGTAACGATACTACTGCAG 58.651 41.667 13.48 13.48 32.98 4.41
1766 1830 5.105473 ACCAATGTAACGATACTACTGCAGT 60.105 40.000 25.12 25.12 41.62 4.40
1767 1831 5.232202 CCAATGTAACGATACTACTGCAGTG 59.768 44.000 29.57 20.07 38.24 3.66
1768 1832 5.578005 ATGTAACGATACTACTGCAGTGT 57.422 39.130 29.57 24.21 38.24 3.55
1769 1833 4.729595 TGTAACGATACTACTGCAGTGTG 58.270 43.478 29.57 22.22 38.24 3.82
1770 1834 3.936372 AACGATACTACTGCAGTGTGT 57.064 42.857 29.57 26.18 38.24 3.72
1771 1835 5.412286 TGTAACGATACTACTGCAGTGTGTA 59.588 40.000 29.57 27.28 38.24 2.90
1772 1836 5.381174 AACGATACTACTGCAGTGTGTAA 57.619 39.130 29.57 7.93 38.24 2.41
1773 1837 5.381174 ACGATACTACTGCAGTGTGTAAA 57.619 39.130 29.57 13.44 38.24 2.01
1774 1838 5.775686 ACGATACTACTGCAGTGTGTAAAA 58.224 37.500 29.57 12.78 38.24 1.52
1775 1839 6.395629 ACGATACTACTGCAGTGTGTAAAAT 58.604 36.000 29.57 16.49 38.24 1.82
1776 1840 6.872020 ACGATACTACTGCAGTGTGTAAAATT 59.128 34.615 29.57 15.29 38.24 1.82
1777 1841 7.148639 ACGATACTACTGCAGTGTGTAAAATTG 60.149 37.037 29.57 20.06 38.24 2.32
1778 1842 7.148639 CGATACTACTGCAGTGTGTAAAATTGT 60.149 37.037 29.57 14.35 38.24 2.71
1779 1843 6.060028 ACTACTGCAGTGTGTAAAATTGTG 57.940 37.500 29.57 0.00 35.62 3.33
1780 1844 5.820423 ACTACTGCAGTGTGTAAAATTGTGA 59.180 36.000 29.57 2.68 35.62 3.58
1781 1845 5.574891 ACTGCAGTGTGTAAAATTGTGAA 57.425 34.783 20.97 0.00 0.00 3.18
1782 1846 5.581605 ACTGCAGTGTGTAAAATTGTGAAG 58.418 37.500 20.97 0.00 0.00 3.02
1783 1847 5.356751 ACTGCAGTGTGTAAAATTGTGAAGA 59.643 36.000 20.97 0.00 0.00 2.87
1784 1848 5.820131 TGCAGTGTGTAAAATTGTGAAGAG 58.180 37.500 0.00 0.00 0.00 2.85
1785 1849 5.588246 TGCAGTGTGTAAAATTGTGAAGAGA 59.412 36.000 0.00 0.00 0.00 3.10
1786 1850 6.262944 TGCAGTGTGTAAAATTGTGAAGAGAT 59.737 34.615 0.00 0.00 0.00 2.75
1787 1851 7.443879 TGCAGTGTGTAAAATTGTGAAGAGATA 59.556 33.333 0.00 0.00 0.00 1.98
1788 1852 7.959651 GCAGTGTGTAAAATTGTGAAGAGATAG 59.040 37.037 0.00 0.00 0.00 2.08
1789 1853 9.208022 CAGTGTGTAAAATTGTGAAGAGATAGA 57.792 33.333 0.00 0.00 0.00 1.98
1790 1854 9.778741 AGTGTGTAAAATTGTGAAGAGATAGAA 57.221 29.630 0.00 0.00 0.00 2.10
1791 1855 9.813080 GTGTGTAAAATTGTGAAGAGATAGAAC 57.187 33.333 0.00 0.00 0.00 3.01
1792 1856 9.778741 TGTGTAAAATTGTGAAGAGATAGAACT 57.221 29.630 0.00 0.00 0.00 3.01
1794 1858 9.778741 TGTAAAATTGTGAAGAGATAGAACTGT 57.221 29.630 0.00 0.00 0.00 3.55
1798 1862 9.646427 AAATTGTGAAGAGATAGAACTGTACTC 57.354 33.333 0.00 0.00 0.00 2.59
1799 1863 6.761099 TGTGAAGAGATAGAACTGTACTCC 57.239 41.667 0.00 0.00 0.00 3.85
1800 1864 6.486056 TGTGAAGAGATAGAACTGTACTCCT 58.514 40.000 0.00 0.00 0.00 3.69
1801 1865 6.948886 TGTGAAGAGATAGAACTGTACTCCTT 59.051 38.462 0.00 0.00 0.00 3.36
1802 1866 7.121463 TGTGAAGAGATAGAACTGTACTCCTTC 59.879 40.741 0.00 0.00 0.00 3.46
1803 1867 6.603997 TGAAGAGATAGAACTGTACTCCTTCC 59.396 42.308 0.00 0.00 0.00 3.46
1804 1868 5.127491 AGAGATAGAACTGTACTCCTTCCG 58.873 45.833 0.00 0.00 0.00 4.30
1805 1869 4.857679 AGATAGAACTGTACTCCTTCCGT 58.142 43.478 0.00 0.00 0.00 4.69
1806 1870 5.262804 AGATAGAACTGTACTCCTTCCGTT 58.737 41.667 0.00 0.00 0.00 4.44
1807 1871 5.715753 AGATAGAACTGTACTCCTTCCGTTT 59.284 40.000 0.00 0.00 0.00 3.60
1808 1872 6.888632 AGATAGAACTGTACTCCTTCCGTTTA 59.111 38.462 0.00 0.00 0.00 2.01
1809 1873 5.997384 AGAACTGTACTCCTTCCGTTTAT 57.003 39.130 0.00 0.00 0.00 1.40
1810 1874 8.757982 ATAGAACTGTACTCCTTCCGTTTATA 57.242 34.615 0.00 0.00 0.00 0.98
1811 1875 7.472334 AGAACTGTACTCCTTCCGTTTATAA 57.528 36.000 0.00 0.00 0.00 0.98
1812 1876 7.899973 AGAACTGTACTCCTTCCGTTTATAAA 58.100 34.615 0.00 0.00 0.00 1.40
1821 1885 3.472283 TCCGTTTATAAATAGGGCGCA 57.528 42.857 10.83 0.00 0.00 6.09
1957 2058 1.128188 AAGGGGAAAGAGACCAGCGT 61.128 55.000 0.00 0.00 0.00 5.07
2098 2199 0.322008 CGGCCTTTTCTCTTGCCTCT 60.322 55.000 0.00 0.00 41.80 3.69
2122 2223 1.302033 GCATCCATGGTAGCTCCGG 60.302 63.158 19.41 0.00 39.52 5.14
2568 2725 2.076100 CGCATGGTTGAAGCTTCTGTA 58.924 47.619 26.09 11.13 0.00 2.74
2569 2726 2.483877 CGCATGGTTGAAGCTTCTGTAA 59.516 45.455 26.09 10.57 0.00 2.41
2674 2834 7.158099 ACCTATGAATCAAAAAGTTGCTACC 57.842 36.000 0.00 0.00 34.50 3.18
2688 2850 0.458025 GCTACCGTCGAAAGTGGGAG 60.458 60.000 0.00 2.84 40.24 4.30
2801 2963 2.415893 GGTGCTCGTGGATGAAAATTGG 60.416 50.000 0.00 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
51 52 3.876914 CGCAAGGATGGCATCTTTAGTTA 59.123 43.478 25.48 0.00 30.95 2.24
70 71 0.036164 ATGGCAGGTTTAGTGACGCA 59.964 50.000 0.00 0.00 0.00 5.24
110 111 1.343142 ACACGTCAGGTATGAGCACAA 59.657 47.619 0.00 0.00 35.66 3.33
140 141 9.632638 CCATATAATGGGTGGATTATCCTTAAG 57.367 37.037 12.91 0.00 46.86 1.85
233 234 0.584396 GCAAACACATGAACGGTCGA 59.416 50.000 0.00 0.00 0.00 4.20
238 239 2.112475 TTTCCGCAAACACATGAACG 57.888 45.000 0.00 0.00 0.00 3.95
239 240 7.247728 TCTTATATTTCCGCAAACACATGAAC 58.752 34.615 0.00 0.00 0.00 3.18
264 265 4.428570 ACCACATCCCTCATTTCCAAAAT 58.571 39.130 0.00 0.00 0.00 1.82
289 290 1.227002 CCTCGCCTCTAAGTTCGGC 60.227 63.158 0.00 0.00 40.40 5.54
293 294 1.275573 GTGAACCCTCGCCTCTAAGTT 59.724 52.381 0.00 0.00 0.00 2.66
327 328 0.601057 ACATGTCCGTCGATGTGTCA 59.399 50.000 3.52 0.36 31.47 3.58
345 346 6.376177 CGAACTTGTCTAATTTAAACCCCAC 58.624 40.000 0.00 0.00 0.00 4.61
353 354 6.460781 TCTTCAGCCGAACTTGTCTAATTTA 58.539 36.000 0.00 0.00 0.00 1.40
460 461 6.049790 ACGAGATGAAGCCTAGGTTTTATTC 58.950 40.000 15.39 13.07 0.00 1.75
503 514 0.579630 TCAACGTTGTGCATCACGTC 59.420 50.000 26.47 0.00 37.14 4.34
523 534 2.772568 TCAGTTGTCAACATTTGGCG 57.227 45.000 17.78 0.00 38.34 5.69
524 535 3.236816 CGATCAGTTGTCAACATTTGGC 58.763 45.455 17.78 3.65 35.37 4.52
525 536 3.236816 GCGATCAGTTGTCAACATTTGG 58.763 45.455 17.78 5.32 0.00 3.28
526 537 3.236816 GGCGATCAGTTGTCAACATTTG 58.763 45.455 17.78 7.67 0.00 2.32
527 538 2.228822 GGGCGATCAGTTGTCAACATTT 59.771 45.455 17.78 1.57 0.00 2.32
528 539 1.812571 GGGCGATCAGTTGTCAACATT 59.187 47.619 17.78 1.92 0.00 2.71
529 540 1.271325 TGGGCGATCAGTTGTCAACAT 60.271 47.619 17.78 3.46 0.00 2.71
530 541 0.107643 TGGGCGATCAGTTGTCAACA 59.892 50.000 17.78 0.00 0.00 3.33
531 542 1.197721 CTTGGGCGATCAGTTGTCAAC 59.802 52.381 7.68 7.68 0.00 3.18
532 543 1.071542 TCTTGGGCGATCAGTTGTCAA 59.928 47.619 0.00 0.00 0.00 3.18
533 544 0.684535 TCTTGGGCGATCAGTTGTCA 59.315 50.000 0.00 0.00 0.00 3.58
534 545 1.079503 GTCTTGGGCGATCAGTTGTC 58.920 55.000 0.00 0.00 0.00 3.18
535 546 0.670546 CGTCTTGGGCGATCAGTTGT 60.671 55.000 0.00 0.00 0.00 3.32
547 558 2.875933 TCTTAACTTGGTTGCGTCTTGG 59.124 45.455 0.00 0.00 0.00 3.61
617 629 4.450976 AGTATGTGCTCACAAAGTCACAA 58.549 39.130 6.81 0.00 45.41 3.33
618 630 4.071961 AGTATGTGCTCACAAAGTCACA 57.928 40.909 6.81 0.00 45.41 3.58
619 631 5.388475 CGTAAGTATGTGCTCACAAAGTCAC 60.388 44.000 6.81 2.89 45.41 3.67
620 632 4.684242 CGTAAGTATGTGCTCACAAAGTCA 59.316 41.667 6.81 0.00 45.41 3.41
621 633 4.091509 CCGTAAGTATGTGCTCACAAAGTC 59.908 45.833 6.81 0.00 45.41 3.01
622 634 3.994392 CCGTAAGTATGTGCTCACAAAGT 59.006 43.478 6.81 0.00 45.41 2.66
623 635 4.242475 TCCGTAAGTATGTGCTCACAAAG 58.758 43.478 6.81 0.00 45.41 2.77
624 636 4.242475 CTCCGTAAGTATGTGCTCACAAA 58.758 43.478 6.81 0.00 45.41 2.83
635 647 2.492012 AGCGATCGACTCCGTAAGTAT 58.508 47.619 21.57 0.00 38.74 2.12
639 651 0.099968 CCAAGCGATCGACTCCGTAA 59.900 55.000 21.57 0.00 37.05 3.18
672 684 2.289565 GATCCACGGGAATTCTGTTCC 58.710 52.381 5.23 0.00 34.34 3.62
702 714 3.635373 AGGCATTCTGAAATCATTGCGAT 59.365 39.130 6.79 0.00 35.12 4.58
703 715 3.018856 AGGCATTCTGAAATCATTGCGA 58.981 40.909 6.79 0.00 31.25 5.10
715 727 1.959899 GCACGACACGAGGCATTCTG 61.960 60.000 0.00 0.00 33.05 3.02
716 728 1.738099 GCACGACACGAGGCATTCT 60.738 57.895 0.00 0.00 33.05 2.40
720 732 4.578898 AACGCACGACACGAGGCA 62.579 61.111 0.00 0.00 33.05 4.75
722 734 2.354188 TGAACGCACGACACGAGG 60.354 61.111 0.00 0.00 0.00 4.63
723 735 1.657487 ACTGAACGCACGACACGAG 60.657 57.895 0.00 0.00 0.00 4.18
724 736 1.942223 CACTGAACGCACGACACGA 60.942 57.895 0.00 0.00 0.00 4.35
728 740 0.874607 AGGAACACTGAACGCACGAC 60.875 55.000 0.00 0.00 0.00 4.34
809 835 2.760092 ACTATTTACTGTTCGGGCCGTA 59.240 45.455 27.32 14.78 0.00 4.02
854 885 0.468226 GGGATATCAGGCACCGTTCA 59.532 55.000 4.83 0.00 0.00 3.18
895 927 1.966451 GTGAACAAGGAGGCGTGGG 60.966 63.158 0.00 0.00 0.00 4.61
1043 1088 2.810887 GCTCATCGCTGCACGTCA 60.811 61.111 0.00 0.00 44.19 4.35
1111 1156 0.249405 GGTTGTTGGACACGGTCGTA 60.249 55.000 0.00 0.00 32.65 3.43
1688 1752 0.250770 GTCAGTTGGGGGAGTTCCAC 60.251 60.000 0.00 0.00 40.15 4.02
1689 1753 0.401395 AGTCAGTTGGGGGAGTTCCA 60.401 55.000 0.00 0.00 37.91 3.53
1690 1754 0.771755 AAGTCAGTTGGGGGAGTTCC 59.228 55.000 0.00 0.00 0.00 3.62
1691 1755 5.632034 ATATAAGTCAGTTGGGGGAGTTC 57.368 43.478 0.00 0.00 0.00 3.01
1692 1756 6.402981 AAATATAAGTCAGTTGGGGGAGTT 57.597 37.500 0.00 0.00 0.00 3.01
1693 1757 5.396436 CGAAATATAAGTCAGTTGGGGGAGT 60.396 44.000 0.00 0.00 0.00 3.85
1694 1758 5.057149 CGAAATATAAGTCAGTTGGGGGAG 58.943 45.833 0.00 0.00 0.00 4.30
1695 1759 4.141574 CCGAAATATAAGTCAGTTGGGGGA 60.142 45.833 0.00 0.00 0.00 4.81
1696 1760 4.134563 CCGAAATATAAGTCAGTTGGGGG 58.865 47.826 0.00 0.00 0.00 5.40
1697 1761 5.031066 TCCGAAATATAAGTCAGTTGGGG 57.969 43.478 0.00 0.00 0.00 4.96
1698 1762 5.878116 TGTTCCGAAATATAAGTCAGTTGGG 59.122 40.000 0.00 0.00 0.00 4.12
1699 1763 6.816640 TCTGTTCCGAAATATAAGTCAGTTGG 59.183 38.462 0.00 0.00 0.00 3.77
1700 1764 7.827819 TCTGTTCCGAAATATAAGTCAGTTG 57.172 36.000 0.00 0.00 0.00 3.16
1701 1765 8.041323 ACATCTGTTCCGAAATATAAGTCAGTT 58.959 33.333 0.00 0.00 0.00 3.16
1702 1766 7.556844 ACATCTGTTCCGAAATATAAGTCAGT 58.443 34.615 0.00 0.00 0.00 3.41
1703 1767 9.529325 TTACATCTGTTCCGAAATATAAGTCAG 57.471 33.333 0.00 0.00 0.00 3.51
1711 1775 9.754382 GGTTACTATTACATCTGTTCCGAAATA 57.246 33.333 0.00 0.00 0.00 1.40
1712 1776 8.483758 AGGTTACTATTACATCTGTTCCGAAAT 58.516 33.333 0.00 0.00 0.00 2.17
1713 1777 7.844009 AGGTTACTATTACATCTGTTCCGAAA 58.156 34.615 0.00 0.00 0.00 3.46
1714 1778 7.414222 AGGTTACTATTACATCTGTTCCGAA 57.586 36.000 0.00 0.00 0.00 4.30
1715 1779 8.701908 ATAGGTTACTATTACATCTGTTCCGA 57.298 34.615 0.00 0.00 36.51 4.55
1731 1795 9.971922 GTATCGTTACATTGGTTATAGGTTACT 57.028 33.333 0.00 0.00 0.00 2.24
1732 1796 9.971922 AGTATCGTTACATTGGTTATAGGTTAC 57.028 33.333 6.43 0.00 0.00 2.50
1734 1798 9.971922 GTAGTATCGTTACATTGGTTATAGGTT 57.028 33.333 6.43 0.00 0.00 3.50
1735 1799 9.359653 AGTAGTATCGTTACATTGGTTATAGGT 57.640 33.333 6.43 0.00 0.00 3.08
1736 1800 9.622004 CAGTAGTATCGTTACATTGGTTATAGG 57.378 37.037 6.43 0.00 0.00 2.57
1737 1801 9.125906 GCAGTAGTATCGTTACATTGGTTATAG 57.874 37.037 6.43 0.00 0.00 1.31
1738 1802 8.631797 TGCAGTAGTATCGTTACATTGGTTATA 58.368 33.333 6.43 0.00 0.00 0.98
1739 1803 7.494211 TGCAGTAGTATCGTTACATTGGTTAT 58.506 34.615 6.43 0.00 0.00 1.89
1740 1804 6.865411 TGCAGTAGTATCGTTACATTGGTTA 58.135 36.000 6.43 0.00 0.00 2.85
1741 1805 5.726397 TGCAGTAGTATCGTTACATTGGTT 58.274 37.500 6.43 0.00 0.00 3.67
1742 1806 5.105473 ACTGCAGTAGTATCGTTACATTGGT 60.105 40.000 20.16 0.00 38.04 3.67
1743 1807 5.232202 CACTGCAGTAGTATCGTTACATTGG 59.768 44.000 21.20 0.00 37.60 3.16
1744 1808 5.805486 ACACTGCAGTAGTATCGTTACATTG 59.195 40.000 21.20 3.56 37.60 2.82
1745 1809 5.805486 CACACTGCAGTAGTATCGTTACATT 59.195 40.000 21.20 0.00 37.60 2.71
1746 1810 5.105877 ACACACTGCAGTAGTATCGTTACAT 60.106 40.000 21.20 0.00 37.60 2.29
1747 1811 4.216902 ACACACTGCAGTAGTATCGTTACA 59.783 41.667 21.20 0.00 37.60 2.41
1748 1812 4.730657 ACACACTGCAGTAGTATCGTTAC 58.269 43.478 21.20 0.00 37.60 2.50
1749 1813 6.499234 TTACACACTGCAGTAGTATCGTTA 57.501 37.500 21.20 7.36 37.60 3.18
1750 1814 3.936372 ACACACTGCAGTAGTATCGTT 57.064 42.857 21.20 0.89 37.60 3.85
1751 1815 5.381174 TTTACACACTGCAGTAGTATCGT 57.619 39.130 21.20 15.21 37.60 3.73
1752 1816 6.887376 ATTTTACACACTGCAGTAGTATCG 57.113 37.500 21.20 8.66 37.60 2.92
1753 1817 7.957484 CACAATTTTACACACTGCAGTAGTATC 59.043 37.037 21.20 0.00 37.60 2.24
1754 1818 7.659799 TCACAATTTTACACACTGCAGTAGTAT 59.340 33.333 21.20 11.88 37.60 2.12
1755 1819 6.987404 TCACAATTTTACACACTGCAGTAGTA 59.013 34.615 21.20 21.13 37.60 1.82
1756 1820 5.820423 TCACAATTTTACACACTGCAGTAGT 59.180 36.000 21.20 22.17 41.36 2.73
1757 1821 6.299023 TCACAATTTTACACACTGCAGTAG 57.701 37.500 21.20 17.45 0.00 2.57
1758 1822 6.540551 TCTTCACAATTTTACACACTGCAGTA 59.459 34.615 21.20 1.64 0.00 2.74
1759 1823 5.356751 TCTTCACAATTTTACACACTGCAGT 59.643 36.000 15.25 15.25 0.00 4.40
1760 1824 5.820131 TCTTCACAATTTTACACACTGCAG 58.180 37.500 13.48 13.48 0.00 4.41
1761 1825 5.588246 TCTCTTCACAATTTTACACACTGCA 59.412 36.000 0.00 0.00 0.00 4.41
1762 1826 6.060028 TCTCTTCACAATTTTACACACTGC 57.940 37.500 0.00 0.00 0.00 4.40
1763 1827 9.208022 TCTATCTCTTCACAATTTTACACACTG 57.792 33.333 0.00 0.00 0.00 3.66
1764 1828 9.778741 TTCTATCTCTTCACAATTTTACACACT 57.221 29.630 0.00 0.00 0.00 3.55
1765 1829 9.813080 GTTCTATCTCTTCACAATTTTACACAC 57.187 33.333 0.00 0.00 0.00 3.82
1766 1830 9.778741 AGTTCTATCTCTTCACAATTTTACACA 57.221 29.630 0.00 0.00 0.00 3.72
1768 1832 9.778741 ACAGTTCTATCTCTTCACAATTTTACA 57.221 29.630 0.00 0.00 0.00 2.41
1772 1836 9.646427 GAGTACAGTTCTATCTCTTCACAATTT 57.354 33.333 0.00 0.00 0.00 1.82
1773 1837 8.254508 GGAGTACAGTTCTATCTCTTCACAATT 58.745 37.037 0.00 0.00 0.00 2.32
1774 1838 7.617723 AGGAGTACAGTTCTATCTCTTCACAAT 59.382 37.037 0.00 0.00 0.00 2.71
1775 1839 6.948886 AGGAGTACAGTTCTATCTCTTCACAA 59.051 38.462 0.00 0.00 0.00 3.33
1776 1840 6.486056 AGGAGTACAGTTCTATCTCTTCACA 58.514 40.000 0.00 0.00 0.00 3.58
1777 1841 7.399245 AAGGAGTACAGTTCTATCTCTTCAC 57.601 40.000 0.00 0.00 0.00 3.18
1778 1842 6.603997 GGAAGGAGTACAGTTCTATCTCTTCA 59.396 42.308 0.00 0.00 0.00 3.02
1779 1843 6.238538 CGGAAGGAGTACAGTTCTATCTCTTC 60.239 46.154 0.00 0.00 0.00 2.87
1780 1844 5.591067 CGGAAGGAGTACAGTTCTATCTCTT 59.409 44.000 0.00 0.00 0.00 2.85
1781 1845 5.127491 CGGAAGGAGTACAGTTCTATCTCT 58.873 45.833 0.00 0.00 0.00 3.10
1782 1846 4.883006 ACGGAAGGAGTACAGTTCTATCTC 59.117 45.833 0.00 0.00 0.00 2.75
1783 1847 4.857679 ACGGAAGGAGTACAGTTCTATCT 58.142 43.478 0.00 0.00 0.00 1.98
1784 1848 5.579564 AACGGAAGGAGTACAGTTCTATC 57.420 43.478 0.00 0.00 0.00 2.08
1785 1849 5.997384 AAACGGAAGGAGTACAGTTCTAT 57.003 39.130 0.00 0.00 0.00 1.98
1786 1850 8.579850 TTATAAACGGAAGGAGTACAGTTCTA 57.420 34.615 0.00 0.00 0.00 2.10
1787 1851 5.997384 ATAAACGGAAGGAGTACAGTTCT 57.003 39.130 0.00 0.00 0.00 3.01
1788 1852 8.713737 ATTTATAAACGGAAGGAGTACAGTTC 57.286 34.615 0.00 0.00 0.00 3.01
1789 1853 9.813446 CTATTTATAAACGGAAGGAGTACAGTT 57.187 33.333 0.00 0.00 0.00 3.16
1790 1854 8.419442 CCTATTTATAAACGGAAGGAGTACAGT 58.581 37.037 0.00 0.00 0.00 3.55
1791 1855 7.871463 CCCTATTTATAAACGGAAGGAGTACAG 59.129 40.741 14.11 0.00 0.00 2.74
1792 1856 7.687592 GCCCTATTTATAAACGGAAGGAGTACA 60.688 40.741 14.11 0.00 0.00 2.90
1793 1857 6.648310 GCCCTATTTATAAACGGAAGGAGTAC 59.352 42.308 14.11 0.00 0.00 2.73
1794 1858 6.517194 CGCCCTATTTATAAACGGAAGGAGTA 60.517 42.308 14.11 0.00 0.00 2.59
1795 1859 5.618236 GCCCTATTTATAAACGGAAGGAGT 58.382 41.667 14.11 0.00 0.00 3.85
1796 1860 4.689345 CGCCCTATTTATAAACGGAAGGAG 59.311 45.833 14.11 4.67 0.00 3.69
1797 1861 4.634199 CGCCCTATTTATAAACGGAAGGA 58.366 43.478 14.11 0.00 0.00 3.36
1798 1862 3.187842 GCGCCCTATTTATAAACGGAAGG 59.812 47.826 14.11 11.59 0.00 3.46
1799 1863 3.810941 TGCGCCCTATTTATAAACGGAAG 59.189 43.478 4.18 9.66 0.00 3.46
1800 1864 3.806380 TGCGCCCTATTTATAAACGGAA 58.194 40.909 4.18 0.00 0.00 4.30
1801 1865 3.472283 TGCGCCCTATTTATAAACGGA 57.528 42.857 4.18 6.21 0.00 4.69
1802 1866 3.562557 AGTTGCGCCCTATTTATAAACGG 59.437 43.478 4.18 4.40 0.00 4.44
1803 1867 4.510340 AGAGTTGCGCCCTATTTATAAACG 59.490 41.667 4.18 0.56 0.00 3.60
1804 1868 5.748592 CAGAGTTGCGCCCTATTTATAAAC 58.251 41.667 4.18 0.00 0.00 2.01
1805 1869 4.274950 GCAGAGTTGCGCCCTATTTATAAA 59.725 41.667 4.18 0.00 41.13 1.40
1806 1870 3.813166 GCAGAGTTGCGCCCTATTTATAA 59.187 43.478 4.18 0.00 41.13 0.98
1807 1871 3.399330 GCAGAGTTGCGCCCTATTTATA 58.601 45.455 4.18 0.00 41.13 0.98
1808 1872 2.222027 GCAGAGTTGCGCCCTATTTAT 58.778 47.619 4.18 0.00 41.13 1.40
1809 1873 1.663695 GCAGAGTTGCGCCCTATTTA 58.336 50.000 4.18 0.00 41.13 1.40
1810 1874 2.482326 GCAGAGTTGCGCCCTATTT 58.518 52.632 4.18 0.00 41.13 1.40
1811 1875 4.225497 GCAGAGTTGCGCCCTATT 57.775 55.556 4.18 0.00 41.13 1.73
1870 1937 7.007697 CGGTTTATAAAAGCTATATCGTGTGC 58.992 38.462 0.00 0.00 0.00 4.57
1903 1970 1.202710 TCAGCGTTTTCTGTAAGGCCA 60.203 47.619 5.01 0.00 39.14 5.36
1957 2058 2.764128 GGCTGAGGACCATCGGGA 60.764 66.667 0.00 0.00 38.05 5.14
2057 2158 3.364267 GCTACGGTTAACGACCTTTTTGG 60.364 47.826 0.00 0.00 46.92 3.28
2098 2199 1.004628 AGCTACCATGGATGCAACACA 59.995 47.619 26.36 0.00 0.00 3.72
2122 2223 3.712881 GTGTTGCAGTCGACGCCC 61.713 66.667 23.01 16.20 32.25 6.13
2244 2347 3.913089 ACCGGCTAAAATTTTGCTTCAG 58.087 40.909 13.76 3.66 0.00 3.02
2363 2498 1.689233 ATGCCTGCGAGGGGAACTA 60.689 57.895 4.65 0.00 35.37 2.24
2366 2501 4.113815 CCATGCCTGCGAGGGGAA 62.114 66.667 4.65 0.00 35.37 3.97
2508 2665 1.621814 GGTACACCAGAGCTACAACCA 59.378 52.381 0.00 0.00 35.64 3.67
2589 2748 5.015813 AGGAAGGGGATCAATGAAGTTTT 57.984 39.130 0.00 0.00 0.00 2.43
2674 2834 0.859232 CAACACTCCCACTTTCGACG 59.141 55.000 0.00 0.00 0.00 5.12
2688 2850 2.827959 GATTTCGCCGGTCGCAACAC 62.828 60.000 12.56 4.38 37.30 3.32
2771 2933 1.202758 TCCACGAGCACCAATCTTTGT 60.203 47.619 0.00 0.00 0.00 2.83


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

AutoCloner maintained by Alex Coulton.