Multiple sequence alignment - TraesCS2B01G363100

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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 TraesCS2B01G363100 chr2B 100.000 3313 0 0 1 3313 517439016 517435704 0.000000e+00 6119.0
1 TraesCS2B01G363100 chr2B 96.377 138 5 0 2007 2144 245013764 245013901 9.250000e-56 228.0
2 TraesCS2B01G363100 chr2B 92.632 95 5 2 539 632 158139793 158139886 5.770000e-28 135.0
3 TraesCS2B01G363100 chr2D 92.804 1348 67 13 692 2009 439464765 439463418 0.000000e+00 1925.0
4 TraesCS2B01G363100 chr2D 90.419 668 50 6 2653 3313 439462423 439461763 0.000000e+00 867.0
5 TraesCS2B01G363100 chr2D 93.855 537 20 4 2132 2662 439463420 439462891 0.000000e+00 797.0
6 TraesCS2B01G363100 chr2D 90.635 299 14 4 225 517 439496843 439496553 5.190000e-103 385.0
7 TraesCS2B01G363100 chr2D 94.170 223 12 1 1 223 439497095 439496874 4.100000e-89 339.0
8 TraesCS2B01G363100 chr2D 98.795 83 1 0 624 706 439496520 439496438 7.410000e-32 148.0
9 TraesCS2B01G363100 chr2A 95.428 1181 45 4 2133 3313 549647350 549648521 0.000000e+00 1873.0
10 TraesCS2B01G363100 chr2A 90.364 1318 90 8 624 1909 549639947 549641259 0.000000e+00 1696.0
11 TraesCS2B01G363100 chr2A 89.931 288 16 4 227 508 549639628 549639908 3.140000e-95 359.0
12 TraesCS2B01G363100 chr2A 91.928 223 17 1 1 223 549639374 549639595 8.930000e-81 311.0
13 TraesCS2B01G363100 chr2A 91.589 107 9 0 1900 2006 549647242 549647348 7.410000e-32 148.0
14 TraesCS2B01G363100 chr3D 82.876 1203 165 18 842 2009 563637354 563636158 0.000000e+00 1042.0
15 TraesCS2B01G363100 chr3D 83.968 630 93 6 1148 1770 563844019 563844647 6.120000e-167 597.0
16 TraesCS2B01G363100 chr3D 85.895 475 64 2 1149 1620 563833811 563834285 1.370000e-138 503.0
17 TraesCS2B01G363100 chr3D 88.710 372 42 0 2139 2510 563636153 563635782 3.900000e-124 455.0
18 TraesCS2B01G363100 chr3D 86.089 381 42 7 2139 2509 563619252 563618873 1.850000e-107 399.0
19 TraesCS2B01G363100 chr3D 85.714 378 45 3 2133 2510 577029909 577030277 1.110000e-104 390.0
20 TraesCS2B01G363100 chr3D 82.915 398 65 2 1148 1542 486693119 486692722 4.070000e-94 355.0
21 TraesCS2B01G363100 chr3D 89.252 214 22 1 2133 2345 563844933 563845146 1.960000e-67 267.0
22 TraesCS2B01G363100 chr3A 80.933 1243 185 24 801 2003 698276686 698275456 0.000000e+00 935.0
23 TraesCS2B01G363100 chr3A 84.264 788 116 5 1229 2009 698295904 698295118 0.000000e+00 761.0
24 TraesCS2B01G363100 chr3A 81.452 744 114 5 1051 1770 698521827 698522570 3.680000e-164 588.0
25 TraesCS2B01G363100 chr3A 89.222 167 18 0 3147 3313 698256709 698256875 3.350000e-50 209.0
26 TraesCS2B01G363100 chr3A 87.255 102 13 0 2561 2662 698274615 698274514 2.090000e-22 117.0
27 TraesCS2B01G363100 chr3A 80.255 157 21 6 2915 3070 701769123 701769270 3.500000e-20 110.0
28 TraesCS2B01G363100 chr3A 85.567 97 13 1 2556 2652 698703144 698703049 2.100000e-17 100.0
29 TraesCS2B01G363100 chr6B 86.066 366 44 6 1160 1520 704550438 704550075 1.440000e-103 387.0
30 TraesCS2B01G363100 chr6B 97.794 136 2 1 2007 2141 191198134 191197999 1.990000e-57 233.0
31 TraesCS2B01G363100 chr3B 88.852 305 34 0 2139 2443 751060767 751060463 3.120000e-100 375.0
32 TraesCS2B01G363100 chr3B 82.206 399 60 5 2133 2522 751211818 751212214 1.910000e-87 333.0
33 TraesCS2B01G363100 chr3B 89.671 213 22 0 2133 2345 751244756 751244968 4.210000e-69 272.0
34 TraesCS2B01G363100 chr3B 92.553 94 7 0 538 631 660831034 660831127 5.770000e-28 135.0
35 TraesCS2B01G363100 chr3B 83.333 108 10 3 2917 3018 78400290 78400185 3.520000e-15 93.5
36 TraesCS2B01G363100 chr3B 100.000 28 0 0 2564 2591 751779560 751779587 6.000000e-03 52.8
37 TraesCS2B01G363100 chr5B 100.000 130 0 0 2008 2137 224325536 224325665 1.190000e-59 241.0
38 TraesCS2B01G363100 chr5B 93.684 95 6 0 539 633 622495351 622495445 3.450000e-30 143.0
39 TraesCS2B01G363100 chr4B 99.248 133 1 0 2007 2139 82019121 82019253 1.190000e-59 241.0
40 TraesCS2B01G363100 chr4B 97.778 135 2 1 2008 2142 514055764 514055897 7.150000e-57 231.0
41 TraesCS2B01G363100 chr7A 99.237 131 1 0 2008 2138 634386555 634386685 1.540000e-58 237.0
42 TraesCS2B01G363100 chr7A 92.857 98 6 1 531 627 470998589 470998492 1.240000e-29 141.0
43 TraesCS2B01G363100 chr5D 100.000 128 0 0 2007 2134 179063062 179062935 1.540000e-58 237.0
44 TraesCS2B01G363100 chr1B 99.237 131 1 0 2007 2137 277456298 277456428 1.540000e-58 237.0
45 TraesCS2B01G363100 chr1B 94.444 90 5 0 536 625 656007384 656007295 4.460000e-29 139.0
46 TraesCS2B01G363100 chr5A 97.810 137 2 1 2007 2142 9840828 9840964 5.530000e-58 235.0
47 TraesCS2B01G363100 chr4A 96.703 91 3 0 538 628 743380856 743380946 5.730000e-33 152.0
48 TraesCS2B01G363100 chr6A 92.553 94 7 0 539 632 74241829 74241736 5.770000e-28 135.0
49 TraesCS2B01G363100 chr4D 91.579 95 8 0 537 631 361082464 361082370 7.460000e-27 132.0
50 TraesCS2B01G363100 chr1A 91.000 100 6 3 537 634 522032327 522032229 7.460000e-27 132.0


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 TraesCS2B01G363100 chr2B 517435704 517439016 3312 True 6119.000000 6119 100.000000 1 3313 1 chr2B.!!$R1 3312
1 TraesCS2B01G363100 chr2D 439461763 439464765 3002 True 1196.333333 1925 92.359333 692 3313 3 chr2D.!!$R1 2621
2 TraesCS2B01G363100 chr2D 439496438 439497095 657 True 290.666667 385 94.533333 1 706 3 chr2D.!!$R2 705
3 TraesCS2B01G363100 chr2A 549647242 549648521 1279 False 1010.500000 1873 93.508500 1900 3313 2 chr2A.!!$F2 1413
4 TraesCS2B01G363100 chr2A 549639374 549641259 1885 False 788.666667 1696 90.741000 1 1909 3 chr2A.!!$F1 1908
5 TraesCS2B01G363100 chr3D 563635782 563637354 1572 True 748.500000 1042 85.793000 842 2510 2 chr3D.!!$R3 1668
6 TraesCS2B01G363100 chr3D 563844019 563845146 1127 False 432.000000 597 86.610000 1148 2345 2 chr3D.!!$F3 1197
7 TraesCS2B01G363100 chr3A 698295118 698295904 786 True 761.000000 761 84.264000 1229 2009 1 chr3A.!!$R1 780
8 TraesCS2B01G363100 chr3A 698521827 698522570 743 False 588.000000 588 81.452000 1051 1770 1 chr3A.!!$F2 719
9 TraesCS2B01G363100 chr3A 698274514 698276686 2172 True 526.000000 935 84.094000 801 2662 2 chr3A.!!$R3 1861

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
188 189 0.037734 AGCACGGTAAAGGAAAGGGG 59.962 55.0 0.0 0.0 0.0 4.79 F
1577 1715 0.106268 TTTGCCAACTCTGCCCTCAA 60.106 50.0 0.0 0.0 0.0 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2010 2202 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.0 13.64 4.95 46.06 4.20 R
2836 3922 0.462047 GGGTTGGACTAGTGCGGATG 60.462 60.0 10.02 0.00 0.00 3.51 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
27 28 3.467803 GACCGAGGTGAAAATAGGGATG 58.532 50.000 0.00 0.00 0.00 3.51
74 75 4.378459 CCCACACGAATTTGAAAGCTAGAC 60.378 45.833 0.00 0.00 0.00 2.59
122 123 6.213600 ACACTAGATTACCCTGAATCACACTT 59.786 38.462 0.00 0.00 38.14 3.16
151 152 2.780414 AGAACTCCATCCCATCCATGA 58.220 47.619 0.00 0.00 0.00 3.07
157 158 4.017222 ACTCCATCCCATCCATGAAGAAAA 60.017 41.667 0.00 0.00 0.00 2.29
188 189 0.037734 AGCACGGTAAAGGAAAGGGG 59.962 55.000 0.00 0.00 0.00 4.79
223 224 1.960763 GCACACGAGGCACATCACA 60.961 57.895 0.00 0.00 0.00 3.58
272 308 4.567558 CACGACACCCTGCGTATTTAATAA 59.432 41.667 0.00 0.00 38.92 1.40
277 313 5.049167 CACCCTGCGTATTTAATAACCGTA 58.951 41.667 0.00 0.00 0.00 4.02
297 333 7.676947 ACCGTATATAAAGAGTGGCAATACAT 58.323 34.615 0.00 0.00 0.00 2.29
307 343 3.773117 GCAATACATGCGGCATACC 57.227 52.632 16.21 0.00 46.87 2.73
355 391 2.887783 GGATGAGATTACGAGAGCCAGA 59.112 50.000 0.00 0.00 0.00 3.86
373 409 2.298163 CAGACAGCTTGGCCTTCAAAAT 59.702 45.455 3.32 0.00 34.56 1.82
375 411 1.345415 ACAGCTTGGCCTTCAAAATGG 59.655 47.619 3.32 0.00 34.56 3.16
547 593 2.963782 ACATTACGGATGTACTCCCTCC 59.036 50.000 5.05 0.00 47.00 4.30
549 595 4.254721 CGGATGTACTCCCTCCGT 57.745 61.111 14.50 0.00 45.30 4.69
550 596 2.501492 CGGATGTACTCCCTCCGTT 58.499 57.895 14.50 0.00 45.30 4.44
551 597 0.822164 CGGATGTACTCCCTCCGTTT 59.178 55.000 14.50 0.00 45.30 3.60
552 598 1.206371 CGGATGTACTCCCTCCGTTTT 59.794 52.381 14.50 0.00 45.30 2.43
553 599 2.428171 CGGATGTACTCCCTCCGTTTTA 59.572 50.000 14.50 0.00 45.30 1.52
554 600 3.119029 CGGATGTACTCCCTCCGTTTTAA 60.119 47.826 14.50 0.00 45.30 1.52
555 601 4.621274 CGGATGTACTCCCTCCGTTTTAAA 60.621 45.833 14.50 0.00 45.30 1.52
556 602 5.247862 GGATGTACTCCCTCCGTTTTAAAA 58.752 41.667 0.00 0.00 38.19 1.52
557 603 5.884232 GGATGTACTCCCTCCGTTTTAAAAT 59.116 40.000 3.52 0.00 38.19 1.82
558 604 7.049754 GGATGTACTCCCTCCGTTTTAAAATA 58.950 38.462 3.52 0.00 38.19 1.40
559 605 7.226128 GGATGTACTCCCTCCGTTTTAAAATAG 59.774 40.741 3.52 1.99 38.19 1.73
560 606 7.243604 TGTACTCCCTCCGTTTTAAAATAGA 57.756 36.000 3.52 3.61 0.00 1.98
561 607 7.854337 TGTACTCCCTCCGTTTTAAAATAGAT 58.146 34.615 3.52 0.00 0.00 1.98
562 608 7.767198 TGTACTCCCTCCGTTTTAAAATAGATG 59.233 37.037 3.52 2.01 0.00 2.90
563 609 6.954232 ACTCCCTCCGTTTTAAAATAGATGA 58.046 36.000 3.52 3.96 0.00 2.92
564 610 7.399634 ACTCCCTCCGTTTTAAAATAGATGAA 58.600 34.615 3.52 0.00 0.00 2.57
565 611 7.336176 ACTCCCTCCGTTTTAAAATAGATGAAC 59.664 37.037 3.52 0.00 0.00 3.18
566 612 6.600427 TCCCTCCGTTTTAAAATAGATGAACC 59.400 38.462 3.52 0.00 0.00 3.62
567 613 6.376018 CCCTCCGTTTTAAAATAGATGAACCA 59.624 38.462 3.52 0.00 0.00 3.67
568 614 7.094118 CCCTCCGTTTTAAAATAGATGAACCAA 60.094 37.037 3.52 0.00 0.00 3.67
569 615 7.753580 CCTCCGTTTTAAAATAGATGAACCAAC 59.246 37.037 3.52 0.00 0.00 3.77
570 616 8.398878 TCCGTTTTAAAATAGATGAACCAACT 57.601 30.769 3.52 0.00 0.00 3.16
571 617 8.852135 TCCGTTTTAAAATAGATGAACCAACTT 58.148 29.630 3.52 0.00 0.00 2.66
572 618 9.471084 CCGTTTTAAAATAGATGAACCAACTTT 57.529 29.630 3.52 0.00 0.00 2.66
583 629 8.747538 AGATGAACCAACTTTGTACTAACTTT 57.252 30.769 0.00 0.00 0.00 2.66
584 630 9.841295 AGATGAACCAACTTTGTACTAACTTTA 57.159 29.630 0.00 0.00 0.00 1.85
614 660 7.611213 AAGTTGGGTCATCTATTTTAGAACG 57.389 36.000 0.00 0.00 38.50 3.95
615 661 6.113411 AGTTGGGTCATCTATTTTAGAACGG 58.887 40.000 0.00 0.00 38.50 4.44
616 662 5.943349 TGGGTCATCTATTTTAGAACGGA 57.057 39.130 0.00 0.00 38.50 4.69
617 663 5.914033 TGGGTCATCTATTTTAGAACGGAG 58.086 41.667 0.00 0.00 38.50 4.63
618 664 5.163343 TGGGTCATCTATTTTAGAACGGAGG 60.163 44.000 0.00 0.00 38.50 4.30
619 665 5.298347 GGTCATCTATTTTAGAACGGAGGG 58.702 45.833 0.00 0.00 38.50 4.30
620 666 5.070047 GGTCATCTATTTTAGAACGGAGGGA 59.930 44.000 0.00 0.00 38.50 4.20
621 667 6.217294 GTCATCTATTTTAGAACGGAGGGAG 58.783 44.000 0.00 0.00 38.50 4.30
622 668 5.897824 TCATCTATTTTAGAACGGAGGGAGT 59.102 40.000 0.00 0.00 38.50 3.85
874 920 2.092699 AGCTTAATCCTGCTCCAGTTCC 60.093 50.000 0.00 0.00 33.90 3.62
893 940 3.950397 TCCTCCTTTATGTGCGATTGTT 58.050 40.909 0.00 0.00 0.00 2.83
990 1037 5.480205 GGGTTTTGTGACTAGACTAGAAGG 58.520 45.833 16.55 0.00 0.00 3.46
991 1038 5.245526 GGGTTTTGTGACTAGACTAGAAGGA 59.754 44.000 16.55 0.00 0.00 3.36
1004 1051 2.094762 AGAAGGAGCGCGTTAATGTT 57.905 45.000 8.43 0.00 0.00 2.71
1365 1497 0.469494 TGCTCCTGCTGAACACTGAA 59.531 50.000 0.00 0.00 40.48 3.02
1576 1714 0.538057 CTTTGCCAACTCTGCCCTCA 60.538 55.000 0.00 0.00 0.00 3.86
1577 1715 0.106268 TTTGCCAACTCTGCCCTCAA 60.106 50.000 0.00 0.00 0.00 3.02
1606 1744 1.134530 GTTCGCCGACTCATCTCACG 61.135 60.000 0.00 0.00 0.00 4.35
1651 1789 1.608055 TAAGAGTTCCGTCGTCCACA 58.392 50.000 0.00 0.00 0.00 4.17
1690 1828 2.604969 TGTTTTCTTCCGTAATGCGC 57.395 45.000 0.00 0.00 39.71 6.09
1708 1846 2.598099 TCGTGGGCGGTGTCTACA 60.598 61.111 0.00 0.00 38.89 2.74
1724 1862 4.775780 TGTCTACACAAACACTATAGGGCT 59.224 41.667 0.58 0.00 0.00 5.19
1727 1865 4.367039 ACACAAACACTATAGGGCTTGT 57.633 40.909 16.37 16.37 0.00 3.16
1751 1889 4.494690 CGTGATTGCTCGTTTATGCAGATT 60.495 41.667 0.00 0.00 40.46 2.40
1759 1897 4.190772 TCGTTTATGCAGATTGCTGATGA 58.809 39.130 2.48 0.00 45.31 2.92
1832 2015 1.821061 CTTGTCGGGAGTGCAGAGGT 61.821 60.000 0.00 0.00 0.00 3.85
1884 2070 5.669447 AGACTTTAAGATGGAGGATGTGGAT 59.331 40.000 0.00 0.00 0.00 3.41
1951 2143 3.452474 GCTGTCGATGCTGATAAGTTCT 58.548 45.455 6.18 0.00 0.00 3.01
2009 2201 2.202531 GGGTTCGTCCGCTCGTAC 60.203 66.667 0.00 0.00 37.00 3.67
2010 2202 2.694760 GGGTTCGTCCGCTCGTACT 61.695 63.158 0.00 0.00 37.00 2.73
2011 2203 1.226239 GGTTCGTCCGCTCGTACTC 60.226 63.158 0.00 0.00 33.10 2.59
2012 2204 1.226239 GTTCGTCCGCTCGTACTCC 60.226 63.158 0.00 0.00 0.00 3.85
2013 2205 2.401766 TTCGTCCGCTCGTACTCCC 61.402 63.158 0.00 0.00 0.00 4.30
2014 2206 2.809861 TTCGTCCGCTCGTACTCCCT 62.810 60.000 0.00 0.00 0.00 4.20
2015 2207 2.821688 CGTCCGCTCGTACTCCCTC 61.822 68.421 0.00 0.00 0.00 4.30
2016 2208 2.124403 TCCGCTCGTACTCCCTCC 60.124 66.667 0.00 0.00 0.00 4.30
2017 2209 3.584052 CCGCTCGTACTCCCTCCG 61.584 72.222 0.00 0.00 0.00 4.63
2018 2210 2.823147 CGCTCGTACTCCCTCCGT 60.823 66.667 0.00 0.00 0.00 4.69
2019 2211 2.821688 CGCTCGTACTCCCTCCGTC 61.822 68.421 0.00 0.00 0.00 4.79
2020 2212 2.479750 GCTCGTACTCCCTCCGTCC 61.480 68.421 0.00 0.00 0.00 4.79
2021 2213 2.124983 TCGTACTCCCTCCGTCCG 60.125 66.667 0.00 0.00 0.00 4.79
2022 2214 3.207669 CGTACTCCCTCCGTCCGG 61.208 72.222 0.00 0.00 0.00 5.14
2023 2215 2.273449 GTACTCCCTCCGTCCGGA 59.727 66.667 0.00 0.00 42.90 5.14
2024 2216 1.379044 GTACTCCCTCCGTCCGGAA 60.379 63.158 5.23 0.00 44.66 4.30
2025 2217 0.967380 GTACTCCCTCCGTCCGGAAA 60.967 60.000 5.23 0.00 44.66 3.13
2026 2218 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.000 5.23 0.00 44.66 2.17
2027 2219 0.032813 ACTCCCTCCGTCCGGAAATA 60.033 55.000 5.23 0.00 44.66 1.40
2028 2220 0.388294 CTCCCTCCGTCCGGAAATAC 59.612 60.000 5.23 0.00 44.66 1.89
2029 2221 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.000 5.23 0.00 44.66 2.12
2030 2222 0.828677 CCCTCCGTCCGGAAATACTT 59.171 55.000 5.23 0.00 44.66 2.24
2031 2223 1.472728 CCCTCCGTCCGGAAATACTTG 60.473 57.143 5.23 0.00 44.66 3.16
2032 2224 1.206371 CCTCCGTCCGGAAATACTTGT 59.794 52.381 5.23 0.00 44.66 3.16
2033 2225 2.537401 CTCCGTCCGGAAATACTTGTC 58.463 52.381 5.23 0.00 44.66 3.18
2034 2226 1.894466 TCCGTCCGGAAATACTTGTCA 59.106 47.619 5.23 0.00 42.05 3.58
2035 2227 2.498481 TCCGTCCGGAAATACTTGTCAT 59.502 45.455 5.23 0.00 42.05 3.06
2036 2228 2.864343 CCGTCCGGAAATACTTGTCATC 59.136 50.000 5.23 0.00 37.50 2.92
2037 2229 3.517602 CGTCCGGAAATACTTGTCATCA 58.482 45.455 5.23 0.00 0.00 3.07
2038 2230 3.930229 CGTCCGGAAATACTTGTCATCAA 59.070 43.478 5.23 0.00 0.00 2.57
2039 2231 4.390603 CGTCCGGAAATACTTGTCATCAAA 59.609 41.667 5.23 0.00 32.87 2.69
2040 2232 5.106869 CGTCCGGAAATACTTGTCATCAAAA 60.107 40.000 5.23 0.00 32.87 2.44
2041 2233 6.403200 CGTCCGGAAATACTTGTCATCAAAAT 60.403 38.462 5.23 0.00 32.87 1.82
2042 2234 6.747280 GTCCGGAAATACTTGTCATCAAAATG 59.253 38.462 5.23 0.00 32.87 2.32
2043 2235 6.657117 TCCGGAAATACTTGTCATCAAAATGA 59.343 34.615 0.00 0.00 39.63 2.57
2044 2236 7.175816 TCCGGAAATACTTGTCATCAAAATGAA 59.824 33.333 0.00 0.00 43.42 2.57
2045 2237 7.975616 CCGGAAATACTTGTCATCAAAATGAAT 59.024 33.333 0.00 0.00 43.42 2.57
2053 2245 8.096414 ACTTGTCATCAAAATGAATAAAAGGGG 58.904 33.333 0.00 0.00 43.42 4.79
2054 2246 7.789202 TGTCATCAAAATGAATAAAAGGGGA 57.211 32.000 0.00 0.00 43.42 4.81
2055 2247 8.378115 TGTCATCAAAATGAATAAAAGGGGAT 57.622 30.769 0.00 0.00 43.42 3.85
2056 2248 8.259411 TGTCATCAAAATGAATAAAAGGGGATG 58.741 33.333 0.00 0.00 43.42 3.51
2057 2249 8.260114 GTCATCAAAATGAATAAAAGGGGATGT 58.740 33.333 0.00 0.00 43.42 3.06
2058 2250 9.486123 TCATCAAAATGAATAAAAGGGGATGTA 57.514 29.630 0.00 0.00 38.97 2.29
2061 2253 9.713684 TCAAAATGAATAAAAGGGGATGTATCT 57.286 29.630 0.00 0.00 0.00 1.98
2067 2259 9.170890 TGAATAAAAGGGGATGTATCTAGATGT 57.829 33.333 15.79 1.25 0.00 3.06
2075 2267 9.845214 AGGGGATGTATCTAGATGTATTTTAGT 57.155 33.333 15.79 0.00 0.00 2.24
2097 2289 9.886132 TTAGTTCTAGATACATCCCTTTTTGTC 57.114 33.333 0.00 0.00 0.00 3.18
2098 2290 7.339482 AGTTCTAGATACATCCCTTTTTGTCC 58.661 38.462 0.00 0.00 0.00 4.02
2099 2291 6.884472 TCTAGATACATCCCTTTTTGTCCA 57.116 37.500 0.00 0.00 0.00 4.02
2100 2292 7.451731 TCTAGATACATCCCTTTTTGTCCAT 57.548 36.000 0.00 0.00 0.00 3.41
2101 2293 7.872138 TCTAGATACATCCCTTTTTGTCCATT 58.128 34.615 0.00 0.00 0.00 3.16
2102 2294 8.336235 TCTAGATACATCCCTTTTTGTCCATTT 58.664 33.333 0.00 0.00 0.00 2.32
2103 2295 7.797121 AGATACATCCCTTTTTGTCCATTTT 57.203 32.000 0.00 0.00 0.00 1.82
2104 2296 7.614494 AGATACATCCCTTTTTGTCCATTTTG 58.386 34.615 0.00 0.00 0.00 2.44
2105 2297 5.885449 ACATCCCTTTTTGTCCATTTTGA 57.115 34.783 0.00 0.00 0.00 2.69
2106 2298 6.438186 ACATCCCTTTTTGTCCATTTTGAT 57.562 33.333 0.00 0.00 0.00 2.57
2107 2299 6.232692 ACATCCCTTTTTGTCCATTTTGATG 58.767 36.000 0.00 0.00 33.80 3.07
2108 2300 6.043012 ACATCCCTTTTTGTCCATTTTGATGA 59.957 34.615 0.00 0.00 32.39 2.92
2109 2301 5.852827 TCCCTTTTTGTCCATTTTGATGAC 58.147 37.500 0.00 0.00 0.00 3.06
2110 2302 5.365025 TCCCTTTTTGTCCATTTTGATGACA 59.635 36.000 0.00 0.00 0.00 3.58
2111 2303 6.054295 CCCTTTTTGTCCATTTTGATGACAA 58.946 36.000 0.00 0.00 34.47 3.18
2112 2304 6.203338 CCCTTTTTGTCCATTTTGATGACAAG 59.797 38.462 0.00 0.00 37.13 3.16
2113 2305 6.762661 CCTTTTTGTCCATTTTGATGACAAGT 59.237 34.615 0.00 0.00 37.13 3.16
2114 2306 7.925483 CCTTTTTGTCCATTTTGATGACAAGTA 59.075 33.333 0.00 0.00 37.13 2.24
2115 2307 9.480053 CTTTTTGTCCATTTTGATGACAAGTAT 57.520 29.630 0.00 0.00 37.13 2.12
2116 2308 9.829507 TTTTTGTCCATTTTGATGACAAGTATT 57.170 25.926 0.00 0.00 37.13 1.89
2117 2309 9.829507 TTTTGTCCATTTTGATGACAAGTATTT 57.170 25.926 0.00 0.00 37.13 1.40
2118 2310 9.829507 TTTGTCCATTTTGATGACAAGTATTTT 57.170 25.926 0.00 0.00 37.13 1.82
2119 2311 9.474920 TTGTCCATTTTGATGACAAGTATTTTC 57.525 29.630 0.00 0.00 37.32 2.29
2120 2312 7.807433 TGTCCATTTTGATGACAAGTATTTTCG 59.193 33.333 0.00 0.00 37.32 3.46
2121 2313 7.273381 GTCCATTTTGATGACAAGTATTTTCGG 59.727 37.037 0.00 0.00 37.32 4.30
2122 2314 7.175816 TCCATTTTGATGACAAGTATTTTCGGA 59.824 33.333 0.00 0.00 37.32 4.55
2123 2315 7.273381 CCATTTTGATGACAAGTATTTTCGGAC 59.727 37.037 0.00 0.00 37.32 4.79
2124 2316 5.524511 TTGATGACAAGTATTTTCGGACG 57.475 39.130 0.00 0.00 0.00 4.79
2125 2317 3.930229 TGATGACAAGTATTTTCGGACGG 59.070 43.478 0.00 0.00 0.00 4.79
2126 2318 3.663995 TGACAAGTATTTTCGGACGGA 57.336 42.857 0.00 0.00 0.00 4.69
2127 2319 3.581755 TGACAAGTATTTTCGGACGGAG 58.418 45.455 0.00 0.00 0.00 4.63
2128 2320 2.928116 GACAAGTATTTTCGGACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
2129 2321 2.277084 CAAGTATTTTCGGACGGAGGG 58.723 52.381 0.00 0.00 0.00 4.30
2130 2322 1.856629 AGTATTTTCGGACGGAGGGA 58.143 50.000 0.00 0.00 0.00 4.20
2131 2323 1.755380 AGTATTTTCGGACGGAGGGAG 59.245 52.381 0.00 0.00 0.00 4.30
2132 2324 1.479730 GTATTTTCGGACGGAGGGAGT 59.520 52.381 0.00 0.00 0.00 3.85
2133 2325 1.856629 ATTTTCGGACGGAGGGAGTA 58.143 50.000 0.00 0.00 0.00 2.59
2334 2527 2.517450 GCCGGCAGATCTTCGTTCG 61.517 63.158 24.80 4.41 0.00 3.95
2341 2534 2.159503 GCAGATCTTCGTTCGACTCTGA 60.160 50.000 21.55 9.34 33.59 3.27
2378 2571 3.753272 GACTGACAAGGCTATGCTTTCAA 59.247 43.478 0.00 0.00 0.00 2.69
2418 2611 2.339769 ACTGTCTAGTCCCCTGCTTTT 58.660 47.619 0.00 0.00 28.79 2.27
2617 3219 2.687935 AGCGGTAAATGTTGGCCTAATG 59.312 45.455 3.32 0.00 0.00 1.90
2651 3730 2.555325 TGAATTCAGCTCTTGCAAGTGG 59.445 45.455 25.19 19.09 42.74 4.00
2655 3734 0.873054 CAGCTCTTGCAAGTGGACTG 59.127 55.000 25.19 21.33 42.74 3.51
2688 3767 6.778069 ACAGGTACATGCATGACTACTAGTAT 59.222 38.462 32.75 8.94 0.00 2.12
2691 3770 8.705594 AGGTACATGCATGACTACTAGTATTTT 58.294 33.333 32.75 7.76 0.00 1.82
2736 3822 5.901413 TCTCTGAGGAAAGATAATGCCAT 57.099 39.130 4.59 0.00 0.00 4.40
2836 3922 3.127533 GTGAGCGTGGTGGGATGC 61.128 66.667 0.00 0.00 0.00 3.91
2913 3999 4.675190 ACTGATGCAAAACTTGAGATCG 57.325 40.909 0.00 0.00 0.00 3.69
2934 4020 6.561737 TCGTCAAATGTTTGCCAACTAATA 57.438 33.333 2.01 0.00 38.05 0.98
3137 4223 1.610886 GGTGTTCCTTGGAGCAGTACC 60.611 57.143 6.45 1.76 0.00 3.34
3141 4227 0.472925 TCCTTGGAGCAGTACCCACA 60.473 55.000 0.00 0.00 31.11 4.17
3217 4303 3.975168 TCCTAGAACCACAGCTAAACC 57.025 47.619 0.00 0.00 0.00 3.27
3296 4382 4.819630 AGCAACTCGTACAAGGAATTTCAA 59.180 37.500 0.00 0.00 0.00 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 5.359194 TGTCTCATCCCTATTTTCACCTC 57.641 43.478 0.00 0.00 0.00 3.85
40 41 2.203938 GTGTGGGAGGGAGGGTGA 60.204 66.667 0.00 0.00 0.00 4.02
74 75 0.673644 ATCTCGCCCGTTTTGTCCTG 60.674 55.000 0.00 0.00 0.00 3.86
122 123 2.379972 GGATGGAGTTCTTCCTCGAGA 58.620 52.381 15.71 0.00 46.92 4.04
151 152 4.164843 TGCTAGACACAACCCTTTTCTT 57.835 40.909 0.00 0.00 0.00 2.52
188 189 2.028112 TGTGCCTTGATAGACTGGTCAC 60.028 50.000 3.51 0.00 0.00 3.67
223 224 2.034558 GCTGTGCTTGGTTTGTACATGT 59.965 45.455 2.69 2.69 30.36 3.21
272 308 7.058023 TGTATTGCCACTCTTTATATACGGT 57.942 36.000 0.00 0.00 0.00 4.83
300 336 0.528901 TGTGACGTATGCGGTATGCC 60.529 55.000 8.39 0.00 45.60 4.40
355 391 1.345415 CCATTTTGAAGGCCAAGCTGT 59.655 47.619 5.01 0.00 35.94 4.40
409 445 6.761099 AAATAGTACTCTCGATATCGCCAT 57.239 37.500 20.34 8.05 39.60 4.40
538 584 8.081517 TCATCTATTTTAAAACGGAGGGAGTA 57.918 34.615 1.97 0.00 0.00 2.59
539 585 6.954232 TCATCTATTTTAAAACGGAGGGAGT 58.046 36.000 1.97 0.00 0.00 3.85
540 586 7.201705 GGTTCATCTATTTTAAAACGGAGGGAG 60.202 40.741 1.97 0.00 0.00 4.30
541 587 6.600427 GGTTCATCTATTTTAAAACGGAGGGA 59.400 38.462 1.97 0.00 0.00 4.20
542 588 6.376018 TGGTTCATCTATTTTAAAACGGAGGG 59.624 38.462 1.97 2.46 0.00 4.30
543 589 7.385778 TGGTTCATCTATTTTAAAACGGAGG 57.614 36.000 1.97 6.55 0.00 4.30
544 590 8.512138 AGTTGGTTCATCTATTTTAAAACGGAG 58.488 33.333 1.97 1.74 0.00 4.63
545 591 8.398878 AGTTGGTTCATCTATTTTAAAACGGA 57.601 30.769 1.97 5.09 0.00 4.69
546 592 9.471084 AAAGTTGGTTCATCTATTTTAAAACGG 57.529 29.630 1.97 0.00 0.00 4.44
557 603 9.841295 AAAGTTAGTACAAAGTTGGTTCATCTA 57.159 29.630 0.00 0.00 0.00 1.98
558 604 8.747538 AAAGTTAGTACAAAGTTGGTTCATCT 57.252 30.769 0.00 0.00 0.00 2.90
588 634 9.158233 CGTTCTAAAATAGATGACCCAACTTTA 57.842 33.333 0.00 0.00 34.22 1.85
589 635 7.120726 CCGTTCTAAAATAGATGACCCAACTTT 59.879 37.037 0.00 0.00 34.22 2.66
590 636 6.598064 CCGTTCTAAAATAGATGACCCAACTT 59.402 38.462 0.00 0.00 34.22 2.66
591 637 6.070424 TCCGTTCTAAAATAGATGACCCAACT 60.070 38.462 0.00 0.00 34.22 3.16
592 638 6.110707 TCCGTTCTAAAATAGATGACCCAAC 58.889 40.000 0.00 0.00 34.22 3.77
593 639 6.302535 TCCGTTCTAAAATAGATGACCCAA 57.697 37.500 0.00 0.00 34.22 4.12
594 640 5.163343 CCTCCGTTCTAAAATAGATGACCCA 60.163 44.000 0.00 0.00 34.22 4.51
595 641 5.298347 CCTCCGTTCTAAAATAGATGACCC 58.702 45.833 0.00 0.00 34.22 4.46
596 642 5.070047 TCCCTCCGTTCTAAAATAGATGACC 59.930 44.000 0.00 0.00 34.22 4.02
597 643 6.158023 TCCCTCCGTTCTAAAATAGATGAC 57.842 41.667 0.00 0.00 34.22 3.06
598 644 5.897824 ACTCCCTCCGTTCTAAAATAGATGA 59.102 40.000 0.00 0.00 34.22 2.92
599 645 6.163135 ACTCCCTCCGTTCTAAAATAGATG 57.837 41.667 0.00 0.00 34.22 2.90
600 646 7.068061 ACTACTCCCTCCGTTCTAAAATAGAT 58.932 38.462 0.00 0.00 34.22 1.98
601 647 6.430007 ACTACTCCCTCCGTTCTAAAATAGA 58.570 40.000 0.00 0.00 0.00 1.98
602 648 6.712179 ACTACTCCCTCCGTTCTAAAATAG 57.288 41.667 0.00 0.00 0.00 1.73
603 649 7.577303 TCTACTACTCCCTCCGTTCTAAAATA 58.423 38.462 0.00 0.00 0.00 1.40
604 650 6.430007 TCTACTACTCCCTCCGTTCTAAAAT 58.570 40.000 0.00 0.00 0.00 1.82
605 651 5.819991 TCTACTACTCCCTCCGTTCTAAAA 58.180 41.667 0.00 0.00 0.00 1.52
606 652 5.441718 TCTACTACTCCCTCCGTTCTAAA 57.558 43.478 0.00 0.00 0.00 1.85
607 653 5.643421 ATCTACTACTCCCTCCGTTCTAA 57.357 43.478 0.00 0.00 0.00 2.10
608 654 6.753913 TTATCTACTACTCCCTCCGTTCTA 57.246 41.667 0.00 0.00 0.00 2.10
609 655 5.643421 TTATCTACTACTCCCTCCGTTCT 57.357 43.478 0.00 0.00 0.00 3.01
610 656 6.897706 ATTTATCTACTACTCCCTCCGTTC 57.102 41.667 0.00 0.00 0.00 3.95
611 657 7.753630 TCTATTTATCTACTACTCCCTCCGTT 58.246 38.462 0.00 0.00 0.00 4.44
612 658 7.327064 TCTATTTATCTACTACTCCCTCCGT 57.673 40.000 0.00 0.00 0.00 4.69
613 659 7.830201 ACATCTATTTATCTACTACTCCCTCCG 59.170 40.741 0.00 0.00 0.00 4.63
874 920 3.853671 GCAAACAATCGCACATAAAGGAG 59.146 43.478 0.00 0.00 0.00 3.69
924 971 2.602660 CCTGTGAAAAACAAAAGGCACG 59.397 45.455 0.00 0.00 38.67 5.34
990 1037 1.136085 TCTTGCAACATTAACGCGCTC 60.136 47.619 5.73 0.00 0.00 5.03
991 1038 0.871722 TCTTGCAACATTAACGCGCT 59.128 45.000 5.73 0.00 0.00 5.92
1004 1051 2.833533 GCACGCACCAGTTCTTGCA 61.834 57.895 0.00 0.00 38.76 4.08
1095 1142 4.383173 GAAAACTCGGGTCTTCCTTAACA 58.617 43.478 0.00 0.00 0.00 2.41
1419 1551 2.176546 CCATTGCGAGTTGTGGCG 59.823 61.111 0.00 0.00 0.00 5.69
1576 1714 1.961277 CGGCGAACAAGGTGAGCTT 60.961 57.895 0.00 0.00 0.00 3.74
1577 1715 2.357517 CGGCGAACAAGGTGAGCT 60.358 61.111 0.00 0.00 0.00 4.09
1592 1730 3.428746 AAATCTCGTGAGATGAGTCGG 57.571 47.619 12.85 0.00 46.75 4.79
1606 1744 2.094649 CGGGATAGGCCGAGTAAATCTC 60.095 54.545 0.00 0.00 39.62 2.75
1690 1828 2.181021 GTAGACACCGCCCACGAG 59.819 66.667 0.00 0.00 43.93 4.18
1708 1846 3.007614 ACGACAAGCCCTATAGTGTTTGT 59.992 43.478 15.32 15.32 0.00 2.83
1711 1849 2.829720 TCACGACAAGCCCTATAGTGTT 59.170 45.455 0.00 0.00 0.00 3.32
1724 1862 3.424302 GCATAAACGAGCAATCACGACAA 60.424 43.478 0.00 0.00 0.00 3.18
1727 1865 2.342179 TGCATAAACGAGCAATCACGA 58.658 42.857 0.00 0.00 37.90 4.35
1751 1889 0.906775 TGCATCTGGAGTCATCAGCA 59.093 50.000 0.00 0.00 32.63 4.41
1759 1897 0.773644 AGGTGGTTTGCATCTGGAGT 59.226 50.000 0.00 0.00 0.00 3.85
1859 2042 5.488919 TCCACATCCTCCATCTTAAAGTCTT 59.511 40.000 0.00 0.00 0.00 3.01
1860 2043 5.032846 TCCACATCCTCCATCTTAAAGTCT 58.967 41.667 0.00 0.00 0.00 3.24
1863 2046 6.183361 TGGTATCCACATCCTCCATCTTAAAG 60.183 42.308 0.00 0.00 0.00 1.85
1870 2056 3.601520 TGATGGTATCCACATCCTCCAT 58.398 45.455 0.00 0.00 43.10 3.41
1884 2070 6.435591 TGAAAATGGCATAGTTGTTGATGGTA 59.564 34.615 0.00 0.00 0.00 3.25
1951 2143 1.545582 GCAGTTTGCCTCAATGCCTAA 59.454 47.619 0.00 0.00 37.42 2.69
2009 2201 0.388294 GTATTTCCGGACGGAGGGAG 59.612 60.000 13.64 0.00 46.06 4.30
2010 2202 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.000 13.64 4.95 46.06 4.20
2011 2203 0.828677 AAGTATTTCCGGACGGAGGG 59.171 55.000 13.64 0.00 46.06 4.30
2012 2204 1.206371 ACAAGTATTTCCGGACGGAGG 59.794 52.381 13.64 0.00 46.06 4.30
2013 2205 2.094390 TGACAAGTATTTCCGGACGGAG 60.094 50.000 13.64 3.15 46.06 4.63
2014 2206 1.894466 TGACAAGTATTTCCGGACGGA 59.106 47.619 1.83 9.76 43.52 4.69
2015 2207 2.373540 TGACAAGTATTTCCGGACGG 57.626 50.000 1.83 3.96 0.00 4.79
2016 2208 3.517602 TGATGACAAGTATTTCCGGACG 58.482 45.455 1.83 0.00 0.00 4.79
2017 2209 5.873179 TTTGATGACAAGTATTTCCGGAC 57.127 39.130 1.83 0.00 37.32 4.79
2018 2210 6.657117 TCATTTTGATGACAAGTATTTCCGGA 59.343 34.615 0.00 0.00 37.32 5.14
2019 2211 6.851609 TCATTTTGATGACAAGTATTTCCGG 58.148 36.000 0.00 0.00 37.32 5.14
2020 2212 8.915871 ATTCATTTTGATGACAAGTATTTCCG 57.084 30.769 0.00 0.00 37.32 4.30
2027 2219 8.096414 CCCCTTTTATTCATTTTGATGACAAGT 58.904 33.333 0.00 0.00 37.32 3.16
2028 2220 8.313292 TCCCCTTTTATTCATTTTGATGACAAG 58.687 33.333 0.00 0.00 37.32 3.16
2029 2221 8.200024 TCCCCTTTTATTCATTTTGATGACAA 57.800 30.769 0.00 0.00 0.00 3.18
2030 2222 7.789202 TCCCCTTTTATTCATTTTGATGACA 57.211 32.000 0.00 0.00 0.00 3.58
2031 2223 8.260114 ACATCCCCTTTTATTCATTTTGATGAC 58.740 33.333 0.00 0.00 32.39 3.06
2032 2224 8.378115 ACATCCCCTTTTATTCATTTTGATGA 57.622 30.769 0.00 0.00 32.39 2.92
2035 2227 9.713684 AGATACATCCCCTTTTATTCATTTTGA 57.286 29.630 0.00 0.00 0.00 2.69
2041 2233 9.170890 ACATCTAGATACATCCCCTTTTATTCA 57.829 33.333 4.54 0.00 0.00 2.57
2049 2241 9.845214 ACTAAAATACATCTAGATACATCCCCT 57.155 33.333 4.54 0.00 0.00 4.79
2071 2263 9.886132 GACAAAAAGGGATGTATCTAGAACTAA 57.114 33.333 0.00 0.00 0.00 2.24
2072 2264 8.483758 GGACAAAAAGGGATGTATCTAGAACTA 58.516 37.037 0.00 0.00 0.00 2.24
2073 2265 7.037586 TGGACAAAAAGGGATGTATCTAGAACT 60.038 37.037 0.00 0.00 0.00 3.01
2074 2266 7.110155 TGGACAAAAAGGGATGTATCTAGAAC 58.890 38.462 0.00 0.00 0.00 3.01
2075 2267 7.265599 TGGACAAAAAGGGATGTATCTAGAA 57.734 36.000 0.00 0.00 0.00 2.10
2076 2268 6.884472 TGGACAAAAAGGGATGTATCTAGA 57.116 37.500 0.00 0.00 0.00 2.43
2077 2269 8.525290 AAATGGACAAAAAGGGATGTATCTAG 57.475 34.615 0.00 0.00 0.00 2.43
2078 2270 8.748412 CAAAATGGACAAAAAGGGATGTATCTA 58.252 33.333 0.00 0.00 0.00 1.98
2079 2271 7.454380 TCAAAATGGACAAAAAGGGATGTATCT 59.546 33.333 0.00 0.00 0.00 1.98
2080 2272 7.610865 TCAAAATGGACAAAAAGGGATGTATC 58.389 34.615 0.00 0.00 0.00 2.24
2081 2273 7.552050 TCAAAATGGACAAAAAGGGATGTAT 57.448 32.000 0.00 0.00 0.00 2.29
2082 2274 6.985653 TCAAAATGGACAAAAAGGGATGTA 57.014 33.333 0.00 0.00 0.00 2.29
2083 2275 5.885449 TCAAAATGGACAAAAAGGGATGT 57.115 34.783 0.00 0.00 0.00 3.06
2084 2276 6.369615 GTCATCAAAATGGACAAAAAGGGATG 59.630 38.462 0.00 0.00 33.42 3.51
2085 2277 6.043012 TGTCATCAAAATGGACAAAAAGGGAT 59.957 34.615 0.00 0.00 33.42 3.85
2086 2278 5.365025 TGTCATCAAAATGGACAAAAAGGGA 59.635 36.000 0.00 0.00 33.42 4.20
2087 2279 5.609423 TGTCATCAAAATGGACAAAAAGGG 58.391 37.500 0.00 0.00 33.42 3.95
2088 2280 6.762661 ACTTGTCATCAAAATGGACAAAAAGG 59.237 34.615 7.70 0.11 34.98 3.11
2089 2281 7.775397 ACTTGTCATCAAAATGGACAAAAAG 57.225 32.000 7.70 0.11 34.98 2.27
2090 2282 9.829507 AATACTTGTCATCAAAATGGACAAAAA 57.170 25.926 7.70 0.55 34.98 1.94
2091 2283 9.829507 AAATACTTGTCATCAAAATGGACAAAA 57.170 25.926 7.70 0.84 34.98 2.44
2092 2284 9.829507 AAAATACTTGTCATCAAAATGGACAAA 57.170 25.926 7.70 0.00 34.98 2.83
2093 2285 9.474920 GAAAATACTTGTCATCAAAATGGACAA 57.525 29.630 0.00 0.00 34.59 3.18
2094 2286 7.807433 CGAAAATACTTGTCATCAAAATGGACA 59.193 33.333 0.00 0.00 33.42 4.02
2095 2287 7.273381 CCGAAAATACTTGTCATCAAAATGGAC 59.727 37.037 0.00 0.00 33.42 4.02
2096 2288 7.175816 TCCGAAAATACTTGTCATCAAAATGGA 59.824 33.333 0.00 0.00 33.42 3.41
2097 2289 7.273381 GTCCGAAAATACTTGTCATCAAAATGG 59.727 37.037 0.00 0.00 33.42 3.16
2098 2290 7.007367 CGTCCGAAAATACTTGTCATCAAAATG 59.993 37.037 0.00 0.00 32.87 2.32
2099 2291 7.021196 CGTCCGAAAATACTTGTCATCAAAAT 58.979 34.615 0.00 0.00 32.87 1.82
2100 2292 6.367421 CGTCCGAAAATACTTGTCATCAAAA 58.633 36.000 0.00 0.00 32.87 2.44
2101 2293 5.106869 CCGTCCGAAAATACTTGTCATCAAA 60.107 40.000 0.00 0.00 32.87 2.69
2102 2294 4.390603 CCGTCCGAAAATACTTGTCATCAA 59.609 41.667 0.00 0.00 0.00 2.57
2103 2295 3.930229 CCGTCCGAAAATACTTGTCATCA 59.070 43.478 0.00 0.00 0.00 3.07
2104 2296 4.178540 TCCGTCCGAAAATACTTGTCATC 58.821 43.478 0.00 0.00 0.00 2.92
2105 2297 4.181578 CTCCGTCCGAAAATACTTGTCAT 58.818 43.478 0.00 0.00 0.00 3.06
2106 2298 3.581755 CTCCGTCCGAAAATACTTGTCA 58.418 45.455 0.00 0.00 0.00 3.58
2107 2299 2.928116 CCTCCGTCCGAAAATACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
2108 2300 2.354403 CCCTCCGTCCGAAAATACTTGT 60.354 50.000 0.00 0.00 0.00 3.16
2109 2301 2.093869 TCCCTCCGTCCGAAAATACTTG 60.094 50.000 0.00 0.00 0.00 3.16
2110 2302 2.167900 CTCCCTCCGTCCGAAAATACTT 59.832 50.000 0.00 0.00 0.00 2.24
2111 2303 1.755380 CTCCCTCCGTCCGAAAATACT 59.245 52.381 0.00 0.00 0.00 2.12
2112 2304 1.479730 ACTCCCTCCGTCCGAAAATAC 59.520 52.381 0.00 0.00 0.00 1.89
2113 2305 1.856629 ACTCCCTCCGTCCGAAAATA 58.143 50.000 0.00 0.00 0.00 1.40
2114 2306 1.856629 TACTCCCTCCGTCCGAAAAT 58.143 50.000 0.00 0.00 0.00 1.82
2115 2307 1.856629 ATACTCCCTCCGTCCGAAAA 58.143 50.000 0.00 0.00 0.00 2.29
2116 2308 2.734755 TATACTCCCTCCGTCCGAAA 57.265 50.000 0.00 0.00 0.00 3.46
2117 2309 2.511659 CATATACTCCCTCCGTCCGAA 58.488 52.381 0.00 0.00 0.00 4.30
2118 2310 1.885359 GCATATACTCCCTCCGTCCGA 60.885 57.143 0.00 0.00 0.00 4.55
2119 2311 0.526662 GCATATACTCCCTCCGTCCG 59.473 60.000 0.00 0.00 0.00 4.79
2120 2312 1.629043 TGCATATACTCCCTCCGTCC 58.371 55.000 0.00 0.00 0.00 4.79
2121 2313 2.628657 ACTTGCATATACTCCCTCCGTC 59.371 50.000 0.00 0.00 0.00 4.79
2122 2314 2.365617 CACTTGCATATACTCCCTCCGT 59.634 50.000 0.00 0.00 0.00 4.69
2123 2315 2.868044 GCACTTGCATATACTCCCTCCG 60.868 54.545 0.00 0.00 41.59 4.63
2124 2316 2.772287 GCACTTGCATATACTCCCTCC 58.228 52.381 0.00 0.00 41.59 4.30
2125 2317 2.035961 TCGCACTTGCATATACTCCCTC 59.964 50.000 1.48 0.00 42.21 4.30
2126 2318 2.039418 TCGCACTTGCATATACTCCCT 58.961 47.619 1.48 0.00 42.21 4.20
2127 2319 2.135933 GTCGCACTTGCATATACTCCC 58.864 52.381 1.48 0.00 42.21 4.30
2128 2320 2.821546 TGTCGCACTTGCATATACTCC 58.178 47.619 1.48 0.00 42.21 3.85
2129 2321 4.051237 TGATGTCGCACTTGCATATACTC 58.949 43.478 1.48 0.00 42.21 2.59
2130 2322 4.058721 TGATGTCGCACTTGCATATACT 57.941 40.909 1.48 0.00 42.21 2.12
2131 2323 4.319046 CCTTGATGTCGCACTTGCATATAC 60.319 45.833 1.48 0.00 42.21 1.47
2132 2324 3.809279 CCTTGATGTCGCACTTGCATATA 59.191 43.478 1.48 0.00 42.21 0.86
2133 2325 2.615447 CCTTGATGTCGCACTTGCATAT 59.385 45.455 1.48 0.00 42.21 1.78
2334 2527 2.552315 GGTCATCGAGATCCTCAGAGTC 59.448 54.545 0.00 0.00 0.00 3.36
2418 2611 6.347696 CAAGGCAAGGCATATCCAAAATAAA 58.652 36.000 0.00 0.00 37.29 1.40
2617 3219 5.045872 AGCTGAATTCAGAACTTTGCAAAC 58.954 37.500 34.43 14.66 46.59 2.93
2651 3730 4.554723 GCATGTACCTGTTGTTCAACAGTC 60.555 45.833 30.63 23.26 46.54 3.51
2655 3734 3.980646 TGCATGTACCTGTTGTTCAAC 57.019 42.857 8.52 8.52 0.00 3.18
2736 3822 4.356405 TCAAAAGAGCTCAACATCCAGA 57.644 40.909 17.77 0.00 0.00 3.86
2802 3888 1.412343 TCACTCACTGCTGCTACACAA 59.588 47.619 0.00 0.00 0.00 3.33
2836 3922 0.462047 GGGTTGGACTAGTGCGGATG 60.462 60.000 10.02 0.00 0.00 3.51
2913 3999 6.589523 TGCATATTAGTTGGCAAACATTTGAC 59.410 34.615 6.76 5.87 46.42 3.18
2934 4020 6.208007 CCCAATACAATAGACACATGATGCAT 59.792 38.462 0.00 0.00 0.00 3.96
3141 4227 4.620567 GCCACCAGACTCACAAAAAGTTTT 60.621 41.667 0.00 0.00 0.00 2.43
3217 4303 4.019321 TGAAACAACAGGGAGGGATAAGAG 60.019 45.833 0.00 0.00 0.00 2.85


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

AutoCloner maintained by Alex Coulton.