Multiple sequence alignment - TraesCS3A01G441800

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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 TraesCS3A01G441800 chr3A 100.000 2457 0 0 1 2457 683549708 683547252 0.000000e+00 4538
1 TraesCS3A01G441800 chr3A 92.644 1074 70 5 835 1902 683681868 683680798 0.000000e+00 1537
2 TraesCS3A01G441800 chr3A 89.199 861 53 19 1 835 683684002 683683156 0.000000e+00 1038
3 TraesCS3A01G441800 chr3A 89.216 714 49 12 719 1432 24199840 24200525 0.000000e+00 867
4 TraesCS3A01G441800 chr3A 92.632 285 14 3 4 288 24198841 24199118 1.060000e-108 403
5 TraesCS3A01G441800 chr3A 89.057 265 25 1 1638 1898 24201305 24201569 2.360000e-85 326
6 TraesCS3A01G441800 chr3A 89.024 246 20 6 2154 2393 683680696 683680452 5.140000e-77 298
7 TraesCS3A01G441800 chr3A 80.952 336 55 9 376 704 431863380 431863713 8.720000e-65 257
8 TraesCS3A01G441800 chr3A 80.588 340 58 8 376 709 580560498 580560161 3.140000e-64 255
9 TraesCS3A01G441800 chr3A 94.079 152 6 2 1452 1603 24200605 24200753 6.840000e-56 228
10 TraesCS3A01G441800 chr3D 90.352 1420 95 26 40 1432 547002740 547001336 0.000000e+00 1825
11 TraesCS3A01G441800 chr3D 88.791 455 36 4 1452 1902 547001225 547000782 5.980000e-151 544
12 TraesCS3A01G441800 chr3D 85.673 342 21 7 2144 2457 547000712 547000371 3.910000e-88 335
13 TraesCS3A01G441800 chr3B 93.750 736 40 2 703 1432 724187667 724186932 0.000000e+00 1099
14 TraesCS3A01G441800 chr3B 87.172 343 38 2 1561 1902 724186679 724186342 3.830000e-103 385
15 TraesCS3A01G441800 chr3B 89.735 302 20 8 1 299 724188064 724187771 2.310000e-100 375
16 TraesCS3A01G441800 chr3B 87.574 338 18 6 2144 2457 724186261 724185924 1.070000e-98 370
17 TraesCS3A01G441800 chr3B 83.481 339 45 10 376 704 578758631 578758294 3.070000e-79 305
18 TraesCS3A01G441800 chr3B 90.991 111 7 3 1452 1562 724186851 724186744 1.970000e-31 147
19 TraesCS3A01G441800 chr4B 93.478 736 40 4 703 1432 604887924 604888657 0.000000e+00 1086
20 TraesCS3A01G441800 chr4B 93.311 299 13 3 1 299 604887627 604887918 3.750000e-118 435
21 TraesCS3A01G441800 chr4B 80.882 340 56 9 376 708 255683055 255682718 2.420000e-65 259
22 TraesCS3A01G441800 chr4B 88.112 143 13 2 1674 1812 604888974 604889116 1.510000e-37 167
23 TraesCS3A01G441800 chr2A 91.822 697 36 12 738 1432 5291440 5290763 0.000000e+00 952
24 TraesCS3A01G441800 chr2A 92.461 451 31 2 1452 1902 5290679 5290232 2.060000e-180 641
25 TraesCS3A01G441800 chr2A 90.336 238 16 4 1 238 5292149 5291919 3.070000e-79 305
26 TraesCS3A01G441800 chr2A 81.194 335 55 8 376 704 25350714 25351046 1.870000e-66 263
27 TraesCS3A01G441800 chr2B 99.448 181 1 0 1961 2141 521849147 521848967 1.820000e-86 329
28 TraesCS3A01G441800 chr2B 94.505 182 8 2 1960 2141 198635735 198635556 1.860000e-71 279
29 TraesCS3A01G441800 chr2B 86.087 230 31 1 1673 1902 381559519 381559747 1.890000e-61 246
30 TraesCS3A01G441800 chrUn 93.956 182 9 2 1960 2141 68464433 68464612 8.660000e-70 274
31 TraesCS3A01G441800 chr6A 81.493 335 54 8 376 704 8202608 8202940 4.030000e-68 268
32 TraesCS3A01G441800 chr5B 80.952 336 55 9 376 704 72093499 72093166 8.720000e-65 257
33 TraesCS3A01G441800 chr5B 81.132 265 45 2 1638 1902 236072551 236072810 8.900000e-50 207


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 TraesCS3A01G441800 chr3A 683547252 683549708 2456 True 4538.000000 4538 100.000000 1 2457 1 chr3A.!!$R2 2456
1 TraesCS3A01G441800 chr3A 683680452 683684002 3550 True 957.666667 1537 90.289000 1 2393 3 chr3A.!!$R3 2392
2 TraesCS3A01G441800 chr3A 24198841 24201569 2728 False 456.000000 867 91.246000 4 1898 4 chr3A.!!$F2 1894
3 TraesCS3A01G441800 chr3D 547000371 547002740 2369 True 901.333333 1825 88.272000 40 2457 3 chr3D.!!$R1 2417
4 TraesCS3A01G441800 chr3B 724185924 724188064 2140 True 475.200000 1099 89.844400 1 2457 5 chr3B.!!$R2 2456
5 TraesCS3A01G441800 chr4B 604887627 604889116 1489 False 562.666667 1086 91.633667 1 1812 3 chr4B.!!$F1 1811
6 TraesCS3A01G441800 chr2A 5290232 5292149 1917 True 632.666667 952 91.539667 1 1902 3 chr2A.!!$R1 1901

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
582 1096 0.680921 GCCTAGCAACCCAAGCATGA 60.681 55.0 0.0 0.0 0.0 3.07 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1651 4216 0.029567 CTACTGTCGATCTCACGGCC 59.97 60.0 0.0 0.0 37.06 6.13 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
38 39 8.434661 TGATTACCTTTTGTCGTTACGAATTAC 58.565 33.333 9.65 0.00 37.72 1.89
84 85 2.229792 TGTGTTCACCCTTCAGATTGC 58.770 47.619 0.37 0.00 0.00 3.56
139 142 3.684788 CCGTGCTTGCATAAGTACTTCTT 59.315 43.478 12.39 0.00 44.36 2.52
146 149 5.880054 TGCATAAGTACTTCTTTCCTTGC 57.120 39.130 12.39 11.02 37.56 4.01
299 644 3.565482 CAGGGTGTGCCATCAATACATAC 59.435 47.826 0.00 0.00 36.17 2.39
301 646 3.565482 GGGTGTGCCATCAATACATACTG 59.435 47.826 0.00 0.00 36.17 2.74
302 647 4.199310 GGTGTGCCATCAATACATACTGT 58.801 43.478 0.00 0.00 34.09 3.55
308 653 8.592809 TGTGCCATCAATACATACTGTATATGA 58.407 33.333 0.00 10.56 42.29 2.15
344 689 3.683937 GCCAAACGTGCCAGCCAT 61.684 61.111 0.00 0.00 0.00 4.40
366 716 1.798813 CCCGCTTAGGCACGATTATTC 59.201 52.381 0.00 0.00 39.21 1.75
461 889 5.102953 TGCTAATCTGACTGCTATTTGGT 57.897 39.130 0.00 0.00 0.00 3.67
507 1018 7.962995 TTTTTACATGTTGGGCCATATAGAA 57.037 32.000 7.26 0.38 0.00 2.10
582 1096 0.680921 GCCTAGCAACCCAAGCATGA 60.681 55.000 0.00 0.00 0.00 3.07
593 1107 1.075482 AAGCATGACCCAGGGTGTG 59.925 57.895 19.03 15.93 35.25 3.82
594 1108 1.719063 AAGCATGACCCAGGGTGTGT 61.719 55.000 19.03 0.00 35.25 3.72
595 1109 1.675641 GCATGACCCAGGGTGTGTC 60.676 63.158 19.03 1.02 35.25 3.67
596 1110 1.375908 CATGACCCAGGGTGTGTCG 60.376 63.158 19.03 0.00 35.25 4.35
597 1111 3.254024 ATGACCCAGGGTGTGTCGC 62.254 63.158 19.03 0.00 35.25 5.19
598 1112 3.626924 GACCCAGGGTGTGTCGCT 61.627 66.667 19.03 0.00 35.25 4.93
599 1113 3.168528 ACCCAGGGTGTGTCGCTT 61.169 61.111 11.70 0.00 37.22 4.68
632 1153 1.666872 GTTTAGCCCGTGTCGTGCT 60.667 57.895 4.55 4.55 43.60 4.40
637 1158 4.988598 CCCGTGTCGTGCTTGGCT 62.989 66.667 0.00 0.00 0.00 4.75
1185 3007 7.504926 TCTGGTAGGAACACAATTAACCTAT 57.495 36.000 0.00 0.00 35.98 2.57
1195 3017 9.391006 GAACACAATTAACCTATACATCTCCAA 57.609 33.333 0.00 0.00 0.00 3.53
1271 3093 4.305539 TGCAGAAAAGATGGGATCTGAA 57.694 40.909 5.85 0.00 41.38 3.02
1278 3100 5.779241 AAAGATGGGATCTGAAGGTTGTA 57.221 39.130 0.00 0.00 40.13 2.41
1393 3215 2.814269 CTGCTACGTGACTGTATGCAT 58.186 47.619 3.79 3.79 32.26 3.96
1411 3233 1.800586 CATGTGCTACAAGAACTGCGT 59.199 47.619 0.00 0.00 0.00 5.24
1416 3238 1.264288 GCTACAAGAACTGCGTTGCTT 59.736 47.619 0.00 1.22 0.00 3.91
1507 3488 7.067615 TGGTGTAATGTTCACTTGCTCTTTTTA 59.932 33.333 0.00 0.00 36.25 1.52
1626 3674 1.268352 CCCGCGAGATTGGTTGAAAAA 59.732 47.619 8.23 0.00 0.00 1.94
1627 3675 2.315901 CCGCGAGATTGGTTGAAAAAC 58.684 47.619 8.23 0.00 0.00 2.43
1642 4207 0.602638 AAAACGTGGCTGCGAGATCA 60.603 50.000 8.80 0.00 35.59 2.92
1646 4211 1.016130 CGTGGCTGCGAGATCAGTTT 61.016 55.000 0.00 0.00 36.49 2.66
1651 4216 1.699656 CTGCGAGATCAGTTTGCCCG 61.700 60.000 0.00 0.00 0.00 6.13
1666 4232 3.822192 CCGGCCGTGAGATCGACA 61.822 66.667 26.12 0.00 0.00 4.35
1813 4407 4.809496 CAGGAGCAGCGGCCCATT 62.809 66.667 16.12 0.00 42.56 3.16
1904 4523 4.635765 TCGTTGATCTAATGGCCAGAAAAG 59.364 41.667 13.05 5.82 0.00 2.27
1907 4526 5.708736 TGATCTAATGGCCAGAAAAGGTA 57.291 39.130 13.05 0.00 0.00 3.08
1967 4596 9.582223 GCTGTTAGCATTTTATTACGAGTAATC 57.418 33.333 11.29 0.00 41.89 1.75
1969 4598 9.826574 TGTTAGCATTTTATTACGAGTAATCCT 57.173 29.630 11.29 4.12 37.07 3.24
1974 4603 9.577003 GCATTTTATTACGAGTAATCCTAAACG 57.423 33.333 11.29 6.04 37.07 3.60
1978 4607 8.987599 TTATTACGAGTAATCCTAAACGTACG 57.012 34.615 15.01 15.01 37.07 3.67
1979 4608 4.278678 ACGAGTAATCCTAAACGTACGG 57.721 45.455 21.06 0.68 32.42 4.02
1980 4609 3.065371 ACGAGTAATCCTAAACGTACGGG 59.935 47.826 21.06 11.08 32.42 5.28
1981 4610 3.548818 CGAGTAATCCTAAACGTACGGGG 60.549 52.174 21.06 15.07 0.00 5.73
1982 4611 2.695147 AGTAATCCTAAACGTACGGGGG 59.305 50.000 21.06 14.73 0.00 5.40
1983 4612 1.571955 AATCCTAAACGTACGGGGGT 58.428 50.000 21.06 9.31 0.00 4.95
1984 4613 1.571955 ATCCTAAACGTACGGGGGTT 58.428 50.000 21.06 10.21 0.00 4.11
1985 4614 1.347062 TCCTAAACGTACGGGGGTTT 58.653 50.000 21.06 12.96 39.50 3.27
1986 4615 1.696884 TCCTAAACGTACGGGGGTTTT 59.303 47.619 21.06 12.59 37.52 2.43
1987 4616 2.900546 TCCTAAACGTACGGGGGTTTTA 59.099 45.455 21.06 13.04 37.52 1.52
1988 4617 3.000041 CCTAAACGTACGGGGGTTTTAC 59.000 50.000 21.06 0.00 37.52 2.01
1989 4618 1.507562 AAACGTACGGGGGTTTTACG 58.492 50.000 21.06 0.00 43.34 3.18
1990 4619 0.676736 AACGTACGGGGGTTTTACGA 59.323 50.000 21.06 0.00 40.84 3.43
1991 4620 0.243636 ACGTACGGGGGTTTTACGAG 59.756 55.000 21.06 0.00 40.84 4.18
1992 4621 0.243636 CGTACGGGGGTTTTACGAGT 59.756 55.000 7.57 0.00 40.84 4.18
1993 4622 1.713597 GTACGGGGGTTTTACGAGTG 58.286 55.000 0.00 0.00 0.00 3.51
1994 4623 1.000843 GTACGGGGGTTTTACGAGTGT 59.999 52.381 0.00 0.00 0.00 3.55
1995 4624 0.249996 ACGGGGGTTTTACGAGTGTG 60.250 55.000 0.00 0.00 0.00 3.82
1996 4625 0.249996 CGGGGGTTTTACGAGTGTGT 60.250 55.000 0.00 0.00 0.00 3.72
1997 4626 1.811176 CGGGGGTTTTACGAGTGTGTT 60.811 52.381 0.00 0.00 0.00 3.32
1998 4627 2.547642 CGGGGGTTTTACGAGTGTGTTA 60.548 50.000 0.00 0.00 0.00 2.41
1999 4628 2.807967 GGGGGTTTTACGAGTGTGTTAC 59.192 50.000 0.00 0.00 0.00 2.50
2000 4629 2.476241 GGGGTTTTACGAGTGTGTTACG 59.524 50.000 0.00 0.00 0.00 3.18
2001 4630 2.476241 GGGTTTTACGAGTGTGTTACGG 59.524 50.000 0.00 0.00 0.00 4.02
2002 4631 3.380142 GGTTTTACGAGTGTGTTACGGA 58.620 45.455 0.00 0.00 0.00 4.69
2003 4632 3.182372 GGTTTTACGAGTGTGTTACGGAC 59.818 47.826 0.00 0.00 0.00 4.79
2004 4633 2.704725 TTACGAGTGTGTTACGGACC 57.295 50.000 0.00 0.00 0.00 4.46
2005 4634 0.881118 TACGAGTGTGTTACGGACCC 59.119 55.000 0.00 0.00 0.00 4.46
2006 4635 1.080298 CGAGTGTGTTACGGACCCC 60.080 63.158 0.00 0.00 0.00 4.95
2007 4636 1.294459 GAGTGTGTTACGGACCCCC 59.706 63.158 0.00 0.00 0.00 5.40
2008 4637 1.152183 AGTGTGTTACGGACCCCCT 60.152 57.895 0.00 0.00 0.00 4.79
2009 4638 1.190178 AGTGTGTTACGGACCCCCTC 61.190 60.000 0.00 0.00 0.00 4.30
2010 4639 1.156803 TGTGTTACGGACCCCCTCT 59.843 57.895 0.00 0.00 0.00 3.69
2011 4640 0.472352 TGTGTTACGGACCCCCTCTT 60.472 55.000 0.00 0.00 0.00 2.85
2012 4641 0.036671 GTGTTACGGACCCCCTCTTG 60.037 60.000 0.00 0.00 0.00 3.02
2013 4642 1.078637 GTTACGGACCCCCTCTTGC 60.079 63.158 0.00 0.00 0.00 4.01
2014 4643 1.229400 TTACGGACCCCCTCTTGCT 60.229 57.895 0.00 0.00 0.00 3.91
2015 4644 0.041535 TTACGGACCCCCTCTTGCTA 59.958 55.000 0.00 0.00 0.00 3.49
2016 4645 0.041535 TACGGACCCCCTCTTGCTAA 59.958 55.000 0.00 0.00 0.00 3.09
2017 4646 0.620700 ACGGACCCCCTCTTGCTAAT 60.621 55.000 0.00 0.00 0.00 1.73
2018 4647 0.546598 CGGACCCCCTCTTGCTAATT 59.453 55.000 0.00 0.00 0.00 1.40
2019 4648 1.475213 CGGACCCCCTCTTGCTAATTC 60.475 57.143 0.00 0.00 0.00 2.17
2020 4649 1.475213 GGACCCCCTCTTGCTAATTCG 60.475 57.143 0.00 0.00 0.00 3.34
2021 4650 0.107165 ACCCCCTCTTGCTAATTCGC 60.107 55.000 0.00 0.00 0.00 4.70
2022 4651 0.181350 CCCCCTCTTGCTAATTCGCT 59.819 55.000 3.41 0.00 0.00 4.93
2023 4652 1.587547 CCCCTCTTGCTAATTCGCTC 58.412 55.000 3.41 0.00 0.00 5.03
2024 4653 1.212616 CCCTCTTGCTAATTCGCTCG 58.787 55.000 3.41 0.00 0.00 5.03
2025 4654 0.579156 CCTCTTGCTAATTCGCTCGC 59.421 55.000 3.41 0.00 0.00 5.03
2026 4655 0.579156 CTCTTGCTAATTCGCTCGCC 59.421 55.000 3.41 0.00 0.00 5.54
2027 4656 0.810031 TCTTGCTAATTCGCTCGCCC 60.810 55.000 3.41 0.00 0.00 6.13
2028 4657 1.776034 CTTGCTAATTCGCTCGCCCC 61.776 60.000 3.41 0.00 0.00 5.80
2029 4658 2.109181 GCTAATTCGCTCGCCCCT 59.891 61.111 0.00 0.00 0.00 4.79
2030 4659 1.956678 GCTAATTCGCTCGCCCCTC 60.957 63.158 0.00 0.00 0.00 4.30
2031 4660 1.301009 CTAATTCGCTCGCCCCTCC 60.301 63.158 0.00 0.00 0.00 4.30
2032 4661 1.749334 CTAATTCGCTCGCCCCTCCT 61.749 60.000 0.00 0.00 0.00 3.69
2033 4662 2.028125 TAATTCGCTCGCCCCTCCTG 62.028 60.000 0.00 0.00 0.00 3.86
2035 4664 4.841617 TCGCTCGCCCCTCCTGAT 62.842 66.667 0.00 0.00 0.00 2.90
2036 4665 3.854669 CGCTCGCCCCTCCTGATT 61.855 66.667 0.00 0.00 0.00 2.57
2037 4666 2.592308 GCTCGCCCCTCCTGATTT 59.408 61.111 0.00 0.00 0.00 2.17
2038 4667 1.524849 GCTCGCCCCTCCTGATTTC 60.525 63.158 0.00 0.00 0.00 2.17
2039 4668 1.907739 CTCGCCCCTCCTGATTTCA 59.092 57.895 0.00 0.00 0.00 2.69
2040 4669 0.179062 CTCGCCCCTCCTGATTTCAG 60.179 60.000 0.39 0.39 43.40 3.02
2049 4678 1.307647 CTGATTTCAGGGGGTGGGG 59.692 63.158 0.00 0.00 40.20 4.96
2050 4679 2.228841 CTGATTTCAGGGGGTGGGGG 62.229 65.000 0.00 0.00 40.20 5.40
2051 4680 3.679199 GATTTCAGGGGGTGGGGGC 62.679 68.421 0.00 0.00 0.00 5.80
2064 4693 4.956932 GGGGCCCGGCTGCTAATC 62.957 72.222 17.79 0.00 0.00 1.75
2065 4694 4.956932 GGGCCCGGCTGCTAATCC 62.957 72.222 5.69 0.00 0.00 3.01
2066 4695 3.878667 GGCCCGGCTGCTAATCCT 61.879 66.667 9.86 0.00 0.00 3.24
2067 4696 2.516888 GGCCCGGCTGCTAATCCTA 61.517 63.158 9.86 0.00 0.00 2.94
2068 4697 1.450211 GCCCGGCTGCTAATCCTAA 59.550 57.895 0.71 0.00 0.00 2.69
2069 4698 0.179029 GCCCGGCTGCTAATCCTAAA 60.179 55.000 0.71 0.00 0.00 1.85
2070 4699 1.594331 CCCGGCTGCTAATCCTAAAC 58.406 55.000 0.00 0.00 0.00 2.01
2071 4700 1.594331 CCGGCTGCTAATCCTAAACC 58.406 55.000 0.00 0.00 0.00 3.27
2072 4701 1.134220 CCGGCTGCTAATCCTAAACCA 60.134 52.381 0.00 0.00 0.00 3.67
2073 4702 2.639065 CGGCTGCTAATCCTAAACCAA 58.361 47.619 0.00 0.00 0.00 3.67
2074 4703 3.214328 CGGCTGCTAATCCTAAACCAAT 58.786 45.455 0.00 0.00 0.00 3.16
2075 4704 3.251004 CGGCTGCTAATCCTAAACCAATC 59.749 47.826 0.00 0.00 0.00 2.67
2076 4705 4.207165 GGCTGCTAATCCTAAACCAATCA 58.793 43.478 0.00 0.00 0.00 2.57
2077 4706 4.276926 GGCTGCTAATCCTAAACCAATCAG 59.723 45.833 0.00 0.00 0.00 2.90
2078 4707 4.884164 GCTGCTAATCCTAAACCAATCAGT 59.116 41.667 0.00 0.00 0.00 3.41
2079 4708 5.358160 GCTGCTAATCCTAAACCAATCAGTT 59.642 40.000 0.00 0.00 0.00 3.16
2080 4709 6.127619 GCTGCTAATCCTAAACCAATCAGTTT 60.128 38.462 0.00 0.00 42.47 2.66
2081 4710 7.156876 TGCTAATCCTAAACCAATCAGTTTG 57.843 36.000 0.09 0.00 40.15 2.93
2082 4711 6.036470 GCTAATCCTAAACCAATCAGTTTGC 58.964 40.000 0.09 0.00 40.15 3.68
2083 4712 6.127619 GCTAATCCTAAACCAATCAGTTTGCT 60.128 38.462 0.09 0.00 40.15 3.91
2084 4713 5.904362 ATCCTAAACCAATCAGTTTGCTC 57.096 39.130 0.09 0.00 40.15 4.26
2085 4714 4.079253 TCCTAAACCAATCAGTTTGCTCC 58.921 43.478 0.09 0.00 40.15 4.70
2086 4715 3.826157 CCTAAACCAATCAGTTTGCTCCA 59.174 43.478 0.09 0.00 40.15 3.86
2087 4716 3.733443 AAACCAATCAGTTTGCTCCAC 57.267 42.857 0.00 0.00 38.51 4.02
2088 4717 2.363306 ACCAATCAGTTTGCTCCACA 57.637 45.000 0.00 0.00 33.73 4.17
2089 4718 2.880443 ACCAATCAGTTTGCTCCACAT 58.120 42.857 0.00 0.00 33.73 3.21
2090 4719 2.821969 ACCAATCAGTTTGCTCCACATC 59.178 45.455 0.00 0.00 33.73 3.06
2091 4720 2.821378 CCAATCAGTTTGCTCCACATCA 59.179 45.455 0.00 0.00 33.73 3.07
2092 4721 3.119602 CCAATCAGTTTGCTCCACATCAG 60.120 47.826 0.00 0.00 33.73 2.90
2093 4722 1.527034 TCAGTTTGCTCCACATCAGC 58.473 50.000 0.00 0.00 37.40 4.26
2094 4723 0.524862 CAGTTTGCTCCACATCAGCC 59.475 55.000 0.00 0.00 35.89 4.85
2095 4724 0.403271 AGTTTGCTCCACATCAGCCT 59.597 50.000 0.00 0.00 35.89 4.58
2096 4725 0.524862 GTTTGCTCCACATCAGCCTG 59.475 55.000 0.00 0.00 35.89 4.85
2097 4726 0.111061 TTTGCTCCACATCAGCCTGT 59.889 50.000 0.00 0.00 35.89 4.00
2098 4727 0.607217 TTGCTCCACATCAGCCTGTG 60.607 55.000 5.02 5.02 44.92 3.66
2099 4728 2.404995 GCTCCACATCAGCCTGTGC 61.405 63.158 6.22 0.00 44.16 4.57
2100 4729 1.002990 CTCCACATCAGCCTGTGCA 60.003 57.895 6.22 0.00 44.16 4.57
2101 4730 0.607217 CTCCACATCAGCCTGTGCAA 60.607 55.000 6.22 0.00 44.16 4.08
2102 4731 0.038599 TCCACATCAGCCTGTGCAAT 59.961 50.000 6.22 0.00 44.16 3.56
2103 4732 1.281577 TCCACATCAGCCTGTGCAATA 59.718 47.619 6.22 0.00 44.16 1.90
2104 4733 2.093890 CCACATCAGCCTGTGCAATAA 58.906 47.619 6.22 0.00 44.16 1.40
2105 4734 2.492881 CCACATCAGCCTGTGCAATAAA 59.507 45.455 6.22 0.00 44.16 1.40
2106 4735 3.504863 CACATCAGCCTGTGCAATAAAC 58.495 45.455 0.00 0.00 40.03 2.01
2107 4736 2.493278 ACATCAGCCTGTGCAATAAACC 59.507 45.455 0.00 0.00 41.13 3.27
2108 4737 1.544724 TCAGCCTGTGCAATAAACCC 58.455 50.000 0.00 0.00 41.13 4.11
2109 4738 1.075374 TCAGCCTGTGCAATAAACCCT 59.925 47.619 0.00 0.00 41.13 4.34
2110 4739 1.203052 CAGCCTGTGCAATAAACCCTG 59.797 52.381 0.00 0.00 41.13 4.45
2111 4740 1.203050 AGCCTGTGCAATAAACCCTGT 60.203 47.619 0.00 0.00 41.13 4.00
2112 4741 2.041081 AGCCTGTGCAATAAACCCTGTA 59.959 45.455 0.00 0.00 41.13 2.74
2113 4742 2.823154 GCCTGTGCAATAAACCCTGTAA 59.177 45.455 0.00 0.00 37.47 2.41
2114 4743 3.257127 GCCTGTGCAATAAACCCTGTAAA 59.743 43.478 0.00 0.00 37.47 2.01
2115 4744 4.262249 GCCTGTGCAATAAACCCTGTAAAA 60.262 41.667 0.00 0.00 37.47 1.52
2116 4745 5.227152 CCTGTGCAATAAACCCTGTAAAAC 58.773 41.667 0.00 0.00 0.00 2.43
2117 4746 5.221342 CCTGTGCAATAAACCCTGTAAAACA 60.221 40.000 0.00 0.00 0.00 2.83
2118 4747 6.222038 TGTGCAATAAACCCTGTAAAACAA 57.778 33.333 0.00 0.00 0.00 2.83
2119 4748 6.276847 TGTGCAATAAACCCTGTAAAACAAG 58.723 36.000 0.00 0.00 0.00 3.16
2120 4749 6.127310 TGTGCAATAAACCCTGTAAAACAAGT 60.127 34.615 0.00 0.00 0.00 3.16
2121 4750 6.419710 GTGCAATAAACCCTGTAAAACAAGTC 59.580 38.462 0.00 0.00 0.00 3.01
2122 4751 6.322712 TGCAATAAACCCTGTAAAACAAGTCT 59.677 34.615 0.00 0.00 0.00 3.24
2123 4752 6.640907 GCAATAAACCCTGTAAAACAAGTCTG 59.359 38.462 0.00 0.00 0.00 3.51
2124 4753 7.683463 GCAATAAACCCTGTAAAACAAGTCTGT 60.683 37.037 0.00 0.00 37.39 3.41
2125 4754 8.842280 CAATAAACCCTGTAAAACAAGTCTGTA 58.158 33.333 0.00 0.00 33.45 2.74
2126 4755 6.937436 AAACCCTGTAAAACAAGTCTGTAG 57.063 37.500 0.00 0.00 33.45 2.74
2127 4756 4.386711 ACCCTGTAAAACAAGTCTGTAGC 58.613 43.478 0.00 0.00 33.45 3.58
2128 4757 4.102681 ACCCTGTAAAACAAGTCTGTAGCT 59.897 41.667 0.00 0.00 33.45 3.32
2129 4758 4.691216 CCCTGTAAAACAAGTCTGTAGCTC 59.309 45.833 0.00 0.00 33.45 4.09
2130 4759 5.511545 CCCTGTAAAACAAGTCTGTAGCTCT 60.512 44.000 0.00 0.00 33.45 4.09
2131 4760 6.295123 CCCTGTAAAACAAGTCTGTAGCTCTA 60.295 42.308 0.00 0.00 33.45 2.43
2132 4761 6.809196 CCTGTAAAACAAGTCTGTAGCTCTAG 59.191 42.308 0.00 0.00 33.45 2.43
2133 4762 6.157211 TGTAAAACAAGTCTGTAGCTCTAGC 58.843 40.000 0.00 0.00 36.53 3.42
2134 4763 4.873746 AAACAAGTCTGTAGCTCTAGCA 57.126 40.909 4.54 0.00 38.05 3.49
2135 4764 5.413309 AAACAAGTCTGTAGCTCTAGCAT 57.587 39.130 4.54 0.00 38.05 3.79
2136 4765 5.413309 AACAAGTCTGTAGCTCTAGCATT 57.587 39.130 4.54 0.00 38.05 3.56
2137 4766 6.531503 AACAAGTCTGTAGCTCTAGCATTA 57.468 37.500 4.54 0.00 38.05 1.90
2138 4767 5.897050 ACAAGTCTGTAGCTCTAGCATTAC 58.103 41.667 4.54 0.00 45.16 1.89
2139 4768 5.654650 ACAAGTCTGTAGCTCTAGCATTACT 59.345 40.000 4.54 0.00 45.16 2.24
2140 4769 6.183360 ACAAGTCTGTAGCTCTAGCATTACTC 60.183 42.308 4.54 0.00 45.16 2.59
2141 4770 5.690865 AGTCTGTAGCTCTAGCATTACTCT 58.309 41.667 4.54 0.00 45.16 3.24
2142 4771 6.126409 AGTCTGTAGCTCTAGCATTACTCTT 58.874 40.000 4.54 0.00 45.16 2.85
2143 4772 6.605594 AGTCTGTAGCTCTAGCATTACTCTTT 59.394 38.462 4.54 0.00 45.16 2.52
2144 4773 7.123547 AGTCTGTAGCTCTAGCATTACTCTTTT 59.876 37.037 4.54 0.00 45.16 2.27
2145 4774 8.407064 GTCTGTAGCTCTAGCATTACTCTTTTA 58.593 37.037 4.54 0.00 45.16 1.52
2146 4775 9.137459 TCTGTAGCTCTAGCATTACTCTTTTAT 57.863 33.333 4.54 0.00 45.16 1.40
2147 4776 9.757227 CTGTAGCTCTAGCATTACTCTTTTATT 57.243 33.333 4.54 0.00 45.16 1.40
2151 4780 9.757227 AGCTCTAGCATTACTCTTTTATTACTG 57.243 33.333 4.54 0.00 45.16 2.74
2168 4797 5.804692 TTACTGTGTGTTGTGTTGTTAGG 57.195 39.130 0.00 0.00 0.00 2.69
2179 4808 4.771903 TGTGTTGTTAGGCTGTTACTTCA 58.228 39.130 0.00 0.00 0.00 3.02
2180 4809 5.186942 TGTGTTGTTAGGCTGTTACTTCAA 58.813 37.500 0.00 0.00 0.00 2.69
2196 4831 0.817634 TCAAACACCAAGCAGACGGG 60.818 55.000 0.00 0.00 0.00 5.28
2215 4850 3.404899 GGGTCTCGTTTTACACATCCAA 58.595 45.455 0.00 0.00 0.00 3.53
2229 4868 4.067896 CACATCCAAGACCATACTATGCC 58.932 47.826 0.00 0.00 0.00 4.40
2251 4912 4.949856 CCCTGAACATGGCTACATTTTACT 59.050 41.667 0.00 0.00 34.35 2.24
2253 4914 5.882557 CCTGAACATGGCTACATTTTACTCT 59.117 40.000 0.00 0.00 34.35 3.24
2264 4925 5.991328 ACATTTTACTCTCACACACACAG 57.009 39.130 0.00 0.00 0.00 3.66
2416 5096 2.119655 CCATGGGCAAGCAGAGAGC 61.120 63.158 2.85 0.00 46.19 4.09
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
38 39 7.596749 AAAAGGTCATACATTGAGTTCTACG 57.403 36.000 0.00 0.00 34.17 3.51
84 85 2.554806 ATGAATGCGTGCATGTTCAG 57.445 45.000 14.91 0.00 36.68 3.02
301 646 9.547753 CCAGCTATGGTACCAATTATCATATAC 57.452 37.037 20.76 0.59 42.17 1.47
350 695 4.235360 CCCGTAGAATAATCGTGCCTAAG 58.765 47.826 0.00 0.00 0.00 2.18
461 889 1.657556 GCTAAAAACGCCCAGTGCA 59.342 52.632 0.00 0.00 41.33 4.57
521 1035 3.181490 GGCATGACCCGGTTATCTTTTTC 60.181 47.826 0.00 0.00 0.00 2.29
571 1085 2.765969 CCTGGGTCATGCTTGGGT 59.234 61.111 0.00 0.00 0.00 4.51
582 1096 3.168528 AAGCGACACACCCTGGGT 61.169 61.111 14.05 14.05 36.19 4.51
605 1126 3.393106 GGGCTAAACGGGTCGGGA 61.393 66.667 0.00 0.00 0.00 5.14
684 1205 2.656947 TATAGCTGGTCAAATGGGCC 57.343 50.000 0.00 0.00 0.00 5.80
840 2652 6.573725 GGCGTCGATAAATATTAGCTTGTTTG 59.426 38.462 0.00 0.00 0.00 2.93
909 2730 7.392113 TCCAAATGGTTATGTTTATTGACGTCT 59.608 33.333 17.92 0.00 36.34 4.18
1230 3052 6.377996 TCTGCATCCATTAGCAAACAATAAGT 59.622 34.615 0.00 0.00 40.73 2.24
1271 3093 4.227300 TGGCTATCATGACCTTTACAACCT 59.773 41.667 0.00 0.00 0.00 3.50
1278 3100 4.019174 CAGGTTTGGCTATCATGACCTTT 58.981 43.478 0.00 0.00 39.06 3.11
1393 3215 3.678921 ACGCAGTTCTTGTAGCACA 57.321 47.368 0.00 0.00 37.78 4.57
1411 3233 4.222588 AGCATGCCTAAATTGGTAAAGCAA 59.777 37.500 15.66 0.00 32.42 3.91
1416 3238 3.879998 TCGAGCATGCCTAAATTGGTAA 58.120 40.909 15.66 0.00 0.00 2.85
1507 3488 1.544724 TAATCAAGCAAAAGCGGGCT 58.455 45.000 0.00 0.00 43.46 5.19
1591 3639 0.454196 GCGGGCGGTTGATATTGTTT 59.546 50.000 0.00 0.00 0.00 2.83
1626 3674 2.159819 AACTGATCTCGCAGCCACGT 62.160 55.000 0.00 0.00 39.51 4.49
1627 3675 1.016130 AAACTGATCTCGCAGCCACG 61.016 55.000 0.00 0.00 39.51 4.94
1651 4216 0.029567 CTACTGTCGATCTCACGGCC 59.970 60.000 0.00 0.00 37.06 6.13
1666 4232 3.813724 GCGGAAAAAGGTTGTTCTCTACT 59.186 43.478 0.00 0.00 0.00 2.57
1740 4334 2.648059 CTGGGCTTTAGATGTCCAAGG 58.352 52.381 0.00 0.00 0.00 3.61
1813 4407 1.040893 ACCACAGATCGCCATACGGA 61.041 55.000 0.00 0.00 43.89 4.69
1820 4414 2.159338 TCGTAAGTAACCACAGATCGCC 60.159 50.000 0.00 0.00 39.48 5.54
1952 4581 9.433317 CGTACGTTTAGGATTACTCGTAATAAA 57.567 33.333 7.22 0.00 36.02 1.40
1960 4589 3.243535 CCCCCGTACGTTTAGGATTACTC 60.244 52.174 15.21 0.00 0.00 2.59
1961 4590 2.695147 CCCCCGTACGTTTAGGATTACT 59.305 50.000 15.21 0.00 0.00 2.24
1962 4591 2.430694 ACCCCCGTACGTTTAGGATTAC 59.569 50.000 15.21 0.00 0.00 1.89
1963 4592 2.745968 ACCCCCGTACGTTTAGGATTA 58.254 47.619 15.21 0.00 0.00 1.75
1964 4593 1.571955 ACCCCCGTACGTTTAGGATT 58.428 50.000 15.21 0.00 0.00 3.01
1965 4594 1.571955 AACCCCCGTACGTTTAGGAT 58.428 50.000 15.21 0.99 0.00 3.24
1966 4595 1.347062 AAACCCCCGTACGTTTAGGA 58.653 50.000 15.21 0.00 30.56 2.94
1967 4596 2.183478 AAAACCCCCGTACGTTTAGG 57.817 50.000 15.21 11.09 32.05 2.69
1968 4597 2.666022 CGTAAAACCCCCGTACGTTTAG 59.334 50.000 15.21 2.45 36.68 1.85
1969 4598 2.296471 TCGTAAAACCCCCGTACGTTTA 59.704 45.455 15.21 9.01 41.02 2.01
1970 4599 1.069358 TCGTAAAACCCCCGTACGTTT 59.931 47.619 15.21 10.01 41.02 3.60
1971 4600 0.676736 TCGTAAAACCCCCGTACGTT 59.323 50.000 15.21 3.10 41.02 3.99
1972 4601 0.243636 CTCGTAAAACCCCCGTACGT 59.756 55.000 15.21 0.00 41.02 3.57
1973 4602 0.243636 ACTCGTAAAACCCCCGTACG 59.756 55.000 8.69 8.69 41.46 3.67
1974 4603 1.000843 ACACTCGTAAAACCCCCGTAC 59.999 52.381 0.00 0.00 0.00 3.67
1975 4604 1.000731 CACACTCGTAAAACCCCCGTA 59.999 52.381 0.00 0.00 0.00 4.02
1976 4605 0.249996 CACACTCGTAAAACCCCCGT 60.250 55.000 0.00 0.00 0.00 5.28
1977 4606 0.249996 ACACACTCGTAAAACCCCCG 60.250 55.000 0.00 0.00 0.00 5.73
1978 4607 1.971481 AACACACTCGTAAAACCCCC 58.029 50.000 0.00 0.00 0.00 5.40
1979 4608 2.476241 CGTAACACACTCGTAAAACCCC 59.524 50.000 0.00 0.00 0.00 4.95
1980 4609 2.476241 CCGTAACACACTCGTAAAACCC 59.524 50.000 0.00 0.00 0.00 4.11
1981 4610 3.182372 GTCCGTAACACACTCGTAAAACC 59.818 47.826 0.00 0.00 0.00 3.27
1982 4611 3.182372 GGTCCGTAACACACTCGTAAAAC 59.818 47.826 0.00 0.00 0.00 2.43
1983 4612 3.380142 GGTCCGTAACACACTCGTAAAA 58.620 45.455 0.00 0.00 0.00 1.52
1984 4613 2.288152 GGGTCCGTAACACACTCGTAAA 60.288 50.000 0.00 0.00 0.00 2.01
1985 4614 1.269448 GGGTCCGTAACACACTCGTAA 59.731 52.381 0.00 0.00 0.00 3.18
1986 4615 0.881118 GGGTCCGTAACACACTCGTA 59.119 55.000 0.00 0.00 0.00 3.43
1987 4616 1.662044 GGGTCCGTAACACACTCGT 59.338 57.895 0.00 0.00 0.00 4.18
1988 4617 1.080298 GGGGTCCGTAACACACTCG 60.080 63.158 0.00 0.00 30.42 4.18
1989 4618 1.190178 AGGGGGTCCGTAACACACTC 61.190 60.000 0.00 0.00 43.54 3.51
1990 4619 1.152183 AGGGGGTCCGTAACACACT 60.152 57.895 0.00 0.00 41.55 3.55
1991 4620 1.190178 AGAGGGGGTCCGTAACACAC 61.190 60.000 0.00 0.00 33.48 3.82
1992 4621 0.472352 AAGAGGGGGTCCGTAACACA 60.472 55.000 0.00 0.00 38.33 3.72
1993 4622 0.036671 CAAGAGGGGGTCCGTAACAC 60.037 60.000 0.00 0.00 38.33 3.32
1994 4623 1.833787 GCAAGAGGGGGTCCGTAACA 61.834 60.000 0.00 0.00 38.33 2.41
1995 4624 1.078637 GCAAGAGGGGGTCCGTAAC 60.079 63.158 0.00 0.00 38.33 2.50
1996 4625 0.041535 TAGCAAGAGGGGGTCCGTAA 59.958 55.000 0.00 0.00 38.33 3.18
1997 4626 0.041535 TTAGCAAGAGGGGGTCCGTA 59.958 55.000 0.00 0.00 38.33 4.02
1998 4627 0.620700 ATTAGCAAGAGGGGGTCCGT 60.621 55.000 0.00 0.00 38.33 4.69
1999 4628 0.546598 AATTAGCAAGAGGGGGTCCG 59.453 55.000 0.00 0.00 38.33 4.79
2000 4629 1.475213 CGAATTAGCAAGAGGGGGTCC 60.475 57.143 0.00 0.00 0.00 4.46
2001 4630 1.954927 CGAATTAGCAAGAGGGGGTC 58.045 55.000 0.00 0.00 0.00 4.46
2002 4631 0.107165 GCGAATTAGCAAGAGGGGGT 60.107 55.000 5.59 0.00 37.05 4.95
2003 4632 0.181350 AGCGAATTAGCAAGAGGGGG 59.819 55.000 13.26 0.00 40.15 5.40
2004 4633 1.587547 GAGCGAATTAGCAAGAGGGG 58.412 55.000 13.26 0.00 40.15 4.79
2005 4634 1.212616 CGAGCGAATTAGCAAGAGGG 58.787 55.000 13.26 0.00 40.15 4.30
2006 4635 0.579156 GCGAGCGAATTAGCAAGAGG 59.421 55.000 13.26 0.00 40.15 3.69
2007 4636 0.579156 GGCGAGCGAATTAGCAAGAG 59.421 55.000 13.26 2.35 40.15 2.85
2008 4637 0.810031 GGGCGAGCGAATTAGCAAGA 60.810 55.000 13.26 0.00 40.15 3.02
2009 4638 1.643832 GGGCGAGCGAATTAGCAAG 59.356 57.895 13.26 7.06 40.15 4.01
2010 4639 1.817941 GGGGCGAGCGAATTAGCAA 60.818 57.895 13.26 0.00 40.15 3.91
2011 4640 2.203015 GGGGCGAGCGAATTAGCA 60.203 61.111 13.26 0.00 40.15 3.49
2012 4641 1.956678 GAGGGGCGAGCGAATTAGC 60.957 63.158 1.81 1.81 37.41 3.09
2013 4642 1.301009 GGAGGGGCGAGCGAATTAG 60.301 63.158 0.00 0.00 0.00 1.73
2014 4643 1.760875 AGGAGGGGCGAGCGAATTA 60.761 57.895 0.00 0.00 0.00 1.40
2015 4644 3.083997 AGGAGGGGCGAGCGAATT 61.084 61.111 0.00 0.00 0.00 2.17
2016 4645 3.854669 CAGGAGGGGCGAGCGAAT 61.855 66.667 0.00 0.00 0.00 3.34
2018 4647 4.841617 ATCAGGAGGGGCGAGCGA 62.842 66.667 0.00 0.00 0.00 4.93
2019 4648 3.391665 AAATCAGGAGGGGCGAGCG 62.392 63.158 0.00 0.00 0.00 5.03
2020 4649 1.524849 GAAATCAGGAGGGGCGAGC 60.525 63.158 0.00 0.00 0.00 5.03
2021 4650 0.179062 CTGAAATCAGGAGGGGCGAG 60.179 60.000 2.38 0.00 40.20 5.03
2022 4651 1.907739 CTGAAATCAGGAGGGGCGA 59.092 57.895 2.38 0.00 40.20 5.54
2023 4652 4.547859 CTGAAATCAGGAGGGGCG 57.452 61.111 2.38 0.00 40.20 6.13
2031 4660 1.307647 CCCCACCCCCTGAAATCAG 59.692 63.158 3.37 3.37 43.40 2.90
2032 4661 2.245379 CCCCCACCCCCTGAAATCA 61.245 63.158 0.00 0.00 0.00 2.57
2033 4662 2.689813 CCCCCACCCCCTGAAATC 59.310 66.667 0.00 0.00 0.00 2.17
2034 4663 3.683518 GCCCCCACCCCCTGAAAT 61.684 66.667 0.00 0.00 0.00 2.17
2047 4676 4.956932 GATTAGCAGCCGGGCCCC 62.957 72.222 18.66 2.17 0.00 5.80
2048 4677 4.956932 GGATTAGCAGCCGGGCCC 62.957 72.222 17.02 13.57 0.00 5.80
2049 4678 2.052047 TTAGGATTAGCAGCCGGGCC 62.052 60.000 17.02 0.38 0.00 5.80
2050 4679 0.179029 TTTAGGATTAGCAGCCGGGC 60.179 55.000 12.11 12.11 0.00 6.13
2051 4680 1.594331 GTTTAGGATTAGCAGCCGGG 58.406 55.000 2.18 0.00 0.00 5.73
2052 4681 1.134220 TGGTTTAGGATTAGCAGCCGG 60.134 52.381 0.00 0.00 0.00 6.13
2053 4682 2.325583 TGGTTTAGGATTAGCAGCCG 57.674 50.000 0.00 0.00 0.00 5.52
2054 4683 4.207165 TGATTGGTTTAGGATTAGCAGCC 58.793 43.478 0.00 0.00 0.00 4.85
2055 4684 4.884164 ACTGATTGGTTTAGGATTAGCAGC 59.116 41.667 0.00 0.00 0.00 5.25
2056 4685 7.253422 CAAACTGATTGGTTTAGGATTAGCAG 58.747 38.462 0.00 0.00 37.32 4.24
2057 4686 6.350110 GCAAACTGATTGGTTTAGGATTAGCA 60.350 38.462 0.00 0.00 39.54 3.49
2058 4687 6.036470 GCAAACTGATTGGTTTAGGATTAGC 58.964 40.000 0.00 0.00 39.54 3.09
2070 4699 2.821378 TGATGTGGAGCAAACTGATTGG 59.179 45.455 0.00 0.00 39.54 3.16
2071 4700 3.672511 GCTGATGTGGAGCAAACTGATTG 60.673 47.826 0.00 0.00 42.21 2.67
2072 4701 2.490903 GCTGATGTGGAGCAAACTGATT 59.509 45.455 0.00 0.00 36.40 2.57
2073 4702 2.089980 GCTGATGTGGAGCAAACTGAT 58.910 47.619 0.00 0.00 36.40 2.90
2074 4703 1.527034 GCTGATGTGGAGCAAACTGA 58.473 50.000 0.00 0.00 36.40 3.41
2075 4704 0.524862 GGCTGATGTGGAGCAAACTG 59.475 55.000 0.00 0.00 38.27 3.16
2076 4705 0.403271 AGGCTGATGTGGAGCAAACT 59.597 50.000 0.00 0.00 38.27 2.66
2077 4706 0.524862 CAGGCTGATGTGGAGCAAAC 59.475 55.000 9.42 0.00 38.27 2.93
2078 4707 0.111061 ACAGGCTGATGTGGAGCAAA 59.889 50.000 23.66 0.00 38.27 3.68
2079 4708 0.607217 CACAGGCTGATGTGGAGCAA 60.607 55.000 23.66 0.00 45.53 3.91
2080 4709 1.002990 CACAGGCTGATGTGGAGCA 60.003 57.895 23.66 0.00 45.53 4.26
2081 4710 3.900855 CACAGGCTGATGTGGAGC 58.099 61.111 23.66 0.00 45.53 4.70
2086 4715 2.493278 GGTTTATTGCACAGGCTGATGT 59.507 45.455 23.66 0.00 41.91 3.06
2087 4716 2.159198 GGGTTTATTGCACAGGCTGATG 60.159 50.000 23.66 16.20 41.91 3.07
2088 4717 2.102578 GGGTTTATTGCACAGGCTGAT 58.897 47.619 23.66 6.58 41.91 2.90
2089 4718 1.075374 AGGGTTTATTGCACAGGCTGA 59.925 47.619 23.66 0.00 41.91 4.26
2090 4719 1.203052 CAGGGTTTATTGCACAGGCTG 59.797 52.381 14.16 14.16 41.91 4.85
2091 4720 1.203050 ACAGGGTTTATTGCACAGGCT 60.203 47.619 0.00 0.00 41.91 4.58
2092 4721 1.256812 ACAGGGTTTATTGCACAGGC 58.743 50.000 0.00 0.00 41.68 4.85
2093 4722 5.221342 TGTTTTACAGGGTTTATTGCACAGG 60.221 40.000 0.00 0.00 0.00 4.00
2094 4723 5.837437 TGTTTTACAGGGTTTATTGCACAG 58.163 37.500 0.00 0.00 0.00 3.66
2095 4724 5.854010 TGTTTTACAGGGTTTATTGCACA 57.146 34.783 0.00 0.00 0.00 4.57
2096 4725 6.277605 ACTTGTTTTACAGGGTTTATTGCAC 58.722 36.000 0.00 0.00 28.38 4.57
2097 4726 6.322712 AGACTTGTTTTACAGGGTTTATTGCA 59.677 34.615 0.00 0.00 28.38 4.08
2098 4727 6.640907 CAGACTTGTTTTACAGGGTTTATTGC 59.359 38.462 0.00 0.00 28.38 3.56
2099 4728 7.712797 ACAGACTTGTTTTACAGGGTTTATTG 58.287 34.615 0.00 0.00 32.28 1.90
2100 4729 7.891498 ACAGACTTGTTTTACAGGGTTTATT 57.109 32.000 0.00 0.00 32.28 1.40
2101 4730 7.174426 GCTACAGACTTGTTTTACAGGGTTTAT 59.826 37.037 0.00 0.00 38.76 1.40
2102 4731 6.484308 GCTACAGACTTGTTTTACAGGGTTTA 59.516 38.462 0.00 0.00 38.76 2.01
2103 4732 5.298527 GCTACAGACTTGTTTTACAGGGTTT 59.701 40.000 0.00 0.00 38.76 3.27
2104 4733 4.820173 GCTACAGACTTGTTTTACAGGGTT 59.180 41.667 0.00 0.00 38.76 4.11
2105 4734 4.102681 AGCTACAGACTTGTTTTACAGGGT 59.897 41.667 0.00 0.00 38.76 4.34
2106 4735 4.642429 AGCTACAGACTTGTTTTACAGGG 58.358 43.478 0.00 0.00 38.76 4.45
2107 4736 5.542779 AGAGCTACAGACTTGTTTTACAGG 58.457 41.667 0.00 0.00 38.76 4.00
2108 4737 6.309251 GCTAGAGCTACAGACTTGTTTTACAG 59.691 42.308 0.00 0.00 38.76 2.74
2109 4738 6.157211 GCTAGAGCTACAGACTTGTTTTACA 58.843 40.000 0.00 0.00 38.76 2.41
2110 4739 6.157211 TGCTAGAGCTACAGACTTGTTTTAC 58.843 40.000 2.72 0.00 42.66 2.01
2111 4740 6.340962 TGCTAGAGCTACAGACTTGTTTTA 57.659 37.500 2.72 0.00 42.66 1.52
2112 4741 5.215252 TGCTAGAGCTACAGACTTGTTTT 57.785 39.130 2.72 0.00 42.66 2.43
2113 4742 4.873746 TGCTAGAGCTACAGACTTGTTT 57.126 40.909 2.72 0.00 42.66 2.83
2114 4743 5.413309 AATGCTAGAGCTACAGACTTGTT 57.587 39.130 2.72 0.00 42.66 2.83
2115 4744 5.654650 AGTAATGCTAGAGCTACAGACTTGT 59.345 40.000 2.72 0.00 42.66 3.16
2116 4745 6.039270 AGAGTAATGCTAGAGCTACAGACTTG 59.961 42.308 2.72 0.00 42.66 3.16
2117 4746 6.126409 AGAGTAATGCTAGAGCTACAGACTT 58.874 40.000 2.72 0.00 42.66 3.01
2118 4747 5.690865 AGAGTAATGCTAGAGCTACAGACT 58.309 41.667 2.72 0.00 42.66 3.24
2119 4748 6.385649 AAGAGTAATGCTAGAGCTACAGAC 57.614 41.667 2.72 0.00 42.66 3.51
2120 4749 7.411486 AAAAGAGTAATGCTAGAGCTACAGA 57.589 36.000 2.72 0.00 42.66 3.41
2121 4750 9.757227 AATAAAAGAGTAATGCTAGAGCTACAG 57.243 33.333 2.72 0.00 42.66 2.74
2125 4754 9.757227 CAGTAATAAAAGAGTAATGCTAGAGCT 57.243 33.333 2.72 0.00 42.66 4.09
2126 4755 9.535878 ACAGTAATAAAAGAGTAATGCTAGAGC 57.464 33.333 0.00 0.00 42.50 4.09
2130 4759 9.938280 ACACACAGTAATAAAAGAGTAATGCTA 57.062 29.630 0.00 0.00 26.97 3.49
2131 4760 8.848474 ACACACAGTAATAAAAGAGTAATGCT 57.152 30.769 0.00 0.00 26.97 3.79
2132 4761 9.329913 CAACACACAGTAATAAAAGAGTAATGC 57.670 33.333 0.00 0.00 26.97 3.56
2135 4764 9.386010 ACACAACACACAGTAATAAAAGAGTAA 57.614 29.630 0.00 0.00 0.00 2.24
2136 4765 8.951787 ACACAACACACAGTAATAAAAGAGTA 57.048 30.769 0.00 0.00 0.00 2.59
2137 4766 7.859325 ACACAACACACAGTAATAAAAGAGT 57.141 32.000 0.00 0.00 0.00 3.24
2138 4767 8.181573 ACAACACAACACACAGTAATAAAAGAG 58.818 33.333 0.00 0.00 0.00 2.85
2139 4768 8.046294 ACAACACAACACACAGTAATAAAAGA 57.954 30.769 0.00 0.00 0.00 2.52
2140 4769 8.682128 AACAACACAACACACAGTAATAAAAG 57.318 30.769 0.00 0.00 0.00 2.27
2141 4770 9.776158 CTAACAACACAACACACAGTAATAAAA 57.224 29.630 0.00 0.00 0.00 1.52
2142 4771 8.399425 CCTAACAACACAACACACAGTAATAAA 58.601 33.333 0.00 0.00 0.00 1.40
2143 4772 7.467539 GCCTAACAACACAACACACAGTAATAA 60.468 37.037 0.00 0.00 0.00 1.40
2144 4773 6.017770 GCCTAACAACACAACACACAGTAATA 60.018 38.462 0.00 0.00 0.00 0.98
2145 4774 5.220970 GCCTAACAACACAACACACAGTAAT 60.221 40.000 0.00 0.00 0.00 1.89
2146 4775 4.095185 GCCTAACAACACAACACACAGTAA 59.905 41.667 0.00 0.00 0.00 2.24
2147 4776 3.623960 GCCTAACAACACAACACACAGTA 59.376 43.478 0.00 0.00 0.00 2.74
2148 4777 2.422127 GCCTAACAACACAACACACAGT 59.578 45.455 0.00 0.00 0.00 3.55
2149 4778 2.682856 AGCCTAACAACACAACACACAG 59.317 45.455 0.00 0.00 0.00 3.66
2150 4779 2.421775 CAGCCTAACAACACAACACACA 59.578 45.455 0.00 0.00 0.00 3.72
2151 4780 2.422127 ACAGCCTAACAACACAACACAC 59.578 45.455 0.00 0.00 0.00 3.82
2179 4808 0.818040 GACCCGTCTGCTTGGTGTTT 60.818 55.000 0.00 0.00 30.97 2.83
2180 4809 1.227853 GACCCGTCTGCTTGGTGTT 60.228 57.895 0.00 0.00 30.97 3.32
2196 4831 4.151867 GGTCTTGGATGTGTAAAACGAGAC 59.848 45.833 0.00 0.00 0.00 3.36
2215 4850 3.384168 TGTTCAGGGCATAGTATGGTCT 58.616 45.455 12.07 0.00 0.00 3.85
2229 4868 5.882557 AGAGTAAAATGTAGCCATGTTCAGG 59.117 40.000 0.00 0.00 30.92 3.86
2251 4912 3.951680 TCTCAAGTACTGTGTGTGTGAGA 59.048 43.478 14.37 14.37 38.69 3.27
2253 4914 3.068165 CCTCTCAAGTACTGTGTGTGTGA 59.932 47.826 0.00 0.00 0.00 3.58
2304 4984 0.241481 GTCTCACCACTCCGACTCAC 59.759 60.000 0.00 0.00 0.00 3.51


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

AutoCloner maintained by Alex Coulton.