Multiple sequence alignment - TraesCS5A01G157900

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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 TraesCS5A01G157900 chr5A 100.000 4259 0 0 1 4259 338233109 338228851 0.000000e+00 7866.0
1 TraesCS5A01G157900 chr5B 93.547 3394 113 52 254 3588 287794001 287797347 0.000000e+00 4957.0
2 TraesCS5A01G157900 chr5B 93.604 641 26 4 3619 4259 287797350 287797975 0.000000e+00 942.0
3 TraesCS5A01G157900 chr5B 100.000 28 0 0 1 28 666792322 666792295 8.000000e-03 52.8
4 TraesCS5A01G157900 chr5D 94.251 2922 116 22 703 3588 254832856 254829951 0.000000e+00 4418.0
5 TraesCS5A01G157900 chr5D 92.824 641 31 2 3619 4259 254829948 254829323 0.000000e+00 915.0
6 TraesCS5A01G157900 chr5D 85.827 508 43 19 83 576 254833748 254833256 2.940000e-141 512.0
7 TraesCS5A01G157900 chr4D 84.615 104 16 0 1352 1455 119802927 119803030 2.090000e-18 104.0
8 TraesCS5A01G157900 chr4B 84.615 104 16 0 1352 1455 182257950 182258053 2.090000e-18 104.0
9 TraesCS5A01G157900 chr4A 84.615 104 16 0 1352 1455 450762709 450762812 2.090000e-18 104.0


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 TraesCS5A01G157900 chr5A 338228851 338233109 4258 True 7866.000000 7866 100.000000 1 4259 1 chr5A.!!$R1 4258
1 TraesCS5A01G157900 chr5B 287794001 287797975 3974 False 2949.500000 4957 93.575500 254 4259 2 chr5B.!!$F1 4005
2 TraesCS5A01G157900 chr5D 254829323 254833748 4425 True 1948.333333 4418 90.967333 83 4259 3 chr5D.!!$R1 4176

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
694 999 0.039708 GTCTTGCTGCTGCTGTTTCC 60.040 55.0 17.0 0.0 40.48 3.13 F
695 1000 0.179009 TCTTGCTGCTGCTGTTTCCT 60.179 50.0 17.0 0.0 40.48 3.36 F
991 1311 0.674534 GTGCGAATCTATCTCCGGGT 59.325 55.0 0.0 0.0 0.00 5.28 F
1939 2285 0.310854 GCCTTTGGACACCTTTCACG 59.689 55.0 0.0 0.0 0.00 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1706 2029 0.683504 TCGGAGCCTTGTCTACTCCC 60.684 60.000 2.83 0.0 46.03 4.30 R
1800 2145 1.072965 ACCTCAGCAAAGAGTTCCTGG 59.927 52.381 0.00 0.0 33.75 4.45 R
1945 2291 1.547820 GAGGTGATCTGTGAGCACTCA 59.452 52.381 14.21 0.0 46.49 3.41 R
3702 4057 0.607620 CGATTGGGTTTTGCATGGGT 59.392 50.000 0.00 0.0 0.00 4.51 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
18 19 4.335647 CACGGGGAGCAGGCAAGT 62.336 66.667 0.00 0.00 0.00 3.16
19 20 4.021925 ACGGGGAGCAGGCAAGTC 62.022 66.667 0.00 0.00 0.00 3.01
20 21 3.710722 CGGGGAGCAGGCAAGTCT 61.711 66.667 0.00 0.00 0.00 3.24
21 22 2.270527 GGGGAGCAGGCAAGTCTC 59.729 66.667 0.00 0.00 0.00 3.36
22 23 2.125350 GGGAGCAGGCAAGTCTCG 60.125 66.667 0.00 0.00 0.00 4.04
23 24 2.659610 GGAGCAGGCAAGTCTCGT 59.340 61.111 0.00 0.00 0.00 4.18
24 25 1.446966 GGAGCAGGCAAGTCTCGTC 60.447 63.158 0.00 0.00 0.00 4.20
25 26 1.446966 GAGCAGGCAAGTCTCGTCC 60.447 63.158 0.00 0.00 0.00 4.79
26 27 2.159819 GAGCAGGCAAGTCTCGTCCA 62.160 60.000 0.00 0.00 0.00 4.02
27 28 1.739562 GCAGGCAAGTCTCGTCCAG 60.740 63.158 0.00 0.00 0.00 3.86
28 29 1.079543 CAGGCAAGTCTCGTCCAGG 60.080 63.158 0.00 0.00 0.00 4.45
29 30 1.228894 AGGCAAGTCTCGTCCAGGA 60.229 57.895 0.00 0.00 0.00 3.86
30 31 1.216710 GGCAAGTCTCGTCCAGGAG 59.783 63.158 0.00 0.00 35.32 3.69
31 32 1.251527 GGCAAGTCTCGTCCAGGAGA 61.252 60.000 0.00 0.00 40.64 3.71
32 33 0.603569 GCAAGTCTCGTCCAGGAGAA 59.396 55.000 0.59 0.00 44.19 2.87
33 34 1.205893 GCAAGTCTCGTCCAGGAGAAT 59.794 52.381 0.59 0.00 44.19 2.40
34 35 2.886081 CAAGTCTCGTCCAGGAGAATG 58.114 52.381 0.59 0.97 44.19 2.67
35 36 0.820871 AGTCTCGTCCAGGAGAATGC 59.179 55.000 0.59 0.00 44.19 3.56
36 37 0.532573 GTCTCGTCCAGGAGAATGCA 59.467 55.000 0.59 0.00 44.19 3.96
37 38 0.532573 TCTCGTCCAGGAGAATGCAC 59.467 55.000 0.00 0.00 39.99 4.57
38 39 0.460987 CTCGTCCAGGAGAATGCACC 60.461 60.000 0.00 0.00 36.08 5.01
39 40 1.191489 TCGTCCAGGAGAATGCACCA 61.191 55.000 0.00 0.00 0.00 4.17
40 41 0.321564 CGTCCAGGAGAATGCACCAA 60.322 55.000 0.00 0.00 0.00 3.67
41 42 1.168714 GTCCAGGAGAATGCACCAAC 58.831 55.000 0.00 0.00 0.00 3.77
42 43 1.067295 TCCAGGAGAATGCACCAACT 58.933 50.000 0.00 0.00 0.00 3.16
43 44 1.003580 TCCAGGAGAATGCACCAACTC 59.996 52.381 0.00 0.00 0.00 3.01
44 45 1.457346 CAGGAGAATGCACCAACTCC 58.543 55.000 17.12 17.12 46.28 3.85
45 46 0.329596 AGGAGAATGCACCAACTCCC 59.670 55.000 19.60 4.17 46.88 4.30
46 47 0.681243 GGAGAATGCACCAACTCCCC 60.681 60.000 15.12 0.00 41.89 4.81
47 48 0.329596 GAGAATGCACCAACTCCCCT 59.670 55.000 0.00 0.00 0.00 4.79
48 49 0.779997 AGAATGCACCAACTCCCCTT 59.220 50.000 0.00 0.00 0.00 3.95
49 50 1.147817 AGAATGCACCAACTCCCCTTT 59.852 47.619 0.00 0.00 0.00 3.11
50 51 2.378547 AGAATGCACCAACTCCCCTTTA 59.621 45.455 0.00 0.00 0.00 1.85
51 52 2.990740 ATGCACCAACTCCCCTTTAA 57.009 45.000 0.00 0.00 0.00 1.52
52 53 2.990740 TGCACCAACTCCCCTTTAAT 57.009 45.000 0.00 0.00 0.00 1.40
53 54 4.601406 ATGCACCAACTCCCCTTTAATA 57.399 40.909 0.00 0.00 0.00 0.98
54 55 3.963129 TGCACCAACTCCCCTTTAATAG 58.037 45.455 0.00 0.00 0.00 1.73
55 56 3.332485 TGCACCAACTCCCCTTTAATAGT 59.668 43.478 0.00 0.00 0.00 2.12
56 57 4.536888 TGCACCAACTCCCCTTTAATAGTA 59.463 41.667 0.00 0.00 0.00 1.82
57 58 5.123936 GCACCAACTCCCCTTTAATAGTAG 58.876 45.833 0.00 0.00 0.00 2.57
58 59 5.681639 CACCAACTCCCCTTTAATAGTAGG 58.318 45.833 0.00 0.00 0.00 3.18
59 60 4.165565 ACCAACTCCCCTTTAATAGTAGGC 59.834 45.833 0.00 0.00 0.00 3.93
60 61 4.165372 CCAACTCCCCTTTAATAGTAGGCA 59.835 45.833 0.00 0.00 0.00 4.75
61 62 5.163088 CCAACTCCCCTTTAATAGTAGGCAT 60.163 44.000 0.00 0.00 0.00 4.40
62 63 5.568620 ACTCCCCTTTAATAGTAGGCATG 57.431 43.478 0.00 0.00 0.00 4.06
63 64 4.975794 ACTCCCCTTTAATAGTAGGCATGT 59.024 41.667 0.00 0.00 0.00 3.21
64 65 6.148186 ACTCCCCTTTAATAGTAGGCATGTA 58.852 40.000 0.00 0.00 0.00 2.29
65 66 6.792977 ACTCCCCTTTAATAGTAGGCATGTAT 59.207 38.462 0.00 0.00 0.00 2.29
66 67 7.038231 ACTCCCCTTTAATAGTAGGCATGTATC 60.038 40.741 0.00 0.00 0.00 2.24
67 68 6.214819 TCCCCTTTAATAGTAGGCATGTATCC 59.785 42.308 0.00 0.00 0.00 2.59
68 69 6.012858 CCCCTTTAATAGTAGGCATGTATCCA 60.013 42.308 0.00 0.00 0.00 3.41
69 70 7.458397 CCCTTTAATAGTAGGCATGTATCCAA 58.542 38.462 0.00 0.00 0.00 3.53
70 71 7.942341 CCCTTTAATAGTAGGCATGTATCCAAA 59.058 37.037 0.00 0.00 0.00 3.28
71 72 9.520515 CCTTTAATAGTAGGCATGTATCCAAAT 57.479 33.333 0.00 0.00 0.00 2.32
76 77 9.896645 AATAGTAGGCATGTATCCAAATATCTG 57.103 33.333 0.00 0.00 0.00 2.90
77 78 6.715280 AGTAGGCATGTATCCAAATATCTGG 58.285 40.000 0.00 0.00 37.87 3.86
78 79 4.927049 AGGCATGTATCCAAATATCTGGG 58.073 43.478 0.00 0.00 37.06 4.45
79 80 4.354987 AGGCATGTATCCAAATATCTGGGT 59.645 41.667 0.00 0.00 37.06 4.51
80 81 4.702131 GGCATGTATCCAAATATCTGGGTC 59.298 45.833 0.00 0.00 37.06 4.46
81 82 5.515534 GGCATGTATCCAAATATCTGGGTCT 60.516 44.000 0.00 0.00 37.06 3.85
82 83 6.006449 GCATGTATCCAAATATCTGGGTCTT 58.994 40.000 0.00 0.00 37.06 3.01
83 84 6.491403 GCATGTATCCAAATATCTGGGTCTTT 59.509 38.462 0.00 0.00 37.06 2.52
84 85 7.014615 GCATGTATCCAAATATCTGGGTCTTTT 59.985 37.037 0.00 0.00 37.06 2.27
85 86 8.917088 CATGTATCCAAATATCTGGGTCTTTTT 58.083 33.333 0.00 0.00 37.06 1.94
130 131 4.344104 ACACCCTGGTTATGGATTTCAAG 58.656 43.478 0.00 0.00 0.00 3.02
131 132 3.701040 CACCCTGGTTATGGATTTCAAGG 59.299 47.826 0.00 0.00 0.00 3.61
148 149 5.043737 TCAAGGTAAGCACTTAACCTTGT 57.956 39.130 27.96 11.10 44.07 3.16
163 164 2.224548 ACCTTGTGGTTTACAGAGGCTC 60.225 50.000 6.34 6.34 46.05 4.70
170 171 3.219281 GGTTTACAGAGGCTCCAACAAA 58.781 45.455 11.71 4.11 0.00 2.83
179 180 1.609072 GGCTCCAACAAACTTCCTGAC 59.391 52.381 0.00 0.00 0.00 3.51
221 222 5.739161 CACAGCTGAAAAACTTGACAAGTAC 59.261 40.000 23.35 12.79 41.91 2.73
223 224 5.967674 CAGCTGAAAAACTTGACAAGTACAG 59.032 40.000 20.85 23.05 41.91 2.74
224 225 5.648092 AGCTGAAAAACTTGACAAGTACAGT 59.352 36.000 26.33 18.25 41.91 3.55
225 226 6.821665 AGCTGAAAAACTTGACAAGTACAGTA 59.178 34.615 26.33 14.78 41.91 2.74
226 227 7.335924 AGCTGAAAAACTTGACAAGTACAGTAA 59.664 33.333 26.33 13.37 41.91 2.24
228 229 9.834628 CTGAAAAACTTGACAAGTACAGTAAAA 57.165 29.630 20.85 2.73 41.91 1.52
229 230 9.834628 TGAAAAACTTGACAAGTACAGTAAAAG 57.165 29.630 20.85 4.16 41.91 2.27
230 231 8.683550 AAAAACTTGACAAGTACAGTAAAAGC 57.316 30.769 20.85 0.00 41.91 3.51
234 235 8.904099 ACTTGACAAGTACAGTAAAAGCTAAT 57.096 30.769 19.28 0.00 40.69 1.73
278 279 2.771943 CCCCTCACCTGTCAAGCTTATA 59.228 50.000 0.00 0.00 0.00 0.98
279 280 3.392616 CCCCTCACCTGTCAAGCTTATAT 59.607 47.826 0.00 0.00 0.00 0.86
289 290 3.995199 TCAAGCTTATATCTTGAGCCGG 58.005 45.455 0.00 0.00 43.34 6.13
301 311 4.316823 AGCCGGACCACAGGAGGA 62.317 66.667 5.05 0.00 33.26 3.71
303 313 2.982130 CCGGACCACAGGAGGAAG 59.018 66.667 0.00 0.00 33.26 3.46
308 318 1.272147 GGACCACAGGAGGAAGCAAAT 60.272 52.381 0.00 0.00 0.00 2.32
318 328 5.006386 AGGAGGAAGCAAATTACAGTTCAG 58.994 41.667 0.00 0.00 0.00 3.02
329 339 8.981647 GCAAATTACAGTTCAGTTCAATTCAAT 58.018 29.630 0.00 0.00 0.00 2.57
350 360 6.430925 TCAATTCAATCAATCAAAGAGGTCGT 59.569 34.615 0.00 0.00 0.00 4.34
352 362 5.862924 TCAATCAATCAAAGAGGTCGTTC 57.137 39.130 0.00 0.00 0.00 3.95
373 383 1.254026 CGAATCTAGTATGCCCGGGA 58.746 55.000 29.31 10.35 0.00 5.14
377 387 0.178970 TCTAGTATGCCCGGGACTCC 60.179 60.000 29.31 6.82 0.00 3.85
409 424 8.030106 CCTATTCCTAATTAGTACTGTAGCAGC 58.970 40.741 11.50 0.00 34.37 5.25
410 425 7.604657 ATTCCTAATTAGTACTGTAGCAGCT 57.395 36.000 11.50 0.00 34.37 4.24
411 426 8.707796 ATTCCTAATTAGTACTGTAGCAGCTA 57.292 34.615 11.50 0.00 34.37 3.32
412 427 7.747155 TCCTAATTAGTACTGTAGCAGCTAG 57.253 40.000 11.50 0.00 34.37 3.42
413 428 6.715718 TCCTAATTAGTACTGTAGCAGCTAGG 59.284 42.308 11.50 1.53 34.37 3.02
414 429 6.715718 CCTAATTAGTACTGTAGCAGCTAGGA 59.284 42.308 11.50 0.00 34.37 2.94
424 441 7.463431 ACTGTAGCAGCTAGGAGTAGTATATT 58.537 38.462 1.02 0.00 34.37 1.28
431 448 9.984190 GCAGCTAGGAGTAGTATATTAAGTTTT 57.016 33.333 0.00 0.00 0.00 2.43
434 451 9.708092 GCTAGGAGTAGTATATTAAGTTTTGGG 57.292 37.037 0.00 0.00 0.00 4.12
437 454 7.128263 AGGAGTAGTATATTAAGTTTTGGGGCA 59.872 37.037 0.00 0.00 0.00 5.36
443 460 0.109723 TAAGTTTTGGGGCAGCGAGT 59.890 50.000 0.00 0.00 0.00 4.18
456 480 2.483876 CAGCGAGTAGAGAGAGAGAGG 58.516 57.143 0.00 0.00 0.00 3.69
537 561 1.524848 CTCTGCATCCATCCATCAGC 58.475 55.000 0.00 0.00 0.00 4.26
604 628 0.548510 AAAGGAGGAGGTAGCATGCC 59.451 55.000 15.66 0.00 43.53 4.40
650 674 0.387565 GACTTCATCCTCCTCCTCGC 59.612 60.000 0.00 0.00 0.00 5.03
660 684 2.046864 CCTCCTCGCTGGTTCTCGA 61.047 63.158 0.00 0.00 37.07 4.04
665 689 2.202676 CGCTGGTTCTCGAGGAGC 60.203 66.667 16.23 16.23 0.00 4.70
694 999 0.039708 GTCTTGCTGCTGCTGTTTCC 60.040 55.000 17.00 0.00 40.48 3.13
695 1000 0.179009 TCTTGCTGCTGCTGTTTCCT 60.179 50.000 17.00 0.00 40.48 3.36
696 1001 1.072173 TCTTGCTGCTGCTGTTTCCTA 59.928 47.619 17.00 0.00 40.48 2.94
697 1002 1.198637 CTTGCTGCTGCTGTTTCCTAC 59.801 52.381 17.00 0.00 40.48 3.18
698 1003 0.950555 TGCTGCTGCTGTTTCCTACG 60.951 55.000 17.00 0.00 40.48 3.51
699 1004 0.951040 GCTGCTGCTGTTTCCTACGT 60.951 55.000 8.53 0.00 36.03 3.57
700 1005 1.671850 GCTGCTGCTGTTTCCTACGTA 60.672 52.381 8.53 0.00 36.03 3.57
701 1006 2.893637 CTGCTGCTGTTTCCTACGTAT 58.106 47.619 0.00 0.00 0.00 3.06
705 1010 3.682858 GCTGCTGTTTCCTACGTATTTGA 59.317 43.478 0.00 0.00 0.00 2.69
762 1069 4.557705 CTGGAGAAGTTATCCCTTCCCTA 58.442 47.826 13.92 0.00 41.45 3.53
804 1111 5.109662 AGAAGATGACACGATACATACGG 57.890 43.478 0.00 0.00 34.93 4.02
893 1210 5.163612 GGCTTCTTCTTCTTCTCTCTCTCTC 60.164 48.000 0.00 0.00 0.00 3.20
939 1256 2.365635 CCTCCCCCACGACTCCAT 60.366 66.667 0.00 0.00 0.00 3.41
987 1307 2.815722 GCCGTGCGAATCTATCTCC 58.184 57.895 0.00 0.00 0.00 3.71
988 1308 1.004277 GCCGTGCGAATCTATCTCCG 61.004 60.000 0.00 0.00 0.00 4.63
991 1311 0.674534 GTGCGAATCTATCTCCGGGT 59.325 55.000 0.00 0.00 0.00 5.28
1570 1891 3.620929 TCGACAGTAGGATAACATCGC 57.379 47.619 0.00 0.00 33.03 4.58
1579 1900 4.090761 AGGATAACATCGCAATCCACAT 57.909 40.909 3.61 0.00 41.44 3.21
1611 1932 6.322712 CCTGAAGAAGTAGTAGACAAGGCTAT 59.677 42.308 0.00 0.00 0.00 2.97
1635 1956 6.534059 TCAATTATTCAGCTCTTTTTCGACG 58.466 36.000 0.00 0.00 0.00 5.12
1698 2021 1.551430 CTGTCCAACCATACCACCGTA 59.449 52.381 0.00 0.00 0.00 4.02
1699 2022 1.976404 TGTCCAACCATACCACCGTAA 59.024 47.619 0.00 0.00 0.00 3.18
1700 2023 2.371179 TGTCCAACCATACCACCGTAAA 59.629 45.455 0.00 0.00 0.00 2.01
1706 2029 3.013921 ACCATACCACCGTAAAGCATTG 58.986 45.455 0.00 0.00 0.00 2.82
1707 2030 2.357637 CCATACCACCGTAAAGCATTGG 59.642 50.000 0.00 0.00 0.00 3.16
1760 2083 0.681243 GCCTTTAGAGCAACCAGGGG 60.681 60.000 0.00 0.00 0.00 4.79
1773 2118 4.518249 CAACCAGGGGATTCTCTTAAGTC 58.482 47.826 1.63 0.00 0.00 3.01
1800 2145 6.738114 TCTATAACATGCTGCTTAATTTGCC 58.262 36.000 0.00 0.00 0.00 4.52
1834 2179 0.614697 TGAGGTGGGCGATCTCAAGA 60.615 55.000 10.25 0.00 34.97 3.02
1863 2208 4.768448 TCCATTAACTACGACAAGAGTGGA 59.232 41.667 0.00 0.00 0.00 4.02
1875 2220 5.566826 CGACAAGAGTGGAAGATCAAAGGTA 60.567 44.000 0.00 0.00 0.00 3.08
1878 2223 7.234355 ACAAGAGTGGAAGATCAAAGGTATTT 58.766 34.615 0.00 0.00 0.00 1.40
1879 2224 8.383175 ACAAGAGTGGAAGATCAAAGGTATTTA 58.617 33.333 0.00 0.00 0.00 1.40
1880 2225 8.669243 CAAGAGTGGAAGATCAAAGGTATTTAC 58.331 37.037 0.00 0.00 0.00 2.01
1881 2226 8.152023 AGAGTGGAAGATCAAAGGTATTTACT 57.848 34.615 0.00 0.00 0.00 2.24
1882 2227 9.268282 AGAGTGGAAGATCAAAGGTATTTACTA 57.732 33.333 0.00 0.00 0.00 1.82
1891 2236 9.794719 GATCAAAGGTATTTACTATTTAGCCCT 57.205 33.333 0.00 0.00 0.00 5.19
1907 2252 2.084546 GCCCTTACGCATCTCAACTTT 58.915 47.619 0.00 0.00 0.00 2.66
1939 2285 0.310854 GCCTTTGGACACCTTTCACG 59.689 55.000 0.00 0.00 0.00 4.35
1945 2291 3.547054 TGGACACCTTTCACGTAGTTT 57.453 42.857 0.00 0.00 41.61 2.66
2021 2367 8.686334 GCAGAGGTTATATTTTCAAGGAAATCA 58.314 33.333 0.00 0.00 31.34 2.57
2234 2583 9.555727 TCTTACTGCTAAAATTGTTACTTGTCT 57.444 29.630 0.00 0.00 0.00 3.41
2464 2813 0.601558 AAGTGCAAGCAAGGCATGAG 59.398 50.000 0.00 0.00 44.11 2.90
2659 3008 0.334676 TGGTCCTTATTGCCTTGGGG 59.665 55.000 0.00 0.00 0.00 4.96
2680 3029 1.399727 GCTTAAAATGAGTGCGTGCGT 60.400 47.619 0.00 0.00 0.00 5.24
2801 3150 2.357836 CCCATGGCAGCAAGGACT 59.642 61.111 6.09 0.00 0.00 3.85
2802 3151 1.304713 CCCATGGCAGCAAGGACTT 60.305 57.895 6.09 0.00 0.00 3.01
2803 3152 0.901580 CCCATGGCAGCAAGGACTTT 60.902 55.000 6.09 0.00 0.00 2.66
2990 3341 2.049959 CATTTTCAATCGTGTTGCGCA 58.950 42.857 5.66 5.66 41.07 6.09
3266 3617 1.133790 GCAGACCAGCTAAATGGCTTG 59.866 52.381 0.00 0.00 44.80 4.01
3333 3684 3.181476 GGAAAAGATGCGGCCATGTATTT 60.181 43.478 2.24 0.00 0.00 1.40
3334 3685 4.432712 GAAAAGATGCGGCCATGTATTTT 58.567 39.130 2.24 4.03 0.00 1.82
3335 3686 5.451242 GGAAAAGATGCGGCCATGTATTTTA 60.451 40.000 2.24 0.00 0.00 1.52
3416 3768 2.076863 GTGCGTTCCATTGTAGCTCTT 58.923 47.619 0.00 0.00 0.00 2.85
3417 3769 2.484264 GTGCGTTCCATTGTAGCTCTTT 59.516 45.455 0.00 0.00 0.00 2.52
3521 3873 7.761704 ACATTTGCTGTCTGTTGATAGTAGTAG 59.238 37.037 0.00 0.00 34.46 2.57
3532 3884 9.862371 CTGTTGATAGTAGTAGATGAGTGTTTT 57.138 33.333 0.00 0.00 0.00 2.43
3540 3892 8.979574 AGTAGTAGATGAGTGTTTTTCTTTTCG 58.020 33.333 0.00 0.00 0.00 3.46
3579 3934 8.706936 GTGCATTGATAGTAAGATGTACATGAG 58.293 37.037 14.43 0.00 35.87 2.90
3588 3943 8.698973 AGTAAGATGTACATGAGCATAGTACT 57.301 34.615 14.43 0.00 39.02 2.73
3589 3944 9.137459 AGTAAGATGTACATGAGCATAGTACTT 57.863 33.333 14.43 8.50 39.02 2.24
3590 3945 9.751542 GTAAGATGTACATGAGCATAGTACTTT 57.248 33.333 14.43 0.00 39.02 2.66
3592 3947 9.672673 AAGATGTACATGAGCATAGTACTTTTT 57.327 29.630 14.43 12.00 39.02 1.94
3613 3968 4.891627 TTTTTGTGTTGAGAATCGAGCA 57.108 36.364 0.00 0.00 38.61 4.26
3614 3969 5.437289 TTTTTGTGTTGAGAATCGAGCAT 57.563 34.783 0.00 0.00 38.61 3.79
3615 3970 6.552859 TTTTTGTGTTGAGAATCGAGCATA 57.447 33.333 0.00 0.00 38.61 3.14
3616 3971 5.784750 TTTGTGTTGAGAATCGAGCATAG 57.215 39.130 0.00 0.00 38.61 2.23
3617 3972 4.456280 TGTGTTGAGAATCGAGCATAGT 57.544 40.909 0.00 0.00 38.61 2.12
3622 3977 6.477033 GTGTTGAGAATCGAGCATAGTACAAT 59.523 38.462 0.00 0.00 38.61 2.71
3651 4006 1.115467 ATCAGCGACTAGGTTGGAGG 58.885 55.000 0.00 0.00 0.00 4.30
3702 4057 2.169978 CTGTGCCTCCTTCATCATCTCA 59.830 50.000 0.00 0.00 0.00 3.27
3761 4116 2.614987 CCAACTGCTCTTCTTCCTCCTG 60.615 54.545 0.00 0.00 0.00 3.86
3765 4120 0.612744 GCTCTTCTTCCTCCTGCTGT 59.387 55.000 0.00 0.00 0.00 4.40
3789 4144 1.757306 CTGTGACAGTGCCTCCCTT 59.243 57.895 4.01 0.00 0.00 3.95
3808 4163 2.190578 CATGGCCGAGGAAGGACC 59.809 66.667 0.00 0.00 39.00 4.46
3822 4177 2.363975 GGACCTGACCACCGCCATA 61.364 63.158 0.00 0.00 0.00 2.74
3825 4180 0.691078 ACCTGACCACCGCCATATCT 60.691 55.000 0.00 0.00 0.00 1.98
3863 4218 2.126031 GGCCTCAAGGTCGACGTC 60.126 66.667 11.73 5.18 37.57 4.34
3864 4219 2.126031 GCCTCAAGGTCGACGTCC 60.126 66.667 11.73 2.65 37.57 4.79
3891 4249 2.285969 AGCAGTGCCTCCAGGGAT 60.286 61.111 12.58 0.00 38.01 3.85
3924 4282 1.016130 CGTGGAAGCGCTTCATGTCT 61.016 55.000 41.60 14.05 41.20 3.41
3963 4321 2.180769 CCGGCGTTGTCGATGAGA 59.819 61.111 6.01 0.00 39.71 3.27
3965 4323 1.683790 CCGGCGTTGTCGATGAGAAC 61.684 60.000 6.01 0.00 39.71 3.01
4071 4429 1.576421 CGCCAGCCACAGAAAGTTC 59.424 57.895 0.00 0.00 0.00 3.01
4148 4506 2.255554 CTTGTGCTGCTGCTGCTG 59.744 61.111 27.67 16.73 40.48 4.41
4181 4539 4.640855 CGCTGACGACGTGGGTGT 62.641 66.667 4.58 0.00 43.93 4.16
4182 4540 3.036084 GCTGACGACGTGGGTGTG 61.036 66.667 4.58 0.00 0.00 3.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 4.335647 ACTTGCCTGCTCCCCGTG 62.336 66.667 0.00 0.00 0.00 4.94
2 3 4.021925 GACTTGCCTGCTCCCCGT 62.022 66.667 0.00 0.00 0.00 5.28
3 4 3.672295 GAGACTTGCCTGCTCCCCG 62.672 68.421 0.00 0.00 0.00 5.73
4 5 2.270527 GAGACTTGCCTGCTCCCC 59.729 66.667 0.00 0.00 0.00 4.81
5 6 2.125350 CGAGACTTGCCTGCTCCC 60.125 66.667 0.00 0.00 0.00 4.30
6 7 1.446966 GACGAGACTTGCCTGCTCC 60.447 63.158 0.00 0.00 0.00 4.70
7 8 1.446966 GGACGAGACTTGCCTGCTC 60.447 63.158 0.00 0.00 0.00 4.26
8 9 2.164865 CTGGACGAGACTTGCCTGCT 62.165 60.000 0.00 0.00 0.00 4.24
9 10 1.739562 CTGGACGAGACTTGCCTGC 60.740 63.158 0.00 0.00 0.00 4.85
10 11 1.079543 CCTGGACGAGACTTGCCTG 60.080 63.158 0.00 4.68 0.00 4.85
11 12 1.228894 TCCTGGACGAGACTTGCCT 60.229 57.895 0.00 0.00 0.00 4.75
12 13 1.216710 CTCCTGGACGAGACTTGCC 59.783 63.158 0.00 0.00 30.97 4.52
13 14 0.603569 TTCTCCTGGACGAGACTTGC 59.396 55.000 0.00 0.00 38.62 4.01
14 15 2.886081 CATTCTCCTGGACGAGACTTG 58.114 52.381 0.00 0.00 38.62 3.16
15 16 1.205893 GCATTCTCCTGGACGAGACTT 59.794 52.381 0.00 0.00 38.62 3.01
16 17 0.820871 GCATTCTCCTGGACGAGACT 59.179 55.000 0.00 0.00 38.62 3.24
17 18 0.532573 TGCATTCTCCTGGACGAGAC 59.467 55.000 0.00 0.00 38.62 3.36
18 19 0.532573 GTGCATTCTCCTGGACGAGA 59.467 55.000 0.00 0.00 37.11 4.04
19 20 0.460987 GGTGCATTCTCCTGGACGAG 60.461 60.000 0.00 0.00 38.26 4.18
20 21 1.191489 TGGTGCATTCTCCTGGACGA 61.191 55.000 0.00 0.00 38.26 4.20
21 22 0.321564 TTGGTGCATTCTCCTGGACG 60.322 55.000 0.00 0.00 38.26 4.79
22 23 1.168714 GTTGGTGCATTCTCCTGGAC 58.831 55.000 0.00 0.00 36.81 4.02
23 24 1.003580 GAGTTGGTGCATTCTCCTGGA 59.996 52.381 0.00 0.00 0.00 3.86
24 25 1.457346 GAGTTGGTGCATTCTCCTGG 58.543 55.000 0.00 0.00 0.00 4.45
25 26 1.457346 GGAGTTGGTGCATTCTCCTG 58.543 55.000 16.58 0.00 42.02 3.86
26 27 0.329596 GGGAGTTGGTGCATTCTCCT 59.670 55.000 20.38 3.39 43.97 3.69
27 28 0.681243 GGGGAGTTGGTGCATTCTCC 60.681 60.000 15.96 15.96 43.84 3.71
28 29 0.329596 AGGGGAGTTGGTGCATTCTC 59.670 55.000 0.00 0.00 0.00 2.87
29 30 0.779997 AAGGGGAGTTGGTGCATTCT 59.220 50.000 0.00 0.00 0.00 2.40
30 31 1.632589 AAAGGGGAGTTGGTGCATTC 58.367 50.000 0.00 0.00 0.00 2.67
31 32 2.990740 TAAAGGGGAGTTGGTGCATT 57.009 45.000 0.00 0.00 0.00 3.56
32 33 2.990740 TTAAAGGGGAGTTGGTGCAT 57.009 45.000 0.00 0.00 0.00 3.96
33 34 2.990740 ATTAAAGGGGAGTTGGTGCA 57.009 45.000 0.00 0.00 0.00 4.57
34 35 3.964411 ACTATTAAAGGGGAGTTGGTGC 58.036 45.455 0.00 0.00 0.00 5.01
35 36 5.681639 CCTACTATTAAAGGGGAGTTGGTG 58.318 45.833 0.00 0.00 32.31 4.17
36 37 4.165565 GCCTACTATTAAAGGGGAGTTGGT 59.834 45.833 0.00 0.00 37.21 3.67
37 38 4.165372 TGCCTACTATTAAAGGGGAGTTGG 59.835 45.833 0.00 0.00 37.72 3.77
38 39 5.367945 TGCCTACTATTAAAGGGGAGTTG 57.632 43.478 0.00 0.00 33.17 3.16
39 40 5.432060 ACATGCCTACTATTAAAGGGGAGTT 59.568 40.000 0.00 0.00 33.17 3.01
40 41 4.975794 ACATGCCTACTATTAAAGGGGAGT 59.024 41.667 0.00 0.00 33.17 3.85
41 42 5.568620 ACATGCCTACTATTAAAGGGGAG 57.431 43.478 0.00 0.00 33.17 4.30
42 43 6.214819 GGATACATGCCTACTATTAAAGGGGA 59.785 42.308 0.00 0.00 33.17 4.81
43 44 6.012858 TGGATACATGCCTACTATTAAAGGGG 60.013 42.308 0.00 0.00 46.17 4.79
44 45 7.016153 TGGATACATGCCTACTATTAAAGGG 57.984 40.000 0.00 0.00 46.17 3.95
148 149 1.771854 TGTTGGAGCCTCTGTAAACCA 59.228 47.619 0.00 0.00 0.00 3.67
156 157 1.777272 AGGAAGTTTGTTGGAGCCTCT 59.223 47.619 0.00 0.00 0.00 3.69
157 158 1.882623 CAGGAAGTTTGTTGGAGCCTC 59.117 52.381 0.00 0.00 0.00 4.70
163 164 1.328279 GGGGTCAGGAAGTTTGTTGG 58.672 55.000 0.00 0.00 0.00 3.77
194 195 3.944650 TGTCAAGTTTTTCAGCTGTGCTA 59.055 39.130 14.67 0.00 36.40 3.49
234 235 9.952030 GGGGAAAATTGAAATAATTCTACCAAA 57.048 29.630 0.00 0.00 36.48 3.28
251 252 3.500343 CTTGACAGGTGAGGGGAAAATT 58.500 45.455 0.00 0.00 0.00 1.82
278 279 1.599047 CTGTGGTCCGGCTCAAGAT 59.401 57.895 0.00 0.00 0.00 2.40
279 280 2.583441 CCTGTGGTCCGGCTCAAGA 61.583 63.158 0.00 0.00 0.00 3.02
289 290 2.206576 ATTTGCTTCCTCCTGTGGTC 57.793 50.000 0.00 0.00 0.00 4.02
301 311 8.196771 TGAATTGAACTGAACTGTAATTTGCTT 58.803 29.630 0.00 0.00 0.00 3.91
303 313 7.928908 TGAATTGAACTGAACTGTAATTTGC 57.071 32.000 0.00 0.00 0.00 3.68
329 339 5.107104 CGAACGACCTCTTTGATTGATTGAA 60.107 40.000 0.00 0.00 0.00 2.69
350 360 1.335597 CGGGCATACTAGATTCGCGAA 60.336 52.381 25.66 25.66 35.55 4.70
352 362 0.732880 CCGGGCATACTAGATTCGCG 60.733 60.000 0.00 0.00 0.00 5.87
373 383 3.409804 TTAGGAATAGGGTTCCGGAGT 57.590 47.619 3.34 0.00 43.23 3.85
377 387 7.015001 ACAGTACTAATTAGGAATAGGGTTCCG 59.985 40.741 16.73 0.00 43.23 4.30
410 425 8.654094 GCCCCAAAACTTAATATACTACTCCTA 58.346 37.037 0.00 0.00 0.00 2.94
411 426 7.128263 TGCCCCAAAACTTAATATACTACTCCT 59.872 37.037 0.00 0.00 0.00 3.69
412 427 7.284820 TGCCCCAAAACTTAATATACTACTCC 58.715 38.462 0.00 0.00 0.00 3.85
413 428 7.041303 GCTGCCCCAAAACTTAATATACTACTC 60.041 40.741 0.00 0.00 0.00 2.59
414 429 6.771267 GCTGCCCCAAAACTTAATATACTACT 59.229 38.462 0.00 0.00 0.00 2.57
424 441 0.109723 ACTCGCTGCCCCAAAACTTA 59.890 50.000 0.00 0.00 0.00 2.24
431 448 1.754621 CTCTCTACTCGCTGCCCCA 60.755 63.158 0.00 0.00 0.00 4.96
434 451 0.944386 CTCTCTCTCTACTCGCTGCC 59.056 60.000 0.00 0.00 0.00 4.85
435 452 1.867233 CTCTCTCTCTCTACTCGCTGC 59.133 57.143 0.00 0.00 0.00 5.25
437 454 2.116238 ACCTCTCTCTCTCTACTCGCT 58.884 52.381 0.00 0.00 0.00 4.93
443 460 4.283978 CCCGTATGTACCTCTCTCTCTCTA 59.716 50.000 0.00 0.00 0.00 2.43
456 480 0.320697 GGCAGGATCCCCGTATGTAC 59.679 60.000 8.55 0.00 37.58 2.90
537 561 1.511887 CGTTCGGGCGCTGAATTTG 60.512 57.895 16.42 8.08 31.07 2.32
604 628 2.846827 AGAAGGAATTCACCCTGGGTAG 59.153 50.000 20.09 13.16 32.11 3.18
633 657 0.388659 CAGCGAGGAGGAGGATGAAG 59.611 60.000 0.00 0.00 0.00 3.02
648 672 2.202676 GCTCCTCGAGAACCAGCG 60.203 66.667 15.71 0.00 0.00 5.18
650 674 1.388065 ATCGGCTCCTCGAGAACCAG 61.388 60.000 15.71 5.18 42.69 4.00
665 689 1.798735 CAGCAAGACCAGCAATCGG 59.201 57.895 0.00 0.00 0.00 4.18
677 982 1.198637 GTAGGAAACAGCAGCAGCAAG 59.801 52.381 3.17 0.00 45.49 4.01
694 999 4.443063 TCCGCGATTCAATCAAATACGTAG 59.557 41.667 8.23 0.00 0.00 3.51
695 1000 4.361420 TCCGCGATTCAATCAAATACGTA 58.639 39.130 8.23 0.00 0.00 3.57
696 1001 3.191669 TCCGCGATTCAATCAAATACGT 58.808 40.909 8.23 0.00 0.00 3.57
697 1002 3.852471 TCCGCGATTCAATCAAATACG 57.148 42.857 8.23 0.00 0.00 3.06
698 1003 6.706055 TCTATCCGCGATTCAATCAAATAC 57.294 37.500 8.23 0.00 0.00 1.89
699 1004 7.387673 ACAATCTATCCGCGATTCAATCAAATA 59.612 33.333 8.23 0.00 0.00 1.40
700 1005 6.205464 ACAATCTATCCGCGATTCAATCAAAT 59.795 34.615 8.23 0.00 0.00 2.32
701 1006 5.527214 ACAATCTATCCGCGATTCAATCAAA 59.473 36.000 8.23 0.00 0.00 2.69
705 1010 4.816385 ACAACAATCTATCCGCGATTCAAT 59.184 37.500 8.23 0.00 0.00 2.57
744 1051 3.635531 GGGGTAGGGAAGGGATAACTTCT 60.636 52.174 5.99 0.00 44.82 2.85
745 1052 2.709934 GGGGTAGGGAAGGGATAACTTC 59.290 54.545 0.00 0.00 44.74 3.01
804 1111 2.124529 GCTGGGCTGGGCTTCTAC 60.125 66.667 0.00 0.00 0.00 2.59
835 1146 2.649614 GGGCCGATCTACTACCGC 59.350 66.667 0.00 0.00 0.00 5.68
893 1210 3.968096 CAGCGATAATTAATTGGCACACG 59.032 43.478 11.05 8.09 39.29 4.49
987 1307 4.506255 GCCATCTCCCCCAACCCG 62.506 72.222 0.00 0.00 0.00 5.28
988 1308 4.506255 CGCCATCTCCCCCAACCC 62.506 72.222 0.00 0.00 0.00 4.11
991 1311 3.407967 GTCCGCCATCTCCCCCAA 61.408 66.667 0.00 0.00 0.00 4.12
1611 1932 6.534059 CGTCGAAAAAGAGCTGAATAATTGA 58.466 36.000 0.00 0.00 0.00 2.57
1620 1941 0.798776 ATGGCGTCGAAAAAGAGCTG 59.201 50.000 0.00 0.00 0.00 4.24
1698 2021 3.690460 CCTTGTCTACTCCCAATGCTTT 58.310 45.455 0.00 0.00 0.00 3.51
1699 2022 2.619074 GCCTTGTCTACTCCCAATGCTT 60.619 50.000 0.00 0.00 31.91 3.91
1700 2023 1.065126 GCCTTGTCTACTCCCAATGCT 60.065 52.381 0.00 0.00 31.91 3.79
1706 2029 0.683504 TCGGAGCCTTGTCTACTCCC 60.684 60.000 2.83 0.00 46.03 4.30
1707 2030 1.183549 TTCGGAGCCTTGTCTACTCC 58.816 55.000 0.00 0.00 45.44 3.85
1773 2118 7.377928 GCAAATTAAGCAGCATGTTATAGAGTG 59.622 37.037 0.00 0.00 39.31 3.51
1800 2145 1.072965 ACCTCAGCAAAGAGTTCCTGG 59.927 52.381 0.00 0.00 33.75 4.45
1834 2179 5.948162 TCTTGTCGTAGTTAATGGAGTACCT 59.052 40.000 0.00 0.00 37.04 3.08
1875 2220 7.450903 AGATGCGTAAGGGCTAAATAGTAAAT 58.549 34.615 0.00 0.00 38.28 1.40
1878 2223 5.537295 TGAGATGCGTAAGGGCTAAATAGTA 59.463 40.000 0.00 0.00 38.28 1.82
1879 2224 4.344102 TGAGATGCGTAAGGGCTAAATAGT 59.656 41.667 0.00 0.00 38.28 2.12
1880 2225 4.883083 TGAGATGCGTAAGGGCTAAATAG 58.117 43.478 0.00 0.00 38.28 1.73
1881 2226 4.948341 TGAGATGCGTAAGGGCTAAATA 57.052 40.909 0.00 0.00 38.28 1.40
1882 2227 3.838244 TGAGATGCGTAAGGGCTAAAT 57.162 42.857 0.00 0.00 38.28 1.40
1883 2228 3.055385 AGTTGAGATGCGTAAGGGCTAAA 60.055 43.478 0.00 0.00 38.28 1.85
1884 2229 2.500098 AGTTGAGATGCGTAAGGGCTAA 59.500 45.455 0.00 0.00 38.28 3.09
1885 2230 2.108168 AGTTGAGATGCGTAAGGGCTA 58.892 47.619 0.00 0.00 38.28 3.93
1891 2236 3.313803 TGCAACAAAGTTGAGATGCGTAA 59.686 39.130 13.58 0.00 38.02 3.18
1893 2238 1.675483 TGCAACAAAGTTGAGATGCGT 59.325 42.857 13.58 0.00 38.02 5.24
1926 2271 3.460103 TCAAACTACGTGAAAGGTGTCC 58.540 45.455 0.00 0.00 35.89 4.02
1939 2285 4.387256 GTGATCTGTGAGCACTCAAACTAC 59.613 45.833 1.05 0.00 44.30 2.73
1945 2291 1.547820 GAGGTGATCTGTGAGCACTCA 59.452 52.381 14.21 0.00 46.49 3.41
2021 2367 4.279169 CTCTTTAGAGCAGCTAGAGCATCT 59.721 45.833 6.95 6.71 41.72 2.90
2234 2583 9.555727 AGACAGTTTTAGCTTGACAGTAATTTA 57.444 29.630 0.00 0.00 0.00 1.40
2464 2813 1.839424 ATGAGGCAGGCAAAGGTAAC 58.161 50.000 0.00 0.00 0.00 2.50
2659 3008 1.617740 GCACGCACTCATTTTAAGCC 58.382 50.000 0.00 0.00 0.00 4.35
2680 3029 3.157949 TCCACGTCCTGGTGCACA 61.158 61.111 20.43 3.92 41.52 4.57
2934 3285 6.166984 TGCAAATTGAACAGGGTGATTAAA 57.833 33.333 0.00 0.00 0.00 1.52
2990 3341 8.735692 TTGCTCAAAATCTTCCAAAAGAATTT 57.264 26.923 0.00 0.00 44.49 1.82
3315 3666 5.789643 AATAAAATACATGGCCGCATCTT 57.210 34.783 0.00 0.00 0.00 2.40
3416 3768 5.992217 GCTACAACTCAGAGGAAGAGAAAAA 59.008 40.000 1.53 0.00 36.91 1.94
3417 3769 5.070446 TGCTACAACTCAGAGGAAGAGAAAA 59.930 40.000 1.53 0.00 36.91 2.29
3521 3873 7.272515 TGTTCAACGAAAAGAAAAACACTCATC 59.727 33.333 0.00 0.00 0.00 2.92
3532 3884 4.797868 CACTGCATTGTTCAACGAAAAGAA 59.202 37.500 0.00 0.00 0.00 2.52
3534 3886 3.061006 GCACTGCATTGTTCAACGAAAAG 60.061 43.478 5.89 0.00 0.00 2.27
3538 3890 1.020437 TGCACTGCATTGTTCAACGA 58.980 45.000 5.89 0.00 31.71 3.85
3592 3947 4.891627 TGCTCGATTCTCAACACAAAAA 57.108 36.364 0.00 0.00 0.00 1.94
3593 3948 5.700832 ACTATGCTCGATTCTCAACACAAAA 59.299 36.000 0.00 0.00 0.00 2.44
3594 3949 5.237815 ACTATGCTCGATTCTCAACACAAA 58.762 37.500 0.00 0.00 0.00 2.83
3595 3950 4.820897 ACTATGCTCGATTCTCAACACAA 58.179 39.130 0.00 0.00 0.00 3.33
3596 3951 4.456280 ACTATGCTCGATTCTCAACACA 57.544 40.909 0.00 0.00 0.00 3.72
3597 3952 5.340803 TGTACTATGCTCGATTCTCAACAC 58.659 41.667 0.00 0.00 0.00 3.32
3598 3953 5.576447 TGTACTATGCTCGATTCTCAACA 57.424 39.130 0.00 0.00 0.00 3.33
3599 3954 6.477033 ACATTGTACTATGCTCGATTCTCAAC 59.523 38.462 15.90 0.00 0.00 3.18
3600 3955 6.573434 ACATTGTACTATGCTCGATTCTCAA 58.427 36.000 15.90 0.00 0.00 3.02
3601 3956 6.149129 ACATTGTACTATGCTCGATTCTCA 57.851 37.500 15.90 0.00 0.00 3.27
3602 3957 6.804295 CCTACATTGTACTATGCTCGATTCTC 59.196 42.308 15.90 0.00 0.00 2.87
3603 3958 6.682746 CCTACATTGTACTATGCTCGATTCT 58.317 40.000 15.90 0.00 0.00 2.40
3604 3959 5.346281 GCCTACATTGTACTATGCTCGATTC 59.654 44.000 15.90 0.00 0.00 2.52
3605 3960 5.221441 TGCCTACATTGTACTATGCTCGATT 60.221 40.000 15.90 0.08 0.00 3.34
3606 3961 4.280929 TGCCTACATTGTACTATGCTCGAT 59.719 41.667 15.90 0.73 0.00 3.59
3607 3962 3.634910 TGCCTACATTGTACTATGCTCGA 59.365 43.478 15.90 0.68 0.00 4.04
3608 3963 3.977427 TGCCTACATTGTACTATGCTCG 58.023 45.455 15.90 5.69 0.00 5.03
3609 3964 3.743396 GCTGCCTACATTGTACTATGCTC 59.257 47.826 15.90 4.95 0.00 4.26
3610 3965 3.134623 TGCTGCCTACATTGTACTATGCT 59.865 43.478 15.90 7.24 0.00 3.79
3611 3966 3.466836 TGCTGCCTACATTGTACTATGC 58.533 45.455 15.90 4.17 0.00 3.14
3612 3967 5.299949 TGATGCTGCCTACATTGTACTATG 58.700 41.667 14.63 14.63 0.00 2.23
3613 3968 5.545588 CTGATGCTGCCTACATTGTACTAT 58.454 41.667 0.00 0.00 0.00 2.12
3614 3969 4.740634 GCTGATGCTGCCTACATTGTACTA 60.741 45.833 0.00 0.00 36.03 1.82
3615 3970 3.801698 CTGATGCTGCCTACATTGTACT 58.198 45.455 0.00 0.00 0.00 2.73
3616 3971 2.289002 GCTGATGCTGCCTACATTGTAC 59.711 50.000 0.00 0.00 36.03 2.90
3617 3972 2.564771 GCTGATGCTGCCTACATTGTA 58.435 47.619 0.00 0.00 36.03 2.41
3622 3977 1.153568 GTCGCTGATGCTGCCTACA 60.154 57.895 0.00 0.00 36.97 2.74
3702 4057 0.607620 CGATTGGGTTTTGCATGGGT 59.392 50.000 0.00 0.00 0.00 4.51
3761 4116 1.281960 CTGTCACAGCAGCAACAGC 59.718 57.895 0.00 0.00 33.42 4.40
3765 4120 2.188829 GGCACTGTCACAGCAGCAA 61.189 57.895 20.72 0.00 39.96 3.91
3789 4144 3.008517 TCCTTCCTCGGCCATGCA 61.009 61.111 2.24 0.00 0.00 3.96
3808 4163 1.869754 CGAAGATATGGCGGTGGTCAG 60.870 57.143 0.00 0.00 0.00 3.51
3822 4177 3.376546 GCAAAGGAATCTTCTGCGAAGAT 59.623 43.478 20.72 20.72 38.55 2.40
3825 4180 1.812571 GGCAAAGGAATCTTCTGCGAA 59.187 47.619 0.00 0.00 33.76 4.70
3862 4217 1.305633 CACTGCTGGAGGAGGAGGA 60.306 63.158 0.14 0.00 44.38 3.71
3863 4218 3.028921 GCACTGCTGGAGGAGGAGG 62.029 68.421 0.14 0.00 44.38 4.30
3864 4219 2.583520 GCACTGCTGGAGGAGGAG 59.416 66.667 0.14 0.00 45.56 3.69
3944 4302 3.989698 CTCATCGACAACGCCGGCT 62.990 63.158 26.68 4.89 39.58 5.52
3952 4310 0.456142 CGAGCCGTTCTCATCGACAA 60.456 55.000 0.00 0.00 41.98 3.18
4181 4539 3.226242 AGTGCGTGGTTGGACTCA 58.774 55.556 0.00 0.00 35.41 3.41


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

AutoCloner maintained by Alex Coulton.