Multiple sequence alignment - TraesCS6B01G350500

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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 TraesCS6B01G350500 chr6B 100.000 3592 0 0 1 3592 615635611 615639202 0.000000e+00 6634.0
1 TraesCS6B01G350500 chr6B 85.994 664 73 11 778 1434 560624648 560625298 0.000000e+00 693.0
2 TraesCS6B01G350500 chr6B 87.500 312 28 5 1775 2086 115215531 115215231 2.050000e-92 350.0
3 TraesCS6B01G350500 chr6B 87.336 229 14 7 1525 1753 115215821 115215608 7.700000e-62 248.0
4 TraesCS6B01G350500 chr6D 91.206 1194 73 14 1774 2947 409663865 409665046 0.000000e+00 1594.0
5 TraesCS6B01G350500 chr6D 84.751 1023 78 39 772 1753 409662819 409663804 0.000000e+00 953.0
6 TraesCS6B01G350500 chr6D 92.804 667 31 6 2940 3592 409665197 409665860 0.000000e+00 950.0
7 TraesCS6B01G350500 chr6D 92.381 210 9 4 274 483 409658791 409658993 3.510000e-75 292.0
8 TraesCS6B01G350500 chr6D 89.912 228 15 4 532 759 409660801 409661020 1.630000e-73 287.0
9 TraesCS6B01G350500 chr6D 91.753 97 4 2 194 290 409658676 409658768 8.090000e-27 132.0
10 TraesCS6B01G350500 chr6A 90.986 1187 89 11 1774 2956 555110013 555111185 0.000000e+00 1583.0
11 TraesCS6B01G350500 chr6A 85.979 1027 67 33 778 1753 555108952 555109952 0.000000e+00 1027.0
12 TraesCS6B01G350500 chr6A 94.989 459 22 1 3135 3592 555111212 555111670 0.000000e+00 719.0
13 TraesCS6B01G350500 chr6A 83.772 228 14 2 532 759 555108761 555108965 1.020000e-45 195.0
14 TraesCS6B01G350500 chr6A 83.590 195 30 2 1 194 162084872 162085065 7.920000e-42 182.0
15 TraesCS6B01G350500 chrUn 82.795 959 109 26 778 1694 49383237 49382293 0.000000e+00 806.0
16 TraesCS6B01G350500 chr3B 81.073 951 130 25 778 1691 795777604 795778541 0.000000e+00 713.0
17 TraesCS6B01G350500 chr3B 86.154 195 11 7 1525 1718 550394543 550394364 2.830000e-46 196.0
18 TraesCS6B01G350500 chr3B 91.129 124 10 1 1998 2120 703900663 703900540 2.220000e-37 167.0
19 TraesCS6B01G350500 chr2B 93.000 300 21 0 1214 1513 710352402 710352701 4.260000e-119 438.0
20 TraesCS6B01G350500 chr2B 91.026 312 27 1 1214 1524 69468623 69468312 1.540000e-113 420.0
21 TraesCS6B01G350500 chr2B 91.026 312 27 1 1214 1524 496455686 496455375 1.540000e-113 420.0
22 TraesCS6B01G350500 chr2B 87.821 312 26 7 1775 2086 69467988 69467689 4.410000e-94 355.0
23 TraesCS6B01G350500 chr2B 87.500 312 28 6 1775 2086 799778684 799778984 2.050000e-92 350.0
24 TraesCS6B01G350500 chr2B 87.055 309 29 6 1778 2086 496455047 496454750 4.440000e-89 339.0
25 TraesCS6B01G350500 chr2B 91.189 227 12 4 1775 2001 710352800 710353018 5.830000e-78 302.0
26 TraesCS6B01G350500 chr2B 86.522 230 15 8 1525 1753 69468279 69468065 4.630000e-59 239.0
27 TraesCS6B01G350500 chr2B 79.091 110 21 2 5 113 600716101 600716209 1.380000e-09 75.0
28 TraesCS6B01G350500 chr7B 91.054 313 26 1 1214 1524 691517141 691516829 4.290000e-114 422.0
29 TraesCS6B01G350500 chr7B 89.868 227 15 4 1775 2001 691516743 691516525 5.870000e-73 285.0
30 TraesCS6B01G350500 chr7B 74.479 192 45 4 5 194 486745044 486745233 2.970000e-11 80.5
31 TraesCS6B01G350500 chr7A 88.462 312 25 5 1775 2086 283575818 283576118 2.040000e-97 366.0
32 TraesCS6B01G350500 chr7A 87.261 314 24 2 1214 1524 283548127 283548427 9.550000e-91 344.0
33 TraesCS6B01G350500 chr7A 83.333 162 11 10 1591 1751 283575593 283575739 6.260000e-28 135.0
34 TraesCS6B01G350500 chr4B 86.859 312 30 6 1775 2086 627801205 627800905 4.440000e-89 339.0
35 TraesCS6B01G350500 chr4B 87.391 230 13 8 1525 1753 627801496 627801282 2.140000e-62 250.0
36 TraesCS6B01G350500 chr4D 87.138 311 20 10 778 1077 245070798 245070497 5.750000e-88 335.0
37 TraesCS6B01G350500 chr4D 95.876 194 8 0 1 194 55651830 55651637 7.490000e-82 315.0
38 TraesCS6B01G350500 chr4D 86.147 231 32 0 1084 1314 245062424 245062194 2.140000e-62 250.0
39 TraesCS6B01G350500 chr1A 86.538 312 31 5 1775 2086 410222789 410223089 2.070000e-87 333.0
40 TraesCS6B01G350500 chr5B 96.907 194 6 0 1 194 592352865 592352672 3.460000e-85 326.0
41 TraesCS6B01G350500 chr7D 86.262 313 19 16 1214 1524 503943662 503943372 5.790000e-83 318.0
42 TraesCS6B01G350500 chr7D 87.773 229 13 7 1525 1753 503943339 503943126 1.660000e-63 254.0
43 TraesCS6B01G350500 chr7D 87.565 193 24 0 1 193 42716216 42716024 1.300000e-54 224.0
44 TraesCS6B01G350500 chr1D 90.206 194 19 0 1 194 348723440 348723247 1.660000e-63 254.0
45 TraesCS6B01G350500 chr1B 87.565 193 24 0 1 193 538485482 538485674 1.300000e-54 224.0
46 TraesCS6B01G350500 chr2A 74.479 192 45 4 5 194 648352312 648352123 2.970000e-11 80.5


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 TraesCS6B01G350500 chr6B 615635611 615639202 3591 False 6634.000000 6634 100.000000 1 3592 1 chr6B.!!$F2 3591
1 TraesCS6B01G350500 chr6B 560624648 560625298 650 False 693.000000 693 85.994000 778 1434 1 chr6B.!!$F1 656
2 TraesCS6B01G350500 chr6B 115215231 115215821 590 True 299.000000 350 87.418000 1525 2086 2 chr6B.!!$R1 561
3 TraesCS6B01G350500 chr6D 409658676 409665860 7184 False 701.333333 1594 90.467833 194 3592 6 chr6D.!!$F1 3398
4 TraesCS6B01G350500 chr6A 555108761 555111670 2909 False 881.000000 1583 88.931500 532 3592 4 chr6A.!!$F2 3060
5 TraesCS6B01G350500 chrUn 49382293 49383237 944 True 806.000000 806 82.795000 778 1694 1 chrUn.!!$R1 916
6 TraesCS6B01G350500 chr3B 795777604 795778541 937 False 713.000000 713 81.073000 778 1691 1 chr3B.!!$F1 913
7 TraesCS6B01G350500 chr2B 496454750 496455686 936 True 379.500000 420 89.040500 1214 2086 2 chr2B.!!$R2 872
8 TraesCS6B01G350500 chr2B 710352402 710353018 616 False 370.000000 438 92.094500 1214 2001 2 chr2B.!!$F3 787
9 TraesCS6B01G350500 chr2B 69467689 69468623 934 True 338.000000 420 88.456333 1214 2086 3 chr2B.!!$R1 872
10 TraesCS6B01G350500 chr7B 691516525 691517141 616 True 353.500000 422 90.461000 1214 2001 2 chr7B.!!$R1 787
11 TraesCS6B01G350500 chr7A 283575593 283576118 525 False 250.500000 366 85.897500 1591 2086 2 chr7A.!!$F2 495
12 TraesCS6B01G350500 chr4B 627800905 627801496 591 True 294.500000 339 87.125000 1525 2086 2 chr4B.!!$R1 561
13 TraesCS6B01G350500 chr7D 503943126 503943662 536 True 286.000000 318 87.017500 1214 1753 2 chr7D.!!$R2 539

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
189 190 0.033699 GGGAGGGCAGCTGATTTTCT 60.034 55.0 20.43 6.16 0.00 2.52 F
759 2558 0.035152 CACACAAGCTGCATCCCCTA 60.035 55.0 1.02 0.00 0.00 3.53 F
1105 4701 0.528924 CATGCCTGGACACCATGTTG 59.471 55.0 0.00 0.00 33.46 3.33 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1658 5312 0.039256 TTTGCTGGCGTTGAGATTGC 60.039 50.0 0.00 0.00 0.00 3.56 R
2445 6171 0.251341 GCCAACCTCCCTGTGATTGT 60.251 55.0 0.00 0.00 0.00 2.71 R
3024 6912 2.748532 ACGTAGAGTGGTAGTTCTCTGC 59.251 50.0 5.15 3.19 40.61 4.26 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 3.317280 CCTCCCACTTAGGTAGGCA 57.683 57.895 0.00 0.00 34.66 4.75
19 20 1.580059 CCTCCCACTTAGGTAGGCAA 58.420 55.000 0.00 0.00 34.66 4.52
20 21 2.127708 CCTCCCACTTAGGTAGGCAAT 58.872 52.381 0.00 0.00 34.66 3.56
21 22 2.509964 CCTCCCACTTAGGTAGGCAATT 59.490 50.000 0.00 0.00 34.66 2.32
22 23 3.714798 CCTCCCACTTAGGTAGGCAATTA 59.285 47.826 0.00 0.00 34.66 1.40
23 24 4.202367 CCTCCCACTTAGGTAGGCAATTAG 60.202 50.000 0.00 0.00 34.66 1.73
24 25 3.135895 TCCCACTTAGGTAGGCAATTAGC 59.864 47.826 0.00 0.00 38.03 3.09
35 36 2.057137 GCAATTAGCCATCTGGTCCA 57.943 50.000 0.00 0.00 37.23 4.02
36 37 1.678101 GCAATTAGCCATCTGGTCCAC 59.322 52.381 0.00 0.00 37.23 4.02
37 38 2.301346 CAATTAGCCATCTGGTCCACC 58.699 52.381 0.00 0.00 37.57 4.61
38 39 1.595311 ATTAGCCATCTGGTCCACCA 58.405 50.000 0.00 0.00 45.30 4.17
39 40 1.367346 TTAGCCATCTGGTCCACCAA 58.633 50.000 0.00 0.00 46.97 3.67
40 41 0.911769 TAGCCATCTGGTCCACCAAG 59.088 55.000 0.00 0.00 46.97 3.61
41 42 1.136329 AGCCATCTGGTCCACCAAGT 61.136 55.000 0.00 0.00 46.97 3.16
42 43 0.618458 GCCATCTGGTCCACCAAGTA 59.382 55.000 0.00 0.00 46.97 2.24
43 44 1.679032 GCCATCTGGTCCACCAAGTAC 60.679 57.143 0.00 0.00 46.97 2.73
44 45 1.909302 CCATCTGGTCCACCAAGTACT 59.091 52.381 0.00 0.00 46.97 2.73
45 46 2.355108 CCATCTGGTCCACCAAGTACTG 60.355 54.545 0.00 0.00 46.97 2.74
46 47 0.685097 TCTGGTCCACCAAGTACTGC 59.315 55.000 0.00 0.00 46.97 4.40
47 48 0.396435 CTGGTCCACCAAGTACTGCA 59.604 55.000 0.00 0.00 46.97 4.41
48 49 0.840617 TGGTCCACCAAGTACTGCAA 59.159 50.000 0.00 0.00 44.35 4.08
49 50 1.235724 GGTCCACCAAGTACTGCAAC 58.764 55.000 0.00 0.00 35.64 4.17
50 51 1.202770 GGTCCACCAAGTACTGCAACT 60.203 52.381 0.00 0.00 35.64 3.16
51 52 1.873591 GTCCACCAAGTACTGCAACTG 59.126 52.381 0.00 0.00 0.00 3.16
52 53 0.593128 CCACCAAGTACTGCAACTGC 59.407 55.000 0.00 0.00 42.50 4.40
53 54 0.235665 CACCAAGTACTGCAACTGCG 59.764 55.000 0.00 0.00 45.83 5.18
54 55 1.207593 CCAAGTACTGCAACTGCGC 59.792 57.895 0.00 0.00 45.83 6.09
55 56 1.230635 CCAAGTACTGCAACTGCGCT 61.231 55.000 9.73 0.00 45.83 5.92
56 57 1.428448 CAAGTACTGCAACTGCGCTA 58.572 50.000 9.73 0.00 45.83 4.26
57 58 1.391485 CAAGTACTGCAACTGCGCTAG 59.609 52.381 9.73 7.16 45.83 3.42
58 59 0.888619 AGTACTGCAACTGCGCTAGA 59.111 50.000 9.73 0.00 45.83 2.43
59 60 1.135257 AGTACTGCAACTGCGCTAGAG 60.135 52.381 9.73 0.00 45.83 2.43
60 61 0.888619 TACTGCAACTGCGCTAGAGT 59.111 50.000 9.73 0.00 45.83 3.24
61 62 0.034059 ACTGCAACTGCGCTAGAGTT 59.966 50.000 9.73 7.45 45.83 3.01
62 63 1.151668 CTGCAACTGCGCTAGAGTTT 58.848 50.000 9.73 0.00 45.83 2.66
63 64 0.867746 TGCAACTGCGCTAGAGTTTG 59.132 50.000 9.73 6.63 45.83 2.93
64 65 0.453449 GCAACTGCGCTAGAGTTTGC 60.453 55.000 9.73 12.33 31.05 3.68
65 66 1.151668 CAACTGCGCTAGAGTTTGCT 58.848 50.000 9.73 0.00 31.05 3.91
66 67 1.532868 CAACTGCGCTAGAGTTTGCTT 59.467 47.619 9.73 0.00 31.05 3.91
67 68 1.884235 ACTGCGCTAGAGTTTGCTTT 58.116 45.000 9.73 0.00 0.00 3.51
68 69 1.801178 ACTGCGCTAGAGTTTGCTTTC 59.199 47.619 9.73 0.00 0.00 2.62
69 70 2.072298 CTGCGCTAGAGTTTGCTTTCT 58.928 47.619 9.73 0.00 0.00 2.52
70 71 2.069273 TGCGCTAGAGTTTGCTTTCTC 58.931 47.619 9.73 0.00 0.00 2.87
71 72 2.069273 GCGCTAGAGTTTGCTTTCTCA 58.931 47.619 0.00 0.00 33.63 3.27
72 73 2.480419 GCGCTAGAGTTTGCTTTCTCAA 59.520 45.455 0.00 0.00 33.63 3.02
73 74 3.126000 GCGCTAGAGTTTGCTTTCTCAAT 59.874 43.478 0.00 0.00 33.63 2.57
74 75 4.645956 CGCTAGAGTTTGCTTTCTCAATG 58.354 43.478 0.00 0.00 33.63 2.82
75 76 4.410448 GCTAGAGTTTGCTTTCTCAATGC 58.590 43.478 0.00 0.00 33.63 3.56
76 77 3.930634 AGAGTTTGCTTTCTCAATGCC 57.069 42.857 0.00 0.00 33.63 4.40
77 78 3.225104 AGAGTTTGCTTTCTCAATGCCA 58.775 40.909 0.00 0.00 33.63 4.92
78 79 3.255149 AGAGTTTGCTTTCTCAATGCCAG 59.745 43.478 0.00 0.00 33.63 4.85
79 80 3.225104 AGTTTGCTTTCTCAATGCCAGA 58.775 40.909 0.00 0.00 0.00 3.86
80 81 3.255149 AGTTTGCTTTCTCAATGCCAGAG 59.745 43.478 0.00 0.00 34.42 3.35
81 82 1.830279 TGCTTTCTCAATGCCAGAGG 58.170 50.000 0.00 0.00 33.92 3.69
82 83 1.074405 TGCTTTCTCAATGCCAGAGGT 59.926 47.619 0.00 0.00 33.92 3.85
83 84 2.305635 TGCTTTCTCAATGCCAGAGGTA 59.694 45.455 0.00 0.00 33.92 3.08
84 85 2.941720 GCTTTCTCAATGCCAGAGGTAG 59.058 50.000 0.00 0.00 33.92 3.18
85 86 3.620966 GCTTTCTCAATGCCAGAGGTAGT 60.621 47.826 0.00 0.00 33.92 2.73
86 87 3.895232 TTCTCAATGCCAGAGGTAGTC 57.105 47.619 0.00 0.00 33.92 2.59
87 88 2.111384 TCTCAATGCCAGAGGTAGTCC 58.889 52.381 0.00 0.00 33.92 3.85
88 89 1.139853 CTCAATGCCAGAGGTAGTCCC 59.860 57.143 0.00 0.00 0.00 4.46
89 90 0.911769 CAATGCCAGAGGTAGTCCCA 59.088 55.000 0.00 0.00 34.66 4.37
90 91 1.281867 CAATGCCAGAGGTAGTCCCAA 59.718 52.381 0.00 0.00 34.66 4.12
91 92 1.207791 ATGCCAGAGGTAGTCCCAAG 58.792 55.000 0.00 0.00 34.66 3.61
92 93 0.178903 TGCCAGAGGTAGTCCCAAGT 60.179 55.000 0.00 0.00 34.66 3.16
93 94 1.078159 TGCCAGAGGTAGTCCCAAGTA 59.922 52.381 0.00 0.00 34.66 2.24
94 95 1.481363 GCCAGAGGTAGTCCCAAGTAC 59.519 57.143 0.00 0.00 34.66 2.73
95 96 2.888911 GCCAGAGGTAGTCCCAAGTACT 60.889 54.545 0.00 0.00 32.72 2.73
96 97 3.442076 CCAGAGGTAGTCCCAAGTACTT 58.558 50.000 1.12 1.12 32.72 2.24
97 98 3.195825 CCAGAGGTAGTCCCAAGTACTTG 59.804 52.174 25.79 25.79 40.13 3.16
98 99 4.087182 CAGAGGTAGTCCCAAGTACTTGA 58.913 47.826 32.50 14.31 42.93 3.02
99 100 4.712337 CAGAGGTAGTCCCAAGTACTTGAT 59.288 45.833 32.50 18.65 42.93 2.57
100 101 4.712337 AGAGGTAGTCCCAAGTACTTGATG 59.288 45.833 32.50 23.04 42.93 3.07
101 102 3.775316 AGGTAGTCCCAAGTACTTGATGG 59.225 47.826 32.50 25.47 42.93 3.51
108 109 3.670625 CCAAGTACTTGATGGGAAACGA 58.329 45.455 32.50 0.00 42.93 3.85
109 110 3.435671 CCAAGTACTTGATGGGAAACGAC 59.564 47.826 32.50 0.00 42.93 4.34
110 111 3.329929 AGTACTTGATGGGAAACGACC 57.670 47.619 0.00 0.00 0.00 4.79
111 112 5.628848 CAAGTACTTGATGGGAAACGACCC 61.629 50.000 28.17 9.41 45.02 4.46
112 113 7.770195 CAAGTACTTGATGGGAAACGACCCT 62.770 48.000 28.17 0.00 45.03 4.34
123 124 2.048503 CGACCCTCGTGGACAACC 60.049 66.667 4.76 0.00 38.00 3.77
124 125 2.346365 GACCCTCGTGGACAACCC 59.654 66.667 4.76 0.00 38.00 4.11
125 126 2.446994 ACCCTCGTGGACAACCCA 60.447 61.111 4.76 0.00 44.25 4.51
132 133 2.836154 TGGACAACCCAGCTCCAC 59.164 61.111 0.00 0.00 40.82 4.02
133 134 2.075566 TGGACAACCCAGCTCCACA 61.076 57.895 0.00 0.00 40.82 4.17
134 135 1.600916 GGACAACCCAGCTCCACAC 60.601 63.158 0.00 0.00 34.14 3.82
135 136 1.451936 GACAACCCAGCTCCACACT 59.548 57.895 0.00 0.00 0.00 3.55
136 137 0.179018 GACAACCCAGCTCCACACTT 60.179 55.000 0.00 0.00 0.00 3.16
137 138 0.466189 ACAACCCAGCTCCACACTTG 60.466 55.000 0.00 0.00 0.00 3.16
138 139 1.529244 AACCCAGCTCCACACTTGC 60.529 57.895 0.00 0.00 0.00 4.01
139 140 2.674380 CCCAGCTCCACACTTGCC 60.674 66.667 0.00 0.00 0.00 4.52
140 141 2.113774 CCAGCTCCACACTTGCCA 59.886 61.111 0.00 0.00 0.00 4.92
141 142 1.303888 CCAGCTCCACACTTGCCAT 60.304 57.895 0.00 0.00 0.00 4.40
142 143 0.035152 CCAGCTCCACACTTGCCATA 60.035 55.000 0.00 0.00 0.00 2.74
143 144 1.409241 CCAGCTCCACACTTGCCATAT 60.409 52.381 0.00 0.00 0.00 1.78
144 145 2.372264 CAGCTCCACACTTGCCATATT 58.628 47.619 0.00 0.00 0.00 1.28
145 146 2.098607 CAGCTCCACACTTGCCATATTG 59.901 50.000 0.00 0.00 0.00 1.90
146 147 2.025981 AGCTCCACACTTGCCATATTGA 60.026 45.455 0.00 0.00 0.00 2.57
147 148 2.954318 GCTCCACACTTGCCATATTGAT 59.046 45.455 0.00 0.00 0.00 2.57
148 149 3.382546 GCTCCACACTTGCCATATTGATT 59.617 43.478 0.00 0.00 0.00 2.57
149 150 4.142093 GCTCCACACTTGCCATATTGATTT 60.142 41.667 0.00 0.00 0.00 2.17
150 151 5.581126 TCCACACTTGCCATATTGATTTC 57.419 39.130 0.00 0.00 0.00 2.17
151 152 4.402155 TCCACACTTGCCATATTGATTTCC 59.598 41.667 0.00 0.00 0.00 3.13
152 153 4.403432 CCACACTTGCCATATTGATTTCCT 59.597 41.667 0.00 0.00 0.00 3.36
153 154 5.345702 CACACTTGCCATATTGATTTCCTG 58.654 41.667 0.00 0.00 0.00 3.86
154 155 5.125900 CACACTTGCCATATTGATTTCCTGA 59.874 40.000 0.00 0.00 0.00 3.86
155 156 5.895534 ACACTTGCCATATTGATTTCCTGAT 59.104 36.000 0.00 0.00 0.00 2.90
156 157 6.381994 ACACTTGCCATATTGATTTCCTGATT 59.618 34.615 0.00 0.00 0.00 2.57
157 158 7.560991 ACACTTGCCATATTGATTTCCTGATTA 59.439 33.333 0.00 0.00 0.00 1.75
158 159 8.582437 CACTTGCCATATTGATTTCCTGATTAT 58.418 33.333 0.00 0.00 0.00 1.28
159 160 9.151177 ACTTGCCATATTGATTTCCTGATTATT 57.849 29.630 0.00 0.00 0.00 1.40
160 161 9.419297 CTTGCCATATTGATTTCCTGATTATTG 57.581 33.333 0.00 0.00 0.00 1.90
161 162 7.380536 TGCCATATTGATTTCCTGATTATTGC 58.619 34.615 0.00 0.00 0.00 3.56
162 163 7.015389 TGCCATATTGATTTCCTGATTATTGCA 59.985 33.333 0.00 0.00 0.00 4.08
163 164 8.038944 GCCATATTGATTTCCTGATTATTGCAT 58.961 33.333 0.00 0.00 0.00 3.96
164 165 9.582431 CCATATTGATTTCCTGATTATTGCATC 57.418 33.333 0.00 0.00 0.00 3.91
171 172 9.635520 GATTTCCTGATTATTGCATCTTATTGG 57.364 33.333 0.00 0.00 0.00 3.16
172 173 7.528996 TTCCTGATTATTGCATCTTATTGGG 57.471 36.000 0.00 0.00 0.00 4.12
173 174 6.851318 TCCTGATTATTGCATCTTATTGGGA 58.149 36.000 0.00 0.00 0.00 4.37
174 175 6.944290 TCCTGATTATTGCATCTTATTGGGAG 59.056 38.462 0.00 0.00 0.00 4.30
175 176 6.152323 CCTGATTATTGCATCTTATTGGGAGG 59.848 42.308 0.00 0.00 0.00 4.30
176 177 6.012113 TGATTATTGCATCTTATTGGGAGGG 58.988 40.000 0.00 0.00 0.00 4.30
177 178 2.071778 TTGCATCTTATTGGGAGGGC 57.928 50.000 0.00 0.00 0.00 5.19
178 179 0.925558 TGCATCTTATTGGGAGGGCA 59.074 50.000 0.00 0.00 0.00 5.36
179 180 1.133699 TGCATCTTATTGGGAGGGCAG 60.134 52.381 0.00 0.00 0.00 4.85
180 181 1.613836 CATCTTATTGGGAGGGCAGC 58.386 55.000 0.00 0.00 0.00 5.25
181 182 1.144503 CATCTTATTGGGAGGGCAGCT 59.855 52.381 0.00 0.00 0.00 4.24
182 183 0.548031 TCTTATTGGGAGGGCAGCTG 59.452 55.000 10.11 10.11 0.00 4.24
183 184 0.548031 CTTATTGGGAGGGCAGCTGA 59.452 55.000 20.43 0.00 0.00 4.26
184 185 1.144503 CTTATTGGGAGGGCAGCTGAT 59.855 52.381 20.43 1.27 0.00 2.90
185 186 1.225373 TATTGGGAGGGCAGCTGATT 58.775 50.000 20.43 0.50 0.00 2.57
186 187 0.337428 ATTGGGAGGGCAGCTGATTT 59.663 50.000 20.43 0.06 0.00 2.17
187 188 0.114954 TTGGGAGGGCAGCTGATTTT 59.885 50.000 20.43 0.00 0.00 1.82
188 189 0.323725 TGGGAGGGCAGCTGATTTTC 60.324 55.000 20.43 8.58 0.00 2.29
189 190 0.033699 GGGAGGGCAGCTGATTTTCT 60.034 55.000 20.43 6.16 0.00 2.52
190 191 1.387539 GGAGGGCAGCTGATTTTCTC 58.612 55.000 20.43 14.46 0.00 2.87
191 192 1.340405 GGAGGGCAGCTGATTTTCTCA 60.340 52.381 20.43 0.00 0.00 3.27
192 193 2.652590 GAGGGCAGCTGATTTTCTCAT 58.347 47.619 20.43 0.00 32.10 2.90
193 194 3.434167 GGAGGGCAGCTGATTTTCTCATA 60.434 47.826 20.43 0.00 32.10 2.15
194 195 3.549794 AGGGCAGCTGATTTTCTCATAC 58.450 45.455 20.43 0.00 32.10 2.39
195 196 3.054139 AGGGCAGCTGATTTTCTCATACA 60.054 43.478 20.43 0.00 32.10 2.29
196 197 3.314635 GGGCAGCTGATTTTCTCATACAG 59.685 47.826 20.43 0.00 32.10 2.74
197 198 3.944015 GGCAGCTGATTTTCTCATACAGT 59.056 43.478 20.43 0.00 32.10 3.55
198 199 4.034975 GGCAGCTGATTTTCTCATACAGTC 59.965 45.833 20.43 0.00 32.10 3.51
199 200 4.633126 GCAGCTGATTTTCTCATACAGTCA 59.367 41.667 20.43 0.00 32.10 3.41
200 201 5.296283 GCAGCTGATTTTCTCATACAGTCAT 59.704 40.000 20.43 0.00 32.10 3.06
201 202 6.481313 GCAGCTGATTTTCTCATACAGTCATA 59.519 38.462 20.43 0.00 32.10 2.15
202 203 7.011763 GCAGCTGATTTTCTCATACAGTCATAA 59.988 37.037 20.43 0.00 32.10 1.90
213 214 3.627395 ACAGTCATAAAGGCGAATCCA 57.373 42.857 0.00 0.00 37.29 3.41
243 244 2.036346 GTCAAATGGGCAGCTTGTTTCT 59.964 45.455 0.00 0.00 0.00 2.52
301 341 3.255642 GGCACCTTCTAAACTGCATTTCA 59.744 43.478 0.00 0.00 0.00 2.69
360 400 3.634448 TCGTGTTTGTGTTCATCCCAAAT 59.366 39.130 0.00 0.00 31.44 2.32
364 404 4.202202 TGTTTGTGTTCATCCCAAATCCAC 60.202 41.667 0.00 0.00 31.44 4.02
365 405 2.158559 TGTGTTCATCCCAAATCCACG 58.841 47.619 0.00 0.00 0.00 4.94
387 427 8.732531 CCACGTATGTTTAAATTTCTCCCTTTA 58.267 33.333 0.00 0.00 0.00 1.85
401 441 7.703058 TTCTCCCTTTAATTCCTTTTAGCTG 57.297 36.000 0.00 0.00 0.00 4.24
426 466 8.677300 TGAAGAAAAGAAAATCTCATATTCCCG 58.323 33.333 0.00 0.00 0.00 5.14
429 469 9.331282 AGAAAAGAAAATCTCATATTCCCGTAG 57.669 33.333 0.00 0.00 0.00 3.51
446 486 4.814771 CCCGTAGTATTTCCTTTTAGCTGG 59.185 45.833 0.00 0.00 0.00 4.85
459 499 8.250143 TCCTTTTAGCTGGAAGAAAAGAAAAT 57.750 30.769 16.69 0.00 39.04 1.82
463 503 5.973899 AGCTGGAAGAAAAGAAAATCTCC 57.026 39.130 0.00 0.00 34.07 3.71
505 545 9.237187 TGTATAAAGATATTTTGGCAAGTGTGA 57.763 29.630 0.00 0.00 0.00 3.58
510 550 7.414222 AGATATTTTGGCAAGTGTGATGAAT 57.586 32.000 0.00 0.00 0.00 2.57
511 551 7.844009 AGATATTTTGGCAAGTGTGATGAATT 58.156 30.769 0.00 0.00 0.00 2.17
512 552 8.316214 AGATATTTTGGCAAGTGTGATGAATTT 58.684 29.630 0.00 0.00 0.00 1.82
513 553 8.851541 ATATTTTGGCAAGTGTGATGAATTTT 57.148 26.923 0.00 0.00 0.00 1.82
514 554 6.998968 TTTTGGCAAGTGTGATGAATTTTT 57.001 29.167 0.00 0.00 0.00 1.94
515 555 8.674263 ATTTTGGCAAGTGTGATGAATTTTTA 57.326 26.923 0.00 0.00 0.00 1.52
516 556 8.674263 TTTTGGCAAGTGTGATGAATTTTTAT 57.326 26.923 0.00 0.00 0.00 1.40
517 557 8.674263 TTTGGCAAGTGTGATGAATTTTTATT 57.326 26.923 0.00 0.00 0.00 1.40
518 558 8.674263 TTGGCAAGTGTGATGAATTTTTATTT 57.326 26.923 0.00 0.00 0.00 1.40
520 560 9.118300 TGGCAAGTGTGATGAATTTTTATTTTT 57.882 25.926 0.00 0.00 0.00 1.94
559 2358 5.190528 AGTGTGATGAATAGACTGGAACCAT 59.809 40.000 0.00 0.00 0.00 3.55
621 2420 1.909459 TACAGACACGCCCATGCCAT 61.909 55.000 0.00 0.00 0.00 4.40
623 2422 4.197498 GACACGCCCATGCCATGC 62.197 66.667 0.00 0.00 0.00 4.06
629 2428 3.463585 CCCATGCCATGCCACCAC 61.464 66.667 0.00 0.00 0.00 4.16
630 2429 2.680707 CCATGCCATGCCACCACA 60.681 61.111 0.00 0.00 0.00 4.17
636 2435 2.605607 CCATGCCACCACAGAGGGA 61.606 63.158 0.00 0.00 43.89 4.20
684 2483 3.894547 GACGACGGGCCAACCATGT 62.895 63.158 4.39 0.00 40.22 3.21
708 2507 0.246360 GGAACAAAATCTTGGGCCCG 59.754 55.000 19.37 3.22 36.82 6.13
715 2514 2.814913 AATCTTGGGCCCGAACCGTC 62.815 60.000 19.37 0.00 0.00 4.79
759 2558 0.035152 CACACAAGCTGCATCCCCTA 60.035 55.000 1.02 0.00 0.00 3.53
764 2563 0.995024 AAGCTGCATCCCCTAGTTGT 59.005 50.000 1.02 0.00 0.00 3.32
765 2564 0.543749 AGCTGCATCCCCTAGTTGTC 59.456 55.000 1.02 0.00 0.00 3.18
766 2565 0.543749 GCTGCATCCCCTAGTTGTCT 59.456 55.000 0.00 0.00 0.00 3.41
767 2566 1.474143 GCTGCATCCCCTAGTTGTCTC 60.474 57.143 0.00 0.00 0.00 3.36
770 2569 2.642311 TGCATCCCCTAGTTGTCTCAAA 59.358 45.455 0.00 0.00 0.00 2.69
771 2570 3.073798 TGCATCCCCTAGTTGTCTCAAAA 59.926 43.478 0.00 0.00 0.00 2.44
872 4464 1.968493 TCTAGTTCCATATCCACGGCC 59.032 52.381 0.00 0.00 0.00 6.13
977 4573 2.107953 GATCAGCCAGCCGAGTCC 59.892 66.667 0.00 0.00 0.00 3.85
978 4574 2.364842 ATCAGCCAGCCGAGTCCT 60.365 61.111 0.00 0.00 0.00 3.85
979 4575 2.362329 GATCAGCCAGCCGAGTCCTC 62.362 65.000 0.00 0.00 0.00 3.71
980 4576 4.154347 CAGCCAGCCGAGTCCTCC 62.154 72.222 0.00 0.00 0.00 4.30
1039 4635 0.617413 CCATGGAAGAGTCTGCACCT 59.383 55.000 5.56 0.00 0.00 4.00
1105 4701 0.528924 CATGCCTGGACACCATGTTG 59.471 55.000 0.00 0.00 33.46 3.33
1111 4707 0.602638 TGGACACCATGTTGAGTCGC 60.603 55.000 0.00 0.00 31.93 5.19
1113 4709 1.626654 GACACCATGTTGAGTCGCCG 61.627 60.000 0.00 0.00 0.00 6.46
1265 4866 1.340017 GGTTGGTTGCTAGGCTGATGA 60.340 52.381 0.00 0.00 0.00 2.92
1282 4883 5.021033 TGATGAATTGCTTGGTGTTTGTT 57.979 34.783 0.00 0.00 0.00 2.83
1435 5036 2.346803 GAACCGATGTAAGCTGCTCAA 58.653 47.619 1.00 0.00 0.00 3.02
1447 5052 4.292186 AGCTGCTCAATTGACCTCTTTA 57.708 40.909 3.38 0.00 0.00 1.85
1521 5166 7.013529 GCTTGATTTTGCAAAAATAGCTGAAG 58.986 34.615 29.53 22.55 32.11 3.02
1523 5168 7.878477 TGATTTTGCAAAAATAGCTGAAGAG 57.122 32.000 27.10 0.00 0.00 2.85
1546 5191 5.888161 AGTGAAAAACAGAGTGAGAAACCAT 59.112 36.000 0.00 0.00 0.00 3.55
1570 5215 9.731819 CATTCATGACTTCTGAATTTTGATAGG 57.268 33.333 0.00 0.00 40.47 2.57
1597 5242 1.458777 AAGGGCGATACGATCCCCA 60.459 57.895 16.22 0.00 40.31 4.96
1680 5334 2.642139 ATCTCAACGCCAGCAAAATG 57.358 45.000 0.00 0.00 0.00 2.32
1742 5396 9.890352 GATTTCATTTTCCAAGATAGATAGCAC 57.110 33.333 0.00 0.00 0.00 4.40
1849 5558 4.157607 CCCGTGTGGTTTGAAGCT 57.842 55.556 0.00 0.00 0.00 3.74
1992 5711 9.874215 GTAACTCAGAAGTTTTAAATGGTGTAC 57.126 33.333 0.00 0.00 43.28 2.90
2040 5759 1.689273 AGACTGACCTGTTCCTGTCAC 59.311 52.381 0.00 0.00 36.62 3.67
2131 5850 2.887790 GGAAGGGACATTCCTTGGC 58.112 57.895 8.39 0.00 46.31 4.52
2231 5957 1.515304 GGCAAGTCTCTCGCTCGAC 60.515 63.158 0.00 0.00 0.00 4.20
2598 6324 5.505819 GCACTAACCTTGTCTTGAAAACTCC 60.506 44.000 0.00 0.00 0.00 3.85
2655 6381 7.956420 TTCCATATAATAAAGGTGTAGCACG 57.044 36.000 0.00 0.00 34.83 5.34
2804 6533 1.357761 CCCTACAGGTGGGGTGAAAAT 59.642 52.381 12.39 0.00 45.41 1.82
2875 6605 2.574006 TGATGCTTCTGGTTCTTGCT 57.426 45.000 0.88 0.00 0.00 3.91
2948 6678 2.758736 TGGCAGTGTTTTTGCAGTTT 57.241 40.000 0.00 0.00 43.28 2.66
2993 6881 6.933514 AAATTACCACATTCCAACCAATCT 57.066 33.333 0.00 0.00 0.00 2.40
2996 6884 3.575805 ACCACATTCCAACCAATCTTGT 58.424 40.909 0.00 0.00 0.00 3.16
2997 6885 3.573967 ACCACATTCCAACCAATCTTGTC 59.426 43.478 0.00 0.00 0.00 3.18
3008 6896 4.566987 ACCAATCTTGTCGAGAAACTACC 58.433 43.478 0.00 0.00 38.06 3.18
3050 6938 6.539464 CAGAGAACTACCACTCTACGTCTAAT 59.461 42.308 0.00 0.00 40.85 1.73
3230 7118 9.331282 GACAAGGAAATTAATACTAGCATGTCT 57.669 33.333 0.00 0.00 0.00 3.41
3277 7165 7.498284 TTGAGAACAAATGCAGCAGTTAATGC 61.498 38.462 7.96 0.00 43.24 3.56
3305 7193 4.694509 GCATCTATATCAACCAAGCCAGAG 59.305 45.833 0.00 0.00 0.00 3.35
3314 7202 3.018423 ACCAAGCCAGAGAACACTTTT 57.982 42.857 0.00 0.00 0.00 2.27
3325 7213 7.362056 GCCAGAGAACACTTTTCTGCAATATAA 60.362 37.037 0.00 0.00 37.58 0.98
3381 7277 5.296780 ACATATATTGGCTTGCACTGTACAC 59.703 40.000 0.00 0.00 0.00 2.90
3388 7284 3.310774 GGCTTGCACTGTACACATATGAG 59.689 47.826 10.38 3.79 0.00 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 1.678101 GTGGACCAGATGGCTAATTGC 59.322 52.381 0.00 0.00 39.32 3.56
17 18 2.301346 GGTGGACCAGATGGCTAATTG 58.699 52.381 0.00 0.00 39.32 2.32
18 19 1.922447 TGGTGGACCAGATGGCTAATT 59.078 47.619 0.00 0.00 42.01 1.40
19 20 1.595311 TGGTGGACCAGATGGCTAAT 58.405 50.000 0.00 0.00 42.01 1.73
20 21 3.096852 TGGTGGACCAGATGGCTAA 57.903 52.632 0.00 0.00 42.01 3.09
21 22 4.908333 TGGTGGACCAGATGGCTA 57.092 55.556 0.00 0.00 42.01 3.93
29 30 0.840617 TTGCAGTACTTGGTGGACCA 59.159 50.000 0.00 0.00 45.94 4.02
30 31 1.202770 AGTTGCAGTACTTGGTGGACC 60.203 52.381 0.00 0.00 0.00 4.46
31 32 1.873591 CAGTTGCAGTACTTGGTGGAC 59.126 52.381 0.00 0.00 0.00 4.02
32 33 1.813862 GCAGTTGCAGTACTTGGTGGA 60.814 52.381 0.00 0.00 41.59 4.02
33 34 0.593128 GCAGTTGCAGTACTTGGTGG 59.407 55.000 0.00 0.00 41.59 4.61
34 35 0.235665 CGCAGTTGCAGTACTTGGTG 59.764 55.000 4.84 0.00 42.21 4.17
35 36 1.507141 GCGCAGTTGCAGTACTTGGT 61.507 55.000 0.30 0.00 42.21 3.67
36 37 1.207593 GCGCAGTTGCAGTACTTGG 59.792 57.895 0.30 0.00 42.21 3.61
37 38 1.391485 CTAGCGCAGTTGCAGTACTTG 59.609 52.381 11.47 0.00 42.21 3.16
38 39 1.272490 TCTAGCGCAGTTGCAGTACTT 59.728 47.619 11.47 0.00 42.21 2.24
39 40 0.888619 TCTAGCGCAGTTGCAGTACT 59.111 50.000 11.47 0.00 42.21 2.73
40 41 1.272781 CTCTAGCGCAGTTGCAGTAC 58.727 55.000 11.47 0.00 42.21 2.73
41 42 0.888619 ACTCTAGCGCAGTTGCAGTA 59.111 50.000 11.47 0.00 42.21 2.74
42 43 0.034059 AACTCTAGCGCAGTTGCAGT 59.966 50.000 11.47 1.84 42.21 4.40
43 44 1.136141 CAAACTCTAGCGCAGTTGCAG 60.136 52.381 11.47 1.39 42.21 4.41
44 45 0.867746 CAAACTCTAGCGCAGTTGCA 59.132 50.000 11.47 0.00 42.21 4.08
45 46 0.453449 GCAAACTCTAGCGCAGTTGC 60.453 55.000 11.47 12.89 34.21 4.17
46 47 1.151668 AGCAAACTCTAGCGCAGTTG 58.848 50.000 11.47 7.17 34.21 3.16
47 48 1.884235 AAGCAAACTCTAGCGCAGTT 58.116 45.000 11.47 8.14 35.51 3.16
48 49 1.801178 GAAAGCAAACTCTAGCGCAGT 59.199 47.619 11.47 0.33 35.48 4.40
49 50 2.072298 AGAAAGCAAACTCTAGCGCAG 58.928 47.619 11.47 5.22 35.48 5.18
50 51 2.069273 GAGAAAGCAAACTCTAGCGCA 58.931 47.619 11.47 0.00 35.48 6.09
51 52 2.069273 TGAGAAAGCAAACTCTAGCGC 58.931 47.619 0.00 0.00 34.65 5.92
52 53 4.645956 CATTGAGAAAGCAAACTCTAGCG 58.354 43.478 0.00 0.00 34.65 4.26
53 54 4.410448 GCATTGAGAAAGCAAACTCTAGC 58.590 43.478 0.00 0.00 34.65 3.42
54 55 4.456911 TGGCATTGAGAAAGCAAACTCTAG 59.543 41.667 0.00 0.00 34.65 2.43
55 56 4.397420 TGGCATTGAGAAAGCAAACTCTA 58.603 39.130 0.00 0.00 34.65 2.43
56 57 3.225104 TGGCATTGAGAAAGCAAACTCT 58.775 40.909 0.00 0.00 34.65 3.24
57 58 3.254166 TCTGGCATTGAGAAAGCAAACTC 59.746 43.478 0.00 0.00 0.00 3.01
58 59 3.225104 TCTGGCATTGAGAAAGCAAACT 58.775 40.909 0.00 0.00 0.00 2.66
59 60 3.572584 CTCTGGCATTGAGAAAGCAAAC 58.427 45.455 0.00 0.00 33.68 2.93
60 61 2.559668 CCTCTGGCATTGAGAAAGCAAA 59.440 45.455 5.39 0.00 33.68 3.68
61 62 2.165167 CCTCTGGCATTGAGAAAGCAA 58.835 47.619 5.39 0.00 33.68 3.91
62 63 1.074405 ACCTCTGGCATTGAGAAAGCA 59.926 47.619 5.39 0.00 33.68 3.91
63 64 1.831580 ACCTCTGGCATTGAGAAAGC 58.168 50.000 5.39 0.00 33.68 3.51
64 65 4.187694 GACTACCTCTGGCATTGAGAAAG 58.812 47.826 5.39 5.01 33.68 2.62
65 66 3.055094 GGACTACCTCTGGCATTGAGAAA 60.055 47.826 5.39 0.00 33.68 2.52
66 67 2.501723 GGACTACCTCTGGCATTGAGAA 59.498 50.000 5.39 0.00 33.68 2.87
67 68 2.111384 GGACTACCTCTGGCATTGAGA 58.889 52.381 5.39 0.00 33.68 3.27
68 69 1.139853 GGGACTACCTCTGGCATTGAG 59.860 57.143 0.00 0.00 35.85 3.02
69 70 1.204146 GGGACTACCTCTGGCATTGA 58.796 55.000 0.00 0.00 35.85 2.57
70 71 0.911769 TGGGACTACCTCTGGCATTG 59.088 55.000 0.00 0.00 41.11 2.82
71 72 1.561542 CTTGGGACTACCTCTGGCATT 59.438 52.381 0.00 0.00 41.11 3.56
72 73 1.207791 CTTGGGACTACCTCTGGCAT 58.792 55.000 0.00 0.00 41.11 4.40
73 74 0.178903 ACTTGGGACTACCTCTGGCA 60.179 55.000 0.00 0.00 41.11 4.92
74 75 1.481363 GTACTTGGGACTACCTCTGGC 59.519 57.143 0.00 0.00 41.11 4.85
75 76 3.103080 AGTACTTGGGACTACCTCTGG 57.897 52.381 0.00 0.00 41.11 3.86
76 77 4.087182 TCAAGTACTTGGGACTACCTCTG 58.913 47.826 30.35 5.95 40.78 3.35
77 78 4.399483 TCAAGTACTTGGGACTACCTCT 57.601 45.455 30.35 0.00 40.78 3.69
78 79 4.141914 CCATCAAGTACTTGGGACTACCTC 60.142 50.000 30.35 0.00 40.78 3.85
79 80 3.775316 CCATCAAGTACTTGGGACTACCT 59.225 47.826 30.35 7.22 40.78 3.08
80 81 4.138487 CCATCAAGTACTTGGGACTACC 57.862 50.000 30.35 0.00 40.78 3.18
87 88 3.435671 GTCGTTTCCCATCAAGTACTTGG 59.564 47.826 30.35 18.48 40.78 3.61
88 89 3.435671 GGTCGTTTCCCATCAAGTACTTG 59.564 47.826 26.60 26.60 41.71 3.16
89 90 3.558533 GGGTCGTTTCCCATCAAGTACTT 60.559 47.826 1.12 1.12 46.30 2.24
90 91 2.027469 GGGTCGTTTCCCATCAAGTACT 60.027 50.000 0.00 0.00 46.30 2.73
91 92 2.353323 GGGTCGTTTCCCATCAAGTAC 58.647 52.381 7.88 0.00 46.30 2.73
92 93 2.773993 GGGTCGTTTCCCATCAAGTA 57.226 50.000 7.88 0.00 46.30 2.24
93 94 3.644861 GGGTCGTTTCCCATCAAGT 57.355 52.632 7.88 0.00 46.30 3.16
106 107 2.048503 GGTTGTCCACGAGGGTCG 60.049 66.667 0.00 0.00 46.93 4.79
107 108 2.346365 GGGTTGTCCACGAGGGTC 59.654 66.667 0.00 0.00 38.11 4.46
108 109 2.446994 TGGGTTGTCCACGAGGGT 60.447 61.111 0.00 0.00 41.46 4.34
109 110 2.347490 CTGGGTTGTCCACGAGGG 59.653 66.667 0.00 0.00 41.46 4.30
110 111 2.358737 GCTGGGTTGTCCACGAGG 60.359 66.667 0.00 0.00 41.46 4.63
111 112 1.374758 GAGCTGGGTTGTCCACGAG 60.375 63.158 0.00 0.00 41.46 4.18
112 113 2.741092 GAGCTGGGTTGTCCACGA 59.259 61.111 0.00 0.00 41.46 4.35
113 114 2.358737 GGAGCTGGGTTGTCCACG 60.359 66.667 0.00 0.00 41.46 4.94
114 115 2.836154 TGGAGCTGGGTTGTCCAC 59.164 61.111 0.00 0.00 41.46 4.02
115 116 2.075566 TGTGGAGCTGGGTTGTCCA 61.076 57.895 0.00 0.00 44.79 4.02
116 117 1.600916 GTGTGGAGCTGGGTTGTCC 60.601 63.158 0.00 0.00 0.00 4.02
117 118 0.179018 AAGTGTGGAGCTGGGTTGTC 60.179 55.000 0.00 0.00 0.00 3.18
118 119 0.466189 CAAGTGTGGAGCTGGGTTGT 60.466 55.000 0.00 0.00 0.00 3.32
119 120 1.799258 GCAAGTGTGGAGCTGGGTTG 61.799 60.000 0.00 0.00 0.00 3.77
120 121 1.529244 GCAAGTGTGGAGCTGGGTT 60.529 57.895 0.00 0.00 0.00 4.11
121 122 2.113986 GCAAGTGTGGAGCTGGGT 59.886 61.111 0.00 0.00 0.00 4.51
122 123 2.674380 GGCAAGTGTGGAGCTGGG 60.674 66.667 0.00 0.00 0.00 4.45
123 124 0.035152 TATGGCAAGTGTGGAGCTGG 60.035 55.000 0.00 0.00 0.00 4.85
124 125 2.048444 ATATGGCAAGTGTGGAGCTG 57.952 50.000 0.00 0.00 0.00 4.24
125 126 2.025981 TCAATATGGCAAGTGTGGAGCT 60.026 45.455 0.00 0.00 0.00 4.09
126 127 2.368439 TCAATATGGCAAGTGTGGAGC 58.632 47.619 0.00 0.00 0.00 4.70
127 128 5.450965 GGAAATCAATATGGCAAGTGTGGAG 60.451 44.000 0.00 0.00 0.00 3.86
128 129 4.402155 GGAAATCAATATGGCAAGTGTGGA 59.598 41.667 0.00 0.00 0.00 4.02
129 130 4.403432 AGGAAATCAATATGGCAAGTGTGG 59.597 41.667 0.00 0.00 0.00 4.17
130 131 5.125900 TCAGGAAATCAATATGGCAAGTGTG 59.874 40.000 0.00 0.00 0.00 3.82
131 132 5.263599 TCAGGAAATCAATATGGCAAGTGT 58.736 37.500 0.00 0.00 0.00 3.55
132 133 5.840243 TCAGGAAATCAATATGGCAAGTG 57.160 39.130 0.00 0.00 0.00 3.16
133 134 8.716674 ATAATCAGGAAATCAATATGGCAAGT 57.283 30.769 0.00 0.00 0.00 3.16
134 135 9.419297 CAATAATCAGGAAATCAATATGGCAAG 57.581 33.333 0.00 0.00 0.00 4.01
135 136 7.874016 GCAATAATCAGGAAATCAATATGGCAA 59.126 33.333 0.00 0.00 0.00 4.52
136 137 7.015389 TGCAATAATCAGGAAATCAATATGGCA 59.985 33.333 0.00 0.00 0.00 4.92
137 138 7.380536 TGCAATAATCAGGAAATCAATATGGC 58.619 34.615 0.00 0.00 0.00 4.40
138 139 9.582431 GATGCAATAATCAGGAAATCAATATGG 57.418 33.333 0.00 0.00 0.00 2.74
145 146 9.635520 CCAATAAGATGCAATAATCAGGAAATC 57.364 33.333 0.00 0.00 0.00 2.17
146 147 8.591072 CCCAATAAGATGCAATAATCAGGAAAT 58.409 33.333 0.00 0.00 0.00 2.17
147 148 7.784073 TCCCAATAAGATGCAATAATCAGGAAA 59.216 33.333 0.00 0.00 0.00 3.13
148 149 7.296856 TCCCAATAAGATGCAATAATCAGGAA 58.703 34.615 0.00 0.00 0.00 3.36
149 150 6.851318 TCCCAATAAGATGCAATAATCAGGA 58.149 36.000 0.00 0.00 0.00 3.86
150 151 6.152323 CCTCCCAATAAGATGCAATAATCAGG 59.848 42.308 0.00 0.00 0.00 3.86
151 152 6.152323 CCCTCCCAATAAGATGCAATAATCAG 59.848 42.308 0.00 0.00 0.00 2.90
152 153 6.012113 CCCTCCCAATAAGATGCAATAATCA 58.988 40.000 0.00 0.00 0.00 2.57
153 154 5.105595 GCCCTCCCAATAAGATGCAATAATC 60.106 44.000 0.00 0.00 0.00 1.75
154 155 4.774200 GCCCTCCCAATAAGATGCAATAAT 59.226 41.667 0.00 0.00 0.00 1.28
155 156 4.151883 GCCCTCCCAATAAGATGCAATAA 58.848 43.478 0.00 0.00 0.00 1.40
156 157 3.139957 TGCCCTCCCAATAAGATGCAATA 59.860 43.478 0.00 0.00 0.00 1.90
157 158 2.091166 TGCCCTCCCAATAAGATGCAAT 60.091 45.455 0.00 0.00 0.00 3.56
158 159 1.287442 TGCCCTCCCAATAAGATGCAA 59.713 47.619 0.00 0.00 0.00 4.08
159 160 0.925558 TGCCCTCCCAATAAGATGCA 59.074 50.000 0.00 0.00 0.00 3.96
160 161 1.613836 CTGCCCTCCCAATAAGATGC 58.386 55.000 0.00 0.00 0.00 3.91
161 162 1.144503 AGCTGCCCTCCCAATAAGATG 59.855 52.381 0.00 0.00 0.00 2.90
162 163 1.144503 CAGCTGCCCTCCCAATAAGAT 59.855 52.381 0.00 0.00 0.00 2.40
163 164 0.548031 CAGCTGCCCTCCCAATAAGA 59.452 55.000 0.00 0.00 0.00 2.10
164 165 0.548031 TCAGCTGCCCTCCCAATAAG 59.452 55.000 9.47 0.00 0.00 1.73
165 166 1.225373 ATCAGCTGCCCTCCCAATAA 58.775 50.000 9.47 0.00 0.00 1.40
166 167 1.225373 AATCAGCTGCCCTCCCAATA 58.775 50.000 9.47 0.00 0.00 1.90
167 168 0.337428 AAATCAGCTGCCCTCCCAAT 59.663 50.000 9.47 0.00 0.00 3.16
168 169 0.114954 AAAATCAGCTGCCCTCCCAA 59.885 50.000 9.47 0.00 0.00 4.12
169 170 0.323725 GAAAATCAGCTGCCCTCCCA 60.324 55.000 9.47 0.00 0.00 4.37
170 171 0.033699 AGAAAATCAGCTGCCCTCCC 60.034 55.000 9.47 0.00 0.00 4.30
171 172 1.340405 TGAGAAAATCAGCTGCCCTCC 60.340 52.381 9.47 0.00 32.77 4.30
172 173 2.119801 TGAGAAAATCAGCTGCCCTC 57.880 50.000 9.47 10.62 32.77 4.30
173 174 2.822707 ATGAGAAAATCAGCTGCCCT 57.177 45.000 9.47 0.77 42.53 5.19
174 175 3.282021 TGTATGAGAAAATCAGCTGCCC 58.718 45.455 9.47 0.00 42.53 5.36
175 176 3.944015 ACTGTATGAGAAAATCAGCTGCC 59.056 43.478 9.47 0.00 42.53 4.85
176 177 4.633126 TGACTGTATGAGAAAATCAGCTGC 59.367 41.667 9.47 0.00 42.53 5.25
177 178 6.922247 ATGACTGTATGAGAAAATCAGCTG 57.078 37.500 7.63 7.63 42.53 4.24
178 179 9.107177 CTTTATGACTGTATGAGAAAATCAGCT 57.893 33.333 0.00 0.00 42.53 4.24
179 180 8.341173 CCTTTATGACTGTATGAGAAAATCAGC 58.659 37.037 0.00 0.00 42.53 4.26
180 181 8.341173 GCCTTTATGACTGTATGAGAAAATCAG 58.659 37.037 0.00 0.00 42.53 2.90
181 182 7.011389 CGCCTTTATGACTGTATGAGAAAATCA 59.989 37.037 0.00 0.00 43.70 2.57
182 183 7.224753 TCGCCTTTATGACTGTATGAGAAAATC 59.775 37.037 0.00 0.00 0.00 2.17
183 184 7.047891 TCGCCTTTATGACTGTATGAGAAAAT 58.952 34.615 0.00 0.00 0.00 1.82
184 185 6.403049 TCGCCTTTATGACTGTATGAGAAAA 58.597 36.000 0.00 0.00 0.00 2.29
185 186 5.972935 TCGCCTTTATGACTGTATGAGAAA 58.027 37.500 0.00 0.00 0.00 2.52
186 187 5.592104 TCGCCTTTATGACTGTATGAGAA 57.408 39.130 0.00 0.00 0.00 2.87
187 188 5.592104 TTCGCCTTTATGACTGTATGAGA 57.408 39.130 0.00 0.00 0.00 3.27
188 189 5.406780 GGATTCGCCTTTATGACTGTATGAG 59.593 44.000 0.00 0.00 0.00 2.90
189 190 5.163353 TGGATTCGCCTTTATGACTGTATGA 60.163 40.000 0.00 0.00 37.63 2.15
190 191 5.050091 GTGGATTCGCCTTTATGACTGTATG 60.050 44.000 0.00 0.00 37.63 2.39
191 192 5.057149 GTGGATTCGCCTTTATGACTGTAT 58.943 41.667 0.00 0.00 37.63 2.29
192 193 4.439057 GTGGATTCGCCTTTATGACTGTA 58.561 43.478 0.00 0.00 37.63 2.74
193 194 3.270877 GTGGATTCGCCTTTATGACTGT 58.729 45.455 0.00 0.00 37.63 3.55
194 195 2.614057 GGTGGATTCGCCTTTATGACTG 59.386 50.000 0.00 0.00 40.31 3.51
195 196 2.421529 GGGTGGATTCGCCTTTATGACT 60.422 50.000 2.93 0.00 42.95 3.41
196 197 1.947456 GGGTGGATTCGCCTTTATGAC 59.053 52.381 2.93 0.00 42.95 3.06
197 198 1.562008 TGGGTGGATTCGCCTTTATGA 59.438 47.619 2.93 0.00 42.95 2.15
198 199 2.051334 TGGGTGGATTCGCCTTTATG 57.949 50.000 2.93 0.00 42.95 1.90
199 200 2.758423 GTTTGGGTGGATTCGCCTTTAT 59.242 45.455 2.93 0.00 42.95 1.40
200 201 2.164338 GTTTGGGTGGATTCGCCTTTA 58.836 47.619 2.93 0.00 42.95 1.85
201 202 0.966179 GTTTGGGTGGATTCGCCTTT 59.034 50.000 2.93 0.00 42.95 3.11
202 203 0.178975 TGTTTGGGTGGATTCGCCTT 60.179 50.000 2.93 0.00 42.95 4.35
261 262 1.938016 GCCCAAGCAACAAGCATGAAG 60.938 52.381 0.00 0.00 44.41 3.02
262 263 0.033781 GCCCAAGCAACAAGCATGAA 59.966 50.000 0.00 0.00 44.41 2.57
263 264 1.667151 GCCCAAGCAACAAGCATGA 59.333 52.632 0.00 0.00 44.41 3.07
301 341 7.214467 TGTTTTCTTTCTTCAGTTTGTGTCT 57.786 32.000 0.00 0.00 0.00 3.41
360 400 6.478129 AGGGAGAAATTTAAACATACGTGGA 58.522 36.000 0.00 0.00 0.00 4.02
389 429 9.750125 GATTTTCTTTTCTTCAGCTAAAAGGAA 57.250 29.630 15.92 12.32 41.12 3.36
401 441 8.678199 ACGGGAATATGAGATTTTCTTTTCTTC 58.322 33.333 0.00 0.00 0.00 2.87
411 451 8.881262 AGGAAATACTACGGGAATATGAGATTT 58.119 33.333 0.00 0.00 0.00 2.17
422 462 5.395990 CCAGCTAAAAGGAAATACTACGGGA 60.396 44.000 0.00 0.00 0.00 5.14
426 466 8.788325 TTCTTCCAGCTAAAAGGAAATACTAC 57.212 34.615 4.92 0.00 42.91 2.73
429 469 8.793592 TCTTTTCTTCCAGCTAAAAGGAAATAC 58.206 33.333 15.34 0.00 42.91 1.89
446 486 8.581253 TGGGAATAGGAGATTTTCTTTTCTTC 57.419 34.615 0.00 0.00 0.00 2.87
483 523 8.347004 TCATCACACTTGCCAAAATATCTTTA 57.653 30.769 0.00 0.00 0.00 1.85
484 524 7.230849 TCATCACACTTGCCAAAATATCTTT 57.769 32.000 0.00 0.00 0.00 2.52
485 525 6.839124 TCATCACACTTGCCAAAATATCTT 57.161 33.333 0.00 0.00 0.00 2.40
486 526 6.839124 TTCATCACACTTGCCAAAATATCT 57.161 33.333 0.00 0.00 0.00 1.98
487 527 8.483307 AAATTCATCACACTTGCCAAAATATC 57.517 30.769 0.00 0.00 0.00 1.63
490 530 7.571080 AAAAATTCATCACACTTGCCAAAAT 57.429 28.000 0.00 0.00 0.00 1.82
492 532 8.674263 AATAAAAATTCATCACACTTGCCAAA 57.326 26.923 0.00 0.00 0.00 3.28
493 533 8.674263 AAATAAAAATTCATCACACTTGCCAA 57.326 26.923 0.00 0.00 0.00 4.52
494 534 8.674263 AAAATAAAAATTCATCACACTTGCCA 57.326 26.923 0.00 0.00 0.00 4.92
528 568 2.092429 TCTATTCATCACACTTGCCCCC 60.092 50.000 0.00 0.00 0.00 5.40
529 569 2.945668 GTCTATTCATCACACTTGCCCC 59.054 50.000 0.00 0.00 0.00 5.80
530 570 3.624861 CAGTCTATTCATCACACTTGCCC 59.375 47.826 0.00 0.00 0.00 5.36
587 2386 3.078097 GTCTGTAGAGCTGAGAGTGACA 58.922 50.000 0.00 0.00 0.00 3.58
621 2420 2.930019 CCTCCCTCTGTGGTGGCA 60.930 66.667 0.00 0.00 32.64 4.92
623 2422 2.650116 CGTCCTCCCTCTGTGGTGG 61.650 68.421 0.00 0.00 39.86 4.61
624 2423 1.599606 CTCGTCCTCCCTCTGTGGTG 61.600 65.000 0.00 0.00 0.00 4.17
625 2424 1.304547 CTCGTCCTCCCTCTGTGGT 60.305 63.158 0.00 0.00 0.00 4.16
626 2425 1.000771 TCTCGTCCTCCCTCTGTGG 60.001 63.158 0.00 0.00 0.00 4.17
627 2426 1.649390 CGTCTCGTCCTCCCTCTGTG 61.649 65.000 0.00 0.00 0.00 3.66
628 2427 1.377463 CGTCTCGTCCTCCCTCTGT 60.377 63.158 0.00 0.00 0.00 3.41
629 2428 1.377463 ACGTCTCGTCCTCCCTCTG 60.377 63.158 0.00 0.00 33.69 3.35
630 2429 3.079728 ACGTCTCGTCCTCCCTCT 58.920 61.111 0.00 0.00 33.69 3.69
684 2483 2.035321 GCCCAAGATTTTGTTCCAACGA 59.965 45.455 0.00 0.00 32.21 3.85
708 2507 1.636988 CGGAGTGTATTGGACGGTTC 58.363 55.000 0.00 0.00 0.00 3.62
715 2514 1.153168 CCAGGCCGGAGTGTATTGG 60.153 63.158 5.05 0.00 36.56 3.16
872 4464 1.011968 TGCGTCGGACGGATCAAAAG 61.012 55.000 29.30 1.32 42.82 2.27
997 4593 0.251916 TTAGCTGCTAACGCCATGGT 59.748 50.000 17.67 0.00 34.43 3.55
1265 4866 4.322567 ACAACAACAAACACCAAGCAATT 58.677 34.783 0.00 0.00 0.00 2.32
1282 4883 1.073025 CACCAGGCAGCCTACAACA 59.927 57.895 15.64 0.00 29.64 3.33
1435 5036 8.593945 TTGCAGGAATTAATAAAGAGGTCAAT 57.406 30.769 0.00 0.00 0.00 2.57
1521 5166 5.354234 TGGTTTCTCACTCTGTTTTTCACTC 59.646 40.000 0.00 0.00 0.00 3.51
1523 5168 5.560966 TGGTTTCTCACTCTGTTTTTCAC 57.439 39.130 0.00 0.00 0.00 3.18
1546 5191 7.340232 CCCCTATCAAAATTCAGAAGTCATGAA 59.660 37.037 0.00 0.00 40.72 2.57
1570 5215 1.605753 GTATCGCCCTTCCATTTCCC 58.394 55.000 0.00 0.00 0.00 3.97
1624 5275 9.872684 ATTTGGATCAATAGTTCCTGTCATATT 57.127 29.630 0.00 0.00 35.14 1.28
1658 5312 0.039256 TTTGCTGGCGTTGAGATTGC 60.039 50.000 0.00 0.00 0.00 3.56
1680 5334 8.481314 TCTTATGGAGCTGATATGTTGGATATC 58.519 37.037 0.00 0.00 0.00 1.63
1734 5388 5.337652 GGTTTCTGTGGTAAGAGTGCTATCT 60.338 44.000 0.00 0.00 0.00 1.98
1742 5396 5.530915 TCATGTTTGGTTTCTGTGGTAAGAG 59.469 40.000 0.00 0.00 0.00 2.85
1849 5558 1.686355 AGTCAAATTTCGTGGCACCA 58.314 45.000 12.86 0.00 0.00 4.17
1950 5667 7.730084 TCTGAGTTACTGGATGATTCTTATGG 58.270 38.462 0.00 0.00 0.00 2.74
1992 5711 9.559958 GTCCTGTTTGAAATCATTATTACAGTG 57.440 33.333 0.00 0.00 32.07 3.66
2001 5720 6.547141 TCAGTCTTGTCCTGTTTGAAATCATT 59.453 34.615 0.00 0.00 0.00 2.57
2002 5721 6.016777 GTCAGTCTTGTCCTGTTTGAAATCAT 60.017 38.462 0.00 0.00 0.00 2.45
2003 5722 5.296780 GTCAGTCTTGTCCTGTTTGAAATCA 59.703 40.000 0.00 0.00 0.00 2.57
2006 5725 3.945285 GGTCAGTCTTGTCCTGTTTGAAA 59.055 43.478 0.00 0.00 30.86 2.69
2033 5752 2.093764 GGAGGATCAGAGTTGTGACAGG 60.094 54.545 0.00 0.00 36.25 4.00
2040 5759 4.484537 AATCTGTGGAGGATCAGAGTTG 57.515 45.455 0.00 0.00 42.67 3.16
2131 5850 1.667724 CCCGCAAGTGAAGCTTCTATG 59.332 52.381 26.09 20.88 34.69 2.23
2254 5980 8.180267 GGTATCTGTTCAGATTTGAGAATTGTG 58.820 37.037 18.43 0.00 34.15 3.33
2309 6035 4.155644 GCATTCTCTATATCTTTGGCCAGC 59.844 45.833 5.11 0.00 0.00 4.85
2312 6038 4.569943 TCGCATTCTCTATATCTTTGGCC 58.430 43.478 0.00 0.00 0.00 5.36
2445 6171 0.251341 GCCAACCTCCCTGTGATTGT 60.251 55.000 0.00 0.00 0.00 2.71
2637 6363 6.216801 TCTGACGTGCTACACCTTTATTAT 57.783 37.500 0.00 0.00 0.00 1.28
2655 6381 5.724328 TGTAAGAGACCATTGTGATCTGAC 58.276 41.667 0.00 0.00 0.00 3.51
2875 6605 6.447162 CGTATACTGCAGACAAGGATCAATA 58.553 40.000 23.35 0.00 0.00 1.90
2935 6665 3.191581 TCTGTCGGAAAACTGCAAAAACA 59.808 39.130 0.00 0.00 0.00 2.83
2948 6678 6.497785 TTTTTGTTAAACACTCTGTCGGAA 57.502 33.333 0.00 0.00 0.00 4.30
2973 6861 5.144100 ACAAGATTGGTTGGAATGTGGTAA 58.856 37.500 0.00 0.00 0.00 2.85
2991 6879 4.142790 AGAGTGGTAGTTTCTCGACAAGA 58.857 43.478 0.00 0.00 33.96 3.02
2993 6881 4.823442 TGTAGAGTGGTAGTTTCTCGACAA 59.177 41.667 0.00 0.00 39.47 3.18
2996 6884 6.395426 TTTTGTAGAGTGGTAGTTTCTCGA 57.605 37.500 0.00 0.00 33.96 4.04
2997 6885 7.653767 ATTTTTGTAGAGTGGTAGTTTCTCG 57.346 36.000 0.00 0.00 33.96 4.04
3008 6896 8.316640 AGTTCTCTGCTAATTTTTGTAGAGTG 57.683 34.615 15.26 0.00 41.06 3.51
3024 6912 2.748532 ACGTAGAGTGGTAGTTCTCTGC 59.251 50.000 5.15 3.19 40.61 4.26
3138 7026 0.597568 TCCATGGCAGCGTTTTTCTG 59.402 50.000 6.96 0.00 34.79 3.02
3180 7068 6.992123 TCTGTATTATTTCCATGTTCTGCGAT 59.008 34.615 0.00 0.00 0.00 4.58
3277 7165 6.154445 GGCTTGGTTGATATAGATGCAATTG 58.846 40.000 0.00 0.00 0.00 2.32
3305 7193 8.519492 TGCTTTTATATTGCAGAAAAGTGTTC 57.481 30.769 18.45 8.78 44.02 3.18
3349 7237 6.697019 GTGCAAGCCAATATATGTTTACTTGG 59.303 38.462 18.10 5.00 39.47 3.61
3381 7277 6.873605 TGCGTATTTCCTATCCAACTCATATG 59.126 38.462 0.00 0.00 0.00 1.78
3388 7284 3.311596 GTGGTGCGTATTTCCTATCCAAC 59.688 47.826 0.00 0.00 0.00 3.77


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

AutoCloner maintained by Alex Coulton.