Multiple sequence alignment - TraesCS6A01G116800

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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 TraesCS6A01G116800 chr6A 100.000 2869 0 0 1 2869 87313342 87310474 0.000000e+00 5299.0
1 TraesCS6A01G116800 chr6A 88.285 939 63 12 934 1843 87497359 87496439 0.000000e+00 1081.0
2 TraesCS6A01G116800 chr6A 79.909 438 52 13 2378 2813 87493612 87493209 3.620000e-74 289.0
3 TraesCS6A01G116800 chr6A 90.909 187 17 0 169 355 530041978 530042164 4.750000e-63 252.0
4 TraesCS6A01G116800 chr6A 97.959 98 2 0 1911 2008 87311335 87311432 1.370000e-38 171.0
5 TraesCS6A01G116800 chr6A 83.333 180 28 2 597 775 485159408 485159586 6.360000e-37 165.0
6 TraesCS6A01G116800 chr6A 82.540 126 13 8 2016 2139 538097828 538097710 5.060000e-18 102.0
7 TraesCS6A01G116800 chr6A 82.569 109 13 5 2013 2121 47141528 47141630 1.090000e-14 91.6
8 TraesCS6A01G116800 chr6D 90.604 1969 112 24 3 1910 69272014 69270058 0.000000e+00 2543.0
9 TraesCS6A01G116800 chr6D 88.889 1026 71 16 911 1910 69299230 69298222 0.000000e+00 1223.0
10 TraesCS6A01G116800 chr6D 79.782 643 97 18 172 786 343136552 343137189 1.220000e-118 436.0
11 TraesCS6A01G116800 chr6D 80.580 448 61 8 169 594 147892850 147893293 3.570000e-84 322.0
12 TraesCS6A01G116800 chr6D 83.916 286 26 11 2246 2524 69269671 69269399 3.670000e-64 255.0
13 TraesCS6A01G116800 chr6D 91.837 147 10 2 2390 2535 69296079 69295934 1.350000e-48 204.0
14 TraesCS6A01G116800 chr6D 83.186 113 13 4 2012 2124 349988588 349988482 6.540000e-17 99.0
15 TraesCS6A01G116800 chr6D 83.486 109 12 5 2016 2124 296197002 296196900 2.350000e-16 97.1
16 TraesCS6A01G116800 chr6D 81.746 126 14 8 2016 2139 392273223 392273105 2.350000e-16 97.1
17 TraesCS6A01G116800 chr6D 82.727 110 13 5 2016 2125 320698228 320698125 3.040000e-15 93.5
18 TraesCS6A01G116800 chr6D 81.651 109 14 5 2013 2121 27511166 27511268 5.090000e-13 86.1
19 TraesCS6A01G116800 chr6D 78.676 136 21 4 2005 2139 48676056 48675928 1.830000e-12 84.2
20 TraesCS6A01G116800 chr6B 88.619 1028 74 17 914 1910 144372427 144371412 0.000000e+00 1210.0
21 TraesCS6A01G116800 chr6B 81.932 559 57 22 2249 2774 144370987 144370440 1.580000e-117 433.0
22 TraesCS6A01G116800 chr6B 76.333 600 105 20 170 743 692644771 692644183 1.300000e-73 287.0
23 TraesCS6A01G116800 chr6B 84.444 90 13 1 2143 2231 585569664 585569753 1.420000e-13 87.9
24 TraesCS6A01G116800 chr6B 85.897 78 11 0 2154 2231 269946971 269946894 1.830000e-12 84.2
25 TraesCS6A01G116800 chr6B 84.615 78 12 0 2154 2231 183308378 183308301 8.520000e-11 78.7
26 TraesCS6A01G116800 chr6B 95.745 47 0 2 2549 2595 144370706 144370662 1.100000e-09 75.0
27 TraesCS6A01G116800 chr3B 83.363 559 88 5 1154 1711 51062687 51062133 1.970000e-141 512.0
28 TraesCS6A01G116800 chr3B 78.319 678 98 23 169 803 425370874 425371545 2.680000e-105 392.0
29 TraesCS6A01G116800 chr3B 91.667 108 7 2 1909 2014 763345321 763345428 6.400000e-32 148.0
30 TraesCS6A01G116800 chr3B 89.720 107 9 2 1902 2007 612718901 612718796 4.990000e-28 135.0
31 TraesCS6A01G116800 chr3B 90.385 104 9 1 1908 2010 738105017 738104914 4.990000e-28 135.0
32 TraesCS6A01G116800 chr3B 91.000 100 7 2 1911 2008 763345422 763345323 1.790000e-27 134.0
33 TraesCS6A01G116800 chr3B 90.909 77 7 0 2155 2231 379353214 379353138 1.410000e-18 104.0
34 TraesCS6A01G116800 chr4D 80.157 635 85 20 157 763 450534053 450534674 1.220000e-118 436.0
35 TraesCS6A01G116800 chr4D 91.429 105 8 1 1911 2014 72580999 72581103 2.980000e-30 143.0
36 TraesCS6A01G116800 chr4D 90.816 98 8 1 1912 2008 72581096 72580999 2.320000e-26 130.0
37 TraesCS6A01G116800 chr4D 89.796 98 7 3 1912 2007 499455048 499454952 3.880000e-24 122.0
38 TraesCS6A01G116800 chr4D 88.235 102 6 5 1912 2007 475120366 475120265 1.810000e-22 117.0
39 TraesCS6A01G116800 chr4D 88.776 98 8 3 1912 2007 499454952 499455048 1.810000e-22 117.0
40 TraesCS6A01G116800 chr4D 86.667 105 8 3 1909 2007 475120262 475120366 8.400000e-21 111.0
41 TraesCS6A01G116800 chr4D 83.200 125 15 4 2016 2139 119822897 119822778 3.020000e-20 110.0
42 TraesCS6A01G116800 chr4D 81.102 127 14 8 2016 2139 74079501 74079382 3.040000e-15 93.5
43 TraesCS6A01G116800 chr4D 80.909 110 15 5 2013 2122 4772132 4772235 6.590000e-12 82.4
44 TraesCS6A01G116800 chr4D 83.168 101 6 2 1911 2010 101653919 101653829 6.590000e-12 82.4
45 TraesCS6A01G116800 chr4D 79.646 113 17 5 2012 2124 483111488 483111382 3.070000e-10 76.8
46 TraesCS6A01G116800 chr4D 79.167 120 16 8 2020 2137 168219330 168219218 1.100000e-09 75.0
47 TraesCS6A01G116800 chr4D 79.630 108 16 5 2017 2124 8782447 8782346 3.970000e-09 73.1
48 TraesCS6A01G116800 chr7D 79.717 636 86 19 190 784 483874851 483875484 1.230000e-113 420.0
49 TraesCS6A01G116800 chr7D 79.005 643 78 24 169 784 484296266 484295654 1.250000e-103 387.0
50 TraesCS6A01G116800 chr7D 82.842 373 48 7 166 531 258190835 258191198 1.280000e-83 320.0
51 TraesCS6A01G116800 chr7D 92.857 98 6 1 1912 2008 182833458 182833555 1.070000e-29 141.0
52 TraesCS6A01G116800 chr7D 90.816 98 8 1 1911 2007 182833555 182833458 2.320000e-26 130.0
53 TraesCS6A01G116800 chr7D 88.312 77 9 0 2154 2230 128145378 128145302 3.040000e-15 93.5
54 TraesCS6A01G116800 chr7D 79.851 134 22 4 2009 2141 562640927 562641056 3.040000e-15 93.5
55 TraesCS6A01G116800 chr7D 85.714 84 10 2 2152 2233 539948277 539948360 1.420000e-13 87.9
56 TraesCS6A01G116800 chr7D 84.416 77 10 1 2155 2231 421407697 421407771 1.100000e-09 75.0
57 TraesCS6A01G116800 chr7B 79.288 618 101 13 181 775 200709485 200710098 9.570000e-110 407.0
58 TraesCS6A01G116800 chr7B 93.023 172 11 1 1 171 184394672 184394843 1.710000e-62 250.0
59 TraesCS6A01G116800 chr7B 91.176 102 5 3 1911 2010 104001225 104001324 4.990000e-28 135.0
60 TraesCS6A01G116800 chr7B 83.333 90 10 4 2142 2231 437670399 437670483 8.520000e-11 78.7
61 TraesCS6A01G116800 chr7B 100.000 32 0 0 2193 2224 642469980 642469949 3.090000e-05 60.2
62 TraesCS6A01G116800 chr2B 78.797 632 103 17 169 775 772231152 772231777 2.070000e-106 396.0
63 TraesCS6A01G116800 chr2B 86.441 118 13 3 1892 2007 793913995 793913879 3.000000e-25 126.0
64 TraesCS6A01G116800 chr2B 81.250 128 18 5 2012 2139 288939923 288939802 6.540000e-17 99.0
65 TraesCS6A01G116800 chr2B 85.714 84 12 0 2154 2237 403702301 403702384 3.940000e-14 89.8
66 TraesCS6A01G116800 chr5A 78.773 603 77 21 169 724 556690965 556690367 9.780000e-95 357.0
67 TraesCS6A01G116800 chr2A 78.662 553 106 9 1132 1678 622275631 622276177 9.780000e-95 357.0
68 TraesCS6A01G116800 chr2A 91.716 169 12 2 2 169 613447773 613447940 1.720000e-57 233.0
69 TraesCS6A01G116800 chr2A 90.385 104 9 1 1905 2007 123533370 123533267 4.990000e-28 135.0
70 TraesCS6A01G116800 chr2A 86.905 84 11 0 2154 2237 446072074 446072157 8.460000e-16 95.3
71 TraesCS6A01G116800 chr2D 79.789 475 92 4 1206 1678 480070111 480070583 2.740000e-90 342.0
72 TraesCS6A01G116800 chr2D 92.486 173 10 3 2 172 207206433 207206262 7.940000e-61 244.0
73 TraesCS6A01G116800 chr2D 92.899 169 11 1 2 169 472097362 472097530 7.940000e-61 244.0
74 TraesCS6A01G116800 chr2D 79.518 332 52 10 535 851 543517716 543517386 3.720000e-54 222.0
75 TraesCS6A01G116800 chr2D 88.073 109 12 1 1904 2011 13147614 13147722 8.340000e-26 128.0
76 TraesCS6A01G116800 chr2D 84.211 95 12 3 2143 2237 335689717 335689808 3.940000e-14 89.8
77 TraesCS6A01G116800 chr1D 79.258 458 66 10 172 610 424726180 424726627 2.800000e-75 292.0
78 TraesCS6A01G116800 chr1D 77.778 369 68 12 1205 1566 459278577 459278216 6.230000e-52 215.0
79 TraesCS6A01G116800 chr1D 90.196 102 7 3 1912 2011 472517779 472517879 2.320000e-26 130.0
80 TraesCS6A01G116800 chr1D 90.816 98 8 1 1911 2007 472517876 472517779 2.320000e-26 130.0
81 TraesCS6A01G116800 chr1D 90.722 97 8 1 1912 2007 447257627 447257723 8.340000e-26 128.0
82 TraesCS6A01G116800 chr1D 91.304 92 7 1 1918 2008 125314012 125313921 1.080000e-24 124.0
83 TraesCS6A01G116800 chr1D 89.362 94 9 1 1909 2001 125313919 125314012 1.810000e-22 117.0
84 TraesCS6A01G116800 chr1D 84.466 103 10 4 2016 2118 250071928 250071832 2.350000e-16 97.1
85 TraesCS6A01G116800 chr1D 82.569 109 13 4 2013 2121 386431958 386432060 1.090000e-14 91.6
86 TraesCS6A01G116800 chr1D 93.182 44 1 2 2188 2230 116549165 116549207 2.390000e-06 63.9
87 TraesCS6A01G116800 chr5B 76.883 571 74 24 286 803 293244020 293243455 1.310000e-68 270.0
88 TraesCS6A01G116800 chr5B 77.944 467 63 15 169 613 359489309 359488861 3.670000e-64 255.0
89 TraesCS6A01G116800 chr5B 91.124 169 13 2 2 169 149501938 149502105 8.000000e-56 228.0
90 TraesCS6A01G116800 chr5B 87.640 89 5 3 452 534 419769124 419769212 6.540000e-17 99.0
91 TraesCS6A01G116800 chr5B 87.342 79 9 1 2154 2231 461614485 461614407 3.940000e-14 89.8
92 TraesCS6A01G116800 chr5B 85.915 71 8 1 2154 2222 230882904 230882834 1.100000e-09 75.0
93 TraesCS6A01G116800 chr1A 80.441 363 61 6 169 525 544810062 544810420 4.710000e-68 268.0
94 TraesCS6A01G116800 chr1A 91.228 171 13 2 3 172 371819299 371819130 6.180000e-57 231.0
95 TraesCS6A01G116800 chr1A 92.929 99 6 1 1911 2008 561333795 561333697 2.980000e-30 143.0
96 TraesCS6A01G116800 chr1A 91.089 101 8 1 1911 2010 561333697 561333797 4.990000e-28 135.0
97 TraesCS6A01G116800 chr1A 80.159 126 15 9 2016 2139 555641111 555641228 5.090000e-13 86.1
98 TraesCS6A01G116800 chr1A 93.182 44 1 2 2188 2230 127760317 127760359 2.390000e-06 63.9
99 TraesCS6A01G116800 chr5D 83.274 281 45 2 214 493 203071827 203071548 1.020000e-64 257.0
100 TraesCS6A01G116800 chr5D 86.239 109 10 4 2013 2121 220683190 220683293 2.340000e-21 113.0
101 TraesCS6A01G116800 chr5D 85.185 108 13 3 2016 2121 8028443 8028337 1.090000e-19 108.0
102 TraesCS6A01G116800 chr5D 82.540 126 14 4 2016 2139 175300054 175299935 1.410000e-18 104.0
103 TraesCS6A01G116800 chr5D 86.076 79 7 2 2154 2231 215257066 215256991 6.590000e-12 82.4
104 TraesCS6A01G116800 chr4A 75.038 657 103 29 169 775 654780447 654781092 6.140000e-62 248.0
105 TraesCS6A01G116800 chr4A 73.602 644 113 24 169 764 654702429 654703063 8.110000e-46 195.0
106 TraesCS6A01G116800 chr7A 92.941 170 10 2 2 169 530656827 530656996 2.210000e-61 246.0
107 TraesCS6A01G116800 chr7A 92.353 170 10 3 2 169 205144782 205144614 3.690000e-59 239.0
108 TraesCS6A01G116800 chr7A 81.469 286 43 5 202 482 508570008 508569728 2.880000e-55 226.0
109 TraesCS6A01G116800 chr1B 77.717 368 70 10 1205 1566 631235841 631235480 6.230000e-52 215.0
110 TraesCS6A01G116800 chr1B 77.023 383 54 11 169 532 593905454 593905087 3.770000e-44 189.0
111 TraesCS6A01G116800 chr1B 77.559 254 39 11 291 532 37056319 37056566 1.390000e-28 137.0
112 TraesCS6A01G116800 chr1B 90.385 104 9 1 1909 2011 332795417 332795314 4.990000e-28 135.0
113 TraesCS6A01G116800 chr1B 81.538 130 18 6 2012 2139 390622449 390622324 5.060000e-18 102.0
114 TraesCS6A01G116800 chr1B 87.879 66 8 0 2157 2222 670685954 670686019 8.520000e-11 78.7
115 TraesCS6A01G116800 chr1B 85.246 61 9 0 2171 2231 622705999 622705939 2.390000e-06 63.9
116 TraesCS6A01G116800 chr3D 77.389 314 43 15 298 589 365125312 365125005 8.230000e-36 161.0
117 TraesCS6A01G116800 chr3D 88.350 103 8 3 1912 2014 275995648 275995746 1.400000e-23 121.0
118 TraesCS6A01G116800 chr3D 81.395 129 15 8 2013 2139 447571838 447571959 2.350000e-16 97.1
119 TraesCS6A01G116800 chr3D 84.286 70 11 0 2162 2231 437486663 437486594 5.130000e-08 69.4
120 TraesCS6A01G116800 chr3A 90.909 77 7 0 2155 2231 375017285 375017209 1.410000e-18 104.0
121 TraesCS6A01G116800 chr3A 84.706 85 12 1 2152 2236 506918962 506918879 1.830000e-12 84.2
122 TraesCS6A01G116800 chr4B 81.600 125 16 6 2016 2139 438375330 438375212 2.350000e-16 97.1
123 TraesCS6A01G116800 chrUn 82.569 109 13 4 2013 2121 480163320 480163422 1.090000e-14 91.6
124 TraesCS6A01G116800 chrUn 79.688 128 19 4 2013 2139 96471030 96471151 5.090000e-13 86.1
125 TraesCS6A01G116800 chrUn 82.243 107 8 4 1912 2007 413840662 413840768 6.590000e-12 82.4
126 TraesCS6A01G116800 chrUn 82.828 99 7 1 1909 2007 17061868 17061956 2.370000e-11 80.5
127 TraesCS6A01G116800 chrUn 83.333 96 6 1 1912 2007 17061956 17061871 2.370000e-11 80.5
128 TraesCS6A01G116800 chrUn 78.906 128 20 6 2013 2139 126680478 126680599 2.370000e-11 80.5
129 TraesCS6A01G116800 chrUn 82.292 96 5 3 1906 2000 49241612 49241696 3.970000e-09 73.1
130 TraesCS6A01G116800 chrUn 83.146 89 5 1 1919 2007 49241696 49241618 3.970000e-09 73.1
131 TraesCS6A01G116800 chrUn 80.769 104 10 6 1912 2015 97193482 97193575 3.970000e-09 73.1
132 TraesCS6A01G116800 chrUn 80.556 108 8 6 1912 2007 413840768 413840662 1.430000e-08 71.3
133 TraesCS6A01G116800 chrUn 80.808 99 9 6 1912 2010 97193567 97193479 5.130000e-08 69.4
134 TraesCS6A01G116800 chrUn 97.297 37 1 0 2082 2118 339377965 339377929 2.390000e-06 63.9
135 TraesCS6A01G116800 chrUn 94.872 39 2 0 2080 2118 101942590 101942552 8.580000e-06 62.1
136 TraesCS6A01G116800 chrUn 96.875 32 1 0 1980 2011 136440450 136440419 1.000000e-03 54.7
137 TraesCS6A01G116800 chrUn 100.000 28 0 0 1912 1939 136440423 136440450 5.000000e-03 52.8


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 TraesCS6A01G116800 chr6A 87310474 87313342 2868 True 5299.000000 5299 100.000000 1 2869 1 chr6A.!!$R1 2868
1 TraesCS6A01G116800 chr6A 87493209 87497359 4150 True 685.000000 1081 84.097000 934 2813 2 chr6A.!!$R3 1879
2 TraesCS6A01G116800 chr6D 69269399 69272014 2615 True 1399.000000 2543 87.260000 3 2524 2 chr6D.!!$R6 2521
3 TraesCS6A01G116800 chr6D 69295934 69299230 3296 True 713.500000 1223 90.363000 911 2535 2 chr6D.!!$R7 1624
4 TraesCS6A01G116800 chr6D 343136552 343137189 637 False 436.000000 436 79.782000 172 786 1 chr6D.!!$F3 614
5 TraesCS6A01G116800 chr6B 144370440 144372427 1987 True 572.666667 1210 88.765333 914 2774 3 chr6B.!!$R4 1860
6 TraesCS6A01G116800 chr6B 692644183 692644771 588 True 287.000000 287 76.333000 170 743 1 chr6B.!!$R3 573
7 TraesCS6A01G116800 chr3B 51062133 51062687 554 True 512.000000 512 83.363000 1154 1711 1 chr3B.!!$R1 557
8 TraesCS6A01G116800 chr3B 425370874 425371545 671 False 392.000000 392 78.319000 169 803 1 chr3B.!!$F1 634
9 TraesCS6A01G116800 chr4D 450534053 450534674 621 False 436.000000 436 80.157000 157 763 1 chr4D.!!$F3 606
10 TraesCS6A01G116800 chr7D 483874851 483875484 633 False 420.000000 420 79.717000 190 784 1 chr7D.!!$F4 594
11 TraesCS6A01G116800 chr7D 484295654 484296266 612 True 387.000000 387 79.005000 169 784 1 chr7D.!!$R3 615
12 TraesCS6A01G116800 chr7B 200709485 200710098 613 False 407.000000 407 79.288000 181 775 1 chr7B.!!$F3 594
13 TraesCS6A01G116800 chr2B 772231152 772231777 625 False 396.000000 396 78.797000 169 775 1 chr2B.!!$F2 606
14 TraesCS6A01G116800 chr5A 556690367 556690965 598 True 357.000000 357 78.773000 169 724 1 chr5A.!!$R1 555
15 TraesCS6A01G116800 chr2A 622275631 622276177 546 False 357.000000 357 78.662000 1132 1678 1 chr2A.!!$F3 546
16 TraesCS6A01G116800 chr5B 293243455 293244020 565 True 270.000000 270 76.883000 286 803 1 chr5B.!!$R2 517
17 TraesCS6A01G116800 chr4A 654780447 654781092 645 False 248.000000 248 75.038000 169 775 1 chr4A.!!$F2 606

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
820 944 0.238817 TTGTCAAAATGTACGCGGGC 59.761 50.0 12.47 2.61 0.0 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2550 6636 0.251474 AGTTGATGTGCACATGGGCT 60.251 50.0 35.92 24.45 36.57 5.19 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
39 40 6.040955 TCTGCACAAAAATAACACCATGGTAA 59.959 34.615 19.28 6.64 0.00 2.85
54 55 5.304101 ACCATGGTAATTCTGCTGAAAACAA 59.696 36.000 18.10 6.01 35.63 2.83
84 85 4.461081 CCCGGGTTAGTTTCATTCAAATCA 59.539 41.667 14.18 0.00 0.00 2.57
222 226 2.997897 GGACCTCACGGAGCAGGT 60.998 66.667 0.00 0.00 46.35 4.00
357 369 0.811616 GAGGCATTGTTCGGCGAGAT 60.812 55.000 10.46 3.08 0.00 2.75
515 539 3.664025 CTCCCGTCGATGCCAAGCA 62.664 63.158 0.00 0.00 44.86 3.91
638 720 5.819825 AAGTTTCAGTTCTCTTGGTTCAC 57.180 39.130 0.00 0.00 0.00 3.18
766 869 9.753674 ATCCATTATGTTTATATGAAATCCGGT 57.246 29.630 0.00 0.00 0.00 5.28
771 874 6.312399 TGTTTATATGAAATCCGGTCATGC 57.688 37.500 14.60 0.00 36.41 4.06
796 920 5.637104 AATCGAATTTCGTCCGATTAGTG 57.363 39.130 17.61 0.00 46.88 2.74
819 943 1.533731 AGTTGTCAAAATGTACGCGGG 59.466 47.619 12.47 0.00 0.00 6.13
820 944 0.238817 TTGTCAAAATGTACGCGGGC 59.761 50.000 12.47 2.61 0.00 6.13
847 975 1.203928 GTCATCTTCTCGCATCCGTG 58.796 55.000 0.00 0.00 35.54 4.94
856 984 2.819595 GCATCCGTGTCCGTGCAT 60.820 61.111 0.00 0.00 36.44 3.96
858 986 1.715585 CATCCGTGTCCGTGCATTC 59.284 57.895 0.00 0.00 0.00 2.67
863 991 0.647410 CGTGTCCGTGCATTCATCTC 59.353 55.000 0.00 0.00 0.00 2.75
866 994 1.134699 TGTCCGTGCATTCATCTCCTC 60.135 52.381 0.00 0.00 0.00 3.71
868 996 1.410517 TCCGTGCATTCATCTCCTCTC 59.589 52.381 0.00 0.00 0.00 3.20
873 1001 2.169978 TGCATTCATCTCCTCTCCACAG 59.830 50.000 0.00 0.00 0.00 3.66
895 1023 4.156008 AGACGGATGCAGGTGAAAATTTAC 59.844 41.667 0.00 0.00 0.00 2.01
923 1051 3.690460 CCATGCCCTAAGAACAAAGACT 58.310 45.455 0.00 0.00 0.00 3.24
950 1078 2.489329 TCGGTGTACTTTAGTTCCTCCG 59.511 50.000 12.59 12.59 36.78 4.63
1137 1275 2.047274 GGCCACTAGCGTGCTTCA 60.047 61.111 0.00 0.00 45.17 3.02
1343 1481 1.668151 GAAGAACACGGAGCCGCTT 60.668 57.895 9.14 4.08 44.19 4.68
1613 1751 1.322442 GGACCTGCAAACTCAAGCTT 58.678 50.000 0.00 0.00 0.00 3.74
1691 1829 4.090090 TCGAGAAGGAGAAGAAGGACAAT 58.910 43.478 0.00 0.00 0.00 2.71
1764 1902 0.546122 TCCAAGCAATCTATGGCGGT 59.454 50.000 0.00 0.00 34.13 5.68
1767 1905 0.464036 AAGCAATCTATGGCGGTCGA 59.536 50.000 0.00 0.00 34.54 4.20
1768 1906 0.032678 AGCAATCTATGGCGGTCGAG 59.967 55.000 0.00 0.00 34.54 4.04
1770 1908 1.000607 GCAATCTATGGCGGTCGAGTA 60.001 52.381 0.00 0.00 0.00 2.59
1771 1909 2.922758 GCAATCTATGGCGGTCGAGTAG 60.923 54.545 0.00 0.00 0.00 2.57
1772 1910 2.273538 ATCTATGGCGGTCGAGTAGT 57.726 50.000 0.00 0.00 0.00 2.73
1773 1911 2.048444 TCTATGGCGGTCGAGTAGTT 57.952 50.000 0.00 0.00 0.00 2.24
1787 1939 6.402658 GGTCGAGTAGTTGTAGTTGTAGTACC 60.403 46.154 0.00 0.00 0.00 3.34
1792 1944 5.876612 AGTTGTAGTTGTAGTACCTCTCG 57.123 43.478 0.00 0.00 0.00 4.04
1793 1945 5.312079 AGTTGTAGTTGTAGTACCTCTCGT 58.688 41.667 0.00 0.00 0.00 4.18
1809 1962 6.472887 ACCTCTCGTTTATTTGATTCCTTCA 58.527 36.000 0.00 0.00 0.00 3.02
1845 2602 4.886247 TTTCGTTCGTGAATCTTGGTTT 57.114 36.364 0.00 0.00 0.00 3.27
1850 2607 4.434330 CGTTCGTGAATCTTGGTTTCTAGC 60.434 45.833 0.00 0.00 0.00 3.42
1878 2635 6.457355 TGAAATTTGCATGTGCTATGTTTCT 58.543 32.000 18.39 0.00 42.66 2.52
1880 2637 5.909621 ATTTGCATGTGCTATGTTTCTCT 57.090 34.783 6.55 0.00 42.66 3.10
1883 2642 8.681486 ATTTGCATGTGCTATGTTTCTCTATA 57.319 30.769 6.55 0.00 42.66 1.31
1910 2669 8.718102 TTTTCCTACAAGATGTGAATAGCTAC 57.282 34.615 0.00 0.00 0.00 3.58
1911 2670 7.661536 TTCCTACAAGATGTGAATAGCTACT 57.338 36.000 0.00 0.00 0.00 2.57
1912 2671 8.762481 TTCCTACAAGATGTGAATAGCTACTA 57.238 34.615 0.00 0.00 0.00 1.82
1914 2673 7.999545 TCCTACAAGATGTGAATAGCTACTACT 59.000 37.037 0.00 0.00 0.00 2.57
1916 2675 9.672086 CTACAAGATGTGAATAGCTACTACTTC 57.328 37.037 0.00 3.92 0.00 3.01
1917 2676 7.493367 ACAAGATGTGAATAGCTACTACTTCC 58.507 38.462 0.00 0.00 0.00 3.46
1919 2678 7.519032 AGATGTGAATAGCTACTACTTCCTC 57.481 40.000 0.00 0.00 0.00 3.71
1922 2681 4.579753 GTGAATAGCTACTACTTCCTCCGT 59.420 45.833 0.00 0.00 0.00 4.69
1923 2682 5.067544 GTGAATAGCTACTACTTCCTCCGTT 59.932 44.000 0.00 0.00 0.00 4.44
1924 2683 5.298777 TGAATAGCTACTACTTCCTCCGTTC 59.701 44.000 0.00 0.00 0.00 3.95
1925 2684 2.377073 AGCTACTACTTCCTCCGTTCC 58.623 52.381 0.00 0.00 0.00 3.62
1926 2685 2.097825 GCTACTACTTCCTCCGTTCCA 58.902 52.381 0.00 0.00 0.00 3.53
1932 2691 5.731591 ACTACTTCCTCCGTTCCAAAATAG 58.268 41.667 0.00 0.00 0.00 1.73
1933 2692 4.903045 ACTTCCTCCGTTCCAAAATAGA 57.097 40.909 0.00 0.00 0.00 1.98
1934 2693 5.437191 ACTTCCTCCGTTCCAAAATAGAT 57.563 39.130 0.00 0.00 0.00 1.98
1935 2694 5.186198 ACTTCCTCCGTTCCAAAATAGATG 58.814 41.667 0.00 0.00 0.00 2.90
1936 2695 5.045869 ACTTCCTCCGTTCCAAAATAGATGA 60.046 40.000 0.00 0.00 0.00 2.92
1938 2697 3.877508 CCTCCGTTCCAAAATAGATGACC 59.122 47.826 0.00 0.00 0.00 4.02
1941 2700 6.302535 TCCGTTCCAAAATAGATGACCTAA 57.697 37.500 0.00 0.00 0.00 2.69
1942 2701 6.110707 TCCGTTCCAAAATAGATGACCTAAC 58.889 40.000 0.00 0.00 0.00 2.34
1945 2704 7.120726 CCGTTCCAAAATAGATGACCTAACTTT 59.879 37.037 0.00 0.00 0.00 2.66
1997 2756 7.611213 AAGTTAGGTCATCTATTTTGGAACG 57.389 36.000 0.00 0.00 0.00 3.95
1998 2757 6.113411 AGTTAGGTCATCTATTTTGGAACGG 58.887 40.000 0.00 0.00 0.00 4.44
2000 2759 4.770795 AGGTCATCTATTTTGGAACGGAG 58.229 43.478 0.00 0.00 0.00 4.63
2001 2760 3.877508 GGTCATCTATTTTGGAACGGAGG 59.122 47.826 0.00 0.00 0.00 4.30
2002 2761 4.383770 GGTCATCTATTTTGGAACGGAGGA 60.384 45.833 0.00 0.00 0.00 3.71
2004 2763 5.294552 GTCATCTATTTTGGAACGGAGGAAG 59.705 44.000 0.00 0.00 0.00 3.46
2033 3128 5.105228 TGGTAGTCCCTCCGTTTACAAATAG 60.105 44.000 0.00 0.00 0.00 1.73
2045 3140 8.092068 TCCGTTTACAAATAGAAGATGTCTTGA 58.908 33.333 0.00 0.00 37.84 3.02
2109 3209 8.270080 TGAGTGAACAAACACACTAAAACATA 57.730 30.769 0.00 0.00 45.54 2.29
2231 3362 9.169468 GAACAAACACACTAAAACATGTCTATG 57.831 33.333 0.00 0.00 40.24 2.23
2233 3364 8.342634 ACAAACACACTAAAACATGTCTATGTC 58.657 33.333 0.00 0.00 46.54 3.06
2236 3367 6.995686 ACACACTAAAACATGTCTATGTCCAA 59.004 34.615 0.00 0.00 46.54 3.53
2237 3368 7.500892 ACACACTAAAACATGTCTATGTCCAAA 59.499 33.333 0.00 0.00 46.54 3.28
2239 3370 9.077885 ACACTAAAACATGTCTATGTCCAAATT 57.922 29.630 0.00 0.00 46.54 1.82
2240 3371 9.912634 CACTAAAACATGTCTATGTCCAAATTT 57.087 29.630 0.00 0.00 46.54 1.82
2241 3372 9.912634 ACTAAAACATGTCTATGTCCAAATTTG 57.087 29.630 11.40 11.40 46.54 2.32
2286 4849 5.184096 AGAGGAGTGAATATAGTATGCACGG 59.816 44.000 0.00 0.00 34.82 4.94
2287 4850 4.833380 AGGAGTGAATATAGTATGCACGGT 59.167 41.667 0.00 0.00 34.82 4.83
2288 4851 4.923871 GGAGTGAATATAGTATGCACGGTG 59.076 45.833 3.15 3.15 34.82 4.94
2289 4852 4.883083 AGTGAATATAGTATGCACGGTGG 58.117 43.478 10.60 0.00 34.82 4.61
2290 4853 4.587262 AGTGAATATAGTATGCACGGTGGA 59.413 41.667 10.60 7.67 34.82 4.02
2291 4854 4.684703 GTGAATATAGTATGCACGGTGGAC 59.315 45.833 10.60 0.00 0.00 4.02
2292 4855 3.955650 ATATAGTATGCACGGTGGACC 57.044 47.619 10.60 1.68 0.00 4.46
2310 4883 1.203563 CGTACTATCCCGCGTCGAG 59.796 63.158 4.92 0.00 0.00 4.04
2340 4913 1.284982 CGTCGTCCCAGCTTGTCAAG 61.285 60.000 8.31 8.31 0.00 3.02
2349 6428 0.250640 AGCTTGTCAAGACAGCCCTG 60.251 55.000 16.99 0.00 42.94 4.45
2504 6590 3.321648 ACATGGGCGCTCTGGTCA 61.322 61.111 9.62 0.00 0.00 4.02
2507 6593 3.023949 ATGGGCGCTCTGGTCAGTC 62.024 63.158 9.62 0.00 0.00 3.51
2535 6621 0.112995 ACCCAACCATGTGCACATCT 59.887 50.000 29.23 14.57 33.61 2.90
2536 6622 1.259609 CCCAACCATGTGCACATCTT 58.740 50.000 29.23 19.41 33.61 2.40
2538 6624 2.037511 CCCAACCATGTGCACATCTTTT 59.962 45.455 29.23 18.31 33.61 2.27
2539 6625 3.319755 CCAACCATGTGCACATCTTTTC 58.680 45.455 29.23 0.00 33.61 2.29
2541 6627 4.370049 CAACCATGTGCACATCTTTTCAA 58.630 39.130 29.23 0.00 33.61 2.69
2542 6628 4.669206 ACCATGTGCACATCTTTTCAAA 57.331 36.364 29.23 0.00 33.61 2.69
2543 6629 5.021033 ACCATGTGCACATCTTTTCAAAA 57.979 34.783 29.23 0.00 33.61 2.44
2544 6630 5.426504 ACCATGTGCACATCTTTTCAAAAA 58.573 33.333 29.23 0.00 33.61 1.94
2600 6724 2.867472 CGCAGGTTTCGCCGAAAT 59.133 55.556 16.09 0.00 43.70 2.17
2629 6763 5.536161 GGCACAAATTCCTGTATGTCCATAT 59.464 40.000 0.00 0.00 0.00 1.78
2636 6770 2.426522 CTGTATGTCCATATTGGCCCG 58.573 52.381 0.00 0.00 37.47 6.13
2692 6826 1.805428 TTTTTCTTCTGGCCAGCCGC 61.805 55.000 28.91 0.00 39.42 6.53
2725 6859 2.165362 GACGCGCAAATGACCGTTGA 62.165 55.000 5.73 0.00 33.63 3.18
2729 6863 1.561717 CGCAAATGACCGTTGACCGA 61.562 55.000 0.00 0.00 39.56 4.69
2803 6937 2.317609 CGCAACTGAACTCCGTGGG 61.318 63.158 0.00 0.00 0.00 4.61
2818 6952 3.081409 GGGGCCGCTGAGGAGTTA 61.081 66.667 13.57 0.00 45.00 2.24
2819 6953 2.666098 GGGGCCGCTGAGGAGTTAA 61.666 63.158 13.57 0.00 45.00 2.01
2820 6954 1.298667 GGGCCGCTGAGGAGTTAAA 59.701 57.895 0.09 0.00 45.00 1.52
2821 6955 0.107165 GGGCCGCTGAGGAGTTAAAT 60.107 55.000 0.09 0.00 45.00 1.40
2822 6956 1.017387 GGCCGCTGAGGAGTTAAATG 58.983 55.000 0.09 0.00 45.00 2.32
2823 6957 0.378610 GCCGCTGAGGAGTTAAATGC 59.621 55.000 0.09 0.00 45.00 3.56
2824 6958 0.652592 CCGCTGAGGAGTTAAATGCG 59.347 55.000 0.00 0.00 45.00 4.73
2825 6959 0.026803 CGCTGAGGAGTTAAATGCGC 59.973 55.000 0.00 0.00 35.77 6.09
2826 6960 1.086696 GCTGAGGAGTTAAATGCGCA 58.913 50.000 14.96 14.96 0.00 6.09
2827 6961 1.063174 GCTGAGGAGTTAAATGCGCAG 59.937 52.381 20.43 20.43 40.52 5.18
2828 6962 1.667724 CTGAGGAGTTAAATGCGCAGG 59.332 52.381 18.32 2.65 35.36 4.85
2829 6963 1.277842 TGAGGAGTTAAATGCGCAGGA 59.722 47.619 18.32 0.00 0.00 3.86
2830 6964 1.666189 GAGGAGTTAAATGCGCAGGAC 59.334 52.381 18.32 11.48 0.00 3.85
2831 6965 0.733150 GGAGTTAAATGCGCAGGACC 59.267 55.000 18.32 8.41 0.00 4.46
2832 6966 1.448985 GAGTTAAATGCGCAGGACCA 58.551 50.000 18.32 0.00 0.00 4.02
2833 6967 2.017049 GAGTTAAATGCGCAGGACCAT 58.983 47.619 18.32 0.00 0.00 3.55
2834 6968 2.423538 GAGTTAAATGCGCAGGACCATT 59.576 45.455 18.32 0.00 33.35 3.16
2835 6969 2.423538 AGTTAAATGCGCAGGACCATTC 59.576 45.455 18.32 1.40 31.67 2.67
2836 6970 1.013596 TAAATGCGCAGGACCATTCG 58.986 50.000 18.32 0.00 31.67 3.34
2837 6971 0.960364 AAATGCGCAGGACCATTCGT 60.960 50.000 18.32 0.00 31.67 3.85
2838 6972 1.647545 AATGCGCAGGACCATTCGTG 61.648 55.000 18.32 0.00 40.08 4.35
2839 6973 2.742372 GCGCAGGACCATTCGTGT 60.742 61.111 0.30 0.00 39.42 4.49
2840 6974 2.740714 GCGCAGGACCATTCGTGTC 61.741 63.158 0.30 0.00 39.42 3.67
2841 6975 1.374125 CGCAGGACCATTCGTGTCA 60.374 57.895 0.00 0.00 39.42 3.58
2842 6976 1.626654 CGCAGGACCATTCGTGTCAC 61.627 60.000 0.00 0.00 39.42 3.67
2843 6977 1.626654 GCAGGACCATTCGTGTCACG 61.627 60.000 19.38 19.38 44.19 4.35
2853 6987 2.804697 TCGTGTCACGATCAGGAAAA 57.195 45.000 23.70 0.00 46.73 2.29
2854 6988 3.100658 TCGTGTCACGATCAGGAAAAA 57.899 42.857 23.70 0.00 46.73 1.94
2855 6989 3.659786 TCGTGTCACGATCAGGAAAAAT 58.340 40.909 23.70 0.00 46.73 1.82
2856 6990 3.678072 TCGTGTCACGATCAGGAAAAATC 59.322 43.478 23.70 0.00 46.73 2.17
2857 6991 3.181520 CGTGTCACGATCAGGAAAAATCC 60.182 47.826 20.75 0.00 46.05 3.01
2858 6992 3.751175 GTGTCACGATCAGGAAAAATCCA 59.249 43.478 0.00 0.00 0.00 3.41
2859 6993 4.396166 GTGTCACGATCAGGAAAAATCCAT 59.604 41.667 0.00 0.00 0.00 3.41
2860 6994 4.635765 TGTCACGATCAGGAAAAATCCATC 59.364 41.667 0.00 0.00 0.00 3.51
2861 6995 4.635765 GTCACGATCAGGAAAAATCCATCA 59.364 41.667 0.00 0.00 0.00 3.07
2862 6996 4.635765 TCACGATCAGGAAAAATCCATCAC 59.364 41.667 0.00 0.00 0.00 3.06
2863 6997 4.637534 CACGATCAGGAAAAATCCATCACT 59.362 41.667 0.00 0.00 0.00 3.41
2864 6998 5.124457 CACGATCAGGAAAAATCCATCACTT 59.876 40.000 0.00 0.00 0.00 3.16
2865 6999 5.711976 ACGATCAGGAAAAATCCATCACTTT 59.288 36.000 0.00 0.00 0.00 2.66
2866 7000 6.884295 ACGATCAGGAAAAATCCATCACTTTA 59.116 34.615 0.00 0.00 0.00 1.85
2867 7001 7.148239 ACGATCAGGAAAAATCCATCACTTTAC 60.148 37.037 0.00 0.00 0.00 2.01
2868 7002 7.148255 CGATCAGGAAAAATCCATCACTTTACA 60.148 37.037 0.00 0.00 0.00 2.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 8.986847 CATGGTGTTATTTTTGTGCAGAAATAA 58.013 29.630 10.13 12.63 35.99 1.40
39 40 4.214980 CTGACGTTGTTTTCAGCAGAAT 57.785 40.909 0.00 0.00 33.23 2.40
54 55 1.761500 AAACTAACCCGGGCTGACGT 61.761 55.000 24.08 8.14 0.00 4.34
61 62 4.461081 TGATTTGAATGAAACTAACCCGGG 59.539 41.667 22.25 22.25 0.00 5.73
94 95 8.093659 ACAACAATTTTATATGGTTTTGGTGC 57.906 30.769 0.00 0.00 35.68 5.01
145 146 7.334671 TGCTGATACGTCTCCAACTATCTATAG 59.665 40.741 0.00 0.00 36.46 1.31
281 285 2.439960 CCTATGCCACCCGCTACCA 61.440 63.158 0.00 0.00 38.78 3.25
337 349 2.435938 TCGCCGAACAATGCCTCC 60.436 61.111 0.00 0.00 0.00 4.30
357 369 1.511305 GCGATGTCCTCCTCGTTGA 59.489 57.895 0.00 0.00 37.23 3.18
515 539 0.395311 CAAGATGCTCAGCCCACCAT 60.395 55.000 0.00 0.00 0.00 3.55
550 587 1.294659 GAAGTGAAGCTGTCCGCCTG 61.295 60.000 0.00 0.00 40.39 4.85
638 720 4.626081 GATCCCCATGTCCGGCCG 62.626 72.222 21.04 21.04 0.00 6.13
746 849 7.882791 AGCATGACCGGATTTCATATAAACATA 59.117 33.333 9.46 0.00 32.23 2.29
766 869 4.026062 CGGACGAAATTCGATTAAGCATGA 60.026 41.667 22.92 0.00 43.74 3.07
796 920 3.215244 CGCGTACATTTTGACAACTCAC 58.785 45.455 0.00 0.00 0.00 3.51
819 943 1.514811 CGAGAAGATGACAATCGACGC 59.485 52.381 0.00 0.00 37.92 5.19
820 944 1.514811 GCGAGAAGATGACAATCGACG 59.485 52.381 0.00 0.00 37.92 5.12
825 952 2.159043 ACGGATGCGAGAAGATGACAAT 60.159 45.455 15.49 0.00 0.00 2.71
826 953 1.204704 ACGGATGCGAGAAGATGACAA 59.795 47.619 15.49 0.00 0.00 3.18
847 975 1.137872 AGAGGAGATGAATGCACGGAC 59.862 52.381 0.00 0.00 0.00 4.79
856 984 2.095461 CGTCTGTGGAGAGGAGATGAA 58.905 52.381 0.00 0.00 36.37 2.57
858 986 0.743688 CCGTCTGTGGAGAGGAGATG 59.256 60.000 0.00 0.00 36.37 2.90
863 991 1.142748 GCATCCGTCTGTGGAGAGG 59.857 63.158 0.00 0.00 42.45 3.69
866 994 1.153489 CCTGCATCCGTCTGTGGAG 60.153 63.158 0.00 0.00 42.45 3.86
868 996 1.742880 CACCTGCATCCGTCTGTGG 60.743 63.158 0.00 0.00 0.00 4.17
873 1001 3.575965 AAATTTTCACCTGCATCCGTC 57.424 42.857 0.00 0.00 0.00 4.79
923 1051 5.536161 AGGAACTAAAGTACACCGAGTTGTA 59.464 40.000 7.07 0.00 36.02 2.41
950 1078 3.371965 TGAGTGGGGTACTTATGGACTC 58.628 50.000 0.00 0.00 40.53 3.36
1035 1164 1.682684 GAGTTGGAGGGCCGAGAGA 60.683 63.158 0.00 0.00 36.79 3.10
1343 1481 1.373748 GAACTTGTACGCCGCCTCA 60.374 57.895 0.00 0.00 0.00 3.86
1613 1751 4.189188 GCCGGCGAGTCGAGCTTA 62.189 66.667 18.61 0.00 34.52 3.09
1691 1829 9.186837 AGTAGTAGCTAGCAAATTAACTACTCA 57.813 33.333 22.99 8.25 42.61 3.41
1764 1902 6.467677 AGGTACTACAACTACAACTACTCGA 58.532 40.000 0.00 0.00 36.02 4.04
1767 1905 6.593382 CGAGAGGTACTACAACTACAACTACT 59.407 42.308 0.00 0.00 41.55 2.57
1768 1906 6.370166 ACGAGAGGTACTACAACTACAACTAC 59.630 42.308 0.00 0.00 41.55 2.73
1770 1908 5.312079 ACGAGAGGTACTACAACTACAACT 58.688 41.667 0.00 0.00 41.55 3.16
1771 1909 5.619625 ACGAGAGGTACTACAACTACAAC 57.380 43.478 0.00 0.00 41.55 3.32
1772 1910 6.639632 AAACGAGAGGTACTACAACTACAA 57.360 37.500 0.00 0.00 41.55 2.41
1773 1911 7.928307 ATAAACGAGAGGTACTACAACTACA 57.072 36.000 0.00 0.00 41.55 2.74
1829 1988 4.637276 TGCTAGAAACCAAGATTCACGAA 58.363 39.130 0.00 0.00 0.00 3.85
1831 1990 5.551760 AATGCTAGAAACCAAGATTCACG 57.448 39.130 0.00 0.00 0.00 4.35
1845 2602 5.349270 GCACATGCAAATTTCAAATGCTAGA 59.651 36.000 0.00 0.00 40.66 2.43
1850 2607 7.067532 ACATAGCACATGCAAATTTCAAATG 57.932 32.000 6.64 0.00 45.16 2.32
1883 2642 8.814038 AGCTATTCACATCTTGTAGGAAAAAT 57.186 30.769 0.00 0.00 0.00 1.82
1889 2648 8.172352 AGTAGTAGCTATTCACATCTTGTAGG 57.828 38.462 0.00 0.00 0.00 3.18
1910 2669 5.974108 TCTATTTTGGAACGGAGGAAGTAG 58.026 41.667 0.00 0.00 0.00 2.57
1911 2670 6.155565 TCATCTATTTTGGAACGGAGGAAGTA 59.844 38.462 0.00 0.00 0.00 2.24
1912 2671 4.903045 TCTATTTTGGAACGGAGGAAGT 57.097 40.909 0.00 0.00 0.00 3.01
1914 2673 5.183228 GTCATCTATTTTGGAACGGAGGAA 58.817 41.667 0.00 0.00 0.00 3.36
1916 2675 3.877508 GGTCATCTATTTTGGAACGGAGG 59.122 47.826 0.00 0.00 0.00 4.30
1917 2676 4.770795 AGGTCATCTATTTTGGAACGGAG 58.229 43.478 0.00 0.00 0.00 4.63
1919 2678 6.113411 AGTTAGGTCATCTATTTTGGAACGG 58.887 40.000 0.00 0.00 0.00 4.44
1971 2730 9.158233 CGTTCCAAAATAGATGACCTAACTTTA 57.842 33.333 0.00 0.00 0.00 1.85
1972 2731 7.120726 CCGTTCCAAAATAGATGACCTAACTTT 59.879 37.037 0.00 0.00 0.00 2.66
1973 2732 6.598064 CCGTTCCAAAATAGATGACCTAACTT 59.402 38.462 0.00 0.00 0.00 2.66
1975 2734 6.110707 TCCGTTCCAAAATAGATGACCTAAC 58.889 40.000 0.00 0.00 0.00 2.34
1976 2735 6.302535 TCCGTTCCAAAATAGATGACCTAA 57.697 37.500 0.00 0.00 0.00 2.69
1977 2736 5.163343 CCTCCGTTCCAAAATAGATGACCTA 60.163 44.000 0.00 0.00 0.00 3.08
1979 2738 3.877508 CCTCCGTTCCAAAATAGATGACC 59.122 47.826 0.00 0.00 0.00 4.02
1980 2739 4.766375 TCCTCCGTTCCAAAATAGATGAC 58.234 43.478 0.00 0.00 0.00 3.06
1981 2740 5.045869 ACTTCCTCCGTTCCAAAATAGATGA 60.046 40.000 0.00 0.00 0.00 2.92
1982 2741 5.186198 ACTTCCTCCGTTCCAAAATAGATG 58.814 41.667 0.00 0.00 0.00 2.90
1983 2742 5.437191 ACTTCCTCCGTTCCAAAATAGAT 57.563 39.130 0.00 0.00 0.00 1.98
1984 2743 4.903045 ACTTCCTCCGTTCCAAAATAGA 57.097 40.909 0.00 0.00 0.00 1.98
1985 2744 5.974108 TCTACTTCCTCCGTTCCAAAATAG 58.026 41.667 0.00 0.00 0.00 1.73
1987 2746 4.903045 TCTACTTCCTCCGTTCCAAAAT 57.097 40.909 0.00 0.00 0.00 1.82
1988 2747 4.564821 CCATCTACTTCCTCCGTTCCAAAA 60.565 45.833 0.00 0.00 0.00 2.44
1989 2748 3.055385 CCATCTACTTCCTCCGTTCCAAA 60.055 47.826 0.00 0.00 0.00 3.28
1990 2749 2.500098 CCATCTACTTCCTCCGTTCCAA 59.500 50.000 0.00 0.00 0.00 3.53
1992 2751 2.108970 ACCATCTACTTCCTCCGTTCC 58.891 52.381 0.00 0.00 0.00 3.62
1993 2752 3.952967 ACTACCATCTACTTCCTCCGTTC 59.047 47.826 0.00 0.00 0.00 3.95
1994 2753 3.952967 GACTACCATCTACTTCCTCCGTT 59.047 47.826 0.00 0.00 0.00 4.44
1995 2754 3.553904 GACTACCATCTACTTCCTCCGT 58.446 50.000 0.00 0.00 0.00 4.69
1996 2755 2.885894 GGACTACCATCTACTTCCTCCG 59.114 54.545 0.00 0.00 35.97 4.63
1997 2756 3.117054 AGGGACTACCATCTACTTCCTCC 60.117 52.174 0.00 0.00 43.89 4.30
1998 2757 4.146564 GAGGGACTACCATCTACTTCCTC 58.853 52.174 0.00 0.00 42.82 3.71
2000 2759 3.232662 GGAGGGACTACCATCTACTTCC 58.767 54.545 0.00 0.00 45.10 3.46
2001 2760 2.885894 CGGAGGGACTACCATCTACTTC 59.114 54.545 0.00 0.00 45.10 3.01
2002 2761 2.244252 ACGGAGGGACTACCATCTACTT 59.756 50.000 0.00 0.00 45.10 2.24
2004 2763 2.361643 ACGGAGGGACTACCATCTAC 57.638 55.000 0.00 0.00 45.10 2.59
2064 3159 9.914131 TCACTCATTTCAGCATGTATATAGTAC 57.086 33.333 0.00 0.00 37.40 2.73
2067 3162 9.264719 TGTTCACTCATTTCAGCATGTATATAG 57.735 33.333 0.00 0.00 37.40 1.31
2068 3163 9.612066 TTGTTCACTCATTTCAGCATGTATATA 57.388 29.630 0.00 0.00 37.40 0.86
2070 3165 7.920160 TTGTTCACTCATTTCAGCATGTATA 57.080 32.000 0.00 0.00 37.40 1.47
2071 3166 6.822667 TTGTTCACTCATTTCAGCATGTAT 57.177 33.333 0.00 0.00 37.40 2.29
2072 3167 6.039159 TGTTTGTTCACTCATTTCAGCATGTA 59.961 34.615 0.00 0.00 37.40 2.29
2073 3168 5.163530 TGTTTGTTCACTCATTTCAGCATGT 60.164 36.000 0.00 0.00 37.40 3.21
2074 3169 5.174398 GTGTTTGTTCACTCATTTCAGCATG 59.826 40.000 0.00 0.00 35.68 4.06
2075 3170 5.163530 TGTGTTTGTTCACTCATTTCAGCAT 60.164 36.000 0.00 0.00 38.90 3.79
2187 3317 7.172532 TGTTTGTTCGCTCATTTCAGTTAGTAT 59.827 33.333 0.00 0.00 0.00 2.12
2188 3318 6.480651 TGTTTGTTCGCTCATTTCAGTTAGTA 59.519 34.615 0.00 0.00 0.00 1.82
2192 3322 4.142491 TGTGTTTGTTCGCTCATTTCAGTT 60.142 37.500 0.00 0.00 0.00 3.16
2204 3334 6.255215 AGACATGTTTTAGTGTGTTTGTTCG 58.745 36.000 0.00 0.00 0.00 3.95
2231 3362 5.738619 AGGGGTATTTGTCAAATTTGGAC 57.261 39.130 17.90 14.16 35.83 4.02
2233 3364 5.863965 ACAAGGGGTATTTGTCAAATTTGG 58.136 37.500 17.90 0.12 33.72 3.28
2286 4849 1.361632 GCGGGATAGTACGGTCCAC 59.638 63.158 17.69 8.33 36.19 4.02
2287 4850 2.188829 CGCGGGATAGTACGGTCCA 61.189 63.158 17.69 0.00 36.19 4.02
2288 4851 2.122775 GACGCGGGATAGTACGGTCC 62.123 65.000 12.47 10.17 0.00 4.46
2289 4852 1.281049 GACGCGGGATAGTACGGTC 59.719 63.158 12.47 0.00 0.00 4.79
2290 4853 2.537560 CGACGCGGGATAGTACGGT 61.538 63.158 12.47 0.00 0.00 4.83
2291 4854 2.167808 CTCGACGCGGGATAGTACGG 62.168 65.000 12.47 0.00 0.00 4.02
2292 4855 1.203563 CTCGACGCGGGATAGTACG 59.796 63.158 12.47 3.13 0.00 3.67
2310 4883 1.737008 GGACGACGCTTTCTCCCAC 60.737 63.158 0.00 0.00 0.00 4.61
2364 6443 3.424170 CGTGCTAGCTCTTCTTTTCTTGC 60.424 47.826 17.23 0.00 0.00 4.01
2365 6444 3.124297 CCGTGCTAGCTCTTCTTTTCTTG 59.876 47.826 17.23 0.00 0.00 3.02
2373 6452 2.202946 GGCCCGTGCTAGCTCTTC 60.203 66.667 17.23 4.03 37.74 2.87
2437 6523 3.508793 AGAAGTCGTTCGGTTCCAGATAA 59.491 43.478 0.00 0.00 37.79 1.75
2438 6524 3.087031 AGAAGTCGTTCGGTTCCAGATA 58.913 45.455 0.00 0.00 37.79 1.98
2439 6525 1.893801 AGAAGTCGTTCGGTTCCAGAT 59.106 47.619 0.00 0.00 37.79 2.90
2441 6527 2.150397 AAGAAGTCGTTCGGTTCCAG 57.850 50.000 0.00 0.00 37.79 3.86
2546 6632 1.693062 TGATGTGCACATGGGCTTTTT 59.307 42.857 35.92 10.54 36.57 1.94
2547 6633 1.340088 TGATGTGCACATGGGCTTTT 58.660 45.000 35.92 11.37 36.57 2.27
2548 6634 1.001181 GTTGATGTGCACATGGGCTTT 59.999 47.619 35.92 12.21 36.57 3.51
2549 6635 0.604578 GTTGATGTGCACATGGGCTT 59.395 50.000 35.92 13.04 36.57 4.35
2550 6636 0.251474 AGTTGATGTGCACATGGGCT 60.251 50.000 35.92 24.45 36.57 5.19
2551 6637 0.604578 AAGTTGATGTGCACATGGGC 59.395 50.000 35.92 21.74 36.57 5.36
2552 6638 1.887854 TCAAGTTGATGTGCACATGGG 59.112 47.619 35.92 17.38 36.57 4.00
2553 6639 3.646611 TTCAAGTTGATGTGCACATGG 57.353 42.857 35.92 17.05 36.57 3.66
2554 6640 7.148705 CCTTTAATTCAAGTTGATGTGCACATG 60.149 37.037 35.92 21.86 36.57 3.21
2555 6641 6.869913 CCTTTAATTCAAGTTGATGTGCACAT 59.130 34.615 31.82 31.82 39.70 3.21
2670 6804 2.491693 CGGCTGGCCAGAAGAAAAATAA 59.508 45.455 37.21 0.00 35.37 1.40
2671 6805 2.091541 CGGCTGGCCAGAAGAAAAATA 58.908 47.619 37.21 0.00 35.37 1.40
2692 6826 4.463879 CGTCTGCAGAGGGCCCTG 62.464 72.222 34.59 19.26 43.89 4.45
2749 6883 2.939022 GTTGACTGACTGGCACGC 59.061 61.111 0.00 0.00 30.21 5.34
2753 6887 1.583054 AACTTCGTTGACTGACTGGC 58.417 50.000 0.00 0.00 0.00 4.85
2803 6937 1.017387 CATTTAACTCCTCAGCGGCC 58.983 55.000 0.00 0.00 0.00 6.13
2809 6943 1.277842 TCCTGCGCATTTAACTCCTCA 59.722 47.619 12.24 0.00 0.00 3.86
2813 6947 1.448985 TGGTCCTGCGCATTTAACTC 58.551 50.000 12.24 0.00 0.00 3.01
2814 6948 2.128771 ATGGTCCTGCGCATTTAACT 57.871 45.000 12.24 0.00 0.00 2.24
2815 6949 2.791158 CGAATGGTCCTGCGCATTTAAC 60.791 50.000 12.24 6.81 0.00 2.01
2816 6950 1.400142 CGAATGGTCCTGCGCATTTAA 59.600 47.619 12.24 0.00 0.00 1.52
2817 6951 1.013596 CGAATGGTCCTGCGCATTTA 58.986 50.000 12.24 0.00 0.00 1.40
2818 6952 0.960364 ACGAATGGTCCTGCGCATTT 60.960 50.000 12.24 0.00 0.00 2.32
2819 6953 1.377202 ACGAATGGTCCTGCGCATT 60.377 52.632 12.24 0.00 0.00 3.56
2820 6954 2.108514 CACGAATGGTCCTGCGCAT 61.109 57.895 12.24 0.00 0.00 4.73
2821 6955 2.741985 CACGAATGGTCCTGCGCA 60.742 61.111 10.98 10.98 0.00 6.09
2822 6956 2.740714 GACACGAATGGTCCTGCGC 61.741 63.158 0.00 0.00 0.00 6.09
2823 6957 1.374125 TGACACGAATGGTCCTGCG 60.374 57.895 0.00 0.00 34.36 5.18
2824 6958 1.626654 CGTGACACGAATGGTCCTGC 61.627 60.000 23.39 0.00 46.05 4.85
2825 6959 2.445274 CGTGACACGAATGGTCCTG 58.555 57.895 23.39 0.00 46.05 3.86
2826 6960 4.988065 CGTGACACGAATGGTCCT 57.012 55.556 23.39 0.00 46.05 3.85
2835 6969 3.181520 GGATTTTTCCTGATCGTGACACG 60.182 47.826 21.88 21.88 44.19 4.49
2836 6970 3.751175 TGGATTTTTCCTGATCGTGACAC 59.249 43.478 0.00 0.00 0.00 3.67
2837 6971 4.014569 TGGATTTTTCCTGATCGTGACA 57.985 40.909 0.00 0.00 0.00 3.58
2838 6972 4.635765 TGATGGATTTTTCCTGATCGTGAC 59.364 41.667 0.00 0.00 0.00 3.67
2839 6973 4.635765 GTGATGGATTTTTCCTGATCGTGA 59.364 41.667 0.00 0.00 0.00 4.35
2840 6974 4.637534 AGTGATGGATTTTTCCTGATCGTG 59.362 41.667 0.00 0.00 0.00 4.35
2841 6975 4.848357 AGTGATGGATTTTTCCTGATCGT 58.152 39.130 0.00 0.00 0.00 3.73
2842 6976 5.824904 AAGTGATGGATTTTTCCTGATCG 57.175 39.130 0.00 0.00 0.00 3.69
2843 6977 8.055279 TGTAAAGTGATGGATTTTTCCTGATC 57.945 34.615 0.00 0.00 0.00 2.92


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

AutoCloner maintained by Alex Coulton.