Multiple sequence alignment - TraesCS2D01G078300

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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 TraesCS2D01G078300 chr2D 100.000 3197 0 0 1 3197 33582117 33578921 0.000000e+00 5904.0
1 TraesCS2D01G078300 chr2D 87.373 1180 89 23 921 2048 33242182 33241011 0.000000e+00 1299.0
2 TraesCS2D01G078300 chr2D 93.540 774 40 5 1255 2019 33373920 33373148 0.000000e+00 1144.0
3 TraesCS2D01G078300 chr2D 91.111 360 25 3 1674 2026 33314636 33314277 6.200000e-132 481.0
4 TraesCS2D01G078300 chr2D 84.698 464 52 14 2749 3197 33239657 33239198 2.260000e-121 446.0
5 TraesCS2D01G078300 chr2D 87.879 330 28 7 2871 3197 33313586 33313266 8.370000e-101 377.0
6 TraesCS2D01G078300 chr2D 87.462 327 34 5 2873 3197 33372367 33372046 1.400000e-98 370.0
7 TraesCS2D01G078300 chr2D 86.842 304 28 3 1729 2026 32992127 32991830 2.380000e-86 329.0
8 TraesCS2D01G078300 chr2D 85.714 308 36 8 1729 2034 33164269 33163968 5.150000e-83 318.0
9 TraesCS2D01G078300 chr2D 82.535 355 42 13 412 755 616647433 616647778 8.670000e-76 294.0
10 TraesCS2D01G078300 chr2D 84.173 278 32 2 1729 2006 33048584 33048319 3.160000e-65 259.0
11 TraesCS2D01G078300 chr2D 81.231 325 49 8 1722 2045 79086087 79086400 5.290000e-63 252.0
12 TraesCS2D01G078300 chr2D 87.805 205 24 1 2879 3083 32991196 32990993 4.120000e-59 239.0
13 TraesCS2D01G078300 chr2D 88.679 159 11 7 2235 2393 33372902 33372751 1.510000e-43 187.0
14 TraesCS2D01G078300 chr2D 94.643 112 6 0 2087 2198 33373012 33372901 1.180000e-39 174.0
15 TraesCS2D01G078300 chr2D 84.516 155 15 7 2135 2280 32991699 32991545 9.240000e-31 145.0
16 TraesCS2D01G078300 chr2D 83.688 141 15 6 2258 2397 33313973 33313840 3.350000e-25 126.0
17 TraesCS2D01G078300 chr2D 96.000 50 2 0 2645 2694 33372599 33372550 7.350000e-12 82.4
18 TraesCS2D01G078300 chr2A 89.595 1480 79 26 958 2393 36411859 36410411 0.000000e+00 1810.0
19 TraesCS2D01G078300 chr2A 88.785 1177 75 30 921 2048 36400240 36399072 0.000000e+00 1389.0
20 TraesCS2D01G078300 chr2A 88.705 726 52 13 958 1653 36392738 36392013 0.000000e+00 859.0
21 TraesCS2D01G078300 chr2A 92.138 318 23 1 2882 3197 36398439 36398122 6.290000e-122 448.0
22 TraesCS2D01G078300 chr2A 88.378 370 28 5 1674 2034 36391963 36391600 6.340000e-117 431.0
23 TraesCS2D01G078300 chr2A 89.634 328 27 4 2871 3197 36390855 36390534 8.250000e-111 411.0
24 TraesCS2D01G078300 chr2A 87.156 327 33 6 2873 3197 36410050 36409731 2.340000e-96 363.0
25 TraesCS2D01G078300 chr2A 87.603 242 28 2 1786 2026 36189897 36189657 2.430000e-71 279.0
26 TraesCS2D01G078300 chr2A 79.920 249 27 8 2624 2872 164917169 164916944 9.180000e-36 161.0
27 TraesCS2D01G078300 chr2A 89.216 102 6 4 2296 2397 36391219 36391123 4.330000e-24 122.0
28 TraesCS2D01G078300 chr2A 91.228 57 5 0 2579 2635 36391127 36391071 9.510000e-11 78.7
29 TraesCS2D01G078300 chr2B 93.290 1073 50 13 958 2019 55699368 55698307 0.000000e+00 1563.0
30 TraesCS2D01G078300 chr2B 88.323 1139 79 27 958 2056 55227586 55226462 0.000000e+00 1317.0
31 TraesCS2D01G078300 chr2B 87.837 1151 76 28 958 2056 55855927 55854789 0.000000e+00 1291.0
32 TraesCS2D01G078300 chr2B 88.123 1103 77 33 958 2026 55210339 55209257 0.000000e+00 1262.0
33 TraesCS2D01G078300 chr2B 94.390 410 20 2 1246 1652 55203319 55202910 7.530000e-176 627.0
34 TraesCS2D01G078300 chr2B 92.583 391 9 6 2087 2477 55698174 55697804 7.800000e-151 544.0
35 TraesCS2D01G078300 chr2B 87.318 481 47 11 977 1445 55536969 55536491 3.630000e-149 538.0
36 TraesCS2D01G078300 chr2B 96.024 327 12 1 2871 3197 55697413 55697088 6.070000e-147 531.0
37 TraesCS2D01G078300 chr2B 90.503 358 27 3 1674 2024 55202821 55202464 1.740000e-127 466.0
38 TraesCS2D01G078300 chr2B 90.826 327 29 1 2871 3197 55512749 55512424 1.360000e-118 436.0
39 TraesCS2D01G078300 chr2B 90.520 327 28 3 2871 3197 55208457 55208134 2.280000e-116 429.0
40 TraesCS2D01G078300 chr2B 80.672 595 71 30 191 752 777997897 777997314 3.810000e-114 422.0
41 TraesCS2D01G078300 chr2B 89.970 329 25 5 2871 3197 55201786 55201464 4.930000e-113 418.0
42 TraesCS2D01G078300 chr2B 97.881 236 5 0 2639 2874 55697704 55697469 2.970000e-110 409.0
43 TraesCS2D01G078300 chr2B 90.228 307 22 7 2873 3177 55854117 55853817 8.310000e-106 394.0
44 TraesCS2D01G078300 chr2B 81.274 518 70 18 255 752 777949682 777949172 8.310000e-106 394.0
45 TraesCS2D01G078300 chr2B 88.024 334 29 7 2871 3197 55224539 55224210 5.000000e-103 385.0
46 TraesCS2D01G078300 chr2B 81.278 454 62 12 2438 2874 122994152 122994599 2.360000e-91 346.0
47 TraesCS2D01G078300 chr2B 79.956 459 67 11 2438 2874 122928374 122928829 6.660000e-82 315.0
48 TraesCS2D01G078300 chr2B 98.400 125 2 0 2408 2532 55697832 55697708 1.490000e-53 220.0
49 TraesCS2D01G078300 chr2B 91.200 125 11 0 2750 2874 55226034 55225910 1.520000e-38 171.0
50 TraesCS2D01G078300 chr2B 90.476 126 12 0 2749 2874 55854304 55854179 1.970000e-37 167.0
51 TraesCS2D01G078300 chr2B 86.207 145 20 0 2728 2872 54886627 54886483 1.190000e-34 158.0
52 TraesCS2D01G078300 chr2B 89.381 113 7 4 2285 2397 55208841 55208734 1.550000e-28 137.0
53 TraesCS2D01G078300 chr2B 91.176 102 4 4 2296 2397 55202159 55202063 2.000000e-27 134.0
54 TraesCS2D01G078300 chr2B 82.143 168 18 7 760 918 55856090 55855926 2.000000e-27 134.0
55 TraesCS2D01G078300 chr2B 88.119 101 12 0 2180 2280 54886389 54886289 1.560000e-23 121.0
56 TraesCS2D01G078300 chr2B 91.250 80 7 0 2439 2518 55854521 55854442 3.370000e-20 110.0
57 TraesCS2D01G078300 chr2B 94.000 50 3 0 2645 2694 55207126 55207077 3.420000e-10 76.8
58 TraesCS2D01G078300 chr7B 82.919 603 80 10 1012 1599 15935351 15935945 3.650000e-144 521.0
59 TraesCS2D01G078300 chr7B 81.461 534 84 9 1077 1599 17507716 17508245 1.060000e-114 424.0
60 TraesCS2D01G078300 chr7B 80.104 578 86 20 1041 1599 29608558 29607991 1.380000e-108 403.0
61 TraesCS2D01G078300 chr7B 81.301 369 51 12 395 752 483543167 483543528 1.880000e-72 283.0
62 TraesCS2D01G078300 chr7B 80.579 242 24 9 2624 2865 618519609 618519827 7.090000e-37 165.0
63 TraesCS2D01G078300 chr7B 87.786 131 16 0 1889 2019 674188687 674188817 1.540000e-33 154.0
64 TraesCS2D01G078300 chr7B 83.333 162 24 3 2884 3045 17509831 17509989 2.570000e-31 147.0
65 TraesCS2D01G078300 chr7B 85.315 143 16 3 1887 2026 15936261 15936401 3.320000e-30 143.0
66 TraesCS2D01G078300 chr7B 78.970 233 32 11 2873 3092 31441746 31441518 3.320000e-30 143.0
67 TraesCS2D01G078300 chr7B 83.333 150 23 2 1887 2034 30765153 30765004 1.550000e-28 137.0
68 TraesCS2D01G078300 chr7B 82.209 163 26 3 1887 2048 31447100 31446940 1.550000e-28 137.0
69 TraesCS2D01G078300 chr7A 84.597 422 43 6 4 409 579767620 579767205 1.790000e-107 399.0
70 TraesCS2D01G078300 chrUn 81.274 518 70 18 255 752 242569837 242570347 8.310000e-106 394.0
71 TraesCS2D01G078300 chrUn 80.502 518 68 19 255 752 283603047 283602543 1.810000e-97 366.0
72 TraesCS2D01G078300 chrUn 82.899 345 46 11 255 590 416930071 416930411 6.700000e-77 298.0
73 TraesCS2D01G078300 chr7D 79.249 559 100 11 1045 1592 41693127 41693680 3.010000e-100 375.0
74 TraesCS2D01G078300 chr7D 80.151 529 81 13 1089 1599 82349139 82348617 1.080000e-99 374.0
75 TraesCS2D01G078300 chr7D 78.415 593 86 25 938 1497 82449420 82448837 6.560000e-92 348.0
76 TraesCS2D01G078300 chr7D 76.050 714 112 42 918 1597 73612908 73612220 1.850000e-82 316.0
77 TraesCS2D01G078300 chr7D 89.787 235 22 2 1 233 626485672 626485906 1.860000e-77 300.0
78 TraesCS2D01G078300 chr7D 89.256 242 20 5 1 236 461122487 461122728 6.700000e-77 298.0
79 TraesCS2D01G078300 chr7D 77.331 547 93 20 1064 1600 66517136 66516611 8.670000e-76 294.0
80 TraesCS2D01G078300 chr7D 79.851 402 64 10 1079 1464 596085873 596086273 8.730000e-71 278.0
81 TraesCS2D01G078300 chr7D 78.788 363 52 15 1012 1356 66416526 66416171 1.490000e-53 220.0
82 TraesCS2D01G078300 chr7D 78.591 369 52 14 1012 1356 68983500 68983865 5.370000e-53 219.0
83 TraesCS2D01G078300 chr7D 80.063 316 39 12 2884 3184 74393774 74394080 2.500000e-51 213.0
84 TraesCS2D01G078300 chr7D 88.732 142 10 1 2087 2222 190391996 190391855 5.480000e-38 169.0
85 TraesCS2D01G078300 chr7D 76.855 337 44 20 2871 3178 41694701 41695032 3.300000e-35 159.0
86 TraesCS2D01G078300 chr7D 77.104 297 54 10 1732 2024 73368758 73369044 3.300000e-35 159.0
87 TraesCS2D01G078300 chr7D 88.550 131 15 0 1889 2019 596086573 596086703 3.300000e-35 159.0
88 TraesCS2D01G078300 chr7D 78.927 261 27 10 2642 2874 73563542 73563282 5.520000e-33 152.0
89 TraesCS2D01G078300 chr7D 82.822 163 25 3 1887 2048 82448243 82448083 3.320000e-30 143.0
90 TraesCS2D01G078300 chr7D 84.615 143 17 3 1887 2026 73180295 73180435 1.550000e-28 137.0
91 TraesCS2D01G078300 chr7D 81.006 179 27 6 1886 2060 73611933 73611758 5.560000e-28 135.0
92 TraesCS2D01G078300 chr7D 77.253 233 36 11 2873 3092 82446919 82446691 1.560000e-23 121.0
93 TraesCS2D01G078300 chr7D 82.270 141 22 3 1897 2034 73564463 73564323 5.600000e-23 119.0
94 TraesCS2D01G078300 chr4A 78.712 559 103 10 1045 1592 648880700 648881253 3.030000e-95 359.0
95 TraesCS2D01G078300 chr4A 89.498 219 20 2 1674 1889 723918001 723917783 1.130000e-69 274.0
96 TraesCS2D01G078300 chr4A 80.108 372 40 16 393 749 671029355 671029707 2.460000e-61 246.0
97 TraesCS2D01G078300 chr4A 80.478 251 26 8 2624 2874 411854505 411854278 1.520000e-38 171.0
98 TraesCS2D01G078300 chr4A 86.207 116 10 1 2113 2222 28903975 28904090 1.560000e-23 121.0
99 TraesCS2D01G078300 chr4A 86.207 116 10 1 2113 2222 107756972 107757087 1.560000e-23 121.0
100 TraesCS2D01G078300 chr4A 86.207 116 10 1 2113 2222 229013956 229013841 1.560000e-23 121.0
101 TraesCS2D01G078300 chr4A 86.207 116 10 3 2113 2222 624208307 624208422 1.560000e-23 121.0
102 TraesCS2D01G078300 chr4A 85.345 116 11 2 2113 2222 50460374 50460489 7.250000e-22 115.0
103 TraesCS2D01G078300 chr4A 84.483 116 12 1 2113 2222 26114241 26114356 3.370000e-20 110.0
104 TraesCS2D01G078300 chr4A 84.524 84 13 0 1923 2006 411854809 411854726 2.040000e-12 84.2
105 TraesCS2D01G078300 chr1B 81.439 431 60 8 1 413 38903449 38903877 5.110000e-88 335.0
106 TraesCS2D01G078300 chr1B 89.316 234 17 6 4 232 559125160 559124930 1.450000e-73 287.0
107 TraesCS2D01G078300 chr1B 87.815 238 26 2 4 239 474442151 474441915 3.140000e-70 276.0
108 TraesCS2D01G078300 chr1B 80.876 251 25 8 2624 2874 4617513 4617286 3.280000e-40 176.0
109 TraesCS2D01G078300 chr1B 77.044 318 41 12 2575 2865 15262865 15262553 1.540000e-33 154.0
110 TraesCS2D01G078300 chr1B 85.859 99 9 4 2296 2394 76377521 76377614 2.030000e-17 100.0
111 TraesCS2D01G078300 chr1D 90.984 244 20 2 4 245 357157819 357157576 8.550000e-86 327.0
112 TraesCS2D01G078300 chr1D 90.455 220 17 3 19 236 474113304 474113521 1.450000e-73 287.0
113 TraesCS2D01G078300 chr1D 80.965 373 59 9 393 754 229397168 229397539 5.220000e-73 285.0
114 TraesCS2D01G078300 chr1D 88.235 238 26 2 1 236 28963574 28963811 1.880000e-72 283.0
115 TraesCS2D01G078300 chr1D 88.608 237 22 3 1 233 489533115 489533350 1.880000e-72 283.0
116 TraesCS2D01G078300 chr6B 81.043 422 58 8 1 403 151840907 151841325 1.850000e-82 316.0
117 TraesCS2D01G078300 chr6B 87.013 231 29 1 2871 3101 718287580 718287351 3.160000e-65 259.0
118 TraesCS2D01G078300 chr6B 79.310 377 52 12 393 745 640586499 640586125 1.150000e-59 241.0
119 TraesCS2D01G078300 chr6B 79.139 302 50 12 462 754 1420627 1420330 2.520000e-46 196.0
120 TraesCS2D01G078300 chr6D 80.000 460 61 14 299 754 432807168 432807600 8.610000e-81 311.0
121 TraesCS2D01G078300 chr6D 90.213 235 20 3 1 233 448179455 448179688 1.440000e-78 303.0
122 TraesCS2D01G078300 chr5A 81.452 372 50 10 393 752 662666177 662666541 1.450000e-73 287.0
123 TraesCS2D01G078300 chr5A 79.681 251 28 8 2624 2874 32013387 32013614 3.300000e-35 159.0
124 TraesCS2D01G078300 chr5A 86.207 116 10 1 2113 2222 57539171 57539056 1.560000e-23 121.0
125 TraesCS2D01G078300 chr5A 86.207 116 10 1 2113 2222 359500937 359501052 1.560000e-23 121.0
126 TraesCS2D01G078300 chr5A 86.207 116 10 1 2113 2222 367980555 367980440 1.560000e-23 121.0
127 TraesCS2D01G078300 chr3A 80.984 305 46 8 223 518 548262335 548262636 6.900000e-57 231.0
128 TraesCS2D01G078300 chr3A 80.478 251 26 8 2624 2874 749828491 749828264 1.520000e-38 171.0
129 TraesCS2D01G078300 chr3A 87.324 142 12 1 2087 2222 496377081 496376940 1.190000e-34 158.0
130 TraesCS2D01G078300 chr5B 80.876 251 25 8 2624 2874 400139574 400139347 3.280000e-40 176.0
131 TraesCS2D01G078300 chr5B 80.080 251 27 9 2624 2874 443004586 443004359 7.090000e-37 165.0
132 TraesCS2D01G078300 chr6A 80.478 251 26 8 2624 2874 439516580 439516807 1.520000e-38 171.0
133 TraesCS2D01G078300 chr6A 83.523 176 22 5 2872 3045 31741161 31741331 1.190000e-34 158.0
134 TraesCS2D01G078300 chr6A 86.207 116 10 1 2113 2222 130730265 130730150 1.560000e-23 121.0
135 TraesCS2D01G078300 chr6A 84.483 116 12 1 2113 2222 15521636 15521751 3.370000e-20 110.0
136 TraesCS2D01G078300 chr3D 80.478 251 26 9 2624 2874 216613258 216613031 1.520000e-38 171.0
137 TraesCS2D01G078300 chr5D 87.324 142 12 1 2087 2222 197752215 197752356 1.190000e-34 158.0
138 TraesCS2D01G078300 chr4B 87.879 99 7 4 2296 2394 217280758 217280851 9.370000e-21 111.0


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 TraesCS2D01G078300 chr2D 33578921 33582117 3196 True 5904.000000 5904 100.000000 1 3197 1 chr2D.!!$R3 3196
1 TraesCS2D01G078300 chr2D 33239198 33242182 2984 True 872.500000 1299 86.035500 921 3197 2 chr2D.!!$R5 2276
2 TraesCS2D01G078300 chr2D 33372046 33373920 1874 True 391.480000 1144 92.064800 1255 3197 5 chr2D.!!$R7 1942
3 TraesCS2D01G078300 chr2D 33313266 33314636 1370 True 328.000000 481 87.559333 1674 3197 3 chr2D.!!$R6 1523
4 TraesCS2D01G078300 chr2D 32990993 32992127 1134 True 237.666667 329 86.387667 1729 3083 3 chr2D.!!$R4 1354
5 TraesCS2D01G078300 chr2A 36409731 36411859 2128 True 1086.500000 1810 88.375500 958 3197 2 chr2A.!!$R5 2239
6 TraesCS2D01G078300 chr2A 36398122 36400240 2118 True 918.500000 1389 90.461500 921 3197 2 chr2A.!!$R4 2276
7 TraesCS2D01G078300 chr2A 36390534 36392738 2204 True 380.340000 859 89.432200 958 3197 5 chr2A.!!$R3 2239
8 TraesCS2D01G078300 chr2B 55697088 55699368 2280 True 653.400000 1563 95.635600 958 3197 5 chr2B.!!$R8 2239
9 TraesCS2D01G078300 chr2B 55224210 55227586 3376 True 624.333333 1317 89.182333 958 3197 3 chr2B.!!$R7 2239
10 TraesCS2D01G078300 chr2B 55201464 55210339 8875 True 443.725000 1262 91.007875 958 3197 8 chr2B.!!$R6 2239
11 TraesCS2D01G078300 chr2B 777997314 777997897 583 True 422.000000 422 80.672000 191 752 1 chr2B.!!$R4 561
12 TraesCS2D01G078300 chr2B 55853817 55856090 2273 True 419.200000 1291 88.386800 760 3177 5 chr2B.!!$R9 2417
13 TraesCS2D01G078300 chr2B 777949172 777949682 510 True 394.000000 394 81.274000 255 752 1 chr2B.!!$R3 497
14 TraesCS2D01G078300 chr7B 29607991 29608558 567 True 403.000000 403 80.104000 1041 1599 1 chr7B.!!$R1 558
15 TraesCS2D01G078300 chr7B 15935351 15936401 1050 False 332.000000 521 84.117000 1012 2026 2 chr7B.!!$F4 1014
16 TraesCS2D01G078300 chr7B 17507716 17509989 2273 False 285.500000 424 82.397000 1077 3045 2 chr7B.!!$F5 1968
17 TraesCS2D01G078300 chrUn 242569837 242570347 510 False 394.000000 394 81.274000 255 752 1 chrUn.!!$F1 497
18 TraesCS2D01G078300 chrUn 283602543 283603047 504 True 366.000000 366 80.502000 255 752 1 chrUn.!!$R1 497
19 TraesCS2D01G078300 chr7D 82348617 82349139 522 True 374.000000 374 80.151000 1089 1599 1 chr7D.!!$R3 510
20 TraesCS2D01G078300 chr7D 66516611 66517136 525 True 294.000000 294 77.331000 1064 1600 1 chr7D.!!$R2 536
21 TraesCS2D01G078300 chr7D 41693127 41695032 1905 False 267.000000 375 78.052000 1045 3178 2 chr7D.!!$F7 2133
22 TraesCS2D01G078300 chr7D 73611758 73612908 1150 True 225.500000 316 78.528000 918 2060 2 chr7D.!!$R6 1142
23 TraesCS2D01G078300 chr7D 596085873 596086703 830 False 218.500000 278 84.200500 1079 2019 2 chr7D.!!$F8 940
24 TraesCS2D01G078300 chr7D 82446691 82449420 2729 True 204.000000 348 79.496667 938 3092 3 chr7D.!!$R7 2154
25 TraesCS2D01G078300 chr4A 648880700 648881253 553 False 359.000000 359 78.712000 1045 1592 1 chr4A.!!$F6 547

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
791 826 0.107017 CTCTGGGTAATGTGGGCTGG 60.107 60.0 0.0 0.0 0.0 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2632 7411 1.131638 ACAGTTTCAGACAGCTCCCA 58.868 50.0 0.0 0.0 0.0 4.37 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
17 18 3.353836 CAGTTGTCGCAACCCGGG 61.354 66.667 22.25 22.25 37.59 5.73
18 19 3.552384 AGTTGTCGCAACCCGGGA 61.552 61.111 32.02 0.00 37.59 5.14
19 20 3.047877 GTTGTCGCAACCCGGGAG 61.048 66.667 32.02 20.65 37.23 4.30
20 21 3.552384 TTGTCGCAACCCGGGAGT 61.552 61.111 32.02 12.31 37.23 3.85
21 22 3.109592 TTGTCGCAACCCGGGAGTT 62.110 57.895 32.02 9.56 37.23 3.01
22 23 2.281276 GTCGCAACCCGGGAGTTT 60.281 61.111 32.02 8.62 37.23 2.66
23 24 1.895231 GTCGCAACCCGGGAGTTTT 60.895 57.895 32.02 8.15 37.23 2.43
24 25 1.598685 TCGCAACCCGGGAGTTTTC 60.599 57.895 32.02 4.42 37.59 2.29
25 26 2.622962 CGCAACCCGGGAGTTTTCC 61.623 63.158 32.02 0.00 43.23 3.13
38 39 5.952526 GGAGTTTTCCCATTTTTCGTAGA 57.047 39.130 0.00 0.00 37.53 2.59
39 40 6.510879 GGAGTTTTCCCATTTTTCGTAGAT 57.489 37.500 0.00 0.00 37.53 1.98
40 41 6.552629 GGAGTTTTCCCATTTTTCGTAGATC 58.447 40.000 0.00 0.00 37.53 2.75
41 42 6.404403 GGAGTTTTCCCATTTTTCGTAGATCC 60.404 42.308 0.00 0.00 37.53 3.36
42 43 5.123344 AGTTTTCCCATTTTTCGTAGATCCG 59.877 40.000 0.00 0.00 35.04 4.18
43 44 3.899052 TCCCATTTTTCGTAGATCCGT 57.101 42.857 0.00 0.00 35.04 4.69
44 45 4.210724 TCCCATTTTTCGTAGATCCGTT 57.789 40.909 0.00 0.00 35.04 4.44
45 46 4.581868 TCCCATTTTTCGTAGATCCGTTT 58.418 39.130 0.00 0.00 35.04 3.60
46 47 5.732633 TCCCATTTTTCGTAGATCCGTTTA 58.267 37.500 0.00 0.00 35.04 2.01
47 48 6.171921 TCCCATTTTTCGTAGATCCGTTTAA 58.828 36.000 0.00 0.00 35.04 1.52
48 49 6.824704 TCCCATTTTTCGTAGATCCGTTTAAT 59.175 34.615 0.00 0.00 35.04 1.40
49 50 7.011669 TCCCATTTTTCGTAGATCCGTTTAATC 59.988 37.037 0.00 0.00 35.04 1.75
50 51 7.201661 CCCATTTTTCGTAGATCCGTTTAATCA 60.202 37.037 0.00 0.00 35.04 2.57
51 52 8.178964 CCATTTTTCGTAGATCCGTTTAATCAA 58.821 33.333 0.00 0.00 35.04 2.57
52 53 9.210426 CATTTTTCGTAGATCCGTTTAATCAAG 57.790 33.333 0.00 0.00 35.04 3.02
53 54 8.537049 TTTTTCGTAGATCCGTTTAATCAAGA 57.463 30.769 0.00 0.00 35.04 3.02
54 55 8.712285 TTTTCGTAGATCCGTTTAATCAAGAT 57.288 30.769 0.00 0.00 35.04 2.40
55 56 7.694388 TTCGTAGATCCGTTTAATCAAGATG 57.306 36.000 0.00 0.00 35.04 2.90
56 57 6.802608 TCGTAGATCCGTTTAATCAAGATGT 58.197 36.000 0.00 0.00 0.00 3.06
57 58 7.262772 TCGTAGATCCGTTTAATCAAGATGTT 58.737 34.615 0.00 0.00 0.00 2.71
58 59 7.762615 TCGTAGATCCGTTTAATCAAGATGTTT 59.237 33.333 0.00 0.00 0.00 2.83
59 60 8.388103 CGTAGATCCGTTTAATCAAGATGTTTT 58.612 33.333 0.00 0.00 0.00 2.43
74 75 8.649841 TCAAGATGTTTTATCTTAAACCGTACG 58.350 33.333 8.69 8.69 36.68 3.67
75 76 8.437742 CAAGATGTTTTATCTTAAACCGTACGT 58.562 33.333 15.21 0.00 36.68 3.57
76 77 8.177980 AGATGTTTTATCTTAAACCGTACGTC 57.822 34.615 15.21 0.00 37.24 4.34
77 78 6.704512 TGTTTTATCTTAAACCGTACGTCC 57.295 37.500 15.21 0.00 37.24 4.79
78 79 6.219473 TGTTTTATCTTAAACCGTACGTCCA 58.781 36.000 15.21 0.00 37.24 4.02
79 80 6.703607 TGTTTTATCTTAAACCGTACGTCCAA 59.296 34.615 15.21 1.88 37.24 3.53
80 81 7.225538 TGTTTTATCTTAAACCGTACGTCCAAA 59.774 33.333 15.21 2.60 37.24 3.28
81 82 7.903995 TTTATCTTAAACCGTACGTCCAAAT 57.096 32.000 15.21 1.77 0.00 2.32
82 83 7.524294 TTATCTTAAACCGTACGTCCAAATC 57.476 36.000 15.21 0.00 0.00 2.17
83 84 5.138125 TCTTAAACCGTACGTCCAAATCT 57.862 39.130 15.21 0.00 0.00 2.40
84 85 5.163513 TCTTAAACCGTACGTCCAAATCTC 58.836 41.667 15.21 0.00 0.00 2.75
85 86 1.986698 AACCGTACGTCCAAATCTCG 58.013 50.000 15.21 0.00 0.00 4.04
86 87 1.167851 ACCGTACGTCCAAATCTCGA 58.832 50.000 15.21 0.00 0.00 4.04
87 88 1.541147 ACCGTACGTCCAAATCTCGAA 59.459 47.619 15.21 0.00 0.00 3.71
88 89 1.916000 CCGTACGTCCAAATCTCGAAC 59.084 52.381 15.21 0.00 0.00 3.95
89 90 1.916000 CGTACGTCCAAATCTCGAACC 59.084 52.381 7.22 0.00 0.00 3.62
90 91 1.916000 GTACGTCCAAATCTCGAACCG 59.084 52.381 0.00 0.00 0.00 4.44
91 92 0.316204 ACGTCCAAATCTCGAACCGT 59.684 50.000 0.00 0.00 0.00 4.83
92 93 1.269936 ACGTCCAAATCTCGAACCGTT 60.270 47.619 0.00 0.00 0.00 4.44
93 94 1.796459 CGTCCAAATCTCGAACCGTTT 59.204 47.619 0.00 0.00 0.00 3.60
94 95 2.222445 CGTCCAAATCTCGAACCGTTTT 59.778 45.455 0.00 0.00 0.00 2.43
95 96 3.663493 CGTCCAAATCTCGAACCGTTTTC 60.663 47.826 0.00 0.00 0.00 2.29
96 97 3.249080 GTCCAAATCTCGAACCGTTTTCA 59.751 43.478 0.00 0.00 0.00 2.69
97 98 4.069304 TCCAAATCTCGAACCGTTTTCAT 58.931 39.130 0.00 0.00 0.00 2.57
98 99 4.517453 TCCAAATCTCGAACCGTTTTCATT 59.483 37.500 0.00 0.00 0.00 2.57
99 100 4.616802 CCAAATCTCGAACCGTTTTCATTG 59.383 41.667 0.00 0.00 0.00 2.82
100 101 2.961522 TCTCGAACCGTTTTCATTGC 57.038 45.000 0.00 0.00 0.00 3.56
101 102 2.489971 TCTCGAACCGTTTTCATTGCT 58.510 42.857 0.00 0.00 0.00 3.91
102 103 2.223144 TCTCGAACCGTTTTCATTGCTG 59.777 45.455 0.00 0.00 0.00 4.41
103 104 1.265635 TCGAACCGTTTTCATTGCTGG 59.734 47.619 0.00 0.00 0.00 4.85
104 105 1.265635 CGAACCGTTTTCATTGCTGGA 59.734 47.619 0.00 0.00 0.00 3.86
105 106 2.095263 CGAACCGTTTTCATTGCTGGAT 60.095 45.455 0.00 0.00 0.00 3.41
106 107 3.611530 CGAACCGTTTTCATTGCTGGATT 60.612 43.478 0.00 0.00 0.00 3.01
107 108 4.306600 GAACCGTTTTCATTGCTGGATTT 58.693 39.130 0.00 0.00 0.00 2.17
108 109 3.913089 ACCGTTTTCATTGCTGGATTTC 58.087 40.909 0.00 0.00 0.00 2.17
109 110 3.573967 ACCGTTTTCATTGCTGGATTTCT 59.426 39.130 0.00 0.00 0.00 2.52
110 111 4.168760 CCGTTTTCATTGCTGGATTTCTC 58.831 43.478 0.00 0.00 0.00 2.87
111 112 3.848019 CGTTTTCATTGCTGGATTTCTCG 59.152 43.478 0.00 0.00 0.00 4.04
112 113 3.492421 TTTCATTGCTGGATTTCTCGC 57.508 42.857 0.00 0.00 0.00 5.03
113 114 1.009078 TCATTGCTGGATTTCTCGCG 58.991 50.000 0.00 0.00 0.00 5.87
114 115 0.729116 CATTGCTGGATTTCTCGCGT 59.271 50.000 5.77 0.00 0.00 6.01
115 116 1.131126 CATTGCTGGATTTCTCGCGTT 59.869 47.619 5.77 0.00 0.00 4.84
116 117 0.516877 TTGCTGGATTTCTCGCGTTG 59.483 50.000 5.77 0.00 0.00 4.10
117 118 0.320334 TGCTGGATTTCTCGCGTTGA 60.320 50.000 5.77 2.87 0.00 3.18
118 119 0.371645 GCTGGATTTCTCGCGTTGAG 59.628 55.000 5.77 0.00 46.72 3.02
129 130 3.788434 TCGCGTTGAGATCTTCAAAAC 57.212 42.857 5.77 0.00 46.85 2.43
130 131 3.390135 TCGCGTTGAGATCTTCAAAACT 58.610 40.909 5.77 0.00 46.85 2.66
131 132 4.552355 TCGCGTTGAGATCTTCAAAACTA 58.448 39.130 5.77 0.00 46.85 2.24
132 133 4.621460 TCGCGTTGAGATCTTCAAAACTAG 59.379 41.667 5.77 0.00 46.85 2.57
133 134 4.621460 CGCGTTGAGATCTTCAAAACTAGA 59.379 41.667 0.00 0.00 46.85 2.43
134 135 5.289675 CGCGTTGAGATCTTCAAAACTAGAT 59.710 40.000 0.00 0.00 46.85 1.98
135 136 6.507141 CGCGTTGAGATCTTCAAAACTAGATC 60.507 42.308 0.00 0.00 46.85 2.75
136 137 6.533367 GCGTTGAGATCTTCAAAACTAGATCT 59.467 38.462 12.93 12.93 46.85 2.75
142 143 7.794041 AGATCTTCAAAACTAGATCTCATGCT 58.206 34.615 0.00 0.00 42.45 3.79
143 144 7.711772 AGATCTTCAAAACTAGATCTCATGCTG 59.288 37.037 0.00 0.00 42.45 4.41
144 145 6.939622 TCTTCAAAACTAGATCTCATGCTGA 58.060 36.000 0.00 0.00 0.00 4.26
145 146 7.563020 TCTTCAAAACTAGATCTCATGCTGAT 58.437 34.615 0.00 1.51 0.00 2.90
146 147 8.699130 TCTTCAAAACTAGATCTCATGCTGATA 58.301 33.333 0.00 0.00 0.00 2.15
147 148 8.883954 TTCAAAACTAGATCTCATGCTGATAG 57.116 34.615 0.00 0.00 0.00 2.08
148 149 7.440198 TCAAAACTAGATCTCATGCTGATAGG 58.560 38.462 0.00 0.00 0.00 2.57
149 150 6.992664 AAACTAGATCTCATGCTGATAGGT 57.007 37.500 0.00 0.00 0.00 3.08
150 151 6.992664 AACTAGATCTCATGCTGATAGGTT 57.007 37.500 0.00 5.03 0.00 3.50
151 152 6.992664 ACTAGATCTCATGCTGATAGGTTT 57.007 37.500 0.00 0.00 0.00 3.27
152 153 7.372260 ACTAGATCTCATGCTGATAGGTTTT 57.628 36.000 0.00 0.00 0.00 2.43
153 154 7.215789 ACTAGATCTCATGCTGATAGGTTTTG 58.784 38.462 0.00 0.00 0.00 2.44
154 155 6.244552 AGATCTCATGCTGATAGGTTTTGA 57.755 37.500 0.00 0.00 0.00 2.69
155 156 6.054295 AGATCTCATGCTGATAGGTTTTGAC 58.946 40.000 0.00 0.00 0.00 3.18
156 157 4.183865 TCTCATGCTGATAGGTTTTGACG 58.816 43.478 0.00 0.00 0.00 4.35
157 158 4.081697 TCTCATGCTGATAGGTTTTGACGA 60.082 41.667 0.00 0.00 0.00 4.20
158 159 4.574892 TCATGCTGATAGGTTTTGACGAA 58.425 39.130 0.00 0.00 0.00 3.85
159 160 4.391830 TCATGCTGATAGGTTTTGACGAAC 59.608 41.667 0.00 0.00 0.00 3.95
160 161 4.002906 TGCTGATAGGTTTTGACGAACT 57.997 40.909 0.00 0.00 0.00 3.01
161 162 4.385825 TGCTGATAGGTTTTGACGAACTT 58.614 39.130 0.00 0.00 0.00 2.66
162 163 4.819630 TGCTGATAGGTTTTGACGAACTTT 59.180 37.500 0.00 0.00 0.00 2.66
163 164 5.298276 TGCTGATAGGTTTTGACGAACTTTT 59.702 36.000 0.00 0.00 0.00 2.27
164 165 6.183360 TGCTGATAGGTTTTGACGAACTTTTT 60.183 34.615 0.00 0.00 0.00 1.94
241 242 3.760035 GTGCCTCTCGCGGAAGGA 61.760 66.667 25.65 11.85 42.08 3.36
242 243 2.994995 TGCCTCTCGCGGAAGGAA 60.995 61.111 25.65 16.18 42.08 3.36
279 295 1.508632 TTCCTTTTCGGAGAAGCACG 58.491 50.000 2.88 0.00 45.90 5.34
338 354 3.751175 CGGAAGCAAAATTGTACCTCTCA 59.249 43.478 0.00 0.00 0.00 3.27
345 361 4.884668 AAATTGTACCTCTCACGGAAGA 57.115 40.909 0.00 0.00 0.00 2.87
458 480 1.007734 GGCACGTTCGTGACTCTGA 60.008 57.895 25.87 0.00 40.74 3.27
460 482 0.594028 GCACGTTCGTGACTCTGACA 60.594 55.000 25.87 0.00 38.30 3.58
461 483 1.835121 CACGTTCGTGACTCTGACAA 58.165 50.000 18.64 0.00 38.30 3.18
481 503 0.465460 AAGCAAAACCGTGCCTCTCA 60.465 50.000 0.00 0.00 46.14 3.27
494 516 1.468914 GCCTCTCACGGAATCAAAACC 59.531 52.381 0.00 0.00 0.00 3.27
495 517 2.778299 CCTCTCACGGAATCAAAACCA 58.222 47.619 0.00 0.00 0.00 3.67
573 596 7.462571 TTTTATCCAAAAGCTAAGGAAGACC 57.537 36.000 5.88 0.00 34.62 3.85
578 601 1.640917 AAGCTAAGGAAGACCGGTGA 58.359 50.000 14.63 0.00 41.83 4.02
677 712 1.016130 CCCAGAGCATGACACGTGAC 61.016 60.000 25.01 17.68 0.00 3.67
683 718 4.735132 ATGACACGTGACGGGCGG 62.735 66.667 25.01 0.00 31.12 6.13
724 759 0.976641 TTGATCGTTGTGAGGCTCCT 59.023 50.000 12.86 0.00 0.00 3.69
752 787 1.351153 GCTCGTCAACTAGTTGCTCC 58.649 55.000 27.49 17.08 40.24 4.70
753 788 1.997669 CTCGTCAACTAGTTGCTCCC 58.002 55.000 27.49 14.96 40.24 4.30
754 789 1.272490 CTCGTCAACTAGTTGCTCCCA 59.728 52.381 27.49 10.00 40.24 4.37
755 790 1.272490 TCGTCAACTAGTTGCTCCCAG 59.728 52.381 27.49 15.11 40.24 4.45
756 791 1.272490 CGTCAACTAGTTGCTCCCAGA 59.728 52.381 27.49 8.59 40.24 3.86
757 792 2.288825 CGTCAACTAGTTGCTCCCAGAA 60.289 50.000 27.49 7.88 40.24 3.02
758 793 3.740115 GTCAACTAGTTGCTCCCAGAAA 58.260 45.455 27.49 7.19 40.24 2.52
791 826 0.107017 CTCTGGGTAATGTGGGCTGG 60.107 60.000 0.00 0.00 0.00 4.85
792 827 1.076777 CTGGGTAATGTGGGCTGGG 60.077 63.158 0.00 0.00 0.00 4.45
814 849 3.051210 GGAAACTGCCCACAAGCC 58.949 61.111 0.00 0.00 0.00 4.35
815 850 2.574018 GGAAACTGCCCACAAGCCC 61.574 63.158 0.00 0.00 0.00 5.19
816 851 1.832167 GAAACTGCCCACAAGCCCA 60.832 57.895 0.00 0.00 0.00 5.36
817 852 1.809567 GAAACTGCCCACAAGCCCAG 61.810 60.000 0.00 0.00 0.00 4.45
818 853 2.296945 AAACTGCCCACAAGCCCAGA 62.297 55.000 0.00 0.00 0.00 3.86
819 854 2.360852 CTGCCCACAAGCCCAGAG 60.361 66.667 0.00 0.00 0.00 3.35
820 855 4.666253 TGCCCACAAGCCCAGAGC 62.666 66.667 0.00 0.00 44.25 4.09
823 858 2.360852 CCACAAGCCCAGAGCCTG 60.361 66.667 0.00 0.00 45.47 4.85
885 926 1.549170 GAGGAAAGACGCTTCTGGGTA 59.451 52.381 0.00 0.00 39.55 3.69
897 938 3.761897 CTTCTGGGTAAATGTGGGTTGA 58.238 45.455 0.00 0.00 0.00 3.18
903 944 1.467342 GTAAATGTGGGTTGAGCCGAC 59.533 52.381 0.00 0.00 44.98 4.79
956 998 3.127533 GCGATGGTGGTCAGGCAC 61.128 66.667 0.00 0.00 0.00 5.01
967 1009 1.597854 TCAGGCACGCACCTTGAAG 60.598 57.895 0.00 0.00 38.26 3.02
1047 1135 0.423544 AGAAACCCTCCTCTCCCCAT 59.576 55.000 0.00 0.00 0.00 4.00
2248 5660 7.482169 TCTTTCAGCCTTAACAGAGAAGATA 57.518 36.000 0.00 0.00 0.00 1.98
2292 6817 5.382303 CGCATTTTACTCACGAAATTCAGT 58.618 37.500 0.00 0.00 0.00 3.41
2433 7152 1.159285 TGTTCATCTGCTTTCCTGCG 58.841 50.000 0.00 0.00 35.36 5.18
2518 7280 7.851387 TGTACTGTTGTTCTTGAATGTGTTA 57.149 32.000 0.00 0.00 0.00 2.41
2521 7283 7.566760 ACTGTTGTTCTTGAATGTGTTATGA 57.433 32.000 0.00 0.00 0.00 2.15
2525 7287 8.246871 TGTTGTTCTTGAATGTGTTATGAACAA 58.753 29.630 12.40 12.40 44.89 2.83
2536 7298 5.241285 TGTGTTATGAACAATGCACAGATGT 59.759 36.000 0.00 0.00 44.16 3.06
2538 7300 6.088483 GTGTTATGAACAATGCACAGATGTTG 59.912 38.462 12.13 4.19 44.16 3.33
2548 7310 3.261643 TGCACAGATGTTGGTGTAGATCT 59.738 43.478 0.00 0.00 37.35 2.75
2549 7311 4.466015 TGCACAGATGTTGGTGTAGATCTA 59.534 41.667 0.00 0.00 37.35 1.98
2606 7385 3.568538 CTGATCGTGCTTTGAAAAAGGG 58.431 45.455 2.19 0.00 0.00 3.95
2622 7401 9.849166 TTGAAAAAGGGTATTATGATTCGTTTC 57.151 29.630 0.00 0.00 0.00 2.78
2623 7402 9.238368 TGAAAAAGGGTATTATGATTCGTTTCT 57.762 29.630 0.00 0.00 0.00 2.52
2630 7409 8.771766 GGGTATTATGATTCGTTTCTTTAGGAC 58.228 37.037 0.00 0.00 0.00 3.85
2637 7416 4.267349 TCGTTTCTTTAGGACTTGGGAG 57.733 45.455 0.00 0.00 0.00 4.30
2786 12837 7.765307 TCTGTTCTTGATTTGGATAATTCAGC 58.235 34.615 0.00 0.00 30.48 4.26
2867 12919 4.199432 AGTTCAGTCATCTCATTTCGCT 57.801 40.909 0.00 0.00 0.00 4.93
3032 13177 0.248134 CGACGCGGAGTAGAGAAAGG 60.248 60.000 12.47 0.00 0.00 3.11
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 3.530910 CTCCCGGGTTGCGACAACT 62.531 63.158 22.86 0.00 0.00 3.16
2 3 3.047877 CTCCCGGGTTGCGACAAC 61.048 66.667 22.86 12.44 0.00 3.32
3 4 2.612095 AAACTCCCGGGTTGCGACAA 62.612 55.000 22.86 0.00 0.00 3.18
4 5 2.612095 AAAACTCCCGGGTTGCGACA 62.612 55.000 22.86 0.00 0.00 4.35
5 6 1.848932 GAAAACTCCCGGGTTGCGAC 61.849 60.000 22.86 6.04 0.00 5.19
6 7 1.598685 GAAAACTCCCGGGTTGCGA 60.599 57.895 22.86 0.00 0.00 5.10
7 8 2.622962 GGAAAACTCCCGGGTTGCG 61.623 63.158 22.86 10.26 0.00 4.85
8 9 2.273179 GGGAAAACTCCCGGGTTGC 61.273 63.158 22.86 12.69 40.59 4.17
9 10 4.090723 GGGAAAACTCCCGGGTTG 57.909 61.111 22.86 17.23 40.59 3.77
16 17 5.952526 TCTACGAAAAATGGGAAAACTCC 57.047 39.130 0.00 0.00 0.00 3.85
17 18 6.552629 GGATCTACGAAAAATGGGAAAACTC 58.447 40.000 0.00 0.00 0.00 3.01
18 19 5.123344 CGGATCTACGAAAAATGGGAAAACT 59.877 40.000 0.00 0.00 35.47 2.66
19 20 5.106436 ACGGATCTACGAAAAATGGGAAAAC 60.106 40.000 0.00 0.00 37.61 2.43
20 21 5.005094 ACGGATCTACGAAAAATGGGAAAA 58.995 37.500 0.00 0.00 37.61 2.29
21 22 4.581868 ACGGATCTACGAAAAATGGGAAA 58.418 39.130 0.00 0.00 37.61 3.13
22 23 4.210724 ACGGATCTACGAAAAATGGGAA 57.789 40.909 0.00 0.00 37.61 3.97
23 24 3.899052 ACGGATCTACGAAAAATGGGA 57.101 42.857 0.00 0.00 37.61 4.37
24 25 4.957759 AAACGGATCTACGAAAAATGGG 57.042 40.909 0.00 0.00 37.61 4.00
25 26 7.690228 TGATTAAACGGATCTACGAAAAATGG 58.310 34.615 0.00 0.00 37.61 3.16
26 27 9.210426 CTTGATTAAACGGATCTACGAAAAATG 57.790 33.333 0.00 0.00 37.61 2.32
27 28 9.158233 TCTTGATTAAACGGATCTACGAAAAAT 57.842 29.630 0.00 0.00 37.61 1.82
28 29 8.537049 TCTTGATTAAACGGATCTACGAAAAA 57.463 30.769 0.00 0.00 37.61 1.94
29 30 8.600625 CATCTTGATTAAACGGATCTACGAAAA 58.399 33.333 0.00 0.00 37.61 2.29
30 31 7.762615 ACATCTTGATTAAACGGATCTACGAAA 59.237 33.333 0.00 0.00 37.61 3.46
31 32 7.262772 ACATCTTGATTAAACGGATCTACGAA 58.737 34.615 0.00 0.00 37.61 3.85
32 33 6.802608 ACATCTTGATTAAACGGATCTACGA 58.197 36.000 0.00 0.00 37.61 3.43
33 34 7.464830 AACATCTTGATTAAACGGATCTACG 57.535 36.000 0.00 0.00 40.31 3.51
48 49 8.649841 CGTACGGTTTAAGATAAAACATCTTGA 58.350 33.333 7.57 0.00 40.42 3.02
49 50 8.437742 ACGTACGGTTTAAGATAAAACATCTTG 58.562 33.333 21.06 0.00 40.42 3.02
50 51 8.538409 ACGTACGGTTTAAGATAAAACATCTT 57.462 30.769 21.06 4.99 40.42 2.40
51 52 7.276438 GGACGTACGGTTTAAGATAAAACATCT 59.724 37.037 21.06 0.00 40.42 2.90
52 53 7.063308 TGGACGTACGGTTTAAGATAAAACATC 59.937 37.037 21.06 1.15 40.42 3.06
53 54 6.873076 TGGACGTACGGTTTAAGATAAAACAT 59.127 34.615 21.06 0.00 40.42 2.71
54 55 6.219473 TGGACGTACGGTTTAAGATAAAACA 58.781 36.000 21.06 0.00 40.42 2.83
55 56 6.704512 TGGACGTACGGTTTAAGATAAAAC 57.295 37.500 21.06 0.00 38.39 2.43
56 57 7.721286 TTTGGACGTACGGTTTAAGATAAAA 57.279 32.000 21.06 2.88 0.00 1.52
57 58 7.818930 AGATTTGGACGTACGGTTTAAGATAAA 59.181 33.333 21.06 7.71 0.00 1.40
58 59 7.322664 AGATTTGGACGTACGGTTTAAGATAA 58.677 34.615 21.06 1.70 0.00 1.75
59 60 6.866480 AGATTTGGACGTACGGTTTAAGATA 58.134 36.000 21.06 0.00 0.00 1.98
60 61 5.727434 AGATTTGGACGTACGGTTTAAGAT 58.273 37.500 21.06 4.50 0.00 2.40
61 62 5.138125 AGATTTGGACGTACGGTTTAAGA 57.862 39.130 21.06 0.00 0.00 2.10
62 63 4.030977 CGAGATTTGGACGTACGGTTTAAG 59.969 45.833 21.06 0.00 0.00 1.85
63 64 3.919804 CGAGATTTGGACGTACGGTTTAA 59.080 43.478 21.06 8.75 0.00 1.52
64 65 3.190327 TCGAGATTTGGACGTACGGTTTA 59.810 43.478 21.06 0.93 0.00 2.01
65 66 2.030007 TCGAGATTTGGACGTACGGTTT 60.030 45.455 21.06 0.00 0.00 3.27
66 67 1.541147 TCGAGATTTGGACGTACGGTT 59.459 47.619 21.06 0.00 0.00 4.44
67 68 1.167851 TCGAGATTTGGACGTACGGT 58.832 50.000 21.06 5.07 0.00 4.83
68 69 1.916000 GTTCGAGATTTGGACGTACGG 59.084 52.381 21.06 1.43 0.00 4.02
69 70 1.916000 GGTTCGAGATTTGGACGTACG 59.084 52.381 15.01 15.01 0.00 3.67
70 71 1.916000 CGGTTCGAGATTTGGACGTAC 59.084 52.381 0.00 0.00 0.00 3.67
71 72 1.541147 ACGGTTCGAGATTTGGACGTA 59.459 47.619 0.00 0.00 0.00 3.57
72 73 0.316204 ACGGTTCGAGATTTGGACGT 59.684 50.000 0.00 0.00 0.00 4.34
73 74 1.425412 AACGGTTCGAGATTTGGACG 58.575 50.000 0.00 0.00 0.00 4.79
74 75 3.249080 TGAAAACGGTTCGAGATTTGGAC 59.751 43.478 0.00 0.00 0.00 4.02
75 76 3.468770 TGAAAACGGTTCGAGATTTGGA 58.531 40.909 0.00 0.00 0.00 3.53
76 77 3.889196 TGAAAACGGTTCGAGATTTGG 57.111 42.857 0.00 0.00 0.00 3.28
77 78 4.088496 GCAATGAAAACGGTTCGAGATTTG 59.912 41.667 0.00 0.00 0.00 2.32
78 79 4.023193 AGCAATGAAAACGGTTCGAGATTT 60.023 37.500 0.00 0.00 0.00 2.17
79 80 3.502211 AGCAATGAAAACGGTTCGAGATT 59.498 39.130 0.00 0.00 0.00 2.40
80 81 3.074412 AGCAATGAAAACGGTTCGAGAT 58.926 40.909 0.00 0.00 0.00 2.75
81 82 2.223144 CAGCAATGAAAACGGTTCGAGA 59.777 45.455 0.00 0.00 0.00 4.04
82 83 2.574322 CAGCAATGAAAACGGTTCGAG 58.426 47.619 0.00 0.00 0.00 4.04
83 84 1.265635 CCAGCAATGAAAACGGTTCGA 59.734 47.619 0.00 0.00 0.00 3.71
84 85 1.265635 TCCAGCAATGAAAACGGTTCG 59.734 47.619 0.00 0.00 0.00 3.95
85 86 3.575965 ATCCAGCAATGAAAACGGTTC 57.424 42.857 0.00 0.00 0.00 3.62
86 87 4.039124 AGAAATCCAGCAATGAAAACGGTT 59.961 37.500 0.00 0.00 0.00 4.44
87 88 3.573967 AGAAATCCAGCAATGAAAACGGT 59.426 39.130 0.00 0.00 0.00 4.83
88 89 4.168760 GAGAAATCCAGCAATGAAAACGG 58.831 43.478 0.00 0.00 0.00 4.44
89 90 3.848019 CGAGAAATCCAGCAATGAAAACG 59.152 43.478 0.00 0.00 0.00 3.60
90 91 3.609807 GCGAGAAATCCAGCAATGAAAAC 59.390 43.478 0.00 0.00 0.00 2.43
91 92 3.670359 CGCGAGAAATCCAGCAATGAAAA 60.670 43.478 0.00 0.00 0.00 2.29
92 93 2.159531 CGCGAGAAATCCAGCAATGAAA 60.160 45.455 0.00 0.00 0.00 2.69
93 94 1.398041 CGCGAGAAATCCAGCAATGAA 59.602 47.619 0.00 0.00 0.00 2.57
94 95 1.009078 CGCGAGAAATCCAGCAATGA 58.991 50.000 0.00 0.00 0.00 2.57
95 96 0.729116 ACGCGAGAAATCCAGCAATG 59.271 50.000 15.93 0.00 0.00 2.82
96 97 1.131126 CAACGCGAGAAATCCAGCAAT 59.869 47.619 15.93 0.00 0.00 3.56
97 98 0.516877 CAACGCGAGAAATCCAGCAA 59.483 50.000 15.93 0.00 0.00 3.91
98 99 0.320334 TCAACGCGAGAAATCCAGCA 60.320 50.000 15.93 0.00 0.00 4.41
99 100 0.371645 CTCAACGCGAGAAATCCAGC 59.628 55.000 15.93 0.00 45.45 4.85
108 109 3.430218 AGTTTTGAAGATCTCAACGCGAG 59.570 43.478 15.93 4.76 43.90 5.03
109 110 3.390135 AGTTTTGAAGATCTCAACGCGA 58.610 40.909 15.93 0.00 43.90 5.87
110 111 3.795561 AGTTTTGAAGATCTCAACGCG 57.204 42.857 3.53 3.53 43.90 6.01
111 112 6.533367 AGATCTAGTTTTGAAGATCTCAACGC 59.467 38.462 8.65 0.00 43.90 4.84
117 118 7.711772 CAGCATGAGATCTAGTTTTGAAGATCT 59.288 37.037 13.24 13.24 46.88 2.75
118 119 7.710044 TCAGCATGAGATCTAGTTTTGAAGATC 59.290 37.037 0.00 4.52 42.56 2.75
119 120 7.563020 TCAGCATGAGATCTAGTTTTGAAGAT 58.437 34.615 0.00 0.00 42.56 2.40
120 121 6.939622 TCAGCATGAGATCTAGTTTTGAAGA 58.060 36.000 0.00 0.00 42.56 2.87
137 138 4.393062 AGTTCGTCAAAACCTATCAGCATG 59.607 41.667 0.00 0.00 37.54 4.06
138 139 4.579869 AGTTCGTCAAAACCTATCAGCAT 58.420 39.130 0.00 0.00 0.00 3.79
139 140 4.002906 AGTTCGTCAAAACCTATCAGCA 57.997 40.909 0.00 0.00 0.00 4.41
140 141 5.358298 AAAGTTCGTCAAAACCTATCAGC 57.642 39.130 0.00 0.00 0.00 4.26
172 173 1.152922 TGCTCCCGGTTCGGTTTTT 60.153 52.632 0.00 0.00 46.80 1.94
173 174 1.895231 GTGCTCCCGGTTCGGTTTT 60.895 57.895 0.00 0.00 46.80 2.43
174 175 2.281276 GTGCTCCCGGTTCGGTTT 60.281 61.111 0.00 0.00 46.80 3.27
175 176 4.675029 CGTGCTCCCGGTTCGGTT 62.675 66.667 0.00 0.00 46.80 4.44
179 180 3.837570 AAACCCGTGCTCCCGGTTC 62.838 63.158 0.00 0.00 46.66 3.62
180 181 2.914756 AAAAACCCGTGCTCCCGGTT 62.915 55.000 0.00 4.62 46.66 4.44
181 182 3.424780 AAAAACCCGTGCTCCCGGT 62.425 57.895 0.00 0.00 46.66 5.28
201 202 1.160137 CGTGCCTCTTTCAGAAAGGG 58.840 55.000 20.70 18.05 38.75 3.95
202 203 0.519077 GCGTGCCTCTTTCAGAAAGG 59.481 55.000 20.70 9.48 39.01 3.11
208 209 3.936203 ACGGGCGTGCCTCTTTCA 61.936 61.111 11.25 0.00 36.10 2.69
209 210 3.423154 CACGGGCGTGCCTCTTTC 61.423 66.667 11.25 0.00 39.39 2.62
264 280 1.964373 GGCCGTGCTTCTCCGAAAA 60.964 57.895 0.00 0.00 0.00 2.29
327 343 4.675976 TTTTCTTCCGTGAGAGGTACAA 57.324 40.909 0.00 0.00 0.00 2.41
328 344 4.675976 TTTTTCTTCCGTGAGAGGTACA 57.324 40.909 0.00 0.00 0.00 2.90
370 387 1.438651 CGTGCCTCTCGGAAATGAAA 58.561 50.000 0.00 0.00 0.00 2.69
371 388 3.137484 CGTGCCTCTCGGAAATGAA 57.863 52.632 0.00 0.00 0.00 2.57
372 389 4.910956 CGTGCCTCTCGGAAATGA 57.089 55.556 0.00 0.00 0.00 2.57
391 408 4.116328 CTTCCGCGAGAGGCACGA 62.116 66.667 8.23 0.00 43.84 4.35
430 452 1.615107 CGAACGTGCCTCTCGGAAAC 61.615 60.000 0.00 0.00 0.00 2.78
436 458 0.729816 GAGTCACGAACGTGCCTCTC 60.730 60.000 24.14 21.79 44.66 3.20
445 467 2.607635 TGCTTTTGTCAGAGTCACGAAC 59.392 45.455 0.00 0.00 0.00 3.95
446 468 2.899976 TGCTTTTGTCAGAGTCACGAA 58.100 42.857 0.00 0.00 0.00 3.85
447 469 2.595124 TGCTTTTGTCAGAGTCACGA 57.405 45.000 0.00 0.00 0.00 4.35
458 480 0.534873 AGGCACGGTTTTGCTTTTGT 59.465 45.000 0.00 0.00 42.56 2.83
460 482 1.067060 GAGAGGCACGGTTTTGCTTTT 59.933 47.619 0.00 0.00 42.56 2.27
461 483 0.668535 GAGAGGCACGGTTTTGCTTT 59.331 50.000 0.00 0.00 42.56 3.51
481 503 4.003648 GAGAGTCATGGTTTTGATTCCGT 58.996 43.478 0.00 0.00 34.01 4.69
555 578 2.084546 CCGGTCTTCCTTAGCTTTTGG 58.915 52.381 0.00 0.00 0.00 3.28
611 645 3.555917 TTTTTCACACGTGTTTTCGGT 57.444 38.095 20.79 0.00 34.94 4.69
640 675 1.145377 GCGCTCCCTCCGGATTTTA 59.855 57.895 3.57 0.00 37.60 1.52
642 677 4.176752 GGCGCTCCCTCCGGATTT 62.177 66.667 3.57 0.00 37.60 2.17
666 701 4.735132 CCGCCCGTCACGTGTCAT 62.735 66.667 16.51 0.00 0.00 3.06
677 712 4.183686 CATGCTTTCAGCCGCCCG 62.184 66.667 0.00 0.00 41.51 6.13
683 718 0.459585 CCACATGGCATGCTTTCAGC 60.460 55.000 26.70 0.00 42.82 4.26
695 730 0.179192 CAACGATCAACGCCACATGG 60.179 55.000 0.00 0.00 46.94 3.66
698 733 0.530870 TCACAACGATCAACGCCACA 60.531 50.000 0.00 0.00 46.94 4.17
705 740 0.976641 AGGAGCCTCACAACGATCAA 59.023 50.000 0.00 0.00 0.00 2.57
710 745 0.671781 CCTTCAGGAGCCTCACAACG 60.672 60.000 0.00 0.00 37.39 4.10
724 759 1.372997 GTTGACGAGCGCTCCTTCA 60.373 57.895 30.66 27.59 0.00 3.02
737 772 3.402628 TTCTGGGAGCAACTAGTTGAC 57.597 47.619 34.43 25.51 42.93 3.18
752 787 1.519719 CGCCTCTCCCTCTTTCTGG 59.480 63.158 0.00 0.00 0.00 3.86
753 788 1.153469 GCGCCTCTCCCTCTTTCTG 60.153 63.158 0.00 0.00 0.00 3.02
754 789 2.363172 GGCGCCTCTCCCTCTTTCT 61.363 63.158 22.15 0.00 0.00 2.52
755 790 2.188207 GGCGCCTCTCCCTCTTTC 59.812 66.667 22.15 0.00 0.00 2.62
756 791 2.284995 AGGCGCCTCTCCCTCTTT 60.285 61.111 27.08 0.00 0.00 2.52
757 792 2.762043 GAGGCGCCTCTCCCTCTT 60.762 66.667 42.50 14.43 43.42 2.85
776 811 2.442087 GCCCAGCCCACATTACCC 60.442 66.667 0.00 0.00 0.00 3.69
796 831 2.574018 GGCTTGTGGGCAGTTTCCC 61.574 63.158 0.00 0.00 46.73 3.97
885 926 1.234615 CGTCGGCTCAACCCACATTT 61.235 55.000 0.00 0.00 33.26 2.32
912 953 3.698820 CCTGGGCTTTGGGCTTGC 61.699 66.667 0.00 0.00 41.46 4.01
913 954 2.118076 TCCTGGGCTTTGGGCTTG 59.882 61.111 0.00 0.00 41.46 4.01
914 955 2.118294 GTCCTGGGCTTTGGGCTT 59.882 61.111 0.00 0.00 41.46 4.35
915 956 4.351054 CGTCCTGGGCTTTGGGCT 62.351 66.667 0.00 0.00 41.46 5.19
949 990 1.597854 CTTCAAGGTGCGTGCCTGA 60.598 57.895 0.80 0.00 39.17 3.86
950 991 0.602638 TACTTCAAGGTGCGTGCCTG 60.603 55.000 0.80 0.00 39.17 4.85
951 992 0.602905 GTACTTCAAGGTGCGTGCCT 60.603 55.000 0.00 0.00 41.41 4.75
953 995 0.602905 AGGTACTTCAAGGTGCGTGC 60.603 55.000 0.00 0.00 27.25 5.34
956 998 1.298859 GCCAGGTACTTCAAGGTGCG 61.299 60.000 0.00 0.00 34.60 5.34
1969 2580 1.551145 GAAGACGACAATCTCGAGGC 58.449 55.000 13.56 0.00 46.14 4.70
2248 5660 4.673320 GCGCCAAATTAAACGGTTATCACT 60.673 41.667 0.00 0.00 0.00 3.41
2267 6774 2.604969 TTTCGTGAGTAAAATGCGCC 57.395 45.000 4.18 0.00 0.00 6.53
2407 7126 6.218019 CAGGAAAGCAGATGAACAATTCAAA 58.782 36.000 0.00 0.00 43.95 2.69
2433 7152 8.785329 AACAATTTAAATCTCAGAGTCTCTCC 57.215 34.615 0.00 0.00 0.00 3.71
2518 7280 3.575256 ACCAACATCTGTGCATTGTTCAT 59.425 39.130 0.00 0.00 31.48 2.57
2521 7283 2.694628 ACACCAACATCTGTGCATTGTT 59.305 40.909 0.00 0.00 35.90 2.83
2525 7287 3.701205 TCTACACCAACATCTGTGCAT 57.299 42.857 0.00 0.00 35.90 3.96
2536 7298 7.994425 TGAAGCAAAAATAGATCTACACCAA 57.006 32.000 4.10 0.00 0.00 3.67
2538 7300 8.213518 TGATGAAGCAAAAATAGATCTACACC 57.786 34.615 4.10 0.00 0.00 4.16
2622 7401 2.569404 AGACAGCTCCCAAGTCCTAAAG 59.431 50.000 0.00 0.00 32.82 1.85
2623 7402 2.303022 CAGACAGCTCCCAAGTCCTAAA 59.697 50.000 0.00 0.00 32.82 1.85
2630 7409 2.149578 CAGTTTCAGACAGCTCCCAAG 58.850 52.381 0.00 0.00 0.00 3.61
2632 7411 1.131638 ACAGTTTCAGACAGCTCCCA 58.868 50.000 0.00 0.00 0.00 4.37
2637 7416 3.487544 GGACAACAACAGTTTCAGACAGC 60.488 47.826 0.00 0.00 0.00 4.40
2786 12837 4.037208 GTCAGATGTTATGAAATGGGCCAG 59.963 45.833 13.78 0.00 0.00 4.85
3032 13177 1.686325 TTCAGGGCTCCCGCTATGAC 61.686 60.000 0.00 0.00 41.95 3.06


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

AutoCloner maintained by Alex Coulton.