Multiple sequence alignment - TraesCS2D01G196300

Loading Multiple Alignment...

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 TraesCS2D01G196300 chr2D 100.000 2563 0 0 1 2563 142712578 142710016 0.000000e+00 4734.0
1 TraesCS2D01G196300 chr2D 99.452 365 2 0 2199 2563 144464354 144463990 0.000000e+00 664.0
2 TraesCS2D01G196300 chr2D 99.178 365 3 0 2199 2563 288988193 288988557 0.000000e+00 658.0
3 TraesCS2D01G196300 chr2D 78.284 373 56 15 1098 1465 143117723 143117371 1.540000e-52 217.0
4 TraesCS2D01G196300 chr2B 91.910 2126 89 30 1 2072 200644822 200642726 0.000000e+00 2896.0
5 TraesCS2D01G196300 chr2B 96.699 515 16 1 975 1488 200864318 200863804 0.000000e+00 856.0
6 TraesCS2D01G196300 chr2B 98.093 367 6 1 2198 2563 755637709 755638075 2.780000e-179 638.0
7 TraesCS2D01G196300 chr2B 98.433 319 5 0 659 977 200690991 200690673 1.720000e-156 562.0
8 TraesCS2D01G196300 chr2B 96.667 180 2 4 150 329 200691937 200691762 1.930000e-76 296.0
9 TraesCS2D01G196300 chr2B 78.409 440 67 19 1031 1465 200690593 200690177 7.030000e-66 261.0
10 TraesCS2D01G196300 chr2B 96.241 133 4 1 2068 2200 200642412 200642281 1.540000e-52 217.0
11 TraesCS2D01G196300 chr2B 89.937 159 9 1 1982 2133 200863513 200863355 5.590000e-47 198.0
12 TraesCS2D01G196300 chr2B 92.188 128 7 3 331 455 200692231 200692104 7.290000e-41 178.0
13 TraesCS2D01G196300 chr2B 90.370 135 10 3 331 462 200691498 200691364 9.430000e-40 174.0
14 TraesCS2D01G196300 chr2B 94.048 84 2 2 1472 1554 200863789 200863708 9.630000e-25 124.0
15 TraesCS2D01G196300 chr2B 85.185 108 12 4 1693 1797 318258953 318259059 9.700000e-20 108.0
16 TraesCS2D01G196300 chr2B 92.105 76 4 1 1 74 200651288 200651213 3.490000e-19 106.0
17 TraesCS2D01G196300 chr2B 85.294 102 12 3 1694 1793 672825158 672825058 4.510000e-18 102.0
18 TraesCS2D01G196300 chr2A 91.143 892 39 7 529 1389 158255602 158256484 0.000000e+00 1173.0
19 TraesCS2D01G196300 chr2A 83.668 796 64 35 1428 2200 158256486 158257238 0.000000e+00 689.0
20 TraesCS2D01G196300 chr2A 90.909 330 25 5 1 329 158245281 158245606 3.030000e-119 438.0
21 TraesCS2D01G196300 chr2A 89.697 330 29 5 1 329 158182196 158182521 1.420000e-112 416.0
22 TraesCS2D01G196300 chr2A 80.707 368 56 10 1089 1450 158176550 158176908 3.250000e-69 272.0
23 TraesCS2D01G196300 chr2A 92.982 114 7 1 427 540 158183579 158183691 5.670000e-37 165.0
24 TraesCS2D01G196300 chr2A 90.141 71 7 0 2130 2200 158179938 158180008 2.720000e-15 93.5
25 TraesCS2D01G196300 chr3D 99.724 362 1 0 2202 2563 54774042 54773681 0.000000e+00 664.0
26 TraesCS2D01G196300 chr3D 86.813 182 15 4 148 329 291840244 291840416 7.240000e-46 195.0
27 TraesCS2D01G196300 chr4D 99.180 366 3 0 2198 2563 486439642 486439277 0.000000e+00 660.0
28 TraesCS2D01G196300 chr4D 86.275 102 12 2 1694 1793 375134917 375135018 2.700000e-20 110.0
29 TraesCS2D01G196300 chr4D 85.047 107 13 3 1692 1795 494042476 494042370 3.490000e-19 106.0
30 TraesCS2D01G196300 chr4D 88.710 62 7 0 86 147 96489026 96489087 2.730000e-10 76.8
31 TraesCS2D01G196300 chr1D 98.904 365 4 0 2199 2563 408518558 408518922 0.000000e+00 652.0
32 TraesCS2D01G196300 chr1D 85.246 183 16 5 148 329 172692803 172692975 7.290000e-41 178.0
33 TraesCS2D01G196300 chr1A 97.808 365 8 0 2199 2563 564330612 564330248 4.650000e-177 630.0
34 TraesCS2D01G196300 chr4B 96.986 365 11 0 2199 2563 370709363 370708999 4.690000e-172 614.0
35 TraesCS2D01G196300 chr4B 82.967 182 22 5 148 329 252159742 252159570 3.410000e-34 156.0
36 TraesCS2D01G196300 chr4B 93.651 63 4 0 1917 1979 330750914 330750976 7.550000e-16 95.3
37 TraesCS2D01G196300 chr4B 90.323 62 5 1 86 147 136288630 136288690 2.110000e-11 80.5
38 TraesCS2D01G196300 chr4B 96.774 31 1 0 1873 1903 246317774 246317804 5.000000e-03 52.8
39 TraesCS2D01G196300 chr6B 96.730 367 10 1 2199 2563 14724754 14724388 6.060000e-171 610.0
40 TraesCS2D01G196300 chr6B 84.615 182 19 2 148 329 48121751 48121579 3.390000e-39 172.0
41 TraesCS2D01G196300 chr6B 83.607 183 20 4 148 329 540211136 540210963 2.040000e-36 163.0
42 TraesCS2D01G196300 chr6B 87.879 99 10 2 1699 1795 160912386 160912484 5.790000e-22 115.0
43 TraesCS2D01G196300 chr6B 87.000 100 11 2 1696 1793 679760494 679760395 7.500000e-21 111.0
44 TraesCS2D01G196300 chr6B 86.735 98 11 2 1699 1794 684940398 684940301 9.700000e-20 108.0
45 TraesCS2D01G196300 chr7D 84.615 182 19 3 148 329 72769013 72769185 3.390000e-39 172.0
46 TraesCS2D01G196300 chr7D 83.051 177 21 3 148 324 181746419 181746586 4.420000e-33 152.0
47 TraesCS2D01G196300 chr7B 83.516 182 20 3 148 329 152790063 152790234 7.340000e-36 161.0
48 TraesCS2D01G196300 chr5A 80.769 182 26 3 148 329 696248182 696248354 1.600000e-27 134.0
49 TraesCS2D01G196300 chr5A 97.727 44 1 0 86 129 568885018 568885061 2.730000e-10 76.8
50 TraesCS2D01G196300 chr5A 95.238 42 2 0 88 129 568762441 568762482 1.650000e-07 67.6
51 TraesCS2D01G196300 chr5A 90.698 43 1 2 1948 1988 262291479 262291520 1.000000e-03 54.7
52 TraesCS2D01G196300 chrUn 89.130 92 9 1 1703 1793 89396858 89396767 2.080000e-21 113.0
53 TraesCS2D01G196300 chr5B 78.804 184 23 9 147 328 545168288 545168119 2.700000e-20 110.0
54 TraesCS2D01G196300 chr4A 96.078 51 2 0 86 136 563270205 563270155 1.630000e-12 84.2
55 TraesCS2D01G196300 chr3B 85.246 61 9 0 1919 1979 197283578 197283518 2.130000e-06 63.9
56 TraesCS2D01G196300 chr3B 84.127 63 10 0 1917 1979 196815941 196815879 7.660000e-06 62.1


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 TraesCS2D01G196300 chr2D 142710016 142712578 2562 True 4734.000000 4734 100.000000 1 2563 1 chr2D.!!$R1 2562
1 TraesCS2D01G196300 chr2B 200642281 200644822 2541 True 1556.500000 2896 94.075500 1 2200 2 chr2B.!!$R3 2199
2 TraesCS2D01G196300 chr2B 200863355 200864318 963 True 392.666667 856 93.561333 975 2133 3 chr2B.!!$R5 1158
3 TraesCS2D01G196300 chr2B 200690177 200692231 2054 True 294.200000 562 91.213400 150 1465 5 chr2B.!!$R4 1315
4 TraesCS2D01G196300 chr2A 158255602 158257238 1636 False 931.000000 1173 87.405500 529 2200 2 chr2A.!!$F3 1671
5 TraesCS2D01G196300 chr2A 158176550 158183691 7141 False 236.625000 416 88.381750 1 2200 4 chr2A.!!$F2 2199

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
556 7222 1.201424 GGGGGTATCCAGAAACGTCT 58.799 55.0 0.0 0.0 37.22 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2525 9802 0.034477 GGGATTGGTGGTGGTAGTGG 60.034 60.0 0.0 0.0 0.0 4.0 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
24 5671 6.563422 TGATTACAACATGAGCTTATTTGCC 58.437 36.000 0.00 3.31 0.00 4.52
129 5777 7.012138 GGTCTTCTATACATGTGTCGTCTTAGA 59.988 40.741 9.11 0.00 0.00 2.10
212 5860 9.062524 AGATATTACAAAGCAAGTTACACACAA 57.937 29.630 0.00 0.00 0.00 3.33
334 6246 9.052759 ACACACTACCTAAAAAGTAGTTGAATG 57.947 33.333 14.43 8.67 46.41 2.67
540 7206 1.904287 TTCCACGAAGATGTTTGGGG 58.096 50.000 4.65 4.65 41.73 4.96
556 7222 1.201424 GGGGGTATCCAGAAACGTCT 58.799 55.000 0.00 0.00 37.22 4.18
1063 7944 0.534203 GCCTTCTTCACCGTTCACCA 60.534 55.000 0.00 0.00 0.00 4.17
1064 7945 1.226746 CCTTCTTCACCGTTCACCAC 58.773 55.000 0.00 0.00 0.00 4.16
1065 7946 1.226746 CTTCTTCACCGTTCACCACC 58.773 55.000 0.00 0.00 0.00 4.61
1537 8450 3.951037 TGTCATGTGTTTGCAGTTAACCT 59.049 39.130 0.88 0.00 0.00 3.50
1639 8561 7.039082 TGCTACATGCTATCCCTTTTTCTTTTT 60.039 33.333 0.00 0.00 43.37 1.94
1694 8626 2.438021 ACCACACCTGTCACTGTTGTAT 59.562 45.455 0.00 0.00 0.00 2.29
1704 8636 6.153000 CCTGTCACTGTTGTATTAGTACTCCT 59.847 42.308 0.00 0.00 0.00 3.69
1723 8656 4.320870 TCCTTCGTCCCAAAATAAGTGTC 58.679 43.478 0.00 0.00 0.00 3.67
1725 8658 4.392138 CCTTCGTCCCAAAATAAGTGTCTC 59.608 45.833 0.00 0.00 0.00 3.36
1864 8814 2.028020 GGAAGTACCTTGTAGCACAGCT 60.028 50.000 0.00 0.00 37.97 4.24
1865 8815 3.254892 GAAGTACCTTGTAGCACAGCTC 58.745 50.000 0.00 0.00 40.44 4.09
1867 8817 2.232452 AGTACCTTGTAGCACAGCTCAG 59.768 50.000 0.00 0.00 40.44 3.35
1873 8823 3.449528 TGTAGCACAGCTCAGATCATC 57.550 47.619 0.00 0.00 40.44 2.92
1881 8831 3.951037 ACAGCTCAGATCATCGACTACTT 59.049 43.478 0.00 0.00 0.00 2.24
1956 8906 8.690680 TTTTACACTACACCAATGTCAAAAAC 57.309 30.769 0.00 0.00 40.48 2.43
1957 8907 5.906113 ACACTACACCAATGTCAAAAACA 57.094 34.783 0.00 0.00 43.51 2.83
2149 9426 5.934043 GGAAAAAGTGCCTATCATTTTGCTT 59.066 36.000 0.00 0.00 35.23 3.91
2202 9479 4.849111 GCACTAGCACTGTTTCATACTC 57.151 45.455 0.00 0.00 41.58 2.59
2203 9480 3.619038 GCACTAGCACTGTTTCATACTCC 59.381 47.826 0.00 0.00 41.58 3.85
2204 9481 4.184629 CACTAGCACTGTTTCATACTCCC 58.815 47.826 0.00 0.00 0.00 4.30
2205 9482 4.081420 CACTAGCACTGTTTCATACTCCCT 60.081 45.833 0.00 0.00 0.00 4.20
2206 9483 3.618690 AGCACTGTTTCATACTCCCTC 57.381 47.619 0.00 0.00 0.00 4.30
2207 9484 2.237392 AGCACTGTTTCATACTCCCTCC 59.763 50.000 0.00 0.00 0.00 4.30
2208 9485 2.893637 CACTGTTTCATACTCCCTCCG 58.106 52.381 0.00 0.00 0.00 4.63
2209 9486 2.233922 CACTGTTTCATACTCCCTCCGT 59.766 50.000 0.00 0.00 0.00 4.69
2210 9487 2.496470 ACTGTTTCATACTCCCTCCGTC 59.504 50.000 0.00 0.00 0.00 4.79
2211 9488 1.829222 TGTTTCATACTCCCTCCGTCC 59.171 52.381 0.00 0.00 0.00 4.79
2212 9489 2.108970 GTTTCATACTCCCTCCGTCCT 58.891 52.381 0.00 0.00 0.00 3.85
2213 9490 1.776662 TTCATACTCCCTCCGTCCTG 58.223 55.000 0.00 0.00 0.00 3.86
2214 9491 0.924090 TCATACTCCCTCCGTCCTGA 59.076 55.000 0.00 0.00 0.00 3.86
2215 9492 1.286849 TCATACTCCCTCCGTCCTGAA 59.713 52.381 0.00 0.00 0.00 3.02
2216 9493 2.108168 CATACTCCCTCCGTCCTGAAA 58.892 52.381 0.00 0.00 0.00 2.69
2217 9494 2.314071 TACTCCCTCCGTCCTGAAAA 57.686 50.000 0.00 0.00 0.00 2.29
2218 9495 1.430992 ACTCCCTCCGTCCTGAAAAA 58.569 50.000 0.00 0.00 0.00 1.94
2219 9496 1.071857 ACTCCCTCCGTCCTGAAAAAC 59.928 52.381 0.00 0.00 0.00 2.43
2220 9497 1.071699 CTCCCTCCGTCCTGAAAAACA 59.928 52.381 0.00 0.00 0.00 2.83
2221 9498 1.702957 TCCCTCCGTCCTGAAAAACAT 59.297 47.619 0.00 0.00 0.00 2.71
2222 9499 1.812571 CCCTCCGTCCTGAAAAACATG 59.187 52.381 0.00 0.00 0.00 3.21
2223 9500 2.504367 CCTCCGTCCTGAAAAACATGT 58.496 47.619 0.00 0.00 0.00 3.21
2224 9501 2.484264 CCTCCGTCCTGAAAAACATGTC 59.516 50.000 0.00 0.00 0.00 3.06
2225 9502 2.139917 TCCGTCCTGAAAAACATGTCG 58.860 47.619 0.00 0.00 0.00 4.35
2226 9503 1.399727 CCGTCCTGAAAAACATGTCGC 60.400 52.381 0.00 0.00 0.00 5.19
2227 9504 1.262950 CGTCCTGAAAAACATGTCGCA 59.737 47.619 0.00 0.00 0.00 5.10
2228 9505 2.286713 CGTCCTGAAAAACATGTCGCAA 60.287 45.455 0.00 0.00 0.00 4.85
2229 9506 3.042887 GTCCTGAAAAACATGTCGCAAC 58.957 45.455 0.00 0.00 0.00 4.17
2230 9507 2.043411 CCTGAAAAACATGTCGCAACG 58.957 47.619 0.00 0.00 0.00 4.10
2231 9508 2.043411 CTGAAAAACATGTCGCAACGG 58.957 47.619 0.00 0.00 0.00 4.44
2232 9509 1.402259 TGAAAAACATGTCGCAACGGT 59.598 42.857 0.00 0.00 0.00 4.83
2233 9510 2.612672 TGAAAAACATGTCGCAACGGTA 59.387 40.909 0.00 0.00 0.00 4.02
2234 9511 3.251245 TGAAAAACATGTCGCAACGGTAT 59.749 39.130 0.00 0.00 0.00 2.73
2235 9512 3.907894 AAAACATGTCGCAACGGTATT 57.092 38.095 0.00 0.00 0.00 1.89
2236 9513 3.907894 AAACATGTCGCAACGGTATTT 57.092 38.095 0.00 0.00 0.00 1.40
2237 9514 3.907894 AACATGTCGCAACGGTATTTT 57.092 38.095 0.00 0.00 0.00 1.82
2238 9515 3.907894 ACATGTCGCAACGGTATTTTT 57.092 38.095 0.00 0.00 0.00 1.94
2239 9516 5.359716 AACATGTCGCAACGGTATTTTTA 57.640 34.783 0.00 0.00 0.00 1.52
2240 9517 5.554822 ACATGTCGCAACGGTATTTTTAT 57.445 34.783 0.00 0.00 0.00 1.40
2241 9518 5.328691 ACATGTCGCAACGGTATTTTTATG 58.671 37.500 0.00 0.00 0.00 1.90
2242 9519 5.122554 ACATGTCGCAACGGTATTTTTATGA 59.877 36.000 0.00 0.00 0.00 2.15
2243 9520 5.608676 TGTCGCAACGGTATTTTTATGAA 57.391 34.783 0.00 0.00 0.00 2.57
2244 9521 5.998553 TGTCGCAACGGTATTTTTATGAAA 58.001 33.333 0.00 0.00 0.00 2.69
2245 9522 6.436261 TGTCGCAACGGTATTTTTATGAAAA 58.564 32.000 0.00 0.00 38.96 2.29
2246 9523 6.916387 TGTCGCAACGGTATTTTTATGAAAAA 59.084 30.769 0.00 0.00 43.76 1.94
2247 9524 7.113684 TGTCGCAACGGTATTTTTATGAAAAAG 59.886 33.333 0.00 0.00 42.97 2.27
2248 9525 7.113825 GTCGCAACGGTATTTTTATGAAAAAGT 59.886 33.333 0.00 0.00 42.97 2.66
2249 9526 7.324135 TCGCAACGGTATTTTTATGAAAAAGTC 59.676 33.333 0.00 0.00 42.97 3.01
2250 9527 7.409980 CGCAACGGTATTTTTATGAAAAAGTCC 60.410 37.037 0.00 2.73 42.97 3.85
2251 9528 7.597369 GCAACGGTATTTTTATGAAAAAGTCCT 59.403 33.333 0.00 0.00 42.97 3.85
2252 9529 9.471084 CAACGGTATTTTTATGAAAAAGTCCTT 57.529 29.630 0.00 6.52 42.97 3.36
2253 9530 9.687210 AACGGTATTTTTATGAAAAAGTCCTTC 57.313 29.630 0.00 0.00 42.97 3.46
2254 9531 8.852135 ACGGTATTTTTATGAAAAAGTCCTTCA 58.148 29.630 0.00 0.00 42.97 3.02
2255 9532 9.341899 CGGTATTTTTATGAAAAAGTCCTTCAG 57.658 33.333 0.00 0.00 42.97 3.02
2256 9533 9.639601 GGTATTTTTATGAAAAAGTCCTTCAGG 57.360 33.333 0.00 0.00 42.97 3.86
2263 9540 6.894339 TGAAAAAGTCCTTCAGGTTTATCC 57.106 37.500 0.00 0.00 36.34 2.59
2264 9541 5.472137 TGAAAAAGTCCTTCAGGTTTATCCG 59.528 40.000 0.00 0.00 41.99 4.18
2265 9542 4.903045 AAAGTCCTTCAGGTTTATCCGA 57.097 40.909 0.00 0.00 41.99 4.55
2266 9543 3.889520 AGTCCTTCAGGTTTATCCGAC 57.110 47.619 0.00 0.00 41.99 4.79
2267 9544 2.500504 AGTCCTTCAGGTTTATCCGACC 59.499 50.000 0.00 0.00 41.99 4.79
2268 9545 1.479323 TCCTTCAGGTTTATCCGACCG 59.521 52.381 0.00 0.00 42.11 4.79
2269 9546 1.479323 CCTTCAGGTTTATCCGACCGA 59.521 52.381 0.00 0.00 42.11 4.69
2270 9547 2.093869 CCTTCAGGTTTATCCGACCGAA 60.094 50.000 0.00 0.00 42.11 4.30
2271 9548 2.660189 TCAGGTTTATCCGACCGAAC 57.340 50.000 0.00 0.00 42.11 3.95
2272 9549 1.205417 TCAGGTTTATCCGACCGAACC 59.795 52.381 3.47 3.47 42.11 3.62
2273 9550 0.538584 AGGTTTATCCGACCGAACCC 59.461 55.000 7.00 0.00 41.90 4.11
2274 9551 0.807275 GGTTTATCCGACCGAACCCG 60.807 60.000 0.00 0.00 36.41 5.28
2275 9552 1.153588 TTTATCCGACCGAACCCGC 60.154 57.895 0.00 0.00 0.00 6.13
2276 9553 1.886253 TTTATCCGACCGAACCCGCA 61.886 55.000 0.00 0.00 0.00 5.69
2277 9554 2.287457 TTATCCGACCGAACCCGCAG 62.287 60.000 0.00 0.00 0.00 5.18
2281 9558 3.998672 GACCGAACCCGCAGTCCA 61.999 66.667 0.00 0.00 0.00 4.02
2282 9559 3.524648 GACCGAACCCGCAGTCCAA 62.525 63.158 0.00 0.00 0.00 3.53
2283 9560 2.046314 CCGAACCCGCAGTCCAAT 60.046 61.111 0.00 0.00 0.00 3.16
2284 9561 2.106683 CCGAACCCGCAGTCCAATC 61.107 63.158 0.00 0.00 0.00 2.67
2285 9562 2.452813 CGAACCCGCAGTCCAATCG 61.453 63.158 0.00 0.00 0.00 3.34
2286 9563 1.375523 GAACCCGCAGTCCAATCGT 60.376 57.895 0.00 0.00 0.00 3.73
2287 9564 1.359459 GAACCCGCAGTCCAATCGTC 61.359 60.000 0.00 0.00 0.00 4.20
2288 9565 1.827399 AACCCGCAGTCCAATCGTCT 61.827 55.000 0.00 0.00 0.00 4.18
2289 9566 1.519455 CCCGCAGTCCAATCGTCTC 60.519 63.158 0.00 0.00 0.00 3.36
2290 9567 1.519455 CCGCAGTCCAATCGTCTCC 60.519 63.158 0.00 0.00 0.00 3.71
2291 9568 1.513158 CGCAGTCCAATCGTCTCCT 59.487 57.895 0.00 0.00 0.00 3.69
2292 9569 0.526524 CGCAGTCCAATCGTCTCCTC 60.527 60.000 0.00 0.00 0.00 3.71
2293 9570 0.179097 GCAGTCCAATCGTCTCCTCC 60.179 60.000 0.00 0.00 0.00 4.30
2294 9571 0.101399 CAGTCCAATCGTCTCCTCCG 59.899 60.000 0.00 0.00 0.00 4.63
2295 9572 1.227002 GTCCAATCGTCTCCTCCGC 60.227 63.158 0.00 0.00 0.00 5.54
2296 9573 2.107141 CCAATCGTCTCCTCCGCC 59.893 66.667 0.00 0.00 0.00 6.13
2297 9574 2.721167 CCAATCGTCTCCTCCGCCA 61.721 63.158 0.00 0.00 0.00 5.69
2298 9575 1.227089 CAATCGTCTCCTCCGCCAG 60.227 63.158 0.00 0.00 0.00 4.85
2299 9576 3.082579 AATCGTCTCCTCCGCCAGC 62.083 63.158 0.00 0.00 0.00 4.85
2300 9577 4.742649 TCGTCTCCTCCGCCAGCT 62.743 66.667 0.00 0.00 0.00 4.24
2301 9578 4.200283 CGTCTCCTCCGCCAGCTC 62.200 72.222 0.00 0.00 0.00 4.09
2302 9579 4.200283 GTCTCCTCCGCCAGCTCG 62.200 72.222 0.00 0.00 0.00 5.03
2307 9584 4.869440 CTCCGCCAGCTCGCTCAG 62.869 72.222 0.79 0.00 0.00 3.35
2309 9586 4.749310 CCGCCAGCTCGCTCAGTT 62.749 66.667 0.79 0.00 0.00 3.16
2310 9587 3.184683 CGCCAGCTCGCTCAGTTC 61.185 66.667 0.79 0.00 0.00 3.01
2311 9588 2.817396 GCCAGCTCGCTCAGTTCC 60.817 66.667 0.00 0.00 0.00 3.62
2312 9589 2.659016 CCAGCTCGCTCAGTTCCA 59.341 61.111 0.00 0.00 0.00 3.53
2313 9590 1.739562 CCAGCTCGCTCAGTTCCAC 60.740 63.158 0.00 0.00 0.00 4.02
2314 9591 1.291588 CAGCTCGCTCAGTTCCACT 59.708 57.895 0.00 0.00 0.00 4.00
2315 9592 0.528017 CAGCTCGCTCAGTTCCACTA 59.472 55.000 0.00 0.00 0.00 2.74
2316 9593 0.814457 AGCTCGCTCAGTTCCACTAG 59.186 55.000 0.00 0.00 0.00 2.57
2317 9594 0.804156 GCTCGCTCAGTTCCACTAGC 60.804 60.000 0.00 0.00 0.00 3.42
2318 9595 0.814457 CTCGCTCAGTTCCACTAGCT 59.186 55.000 0.00 0.00 32.73 3.32
2319 9596 0.811915 TCGCTCAGTTCCACTAGCTC 59.188 55.000 0.00 0.00 32.73 4.09
2320 9597 0.179124 CGCTCAGTTCCACTAGCTCC 60.179 60.000 0.00 0.00 32.73 4.70
2321 9598 0.176910 GCTCAGTTCCACTAGCTCCC 59.823 60.000 0.00 0.00 32.18 4.30
2322 9599 0.827368 CTCAGTTCCACTAGCTCCCC 59.173 60.000 0.00 0.00 0.00 4.81
2323 9600 0.617820 TCAGTTCCACTAGCTCCCCC 60.618 60.000 0.00 0.00 0.00 5.40
2324 9601 1.686110 AGTTCCACTAGCTCCCCCG 60.686 63.158 0.00 0.00 0.00 5.73
2325 9602 3.081409 TTCCACTAGCTCCCCCGC 61.081 66.667 0.00 0.00 0.00 6.13
2326 9603 3.916438 TTCCACTAGCTCCCCCGCA 62.916 63.158 0.00 0.00 0.00 5.69
2327 9604 3.399181 CCACTAGCTCCCCCGCAA 61.399 66.667 0.00 0.00 0.00 4.85
2328 9605 2.125106 CACTAGCTCCCCCGCAAC 60.125 66.667 0.00 0.00 0.00 4.17
2329 9606 3.771160 ACTAGCTCCCCCGCAACG 61.771 66.667 0.00 0.00 0.00 4.10
2359 9636 3.463505 CGTAGCTCAAGCACACCG 58.536 61.111 4.59 0.00 45.16 4.94
2360 9637 2.730672 CGTAGCTCAAGCACACCGC 61.731 63.158 4.59 0.00 45.16 5.68
2404 9681 3.592814 CGCGCGGATCCACCTCTA 61.593 66.667 24.84 0.00 36.31 2.43
2405 9682 2.027751 GCGCGGATCCACCTCTAC 59.972 66.667 13.41 0.00 36.31 2.59
2406 9683 2.728817 CGCGGATCCACCTCTACC 59.271 66.667 13.41 0.00 36.31 3.18
2407 9684 2.857744 CGCGGATCCACCTCTACCC 61.858 68.421 13.41 0.00 36.31 3.69
2408 9685 2.508751 GCGGATCCACCTCTACCCC 61.509 68.421 13.41 0.00 36.31 4.95
2409 9686 2.201022 CGGATCCACCTCTACCCCG 61.201 68.421 13.41 0.00 36.31 5.73
2410 9687 1.075450 GGATCCACCTCTACCCCGT 60.075 63.158 6.95 0.00 35.41 5.28
2411 9688 1.400530 GGATCCACCTCTACCCCGTG 61.401 65.000 6.95 0.00 35.41 4.94
2412 9689 2.029307 GATCCACCTCTACCCCGTGC 62.029 65.000 0.00 0.00 0.00 5.34
2413 9690 2.815684 ATCCACCTCTACCCCGTGCA 62.816 60.000 0.00 0.00 0.00 4.57
2414 9691 2.579201 CACCTCTACCCCGTGCAG 59.421 66.667 0.00 0.00 0.00 4.41
2415 9692 3.391382 ACCTCTACCCCGTGCAGC 61.391 66.667 0.00 0.00 0.00 5.25
2416 9693 3.077556 CCTCTACCCCGTGCAGCT 61.078 66.667 0.00 0.00 0.00 4.24
2417 9694 2.496817 CTCTACCCCGTGCAGCTC 59.503 66.667 0.00 0.00 0.00 4.09
2418 9695 3.075005 TCTACCCCGTGCAGCTCC 61.075 66.667 0.00 0.00 0.00 4.70
2419 9696 3.390521 CTACCCCGTGCAGCTCCA 61.391 66.667 0.00 0.00 0.00 3.86
2420 9697 3.665675 CTACCCCGTGCAGCTCCAC 62.666 68.421 0.00 0.00 0.00 4.02
2453 9730 3.798511 CTCCCCCGCTCCCCTTTC 61.799 72.222 0.00 0.00 0.00 2.62
2459 9736 4.489771 CGCTCCCCTTTCCCGCAT 62.490 66.667 0.00 0.00 0.00 4.73
2460 9737 2.517166 GCTCCCCTTTCCCGCATC 60.517 66.667 0.00 0.00 0.00 3.91
2461 9738 2.193248 CTCCCCTTTCCCGCATCC 59.807 66.667 0.00 0.00 0.00 3.51
2462 9739 3.416880 TCCCCTTTCCCGCATCCC 61.417 66.667 0.00 0.00 0.00 3.85
2463 9740 3.420482 CCCCTTTCCCGCATCCCT 61.420 66.667 0.00 0.00 0.00 4.20
2464 9741 2.076184 CCCCTTTCCCGCATCCCTA 61.076 63.158 0.00 0.00 0.00 3.53
2465 9742 1.641552 CCCCTTTCCCGCATCCCTAA 61.642 60.000 0.00 0.00 0.00 2.69
2466 9743 0.257616 CCCTTTCCCGCATCCCTAAA 59.742 55.000 0.00 0.00 0.00 1.85
2467 9744 1.133482 CCCTTTCCCGCATCCCTAAAT 60.133 52.381 0.00 0.00 0.00 1.40
2468 9745 2.666317 CCTTTCCCGCATCCCTAAATT 58.334 47.619 0.00 0.00 0.00 1.82
2469 9746 3.031013 CCTTTCCCGCATCCCTAAATTT 58.969 45.455 0.00 0.00 0.00 1.82
2470 9747 3.068165 CCTTTCCCGCATCCCTAAATTTC 59.932 47.826 0.00 0.00 0.00 2.17
2471 9748 2.358322 TCCCGCATCCCTAAATTTCC 57.642 50.000 0.00 0.00 0.00 3.13
2472 9749 1.566703 TCCCGCATCCCTAAATTTCCA 59.433 47.619 0.00 0.00 0.00 3.53
2473 9750 2.024846 TCCCGCATCCCTAAATTTCCAA 60.025 45.455 0.00 0.00 0.00 3.53
2474 9751 2.362077 CCCGCATCCCTAAATTTCCAAG 59.638 50.000 0.00 0.00 0.00 3.61
2475 9752 2.223805 CCGCATCCCTAAATTTCCAAGC 60.224 50.000 0.00 0.00 0.00 4.01
2476 9753 2.689983 CGCATCCCTAAATTTCCAAGCT 59.310 45.455 0.00 0.00 0.00 3.74
2477 9754 3.131046 CGCATCCCTAAATTTCCAAGCTT 59.869 43.478 0.00 0.00 0.00 3.74
2478 9755 4.381932 CGCATCCCTAAATTTCCAAGCTTT 60.382 41.667 0.00 0.00 0.00 3.51
2479 9756 5.111989 GCATCCCTAAATTTCCAAGCTTTC 58.888 41.667 0.00 0.00 0.00 2.62
2480 9757 5.664457 CATCCCTAAATTTCCAAGCTTTCC 58.336 41.667 0.00 0.00 0.00 3.13
2481 9758 4.093743 TCCCTAAATTTCCAAGCTTTCCC 58.906 43.478 0.00 0.00 0.00 3.97
2482 9759 3.197766 CCCTAAATTTCCAAGCTTTCCCC 59.802 47.826 0.00 0.00 0.00 4.81
2483 9760 3.197766 CCTAAATTTCCAAGCTTTCCCCC 59.802 47.826 0.00 0.00 0.00 5.40
2484 9761 2.414250 AATTTCCAAGCTTTCCCCCA 57.586 45.000 0.00 0.00 0.00 4.96
2485 9762 2.647846 ATTTCCAAGCTTTCCCCCAT 57.352 45.000 0.00 0.00 0.00 4.00
2486 9763 1.937191 TTTCCAAGCTTTCCCCCATC 58.063 50.000 0.00 0.00 0.00 3.51
2487 9764 0.041090 TTCCAAGCTTTCCCCCATCC 59.959 55.000 0.00 0.00 0.00 3.51
2488 9765 1.381735 CCAAGCTTTCCCCCATCCC 60.382 63.158 0.00 0.00 0.00 3.85
2489 9766 1.381735 CAAGCTTTCCCCCATCCCC 60.382 63.158 0.00 0.00 0.00 4.81
2490 9767 1.547495 AAGCTTTCCCCCATCCCCT 60.547 57.895 0.00 0.00 0.00 4.79
2491 9768 1.155664 AAGCTTTCCCCCATCCCCTT 61.156 55.000 0.00 0.00 0.00 3.95
2492 9769 1.075970 GCTTTCCCCCATCCCCTTC 60.076 63.158 0.00 0.00 0.00 3.46
2493 9770 1.620818 CTTTCCCCCATCCCCTTCC 59.379 63.158 0.00 0.00 0.00 3.46
2494 9771 2.284515 CTTTCCCCCATCCCCTTCCG 62.285 65.000 0.00 0.00 0.00 4.30
2495 9772 4.835456 TCCCCCATCCCCTTCCGG 62.835 72.222 0.00 0.00 0.00 5.14
2496 9773 4.835456 CCCCCATCCCCTTCCGGA 62.835 72.222 0.00 0.00 36.02 5.14
2497 9774 2.694616 CCCCATCCCCTTCCGGAA 60.695 66.667 17.73 17.73 34.93 4.30
2498 9775 2.313427 CCCCATCCCCTTCCGGAAA 61.313 63.158 19.39 3.13 34.93 3.13
2499 9776 1.694856 CCCATCCCCTTCCGGAAAA 59.305 57.895 19.39 4.54 34.93 2.29
2500 9777 0.261696 CCCATCCCCTTCCGGAAAAT 59.738 55.000 19.39 6.77 34.93 1.82
2501 9778 1.692411 CCATCCCCTTCCGGAAAATC 58.308 55.000 19.39 0.00 34.93 2.17
2502 9779 1.308998 CATCCCCTTCCGGAAAATCG 58.691 55.000 19.39 6.25 34.93 3.34
2509 9786 2.100216 CCGGAAAATCGGCGCTTG 59.900 61.111 7.64 0.00 43.71 4.01
2510 9787 2.576847 CGGAAAATCGGCGCTTGC 60.577 61.111 7.64 0.00 38.11 4.01
2511 9788 2.877691 GGAAAATCGGCGCTTGCT 59.122 55.556 7.64 0.00 39.13 3.91
2512 9789 1.514873 GGAAAATCGGCGCTTGCTG 60.515 57.895 7.64 0.00 46.82 4.41
2513 9790 2.126346 AAAATCGGCGCTTGCTGC 60.126 55.556 7.64 0.00 44.99 5.25
2522 9799 3.127533 GCTTGCTGCCCGTCGATT 61.128 61.111 0.00 0.00 35.15 3.34
2523 9800 3.093278 CTTGCTGCCCGTCGATTC 58.907 61.111 0.00 0.00 0.00 2.52
2524 9801 1.448540 CTTGCTGCCCGTCGATTCT 60.449 57.895 0.00 0.00 0.00 2.40
2525 9802 1.424493 CTTGCTGCCCGTCGATTCTC 61.424 60.000 0.00 0.00 0.00 2.87
2526 9803 2.586357 GCTGCCCGTCGATTCTCC 60.586 66.667 0.00 0.00 0.00 3.71
2527 9804 2.892640 CTGCCCGTCGATTCTCCA 59.107 61.111 0.00 0.00 0.00 3.86
2528 9805 1.519455 CTGCCCGTCGATTCTCCAC 60.519 63.158 0.00 0.00 0.00 4.02
2529 9806 1.949847 CTGCCCGTCGATTCTCCACT 61.950 60.000 0.00 0.00 0.00 4.00
2530 9807 0.681887 TGCCCGTCGATTCTCCACTA 60.682 55.000 0.00 0.00 0.00 2.74
2531 9808 0.248949 GCCCGTCGATTCTCCACTAC 60.249 60.000 0.00 0.00 0.00 2.73
2532 9809 0.384669 CCCGTCGATTCTCCACTACC 59.615 60.000 0.00 0.00 0.00 3.18
2533 9810 1.100510 CCGTCGATTCTCCACTACCA 58.899 55.000 0.00 0.00 0.00 3.25
2534 9811 1.202268 CCGTCGATTCTCCACTACCAC 60.202 57.143 0.00 0.00 0.00 4.16
2535 9812 1.202268 CGTCGATTCTCCACTACCACC 60.202 57.143 0.00 0.00 0.00 4.61
2536 9813 1.822990 GTCGATTCTCCACTACCACCA 59.177 52.381 0.00 0.00 0.00 4.17
2537 9814 1.822990 TCGATTCTCCACTACCACCAC 59.177 52.381 0.00 0.00 0.00 4.16
2538 9815 1.134788 CGATTCTCCACTACCACCACC 60.135 57.143 0.00 0.00 0.00 4.61
2539 9816 1.906574 GATTCTCCACTACCACCACCA 59.093 52.381 0.00 0.00 0.00 4.17
2540 9817 1.809133 TTCTCCACTACCACCACCAA 58.191 50.000 0.00 0.00 0.00 3.67
2541 9818 2.038863 TCTCCACTACCACCACCAAT 57.961 50.000 0.00 0.00 0.00 3.16
2542 9819 1.906574 TCTCCACTACCACCACCAATC 59.093 52.381 0.00 0.00 0.00 2.67
2543 9820 0.988832 TCCACTACCACCACCAATCC 59.011 55.000 0.00 0.00 0.00 3.01
2544 9821 0.034477 CCACTACCACCACCAATCCC 60.034 60.000 0.00 0.00 0.00 3.85
2545 9822 0.392461 CACTACCACCACCAATCCCG 60.392 60.000 0.00 0.00 0.00 5.14
2546 9823 1.223487 CTACCACCACCAATCCCGG 59.777 63.158 0.00 0.00 0.00 5.73
2547 9824 2.886730 CTACCACCACCAATCCCGGC 62.887 65.000 0.00 0.00 0.00 6.13
2549 9826 4.358841 CACCACCAATCCCGGCCA 62.359 66.667 2.24 0.00 0.00 5.36
2550 9827 4.360405 ACCACCAATCCCGGCCAC 62.360 66.667 2.24 0.00 0.00 5.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
212 5860 8.449251 AAACTATGGTTTCACATGCAATTTTT 57.551 26.923 0.65 0.00 41.23 1.94
394 6309 7.354025 TGCAAGTATTTCAATGCAATTCAAG 57.646 32.000 0.00 0.00 45.04 3.02
540 7206 3.660865 ACACAAGACGTTTCTGGATACC 58.339 45.455 0.00 0.00 29.98 2.73
556 7222 4.338964 AGTTGTGCATCAAATCAGACACAA 59.661 37.500 0.00 0.00 43.51 3.33
623 7291 3.553105 ACACGTTCTTTGTACTCGTTTCC 59.447 43.478 0.00 0.00 32.47 3.13
1495 8406 5.863935 TGACAGTTCATCTCGTAAGTTCATG 59.136 40.000 0.00 0.00 39.48 3.07
1537 8450 2.435938 GCAGAATCGGCGGGACAA 60.436 61.111 7.21 0.00 0.00 3.18
1649 8572 5.539955 TGCCTAGAGATATGTAGCACAATGA 59.460 40.000 0.00 0.00 0.00 2.57
1669 8601 2.072487 AGTGACAGGTGTGGTGCCT 61.072 57.895 0.00 0.00 36.66 4.75
1694 8626 5.750352 ATTTTGGGACGAAGGAGTACTAA 57.250 39.130 0.00 0.00 0.00 2.24
1704 8636 4.963373 TGAGACACTTATTTTGGGACGAA 58.037 39.130 0.00 0.00 0.00 3.85
1767 8704 6.669631 ACTCCCTCCGTCCAAAATAAATATT 58.330 36.000 0.00 0.00 0.00 1.28
1769 8706 5.703730 ACTCCCTCCGTCCAAAATAAATA 57.296 39.130 0.00 0.00 0.00 1.40
1779 8716 0.614134 ACCAACTACTCCCTCCGTCC 60.614 60.000 0.00 0.00 0.00 4.79
1825 8762 0.602638 CCAGTGCGGAGTAAGTGCAA 60.603 55.000 0.00 0.00 40.83 4.08
1850 8800 2.093816 TGATCTGAGCTGTGCTACAAGG 60.094 50.000 0.00 0.00 39.88 3.61
1864 8814 4.138290 GGAGGAAGTAGTCGATGATCTGA 58.862 47.826 0.00 0.00 0.00 3.27
1865 8815 3.058570 CGGAGGAAGTAGTCGATGATCTG 60.059 52.174 0.00 0.00 0.00 2.90
1867 8817 2.879646 ACGGAGGAAGTAGTCGATGATC 59.120 50.000 0.00 0.00 0.00 2.92
1930 8880 9.141400 GTTTTTGACATTGGTGTAGTGTAAAAA 57.859 29.630 0.00 0.00 37.49 1.94
1935 8885 5.906113 TGTTTTTGACATTGGTGTAGTGT 57.094 34.783 0.00 0.00 39.09 3.55
2094 9364 1.227102 CTCCCCGCCATGGAAATCA 59.773 57.895 18.40 0.00 42.00 2.57
2149 9426 6.714810 ACATTTATTCTAACAGAAGCACACCA 59.285 34.615 0.00 0.00 37.69 4.17
2200 9477 1.071699 TGTTTTTCAGGACGGAGGGAG 59.928 52.381 0.00 0.00 0.00 4.30
2201 9478 1.133363 TGTTTTTCAGGACGGAGGGA 58.867 50.000 0.00 0.00 0.00 4.20
2202 9479 1.812571 CATGTTTTTCAGGACGGAGGG 59.187 52.381 0.00 0.00 0.00 4.30
2203 9480 2.484264 GACATGTTTTTCAGGACGGAGG 59.516 50.000 0.00 0.00 0.00 4.30
2204 9481 2.157668 CGACATGTTTTTCAGGACGGAG 59.842 50.000 0.00 0.00 40.70 4.63
2205 9482 2.139917 CGACATGTTTTTCAGGACGGA 58.860 47.619 0.00 0.00 40.70 4.69
2206 9483 1.399727 GCGACATGTTTTTCAGGACGG 60.400 52.381 0.00 0.00 43.32 4.79
2207 9484 1.262950 TGCGACATGTTTTTCAGGACG 59.737 47.619 0.00 0.00 45.05 4.79
2208 9485 3.042887 GTTGCGACATGTTTTTCAGGAC 58.957 45.455 0.00 0.00 0.00 3.85
2209 9486 2.286713 CGTTGCGACATGTTTTTCAGGA 60.287 45.455 0.00 0.00 0.00 3.86
2210 9487 2.043411 CGTTGCGACATGTTTTTCAGG 58.957 47.619 0.00 0.00 0.00 3.86
2211 9488 2.043411 CCGTTGCGACATGTTTTTCAG 58.957 47.619 0.00 0.00 0.00 3.02
2212 9489 1.402259 ACCGTTGCGACATGTTTTTCA 59.598 42.857 0.00 0.00 0.00 2.69
2213 9490 2.113910 ACCGTTGCGACATGTTTTTC 57.886 45.000 0.00 0.00 0.00 2.29
2214 9491 3.907894 ATACCGTTGCGACATGTTTTT 57.092 38.095 0.00 0.00 0.00 1.94
2215 9492 3.907894 AATACCGTTGCGACATGTTTT 57.092 38.095 0.00 0.00 0.00 2.43
2216 9493 3.907894 AAATACCGTTGCGACATGTTT 57.092 38.095 0.00 0.00 0.00 2.83
2217 9494 3.907894 AAAATACCGTTGCGACATGTT 57.092 38.095 0.00 0.00 0.00 2.71
2218 9495 3.907894 AAAAATACCGTTGCGACATGT 57.092 38.095 0.00 0.00 0.00 3.21
2219 9496 5.564768 TCATAAAAATACCGTTGCGACATG 58.435 37.500 4.64 0.00 0.00 3.21
2220 9497 5.804692 TCATAAAAATACCGTTGCGACAT 57.195 34.783 4.64 0.00 0.00 3.06
2221 9498 5.608676 TTCATAAAAATACCGTTGCGACA 57.391 34.783 4.64 0.00 0.00 4.35
2222 9499 6.914760 TTTTCATAAAAATACCGTTGCGAC 57.085 33.333 0.00 0.00 29.44 5.19
2223 9500 7.140048 ACTTTTTCATAAAAATACCGTTGCGA 58.860 30.769 0.00 0.00 39.43 5.10
2224 9501 7.328157 ACTTTTTCATAAAAATACCGTTGCG 57.672 32.000 0.00 0.00 39.43 4.85
2225 9502 7.597369 AGGACTTTTTCATAAAAATACCGTTGC 59.403 33.333 0.00 0.00 39.43 4.17
2226 9503 9.471084 AAGGACTTTTTCATAAAAATACCGTTG 57.529 29.630 0.00 0.00 39.43 4.10
2227 9504 9.687210 GAAGGACTTTTTCATAAAAATACCGTT 57.313 29.630 0.00 0.77 39.43 4.44
2228 9505 8.852135 TGAAGGACTTTTTCATAAAAATACCGT 58.148 29.630 0.00 4.21 39.43 4.83
2229 9506 9.341899 CTGAAGGACTTTTTCATAAAAATACCG 57.658 33.333 0.00 0.00 39.43 4.02
2230 9507 9.639601 CCTGAAGGACTTTTTCATAAAAATACC 57.360 33.333 0.00 5.57 37.26 2.73
2237 9514 9.020731 GGATAAACCTGAAGGACTTTTTCATAA 57.979 33.333 2.62 0.00 38.94 1.90
2238 9515 7.335924 CGGATAAACCTGAAGGACTTTTTCATA 59.664 37.037 2.62 0.00 38.94 2.15
2239 9516 6.151144 CGGATAAACCTGAAGGACTTTTTCAT 59.849 38.462 2.62 0.00 38.94 2.57
2240 9517 5.472137 CGGATAAACCTGAAGGACTTTTTCA 59.528 40.000 2.62 0.00 38.94 2.69
2241 9518 5.704053 TCGGATAAACCTGAAGGACTTTTTC 59.296 40.000 2.62 0.00 38.94 2.29
2242 9519 5.472478 GTCGGATAAACCTGAAGGACTTTTT 59.528 40.000 2.62 0.00 38.94 1.94
2243 9520 5.001874 GTCGGATAAACCTGAAGGACTTTT 58.998 41.667 2.62 0.00 38.94 2.27
2244 9521 4.565028 GGTCGGATAAACCTGAAGGACTTT 60.565 45.833 2.62 0.00 38.94 2.66
2245 9522 3.055312 GGTCGGATAAACCTGAAGGACTT 60.055 47.826 2.62 0.00 38.94 3.01
2246 9523 2.500504 GGTCGGATAAACCTGAAGGACT 59.499 50.000 2.62 0.00 38.94 3.85
2247 9524 2.737679 CGGTCGGATAAACCTGAAGGAC 60.738 54.545 2.62 0.00 38.94 3.85
2248 9525 1.479323 CGGTCGGATAAACCTGAAGGA 59.521 52.381 2.62 0.00 38.94 3.36
2249 9526 1.479323 TCGGTCGGATAAACCTGAAGG 59.521 52.381 0.00 0.00 42.17 3.46
2250 9527 2.928116 GTTCGGTCGGATAAACCTGAAG 59.072 50.000 0.00 0.00 33.31 3.02
2251 9528 2.354003 GGTTCGGTCGGATAAACCTGAA 60.354 50.000 10.24 0.00 38.48 3.02
2252 9529 1.205417 GGTTCGGTCGGATAAACCTGA 59.795 52.381 10.24 0.00 38.48 3.86
2253 9530 1.648504 GGTTCGGTCGGATAAACCTG 58.351 55.000 10.24 0.00 38.48 4.00
2254 9531 0.538584 GGGTTCGGTCGGATAAACCT 59.461 55.000 14.68 0.00 40.79 3.50
2255 9532 0.807275 CGGGTTCGGTCGGATAAACC 60.807 60.000 9.41 9.41 40.36 3.27
2256 9533 1.423721 GCGGGTTCGGTCGGATAAAC 61.424 60.000 0.00 0.00 36.79 2.01
2257 9534 1.153588 GCGGGTTCGGTCGGATAAA 60.154 57.895 0.00 0.00 36.79 1.40
2258 9535 2.287457 CTGCGGGTTCGGTCGGATAA 62.287 60.000 0.00 0.00 36.79 1.75
2259 9536 2.755064 TGCGGGTTCGGTCGGATA 60.755 61.111 0.00 0.00 36.79 2.59
2260 9537 4.143333 CTGCGGGTTCGGTCGGAT 62.143 66.667 0.00 0.00 36.79 4.18
2264 9541 2.798148 ATTGGACTGCGGGTTCGGTC 62.798 60.000 0.00 0.00 40.68 4.79
2265 9542 2.798148 GATTGGACTGCGGGTTCGGT 62.798 60.000 0.00 0.00 36.79 4.69
2266 9543 2.046314 ATTGGACTGCGGGTTCGG 60.046 61.111 0.00 0.00 36.79 4.30
2267 9544 2.452813 CGATTGGACTGCGGGTTCG 61.453 63.158 0.00 0.00 39.81 3.95
2268 9545 1.359459 GACGATTGGACTGCGGGTTC 61.359 60.000 0.00 0.00 0.00 3.62
2269 9546 1.375523 GACGATTGGACTGCGGGTT 60.376 57.895 0.00 0.00 0.00 4.11
2270 9547 2.227089 GAGACGATTGGACTGCGGGT 62.227 60.000 0.00 0.00 0.00 5.28
2271 9548 1.519455 GAGACGATTGGACTGCGGG 60.519 63.158 0.00 0.00 0.00 6.13
2272 9549 1.519455 GGAGACGATTGGACTGCGG 60.519 63.158 0.00 0.00 0.00 5.69
2273 9550 0.526524 GAGGAGACGATTGGACTGCG 60.527 60.000 0.00 0.00 0.00 5.18
2274 9551 0.179097 GGAGGAGACGATTGGACTGC 60.179 60.000 0.00 0.00 0.00 4.40
2275 9552 0.101399 CGGAGGAGACGATTGGACTG 59.899 60.000 0.00 0.00 0.00 3.51
2276 9553 1.668101 GCGGAGGAGACGATTGGACT 61.668 60.000 0.00 0.00 0.00 3.85
2277 9554 1.227002 GCGGAGGAGACGATTGGAC 60.227 63.158 0.00 0.00 0.00 4.02
2278 9555 2.423898 GGCGGAGGAGACGATTGGA 61.424 63.158 0.00 0.00 0.00 3.53
2279 9556 2.107141 GGCGGAGGAGACGATTGG 59.893 66.667 0.00 0.00 0.00 3.16
2280 9557 1.227089 CTGGCGGAGGAGACGATTG 60.227 63.158 0.00 0.00 0.00 2.67
2281 9558 3.082579 GCTGGCGGAGGAGACGATT 62.083 63.158 0.00 0.00 0.00 3.34
2282 9559 3.532155 GCTGGCGGAGGAGACGAT 61.532 66.667 0.00 0.00 0.00 3.73
2283 9560 4.742649 AGCTGGCGGAGGAGACGA 62.743 66.667 0.00 0.00 0.00 4.20
2284 9561 4.200283 GAGCTGGCGGAGGAGACG 62.200 72.222 0.00 0.00 0.00 4.18
2285 9562 4.200283 CGAGCTGGCGGAGGAGAC 62.200 72.222 0.00 0.00 0.00 3.36
2290 9567 4.869440 CTGAGCGAGCTGGCGGAG 62.869 72.222 15.45 10.95 38.18 4.63
2292 9569 4.749310 AACTGAGCGAGCTGGCGG 62.749 66.667 15.45 11.70 38.18 6.13
2293 9570 3.184683 GAACTGAGCGAGCTGGCG 61.185 66.667 15.45 2.34 38.18 5.69
2294 9571 2.817396 GGAACTGAGCGAGCTGGC 60.817 66.667 13.51 13.51 0.00 4.85
2295 9572 1.739562 GTGGAACTGAGCGAGCTGG 60.740 63.158 0.84 0.00 0.00 4.85
2296 9573 3.867771 GTGGAACTGAGCGAGCTG 58.132 61.111 0.84 0.00 0.00 4.24
2307 9584 2.901042 CGGGGGAGCTAGTGGAAC 59.099 66.667 0.00 0.00 0.00 3.62
2308 9585 3.081409 GCGGGGGAGCTAGTGGAA 61.081 66.667 0.00 0.00 0.00 3.53
2309 9586 3.916438 TTGCGGGGGAGCTAGTGGA 62.916 63.158 0.00 0.00 38.13 4.02
2310 9587 3.399181 TTGCGGGGGAGCTAGTGG 61.399 66.667 0.00 0.00 38.13 4.00
2311 9588 2.125106 GTTGCGGGGGAGCTAGTG 60.125 66.667 0.00 0.00 38.13 2.74
2312 9589 3.771160 CGTTGCGGGGGAGCTAGT 61.771 66.667 0.00 0.00 38.13 2.57
2336 9613 2.182030 GCTTGAGCTACGCGAGGT 59.818 61.111 15.93 11.86 39.10 3.85
2337 9614 2.161486 GTGCTTGAGCTACGCGAGG 61.161 63.158 15.93 5.83 42.66 4.63
2338 9615 1.444383 TGTGCTTGAGCTACGCGAG 60.444 57.895 15.93 7.21 42.66 5.03
2339 9616 1.733041 GTGTGCTTGAGCTACGCGA 60.733 57.895 15.93 0.00 42.66 5.87
2340 9617 2.730672 GGTGTGCTTGAGCTACGCG 61.731 63.158 3.53 3.53 42.66 6.01
2341 9618 2.730672 CGGTGTGCTTGAGCTACGC 61.731 63.158 4.44 7.38 42.66 4.42
2342 9619 2.730672 GCGGTGTGCTTGAGCTACG 61.731 63.158 4.44 5.00 42.66 3.51
2343 9620 2.730672 CGCGGTGTGCTTGAGCTAC 61.731 63.158 0.00 3.87 43.27 3.58
2344 9621 2.432456 CGCGGTGTGCTTGAGCTA 60.432 61.111 0.00 0.00 43.27 3.32
2387 9664 3.592814 TAGAGGTGGATCCGCGCG 61.593 66.667 25.67 25.67 40.97 6.86
2388 9665 2.027751 GTAGAGGTGGATCCGCGC 59.972 66.667 18.92 13.20 40.97 6.86
2389 9666 2.728817 GGTAGAGGTGGATCCGCG 59.271 66.667 18.92 0.00 40.97 6.46
2390 9667 2.508751 GGGGTAGAGGTGGATCCGC 61.509 68.421 17.45 17.45 41.99 5.54
2391 9668 2.201022 CGGGGTAGAGGTGGATCCG 61.201 68.421 7.39 0.00 41.99 4.18
2392 9669 1.075450 ACGGGGTAGAGGTGGATCC 60.075 63.158 4.20 4.20 0.00 3.36
2393 9670 2.029307 GCACGGGGTAGAGGTGGATC 62.029 65.000 0.00 0.00 32.42 3.36
2394 9671 2.064581 GCACGGGGTAGAGGTGGAT 61.065 63.158 0.00 0.00 32.42 3.41
2395 9672 2.682494 GCACGGGGTAGAGGTGGA 60.682 66.667 0.00 0.00 32.42 4.02
2396 9673 3.000819 TGCACGGGGTAGAGGTGG 61.001 66.667 0.00 0.00 32.42 4.61
2397 9674 2.579201 CTGCACGGGGTAGAGGTG 59.421 66.667 0.00 0.00 34.85 4.00
2398 9675 3.391382 GCTGCACGGGGTAGAGGT 61.391 66.667 0.00 0.00 0.00 3.85
2399 9676 3.077556 AGCTGCACGGGGTAGAGG 61.078 66.667 0.00 0.00 0.00 3.69
2400 9677 2.496817 GAGCTGCACGGGGTAGAG 59.503 66.667 0.00 0.00 0.00 2.43
2401 9678 3.075005 GGAGCTGCACGGGGTAGA 61.075 66.667 0.00 0.00 0.00 2.59
2402 9679 3.390521 TGGAGCTGCACGGGGTAG 61.391 66.667 2.72 0.00 0.00 3.18
2403 9680 3.702048 GTGGAGCTGCACGGGGTA 61.702 66.667 23.11 0.00 0.00 3.69
2436 9713 3.798511 GAAAGGGGAGCGGGGGAG 61.799 72.222 0.00 0.00 0.00 4.30
2442 9719 4.489771 ATGCGGGAAAGGGGAGCG 62.490 66.667 0.00 0.00 0.00 5.03
2443 9720 2.517166 GATGCGGGAAAGGGGAGC 60.517 66.667 0.00 0.00 0.00 4.70
2444 9721 2.193248 GGATGCGGGAAAGGGGAG 59.807 66.667 0.00 0.00 0.00 4.30
2445 9722 2.555021 TAGGGATGCGGGAAAGGGGA 62.555 60.000 0.00 0.00 0.00 4.81
2446 9723 1.641552 TTAGGGATGCGGGAAAGGGG 61.642 60.000 0.00 0.00 0.00 4.79
2447 9724 0.257616 TTTAGGGATGCGGGAAAGGG 59.742 55.000 0.00 0.00 0.00 3.95
2448 9725 2.364972 ATTTAGGGATGCGGGAAAGG 57.635 50.000 0.00 0.00 0.00 3.11
2449 9726 3.068165 GGAAATTTAGGGATGCGGGAAAG 59.932 47.826 0.00 0.00 0.00 2.62
2450 9727 3.028130 GGAAATTTAGGGATGCGGGAAA 58.972 45.455 0.00 0.00 0.00 3.13
2451 9728 2.024846 TGGAAATTTAGGGATGCGGGAA 60.025 45.455 0.00 0.00 0.00 3.97
2452 9729 1.566703 TGGAAATTTAGGGATGCGGGA 59.433 47.619 0.00 0.00 0.00 5.14
2453 9730 2.065899 TGGAAATTTAGGGATGCGGG 57.934 50.000 0.00 0.00 0.00 6.13
2454 9731 2.223805 GCTTGGAAATTTAGGGATGCGG 60.224 50.000 0.00 0.00 0.00 5.69
2455 9732 2.689983 AGCTTGGAAATTTAGGGATGCG 59.310 45.455 0.00 0.00 0.00 4.73
2456 9733 4.743057 AAGCTTGGAAATTTAGGGATGC 57.257 40.909 0.00 0.00 0.00 3.91
2457 9734 5.395657 GGGAAAGCTTGGAAATTTAGGGATG 60.396 44.000 0.00 0.00 0.00 3.51
2458 9735 4.716784 GGGAAAGCTTGGAAATTTAGGGAT 59.283 41.667 0.00 0.00 0.00 3.85
2459 9736 4.093743 GGGAAAGCTTGGAAATTTAGGGA 58.906 43.478 0.00 0.00 0.00 4.20
2460 9737 3.197766 GGGGAAAGCTTGGAAATTTAGGG 59.802 47.826 0.00 0.00 0.00 3.53
2461 9738 3.197766 GGGGGAAAGCTTGGAAATTTAGG 59.802 47.826 0.00 0.00 0.00 2.69
2462 9739 3.837731 TGGGGGAAAGCTTGGAAATTTAG 59.162 43.478 0.00 0.00 0.00 1.85
2463 9740 3.863086 TGGGGGAAAGCTTGGAAATTTA 58.137 40.909 0.00 0.00 0.00 1.40
2464 9741 2.700354 TGGGGGAAAGCTTGGAAATTT 58.300 42.857 0.00 0.00 0.00 1.82
2465 9742 2.414250 TGGGGGAAAGCTTGGAAATT 57.586 45.000 0.00 0.00 0.00 1.82
2466 9743 2.470990 GATGGGGGAAAGCTTGGAAAT 58.529 47.619 0.00 0.00 0.00 2.17
2467 9744 1.552254 GGATGGGGGAAAGCTTGGAAA 60.552 52.381 0.00 0.00 0.00 3.13
2468 9745 0.041090 GGATGGGGGAAAGCTTGGAA 59.959 55.000 0.00 0.00 0.00 3.53
2469 9746 1.697297 GGATGGGGGAAAGCTTGGA 59.303 57.895 0.00 0.00 0.00 3.53
2470 9747 1.381735 GGGATGGGGGAAAGCTTGG 60.382 63.158 0.00 0.00 0.00 3.61
2471 9748 1.381735 GGGGATGGGGGAAAGCTTG 60.382 63.158 0.00 0.00 0.00 4.01
2472 9749 1.155664 AAGGGGATGGGGGAAAGCTT 61.156 55.000 0.00 0.00 0.00 3.74
2473 9750 1.547495 AAGGGGATGGGGGAAAGCT 60.547 57.895 0.00 0.00 0.00 3.74
2474 9751 1.075970 GAAGGGGATGGGGGAAAGC 60.076 63.158 0.00 0.00 0.00 3.51
2475 9752 1.620818 GGAAGGGGATGGGGGAAAG 59.379 63.158 0.00 0.00 0.00 2.62
2476 9753 2.313427 CGGAAGGGGATGGGGGAAA 61.313 63.158 0.00 0.00 0.00 3.13
2477 9754 2.694616 CGGAAGGGGATGGGGGAA 60.695 66.667 0.00 0.00 0.00 3.97
2493 9770 2.576847 GCAAGCGCCGATTTTCCG 60.577 61.111 2.29 0.00 0.00 4.30
2494 9771 1.514873 CAGCAAGCGCCGATTTTCC 60.515 57.895 2.29 0.00 39.83 3.13
2495 9772 2.154569 GCAGCAAGCGCCGATTTTC 61.155 57.895 2.29 0.00 39.83 2.29
2496 9773 2.126346 GCAGCAAGCGCCGATTTT 60.126 55.556 2.29 0.00 39.83 1.82
2505 9782 3.100862 GAATCGACGGGCAGCAAGC 62.101 63.158 0.00 0.00 44.65 4.01
2506 9783 1.424493 GAGAATCGACGGGCAGCAAG 61.424 60.000 0.00 0.00 0.00 4.01
2507 9784 1.447838 GAGAATCGACGGGCAGCAA 60.448 57.895 0.00 0.00 0.00 3.91
2508 9785 2.184322 GAGAATCGACGGGCAGCA 59.816 61.111 0.00 0.00 0.00 4.41
2509 9786 2.586357 GGAGAATCGACGGGCAGC 60.586 66.667 0.00 0.00 34.37 5.25
2510 9787 1.519455 GTGGAGAATCGACGGGCAG 60.519 63.158 0.00 0.00 33.18 4.85
2511 9788 2.577059 GTGGAGAATCGACGGGCA 59.423 61.111 0.00 0.00 33.18 5.36
2516 9793 1.822990 TGGTGGTAGTGGAGAATCGAC 59.177 52.381 0.00 0.00 44.86 4.20
2517 9794 1.822990 GTGGTGGTAGTGGAGAATCGA 59.177 52.381 0.00 0.00 34.37 3.59
2518 9795 1.134788 GGTGGTGGTAGTGGAGAATCG 60.135 57.143 0.00 0.00 34.37 3.34
2519 9796 1.906574 TGGTGGTGGTAGTGGAGAATC 59.093 52.381 0.00 0.00 0.00 2.52
2520 9797 2.038863 TGGTGGTGGTAGTGGAGAAT 57.961 50.000 0.00 0.00 0.00 2.40
2521 9798 1.809133 TTGGTGGTGGTAGTGGAGAA 58.191 50.000 0.00 0.00 0.00 2.87
2522 9799 1.906574 GATTGGTGGTGGTAGTGGAGA 59.093 52.381 0.00 0.00 0.00 3.71
2523 9800 1.065418 GGATTGGTGGTGGTAGTGGAG 60.065 57.143 0.00 0.00 0.00 3.86
2524 9801 0.988832 GGATTGGTGGTGGTAGTGGA 59.011 55.000 0.00 0.00 0.00 4.02
2525 9802 0.034477 GGGATTGGTGGTGGTAGTGG 60.034 60.000 0.00 0.00 0.00 4.00
2526 9803 0.392461 CGGGATTGGTGGTGGTAGTG 60.392 60.000 0.00 0.00 0.00 2.74
2527 9804 1.559065 CCGGGATTGGTGGTGGTAGT 61.559 60.000 0.00 0.00 0.00 2.73
2528 9805 1.223487 CCGGGATTGGTGGTGGTAG 59.777 63.158 0.00 0.00 0.00 3.18
2529 9806 2.974041 GCCGGGATTGGTGGTGGTA 61.974 63.158 2.18 0.00 0.00 3.25
2530 9807 4.360405 GCCGGGATTGGTGGTGGT 62.360 66.667 2.18 0.00 0.00 4.16
2532 9809 4.358841 TGGCCGGGATTGGTGGTG 62.359 66.667 2.18 0.00 0.00 4.17
2533 9810 4.360405 GTGGCCGGGATTGGTGGT 62.360 66.667 2.18 0.00 0.00 4.16


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

AutoCloner maintained by Alex Coulton.