Multiple sequence alignment - TraesCS5D01G075100

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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 TraesCS5D01G075100 chr5D 100.000 4681 0 0 1 4681 74423977 74428657 0.000000e+00 8645.0
1 TraesCS5D01G075100 chr5B 93.395 3134 131 30 543 3657 77849337 77846261 0.000000e+00 4571.0
2 TraesCS5D01G075100 chr5B 93.208 795 39 8 3899 4681 77839991 77839200 0.000000e+00 1155.0
3 TraesCS5D01G075100 chr5B 94.118 238 11 2 3 238 77849821 77849585 4.450000e-95 359.0
4 TraesCS5D01G075100 chr5B 94.444 216 10 2 320 535 77849586 77849373 9.710000e-87 331.0
5 TraesCS5D01G075100 chr5B 84.211 76 11 1 557 631 74435513 74435588 6.500000e-09 73.1
6 TraesCS5D01G075100 chr5A 89.599 3240 196 72 479 3667 69795027 69798176 0.000000e+00 3986.0
7 TraesCS5D01G075100 chr5A 94.792 288 13 1 4180 4467 69798482 69798767 9.240000e-122 448.0
8 TraesCS5D01G075100 chr5A 93.684 285 16 2 3867 4149 69798199 69798483 4.330000e-115 425.0
9 TraesCS5D01G075100 chr5A 91.111 225 17 3 4459 4681 69802158 69802381 7.610000e-78 302.0
10 TraesCS5D01G075100 chr7D 100.000 146 0 0 3721 3866 106364791 106364646 2.150000e-68 270.0
11 TraesCS5D01G075100 chr7D 94.565 92 5 0 237 328 133781534 133781443 4.880000e-30 143.0
12 TraesCS5D01G075100 chr1D 98.667 150 2 0 3722 3871 146493591 146493442 2.780000e-67 267.0
13 TraesCS5D01G075100 chr1D 98.667 150 2 0 3722 3871 146494035 146493886 2.780000e-67 267.0
14 TraesCS5D01G075100 chr1D 98.667 150 2 0 3722 3871 146494477 146494328 2.780000e-67 267.0
15 TraesCS5D01G075100 chr1D 98.667 150 2 0 3722 3871 146494921 146494772 2.780000e-67 267.0
16 TraesCS5D01G075100 chr1D 99.310 145 1 0 3722 3866 468573526 468573670 3.590000e-66 263.0
17 TraesCS5D01G075100 chr1D 98.000 150 3 0 3722 3871 146495363 146495214 1.290000e-65 261.0
18 TraesCS5D01G075100 chr6D 94.558 147 7 1 3721 3866 155248363 155248217 4.710000e-55 226.0
19 TraesCS5D01G075100 chr3D 97.710 131 3 0 3722 3852 587918133 587918003 4.710000e-55 226.0
20 TraesCS5D01G075100 chr3D 91.000 100 8 1 234 332 40748374 40748473 2.940000e-27 134.0
21 TraesCS5D01G075100 chr3D 96.875 32 1 0 4092 4123 523157457 523157426 2.000000e-03 54.7
22 TraesCS5D01G075100 chr2D 96.739 92 3 0 237 328 182128215 182128124 2.260000e-33 154.0
23 TraesCS5D01G075100 chr2D 100.000 29 0 0 4095 4123 270480404 270480432 2.000000e-03 54.7
24 TraesCS5D01G075100 chr1A 95.506 89 4 0 234 322 561611330 561611242 4.880000e-30 143.0
25 TraesCS5D01G075100 chr1A 94.565 92 4 1 237 327 448929741 448929832 1.760000e-29 141.0
26 TraesCS5D01G075100 chr1A 92.553 94 7 0 235 328 310856467 310856374 8.170000e-28 135.0
27 TraesCS5D01G075100 chr2B 95.455 88 4 0 237 324 754010029 754009942 1.760000e-29 141.0
28 TraesCS5D01G075100 chr2B 100.000 29 0 0 4095 4123 350299981 350299953 2.000000e-03 54.7
29 TraesCS5D01G075100 chr3B 89.720 107 10 1 234 339 700365766 700365660 8.170000e-28 135.0
30 TraesCS5D01G075100 chr3B 100.000 29 0 0 4096 4124 157247160 157247132 2.000000e-03 54.7
31 TraesCS5D01G075100 chr7A 93.258 89 6 0 237 325 327304743 327304655 1.060000e-26 132.0
32 TraesCS5D01G075100 chr7A 100.000 29 0 0 4096 4124 205123889 205123861 2.000000e-03 54.7
33 TraesCS5D01G075100 chr7B 100.000 29 0 0 4096 4124 750403674 750403702 2.000000e-03 54.7
34 TraesCS5D01G075100 chr3A 100.000 29 0 0 4096 4124 550415672 550415700 2.000000e-03 54.7


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 TraesCS5D01G075100 chr5D 74423977 74428657 4680 False 8645.000000 8645 100.000000 1 4681 1 chr5D.!!$F1 4680
1 TraesCS5D01G075100 chr5B 77846261 77849821 3560 True 1753.666667 4571 93.985667 3 3657 3 chr5B.!!$R2 3654
2 TraesCS5D01G075100 chr5B 77839200 77839991 791 True 1155.000000 1155 93.208000 3899 4681 1 chr5B.!!$R1 782
3 TraesCS5D01G075100 chr5A 69795027 69802381 7354 False 1290.250000 3986 92.296500 479 4681 4 chr5A.!!$F1 4202
4 TraesCS5D01G075100 chr1D 146493442 146495363 1921 True 265.800000 267 98.533600 3722 3871 5 chr1D.!!$R1 149

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
250 253 1.134068 GGCAATTACTCCCTCTGTCCC 60.134 57.143 0.00 0.00 0.00 4.46 F
1072 1124 0.238553 GACCGAAGCAAAGGTGAAGC 59.761 55.000 1.67 0.00 41.51 3.86 F
1073 1125 0.465460 ACCGAAGCAAAGGTGAAGCA 60.465 50.000 0.00 0.00 39.66 3.91 F
1074 1126 0.667993 CCGAAGCAAAGGTGAAGCAA 59.332 50.000 0.00 0.00 0.00 3.91 F
2474 2548 0.777446 AGCCACAGGTACAATTGGGT 59.223 50.000 10.83 5.09 34.99 4.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1726 1784 0.888619 CCAGAGCGTCAGTTCCTGTA 59.111 55.000 0.00 0.00 32.61 2.74 R
1967 2025 1.297689 GGCTGCAGAGATGGTCACA 59.702 57.895 20.43 0.00 0.00 3.58 R
2512 2586 1.620323 TGACATAGCACTGCAGACACT 59.380 47.619 23.35 16.09 0.00 3.55 R
2515 2589 2.625737 ACATGACATAGCACTGCAGAC 58.374 47.619 23.35 12.21 0.00 3.51 R
4313 5306 1.262950 CTGACTCTCCAGCTACGATCG 59.737 57.143 14.88 14.88 0.00 3.69 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
63 64 5.800296 TCCCTCGAATGTTTTCTATGTTCA 58.200 37.500 0.00 0.00 0.00 3.18
126 129 9.595823 TCCTAAGGTTCTTTATTCTACATTTCG 57.404 33.333 0.00 0.00 0.00 3.46
143 146 9.638300 CTACATTTCGTAAAAGACATAGCAATC 57.362 33.333 0.00 0.00 0.00 2.67
184 187 4.497473 TCCTTTGTTTTCCTGTAATGCG 57.503 40.909 0.00 0.00 0.00 4.73
185 188 3.254657 TCCTTTGTTTTCCTGTAATGCGG 59.745 43.478 0.00 0.00 0.00 5.69
238 241 4.579454 ATGAGCATGACATGGCAATTAC 57.421 40.909 17.03 0.00 0.00 1.89
239 242 3.623703 TGAGCATGACATGGCAATTACT 58.376 40.909 17.03 0.00 0.00 2.24
240 243 3.628942 TGAGCATGACATGGCAATTACTC 59.371 43.478 17.03 10.78 0.00 2.59
241 244 2.954318 AGCATGACATGGCAATTACTCC 59.046 45.455 17.03 0.00 0.00 3.85
242 245 2.035066 GCATGACATGGCAATTACTCCC 59.965 50.000 17.03 0.00 0.00 4.30
243 246 3.559069 CATGACATGGCAATTACTCCCT 58.441 45.455 4.70 0.00 0.00 4.20
244 247 3.281727 TGACATGGCAATTACTCCCTC 57.718 47.619 0.00 0.00 0.00 4.30
245 248 2.846206 TGACATGGCAATTACTCCCTCT 59.154 45.455 0.00 0.00 0.00 3.69
246 249 3.209410 GACATGGCAATTACTCCCTCTG 58.791 50.000 0.00 0.00 0.00 3.35
247 250 2.578021 ACATGGCAATTACTCCCTCTGT 59.422 45.455 0.00 0.00 0.00 3.41
248 251 3.209410 CATGGCAATTACTCCCTCTGTC 58.791 50.000 0.00 0.00 0.00 3.51
249 252 1.559682 TGGCAATTACTCCCTCTGTCC 59.440 52.381 0.00 0.00 0.00 4.02
250 253 1.134068 GGCAATTACTCCCTCTGTCCC 60.134 57.143 0.00 0.00 0.00 4.46
251 254 1.559682 GCAATTACTCCCTCTGTCCCA 59.440 52.381 0.00 0.00 0.00 4.37
252 255 2.173569 GCAATTACTCCCTCTGTCCCAT 59.826 50.000 0.00 0.00 0.00 4.00
253 256 3.391296 GCAATTACTCCCTCTGTCCCATA 59.609 47.826 0.00 0.00 0.00 2.74
254 257 4.141482 GCAATTACTCCCTCTGTCCCATAA 60.141 45.833 0.00 0.00 0.00 1.90
255 258 5.456763 GCAATTACTCCCTCTGTCCCATAAT 60.457 44.000 0.00 0.00 0.00 1.28
256 259 6.239887 GCAATTACTCCCTCTGTCCCATAATA 60.240 42.308 0.00 0.00 0.00 0.98
257 260 7.529560 GCAATTACTCCCTCTGTCCCATAATAT 60.530 40.741 0.00 0.00 0.00 1.28
258 261 9.046846 CAATTACTCCCTCTGTCCCATAATATA 57.953 37.037 0.00 0.00 0.00 0.86
259 262 9.629649 AATTACTCCCTCTGTCCCATAATATAA 57.370 33.333 0.00 0.00 0.00 0.98
260 263 8.666129 TTACTCCCTCTGTCCCATAATATAAG 57.334 38.462 0.00 0.00 0.00 1.73
261 264 6.875469 ACTCCCTCTGTCCCATAATATAAGA 58.125 40.000 0.00 0.00 0.00 2.10
262 265 7.313731 ACTCCCTCTGTCCCATAATATAAGAA 58.686 38.462 0.00 0.00 0.00 2.52
263 266 7.235812 ACTCCCTCTGTCCCATAATATAAGAAC 59.764 40.741 0.00 0.00 0.00 3.01
264 267 6.210784 TCCCTCTGTCCCATAATATAAGAACG 59.789 42.308 0.00 0.00 0.00 3.95
265 268 6.014499 CCCTCTGTCCCATAATATAAGAACGT 60.014 42.308 0.00 0.00 0.00 3.99
266 269 7.442656 CCTCTGTCCCATAATATAAGAACGTT 58.557 38.462 0.00 0.00 0.00 3.99
267 270 7.931948 CCTCTGTCCCATAATATAAGAACGTTT 59.068 37.037 0.46 0.00 0.00 3.60
268 271 9.326413 CTCTGTCCCATAATATAAGAACGTTTT 57.674 33.333 0.46 0.00 0.00 2.43
269 272 9.675464 TCTGTCCCATAATATAAGAACGTTTTT 57.325 29.630 9.22 9.22 0.00 1.94
293 296 8.659569 TTTATACTACACTAGTGTCGAAAACG 57.340 34.615 31.11 13.90 43.74 3.60
294 297 4.558538 ACTACACTAGTGTCGAAAACGT 57.441 40.909 31.11 14.47 43.74 3.99
295 298 4.925068 ACTACACTAGTGTCGAAAACGTT 58.075 39.130 31.11 6.17 43.74 3.99
296 299 4.972440 ACTACACTAGTGTCGAAAACGTTC 59.028 41.667 31.11 0.00 43.74 3.95
297 300 4.037858 ACACTAGTGTCGAAAACGTTCT 57.962 40.909 22.95 0.00 40.24 3.01
298 301 4.427312 ACACTAGTGTCGAAAACGTTCTT 58.573 39.130 22.95 0.00 40.24 2.52
299 302 5.581605 ACACTAGTGTCGAAAACGTTCTTA 58.418 37.500 22.95 0.00 40.24 2.10
300 303 6.211515 ACACTAGTGTCGAAAACGTTCTTAT 58.788 36.000 22.95 0.00 40.24 1.73
301 304 7.362662 ACACTAGTGTCGAAAACGTTCTTATA 58.637 34.615 22.95 0.00 40.24 0.98
302 305 8.025445 ACACTAGTGTCGAAAACGTTCTTATAT 58.975 33.333 22.95 0.00 40.24 0.86
303 306 8.857216 CACTAGTGTCGAAAACGTTCTTATATT 58.143 33.333 15.06 0.00 0.00 1.28
306 309 7.878608 AGTGTCGAAAACGTTCTTATATTACG 58.121 34.615 0.00 0.00 40.85 3.18
307 310 7.008628 AGTGTCGAAAACGTTCTTATATTACGG 59.991 37.037 0.00 0.00 39.45 4.02
308 311 6.253298 TGTCGAAAACGTTCTTATATTACGGG 59.747 38.462 0.00 0.00 39.45 5.28
309 312 6.472163 GTCGAAAACGTTCTTATATTACGGGA 59.528 38.462 0.00 0.00 39.45 5.14
310 313 6.472163 TCGAAAACGTTCTTATATTACGGGAC 59.528 38.462 0.00 0.00 39.45 4.46
409 412 9.952030 CTAATCAAAAAGCCCCCTAAAAATTAA 57.048 29.630 0.00 0.00 0.00 1.40
421 424 9.216117 CCCCCTAAAAATTAATCTATCTACGTG 57.784 37.037 0.00 0.00 0.00 4.49
472 475 1.253100 GAAAATTGCCTCCGGGTGAA 58.747 50.000 0.00 0.00 34.45 3.18
493 496 8.087750 GGTGAATGTTTGGATTCTTGTGAAATA 58.912 33.333 0.00 0.00 35.63 1.40
535 538 7.336931 ACTTTCCTGCGTTTTACTATTCATCAT 59.663 33.333 0.00 0.00 0.00 2.45
536 539 8.725405 TTTCCTGCGTTTTACTATTCATCATA 57.275 30.769 0.00 0.00 0.00 2.15
539 542 7.652105 TCCTGCGTTTTACTATTCATCATAGTC 59.348 37.037 0.00 0.00 44.32 2.59
540 543 7.438160 CCTGCGTTTTACTATTCATCATAGTCA 59.562 37.037 0.00 0.00 44.32 3.41
578 609 4.036734 GGAATGGCTCGCTAAATGAATCAA 59.963 41.667 0.00 0.00 0.00 2.57
635 669 7.088272 TGCGATATAGCACGTTAATAGTGAAT 58.912 34.615 6.39 10.75 42.92 2.57
656 690 9.834628 GTGAATTTTAAGTCCGATGTTATTTCA 57.165 29.630 0.00 0.00 0.00 2.69
732 767 6.656693 TCTCTCATTCCAAGTTTCCTTTGATC 59.343 38.462 0.00 0.00 0.00 2.92
739 774 6.270064 TCCAAGTTTCCTTTGATCGTTTTTC 58.730 36.000 0.00 0.00 0.00 2.29
740 775 6.039616 CCAAGTTTCCTTTGATCGTTTTTCA 58.960 36.000 0.00 0.00 0.00 2.69
772 809 7.914427 AGGGGACTTTGATCTTTTTAGTTTT 57.086 32.000 0.00 0.00 37.44 2.43
823 864 6.717540 TGGATCCGAAGTTTCCTTTCAAATTA 59.282 34.615 7.39 0.00 0.00 1.40
941 982 1.728074 CGCAACGGCTATATCGCGA 60.728 57.895 13.09 13.09 45.17 5.87
950 991 1.135344 GCTATATCGCGAACCTCCTCC 60.135 57.143 15.24 0.00 0.00 4.30
1003 1044 1.002087 TCTCGCTTTCCTTTCCTCCAC 59.998 52.381 0.00 0.00 0.00 4.02
1028 1069 1.664874 GCCCTTGACTTTTAAACGCCG 60.665 52.381 0.00 0.00 0.00 6.46
1036 1078 2.804527 ACTTTTAAACGCCGAAGACTCC 59.195 45.455 0.00 0.00 0.00 3.85
1064 1116 2.250939 CCGCACAGACCGAAGCAAA 61.251 57.895 0.00 0.00 0.00 3.68
1065 1117 1.205064 CGCACAGACCGAAGCAAAG 59.795 57.895 0.00 0.00 0.00 2.77
1066 1118 1.576421 GCACAGACCGAAGCAAAGG 59.424 57.895 0.00 0.00 0.00 3.11
1067 1119 1.166531 GCACAGACCGAAGCAAAGGT 61.167 55.000 0.00 0.00 44.64 3.50
1068 1120 0.588252 CACAGACCGAAGCAAAGGTG 59.412 55.000 1.67 0.00 41.51 4.00
1069 1121 0.468226 ACAGACCGAAGCAAAGGTGA 59.532 50.000 1.67 0.00 41.51 4.02
1070 1122 1.134220 ACAGACCGAAGCAAAGGTGAA 60.134 47.619 1.67 0.00 41.51 3.18
1071 1123 1.532868 CAGACCGAAGCAAAGGTGAAG 59.467 52.381 1.67 0.00 41.51 3.02
1072 1124 0.238553 GACCGAAGCAAAGGTGAAGC 59.761 55.000 1.67 0.00 41.51 3.86
1073 1125 0.465460 ACCGAAGCAAAGGTGAAGCA 60.465 50.000 0.00 0.00 39.66 3.91
1074 1126 0.667993 CCGAAGCAAAGGTGAAGCAA 59.332 50.000 0.00 0.00 0.00 3.91
1088 1140 3.850273 GTGAAGCAATCAAGCAAATCGAG 59.150 43.478 0.00 0.00 40.50 4.04
1289 1341 2.493973 CTCCACGAGCTGCTCCTC 59.506 66.667 22.97 0.45 0.00 3.71
1301 1353 2.517402 CTCCTCCTCTCCCCGTCG 60.517 72.222 0.00 0.00 0.00 5.12
1597 1652 2.060980 CCCCAGAGAAGGAGGACGG 61.061 68.421 0.00 0.00 0.00 4.79
1623 1678 0.829182 CTTGGCCTTGGTTCCTGCTT 60.829 55.000 3.32 0.00 0.00 3.91
1659 1714 3.132111 TCATGGTGAGCGTTGCTAGATTA 59.868 43.478 0.00 0.00 39.88 1.75
1694 1749 2.095869 GCATTGCTAGATCCGAATGCTG 60.096 50.000 15.89 0.00 44.72 4.41
1710 1768 5.622460 CGAATGCTGACTTCCTAGTAACTGT 60.622 44.000 0.00 0.00 33.84 3.55
1719 1777 5.296035 ACTTCCTAGTAACTGTTGTTGTTGC 59.704 40.000 2.69 0.00 37.59 4.17
1726 1784 4.519540 AACTGTTGTTGTTGCTTCAGTT 57.480 36.364 0.00 0.00 39.98 3.16
1731 1789 4.142491 TGTTGTTGTTGCTTCAGTTACAGG 60.142 41.667 0.00 0.00 0.00 4.00
1889 1947 7.106439 TCAAGAGAGATCACTTTCAGGTATC 57.894 40.000 0.00 0.00 30.86 2.24
1967 2025 9.877178 CCTATGCTAATCTCGTATAATTTTCCT 57.123 33.333 0.00 0.00 0.00 3.36
2068 2129 2.371841 TGTGCCACAGAGGTATGAAGTT 59.628 45.455 0.00 0.00 40.61 2.66
2083 2153 7.451255 AGGTATGAAGTTTGAACCAATGATCAA 59.549 33.333 0.00 0.00 33.93 2.57
2141 2211 3.933332 ACCGAGCAGCTAATTTCAGTTAC 59.067 43.478 0.00 0.00 0.00 2.50
2321 2391 5.971202 GCATTAAATTGTATTCGTGACTGGG 59.029 40.000 0.00 0.00 0.00 4.45
2469 2543 3.268023 GCTTCTAGCCACAGGTACAAT 57.732 47.619 0.00 0.00 34.48 2.71
2470 2544 3.610911 GCTTCTAGCCACAGGTACAATT 58.389 45.455 0.00 0.00 34.48 2.32
2472 2546 3.627395 TCTAGCCACAGGTACAATTGG 57.373 47.619 10.83 0.00 0.00 3.16
2473 2547 2.238646 TCTAGCCACAGGTACAATTGGG 59.761 50.000 10.83 0.20 0.00 4.12
2474 2548 0.777446 AGCCACAGGTACAATTGGGT 59.223 50.000 10.83 5.09 34.99 4.51
2475 2549 0.887933 GCCACAGGTACAATTGGGTG 59.112 55.000 10.83 9.39 0.00 4.61
2483 2557 3.447229 AGGTACAATTGGGTGCATAAAGC 59.553 43.478 10.83 0.00 45.96 3.51
2534 2608 2.350804 GTGTCTGCAGTGCTATGTCATG 59.649 50.000 17.60 0.00 0.00 3.07
2550 2624 7.636359 GCTATGTCATGTTCTTATTCACGAAAC 59.364 37.037 0.00 0.00 0.00 2.78
2697 2772 4.000988 ACTGTTTACCCAAACTCATAGCG 58.999 43.478 2.33 0.00 43.73 4.26
2968 3048 5.991328 ATGACAAGTTTACCATATGAGCG 57.009 39.130 3.65 0.00 0.00 5.03
3112 3192 9.586732 TCAATTTTCAATATTGGATAGGTAGGG 57.413 33.333 15.36 0.00 34.51 3.53
3113 3193 9.367160 CAATTTTCAATATTGGATAGGTAGGGT 57.633 33.333 15.36 0.00 31.00 4.34
3114 3194 9.951866 AATTTTCAATATTGGATAGGTAGGGTT 57.048 29.630 15.36 0.00 0.00 4.11
3117 3197 7.460214 TCAATATTGGATAGGTAGGGTTTGT 57.540 36.000 15.36 0.00 0.00 2.83
3118 3198 7.878495 TCAATATTGGATAGGTAGGGTTTGTT 58.122 34.615 15.36 0.00 0.00 2.83
3119 3199 9.005318 TCAATATTGGATAGGTAGGGTTTGTTA 57.995 33.333 15.36 0.00 0.00 2.41
3395 3494 4.042187 AGAACAGCAAATGGAGGTAGAACT 59.958 41.667 0.00 0.00 0.00 3.01
3612 3713 9.288576 TCTCCACTCCTGCAATTTTATAATATG 57.711 33.333 0.00 0.00 0.00 1.78
3646 3747 6.601741 TTCATTGAATGTTTGACAAAAGCC 57.398 33.333 1.27 0.00 0.00 4.35
3667 3768 7.269477 AGCCAATTCTTCTTATTGTGCTATC 57.731 36.000 0.00 0.00 37.55 2.08
3670 3771 7.433425 GCCAATTCTTCTTATTGTGCTATCAAC 59.567 37.037 0.00 0.00 32.38 3.18
3671 3772 8.680903 CCAATTCTTCTTATTGTGCTATCAACT 58.319 33.333 0.00 0.00 32.38 3.16
3672 3773 9.499585 CAATTCTTCTTATTGTGCTATCAACTG 57.500 33.333 0.00 0.00 0.00 3.16
3673 3774 8.798859 ATTCTTCTTATTGTGCTATCAACTGT 57.201 30.769 0.00 0.00 0.00 3.55
3674 3775 7.834068 TCTTCTTATTGTGCTATCAACTGTC 57.166 36.000 0.00 0.00 0.00 3.51
3675 3776 7.615403 TCTTCTTATTGTGCTATCAACTGTCT 58.385 34.615 0.00 0.00 0.00 3.41
3676 3777 8.097038 TCTTCTTATTGTGCTATCAACTGTCTT 58.903 33.333 0.00 0.00 0.00 3.01
3677 3778 8.621532 TTCTTATTGTGCTATCAACTGTCTTT 57.378 30.769 0.00 0.00 0.00 2.52
3678 3779 8.621532 TCTTATTGTGCTATCAACTGTCTTTT 57.378 30.769 0.00 0.00 0.00 2.27
3679 3780 9.719355 TCTTATTGTGCTATCAACTGTCTTTTA 57.281 29.630 0.00 0.00 0.00 1.52
3680 3781 9.979270 CTTATTGTGCTATCAACTGTCTTTTAG 57.021 33.333 0.00 0.00 0.00 1.85
3681 3782 6.801539 TTGTGCTATCAACTGTCTTTTAGG 57.198 37.500 0.00 0.00 0.00 2.69
3682 3783 5.245531 TGTGCTATCAACTGTCTTTTAGGG 58.754 41.667 0.00 0.00 0.00 3.53
3683 3784 4.095036 GTGCTATCAACTGTCTTTTAGGGC 59.905 45.833 0.00 0.00 0.00 5.19
3684 3785 4.261801 GCTATCAACTGTCTTTTAGGGCA 58.738 43.478 0.00 0.00 0.00 5.36
3685 3786 4.884164 GCTATCAACTGTCTTTTAGGGCAT 59.116 41.667 0.00 0.00 0.00 4.40
3686 3787 6.055588 GCTATCAACTGTCTTTTAGGGCATA 58.944 40.000 0.00 0.00 0.00 3.14
3687 3788 6.712547 GCTATCAACTGTCTTTTAGGGCATAT 59.287 38.462 0.00 0.00 0.00 1.78
3688 3789 7.878127 GCTATCAACTGTCTTTTAGGGCATATA 59.122 37.037 0.00 0.00 0.00 0.86
3689 3790 9.950496 CTATCAACTGTCTTTTAGGGCATATAT 57.050 33.333 0.00 0.00 0.00 0.86
3718 3819 5.105752 TCAATTGAAACAAGGTTTTGTCCG 58.894 37.500 5.45 0.00 46.54 4.79
3739 3840 1.434555 TCGGAATTGCCTTACACACG 58.565 50.000 0.00 0.00 0.00 4.49
3872 4859 2.148916 TGTAGCAACACTCTTGTCCG 57.851 50.000 0.00 0.00 33.55 4.79
3874 4861 2.299013 TGTAGCAACACTCTTGTCCGAT 59.701 45.455 0.00 0.00 33.55 4.18
3881 4868 1.215382 CTCTTGTCCGATGGCACGA 59.785 57.895 10.33 0.00 35.09 4.35
3892 4879 4.023107 TCCGATGGCACGATTAAAAACAAA 60.023 37.500 10.33 0.00 35.09 2.83
4050 5039 9.480053 CACATAAAAATTTCACAGAACCAAGAT 57.520 29.630 0.00 0.00 0.00 2.40
4081 5070 7.252965 TGTTGTTACATCTTTTGTCGATTCA 57.747 32.000 0.00 0.00 39.87 2.57
4180 5169 2.267351 CGCTGCCACCACAATTCCA 61.267 57.895 0.00 0.00 0.00 3.53
4228 5217 2.541120 GGATGAGTGCATGGCGAGC 61.541 63.158 0.00 0.00 34.11 5.03
4241 5230 0.178068 GGCGAGCCATGGAAGTTCTA 59.822 55.000 18.40 0.00 35.81 2.10
4249 5242 5.819991 AGCCATGGAAGTTCTATCAGAAAA 58.180 37.500 18.40 0.00 35.75 2.29
4270 5263 7.609532 AGAAAATACTTCATAGCAGAAGCAGTT 59.390 33.333 11.89 4.29 46.97 3.16
4313 5306 3.621715 GTCGAAATACAATGTCCCAGGAC 59.378 47.826 10.02 10.02 44.77 3.85
4354 5347 7.766278 AGTCAGTGACATGGTATAAATGAGAAC 59.234 37.037 24.73 0.00 34.60 3.01
4380 5373 6.982724 TGTGTATATCAGCTCTCAACAATCTG 59.017 38.462 0.00 0.00 0.00 2.90
4456 5473 1.523758 CTCCGTTTGTGAGGAAAGGG 58.476 55.000 0.00 0.00 40.66 3.95
4475 8891 8.727910 GGAAAGGGAAATATTATAATGACCGAC 58.272 37.037 8.28 0.00 0.00 4.79
4482 8898 8.547967 AAATATTATAATGACCGACGCAAGAT 57.452 30.769 8.28 0.00 43.62 2.40
4536 8952 7.397892 TGAAAACTGTCAAAACATGGAAGTA 57.602 32.000 0.00 0.00 34.13 2.24
4623 9327 4.574674 TGAACACAAGGGCATCTCTAAT 57.425 40.909 0.00 0.00 0.00 1.73
4636 9340 5.163612 GGCATCTCTAATCAAACCCTGAAAC 60.164 44.000 0.00 0.00 37.67 2.78
4637 9341 5.415701 GCATCTCTAATCAAACCCTGAAACA 59.584 40.000 0.00 0.00 37.67 2.83
4647 9356 7.272037 TCAAACCCTGAAACATTAACTCTTC 57.728 36.000 0.00 0.00 0.00 2.87
4656 9365 9.823098 CTGAAACATTAACTCTTCAAGAGATTG 57.177 33.333 21.82 13.53 45.07 2.67
4658 9367 7.992754 AACATTAACTCTTCAAGAGATTGCT 57.007 32.000 21.82 0.00 45.07 3.91
4659 9368 7.608308 ACATTAACTCTTCAAGAGATTGCTC 57.392 36.000 21.82 0.00 45.07 4.26
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 5.036117 TCCAATCCTTCGAAATTCCTAGG 57.964 43.478 0.82 0.82 0.00 3.02
43 44 8.955061 AACAATGAACATAGAAAACATTCGAG 57.045 30.769 0.00 0.00 0.00 4.04
126 129 7.750903 GGTTTCAGTGATTGCTATGTCTTTTAC 59.249 37.037 0.00 0.00 0.00 2.01
143 146 3.437049 GGATTCTTTCGAGGGTTTCAGTG 59.563 47.826 0.00 0.00 0.00 3.66
267 270 9.117145 CGTTTTCGACACTAGTGTAGTATAAAA 57.883 33.333 27.98 23.22 45.05 1.52
268 271 8.289618 ACGTTTTCGACACTAGTGTAGTATAAA 58.710 33.333 27.98 22.22 45.05 1.40
269 272 7.806690 ACGTTTTCGACACTAGTGTAGTATAA 58.193 34.615 27.98 18.61 45.05 0.98
270 273 7.364522 ACGTTTTCGACACTAGTGTAGTATA 57.635 36.000 27.98 13.97 45.05 1.47
271 274 6.246420 ACGTTTTCGACACTAGTGTAGTAT 57.754 37.500 27.98 5.50 45.05 2.12
272 275 5.673337 ACGTTTTCGACACTAGTGTAGTA 57.327 39.130 27.98 18.66 45.05 1.82
273 276 4.558538 ACGTTTTCGACACTAGTGTAGT 57.441 40.909 27.98 15.35 45.05 2.73
274 277 5.210715 AGAACGTTTTCGACACTAGTGTAG 58.789 41.667 27.98 26.46 45.05 2.74
275 278 5.173774 AGAACGTTTTCGACACTAGTGTA 57.826 39.130 27.98 11.50 45.05 2.90
287 290 6.291796 CCGTCCCGTAATATAAGAACGTTTTC 60.292 42.308 0.46 0.00 34.90 2.29
288 291 5.519927 CCGTCCCGTAATATAAGAACGTTTT 59.480 40.000 0.46 0.00 34.90 2.43
289 292 5.043248 CCGTCCCGTAATATAAGAACGTTT 58.957 41.667 0.46 0.00 34.90 3.60
290 293 4.338118 TCCGTCCCGTAATATAAGAACGTT 59.662 41.667 0.00 0.00 34.90 3.99
291 294 3.882888 TCCGTCCCGTAATATAAGAACGT 59.117 43.478 0.00 0.00 34.90 3.99
292 295 4.470462 CTCCGTCCCGTAATATAAGAACG 58.530 47.826 0.00 0.00 36.42 3.95
293 296 4.321527 CCCTCCGTCCCGTAATATAAGAAC 60.322 50.000 0.00 0.00 0.00 3.01
294 297 3.828451 CCCTCCGTCCCGTAATATAAGAA 59.172 47.826 0.00 0.00 0.00 2.52
295 298 3.074390 TCCCTCCGTCCCGTAATATAAGA 59.926 47.826 0.00 0.00 0.00 2.10
296 299 3.424703 TCCCTCCGTCCCGTAATATAAG 58.575 50.000 0.00 0.00 0.00 1.73
297 300 3.181429 ACTCCCTCCGTCCCGTAATATAA 60.181 47.826 0.00 0.00 0.00 0.98
298 301 2.376518 ACTCCCTCCGTCCCGTAATATA 59.623 50.000 0.00 0.00 0.00 0.86
299 302 1.146566 ACTCCCTCCGTCCCGTAATAT 59.853 52.381 0.00 0.00 0.00 1.28
300 303 0.552848 ACTCCCTCCGTCCCGTAATA 59.447 55.000 0.00 0.00 0.00 0.98
301 304 0.552848 TACTCCCTCCGTCCCGTAAT 59.447 55.000 0.00 0.00 0.00 1.89
302 305 0.552848 ATACTCCCTCCGTCCCGTAA 59.447 55.000 0.00 0.00 0.00 3.18
303 306 1.434188 TATACTCCCTCCGTCCCGTA 58.566 55.000 0.00 0.00 0.00 4.02
304 307 0.776176 ATATACTCCCTCCGTCCCGT 59.224 55.000 0.00 0.00 0.00 5.28
305 308 1.174783 CATATACTCCCTCCGTCCCG 58.825 60.000 0.00 0.00 0.00 5.14
306 309 2.305858 ACATATACTCCCTCCGTCCC 57.694 55.000 0.00 0.00 0.00 4.46
307 310 3.006644 GGAAACATATACTCCCTCCGTCC 59.993 52.174 0.00 0.00 0.00 4.79
308 311 3.006644 GGGAAACATATACTCCCTCCGTC 59.993 52.174 8.18 0.00 44.81 4.79
309 312 2.970640 GGGAAACATATACTCCCTCCGT 59.029 50.000 8.18 0.00 44.81 4.69
310 313 3.679824 GGGAAACATATACTCCCTCCG 57.320 52.381 8.18 0.00 44.81 4.63
336 339 8.821686 ATATGAAAACATAGGATTGACCAACA 57.178 30.769 0.00 0.00 42.04 3.33
337 340 9.736023 GAATATGAAAACATAGGATTGACCAAC 57.264 33.333 0.00 0.00 42.04 3.77
338 341 9.699410 AGAATATGAAAACATAGGATTGACCAA 57.301 29.630 0.00 0.00 42.04 3.67
379 382 1.482182 GGGGGCTTTTTGATTAGCAGG 59.518 52.381 0.00 0.00 39.15 4.85
393 396 8.101419 CGTAGATAGATTAATTTTTAGGGGGCT 58.899 37.037 0.00 0.00 0.00 5.19
409 412 2.814919 CGGAAGAGCCACGTAGATAGAT 59.185 50.000 0.00 0.00 35.94 1.98
421 424 0.960364 TGCAATTCACCGGAAGAGCC 60.960 55.000 9.46 0.00 36.47 4.70
445 448 1.272704 GGAGGCAATTTTCCCTGAGGT 60.273 52.381 0.00 0.00 0.00 3.85
535 538 5.462530 TCCTCGACACTTTTCAATGACTA 57.537 39.130 0.00 0.00 0.00 2.59
536 539 4.336889 TCCTCGACACTTTTCAATGACT 57.663 40.909 0.00 0.00 0.00 3.41
539 542 4.726416 CCATTCCTCGACACTTTTCAATG 58.274 43.478 0.00 0.00 0.00 2.82
540 543 3.191371 GCCATTCCTCGACACTTTTCAAT 59.809 43.478 0.00 0.00 0.00 2.57
772 809 6.718522 AAAAACGATCAAAGTCCCCTAAAA 57.281 33.333 0.00 0.00 0.00 1.52
776 813 4.760204 CACTAAAAACGATCAAAGTCCCCT 59.240 41.667 0.00 0.00 0.00 4.79
777 814 4.082949 CCACTAAAAACGATCAAAGTCCCC 60.083 45.833 0.00 0.00 0.00 4.81
778 815 4.758165 TCCACTAAAAACGATCAAAGTCCC 59.242 41.667 0.00 0.00 0.00 4.46
780 817 6.543736 GGATCCACTAAAAACGATCAAAGTC 58.456 40.000 6.95 0.00 34.14 3.01
781 818 5.121768 CGGATCCACTAAAAACGATCAAAGT 59.878 40.000 13.41 0.00 34.14 2.66
782 819 5.350365 TCGGATCCACTAAAAACGATCAAAG 59.650 40.000 13.41 0.00 34.14 2.77
783 820 5.239351 TCGGATCCACTAAAAACGATCAAA 58.761 37.500 13.41 0.00 34.14 2.69
784 821 4.823157 TCGGATCCACTAAAAACGATCAA 58.177 39.130 13.41 0.00 34.14 2.57
785 822 4.459390 TCGGATCCACTAAAAACGATCA 57.541 40.909 13.41 0.00 34.14 2.92
786 823 4.868734 ACTTCGGATCCACTAAAAACGATC 59.131 41.667 13.41 0.00 0.00 3.69
823 864 1.227853 GGCCTGTTCGGTTCACAGT 60.228 57.895 0.00 0.00 40.19 3.55
941 982 2.482494 CCACTTATCAGGGAGGAGGTT 58.518 52.381 0.00 0.00 0.00 3.50
950 991 1.152881 GCTGGGCCCACTTATCAGG 60.153 63.158 24.45 10.10 0.00 3.86
1003 1044 1.515081 TTAAAAGTCAAGGGCGGTCG 58.485 50.000 0.00 0.00 0.00 4.79
1028 1069 0.251209 GGGTTTGGGTGGGAGTCTTC 60.251 60.000 0.00 0.00 0.00 2.87
1036 1078 3.294493 CTGTGCGGGTTTGGGTGG 61.294 66.667 0.00 0.00 0.00 4.61
1064 1116 3.366679 CGATTTGCTTGATTGCTTCACCT 60.367 43.478 0.00 0.00 32.84 4.00
1065 1117 2.919229 CGATTTGCTTGATTGCTTCACC 59.081 45.455 0.00 0.00 32.84 4.02
1066 1118 3.825308 TCGATTTGCTTGATTGCTTCAC 58.175 40.909 0.00 0.00 32.84 3.18
1067 1119 3.671433 GCTCGATTTGCTTGATTGCTTCA 60.671 43.478 0.00 0.00 0.00 3.02
1068 1120 2.850647 GCTCGATTTGCTTGATTGCTTC 59.149 45.455 0.00 0.00 0.00 3.86
1069 1121 2.229543 TGCTCGATTTGCTTGATTGCTT 59.770 40.909 0.00 0.00 0.00 3.91
1070 1122 1.814394 TGCTCGATTTGCTTGATTGCT 59.186 42.857 0.00 0.00 0.00 3.91
1071 1123 2.182825 CTGCTCGATTTGCTTGATTGC 58.817 47.619 0.00 0.00 0.00 3.56
1072 1124 2.182825 GCTGCTCGATTTGCTTGATTG 58.817 47.619 0.00 0.00 0.00 2.67
1073 1125 1.814394 TGCTGCTCGATTTGCTTGATT 59.186 42.857 0.00 0.00 0.00 2.57
1074 1126 1.131883 GTGCTGCTCGATTTGCTTGAT 59.868 47.619 0.00 0.00 0.00 2.57
1350 1402 2.185350 CAGGCTCGAATCCACGCT 59.815 61.111 6.20 0.00 0.00 5.07
1585 1640 1.965754 GCTCATGCCGTCCTCCTTCT 61.966 60.000 0.00 0.00 0.00 2.85
1597 1652 1.538687 AACCAAGGCCAAGCTCATGC 61.539 55.000 5.01 0.00 40.05 4.06
1623 1678 1.153309 CATGAGTGGCATCGGCAGA 60.153 57.895 0.00 0.00 43.71 4.26
1648 1703 7.435068 TTTCTTCAACCAGTAATCTAGCAAC 57.565 36.000 0.00 0.00 0.00 4.17
1659 1714 2.961062 AGCAATGCTTTCTTCAACCAGT 59.039 40.909 0.00 0.00 33.89 4.00
1694 1749 6.511282 GCAACAACAACAGTTACTAGGAAGTC 60.511 42.308 0.00 0.00 37.15 3.01
1710 1768 4.265893 TCCTGTAACTGAAGCAACAACAA 58.734 39.130 0.00 0.00 0.00 2.83
1726 1784 0.888619 CCAGAGCGTCAGTTCCTGTA 59.111 55.000 0.00 0.00 32.61 2.74
1731 1789 4.177229 GCTCCAGAGCGTCAGTTC 57.823 61.111 3.49 0.00 45.29 3.01
1889 1947 4.113354 GGTAAAAGAGTAGCAGATCACGG 58.887 47.826 0.00 0.00 0.00 4.94
1967 2025 1.297689 GGCTGCAGAGATGGTCACA 59.702 57.895 20.43 0.00 0.00 3.58
2068 2129 4.996122 GGCACAAATTGATCATTGGTTCAA 59.004 37.500 12.48 5.73 37.20 2.69
2083 2153 4.518970 ACGAACTAATTCTGTGGCACAAAT 59.481 37.500 22.31 18.98 33.89 2.32
2086 2156 3.120321 ACGAACTAATTCTGTGGCACA 57.880 42.857 20.76 20.76 32.12 4.57
2141 2211 1.811860 GGCTGCCTGCTACAAATGG 59.188 57.895 12.43 0.00 42.39 3.16
2187 2257 1.971962 GCACGAAGCACATCTTTTTCG 59.028 47.619 4.18 4.18 45.62 3.46
2321 2391 2.010145 TATGCTTCAGCCAGAACGAC 57.990 50.000 0.00 0.00 41.18 4.34
2475 2549 6.789262 AGATTGTTGTGATAGTGCTTTATGC 58.211 36.000 0.00 0.00 43.25 3.14
2483 2557 7.279536 AGTCATGCTAAGATTGTTGTGATAGTG 59.720 37.037 0.00 0.00 0.00 2.74
2512 2586 1.620323 TGACATAGCACTGCAGACACT 59.380 47.619 23.35 16.09 0.00 3.55
2515 2589 2.625737 ACATGACATAGCACTGCAGAC 58.374 47.619 23.35 12.21 0.00 3.51
2516 2590 3.055602 AGAACATGACATAGCACTGCAGA 60.056 43.478 23.35 0.00 0.00 4.26
2517 2591 3.268330 AGAACATGACATAGCACTGCAG 58.732 45.455 13.48 13.48 0.00 4.41
2518 2592 3.339253 AGAACATGACATAGCACTGCA 57.661 42.857 0.00 0.00 0.00 4.41
2519 2593 5.998454 ATAAGAACATGACATAGCACTGC 57.002 39.130 0.00 0.00 0.00 4.40
2520 2594 7.404985 GTGAATAAGAACATGACATAGCACTG 58.595 38.462 0.00 0.00 0.00 3.66
2521 2595 6.256539 CGTGAATAAGAACATGACATAGCACT 59.743 38.462 0.00 0.00 0.00 4.40
2522 2596 6.255670 TCGTGAATAAGAACATGACATAGCAC 59.744 38.462 0.00 3.51 0.00 4.40
2523 2597 6.337356 TCGTGAATAAGAACATGACATAGCA 58.663 36.000 0.00 0.00 0.00 3.49
2524 2598 6.828502 TCGTGAATAAGAACATGACATAGC 57.171 37.500 0.00 0.00 0.00 2.97
2529 2603 7.149128 GCAAAGTTTCGTGAATAAGAACATGAC 60.149 37.037 0.00 0.00 32.79 3.06
2534 2608 5.625311 CCTGCAAAGTTTCGTGAATAAGAAC 59.375 40.000 0.00 0.00 0.00 3.01
2550 2624 2.689983 ACTGGTGAAGAAACCTGCAAAG 59.310 45.455 0.00 0.00 41.54 2.77
2627 2701 6.471233 TCTCAGAGTATGGACCAGTAATTG 57.529 41.667 0.00 0.00 0.00 2.32
2635 2709 7.784470 ATAAGGTAATCTCAGAGTATGGACC 57.216 40.000 0.00 0.18 0.00 4.46
2681 2756 4.221262 AGTGTTACGCTATGAGTTTGGGTA 59.779 41.667 0.00 0.00 0.00 3.69
2697 2772 5.098211 GGTAGACATCGGTGTTAGTGTTAC 58.902 45.833 1.13 0.00 39.09 2.50
2812 2887 5.825679 ACACTAAACAAATTCCAGCACACTA 59.174 36.000 0.00 0.00 0.00 2.74
2968 3048 4.186159 CCCTTTCCATGATGCAAATCAAC 58.814 43.478 0.00 0.00 33.83 3.18
3117 3197 6.425417 TCGCACATGAGATGTTAACACTTTAA 59.575 34.615 11.22 0.00 42.70 1.52
3118 3198 5.929415 TCGCACATGAGATGTTAACACTTTA 59.071 36.000 11.22 0.00 42.70 1.85
3119 3199 4.754618 TCGCACATGAGATGTTAACACTTT 59.245 37.500 11.22 0.00 42.70 2.66
3206 3292 6.144402 GCAGTCATGAACGATTTTTCACATTT 59.856 34.615 0.00 0.00 38.31 2.32
3395 3494 6.823689 GGCAAATTCAACTCCAGTCTTCTATA 59.176 38.462 0.00 0.00 0.00 1.31
3506 3606 5.577164 AGTTCGTTGTTACAGACATCATAGC 59.423 40.000 0.00 0.00 38.26 2.97
3612 3713 9.153721 TCAAACATTCAATGAAATGGCTTATTC 57.846 29.630 3.79 0.00 40.28 1.75
3646 3747 9.499585 CAGTTGATAGCACAATAAGAAGAATTG 57.500 33.333 0.00 0.00 39.68 2.32
3689 3790 9.883142 ACAAAACCTTGTTTCAATTGAGATTAA 57.117 25.926 8.41 3.80 43.45 1.40
3690 3791 9.528018 GACAAAACCTTGTTTCAATTGAGATTA 57.472 29.630 8.41 0.00 45.98 1.75
3691 3792 7.495606 GGACAAAACCTTGTTTCAATTGAGATT 59.504 33.333 8.41 0.00 45.98 2.40
3692 3793 6.986231 GGACAAAACCTTGTTTCAATTGAGAT 59.014 34.615 8.41 0.00 45.98 2.75
3714 3815 1.865340 GTAAGGCAATTCCGATCGGAC 59.135 52.381 35.75 23.37 45.11 4.79
3718 3819 2.030457 CGTGTGTAAGGCAATTCCGATC 59.970 50.000 0.00 0.00 40.77 3.69
3739 3840 6.143118 CGTACAGAATCGGATGAGAAAAGATC 59.857 42.308 0.00 0.00 0.00 2.75
3867 4854 2.388310 TTTAATCGTGCCATCGGACA 57.612 45.000 0.00 0.00 0.00 4.02
3871 4858 6.232788 CAATTTGTTTTTAATCGTGCCATCG 58.767 36.000 0.00 0.00 0.00 3.84
3872 4859 6.014898 GCAATTTGTTTTTAATCGTGCCATC 58.985 36.000 0.00 0.00 0.00 3.51
3874 4861 5.053145 AGCAATTTGTTTTTAATCGTGCCA 58.947 33.333 0.00 0.00 0.00 4.92
3892 4879 5.615289 GGTGGACTTGACTGATATAGCAAT 58.385 41.667 0.00 0.00 0.00 3.56
4034 5022 6.491062 ACATTCATCATCTTGGTTCTGTGAAA 59.509 34.615 0.00 0.00 0.00 2.69
4050 5039 7.802720 CGACAAAAGATGTAACAACATTCATCA 59.197 33.333 0.00 0.00 44.12 3.07
4053 5042 7.252965 TCGACAAAAGATGTAACAACATTCA 57.747 32.000 0.00 0.00 44.12 2.57
4081 5070 6.262273 ACGTCTTACATTCTGGTGTTGAATTT 59.738 34.615 0.00 0.00 32.47 1.82
4162 5151 1.804396 TTGGAATTGTGGTGGCAGCG 61.804 55.000 12.58 0.00 0.00 5.18
4173 5162 2.154462 AGGCTGACGACTTTGGAATTG 58.846 47.619 0.00 0.00 0.00 2.32
4180 5169 2.048127 GCGGAGGCTGACGACTTT 60.048 61.111 11.82 0.00 35.83 2.66
4228 5217 8.970859 AGTATTTTCTGATAGAACTTCCATGG 57.029 34.615 4.97 4.97 33.26 3.66
4241 5230 7.772292 TGCTTCTGCTATGAAGTATTTTCTGAT 59.228 33.333 13.28 0.00 43.74 2.90
4249 5242 5.814705 GTCAACTGCTTCTGCTATGAAGTAT 59.185 40.000 13.28 1.58 43.74 2.12
4270 5263 4.460263 ACAGTGCAGAAAAACTATGGTCA 58.540 39.130 0.00 0.00 0.00 4.02
4313 5306 1.262950 CTGACTCTCCAGCTACGATCG 59.737 57.143 14.88 14.88 0.00 3.69
4354 5347 7.169476 CAGATTGTTGAGAGCTGATATACACAG 59.831 40.741 0.00 0.00 38.27 3.66
4364 5357 3.937706 CCCTAACAGATTGTTGAGAGCTG 59.062 47.826 0.00 0.00 41.30 4.24
4380 5373 2.616842 CCGAATTGTATGTGCCCCTAAC 59.383 50.000 0.00 0.00 0.00 2.34
4456 5473 8.014322 TCTTGCGTCGGTCATTATAATATTTC 57.986 34.615 0.00 0.00 0.00 2.17
4482 8898 4.610605 TTCCTGTTGTCAGATTCGGTAA 57.389 40.909 0.00 0.00 43.76 2.85
4583 9282 5.049680 TGTTCAAAGCCGAAAGACTTATCAC 60.050 40.000 0.00 0.00 0.00 3.06
4585 9284 5.049680 TGTGTTCAAAGCCGAAAGACTTATC 60.050 40.000 0.00 0.00 0.00 1.75
4587 9286 4.193090 TGTGTTCAAAGCCGAAAGACTTA 58.807 39.130 0.00 0.00 0.00 2.24
4588 9287 3.013921 TGTGTTCAAAGCCGAAAGACTT 58.986 40.909 0.00 0.00 0.00 3.01
4589 9288 2.639065 TGTGTTCAAAGCCGAAAGACT 58.361 42.857 0.00 0.00 0.00 3.24
4590 9289 3.363178 CTTGTGTTCAAAGCCGAAAGAC 58.637 45.455 0.00 0.00 32.87 3.01
4623 9327 6.831353 TGAAGAGTTAATGTTTCAGGGTTTGA 59.169 34.615 0.00 0.00 0.00 2.69
4658 9367 3.055094 CCTAGGGCTTAACTGCTCAAAGA 60.055 47.826 0.00 0.00 35.52 2.52
4659 9368 3.274288 CCTAGGGCTTAACTGCTCAAAG 58.726 50.000 0.00 0.00 35.52 2.77


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

AutoCloner maintained by Alex Coulton.