Multiple sequence alignment - TraesCS5A01G205100
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 | TraesCS5A01G205100 | chr5A | 100.000 | 5394 | 0 | 0 | 1 | 5394 | 414781969 | 414776576 | 0.000000e+00 | 9961.0 |
1 | TraesCS5A01G205100 | chr5A | 98.148 | 54 | 1 | 0 | 563 | 616 | 414781354 | 414781301 | 1.600000e-15 | 95.3 |
2 | TraesCS5A01G205100 | chr5A | 98.148 | 54 | 1 | 0 | 616 | 669 | 414781407 | 414781354 | 1.600000e-15 | 95.3 |
3 | TraesCS5A01G205100 | chr5D | 95.462 | 3107 | 108 | 15 | 2299 | 5391 | 319318425 | 319321512 | 0.000000e+00 | 4926.0 |
4 | TraesCS5A01G205100 | chr5D | 90.838 | 1539 | 54 | 39 | 621 | 2102 | 319316742 | 319318250 | 0.000000e+00 | 1980.0 |
5 | TraesCS5A01G205100 | chr5D | 85.645 | 620 | 54 | 17 | 1 | 592 | 319316154 | 319316766 | 2.130000e-173 | 619.0 |
6 | TraesCS5A01G205100 | chr5D | 95.349 | 43 | 2 | 0 | 192 | 234 | 474747269 | 474747227 | 9.690000e-08 | 69.4 |
7 | TraesCS5A01G205100 | chr5B | 93.979 | 2973 | 135 | 19 | 2234 | 5190 | 369613613 | 369616557 | 0.000000e+00 | 4458.0 |
8 | TraesCS5A01G205100 | chr5B | 89.385 | 1545 | 74 | 36 | 616 | 2102 | 369612020 | 369613532 | 0.000000e+00 | 1862.0 |
9 | TraesCS5A01G205100 | chr5B | 88.281 | 384 | 30 | 11 | 235 | 605 | 369611681 | 369612062 | 3.830000e-121 | 446.0 |
10 | TraesCS5A01G205100 | chr5B | 92.040 | 201 | 13 | 2 | 5191 | 5391 | 369616715 | 369616912 | 4.110000e-71 | 279.0 |
11 | TraesCS5A01G205100 | chr2D | 91.111 | 45 | 4 | 0 | 1564 | 1608 | 644375532 | 644375488 | 1.620000e-05 | 62.1 |
12 | TraesCS5A01G205100 | chr2B | 97.222 | 36 | 1 | 0 | 1564 | 1599 | 791471289 | 791471324 | 1.620000e-05 | 62.1 |
13 | TraesCS5A01G205100 | chr2A | 91.111 | 45 | 4 | 0 | 1564 | 1608 | 769501867 | 769501823 | 1.620000e-05 | 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 | TraesCS5A01G205100 | chr5A | 414776576 | 414781969 | 5393 | True | 3383.866667 | 9961 | 98.765333 | 1 | 5394 | 3 | chr5A.!!$R1 | 5393 |
1 | TraesCS5A01G205100 | chr5D | 319316154 | 319321512 | 5358 | False | 2508.333333 | 4926 | 90.648333 | 1 | 5391 | 3 | chr5D.!!$F1 | 5390 |
2 | TraesCS5A01G205100 | chr5B | 369611681 | 369616912 | 5231 | False | 1761.250000 | 4458 | 90.921250 | 235 | 5391 | 4 | chr5B.!!$F1 | 5156 |
AutoCloner calculated primer pairsThese primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible. |
---|
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
382 | 404 | 0.036388 | TCCCGCAGATGAAGGTTGTC | 60.036 | 55.0 | 0.0 | 0.0 | 0.00 | 3.18 | F |
392 | 414 | 0.390472 | GAAGGTTGTCTCTCCTGCGG | 60.390 | 60.0 | 0.0 | 0.0 | 33.97 | 5.69 | F |
432 | 454 | 0.525761 | AATGTGTTTCCCGATTGCCG | 59.474 | 50.0 | 0.0 | 0.0 | 38.18 | 5.69 | F |
1542 | 1646 | 0.535328 | TCAACGACATTTCCGGGCAA | 60.535 | 50.0 | 0.0 | 0.0 | 0.00 | 4.52 | F |
2394 | 2581 | 0.676466 | TGACAAGCATACCCTTGCCG | 60.676 | 55.0 | 2.1 | 0.0 | 44.66 | 5.69 | F |
2951 | 3149 | 0.398318 | GACACTGGGACTTGAGCCTT | 59.602 | 55.0 | 0.0 | 0.0 | 0.00 | 4.35 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2264 | 2423 | 1.987770 | GAAGTTCGGTTGCGATTCGTA | 59.012 | 47.619 | 8.03 | 0.0 | 0.00 | 3.43 | R |
2293 | 2452 | 4.584638 | TTGGATTATTACTGTGCCCACT | 57.415 | 40.909 | 0.00 | 0.0 | 0.00 | 4.00 | R |
2394 | 2581 | 1.461127 | GTGAGCGGTTGTCTGTCATTC | 59.539 | 52.381 | 0.00 | 0.0 | 0.00 | 2.67 | R |
2932 | 3130 | 0.398318 | AAGGCTCAAGTCCCAGTGTC | 59.602 | 55.000 | 0.00 | 0.0 | 0.00 | 3.67 | R |
3325 | 3523 | 0.541764 | TTGACATTGGGGTCCTTGCC | 60.542 | 55.000 | 0.00 | 0.0 | 36.97 | 4.52 | R |
4635 | 4836 | 0.250510 | TTGCATGGCGACCTACAACA | 60.251 | 50.000 | 0.00 | 0.0 | 0.00 | 3.33 | R |
All possible primersListed 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. |
---|
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
21 | 22 | 4.402056 | AAGAAAACCGAAGAGACTGACA | 57.598 | 40.909 | 0.00 | 0.00 | 0.00 | 3.58 |
165 | 166 | 2.439761 | CGCGTCTGCAGCTACAGTG | 61.440 | 63.158 | 13.69 | 8.86 | 42.97 | 3.66 |
174 | 175 | 0.101399 | CAGCTACAGTGCTAGACCGG | 59.899 | 60.000 | 0.00 | 0.00 | 41.98 | 5.28 |
219 | 220 | 4.218578 | CGGAGCTCTGCCTCGCAT | 62.219 | 66.667 | 14.64 | 0.00 | 38.13 | 4.73 |
317 | 337 | 4.941609 | TGCGAGAGGAGAAATGCC | 57.058 | 55.556 | 0.00 | 0.00 | 0.00 | 4.40 |
318 | 338 | 1.982430 | TGCGAGAGGAGAAATGCCA | 59.018 | 52.632 | 0.00 | 0.00 | 0.00 | 4.92 |
382 | 404 | 0.036388 | TCCCGCAGATGAAGGTTGTC | 60.036 | 55.000 | 0.00 | 0.00 | 0.00 | 3.18 |
392 | 414 | 0.390472 | GAAGGTTGTCTCTCCTGCGG | 60.390 | 60.000 | 0.00 | 0.00 | 33.97 | 5.69 |
432 | 454 | 0.525761 | AATGTGTTTCCCGATTGCCG | 59.474 | 50.000 | 0.00 | 0.00 | 38.18 | 5.69 |
433 | 455 | 1.933115 | ATGTGTTTCCCGATTGCCGC | 61.933 | 55.000 | 0.00 | 0.00 | 36.84 | 6.53 |
463 | 491 | 1.673808 | GACGATGCCCCTCCGTAGTT | 61.674 | 60.000 | 0.00 | 0.00 | 36.60 | 2.24 |
464 | 492 | 1.227263 | CGATGCCCCTCCGTAGTTG | 60.227 | 63.158 | 0.00 | 0.00 | 0.00 | 3.16 |
503 | 535 | 1.059369 | CTTCGAACGAATGCCAGCG | 59.941 | 57.895 | 9.97 | 0.00 | 33.28 | 5.18 |
505 | 537 | 3.864686 | CGAACGAATGCCAGCGGG | 61.865 | 66.667 | 0.00 | 0.00 | 37.18 | 6.13 |
568 | 600 | 1.103803 | TAGGCCACGAACTAGCTCAG | 58.896 | 55.000 | 5.01 | 0.00 | 0.00 | 3.35 |
569 | 601 | 1.811679 | GGCCACGAACTAGCTCAGC | 60.812 | 63.158 | 0.00 | 0.00 | 0.00 | 4.26 |
573 | 605 | 1.468908 | CCACGAACTAGCTCAGCTCAG | 60.469 | 57.143 | 0.00 | 1.65 | 40.44 | 3.35 |
600 | 632 | 0.602562 | CCCGTCGTTAACCCTGTGTA | 59.397 | 55.000 | 0.00 | 0.00 | 0.00 | 2.90 |
605 | 637 | 3.914364 | CGTCGTTAACCCTGTGTAACTAC | 59.086 | 47.826 | 0.00 | 0.00 | 38.04 | 2.73 |
606 | 638 | 3.914364 | GTCGTTAACCCTGTGTAACTACG | 59.086 | 47.826 | 0.00 | 0.00 | 38.04 | 3.51 |
607 | 639 | 3.818210 | TCGTTAACCCTGTGTAACTACGA | 59.182 | 43.478 | 0.00 | 0.00 | 38.04 | 3.43 |
608 | 640 | 3.914364 | CGTTAACCCTGTGTAACTACGAC | 59.086 | 47.826 | 0.00 | 0.00 | 38.04 | 4.34 |
609 | 641 | 4.237724 | GTTAACCCTGTGTAACTACGACC | 58.762 | 47.826 | 0.00 | 0.00 | 38.04 | 4.79 |
610 | 642 | 2.299326 | ACCCTGTGTAACTACGACCT | 57.701 | 50.000 | 0.00 | 0.00 | 38.04 | 3.85 |
611 | 643 | 1.891150 | ACCCTGTGTAACTACGACCTG | 59.109 | 52.381 | 0.00 | 0.00 | 38.04 | 4.00 |
612 | 644 | 1.203994 | CCCTGTGTAACTACGACCTGG | 59.796 | 57.143 | 0.00 | 0.00 | 38.04 | 4.45 |
613 | 645 | 1.891150 | CCTGTGTAACTACGACCTGGT | 59.109 | 52.381 | 0.00 | 0.00 | 38.04 | 4.00 |
614 | 646 | 3.084039 | CCTGTGTAACTACGACCTGGTA | 58.916 | 50.000 | 0.00 | 0.00 | 38.04 | 3.25 |
615 | 647 | 3.507233 | CCTGTGTAACTACGACCTGGTAA | 59.493 | 47.826 | 0.00 | 0.00 | 38.04 | 2.85 |
616 | 648 | 4.380233 | CCTGTGTAACTACGACCTGGTAAG | 60.380 | 50.000 | 0.00 | 0.00 | 38.04 | 2.34 |
617 | 649 | 3.057315 | TGTGTAACTACGACCTGGTAAGC | 60.057 | 47.826 | 0.00 | 0.00 | 38.04 | 3.09 |
618 | 650 | 3.192212 | GTGTAACTACGACCTGGTAAGCT | 59.808 | 47.826 | 0.00 | 0.00 | 0.00 | 3.74 |
619 | 651 | 3.441572 | TGTAACTACGACCTGGTAAGCTC | 59.558 | 47.826 | 0.00 | 0.00 | 0.00 | 4.09 |
630 | 662 | 3.007398 | CCTGGTAAGCTCAGTTCAGTTCT | 59.993 | 47.826 | 0.00 | 0.00 | 0.00 | 3.01 |
645 | 677 | 2.985139 | CAGTTCTCTTCCCGTCGTTAAC | 59.015 | 50.000 | 0.00 | 0.00 | 0.00 | 2.01 |
646 | 678 | 2.029560 | AGTTCTCTTCCCGTCGTTAACC | 60.030 | 50.000 | 0.00 | 0.00 | 0.00 | 2.85 |
647 | 679 | 0.890683 | TCTCTTCCCGTCGTTAACCC | 59.109 | 55.000 | 0.00 | 0.00 | 0.00 | 4.11 |
675 | 711 | 7.495934 | GTGTAACTACGACCTGGTAATACTAGA | 59.504 | 40.741 | 5.30 | 0.00 | 0.00 | 2.43 |
683 | 719 | 4.282195 | ACCTGGTAATACTAGATGCTCTGC | 59.718 | 45.833 | 5.30 | 0.00 | 0.00 | 4.26 |
689 | 725 | 1.006337 | CTAGATGCTCTGCCGCTCC | 60.006 | 63.158 | 0.00 | 0.00 | 0.00 | 4.70 |
1047 | 1096 | 4.367450 | TCAGAAATTTTCTTGTTTGCGGG | 58.633 | 39.130 | 8.95 | 0.00 | 38.11 | 6.13 |
1059 | 1108 | 2.884012 | TGTTTGCGGGCATCATATAAGG | 59.116 | 45.455 | 0.00 | 0.00 | 0.00 | 2.69 |
1065 | 1114 | 4.009675 | GCGGGCATCATATAAGGAATCAA | 58.990 | 43.478 | 0.00 | 0.00 | 0.00 | 2.57 |
1458 | 1562 | 1.673329 | GGGCTCGAGTTCAAGAACCTC | 60.673 | 57.143 | 15.13 | 6.00 | 42.06 | 3.85 |
1542 | 1646 | 0.535328 | TCAACGACATTTCCGGGCAA | 60.535 | 50.000 | 0.00 | 0.00 | 0.00 | 4.52 |
1728 | 1832 | 8.752766 | ATGTTGCATTTTCATTACAAGAAGAG | 57.247 | 30.769 | 0.00 | 0.00 | 0.00 | 2.85 |
1748 | 1882 | 4.102649 | GAGACAAAAAGAACAAACGGTGG | 58.897 | 43.478 | 0.00 | 0.00 | 0.00 | 4.61 |
1764 | 1898 | 2.932614 | CGGTGGAGTTTCTTATGCTCTG | 59.067 | 50.000 | 0.00 | 0.00 | 0.00 | 3.35 |
1991 | 2126 | 5.512232 | CCCTAATTCTCCCTACTCAAGCATC | 60.512 | 48.000 | 0.00 | 0.00 | 0.00 | 3.91 |
2058 | 2193 | 5.738783 | GCTTTGCCACATTCTGAACCTTAAA | 60.739 | 40.000 | 0.00 | 0.00 | 0.00 | 1.52 |
2076 | 2211 | 8.757982 | ACCTTAAATTGATCACATAAGCATCT | 57.242 | 30.769 | 0.00 | 0.00 | 0.00 | 2.90 |
2081 | 2216 | 7.670009 | AATTGATCACATAAGCATCTCTAGC | 57.330 | 36.000 | 0.00 | 0.00 | 0.00 | 3.42 |
2084 | 2219 | 4.230314 | TCACATAAGCATCTCTAGCGAC | 57.770 | 45.455 | 0.00 | 0.00 | 37.01 | 5.19 |
2113 | 2256 | 5.559148 | AGTTCAGAACTCTCATGTTTCCT | 57.441 | 39.130 | 10.27 | 0.00 | 37.02 | 3.36 |
2114 | 2257 | 6.672266 | AGTTCAGAACTCTCATGTTTCCTA | 57.328 | 37.500 | 10.27 | 0.00 | 37.02 | 2.94 |
2136 | 2279 | 8.956426 | TCCTAATTTATTGTTTGACTAGCAAGG | 58.044 | 33.333 | 0.00 | 0.00 | 37.87 | 3.61 |
2137 | 2280 | 8.956426 | CCTAATTTATTGTTTGACTAGCAAGGA | 58.044 | 33.333 | 0.00 | 0.00 | 37.87 | 3.36 |
2138 | 2281 | 9.994432 | CTAATTTATTGTTTGACTAGCAAGGAG | 57.006 | 33.333 | 0.00 | 0.00 | 37.87 | 3.69 |
2139 | 2282 | 8.409358 | AATTTATTGTTTGACTAGCAAGGAGT | 57.591 | 30.769 | 0.00 | 0.00 | 37.87 | 3.85 |
2140 | 2283 | 6.801539 | TTATTGTTTGACTAGCAAGGAGTG | 57.198 | 37.500 | 0.00 | 0.00 | 37.87 | 3.51 |
2148 | 2291 | 3.649986 | GCAAGGAGTGCGTGCGTT | 61.650 | 61.111 | 6.82 | 0.00 | 45.10 | 4.84 |
2149 | 2292 | 2.249309 | CAAGGAGTGCGTGCGTTG | 59.751 | 61.111 | 0.00 | 0.00 | 0.00 | 4.10 |
2150 | 2293 | 3.649986 | AAGGAGTGCGTGCGTTGC | 61.650 | 61.111 | 0.00 | 0.00 | 0.00 | 4.17 |
2151 | 2294 | 4.609018 | AGGAGTGCGTGCGTTGCT | 62.609 | 61.111 | 0.00 | 0.00 | 0.00 | 3.91 |
2152 | 2295 | 2.709125 | AAGGAGTGCGTGCGTTGCTA | 62.709 | 55.000 | 0.00 | 0.00 | 0.00 | 3.49 |
2153 | 2296 | 2.470286 | GAGTGCGTGCGTTGCTAC | 59.530 | 61.111 | 0.00 | 0.00 | 0.00 | 3.58 |
2170 | 2313 | 7.631915 | GTTGCTACGAACCACAATAAAATTT | 57.368 | 32.000 | 0.00 | 0.00 | 0.00 | 1.82 |
2171 | 2314 | 7.498225 | GTTGCTACGAACCACAATAAAATTTG | 58.502 | 34.615 | 0.00 | 0.00 | 0.00 | 2.32 |
2172 | 2315 | 6.740110 | TGCTACGAACCACAATAAAATTTGT | 58.260 | 32.000 | 0.00 | 0.00 | 40.39 | 2.83 |
2173 | 2316 | 7.203910 | TGCTACGAACCACAATAAAATTTGTT | 58.796 | 30.769 | 0.00 | 0.00 | 37.73 | 2.83 |
2174 | 2317 | 7.380065 | TGCTACGAACCACAATAAAATTTGTTC | 59.620 | 33.333 | 0.00 | 0.00 | 37.73 | 3.18 |
2175 | 2318 | 7.380065 | GCTACGAACCACAATAAAATTTGTTCA | 59.620 | 33.333 | 12.84 | 0.00 | 37.73 | 3.18 |
2176 | 2319 | 9.239002 | CTACGAACCACAATAAAATTTGTTCAA | 57.761 | 29.630 | 12.84 | 3.37 | 37.73 | 2.69 |
2177 | 2320 | 8.655651 | ACGAACCACAATAAAATTTGTTCAAT | 57.344 | 26.923 | 12.84 | 1.89 | 37.73 | 2.57 |
2178 | 2321 | 9.103861 | ACGAACCACAATAAAATTTGTTCAATT | 57.896 | 25.926 | 12.84 | 0.00 | 37.73 | 2.32 |
2183 | 2326 | 9.771915 | CCACAATAAAATTTGTTCAATTATGGC | 57.228 | 29.630 | 0.00 | 0.00 | 37.73 | 4.40 |
2190 | 2333 | 8.907222 | AAATTTGTTCAATTATGGCTCAAAGT | 57.093 | 26.923 | 0.00 | 0.00 | 33.60 | 2.66 |
2191 | 2334 | 8.907222 | AATTTGTTCAATTATGGCTCAAAGTT | 57.093 | 26.923 | 0.00 | 0.00 | 32.90 | 2.66 |
2192 | 2335 | 8.907222 | ATTTGTTCAATTATGGCTCAAAGTTT | 57.093 | 26.923 | 0.00 | 0.00 | 30.86 | 2.66 |
2193 | 2336 | 7.712264 | TTGTTCAATTATGGCTCAAAGTTTG | 57.288 | 32.000 | 9.44 | 9.44 | 0.00 | 2.93 |
2194 | 2337 | 6.815089 | TGTTCAATTATGGCTCAAAGTTTGT | 58.185 | 32.000 | 15.08 | 0.00 | 0.00 | 2.83 |
2195 | 2338 | 7.271511 | TGTTCAATTATGGCTCAAAGTTTGTT | 58.728 | 30.769 | 15.08 | 0.00 | 0.00 | 2.83 |
2196 | 2339 | 8.417106 | TGTTCAATTATGGCTCAAAGTTTGTTA | 58.583 | 29.630 | 15.08 | 0.00 | 0.00 | 2.41 |
2197 | 2340 | 9.255304 | GTTCAATTATGGCTCAAAGTTTGTTAA | 57.745 | 29.630 | 15.08 | 7.52 | 0.00 | 2.01 |
2198 | 2341 | 9.474920 | TTCAATTATGGCTCAAAGTTTGTTAAG | 57.525 | 29.630 | 15.08 | 6.93 | 0.00 | 1.85 |
2199 | 2342 | 8.637986 | TCAATTATGGCTCAAAGTTTGTTAAGT | 58.362 | 29.630 | 15.08 | 3.73 | 0.00 | 2.24 |
2200 | 2343 | 9.906660 | CAATTATGGCTCAAAGTTTGTTAAGTA | 57.093 | 29.630 | 15.08 | 2.88 | 0.00 | 2.24 |
2205 | 2348 | 7.430441 | TGGCTCAAAGTTTGTTAAGTAATTCC | 58.570 | 34.615 | 15.08 | 3.30 | 0.00 | 3.01 |
2206 | 2349 | 7.068839 | TGGCTCAAAGTTTGTTAAGTAATTCCA | 59.931 | 33.333 | 15.08 | 5.52 | 0.00 | 3.53 |
2207 | 2350 | 7.923878 | GGCTCAAAGTTTGTTAAGTAATTCCAA | 59.076 | 33.333 | 15.08 | 0.00 | 0.00 | 3.53 |
2208 | 2351 | 9.308318 | GCTCAAAGTTTGTTAAGTAATTCCAAA | 57.692 | 29.630 | 15.08 | 0.00 | 0.00 | 3.28 |
2229 | 2372 | 9.699410 | TCCAAAATCATGTTAGATTGTAATCCT | 57.301 | 29.630 | 1.16 | 0.00 | 38.21 | 3.24 |
2230 | 2373 | 9.740239 | CCAAAATCATGTTAGATTGTAATCCTG | 57.260 | 33.333 | 1.16 | 0.00 | 38.21 | 3.86 |
2252 | 2410 | 2.801063 | GCAAATATGCGATGCAACTGT | 58.199 | 42.857 | 0.00 | 0.00 | 43.62 | 3.55 |
2264 | 2423 | 3.981071 | TGCAACTGTCCAATAGTAGCT | 57.019 | 42.857 | 0.00 | 0.00 | 0.00 | 3.32 |
2293 | 2452 | 2.806244 | GCAACCGAACTTCAGAAGCTTA | 59.194 | 45.455 | 10.33 | 0.00 | 0.00 | 3.09 |
2294 | 2453 | 3.120511 | GCAACCGAACTTCAGAAGCTTAG | 60.121 | 47.826 | 10.33 | 0.00 | 0.00 | 2.18 |
2295 | 2454 | 4.058817 | CAACCGAACTTCAGAAGCTTAGT | 58.941 | 43.478 | 10.33 | 0.00 | 0.00 | 2.24 |
2296 | 2455 | 3.654414 | ACCGAACTTCAGAAGCTTAGTG | 58.346 | 45.455 | 10.33 | 0.00 | 0.00 | 2.74 |
2297 | 2456 | 2.996621 | CCGAACTTCAGAAGCTTAGTGG | 59.003 | 50.000 | 10.33 | 0.65 | 0.00 | 4.00 |
2298 | 2457 | 2.996621 | CGAACTTCAGAAGCTTAGTGGG | 59.003 | 50.000 | 10.33 | 0.41 | 0.00 | 4.61 |
2300 | 2459 | 1.699634 | ACTTCAGAAGCTTAGTGGGCA | 59.300 | 47.619 | 10.33 | 0.00 | 0.00 | 5.36 |
2301 | 2460 | 2.079925 | CTTCAGAAGCTTAGTGGGCAC | 58.920 | 52.381 | 0.00 | 0.00 | 0.00 | 5.01 |
2303 | 2462 | 1.002430 | TCAGAAGCTTAGTGGGCACAG | 59.998 | 52.381 | 0.00 | 0.00 | 0.00 | 3.66 |
2312 | 2499 | 4.515567 | GCTTAGTGGGCACAGTAATAATCC | 59.484 | 45.833 | 16.50 | 0.66 | 40.65 | 3.01 |
2350 | 2537 | 5.646360 | CCACCGGAACTACATGAAAAATAGT | 59.354 | 40.000 | 9.46 | 0.00 | 0.00 | 2.12 |
2351 | 2538 | 6.150474 | CCACCGGAACTACATGAAAAATAGTT | 59.850 | 38.462 | 9.46 | 2.24 | 40.89 | 2.24 |
2394 | 2581 | 0.676466 | TGACAAGCATACCCTTGCCG | 60.676 | 55.000 | 2.10 | 0.00 | 44.66 | 5.69 |
2507 | 2694 | 5.046448 | AGACATCATCCATAAGCCATCTCTC | 60.046 | 44.000 | 0.00 | 0.00 | 0.00 | 3.20 |
2508 | 2695 | 4.845225 | ACATCATCCATAAGCCATCTCTCT | 59.155 | 41.667 | 0.00 | 0.00 | 0.00 | 3.10 |
2636 | 2823 | 4.785301 | TCCATCAACCATCTTTCAGGATC | 58.215 | 43.478 | 0.00 | 0.00 | 0.00 | 3.36 |
2648 | 2835 | 3.834489 | TTCAGGATCCAGATGCTTCTC | 57.166 | 47.619 | 15.82 | 0.00 | 37.39 | 2.87 |
2692 | 2887 | 4.781934 | AGGTAGTATTCCATTTCTGGTGC | 58.218 | 43.478 | 0.00 | 0.00 | 43.61 | 5.01 |
2716 | 2911 | 4.080526 | TCTCAGGCCTGTTAATAACTTCCC | 60.081 | 45.833 | 31.58 | 2.31 | 0.00 | 3.97 |
2737 | 2934 | 4.381505 | CCCATTGTGGCTGTTAATGGTTAC | 60.382 | 45.833 | 12.61 | 0.00 | 45.92 | 2.50 |
2738 | 2935 | 4.219507 | CCATTGTGGCTGTTAATGGTTACA | 59.780 | 41.667 | 0.00 | 0.00 | 43.61 | 2.41 |
2740 | 2937 | 9.414163 | CCCATTGTGGCTGTTAATGGTTACATT | 62.414 | 40.741 | 12.61 | 0.00 | 45.92 | 2.71 |
2741 | 2938 | 5.384063 | TGTGGCTGTTAATGGTTACATTG | 57.616 | 39.130 | 3.39 | 0.00 | 46.37 | 2.82 |
2783 | 2980 | 9.781834 | GCACTATGCTATATACTCTTCTAACTG | 57.218 | 37.037 | 0.00 | 0.00 | 40.96 | 3.16 |
2881 | 3079 | 2.363795 | CGGCCAGTACCTGAGGGA | 60.364 | 66.667 | 2.38 | 0.00 | 32.44 | 4.20 |
2896 | 3094 | 1.138661 | GAGGGAGAGAACAGCATGGAG | 59.861 | 57.143 | 0.00 | 0.00 | 43.62 | 3.86 |
2951 | 3149 | 0.398318 | GACACTGGGACTTGAGCCTT | 59.602 | 55.000 | 0.00 | 0.00 | 0.00 | 4.35 |
3199 | 3397 | 4.943705 | AGAAAAATACAGACACCGATGCAT | 59.056 | 37.500 | 0.00 | 0.00 | 0.00 | 3.96 |
3200 | 3398 | 4.882671 | AAAATACAGACACCGATGCATC | 57.117 | 40.909 | 17.10 | 17.10 | 0.00 | 3.91 |
3220 | 3418 | 1.298859 | CTGCAAACTCGGGCTACCAC | 61.299 | 60.000 | 0.00 | 0.00 | 36.13 | 4.16 |
3325 | 3523 | 1.444553 | GACTCCAGCTCGAACACCG | 60.445 | 63.158 | 0.00 | 0.00 | 40.25 | 4.94 |
3391 | 3589 | 1.361668 | CGCACAGGTCAATTCCTCCG | 61.362 | 60.000 | 0.00 | 0.00 | 35.37 | 4.63 |
3721 | 3919 | 2.591571 | TCTCCTCGAATGATGCAGTG | 57.408 | 50.000 | 0.00 | 0.00 | 0.00 | 3.66 |
3724 | 3922 | 0.745486 | CCTCGAATGATGCAGTGCCA | 60.745 | 55.000 | 13.72 | 4.38 | 0.00 | 4.92 |
3739 | 3937 | 2.170166 | GTGCCAACATTCATCCAGGAA | 58.830 | 47.619 | 0.00 | 0.00 | 0.00 | 3.36 |
3793 | 3991 | 2.795175 | CATACCGTGCTTCGACCTAT | 57.205 | 50.000 | 3.69 | 0.00 | 42.86 | 2.57 |
3877 | 4075 | 3.503363 | TGATCACAAAGTTCATGCTCCAC | 59.497 | 43.478 | 0.00 | 0.00 | 0.00 | 4.02 |
3919 | 4117 | 0.173481 | TCTGGATCGTCCTCTTTGCG | 59.827 | 55.000 | 5.77 | 0.00 | 37.46 | 4.85 |
3958 | 4156 | 1.590932 | CCTATGTGATGCTGGTGAGC | 58.409 | 55.000 | 0.00 | 0.00 | 46.44 | 4.26 |
4009 | 4207 | 4.698496 | GTCGTGATTGCAACGACG | 57.302 | 55.556 | 22.44 | 21.54 | 44.87 | 5.12 |
4033 | 4231 | 1.078848 | CTTCTTCCTCACCTGCGGG | 60.079 | 63.158 | 11.02 | 11.02 | 38.88 | 6.13 |
4060 | 4258 | 0.391130 | TGAAGCGGAACAAGATCCCG | 60.391 | 55.000 | 3.27 | 3.27 | 45.51 | 5.14 |
4139 | 4337 | 0.111266 | CGTCAACGAGTTCAAAGGCG | 60.111 | 55.000 | 0.00 | 0.00 | 43.02 | 5.52 |
4153 | 4351 | 3.518068 | GGCGGCCATTGCTACACC | 61.518 | 66.667 | 15.62 | 0.00 | 37.74 | 4.16 |
4160 | 4358 | 1.240641 | CCATTGCTACACCGGCACAA | 61.241 | 55.000 | 0.00 | 0.00 | 39.55 | 3.33 |
4186 | 4384 | 0.409876 | AGCTGTCACCAGGACCTCTA | 59.590 | 55.000 | 0.00 | 0.00 | 46.38 | 2.43 |
4200 | 4398 | 5.188751 | CAGGACCTCTAGGAGAAATCAAGTT | 59.811 | 44.000 | 2.23 | 0.00 | 38.94 | 2.66 |
4201 | 4399 | 5.188751 | AGGACCTCTAGGAGAAATCAAGTTG | 59.811 | 44.000 | 2.23 | 0.00 | 38.94 | 3.16 |
4279 | 4477 | 0.254178 | ATGTGCTCACCTCCATGGAC | 59.746 | 55.000 | 11.44 | 0.00 | 39.71 | 4.02 |
4363 | 4561 | 3.181470 | GGCTCTTCTTCTATGTGGTCCTC | 60.181 | 52.174 | 0.00 | 0.00 | 0.00 | 3.71 |
4400 | 4598 | 7.440856 | CCAAGAATGAGAGGAAGTAAATAGCTC | 59.559 | 40.741 | 0.00 | 0.00 | 0.00 | 4.09 |
4453 | 4654 | 5.803461 | CCATATCTCTTTGTGTGCATTTGTG | 59.197 | 40.000 | 0.00 | 0.00 | 0.00 | 3.33 |
4474 | 4675 | 7.444629 | TGTGATCTTTCTCATTCTCTTTTGG | 57.555 | 36.000 | 0.00 | 0.00 | 0.00 | 3.28 |
4559 | 4760 | 2.443887 | TGCCTTCAAAAGCATCAAGC | 57.556 | 45.000 | 0.00 | 0.00 | 46.19 | 4.01 |
4654 | 4855 | 0.250510 | TGTTGTAGGTCGCCATGCAA | 60.251 | 50.000 | 0.00 | 0.00 | 0.00 | 4.08 |
4677 | 4878 | 3.515104 | TCATGCAGGAAGTCATACTGTGA | 59.485 | 43.478 | 0.00 | 0.00 | 34.79 | 3.58 |
4933 | 5134 | 4.574013 | AGATCGAATGAGGAATGTTGAAGC | 59.426 | 41.667 | 0.00 | 0.00 | 0.00 | 3.86 |
4940 | 5141 | 7.439356 | CGAATGAGGAATGTTGAAGCTATTAGA | 59.561 | 37.037 | 0.00 | 0.00 | 0.00 | 2.10 |
4946 | 5147 | 9.247861 | AGGAATGTTGAAGCTATTAGATTTTGT | 57.752 | 29.630 | 0.00 | 0.00 | 0.00 | 2.83 |
4947 | 5148 | 9.294030 | GGAATGTTGAAGCTATTAGATTTTGTG | 57.706 | 33.333 | 0.00 | 0.00 | 0.00 | 3.33 |
4994 | 5195 | 4.280174 | GGTAGAACAAGGTACAGACTCACA | 59.720 | 45.833 | 0.00 | 0.00 | 0.00 | 3.58 |
4995 | 5196 | 4.592485 | AGAACAAGGTACAGACTCACAG | 57.408 | 45.455 | 0.00 | 0.00 | 0.00 | 3.66 |
4996 | 5197 | 3.961408 | AGAACAAGGTACAGACTCACAGT | 59.039 | 43.478 | 0.00 | 0.00 | 0.00 | 3.55 |
5001 | 5202 | 5.472820 | ACAAGGTACAGACTCACAGTACTAC | 59.527 | 44.000 | 0.00 | 0.00 | 40.02 | 2.73 |
5052 | 5254 | 6.040842 | ACAGAAAGCTAAAAGAATCCTGCAAA | 59.959 | 34.615 | 0.00 | 0.00 | 0.00 | 3.68 |
5158 | 5360 | 0.880441 | GTGTATGTGCATGCACCACA | 59.120 | 50.000 | 40.01 | 36.67 | 44.95 | 4.17 |
5159 | 5361 | 0.880441 | TGTATGTGCATGCACCACAC | 59.120 | 50.000 | 40.01 | 32.62 | 45.00 | 3.82 |
5288 | 5649 | 7.044181 | AGTTGAGTCCATATGAGTACAACATG | 58.956 | 38.462 | 23.41 | 0.00 | 37.15 | 3.21 |
5303 | 5664 | 7.272978 | AGTACAACATGGGAGTAACATGATAC | 58.727 | 38.462 | 11.87 | 1.46 | 46.60 | 2.24 |
5304 | 5665 | 6.061022 | ACAACATGGGAGTAACATGATACA | 57.939 | 37.500 | 14.73 | 0.00 | 46.60 | 2.29 |
5391 | 5752 | 5.324409 | ACAACCTTATCAATCTCTTTGCCA | 58.676 | 37.500 | 0.00 | 0.00 | 35.16 | 4.92 |
5392 | 5753 | 5.954150 | ACAACCTTATCAATCTCTTTGCCAT | 59.046 | 36.000 | 0.00 | 0.00 | 35.16 | 4.40 |
5393 | 5754 | 6.438425 | ACAACCTTATCAATCTCTTTGCCATT | 59.562 | 34.615 | 0.00 | 0.00 | 35.16 | 3.16 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
219 | 220 | 2.614481 | CCAAGAGCTGTTTACCGCCTAA | 60.614 | 50.000 | 0.00 | 0.00 | 0.00 | 2.69 |
226 | 227 | 1.541147 | TGCATGCCAAGAGCTGTTTAC | 59.459 | 47.619 | 16.68 | 0.00 | 44.23 | 2.01 |
292 | 295 | 3.408501 | CTCCTCTCGCAGGTCGCAG | 62.409 | 68.421 | 0.63 | 0.00 | 43.95 | 5.18 |
293 | 296 | 3.443925 | CTCCTCTCGCAGGTCGCA | 61.444 | 66.667 | 0.63 | 0.00 | 43.95 | 5.10 |
297 | 300 | 0.107945 | GCATTTCTCCTCTCGCAGGT | 60.108 | 55.000 | 0.63 | 0.00 | 43.95 | 4.00 |
317 | 337 | 0.528017 | TCTAGCCGCAGTCTTGTCTG | 59.472 | 55.000 | 0.00 | 0.00 | 38.35 | 3.51 |
318 | 338 | 0.814457 | CTCTAGCCGCAGTCTTGTCT | 59.186 | 55.000 | 0.00 | 0.00 | 0.00 | 3.41 |
359 | 379 | 0.181350 | ACCTTCATCTGCGGGAATCC | 59.819 | 55.000 | 0.00 | 0.00 | 0.00 | 3.01 |
392 | 414 | 1.643832 | CAGCTTATTTCCTCGCGGC | 59.356 | 57.895 | 6.13 | 0.00 | 0.00 | 6.53 |
432 | 454 | 4.511443 | ATCGTCGTCGTCGTCGGC | 62.511 | 66.667 | 18.80 | 9.16 | 45.17 | 5.54 |
433 | 455 | 2.643790 | CATCGTCGTCGTCGTCGG | 60.644 | 66.667 | 18.80 | 3.36 | 45.17 | 4.79 |
448 | 476 | 0.325860 | TACCAACTACGGAGGGGCAT | 60.326 | 55.000 | 7.49 | 0.00 | 0.00 | 4.40 |
449 | 477 | 1.078891 | TACCAACTACGGAGGGGCA | 59.921 | 57.895 | 7.49 | 0.00 | 0.00 | 5.36 |
450 | 478 | 1.519246 | GTACCAACTACGGAGGGGC | 59.481 | 63.158 | 7.49 | 0.00 | 0.00 | 5.80 |
451 | 479 | 1.811860 | CGTACCAACTACGGAGGGG | 59.188 | 63.158 | 0.00 | 2.28 | 43.95 | 4.79 |
463 | 491 | 1.174783 | GAGTCTTGAGGAGCGTACCA | 58.825 | 55.000 | 3.22 | 0.00 | 0.00 | 3.25 |
464 | 492 | 1.133407 | CTGAGTCTTGAGGAGCGTACC | 59.867 | 57.143 | 0.00 | 0.00 | 0.00 | 3.34 |
505 | 537 | 1.696832 | GATCTGCCGCCGAGTGTTTC | 61.697 | 60.000 | 0.00 | 0.00 | 0.00 | 2.78 |
568 | 600 | 0.456995 | CGACGGGAAGAGAACTGAGC | 60.457 | 60.000 | 0.00 | 0.00 | 0.00 | 4.26 |
569 | 601 | 0.882474 | ACGACGGGAAGAGAACTGAG | 59.118 | 55.000 | 0.00 | 0.00 | 0.00 | 3.35 |
573 | 605 | 2.332104 | GGTTAACGACGGGAAGAGAAC | 58.668 | 52.381 | 0.00 | 0.00 | 0.00 | 3.01 |
606 | 638 | 2.300437 | ACTGAACTGAGCTTACCAGGTC | 59.700 | 50.000 | 11.14 | 11.14 | 45.89 | 3.85 |
607 | 639 | 2.330216 | ACTGAACTGAGCTTACCAGGT | 58.670 | 47.619 | 0.00 | 0.00 | 36.03 | 4.00 |
608 | 640 | 3.007398 | AGAACTGAACTGAGCTTACCAGG | 59.993 | 47.826 | 5.94 | 0.00 | 36.03 | 4.45 |
609 | 641 | 4.021544 | AGAGAACTGAACTGAGCTTACCAG | 60.022 | 45.833 | 0.00 | 0.00 | 37.64 | 4.00 |
610 | 642 | 3.898123 | AGAGAACTGAACTGAGCTTACCA | 59.102 | 43.478 | 0.00 | 0.00 | 0.00 | 3.25 |
611 | 643 | 4.529109 | AGAGAACTGAACTGAGCTTACC | 57.471 | 45.455 | 0.00 | 0.00 | 0.00 | 2.85 |
612 | 644 | 4.926832 | GGAAGAGAACTGAACTGAGCTTAC | 59.073 | 45.833 | 0.00 | 0.00 | 0.00 | 2.34 |
613 | 645 | 4.021016 | GGGAAGAGAACTGAACTGAGCTTA | 60.021 | 45.833 | 0.00 | 0.00 | 0.00 | 3.09 |
614 | 646 | 3.244387 | GGGAAGAGAACTGAACTGAGCTT | 60.244 | 47.826 | 0.00 | 0.00 | 0.00 | 3.74 |
615 | 647 | 2.301583 | GGGAAGAGAACTGAACTGAGCT | 59.698 | 50.000 | 0.00 | 0.00 | 0.00 | 4.09 |
616 | 648 | 2.694213 | GGGAAGAGAACTGAACTGAGC | 58.306 | 52.381 | 0.00 | 0.00 | 0.00 | 4.26 |
617 | 649 | 2.297597 | ACGGGAAGAGAACTGAACTGAG | 59.702 | 50.000 | 0.00 | 0.00 | 0.00 | 3.35 |
618 | 650 | 2.296471 | GACGGGAAGAGAACTGAACTGA | 59.704 | 50.000 | 0.00 | 0.00 | 0.00 | 3.41 |
619 | 651 | 2.678324 | GACGGGAAGAGAACTGAACTG | 58.322 | 52.381 | 0.00 | 0.00 | 0.00 | 3.16 |
630 | 662 | 0.604578 | CAGGGTTAACGACGGGAAGA | 59.395 | 55.000 | 0.00 | 0.00 | 0.00 | 2.87 |
645 | 677 | 1.203994 | CCAGGTCGTAGTTACACAGGG | 59.796 | 57.143 | 0.00 | 0.00 | 0.00 | 4.45 |
646 | 678 | 1.891150 | ACCAGGTCGTAGTTACACAGG | 59.109 | 52.381 | 0.00 | 0.00 | 0.00 | 4.00 |
647 | 679 | 4.771590 | TTACCAGGTCGTAGTTACACAG | 57.228 | 45.455 | 0.00 | 0.00 | 0.00 | 3.66 |
675 | 711 | 2.032860 | AATACGGAGCGGCAGAGCAT | 62.033 | 55.000 | 1.45 | 0.00 | 40.15 | 3.79 |
683 | 719 | 0.870307 | CAACGGAGAATACGGAGCGG | 60.870 | 60.000 | 0.00 | 0.00 | 35.23 | 5.52 |
689 | 725 | 1.444836 | TTTGGGCAACGGAGAATACG | 58.555 | 50.000 | 0.00 | 0.00 | 37.60 | 3.06 |
817 | 854 | 1.676967 | CCTGTGCTTCTCTTGGGGC | 60.677 | 63.158 | 0.00 | 0.00 | 0.00 | 5.80 |
818 | 855 | 1.676967 | GCCTGTGCTTCTCTTGGGG | 60.677 | 63.158 | 0.00 | 0.00 | 33.53 | 4.96 |
909 | 958 | 2.268076 | CCTTGGTTTCGCAGGTGGG | 61.268 | 63.158 | 0.00 | 0.00 | 0.00 | 4.61 |
1032 | 1081 | 1.410517 | TGATGCCCGCAAACAAGAAAA | 59.589 | 42.857 | 0.00 | 0.00 | 0.00 | 2.29 |
1047 | 1096 | 4.095483 | CCCGCTTGATTCCTTATATGATGC | 59.905 | 45.833 | 0.00 | 0.00 | 0.00 | 3.91 |
1059 | 1108 | 2.472909 | CCTTCGCCCCGCTTGATTC | 61.473 | 63.158 | 0.00 | 0.00 | 0.00 | 2.52 |
1440 | 1544 | 2.601804 | GAGAGGTTCTTGAACTCGAGC | 58.398 | 52.381 | 13.61 | 0.00 | 36.40 | 5.03 |
1458 | 1562 | 3.443037 | CTTCTTGATGACGCTGTAGGAG | 58.557 | 50.000 | 0.00 | 0.00 | 0.00 | 3.69 |
1620 | 1724 | 2.825264 | CTCCCCTTGGCGATCCTC | 59.175 | 66.667 | 0.00 | 0.00 | 0.00 | 3.71 |
1680 | 1784 | 3.572584 | ACCATCGAGTCGAGTGTTAAAC | 58.427 | 45.455 | 21.36 | 0.00 | 39.91 | 2.01 |
1728 | 1832 | 4.099380 | TCCACCGTTTGTTCTTTTTGTC | 57.901 | 40.909 | 0.00 | 0.00 | 0.00 | 3.18 |
1748 | 1882 | 7.172361 | AGTTTCAGTTCAGAGCATAAGAAACTC | 59.828 | 37.037 | 15.10 | 0.00 | 46.23 | 3.01 |
1764 | 1898 | 4.214332 | GGTGACCTGATCAAGTTTCAGTTC | 59.786 | 45.833 | 0.00 | 0.71 | 39.72 | 3.01 |
2017 | 2152 | 4.143052 | GCAAAGCAGTGCATAAATTGAACC | 60.143 | 41.667 | 19.20 | 0.00 | 44.29 | 3.62 |
2058 | 2193 | 5.868258 | CGCTAGAGATGCTTATGTGATCAAT | 59.132 | 40.000 | 0.00 | 0.00 | 0.00 | 2.57 |
2076 | 2211 | 6.598457 | AGTTCTGAACTAGTATTGTCGCTAGA | 59.402 | 38.462 | 20.85 | 0.00 | 40.69 | 2.43 |
2079 | 2214 | 5.416326 | AGAGTTCTGAACTAGTATTGTCGCT | 59.584 | 40.000 | 22.08 | 8.78 | 43.03 | 4.93 |
2081 | 2216 | 6.843208 | TGAGAGTTCTGAACTAGTATTGTCG | 58.157 | 40.000 | 22.08 | 0.00 | 43.03 | 4.35 |
2084 | 2219 | 8.994429 | AACATGAGAGTTCTGAACTAGTATTG | 57.006 | 34.615 | 22.08 | 16.96 | 43.03 | 1.90 |
2113 | 2256 | 9.515226 | ACTCCTTGCTAGTCAAACAATAAATTA | 57.485 | 29.630 | 0.00 | 0.00 | 33.65 | 1.40 |
2114 | 2257 | 8.299570 | CACTCCTTGCTAGTCAAACAATAAATT | 58.700 | 33.333 | 0.00 | 0.00 | 33.65 | 1.82 |
2132 | 2275 | 2.249309 | CAACGCACGCACTCCTTG | 59.751 | 61.111 | 0.00 | 0.00 | 0.00 | 3.61 |
2133 | 2276 | 2.709125 | TAGCAACGCACGCACTCCTT | 62.709 | 55.000 | 0.00 | 0.00 | 0.00 | 3.36 |
2134 | 2277 | 3.220999 | TAGCAACGCACGCACTCCT | 62.221 | 57.895 | 0.00 | 0.00 | 0.00 | 3.69 |
2135 | 2278 | 2.736995 | TAGCAACGCACGCACTCC | 60.737 | 61.111 | 0.00 | 0.00 | 0.00 | 3.85 |
2136 | 2279 | 2.470286 | GTAGCAACGCACGCACTC | 59.530 | 61.111 | 0.00 | 0.00 | 0.00 | 3.51 |
2137 | 2280 | 3.403057 | CGTAGCAACGCACGCACT | 61.403 | 61.111 | 0.00 | 0.00 | 43.12 | 4.40 |
2146 | 2289 | 7.168469 | ACAAATTTTATTGTGGTTCGTAGCAAC | 59.832 | 33.333 | 0.00 | 0.00 | 41.78 | 4.17 |
2147 | 2290 | 7.203910 | ACAAATTTTATTGTGGTTCGTAGCAA | 58.796 | 30.769 | 0.00 | 0.00 | 41.78 | 3.91 |
2148 | 2291 | 6.740110 | ACAAATTTTATTGTGGTTCGTAGCA | 58.260 | 32.000 | 0.00 | 0.00 | 41.78 | 3.49 |
2149 | 2292 | 7.380065 | TGAACAAATTTTATTGTGGTTCGTAGC | 59.620 | 33.333 | 9.43 | 0.00 | 42.49 | 3.58 |
2150 | 2293 | 8.789881 | TGAACAAATTTTATTGTGGTTCGTAG | 57.210 | 30.769 | 9.43 | 0.00 | 42.49 | 3.51 |
2151 | 2294 | 9.751542 | ATTGAACAAATTTTATTGTGGTTCGTA | 57.248 | 25.926 | 9.43 | 3.31 | 42.49 | 3.43 |
2152 | 2295 | 8.655651 | ATTGAACAAATTTTATTGTGGTTCGT | 57.344 | 26.923 | 9.43 | 1.49 | 42.49 | 3.85 |
2157 | 2300 | 9.771915 | GCCATAATTGAACAAATTTTATTGTGG | 57.228 | 29.630 | 10.62 | 10.62 | 42.49 | 4.17 |
2164 | 2307 | 9.341078 | ACTTTGAGCCATAATTGAACAAATTTT | 57.659 | 25.926 | 0.00 | 0.00 | 39.29 | 1.82 |
2165 | 2308 | 8.907222 | ACTTTGAGCCATAATTGAACAAATTT | 57.093 | 26.923 | 0.00 | 0.00 | 39.29 | 1.82 |
2166 | 2309 | 8.907222 | AACTTTGAGCCATAATTGAACAAATT | 57.093 | 26.923 | 0.00 | 0.00 | 41.47 | 1.82 |
2167 | 2310 | 8.776470 | CAAACTTTGAGCCATAATTGAACAAAT | 58.224 | 29.630 | 0.00 | 0.00 | 0.00 | 2.32 |
2168 | 2311 | 7.768120 | ACAAACTTTGAGCCATAATTGAACAAA | 59.232 | 29.630 | 8.55 | 0.00 | 0.00 | 2.83 |
2169 | 2312 | 7.271511 | ACAAACTTTGAGCCATAATTGAACAA | 58.728 | 30.769 | 8.55 | 0.00 | 0.00 | 2.83 |
2170 | 2313 | 6.815089 | ACAAACTTTGAGCCATAATTGAACA | 58.185 | 32.000 | 8.55 | 0.00 | 0.00 | 3.18 |
2171 | 2314 | 7.713764 | AACAAACTTTGAGCCATAATTGAAC | 57.286 | 32.000 | 8.55 | 0.00 | 0.00 | 3.18 |
2172 | 2315 | 9.474920 | CTTAACAAACTTTGAGCCATAATTGAA | 57.525 | 29.630 | 8.55 | 0.00 | 0.00 | 2.69 |
2173 | 2316 | 8.637986 | ACTTAACAAACTTTGAGCCATAATTGA | 58.362 | 29.630 | 8.55 | 0.00 | 0.00 | 2.57 |
2174 | 2317 | 8.816640 | ACTTAACAAACTTTGAGCCATAATTG | 57.183 | 30.769 | 8.55 | 0.00 | 0.00 | 2.32 |
2179 | 2322 | 8.088365 | GGAATTACTTAACAAACTTTGAGCCAT | 58.912 | 33.333 | 8.55 | 0.00 | 0.00 | 4.40 |
2180 | 2323 | 7.068839 | TGGAATTACTTAACAAACTTTGAGCCA | 59.931 | 33.333 | 8.55 | 0.00 | 0.00 | 4.75 |
2181 | 2324 | 7.430441 | TGGAATTACTTAACAAACTTTGAGCC | 58.570 | 34.615 | 8.55 | 0.00 | 0.00 | 4.70 |
2182 | 2325 | 8.865590 | TTGGAATTACTTAACAAACTTTGAGC | 57.134 | 30.769 | 8.55 | 0.00 | 0.00 | 4.26 |
2203 | 2346 | 9.699410 | AGGATTACAATCTAACATGATTTTGGA | 57.301 | 29.630 | 0.00 | 0.00 | 34.77 | 3.53 |
2204 | 2347 | 9.740239 | CAGGATTACAATCTAACATGATTTTGG | 57.260 | 33.333 | 0.00 | 0.00 | 34.77 | 3.28 |
2205 | 2348 | 9.241317 | GCAGGATTACAATCTAACATGATTTTG | 57.759 | 33.333 | 0.00 | 0.00 | 34.77 | 2.44 |
2206 | 2349 | 8.131100 | CGCAGGATTACAATCTAACATGATTTT | 58.869 | 33.333 | 0.00 | 0.00 | 34.77 | 1.82 |
2207 | 2350 | 7.642669 | CGCAGGATTACAATCTAACATGATTT | 58.357 | 34.615 | 0.00 | 0.00 | 34.77 | 2.17 |
2208 | 2351 | 6.293626 | GCGCAGGATTACAATCTAACATGATT | 60.294 | 38.462 | 0.30 | 0.00 | 37.16 | 2.57 |
2211 | 2354 | 4.273235 | TGCGCAGGATTACAATCTAACATG | 59.727 | 41.667 | 5.66 | 0.00 | 35.73 | 3.21 |
2213 | 2356 | 3.867857 | TGCGCAGGATTACAATCTAACA | 58.132 | 40.909 | 5.66 | 0.00 | 35.73 | 2.41 |
2215 | 2358 | 7.584108 | CATATTTGCGCAGGATTACAATCTAA | 58.416 | 34.615 | 11.31 | 0.00 | 35.73 | 2.10 |
2244 | 2402 | 3.981071 | AGCTACTATTGGACAGTTGCA | 57.019 | 42.857 | 10.60 | 0.00 | 44.06 | 4.08 |
2252 | 2410 | 3.566742 | TGCGATTCGTAGCTACTATTGGA | 59.433 | 43.478 | 21.20 | 15.28 | 0.00 | 3.53 |
2264 | 2423 | 1.987770 | GAAGTTCGGTTGCGATTCGTA | 59.012 | 47.619 | 8.03 | 0.00 | 0.00 | 3.43 |
2293 | 2452 | 4.584638 | TTGGATTATTACTGTGCCCACT | 57.415 | 40.909 | 0.00 | 0.00 | 0.00 | 4.00 |
2294 | 2453 | 6.952773 | TTATTGGATTATTACTGTGCCCAC | 57.047 | 37.500 | 0.00 | 0.00 | 0.00 | 4.61 |
2295 | 2454 | 9.461312 | GATATTATTGGATTATTACTGTGCCCA | 57.539 | 33.333 | 0.00 | 0.00 | 0.00 | 5.36 |
2296 | 2455 | 9.686683 | AGATATTATTGGATTATTACTGTGCCC | 57.313 | 33.333 | 0.00 | 0.00 | 0.00 | 5.36 |
2312 | 2499 | 4.617253 | TCCGGTGGACCAGATATTATTG | 57.383 | 45.455 | 0.00 | 0.00 | 35.14 | 1.90 |
2364 | 2551 | 6.438425 | AGGGTATGCTTGTCAAAAATCTGAAT | 59.562 | 34.615 | 0.00 | 0.00 | 0.00 | 2.57 |
2394 | 2581 | 1.461127 | GTGAGCGGTTGTCTGTCATTC | 59.539 | 52.381 | 0.00 | 0.00 | 0.00 | 2.67 |
2636 | 2823 | 2.662006 | TTCTGTCGAGAAGCATCTGG | 57.338 | 50.000 | 0.00 | 0.00 | 35.54 | 3.86 |
2692 | 2887 | 5.119694 | GGAAGTTATTAACAGGCCTGAGAG | 58.880 | 45.833 | 39.19 | 13.58 | 0.00 | 3.20 |
2716 | 2911 | 5.384063 | TGTAACCATTAACAGCCACAATG | 57.616 | 39.130 | 0.00 | 0.00 | 0.00 | 2.82 |
2737 | 2934 | 3.181498 | TGCAATACGACTGGAATGCAATG | 60.181 | 43.478 | 0.00 | 0.00 | 40.47 | 2.82 |
2738 | 2935 | 3.016031 | TGCAATACGACTGGAATGCAAT | 58.984 | 40.909 | 0.00 | 0.00 | 40.47 | 3.56 |
2740 | 2937 | 1.737236 | GTGCAATACGACTGGAATGCA | 59.263 | 47.619 | 0.00 | 0.00 | 41.08 | 3.96 |
2741 | 2938 | 2.009774 | AGTGCAATACGACTGGAATGC | 58.990 | 47.619 | 0.00 | 0.00 | 0.00 | 3.56 |
2783 | 2980 | 6.238484 | CGTCCTCTGGATGAAATAATTGAACC | 60.238 | 42.308 | 0.00 | 0.00 | 40.94 | 3.62 |
2796 | 2994 | 2.305928 | AGATCAGTCGTCCTCTGGATG | 58.694 | 52.381 | 0.00 | 0.00 | 39.89 | 3.51 |
2881 | 3079 | 5.301551 | CAGTAGATACTCCATGCTGTTCTCT | 59.698 | 44.000 | 0.00 | 0.00 | 33.46 | 3.10 |
2896 | 3094 | 6.266558 | ACTCCTTGATGACATCCAGTAGATAC | 59.733 | 42.308 | 13.92 | 0.00 | 32.37 | 2.24 |
2932 | 3130 | 0.398318 | AAGGCTCAAGTCCCAGTGTC | 59.602 | 55.000 | 0.00 | 0.00 | 0.00 | 3.67 |
3019 | 3217 | 2.832129 | TGACTTCTGGTATGGTGTCCTC | 59.168 | 50.000 | 0.00 | 0.00 | 0.00 | 3.71 |
3199 | 3397 | 1.295423 | GTAGCCCGAGTTTGCAGGA | 59.705 | 57.895 | 0.00 | 0.00 | 0.00 | 3.86 |
3200 | 3398 | 1.745489 | GGTAGCCCGAGTTTGCAGG | 60.745 | 63.158 | 0.00 | 0.00 | 0.00 | 4.85 |
3220 | 3418 | 4.583871 | AGAACTGTGAAGCTAATCTTGGG | 58.416 | 43.478 | 0.00 | 0.00 | 34.56 | 4.12 |
3301 | 3499 | 1.048601 | TTCGAGCTGGAGTCCAAGTT | 58.951 | 50.000 | 14.17 | 5.54 | 30.80 | 2.66 |
3325 | 3523 | 0.541764 | TTGACATTGGGGTCCTTGCC | 60.542 | 55.000 | 0.00 | 0.00 | 36.97 | 4.52 |
3391 | 3589 | 0.765510 | ACACTGGTTCTTGGGGAGAC | 59.234 | 55.000 | 0.00 | 0.00 | 33.02 | 3.36 |
3451 | 3649 | 1.945394 | GGTGCATCTAGTGGCTCAATG | 59.055 | 52.381 | 9.22 | 0.00 | 0.00 | 2.82 |
3592 | 3790 | 1.953138 | GAGGATGAGCGCCATGACG | 60.953 | 63.158 | 14.84 | 0.00 | 35.17 | 4.35 |
3640 | 3838 | 1.665679 | CGGTTGATGGTCAGGAAATCG | 59.334 | 52.381 | 0.00 | 0.00 | 0.00 | 3.34 |
3721 | 3919 | 1.133025 | CGTTCCTGGATGAATGTTGGC | 59.867 | 52.381 | 0.00 | 0.00 | 0.00 | 4.52 |
3724 | 3922 | 2.496899 | AGCGTTCCTGGATGAATGTT | 57.503 | 45.000 | 0.00 | 0.00 | 34.43 | 2.71 |
3739 | 3937 | 1.148157 | CGCGGATGAAGATGAAGCGT | 61.148 | 55.000 | 0.00 | 0.00 | 41.04 | 5.07 |
3793 | 3991 | 2.768527 | GACAATGAGGGAGGAGATCACA | 59.231 | 50.000 | 0.00 | 0.00 | 31.63 | 3.58 |
3919 | 4117 | 2.245096 | GCATTTGTTGTGATGAGCGAC | 58.755 | 47.619 | 0.00 | 0.00 | 0.00 | 5.19 |
3958 | 4156 | 2.506217 | TAGCTCGGAACAAGCGCG | 60.506 | 61.111 | 0.00 | 0.00 | 0.00 | 6.86 |
4009 | 4207 | 1.448717 | GGTGAGGAAGAAGAGCGCC | 60.449 | 63.158 | 2.29 | 0.00 | 0.00 | 6.53 |
4060 | 4258 | 4.775236 | AGTGAAGCCATCTCCAGTAAATC | 58.225 | 43.478 | 0.00 | 0.00 | 0.00 | 2.17 |
4139 | 4337 | 3.518068 | GCCGGTGTAGCAATGGCC | 61.518 | 66.667 | 1.90 | 0.00 | 42.56 | 5.36 |
4186 | 4384 | 3.416156 | GCCACTCAACTTGATTTCTCCT | 58.584 | 45.455 | 0.00 | 0.00 | 0.00 | 3.69 |
4200 | 4398 | 2.306805 | AGTTGATCATGAAGGCCACTCA | 59.693 | 45.455 | 5.01 | 7.92 | 0.00 | 3.41 |
4201 | 4399 | 2.681848 | CAGTTGATCATGAAGGCCACTC | 59.318 | 50.000 | 5.01 | 0.77 | 0.00 | 3.51 |
4279 | 4477 | 2.357952 | CCAGATGCTGTCCATTGTGATG | 59.642 | 50.000 | 0.00 | 0.00 | 33.29 | 3.07 |
4363 | 4561 | 6.323482 | TCCTCTCATTCTTGGAGTAGAATCTG | 59.677 | 42.308 | 0.00 | 0.00 | 41.68 | 2.90 |
4400 | 4598 | 1.838112 | TTGGTATGCCTTTGCTGGAG | 58.162 | 50.000 | 0.16 | 0.00 | 38.71 | 3.86 |
4453 | 4654 | 6.373774 | TCTGCCAAAAGAGAATGAGAAAGATC | 59.626 | 38.462 | 0.00 | 0.00 | 0.00 | 2.75 |
4474 | 4675 | 5.511234 | AGGAGATAACAAATGCATTCTGC | 57.489 | 39.130 | 13.38 | 9.70 | 45.29 | 4.26 |
4559 | 4760 | 5.051891 | AGAAAGAATGATGTTGGCTTTCG | 57.948 | 39.130 | 0.00 | 0.00 | 45.42 | 3.46 |
4593 | 4794 | 0.618458 | TGGGGCACATCTACCTGAAC | 59.382 | 55.000 | 0.00 | 0.00 | 0.00 | 3.18 |
4635 | 4836 | 0.250510 | TTGCATGGCGACCTACAACA | 60.251 | 50.000 | 0.00 | 0.00 | 0.00 | 3.33 |
4654 | 4855 | 4.162888 | TCACAGTATGACTTCCTGCATGAT | 59.837 | 41.667 | 0.00 | 0.00 | 39.69 | 2.45 |
4677 | 4878 | 9.935241 | CTATGGTTCTTATATGTAAGAGCACAT | 57.065 | 33.333 | 21.66 | 21.30 | 44.98 | 3.21 |
4795 | 4996 | 5.371115 | TGATGCAGTAGCTTTTGTAAACC | 57.629 | 39.130 | 0.00 | 0.00 | 42.74 | 3.27 |
5052 | 5254 | 8.963725 | AGTTTACCTACAAAACTAAAGTTGCTT | 58.036 | 29.630 | 0.00 | 0.00 | 43.54 | 3.91 |
5094 | 5296 | 5.488341 | TGTTCCATGGAAAGTTACTCTAGC | 58.512 | 41.667 | 28.64 | 11.98 | 35.75 | 3.42 |
5136 | 5338 | 0.964860 | GGTGCATGCACATACACCCA | 60.965 | 55.000 | 42.35 | 8.06 | 45.35 | 4.51 |
5158 | 5360 | 3.955650 | ATGTGCTTTAGTAGTGGTCGT | 57.044 | 42.857 | 0.00 | 0.00 | 0.00 | 4.34 |
5159 | 5361 | 6.903883 | ATTTATGTGCTTTAGTAGTGGTCG | 57.096 | 37.500 | 0.00 | 0.00 | 0.00 | 4.79 |
5209 | 5568 | 5.003804 | ACCTACATGTGTGGAAATTCTGTC | 58.996 | 41.667 | 21.55 | 0.00 | 0.00 | 3.51 |
5210 | 5569 | 4.985538 | ACCTACATGTGTGGAAATTCTGT | 58.014 | 39.130 | 21.55 | 0.00 | 0.00 | 3.41 |
5288 | 5649 | 4.100189 | AGTGAGCTGTATCATGTTACTCCC | 59.900 | 45.833 | 13.67 | 4.11 | 0.00 | 4.30 |
5303 | 5664 | 1.989165 | GCTCTCGTAAACAGTGAGCTG | 59.011 | 52.381 | 11.49 | 0.00 | 45.98 | 4.24 |
5304 | 5665 | 2.355717 | GCTCTCGTAAACAGTGAGCT | 57.644 | 50.000 | 11.49 | 0.00 | 45.98 | 4.09 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.