Multiple sequence alignment - TraesCS5D01G411900
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 | TraesCS5D01G411900 | chr5D | 100.000 | 6509 | 0 | 0 | 1574 | 8082 | 475303186 | 475309694 | 0.000000e+00 | 12020.0 |
1 | TraesCS5D01G411900 | chr5D | 100.000 | 1285 | 0 | 0 | 1 | 1285 | 475301613 | 475302897 | 0.000000e+00 | 2374.0 |
2 | TraesCS5D01G411900 | chr5D | 95.604 | 91 | 4 | 0 | 6470 | 6560 | 240428037 | 240428127 | 6.540000e-31 | 147.0 |
3 | TraesCS5D01G411900 | chr5D | 93.684 | 95 | 6 | 0 | 6472 | 6566 | 369298384 | 369298290 | 8.450000e-30 | 143.0 |
4 | TraesCS5D01G411900 | chr5B | 94.685 | 4967 | 164 | 37 | 1577 | 6474 | 582578788 | 582583723 | 0.000000e+00 | 7618.0 |
5 | TraesCS5D01G411900 | chr5B | 90.085 | 1301 | 69 | 26 | 1 | 1285 | 582577454 | 582578710 | 0.000000e+00 | 1633.0 |
6 | TraesCS5D01G411900 | chr5B | 94.462 | 957 | 38 | 10 | 6559 | 7510 | 582583725 | 582584671 | 0.000000e+00 | 1459.0 |
7 | TraesCS5D01G411900 | chr5B | 95.249 | 421 | 17 | 1 | 7659 | 8079 | 582585226 | 582585643 | 0.000000e+00 | 664.0 |
8 | TraesCS5D01G411900 | chr5B | 92.949 | 156 | 7 | 2 | 7505 | 7659 | 582584994 | 582585146 | 2.940000e-54 | 224.0 |
9 | TraesCS5D01G411900 | chr5B | 90.141 | 71 | 6 | 1 | 3330 | 3399 | 693080813 | 693080883 | 3.110000e-14 | 91.6 |
10 | TraesCS5D01G411900 | chr5A | 96.278 | 3815 | 103 | 24 | 2476 | 6276 | 594572160 | 594575949 | 0.000000e+00 | 6222.0 |
11 | TraesCS5D01G411900 | chr5A | 95.491 | 1242 | 46 | 7 | 6275 | 7510 | 594575978 | 594577215 | 0.000000e+00 | 1975.0 |
12 | TraesCS5D01G411900 | chr5A | 93.292 | 1297 | 64 | 13 | 1 | 1285 | 594570029 | 594571314 | 0.000000e+00 | 1892.0 |
13 | TraesCS5D01G411900 | chr5A | 91.878 | 788 | 30 | 11 | 1574 | 2342 | 594571388 | 594572160 | 0.000000e+00 | 1070.0 |
14 | TraesCS5D01G411900 | chr5A | 92.529 | 348 | 15 | 6 | 7505 | 7845 | 594577536 | 594577879 | 9.430000e-134 | 488.0 |
15 | TraesCS5D01G411900 | chr5A | 85.714 | 469 | 54 | 5 | 1 | 459 | 594568226 | 594568691 | 4.390000e-132 | 483.0 |
16 | TraesCS5D01G411900 | chr4D | 87.778 | 180 | 18 | 3 | 1018 | 1195 | 52472987 | 52472810 | 2.960000e-49 | 207.0 |
17 | TraesCS5D01G411900 | chr4D | 88.172 | 93 | 11 | 0 | 4807 | 4899 | 29655718 | 29655626 | 2.380000e-20 | 111.0 |
18 | TraesCS5D01G411900 | chr4B | 87.778 | 180 | 18 | 3 | 1018 | 1195 | 76819158 | 76818981 | 2.960000e-49 | 207.0 |
19 | TraesCS5D01G411900 | chr4A | 87.778 | 180 | 18 | 3 | 1018 | 1195 | 544198529 | 544198706 | 2.960000e-49 | 207.0 |
20 | TraesCS5D01G411900 | chr4A | 84.524 | 84 | 10 | 2 | 3330 | 3410 | 543262153 | 543262070 | 6.720000e-11 | 80.5 |
21 | TraesCS5D01G411900 | chr6D | 94.845 | 97 | 4 | 1 | 6467 | 6562 | 85081776 | 85081872 | 5.050000e-32 | 150.0 |
22 | TraesCS5D01G411900 | chr6D | 86.905 | 84 | 8 | 2 | 3330 | 3410 | 12455361 | 12455278 | 3.110000e-14 | 91.6 |
23 | TraesCS5D01G411900 | chr2A | 97.701 | 87 | 2 | 0 | 6475 | 6561 | 498099527 | 498099441 | 5.050000e-32 | 150.0 |
24 | TraesCS5D01G411900 | chr2A | 86.905 | 84 | 8 | 2 | 3330 | 3410 | 774271206 | 774271123 | 3.110000e-14 | 91.6 |
25 | TraesCS5D01G411900 | chr7D | 94.624 | 93 | 5 | 0 | 6468 | 6560 | 289566444 | 289566352 | 2.350000e-30 | 145.0 |
26 | TraesCS5D01G411900 | chr7D | 89.041 | 73 | 4 | 4 | 3330 | 3399 | 604489313 | 604489384 | 4.020000e-13 | 87.9 |
27 | TraesCS5D01G411900 | chr1D | 92.000 | 100 | 8 | 0 | 6474 | 6573 | 196440500 | 196440599 | 3.040000e-29 | 141.0 |
28 | TraesCS5D01G411900 | chr1D | 89.286 | 56 | 6 | 0 | 1145 | 1200 | 304838640 | 304838695 | 4.050000e-08 | 71.3 |
29 | TraesCS5D01G411900 | chr3D | 90.654 | 107 | 5 | 5 | 6461 | 6566 | 157035750 | 157035648 | 3.930000e-28 | 137.0 |
30 | TraesCS5D01G411900 | chr3D | 89.091 | 110 | 10 | 2 | 6475 | 6584 | 42630766 | 42630659 | 1.410000e-27 | 135.0 |
31 | TraesCS5D01G411900 | chr2B | 90.141 | 71 | 6 | 1 | 3330 | 3399 | 19712071 | 19712141 | 3.110000e-14 | 91.6 |
32 | TraesCS5D01G411900 | chr2B | 86.905 | 84 | 8 | 2 | 3330 | 3410 | 772783198 | 772783115 | 3.110000e-14 | 91.6 |
33 | TraesCS5D01G411900 | chr2B | 85.897 | 78 | 11 | 0 | 8005 | 8082 | 242538219 | 242538142 | 5.200000e-12 | 84.2 |
34 | TraesCS5D01G411900 | chr1B | 90.385 | 52 | 5 | 0 | 1145 | 1196 | 411988109 | 411988160 | 1.460000e-07 | 69.4 |
35 | TraesCS5D01G411900 | chr1A | 90.000 | 50 | 5 | 0 | 1146 | 1195 | 381819672 | 381819721 | 1.880000e-06 | 65.8 |
These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.
query | scaffold | start | end | length | rev.comp | avg.bitscore | max.bitscore | avg.percent.identical | query.start | query.end | num_hsp | groupid | homo_length | |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
0 | TraesCS5D01G411900 | chr5D | 475301613 | 475309694 | 8081 | False | 7197.000000 | 12020 | 100.000000 | 1 | 8082 | 2 | chr5D.!!$F2 | 8081 |
1 | TraesCS5D01G411900 | chr5B | 582577454 | 582585643 | 8189 | False | 2319.600000 | 7618 | 93.486000 | 1 | 8079 | 5 | chr5B.!!$F2 | 8078 |
2 | TraesCS5D01G411900 | chr5A | 594568226 | 594577879 | 9653 | False | 2021.666667 | 6222 | 92.530333 | 1 | 7845 | 6 | chr5A.!!$F1 | 7844 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
79 | 1887 | 2.068837 | CGTTACTACCGGAGTTTGCA | 57.931 | 50.000 | 9.46 | 0.00 | 39.81 | 4.08 | F |
1626 | 3452 | 0.032952 | TGGCTAGCTTGTTCGTTCGT | 59.967 | 50.000 | 15.72 | 0.00 | 0.00 | 3.85 | F |
2149 | 3980 | 0.317160 | CAGTGCTCGGTTGGTCAGTA | 59.683 | 55.000 | 0.00 | 0.00 | 0.00 | 2.74 | F |
2150 | 3981 | 0.317479 | AGTGCTCGGTTGGTCAGTAC | 59.683 | 55.000 | 0.00 | 0.00 | 0.00 | 2.73 | F |
2152 | 3983 | 0.601558 | TGCTCGGTTGGTCAGTACTC | 59.398 | 55.000 | 0.00 | 0.00 | 0.00 | 2.59 | F |
3690 | 5540 | 0.918983 | TGGCTAATTCCCTGGTCCTG | 59.081 | 55.000 | 0.00 | 0.00 | 0.00 | 3.86 | F |
3848 | 5698 | 1.398390 | GCGTGAACATGTTCCTCCATC | 59.602 | 52.381 | 30.66 | 9.99 | 38.77 | 3.51 | F |
5814 | 7676 | 1.195115 | ATGTCATGGTAGTCGGTGCT | 58.805 | 50.000 | 0.00 | 0.00 | 0.00 | 4.40 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1835 | 3664 | 1.292223 | GACGCACCCACAGAGCTAA | 59.708 | 57.895 | 0.00 | 0.00 | 0.00 | 3.09 | R |
2786 | 4631 | 1.081094 | TCTGATCAACTGCATGTGCG | 58.919 | 50.000 | 0.00 | 0.00 | 45.83 | 5.34 | R |
3819 | 5669 | 0.673333 | CATGTTCACGCTAGCACCCA | 60.673 | 55.000 | 16.45 | 3.84 | 0.00 | 4.51 | R |
4071 | 5926 | 4.155280 | ACGCACAAGTTATTTCCGCTATTT | 59.845 | 37.500 | 0.00 | 0.00 | 0.00 | 1.40 | R |
4079 | 5934 | 7.537306 | ACAAATACATGACGCACAAGTTATTTC | 59.463 | 33.333 | 0.00 | 0.00 | 32.58 | 2.17 | R |
5563 | 7425 | 2.808567 | GCCTATCCTAGCTGAGTTTGCC | 60.809 | 54.545 | 0.00 | 0.00 | 0.00 | 4.52 | R |
5873 | 7735 | 7.880105 | ACATGACAAAGGAAAGAAGAGAAATC | 58.120 | 34.615 | 0.00 | 0.00 | 0.00 | 2.17 | R |
7104 | 9007 | 1.136057 | GCTTTCTACGGTTTGCTTCGG | 60.136 | 52.381 | 0.00 | 0.00 | 0.00 | 4.30 | 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 |
---|---|---|---|---|---|---|---|---|---|
61 | 1865 | 8.839310 | AGATAGGAGAACAAAAATATCATCCG | 57.161 | 34.615 | 0.00 | 0.00 | 0.00 | 4.18 |
69 | 1873 | 9.106070 | AGAACAAAAATATCATCCGTTACTACC | 57.894 | 33.333 | 0.00 | 0.00 | 0.00 | 3.18 |
70 | 1874 | 7.473027 | ACAAAAATATCATCCGTTACTACCG | 57.527 | 36.000 | 0.00 | 0.00 | 0.00 | 4.02 |
71 | 1875 | 6.480981 | ACAAAAATATCATCCGTTACTACCGG | 59.519 | 38.462 | 0.00 | 0.00 | 46.83 | 5.28 |
79 | 1887 | 2.068837 | CGTTACTACCGGAGTTTGCA | 57.931 | 50.000 | 9.46 | 0.00 | 39.81 | 4.08 |
125 | 1933 | 8.833231 | ATTACATTGCGTAGAACATAAGCTAT | 57.167 | 30.769 | 0.00 | 0.00 | 0.00 | 2.97 |
129 | 1937 | 8.141909 | ACATTGCGTAGAACATAAGCTATAGAA | 58.858 | 33.333 | 3.21 | 0.00 | 0.00 | 2.10 |
223 | 2031 | 7.493971 | GTGCATCGGATAAGCTAAAGATATGAT | 59.506 | 37.037 | 0.00 | 0.00 | 0.00 | 2.45 |
327 | 2139 | 8.942338 | TCGCTCACATACATAGTTAGAAAAAT | 57.058 | 30.769 | 0.00 | 0.00 | 0.00 | 1.82 |
377 | 2189 | 9.811995 | TGTACAGTAGTATCCATTTTGTATCAC | 57.188 | 33.333 | 0.00 | 0.00 | 31.84 | 3.06 |
408 | 2220 | 8.688151 | TGTATAAATAACCTAATGTTGGGCAAC | 58.312 | 33.333 | 0.00 | 0.00 | 37.83 | 4.17 |
426 | 2238 | 7.852516 | TGGGCAACGATAACAAAAATAAAAAC | 58.147 | 30.769 | 0.00 | 0.00 | 37.60 | 2.43 |
474 | 2286 | 5.237344 | ACAAAAGAATAGCGGAGATACATGC | 59.763 | 40.000 | 0.00 | 0.00 | 0.00 | 4.06 |
528 | 2340 | 3.659183 | AGGTTGCCATCTTATCTGCTT | 57.341 | 42.857 | 0.00 | 0.00 | 0.00 | 3.91 |
574 | 2386 | 6.730960 | ACCATGCAATTTTTAATGCTCTTG | 57.269 | 33.333 | 0.00 | 0.00 | 42.97 | 3.02 |
592 | 2404 | 5.689068 | GCTCTTGTTAAAATGCAGATATGCC | 59.311 | 40.000 | 10.32 | 0.00 | 0.00 | 4.40 |
611 | 2426 | 3.053245 | TGCCCCTAGCTTTATTTAGGCAA | 60.053 | 43.478 | 0.00 | 0.00 | 45.64 | 4.52 |
612 | 2427 | 3.570125 | GCCCCTAGCTTTATTTAGGCAAG | 59.430 | 47.826 | 0.00 | 0.00 | 39.01 | 4.01 |
613 | 2428 | 4.793201 | CCCCTAGCTTTATTTAGGCAAGT | 58.207 | 43.478 | 0.00 | 0.00 | 36.02 | 3.16 |
614 | 2429 | 4.580580 | CCCCTAGCTTTATTTAGGCAAGTG | 59.419 | 45.833 | 0.00 | 0.00 | 36.02 | 3.16 |
615 | 2430 | 5.193679 | CCCTAGCTTTATTTAGGCAAGTGT | 58.806 | 41.667 | 0.00 | 0.00 | 36.02 | 3.55 |
617 | 2432 | 6.826741 | CCCTAGCTTTATTTAGGCAAGTGTAA | 59.173 | 38.462 | 0.00 | 0.00 | 36.02 | 2.41 |
618 | 2433 | 7.201705 | CCCTAGCTTTATTTAGGCAAGTGTAAC | 60.202 | 40.741 | 0.00 | 0.00 | 36.02 | 2.50 |
619 | 2434 | 7.335924 | CCTAGCTTTATTTAGGCAAGTGTAACA | 59.664 | 37.037 | 0.00 | 0.00 | 32.42 | 2.41 |
620 | 2435 | 6.909909 | AGCTTTATTTAGGCAAGTGTAACAC | 58.090 | 36.000 | 0.00 | 0.00 | 41.43 | 3.32 |
621 | 2436 | 5.793457 | GCTTTATTTAGGCAAGTGTAACACG | 59.207 | 40.000 | 0.00 | 0.00 | 41.43 | 4.49 |
622 | 2437 | 6.347888 | GCTTTATTTAGGCAAGTGTAACACGA | 60.348 | 38.462 | 0.00 | 0.00 | 41.43 | 4.35 |
623 | 2438 | 7.493743 | TTTATTTAGGCAAGTGTAACACGAA | 57.506 | 32.000 | 0.00 | 0.00 | 41.43 | 3.85 |
635 | 2454 | 4.569564 | GTGTAACACGAAGACAAACTTCCT | 59.430 | 41.667 | 0.00 | 0.00 | 43.66 | 3.36 |
636 | 2455 | 5.750067 | GTGTAACACGAAGACAAACTTCCTA | 59.250 | 40.000 | 0.00 | 0.00 | 43.66 | 2.94 |
651 | 2470 | 8.432805 | ACAAACTTCCTAATATATCCAGTGGAG | 58.567 | 37.037 | 18.69 | 1.49 | 34.05 | 3.86 |
825 | 2645 | 8.122952 | CGTTTTATCTTTCTCTCTCTCTCTCTC | 58.877 | 40.741 | 0.00 | 0.00 | 0.00 | 3.20 |
826 | 2646 | 9.178758 | GTTTTATCTTTCTCTCTCTCTCTCTCT | 57.821 | 37.037 | 0.00 | 0.00 | 0.00 | 3.10 |
827 | 2647 | 9.753674 | TTTTATCTTTCTCTCTCTCTCTCTCTT | 57.246 | 33.333 | 0.00 | 0.00 | 0.00 | 2.85 |
828 | 2648 | 8.964476 | TTATCTTTCTCTCTCTCTCTCTCTTC | 57.036 | 38.462 | 0.00 | 0.00 | 0.00 | 2.87 |
829 | 2649 | 6.627087 | TCTTTCTCTCTCTCTCTCTCTTCT | 57.373 | 41.667 | 0.00 | 0.00 | 0.00 | 2.85 |
830 | 2650 | 6.644347 | TCTTTCTCTCTCTCTCTCTCTTCTC | 58.356 | 44.000 | 0.00 | 0.00 | 0.00 | 2.87 |
831 | 2651 | 6.441924 | TCTTTCTCTCTCTCTCTCTCTTCTCT | 59.558 | 42.308 | 0.00 | 0.00 | 0.00 | 3.10 |
834 | 2654 | 5.960811 | TCTCTCTCTCTCTCTCTTCTCTCTT | 59.039 | 44.000 | 0.00 | 0.00 | 0.00 | 2.85 |
1232 | 3054 | 3.805497 | CCCCTTCCGCCCCTTACC | 61.805 | 72.222 | 0.00 | 0.00 | 0.00 | 2.85 |
1273 | 3095 | 1.428370 | TTGAATCGATTCGGCGCTGG | 61.428 | 55.000 | 28.07 | 4.31 | 39.62 | 4.85 |
1626 | 3452 | 0.032952 | TGGCTAGCTTGTTCGTTCGT | 59.967 | 50.000 | 15.72 | 0.00 | 0.00 | 3.85 |
1637 | 3463 | 5.557514 | GCTTGTTCGTTCGTTCTGTGAATTA | 60.558 | 40.000 | 0.00 | 0.00 | 0.00 | 1.40 |
1638 | 3464 | 6.533819 | TTGTTCGTTCGTTCTGTGAATTAT | 57.466 | 33.333 | 0.00 | 0.00 | 0.00 | 1.28 |
1639 | 3465 | 6.533819 | TGTTCGTTCGTTCTGTGAATTATT | 57.466 | 33.333 | 0.00 | 0.00 | 0.00 | 1.40 |
1773 | 3602 | 7.349412 | AGTTAGTATTTTCGACCTCTATGCT | 57.651 | 36.000 | 0.00 | 0.00 | 0.00 | 3.79 |
1835 | 3664 | 6.669278 | GTTTTCGAAAAAGGAACTGCTCTAT | 58.331 | 36.000 | 24.04 | 0.00 | 40.86 | 1.98 |
1869 | 3698 | 3.124636 | GTGCGTCGGTTTTGTTCTGATAT | 59.875 | 43.478 | 0.00 | 0.00 | 0.00 | 1.63 |
1885 | 3714 | 9.625747 | TGTTCTGATATTTGCCATAATTAGTGA | 57.374 | 29.630 | 0.00 | 0.00 | 0.00 | 3.41 |
2149 | 3980 | 0.317160 | CAGTGCTCGGTTGGTCAGTA | 59.683 | 55.000 | 0.00 | 0.00 | 0.00 | 2.74 |
2150 | 3981 | 0.317479 | AGTGCTCGGTTGGTCAGTAC | 59.683 | 55.000 | 0.00 | 0.00 | 0.00 | 2.73 |
2151 | 3982 | 0.317479 | GTGCTCGGTTGGTCAGTACT | 59.683 | 55.000 | 0.00 | 0.00 | 0.00 | 2.73 |
2152 | 3983 | 0.601558 | TGCTCGGTTGGTCAGTACTC | 59.398 | 55.000 | 0.00 | 0.00 | 0.00 | 2.59 |
2153 | 3984 | 0.601558 | GCTCGGTTGGTCAGTACTCA | 59.398 | 55.000 | 0.00 | 0.00 | 0.00 | 3.41 |
2154 | 3985 | 1.402984 | GCTCGGTTGGTCAGTACTCAG | 60.403 | 57.143 | 0.00 | 0.00 | 0.00 | 3.35 |
2155 | 3986 | 1.887198 | CTCGGTTGGTCAGTACTCAGT | 59.113 | 52.381 | 0.00 | 0.00 | 0.00 | 3.41 |
2156 | 3987 | 3.079578 | CTCGGTTGGTCAGTACTCAGTA | 58.920 | 50.000 | 0.00 | 0.00 | 0.00 | 2.74 |
2187 | 4018 | 3.702792 | TCCTATTGGAGAGGGATCGATC | 58.297 | 50.000 | 17.36 | 17.36 | 37.46 | 3.69 |
2215 | 4046 | 5.047235 | GGGATCGACTATGTGCCTTACTAAT | 60.047 | 44.000 | 0.00 | 0.00 | 0.00 | 1.73 |
2220 | 4051 | 5.464030 | ACTATGTGCCTTACTAATACCCG | 57.536 | 43.478 | 0.00 | 0.00 | 0.00 | 5.28 |
2253 | 4084 | 4.038162 | CCTAGTATTAGGTGACAGCCTGTC | 59.962 | 50.000 | 17.99 | 17.99 | 41.44 | 3.51 |
2335 | 4176 | 8.771286 | AGAAAATTAAACTCCATATGGGCAAAT | 58.229 | 29.630 | 21.78 | 11.27 | 36.21 | 2.32 |
2347 | 4188 | 8.800651 | TCCATATGGGCAAATATCCCTATAATT | 58.199 | 33.333 | 21.78 | 0.00 | 44.23 | 1.40 |
2406 | 4247 | 1.270305 | ACCAACACCACTCAGATGACG | 60.270 | 52.381 | 0.00 | 0.00 | 0.00 | 4.35 |
2458 | 4300 | 8.919661 | GCATTTATTTAGATGCAATAGCTTTCC | 58.080 | 33.333 | 7.90 | 0.00 | 46.03 | 3.13 |
2459 | 4301 | 9.970395 | CATTTATTTAGATGCAATAGCTTTCCA | 57.030 | 29.630 | 0.00 | 0.00 | 42.74 | 3.53 |
2467 | 4309 | 8.241497 | AGATGCAATAGCTTTCCATTCATTTA | 57.759 | 30.769 | 0.00 | 0.00 | 42.74 | 1.40 |
2643 | 4487 | 7.325821 | TGCTTTTGTAAAATTTACTCATCAGCG | 59.674 | 33.333 | 15.80 | 0.35 | 0.00 | 5.18 |
2644 | 4488 | 7.561237 | TTTTGTAAAATTTACTCATCAGCGC | 57.439 | 32.000 | 15.80 | 0.00 | 0.00 | 5.92 |
2655 | 4499 | 2.681848 | CTCATCAGCGCTTCCTCATTTT | 59.318 | 45.455 | 7.50 | 0.00 | 0.00 | 1.82 |
2687 | 4531 | 3.444742 | CCTACATTTTTCTGCCTGCATGA | 59.555 | 43.478 | 0.00 | 0.00 | 0.00 | 3.07 |
2713 | 4557 | 3.709141 | ACAAAGGTAAACAATTGCCACCT | 59.291 | 39.130 | 16.55 | 16.55 | 43.20 | 4.00 |
2780 | 4625 | 6.985188 | TCCATGTTTATCTAACTGCTTGTC | 57.015 | 37.500 | 0.00 | 0.00 | 37.64 | 3.18 |
2786 | 4631 | 6.366877 | TGTTTATCTAACTGCTTGTCGTTACC | 59.633 | 38.462 | 0.00 | 0.00 | 37.64 | 2.85 |
2940 | 4785 | 7.068348 | TGTCACTATGAACTATTCCACTACTCC | 59.932 | 40.741 | 0.00 | 0.00 | 0.00 | 3.85 |
3003 | 4848 | 5.266242 | GCATCCTTAATTTCAGTAGCAACG | 58.734 | 41.667 | 0.00 | 0.00 | 0.00 | 4.10 |
3135 | 4982 | 3.906720 | TGGTGGCCTATTCTCACTTAC | 57.093 | 47.619 | 3.32 | 0.00 | 0.00 | 2.34 |
3200 | 5048 | 9.992910 | GAATATGAATATGATTAAGCATCGCAA | 57.007 | 29.630 | 9.95 | 0.00 | 34.08 | 4.85 |
3231 | 5079 | 2.655090 | TCTCAATCAACTGTTGCCCA | 57.345 | 45.000 | 15.52 | 0.00 | 0.00 | 5.36 |
3244 | 5092 | 3.037549 | TGTTGCCCATTGAAAGAGGTTT | 58.962 | 40.909 | 0.00 | 0.00 | 0.00 | 3.27 |
3252 | 5100 | 6.015772 | GCCCATTGAAAGAGGTTTTAGTGTTA | 60.016 | 38.462 | 0.00 | 0.00 | 0.00 | 2.41 |
3253 | 5101 | 7.309805 | GCCCATTGAAAGAGGTTTTAGTGTTAT | 60.310 | 37.037 | 0.00 | 0.00 | 0.00 | 1.89 |
3254 | 5102 | 9.238368 | CCCATTGAAAGAGGTTTTAGTGTTATA | 57.762 | 33.333 | 0.00 | 0.00 | 0.00 | 0.98 |
3329 | 5177 | 6.458232 | AGGCACTTAATACTCTACACTGAG | 57.542 | 41.667 | 0.00 | 0.00 | 36.00 | 3.35 |
3349 | 5197 | 1.349357 | GCCCAGAATCTGATCCTACCC | 59.651 | 57.143 | 12.53 | 0.00 | 32.44 | 3.69 |
3437 | 5285 | 3.738982 | CCATGATTGGAGTTGGCGTATA | 58.261 | 45.455 | 0.00 | 0.00 | 46.92 | 1.47 |
3481 | 5329 | 7.464710 | CGAGCAATAACTTTCCATAAGTCTGAC | 60.465 | 40.741 | 0.00 | 0.00 | 0.00 | 3.51 |
3590 | 5440 | 4.557496 | GCTGTGGTCATTTCTTGGAAGTTC | 60.557 | 45.833 | 0.00 | 0.00 | 0.00 | 3.01 |
3592 | 5442 | 4.952957 | TGTGGTCATTTCTTGGAAGTTCAA | 59.047 | 37.500 | 5.01 | 0.00 | 0.00 | 2.69 |
3690 | 5540 | 0.918983 | TGGCTAATTCCCTGGTCCTG | 59.081 | 55.000 | 0.00 | 0.00 | 0.00 | 3.86 |
3819 | 5669 | 5.491982 | GAAACTCCAGATGGTGAGTATGTT | 58.508 | 41.667 | 7.88 | 0.00 | 40.84 | 2.71 |
3848 | 5698 | 1.398390 | GCGTGAACATGTTCCTCCATC | 59.602 | 52.381 | 30.66 | 9.99 | 38.77 | 3.51 |
3972 | 5827 | 4.626042 | AGAATGTCCAGCGTGAGATAATC | 58.374 | 43.478 | 0.00 | 0.00 | 0.00 | 1.75 |
4029 | 5884 | 4.291249 | AGGTTTAAGGAGGTAAGCCATGAA | 59.709 | 41.667 | 0.00 | 0.00 | 36.94 | 2.57 |
4070 | 5925 | 5.714806 | AGTTCACCACAAAAGAGGAGAAAAA | 59.285 | 36.000 | 0.00 | 0.00 | 36.49 | 1.94 |
4387 | 6242 | 7.367159 | TGGTATCGGTTATTTACACAACTTG | 57.633 | 36.000 | 0.00 | 0.00 | 0.00 | 3.16 |
4416 | 6271 | 8.642908 | TTCATCCTATTGTTACTATGTGTTCG | 57.357 | 34.615 | 0.00 | 0.00 | 0.00 | 3.95 |
4671 | 6527 | 7.430502 | GCTATTTAAGTCAATGTTCATGCAGTC | 59.569 | 37.037 | 0.00 | 0.00 | 0.00 | 3.51 |
4699 | 6555 | 2.959507 | ATTTTATGGTTTCCTGGCGC | 57.040 | 45.000 | 0.00 | 0.00 | 0.00 | 6.53 |
4703 | 6559 | 2.476852 | TATGGTTTCCTGGCGCTGCA | 62.477 | 55.000 | 7.64 | 0.00 | 0.00 | 4.41 |
4763 | 6619 | 5.001232 | GCCTGTTGTGTTCATAGGTTCTTA | 58.999 | 41.667 | 0.00 | 0.00 | 33.59 | 2.10 |
5020 | 6876 | 6.208599 | TGTTTGGTGTCCTAATCTGAATTTCC | 59.791 | 38.462 | 0.00 | 0.00 | 0.00 | 3.13 |
5053 | 6909 | 2.561478 | TGAAGGCTGAACCCTTGTAC | 57.439 | 50.000 | 0.00 | 0.00 | 45.03 | 2.90 |
5248 | 7105 | 4.781775 | TTTTCTGGGACCACTGTTAGAA | 57.218 | 40.909 | 0.00 | 0.00 | 0.00 | 2.10 |
5250 | 7107 | 2.257207 | TCTGGGACCACTGTTAGAAGG | 58.743 | 52.381 | 0.00 | 0.00 | 0.00 | 3.46 |
5350 | 7212 | 7.276658 | TGTAAATTCAGTACAAGACTTGACCA | 58.723 | 34.615 | 21.95 | 3.73 | 35.64 | 4.02 |
5563 | 7425 | 9.741168 | CTCATACGTACTTACATTTGAAAACAG | 57.259 | 33.333 | 0.00 | 0.00 | 0.00 | 3.16 |
5814 | 7676 | 1.195115 | ATGTCATGGTAGTCGGTGCT | 58.805 | 50.000 | 0.00 | 0.00 | 0.00 | 4.40 |
5873 | 7735 | 5.419542 | TCGGAAGACAATTCAGGTTATCTG | 58.580 | 41.667 | 0.00 | 0.00 | 39.11 | 2.90 |
5909 | 7771 | 6.877611 | TCCTTTGTCATGTTTTAGGTCTTC | 57.122 | 37.500 | 0.00 | 0.00 | 0.00 | 2.87 |
6067 | 7930 | 6.303054 | TGGTGAGTCTTTGGATGTTCAATTA | 58.697 | 36.000 | 0.00 | 0.00 | 0.00 | 1.40 |
6140 | 8003 | 6.093495 | CCGTGCCTCTTTACATTTTCTTCATA | 59.907 | 38.462 | 0.00 | 0.00 | 0.00 | 2.15 |
6198 | 8061 | 2.420687 | CCAGTGAGGGATAACTGCCTTC | 60.421 | 54.545 | 0.00 | 0.00 | 44.47 | 3.46 |
6476 | 8378 | 6.206048 | AGGCTAACAATGTAACTGTTTGGTAC | 59.794 | 38.462 | 0.00 | 0.00 | 39.24 | 3.34 |
6479 | 8381 | 7.041644 | GCTAACAATGTAACTGTTTGGTACTCA | 60.042 | 37.037 | 0.00 | 0.00 | 39.50 | 3.41 |
6484 | 8386 | 2.814280 | ACTGTTTGGTACTCACTCCG | 57.186 | 50.000 | 0.00 | 0.00 | 0.00 | 4.63 |
6494 | 8396 | 3.243771 | GGTACTCACTCCGTCCCATAATG | 60.244 | 52.174 | 0.00 | 0.00 | 0.00 | 1.90 |
6519 | 8421 | 4.940463 | AGAGCGTTTTTGACACTAGTGTA | 58.060 | 39.130 | 27.98 | 11.50 | 45.05 | 2.90 |
6563 | 8465 | 2.605257 | TGGGACGGAGGGAGTATAATG | 58.395 | 52.381 | 0.00 | 0.00 | 0.00 | 1.90 |
6567 | 8469 | 5.015497 | TGGGACGGAGGGAGTATAATGTATA | 59.985 | 44.000 | 0.00 | 0.00 | 0.00 | 1.47 |
6669 | 8572 | 1.208052 | TCTCTGCAGTCTACATTGCCC | 59.792 | 52.381 | 14.67 | 0.00 | 39.54 | 5.36 |
6679 | 8582 | 2.006888 | CTACATTGCCCACCACTTACG | 58.993 | 52.381 | 0.00 | 0.00 | 0.00 | 3.18 |
6728 | 8631 | 4.157840 | ACTCGTGTCTAATGCAGTGATACA | 59.842 | 41.667 | 0.00 | 0.00 | 0.00 | 2.29 |
6747 | 8650 | 7.324375 | GTGATACATTATTTGCATTCCATCGTG | 59.676 | 37.037 | 0.00 | 0.00 | 0.00 | 4.35 |
6749 | 8652 | 6.691754 | ACATTATTTGCATTCCATCGTGTA | 57.308 | 33.333 | 0.00 | 0.00 | 0.00 | 2.90 |
6967 | 8870 | 1.271926 | ACCATACCACCTGCTTGTTCC | 60.272 | 52.381 | 0.00 | 0.00 | 0.00 | 3.62 |
7104 | 9007 | 2.607282 | CCATCTCTGGCGGTTATCGTAC | 60.607 | 54.545 | 0.00 | 0.00 | 41.72 | 3.67 |
7139 | 9042 | 1.177256 | AAAGCAGCTGAAGGGCACAG | 61.177 | 55.000 | 20.43 | 0.00 | 38.27 | 3.66 |
7192 | 9097 | 3.072944 | AGCTAGCAGCACTTTGAGAAAG | 58.927 | 45.455 | 18.83 | 0.00 | 45.56 | 2.62 |
7223 | 9129 | 0.660300 | GTTTTGCAAGCGAAGTCCCG | 60.660 | 55.000 | 0.00 | 0.00 | 0.00 | 5.14 |
7636 | 9878 | 6.594788 | ATTTAGCATCACTTTGGATGTGTT | 57.405 | 33.333 | 5.21 | 0.00 | 45.11 | 3.32 |
7654 | 9896 | 3.003793 | GTGTTGAGGACCTGCTTCTTTTC | 59.996 | 47.826 | 0.00 | 0.00 | 0.00 | 2.29 |
7698 | 10020 | 6.366340 | TGTTAAACCCTCAACCATAAGACAA | 58.634 | 36.000 | 0.00 | 0.00 | 0.00 | 3.18 |
7816 | 10139 | 8.462589 | AAATATTTGTTTGCAAGGGACAAAAT | 57.537 | 26.923 | 24.19 | 17.48 | 43.82 | 1.82 |
7821 | 10149 | 6.857777 | TGTTTGCAAGGGACAAAATTAATG | 57.142 | 33.333 | 0.00 | 0.00 | 38.64 | 1.90 |
7848 | 10176 | 5.886960 | ATGCACTCCAAGAACAGATTAAC | 57.113 | 39.130 | 0.00 | 0.00 | 0.00 | 2.01 |
7872 | 10200 | 4.618460 | GCTTACATGAGAACTCTTCCACGA | 60.618 | 45.833 | 0.00 | 0.00 | 0.00 | 4.35 |
7897 | 10225 | 4.811557 | GCTGGTCTAGAACATCACCATAAC | 59.188 | 45.833 | 11.77 | 0.00 | 38.26 | 1.89 |
7898 | 10226 | 5.395768 | GCTGGTCTAGAACATCACCATAACT | 60.396 | 44.000 | 11.77 | 0.00 | 38.26 | 2.24 |
7957 | 10285 | 1.222936 | CTCTTCGCAGCATTCCCCT | 59.777 | 57.895 | 0.00 | 0.00 | 0.00 | 4.79 |
7961 | 10289 | 0.887933 | TTCGCAGCATTCCCCTTTTC | 59.112 | 50.000 | 0.00 | 0.00 | 0.00 | 2.29 |
7992 | 10320 | 3.053693 | CCAGGATAATGGGACCTTTGTCA | 60.054 | 47.826 | 13.17 | 0.00 | 43.65 | 3.58 |
8022 | 10350 | 5.923733 | TGTCCAGAAGAGTAAATCCTCTC | 57.076 | 43.478 | 0.00 | 0.00 | 40.93 | 3.20 |
8067 | 10395 | 3.055094 | TCCTTGGCAGATAAGGAGTTGTC | 60.055 | 47.826 | 1.46 | 0.00 | 46.54 | 3.18 |
8079 | 10407 | 2.076863 | GGAGTTGTCCCACTTTCATCG | 58.923 | 52.381 | 0.00 | 0.00 | 36.76 | 3.84 |
8080 | 10408 | 2.550208 | GGAGTTGTCCCACTTTCATCGT | 60.550 | 50.000 | 0.00 | 0.00 | 36.76 | 3.73 |
8081 | 10409 | 3.306502 | GGAGTTGTCCCACTTTCATCGTA | 60.307 | 47.826 | 0.00 | 0.00 | 36.76 | 3.43 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
20 | 21 | 8.777578 | TCTCCTATCTTTAGCTTATGTGGTAA | 57.222 | 34.615 | 0.00 | 0.00 | 0.00 | 2.85 |
41 | 1845 | 8.209917 | AGTAACGGATGATATTTTTGTTCTCC | 57.790 | 34.615 | 0.00 | 0.00 | 0.00 | 3.71 |
60 | 1864 | 1.723003 | GTGCAAACTCCGGTAGTAACG | 59.277 | 52.381 | 0.00 | 0.00 | 37.50 | 3.18 |
61 | 1865 | 2.071540 | GGTGCAAACTCCGGTAGTAAC | 58.928 | 52.381 | 0.00 | 1.80 | 37.50 | 2.50 |
70 | 1874 | 0.317854 | GCTCAAACGGTGCAAACTCC | 60.318 | 55.000 | 0.00 | 0.00 | 36.06 | 3.85 |
71 | 1875 | 0.380378 | TGCTCAAACGGTGCAAACTC | 59.620 | 50.000 | 0.00 | 0.00 | 42.57 | 3.01 |
72 | 1876 | 2.487918 | TGCTCAAACGGTGCAAACT | 58.512 | 47.368 | 0.00 | 0.00 | 42.57 | 2.66 |
79 | 1887 | 5.659440 | ATAAATGGATTTGCTCAAACGGT | 57.341 | 34.783 | 0.00 | 0.00 | 32.51 | 4.83 |
129 | 1937 | 9.838339 | AGTAACGGATGATATTTCTTTCTCATT | 57.162 | 29.630 | 0.00 | 0.00 | 0.00 | 2.57 |
300 | 2112 | 8.575565 | TTTTCTAACTATGTATGTGAGCGATC | 57.424 | 34.615 | 0.00 | 0.00 | 0.00 | 3.69 |
355 | 2167 | 8.716646 | TGTGTGATACAAAATGGATACTACTG | 57.283 | 34.615 | 0.00 | 0.00 | 36.06 | 2.74 |
393 | 2205 | 3.692101 | TGTTATCGTTGCCCAACATTAGG | 59.308 | 43.478 | 11.27 | 0.00 | 41.20 | 2.69 |
426 | 2238 | 8.359642 | TGTCCATTTTTCTGTTTCCTTCATTAG | 58.640 | 33.333 | 0.00 | 0.00 | 0.00 | 1.73 |
439 | 2251 | 6.308766 | CCGCTATTCTTTTGTCCATTTTTCTG | 59.691 | 38.462 | 0.00 | 0.00 | 0.00 | 3.02 |
482 | 2294 | 4.641989 | GCAAAATCCTCTCTTGATAGGCAA | 59.358 | 41.667 | 0.00 | 0.00 | 32.55 | 4.52 |
523 | 2335 | 9.577110 | TGATTTTTAGAGCATGAAATAAAGCAG | 57.423 | 29.630 | 0.00 | 0.00 | 0.00 | 4.24 |
592 | 2404 | 5.193679 | ACACTTGCCTAAATAAAGCTAGGG | 58.806 | 41.667 | 0.24 | 0.00 | 38.50 | 3.53 |
611 | 2426 | 5.713822 | GAAGTTTGTCTTCGTGTTACACT | 57.286 | 39.130 | 13.86 | 0.00 | 42.26 | 3.55 |
622 | 2437 | 9.838339 | CACTGGATATATTAGGAAGTTTGTCTT | 57.162 | 33.333 | 0.00 | 0.00 | 39.32 | 3.01 |
623 | 2438 | 8.432805 | CCACTGGATATATTAGGAAGTTTGTCT | 58.567 | 37.037 | 0.00 | 0.00 | 0.00 | 3.41 |
651 | 2470 | 1.212195 | GGAGTAGGGTTCCCATGGTTC | 59.788 | 57.143 | 11.73 | 0.11 | 0.00 | 3.62 |
825 | 2645 | 1.975327 | TGGCCGACCAAGAGAGAAG | 59.025 | 57.895 | 0.00 | 0.00 | 45.37 | 2.85 |
826 | 2646 | 4.208426 | TGGCCGACCAAGAGAGAA | 57.792 | 55.556 | 0.00 | 0.00 | 45.37 | 2.87 |
834 | 2654 | 4.293648 | CGTGACACTGGCCGACCA | 62.294 | 66.667 | 3.68 | 0.00 | 46.51 | 4.02 |
889 | 2709 | 4.925576 | CCCTCGAATCGACGGCGG | 62.926 | 72.222 | 12.58 | 1.01 | 38.28 | 6.13 |
1095 | 2916 | 2.165301 | GTTTCCCGAGCCGATGTCG | 61.165 | 63.158 | 0.00 | 0.00 | 37.17 | 4.35 |
1107 | 2928 | 3.785499 | GCGACGCCGAAGTTTCCC | 61.785 | 66.667 | 9.14 | 0.00 | 38.22 | 3.97 |
1232 | 3054 | 2.908940 | GAAGGGGGCATGCATCGG | 60.909 | 66.667 | 21.36 | 0.00 | 0.00 | 4.18 |
1573 | 3395 | 9.151471 | TCAACTGATTCAGCACTAAAACTATAC | 57.849 | 33.333 | 13.64 | 0.00 | 34.37 | 1.47 |
1574 | 3396 | 9.890629 | ATCAACTGATTCAGCACTAAAACTATA | 57.109 | 29.630 | 13.64 | 0.00 | 34.37 | 1.31 |
1575 | 3397 | 8.671921 | CATCAACTGATTCAGCACTAAAACTAT | 58.328 | 33.333 | 13.64 | 0.00 | 34.37 | 2.12 |
1802 | 3631 | 3.187842 | CCTTTTTCGAAAACGAGGGTAGG | 59.812 | 47.826 | 24.62 | 20.75 | 0.00 | 3.18 |
1835 | 3664 | 1.292223 | GACGCACCCACAGAGCTAA | 59.708 | 57.895 | 0.00 | 0.00 | 0.00 | 3.09 |
1839 | 3668 | 2.989055 | AAACCGACGCACCCACAGAG | 62.989 | 60.000 | 0.00 | 0.00 | 0.00 | 3.35 |
1869 | 3698 | 9.625747 | TGTCTCATTATCACTAATTATGGCAAA | 57.374 | 29.630 | 0.00 | 0.00 | 0.00 | 3.68 |
1885 | 3714 | 3.713248 | TGCTGTCCTGGATGTCTCATTAT | 59.287 | 43.478 | 0.00 | 0.00 | 0.00 | 1.28 |
1941 | 3770 | 4.279169 | CGGGGTATATCTCGGTACTTTCAA | 59.721 | 45.833 | 0.00 | 0.00 | 0.00 | 2.69 |
2131 | 3962 | 0.317479 | GTACTGACCAACCGAGCACT | 59.683 | 55.000 | 0.00 | 0.00 | 0.00 | 4.40 |
2149 | 3980 | 8.028688 | CCAATAGGAAGCACACTCTACTGAGT | 62.029 | 46.154 | 0.00 | 0.00 | 45.73 | 3.41 |
2150 | 3981 | 5.347342 | CAATAGGAAGCACACTCTACTGAG | 58.653 | 45.833 | 0.00 | 0.00 | 45.43 | 3.35 |
2151 | 3982 | 4.160439 | CCAATAGGAAGCACACTCTACTGA | 59.840 | 45.833 | 0.00 | 0.00 | 36.89 | 3.41 |
2152 | 3983 | 4.160439 | TCCAATAGGAAGCACACTCTACTG | 59.840 | 45.833 | 0.00 | 0.00 | 42.23 | 2.74 |
2153 | 3984 | 4.353777 | TCCAATAGGAAGCACACTCTACT | 58.646 | 43.478 | 0.00 | 0.00 | 42.23 | 2.57 |
2154 | 3985 | 4.402793 | TCTCCAATAGGAAGCACACTCTAC | 59.597 | 45.833 | 0.00 | 0.00 | 45.19 | 2.59 |
2155 | 3986 | 4.610333 | TCTCCAATAGGAAGCACACTCTA | 58.390 | 43.478 | 0.00 | 0.00 | 45.19 | 2.43 |
2156 | 3987 | 3.445008 | TCTCCAATAGGAAGCACACTCT | 58.555 | 45.455 | 0.00 | 0.00 | 45.19 | 3.24 |
2187 | 4018 | 0.034059 | GCACATAGTCGATCCCAGGG | 59.966 | 60.000 | 0.00 | 0.00 | 0.00 | 4.45 |
2253 | 4084 | 3.240884 | CACACTCATGACTGAAGACTCG | 58.759 | 50.000 | 9.07 | 0.00 | 0.00 | 4.18 |
2316 | 4157 | 6.252995 | GGGATATTTGCCCATATGGAGTTTA | 58.747 | 40.000 | 24.00 | 8.33 | 45.31 | 2.01 |
2335 | 4176 | 8.917414 | AGCTACTCCAATGAATTATAGGGATA | 57.083 | 34.615 | 0.00 | 0.00 | 0.00 | 2.59 |
2347 | 4188 | 7.707624 | ATTCAATTTGAAGCTACTCCAATGA | 57.292 | 32.000 | 16.34 | 0.00 | 40.05 | 2.57 |
2368 | 4209 | 5.414454 | TGTTGGTTTGCCTGTCTGTATATTC | 59.586 | 40.000 | 0.00 | 0.00 | 35.27 | 1.75 |
2458 | 4300 | 8.997323 | TGCACCTAAACCAAAAATAAATGAATG | 58.003 | 29.630 | 0.00 | 0.00 | 0.00 | 2.67 |
2459 | 4301 | 9.737844 | ATGCACCTAAACCAAAAATAAATGAAT | 57.262 | 25.926 | 0.00 | 0.00 | 0.00 | 2.57 |
2460 | 4302 | 9.213799 | GATGCACCTAAACCAAAAATAAATGAA | 57.786 | 29.630 | 0.00 | 0.00 | 0.00 | 2.57 |
2461 | 4303 | 8.370940 | TGATGCACCTAAACCAAAAATAAATGA | 58.629 | 29.630 | 0.00 | 0.00 | 0.00 | 2.57 |
2467 | 4309 | 5.806654 | ACTGATGCACCTAAACCAAAAAT | 57.193 | 34.783 | 0.00 | 0.00 | 0.00 | 1.82 |
2551 | 4394 | 8.829514 | TTGTGAGTGTATTTTACAACTTTTCG | 57.170 | 30.769 | 0.00 | 0.00 | 40.93 | 3.46 |
2626 | 4470 | 4.702131 | AGGAAGCGCTGATGAGTAAATTTT | 59.298 | 37.500 | 12.58 | 0.00 | 0.00 | 1.82 |
2627 | 4471 | 4.265073 | AGGAAGCGCTGATGAGTAAATTT | 58.735 | 39.130 | 12.58 | 0.00 | 0.00 | 1.82 |
2643 | 4487 | 5.187772 | AGGGGTTATTTCAAAATGAGGAAGC | 59.812 | 40.000 | 0.00 | 0.00 | 0.00 | 3.86 |
2644 | 4488 | 6.857437 | AGGGGTTATTTCAAAATGAGGAAG | 57.143 | 37.500 | 0.00 | 0.00 | 0.00 | 3.46 |
2655 | 4499 | 6.071051 | GGCAGAAAAATGTAGGGGTTATTTCA | 60.071 | 38.462 | 0.00 | 0.00 | 0.00 | 2.69 |
2687 | 4531 | 6.708502 | GGTGGCAATTGTTTACCTTTGTTTAT | 59.291 | 34.615 | 7.40 | 0.00 | 0.00 | 1.40 |
2713 | 4557 | 4.344679 | AGGGATCATTTGCTGAAACAACAA | 59.655 | 37.500 | 0.00 | 0.00 | 37.44 | 2.83 |
2786 | 4631 | 1.081094 | TCTGATCAACTGCATGTGCG | 58.919 | 50.000 | 0.00 | 0.00 | 45.83 | 5.34 |
2851 | 4696 | 9.668497 | ACTAATTACTTGGACCAGAAAATACTC | 57.332 | 33.333 | 0.00 | 0.00 | 0.00 | 2.59 |
2893 | 4738 | 2.958818 | AGAGTTACACAGGGACACTCA | 58.041 | 47.619 | 8.26 | 0.00 | 37.02 | 3.41 |
2940 | 4785 | 6.596888 | CCTACATTGACTTATGCATGGGATAG | 59.403 | 42.308 | 10.16 | 1.54 | 0.00 | 2.08 |
3003 | 4848 | 2.100197 | GTTTCCTGTCCCCCAATAAGC | 58.900 | 52.381 | 0.00 | 0.00 | 0.00 | 3.09 |
3060 | 4905 | 8.810652 | TTTGCCTCAACAAGTGTATTATTTTC | 57.189 | 30.769 | 0.00 | 0.00 | 0.00 | 2.29 |
3172 | 5020 | 8.834465 | GCGATGCTTAATCATATTCATATTCCT | 58.166 | 33.333 | 0.00 | 0.00 | 34.68 | 3.36 |
3252 | 5100 | 9.177608 | TCTAGTGATGTTTTGCAAGCTTATTAT | 57.822 | 29.630 | 0.00 | 0.00 | 0.00 | 1.28 |
3253 | 5101 | 8.450964 | GTCTAGTGATGTTTTGCAAGCTTATTA | 58.549 | 33.333 | 0.00 | 0.00 | 0.00 | 0.98 |
3254 | 5102 | 7.040478 | TGTCTAGTGATGTTTTGCAAGCTTATT | 60.040 | 33.333 | 0.00 | 0.00 | 0.00 | 1.40 |
3269 | 5117 | 9.509855 | GAGTCTAAACATACTTGTCTAGTGATG | 57.490 | 37.037 | 0.00 | 1.19 | 37.73 | 3.07 |
3329 | 5177 | 1.349357 | GGGTAGGATCAGATTCTGGGC | 59.651 | 57.143 | 13.59 | 6.07 | 31.51 | 5.36 |
3349 | 5197 | 3.540314 | AGCAGCAGATTCTGGACTTAG | 57.460 | 47.619 | 15.28 | 0.00 | 34.74 | 2.18 |
3510 | 5360 | 4.963318 | AGCATTGCCTGATAAGCTACTA | 57.037 | 40.909 | 4.70 | 0.00 | 0.00 | 1.82 |
3511 | 5361 | 3.853355 | AGCATTGCCTGATAAGCTACT | 57.147 | 42.857 | 4.70 | 0.00 | 0.00 | 2.57 |
3512 | 5362 | 4.907879 | AAAGCATTGCCTGATAAGCTAC | 57.092 | 40.909 | 4.70 | 0.00 | 0.00 | 3.58 |
3590 | 5440 | 6.430000 | TCCCGAAAGAGAACCTTCTTTTATTG | 59.570 | 38.462 | 2.88 | 0.00 | 45.00 | 1.90 |
3592 | 5442 | 6.123045 | TCCCGAAAGAGAACCTTCTTTTAT | 57.877 | 37.500 | 2.88 | 0.00 | 45.00 | 1.40 |
3690 | 5540 | 5.853936 | AGCTTTATGGAAAGAAAACCCAAC | 58.146 | 37.500 | 1.65 | 0.00 | 44.23 | 3.77 |
3819 | 5669 | 0.673333 | CATGTTCACGCTAGCACCCA | 60.673 | 55.000 | 16.45 | 3.84 | 0.00 | 4.51 |
3972 | 5827 | 5.297776 | GGGATGTTTCAGTGATCTATGGTTG | 59.702 | 44.000 | 0.00 | 0.00 | 0.00 | 3.77 |
4029 | 5884 | 5.293560 | GTGAACTAGAGAACAAGCAGAAGT | 58.706 | 41.667 | 0.00 | 0.00 | 0.00 | 3.01 |
4070 | 5925 | 5.092781 | CGCACAAGTTATTTCCGCTATTTT | 58.907 | 37.500 | 0.00 | 0.00 | 0.00 | 1.82 |
4071 | 5926 | 4.155280 | ACGCACAAGTTATTTCCGCTATTT | 59.845 | 37.500 | 0.00 | 0.00 | 0.00 | 1.40 |
4079 | 5934 | 7.537306 | ACAAATACATGACGCACAAGTTATTTC | 59.463 | 33.333 | 0.00 | 0.00 | 32.58 | 2.17 |
4206 | 6061 | 3.190327 | CCAGAGAGCAGATACATACCTCG | 59.810 | 52.174 | 0.00 | 0.00 | 0.00 | 4.63 |
4387 | 6242 | 9.601217 | ACACATAGTAACAATAGGATGAAAGAC | 57.399 | 33.333 | 0.00 | 0.00 | 0.00 | 3.01 |
4615 | 6471 | 7.823310 | TGAATCATTTTGAAAACACCCATATGG | 59.177 | 33.333 | 15.41 | 15.41 | 41.37 | 2.74 |
4671 | 6527 | 7.922811 | GCCAGGAAACCATAAAATTTCTATCTG | 59.077 | 37.037 | 0.00 | 0.00 | 35.55 | 2.90 |
4699 | 6555 | 2.884012 | TCCCACTGTGTTGTAAATGCAG | 59.116 | 45.455 | 7.08 | 0.00 | 36.79 | 4.41 |
4703 | 6559 | 8.593945 | AATATTGATCCCACTGTGTTGTAAAT | 57.406 | 30.769 | 7.08 | 4.21 | 0.00 | 1.40 |
4763 | 6619 | 7.765695 | AGAATGTTTGTCATGGTTTATCAGT | 57.234 | 32.000 | 0.00 | 0.00 | 36.81 | 3.41 |
5020 | 6876 | 7.328737 | GGTTCAGCCTTCAATATACAGTATACG | 59.671 | 40.741 | 2.15 | 0.00 | 0.00 | 3.06 |
5248 | 7105 | 4.310740 | ACCAGGATGAGATCATAAACCCT | 58.689 | 43.478 | 0.00 | 0.00 | 39.69 | 4.34 |
5250 | 7107 | 5.645497 | GCATACCAGGATGAGATCATAAACC | 59.355 | 44.000 | 0.00 | 0.00 | 39.69 | 3.27 |
5543 | 7405 | 5.753744 | TGCCTGTTTTCAAATGTAAGTACG | 58.246 | 37.500 | 0.00 | 0.00 | 0.00 | 3.67 |
5563 | 7425 | 2.808567 | GCCTATCCTAGCTGAGTTTGCC | 60.809 | 54.545 | 0.00 | 0.00 | 0.00 | 4.52 |
5873 | 7735 | 7.880105 | ACATGACAAAGGAAAGAAGAGAAATC | 58.120 | 34.615 | 0.00 | 0.00 | 0.00 | 2.17 |
6077 | 7940 | 9.404348 | CATAATACAGGATATGATAGCTAAGCG | 57.596 | 37.037 | 0.00 | 0.00 | 32.43 | 4.68 |
6108 | 7971 | 2.064014 | GTAAAGAGGCACGGTACACAC | 58.936 | 52.381 | 0.00 | 0.00 | 0.00 | 3.82 |
6140 | 8003 | 6.872920 | TGTCAGGTTAAGTTTTGAGCAAAAT | 58.127 | 32.000 | 11.11 | 0.31 | 41.64 | 1.82 |
6198 | 8061 | 0.397941 | TGGGTTCAGGACTCTGCAAG | 59.602 | 55.000 | 0.00 | 0.00 | 40.69 | 4.01 |
6226 | 8089 | 2.645838 | AAAACCTCAAGCTGCTCTGA | 57.354 | 45.000 | 1.00 | 8.34 | 0.00 | 3.27 |
6227 | 8090 | 2.485814 | GGTAAAACCTCAAGCTGCTCTG | 59.514 | 50.000 | 1.00 | 4.08 | 34.73 | 3.35 |
6228 | 8091 | 2.106511 | TGGTAAAACCTCAAGCTGCTCT | 59.893 | 45.455 | 1.00 | 0.00 | 39.58 | 4.09 |
6229 | 8092 | 2.504367 | TGGTAAAACCTCAAGCTGCTC | 58.496 | 47.619 | 1.00 | 0.00 | 39.58 | 4.26 |
6230 | 8093 | 2.656947 | TGGTAAAACCTCAAGCTGCT | 57.343 | 45.000 | 0.00 | 0.00 | 39.58 | 4.24 |
6232 | 8095 | 5.003804 | ACTGTATGGTAAAACCTCAAGCTG | 58.996 | 41.667 | 0.00 | 0.00 | 39.58 | 4.24 |
6353 | 8247 | 2.704725 | ACAATGATGACAAACACGGC | 57.295 | 45.000 | 0.00 | 0.00 | 0.00 | 5.68 |
6446 | 8348 | 8.964150 | CAAACAGTTACATTGTTAGCCTAAAAC | 58.036 | 33.333 | 0.00 | 0.00 | 37.77 | 2.43 |
6457 | 8359 | 6.354130 | AGTGAGTACCAAACAGTTACATTGT | 58.646 | 36.000 | 0.00 | 0.00 | 0.00 | 2.71 |
6459 | 8361 | 5.995897 | GGAGTGAGTACCAAACAGTTACATT | 59.004 | 40.000 | 0.00 | 0.00 | 0.00 | 2.71 |
6484 | 8386 | 5.813080 | AAAACGCTCTTACATTATGGGAC | 57.187 | 39.130 | 0.00 | 0.00 | 0.00 | 4.46 |
6494 | 8396 | 5.233689 | ACACTAGTGTCAAAAACGCTCTTAC | 59.766 | 40.000 | 22.95 | 0.00 | 45.69 | 2.34 |
6563 | 8465 | 7.600752 | GCACACTAGATCTTCCAAAGGATATAC | 59.399 | 40.741 | 0.00 | 0.00 | 0.00 | 1.47 |
6567 | 8469 | 4.225942 | TGCACACTAGATCTTCCAAAGGAT | 59.774 | 41.667 | 0.00 | 0.00 | 0.00 | 3.24 |
6679 | 8582 | 6.403878 | TGCCTAAGTACACAGAAAGGATAAC | 58.596 | 40.000 | 0.00 | 0.00 | 0.00 | 1.89 |
6728 | 8631 | 9.013229 | ACATATACACGATGGAATGCAAATAAT | 57.987 | 29.630 | 0.00 | 0.00 | 0.00 | 1.28 |
6749 | 8652 | 8.347771 | GCAGTGTCATGAAAATGATACACATAT | 58.652 | 33.333 | 17.35 | 0.00 | 42.68 | 1.78 |
6967 | 8870 | 5.909477 | TCAGTTAGGATGTGGTTTATACGG | 58.091 | 41.667 | 0.00 | 0.00 | 0.00 | 4.02 |
7104 | 9007 | 1.136057 | GCTTTCTACGGTTTGCTTCGG | 60.136 | 52.381 | 0.00 | 0.00 | 0.00 | 4.30 |
7111 | 9014 | 2.543777 | TCAGCTGCTTTCTACGGTTT | 57.456 | 45.000 | 9.47 | 0.00 | 0.00 | 3.27 |
7139 | 9042 | 2.224305 | GGTACAGCATATCAGGTCACCC | 60.224 | 54.545 | 0.00 | 0.00 | 0.00 | 4.61 |
7151 | 9054 | 3.679389 | CTCTTTTGACAGGGTACAGCAT | 58.321 | 45.455 | 0.00 | 0.00 | 0.00 | 3.79 |
7152 | 9055 | 2.810400 | GCTCTTTTGACAGGGTACAGCA | 60.810 | 50.000 | 0.00 | 0.00 | 0.00 | 4.41 |
7187 | 9090 | 5.163663 | TGCAAAACACAGAACGATTCTTTCT | 60.164 | 36.000 | 0.00 | 0.00 | 38.11 | 2.52 |
7192 | 9097 | 3.180387 | GCTTGCAAAACACAGAACGATTC | 59.820 | 43.478 | 0.00 | 0.00 | 0.00 | 2.52 |
7223 | 9129 | 7.228706 | CCATTATATTACAACCAGAACAGGACC | 59.771 | 40.741 | 0.00 | 0.00 | 0.00 | 4.46 |
7604 | 9844 | 6.806249 | CCAAAGTGATGCTAAATTCGCTAAAA | 59.194 | 34.615 | 2.01 | 0.00 | 32.62 | 1.52 |
7636 | 9878 | 3.904339 | AGTAGAAAAGAAGCAGGTCCTCA | 59.096 | 43.478 | 0.00 | 0.00 | 0.00 | 3.86 |
7669 | 9991 | 7.608761 | TCTTATGGTTGAGGGTTTAACATGTAC | 59.391 | 37.037 | 0.00 | 0.00 | 0.00 | 2.90 |
7698 | 10020 | 9.930158 | GTCTATCCCTATCAACTATCTAAGGAT | 57.070 | 37.037 | 0.00 | 0.00 | 35.77 | 3.24 |
7839 | 10167 | 6.398918 | AGTTCTCATGTAAGCGTTAATCTGT | 58.601 | 36.000 | 0.00 | 0.00 | 0.00 | 3.41 |
7848 | 10176 | 3.614616 | GTGGAAGAGTTCTCATGTAAGCG | 59.385 | 47.826 | 2.64 | 0.00 | 0.00 | 4.68 |
7872 | 10200 | 2.906389 | TGGTGATGTTCTAGACCAGCTT | 59.094 | 45.455 | 7.09 | 0.00 | 33.44 | 3.74 |
7897 | 10225 | 3.614092 | AGCCATATTGGTGTCTTGACAG | 58.386 | 45.455 | 3.45 | 0.00 | 40.46 | 3.51 |
7898 | 10226 | 3.609853 | GAGCCATATTGGTGTCTTGACA | 58.390 | 45.455 | 0.00 | 0.00 | 40.46 | 3.58 |
7992 | 10320 | 5.779241 | TTACTCTTCTGGACATGGGATTT | 57.221 | 39.130 | 0.00 | 0.00 | 0.00 | 2.17 |
7998 | 10326 | 6.232581 | AGAGGATTTACTCTTCTGGACATG | 57.767 | 41.667 | 0.00 | 0.00 | 45.21 | 3.21 |
8047 | 10375 | 3.274288 | GGACAACTCCTTATCTGCCAAG | 58.726 | 50.000 | 0.00 | 0.00 | 33.07 | 3.61 |
8048 | 10376 | 2.026262 | GGGACAACTCCTTATCTGCCAA | 60.026 | 50.000 | 0.00 | 0.00 | 36.68 | 4.52 |
8049 | 10377 | 1.559682 | GGGACAACTCCTTATCTGCCA | 59.440 | 52.381 | 0.00 | 0.00 | 36.68 | 4.92 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.