Multiple sequence alignment - TraesCS6D01G359300
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 | TraesCS6D01G359300 | chr6D | 100.000 | 3432 | 0 | 0 | 1 | 3432 | 451785906 | 451782475 | 0.000000e+00 | 6338.0 |
1 | TraesCS6D01G359300 | chr6D | 91.269 | 1214 | 80 | 17 | 1680 | 2886 | 451854916 | 451856110 | 0.000000e+00 | 1631.0 |
2 | TraesCS6D01G359300 | chr6D | 94.444 | 342 | 14 | 3 | 1292 | 1629 | 451854428 | 451854768 | 3.920000e-144 | 521.0 |
3 | TraesCS6D01G359300 | chr6D | 93.910 | 312 | 15 | 3 | 961 | 1269 | 451812835 | 451813145 | 5.190000e-128 | 468.0 |
4 | TraesCS6D01G359300 | chr6D | 96.209 | 211 | 6 | 2 | 544 | 753 | 451804431 | 451804640 | 9.120000e-91 | 344.0 |
5 | TraesCS6D01G359300 | chr6D | 90.000 | 230 | 8 | 4 | 753 | 970 | 451804670 | 451804896 | 2.020000e-72 | 283.0 |
6 | TraesCS6D01G359300 | chr6D | 95.652 | 46 | 2 | 0 | 76 | 121 | 451804237 | 451804282 | 1.320000e-09 | 75.0 |
7 | TraesCS6D01G359300 | chr6D | 89.362 | 47 | 5 | 0 | 2652 | 2698 | 451855836 | 451855882 | 3.700000e-05 | 60.2 |
8 | TraesCS6D01G359300 | chr6B | 90.565 | 2512 | 123 | 51 | 256 | 2697 | 686194367 | 686191900 | 0.000000e+00 | 3221.0 |
9 | TraesCS6D01G359300 | chr6B | 82.274 | 598 | 84 | 13 | 1017 | 1605 | 686215765 | 686215181 | 6.610000e-137 | 497.0 |
10 | TraesCS6D01G359300 | chr6B | 85.545 | 422 | 43 | 11 | 2607 | 3016 | 686191946 | 686191531 | 3.170000e-115 | 425.0 |
11 | TraesCS6D01G359300 | chr6B | 90.213 | 235 | 20 | 3 | 3199 | 3432 | 686191450 | 686191218 | 1.550000e-78 | 303.0 |
12 | TraesCS6D01G359300 | chr6B | 85.043 | 234 | 20 | 6 | 1 | 231 | 686195002 | 686194781 | 1.240000e-54 | 224.0 |
13 | TraesCS6D01G359300 | chr6A | 89.568 | 1342 | 77 | 29 | 1643 | 2963 | 597700430 | 597699131 | 0.000000e+00 | 1644.0 |
14 | TraesCS6D01G359300 | chr6A | 91.630 | 908 | 33 | 17 | 751 | 1624 | 597701387 | 597700489 | 0.000000e+00 | 1216.0 |
15 | TraesCS6D01G359300 | chr6A | 90.717 | 237 | 22 | 0 | 3196 | 3432 | 597668302 | 597668538 | 1.990000e-82 | 316.0 |
16 | TraesCS6D01G359300 | chr6A | 88.587 | 184 | 16 | 3 | 3004 | 3187 | 597668076 | 597668254 | 5.770000e-53 | 219.0 |
17 | TraesCS6D01G359300 | chr6A | 90.260 | 154 | 12 | 3 | 479 | 630 | 597703129 | 597702977 | 7.510000e-47 | 198.0 |
18 | TraesCS6D01G359300 | chr6A | 91.270 | 126 | 9 | 2 | 1 | 124 | 597703327 | 597703202 | 1.640000e-38 | 171.0 |
19 | TraesCS6D01G359300 | chr6A | 89.655 | 58 | 4 | 1 | 629 | 686 | 597701551 | 597701496 | 4.750000e-09 | 73.1 |
20 | TraesCS6D01G359300 | chr6A | 86.154 | 65 | 2 | 3 | 689 | 753 | 597701475 | 597701418 | 2.860000e-06 | 63.9 |
21 | TraesCS6D01G359300 | chrUn | 85.880 | 1296 | 57 | 37 | 751 | 1982 | 99816593 | 99817826 | 0.000000e+00 | 1264.0 |
22 | TraesCS6D01G359300 | chrUn | 89.043 | 867 | 74 | 13 | 1968 | 2826 | 99818191 | 99819044 | 0.000000e+00 | 1055.0 |
23 | TraesCS6D01G359300 | chrUn | 79.856 | 278 | 27 | 11 | 431 | 682 | 99816243 | 99816517 | 3.520000e-40 | 176.0 |
24 | TraesCS6D01G359300 | chrUn | 82.857 | 140 | 14 | 7 | 203 | 333 | 93157160 | 93157022 | 2.160000e-22 | 117.0 |
25 | TraesCS6D01G359300 | chrUn | 94.000 | 50 | 3 | 0 | 75 | 124 | 99816202 | 99816251 | 3.670000e-10 | 76.8 |
26 | TraesCS6D01G359300 | chr7B | 85.761 | 309 | 39 | 2 | 952 | 1258 | 678901064 | 678900759 | 4.270000e-84 | 322.0 |
27 | TraesCS6D01G359300 | chr7B | 85.764 | 288 | 41 | 0 | 1306 | 1593 | 678899399 | 678899112 | 4.300000e-79 | 305.0 |
28 | TraesCS6D01G359300 | chr7B | 84.211 | 133 | 11 | 8 | 203 | 326 | 41282101 | 41282232 | 1.670000e-23 | 121.0 |
29 | TraesCS6D01G359300 | chr7D | 76.265 | 573 | 99 | 24 | 1032 | 1598 | 90597814 | 90598355 | 1.570000e-68 | 270.0 |
30 | TraesCS6D01G359300 | chr7D | 85.833 | 120 | 12 | 5 | 212 | 326 | 213516512 | 213516631 | 4.650000e-24 | 122.0 |
31 | TraesCS6D01G359300 | chr7D | 85.938 | 64 | 7 | 2 | 3127 | 3190 | 189437952 | 189438013 | 2.210000e-07 | 67.6 |
32 | TraesCS6D01G359300 | chr2D | 85.294 | 136 | 13 | 7 | 203 | 333 | 196004515 | 196004648 | 2.150000e-27 | 134.0 |
33 | TraesCS6D01G359300 | chr2D | 88.034 | 117 | 9 | 5 | 213 | 326 | 293712203 | 293712317 | 2.150000e-27 | 134.0 |
34 | TraesCS6D01G359300 | chr5A | 89.216 | 102 | 9 | 2 | 219 | 318 | 7355425 | 7355324 | 3.600000e-25 | 126.0 |
35 | TraesCS6D01G359300 | chr5A | 84.496 | 129 | 10 | 7 | 213 | 333 | 616153219 | 616153093 | 6.020000e-23 | 119.0 |
36 | TraesCS6D01G359300 | chr5A | 87.037 | 54 | 5 | 2 | 3137 | 3190 | 564192664 | 564192715 | 3.700000e-05 | 60.2 |
37 | TraesCS6D01G359300 | chr3D | 87.963 | 108 | 9 | 4 | 229 | 333 | 179916944 | 179917050 | 1.290000e-24 | 124.0 |
38 | TraesCS6D01G359300 | chr3D | 90.323 | 62 | 5 | 1 | 3130 | 3190 | 598077032 | 598077093 | 2.840000e-11 | 80.5 |
39 | TraesCS6D01G359300 | chr3D | 87.273 | 55 | 5 | 2 | 3137 | 3190 | 613928480 | 613928533 | 1.030000e-05 | 62.1 |
40 | TraesCS6D01G359300 | chr3A | 88.710 | 62 | 6 | 1 | 3130 | 3190 | 728098422 | 728098483 | 1.320000e-09 | 75.0 |
41 | TraesCS6D01G359300 | chr3A | 85.484 | 62 | 8 | 1 | 3130 | 3190 | 728236878 | 728236939 | 2.860000e-06 | 63.9 |
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 | TraesCS6D01G359300 | chr6D | 451782475 | 451785906 | 3431 | True | 6338.00 | 6338 | 100.000000 | 1 | 3432 | 1 | chr6D.!!$R1 | 3431 |
1 | TraesCS6D01G359300 | chr6D | 451854428 | 451856110 | 1682 | False | 737.40 | 1631 | 91.691667 | 1292 | 2886 | 3 | chr6D.!!$F3 | 1594 |
2 | TraesCS6D01G359300 | chr6D | 451804237 | 451804896 | 659 | False | 234.00 | 344 | 93.953667 | 76 | 970 | 3 | chr6D.!!$F2 | 894 |
3 | TraesCS6D01G359300 | chr6B | 686191218 | 686195002 | 3784 | True | 1043.25 | 3221 | 87.841500 | 1 | 3432 | 4 | chr6B.!!$R2 | 3431 |
4 | TraesCS6D01G359300 | chr6B | 686215181 | 686215765 | 584 | True | 497.00 | 497 | 82.274000 | 1017 | 1605 | 1 | chr6B.!!$R1 | 588 |
5 | TraesCS6D01G359300 | chr6A | 597699131 | 597703327 | 4196 | True | 561.00 | 1644 | 89.756167 | 1 | 2963 | 6 | chr6A.!!$R1 | 2962 |
6 | TraesCS6D01G359300 | chrUn | 99816202 | 99819044 | 2842 | False | 642.95 | 1264 | 87.194750 | 75 | 2826 | 4 | chrUn.!!$F1 | 2751 |
7 | TraesCS6D01G359300 | chr7B | 678899112 | 678901064 | 1952 | True | 313.50 | 322 | 85.762500 | 952 | 1593 | 2 | chr7B.!!$R1 | 641 |
8 | TraesCS6D01G359300 | chr7D | 90597814 | 90598355 | 541 | False | 270.00 | 270 | 76.265000 | 1032 | 1598 | 1 | chr7D.!!$F1 | 566 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
723 | 2700 | 0.322975 | CTGGAGATAATGGGGGCGAG | 59.677 | 60.0 | 0.0 | 0.0 | 0.00 | 5.03 | F |
1543 | 4953 | 0.033405 | TCTCCTAGTGGAACCCGAGG | 60.033 | 60.0 | 0.0 | 0.0 | 42.66 | 4.63 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2001 | 5923 | 0.509929 | GTTGTACCAGACGCCGTTTC | 59.490 | 55.0 | 0.0 | 0.0 | 0.0 | 2.78 | R |
3146 | 7167 | 0.036010 | CGATGCAGAGGTTGGAGGTT | 60.036 | 55.0 | 0.0 | 0.0 | 0.0 | 3.50 | 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 |
---|---|---|---|---|---|---|---|---|---|
40 | 41 | 2.679716 | GGGCAGATGACAGGGCTT | 59.320 | 61.111 | 0.00 | 0.00 | 0.00 | 4.35 |
51 | 52 | 4.207891 | TGACAGGGCTTTAGAACTGATC | 57.792 | 45.455 | 0.00 | 0.00 | 35.08 | 2.92 |
52 | 53 | 3.582647 | TGACAGGGCTTTAGAACTGATCA | 59.417 | 43.478 | 0.00 | 0.00 | 35.08 | 2.92 |
143 | 148 | 6.795098 | AGTTCGTAAATGATAAGTGTTGCA | 57.205 | 33.333 | 0.00 | 0.00 | 0.00 | 4.08 |
148 | 153 | 4.829064 | AAATGATAAGTGTTGCACGTGT | 57.171 | 36.364 | 18.38 | 0.00 | 39.64 | 4.49 |
167 | 172 | 3.987404 | GCACGAAGCAATCCCACT | 58.013 | 55.556 | 0.00 | 0.00 | 44.79 | 4.00 |
170 | 175 | 1.813513 | CACGAAGCAATCCCACTCTT | 58.186 | 50.000 | 0.00 | 0.00 | 0.00 | 2.85 |
199 | 204 | 5.705813 | TTTACAACTAACACGTGACACAG | 57.294 | 39.130 | 25.01 | 14.66 | 0.00 | 3.66 |
201 | 206 | 4.054780 | ACAACTAACACGTGACACAGAT | 57.945 | 40.909 | 25.01 | 5.09 | 0.00 | 2.90 |
287 | 682 | 5.358442 | TGAAACCTGTCATCCGAAAAGAAAA | 59.642 | 36.000 | 0.00 | 0.00 | 0.00 | 2.29 |
289 | 684 | 6.405278 | AACCTGTCATCCGAAAAGAAAATT | 57.595 | 33.333 | 0.00 | 0.00 | 0.00 | 1.82 |
291 | 686 | 5.301805 | ACCTGTCATCCGAAAAGAAAATTGT | 59.698 | 36.000 | 0.00 | 0.00 | 0.00 | 2.71 |
357 | 753 | 5.282055 | AGAAGTTATCATCCTCGCATCAA | 57.718 | 39.130 | 0.00 | 0.00 | 0.00 | 2.57 |
369 | 765 | 3.067180 | CCTCGCATCAATAAACTTGCCAT | 59.933 | 43.478 | 0.00 | 0.00 | 0.00 | 4.40 |
398 | 794 | 3.498397 | ACATTCGGAGTTGTCATGTGTTC | 59.502 | 43.478 | 0.00 | 0.00 | 0.00 | 3.18 |
402 | 798 | 2.479837 | GGAGTTGTCATGTGTTCGTGA | 58.520 | 47.619 | 0.00 | 0.00 | 37.27 | 4.35 |
425 | 821 | 2.626266 | ACACGTGTGACACTTATCAGGA | 59.374 | 45.455 | 22.71 | 0.00 | 31.34 | 3.86 |
434 | 830 | 8.421784 | GTGTGACACTTATCAGGATCCTATAAA | 58.578 | 37.037 | 15.67 | 7.75 | 0.00 | 1.40 |
528 | 956 | 0.510359 | GGCAATTCAGCGAGATAGCG | 59.490 | 55.000 | 0.00 | 0.00 | 43.00 | 4.26 |
530 | 958 | 1.858091 | CAATTCAGCGAGATAGCGGT | 58.142 | 50.000 | 0.00 | 0.00 | 43.48 | 5.68 |
639 | 2592 | 8.198109 | TCTCTTGGACAGTTTATACAGATAAGC | 58.802 | 37.037 | 0.00 | 0.00 | 0.00 | 3.09 |
642 | 2595 | 8.437360 | TTGGACAGTTTATACAGATAAGCATG | 57.563 | 34.615 | 0.00 | 0.00 | 32.65 | 4.06 |
719 | 2696 | 1.776667 | TGAAGCTGGAGATAATGGGGG | 59.223 | 52.381 | 0.00 | 0.00 | 0.00 | 5.40 |
720 | 2697 | 0.480252 | AAGCTGGAGATAATGGGGGC | 59.520 | 55.000 | 0.00 | 0.00 | 0.00 | 5.80 |
721 | 2698 | 1.302832 | GCTGGAGATAATGGGGGCG | 60.303 | 63.158 | 0.00 | 0.00 | 0.00 | 6.13 |
722 | 2699 | 1.768684 | GCTGGAGATAATGGGGGCGA | 61.769 | 60.000 | 0.00 | 0.00 | 0.00 | 5.54 |
723 | 2700 | 0.322975 | CTGGAGATAATGGGGGCGAG | 59.677 | 60.000 | 0.00 | 0.00 | 0.00 | 5.03 |
724 | 2701 | 1.127567 | TGGAGATAATGGGGGCGAGG | 61.128 | 60.000 | 0.00 | 0.00 | 0.00 | 4.63 |
725 | 2702 | 1.679898 | GAGATAATGGGGGCGAGGG | 59.320 | 63.158 | 0.00 | 0.00 | 0.00 | 4.30 |
750 | 2733 | 3.149196 | TGAGGTTGGTGAGAGCATTTTC | 58.851 | 45.455 | 0.00 | 0.00 | 0.00 | 2.29 |
751 | 2734 | 3.149196 | GAGGTTGGTGAGAGCATTTTCA | 58.851 | 45.455 | 0.00 | 0.00 | 0.00 | 2.69 |
769 | 2789 | 6.587206 | TTTTCATGCATGGACTGTTTATGA | 57.413 | 33.333 | 25.97 | 0.06 | 0.00 | 2.15 |
770 | 2790 | 6.587206 | TTTCATGCATGGACTGTTTATGAA | 57.413 | 33.333 | 25.97 | 6.85 | 33.79 | 2.57 |
1015 | 3078 | 2.754552 | GCAACCATGGCTTCTTATGACA | 59.245 | 45.455 | 13.04 | 0.00 | 0.00 | 3.58 |
1248 | 3311 | 1.982958 | TGGGACCTCTTCCTGGTAAAC | 59.017 | 52.381 | 0.00 | 0.00 | 45.09 | 2.01 |
1253 | 3327 | 4.041815 | GGACCTCTTCCTGGTAAACTTCTT | 59.958 | 45.833 | 0.00 | 0.00 | 41.95 | 2.52 |
1258 | 3332 | 6.546034 | CCTCTTCCTGGTAAACTTCTTTTTGA | 59.454 | 38.462 | 0.00 | 0.00 | 0.00 | 2.69 |
1543 | 4953 | 0.033405 | TCTCCTAGTGGAACCCGAGG | 60.033 | 60.000 | 0.00 | 0.00 | 42.66 | 4.63 |
1629 | 5053 | 7.661847 | AGCTCTAGGTTTTTACCATATACATGC | 59.338 | 37.037 | 0.00 | 0.00 | 0.00 | 4.06 |
1630 | 5054 | 7.444183 | GCTCTAGGTTTTTACCATATACATGCA | 59.556 | 37.037 | 0.00 | 0.00 | 0.00 | 3.96 |
1631 | 5055 | 8.671384 | TCTAGGTTTTTACCATATACATGCAC | 57.329 | 34.615 | 0.00 | 0.00 | 0.00 | 4.57 |
1633 | 5057 | 5.883673 | AGGTTTTTACCATATACATGCACGT | 59.116 | 36.000 | 0.00 | 0.00 | 0.00 | 4.49 |
1635 | 5059 | 4.804608 | TTTACCATATACATGCACGTGC | 57.195 | 40.909 | 33.11 | 33.11 | 42.50 | 5.34 |
1636 | 5060 | 2.620251 | ACCATATACATGCACGTGCT | 57.380 | 45.000 | 37.59 | 22.54 | 42.66 | 4.40 |
1638 | 5062 | 1.800586 | CCATATACATGCACGTGCTCC | 59.199 | 52.381 | 37.59 | 13.26 | 42.66 | 4.70 |
1861 | 5404 | 2.288666 | CACCTGGTAAACATGATCGGG | 58.711 | 52.381 | 0.00 | 0.00 | 0.00 | 5.14 |
1894 | 5437 | 7.017551 | TCCATCACCCAAGCTATATTCAACTAT | 59.982 | 37.037 | 0.00 | 0.00 | 0.00 | 2.12 |
1948 | 5491 | 2.145865 | CCTCAAGGCCCATACCGAT | 58.854 | 57.895 | 0.00 | 0.00 | 33.69 | 4.18 |
2001 | 5923 | 1.970352 | GAGGGGCTCCAGCTTCAGAG | 61.970 | 65.000 | 4.79 | 1.54 | 41.70 | 3.35 |
2045 | 5967 | 2.166050 | CCCATCGTTCCAAATGCATTGA | 59.834 | 45.455 | 13.82 | 3.84 | 41.85 | 2.57 |
2059 | 5981 | 5.947228 | ATGCATTGATTATGAACGTAGGG | 57.053 | 39.130 | 0.00 | 0.00 | 36.26 | 3.53 |
2075 | 5997 | 5.907421 | ACGTAGGGGATATAATGGAGGTAA | 58.093 | 41.667 | 0.00 | 0.00 | 0.00 | 2.85 |
2077 | 5999 | 6.383147 | ACGTAGGGGATATAATGGAGGTAATG | 59.617 | 42.308 | 0.00 | 0.00 | 0.00 | 1.90 |
2079 | 6001 | 6.642733 | AGGGGATATAATGGAGGTAATGTG | 57.357 | 41.667 | 0.00 | 0.00 | 0.00 | 3.21 |
2080 | 6002 | 5.492524 | AGGGGATATAATGGAGGTAATGTGG | 59.507 | 44.000 | 0.00 | 0.00 | 0.00 | 4.17 |
2081 | 6003 | 5.491078 | GGGGATATAATGGAGGTAATGTGGA | 59.509 | 44.000 | 0.00 | 0.00 | 0.00 | 4.02 |
2083 | 6005 | 7.312567 | GGGGATATAATGGAGGTAATGTGGATT | 60.313 | 40.741 | 0.00 | 0.00 | 0.00 | 3.01 |
2084 | 6006 | 8.778059 | GGGATATAATGGAGGTAATGTGGATTA | 58.222 | 37.037 | 0.00 | 0.00 | 0.00 | 1.75 |
2086 | 6008 | 9.331282 | GATATAATGGAGGTAATGTGGATTAGC | 57.669 | 37.037 | 0.00 | 0.00 | 41.15 | 3.09 |
2089 | 6011 | 3.780294 | TGGAGGTAATGTGGATTAGCAGT | 59.220 | 43.478 | 0.00 | 0.00 | 42.61 | 4.40 |
2090 | 6012 | 4.966168 | TGGAGGTAATGTGGATTAGCAGTA | 59.034 | 41.667 | 0.00 | 0.00 | 42.61 | 2.74 |
2092 | 6014 | 5.070580 | GGAGGTAATGTGGATTAGCAGTAGT | 59.929 | 44.000 | 0.00 | 0.00 | 42.61 | 2.73 |
2093 | 6015 | 6.267014 | GGAGGTAATGTGGATTAGCAGTAGTA | 59.733 | 42.308 | 0.00 | 0.00 | 42.61 | 1.82 |
2094 | 6016 | 7.201974 | GGAGGTAATGTGGATTAGCAGTAGTAA | 60.202 | 40.741 | 0.00 | 0.00 | 42.61 | 2.24 |
2095 | 6017 | 8.263854 | AGGTAATGTGGATTAGCAGTAGTAAT | 57.736 | 34.615 | 0.00 | 0.00 | 42.61 | 1.89 |
2097 | 6019 | 8.989980 | GGTAATGTGGATTAGCAGTAGTAATTC | 58.010 | 37.037 | 0.00 | 0.00 | 40.72 | 2.17 |
2098 | 6020 | 8.989980 | GTAATGTGGATTAGCAGTAGTAATTCC | 58.010 | 37.037 | 0.00 | 0.00 | 0.00 | 3.01 |
2099 | 6021 | 6.553953 | TGTGGATTAGCAGTAGTAATTCCA | 57.446 | 37.500 | 0.00 | 0.00 | 0.00 | 3.53 |
2100 | 6022 | 7.136822 | TGTGGATTAGCAGTAGTAATTCCAT | 57.863 | 36.000 | 0.00 | 0.00 | 0.00 | 3.41 |
2101 | 6023 | 6.992123 | TGTGGATTAGCAGTAGTAATTCCATG | 59.008 | 38.462 | 0.00 | 0.00 | 0.00 | 3.66 |
2102 | 6024 | 6.992715 | GTGGATTAGCAGTAGTAATTCCATGT | 59.007 | 38.462 | 0.00 | 0.00 | 0.00 | 3.21 |
2106 | 6030 | 4.446371 | AGCAGTAGTAATTCCATGTGCTC | 58.554 | 43.478 | 0.00 | 0.00 | 35.06 | 4.26 |
2110 | 6034 | 6.524734 | CAGTAGTAATTCCATGTGCTCCATA | 58.475 | 40.000 | 0.00 | 0.00 | 30.71 | 2.74 |
2141 | 6065 | 5.047021 | TGTTTGACCTTGTTTTGTGGATTGA | 60.047 | 36.000 | 0.00 | 0.00 | 0.00 | 2.57 |
2314 | 6245 | 2.029844 | GCTTGAGCCGGTGTCAGAC | 61.030 | 63.158 | 1.90 | 0.00 | 34.31 | 3.51 |
2667 | 6653 | 7.803279 | AAGGATGGAATAAAACTTATCGGTC | 57.197 | 36.000 | 0.00 | 0.00 | 0.00 | 4.79 |
2702 | 6688 | 3.303049 | GGATGCAAAGGATGGAAGGATT | 58.697 | 45.455 | 0.00 | 0.00 | 30.96 | 3.01 |
2713 | 6699 | 4.142293 | GGATGGAAGGATTGTTTCTTGCTC | 60.142 | 45.833 | 0.00 | 0.00 | 33.41 | 4.26 |
2718 | 6705 | 5.815740 | GGAAGGATTGTTTCTTGCTCGTATA | 59.184 | 40.000 | 0.00 | 0.00 | 0.00 | 1.47 |
2793 | 6804 | 4.686191 | AAAAAGACCATTGTGCCATGAA | 57.314 | 36.364 | 0.00 | 0.00 | 0.00 | 2.57 |
2794 | 6805 | 4.686191 | AAAAGACCATTGTGCCATGAAA | 57.314 | 36.364 | 0.00 | 0.00 | 0.00 | 2.69 |
2795 | 6806 | 4.686191 | AAAGACCATTGTGCCATGAAAA | 57.314 | 36.364 | 0.00 | 0.00 | 0.00 | 2.29 |
2796 | 6807 | 4.686191 | AAGACCATTGTGCCATGAAAAA | 57.314 | 36.364 | 0.00 | 0.00 | 0.00 | 1.94 |
2797 | 6808 | 4.895668 | AGACCATTGTGCCATGAAAAAT | 57.104 | 36.364 | 0.00 | 0.00 | 0.00 | 1.82 |
2810 | 6821 | 7.436080 | GTGCCATGAAAAATATGTGGATTAGTG | 59.564 | 37.037 | 0.00 | 0.00 | 31.59 | 2.74 |
2826 | 6837 | 9.787435 | GTGGATTAGTGGTAATAATTCCATGTA | 57.213 | 33.333 | 0.00 | 0.00 | 36.09 | 2.29 |
2886 | 6898 | 3.190535 | GTGTCATCACTAACCGGCAAAAT | 59.809 | 43.478 | 0.00 | 0.00 | 40.98 | 1.82 |
2897 | 6917 | 1.476488 | CCGGCAAAATTTTCTCCCGAT | 59.524 | 47.619 | 24.61 | 0.00 | 38.04 | 4.18 |
2921 | 6941 | 2.558795 | GTGACCTGTCAGTAGCTTCTCA | 59.441 | 50.000 | 0.00 | 0.00 | 40.75 | 3.27 |
2922 | 6942 | 2.558795 | TGACCTGTCAGTAGCTTCTCAC | 59.441 | 50.000 | 0.00 | 0.00 | 34.14 | 3.51 |
2924 | 6944 | 2.175202 | CCTGTCAGTAGCTTCTCACCT | 58.825 | 52.381 | 0.00 | 0.00 | 0.00 | 4.00 |
2951 | 6971 | 1.003580 | ACTATGTTGGCACTGACCAGG | 59.996 | 52.381 | 1.82 | 0.00 | 41.82 | 4.45 |
2972 | 6992 | 2.821546 | CACAACAAAGTCTCTCACCGA | 58.178 | 47.619 | 0.00 | 0.00 | 0.00 | 4.69 |
3013 | 7033 | 6.223852 | TCAACAGAAGTATGTTCAGGAACTC | 58.776 | 40.000 | 12.86 | 2.67 | 41.41 | 3.01 |
3014 | 7034 | 5.153950 | ACAGAAGTATGTTCAGGAACTCC | 57.846 | 43.478 | 12.86 | 1.99 | 41.67 | 3.85 |
3015 | 7035 | 5.308237 | AACAGAAGTATGTTCAGGAACTCCT | 59.692 | 40.000 | 12.86 | 0.00 | 39.13 | 3.69 |
3016 | 7036 | 5.308237 | ACAGAAGTATGTTCAGGAACTCCTT | 59.692 | 40.000 | 12.86 | 10.97 | 46.09 | 3.36 |
3017 | 7037 | 5.641209 | CAGAAGTATGTTCAGGAACTCCTTG | 59.359 | 44.000 | 12.86 | 0.00 | 46.09 | 3.61 |
3018 | 7038 | 5.544176 | AGAAGTATGTTCAGGAACTCCTTGA | 59.456 | 40.000 | 12.86 | 0.00 | 46.09 | 3.02 |
3019 | 7039 | 6.214412 | AGAAGTATGTTCAGGAACTCCTTGAT | 59.786 | 38.462 | 12.86 | 0.75 | 46.09 | 2.57 |
3020 | 7040 | 5.983540 | AGTATGTTCAGGAACTCCTTGATC | 58.016 | 41.667 | 12.86 | 0.00 | 46.09 | 2.92 |
3021 | 7041 | 4.916041 | ATGTTCAGGAACTCCTTGATCA | 57.084 | 40.909 | 12.86 | 0.00 | 46.09 | 2.92 |
3022 | 7042 | 4.916041 | TGTTCAGGAACTCCTTGATCAT | 57.084 | 40.909 | 12.86 | 0.00 | 46.09 | 2.45 |
3023 | 7043 | 5.246981 | TGTTCAGGAACTCCTTGATCATT | 57.753 | 39.130 | 12.86 | 0.00 | 46.09 | 2.57 |
3024 | 7044 | 5.248640 | TGTTCAGGAACTCCTTGATCATTC | 58.751 | 41.667 | 12.86 | 0.00 | 46.09 | 2.67 |
3025 | 7045 | 5.013495 | TGTTCAGGAACTCCTTGATCATTCT | 59.987 | 40.000 | 12.86 | 0.00 | 46.09 | 2.40 |
3026 | 7046 | 5.095145 | TCAGGAACTCCTTGATCATTCTG | 57.905 | 43.478 | 0.00 | 0.00 | 46.09 | 3.02 |
3027 | 7047 | 4.080695 | TCAGGAACTCCTTGATCATTCTGG | 60.081 | 45.833 | 0.00 | 0.00 | 46.09 | 3.86 |
3028 | 7048 | 3.848975 | AGGAACTCCTTGATCATTCTGGT | 59.151 | 43.478 | 0.00 | 0.00 | 46.09 | 4.00 |
3029 | 7049 | 4.080638 | AGGAACTCCTTGATCATTCTGGTC | 60.081 | 45.833 | 0.00 | 0.00 | 46.09 | 4.02 |
3030 | 7050 | 4.080638 | GGAACTCCTTGATCATTCTGGTCT | 60.081 | 45.833 | 0.00 | 0.00 | 0.00 | 3.85 |
3031 | 7051 | 5.495640 | GAACTCCTTGATCATTCTGGTCTT | 58.504 | 41.667 | 0.00 | 0.00 | 0.00 | 3.01 |
3032 | 7052 | 6.352222 | GGAACTCCTTGATCATTCTGGTCTTA | 60.352 | 42.308 | 0.00 | 0.00 | 0.00 | 2.10 |
3033 | 7053 | 6.627087 | ACTCCTTGATCATTCTGGTCTTAA | 57.373 | 37.500 | 0.00 | 0.00 | 0.00 | 1.85 |
3034 | 7054 | 7.205515 | ACTCCTTGATCATTCTGGTCTTAAT | 57.794 | 36.000 | 0.00 | 0.00 | 0.00 | 1.40 |
3035 | 7055 | 7.052873 | ACTCCTTGATCATTCTGGTCTTAATG | 58.947 | 38.462 | 0.00 | 0.00 | 34.96 | 1.90 |
3036 | 7056 | 7.092712 | ACTCCTTGATCATTCTGGTCTTAATGA | 60.093 | 37.037 | 0.00 | 0.00 | 44.00 | 2.57 |
3037 | 7057 | 7.278135 | TCCTTGATCATTCTGGTCTTAATGAG | 58.722 | 38.462 | 0.00 | 0.00 | 43.34 | 2.90 |
3038 | 7058 | 6.485984 | CCTTGATCATTCTGGTCTTAATGAGG | 59.514 | 42.308 | 0.00 | 0.00 | 43.34 | 3.86 |
3039 | 7059 | 5.371526 | TGATCATTCTGGTCTTAATGAGGC | 58.628 | 41.667 | 0.00 | 0.00 | 43.34 | 4.70 |
3040 | 7060 | 5.131642 | TGATCATTCTGGTCTTAATGAGGCT | 59.868 | 40.000 | 0.00 | 0.00 | 43.34 | 4.58 |
3041 | 7061 | 5.028549 | TCATTCTGGTCTTAATGAGGCTC | 57.971 | 43.478 | 7.79 | 7.79 | 37.23 | 4.70 |
3042 | 7062 | 3.526931 | TTCTGGTCTTAATGAGGCTCG | 57.473 | 47.619 | 10.42 | 0.00 | 0.00 | 5.03 |
3043 | 7063 | 1.137086 | TCTGGTCTTAATGAGGCTCGC | 59.863 | 52.381 | 10.42 | 0.00 | 0.00 | 5.03 |
3044 | 7064 | 0.901827 | TGGTCTTAATGAGGCTCGCA | 59.098 | 50.000 | 10.42 | 0.00 | 0.00 | 5.10 |
3045 | 7065 | 1.486310 | TGGTCTTAATGAGGCTCGCAT | 59.514 | 47.619 | 10.42 | 0.78 | 0.00 | 4.73 |
3046 | 7066 | 2.092968 | TGGTCTTAATGAGGCTCGCATT | 60.093 | 45.455 | 10.42 | 8.26 | 37.59 | 3.56 |
3047 | 7067 | 2.289002 | GGTCTTAATGAGGCTCGCATTG | 59.711 | 50.000 | 10.42 | 0.28 | 34.96 | 2.82 |
3048 | 7068 | 1.942657 | TCTTAATGAGGCTCGCATTGC | 59.057 | 47.619 | 10.42 | 0.00 | 34.96 | 3.56 |
3049 | 7069 | 1.945394 | CTTAATGAGGCTCGCATTGCT | 59.055 | 47.619 | 10.42 | 0.00 | 34.96 | 3.91 |
3050 | 7070 | 1.302366 | TAATGAGGCTCGCATTGCTG | 58.698 | 50.000 | 10.42 | 0.70 | 34.96 | 4.41 |
3051 | 7071 | 0.393402 | AATGAGGCTCGCATTGCTGA | 60.393 | 50.000 | 10.42 | 5.18 | 33.03 | 4.26 |
3052 | 7072 | 0.393402 | ATGAGGCTCGCATTGCTGAA | 60.393 | 50.000 | 10.42 | 0.00 | 0.00 | 3.02 |
3053 | 7073 | 0.606130 | TGAGGCTCGCATTGCTGAAA | 60.606 | 50.000 | 10.42 | 0.00 | 0.00 | 2.69 |
3054 | 7074 | 0.179179 | GAGGCTCGCATTGCTGAAAC | 60.179 | 55.000 | 7.12 | 2.46 | 0.00 | 2.78 |
3055 | 7075 | 0.607489 | AGGCTCGCATTGCTGAAACT | 60.607 | 50.000 | 7.12 | 4.45 | 0.00 | 2.66 |
3066 | 7086 | 5.562307 | GCATTGCTGAAACTCCTATATGCAG | 60.562 | 44.000 | 0.16 | 0.00 | 36.70 | 4.41 |
3069 | 7089 | 3.062763 | CTGAAACTCCTATATGCAGCCG | 58.937 | 50.000 | 0.00 | 0.00 | 0.00 | 5.52 |
3102 | 7122 | 1.000283 | CGTGCTACTGATGGAGATCCC | 60.000 | 57.143 | 0.00 | 0.00 | 34.29 | 3.85 |
3103 | 7123 | 1.000283 | GTGCTACTGATGGAGATCCCG | 60.000 | 57.143 | 0.00 | 0.00 | 37.93 | 5.14 |
3161 | 7182 | 2.333688 | GGATAACCTCCAACCTCTGC | 57.666 | 55.000 | 0.00 | 0.00 | 44.26 | 4.26 |
3162 | 7183 | 1.559682 | GGATAACCTCCAACCTCTGCA | 59.440 | 52.381 | 0.00 | 0.00 | 44.26 | 4.41 |
3163 | 7184 | 2.173569 | GGATAACCTCCAACCTCTGCAT | 59.826 | 50.000 | 0.00 | 0.00 | 44.26 | 3.96 |
3164 | 7185 | 3.471680 | GATAACCTCCAACCTCTGCATC | 58.528 | 50.000 | 0.00 | 0.00 | 0.00 | 3.91 |
3165 | 7186 | 0.036010 | AACCTCCAACCTCTGCATCG | 60.036 | 55.000 | 0.00 | 0.00 | 0.00 | 3.84 |
3166 | 7187 | 0.904865 | ACCTCCAACCTCTGCATCGA | 60.905 | 55.000 | 0.00 | 0.00 | 0.00 | 3.59 |
3167 | 7188 | 0.179089 | CCTCCAACCTCTGCATCGAG | 60.179 | 60.000 | 0.00 | 0.00 | 0.00 | 4.04 |
3168 | 7189 | 0.809241 | CTCCAACCTCTGCATCGAGC | 60.809 | 60.000 | 0.00 | 0.00 | 45.96 | 5.03 |
3178 | 7199 | 3.784746 | CATCGAGCGATGCACACA | 58.215 | 55.556 | 18.40 | 0.00 | 44.27 | 3.72 |
3179 | 7200 | 2.304428 | CATCGAGCGATGCACACAT | 58.696 | 52.632 | 18.40 | 0.00 | 44.27 | 3.21 |
3194 | 7215 | 8.249327 | GATGCACACATCCATCTTTATAGTAG | 57.751 | 38.462 | 0.00 | 0.00 | 45.94 | 2.57 |
3195 | 7216 | 7.360113 | TGCACACATCCATCTTTATAGTAGA | 57.640 | 36.000 | 0.00 | 0.00 | 0.00 | 2.59 |
3196 | 7217 | 7.210174 | TGCACACATCCATCTTTATAGTAGAC | 58.790 | 38.462 | 0.00 | 0.00 | 0.00 | 2.59 |
3197 | 7218 | 7.069950 | TGCACACATCCATCTTTATAGTAGACT | 59.930 | 37.037 | 0.00 | 0.00 | 0.00 | 3.24 |
3198 | 7219 | 8.577296 | GCACACATCCATCTTTATAGTAGACTA | 58.423 | 37.037 | 0.00 | 0.00 | 0.00 | 2.59 |
3243 | 7264 | 9.987272 | CATCACATTAAGGATATAGTTCTCACA | 57.013 | 33.333 | 0.00 | 0.00 | 0.00 | 3.58 |
3266 | 7287 | 8.028354 | CACATCATAATAACAAGACCAAAGCAA | 58.972 | 33.333 | 0.00 | 0.00 | 0.00 | 3.91 |
3267 | 7288 | 8.246180 | ACATCATAATAACAAGACCAAAGCAAG | 58.754 | 33.333 | 0.00 | 0.00 | 0.00 | 4.01 |
3317 | 7338 | 3.392616 | CCCAATACCATCTACAAGAGGCT | 59.607 | 47.826 | 0.00 | 0.00 | 0.00 | 4.58 |
3323 | 7344 | 3.300388 | CCATCTACAAGAGGCTCCAGTA | 58.700 | 50.000 | 11.71 | 13.02 | 0.00 | 2.74 |
3346 | 7367 | 4.832266 | ACAAACCAAAGGCTTATCACATCA | 59.168 | 37.500 | 0.00 | 0.00 | 0.00 | 3.07 |
3416 | 7437 | 4.894201 | GAGGGCTCCACATGGATG | 57.106 | 61.111 | 0.00 | 0.00 | 44.46 | 3.51 |
3421 | 7442 | 0.394762 | GGCTCCACATGGATGAAGCA | 60.395 | 55.000 | 0.00 | 0.00 | 44.46 | 3.91 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
79 | 82 | 6.793505 | AACTTCCTCTCTATTAACACGGAT | 57.206 | 37.500 | 0.00 | 0.00 | 0.00 | 4.18 |
148 | 153 | 1.971167 | GTGGGATTGCTTCGTGCCA | 60.971 | 57.895 | 1.30 | 0.00 | 42.00 | 4.92 |
187 | 192 | 3.667497 | AGATTGATCTGTGTCACGTGT | 57.333 | 42.857 | 16.51 | 0.00 | 35.42 | 4.49 |
189 | 194 | 3.995199 | ACAAGATTGATCTGTGTCACGT | 58.005 | 40.909 | 0.00 | 0.00 | 37.19 | 4.49 |
190 | 195 | 4.687948 | AGAACAAGATTGATCTGTGTCACG | 59.312 | 41.667 | 4.73 | 0.00 | 38.64 | 4.35 |
269 | 664 | 6.437928 | TGACAATTTTCTTTTCGGATGACAG | 58.562 | 36.000 | 0.00 | 0.00 | 0.00 | 3.51 |
304 | 699 | 2.599082 | GACGCGAGGATGACAACTTTAG | 59.401 | 50.000 | 15.93 | 0.00 | 0.00 | 1.85 |
336 | 731 | 7.658179 | TTATTGATGCGAGGATGATAACTTC | 57.342 | 36.000 | 0.00 | 0.00 | 0.00 | 3.01 |
342 | 738 | 5.278169 | GCAAGTTTATTGATGCGAGGATGAT | 60.278 | 40.000 | 0.00 | 0.00 | 0.00 | 2.45 |
375 | 771 | 3.476552 | ACACATGACAACTCCGAATGTT | 58.523 | 40.909 | 0.00 | 0.00 | 29.20 | 2.71 |
376 | 772 | 3.126001 | ACACATGACAACTCCGAATGT | 57.874 | 42.857 | 0.00 | 0.00 | 31.79 | 2.71 |
377 | 773 | 3.423515 | CGAACACATGACAACTCCGAATG | 60.424 | 47.826 | 0.00 | 0.00 | 0.00 | 2.67 |
378 | 774 | 2.736721 | CGAACACATGACAACTCCGAAT | 59.263 | 45.455 | 0.00 | 0.00 | 0.00 | 3.34 |
383 | 779 | 3.505449 | GTCACGAACACATGACAACTC | 57.495 | 47.619 | 0.00 | 0.00 | 43.89 | 3.01 |
402 | 798 | 3.381045 | CTGATAAGTGTCACACGTGTGT | 58.619 | 45.455 | 39.25 | 26.22 | 45.76 | 3.72 |
528 | 956 | 7.173390 | AGAGTAAAGAAGTACAATCTTTGCACC | 59.827 | 37.037 | 27.52 | 21.79 | 45.90 | 5.01 |
530 | 958 | 8.677148 | AAGAGTAAAGAAGTACAATCTTTGCA | 57.323 | 30.769 | 27.52 | 14.13 | 45.90 | 4.08 |
642 | 2595 | 7.916450 | GCCAGTCGTTAGATAGAATCCATATAC | 59.084 | 40.741 | 0.00 | 0.00 | 0.00 | 1.47 |
655 | 2614 | 3.954904 | ACTGATGTAGCCAGTCGTTAGAT | 59.045 | 43.478 | 0.00 | 0.00 | 40.55 | 1.98 |
656 | 2615 | 3.353557 | ACTGATGTAGCCAGTCGTTAGA | 58.646 | 45.455 | 0.00 | 0.00 | 40.55 | 2.10 |
719 | 2696 | 2.892425 | CAACCTCATCGCCCTCGC | 60.892 | 66.667 | 0.00 | 0.00 | 35.26 | 5.03 |
720 | 2697 | 2.202932 | CCAACCTCATCGCCCTCG | 60.203 | 66.667 | 0.00 | 0.00 | 0.00 | 4.63 |
721 | 2698 | 1.450312 | CACCAACCTCATCGCCCTC | 60.450 | 63.158 | 0.00 | 0.00 | 0.00 | 4.30 |
722 | 2699 | 1.903877 | CTCACCAACCTCATCGCCCT | 61.904 | 60.000 | 0.00 | 0.00 | 0.00 | 5.19 |
723 | 2700 | 1.450312 | CTCACCAACCTCATCGCCC | 60.450 | 63.158 | 0.00 | 0.00 | 0.00 | 6.13 |
724 | 2701 | 0.460987 | CTCTCACCAACCTCATCGCC | 60.461 | 60.000 | 0.00 | 0.00 | 0.00 | 5.54 |
725 | 2702 | 1.086634 | GCTCTCACCAACCTCATCGC | 61.087 | 60.000 | 0.00 | 0.00 | 0.00 | 4.58 |
835 | 2856 | 9.378551 | CACTATTCCACTTAACTAATGCAACTA | 57.621 | 33.333 | 0.00 | 0.00 | 0.00 | 2.24 |
1015 | 3078 | 4.461198 | ACCTCGAGAACCTTGAATTGTTT | 58.539 | 39.130 | 15.71 | 0.00 | 0.00 | 2.83 |
1253 | 3327 | 9.650539 | TCACATGAAAGAAATGAAAACTCAAAA | 57.349 | 25.926 | 0.00 | 0.00 | 0.00 | 2.44 |
1287 | 4068 | 3.093057 | TGAGATGACCACTAGCTGTCT | 57.907 | 47.619 | 12.06 | 0.00 | 32.67 | 3.41 |
1288 | 4069 | 3.636300 | AGATGAGATGACCACTAGCTGTC | 59.364 | 47.826 | 0.00 | 5.50 | 0.00 | 3.51 |
1289 | 4070 | 3.636300 | GAGATGAGATGACCACTAGCTGT | 59.364 | 47.826 | 0.00 | 0.00 | 0.00 | 4.40 |
1290 | 4071 | 3.005684 | GGAGATGAGATGACCACTAGCTG | 59.994 | 52.174 | 0.00 | 0.00 | 0.00 | 4.24 |
1543 | 4953 | 2.832733 | ACAGTCTGTAGGTTCTTAGGGC | 59.167 | 50.000 | 2.87 | 0.00 | 0.00 | 5.19 |
1629 | 5053 | 2.238942 | TAGGCATTATGGAGCACGTG | 57.761 | 50.000 | 12.28 | 12.28 | 0.00 | 4.49 |
1630 | 5054 | 3.206150 | CTTTAGGCATTATGGAGCACGT | 58.794 | 45.455 | 0.00 | 0.00 | 0.00 | 4.49 |
1631 | 5055 | 2.031682 | GCTTTAGGCATTATGGAGCACG | 60.032 | 50.000 | 0.00 | 0.00 | 41.35 | 5.34 |
1633 | 5057 | 2.158827 | TCGCTTTAGGCATTATGGAGCA | 60.159 | 45.455 | 0.00 | 0.00 | 41.91 | 4.26 |
1635 | 5059 | 3.466836 | TGTCGCTTTAGGCATTATGGAG | 58.533 | 45.455 | 0.00 | 0.00 | 41.91 | 3.86 |
1636 | 5060 | 3.552132 | TGTCGCTTTAGGCATTATGGA | 57.448 | 42.857 | 0.00 | 0.00 | 41.91 | 3.41 |
1638 | 5062 | 6.974932 | ATAGATGTCGCTTTAGGCATTATG | 57.025 | 37.500 | 0.00 | 0.00 | 36.47 | 1.90 |
1690 | 5226 | 2.000447 | GTTACTCATCAACTGCCGGAC | 59.000 | 52.381 | 5.05 | 0.00 | 0.00 | 4.79 |
1861 | 5404 | 1.680249 | GCTTGGGTGATGGAGTTCTCC | 60.680 | 57.143 | 11.53 | 11.53 | 0.00 | 3.71 |
1894 | 5437 | 0.690762 | GCCTTGGACACTGAGGGTAA | 59.309 | 55.000 | 0.00 | 0.00 | 0.00 | 2.85 |
1948 | 5491 | 3.264193 | AGTTGACTGTGATTATGGAGCCA | 59.736 | 43.478 | 0.00 | 0.00 | 0.00 | 4.75 |
2001 | 5923 | 0.509929 | GTTGTACCAGACGCCGTTTC | 59.490 | 55.000 | 0.00 | 0.00 | 0.00 | 2.78 |
2045 | 5967 | 8.618240 | TCCATTATATCCCCTACGTTCATAAT | 57.382 | 34.615 | 0.00 | 0.00 | 0.00 | 1.28 |
2059 | 5981 | 9.838339 | CTAATCCACATTACCTCCATTATATCC | 57.162 | 37.037 | 0.00 | 0.00 | 0.00 | 2.59 |
2075 | 5997 | 7.136822 | TGGAATTACTACTGCTAATCCACAT | 57.863 | 36.000 | 0.00 | 0.00 | 0.00 | 3.21 |
2077 | 5999 | 6.992715 | ACATGGAATTACTACTGCTAATCCAC | 59.007 | 38.462 | 0.00 | 0.00 | 0.00 | 4.02 |
2079 | 6001 | 6.073003 | GCACATGGAATTACTACTGCTAATCC | 60.073 | 42.308 | 0.00 | 0.00 | 0.00 | 3.01 |
2080 | 6002 | 6.708054 | AGCACATGGAATTACTACTGCTAATC | 59.292 | 38.462 | 0.00 | 0.00 | 32.03 | 1.75 |
2081 | 6003 | 6.595682 | AGCACATGGAATTACTACTGCTAAT | 58.404 | 36.000 | 0.00 | 0.00 | 32.03 | 1.73 |
2083 | 6005 | 5.453339 | GGAGCACATGGAATTACTACTGCTA | 60.453 | 44.000 | 6.54 | 0.00 | 33.93 | 3.49 |
2084 | 6006 | 4.446371 | GAGCACATGGAATTACTACTGCT | 58.554 | 43.478 | 6.32 | 6.32 | 36.45 | 4.24 |
2086 | 6008 | 4.769688 | TGGAGCACATGGAATTACTACTG | 58.230 | 43.478 | 0.00 | 0.00 | 0.00 | 2.74 |
2093 | 6015 | 9.537852 | ACAATTATATATGGAGCACATGGAATT | 57.462 | 29.630 | 0.00 | 2.98 | 40.82 | 2.17 |
2094 | 6016 | 9.537852 | AACAATTATATATGGAGCACATGGAAT | 57.462 | 29.630 | 0.00 | 0.00 | 40.82 | 3.01 |
2095 | 6017 | 8.938801 | AACAATTATATATGGAGCACATGGAA | 57.061 | 30.769 | 0.00 | 0.00 | 40.82 | 3.53 |
2097 | 6019 | 8.795513 | TCAAACAATTATATATGGAGCACATGG | 58.204 | 33.333 | 0.00 | 0.00 | 40.82 | 3.66 |
2098 | 6020 | 9.616634 | GTCAAACAATTATATATGGAGCACATG | 57.383 | 33.333 | 4.37 | 0.00 | 40.82 | 3.21 |
2099 | 6021 | 8.796475 | GGTCAAACAATTATATATGGAGCACAT | 58.204 | 33.333 | 0.00 | 0.00 | 43.68 | 3.21 |
2100 | 6022 | 7.998383 | AGGTCAAACAATTATATATGGAGCACA | 59.002 | 33.333 | 0.00 | 0.00 | 0.00 | 4.57 |
2101 | 6023 | 8.396272 | AGGTCAAACAATTATATATGGAGCAC | 57.604 | 34.615 | 0.00 | 0.00 | 0.00 | 4.40 |
2102 | 6024 | 8.849168 | CAAGGTCAAACAATTATATATGGAGCA | 58.151 | 33.333 | 0.00 | 0.00 | 0.00 | 4.26 |
2110 | 6034 | 9.487790 | CCACAAAACAAGGTCAAACAATTATAT | 57.512 | 29.630 | 0.00 | 0.00 | 0.00 | 0.86 |
2314 | 6245 | 1.065854 | GGTCTCTTGTCATCCACCAGG | 60.066 | 57.143 | 0.00 | 0.00 | 0.00 | 4.45 |
2523 | 6458 | 5.497464 | AAAATTGGGGAAAAGGGTACATG | 57.503 | 39.130 | 0.00 | 0.00 | 0.00 | 3.21 |
2636 | 6577 | 7.486407 | AAGTTTTATTCCATCCTTTGCATCT | 57.514 | 32.000 | 0.00 | 0.00 | 0.00 | 2.90 |
2667 | 6653 | 1.512522 | CATCCGCATGTTGCACACG | 60.513 | 57.895 | 0.00 | 0.00 | 45.36 | 4.49 |
2702 | 6688 | 7.050970 | AGGTGATATATACGAGCAAGAAACA | 57.949 | 36.000 | 0.00 | 0.00 | 0.00 | 2.83 |
2741 | 6728 | 8.877601 | TTCATGAAAATGAGGCACAATGGTACA | 61.878 | 37.037 | 5.45 | 0.00 | 35.40 | 2.90 |
2784 | 6795 | 7.436080 | CACTAATCCACATATTTTTCATGGCAC | 59.564 | 37.037 | 0.00 | 0.00 | 0.00 | 5.01 |
2785 | 6796 | 7.417683 | CCACTAATCCACATATTTTTCATGGCA | 60.418 | 37.037 | 0.00 | 0.00 | 0.00 | 4.92 |
2786 | 6797 | 6.925165 | CCACTAATCCACATATTTTTCATGGC | 59.075 | 38.462 | 0.00 | 0.00 | 0.00 | 4.40 |
2787 | 6798 | 8.010733 | ACCACTAATCCACATATTTTTCATGG | 57.989 | 34.615 | 0.00 | 0.00 | 0.00 | 3.66 |
2810 | 6821 | 9.628500 | AGGAAAGAAGTACATGGAATTATTACC | 57.372 | 33.333 | 0.00 | 0.00 | 0.00 | 2.85 |
2826 | 6837 | 7.391833 | GTGGATGTCTATTTTCAGGAAAGAAGT | 59.608 | 37.037 | 0.00 | 0.00 | 0.00 | 3.01 |
2886 | 6898 | 0.248289 | GGTCACCGATCGGGAGAAAA | 59.752 | 55.000 | 35.87 | 12.91 | 45.37 | 2.29 |
2897 | 6917 | 0.251209 | AGCTACTGACAGGTCACCGA | 60.251 | 55.000 | 7.51 | 0.00 | 35.46 | 4.69 |
2921 | 6941 | 2.305635 | TGCCAACATAGTCATCACAGGT | 59.694 | 45.455 | 0.00 | 0.00 | 0.00 | 4.00 |
2922 | 6942 | 2.679837 | GTGCCAACATAGTCATCACAGG | 59.320 | 50.000 | 0.00 | 0.00 | 0.00 | 4.00 |
2924 | 6944 | 3.007831 | TCAGTGCCAACATAGTCATCACA | 59.992 | 43.478 | 0.00 | 0.00 | 0.00 | 3.58 |
2951 | 6971 | 1.261619 | CGGTGAGAGACTTTGTTGTGC | 59.738 | 52.381 | 0.00 | 0.00 | 0.00 | 4.57 |
2983 | 7003 | 5.541845 | TGAACATACTTCTGTTGAGGACTG | 58.458 | 41.667 | 0.00 | 0.00 | 39.40 | 3.51 |
3013 | 7033 | 6.485984 | CCTCATTAAGACCAGAATGATCAAGG | 59.514 | 42.308 | 0.00 | 2.29 | 40.38 | 3.61 |
3014 | 7034 | 6.017275 | GCCTCATTAAGACCAGAATGATCAAG | 60.017 | 42.308 | 0.00 | 0.00 | 40.38 | 3.02 |
3015 | 7035 | 5.824624 | GCCTCATTAAGACCAGAATGATCAA | 59.175 | 40.000 | 0.00 | 0.00 | 40.38 | 2.57 |
3016 | 7036 | 5.131642 | AGCCTCATTAAGACCAGAATGATCA | 59.868 | 40.000 | 0.00 | 0.00 | 40.38 | 2.92 |
3017 | 7037 | 5.619220 | AGCCTCATTAAGACCAGAATGATC | 58.381 | 41.667 | 0.00 | 0.00 | 40.38 | 2.92 |
3018 | 7038 | 5.619220 | GAGCCTCATTAAGACCAGAATGAT | 58.381 | 41.667 | 0.00 | 0.00 | 40.38 | 2.45 |
3019 | 7039 | 4.442052 | CGAGCCTCATTAAGACCAGAATGA | 60.442 | 45.833 | 0.00 | 0.00 | 39.69 | 2.57 |
3020 | 7040 | 3.806521 | CGAGCCTCATTAAGACCAGAATG | 59.193 | 47.826 | 0.00 | 0.00 | 34.89 | 2.67 |
3021 | 7041 | 3.742640 | GCGAGCCTCATTAAGACCAGAAT | 60.743 | 47.826 | 0.00 | 0.00 | 0.00 | 2.40 |
3022 | 7042 | 2.418746 | GCGAGCCTCATTAAGACCAGAA | 60.419 | 50.000 | 0.00 | 0.00 | 0.00 | 3.02 |
3023 | 7043 | 1.137086 | GCGAGCCTCATTAAGACCAGA | 59.863 | 52.381 | 0.00 | 0.00 | 0.00 | 3.86 |
3024 | 7044 | 1.134699 | TGCGAGCCTCATTAAGACCAG | 60.135 | 52.381 | 0.00 | 0.00 | 0.00 | 4.00 |
3025 | 7045 | 0.901827 | TGCGAGCCTCATTAAGACCA | 59.098 | 50.000 | 0.00 | 0.00 | 0.00 | 4.02 |
3026 | 7046 | 2.246719 | ATGCGAGCCTCATTAAGACC | 57.753 | 50.000 | 0.00 | 0.00 | 0.00 | 3.85 |
3027 | 7047 | 2.286654 | GCAATGCGAGCCTCATTAAGAC | 60.287 | 50.000 | 0.00 | 0.00 | 33.27 | 3.01 |
3028 | 7048 | 1.942657 | GCAATGCGAGCCTCATTAAGA | 59.057 | 47.619 | 0.00 | 0.00 | 33.27 | 2.10 |
3029 | 7049 | 1.945394 | AGCAATGCGAGCCTCATTAAG | 59.055 | 47.619 | 0.00 | 0.00 | 33.27 | 1.85 |
3030 | 7050 | 1.672363 | CAGCAATGCGAGCCTCATTAA | 59.328 | 47.619 | 0.00 | 0.00 | 33.27 | 1.40 |
3031 | 7051 | 1.134431 | TCAGCAATGCGAGCCTCATTA | 60.134 | 47.619 | 0.00 | 0.00 | 33.27 | 1.90 |
3032 | 7052 | 0.393402 | TCAGCAATGCGAGCCTCATT | 60.393 | 50.000 | 0.00 | 0.00 | 34.74 | 2.57 |
3033 | 7053 | 0.393402 | TTCAGCAATGCGAGCCTCAT | 60.393 | 50.000 | 0.00 | 0.00 | 0.00 | 2.90 |
3034 | 7054 | 0.606130 | TTTCAGCAATGCGAGCCTCA | 60.606 | 50.000 | 0.00 | 0.00 | 0.00 | 3.86 |
3035 | 7055 | 0.179179 | GTTTCAGCAATGCGAGCCTC | 60.179 | 55.000 | 0.00 | 0.00 | 0.00 | 4.70 |
3036 | 7056 | 0.607489 | AGTTTCAGCAATGCGAGCCT | 60.607 | 50.000 | 0.00 | 0.00 | 0.00 | 4.58 |
3037 | 7057 | 0.179179 | GAGTTTCAGCAATGCGAGCC | 60.179 | 55.000 | 0.00 | 0.00 | 0.00 | 4.70 |
3038 | 7058 | 0.179179 | GGAGTTTCAGCAATGCGAGC | 60.179 | 55.000 | 0.00 | 0.00 | 0.00 | 5.03 |
3039 | 7059 | 1.446907 | AGGAGTTTCAGCAATGCGAG | 58.553 | 50.000 | 0.00 | 0.00 | 0.00 | 5.03 |
3040 | 7060 | 2.760634 | TAGGAGTTTCAGCAATGCGA | 57.239 | 45.000 | 0.00 | 0.00 | 0.00 | 5.10 |
3041 | 7061 | 4.612259 | GCATATAGGAGTTTCAGCAATGCG | 60.612 | 45.833 | 0.00 | 0.00 | 0.00 | 4.73 |
3042 | 7062 | 4.276678 | TGCATATAGGAGTTTCAGCAATGC | 59.723 | 41.667 | 0.00 | 0.00 | 38.10 | 3.56 |
3043 | 7063 | 5.562307 | GCTGCATATAGGAGTTTCAGCAATG | 60.562 | 44.000 | 8.46 | 0.00 | 43.32 | 2.82 |
3044 | 7064 | 4.518211 | GCTGCATATAGGAGTTTCAGCAAT | 59.482 | 41.667 | 8.46 | 0.00 | 43.32 | 3.56 |
3045 | 7065 | 3.879295 | GCTGCATATAGGAGTTTCAGCAA | 59.121 | 43.478 | 8.46 | 0.00 | 43.32 | 3.91 |
3046 | 7066 | 3.470709 | GCTGCATATAGGAGTTTCAGCA | 58.529 | 45.455 | 8.46 | 0.00 | 43.32 | 4.41 |
3047 | 7067 | 2.810852 | GGCTGCATATAGGAGTTTCAGC | 59.189 | 50.000 | 0.50 | 5.66 | 43.17 | 4.26 |
3048 | 7068 | 3.062763 | CGGCTGCATATAGGAGTTTCAG | 58.937 | 50.000 | 0.50 | 0.00 | 38.09 | 3.02 |
3049 | 7069 | 2.434336 | ACGGCTGCATATAGGAGTTTCA | 59.566 | 45.455 | 0.50 | 0.00 | 38.09 | 2.69 |
3050 | 7070 | 3.113260 | ACGGCTGCATATAGGAGTTTC | 57.887 | 47.619 | 0.50 | 0.00 | 38.09 | 2.78 |
3051 | 7071 | 3.555168 | GCTACGGCTGCATATAGGAGTTT | 60.555 | 47.826 | 0.50 | 0.00 | 38.09 | 2.66 |
3052 | 7072 | 2.028930 | GCTACGGCTGCATATAGGAGTT | 60.029 | 50.000 | 0.50 | 0.00 | 38.09 | 3.01 |
3053 | 7073 | 1.546476 | GCTACGGCTGCATATAGGAGT | 59.454 | 52.381 | 0.50 | 0.00 | 38.09 | 3.85 |
3054 | 7074 | 2.285827 | GCTACGGCTGCATATAGGAG | 57.714 | 55.000 | 0.50 | 0.00 | 38.96 | 3.69 |
3090 | 7110 | 2.174685 | TTTCCTCGGGATCTCCATCA | 57.825 | 50.000 | 0.00 | 0.00 | 37.91 | 3.07 |
3143 | 7164 | 3.471680 | GATGCAGAGGTTGGAGGTTATC | 58.528 | 50.000 | 0.00 | 0.00 | 0.00 | 1.75 |
3145 | 7166 | 1.207089 | CGATGCAGAGGTTGGAGGTTA | 59.793 | 52.381 | 0.00 | 0.00 | 0.00 | 2.85 |
3146 | 7167 | 0.036010 | CGATGCAGAGGTTGGAGGTT | 60.036 | 55.000 | 0.00 | 0.00 | 0.00 | 3.50 |
3147 | 7168 | 0.904865 | TCGATGCAGAGGTTGGAGGT | 60.905 | 55.000 | 0.00 | 0.00 | 0.00 | 3.85 |
3148 | 7169 | 0.179089 | CTCGATGCAGAGGTTGGAGG | 60.179 | 60.000 | 0.00 | 0.00 | 34.74 | 4.30 |
3149 | 7170 | 0.809241 | GCTCGATGCAGAGGTTGGAG | 60.809 | 60.000 | 5.23 | 0.00 | 42.31 | 3.86 |
3150 | 7171 | 1.219124 | GCTCGATGCAGAGGTTGGA | 59.781 | 57.895 | 5.23 | 0.00 | 42.31 | 3.53 |
3151 | 7172 | 2.169789 | CGCTCGATGCAGAGGTTGG | 61.170 | 63.158 | 5.23 | 0.00 | 43.06 | 3.77 |
3152 | 7173 | 0.529337 | ATCGCTCGATGCAGAGGTTG | 60.529 | 55.000 | 3.76 | 0.00 | 43.06 | 3.77 |
3153 | 7174 | 0.529337 | CATCGCTCGATGCAGAGGTT | 60.529 | 55.000 | 17.66 | 0.00 | 44.27 | 3.50 |
3154 | 7175 | 1.067084 | CATCGCTCGATGCAGAGGT | 59.933 | 57.895 | 17.66 | 0.00 | 44.27 | 3.85 |
3155 | 7176 | 3.933742 | CATCGCTCGATGCAGAGG | 58.066 | 61.111 | 17.66 | 0.00 | 44.27 | 3.69 |
3162 | 7183 | 2.598045 | GATGTGTGCATCGCTCGAT | 58.402 | 52.632 | 0.00 | 0.00 | 41.60 | 3.59 |
3163 | 7184 | 4.093115 | GATGTGTGCATCGCTCGA | 57.907 | 55.556 | 0.00 | 0.00 | 41.60 | 4.04 |
3170 | 7191 | 7.875041 | GTCTACTATAAAGATGGATGTGTGCAT | 59.125 | 37.037 | 0.00 | 0.00 | 39.30 | 3.96 |
3171 | 7192 | 7.069950 | AGTCTACTATAAAGATGGATGTGTGCA | 59.930 | 37.037 | 0.00 | 0.00 | 0.00 | 4.57 |
3172 | 7193 | 7.437748 | AGTCTACTATAAAGATGGATGTGTGC | 58.562 | 38.462 | 0.00 | 0.00 | 0.00 | 4.57 |
3216 | 7237 | 9.429359 | GTGAGAACTATATCCTTAATGTGATGG | 57.571 | 37.037 | 0.00 | 0.00 | 0.00 | 3.51 |
3220 | 7241 | 9.987272 | TGATGTGAGAACTATATCCTTAATGTG | 57.013 | 33.333 | 0.00 | 0.00 | 0.00 | 3.21 |
3235 | 7256 | 8.492673 | TGGTCTTGTTATTATGATGTGAGAAC | 57.507 | 34.615 | 0.00 | 0.00 | 0.00 | 3.01 |
3243 | 7264 | 7.260603 | GCTTGCTTTGGTCTTGTTATTATGAT | 58.739 | 34.615 | 0.00 | 0.00 | 0.00 | 2.45 |
3250 | 7271 | 2.566913 | TCGCTTGCTTTGGTCTTGTTA | 58.433 | 42.857 | 0.00 | 0.00 | 0.00 | 2.41 |
3256 | 7277 | 0.668535 | ACCTTTCGCTTGCTTTGGTC | 59.331 | 50.000 | 0.00 | 0.00 | 0.00 | 4.02 |
3266 | 7287 | 3.439129 | GCAAATGGTACTAACCTTTCGCT | 59.561 | 43.478 | 0.00 | 0.00 | 46.91 | 4.93 |
3267 | 7288 | 3.189702 | TGCAAATGGTACTAACCTTTCGC | 59.810 | 43.478 | 0.00 | 0.53 | 46.91 | 4.70 |
3285 | 7306 | 1.649321 | TGGTATTGGGCCATTTGCAA | 58.351 | 45.000 | 7.26 | 0.00 | 43.89 | 4.08 |
3287 | 7308 | 2.041701 | AGATGGTATTGGGCCATTTGC | 58.958 | 47.619 | 7.26 | 1.25 | 45.87 | 3.68 |
3317 | 7338 | 3.306472 | AAGCCTTTGGTTTGTACTGGA | 57.694 | 42.857 | 0.00 | 0.00 | 0.00 | 3.86 |
3323 | 7344 | 4.832266 | TGATGTGATAAGCCTTTGGTTTGT | 59.168 | 37.500 | 0.00 | 0.00 | 33.46 | 2.83 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.