Multiple sequence alignment - TraesCS1D01G054000
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 | TraesCS1D01G054000 | chr1D | 100.000 | 3735 | 0 | 0 | 1 | 3735 | 35062092 | 35058358 | 0.000000e+00 | 6898.0 |
1 | TraesCS1D01G054000 | chr1B | 90.688 | 2631 | 102 | 66 | 18 | 2594 | 53366847 | 53364306 | 0.000000e+00 | 3369.0 |
2 | TraesCS1D01G054000 | chr1B | 88.170 | 541 | 25 | 14 | 2614 | 3136 | 53364243 | 53363724 | 3.190000e-170 | 608.0 |
3 | TraesCS1D01G054000 | chr1B | 90.625 | 416 | 38 | 1 | 3317 | 3731 | 53363434 | 53363019 | 5.450000e-153 | 551.0 |
4 | TraesCS1D01G054000 | chr1B | 92.833 | 293 | 21 | 0 | 3175 | 3467 | 53363727 | 53363435 | 3.450000e-115 | 425.0 |
5 | TraesCS1D01G054000 | chr1B | 81.188 | 101 | 16 | 3 | 5 | 103 | 301365576 | 301365477 | 1.110000e-10 | 78.7 |
6 | TraesCS1D01G054000 | chr1A | 89.028 | 1677 | 70 | 44 | 797 | 2426 | 33399108 | 33397499 | 0.000000e+00 | 1973.0 |
7 | TraesCS1D01G054000 | chr1A | 90.327 | 765 | 41 | 20 | 18 | 760 | 33400226 | 33399473 | 0.000000e+00 | 972.0 |
8 | TraesCS1D01G054000 | chr1A | 85.490 | 765 | 71 | 11 | 2834 | 3589 | 33396206 | 33395473 | 0.000000e+00 | 761.0 |
9 | TraesCS1D01G054000 | chr1A | 85.248 | 766 | 71 | 13 | 2834 | 3589 | 33391415 | 33390682 | 0.000000e+00 | 750.0 |
10 | TraesCS1D01G054000 | chr1A | 85.246 | 244 | 17 | 6 | 2609 | 2849 | 33391682 | 33391455 | 2.240000e-57 | 233.0 |
11 | TraesCS1D01G054000 | chr1A | 85.246 | 244 | 17 | 6 | 2609 | 2849 | 33396473 | 33396246 | 2.240000e-57 | 233.0 |
12 | TraesCS1D01G054000 | chr1A | 87.374 | 198 | 5 | 9 | 2241 | 2426 | 33392896 | 33392707 | 3.780000e-50 | 209.0 |
13 | TraesCS1D01G054000 | chr1A | 91.753 | 97 | 7 | 1 | 2498 | 2594 | 33391844 | 33391749 | 2.340000e-27 | 134.0 |
14 | TraesCS1D01G054000 | chr1A | 91.753 | 97 | 7 | 1 | 2498 | 2594 | 33396636 | 33396541 | 2.340000e-27 | 134.0 |
15 | TraesCS1D01G054000 | chr1A | 88.119 | 101 | 12 | 0 | 3630 | 3730 | 33395470 | 33395370 | 1.820000e-23 | 121.0 |
16 | TraesCS1D01G054000 | chr1A | 87.129 | 101 | 13 | 0 | 3630 | 3730 | 33390679 | 33390579 | 8.480000e-22 | 115.0 |
17 | TraesCS1D01G054000 | chr1A | 94.737 | 57 | 1 | 2 | 2446 | 2501 | 33392541 | 33392486 | 1.850000e-13 | 87.9 |
18 | TraesCS1D01G054000 | chr1A | 94.737 | 57 | 1 | 2 | 2446 | 2501 | 33397333 | 33397278 | 1.850000e-13 | 87.9 |
19 | TraesCS1D01G054000 | chr5D | 89.163 | 203 | 22 | 0 | 1204 | 1406 | 254023397 | 254023599 | 1.720000e-63 | 254.0 |
20 | TraesCS1D01G054000 | chr5A | 89.163 | 203 | 22 | 0 | 1204 | 1406 | 336950088 | 336950290 | 1.720000e-63 | 254.0 |
21 | TraesCS1D01G054000 | chr5A | 83.125 | 160 | 25 | 2 | 1227 | 1385 | 111588881 | 111589039 | 1.080000e-30 | 145.0 |
22 | TraesCS1D01G054000 | chr5B | 88.670 | 203 | 23 | 0 | 1204 | 1406 | 288892889 | 288892687 | 8.010000e-62 | 248.0 |
23 | TraesCS1D01G054000 | chr2B | 83.770 | 191 | 29 | 2 | 1200 | 1389 | 740321098 | 740320909 | 2.960000e-41 | 180.0 |
24 | TraesCS1D01G054000 | chr2B | 85.714 | 91 | 12 | 1 | 2 | 91 | 693066111 | 693066201 | 1.100000e-15 | 95.3 |
25 | TraesCS1D01G054000 | chr2D | 83.246 | 191 | 30 | 2 | 1200 | 1389 | 606709655 | 606709844 | 1.380000e-39 | 174.0 |
26 | TraesCS1D01G054000 | chr2D | 87.755 | 49 | 6 | 0 | 3668 | 3716 | 8401577 | 8401625 | 1.450000e-04 | 58.4 |
27 | TraesCS1D01G054000 | chr2A | 82.723 | 191 | 31 | 2 | 1200 | 1389 | 738372126 | 738372315 | 6.420000e-38 | 169.0 |
28 | TraesCS1D01G054000 | chr4D | 84.091 | 88 | 13 | 1 | 5 | 91 | 29018140 | 29018053 | 2.390000e-12 | 84.2 |
29 | TraesCS1D01G054000 | chr3B | 86.301 | 73 | 10 | 0 | 2 | 74 | 652479824 | 652479896 | 3.090000e-11 | 80.5 |
30 | TraesCS1D01G054000 | chr7A | 86.765 | 68 | 9 | 0 | 5 | 72 | 696327894 | 696327961 | 4.000000e-10 | 76.8 |
31 | TraesCS1D01G054000 | chr3A | 80.645 | 93 | 13 | 4 | 2 | 91 | 12925893 | 12925983 | 2.410000e-07 | 67.6 |
32 | TraesCS1D01G054000 | chr7B | 80.282 | 71 | 12 | 2 | 5 | 74 | 749158335 | 749158266 | 7.000000e-03 | 52.8 |
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 | TraesCS1D01G054000 | chr1D | 35058358 | 35062092 | 3734 | True | 6898.000000 | 6898 | 100.000000 | 1 | 3735 | 1 | chr1D.!!$R1 | 3734 |
1 | TraesCS1D01G054000 | chr1B | 53363019 | 53366847 | 3828 | True | 1238.250000 | 3369 | 90.579000 | 18 | 3731 | 4 | chr1B.!!$R2 | 3713 |
2 | TraesCS1D01G054000 | chr1A | 33390579 | 33400226 | 9647 | True | 446.984615 | 1973 | 88.937462 | 18 | 3730 | 13 | chr1A.!!$R1 | 3712 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
232 | 257 | 0.681564 | AAAGGCGTGGTGGTCACAAA | 60.682 | 50.000 | 3.40 | 0.00 | 46.36 | 2.83 | F |
835 | 1194 | 1.079197 | TCTACACACCCATGCGCTG | 60.079 | 57.895 | 9.73 | 4.25 | 0.00 | 5.18 | F |
1849 | 2247 | 0.038166 | GTGATTTCAGGGTGGAGGCA | 59.962 | 55.000 | 0.00 | 0.00 | 0.00 | 4.75 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1849 | 2247 | 0.035881 | TACTCCGGCGATCCTACGAT | 59.964 | 55.0 | 9.3 | 0.0 | 35.09 | 3.73 | R |
2445 | 3021 | 0.108424 | AGTACGACCTCGCTACGACT | 60.108 | 55.0 | 0.0 | 0.0 | 44.43 | 4.18 | R |
3598 | 9790 | 0.036732 | CTAGAAACCCTGTGGCAGCA | 59.963 | 55.0 | 0.0 | 0.0 | 33.59 | 4.41 | 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 |
---|---|---|---|---|---|---|---|---|---|
35 | 36 | 4.547532 | ACTTCAGTGATTGTAGTCGTCAC | 58.452 | 43.478 | 0.00 | 0.00 | 41.88 | 3.67 |
55 | 56 | 6.238759 | CGTCACTAGATGGTCTATGAACATGA | 60.239 | 42.308 | 0.00 | 0.00 | 40.37 | 3.07 |
61 | 62 | 6.873997 | AGATGGTCTATGAACATGAACGTAA | 58.126 | 36.000 | 0.00 | 0.00 | 40.37 | 3.18 |
99 | 114 | 8.689251 | TTGTCTTCTTTGTACTGAATAGATCG | 57.311 | 34.615 | 0.00 | 0.00 | 0.00 | 3.69 |
100 | 115 | 8.051901 | TGTCTTCTTTGTACTGAATAGATCGA | 57.948 | 34.615 | 0.00 | 0.00 | 0.00 | 3.59 |
110 | 126 | 6.301169 | ACTGAATAGATCGAAGTTTTCCCT | 57.699 | 37.500 | 0.00 | 0.00 | 0.00 | 4.20 |
112 | 128 | 6.819146 | ACTGAATAGATCGAAGTTTTCCCTTC | 59.181 | 38.462 | 0.00 | 0.00 | 37.96 | 3.46 |
122 | 138 | 5.462068 | CGAAGTTTTCCCTTCATTTGTTTCC | 59.538 | 40.000 | 0.00 | 0.00 | 40.72 | 3.13 |
123 | 139 | 4.944048 | AGTTTTCCCTTCATTTGTTTCCG | 58.056 | 39.130 | 0.00 | 0.00 | 0.00 | 4.30 |
124 | 140 | 4.647399 | AGTTTTCCCTTCATTTGTTTCCGA | 59.353 | 37.500 | 0.00 | 0.00 | 0.00 | 4.55 |
125 | 141 | 4.846779 | TTTCCCTTCATTTGTTTCCGAG | 57.153 | 40.909 | 0.00 | 0.00 | 0.00 | 4.63 |
126 | 142 | 2.790433 | TCCCTTCATTTGTTTCCGAGG | 58.210 | 47.619 | 0.00 | 0.00 | 0.00 | 4.63 |
127 | 143 | 1.818674 | CCCTTCATTTGTTTCCGAGGG | 59.181 | 52.381 | 0.00 | 0.00 | 0.00 | 4.30 |
198 | 216 | 5.393027 | GCTCTACTCTCAGTTCCTTCTCTTG | 60.393 | 48.000 | 0.00 | 0.00 | 0.00 | 3.02 |
202 | 220 | 4.651503 | ACTCTCAGTTCCTTCTCTTGAACA | 59.348 | 41.667 | 5.32 | 0.00 | 42.57 | 3.18 |
210 | 228 | 5.186996 | TCCTTCTCTTGAACATGCAAAAC | 57.813 | 39.130 | 0.00 | 0.00 | 0.00 | 2.43 |
216 | 234 | 7.293402 | TCTCTTGAACATGCAAAACAAAAAG | 57.707 | 32.000 | 0.00 | 0.00 | 0.00 | 2.27 |
232 | 257 | 0.681564 | AAAGGCGTGGTGGTCACAAA | 60.682 | 50.000 | 3.40 | 0.00 | 46.36 | 2.83 |
243 | 268 | 2.808543 | GTGGTCACAAACTCCTCACATC | 59.191 | 50.000 | 0.00 | 0.00 | 0.00 | 3.06 |
244 | 269 | 2.437651 | TGGTCACAAACTCCTCACATCA | 59.562 | 45.455 | 0.00 | 0.00 | 0.00 | 3.07 |
325 | 350 | 2.353011 | CGTGCATGCCTCTCCAATTTTT | 60.353 | 45.455 | 16.68 | 0.00 | 0.00 | 1.94 |
456 | 481 | 3.599046 | ACACGTAGTAGTAGCGTATGC | 57.401 | 47.619 | 0.00 | 0.00 | 41.61 | 3.14 |
488 | 513 | 5.523552 | CACTGACATGTATATTCCGCTTCAA | 59.476 | 40.000 | 0.00 | 0.00 | 0.00 | 2.69 |
634 | 664 | 3.753797 | GAGGAGACAGAACCAAAATGTCC | 59.246 | 47.826 | 1.18 | 0.00 | 43.47 | 4.02 |
766 | 832 | 5.804473 | CACACACACACACACACATTAATTT | 59.196 | 36.000 | 0.00 | 0.00 | 0.00 | 1.82 |
834 | 1193 | 1.219124 | CTCTACACACCCATGCGCT | 59.781 | 57.895 | 9.73 | 0.00 | 0.00 | 5.92 |
835 | 1194 | 1.079197 | TCTACACACCCATGCGCTG | 60.079 | 57.895 | 9.73 | 4.25 | 0.00 | 5.18 |
873 | 1235 | 3.306088 | CGTTCCCTCTCTAACACACACAT | 60.306 | 47.826 | 0.00 | 0.00 | 0.00 | 3.21 |
874 | 1236 | 4.082408 | CGTTCCCTCTCTAACACACACATA | 60.082 | 45.833 | 0.00 | 0.00 | 0.00 | 2.29 |
875 | 1237 | 5.169295 | GTTCCCTCTCTAACACACACATAC | 58.831 | 45.833 | 0.00 | 0.00 | 0.00 | 2.39 |
876 | 1238 | 4.412843 | TCCCTCTCTAACACACACATACA | 58.587 | 43.478 | 0.00 | 0.00 | 0.00 | 2.29 |
877 | 1239 | 4.219944 | TCCCTCTCTAACACACACATACAC | 59.780 | 45.833 | 0.00 | 0.00 | 0.00 | 2.90 |
878 | 1240 | 4.220821 | CCCTCTCTAACACACACATACACT | 59.779 | 45.833 | 0.00 | 0.00 | 0.00 | 3.55 |
1058 | 1422 | 2.039613 | CAGCAAACTCCCCTTCTCTTCT | 59.960 | 50.000 | 0.00 | 0.00 | 0.00 | 2.85 |
1059 | 1423 | 2.304470 | AGCAAACTCCCCTTCTCTTCTC | 59.696 | 50.000 | 0.00 | 0.00 | 0.00 | 2.87 |
1060 | 1424 | 2.304470 | GCAAACTCCCCTTCTCTTCTCT | 59.696 | 50.000 | 0.00 | 0.00 | 0.00 | 3.10 |
1585 | 1958 | 2.184579 | GGCTACGACCAGCACCTC | 59.815 | 66.667 | 9.84 | 0.00 | 43.67 | 3.85 |
1619 | 1992 | 1.141019 | CCAGCTTCCGCTTACGCTA | 59.859 | 57.895 | 0.00 | 0.00 | 46.47 | 4.26 |
1797 | 2184 | 3.157932 | AGCTACGTTCATCTTGAGCTC | 57.842 | 47.619 | 6.82 | 6.82 | 35.38 | 4.09 |
1834 | 2231 | 6.438741 | CCTGACCTCATATATACCACTGTGAT | 59.561 | 42.308 | 9.86 | 0.00 | 0.00 | 3.06 |
1849 | 2247 | 0.038166 | GTGATTTCAGGGTGGAGGCA | 59.962 | 55.000 | 0.00 | 0.00 | 0.00 | 4.75 |
1851 | 2249 | 1.064463 | TGATTTCAGGGTGGAGGCATC | 60.064 | 52.381 | 0.00 | 0.00 | 0.00 | 3.91 |
2064 | 2462 | 1.068753 | CGCGATCAAGGAGGAGCAT | 59.931 | 57.895 | 0.00 | 0.00 | 0.00 | 3.79 |
2108 | 2513 | 3.056465 | CCAACCTATAGCTAGCTACCAGC | 60.056 | 52.174 | 26.41 | 0.00 | 42.84 | 4.85 |
2120 | 2525 | 2.799814 | CTACCAGCAGCAGCAGCAGT | 62.800 | 60.000 | 12.92 | 11.16 | 45.49 | 4.40 |
2121 | 2526 | 3.738246 | CCAGCAGCAGCAGCAGTG | 61.738 | 66.667 | 12.92 | 2.28 | 45.49 | 3.66 |
2192 | 2603 | 0.729116 | GTACGTACGCAGGTAGAGCA | 59.271 | 55.000 | 16.72 | 0.00 | 0.00 | 4.26 |
2193 | 2604 | 1.012086 | TACGTACGCAGGTAGAGCAG | 58.988 | 55.000 | 16.72 | 0.00 | 0.00 | 4.24 |
2194 | 2605 | 1.586564 | CGTACGCAGGTAGAGCAGC | 60.587 | 63.158 | 0.52 | 0.00 | 0.00 | 5.25 |
2195 | 2606 | 1.511305 | GTACGCAGGTAGAGCAGCA | 59.489 | 57.895 | 0.00 | 0.00 | 0.00 | 4.41 |
2196 | 2607 | 0.526524 | GTACGCAGGTAGAGCAGCAG | 60.527 | 60.000 | 0.00 | 0.00 | 0.00 | 4.24 |
2197 | 2608 | 2.284798 | TACGCAGGTAGAGCAGCAGC | 62.285 | 60.000 | 0.00 | 0.00 | 42.56 | 5.25 |
2198 | 2609 | 2.267006 | GCAGGTAGAGCAGCAGCA | 59.733 | 61.111 | 3.17 | 0.00 | 45.49 | 4.41 |
2199 | 2610 | 1.814586 | GCAGGTAGAGCAGCAGCAG | 60.815 | 63.158 | 3.17 | 0.00 | 45.49 | 4.24 |
2200 | 2611 | 1.814586 | CAGGTAGAGCAGCAGCAGC | 60.815 | 63.158 | 3.17 | 0.46 | 45.49 | 5.25 |
2227 | 2638 | 8.406172 | GTACGTAGGAGTACTATCATACTAGC | 57.594 | 42.308 | 0.00 | 0.00 | 42.58 | 3.42 |
2231 | 2642 | 8.249638 | CGTAGGAGTACTATCATACTAGCAGTA | 58.750 | 40.741 | 0.00 | 0.00 | 35.48 | 2.74 |
2279 | 2690 | 8.609478 | TTTTTCGTTGATTATTAATCCGCTTC | 57.391 | 30.769 | 12.71 | 0.78 | 37.09 | 3.86 |
2282 | 2693 | 6.046593 | TCGTTGATTATTAATCCGCTTCAGT | 58.953 | 36.000 | 12.71 | 0.00 | 37.09 | 3.41 |
2444 | 3020 | 3.621682 | AGCCAAGGACTAGCTAGGTAT | 57.378 | 47.619 | 24.35 | 3.74 | 34.38 | 2.73 |
2445 | 3021 | 4.743705 | AGCCAAGGACTAGCTAGGTATA | 57.256 | 45.455 | 24.35 | 0.00 | 34.38 | 1.47 |
2446 | 3022 | 4.668636 | AGCCAAGGACTAGCTAGGTATAG | 58.331 | 47.826 | 24.35 | 10.99 | 34.38 | 1.31 |
2447 | 3023 | 4.106663 | AGCCAAGGACTAGCTAGGTATAGT | 59.893 | 45.833 | 24.35 | 4.87 | 34.38 | 2.12 |
2448 | 3024 | 4.460034 | GCCAAGGACTAGCTAGGTATAGTC | 59.540 | 50.000 | 24.35 | 13.91 | 44.69 | 2.59 |
2532 | 3753 | 3.525268 | TCGACATGCATCTTAGCTTCA | 57.475 | 42.857 | 0.00 | 0.00 | 34.99 | 3.02 |
2571 | 3793 | 1.001974 | GAAATGTTCCTTGTTGCCCCC | 59.998 | 52.381 | 0.00 | 0.00 | 0.00 | 5.40 |
2591 | 3813 | 2.050144 | CCACTAGTGCATGGGTATCCT | 58.950 | 52.381 | 17.86 | 0.00 | 31.83 | 3.24 |
2594 | 3816 | 4.102524 | CCACTAGTGCATGGGTATCCTAAA | 59.897 | 45.833 | 17.86 | 0.00 | 31.83 | 1.85 |
2595 | 3817 | 5.397447 | CCACTAGTGCATGGGTATCCTAAAA | 60.397 | 44.000 | 17.86 | 0.00 | 31.83 | 1.52 |
2596 | 3818 | 6.119536 | CACTAGTGCATGGGTATCCTAAAAA | 58.880 | 40.000 | 10.54 | 0.00 | 0.00 | 1.94 |
2599 | 3821 | 4.949856 | AGTGCATGGGTATCCTAAAAACAG | 59.050 | 41.667 | 0.00 | 0.00 | 0.00 | 3.16 |
2600 | 3822 | 4.947388 | GTGCATGGGTATCCTAAAAACAGA | 59.053 | 41.667 | 0.00 | 0.00 | 0.00 | 3.41 |
2601 | 3823 | 4.947388 | TGCATGGGTATCCTAAAAACAGAC | 59.053 | 41.667 | 0.00 | 0.00 | 0.00 | 3.51 |
2602 | 3824 | 4.947388 | GCATGGGTATCCTAAAAACAGACA | 59.053 | 41.667 | 0.00 | 0.00 | 0.00 | 3.41 |
2603 | 3825 | 5.417580 | GCATGGGTATCCTAAAAACAGACAA | 59.582 | 40.000 | 0.00 | 0.00 | 0.00 | 3.18 |
2604 | 3826 | 6.404734 | GCATGGGTATCCTAAAAACAGACAAG | 60.405 | 42.308 | 0.00 | 0.00 | 0.00 | 3.16 |
2606 | 3828 | 5.222048 | TGGGTATCCTAAAAACAGACAAGCT | 60.222 | 40.000 | 0.00 | 0.00 | 0.00 | 3.74 |
2607 | 3829 | 5.354513 | GGGTATCCTAAAAACAGACAAGCTC | 59.645 | 44.000 | 0.00 | 0.00 | 0.00 | 4.09 |
2612 | 3895 | 7.346751 | TCCTAAAAACAGACAAGCTCAAAAT | 57.653 | 32.000 | 0.00 | 0.00 | 0.00 | 1.82 |
2626 | 3909 | 3.942115 | GCTCAAAATTGGGGACTAGAGTC | 59.058 | 47.826 | 0.00 | 0.75 | 44.04 | 3.36 |
2628 | 3911 | 3.835978 | TCAAAATTGGGGACTAGAGTCGA | 59.164 | 43.478 | 0.00 | 0.00 | 45.65 | 4.20 |
2640 | 3923 | 6.157211 | GGACTAGAGTCGAATTCAAGTTTGA | 58.843 | 40.000 | 6.22 | 0.00 | 45.65 | 2.69 |
2679 | 3965 | 8.507249 | AGGTAAAAATGAGATTTGTTCGAGAAG | 58.493 | 33.333 | 0.00 | 0.00 | 31.77 | 2.85 |
2727 | 4013 | 9.461312 | TTCTGCCTCTGTGTGTAATTTAAATAT | 57.539 | 29.630 | 0.01 | 0.00 | 0.00 | 1.28 |
2778 | 4064 | 4.532834 | ACACCGCCTTAATTATTGATGGT | 58.467 | 39.130 | 0.00 | 0.00 | 0.00 | 3.55 |
2786 | 4072 | 6.856426 | GCCTTAATTATTGATGGTTTCGTAGC | 59.144 | 38.462 | 0.00 | 0.00 | 0.00 | 3.58 |
2862 | 4210 | 2.142356 | TTAACTGACATGGCATGGGG | 57.858 | 50.000 | 29.49 | 20.10 | 33.60 | 4.96 |
2878 | 4227 | 4.680440 | GCATGGGGCCAACATAAAACTAAG | 60.680 | 45.833 | 4.39 | 0.00 | 36.11 | 2.18 |
2904 | 4255 | 3.609853 | AGTTCAAACTGAGTGTGCAAGA | 58.390 | 40.909 | 0.00 | 0.00 | 37.98 | 3.02 |
2954 | 4305 | 3.574074 | CTGGTCCCCAGCCCAACAG | 62.574 | 68.421 | 0.00 | 0.00 | 45.13 | 3.16 |
2987 | 4338 | 5.340403 | CACACACACACAATCAAATCGAATC | 59.660 | 40.000 | 0.00 | 0.00 | 0.00 | 2.52 |
3038 | 4390 | 8.773645 | CGCAGATGGATTTACTCATGTAATTAA | 58.226 | 33.333 | 0.00 | 0.00 | 38.31 | 1.40 |
3048 | 4400 | 4.947388 | ACTCATGTAATTAACCAACGGCAT | 59.053 | 37.500 | 0.00 | 0.00 | 0.00 | 4.40 |
3095 | 4447 | 4.666412 | TTCCAAATGGACCCACATCTAA | 57.334 | 40.909 | 0.54 | 0.00 | 45.39 | 2.10 |
3098 | 4450 | 4.955450 | TCCAAATGGACCCACATCTAAATG | 59.045 | 41.667 | 0.00 | 0.00 | 39.78 | 2.32 |
3143 | 4496 | 9.768215 | AATCTACATATTTTCCCCTTTTTGAGA | 57.232 | 29.630 | 0.00 | 0.00 | 0.00 | 3.27 |
3144 | 4497 | 9.768215 | ATCTACATATTTTCCCCTTTTTGAGAA | 57.232 | 29.630 | 0.00 | 0.00 | 0.00 | 2.87 |
3145 | 4498 | 9.594936 | TCTACATATTTTCCCCTTTTTGAGAAA | 57.405 | 29.630 | 0.00 | 0.00 | 0.00 | 2.52 |
3263 | 4662 | 2.150719 | ATGTCGGTCAACCCCACCA | 61.151 | 57.895 | 0.00 | 0.00 | 32.89 | 4.17 |
3300 | 4699 | 2.541466 | CCCTTCTCAGTCCCACTAGTT | 58.459 | 52.381 | 0.00 | 0.00 | 0.00 | 2.24 |
3345 | 4744 | 2.354103 | CCCGCTCTTGATCTTCACTCAA | 60.354 | 50.000 | 0.00 | 0.00 | 0.00 | 3.02 |
3361 | 4760 | 2.028567 | ACTCAAGAGTTGCTCCAGCTAC | 60.029 | 50.000 | 5.14 | 5.14 | 44.91 | 3.58 |
3396 | 9587 | 0.107410 | ACAAGTTGTCCTTCGTGCCA | 60.107 | 50.000 | 1.64 | 0.00 | 0.00 | 4.92 |
3428 | 9619 | 2.579201 | CGATGGACCAAGACCGCT | 59.421 | 61.111 | 0.00 | 0.00 | 0.00 | 5.52 |
3429 | 9620 | 1.813859 | CGATGGACCAAGACCGCTA | 59.186 | 57.895 | 0.00 | 0.00 | 0.00 | 4.26 |
3436 | 9627 | 0.324943 | ACCAAGACCGCTACATGCTT | 59.675 | 50.000 | 0.00 | 0.00 | 40.11 | 3.91 |
3449 | 9640 | 0.453282 | CATGCTTGCCTTCAACGACG | 60.453 | 55.000 | 0.00 | 0.00 | 0.00 | 5.12 |
3450 | 9641 | 0.602638 | ATGCTTGCCTTCAACGACGA | 60.603 | 50.000 | 0.00 | 0.00 | 0.00 | 4.20 |
3498 | 9689 | 0.325933 | CCCAGTGCTCTCCAACATCA | 59.674 | 55.000 | 0.00 | 0.00 | 0.00 | 3.07 |
3508 | 9699 | 2.644299 | TCTCCAACATCACCCACTTCAT | 59.356 | 45.455 | 0.00 | 0.00 | 0.00 | 2.57 |
3514 | 9705 | 2.108075 | ACATCACCCACTTCATCACCAA | 59.892 | 45.455 | 0.00 | 0.00 | 0.00 | 3.67 |
3535 | 9726 | 0.895530 | TTTTTGTTTGGTGGTGCCGA | 59.104 | 45.000 | 0.00 | 0.00 | 41.21 | 5.54 |
3572 | 9764 | 1.871080 | CTTAGGTTCCTGCTATGCCG | 58.129 | 55.000 | 1.12 | 0.00 | 0.00 | 5.69 |
3606 | 9798 | 1.339055 | TGGTGTCTCTAATGCTGCCAC | 60.339 | 52.381 | 0.00 | 0.00 | 0.00 | 5.01 |
3626 | 9818 | 1.455773 | GGGTTTCTAGGGCATGGGC | 60.456 | 63.158 | 0.00 | 0.00 | 40.13 | 5.36 |
3628 | 9820 | 0.466372 | GGTTTCTAGGGCATGGGCTC | 60.466 | 60.000 | 0.00 | 0.00 | 42.47 | 4.70 |
3671 | 9863 | 0.030908 | GATAGAACTCCCCACTCGCG | 59.969 | 60.000 | 0.00 | 0.00 | 0.00 | 5.87 |
3683 | 9875 | 0.734253 | CACTCGCGAGGGCTATATGC | 60.734 | 60.000 | 36.93 | 0.00 | 41.94 | 3.14 |
3684 | 9876 | 0.896019 | ACTCGCGAGGGCTATATGCT | 60.896 | 55.000 | 36.93 | 11.80 | 42.39 | 3.79 |
3731 | 9923 | 0.535335 | CCTAAGGGCAACGTCTAGCA | 59.465 | 55.000 | 9.36 | 0.00 | 37.60 | 3.49 |
3732 | 9924 | 1.066430 | CCTAAGGGCAACGTCTAGCAA | 60.066 | 52.381 | 9.36 | 0.00 | 37.60 | 3.91 |
3733 | 9925 | 2.271800 | CTAAGGGCAACGTCTAGCAAG | 58.728 | 52.381 | 9.36 | 0.00 | 37.60 | 4.01 |
3734 | 9926 | 0.955919 | AAGGGCAACGTCTAGCAAGC | 60.956 | 55.000 | 9.36 | 0.00 | 37.60 | 4.01 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
0 | 1 | 0.039074 | CTGAAGTGAGCCGAAGACGT | 60.039 | 55.000 | 0.00 | 0.00 | 37.88 | 4.34 |
1 | 2 | 0.039074 | ACTGAAGTGAGCCGAAGACG | 60.039 | 55.000 | 0.00 | 0.00 | 39.43 | 4.18 |
2 | 3 | 3.896317 | ACTGAAGTGAGCCGAAGAC | 57.104 | 52.632 | 0.00 | 0.00 | 0.00 | 3.01 |
12 | 13 | 4.383052 | GTGACGACTACAATCACTGAAGTG | 59.617 | 45.833 | 3.98 | 3.98 | 46.91 | 3.16 |
13 | 14 | 4.547532 | GTGACGACTACAATCACTGAAGT | 58.452 | 43.478 | 0.00 | 0.00 | 39.72 | 3.01 |
22 | 23 | 5.194432 | AGACCATCTAGTGACGACTACAAT | 58.806 | 41.667 | 0.00 | 0.00 | 33.21 | 2.71 |
28 | 29 | 5.066117 | TGTTCATAGACCATCTAGTGACGAC | 59.934 | 44.000 | 0.00 | 0.00 | 31.67 | 4.34 |
31 | 32 | 7.043961 | TCATGTTCATAGACCATCTAGTGAC | 57.956 | 40.000 | 0.00 | 0.00 | 31.67 | 3.67 |
35 | 36 | 6.507900 | ACGTTCATGTTCATAGACCATCTAG | 58.492 | 40.000 | 0.00 | 0.00 | 31.67 | 2.43 |
99 | 114 | 5.462068 | CGGAAACAAATGAAGGGAAAACTTC | 59.538 | 40.000 | 0.00 | 0.00 | 45.49 | 3.01 |
100 | 115 | 5.128008 | TCGGAAACAAATGAAGGGAAAACTT | 59.872 | 36.000 | 0.00 | 0.00 | 0.00 | 2.66 |
110 | 126 | 3.068873 | CCAAACCCTCGGAAACAAATGAA | 59.931 | 43.478 | 0.00 | 0.00 | 0.00 | 2.57 |
112 | 128 | 2.866065 | GCCAAACCCTCGGAAACAAATG | 60.866 | 50.000 | 0.00 | 0.00 | 0.00 | 2.32 |
122 | 138 | 2.368875 | AGATACTATGGCCAAACCCTCG | 59.631 | 50.000 | 10.96 | 0.00 | 37.83 | 4.63 |
123 | 139 | 3.648545 | AGAGATACTATGGCCAAACCCTC | 59.351 | 47.826 | 10.96 | 11.98 | 37.83 | 4.30 |
124 | 140 | 3.392616 | CAGAGATACTATGGCCAAACCCT | 59.607 | 47.826 | 10.96 | 2.04 | 37.83 | 4.34 |
125 | 141 | 3.391296 | TCAGAGATACTATGGCCAAACCC | 59.609 | 47.826 | 10.96 | 0.00 | 37.83 | 4.11 |
126 | 142 | 4.689612 | TCAGAGATACTATGGCCAAACC | 57.310 | 45.455 | 10.96 | 0.00 | 39.84 | 3.27 |
127 | 143 | 8.677148 | TTTTATCAGAGATACTATGGCCAAAC | 57.323 | 34.615 | 10.96 | 0.00 | 0.00 | 2.93 |
198 | 216 | 3.063316 | ACGCCTTTTTGTTTTGCATGTTC | 59.937 | 39.130 | 0.00 | 0.00 | 0.00 | 3.18 |
202 | 220 | 1.939255 | CCACGCCTTTTTGTTTTGCAT | 59.061 | 42.857 | 0.00 | 0.00 | 0.00 | 3.96 |
210 | 228 | 0.248866 | GTGACCACCACGCCTTTTTG | 60.249 | 55.000 | 0.00 | 0.00 | 35.86 | 2.44 |
232 | 257 | 0.107312 | GGCTGCATGATGTGAGGAGT | 60.107 | 55.000 | 0.50 | 0.00 | 0.00 | 3.85 |
243 | 268 | 1.735198 | CGTGGCTTTTGGCTGCATG | 60.735 | 57.895 | 0.50 | 0.00 | 46.20 | 4.06 |
244 | 269 | 1.252904 | ATCGTGGCTTTTGGCTGCAT | 61.253 | 50.000 | 0.50 | 0.00 | 46.20 | 3.96 |
325 | 350 | 5.983118 | CGTATATGCTGTATGTGGAAGTTGA | 59.017 | 40.000 | 0.00 | 0.00 | 0.00 | 3.18 |
456 | 481 | 3.520290 | ATACATGTCAGTGGGTACGTG | 57.480 | 47.619 | 0.00 | 2.04 | 38.35 | 4.49 |
506 | 531 | 4.860072 | TCGCATGTGCTCTATAACACTAG | 58.140 | 43.478 | 0.00 | 0.00 | 37.68 | 2.57 |
661 | 691 | 3.199891 | GCCGGCCCGTTGTATGAC | 61.200 | 66.667 | 18.11 | 0.00 | 0.00 | 3.06 |
834 | 1193 | 3.369681 | GGAACGGTCTAGAGAGAGAGACA | 60.370 | 52.174 | 0.00 | 0.00 | 43.28 | 3.41 |
835 | 1194 | 3.200483 | GGAACGGTCTAGAGAGAGAGAC | 58.800 | 54.545 | 0.00 | 0.00 | 41.19 | 3.36 |
873 | 1235 | 4.041075 | AGAGAGAGTGAGTGAGTGAGTGTA | 59.959 | 45.833 | 0.00 | 0.00 | 0.00 | 2.90 |
874 | 1236 | 3.146066 | GAGAGAGTGAGTGAGTGAGTGT | 58.854 | 50.000 | 0.00 | 0.00 | 0.00 | 3.55 |
875 | 1237 | 3.411446 | AGAGAGAGTGAGTGAGTGAGTG | 58.589 | 50.000 | 0.00 | 0.00 | 0.00 | 3.51 |
876 | 1238 | 3.327757 | AGAGAGAGAGTGAGTGAGTGAGT | 59.672 | 47.826 | 0.00 | 0.00 | 0.00 | 3.41 |
877 | 1239 | 3.935203 | GAGAGAGAGAGTGAGTGAGTGAG | 59.065 | 52.174 | 0.00 | 0.00 | 0.00 | 3.51 |
878 | 1240 | 3.582647 | AGAGAGAGAGAGTGAGTGAGTGA | 59.417 | 47.826 | 0.00 | 0.00 | 0.00 | 3.41 |
1058 | 1422 | 6.494952 | AGGTGTACTAGGATGAAGAAGAAGA | 58.505 | 40.000 | 0.00 | 0.00 | 0.00 | 2.87 |
1059 | 1423 | 6.783708 | AGGTGTACTAGGATGAAGAAGAAG | 57.216 | 41.667 | 0.00 | 0.00 | 0.00 | 2.85 |
1060 | 1424 | 7.554959 | AAAGGTGTACTAGGATGAAGAAGAA | 57.445 | 36.000 | 0.00 | 0.00 | 0.00 | 2.52 |
1225 | 1598 | 0.600518 | CCAGGATCATCAGCTGCTCG | 60.601 | 60.000 | 9.47 | 0.00 | 0.00 | 5.03 |
1538 | 1911 | 1.025812 | CAGGAGGCGGAGTAGTACTG | 58.974 | 60.000 | 7.76 | 0.00 | 0.00 | 2.74 |
1539 | 1912 | 0.752376 | GCAGGAGGCGGAGTAGTACT | 60.752 | 60.000 | 1.37 | 1.37 | 0.00 | 2.73 |
1540 | 1913 | 1.734748 | GCAGGAGGCGGAGTAGTAC | 59.265 | 63.158 | 0.00 | 0.00 | 0.00 | 2.73 |
1619 | 1992 | 4.394712 | GGCGTACCCAGCAGCAGT | 62.395 | 66.667 | 0.00 | 0.00 | 36.08 | 4.40 |
1690 | 2066 | 0.953960 | GATGGAAGGACAACGGCGTT | 60.954 | 55.000 | 21.19 | 21.19 | 0.00 | 4.84 |
1697 | 2073 | 1.444933 | ACCTGGTGATGGAAGGACAA | 58.555 | 50.000 | 0.00 | 0.00 | 34.97 | 3.18 |
1797 | 2184 | 2.219458 | GAGGTCAGGTCATGCATGATG | 58.781 | 52.381 | 30.89 | 24.82 | 40.21 | 3.07 |
1834 | 2231 | 1.299648 | CGATGCCTCCACCCTGAAA | 59.700 | 57.895 | 0.00 | 0.00 | 0.00 | 2.69 |
1849 | 2247 | 0.035881 | TACTCCGGCGATCCTACGAT | 59.964 | 55.000 | 9.30 | 0.00 | 35.09 | 3.73 |
1851 | 2249 | 0.883814 | AGTACTCCGGCGATCCTACG | 60.884 | 60.000 | 9.30 | 0.00 | 0.00 | 3.51 |
1994 | 2392 | 4.052229 | AGAACAGCCCCGTCGTCG | 62.052 | 66.667 | 0.00 | 0.00 | 0.00 | 5.12 |
1995 | 2393 | 2.432628 | CAGAACAGCCCCGTCGTC | 60.433 | 66.667 | 0.00 | 0.00 | 0.00 | 4.20 |
1996 | 2394 | 4.681978 | GCAGAACAGCCCCGTCGT | 62.682 | 66.667 | 0.00 | 0.00 | 0.00 | 4.34 |
2108 | 2513 | 3.420606 | CGACCACTGCTGCTGCTG | 61.421 | 66.667 | 18.66 | 18.66 | 42.70 | 4.41 |
2120 | 2525 | 2.530177 | CTCTACGTACTACGACGACCA | 58.470 | 52.381 | 15.49 | 0.00 | 46.05 | 4.02 |
2121 | 2526 | 1.256635 | GCTCTACGTACTACGACGACC | 59.743 | 57.143 | 15.49 | 0.00 | 46.05 | 4.79 |
2170 | 2581 | 2.778659 | CTCTACCTGCGTACGTACAAC | 58.221 | 52.381 | 24.50 | 16.16 | 0.00 | 3.32 |
2171 | 2582 | 1.131126 | GCTCTACCTGCGTACGTACAA | 59.869 | 52.381 | 24.50 | 11.63 | 0.00 | 2.41 |
2192 | 2603 | 0.965866 | TCCTACGTACTGCTGCTGCT | 60.966 | 55.000 | 17.00 | 0.00 | 40.48 | 4.24 |
2193 | 2604 | 0.526524 | CTCCTACGTACTGCTGCTGC | 60.527 | 60.000 | 8.89 | 8.89 | 40.20 | 5.25 |
2194 | 2605 | 0.811915 | ACTCCTACGTACTGCTGCTG | 59.188 | 55.000 | 4.89 | 4.89 | 0.00 | 4.41 |
2195 | 2606 | 2.015587 | GTACTCCTACGTACTGCTGCT | 58.984 | 52.381 | 0.00 | 0.00 | 37.39 | 4.24 |
2196 | 2607 | 2.015587 | AGTACTCCTACGTACTGCTGC | 58.984 | 52.381 | 3.08 | 0.00 | 46.08 | 5.25 |
2197 | 2608 | 5.055144 | TGATAGTACTCCTACGTACTGCTG | 58.945 | 45.833 | 12.45 | 0.00 | 46.91 | 4.41 |
2198 | 2609 | 5.287674 | TGATAGTACTCCTACGTACTGCT | 57.712 | 43.478 | 12.45 | 2.04 | 46.91 | 4.24 |
2199 | 2610 | 6.873076 | AGTATGATAGTACTCCTACGTACTGC | 59.127 | 42.308 | 12.45 | 6.43 | 46.91 | 4.40 |
2200 | 2611 | 9.571810 | CTAGTATGATAGTACTCCTACGTACTG | 57.428 | 40.741 | 20.72 | 13.21 | 46.91 | 2.74 |
2227 | 2638 | 8.141909 | TCGATGGGAATTACTACAAAGATACTG | 58.858 | 37.037 | 0.00 | 0.00 | 0.00 | 2.74 |
2231 | 2642 | 8.980481 | AAATCGATGGGAATTACTACAAAGAT | 57.020 | 30.769 | 0.00 | 0.00 | 0.00 | 2.40 |
2237 | 2648 | 7.242914 | ACGAAAAATCGATGGGAATTACTAC | 57.757 | 36.000 | 0.00 | 0.00 | 36.85 | 2.73 |
2238 | 2649 | 7.549842 | TCAACGAAAAATCGATGGGAATTACTA | 59.450 | 33.333 | 0.00 | 0.00 | 36.71 | 1.82 |
2239 | 2650 | 6.373216 | TCAACGAAAAATCGATGGGAATTACT | 59.627 | 34.615 | 0.00 | 0.00 | 36.71 | 2.24 |
2279 | 2690 | 5.982516 | GCTGAAGATCATCAGGTACTAACTG | 59.017 | 44.000 | 25.01 | 0.00 | 45.60 | 3.16 |
2427 | 2852 | 5.307204 | ACGACTATACCTAGCTAGTCCTTG | 58.693 | 45.833 | 19.31 | 6.23 | 40.38 | 3.61 |
2444 | 3020 | 1.135139 | AGTACGACCTCGCTACGACTA | 59.865 | 52.381 | 0.00 | 0.00 | 44.43 | 2.59 |
2445 | 3021 | 0.108424 | AGTACGACCTCGCTACGACT | 60.108 | 55.000 | 0.00 | 0.00 | 44.43 | 4.18 |
2446 | 3022 | 0.723981 | AAGTACGACCTCGCTACGAC | 59.276 | 55.000 | 0.00 | 0.00 | 44.43 | 4.34 |
2447 | 3023 | 1.927174 | GTAAGTACGACCTCGCTACGA | 59.073 | 52.381 | 0.00 | 0.00 | 44.43 | 3.43 |
2448 | 3024 | 2.359523 | GTAAGTACGACCTCGCTACG | 57.640 | 55.000 | 0.00 | 0.00 | 44.43 | 3.51 |
2532 | 3753 | 5.981088 | TTTCATCCATGCATACACACTTT | 57.019 | 34.783 | 0.00 | 0.00 | 0.00 | 2.66 |
2571 | 3793 | 2.050144 | AGGATACCCATGCACTAGTGG | 58.950 | 52.381 | 23.95 | 9.72 | 35.22 | 4.00 |
2572 | 3794 | 4.955811 | TTAGGATACCCATGCACTAGTG | 57.044 | 45.455 | 18.93 | 18.93 | 33.88 | 2.74 |
2573 | 3795 | 5.968676 | TTTTAGGATACCCATGCACTAGT | 57.031 | 39.130 | 0.00 | 0.00 | 33.88 | 2.57 |
2587 | 3809 | 6.959639 | TTTGAGCTTGTCTGTTTTTAGGAT | 57.040 | 33.333 | 0.00 | 0.00 | 0.00 | 3.24 |
2591 | 3813 | 6.760770 | CCCAATTTTGAGCTTGTCTGTTTTTA | 59.239 | 34.615 | 0.00 | 0.00 | 0.00 | 1.52 |
2594 | 3816 | 4.443315 | CCCCAATTTTGAGCTTGTCTGTTT | 60.443 | 41.667 | 0.00 | 0.00 | 0.00 | 2.83 |
2595 | 3817 | 3.070015 | CCCCAATTTTGAGCTTGTCTGTT | 59.930 | 43.478 | 0.00 | 0.00 | 0.00 | 3.16 |
2596 | 3818 | 2.629617 | CCCCAATTTTGAGCTTGTCTGT | 59.370 | 45.455 | 0.00 | 0.00 | 0.00 | 3.41 |
2599 | 3821 | 2.893489 | AGTCCCCAATTTTGAGCTTGTC | 59.107 | 45.455 | 0.00 | 0.00 | 0.00 | 3.18 |
2600 | 3822 | 2.962859 | AGTCCCCAATTTTGAGCTTGT | 58.037 | 42.857 | 0.00 | 0.00 | 0.00 | 3.16 |
2601 | 3823 | 4.335416 | TCTAGTCCCCAATTTTGAGCTTG | 58.665 | 43.478 | 0.00 | 0.00 | 0.00 | 4.01 |
2602 | 3824 | 4.043435 | ACTCTAGTCCCCAATTTTGAGCTT | 59.957 | 41.667 | 0.00 | 0.00 | 0.00 | 3.74 |
2603 | 3825 | 3.589288 | ACTCTAGTCCCCAATTTTGAGCT | 59.411 | 43.478 | 0.00 | 0.00 | 0.00 | 4.09 |
2604 | 3826 | 3.942115 | GACTCTAGTCCCCAATTTTGAGC | 59.058 | 47.826 | 0.00 | 0.00 | 39.07 | 4.26 |
2606 | 3828 | 3.835978 | TCGACTCTAGTCCCCAATTTTGA | 59.164 | 43.478 | 4.58 | 0.00 | 41.86 | 2.69 |
2607 | 3829 | 4.202245 | TCGACTCTAGTCCCCAATTTTG | 57.798 | 45.455 | 4.58 | 0.00 | 41.86 | 2.44 |
2612 | 3895 | 3.437213 | TGAATTCGACTCTAGTCCCCAA | 58.563 | 45.455 | 4.58 | 0.00 | 41.86 | 4.12 |
2626 | 3909 | 4.083537 | TGAATCCGGTCAAACTTGAATTCG | 60.084 | 41.667 | 0.00 | 6.94 | 39.21 | 3.34 |
2628 | 3911 | 4.022329 | GGTGAATCCGGTCAAACTTGAATT | 60.022 | 41.667 | 0.00 | 0.00 | 39.21 | 2.17 |
2640 | 3923 | 3.512219 | TTTTACCTTGGTGAATCCGGT | 57.488 | 42.857 | 0.00 | 0.00 | 39.52 | 5.28 |
2679 | 3965 | 8.861101 | CAGAAAATCTCAAAATTGCTCTGAATC | 58.139 | 33.333 | 0.00 | 0.00 | 34.42 | 2.52 |
2732 | 4018 | 9.575783 | TGTTAAAAGCTAAAGAAAACGACATTT | 57.424 | 25.926 | 0.00 | 0.00 | 0.00 | 2.32 |
2733 | 4019 | 9.016623 | GTGTTAAAAGCTAAAGAAAACGACATT | 57.983 | 29.630 | 0.00 | 0.00 | 0.00 | 2.71 |
2734 | 4020 | 7.646526 | GGTGTTAAAAGCTAAAGAAAACGACAT | 59.353 | 33.333 | 0.00 | 0.00 | 0.00 | 3.06 |
2736 | 4022 | 6.139638 | CGGTGTTAAAAGCTAAAGAAAACGAC | 59.860 | 38.462 | 0.00 | 0.00 | 0.00 | 4.34 |
2737 | 4023 | 6.193761 | CGGTGTTAAAAGCTAAAGAAAACGA | 58.806 | 36.000 | 0.00 | 0.00 | 0.00 | 3.85 |
2738 | 4024 | 5.108518 | GCGGTGTTAAAAGCTAAAGAAAACG | 60.109 | 40.000 | 0.00 | 0.00 | 0.00 | 3.60 |
2739 | 4025 | 5.174398 | GGCGGTGTTAAAAGCTAAAGAAAAC | 59.826 | 40.000 | 0.00 | 0.00 | 0.00 | 2.43 |
2740 | 4026 | 5.068067 | AGGCGGTGTTAAAAGCTAAAGAAAA | 59.932 | 36.000 | 0.00 | 0.00 | 0.00 | 2.29 |
2741 | 4027 | 4.581409 | AGGCGGTGTTAAAAGCTAAAGAAA | 59.419 | 37.500 | 0.00 | 0.00 | 0.00 | 2.52 |
2742 | 4028 | 4.139038 | AGGCGGTGTTAAAAGCTAAAGAA | 58.861 | 39.130 | 0.00 | 0.00 | 0.00 | 2.52 |
2743 | 4029 | 3.746940 | AGGCGGTGTTAAAAGCTAAAGA | 58.253 | 40.909 | 0.00 | 0.00 | 0.00 | 2.52 |
2744 | 4030 | 4.499037 | AAGGCGGTGTTAAAAGCTAAAG | 57.501 | 40.909 | 0.00 | 0.00 | 0.00 | 1.85 |
2745 | 4031 | 6.578163 | ATTAAGGCGGTGTTAAAAGCTAAA | 57.422 | 33.333 | 0.00 | 0.00 | 0.00 | 1.85 |
2746 | 4032 | 6.578163 | AATTAAGGCGGTGTTAAAAGCTAA | 57.422 | 33.333 | 0.00 | 0.00 | 0.00 | 3.09 |
2747 | 4033 | 7.868906 | ATAATTAAGGCGGTGTTAAAAGCTA | 57.131 | 32.000 | 0.00 | 0.00 | 0.00 | 3.32 |
2748 | 4034 | 6.769134 | ATAATTAAGGCGGTGTTAAAAGCT | 57.231 | 33.333 | 0.00 | 0.00 | 0.00 | 3.74 |
2749 | 4035 | 7.030768 | TCAATAATTAAGGCGGTGTTAAAAGC | 58.969 | 34.615 | 0.00 | 0.00 | 0.00 | 3.51 |
2750 | 4036 | 9.019764 | CATCAATAATTAAGGCGGTGTTAAAAG | 57.980 | 33.333 | 0.00 | 0.00 | 0.00 | 2.27 |
2756 | 4042 | 4.532834 | ACCATCAATAATTAAGGCGGTGT | 58.467 | 39.130 | 0.00 | 0.00 | 0.00 | 4.16 |
2778 | 4064 | 0.108992 | CGCCACCAGTAGCTACGAAA | 60.109 | 55.000 | 17.99 | 0.00 | 0.00 | 3.46 |
2862 | 4210 | 7.918562 | TGAACTTGAACTTAGTTTTATGTTGGC | 59.081 | 33.333 | 14.33 | 6.58 | 36.04 | 4.52 |
2870 | 4219 | 8.793592 | ACTCAGTTTGAACTTGAACTTAGTTTT | 58.206 | 29.630 | 0.00 | 0.00 | 37.14 | 2.43 |
2878 | 4227 | 4.098416 | GCACACTCAGTTTGAACTTGAAC | 58.902 | 43.478 | 0.00 | 0.00 | 37.08 | 3.18 |
2904 | 4255 | 3.369892 | CGACAGGGAAGAACATTCTCCAT | 60.370 | 47.826 | 0.00 | 0.00 | 36.28 | 3.41 |
2954 | 4305 | 1.269569 | TGTGTGTGTGTGGTCGATCTC | 60.270 | 52.381 | 0.00 | 0.00 | 0.00 | 2.75 |
2987 | 4338 | 1.695893 | CTGCGCAGTGGTGGTTATCG | 61.696 | 60.000 | 29.24 | 0.00 | 0.00 | 2.92 |
2990 | 4341 | 2.668212 | GCTGCGCAGTGGTGGTTA | 60.668 | 61.111 | 35.80 | 0.00 | 0.00 | 2.85 |
3008 | 4359 | 1.258982 | GAGTAAATCCATCTGCGTGCG | 59.741 | 52.381 | 0.00 | 0.00 | 0.00 | 5.34 |
3009 | 4360 | 2.279741 | TGAGTAAATCCATCTGCGTGC | 58.720 | 47.619 | 0.00 | 0.00 | 0.00 | 5.34 |
3010 | 4361 | 3.873361 | ACATGAGTAAATCCATCTGCGTG | 59.127 | 43.478 | 0.00 | 0.00 | 0.00 | 5.34 |
3011 | 4362 | 4.142609 | ACATGAGTAAATCCATCTGCGT | 57.857 | 40.909 | 0.00 | 0.00 | 0.00 | 5.24 |
3048 | 4400 | 2.280524 | CACTCGTCGTTGGGCCAA | 60.281 | 61.111 | 16.66 | 16.66 | 0.00 | 4.52 |
3119 | 4472 | 9.594936 | TTTCTCAAAAAGGGGAAAATATGTAGA | 57.405 | 29.630 | 0.00 | 0.00 | 0.00 | 2.59 |
3149 | 4502 | 9.530633 | GGTATGTTCTTCTCGTTGTATTTAGAT | 57.469 | 33.333 | 0.00 | 0.00 | 0.00 | 1.98 |
3150 | 4503 | 7.977853 | GGGTATGTTCTTCTCGTTGTATTTAGA | 59.022 | 37.037 | 0.00 | 0.00 | 0.00 | 2.10 |
3151 | 4504 | 7.980099 | AGGGTATGTTCTTCTCGTTGTATTTAG | 59.020 | 37.037 | 0.00 | 0.00 | 0.00 | 1.85 |
3152 | 4505 | 7.844009 | AGGGTATGTTCTTCTCGTTGTATTTA | 58.156 | 34.615 | 0.00 | 0.00 | 0.00 | 1.40 |
3153 | 4506 | 6.708285 | AGGGTATGTTCTTCTCGTTGTATTT | 58.292 | 36.000 | 0.00 | 0.00 | 0.00 | 1.40 |
3154 | 4507 | 6.295719 | AGGGTATGTTCTTCTCGTTGTATT | 57.704 | 37.500 | 0.00 | 0.00 | 0.00 | 1.89 |
3155 | 4508 | 5.163437 | GGAGGGTATGTTCTTCTCGTTGTAT | 60.163 | 44.000 | 0.00 | 0.00 | 0.00 | 2.29 |
3156 | 4509 | 4.159135 | GGAGGGTATGTTCTTCTCGTTGTA | 59.841 | 45.833 | 0.00 | 0.00 | 0.00 | 2.41 |
3157 | 4510 | 3.056035 | GGAGGGTATGTTCTTCTCGTTGT | 60.056 | 47.826 | 0.00 | 0.00 | 0.00 | 3.32 |
3158 | 4511 | 3.056107 | TGGAGGGTATGTTCTTCTCGTTG | 60.056 | 47.826 | 0.00 | 0.00 | 0.00 | 4.10 |
3159 | 4512 | 3.170717 | TGGAGGGTATGTTCTTCTCGTT | 58.829 | 45.455 | 0.00 | 0.00 | 0.00 | 3.85 |
3160 | 4513 | 2.816411 | TGGAGGGTATGTTCTTCTCGT | 58.184 | 47.619 | 0.00 | 0.00 | 0.00 | 4.18 |
3161 | 4514 | 3.133003 | ACATGGAGGGTATGTTCTTCTCG | 59.867 | 47.826 | 0.00 | 0.00 | 35.32 | 4.04 |
3162 | 4515 | 4.762289 | ACATGGAGGGTATGTTCTTCTC | 57.238 | 45.455 | 0.00 | 0.00 | 35.32 | 2.87 |
3163 | 4516 | 5.251700 | AGAAACATGGAGGGTATGTTCTTCT | 59.748 | 40.000 | 0.00 | 2.55 | 45.28 | 2.85 |
3164 | 4517 | 5.501156 | AGAAACATGGAGGGTATGTTCTTC | 58.499 | 41.667 | 0.00 | 0.54 | 45.28 | 2.87 |
3165 | 4518 | 5.520748 | AGAAACATGGAGGGTATGTTCTT | 57.479 | 39.130 | 0.00 | 0.00 | 45.28 | 2.52 |
3166 | 4519 | 5.520748 | AAGAAACATGGAGGGTATGTTCT | 57.479 | 39.130 | 0.00 | 1.92 | 45.28 | 3.01 |
3167 | 4520 | 6.590234 | AAAAGAAACATGGAGGGTATGTTC | 57.410 | 37.500 | 0.00 | 0.00 | 45.28 | 3.18 |
3169 | 4522 | 7.728532 | AGTTAAAAAGAAACATGGAGGGTATGT | 59.271 | 33.333 | 0.00 | 0.00 | 40.30 | 2.29 |
3170 | 4523 | 8.122472 | AGTTAAAAAGAAACATGGAGGGTATG | 57.878 | 34.615 | 0.00 | 0.00 | 0.00 | 2.39 |
3171 | 4524 | 8.721133 | AAGTTAAAAAGAAACATGGAGGGTAT | 57.279 | 30.769 | 0.00 | 0.00 | 0.00 | 2.73 |
3172 | 4525 | 8.417884 | CAAAGTTAAAAAGAAACATGGAGGGTA | 58.582 | 33.333 | 0.00 | 0.00 | 0.00 | 3.69 |
3173 | 4526 | 7.125053 | TCAAAGTTAAAAAGAAACATGGAGGGT | 59.875 | 33.333 | 0.00 | 0.00 | 0.00 | 4.34 |
3263 | 4662 | 2.555547 | GGGACTTGCAGCAAACGCT | 61.556 | 57.895 | 9.65 | 0.00 | 41.67 | 5.07 |
3300 | 4699 | 2.571757 | GACATGGCGGAGTGACGA | 59.428 | 61.111 | 0.00 | 0.00 | 35.47 | 4.20 |
3332 | 4731 | 4.562347 | GGAGCAACTCTTGAGTGAAGATCA | 60.562 | 45.833 | 3.87 | 0.00 | 40.06 | 2.92 |
3345 | 4744 | 1.893786 | CGGTAGCTGGAGCAACTCT | 59.106 | 57.895 | 0.00 | 0.00 | 45.16 | 3.24 |
3361 | 4760 | 2.997986 | ACTTGTATTGTAACGGAAGCGG | 59.002 | 45.455 | 0.00 | 0.00 | 0.00 | 5.52 |
3396 | 9587 | 3.329542 | ATCGCCGACAGTGCCCATT | 62.330 | 57.895 | 0.00 | 0.00 | 0.00 | 3.16 |
3428 | 9619 | 1.804151 | GTCGTTGAAGGCAAGCATGTA | 59.196 | 47.619 | 0.00 | 0.00 | 34.01 | 2.29 |
3429 | 9620 | 0.593128 | GTCGTTGAAGGCAAGCATGT | 59.407 | 50.000 | 0.00 | 0.00 | 34.01 | 3.21 |
3436 | 9627 | 0.103390 | TGAAGTCGTCGTTGAAGGCA | 59.897 | 50.000 | 0.00 | 0.00 | 0.00 | 4.75 |
3449 | 9640 | 4.429108 | GGTATGAGCAGAGAGTTGAAGTC | 58.571 | 47.826 | 0.00 | 0.00 | 0.00 | 3.01 |
3450 | 9641 | 3.119316 | CGGTATGAGCAGAGAGTTGAAGT | 60.119 | 47.826 | 0.00 | 0.00 | 0.00 | 3.01 |
3572 | 9764 | 3.933515 | ACCACTGGTGTTGGTTGC | 58.066 | 55.556 | 0.00 | 0.00 | 32.98 | 4.17 |
3593 | 9785 | 0.698238 | AACCCTGTGGCAGCATTAGA | 59.302 | 50.000 | 0.00 | 0.00 | 33.59 | 2.10 |
3598 | 9790 | 0.036732 | CTAGAAACCCTGTGGCAGCA | 59.963 | 55.000 | 0.00 | 0.00 | 33.59 | 4.41 |
3606 | 9798 | 0.106519 | CCCATGCCCTAGAAACCCTG | 60.107 | 60.000 | 0.00 | 0.00 | 0.00 | 4.45 |
3626 | 9818 | 0.737367 | TGATTGACAAGCTCGGCGAG | 60.737 | 55.000 | 31.40 | 31.40 | 0.00 | 5.03 |
3628 | 9820 | 2.161831 | TTGATTGACAAGCTCGGCG | 58.838 | 52.632 | 0.00 | 0.00 | 34.20 | 6.46 |
3636 | 9828 | 7.009179 | AGTTCTATCAGTCCTTGATTGACAA | 57.991 | 36.000 | 0.00 | 0.00 | 44.14 | 3.18 |
3683 | 9875 | 2.702592 | TTAGGAATTGGTACGGGCAG | 57.297 | 50.000 | 0.00 | 0.00 | 0.00 | 4.85 |
3684 | 9876 | 3.071892 | CCTATTAGGAATTGGTACGGGCA | 59.928 | 47.826 | 3.41 | 0.00 | 37.67 | 5.36 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.