Multiple sequence alignment - TraesCS2B01G205700
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 | TraesCS2B01G205700 | chr2B | 100.000 | 4194 | 0 | 0 | 1 | 4194 | 184771883 | 184776076 | 0.000000e+00 | 7745.0 |
1 | TraesCS2B01G205700 | chr2B | 92.920 | 113 | 7 | 1 | 2149 | 2261 | 76549925 | 76550036 | 3.360000e-36 | 163.0 |
2 | TraesCS2B01G205700 | chr2D | 90.767 | 1603 | 84 | 35 | 700 | 2269 | 131276908 | 131278479 | 0.000000e+00 | 2082.0 |
3 | TraesCS2B01G205700 | chr2D | 93.493 | 1337 | 61 | 10 | 2281 | 3612 | 131278573 | 131279888 | 0.000000e+00 | 1964.0 |
4 | TraesCS2B01G205700 | chr2D | 86.020 | 608 | 66 | 14 | 1 | 598 | 131272225 | 131272823 | 5.920000e-178 | 634.0 |
5 | TraesCS2B01G205700 | chr2D | 93.143 | 175 | 4 | 3 | 4012 | 4178 | 131281214 | 131281388 | 2.500000e-62 | 250.0 |
6 | TraesCS2B01G205700 | chr2D | 92.308 | 169 | 10 | 2 | 3608 | 3774 | 131280696 | 131280863 | 1.950000e-58 | 237.0 |
7 | TraesCS2B01G205700 | chr2D | 86.224 | 196 | 15 | 5 | 3826 | 4015 | 131280861 | 131281050 | 7.110000e-48 | 202.0 |
8 | TraesCS2B01G205700 | chr2A | 90.469 | 1364 | 100 | 18 | 687 | 2035 | 137931510 | 137932858 | 0.000000e+00 | 1772.0 |
9 | TraesCS2B01G205700 | chr2A | 89.702 | 738 | 55 | 16 | 2281 | 3012 | 137933212 | 137933934 | 0.000000e+00 | 922.0 |
10 | TraesCS2B01G205700 | chr2A | 83.571 | 560 | 73 | 11 | 70 | 611 | 137929738 | 137930296 | 1.350000e-139 | 507.0 |
11 | TraesCS2B01G205700 | chr2A | 85.598 | 493 | 54 | 11 | 3009 | 3493 | 137933975 | 137934458 | 6.260000e-138 | 501.0 |
12 | TraesCS2B01G205700 | chr2A | 91.304 | 230 | 19 | 1 | 2036 | 2265 | 137932895 | 137933123 | 3.150000e-81 | 313.0 |
13 | TraesCS2B01G205700 | chr6D | 86.406 | 1074 | 103 | 32 | 992 | 2038 | 5978572 | 5977515 | 0.000000e+00 | 1134.0 |
14 | TraesCS2B01G205700 | chr6D | 89.046 | 283 | 19 | 7 | 813 | 1093 | 471075112 | 471075384 | 1.440000e-89 | 340.0 |
15 | TraesCS2B01G205700 | chr6D | 82.804 | 378 | 43 | 14 | 3108 | 3477 | 5976618 | 5976255 | 6.770000e-83 | 318.0 |
16 | TraesCS2B01G205700 | chr6A | 84.241 | 1212 | 139 | 37 | 992 | 2172 | 5321617 | 5320427 | 0.000000e+00 | 1133.0 |
17 | TraesCS2B01G205700 | chr6A | 83.158 | 380 | 49 | 10 | 3070 | 3445 | 5319425 | 5319057 | 2.420000e-87 | 333.0 |
18 | TraesCS2B01G205700 | chr6A | 94.313 | 211 | 10 | 2 | 2051 | 2261 | 247559572 | 247559780 | 5.230000e-84 | 322.0 |
19 | TraesCS2B01G205700 | chr6B | 83.180 | 1088 | 118 | 42 | 994 | 2038 | 11288849 | 11287784 | 0.000000e+00 | 935.0 |
20 | TraesCS2B01G205700 | chr6B | 89.430 | 719 | 59 | 10 | 2297 | 3012 | 125020575 | 125021279 | 0.000000e+00 | 891.0 |
21 | TraesCS2B01G205700 | chr6B | 88.178 | 719 | 64 | 10 | 2297 | 3012 | 4148052 | 4148752 | 0.000000e+00 | 837.0 |
22 | TraesCS2B01G205700 | chr6B | 79.904 | 418 | 50 | 21 | 3069 | 3476 | 11286584 | 11286191 | 4.130000e-70 | 276.0 |
23 | TraesCS2B01G205700 | chr6B | 92.357 | 157 | 11 | 1 | 937 | 1093 | 719480436 | 719480281 | 5.460000e-54 | 222.0 |
24 | TraesCS2B01G205700 | chr6B | 85.385 | 130 | 8 | 6 | 813 | 940 | 719485203 | 719485083 | 1.580000e-24 | 124.0 |
25 | TraesCS2B01G205700 | chr6B | 81.915 | 94 | 14 | 3 | 1159 | 1252 | 70032138 | 70032048 | 4.500000e-10 | 76.8 |
26 | TraesCS2B01G205700 | chr1D | 89.291 | 719 | 60 | 10 | 2297 | 3012 | 360102604 | 360103308 | 0.000000e+00 | 885.0 |
27 | TraesCS2B01G205700 | chr7D | 88.873 | 719 | 63 | 10 | 2297 | 3012 | 636195806 | 636195102 | 0.000000e+00 | 869.0 |
28 | TraesCS2B01G205700 | chr7D | 88.750 | 720 | 66 | 12 | 2297 | 3012 | 636156694 | 636155986 | 0.000000e+00 | 867.0 |
29 | TraesCS2B01G205700 | chr7D | 88.595 | 719 | 65 | 10 | 2297 | 3012 | 64418693 | 64417989 | 0.000000e+00 | 857.0 |
30 | TraesCS2B01G205700 | chr7D | 90.112 | 536 | 52 | 1 | 1500 | 2035 | 329811554 | 329812088 | 0.000000e+00 | 695.0 |
31 | TraesCS2B01G205700 | chr5B | 88.595 | 719 | 65 | 10 | 2297 | 3012 | 206760268 | 206759564 | 0.000000e+00 | 857.0 |
32 | TraesCS2B01G205700 | chr7B | 91.694 | 301 | 23 | 2 | 1666 | 1966 | 701399776 | 701400074 | 2.330000e-112 | 416.0 |
33 | TraesCS2B01G205700 | chr7B | 90.820 | 305 | 26 | 2 | 1666 | 1970 | 645437115 | 645436813 | 1.400000e-109 | 407.0 |
34 | TraesCS2B01G205700 | chr7B | 92.920 | 113 | 7 | 1 | 2149 | 2261 | 701400104 | 701400215 | 3.360000e-36 | 163.0 |
35 | TraesCS2B01G205700 | chr4B | 91.060 | 302 | 25 | 2 | 1666 | 1967 | 626991693 | 626991992 | 1.400000e-109 | 407.0 |
36 | TraesCS2B01G205700 | chr5A | 94.787 | 211 | 10 | 1 | 2051 | 2261 | 161403997 | 161403788 | 1.120000e-85 | 327.0 |
37 | TraesCS2B01G205700 | chr5A | 94.313 | 211 | 11 | 1 | 2051 | 2261 | 179212238 | 179212029 | 5.230000e-84 | 322.0 |
38 | TraesCS2B01G205700 | chr3D | 94.545 | 165 | 8 | 1 | 2097 | 2261 | 519930490 | 519930653 | 1.940000e-63 | 254.0 |
39 | TraesCS2B01G205700 | chr3B | 93.805 | 113 | 6 | 1 | 2149 | 2261 | 681350412 | 681350523 | 7.210000e-38 | 169.0 |
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 | TraesCS2B01G205700 | chr2B | 184771883 | 184776076 | 4193 | False | 7745.0 | 7745 | 100.0000 | 1 | 4194 | 1 | chr2B.!!$F2 | 4193 |
1 | TraesCS2B01G205700 | chr2D | 131276908 | 131281388 | 4480 | False | 947.0 | 2082 | 91.1870 | 700 | 4178 | 5 | chr2D.!!$F2 | 3478 |
2 | TraesCS2B01G205700 | chr2D | 131272225 | 131272823 | 598 | False | 634.0 | 634 | 86.0200 | 1 | 598 | 1 | chr2D.!!$F1 | 597 |
3 | TraesCS2B01G205700 | chr2A | 137929738 | 137934458 | 4720 | False | 803.0 | 1772 | 88.1288 | 70 | 3493 | 5 | chr2A.!!$F1 | 3423 |
4 | TraesCS2B01G205700 | chr6D | 5976255 | 5978572 | 2317 | True | 726.0 | 1134 | 84.6050 | 992 | 3477 | 2 | chr6D.!!$R1 | 2485 |
5 | TraesCS2B01G205700 | chr6A | 5319057 | 5321617 | 2560 | True | 733.0 | 1133 | 83.6995 | 992 | 3445 | 2 | chr6A.!!$R1 | 2453 |
6 | TraesCS2B01G205700 | chr6B | 125020575 | 125021279 | 704 | False | 891.0 | 891 | 89.4300 | 2297 | 3012 | 1 | chr6B.!!$F2 | 715 |
7 | TraesCS2B01G205700 | chr6B | 4148052 | 4148752 | 700 | False | 837.0 | 837 | 88.1780 | 2297 | 3012 | 1 | chr6B.!!$F1 | 715 |
8 | TraesCS2B01G205700 | chr6B | 11286191 | 11288849 | 2658 | True | 605.5 | 935 | 81.5420 | 994 | 3476 | 2 | chr6B.!!$R4 | 2482 |
9 | TraesCS2B01G205700 | chr1D | 360102604 | 360103308 | 704 | False | 885.0 | 885 | 89.2910 | 2297 | 3012 | 1 | chr1D.!!$F1 | 715 |
10 | TraesCS2B01G205700 | chr7D | 636195102 | 636195806 | 704 | True | 869.0 | 869 | 88.8730 | 2297 | 3012 | 1 | chr7D.!!$R3 | 715 |
11 | TraesCS2B01G205700 | chr7D | 636155986 | 636156694 | 708 | True | 867.0 | 867 | 88.7500 | 2297 | 3012 | 1 | chr7D.!!$R2 | 715 |
12 | TraesCS2B01G205700 | chr7D | 64417989 | 64418693 | 704 | True | 857.0 | 857 | 88.5950 | 2297 | 3012 | 1 | chr7D.!!$R1 | 715 |
13 | TraesCS2B01G205700 | chr7D | 329811554 | 329812088 | 534 | False | 695.0 | 695 | 90.1120 | 1500 | 2035 | 1 | chr7D.!!$F1 | 535 |
14 | TraesCS2B01G205700 | chr5B | 206759564 | 206760268 | 704 | True | 857.0 | 857 | 88.5950 | 2297 | 3012 | 1 | chr5B.!!$R1 | 715 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
545 | 560 | 0.322546 | GTCTCCCAAAGCCCGAACAT | 60.323 | 55.0 | 0.0 | 0.0 | 0.0 | 2.71 | F |
1317 | 2521 | 0.534412 | AGATGCAAGGTCTGTCTCCG | 59.466 | 55.0 | 0.0 | 0.0 | 0.0 | 4.63 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1584 | 2817 | 0.506932 | CAACACACGTGCTTACCTCG | 59.493 | 55.0 | 17.22 | 0.0 | 36.57 | 4.63 | R |
3270 | 4833 | 0.249784 | CCGCCATCTCATCCTCACTG | 60.250 | 60.0 | 0.00 | 0.0 | 0.00 | 3.66 | 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 |
---|---|---|---|---|---|---|---|---|---|
19 | 20 | 3.335356 | ATGGCCAGGTCTCTTGCGG | 62.335 | 63.158 | 13.05 | 0.00 | 32.96 | 5.69 |
21 | 22 | 2.743928 | GCCAGGTCTCTTGCGGTG | 60.744 | 66.667 | 0.00 | 0.00 | 0.00 | 4.94 |
66 | 67 | 5.665459 | AGTTCTAGACTTGATATGTGTGGC | 58.335 | 41.667 | 0.00 | 0.00 | 33.92 | 5.01 |
67 | 68 | 4.307443 | TCTAGACTTGATATGTGTGGCG | 57.693 | 45.455 | 0.00 | 0.00 | 0.00 | 5.69 |
68 | 69 | 2.315925 | AGACTTGATATGTGTGGCGG | 57.684 | 50.000 | 0.00 | 0.00 | 0.00 | 6.13 |
75 | 76 | 3.485394 | TGATATGTGTGGCGGCATATTT | 58.515 | 40.909 | 17.19 | 6.77 | 38.12 | 1.40 |
82 | 83 | 5.105752 | TGTGTGGCGGCATATTTTAAATTC | 58.894 | 37.500 | 17.19 | 0.00 | 0.00 | 2.17 |
86 | 87 | 6.478344 | TGTGGCGGCATATTTTAAATTCATTC | 59.522 | 34.615 | 17.19 | 0.00 | 0.00 | 2.67 |
91 | 92 | 7.599998 | GCGGCATATTTTAAATTCATTCCAGAT | 59.400 | 33.333 | 0.00 | 0.00 | 0.00 | 2.90 |
107 | 109 | 8.978539 | TCATTCCAGATTTTTCGACGATATTAG | 58.021 | 33.333 | 0.00 | 0.00 | 0.00 | 1.73 |
123 | 125 | 7.861630 | ACGATATTAGTTCAATTACATGGCAC | 58.138 | 34.615 | 0.00 | 0.00 | 0.00 | 5.01 |
136 | 138 | 3.747976 | GGCACGCCCATCAACCAC | 61.748 | 66.667 | 0.00 | 0.00 | 0.00 | 4.16 |
175 | 178 | 8.826546 | CGATTTCGTCAATATCAAAATCTGTT | 57.173 | 30.769 | 0.00 | 0.00 | 35.29 | 3.16 |
209 | 213 | 6.441093 | TCCTTGATTCGAAGGATTTTCATG | 57.559 | 37.500 | 3.35 | 3.82 | 45.52 | 3.07 |
220 | 224 | 6.091169 | CGAAGGATTTTCATGTGATTTTTGGG | 59.909 | 38.462 | 0.00 | 0.00 | 0.00 | 4.12 |
221 | 225 | 6.438186 | AGGATTTTCATGTGATTTTTGGGT | 57.562 | 33.333 | 0.00 | 0.00 | 0.00 | 4.51 |
239 | 244 | 8.950007 | TTTTGGGTGTTAGAATCCTTAAGAAT | 57.050 | 30.769 | 3.36 | 0.00 | 0.00 | 2.40 |
266 | 272 | 9.642327 | TTTTCTATGTTGAATGTTTGATCCATG | 57.358 | 29.630 | 0.00 | 0.00 | 0.00 | 3.66 |
271 | 277 | 6.193504 | TGTTGAATGTTTGATCCATGGGATA | 58.806 | 36.000 | 13.02 | 0.00 | 43.27 | 2.59 |
358 | 367 | 5.826737 | TGCAATCAAACAAATCAAAACCCAT | 59.173 | 32.000 | 0.00 | 0.00 | 0.00 | 4.00 |
383 | 392 | 5.698104 | AGAATTGAGATGGGCATGACATTA | 58.302 | 37.500 | 0.00 | 0.00 | 0.00 | 1.90 |
428 | 437 | 3.426695 | CCGCACTTTTAGAATCCTGCAAG | 60.427 | 47.826 | 0.00 | 0.00 | 0.00 | 4.01 |
450 | 459 | 2.039084 | TCAAAGAGGCCCTCAGTCTTTC | 59.961 | 50.000 | 14.46 | 0.00 | 38.24 | 2.62 |
460 | 469 | 2.928757 | CCTCAGTCTTTCAAGATGCTCG | 59.071 | 50.000 | 0.00 | 0.00 | 37.39 | 5.03 |
463 | 472 | 5.134202 | TCAGTCTTTCAAGATGCTCGTAA | 57.866 | 39.130 | 0.00 | 0.00 | 37.39 | 3.18 |
487 | 502 | 0.947660 | AGCGTGTGTGTGAGCATCTG | 60.948 | 55.000 | 0.00 | 0.00 | 34.92 | 2.90 |
507 | 522 | 7.201266 | GCATCTGCGTTTATTTTGTGTTTCTAG | 60.201 | 37.037 | 0.00 | 0.00 | 0.00 | 2.43 |
512 | 527 | 9.522804 | TGCGTTTATTTTGTGTTTCTAGAAAAT | 57.477 | 25.926 | 19.30 | 10.62 | 37.33 | 1.82 |
545 | 560 | 0.322546 | GTCTCCCAAAGCCCGAACAT | 60.323 | 55.000 | 0.00 | 0.00 | 0.00 | 2.71 |
588 | 603 | 8.456221 | AGAAACCCAAATTATTATTTTCCCCA | 57.544 | 30.769 | 0.00 | 0.00 | 31.63 | 4.96 |
652 | 855 | 1.887707 | GCACCCGAATAGCCCGAAG | 60.888 | 63.158 | 0.00 | 0.00 | 0.00 | 3.79 |
670 | 873 | 1.151668 | AGCATGAACAGACAAGCGAC | 58.848 | 50.000 | 0.00 | 0.00 | 39.08 | 5.19 |
673 | 876 | 1.462283 | CATGAACAGACAAGCGACCAG | 59.538 | 52.381 | 0.00 | 0.00 | 0.00 | 4.00 |
780 | 1946 | 4.729918 | CCCAGCCCACCAGAGCAC | 62.730 | 72.222 | 0.00 | 0.00 | 0.00 | 4.40 |
785 | 1951 | 2.831770 | CCCACCAGAGCACACACT | 59.168 | 61.111 | 0.00 | 0.00 | 0.00 | 3.55 |
800 | 1966 | 3.322466 | ACTGCGTCCCTTCCCCTG | 61.322 | 66.667 | 0.00 | 0.00 | 0.00 | 4.45 |
806 | 1972 | 1.489560 | CGTCCCTTCCCCTGTTTCCT | 61.490 | 60.000 | 0.00 | 0.00 | 0.00 | 3.36 |
807 | 1973 | 1.665137 | GTCCCTTCCCCTGTTTCCTA | 58.335 | 55.000 | 0.00 | 0.00 | 0.00 | 2.94 |
808 | 1974 | 2.206223 | GTCCCTTCCCCTGTTTCCTAT | 58.794 | 52.381 | 0.00 | 0.00 | 0.00 | 2.57 |
809 | 1975 | 2.172930 | GTCCCTTCCCCTGTTTCCTATC | 59.827 | 54.545 | 0.00 | 0.00 | 0.00 | 2.08 |
810 | 1976 | 1.495148 | CCCTTCCCCTGTTTCCTATCC | 59.505 | 57.143 | 0.00 | 0.00 | 0.00 | 2.59 |
811 | 1977 | 2.493091 | CCTTCCCCTGTTTCCTATCCT | 58.507 | 52.381 | 0.00 | 0.00 | 0.00 | 3.24 |
847 | 2019 | 2.357517 | AGCAGTCGCAAGTTCCCG | 60.358 | 61.111 | 0.00 | 0.00 | 42.27 | 5.14 |
934 | 2106 | 2.668550 | GCGGCCTTGTTTCCGTCT | 60.669 | 61.111 | 0.00 | 0.00 | 46.79 | 4.18 |
952 | 2124 | 3.797353 | CCCACCTCCACCCATCCG | 61.797 | 72.222 | 0.00 | 0.00 | 0.00 | 4.18 |
982 | 2154 | 3.429135 | GCCAGGTTTCGTCTAGAACCTAG | 60.429 | 52.174 | 12.53 | 7.74 | 37.88 | 3.02 |
985 | 2157 | 4.946157 | CAGGTTTCGTCTAGAACCTAGGTA | 59.054 | 45.833 | 16.67 | 0.00 | 37.88 | 3.08 |
1102 | 2286 | 1.034838 | TTTCCTGGTGCGTGCTTTGT | 61.035 | 50.000 | 0.00 | 0.00 | 0.00 | 2.83 |
1106 | 2290 | 1.447317 | CTGGTGCGTGCTTTGTTCCT | 61.447 | 55.000 | 0.00 | 0.00 | 0.00 | 3.36 |
1183 | 2384 | 0.579630 | TGACGTCGTGTTGTGATTGC | 59.420 | 50.000 | 11.62 | 0.00 | 0.00 | 3.56 |
1222 | 2423 | 2.841988 | AGCAGAGGATCCGGGAGC | 60.842 | 66.667 | 5.98 | 3.04 | 33.66 | 4.70 |
1223 | 2424 | 4.292178 | GCAGAGGATCCGGGAGCG | 62.292 | 72.222 | 5.98 | 0.00 | 33.66 | 5.03 |
1254 | 2458 | 4.003788 | CCGGAGAACACGGCCACT | 62.004 | 66.667 | 2.24 | 0.00 | 45.34 | 4.00 |
1275 | 2479 | 1.411246 | GTCCTGTACATCGGCCACATA | 59.589 | 52.381 | 2.24 | 0.00 | 0.00 | 2.29 |
1316 | 2520 | 1.406614 | CCAGATGCAAGGTCTGTCTCC | 60.407 | 57.143 | 13.37 | 0.00 | 41.13 | 3.71 |
1317 | 2521 | 0.534412 | AGATGCAAGGTCTGTCTCCG | 59.466 | 55.000 | 0.00 | 0.00 | 0.00 | 4.63 |
1449 | 2678 | 2.227757 | TCAGGATTGCCCGGAACCA | 61.228 | 57.895 | 0.73 | 0.00 | 40.87 | 3.67 |
1528 | 2761 | 2.599659 | GCATCTAACTTGCTGTTTGGC | 58.400 | 47.619 | 1.42 | 0.00 | 39.89 | 4.52 |
1584 | 2817 | 4.158579 | GGATTCATTGAGTTTGAGAACCCC | 59.841 | 45.833 | 0.00 | 0.00 | 36.39 | 4.95 |
1599 | 2832 | 2.654877 | CCCGAGGTAAGCACGTGT | 59.345 | 61.111 | 18.38 | 0.00 | 0.00 | 4.49 |
1657 | 2890 | 9.030301 | GTATGTTTGTTGTCTGCTTACAAATTT | 57.970 | 29.630 | 6.09 | 0.00 | 41.94 | 1.82 |
1663 | 2896 | 3.255642 | TGTCTGCTTACAAATTTCTGGCC | 59.744 | 43.478 | 0.00 | 0.00 | 0.00 | 5.36 |
1856 | 3089 | 6.036953 | CAGAAACATAGCCTTCATCTTCTGTC | 59.963 | 42.308 | 0.00 | 0.00 | 35.77 | 3.51 |
1864 | 3097 | 4.441356 | GCCTTCATCTTCTGTCTAGGAGTG | 60.441 | 50.000 | 0.00 | 0.00 | 30.96 | 3.51 |
1989 | 3224 | 1.278985 | TCCCAACAGGCTACAGACATG | 59.721 | 52.381 | 0.00 | 0.00 | 34.51 | 3.21 |
2014 | 3250 | 9.280174 | TGTACTTAATATTACCAGGCTATTTGC | 57.720 | 33.333 | 0.00 | 0.00 | 41.94 | 3.68 |
2020 | 3256 | 2.834638 | ACCAGGCTATTTGCTTCCAT | 57.165 | 45.000 | 0.00 | 0.00 | 42.39 | 3.41 |
2192 | 3531 | 7.815840 | TTATGAAGTCAAGGATTTGTGACAA | 57.184 | 32.000 | 0.00 | 0.00 | 45.40 | 3.18 |
2251 | 3590 | 6.395028 | AGTGCAGAACTGAAGCATTGATGC | 62.395 | 45.833 | 7.87 | 7.87 | 45.59 | 3.91 |
2268 | 3659 | 3.575256 | TGATGCCAATCTCTTGCAACTTT | 59.425 | 39.130 | 0.00 | 0.00 | 33.61 | 2.66 |
2326 | 3755 | 6.990939 | ACTAGAGTTTTGTTTCCCTGTACTTC | 59.009 | 38.462 | 0.00 | 0.00 | 0.00 | 3.01 |
2375 | 3839 | 7.449934 | ACTGTTTCTTGCGTTTTGATTAAAG | 57.550 | 32.000 | 0.00 | 0.00 | 0.00 | 1.85 |
2419 | 3883 | 8.082242 | TGATCTACAACGTCCATATCTTGTATG | 58.918 | 37.037 | 0.00 | 0.00 | 30.64 | 2.39 |
2766 | 4233 | 0.804364 | TAGCTCAGCAATTTGCCACG | 59.196 | 50.000 | 17.51 | 7.18 | 46.52 | 4.94 |
2846 | 4314 | 6.434028 | AGGCATGCATTTGTAGTTTTCTAGAA | 59.566 | 34.615 | 21.36 | 0.00 | 34.54 | 2.10 |
2988 | 4469 | 5.536161 | TCCCAGGCTTTGCTTAATCATATTC | 59.464 | 40.000 | 0.00 | 0.00 | 0.00 | 1.75 |
3014 | 4543 | 6.985645 | TGAGCTGTGCTTCAATTGTTTTTAAT | 59.014 | 30.769 | 5.13 | 0.00 | 39.88 | 1.40 |
3066 | 4595 | 7.878127 | AGTACATTAGCTTCTGTTTTCTAGCAA | 59.122 | 33.333 | 6.22 | 0.00 | 36.11 | 3.91 |
3067 | 4596 | 6.903419 | ACATTAGCTTCTGTTTTCTAGCAAC | 58.097 | 36.000 | 0.00 | 0.00 | 36.11 | 4.17 |
3219 | 4780 | 4.313020 | ACAGAAGGCAGATGGATCTTTT | 57.687 | 40.909 | 0.00 | 0.00 | 34.22 | 2.27 |
3244 | 4807 | 2.592308 | GGGAGTGATGGGACTGCC | 59.408 | 66.667 | 0.00 | 0.00 | 45.91 | 4.85 |
3253 | 4816 | 2.238646 | TGATGGGACTGCCGAGTTAAAT | 59.761 | 45.455 | 0.00 | 0.00 | 30.16 | 1.40 |
3270 | 4833 | 8.283291 | CGAGTTAAATATGGCTGGTCTATTTTC | 58.717 | 37.037 | 0.00 | 0.00 | 0.00 | 2.29 |
3294 | 4858 | 0.911769 | AGGATGAGATGGCGGTTTCA | 59.088 | 50.000 | 0.00 | 0.00 | 0.00 | 2.69 |
3383 | 4950 | 3.559069 | AGAAGCATGAATATGTGGTGGG | 58.441 | 45.455 | 0.00 | 0.00 | 36.65 | 4.61 |
3418 | 4993 | 4.803098 | TCTTTCTTACCTGCCTCACTAC | 57.197 | 45.455 | 0.00 | 0.00 | 0.00 | 2.73 |
3480 | 5055 | 7.701924 | CACCGTAAAATTAATGCTGATTCATGT | 59.298 | 33.333 | 0.00 | 0.00 | 0.00 | 3.21 |
3719 | 6111 | 9.392259 | TCGATAGTCAAAGTTAGAGAAGTATGA | 57.608 | 33.333 | 0.00 | 0.00 | 37.40 | 2.15 |
3726 | 6118 | 9.569167 | TCAAAGTTAGAGAAGTATGATTGTACG | 57.431 | 33.333 | 0.00 | 0.00 | 0.00 | 3.67 |
3778 | 6170 | 9.357161 | TGTAAAATTTACCACATGTCTTTACCT | 57.643 | 29.630 | 12.72 | 0.00 | 0.00 | 3.08 |
3781 | 6173 | 8.472007 | AAATTTACCACATGTCTTTACCTTGA | 57.528 | 30.769 | 0.00 | 0.00 | 0.00 | 3.02 |
3782 | 6174 | 6.870971 | TTTACCACATGTCTTTACCTTGAC | 57.129 | 37.500 | 0.00 | 0.00 | 0.00 | 3.18 |
3783 | 6175 | 3.751518 | ACCACATGTCTTTACCTTGACC | 58.248 | 45.455 | 0.00 | 0.00 | 32.67 | 4.02 |
3784 | 6176 | 3.137544 | ACCACATGTCTTTACCTTGACCA | 59.862 | 43.478 | 0.00 | 0.00 | 32.67 | 4.02 |
3785 | 6177 | 4.202567 | ACCACATGTCTTTACCTTGACCAT | 60.203 | 41.667 | 0.00 | 0.00 | 32.67 | 3.55 |
3786 | 6178 | 4.766891 | CCACATGTCTTTACCTTGACCATT | 59.233 | 41.667 | 0.00 | 0.00 | 32.67 | 3.16 |
3787 | 6179 | 5.335897 | CCACATGTCTTTACCTTGACCATTG | 60.336 | 44.000 | 0.00 | 0.00 | 32.67 | 2.82 |
3788 | 6180 | 4.218417 | ACATGTCTTTACCTTGACCATTGC | 59.782 | 41.667 | 0.00 | 0.00 | 32.67 | 3.56 |
3789 | 6181 | 3.826524 | TGTCTTTACCTTGACCATTGCA | 58.173 | 40.909 | 0.00 | 0.00 | 32.67 | 4.08 |
3790 | 6182 | 4.211125 | TGTCTTTACCTTGACCATTGCAA | 58.789 | 39.130 | 0.00 | 0.00 | 32.67 | 4.08 |
3791 | 6183 | 4.278170 | TGTCTTTACCTTGACCATTGCAAG | 59.722 | 41.667 | 4.94 | 0.00 | 41.77 | 4.01 |
3792 | 6184 | 4.278419 | GTCTTTACCTTGACCATTGCAAGT | 59.722 | 41.667 | 4.94 | 0.00 | 40.79 | 3.16 |
3793 | 6185 | 5.472137 | GTCTTTACCTTGACCATTGCAAGTA | 59.528 | 40.000 | 4.94 | 0.00 | 40.79 | 2.24 |
3794 | 6186 | 6.016610 | GTCTTTACCTTGACCATTGCAAGTAA | 60.017 | 38.462 | 4.94 | 2.50 | 40.79 | 2.24 |
3795 | 6187 | 6.719370 | TCTTTACCTTGACCATTGCAAGTAAT | 59.281 | 34.615 | 4.94 | 0.00 | 40.79 | 1.89 |
3796 | 6188 | 4.789012 | ACCTTGACCATTGCAAGTAATG | 57.211 | 40.909 | 4.94 | 4.19 | 40.79 | 1.90 |
3797 | 6189 | 4.406456 | ACCTTGACCATTGCAAGTAATGA | 58.594 | 39.130 | 4.94 | 0.00 | 40.79 | 2.57 |
3798 | 6190 | 4.832266 | ACCTTGACCATTGCAAGTAATGAA | 59.168 | 37.500 | 4.94 | 0.00 | 40.79 | 2.57 |
3799 | 6191 | 5.163513 | CCTTGACCATTGCAAGTAATGAAC | 58.836 | 41.667 | 4.94 | 6.44 | 40.79 | 3.18 |
3800 | 6192 | 5.278907 | CCTTGACCATTGCAAGTAATGAACA | 60.279 | 40.000 | 4.94 | 8.48 | 40.79 | 3.18 |
3801 | 6193 | 5.119931 | TGACCATTGCAAGTAATGAACAC | 57.880 | 39.130 | 4.94 | 2.53 | 39.79 | 3.32 |
3802 | 6194 | 4.022416 | TGACCATTGCAAGTAATGAACACC | 60.022 | 41.667 | 4.94 | 0.00 | 39.79 | 4.16 |
3803 | 6195 | 3.894427 | ACCATTGCAAGTAATGAACACCA | 59.106 | 39.130 | 4.94 | 0.00 | 39.79 | 4.17 |
3804 | 6196 | 4.343526 | ACCATTGCAAGTAATGAACACCAA | 59.656 | 37.500 | 4.94 | 0.00 | 39.79 | 3.67 |
3805 | 6197 | 5.163364 | ACCATTGCAAGTAATGAACACCAAA | 60.163 | 36.000 | 4.94 | 0.00 | 39.79 | 3.28 |
3806 | 6198 | 5.757320 | CCATTGCAAGTAATGAACACCAAAA | 59.243 | 36.000 | 4.94 | 0.00 | 39.79 | 2.44 |
3807 | 6199 | 6.427547 | CCATTGCAAGTAATGAACACCAAAAT | 59.572 | 34.615 | 4.94 | 0.00 | 39.79 | 1.82 |
3808 | 6200 | 7.041235 | CCATTGCAAGTAATGAACACCAAAATT | 60.041 | 33.333 | 4.94 | 0.00 | 39.79 | 1.82 |
3809 | 6201 | 7.856145 | TTGCAAGTAATGAACACCAAAATTT | 57.144 | 28.000 | 0.00 | 0.00 | 0.00 | 1.82 |
3810 | 6202 | 7.856145 | TGCAAGTAATGAACACCAAAATTTT | 57.144 | 28.000 | 0.00 | 0.00 | 0.00 | 1.82 |
3811 | 6203 | 7.914465 | TGCAAGTAATGAACACCAAAATTTTC | 58.086 | 30.769 | 0.00 | 0.00 | 0.00 | 2.29 |
3812 | 6204 | 7.011857 | TGCAAGTAATGAACACCAAAATTTTCC | 59.988 | 33.333 | 0.00 | 0.00 | 0.00 | 3.13 |
3813 | 6205 | 7.519809 | GCAAGTAATGAACACCAAAATTTTCCC | 60.520 | 37.037 | 0.00 | 0.00 | 0.00 | 3.97 |
3814 | 6206 | 7.373617 | AGTAATGAACACCAAAATTTTCCCT | 57.626 | 32.000 | 0.00 | 0.00 | 0.00 | 4.20 |
3815 | 6207 | 8.485578 | AGTAATGAACACCAAAATTTTCCCTA | 57.514 | 30.769 | 0.00 | 0.00 | 0.00 | 3.53 |
3816 | 6208 | 8.585018 | AGTAATGAACACCAAAATTTTCCCTAG | 58.415 | 33.333 | 0.00 | 0.00 | 0.00 | 3.02 |
3817 | 6209 | 5.208463 | TGAACACCAAAATTTTCCCTAGC | 57.792 | 39.130 | 0.00 | 0.00 | 0.00 | 3.42 |
3818 | 6210 | 4.898861 | TGAACACCAAAATTTTCCCTAGCT | 59.101 | 37.500 | 0.00 | 0.00 | 0.00 | 3.32 |
3819 | 6211 | 4.871933 | ACACCAAAATTTTCCCTAGCTG | 57.128 | 40.909 | 0.00 | 0.00 | 0.00 | 4.24 |
3820 | 6212 | 3.578282 | ACACCAAAATTTTCCCTAGCTGG | 59.422 | 43.478 | 0.00 | 0.00 | 0.00 | 4.85 |
3821 | 6213 | 3.831911 | CACCAAAATTTTCCCTAGCTGGA | 59.168 | 43.478 | 0.00 | 0.00 | 38.35 | 3.86 |
3822 | 6214 | 3.832490 | ACCAAAATTTTCCCTAGCTGGAC | 59.168 | 43.478 | 0.00 | 0.00 | 38.35 | 4.02 |
3823 | 6215 | 3.831911 | CCAAAATTTTCCCTAGCTGGACA | 59.168 | 43.478 | 0.00 | 0.00 | 38.35 | 4.02 |
3824 | 6216 | 4.283212 | CCAAAATTTTCCCTAGCTGGACAA | 59.717 | 41.667 | 0.00 | 0.00 | 38.35 | 3.18 |
3825 | 6217 | 5.230182 | CAAAATTTTCCCTAGCTGGACAAC | 58.770 | 41.667 | 0.00 | 0.00 | 38.35 | 3.32 |
3826 | 6218 | 4.388577 | AATTTTCCCTAGCTGGACAACT | 57.611 | 40.909 | 0.00 | 0.00 | 38.35 | 3.16 |
3827 | 6219 | 3.418684 | TTTTCCCTAGCTGGACAACTC | 57.581 | 47.619 | 0.00 | 0.00 | 38.35 | 3.01 |
3840 | 6232 | 2.342179 | GACAACTCACTCCTTAGCAGC | 58.658 | 52.381 | 0.00 | 0.00 | 0.00 | 5.25 |
3867 | 6259 | 7.441458 | GGCGTAGAGGAAAAGTAAATCACATAT | 59.559 | 37.037 | 0.00 | 0.00 | 0.00 | 1.78 |
3868 | 6260 | 8.827677 | GCGTAGAGGAAAAGTAAATCACATATT | 58.172 | 33.333 | 0.00 | 0.00 | 0.00 | 1.28 |
3960 | 6352 | 6.364706 | CCGTAATTACAGCAAAATCAGCAAAA | 59.635 | 34.615 | 15.67 | 0.00 | 0.00 | 2.44 |
3962 | 6354 | 8.103924 | CGTAATTACAGCAAAATCAGCAAAATC | 58.896 | 33.333 | 15.67 | 0.00 | 0.00 | 2.17 |
3963 | 6355 | 7.966246 | AATTACAGCAAAATCAGCAAAATCA | 57.034 | 28.000 | 0.00 | 0.00 | 0.00 | 2.57 |
3964 | 6356 | 7.591006 | ATTACAGCAAAATCAGCAAAATCAG | 57.409 | 32.000 | 0.00 | 0.00 | 0.00 | 2.90 |
3972 | 6369 | 4.778534 | ATCAGCAAAATCAGGTTGTCTG | 57.221 | 40.909 | 0.00 | 0.00 | 44.68 | 3.51 |
3974 | 6371 | 1.267806 | AGCAAAATCAGGTTGTCTGCG | 59.732 | 47.619 | 0.00 | 0.00 | 43.06 | 5.18 |
3983 | 6380 | 1.965930 | GTTGTCTGCGGTGGATGCA | 60.966 | 57.895 | 0.00 | 0.00 | 40.70 | 3.96 |
4009 | 6406 | 5.120830 | CCGCCTGCAATACTACATTTCTATC | 59.879 | 44.000 | 0.00 | 0.00 | 0.00 | 2.08 |
4024 | 6589 | 3.491766 | TCTATCTCTCCCCAAACCACT | 57.508 | 47.619 | 0.00 | 0.00 | 0.00 | 4.00 |
4103 | 6676 | 5.007528 | CCCAAACCTTAATTTTGCACAACTG | 59.992 | 40.000 | 0.00 | 0.00 | 33.37 | 3.16 |
4180 | 6753 | 9.142515 | AGTGCACAATTAAACATCACATAATTG | 57.857 | 29.630 | 21.04 | 13.17 | 45.68 | 2.32 |
4181 | 6754 | 9.138062 | GTGCACAATTAAACATCACATAATTGA | 57.862 | 29.630 | 13.17 | 0.88 | 44.21 | 2.57 |
4182 | 6755 | 9.702494 | TGCACAATTAAACATCACATAATTGAA | 57.298 | 25.926 | 18.91 | 6.43 | 44.21 | 2.69 |
4183 | 6756 | 9.956797 | GCACAATTAAACATCACATAATTGAAC | 57.043 | 29.630 | 18.91 | 9.86 | 44.21 | 3.18 |
4192 | 6765 | 9.859427 | AACATCACATAATTGAACTAAACATGG | 57.141 | 29.630 | 0.00 | 0.00 | 0.00 | 3.66 |
4193 | 6766 | 9.023962 | ACATCACATAATTGAACTAAACATGGT | 57.976 | 29.630 | 0.00 | 0.00 | 0.00 | 3.55 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
6 | 7 | 0.868406 | GTTTCACCGCAAGAGACCTG | 59.132 | 55.000 | 0.00 | 0.00 | 43.02 | 4.00 |
31 | 32 | 6.360370 | AAGTCTAGAACTTGAACCTGCATA | 57.640 | 37.500 | 0.00 | 0.00 | 46.61 | 3.14 |
60 | 61 | 5.105752 | TGAATTTAAAATATGCCGCCACAC | 58.894 | 37.500 | 0.00 | 0.00 | 0.00 | 3.82 |
63 | 64 | 5.988561 | GGAATGAATTTAAAATATGCCGCCA | 59.011 | 36.000 | 0.00 | 0.00 | 0.00 | 5.69 |
64 | 65 | 5.988561 | TGGAATGAATTTAAAATATGCCGCC | 59.011 | 36.000 | 0.00 | 0.00 | 0.00 | 6.13 |
65 | 66 | 6.922957 | TCTGGAATGAATTTAAAATATGCCGC | 59.077 | 34.615 | 0.00 | 0.00 | 0.00 | 6.53 |
66 | 67 | 9.480053 | AATCTGGAATGAATTTAAAATATGCCG | 57.520 | 29.630 | 0.00 | 0.00 | 0.00 | 5.69 |
75 | 76 | 8.508062 | TCGTCGAAAAATCTGGAATGAATTTAA | 58.492 | 29.630 | 0.00 | 0.00 | 0.00 | 1.52 |
82 | 83 | 8.765219 | ACTAATATCGTCGAAAAATCTGGAATG | 58.235 | 33.333 | 0.00 | 0.00 | 0.00 | 2.67 |
86 | 87 | 8.126871 | TGAACTAATATCGTCGAAAAATCTGG | 57.873 | 34.615 | 0.00 | 0.00 | 0.00 | 3.86 |
107 | 109 | 1.469079 | GGGCGTGCCATGTAATTGAAC | 60.469 | 52.381 | 13.76 | 0.00 | 37.98 | 3.18 |
114 | 116 | 1.029408 | GTTGATGGGCGTGCCATGTA | 61.029 | 55.000 | 13.76 | 0.00 | 37.98 | 2.29 |
115 | 117 | 2.035469 | TTGATGGGCGTGCCATGT | 59.965 | 55.556 | 13.76 | 0.00 | 37.98 | 3.21 |
116 | 118 | 2.491152 | GTTGATGGGCGTGCCATG | 59.509 | 61.111 | 13.76 | 0.00 | 37.98 | 3.66 |
123 | 125 | 1.671054 | ACTTCGTGGTTGATGGGCG | 60.671 | 57.895 | 0.00 | 0.00 | 0.00 | 6.13 |
153 | 155 | 6.806249 | GCCAACAGATTTTGATATTGACGAAA | 59.194 | 34.615 | 0.00 | 0.00 | 0.00 | 3.46 |
168 | 170 | 0.034670 | GAGCCCTGAGCCAACAGATT | 60.035 | 55.000 | 0.00 | 0.00 | 45.47 | 2.40 |
173 | 176 | 1.676967 | CAAGGAGCCCTGAGCCAAC | 60.677 | 63.158 | 0.00 | 0.00 | 45.47 | 3.77 |
175 | 178 | 1.210204 | AATCAAGGAGCCCTGAGCCA | 61.210 | 55.000 | 0.00 | 0.00 | 45.47 | 4.75 |
209 | 213 | 6.590234 | AGGATTCTAACACCCAAAAATCAC | 57.410 | 37.500 | 0.00 | 0.00 | 0.00 | 3.06 |
294 | 302 | 8.958060 | AAGAATCCTATATGAAGCAGTACCTA | 57.042 | 34.615 | 0.00 | 0.00 | 0.00 | 3.08 |
358 | 367 | 5.114764 | TGTCATGCCCATCTCAATTCTAA | 57.885 | 39.130 | 0.00 | 0.00 | 0.00 | 2.10 |
410 | 419 | 6.772716 | TCTTTGACTTGCAGGATTCTAAAAGT | 59.227 | 34.615 | 1.40 | 1.01 | 33.30 | 2.66 |
428 | 437 | 0.980423 | AGACTGAGGGCCTCTTTGAC | 59.020 | 55.000 | 32.28 | 21.02 | 0.00 | 3.18 |
450 | 459 | 2.983136 | CGCTATCCTTACGAGCATCTTG | 59.017 | 50.000 | 0.00 | 0.00 | 35.91 | 3.02 |
460 | 469 | 3.179830 | CTCACACACACGCTATCCTTAC | 58.820 | 50.000 | 0.00 | 0.00 | 0.00 | 2.34 |
463 | 472 | 0.108615 | GCTCACACACACGCTATCCT | 60.109 | 55.000 | 0.00 | 0.00 | 0.00 | 3.24 |
507 | 522 | 9.832445 | TGGGAGACAACTGTTATAGATATTTTC | 57.168 | 33.333 | 0.00 | 0.00 | 0.00 | 2.29 |
512 | 527 | 7.272978 | GCTTTGGGAGACAACTGTTATAGATA | 58.727 | 38.462 | 0.00 | 0.00 | 39.19 | 1.98 |
514 | 529 | 5.488341 | GCTTTGGGAGACAACTGTTATAGA | 58.512 | 41.667 | 0.00 | 0.00 | 39.19 | 1.98 |
545 | 560 | 6.183360 | GGGTTTCTAAACTTGGTAACCGAAAA | 60.183 | 38.462 | 5.62 | 0.00 | 38.89 | 2.29 |
623 | 643 | 2.281900 | CGGGTGCCGGGAGAAAAA | 60.282 | 61.111 | 2.18 | 0.00 | 44.15 | 1.94 |
633 | 653 | 3.394635 | TTCGGGCTATTCGGGTGCC | 62.395 | 63.158 | 0.00 | 0.00 | 45.42 | 5.01 |
634 | 654 | 1.887707 | CTTCGGGCTATTCGGGTGC | 60.888 | 63.158 | 0.00 | 0.00 | 0.00 | 5.01 |
635 | 655 | 1.887707 | GCTTCGGGCTATTCGGGTG | 60.888 | 63.158 | 0.00 | 0.00 | 38.06 | 4.61 |
638 | 658 | 0.249868 | TCATGCTTCGGGCTATTCGG | 60.250 | 55.000 | 0.00 | 0.00 | 42.39 | 4.30 |
639 | 659 | 1.261619 | GTTCATGCTTCGGGCTATTCG | 59.738 | 52.381 | 0.00 | 0.00 | 42.39 | 3.34 |
640 | 660 | 2.288666 | TGTTCATGCTTCGGGCTATTC | 58.711 | 47.619 | 0.00 | 0.00 | 42.39 | 1.75 |
652 | 855 | 0.166814 | GGTCGCTTGTCTGTTCATGC | 59.833 | 55.000 | 0.00 | 0.00 | 35.89 | 4.06 |
785 | 1951 | 2.406002 | GAAACAGGGGAAGGGACGCA | 62.406 | 60.000 | 0.00 | 0.00 | 0.00 | 5.24 |
788 | 1954 | 1.665137 | TAGGAAACAGGGGAAGGGAC | 58.335 | 55.000 | 0.00 | 0.00 | 0.00 | 4.46 |
800 | 1966 | 4.468713 | AGGGTACGTAGAGGATAGGAAAC | 58.531 | 47.826 | 0.00 | 0.00 | 0.00 | 2.78 |
900 | 2072 | 2.185350 | CTTGCTCTGGCCGTCGAT | 59.815 | 61.111 | 0.00 | 0.00 | 37.74 | 3.59 |
926 | 2098 | 1.152204 | TGGAGGTGGGAGACGGAAA | 60.152 | 57.895 | 0.00 | 0.00 | 0.00 | 3.13 |
934 | 2106 | 2.286121 | GGATGGGTGGAGGTGGGA | 60.286 | 66.667 | 0.00 | 0.00 | 0.00 | 4.37 |
952 | 2124 | 4.043200 | GAAACCTGGCTGTGGCGC | 62.043 | 66.667 | 0.00 | 0.00 | 39.81 | 6.53 |
982 | 2154 | 2.482142 | CCATCTCGCTCAAACCTCTACC | 60.482 | 54.545 | 0.00 | 0.00 | 0.00 | 3.18 |
985 | 2157 | 0.539051 | CCCATCTCGCTCAAACCTCT | 59.461 | 55.000 | 0.00 | 0.00 | 0.00 | 3.69 |
1068 | 2240 | 1.378514 | GAAATCCTTGCCCTCGCCA | 60.379 | 57.895 | 0.00 | 0.00 | 0.00 | 5.69 |
1102 | 2286 | 3.671008 | TCGATTTGGTTCGAAGAGGAA | 57.329 | 42.857 | 0.00 | 0.00 | 44.56 | 3.36 |
1141 | 2326 | 0.805711 | ACAGCAACCAAAAAGCGTGC | 60.806 | 50.000 | 0.00 | 0.00 | 0.00 | 5.34 |
1254 | 2458 | 1.188871 | TGTGGCCGATGTACAGGACA | 61.189 | 55.000 | 5.58 | 5.58 | 44.65 | 4.02 |
1275 | 2479 | 2.283388 | TCGTAGAAGCCGTGGGGT | 60.283 | 61.111 | 0.00 | 0.00 | 34.97 | 4.95 |
1316 | 2520 | 2.796304 | CTTCTCTAAGCTCTGCTGACG | 58.204 | 52.381 | 0.00 | 0.00 | 39.62 | 4.35 |
1449 | 2678 | 1.136305 | ACGCAGCATACGATACCTTGT | 59.864 | 47.619 | 0.00 | 0.00 | 0.00 | 3.16 |
1528 | 2761 | 4.868734 | GGACTTTCCTGTCTAAACATACCG | 59.131 | 45.833 | 0.00 | 0.00 | 37.16 | 4.02 |
1584 | 2817 | 0.506932 | CAACACACGTGCTTACCTCG | 59.493 | 55.000 | 17.22 | 0.00 | 36.57 | 4.63 |
1599 | 2832 | 7.365921 | GCCCTGATAATCTGATATATCCCAACA | 60.366 | 40.741 | 10.25 | 1.78 | 0.00 | 3.33 |
1657 | 2890 | 4.037222 | TGATATACCAAGAACAGGCCAGA | 58.963 | 43.478 | 5.01 | 0.00 | 0.00 | 3.86 |
1663 | 2896 | 4.130118 | GCCACCTGATATACCAAGAACAG | 58.870 | 47.826 | 0.00 | 0.00 | 0.00 | 3.16 |
1856 | 3089 | 6.349300 | AGTGGTAATTAATGTGCACTCCTAG | 58.651 | 40.000 | 19.41 | 0.00 | 0.00 | 3.02 |
1864 | 3097 | 7.996385 | ACCTCATTTAGTGGTAATTAATGTGC | 58.004 | 34.615 | 0.00 | 0.00 | 42.12 | 4.57 |
1895 | 3129 | 5.022787 | AGCCTTTGCCCAAGAATATACAAA | 58.977 | 37.500 | 0.00 | 0.00 | 38.69 | 2.83 |
1915 | 3150 | 6.166982 | ACAGAGAAATACAAAGTAGACAGCC | 58.833 | 40.000 | 0.00 | 0.00 | 0.00 | 4.85 |
1930 | 3165 | 9.167311 | GTAAACAGTATTCCATGACAGAGAAAT | 57.833 | 33.333 | 0.00 | 0.00 | 0.00 | 2.17 |
2014 | 3250 | 1.067142 | AGCTGTGCAATGCAATGGAAG | 60.067 | 47.619 | 10.44 | 4.22 | 41.47 | 3.46 |
2020 | 3256 | 4.009002 | TCATTACTAGCTGTGCAATGCAA | 58.991 | 39.130 | 10.44 | 0.00 | 41.47 | 4.08 |
2251 | 3590 | 8.592105 | TTCAATAAAAAGTTGCAAGAGATTGG | 57.408 | 30.769 | 0.00 | 0.00 | 0.00 | 3.16 |
2268 | 3659 | 5.477984 | AGAGTTGCTGCAAGGATTCAATAAA | 59.522 | 36.000 | 16.53 | 0.00 | 30.66 | 1.40 |
2403 | 3867 | 4.887748 | AGAAGCCATACAAGATATGGACG | 58.112 | 43.478 | 15.63 | 0.00 | 45.57 | 4.79 |
2419 | 3883 | 3.274288 | CACACCTTTCCATCTAGAAGCC | 58.726 | 50.000 | 0.00 | 0.00 | 0.00 | 4.35 |
2734 | 4201 | 4.946445 | TGCTGAGCTATTTCAGATCTGAG | 58.054 | 43.478 | 23.92 | 14.34 | 45.95 | 3.35 |
2803 | 4270 | 1.824852 | CCTTTTGCCCCAGGTCAATAC | 59.175 | 52.381 | 0.00 | 0.00 | 0.00 | 1.89 |
2804 | 4271 | 1.894978 | GCCTTTTGCCCCAGGTCAATA | 60.895 | 52.381 | 0.00 | 0.00 | 32.06 | 1.90 |
2906 | 4376 | 9.618890 | AGCAAGCAAATGTAGATAAGAATAAGA | 57.381 | 29.630 | 0.00 | 0.00 | 0.00 | 2.10 |
2907 | 4377 | 9.661187 | CAGCAAGCAAATGTAGATAAGAATAAG | 57.339 | 33.333 | 0.00 | 0.00 | 0.00 | 1.73 |
2988 | 4469 | 3.637998 | AACAATTGAAGCACAGCTCAG | 57.362 | 42.857 | 13.59 | 0.00 | 38.25 | 3.35 |
3219 | 4780 | 1.293763 | TCCCATCACTCCCACTGGATA | 59.706 | 52.381 | 0.00 | 0.00 | 40.80 | 2.59 |
3244 | 4807 | 7.730364 | AAATAGACCAGCCATATTTAACTCG | 57.270 | 36.000 | 0.00 | 0.00 | 29.58 | 4.18 |
3253 | 4816 | 5.396772 | CCTCACTGAAAATAGACCAGCCATA | 60.397 | 44.000 | 0.00 | 0.00 | 0.00 | 2.74 |
3270 | 4833 | 0.249784 | CCGCCATCTCATCCTCACTG | 60.250 | 60.000 | 0.00 | 0.00 | 0.00 | 3.66 |
3294 | 4858 | 7.121611 | TGAAGACATGATGCAAAACAGATGTAT | 59.878 | 33.333 | 0.00 | 0.00 | 36.11 | 2.29 |
3383 | 4950 | 9.617975 | CAGGTAAGAAAGAAAGTCATTCATTTC | 57.382 | 33.333 | 0.00 | 0.00 | 40.72 | 2.17 |
3418 | 4993 | 9.551734 | TGACAGATGAAGGATGTAAAATATCTG | 57.448 | 33.333 | 0.00 | 0.00 | 43.47 | 2.90 |
3480 | 5055 | 5.529581 | TCAATATGAGGTAACAGCGATGA | 57.470 | 39.130 | 8.12 | 0.00 | 41.41 | 2.92 |
3548 | 5127 | 9.028284 | TGTATATAAAATAACTACTCTCCCCGG | 57.972 | 37.037 | 0.00 | 0.00 | 0.00 | 5.73 |
3549 | 5128 | 9.852091 | GTGTATATAAAATAACTACTCTCCCCG | 57.148 | 37.037 | 0.00 | 0.00 | 0.00 | 5.73 |
3678 | 6070 | 9.516314 | TTTGACTATCGACATATAAACTGACTG | 57.484 | 33.333 | 0.00 | 0.00 | 0.00 | 3.51 |
3774 | 6166 | 5.565509 | TCATTACTTGCAATGGTCAAGGTA | 58.434 | 37.500 | 0.00 | 0.00 | 43.77 | 3.08 |
3775 | 6167 | 4.406456 | TCATTACTTGCAATGGTCAAGGT | 58.594 | 39.130 | 0.00 | 0.00 | 43.77 | 3.50 |
3776 | 6168 | 5.163513 | GTTCATTACTTGCAATGGTCAAGG | 58.836 | 41.667 | 0.00 | 0.00 | 43.77 | 3.61 |
3777 | 6169 | 5.630680 | GTGTTCATTACTTGCAATGGTCAAG | 59.369 | 40.000 | 0.00 | 1.63 | 44.71 | 3.02 |
3778 | 6170 | 5.508825 | GGTGTTCATTACTTGCAATGGTCAA | 60.509 | 40.000 | 0.00 | 0.00 | 36.69 | 3.18 |
3779 | 6171 | 4.022416 | GGTGTTCATTACTTGCAATGGTCA | 60.022 | 41.667 | 0.00 | 0.00 | 36.69 | 4.02 |
3780 | 6172 | 4.022416 | TGGTGTTCATTACTTGCAATGGTC | 60.022 | 41.667 | 0.00 | 0.00 | 36.69 | 4.02 |
3781 | 6173 | 3.894427 | TGGTGTTCATTACTTGCAATGGT | 59.106 | 39.130 | 0.00 | 0.00 | 36.69 | 3.55 |
3782 | 6174 | 4.517952 | TGGTGTTCATTACTTGCAATGG | 57.482 | 40.909 | 0.00 | 0.00 | 36.69 | 3.16 |
3783 | 6175 | 6.841443 | TTTTGGTGTTCATTACTTGCAATG | 57.159 | 33.333 | 0.00 | 0.00 | 37.27 | 2.82 |
3784 | 6176 | 8.449251 | AAATTTTGGTGTTCATTACTTGCAAT | 57.551 | 26.923 | 0.00 | 0.00 | 0.00 | 3.56 |
3785 | 6177 | 7.856145 | AAATTTTGGTGTTCATTACTTGCAA | 57.144 | 28.000 | 0.00 | 0.00 | 0.00 | 4.08 |
3786 | 6178 | 7.011857 | GGAAAATTTTGGTGTTCATTACTTGCA | 59.988 | 33.333 | 8.47 | 0.00 | 0.00 | 4.08 |
3787 | 6179 | 7.351981 | GGAAAATTTTGGTGTTCATTACTTGC | 58.648 | 34.615 | 8.47 | 0.00 | 0.00 | 4.01 |
3788 | 6180 | 7.714813 | AGGGAAAATTTTGGTGTTCATTACTTG | 59.285 | 33.333 | 8.47 | 0.00 | 0.00 | 3.16 |
3789 | 6181 | 7.801104 | AGGGAAAATTTTGGTGTTCATTACTT | 58.199 | 30.769 | 8.47 | 0.00 | 0.00 | 2.24 |
3790 | 6182 | 7.373617 | AGGGAAAATTTTGGTGTTCATTACT | 57.626 | 32.000 | 8.47 | 0.00 | 0.00 | 2.24 |
3791 | 6183 | 7.330946 | GCTAGGGAAAATTTTGGTGTTCATTAC | 59.669 | 37.037 | 8.47 | 0.00 | 0.00 | 1.89 |
3792 | 6184 | 7.234577 | AGCTAGGGAAAATTTTGGTGTTCATTA | 59.765 | 33.333 | 8.47 | 0.00 | 0.00 | 1.90 |
3793 | 6185 | 6.043127 | AGCTAGGGAAAATTTTGGTGTTCATT | 59.957 | 34.615 | 8.47 | 0.00 | 0.00 | 2.57 |
3794 | 6186 | 5.543790 | AGCTAGGGAAAATTTTGGTGTTCAT | 59.456 | 36.000 | 8.47 | 0.00 | 0.00 | 2.57 |
3795 | 6187 | 4.898861 | AGCTAGGGAAAATTTTGGTGTTCA | 59.101 | 37.500 | 8.47 | 0.00 | 0.00 | 3.18 |
3796 | 6188 | 5.230182 | CAGCTAGGGAAAATTTTGGTGTTC | 58.770 | 41.667 | 8.47 | 0.00 | 0.00 | 3.18 |
3797 | 6189 | 4.040339 | CCAGCTAGGGAAAATTTTGGTGTT | 59.960 | 41.667 | 8.47 | 0.00 | 0.00 | 3.32 |
3798 | 6190 | 3.578282 | CCAGCTAGGGAAAATTTTGGTGT | 59.422 | 43.478 | 8.47 | 0.00 | 0.00 | 4.16 |
3799 | 6191 | 3.831911 | TCCAGCTAGGGAAAATTTTGGTG | 59.168 | 43.478 | 8.47 | 8.99 | 38.24 | 4.17 |
3800 | 6192 | 3.832490 | GTCCAGCTAGGGAAAATTTTGGT | 59.168 | 43.478 | 8.47 | 0.00 | 39.05 | 3.67 |
3801 | 6193 | 3.831911 | TGTCCAGCTAGGGAAAATTTTGG | 59.168 | 43.478 | 8.47 | 1.41 | 39.05 | 3.28 |
3802 | 6194 | 5.011023 | AGTTGTCCAGCTAGGGAAAATTTTG | 59.989 | 40.000 | 8.47 | 0.00 | 36.57 | 2.44 |
3803 | 6195 | 5.147767 | AGTTGTCCAGCTAGGGAAAATTTT | 58.852 | 37.500 | 2.28 | 2.28 | 36.57 | 1.82 |
3804 | 6196 | 4.740902 | AGTTGTCCAGCTAGGGAAAATTT | 58.259 | 39.130 | 0.00 | 0.00 | 36.57 | 1.82 |
3805 | 6197 | 4.202567 | TGAGTTGTCCAGCTAGGGAAAATT | 60.203 | 41.667 | 0.00 | 0.00 | 36.57 | 1.82 |
3806 | 6198 | 3.330701 | TGAGTTGTCCAGCTAGGGAAAAT | 59.669 | 43.478 | 0.00 | 0.00 | 36.57 | 1.82 |
3807 | 6199 | 2.708861 | TGAGTTGTCCAGCTAGGGAAAA | 59.291 | 45.455 | 0.00 | 0.00 | 39.05 | 2.29 |
3808 | 6200 | 2.038557 | GTGAGTTGTCCAGCTAGGGAAA | 59.961 | 50.000 | 0.00 | 0.00 | 39.05 | 3.13 |
3809 | 6201 | 1.623811 | GTGAGTTGTCCAGCTAGGGAA | 59.376 | 52.381 | 0.00 | 0.00 | 39.05 | 3.97 |
3810 | 6202 | 1.203187 | AGTGAGTTGTCCAGCTAGGGA | 60.203 | 52.381 | 0.00 | 0.00 | 38.24 | 4.20 |
3811 | 6203 | 1.205893 | GAGTGAGTTGTCCAGCTAGGG | 59.794 | 57.143 | 0.00 | 0.00 | 38.24 | 3.53 |
3812 | 6204 | 1.205893 | GGAGTGAGTTGTCCAGCTAGG | 59.794 | 57.143 | 0.00 | 0.00 | 39.47 | 3.02 |
3813 | 6205 | 2.175202 | AGGAGTGAGTTGTCCAGCTAG | 58.825 | 52.381 | 0.00 | 0.00 | 35.02 | 3.42 |
3814 | 6206 | 2.310779 | AGGAGTGAGTTGTCCAGCTA | 57.689 | 50.000 | 0.00 | 0.00 | 35.02 | 3.32 |
3815 | 6207 | 1.428869 | AAGGAGTGAGTTGTCCAGCT | 58.571 | 50.000 | 0.00 | 0.00 | 35.02 | 4.24 |
3816 | 6208 | 2.933056 | GCTAAGGAGTGAGTTGTCCAGC | 60.933 | 54.545 | 0.00 | 0.00 | 35.02 | 4.85 |
3817 | 6209 | 2.300152 | TGCTAAGGAGTGAGTTGTCCAG | 59.700 | 50.000 | 0.00 | 0.00 | 35.02 | 3.86 |
3818 | 6210 | 2.300152 | CTGCTAAGGAGTGAGTTGTCCA | 59.700 | 50.000 | 0.00 | 0.00 | 35.02 | 4.02 |
3819 | 6211 | 2.933056 | GCTGCTAAGGAGTGAGTTGTCC | 60.933 | 54.545 | 0.00 | 0.00 | 0.00 | 4.02 |
3820 | 6212 | 2.342179 | GCTGCTAAGGAGTGAGTTGTC | 58.658 | 52.381 | 0.00 | 0.00 | 0.00 | 3.18 |
3821 | 6213 | 1.337260 | CGCTGCTAAGGAGTGAGTTGT | 60.337 | 52.381 | 0.00 | 0.00 | 0.00 | 3.32 |
3822 | 6214 | 1.354040 | CGCTGCTAAGGAGTGAGTTG | 58.646 | 55.000 | 0.00 | 0.00 | 0.00 | 3.16 |
3823 | 6215 | 0.247736 | CCGCTGCTAAGGAGTGAGTT | 59.752 | 55.000 | 0.00 | 0.00 | 0.00 | 3.01 |
3824 | 6216 | 1.893786 | CCGCTGCTAAGGAGTGAGT | 59.106 | 57.895 | 0.00 | 0.00 | 0.00 | 3.41 |
3825 | 6217 | 1.520342 | GCCGCTGCTAAGGAGTGAG | 60.520 | 63.158 | 0.00 | 0.00 | 33.53 | 3.51 |
3826 | 6218 | 2.579201 | GCCGCTGCTAAGGAGTGA | 59.421 | 61.111 | 0.00 | 0.00 | 33.53 | 3.41 |
3827 | 6219 | 2.279502 | TACGCCGCTGCTAAGGAGTG | 62.280 | 60.000 | 10.67 | 0.00 | 40.66 | 3.51 |
3840 | 6232 | 4.032558 | GTGATTTACTTTTCCTCTACGCCG | 59.967 | 45.833 | 0.00 | 0.00 | 0.00 | 6.46 |
3935 | 6327 | 4.980590 | TGCTGATTTTGCTGTAATTACGG | 58.019 | 39.130 | 18.49 | 18.49 | 35.68 | 4.02 |
3936 | 6328 | 6.926280 | TTTGCTGATTTTGCTGTAATTACG | 57.074 | 33.333 | 10.92 | 7.03 | 0.00 | 3.18 |
3960 | 6352 | 1.003355 | CCACCGCAGACAACCTGAT | 60.003 | 57.895 | 0.00 | 0.00 | 45.78 | 2.90 |
3962 | 6354 | 1.003355 | ATCCACCGCAGACAACCTG | 60.003 | 57.895 | 0.00 | 0.00 | 45.67 | 4.00 |
3963 | 6355 | 1.003355 | CATCCACCGCAGACAACCT | 60.003 | 57.895 | 0.00 | 0.00 | 0.00 | 3.50 |
3964 | 6356 | 2.690778 | GCATCCACCGCAGACAACC | 61.691 | 63.158 | 0.00 | 0.00 | 0.00 | 3.77 |
3983 | 6380 | 3.492102 | AATGTAGTATTGCAGGCGGAT | 57.508 | 42.857 | 0.00 | 0.00 | 0.00 | 4.18 |
3987 | 6384 | 7.158021 | AGAGATAGAAATGTAGTATTGCAGGC | 58.842 | 38.462 | 0.00 | 0.00 | 0.00 | 4.85 |
3995 | 6392 | 7.070821 | GGTTTGGGGAGAGATAGAAATGTAGTA | 59.929 | 40.741 | 0.00 | 0.00 | 0.00 | 1.82 |
3996 | 6393 | 6.126739 | GGTTTGGGGAGAGATAGAAATGTAGT | 60.127 | 42.308 | 0.00 | 0.00 | 0.00 | 2.73 |
4009 | 6406 | 0.038310 | GGGAAGTGGTTTGGGGAGAG | 59.962 | 60.000 | 0.00 | 0.00 | 0.00 | 3.20 |
4024 | 6589 | 6.836527 | TGATTGAAGGAGTTAAGTTTTGGGAA | 59.163 | 34.615 | 0.00 | 0.00 | 0.00 | 3.97 |
4061 | 6626 | 3.292460 | TGGGGAGTGGTTTTTAACTGTG | 58.708 | 45.455 | 0.00 | 0.00 | 0.00 | 3.66 |
4074 | 6647 | 4.202305 | TGCAAAATTAAGGTTTGGGGAGTG | 60.202 | 41.667 | 13.45 | 0.00 | 36.64 | 3.51 |
4103 | 6676 | 7.478322 | AGTTCATATCATGTTTGAATGCTGAC | 58.522 | 34.615 | 9.69 | 0.50 | 34.96 | 3.51 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.