Multiple sequence alignment - TraesCS3B01G334900
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 | TraesCS3B01G334900 | chr3B | 100.000 | 4099 | 0 | 0 | 521 | 4619 | 540762164 | 540758066 | 0.000000e+00 | 7570.0 |
1 | TraesCS3B01G334900 | chr3B | 100.000 | 247 | 0 | 0 | 1 | 247 | 540762684 | 540762438 | 1.510000e-124 | 457.0 |
2 | TraesCS3B01G334900 | chr3B | 92.391 | 92 | 7 | 0 | 154 | 245 | 540762162 | 540762071 | 1.040000e-26 | 132.0 |
3 | TraesCS3B01G334900 | chr3B | 92.391 | 92 | 7 | 0 | 523 | 614 | 540762531 | 540762440 | 1.040000e-26 | 132.0 |
4 | TraesCS3B01G334900 | chr3A | 95.499 | 2844 | 100 | 18 | 1796 | 4619 | 535217605 | 535220440 | 0.000000e+00 | 4518.0 |
5 | TraesCS3B01G334900 | chr3A | 88.106 | 866 | 62 | 23 | 523 | 1356 | 535216035 | 535216891 | 0.000000e+00 | 990.0 |
6 | TraesCS3B01G334900 | chr3A | 90.893 | 560 | 30 | 8 | 1384 | 1942 | 535216892 | 535217431 | 0.000000e+00 | 732.0 |
7 | TraesCS3B01G334900 | chr3A | 94.558 | 147 | 8 | 0 | 1796 | 1942 | 535217445 | 535217591 | 1.290000e-55 | 228.0 |
8 | TraesCS3B01G334900 | chr3D | 96.814 | 2417 | 54 | 14 | 1796 | 4203 | 414914839 | 414912437 | 0.000000e+00 | 4015.0 |
9 | TraesCS3B01G334900 | chr3D | 91.748 | 1442 | 67 | 19 | 522 | 1942 | 414916263 | 414914853 | 0.000000e+00 | 1956.0 |
10 | TraesCS3B01G334900 | chr3D | 90.610 | 426 | 22 | 7 | 4202 | 4619 | 414912281 | 414911866 | 2.430000e-152 | 549.0 |
11 | TraesCS3B01G334900 | chr7A | 87.013 | 77 | 7 | 3 | 4545 | 4619 | 94913417 | 94913342 | 2.960000e-12 | 84.2 |
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 | TraesCS3B01G334900 | chr3B | 540758066 | 540762684 | 4618 | True | 2072.750000 | 7570 | 96.195500 | 1 | 4619 | 4 | chr3B.!!$R1 | 4618 |
1 | TraesCS3B01G334900 | chr3A | 535216035 | 535220440 | 4405 | False | 1617.000000 | 4518 | 92.264000 | 523 | 4619 | 4 | chr3A.!!$F1 | 4096 |
2 | TraesCS3B01G334900 | chr3D | 414911866 | 414916263 | 4397 | True | 2173.333333 | 4015 | 93.057333 | 522 | 4619 | 3 | chr3D.!!$R1 | 4097 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
49 | 50 | 0.037139 | TATTGACGACCAACCCCACG | 60.037 | 55.000 | 0.00 | 0.00 | 37.63 | 4.94 | F |
172 | 173 | 0.103937 | CACCTCGCTTTGGCCAAAAA | 59.896 | 50.000 | 29.93 | 17.63 | 34.44 | 1.94 | F |
546 | 547 | 0.103937 | CGCCTTGGCCAAAAACTTGA | 59.896 | 50.000 | 20.91 | 0.00 | 0.00 | 3.02 | F |
724 | 743 | 0.109086 | CACAGCACCTCACCTCTACG | 60.109 | 60.000 | 0.00 | 0.00 | 0.00 | 3.51 | F |
725 | 744 | 1.251527 | ACAGCACCTCACCTCTACGG | 61.252 | 60.000 | 0.00 | 0.00 | 39.35 | 4.02 | F |
753 | 777 | 1.343465 | GGGACGACCACTTCAAAGAGA | 59.657 | 52.381 | 6.20 | 0.00 | 39.85 | 3.10 | F |
2888 | 3244 | 1.159713 | CCAGTGCTCTTTGCGACACA | 61.160 | 55.000 | 0.00 | 0.00 | 46.63 | 3.72 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1248 | 1283 | 0.106217 | AAATCACCGGCCCCCAATAG | 60.106 | 55.000 | 0.00 | 0.0 | 0.00 | 1.73 | R |
1381 | 1416 | 1.274167 | ACCGAAGCAACGATGGACTTA | 59.726 | 47.619 | 4.23 | 0.0 | 35.09 | 2.24 | R |
1836 | 2174 | 3.066064 | TGCACATACGTTTGCAGAAAGTT | 59.934 | 39.130 | 13.38 | 0.0 | 43.79 | 2.66 | R |
2343 | 2686 | 4.290722 | AGATCTTCTGGAAAGAATGGGTGT | 59.709 | 41.667 | 0.00 | 0.0 | 0.00 | 4.16 | R |
2557 | 2912 | 8.786826 | ATGCTAGTTGCTAACAAGTAACAATA | 57.213 | 30.769 | 8.67 | 0.0 | 39.80 | 1.90 | R |
2907 | 3263 | 7.342026 | TCAAAGACCAGCAGTATTGATCTAGTA | 59.658 | 37.037 | 0.00 | 0.0 | 32.36 | 1.82 | R |
4577 | 5101 | 0.741221 | GCTCGACGGGCTTCTTCATT | 60.741 | 55.000 | 13.71 | 0.0 | 0.00 | 2.57 | 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 |
---|---|---|---|---|---|---|---|---|---|
18 | 19 | 3.935371 | TGGAACCTTTTTCCTGCCA | 57.065 | 47.368 | 4.73 | 0.00 | 39.31 | 4.92 |
19 | 20 | 1.408969 | TGGAACCTTTTTCCTGCCAC | 58.591 | 50.000 | 4.73 | 0.00 | 39.31 | 5.01 |
20 | 21 | 0.313987 | GGAACCTTTTTCCTGCCACG | 59.686 | 55.000 | 0.00 | 0.00 | 35.73 | 4.94 |
21 | 22 | 1.029681 | GAACCTTTTTCCTGCCACGT | 58.970 | 50.000 | 0.00 | 0.00 | 0.00 | 4.49 |
22 | 23 | 2.223745 | GAACCTTTTTCCTGCCACGTA | 58.776 | 47.619 | 0.00 | 0.00 | 0.00 | 3.57 |
23 | 24 | 2.579410 | ACCTTTTTCCTGCCACGTAT | 57.421 | 45.000 | 0.00 | 0.00 | 0.00 | 3.06 |
24 | 25 | 3.706600 | ACCTTTTTCCTGCCACGTATA | 57.293 | 42.857 | 0.00 | 0.00 | 0.00 | 1.47 |
25 | 26 | 4.023726 | ACCTTTTTCCTGCCACGTATAA | 57.976 | 40.909 | 0.00 | 0.00 | 0.00 | 0.98 |
26 | 27 | 4.595986 | ACCTTTTTCCTGCCACGTATAAT | 58.404 | 39.130 | 0.00 | 0.00 | 0.00 | 1.28 |
27 | 28 | 4.398044 | ACCTTTTTCCTGCCACGTATAATG | 59.602 | 41.667 | 0.00 | 0.00 | 0.00 | 1.90 |
28 | 29 | 4.398044 | CCTTTTTCCTGCCACGTATAATGT | 59.602 | 41.667 | 0.00 | 0.00 | 0.00 | 2.71 |
29 | 30 | 5.105917 | CCTTTTTCCTGCCACGTATAATGTT | 60.106 | 40.000 | 0.00 | 0.00 | 0.00 | 2.71 |
30 | 31 | 5.968528 | TTTTCCTGCCACGTATAATGTTT | 57.031 | 34.783 | 0.00 | 0.00 | 0.00 | 2.83 |
31 | 32 | 7.362229 | CCTTTTTCCTGCCACGTATAATGTTTA | 60.362 | 37.037 | 0.00 | 0.00 | 0.00 | 2.01 |
32 | 33 | 7.633193 | TTTTCCTGCCACGTATAATGTTTAT | 57.367 | 32.000 | 0.00 | 0.00 | 0.00 | 1.40 |
33 | 34 | 7.633193 | TTTCCTGCCACGTATAATGTTTATT | 57.367 | 32.000 | 0.00 | 0.00 | 0.00 | 1.40 |
34 | 35 | 6.612247 | TCCTGCCACGTATAATGTTTATTG | 57.388 | 37.500 | 0.00 | 0.00 | 0.00 | 1.90 |
35 | 36 | 6.350103 | TCCTGCCACGTATAATGTTTATTGA | 58.650 | 36.000 | 0.00 | 0.00 | 0.00 | 2.57 |
36 | 37 | 6.259167 | TCCTGCCACGTATAATGTTTATTGAC | 59.741 | 38.462 | 0.00 | 0.00 | 0.00 | 3.18 |
37 | 38 | 6.038601 | TGCCACGTATAATGTTTATTGACG | 57.961 | 37.500 | 0.00 | 0.00 | 40.17 | 4.35 |
38 | 39 | 5.811100 | TGCCACGTATAATGTTTATTGACGA | 59.189 | 36.000 | 12.87 | 0.00 | 38.32 | 4.20 |
39 | 40 | 6.124759 | GCCACGTATAATGTTTATTGACGAC | 58.875 | 40.000 | 12.87 | 0.00 | 38.32 | 4.34 |
40 | 41 | 6.642917 | CCACGTATAATGTTTATTGACGACC | 58.357 | 40.000 | 12.87 | 0.00 | 38.32 | 4.79 |
41 | 42 | 6.256104 | CCACGTATAATGTTTATTGACGACCA | 59.744 | 38.462 | 12.87 | 0.00 | 38.32 | 4.02 |
42 | 43 | 7.201539 | CCACGTATAATGTTTATTGACGACCAA | 60.202 | 37.037 | 12.87 | 0.00 | 38.32 | 3.67 |
43 | 44 | 7.633281 | CACGTATAATGTTTATTGACGACCAAC | 59.367 | 37.037 | 12.87 | 0.00 | 38.32 | 3.77 |
44 | 45 | 7.121272 | CGTATAATGTTTATTGACGACCAACC | 58.879 | 38.462 | 0.00 | 0.00 | 38.32 | 3.77 |
45 | 46 | 4.776795 | AATGTTTATTGACGACCAACCC | 57.223 | 40.909 | 0.00 | 0.00 | 37.63 | 4.11 |
46 | 47 | 2.506444 | TGTTTATTGACGACCAACCCC | 58.494 | 47.619 | 0.00 | 0.00 | 37.63 | 4.95 |
47 | 48 | 2.158652 | TGTTTATTGACGACCAACCCCA | 60.159 | 45.455 | 0.00 | 0.00 | 37.63 | 4.96 |
48 | 49 | 2.188062 | TTATTGACGACCAACCCCAC | 57.812 | 50.000 | 0.00 | 0.00 | 37.63 | 4.61 |
49 | 50 | 0.037139 | TATTGACGACCAACCCCACG | 60.037 | 55.000 | 0.00 | 0.00 | 37.63 | 4.94 |
50 | 51 | 3.964641 | TATTGACGACCAACCCCACGC | 62.965 | 57.143 | 0.00 | 0.00 | 37.63 | 5.34 |
57 | 58 | 4.263572 | CAACCCCACGCCACCTCA | 62.264 | 66.667 | 0.00 | 0.00 | 0.00 | 3.86 |
58 | 59 | 4.265056 | AACCCCACGCCACCTCAC | 62.265 | 66.667 | 0.00 | 0.00 | 0.00 | 3.51 |
61 | 62 | 4.394712 | CCCACGCCACCTCACCTC | 62.395 | 72.222 | 0.00 | 0.00 | 0.00 | 3.85 |
62 | 63 | 4.742201 | CCACGCCACCTCACCTCG | 62.742 | 72.222 | 0.00 | 0.00 | 0.00 | 4.63 |
63 | 64 | 4.742201 | CACGCCACCTCACCTCGG | 62.742 | 72.222 | 0.00 | 0.00 | 0.00 | 4.63 |
67 | 68 | 3.636231 | CCACCTCACCTCGGCCAA | 61.636 | 66.667 | 2.24 | 0.00 | 0.00 | 4.52 |
68 | 69 | 2.429930 | CACCTCACCTCGGCCAAA | 59.570 | 61.111 | 2.24 | 0.00 | 0.00 | 3.28 |
69 | 70 | 1.228124 | CACCTCACCTCGGCCAAAA | 60.228 | 57.895 | 2.24 | 0.00 | 0.00 | 2.44 |
70 | 71 | 1.073199 | ACCTCACCTCGGCCAAAAG | 59.927 | 57.895 | 2.24 | 0.00 | 0.00 | 2.27 |
71 | 72 | 1.073199 | CCTCACCTCGGCCAAAAGT | 59.927 | 57.895 | 2.24 | 0.00 | 0.00 | 2.66 |
72 | 73 | 0.537371 | CCTCACCTCGGCCAAAAGTT | 60.537 | 55.000 | 2.24 | 0.00 | 0.00 | 2.66 |
73 | 74 | 1.318576 | CTCACCTCGGCCAAAAGTTT | 58.681 | 50.000 | 2.24 | 0.00 | 0.00 | 2.66 |
74 | 75 | 1.001378 | CTCACCTCGGCCAAAAGTTTG | 60.001 | 52.381 | 2.24 | 0.00 | 37.90 | 2.93 |
101 | 102 | 9.470399 | GGACTACCCCTTCTCAATAAAAATAAA | 57.530 | 33.333 | 0.00 | 0.00 | 0.00 | 1.40 |
117 | 118 | 9.869757 | ATAAAAATAAAATCTTTTCCTCACCGG | 57.130 | 29.630 | 0.00 | 0.00 | 0.00 | 5.28 |
118 | 119 | 7.533289 | AAAATAAAATCTTTTCCTCACCGGA | 57.467 | 32.000 | 9.46 | 0.00 | 41.06 | 5.14 |
119 | 120 | 6.510879 | AATAAAATCTTTTCCTCACCGGAC | 57.489 | 37.500 | 9.46 | 0.00 | 42.97 | 4.79 |
120 | 121 | 3.502123 | AAATCTTTTCCTCACCGGACA | 57.498 | 42.857 | 9.46 | 0.00 | 42.97 | 4.02 |
121 | 122 | 3.721087 | AATCTTTTCCTCACCGGACAT | 57.279 | 42.857 | 9.46 | 0.00 | 42.97 | 3.06 |
122 | 123 | 2.472695 | TCTTTTCCTCACCGGACATG | 57.527 | 50.000 | 9.46 | 0.00 | 42.97 | 3.21 |
123 | 124 | 1.697432 | TCTTTTCCTCACCGGACATGT | 59.303 | 47.619 | 9.46 | 0.00 | 42.97 | 3.21 |
124 | 125 | 2.901192 | TCTTTTCCTCACCGGACATGTA | 59.099 | 45.455 | 9.46 | 0.00 | 42.97 | 2.29 |
125 | 126 | 2.754946 | TTTCCTCACCGGACATGTAC | 57.245 | 50.000 | 9.46 | 0.00 | 42.97 | 2.90 |
126 | 127 | 1.634960 | TTCCTCACCGGACATGTACA | 58.365 | 50.000 | 9.46 | 0.00 | 42.97 | 2.90 |
127 | 128 | 1.634960 | TCCTCACCGGACATGTACAA | 58.365 | 50.000 | 9.46 | 0.00 | 36.69 | 2.41 |
128 | 129 | 2.184533 | TCCTCACCGGACATGTACAAT | 58.815 | 47.619 | 9.46 | 0.00 | 36.69 | 2.71 |
129 | 130 | 2.093711 | TCCTCACCGGACATGTACAATG | 60.094 | 50.000 | 9.46 | 5.54 | 36.69 | 2.82 |
130 | 131 | 1.665679 | CTCACCGGACATGTACAATGC | 59.334 | 52.381 | 9.46 | 0.00 | 0.00 | 3.56 |
131 | 132 | 1.277842 | TCACCGGACATGTACAATGCT | 59.722 | 47.619 | 9.46 | 0.00 | 0.00 | 3.79 |
132 | 133 | 2.083774 | CACCGGACATGTACAATGCTT | 58.916 | 47.619 | 9.46 | 0.00 | 0.00 | 3.91 |
133 | 134 | 3.055747 | TCACCGGACATGTACAATGCTTA | 60.056 | 43.478 | 9.46 | 0.00 | 0.00 | 3.09 |
134 | 135 | 3.876914 | CACCGGACATGTACAATGCTTAT | 59.123 | 43.478 | 9.46 | 0.00 | 0.00 | 1.73 |
135 | 136 | 4.335315 | CACCGGACATGTACAATGCTTATT | 59.665 | 41.667 | 9.46 | 0.00 | 0.00 | 1.40 |
136 | 137 | 4.335315 | ACCGGACATGTACAATGCTTATTG | 59.665 | 41.667 | 9.46 | 0.00 | 37.54 | 1.90 |
137 | 138 | 4.261155 | CCGGACATGTACAATGCTTATTGG | 60.261 | 45.833 | 9.21 | 0.00 | 35.93 | 3.16 |
138 | 139 | 4.610945 | GGACATGTACAATGCTTATTGGC | 58.389 | 43.478 | 2.19 | 0.00 | 35.93 | 4.52 |
139 | 140 | 4.282068 | GACATGTACAATGCTTATTGGCG | 58.718 | 43.478 | 0.00 | 0.00 | 35.93 | 5.69 |
140 | 141 | 3.944650 | ACATGTACAATGCTTATTGGCGA | 59.055 | 39.130 | 0.00 | 0.00 | 35.93 | 5.54 |
141 | 142 | 4.201910 | ACATGTACAATGCTTATTGGCGAC | 60.202 | 41.667 | 0.00 | 0.00 | 35.93 | 5.19 |
142 | 143 | 2.680841 | TGTACAATGCTTATTGGCGACC | 59.319 | 45.455 | 0.00 | 0.00 | 35.93 | 4.79 |
143 | 144 | 1.832883 | ACAATGCTTATTGGCGACCA | 58.167 | 45.000 | 5.17 | 0.00 | 35.93 | 4.02 |
145 | 146 | 2.094752 | ACAATGCTTATTGGCGACCAAC | 60.095 | 45.455 | 12.53 | 2.69 | 46.95 | 3.77 |
146 | 147 | 1.102978 | ATGCTTATTGGCGACCAACC | 58.897 | 50.000 | 12.53 | 4.29 | 46.95 | 3.77 |
147 | 148 | 0.963355 | TGCTTATTGGCGACCAACCC | 60.963 | 55.000 | 12.53 | 4.01 | 46.95 | 4.11 |
148 | 149 | 1.663379 | GCTTATTGGCGACCAACCCC | 61.663 | 60.000 | 12.53 | 0.79 | 46.95 | 4.95 |
149 | 150 | 1.373590 | CTTATTGGCGACCAACCCCG | 61.374 | 60.000 | 12.53 | 0.00 | 46.95 | 5.73 |
150 | 151 | 3.980442 | TATTGGCGACCAACCCCGC | 62.980 | 63.158 | 12.53 | 0.00 | 46.95 | 6.13 |
167 | 168 | 3.423154 | CGTCACCTCGCTTTGGCC | 61.423 | 66.667 | 0.00 | 0.00 | 34.44 | 5.36 |
168 | 169 | 2.281484 | GTCACCTCGCTTTGGCCA | 60.281 | 61.111 | 0.00 | 0.00 | 34.44 | 5.36 |
169 | 170 | 1.896660 | GTCACCTCGCTTTGGCCAA | 60.897 | 57.895 | 16.05 | 16.05 | 34.44 | 4.52 |
170 | 171 | 1.152860 | TCACCTCGCTTTGGCCAAA | 60.153 | 52.632 | 28.65 | 28.65 | 34.44 | 3.28 |
171 | 172 | 0.753479 | TCACCTCGCTTTGGCCAAAA | 60.753 | 50.000 | 29.93 | 15.84 | 34.44 | 2.44 |
172 | 173 | 0.103937 | CACCTCGCTTTGGCCAAAAA | 59.896 | 50.000 | 29.93 | 17.63 | 34.44 | 1.94 |
173 | 174 | 0.104120 | ACCTCGCTTTGGCCAAAAAC | 59.896 | 50.000 | 29.93 | 22.97 | 34.44 | 2.43 |
174 | 175 | 0.389025 | CCTCGCTTTGGCCAAAAACT | 59.611 | 50.000 | 29.93 | 0.00 | 34.44 | 2.66 |
175 | 176 | 1.202521 | CCTCGCTTTGGCCAAAAACTT | 60.203 | 47.619 | 29.93 | 0.00 | 34.44 | 2.66 |
176 | 177 | 1.860326 | CTCGCTTTGGCCAAAAACTTG | 59.140 | 47.619 | 29.93 | 19.28 | 34.44 | 3.16 |
177 | 178 | 1.478510 | TCGCTTTGGCCAAAAACTTGA | 59.521 | 42.857 | 29.93 | 19.39 | 34.44 | 3.02 |
178 | 179 | 1.860326 | CGCTTTGGCCAAAAACTTGAG | 59.140 | 47.619 | 29.93 | 18.13 | 34.44 | 3.02 |
179 | 180 | 2.481104 | CGCTTTGGCCAAAAACTTGAGA | 60.481 | 45.455 | 29.93 | 6.45 | 34.44 | 3.27 |
180 | 181 | 2.866156 | GCTTTGGCCAAAAACTTGAGAC | 59.134 | 45.455 | 29.93 | 10.25 | 0.00 | 3.36 |
181 | 182 | 3.430790 | GCTTTGGCCAAAAACTTGAGACT | 60.431 | 43.478 | 29.93 | 0.00 | 0.00 | 3.24 |
182 | 183 | 4.202111 | GCTTTGGCCAAAAACTTGAGACTA | 60.202 | 41.667 | 29.93 | 4.94 | 0.00 | 2.59 |
183 | 184 | 4.911514 | TTGGCCAAAAACTTGAGACTAC | 57.088 | 40.909 | 17.98 | 0.00 | 0.00 | 2.73 |
184 | 185 | 3.219281 | TGGCCAAAAACTTGAGACTACC | 58.781 | 45.455 | 0.61 | 0.00 | 0.00 | 3.18 |
185 | 186 | 2.557056 | GGCCAAAAACTTGAGACTACCC | 59.443 | 50.000 | 0.00 | 0.00 | 0.00 | 3.69 |
186 | 187 | 2.557056 | GCCAAAAACTTGAGACTACCCC | 59.443 | 50.000 | 0.00 | 0.00 | 0.00 | 4.95 |
187 | 188 | 3.750922 | GCCAAAAACTTGAGACTACCCCT | 60.751 | 47.826 | 0.00 | 0.00 | 0.00 | 4.79 |
188 | 189 | 4.470602 | CCAAAAACTTGAGACTACCCCTT | 58.529 | 43.478 | 0.00 | 0.00 | 0.00 | 3.95 |
189 | 190 | 4.893524 | CCAAAAACTTGAGACTACCCCTTT | 59.106 | 41.667 | 0.00 | 0.00 | 0.00 | 3.11 |
190 | 191 | 5.362717 | CCAAAAACTTGAGACTACCCCTTTT | 59.637 | 40.000 | 0.00 | 0.00 | 0.00 | 2.27 |
191 | 192 | 6.461092 | CCAAAAACTTGAGACTACCCCTTTTC | 60.461 | 42.308 | 0.00 | 0.00 | 0.00 | 2.29 |
192 | 193 | 5.382664 | AAACTTGAGACTACCCCTTTTCA | 57.617 | 39.130 | 0.00 | 0.00 | 0.00 | 2.69 |
193 | 194 | 5.382664 | AACTTGAGACTACCCCTTTTCAA | 57.617 | 39.130 | 0.00 | 0.00 | 0.00 | 2.69 |
194 | 195 | 5.584551 | ACTTGAGACTACCCCTTTTCAAT | 57.415 | 39.130 | 0.00 | 0.00 | 0.00 | 2.57 |
195 | 196 | 6.697641 | ACTTGAGACTACCCCTTTTCAATA | 57.302 | 37.500 | 0.00 | 0.00 | 0.00 | 1.90 |
196 | 197 | 7.086685 | ACTTGAGACTACCCCTTTTCAATAA | 57.913 | 36.000 | 0.00 | 0.00 | 0.00 | 1.40 |
197 | 198 | 7.523415 | ACTTGAGACTACCCCTTTTCAATAAA | 58.477 | 34.615 | 0.00 | 0.00 | 0.00 | 1.40 |
198 | 199 | 8.002459 | ACTTGAGACTACCCCTTTTCAATAAAA | 58.998 | 33.333 | 0.00 | 0.00 | 33.58 | 1.52 |
199 | 200 | 8.770010 | TTGAGACTACCCCTTTTCAATAAAAA | 57.230 | 30.769 | 0.00 | 0.00 | 34.26 | 1.94 |
200 | 201 | 8.950007 | TGAGACTACCCCTTTTCAATAAAAAT | 57.050 | 30.769 | 0.00 | 0.00 | 36.30 | 1.82 |
222 | 223 | 8.786826 | AAATAGAATATTTTCGTCACCAGACA | 57.213 | 30.769 | 0.00 | 0.00 | 45.23 | 3.41 |
223 | 224 | 7.772332 | ATAGAATATTTTCGTCACCAGACAC | 57.228 | 36.000 | 0.00 | 0.00 | 45.23 | 3.67 |
224 | 225 | 4.625742 | AGAATATTTTCGTCACCAGACACG | 59.374 | 41.667 | 0.00 | 0.00 | 45.23 | 4.49 |
225 | 226 | 2.234300 | ATTTTCGTCACCAGACACGT | 57.766 | 45.000 | 0.00 | 0.00 | 45.23 | 4.49 |
226 | 227 | 2.867287 | TTTTCGTCACCAGACACGTA | 57.133 | 45.000 | 0.00 | 0.00 | 45.23 | 3.57 |
227 | 228 | 2.124011 | TTTCGTCACCAGACACGTAC | 57.876 | 50.000 | 0.00 | 0.00 | 45.23 | 3.67 |
228 | 229 | 1.023502 | TTCGTCACCAGACACGTACA | 58.976 | 50.000 | 0.00 | 0.00 | 45.23 | 2.90 |
229 | 230 | 1.023502 | TCGTCACCAGACACGTACAA | 58.976 | 50.000 | 0.00 | 0.00 | 45.23 | 2.41 |
230 | 231 | 1.610038 | TCGTCACCAGACACGTACAAT | 59.390 | 47.619 | 0.00 | 0.00 | 45.23 | 2.71 |
231 | 232 | 1.719246 | CGTCACCAGACACGTACAATG | 59.281 | 52.381 | 0.00 | 0.00 | 45.23 | 2.82 |
232 | 233 | 1.459592 | GTCACCAGACACGTACAATGC | 59.540 | 52.381 | 0.00 | 0.00 | 44.34 | 3.56 |
233 | 234 | 1.343142 | TCACCAGACACGTACAATGCT | 59.657 | 47.619 | 0.00 | 0.00 | 0.00 | 3.79 |
234 | 235 | 2.143122 | CACCAGACACGTACAATGCTT | 58.857 | 47.619 | 0.00 | 0.00 | 0.00 | 3.91 |
235 | 236 | 3.006003 | TCACCAGACACGTACAATGCTTA | 59.994 | 43.478 | 0.00 | 0.00 | 0.00 | 3.09 |
236 | 237 | 3.932710 | CACCAGACACGTACAATGCTTAT | 59.067 | 43.478 | 0.00 | 0.00 | 0.00 | 1.73 |
237 | 238 | 4.391830 | CACCAGACACGTACAATGCTTATT | 59.608 | 41.667 | 0.00 | 0.00 | 0.00 | 1.40 |
238 | 239 | 4.391830 | ACCAGACACGTACAATGCTTATTG | 59.608 | 41.667 | 0.00 | 0.00 | 37.54 | 1.90 |
239 | 240 | 4.201812 | CCAGACACGTACAATGCTTATTGG | 60.202 | 45.833 | 5.17 | 0.00 | 35.93 | 3.16 |
240 | 241 | 3.374058 | AGACACGTACAATGCTTATTGGC | 59.626 | 43.478 | 5.17 | 0.00 | 35.93 | 4.52 |
241 | 242 | 2.095213 | ACACGTACAATGCTTATTGGCG | 59.905 | 45.455 | 13.45 | 13.45 | 38.74 | 5.69 |
242 | 243 | 2.350192 | CACGTACAATGCTTATTGGCGA | 59.650 | 45.455 | 18.49 | 0.00 | 37.42 | 5.54 |
243 | 244 | 2.350498 | ACGTACAATGCTTATTGGCGAC | 59.650 | 45.455 | 18.49 | 0.00 | 37.42 | 5.19 |
244 | 245 | 2.286184 | CGTACAATGCTTATTGGCGACC | 60.286 | 50.000 | 11.11 | 0.00 | 36.72 | 4.79 |
245 | 246 | 1.832883 | ACAATGCTTATTGGCGACCA | 58.167 | 45.000 | 5.17 | 0.00 | 35.93 | 4.02 |
546 | 547 | 0.103937 | CGCCTTGGCCAAAAACTTGA | 59.896 | 50.000 | 20.91 | 0.00 | 0.00 | 3.02 |
553 | 554 | 4.164843 | TGGCCAAAAACTTGAGACTACT | 57.835 | 40.909 | 0.61 | 0.00 | 0.00 | 2.57 |
570 | 571 | 9.475620 | TGAGACTACTCCTTCTCAATACAAATA | 57.524 | 33.333 | 0.00 | 0.00 | 44.19 | 1.40 |
601 | 603 | 1.726791 | CTCACCAGACACGTACAATGC | 59.273 | 52.381 | 0.00 | 0.00 | 0.00 | 3.56 |
614 | 616 | 0.732571 | ACAATGCTTATTGGCGACCG | 59.267 | 50.000 | 5.17 | 0.00 | 35.93 | 4.79 |
615 | 617 | 0.592247 | CAATGCTTATTGGCGACCGC | 60.592 | 55.000 | 5.75 | 5.75 | 41.06 | 5.68 |
616 | 618 | 2.047151 | AATGCTTATTGGCGACCGCG | 62.047 | 55.000 | 8.36 | 0.00 | 43.06 | 6.46 |
641 | 651 | 2.032620 | TGCCTCGGCCAAAAACTTAAA | 58.967 | 42.857 | 2.24 | 0.00 | 41.09 | 1.52 |
644 | 654 | 3.738590 | GCCTCGGCCAAAAACTTAAAACA | 60.739 | 43.478 | 2.24 | 0.00 | 34.56 | 2.83 |
708 | 727 | 1.780107 | TATTGGCGACCAACCCCACA | 61.780 | 55.000 | 12.53 | 0.00 | 46.95 | 4.17 |
709 | 728 | 3.668981 | TATTGGCGACCAACCCCACAG | 62.669 | 57.143 | 12.53 | 0.00 | 46.95 | 3.66 |
714 | 733 | 3.103213 | ACCAACCCCACAGCACCT | 61.103 | 61.111 | 0.00 | 0.00 | 0.00 | 4.00 |
724 | 743 | 0.109086 | CACAGCACCTCACCTCTACG | 60.109 | 60.000 | 0.00 | 0.00 | 0.00 | 3.51 |
725 | 744 | 1.251527 | ACAGCACCTCACCTCTACGG | 61.252 | 60.000 | 0.00 | 0.00 | 39.35 | 4.02 |
753 | 777 | 1.343465 | GGGACGACCACTTCAAAGAGA | 59.657 | 52.381 | 6.20 | 0.00 | 39.85 | 3.10 |
1216 | 1251 | 2.634600 | CGACATTGATTCCCCCGTTTA | 58.365 | 47.619 | 0.00 | 0.00 | 0.00 | 2.01 |
1237 | 1272 | 7.271653 | CGTTTATTTTGCTTTGCTTACGGATAA | 59.728 | 33.333 | 0.00 | 0.00 | 0.00 | 1.75 |
1248 | 1283 | 4.879545 | TGCTTACGGATAAGGATGTTTTCC | 59.120 | 41.667 | 0.00 | 0.00 | 45.85 | 3.13 |
1344 | 1379 | 8.903820 | AGTTATGAAATATTAAGTCTGGTTGCC | 58.096 | 33.333 | 0.00 | 0.00 | 0.00 | 4.52 |
1362 | 1397 | 5.356426 | GTTGCCCTGTTTTCAGTTACAATT | 58.644 | 37.500 | 0.00 | 0.00 | 45.68 | 2.32 |
1430 | 1465 | 9.178758 | GAAGTTAATGATTGAGTTATCCCAAGT | 57.821 | 33.333 | 0.00 | 0.00 | 0.00 | 3.16 |
1463 | 1499 | 5.711036 | AGGTACTCTAGTTTGACTCGTGATT | 59.289 | 40.000 | 0.00 | 0.00 | 0.00 | 2.57 |
1537 | 1573 | 3.551846 | ACCAACTTCTTGTCGGTGAAAT | 58.448 | 40.909 | 0.00 | 0.00 | 0.00 | 2.17 |
1542 | 1578 | 6.238648 | CCAACTTCTTGTCGGTGAAATAGTTT | 60.239 | 38.462 | 0.00 | 0.00 | 0.00 | 2.66 |
1544 | 1580 | 8.504005 | CAACTTCTTGTCGGTGAAATAGTTTAT | 58.496 | 33.333 | 0.00 | 0.00 | 0.00 | 1.40 |
1776 | 1812 | 5.815581 | TGATTAACTTTGACTAGGGCATGT | 58.184 | 37.500 | 0.00 | 0.00 | 0.00 | 3.21 |
1789 | 1985 | 4.307032 | AGGGCATGTCTGTAATGTCTTT | 57.693 | 40.909 | 0.00 | 0.00 | 30.25 | 2.52 |
1790 | 1986 | 4.666512 | AGGGCATGTCTGTAATGTCTTTT | 58.333 | 39.130 | 0.00 | 0.00 | 30.25 | 2.27 |
1926 | 2264 | 8.607713 | TGGATTAACCTGGTTCTGATAACTTTA | 58.392 | 33.333 | 16.75 | 0.00 | 39.86 | 1.85 |
2078 | 2421 | 1.788229 | TGGACAGTGTCAGAACCTCA | 58.212 | 50.000 | 24.20 | 8.64 | 33.68 | 3.86 |
2343 | 2686 | 3.389329 | GGAGATACAAGAGCCCAGATGAA | 59.611 | 47.826 | 0.00 | 0.00 | 0.00 | 2.57 |
2557 | 2912 | 6.318648 | TGAACAATACTGTGCTTCTGTTTTCT | 59.681 | 34.615 | 0.00 | 0.00 | 35.37 | 2.52 |
2888 | 3244 | 1.159713 | CCAGTGCTCTTTGCGACACA | 61.160 | 55.000 | 0.00 | 0.00 | 46.63 | 3.72 |
2950 | 3306 | 2.010145 | TGAGTCGGACAGCTAATTGC | 57.990 | 50.000 | 11.27 | 0.00 | 43.29 | 3.56 |
3088 | 3445 | 1.190643 | AGCTGAGGTTCACTAGAGGC | 58.809 | 55.000 | 0.00 | 0.00 | 0.00 | 4.70 |
3143 | 3500 | 6.014840 | ACATTTTGCTCATCTGTCTTTTCCAT | 60.015 | 34.615 | 0.00 | 0.00 | 0.00 | 3.41 |
3236 | 3593 | 2.761208 | AGAGTCCCCTGAAGATTACACG | 59.239 | 50.000 | 0.00 | 0.00 | 0.00 | 4.49 |
3246 | 3603 | 3.871006 | TGAAGATTACACGCCTGCAATAG | 59.129 | 43.478 | 0.00 | 0.00 | 0.00 | 1.73 |
3257 | 3614 | 2.286872 | CCTGCAATAGAAGCTCAGGTG | 58.713 | 52.381 | 7.11 | 0.00 | 39.45 | 4.00 |
3327 | 3684 | 4.621034 | CGCTTACATTGTTTCAAATGGACC | 59.379 | 41.667 | 0.00 | 0.00 | 41.06 | 4.46 |
3328 | 3685 | 4.621034 | GCTTACATTGTTTCAAATGGACCG | 59.379 | 41.667 | 0.00 | 0.00 | 41.06 | 4.79 |
3329 | 3686 | 5.768317 | CTTACATTGTTTCAAATGGACCGT | 58.232 | 37.500 | 0.00 | 0.00 | 41.06 | 4.83 |
3330 | 3687 | 3.976169 | ACATTGTTTCAAATGGACCGTG | 58.024 | 40.909 | 2.34 | 0.00 | 41.06 | 4.94 |
3344 | 3701 | 1.312371 | ACCGTGGCAATTTGATCCCG | 61.312 | 55.000 | 0.00 | 0.00 | 0.00 | 5.14 |
3360 | 3717 | 1.036707 | CCCGTTGTGGAAACAACCAT | 58.963 | 50.000 | 14.30 | 0.00 | 45.07 | 3.55 |
3403 | 3760 | 1.001974 | ACGGTGCTCAACTAATGCAGA | 59.998 | 47.619 | 0.00 | 0.00 | 37.39 | 4.26 |
3411 | 3768 | 3.785486 | TCAACTAATGCAGATCCTCACG | 58.215 | 45.455 | 0.00 | 0.00 | 0.00 | 4.35 |
3620 | 3977 | 1.962402 | GCTAAGGAGGCTGGACTGAGA | 60.962 | 57.143 | 0.00 | 0.00 | 0.00 | 3.27 |
3625 | 3982 | 2.003658 | GAGGCTGGACTGAGAGCTCG | 62.004 | 65.000 | 8.37 | 0.00 | 35.42 | 5.03 |
3647 | 4004 | 0.250858 | AATGTGCAGTGCAGTGCCTA | 60.251 | 50.000 | 36.86 | 27.33 | 43.28 | 3.93 |
3661 | 4018 | 2.185494 | GCCTACTCCGTCGTCCGAT | 61.185 | 63.158 | 0.00 | 0.00 | 39.56 | 4.18 |
3728 | 4085 | 4.836825 | AGGCATATTCATATTGGGACTCG | 58.163 | 43.478 | 0.00 | 0.00 | 0.00 | 4.18 |
3878 | 4235 | 4.855937 | GCAAAGCTTTGAATCTTAGAGCAC | 59.144 | 41.667 | 37.14 | 14.58 | 40.55 | 4.40 |
4102 | 4459 | 0.883833 | AAGCGAGCATGGAGGTTTTG | 59.116 | 50.000 | 0.00 | 0.00 | 0.00 | 2.44 |
4528 | 5045 | 2.023741 | GCAACTGCCATCATCGCG | 59.976 | 61.111 | 0.00 | 0.00 | 34.31 | 5.87 |
4531 | 5048 | 1.815421 | AACTGCCATCATCGCGGTC | 60.815 | 57.895 | 6.13 | 0.00 | 45.06 | 4.79 |
4532 | 5049 | 3.333189 | CTGCCATCATCGCGGTCG | 61.333 | 66.667 | 6.13 | 0.00 | 0.00 | 4.79 |
4589 | 5113 | 0.813821 | GTGAGCCAATGAAGAAGCCC | 59.186 | 55.000 | 0.00 | 0.00 | 0.00 | 5.19 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
0 | 1 | 1.408969 | GTGGCAGGAAAAAGGTTCCA | 58.591 | 50.000 | 7.80 | 0.00 | 41.00 | 3.53 |
1 | 2 | 0.313987 | CGTGGCAGGAAAAAGGTTCC | 59.686 | 55.000 | 0.00 | 0.00 | 38.86 | 3.62 |
2 | 3 | 1.029681 | ACGTGGCAGGAAAAAGGTTC | 58.970 | 50.000 | 14.98 | 0.00 | 0.00 | 3.62 |
3 | 4 | 2.351706 | TACGTGGCAGGAAAAAGGTT | 57.648 | 45.000 | 14.98 | 0.00 | 0.00 | 3.50 |
4 | 5 | 2.579410 | ATACGTGGCAGGAAAAAGGT | 57.421 | 45.000 | 14.98 | 0.00 | 0.00 | 3.50 |
5 | 6 | 4.398044 | ACATTATACGTGGCAGGAAAAAGG | 59.602 | 41.667 | 14.98 | 8.39 | 0.00 | 3.11 |
6 | 7 | 5.560966 | ACATTATACGTGGCAGGAAAAAG | 57.439 | 39.130 | 14.98 | 4.74 | 0.00 | 2.27 |
7 | 8 | 5.968528 | AACATTATACGTGGCAGGAAAAA | 57.031 | 34.783 | 14.98 | 4.93 | 0.00 | 1.94 |
8 | 9 | 5.968528 | AAACATTATACGTGGCAGGAAAA | 57.031 | 34.783 | 14.98 | 5.27 | 0.00 | 2.29 |
9 | 10 | 7.337184 | TCAATAAACATTATACGTGGCAGGAAA | 59.663 | 33.333 | 14.98 | 5.62 | 0.00 | 3.13 |
10 | 11 | 6.824196 | TCAATAAACATTATACGTGGCAGGAA | 59.176 | 34.615 | 14.98 | 0.00 | 0.00 | 3.36 |
11 | 12 | 6.259167 | GTCAATAAACATTATACGTGGCAGGA | 59.741 | 38.462 | 14.98 | 0.00 | 0.00 | 3.86 |
12 | 13 | 6.427150 | GTCAATAAACATTATACGTGGCAGG | 58.573 | 40.000 | 5.50 | 5.50 | 0.00 | 4.85 |
13 | 14 | 6.019398 | TCGTCAATAAACATTATACGTGGCAG | 60.019 | 38.462 | 0.00 | 0.00 | 0.00 | 4.85 |
14 | 15 | 5.811100 | TCGTCAATAAACATTATACGTGGCA | 59.189 | 36.000 | 0.00 | 0.00 | 0.00 | 4.92 |
15 | 16 | 6.124759 | GTCGTCAATAAACATTATACGTGGC | 58.875 | 40.000 | 0.00 | 0.00 | 0.00 | 5.01 |
16 | 17 | 6.256104 | TGGTCGTCAATAAACATTATACGTGG | 59.744 | 38.462 | 0.00 | 0.00 | 0.00 | 4.94 |
17 | 18 | 7.224290 | TGGTCGTCAATAAACATTATACGTG | 57.776 | 36.000 | 0.00 | 0.00 | 0.00 | 4.49 |
18 | 19 | 7.201548 | GGTTGGTCGTCAATAAACATTATACGT | 60.202 | 37.037 | 0.00 | 0.00 | 37.73 | 3.57 |
19 | 20 | 7.121272 | GGTTGGTCGTCAATAAACATTATACG | 58.879 | 38.462 | 0.00 | 0.00 | 37.73 | 3.06 |
20 | 21 | 7.412063 | GGGTTGGTCGTCAATAAACATTATAC | 58.588 | 38.462 | 0.00 | 0.00 | 37.73 | 1.47 |
21 | 22 | 6.543100 | GGGGTTGGTCGTCAATAAACATTATA | 59.457 | 38.462 | 0.00 | 0.00 | 37.73 | 0.98 |
22 | 23 | 5.358725 | GGGGTTGGTCGTCAATAAACATTAT | 59.641 | 40.000 | 0.00 | 0.00 | 37.73 | 1.28 |
23 | 24 | 4.701171 | GGGGTTGGTCGTCAATAAACATTA | 59.299 | 41.667 | 0.00 | 0.00 | 37.73 | 1.90 |
24 | 25 | 3.508402 | GGGGTTGGTCGTCAATAAACATT | 59.492 | 43.478 | 0.00 | 0.00 | 37.73 | 2.71 |
25 | 26 | 3.086282 | GGGGTTGGTCGTCAATAAACAT | 58.914 | 45.455 | 0.00 | 0.00 | 37.73 | 2.71 |
26 | 27 | 2.158652 | TGGGGTTGGTCGTCAATAAACA | 60.159 | 45.455 | 0.00 | 0.00 | 37.73 | 2.83 |
27 | 28 | 2.227149 | GTGGGGTTGGTCGTCAATAAAC | 59.773 | 50.000 | 0.00 | 0.00 | 37.73 | 2.01 |
28 | 29 | 2.506444 | GTGGGGTTGGTCGTCAATAAA | 58.494 | 47.619 | 0.00 | 0.00 | 37.73 | 1.40 |
29 | 30 | 1.608542 | CGTGGGGTTGGTCGTCAATAA | 60.609 | 52.381 | 0.00 | 0.00 | 37.73 | 1.40 |
30 | 31 | 0.037139 | CGTGGGGTTGGTCGTCAATA | 60.037 | 55.000 | 0.00 | 0.00 | 37.73 | 1.90 |
31 | 32 | 1.302192 | CGTGGGGTTGGTCGTCAAT | 60.302 | 57.895 | 0.00 | 0.00 | 37.73 | 2.57 |
32 | 33 | 2.109387 | CGTGGGGTTGGTCGTCAA | 59.891 | 61.111 | 0.00 | 0.00 | 0.00 | 3.18 |
33 | 34 | 4.612412 | GCGTGGGGTTGGTCGTCA | 62.612 | 66.667 | 0.00 | 0.00 | 0.00 | 4.35 |
40 | 41 | 4.263572 | TGAGGTGGCGTGGGGTTG | 62.264 | 66.667 | 0.00 | 0.00 | 0.00 | 3.77 |
41 | 42 | 4.265056 | GTGAGGTGGCGTGGGGTT | 62.265 | 66.667 | 0.00 | 0.00 | 0.00 | 4.11 |
44 | 45 | 4.394712 | GAGGTGAGGTGGCGTGGG | 62.395 | 72.222 | 0.00 | 0.00 | 0.00 | 4.61 |
45 | 46 | 4.742201 | CGAGGTGAGGTGGCGTGG | 62.742 | 72.222 | 0.00 | 0.00 | 0.00 | 4.94 |
46 | 47 | 4.742201 | CCGAGGTGAGGTGGCGTG | 62.742 | 72.222 | 0.00 | 0.00 | 0.00 | 5.34 |
50 | 51 | 2.690653 | TTTTGGCCGAGGTGAGGTGG | 62.691 | 60.000 | 0.00 | 0.00 | 0.00 | 4.61 |
51 | 52 | 1.228124 | TTTTGGCCGAGGTGAGGTG | 60.228 | 57.895 | 0.00 | 0.00 | 0.00 | 4.00 |
52 | 53 | 1.073199 | CTTTTGGCCGAGGTGAGGT | 59.927 | 57.895 | 0.00 | 0.00 | 0.00 | 3.85 |
53 | 54 | 0.537371 | AACTTTTGGCCGAGGTGAGG | 60.537 | 55.000 | 0.00 | 0.00 | 0.00 | 3.86 |
54 | 55 | 1.001378 | CAAACTTTTGGCCGAGGTGAG | 60.001 | 52.381 | 0.00 | 0.00 | 34.59 | 3.51 |
55 | 56 | 1.028905 | CAAACTTTTGGCCGAGGTGA | 58.971 | 50.000 | 0.00 | 0.00 | 34.59 | 4.02 |
56 | 57 | 3.568093 | CAAACTTTTGGCCGAGGTG | 57.432 | 52.632 | 0.00 | 0.00 | 34.59 | 4.00 |
75 | 76 | 9.470399 | TTTATTTTTATTGAGAAGGGGTAGTCC | 57.530 | 33.333 | 0.00 | 0.00 | 0.00 | 3.85 |
91 | 92 | 9.869757 | CCGGTGAGGAAAAGATTTTATTTTTAT | 57.130 | 29.630 | 0.00 | 0.00 | 45.00 | 1.40 |
109 | 110 | 2.279741 | CATTGTACATGTCCGGTGAGG | 58.720 | 52.381 | 0.00 | 0.00 | 42.97 | 3.86 |
110 | 111 | 1.665679 | GCATTGTACATGTCCGGTGAG | 59.334 | 52.381 | 0.00 | 0.00 | 0.00 | 3.51 |
111 | 112 | 1.277842 | AGCATTGTACATGTCCGGTGA | 59.722 | 47.619 | 0.00 | 0.00 | 0.00 | 4.02 |
112 | 113 | 1.737838 | AGCATTGTACATGTCCGGTG | 58.262 | 50.000 | 0.00 | 0.00 | 0.00 | 4.94 |
113 | 114 | 2.489938 | AAGCATTGTACATGTCCGGT | 57.510 | 45.000 | 0.00 | 0.00 | 0.00 | 5.28 |
114 | 115 | 4.261155 | CCAATAAGCATTGTACATGTCCGG | 60.261 | 45.833 | 0.00 | 0.00 | 40.04 | 5.14 |
115 | 116 | 4.789481 | GCCAATAAGCATTGTACATGTCCG | 60.789 | 45.833 | 0.00 | 0.00 | 40.04 | 4.79 |
116 | 117 | 4.610945 | GCCAATAAGCATTGTACATGTCC | 58.389 | 43.478 | 0.00 | 0.00 | 40.04 | 4.02 |
117 | 118 | 4.035091 | TCGCCAATAAGCATTGTACATGTC | 59.965 | 41.667 | 0.00 | 0.00 | 40.04 | 3.06 |
118 | 119 | 3.944650 | TCGCCAATAAGCATTGTACATGT | 59.055 | 39.130 | 2.69 | 2.69 | 40.04 | 3.21 |
119 | 120 | 4.282068 | GTCGCCAATAAGCATTGTACATG | 58.718 | 43.478 | 0.00 | 0.00 | 40.04 | 3.21 |
120 | 121 | 3.315191 | GGTCGCCAATAAGCATTGTACAT | 59.685 | 43.478 | 0.00 | 0.00 | 40.04 | 2.29 |
121 | 122 | 2.680841 | GGTCGCCAATAAGCATTGTACA | 59.319 | 45.455 | 0.00 | 0.00 | 40.04 | 2.90 |
122 | 123 | 2.680841 | TGGTCGCCAATAAGCATTGTAC | 59.319 | 45.455 | 0.00 | 0.00 | 40.04 | 2.90 |
123 | 124 | 2.992593 | TGGTCGCCAATAAGCATTGTA | 58.007 | 42.857 | 0.00 | 0.00 | 40.04 | 2.41 |
124 | 125 | 1.832883 | TGGTCGCCAATAAGCATTGT | 58.167 | 45.000 | 0.00 | 0.00 | 40.04 | 2.71 |
125 | 126 | 2.529151 | GTTGGTCGCCAATAAGCATTG | 58.471 | 47.619 | 13.23 | 0.00 | 45.80 | 2.82 |
126 | 127 | 1.476488 | GGTTGGTCGCCAATAAGCATT | 59.524 | 47.619 | 13.23 | 0.00 | 45.80 | 3.56 |
127 | 128 | 1.102978 | GGTTGGTCGCCAATAAGCAT | 58.897 | 50.000 | 13.23 | 0.00 | 45.80 | 3.79 |
128 | 129 | 0.963355 | GGGTTGGTCGCCAATAAGCA | 60.963 | 55.000 | 13.23 | 0.00 | 45.80 | 3.91 |
129 | 130 | 1.663379 | GGGGTTGGTCGCCAATAAGC | 61.663 | 60.000 | 13.23 | 3.01 | 45.80 | 3.09 |
130 | 131 | 1.373590 | CGGGGTTGGTCGCCAATAAG | 61.374 | 60.000 | 13.23 | 4.17 | 45.80 | 1.73 |
131 | 132 | 1.377463 | CGGGGTTGGTCGCCAATAA | 60.377 | 57.895 | 13.23 | 0.00 | 45.80 | 1.40 |
132 | 133 | 2.269562 | CGGGGTTGGTCGCCAATA | 59.730 | 61.111 | 13.23 | 0.00 | 45.80 | 1.90 |
150 | 151 | 3.423154 | GGCCAAAGCGAGGTGACG | 61.423 | 66.667 | 0.00 | 0.00 | 41.24 | 4.35 |
151 | 152 | 1.452145 | TTTGGCCAAAGCGAGGTGAC | 61.452 | 55.000 | 27.13 | 0.00 | 41.24 | 3.67 |
152 | 153 | 0.753479 | TTTTGGCCAAAGCGAGGTGA | 60.753 | 50.000 | 28.79 | 10.77 | 41.24 | 4.02 |
153 | 154 | 0.103937 | TTTTTGGCCAAAGCGAGGTG | 59.896 | 50.000 | 28.79 | 0.00 | 41.24 | 4.00 |
154 | 155 | 0.104120 | GTTTTTGGCCAAAGCGAGGT | 59.896 | 50.000 | 28.79 | 0.00 | 41.24 | 3.85 |
155 | 156 | 0.389025 | AGTTTTTGGCCAAAGCGAGG | 59.611 | 50.000 | 28.79 | 0.00 | 41.24 | 4.63 |
156 | 157 | 1.860326 | CAAGTTTTTGGCCAAAGCGAG | 59.140 | 47.619 | 28.79 | 18.47 | 41.24 | 5.03 |
157 | 158 | 1.478510 | TCAAGTTTTTGGCCAAAGCGA | 59.521 | 42.857 | 28.79 | 18.65 | 41.24 | 4.93 |
158 | 159 | 1.860326 | CTCAAGTTTTTGGCCAAAGCG | 59.140 | 47.619 | 28.79 | 16.89 | 41.24 | 4.68 |
159 | 160 | 2.866156 | GTCTCAAGTTTTTGGCCAAAGC | 59.134 | 45.455 | 28.79 | 24.15 | 34.97 | 3.51 |
160 | 161 | 4.391405 | AGTCTCAAGTTTTTGGCCAAAG | 57.609 | 40.909 | 28.79 | 17.99 | 34.97 | 2.77 |
161 | 162 | 4.098807 | GGTAGTCTCAAGTTTTTGGCCAAA | 59.901 | 41.667 | 27.13 | 27.13 | 34.97 | 3.28 |
162 | 163 | 3.634910 | GGTAGTCTCAAGTTTTTGGCCAA | 59.365 | 43.478 | 16.05 | 16.05 | 34.97 | 4.52 |
163 | 164 | 3.219281 | GGTAGTCTCAAGTTTTTGGCCA | 58.781 | 45.455 | 0.00 | 0.00 | 34.97 | 5.36 |
164 | 165 | 2.557056 | GGGTAGTCTCAAGTTTTTGGCC | 59.443 | 50.000 | 0.00 | 0.00 | 34.97 | 5.36 |
165 | 166 | 2.557056 | GGGGTAGTCTCAAGTTTTTGGC | 59.443 | 50.000 | 0.00 | 0.00 | 34.97 | 4.52 |
166 | 167 | 4.100279 | AGGGGTAGTCTCAAGTTTTTGG | 57.900 | 45.455 | 0.00 | 0.00 | 34.97 | 3.28 |
167 | 168 | 6.096282 | TGAAAAGGGGTAGTCTCAAGTTTTTG | 59.904 | 38.462 | 0.00 | 0.00 | 35.57 | 2.44 |
168 | 169 | 6.192044 | TGAAAAGGGGTAGTCTCAAGTTTTT | 58.808 | 36.000 | 0.00 | 0.00 | 0.00 | 1.94 |
169 | 170 | 5.762279 | TGAAAAGGGGTAGTCTCAAGTTTT | 58.238 | 37.500 | 0.00 | 0.00 | 0.00 | 2.43 |
170 | 171 | 5.382664 | TGAAAAGGGGTAGTCTCAAGTTT | 57.617 | 39.130 | 0.00 | 0.00 | 0.00 | 2.66 |
171 | 172 | 5.382664 | TTGAAAAGGGGTAGTCTCAAGTT | 57.617 | 39.130 | 0.00 | 0.00 | 0.00 | 2.66 |
172 | 173 | 5.584551 | ATTGAAAAGGGGTAGTCTCAAGT | 57.415 | 39.130 | 0.00 | 0.00 | 0.00 | 3.16 |
173 | 174 | 7.996098 | TTTATTGAAAAGGGGTAGTCTCAAG | 57.004 | 36.000 | 0.00 | 0.00 | 0.00 | 3.02 |
174 | 175 | 8.770010 | TTTTTATTGAAAAGGGGTAGTCTCAA | 57.230 | 30.769 | 0.00 | 0.00 | 35.96 | 3.02 |
175 | 176 | 8.950007 | ATTTTTATTGAAAAGGGGTAGTCTCA | 57.050 | 30.769 | 0.00 | 0.00 | 40.35 | 3.27 |
196 | 197 | 9.226606 | TGTCTGGTGACGAAAATATTCTATTTT | 57.773 | 29.630 | 4.90 | 4.90 | 45.70 | 1.82 |
197 | 198 | 8.665685 | GTGTCTGGTGACGAAAATATTCTATTT | 58.334 | 33.333 | 0.00 | 0.00 | 45.70 | 1.40 |
198 | 199 | 7.010183 | CGTGTCTGGTGACGAAAATATTCTATT | 59.990 | 37.037 | 0.00 | 0.00 | 45.70 | 1.73 |
199 | 200 | 6.475727 | CGTGTCTGGTGACGAAAATATTCTAT | 59.524 | 38.462 | 0.00 | 0.00 | 45.70 | 1.98 |
200 | 201 | 5.803461 | CGTGTCTGGTGACGAAAATATTCTA | 59.197 | 40.000 | 0.00 | 0.00 | 45.70 | 2.10 |
201 | 202 | 4.625742 | CGTGTCTGGTGACGAAAATATTCT | 59.374 | 41.667 | 0.00 | 0.00 | 45.70 | 2.40 |
202 | 203 | 4.387862 | ACGTGTCTGGTGACGAAAATATTC | 59.612 | 41.667 | 0.00 | 0.00 | 45.70 | 1.75 |
203 | 204 | 4.312443 | ACGTGTCTGGTGACGAAAATATT | 58.688 | 39.130 | 0.00 | 0.00 | 45.70 | 1.28 |
204 | 205 | 3.921677 | ACGTGTCTGGTGACGAAAATAT | 58.078 | 40.909 | 0.00 | 0.00 | 45.70 | 1.28 |
205 | 206 | 3.374220 | ACGTGTCTGGTGACGAAAATA | 57.626 | 42.857 | 0.00 | 0.00 | 45.70 | 1.40 |
206 | 207 | 2.234300 | ACGTGTCTGGTGACGAAAAT | 57.766 | 45.000 | 0.00 | 0.00 | 45.70 | 1.82 |
207 | 208 | 2.159268 | TGTACGTGTCTGGTGACGAAAA | 60.159 | 45.455 | 0.00 | 0.00 | 45.70 | 2.29 |
208 | 209 | 1.404748 | TGTACGTGTCTGGTGACGAAA | 59.595 | 47.619 | 0.00 | 0.00 | 45.70 | 3.46 |
209 | 210 | 1.023502 | TGTACGTGTCTGGTGACGAA | 58.976 | 50.000 | 0.00 | 0.00 | 45.70 | 3.85 |
210 | 211 | 1.023502 | TTGTACGTGTCTGGTGACGA | 58.976 | 50.000 | 0.00 | 0.00 | 45.70 | 4.20 |
211 | 212 | 1.719246 | CATTGTACGTGTCTGGTGACG | 59.281 | 52.381 | 0.00 | 0.00 | 45.70 | 4.35 |
212 | 213 | 1.459592 | GCATTGTACGTGTCTGGTGAC | 59.540 | 52.381 | 0.00 | 0.00 | 43.20 | 3.67 |
213 | 214 | 1.343142 | AGCATTGTACGTGTCTGGTGA | 59.657 | 47.619 | 0.00 | 0.00 | 0.00 | 4.02 |
214 | 215 | 1.795768 | AGCATTGTACGTGTCTGGTG | 58.204 | 50.000 | 0.00 | 0.00 | 0.00 | 4.17 |
215 | 216 | 2.543777 | AAGCATTGTACGTGTCTGGT | 57.456 | 45.000 | 0.00 | 0.00 | 0.00 | 4.00 |
216 | 217 | 4.201812 | CCAATAAGCATTGTACGTGTCTGG | 60.202 | 45.833 | 0.00 | 0.00 | 40.04 | 3.86 |
217 | 218 | 4.727734 | GCCAATAAGCATTGTACGTGTCTG | 60.728 | 45.833 | 0.00 | 0.00 | 40.04 | 3.51 |
218 | 219 | 3.374058 | GCCAATAAGCATTGTACGTGTCT | 59.626 | 43.478 | 0.00 | 0.00 | 40.04 | 3.41 |
219 | 220 | 3.680789 | GCCAATAAGCATTGTACGTGTC | 58.319 | 45.455 | 0.00 | 0.00 | 40.04 | 3.67 |
220 | 221 | 2.095213 | CGCCAATAAGCATTGTACGTGT | 59.905 | 45.455 | 0.00 | 0.00 | 40.04 | 4.49 |
221 | 222 | 2.350192 | TCGCCAATAAGCATTGTACGTG | 59.650 | 45.455 | 0.00 | 0.00 | 40.04 | 4.49 |
222 | 223 | 2.350498 | GTCGCCAATAAGCATTGTACGT | 59.650 | 45.455 | 0.00 | 0.00 | 40.04 | 3.57 |
223 | 224 | 2.286184 | GGTCGCCAATAAGCATTGTACG | 60.286 | 50.000 | 0.00 | 0.00 | 40.04 | 3.67 |
224 | 225 | 2.680841 | TGGTCGCCAATAAGCATTGTAC | 59.319 | 45.455 | 0.00 | 0.00 | 40.04 | 2.90 |
225 | 226 | 2.992593 | TGGTCGCCAATAAGCATTGTA | 58.007 | 42.857 | 0.00 | 0.00 | 40.04 | 2.41 |
226 | 227 | 1.832883 | TGGTCGCCAATAAGCATTGT | 58.167 | 45.000 | 0.00 | 0.00 | 40.04 | 2.71 |
227 | 228 | 2.937469 | TTGGTCGCCAATAAGCATTG | 57.063 | 45.000 | 7.15 | 0.00 | 38.75 | 2.82 |
532 | 533 | 4.134563 | GAGTAGTCTCAAGTTTTTGGCCA | 58.865 | 43.478 | 0.00 | 0.00 | 40.18 | 5.36 |
546 | 547 | 9.702253 | TCTATTTGTATTGAGAAGGAGTAGTCT | 57.298 | 33.333 | 0.00 | 0.00 | 0.00 | 3.24 |
565 | 566 | 8.786898 | TGTCTGGTGAGAAAAAGATTCTATTTG | 58.213 | 33.333 | 0.00 | 0.00 | 0.00 | 2.32 |
570 | 571 | 4.752101 | CGTGTCTGGTGAGAAAAAGATTCT | 59.248 | 41.667 | 0.00 | 0.00 | 0.00 | 2.40 |
585 | 587 | 4.201812 | CCAATAAGCATTGTACGTGTCTGG | 60.202 | 45.833 | 0.00 | 0.00 | 40.04 | 3.86 |
619 | 621 | 0.755327 | AAGTTTTTGGCCGAGGCAGT | 60.755 | 50.000 | 16.65 | 0.00 | 44.11 | 4.40 |
620 | 622 | 1.243902 | TAAGTTTTTGGCCGAGGCAG | 58.756 | 50.000 | 16.65 | 0.00 | 44.11 | 4.85 |
621 | 623 | 1.693627 | TTAAGTTTTTGGCCGAGGCA | 58.306 | 45.000 | 16.65 | 0.00 | 44.11 | 4.75 |
672 | 682 | 9.683069 | GTCGCCAATAAATATTTGATGAAGAAT | 57.317 | 29.630 | 11.05 | 0.00 | 0.00 | 2.40 |
678 | 688 | 6.420604 | GGTTGGTCGCCAATAAATATTTGATG | 59.579 | 38.462 | 11.05 | 9.05 | 45.80 | 3.07 |
679 | 689 | 6.462347 | GGGTTGGTCGCCAATAAATATTTGAT | 60.462 | 38.462 | 11.05 | 0.00 | 45.80 | 2.57 |
680 | 690 | 5.163499 | GGGTTGGTCGCCAATAAATATTTGA | 60.163 | 40.000 | 11.05 | 0.00 | 45.80 | 2.69 |
681 | 691 | 5.047188 | GGGTTGGTCGCCAATAAATATTTG | 58.953 | 41.667 | 11.05 | 0.00 | 45.80 | 2.32 |
708 | 727 | 0.251653 | TTCCGTAGAGGTGAGGTGCT | 60.252 | 55.000 | 0.00 | 0.00 | 41.99 | 4.40 |
709 | 728 | 0.606604 | TTTCCGTAGAGGTGAGGTGC | 59.393 | 55.000 | 0.00 | 0.00 | 41.99 | 5.01 |
714 | 733 | 2.038033 | CCCAAGTTTTCCGTAGAGGTGA | 59.962 | 50.000 | 0.00 | 0.00 | 41.99 | 4.02 |
724 | 743 | 3.407443 | TGGTCGTCCCAAGTTTTCC | 57.593 | 52.632 | 0.00 | 0.00 | 41.50 | 3.13 |
794 | 818 | 3.695825 | GGGAGGGTGAGGAGGGGA | 61.696 | 72.222 | 0.00 | 0.00 | 0.00 | 4.81 |
1168 | 1203 | 0.618458 | AACATGACGCCATACCTGGT | 59.382 | 50.000 | 4.05 | 4.05 | 45.10 | 4.00 |
1180 | 1215 | 5.293324 | TCAATGTCGGTAAGCATAACATGAC | 59.707 | 40.000 | 0.00 | 0.00 | 31.29 | 3.06 |
1216 | 1251 | 5.417580 | TCCTTATCCGTAAGCAAAGCAAAAT | 59.582 | 36.000 | 0.00 | 0.00 | 36.74 | 1.82 |
1248 | 1283 | 0.106217 | AAATCACCGGCCCCCAATAG | 60.106 | 55.000 | 0.00 | 0.00 | 0.00 | 1.73 |
1370 | 1405 | 7.042925 | AGCAACGATGGACTTAATATTTCGTAC | 60.043 | 37.037 | 8.93 | 5.80 | 37.36 | 3.67 |
1381 | 1416 | 1.274167 | ACCGAAGCAACGATGGACTTA | 59.726 | 47.619 | 4.23 | 0.00 | 35.09 | 2.24 |
1438 | 1474 | 5.068636 | TCACGAGTCAAACTAGAGTACCTT | 58.931 | 41.667 | 0.00 | 0.00 | 0.00 | 3.50 |
1537 | 1573 | 8.817100 | CACATGCTATGTTTCGAAGATAAACTA | 58.183 | 33.333 | 0.00 | 0.00 | 42.70 | 2.24 |
1542 | 1578 | 5.753438 | GGTCACATGCTATGTTTCGAAGATA | 59.247 | 40.000 | 0.00 | 0.00 | 42.70 | 1.98 |
1544 | 1580 | 3.932710 | GGTCACATGCTATGTTTCGAAGA | 59.067 | 43.478 | 0.00 | 0.00 | 42.70 | 2.87 |
1836 | 2174 | 3.066064 | TGCACATACGTTTGCAGAAAGTT | 59.934 | 39.130 | 13.38 | 0.00 | 43.79 | 2.66 |
2078 | 2421 | 8.016301 | TGATGCTGTCTTCTAGTCTAATCAAT | 57.984 | 34.615 | 0.00 | 0.00 | 0.00 | 2.57 |
2126 | 2469 | 7.015226 | TGTATCAGCATTGTAACAATACTGC | 57.985 | 36.000 | 0.00 | 5.94 | 34.87 | 4.40 |
2343 | 2686 | 4.290722 | AGATCTTCTGGAAAGAATGGGTGT | 59.709 | 41.667 | 0.00 | 0.00 | 0.00 | 4.16 |
2557 | 2912 | 8.786826 | ATGCTAGTTGCTAACAAGTAACAATA | 57.213 | 30.769 | 8.67 | 0.00 | 39.80 | 1.90 |
2907 | 3263 | 7.342026 | TCAAAGACCAGCAGTATTGATCTAGTA | 59.658 | 37.037 | 0.00 | 0.00 | 32.36 | 1.82 |
2950 | 3306 | 9.853555 | TTGTGGCATAGTAAAAATGATTTACAG | 57.146 | 29.630 | 12.15 | 4.64 | 37.35 | 2.74 |
3088 | 3445 | 5.159209 | CAAAGAAATGCTTAGTTGCAGGAG | 58.841 | 41.667 | 0.00 | 0.00 | 46.71 | 3.69 |
3236 | 3593 | 1.307097 | CCTGAGCTTCTATTGCAGGC | 58.693 | 55.000 | 2.71 | 0.00 | 39.60 | 4.85 |
3246 | 3603 | 0.607620 | AGAGCACTCACCTGAGCTTC | 59.392 | 55.000 | 2.01 | 0.00 | 45.79 | 3.86 |
3257 | 3614 | 5.053145 | CCCTCATTGTAACATAGAGCACTC | 58.947 | 45.833 | 0.00 | 0.00 | 0.00 | 3.51 |
3327 | 3684 | 0.525761 | AACGGGATCAAATTGCCACG | 59.474 | 50.000 | 7.95 | 7.95 | 0.00 | 4.94 |
3328 | 3685 | 1.272212 | ACAACGGGATCAAATTGCCAC | 59.728 | 47.619 | 0.00 | 0.00 | 0.00 | 5.01 |
3329 | 3686 | 1.271934 | CACAACGGGATCAAATTGCCA | 59.728 | 47.619 | 0.00 | 0.00 | 0.00 | 4.92 |
3330 | 3687 | 1.404047 | CCACAACGGGATCAAATTGCC | 60.404 | 52.381 | 0.00 | 0.00 | 0.00 | 4.52 |
3360 | 3717 | 2.598985 | AATGGCCGCCCGACAAAA | 60.599 | 55.556 | 7.03 | 0.00 | 0.00 | 2.44 |
3387 | 3744 | 3.198417 | TGAGGATCTGCATTAGTTGAGCA | 59.802 | 43.478 | 0.00 | 0.00 | 34.92 | 4.26 |
3411 | 3768 | 2.021106 | CGCTCGACCGTCTCGTAC | 59.979 | 66.667 | 0.00 | 0.00 | 43.45 | 3.67 |
3556 | 3913 | 1.221414 | GTTAGCGGCATGATCCTGTC | 58.779 | 55.000 | 1.45 | 0.00 | 0.00 | 3.51 |
3661 | 4018 | 4.804608 | TTCTTTGATGACGCGAGAAAAA | 57.195 | 36.364 | 15.93 | 5.86 | 0.00 | 1.94 |
3728 | 4085 | 6.369065 | ACGTCTCAAATATGTTCTTCCAAGTC | 59.631 | 38.462 | 0.00 | 0.00 | 0.00 | 3.01 |
3878 | 4235 | 5.006386 | AGGTTTTACAGAATCAGCAAGAGG | 58.994 | 41.667 | 0.00 | 0.00 | 0.00 | 3.69 |
3979 | 4336 | 9.598517 | AGTTTGATTTTGCTCAACTCAAAAATA | 57.401 | 25.926 | 15.33 | 0.00 | 43.77 | 1.40 |
4102 | 4459 | 1.014352 | ACAAGTCACAAACACTCCGC | 58.986 | 50.000 | 0.00 | 0.00 | 0.00 | 5.54 |
4528 | 5045 | 4.216731 | GTTTTCCTTCGAATTTGACGACC | 58.783 | 43.478 | 0.00 | 0.00 | 39.46 | 4.79 |
4530 | 5047 | 3.878103 | TGGTTTTCCTTCGAATTTGACGA | 59.122 | 39.130 | 0.00 | 0.00 | 41.38 | 4.20 |
4531 | 5048 | 4.217754 | TGGTTTTCCTTCGAATTTGACG | 57.782 | 40.909 | 0.00 | 0.00 | 41.38 | 4.35 |
4532 | 5049 | 5.800438 | GCTATGGTTTTCCTTCGAATTTGAC | 59.200 | 40.000 | 0.00 | 0.00 | 41.38 | 3.18 |
4577 | 5101 | 0.741221 | GCTCGACGGGCTTCTTCATT | 60.741 | 55.000 | 13.71 | 0.00 | 0.00 | 2.57 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.