Multiple sequence alignment - TraesCS7D01G516200
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 | TraesCS7D01G516200 | chr7D | 100.000 | 3106 | 0 | 0 | 1 | 3106 | 615945450 | 615948555 | 0.000000e+00 | 5736 |
1 | TraesCS7D01G516200 | chr7D | 95.192 | 104 | 5 | 0 | 1 | 104 | 568653875 | 568653978 | 6.890000e-37 | 165 |
2 | TraesCS7D01G516200 | chr7B | 91.910 | 1508 | 70 | 27 | 665 | 2142 | 709081013 | 709082498 | 0.000000e+00 | 2061 |
3 | TraesCS7D01G516200 | chr7B | 88.858 | 727 | 60 | 16 | 2393 | 3106 | 709084394 | 709085112 | 0.000000e+00 | 874 |
4 | TraesCS7D01G516200 | chr7A | 92.371 | 852 | 39 | 5 | 1302 | 2146 | 708739701 | 708740533 | 0.000000e+00 | 1190 |
5 | TraesCS7D01G516200 | chr7A | 90.943 | 541 | 31 | 12 | 2575 | 3106 | 708774561 | 708775092 | 0.000000e+00 | 712 |
6 | TraesCS7D01G516200 | chr7A | 90.234 | 512 | 36 | 5 | 633 | 1132 | 708737802 | 708738311 | 0.000000e+00 | 656 |
7 | TraesCS7D01G516200 | chr7A | 83.019 | 530 | 85 | 4 | 117 | 642 | 708737251 | 708737779 | 2.800000e-130 | 475 |
8 | TraesCS7D01G516200 | chr7A | 93.377 | 151 | 10 | 0 | 1162 | 1312 | 708738477 | 708738627 | 1.120000e-54 | 224 |
9 | TraesCS7D01G516200 | chr7A | 92.623 | 122 | 8 | 1 | 2382 | 2502 | 708742582 | 708742703 | 1.140000e-39 | 174 |
10 | TraesCS7D01G516200 | chr7A | 95.283 | 106 | 5 | 0 | 1 | 106 | 712049982 | 712050087 | 5.330000e-38 | 169 |
11 | TraesCS7D01G516200 | chr7A | 85.484 | 124 | 16 | 2 | 2433 | 2555 | 498590381 | 498590259 | 9.040000e-26 | 128 |
12 | TraesCS7D01G516200 | chr2B | 87.669 | 665 | 69 | 10 | 2390 | 3048 | 136441613 | 136440956 | 0.000000e+00 | 761 |
13 | TraesCS7D01G516200 | chr5A | 92.118 | 203 | 14 | 2 | 2182 | 2383 | 34842106 | 34841905 | 5.070000e-73 | 285 |
14 | TraesCS7D01G516200 | chr5A | 91.626 | 203 | 14 | 3 | 2182 | 2383 | 421857539 | 421857739 | 8.480000e-71 | 278 |
15 | TraesCS7D01G516200 | chr5A | 95.283 | 106 | 5 | 0 | 1 | 106 | 647393874 | 647393769 | 5.330000e-38 | 169 |
16 | TraesCS7D01G516200 | chr5A | 76.415 | 318 | 65 | 8 | 1625 | 1940 | 450474298 | 450473989 | 2.480000e-36 | 163 |
17 | TraesCS7D01G516200 | chr5A | 76.821 | 302 | 62 | 6 | 1625 | 1925 | 450541452 | 450541746 | 2.480000e-36 | 163 |
18 | TraesCS7D01G516200 | chr5A | 76.733 | 202 | 42 | 4 | 375 | 572 | 581131344 | 581131544 | 1.180000e-19 | 108 |
19 | TraesCS7D01G516200 | chr3D | 90.698 | 215 | 16 | 4 | 2182 | 2394 | 62813801 | 62813589 | 1.820000e-72 | 283 |
20 | TraesCS7D01G516200 | chr2D | 91.667 | 204 | 15 | 2 | 2182 | 2384 | 112871151 | 112870949 | 6.560000e-72 | 281 |
21 | TraesCS7D01G516200 | chr2D | 91.176 | 204 | 16 | 2 | 2182 | 2384 | 644999193 | 644999395 | 3.050000e-70 | 276 |
22 | TraesCS7D01G516200 | chr3A | 90.521 | 211 | 16 | 4 | 2182 | 2391 | 249853956 | 249853749 | 3.050000e-70 | 276 |
23 | TraesCS7D01G516200 | chr3A | 83.740 | 123 | 18 | 2 | 2434 | 2555 | 597168429 | 597168550 | 7.040000e-22 | 115 |
24 | TraesCS7D01G516200 | chr1B | 90.821 | 207 | 17 | 2 | 2182 | 2387 | 538625578 | 538625373 | 3.050000e-70 | 276 |
25 | TraesCS7D01G516200 | chr1D | 90.777 | 206 | 17 | 2 | 2182 | 2386 | 365804761 | 365804557 | 1.100000e-69 | 274 |
26 | TraesCS7D01G516200 | chr1D | 95.283 | 106 | 4 | 1 | 1 | 106 | 16205288 | 16205392 | 1.920000e-37 | 167 |
27 | TraesCS7D01G516200 | chr6D | 90.777 | 206 | 16 | 2 | 2182 | 2386 | 426200914 | 426200711 | 3.950000e-69 | 272 |
28 | TraesCS7D01G516200 | chr1A | 97.115 | 104 | 3 | 0 | 1 | 104 | 535551458 | 535551355 | 3.180000e-40 | 176 |
29 | TraesCS7D01G516200 | chr3B | 96.226 | 106 | 4 | 0 | 1 | 106 | 3135548 | 3135443 | 1.140000e-39 | 174 |
30 | TraesCS7D01G516200 | chr3B | 96.154 | 104 | 4 | 0 | 1 | 104 | 76517064 | 76516961 | 1.480000e-38 | 171 |
31 | TraesCS7D01G516200 | chr2A | 88.811 | 143 | 13 | 3 | 2961 | 3100 | 85295027 | 85294885 | 4.120000e-39 | 172 |
32 | TraesCS7D01G516200 | chr2A | 96.154 | 104 | 4 | 0 | 1 | 104 | 624950062 | 624950165 | 1.480000e-38 | 171 |
33 | TraesCS7D01G516200 | chr2A | 87.805 | 123 | 13 | 2 | 2433 | 2555 | 179289308 | 179289188 | 3.230000e-30 | 143 |
34 | TraesCS7D01G516200 | chr2A | 85.714 | 119 | 12 | 5 | 2434 | 2550 | 657517860 | 657517745 | 1.510000e-23 | 121 |
35 | TraesCS7D01G516200 | chr5D | 77.152 | 302 | 61 | 6 | 1625 | 1925 | 350220792 | 350221086 | 5.330000e-38 | 169 |
36 | TraesCS7D01G516200 | chr5D | 75.472 | 318 | 68 | 8 | 1625 | 1940 | 349981164 | 349980855 | 2.500000e-31 | 147 |
37 | TraesCS7D01G516200 | chr4B | 95.192 | 104 | 5 | 0 | 1 | 104 | 106768181 | 106768284 | 6.890000e-37 | 165 |
38 | TraesCS7D01G516200 | chr5B | 76.821 | 302 | 62 | 6 | 1625 | 1925 | 410722994 | 410723288 | 2.480000e-36 | 163 |
39 | TraesCS7D01G516200 | chr5B | 86.047 | 129 | 14 | 4 | 2429 | 2555 | 387741731 | 387741605 | 5.400000e-28 | 135 |
40 | TraesCS7D01G516200 | chr4A | 84.211 | 133 | 18 | 3 | 2426 | 2556 | 633353711 | 633353842 | 3.250000e-25 | 126 |
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 | TraesCS7D01G516200 | chr7D | 615945450 | 615948555 | 3105 | False | 5736.0 | 5736 | 100.0000 | 1 | 3106 | 1 | chr7D.!!$F2 | 3105 |
1 | TraesCS7D01G516200 | chr7B | 709081013 | 709085112 | 4099 | False | 1467.5 | 2061 | 90.3840 | 665 | 3106 | 2 | chr7B.!!$F1 | 2441 |
2 | TraesCS7D01G516200 | chr7A | 708774561 | 708775092 | 531 | False | 712.0 | 712 | 90.9430 | 2575 | 3106 | 1 | chr7A.!!$F1 | 531 |
3 | TraesCS7D01G516200 | chr7A | 708737251 | 708742703 | 5452 | False | 543.8 | 1190 | 90.3248 | 117 | 2502 | 5 | chr7A.!!$F3 | 2385 |
4 | TraesCS7D01G516200 | chr2B | 136440956 | 136441613 | 657 | True | 761.0 | 761 | 87.6690 | 2390 | 3048 | 1 | chr2B.!!$R1 | 658 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
362 | 366 | 0.238289 | GTGCATGCCAGTACACACAC | 59.762 | 55.0 | 16.68 | 0.0 | 33.23 | 3.82 | F |
640 | 677 | 0.458669 | TGAATAGTCTCGGTTCGCCC | 59.541 | 55.0 | 0.00 | 0.0 | 0.00 | 6.13 | F |
1134 | 1191 | 0.738063 | TACGTAAGCGGCCACACATG | 60.738 | 55.0 | 2.24 | 0.0 | 43.45 | 3.21 | F |
1577 | 2876 | 0.035630 | AGTGCATGAGCCTGAACCTC | 60.036 | 55.0 | 0.00 | 0.0 | 41.13 | 3.85 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1492 | 2791 | 0.250381 | GAGCATCTCCCTGAGCATGG | 60.250 | 60.000 | 0.0 | 0.0 | 0.0 | 3.66 | R |
1493 | 2792 | 0.600518 | CGAGCATCTCCCTGAGCATG | 60.601 | 60.000 | 0.0 | 0.0 | 0.0 | 4.06 | R |
2095 | 3394 | 1.002366 | CACAGCTAGTCAATCGTGCC | 58.998 | 55.000 | 0.0 | 0.0 | 0.0 | 5.01 | R |
2986 | 7337 | 3.698029 | ACAATGCGATTTCTATGCCAC | 57.302 | 42.857 | 0.0 | 0.0 | 0.0 | 5.01 | 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 |
---|---|---|---|---|---|---|---|---|---|
47 | 48 | 9.880064 | TTGTTTGAATTGTAATAACGAAATCGA | 57.120 | 25.926 | 10.16 | 0.00 | 43.02 | 3.59 |
48 | 49 | 9.880064 | TGTTTGAATTGTAATAACGAAATCGAA | 57.120 | 25.926 | 10.16 | 0.00 | 43.02 | 3.71 |
92 | 93 | 9.665719 | ATTTTGTTTGTGTTTTATCTTCTTGGT | 57.334 | 25.926 | 0.00 | 0.00 | 0.00 | 3.67 |
93 | 94 | 9.495572 | TTTTGTTTGTGTTTTATCTTCTTGGTT | 57.504 | 25.926 | 0.00 | 0.00 | 0.00 | 3.67 |
94 | 95 | 8.472683 | TTGTTTGTGTTTTATCTTCTTGGTTG | 57.527 | 30.769 | 0.00 | 0.00 | 0.00 | 3.77 |
95 | 96 | 7.607250 | TGTTTGTGTTTTATCTTCTTGGTTGT | 58.393 | 30.769 | 0.00 | 0.00 | 0.00 | 3.32 |
96 | 97 | 7.543868 | TGTTTGTGTTTTATCTTCTTGGTTGTG | 59.456 | 33.333 | 0.00 | 0.00 | 0.00 | 3.33 |
97 | 98 | 6.767524 | TGTGTTTTATCTTCTTGGTTGTGT | 57.232 | 33.333 | 0.00 | 0.00 | 0.00 | 3.72 |
98 | 99 | 7.164230 | TGTGTTTTATCTTCTTGGTTGTGTT | 57.836 | 32.000 | 0.00 | 0.00 | 0.00 | 3.32 |
99 | 100 | 7.607250 | TGTGTTTTATCTTCTTGGTTGTGTTT | 58.393 | 30.769 | 0.00 | 0.00 | 0.00 | 2.83 |
100 | 101 | 7.543868 | TGTGTTTTATCTTCTTGGTTGTGTTTG | 59.456 | 33.333 | 0.00 | 0.00 | 0.00 | 2.93 |
101 | 102 | 7.010091 | GTGTTTTATCTTCTTGGTTGTGTTTGG | 59.990 | 37.037 | 0.00 | 0.00 | 0.00 | 3.28 |
102 | 103 | 7.093727 | TGTTTTATCTTCTTGGTTGTGTTTGGA | 60.094 | 33.333 | 0.00 | 0.00 | 0.00 | 3.53 |
103 | 104 | 6.633500 | TTATCTTCTTGGTTGTGTTTGGAG | 57.367 | 37.500 | 0.00 | 0.00 | 0.00 | 3.86 |
104 | 105 | 3.963129 | TCTTCTTGGTTGTGTTTGGAGT | 58.037 | 40.909 | 0.00 | 0.00 | 0.00 | 3.85 |
105 | 106 | 3.694072 | TCTTCTTGGTTGTGTTTGGAGTG | 59.306 | 43.478 | 0.00 | 0.00 | 0.00 | 3.51 |
106 | 107 | 3.358111 | TCTTGGTTGTGTTTGGAGTGA | 57.642 | 42.857 | 0.00 | 0.00 | 0.00 | 3.41 |
107 | 108 | 3.897239 | TCTTGGTTGTGTTTGGAGTGAT | 58.103 | 40.909 | 0.00 | 0.00 | 0.00 | 3.06 |
108 | 109 | 4.277476 | TCTTGGTTGTGTTTGGAGTGATT | 58.723 | 39.130 | 0.00 | 0.00 | 0.00 | 2.57 |
109 | 110 | 4.709397 | TCTTGGTTGTGTTTGGAGTGATTT | 59.291 | 37.500 | 0.00 | 0.00 | 0.00 | 2.17 |
110 | 111 | 4.647424 | TGGTTGTGTTTGGAGTGATTTC | 57.353 | 40.909 | 0.00 | 0.00 | 0.00 | 2.17 |
111 | 112 | 3.066064 | TGGTTGTGTTTGGAGTGATTTCG | 59.934 | 43.478 | 0.00 | 0.00 | 0.00 | 3.46 |
112 | 113 | 3.550030 | GGTTGTGTTTGGAGTGATTTCGG | 60.550 | 47.826 | 0.00 | 0.00 | 0.00 | 4.30 |
113 | 114 | 1.606668 | TGTGTTTGGAGTGATTTCGGC | 59.393 | 47.619 | 0.00 | 0.00 | 0.00 | 5.54 |
114 | 115 | 0.871722 | TGTTTGGAGTGATTTCGGCG | 59.128 | 50.000 | 0.00 | 0.00 | 0.00 | 6.46 |
115 | 116 | 1.153353 | GTTTGGAGTGATTTCGGCGA | 58.847 | 50.000 | 4.99 | 4.99 | 0.00 | 5.54 |
119 | 120 | 1.066502 | TGGAGTGATTTCGGCGATTGA | 60.067 | 47.619 | 11.76 | 0.00 | 0.00 | 2.57 |
131 | 132 | 2.349817 | CGGCGATTGATGTCTATTTGCC | 60.350 | 50.000 | 0.00 | 9.75 | 33.30 | 4.52 |
136 | 137 | 5.745514 | CGATTGATGTCTATTTGCCAAGAG | 58.254 | 41.667 | 0.00 | 0.00 | 0.00 | 2.85 |
165 | 166 | 4.737855 | AGACGCATGGACAAGTAGTTAT | 57.262 | 40.909 | 0.00 | 0.00 | 0.00 | 1.89 |
175 | 176 | 9.212641 | CATGGACAAGTAGTTATGGATCAATAG | 57.787 | 37.037 | 0.00 | 0.00 | 0.00 | 1.73 |
216 | 217 | 5.659440 | TTTTTGATTGGAGATTAGGTGGC | 57.341 | 39.130 | 0.00 | 0.00 | 0.00 | 5.01 |
221 | 222 | 0.913934 | TGGAGATTAGGTGGCAGGCA | 60.914 | 55.000 | 0.00 | 0.00 | 0.00 | 4.75 |
260 | 261 | 3.223435 | TCAGGGAGGAGACTAATTAGCG | 58.777 | 50.000 | 12.54 | 0.00 | 44.43 | 4.26 |
270 | 271 | 5.203060 | AGACTAATTAGCGTTGAGGATCC | 57.797 | 43.478 | 12.54 | 2.48 | 0.00 | 3.36 |
272 | 273 | 2.981859 | AATTAGCGTTGAGGATCCGT | 57.018 | 45.000 | 5.98 | 0.00 | 0.00 | 4.69 |
281 | 282 | 2.419198 | AGGATCCGTGCGATGCTC | 59.581 | 61.111 | 5.98 | 0.00 | 45.90 | 4.26 |
283 | 284 | 2.278857 | GATCCGTGCGATGCTCGT | 60.279 | 61.111 | 11.55 | 0.00 | 42.71 | 4.18 |
290 | 291 | 1.123217 | CGTGCGATGCTCGTAATCATC | 59.877 | 52.381 | 5.21 | 0.00 | 42.81 | 2.92 |
294 | 295 | 2.406691 | GCGATGCTCGTAATCATCTGTC | 59.593 | 50.000 | 7.27 | 0.00 | 42.81 | 3.51 |
298 | 299 | 2.223502 | TGCTCGTAATCATCTGTCCGTC | 60.224 | 50.000 | 0.00 | 0.00 | 0.00 | 4.79 |
299 | 300 | 2.033550 | GCTCGTAATCATCTGTCCGTCT | 59.966 | 50.000 | 0.00 | 0.00 | 0.00 | 4.18 |
302 | 303 | 5.419760 | TCGTAATCATCTGTCCGTCTAAG | 57.580 | 43.478 | 0.00 | 0.00 | 0.00 | 2.18 |
321 | 322 | 1.933853 | AGACTATTGATTTGCCGACGC | 59.066 | 47.619 | 0.00 | 0.00 | 0.00 | 5.19 |
322 | 323 | 1.933853 | GACTATTGATTTGCCGACGCT | 59.066 | 47.619 | 0.00 | 0.00 | 35.36 | 5.07 |
331 | 332 | 1.355971 | TTGCCGACGCTCACTATTTC | 58.644 | 50.000 | 0.00 | 0.00 | 35.36 | 2.17 |
332 | 333 | 0.459585 | TGCCGACGCTCACTATTTCC | 60.460 | 55.000 | 0.00 | 0.00 | 35.36 | 3.13 |
334 | 335 | 1.278238 | CCGACGCTCACTATTTCCAC | 58.722 | 55.000 | 0.00 | 0.00 | 0.00 | 4.02 |
359 | 363 | 2.615240 | CCTAAGTGCATGCCAGTACACA | 60.615 | 50.000 | 16.68 | 0.00 | 35.47 | 3.72 |
362 | 366 | 0.238289 | GTGCATGCCAGTACACACAC | 59.762 | 55.000 | 16.68 | 0.00 | 33.23 | 3.82 |
373 | 377 | 2.557056 | AGTACACACACACGCTCATACT | 59.443 | 45.455 | 0.00 | 0.00 | 0.00 | 2.12 |
378 | 382 | 5.902681 | ACACACACACGCTCATACTTATAT | 58.097 | 37.500 | 0.00 | 0.00 | 0.00 | 0.86 |
381 | 385 | 6.475402 | CACACACACGCTCATACTTATATTCA | 59.525 | 38.462 | 0.00 | 0.00 | 0.00 | 2.57 |
382 | 386 | 6.475727 | ACACACACGCTCATACTTATATTCAC | 59.524 | 38.462 | 0.00 | 0.00 | 0.00 | 3.18 |
386 | 390 | 8.290325 | CACACGCTCATACTTATATTCACTCTA | 58.710 | 37.037 | 0.00 | 0.00 | 0.00 | 2.43 |
387 | 391 | 8.508062 | ACACGCTCATACTTATATTCACTCTAG | 58.492 | 37.037 | 0.00 | 0.00 | 0.00 | 2.43 |
389 | 393 | 7.121463 | ACGCTCATACTTATATTCACTCTAGGG | 59.879 | 40.741 | 0.00 | 0.00 | 0.00 | 3.53 |
392 | 396 | 8.563123 | TCATACTTATATTCACTCTAGGGACG | 57.437 | 38.462 | 0.00 | 0.00 | 0.00 | 4.79 |
396 | 400 | 2.898729 | ATTCACTCTAGGGACGCATG | 57.101 | 50.000 | 0.00 | 0.00 | 0.00 | 4.06 |
405 | 409 | 2.628106 | GGACGCATGCACGCATAG | 59.372 | 61.111 | 19.57 | 1.32 | 34.91 | 2.23 |
412 | 416 | 2.205074 | GCATGCACGCATAGACTACTT | 58.795 | 47.619 | 14.21 | 0.00 | 34.91 | 2.24 |
413 | 417 | 2.609459 | GCATGCACGCATAGACTACTTT | 59.391 | 45.455 | 14.21 | 0.00 | 34.91 | 2.66 |
419 | 423 | 5.748630 | TGCACGCATAGACTACTTTTATGAG | 59.251 | 40.000 | 0.00 | 0.00 | 32.90 | 2.90 |
423 | 427 | 5.980116 | CGCATAGACTACTTTTATGAGCACT | 59.020 | 40.000 | 0.00 | 0.00 | 0.00 | 4.40 |
426 | 430 | 8.331742 | GCATAGACTACTTTTATGAGCACTTTC | 58.668 | 37.037 | 0.00 | 0.00 | 0.00 | 2.62 |
435 | 439 | 6.510879 | TTTATGAGCACTTTCGAGAGACTA | 57.489 | 37.500 | 10.37 | 0.00 | 41.84 | 2.59 |
439 | 443 | 5.001874 | TGAGCACTTTCGAGAGACTAAGTA | 58.998 | 41.667 | 10.37 | 0.00 | 38.69 | 2.24 |
440 | 444 | 5.122554 | TGAGCACTTTCGAGAGACTAAGTAG | 59.877 | 44.000 | 10.37 | 1.22 | 38.69 | 2.57 |
446 | 450 | 6.598457 | ACTTTCGAGAGACTAAGTAGCACATA | 59.402 | 38.462 | 10.37 | 0.00 | 38.89 | 2.29 |
461 | 465 | 8.604640 | AGTAGCACATAATCTTGAGATTGATG | 57.395 | 34.615 | 14.82 | 14.69 | 43.90 | 3.07 |
464 | 468 | 8.515695 | AGCACATAATCTTGAGATTGATGAAA | 57.484 | 30.769 | 14.82 | 0.00 | 43.90 | 2.69 |
466 | 470 | 9.395707 | GCACATAATCTTGAGATTGATGAAATC | 57.604 | 33.333 | 14.82 | 0.00 | 43.90 | 2.17 |
485 | 489 | 6.705825 | TGAAATCACCACCGACATTATCATAG | 59.294 | 38.462 | 0.00 | 0.00 | 0.00 | 2.23 |
487 | 491 | 5.607939 | TCACCACCGACATTATCATAGTT | 57.392 | 39.130 | 0.00 | 0.00 | 0.00 | 2.24 |
491 | 495 | 5.105106 | ACCACCGACATTATCATAGTTGACA | 60.105 | 40.000 | 0.00 | 0.00 | 33.85 | 3.58 |
492 | 496 | 5.815222 | CCACCGACATTATCATAGTTGACAA | 59.185 | 40.000 | 0.00 | 0.00 | 33.85 | 3.18 |
493 | 497 | 6.018751 | CCACCGACATTATCATAGTTGACAAG | 60.019 | 42.308 | 0.00 | 0.00 | 33.85 | 3.16 |
497 | 501 | 7.277760 | CCGACATTATCATAGTTGACAAGAACA | 59.722 | 37.037 | 0.00 | 0.00 | 33.85 | 3.18 |
510 | 514 | 6.609237 | TGACAAGAACATCTTCTTTCACTG | 57.391 | 37.500 | 0.00 | 0.00 | 43.10 | 3.66 |
513 | 517 | 7.020914 | ACAAGAACATCTTCTTTCACTGAAC | 57.979 | 36.000 | 0.00 | 0.00 | 43.10 | 3.18 |
514 | 518 | 5.914085 | AGAACATCTTCTTTCACTGAACG | 57.086 | 39.130 | 0.00 | 0.00 | 32.29 | 3.95 |
522 | 526 | 5.234329 | TCTTCTTTCACTGAACGAACATCAC | 59.766 | 40.000 | 6.61 | 0.00 | 29.25 | 3.06 |
523 | 527 | 4.693283 | TCTTTCACTGAACGAACATCACT | 58.307 | 39.130 | 0.00 | 0.00 | 0.00 | 3.41 |
529 | 533 | 3.248602 | ACTGAACGAACATCACTGAAAGC | 59.751 | 43.478 | 0.00 | 0.00 | 37.60 | 3.51 |
532 | 536 | 2.146342 | ACGAACATCACTGAAAGCCTG | 58.854 | 47.619 | 0.00 | 0.00 | 37.60 | 4.85 |
541 | 545 | 7.318141 | ACATCACTGAAAGCCTGAAATAAATG | 58.682 | 34.615 | 0.00 | 0.00 | 37.60 | 2.32 |
543 | 547 | 5.477984 | TCACTGAAAGCCTGAAATAAATGCT | 59.522 | 36.000 | 0.00 | 0.00 | 37.60 | 3.79 |
550 | 554 | 8.625786 | AAAGCCTGAAATAAATGCTGAAAAAT | 57.374 | 26.923 | 0.00 | 0.00 | 31.55 | 1.82 |
553 | 557 | 6.471839 | CCTGAAATAAATGCTGAAAAATGCG | 58.528 | 36.000 | 0.00 | 0.00 | 0.00 | 4.73 |
572 | 576 | 3.376859 | TGCGAACACAAATGTCAAGTCTT | 59.623 | 39.130 | 0.00 | 0.00 | 38.45 | 3.01 |
573 | 577 | 3.725740 | GCGAACACAAATGTCAAGTCTTG | 59.274 | 43.478 | 6.21 | 6.21 | 38.45 | 3.02 |
574 | 578 | 3.725740 | CGAACACAAATGTCAAGTCTTGC | 59.274 | 43.478 | 7.78 | 4.14 | 38.45 | 4.01 |
582 | 586 | 6.987992 | ACAAATGTCAAGTCTTGCAATTGAAT | 59.012 | 30.769 | 26.79 | 14.07 | 34.91 | 2.57 |
584 | 588 | 8.339714 | CAAATGTCAAGTCTTGCAATTGAATTT | 58.660 | 29.630 | 21.11 | 16.10 | 34.91 | 1.82 |
586 | 590 | 9.545105 | AATGTCAAGTCTTGCAATTGAATTTTA | 57.455 | 25.926 | 13.97 | 2.30 | 34.91 | 1.52 |
594 | 598 | 9.357652 | GTCTTGCAATTGAATTTTAATGAGCTA | 57.642 | 29.630 | 10.34 | 5.18 | 0.00 | 3.32 |
598 | 602 | 9.142515 | TGCAATTGAATTTTAATGAGCTAGTTG | 57.857 | 29.630 | 10.34 | 0.00 | 0.00 | 3.16 |
620 | 624 | 3.320826 | GCACCACAAAGAACCTAACCATT | 59.679 | 43.478 | 0.00 | 0.00 | 0.00 | 3.16 |
622 | 626 | 5.288804 | CACCACAAAGAACCTAACCATTTG | 58.711 | 41.667 | 0.00 | 0.00 | 37.00 | 2.32 |
628 | 632 | 8.576442 | CACAAAGAACCTAACCATTTGAATAGT | 58.424 | 33.333 | 3.23 | 0.00 | 35.40 | 2.12 |
640 | 677 | 0.458669 | TGAATAGTCTCGGTTCGCCC | 59.541 | 55.000 | 0.00 | 0.00 | 0.00 | 6.13 |
662 | 704 | 2.423577 | GTCCTTTTGACCGCACTACAT | 58.576 | 47.619 | 0.00 | 0.00 | 38.09 | 2.29 |
666 | 708 | 3.370978 | CCTTTTGACCGCACTACATACTG | 59.629 | 47.826 | 0.00 | 0.00 | 0.00 | 2.74 |
679 | 721 | 7.364200 | GCACTACATACTGTACTAGATTGGAG | 58.636 | 42.308 | 0.00 | 2.58 | 32.54 | 3.86 |
748 | 790 | 3.077359 | CCCAAACCAAGCAACAAAAACA | 58.923 | 40.909 | 0.00 | 0.00 | 0.00 | 2.83 |
910 | 953 | 5.987347 | CGATGTACCTTGTCCGGTATAAATT | 59.013 | 40.000 | 0.00 | 0.00 | 41.31 | 1.82 |
979 | 1027 | 3.429543 | GCGTCGATCTAGTAGTACAGAGG | 59.570 | 52.174 | 2.52 | 1.23 | 0.00 | 3.69 |
992 | 1040 | 4.528920 | AGTACAGAGGGAGTGATCAGTAC | 58.471 | 47.826 | 3.92 | 3.92 | 38.18 | 2.73 |
1132 | 1189 | 1.373246 | GTACGTAAGCGGCCACACA | 60.373 | 57.895 | 2.24 | 0.00 | 43.45 | 3.72 |
1134 | 1191 | 0.738063 | TACGTAAGCGGCCACACATG | 60.738 | 55.000 | 2.24 | 0.00 | 43.45 | 3.21 |
1136 | 1193 | 2.040544 | GTAAGCGGCCACACATGCT | 61.041 | 57.895 | 2.24 | 0.00 | 39.89 | 3.79 |
1137 | 1194 | 1.745115 | TAAGCGGCCACACATGCTC | 60.745 | 57.895 | 2.24 | 0.00 | 36.49 | 4.26 |
1138 | 1195 | 2.462125 | TAAGCGGCCACACATGCTCA | 62.462 | 55.000 | 2.24 | 0.00 | 36.49 | 4.26 |
1140 | 1197 | 3.104766 | CGGCCACACATGCTCATC | 58.895 | 61.111 | 2.24 | 0.00 | 0.00 | 2.92 |
1141 | 1198 | 1.746239 | CGGCCACACATGCTCATCA | 60.746 | 57.895 | 2.24 | 0.00 | 0.00 | 3.07 |
1142 | 1199 | 1.805254 | GGCCACACATGCTCATCAC | 59.195 | 57.895 | 0.00 | 0.00 | 0.00 | 3.06 |
1143 | 1200 | 1.426621 | GCCACACATGCTCATCACG | 59.573 | 57.895 | 0.00 | 0.00 | 0.00 | 4.35 |
1144 | 1201 | 1.985447 | GCCACACATGCTCATCACGG | 61.985 | 60.000 | 0.00 | 0.00 | 0.00 | 4.94 |
1145 | 1202 | 1.426621 | CACACATGCTCATCACGGC | 59.573 | 57.895 | 0.00 | 0.00 | 0.00 | 5.68 |
1275 | 1460 | 2.550180 | CGACGAGCATCTCAAGGATAGA | 59.450 | 50.000 | 0.00 | 0.00 | 32.64 | 1.98 |
1284 | 1469 | 5.336372 | GCATCTCAAGGATAGATTCTACGCT | 60.336 | 44.000 | 0.00 | 0.00 | 31.22 | 5.07 |
1332 | 2601 | 1.654023 | CGGCGGAGGAATCCAAAACC | 61.654 | 60.000 | 0.61 | 0.00 | 0.00 | 3.27 |
1446 | 2720 | 0.765510 | GGTCACTGTTCTTCCCACCT | 59.234 | 55.000 | 0.00 | 0.00 | 0.00 | 4.00 |
1463 | 2738 | 2.161012 | CACCTCATGCACATTCTCACAC | 59.839 | 50.000 | 0.00 | 0.00 | 0.00 | 3.82 |
1470 | 2769 | 2.291465 | TGCACATTCTCACACTTGCTTC | 59.709 | 45.455 | 0.00 | 0.00 | 0.00 | 3.86 |
1473 | 2772 | 3.058432 | CACATTCTCACACTTGCTTCCTG | 60.058 | 47.826 | 0.00 | 0.00 | 0.00 | 3.86 |
1480 | 2779 | 1.073897 | ACTTGCTTCCTGGCTCACC | 59.926 | 57.895 | 0.00 | 0.00 | 0.00 | 4.02 |
1492 | 2791 | 1.028868 | GGCTCACCTTCCTGTCATGC | 61.029 | 60.000 | 0.00 | 0.00 | 0.00 | 4.06 |
1493 | 2792 | 1.028868 | GCTCACCTTCCTGTCATGCC | 61.029 | 60.000 | 0.00 | 0.00 | 0.00 | 4.40 |
1494 | 2793 | 0.325933 | CTCACCTTCCTGTCATGCCA | 59.674 | 55.000 | 0.00 | 0.00 | 0.00 | 4.92 |
1577 | 2876 | 0.035630 | AGTGCATGAGCCTGAACCTC | 60.036 | 55.000 | 0.00 | 0.00 | 41.13 | 3.85 |
1928 | 3227 | 1.865788 | CGACGTTCTACAACCCCGGA | 61.866 | 60.000 | 0.73 | 0.00 | 0.00 | 5.14 |
2067 | 3366 | 4.394712 | CGGCGAGGTTTCAGGCCT | 62.395 | 66.667 | 0.00 | 0.00 | 43.38 | 5.19 |
2095 | 3394 | 0.713883 | CTGTTCGGTTCACGGATTCG | 59.286 | 55.000 | 0.00 | 0.00 | 44.45 | 3.34 |
2147 | 3447 | 7.147707 | GGGTTTCATTGGAGTAGTACTATCTGT | 60.148 | 40.741 | 5.75 | 0.00 | 0.00 | 3.41 |
2165 | 3465 | 8.850156 | ACTATCTGTAAAATTTTCTGTGTTGCT | 58.150 | 29.630 | 6.72 | 0.00 | 0.00 | 3.91 |
2169 | 3469 | 9.462174 | TCTGTAAAATTTTCTGTGTTGCTATTG | 57.538 | 29.630 | 6.72 | 0.00 | 0.00 | 1.90 |
2179 | 3479 | 6.346096 | TCTGTGTTGCTATTGGAGTATTACC | 58.654 | 40.000 | 0.00 | 0.00 | 0.00 | 2.85 |
2188 | 3488 | 7.083230 | GCTATTGGAGTATTACCTAGTTCGAC | 58.917 | 42.308 | 0.00 | 0.00 | 0.00 | 4.20 |
2189 | 3489 | 5.841957 | TTGGAGTATTACCTAGTTCGACC | 57.158 | 43.478 | 0.00 | 0.00 | 0.00 | 4.79 |
2190 | 3490 | 4.858850 | TGGAGTATTACCTAGTTCGACCA | 58.141 | 43.478 | 0.00 | 0.00 | 0.00 | 4.02 |
2192 | 3492 | 5.126061 | TGGAGTATTACCTAGTTCGACCAAC | 59.874 | 44.000 | 0.00 | 0.00 | 34.86 | 3.77 |
2194 | 3494 | 6.127507 | GGAGTATTACCTAGTTCGACCAACTT | 60.128 | 42.308 | 0.00 | 0.00 | 43.38 | 2.66 |
2196 | 3496 | 7.095270 | AGTATTACCTAGTTCGACCAACTTTG | 58.905 | 38.462 | 0.00 | 0.00 | 43.38 | 2.77 |
2197 | 3497 | 3.832615 | ACCTAGTTCGACCAACTTTGT | 57.167 | 42.857 | 0.00 | 0.00 | 43.38 | 2.83 |
2200 | 3500 | 4.243270 | CCTAGTTCGACCAACTTTGTAGG | 58.757 | 47.826 | 0.00 | 0.00 | 43.38 | 3.18 |
2201 | 3501 | 4.021719 | CCTAGTTCGACCAACTTTGTAGGA | 60.022 | 45.833 | 0.00 | 0.00 | 43.38 | 2.94 |
2202 | 3502 | 4.411256 | AGTTCGACCAACTTTGTAGGAA | 57.589 | 40.909 | 0.00 | 0.00 | 43.38 | 3.36 |
2204 | 3504 | 5.187687 | AGTTCGACCAACTTTGTAGGAAAA | 58.812 | 37.500 | 0.00 | 0.00 | 43.38 | 2.29 |
2205 | 3505 | 5.648960 | AGTTCGACCAACTTTGTAGGAAAAA | 59.351 | 36.000 | 0.00 | 0.00 | 43.38 | 1.94 |
2281 | 3620 | 8.291191 | TGGTGCATCTAACAATATTGATTTCA | 57.709 | 30.769 | 22.16 | 7.26 | 0.00 | 2.69 |
2282 | 3621 | 8.916062 | TGGTGCATCTAACAATATTGATTTCAT | 58.084 | 29.630 | 22.16 | 4.50 | 0.00 | 2.57 |
2399 | 6738 | 7.949006 | GGAGGGAGTATATCTTTAGTAGGTCAA | 59.051 | 40.741 | 0.00 | 0.00 | 0.00 | 3.18 |
2572 | 6914 | 5.803967 | GGGAGTACAACATTAACTAGTGTCG | 59.196 | 44.000 | 0.00 | 0.00 | 0.00 | 4.35 |
2751 | 7097 | 3.824133 | TCTATTTCCAGGGCATGACATG | 58.176 | 45.455 | 6.14 | 6.14 | 0.00 | 3.21 |
2767 | 7113 | 7.634671 | CATGACATGCATATATGGGTTACAT | 57.365 | 36.000 | 14.51 | 5.99 | 38.36 | 2.29 |
2776 | 7122 | 6.374053 | GCATATATGGGTTACATGTACATGCA | 59.626 | 38.462 | 31.19 | 21.69 | 42.39 | 3.96 |
2797 | 7143 | 4.746611 | GCAATTCACAGCTAAACTTTGCTT | 59.253 | 37.500 | 12.85 | 0.00 | 37.15 | 3.91 |
3067 | 7419 | 7.599630 | TTTAGACAACGGTATGAATTACACC | 57.400 | 36.000 | 0.00 | 0.00 | 31.99 | 4.16 |
3083 | 7435 | 7.386299 | TGAATTACACCCACATTGCATAAAAAC | 59.614 | 33.333 | 0.00 | 0.00 | 0.00 | 2.43 |
3086 | 7438 | 6.412362 | ACACCCACATTGCATAAAAACTAA | 57.588 | 33.333 | 0.00 | 0.00 | 0.00 | 2.24 |
3088 | 7444 | 6.873076 | ACACCCACATTGCATAAAAACTAATG | 59.127 | 34.615 | 0.00 | 0.00 | 35.47 | 1.90 |
3090 | 7446 | 7.601886 | CACCCACATTGCATAAAAACTAATGAA | 59.398 | 33.333 | 0.00 | 0.00 | 33.98 | 2.57 |
3091 | 7447 | 8.320617 | ACCCACATTGCATAAAAACTAATGAAT | 58.679 | 29.630 | 0.00 | 0.00 | 33.98 | 2.57 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
21 | 22 | 9.880064 | TCGATTTCGTTATTACAATTCAAACAA | 57.120 | 25.926 | 0.00 | 0.00 | 40.80 | 2.83 |
22 | 23 | 9.880064 | TTCGATTTCGTTATTACAATTCAAACA | 57.120 | 25.926 | 0.00 | 0.00 | 40.80 | 2.83 |
66 | 67 | 9.665719 | ACCAAGAAGATAAAACACAAACAAAAT | 57.334 | 25.926 | 0.00 | 0.00 | 0.00 | 1.82 |
67 | 68 | 9.495572 | AACCAAGAAGATAAAACACAAACAAAA | 57.504 | 25.926 | 0.00 | 0.00 | 0.00 | 2.44 |
68 | 69 | 8.930760 | CAACCAAGAAGATAAAACACAAACAAA | 58.069 | 29.630 | 0.00 | 0.00 | 0.00 | 2.83 |
69 | 70 | 8.091449 | ACAACCAAGAAGATAAAACACAAACAA | 58.909 | 29.630 | 0.00 | 0.00 | 0.00 | 2.83 |
70 | 71 | 7.543868 | CACAACCAAGAAGATAAAACACAAACA | 59.456 | 33.333 | 0.00 | 0.00 | 0.00 | 2.83 |
71 | 72 | 7.544217 | ACACAACCAAGAAGATAAAACACAAAC | 59.456 | 33.333 | 0.00 | 0.00 | 0.00 | 2.93 |
72 | 73 | 7.607250 | ACACAACCAAGAAGATAAAACACAAA | 58.393 | 30.769 | 0.00 | 0.00 | 0.00 | 2.83 |
73 | 74 | 7.164230 | ACACAACCAAGAAGATAAAACACAA | 57.836 | 32.000 | 0.00 | 0.00 | 0.00 | 3.33 |
74 | 75 | 6.767524 | ACACAACCAAGAAGATAAAACACA | 57.232 | 33.333 | 0.00 | 0.00 | 0.00 | 3.72 |
75 | 76 | 7.010091 | CCAAACACAACCAAGAAGATAAAACAC | 59.990 | 37.037 | 0.00 | 0.00 | 0.00 | 3.32 |
76 | 77 | 7.038659 | CCAAACACAACCAAGAAGATAAAACA | 58.961 | 34.615 | 0.00 | 0.00 | 0.00 | 2.83 |
77 | 78 | 7.262048 | TCCAAACACAACCAAGAAGATAAAAC | 58.738 | 34.615 | 0.00 | 0.00 | 0.00 | 2.43 |
78 | 79 | 7.123547 | ACTCCAAACACAACCAAGAAGATAAAA | 59.876 | 33.333 | 0.00 | 0.00 | 0.00 | 1.52 |
79 | 80 | 6.605594 | ACTCCAAACACAACCAAGAAGATAAA | 59.394 | 34.615 | 0.00 | 0.00 | 0.00 | 1.40 |
80 | 81 | 6.039270 | CACTCCAAACACAACCAAGAAGATAA | 59.961 | 38.462 | 0.00 | 0.00 | 0.00 | 1.75 |
81 | 82 | 5.530915 | CACTCCAAACACAACCAAGAAGATA | 59.469 | 40.000 | 0.00 | 0.00 | 0.00 | 1.98 |
82 | 83 | 4.339247 | CACTCCAAACACAACCAAGAAGAT | 59.661 | 41.667 | 0.00 | 0.00 | 0.00 | 2.40 |
83 | 84 | 3.694072 | CACTCCAAACACAACCAAGAAGA | 59.306 | 43.478 | 0.00 | 0.00 | 0.00 | 2.87 |
84 | 85 | 3.694072 | TCACTCCAAACACAACCAAGAAG | 59.306 | 43.478 | 0.00 | 0.00 | 0.00 | 2.85 |
85 | 86 | 3.691575 | TCACTCCAAACACAACCAAGAA | 58.308 | 40.909 | 0.00 | 0.00 | 0.00 | 2.52 |
86 | 87 | 3.358111 | TCACTCCAAACACAACCAAGA | 57.642 | 42.857 | 0.00 | 0.00 | 0.00 | 3.02 |
87 | 88 | 4.654091 | AATCACTCCAAACACAACCAAG | 57.346 | 40.909 | 0.00 | 0.00 | 0.00 | 3.61 |
88 | 89 | 4.439426 | CGAAATCACTCCAAACACAACCAA | 60.439 | 41.667 | 0.00 | 0.00 | 0.00 | 3.67 |
89 | 90 | 3.066064 | CGAAATCACTCCAAACACAACCA | 59.934 | 43.478 | 0.00 | 0.00 | 0.00 | 3.67 |
90 | 91 | 3.550030 | CCGAAATCACTCCAAACACAACC | 60.550 | 47.826 | 0.00 | 0.00 | 0.00 | 3.77 |
91 | 92 | 3.628017 | CCGAAATCACTCCAAACACAAC | 58.372 | 45.455 | 0.00 | 0.00 | 0.00 | 3.32 |
92 | 93 | 2.034053 | GCCGAAATCACTCCAAACACAA | 59.966 | 45.455 | 0.00 | 0.00 | 0.00 | 3.33 |
93 | 94 | 1.606668 | GCCGAAATCACTCCAAACACA | 59.393 | 47.619 | 0.00 | 0.00 | 0.00 | 3.72 |
94 | 95 | 1.399727 | CGCCGAAATCACTCCAAACAC | 60.400 | 52.381 | 0.00 | 0.00 | 0.00 | 3.32 |
95 | 96 | 0.871722 | CGCCGAAATCACTCCAAACA | 59.128 | 50.000 | 0.00 | 0.00 | 0.00 | 2.83 |
96 | 97 | 1.153353 | TCGCCGAAATCACTCCAAAC | 58.847 | 50.000 | 0.00 | 0.00 | 0.00 | 2.93 |
97 | 98 | 2.107950 | ATCGCCGAAATCACTCCAAA | 57.892 | 45.000 | 0.00 | 0.00 | 0.00 | 3.28 |
98 | 99 | 1.737236 | CAATCGCCGAAATCACTCCAA | 59.263 | 47.619 | 0.00 | 0.00 | 0.00 | 3.53 |
99 | 100 | 1.066502 | TCAATCGCCGAAATCACTCCA | 60.067 | 47.619 | 0.00 | 0.00 | 0.00 | 3.86 |
100 | 101 | 1.651987 | TCAATCGCCGAAATCACTCC | 58.348 | 50.000 | 0.00 | 0.00 | 0.00 | 3.85 |
101 | 102 | 2.609459 | ACATCAATCGCCGAAATCACTC | 59.391 | 45.455 | 0.00 | 0.00 | 0.00 | 3.51 |
102 | 103 | 2.609459 | GACATCAATCGCCGAAATCACT | 59.391 | 45.455 | 0.00 | 0.00 | 0.00 | 3.41 |
103 | 104 | 2.609459 | AGACATCAATCGCCGAAATCAC | 59.391 | 45.455 | 0.00 | 0.00 | 0.00 | 3.06 |
104 | 105 | 2.905075 | AGACATCAATCGCCGAAATCA | 58.095 | 42.857 | 0.00 | 0.00 | 0.00 | 2.57 |
105 | 106 | 5.597813 | AATAGACATCAATCGCCGAAATC | 57.402 | 39.130 | 0.00 | 0.00 | 0.00 | 2.17 |
106 | 107 | 5.751680 | CAAATAGACATCAATCGCCGAAAT | 58.248 | 37.500 | 0.00 | 0.00 | 0.00 | 2.17 |
107 | 108 | 4.495679 | GCAAATAGACATCAATCGCCGAAA | 60.496 | 41.667 | 0.00 | 0.00 | 0.00 | 3.46 |
108 | 109 | 3.002246 | GCAAATAGACATCAATCGCCGAA | 59.998 | 43.478 | 0.00 | 0.00 | 0.00 | 4.30 |
109 | 110 | 2.543848 | GCAAATAGACATCAATCGCCGA | 59.456 | 45.455 | 0.00 | 0.00 | 0.00 | 5.54 |
110 | 111 | 2.349817 | GGCAAATAGACATCAATCGCCG | 60.350 | 50.000 | 0.00 | 0.00 | 0.00 | 6.46 |
111 | 112 | 2.618241 | TGGCAAATAGACATCAATCGCC | 59.382 | 45.455 | 0.00 | 0.00 | 37.52 | 5.54 |
112 | 113 | 3.969117 | TGGCAAATAGACATCAATCGC | 57.031 | 42.857 | 0.00 | 0.00 | 0.00 | 4.58 |
113 | 114 | 5.295292 | ACTCTTGGCAAATAGACATCAATCG | 59.705 | 40.000 | 14.29 | 0.00 | 33.13 | 3.34 |
114 | 115 | 6.690194 | ACTCTTGGCAAATAGACATCAATC | 57.310 | 37.500 | 14.29 | 0.00 | 33.13 | 2.67 |
115 | 116 | 8.627403 | CATTACTCTTGGCAAATAGACATCAAT | 58.373 | 33.333 | 14.29 | 4.97 | 33.13 | 2.57 |
119 | 120 | 6.125029 | AGCATTACTCTTGGCAAATAGACAT | 58.875 | 36.000 | 14.29 | 4.85 | 33.13 | 3.06 |
151 | 152 | 8.547481 | TCTATTGATCCATAACTACTTGTCCA | 57.453 | 34.615 | 0.00 | 0.00 | 0.00 | 4.02 |
221 | 222 | 0.325577 | GAATTTCATGGGGTGGGCCT | 60.326 | 55.000 | 4.53 | 0.00 | 34.45 | 5.19 |
228 | 229 | 1.570501 | TCCTCCCTGAATTTCATGGGG | 59.429 | 52.381 | 22.91 | 19.32 | 36.28 | 4.96 |
234 | 235 | 6.708502 | GCTAATTAGTCTCCTCCCTGAATTTC | 59.291 | 42.308 | 13.91 | 0.00 | 0.00 | 2.17 |
260 | 261 | 1.766143 | GCATCGCACGGATCCTCAAC | 61.766 | 60.000 | 10.75 | 0.00 | 31.28 | 3.18 |
281 | 282 | 5.007823 | AGTCTTAGACGGACAGATGATTACG | 59.992 | 44.000 | 6.73 | 0.00 | 37.67 | 3.18 |
283 | 284 | 8.568794 | CAATAGTCTTAGACGGACAGATGATTA | 58.431 | 37.037 | 6.73 | 0.00 | 37.67 | 1.75 |
290 | 291 | 6.019479 | GCAAATCAATAGTCTTAGACGGACAG | 60.019 | 42.308 | 6.73 | 0.00 | 37.67 | 3.51 |
294 | 295 | 4.209288 | CGGCAAATCAATAGTCTTAGACGG | 59.791 | 45.833 | 6.73 | 0.00 | 37.67 | 4.79 |
298 | 299 | 4.318121 | GCGTCGGCAAATCAATAGTCTTAG | 60.318 | 45.833 | 0.00 | 0.00 | 39.62 | 2.18 |
299 | 300 | 3.554324 | GCGTCGGCAAATCAATAGTCTTA | 59.446 | 43.478 | 0.00 | 0.00 | 39.62 | 2.10 |
302 | 303 | 1.933853 | AGCGTCGGCAAATCAATAGTC | 59.066 | 47.619 | 0.00 | 0.00 | 43.41 | 2.59 |
321 | 322 | 0.541863 | AGGGCCGTGGAAATAGTGAG | 59.458 | 55.000 | 0.00 | 0.00 | 0.00 | 3.51 |
322 | 323 | 1.868713 | TAGGGCCGTGGAAATAGTGA | 58.131 | 50.000 | 8.57 | 0.00 | 0.00 | 3.41 |
331 | 332 | 2.114670 | CATGCACTTAGGGCCGTGG | 61.115 | 63.158 | 8.57 | 3.42 | 0.00 | 4.94 |
332 | 333 | 2.764314 | GCATGCACTTAGGGCCGTG | 61.764 | 63.158 | 14.21 | 6.14 | 0.00 | 4.94 |
334 | 335 | 3.211963 | GGCATGCACTTAGGGCCG | 61.212 | 66.667 | 21.36 | 0.00 | 34.56 | 6.13 |
359 | 363 | 6.806751 | AGTGAATATAAGTATGAGCGTGTGT | 58.193 | 36.000 | 0.00 | 0.00 | 0.00 | 3.72 |
362 | 366 | 7.965655 | CCTAGAGTGAATATAAGTATGAGCGTG | 59.034 | 40.741 | 0.00 | 0.00 | 0.00 | 5.34 |
373 | 377 | 5.566826 | GCATGCGTCCCTAGAGTGAATATAA | 60.567 | 44.000 | 0.00 | 0.00 | 0.00 | 0.98 |
378 | 382 | 0.175760 | GCATGCGTCCCTAGAGTGAA | 59.824 | 55.000 | 0.00 | 0.00 | 0.00 | 3.18 |
381 | 385 | 1.517832 | GTGCATGCGTCCCTAGAGT | 59.482 | 57.895 | 14.09 | 0.00 | 0.00 | 3.24 |
382 | 386 | 1.589993 | CGTGCATGCGTCCCTAGAG | 60.590 | 63.158 | 14.09 | 0.00 | 0.00 | 2.43 |
386 | 390 | 3.384275 | TATGCGTGCATGCGTCCCT | 62.384 | 57.895 | 28.27 | 11.24 | 37.82 | 4.20 |
387 | 391 | 2.885676 | CTATGCGTGCATGCGTCCC | 61.886 | 63.158 | 28.27 | 0.92 | 37.82 | 4.46 |
389 | 393 | 1.148157 | AGTCTATGCGTGCATGCGTC | 61.148 | 55.000 | 28.27 | 14.77 | 37.82 | 5.19 |
392 | 396 | 1.858091 | AGTAGTCTATGCGTGCATGC | 58.142 | 50.000 | 24.20 | 24.20 | 37.82 | 4.06 |
396 | 400 | 5.332656 | GCTCATAAAAGTAGTCTATGCGTGC | 60.333 | 44.000 | 0.00 | 0.00 | 0.00 | 5.34 |
405 | 409 | 6.807230 | TCTCGAAAGTGCTCATAAAAGTAGTC | 59.193 | 38.462 | 0.00 | 0.00 | 0.00 | 2.59 |
412 | 416 | 5.392767 | AGTCTCTCGAAAGTGCTCATAAA | 57.607 | 39.130 | 0.00 | 0.00 | 0.00 | 1.40 |
413 | 417 | 6.151312 | ACTTAGTCTCTCGAAAGTGCTCATAA | 59.849 | 38.462 | 0.00 | 0.00 | 31.20 | 1.90 |
419 | 423 | 4.099824 | GCTACTTAGTCTCTCGAAAGTGC | 58.900 | 47.826 | 7.93 | 6.26 | 34.23 | 4.40 |
423 | 427 | 5.899120 | ATGTGCTACTTAGTCTCTCGAAA | 57.101 | 39.130 | 0.00 | 0.00 | 0.00 | 3.46 |
426 | 430 | 7.197071 | AGATTATGTGCTACTTAGTCTCTCG | 57.803 | 40.000 | 0.00 | 0.00 | 0.00 | 4.04 |
435 | 439 | 9.053840 | CATCAATCTCAAGATTATGTGCTACTT | 57.946 | 33.333 | 4.98 | 0.00 | 42.41 | 2.24 |
439 | 443 | 8.515695 | TTTCATCAATCTCAAGATTATGTGCT | 57.484 | 30.769 | 4.98 | 0.00 | 42.41 | 4.40 |
440 | 444 | 9.395707 | GATTTCATCAATCTCAAGATTATGTGC | 57.604 | 33.333 | 4.98 | 0.00 | 42.41 | 4.57 |
446 | 450 | 7.147949 | GGTGGTGATTTCATCAATCTCAAGATT | 60.148 | 37.037 | 0.00 | 0.00 | 44.93 | 2.40 |
461 | 465 | 6.706270 | ACTATGATAATGTCGGTGGTGATTTC | 59.294 | 38.462 | 0.00 | 0.00 | 0.00 | 2.17 |
464 | 468 | 5.808366 | ACTATGATAATGTCGGTGGTGAT | 57.192 | 39.130 | 0.00 | 0.00 | 0.00 | 3.06 |
466 | 470 | 5.234329 | GTCAACTATGATAATGTCGGTGGTG | 59.766 | 44.000 | 0.00 | 0.00 | 38.01 | 4.17 |
468 | 472 | 5.356426 | TGTCAACTATGATAATGTCGGTGG | 58.644 | 41.667 | 0.00 | 0.00 | 38.01 | 4.61 |
469 | 473 | 6.756542 | TCTTGTCAACTATGATAATGTCGGTG | 59.243 | 38.462 | 0.00 | 0.00 | 36.29 | 4.94 |
472 | 476 | 8.185003 | TGTTCTTGTCAACTATGATAATGTCG | 57.815 | 34.615 | 0.00 | 0.00 | 36.29 | 4.35 |
492 | 496 | 5.601662 | TCGTTCAGTGAAAGAAGATGTTCT | 58.398 | 37.500 | 17.63 | 0.00 | 45.56 | 3.01 |
493 | 497 | 5.907197 | TCGTTCAGTGAAAGAAGATGTTC | 57.093 | 39.130 | 17.63 | 0.00 | 28.26 | 3.18 |
497 | 501 | 5.991606 | TGATGTTCGTTCAGTGAAAGAAGAT | 59.008 | 36.000 | 30.51 | 30.51 | 42.70 | 2.40 |
510 | 514 | 2.808543 | AGGCTTTCAGTGATGTTCGTTC | 59.191 | 45.455 | 0.00 | 0.00 | 0.00 | 3.95 |
513 | 517 | 2.416747 | TCAGGCTTTCAGTGATGTTCG | 58.583 | 47.619 | 0.00 | 0.00 | 0.00 | 3.95 |
514 | 518 | 4.836125 | TTTCAGGCTTTCAGTGATGTTC | 57.164 | 40.909 | 0.00 | 0.00 | 0.00 | 3.18 |
522 | 526 | 5.957798 | TCAGCATTTATTTCAGGCTTTCAG | 58.042 | 37.500 | 0.00 | 0.00 | 31.30 | 3.02 |
523 | 527 | 5.981088 | TCAGCATTTATTTCAGGCTTTCA | 57.019 | 34.783 | 0.00 | 0.00 | 31.30 | 2.69 |
529 | 533 | 6.310956 | TCGCATTTTTCAGCATTTATTTCAGG | 59.689 | 34.615 | 0.00 | 0.00 | 0.00 | 3.86 |
532 | 536 | 7.475256 | GTGTTCGCATTTTTCAGCATTTATTTC | 59.525 | 33.333 | 0.00 | 0.00 | 0.00 | 2.17 |
541 | 545 | 4.025813 | ACATTTGTGTTCGCATTTTTCAGC | 60.026 | 37.500 | 0.00 | 0.00 | 0.00 | 4.26 |
543 | 547 | 5.105063 | TGACATTTGTGTTCGCATTTTTCA | 58.895 | 33.333 | 0.00 | 0.00 | 0.00 | 2.69 |
550 | 554 | 2.942376 | AGACTTGACATTTGTGTTCGCA | 59.058 | 40.909 | 0.00 | 0.00 | 0.00 | 5.10 |
553 | 557 | 4.671377 | TGCAAGACTTGACATTTGTGTTC | 58.329 | 39.130 | 19.51 | 0.00 | 0.00 | 3.18 |
572 | 576 | 9.142515 | CAACTAGCTCATTAAAATTCAATTGCA | 57.857 | 29.630 | 0.00 | 0.00 | 0.00 | 4.08 |
573 | 577 | 8.112449 | GCAACTAGCTCATTAAAATTCAATTGC | 58.888 | 33.333 | 0.00 | 0.00 | 41.15 | 3.56 |
574 | 578 | 9.142515 | TGCAACTAGCTCATTAAAATTCAATTG | 57.857 | 29.630 | 0.00 | 0.00 | 45.94 | 2.32 |
582 | 586 | 4.824537 | TGTGGTGCAACTAGCTCATTAAAA | 59.175 | 37.500 | 2.04 | 0.00 | 45.94 | 1.52 |
584 | 588 | 4.014569 | TGTGGTGCAACTAGCTCATTAA | 57.985 | 40.909 | 2.04 | 0.00 | 45.94 | 1.40 |
586 | 590 | 2.566833 | TGTGGTGCAACTAGCTCATT | 57.433 | 45.000 | 2.04 | 0.00 | 45.94 | 2.57 |
594 | 598 | 2.143876 | AGGTTCTTTGTGGTGCAACT | 57.856 | 45.000 | 2.04 | 0.00 | 36.72 | 3.16 |
598 | 602 | 2.303175 | TGGTTAGGTTCTTTGTGGTGC | 58.697 | 47.619 | 0.00 | 0.00 | 0.00 | 5.01 |
620 | 624 | 1.134907 | GGGCGAACCGAGACTATTCAA | 60.135 | 52.381 | 0.00 | 0.00 | 36.48 | 2.69 |
622 | 626 | 3.269520 | GGGCGAACCGAGACTATTC | 57.730 | 57.895 | 0.00 | 0.00 | 36.48 | 1.75 |
662 | 704 | 6.728411 | TCTTCCACTCCAATCTAGTACAGTA | 58.272 | 40.000 | 0.00 | 0.00 | 0.00 | 2.74 |
666 | 708 | 8.669243 | CAATTTTCTTCCACTCCAATCTAGTAC | 58.331 | 37.037 | 0.00 | 0.00 | 0.00 | 2.73 |
705 | 747 | 0.109597 | GTGGTTTCCGCATGCTTCAG | 60.110 | 55.000 | 17.13 | 0.00 | 33.65 | 3.02 |
815 | 858 | 3.483421 | AGGGTAAAAGGTACACACAAGC | 58.517 | 45.455 | 0.00 | 0.00 | 0.00 | 4.01 |
872 | 915 | 1.153369 | CATCGCCGTCCACAATCCT | 60.153 | 57.895 | 0.00 | 0.00 | 0.00 | 3.24 |
910 | 953 | 3.701587 | AGCATTGGCATGGAAGCTCCA | 62.702 | 52.381 | 7.26 | 7.26 | 44.48 | 3.86 |
922 | 965 | 0.179119 | GCATGTGGAGAAGCATTGGC | 60.179 | 55.000 | 0.00 | 0.00 | 41.61 | 4.52 |
923 | 966 | 1.135199 | GTGCATGTGGAGAAGCATTGG | 60.135 | 52.381 | 0.00 | 0.00 | 39.43 | 3.16 |
959 | 1007 | 5.212532 | TCCCTCTGTACTACTAGATCGAC | 57.787 | 47.826 | 0.00 | 0.00 | 0.00 | 4.20 |
979 | 1027 | 3.806380 | TCTCCTACGTACTGATCACTCC | 58.194 | 50.000 | 0.00 | 0.00 | 0.00 | 3.85 |
992 | 1040 | 2.587522 | TCTCCATGTCCATCTCCTACG | 58.412 | 52.381 | 0.00 | 0.00 | 0.00 | 3.51 |
1143 | 1200 | 1.378124 | TAATTAACTTGCGGCCGGCC | 61.378 | 55.000 | 36.69 | 36.69 | 42.61 | 6.13 |
1144 | 1201 | 0.452585 | TTAATTAACTTGCGGCCGGC | 59.547 | 50.000 | 29.38 | 21.18 | 43.96 | 6.13 |
1145 | 1202 | 3.430333 | AATTAATTAACTTGCGGCCGG | 57.570 | 42.857 | 29.38 | 13.36 | 0.00 | 6.13 |
1218 | 1403 | 1.522580 | GCGCTTCACCTCCTCCATC | 60.523 | 63.158 | 0.00 | 0.00 | 0.00 | 3.51 |
1275 | 1460 | 0.381089 | CGAGGTCGGAAGCGTAGAAT | 59.619 | 55.000 | 0.00 | 0.00 | 35.37 | 2.40 |
1284 | 1469 | 2.602267 | TCCTTGGCGAGGTCGGAA | 60.602 | 61.111 | 20.33 | 0.00 | 46.39 | 4.30 |
1434 | 2708 | 1.168714 | GTGCATGAGGTGGGAAGAAC | 58.831 | 55.000 | 0.00 | 0.00 | 0.00 | 3.01 |
1446 | 2720 | 2.227149 | GCAAGTGTGAGAATGTGCATGA | 59.773 | 45.455 | 0.00 | 0.00 | 32.29 | 3.07 |
1463 | 2738 | 0.251077 | AAGGTGAGCCAGGAAGCAAG | 60.251 | 55.000 | 0.00 | 0.00 | 37.19 | 4.01 |
1470 | 2769 | 1.298014 | GACAGGAAGGTGAGCCAGG | 59.702 | 63.158 | 0.00 | 0.00 | 37.19 | 4.45 |
1473 | 2772 | 1.028868 | GCATGACAGGAAGGTGAGCC | 61.029 | 60.000 | 0.00 | 0.00 | 0.00 | 4.70 |
1480 | 2779 | 1.022735 | GAGCATGGCATGACAGGAAG | 58.977 | 55.000 | 30.69 | 2.86 | 0.00 | 3.46 |
1492 | 2791 | 0.250381 | GAGCATCTCCCTGAGCATGG | 60.250 | 60.000 | 0.00 | 0.00 | 0.00 | 3.66 |
1493 | 2792 | 0.600518 | CGAGCATCTCCCTGAGCATG | 60.601 | 60.000 | 0.00 | 0.00 | 0.00 | 4.06 |
1494 | 2793 | 0.758310 | TCGAGCATCTCCCTGAGCAT | 60.758 | 55.000 | 0.00 | 0.00 | 0.00 | 3.79 |
2067 | 3366 | 2.940410 | GTGAACCGAACAGTTCCTTGAA | 59.060 | 45.455 | 7.76 | 0.00 | 44.55 | 2.69 |
2095 | 3394 | 1.002366 | CACAGCTAGTCAATCGTGCC | 58.998 | 55.000 | 0.00 | 0.00 | 0.00 | 5.01 |
2147 | 3447 | 8.637986 | ACTCCAATAGCAACACAGAAAATTTTA | 58.362 | 29.630 | 2.75 | 0.00 | 0.00 | 1.52 |
2149 | 3449 | 7.054491 | ACTCCAATAGCAACACAGAAAATTT | 57.946 | 32.000 | 0.00 | 0.00 | 0.00 | 1.82 |
2150 | 3450 | 6.655078 | ACTCCAATAGCAACACAGAAAATT | 57.345 | 33.333 | 0.00 | 0.00 | 0.00 | 1.82 |
2155 | 3455 | 6.156256 | AGGTAATACTCCAATAGCAACACAGA | 59.844 | 38.462 | 0.00 | 0.00 | 0.00 | 3.41 |
2159 | 3459 | 7.670605 | ACTAGGTAATACTCCAATAGCAACA | 57.329 | 36.000 | 0.00 | 0.00 | 0.00 | 3.33 |
2160 | 3460 | 7.381678 | CGAACTAGGTAATACTCCAATAGCAAC | 59.618 | 40.741 | 0.00 | 0.00 | 0.00 | 4.17 |
2161 | 3461 | 7.286087 | TCGAACTAGGTAATACTCCAATAGCAA | 59.714 | 37.037 | 0.00 | 0.00 | 0.00 | 3.91 |
2163 | 3463 | 7.083230 | GTCGAACTAGGTAATACTCCAATAGC | 58.917 | 42.308 | 0.00 | 0.00 | 0.00 | 2.97 |
2165 | 3465 | 7.062322 | TGGTCGAACTAGGTAATACTCCAATA | 58.938 | 38.462 | 0.33 | 0.00 | 0.00 | 1.90 |
2166 | 3466 | 5.895534 | TGGTCGAACTAGGTAATACTCCAAT | 59.104 | 40.000 | 0.33 | 0.00 | 0.00 | 3.16 |
2168 | 3468 | 4.858850 | TGGTCGAACTAGGTAATACTCCA | 58.141 | 43.478 | 0.33 | 0.00 | 0.00 | 3.86 |
2169 | 3469 | 5.359292 | AGTTGGTCGAACTAGGTAATACTCC | 59.641 | 44.000 | 0.33 | 0.00 | 43.54 | 3.85 |
2179 | 3479 | 5.130292 | TCCTACAAAGTTGGTCGAACTAG | 57.870 | 43.478 | 0.33 | 0.37 | 44.68 | 2.57 |
2235 | 3535 | 9.816354 | GCACCATAAAATTAACTTTCATACCAT | 57.184 | 29.630 | 0.00 | 0.00 | 0.00 | 3.55 |
2236 | 3536 | 8.807118 | TGCACCATAAAATTAACTTTCATACCA | 58.193 | 29.630 | 0.00 | 0.00 | 0.00 | 3.25 |
2237 | 3537 | 9.816354 | ATGCACCATAAAATTAACTTTCATACC | 57.184 | 29.630 | 0.00 | 0.00 | 0.00 | 2.73 |
2374 | 3985 | 8.937207 | TTGACCTACTAAAGATATACTCCCTC | 57.063 | 38.462 | 0.00 | 0.00 | 0.00 | 4.30 |
2414 | 6754 | 6.148315 | ACGGAGGTTGTATTAGCAACTAAAAC | 59.852 | 38.462 | 8.53 | 0.00 | 45.69 | 2.43 |
2544 | 6886 | 7.015877 | ACACTAGTTAATGTTGTACTCCCTTCA | 59.984 | 37.037 | 0.00 | 0.00 | 0.00 | 3.02 |
2751 | 7097 | 6.374053 | TGCATGTACATGTAACCCATATATGC | 59.626 | 38.462 | 31.10 | 17.05 | 40.80 | 3.14 |
2767 | 7113 | 5.473162 | AGTTTAGCTGTGAATTGCATGTACA | 59.527 | 36.000 | 0.00 | 0.00 | 0.00 | 2.90 |
2776 | 7122 | 4.746611 | GCAAGCAAAGTTTAGCTGTGAATT | 59.253 | 37.500 | 11.60 | 0.00 | 41.70 | 2.17 |
2797 | 7143 | 5.199723 | TGCATGTTTCCTATCCATTTAGCA | 58.800 | 37.500 | 0.00 | 0.00 | 0.00 | 3.49 |
2967 | 7318 | 6.212235 | TGCCACTTGTGTGTAATTTTGTATG | 58.788 | 36.000 | 0.00 | 0.00 | 42.34 | 2.39 |
2986 | 7337 | 3.698029 | ACAATGCGATTTCTATGCCAC | 57.302 | 42.857 | 0.00 | 0.00 | 0.00 | 5.01 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.