Multiple sequence alignment - TraesCS7D01G254100
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 | TraesCS7D01G254100 | chr7D | 100.000 | 2789 | 0 | 0 | 1 | 2789 | 230940780 | 230943568 | 0.000000e+00 | 5151 |
1 | TraesCS7D01G254100 | chr7B | 92.435 | 1811 | 78 | 30 | 654 | 2445 | 202359115 | 202360885 | 0.000000e+00 | 2531 |
2 | TraesCS7D01G254100 | chr7B | 90.789 | 532 | 18 | 14 | 1 | 524 | 202358419 | 202358927 | 0.000000e+00 | 682 |
3 | TraesCS7D01G254100 | chr7B | 89.124 | 331 | 23 | 8 | 2461 | 2787 | 202360872 | 202361193 | 1.560000e-107 | 399 |
4 | TraesCS7D01G254100 | chr7A | 93.558 | 1304 | 51 | 18 | 513 | 1795 | 243694103 | 243695394 | 0.000000e+00 | 1912 |
5 | TraesCS7D01G254100 | chr7A | 86.403 | 581 | 32 | 24 | 1878 | 2445 | 243695395 | 243695941 | 2.390000e-165 | 592 |
6 | TraesCS7D01G254100 | chr7A | 86.355 | 513 | 32 | 15 | 2 | 494 | 243667383 | 243667877 | 2.460000e-145 | 525 |
7 | TraesCS7D01G254100 | chr7A | 86.905 | 336 | 25 | 9 | 2461 | 2789 | 243695928 | 243696251 | 2.640000e-95 | 359 |
8 | TraesCS7D01G254100 | chr5A | 75.538 | 511 | 117 | 5 | 1073 | 1582 | 488038542 | 488039045 | 7.720000e-61 | 244 |
9 | TraesCS7D01G254100 | chr5D | 76.211 | 475 | 101 | 7 | 1073 | 1544 | 386209869 | 386210334 | 9.980000e-60 | 241 |
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 | TraesCS7D01G254100 | chr7D | 230940780 | 230943568 | 2788 | False | 5151.000000 | 5151 | 100.000000 | 1 | 2789 | 1 | chr7D.!!$F1 | 2788 |
1 | TraesCS7D01G254100 | chr7B | 202358419 | 202361193 | 2774 | False | 1204.000000 | 2531 | 90.782667 | 1 | 2787 | 3 | chr7B.!!$F1 | 2786 |
2 | TraesCS7D01G254100 | chr7A | 243694103 | 243696251 | 2148 | False | 954.333333 | 1912 | 88.955333 | 513 | 2789 | 3 | chr7A.!!$F2 | 2276 |
3 | TraesCS7D01G254100 | chr5A | 488038542 | 488039045 | 503 | False | 244.000000 | 244 | 75.538000 | 1073 | 1582 | 1 | chr5A.!!$F1 | 509 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
717 | 796 | 0.028902 | GCACACCAAACTCACGGAAC | 59.971 | 55.0 | 0.0 | 0.0 | 0.0 | 3.62 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2273 | 2398 | 0.321564 | CTTGCGAATGACAGGGACCA | 60.322 | 55.0 | 0.0 | 0.0 | 0.0 | 4.02 | 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 |
---|---|---|---|---|---|---|---|---|---|
32 | 33 | 2.990479 | GGTGACTAGGCCACAGGG | 59.010 | 66.667 | 5.01 | 0.00 | 36.31 | 4.45 |
96 | 97 | 4.891168 | TCCATGAGCGTGGAATAGTAGTTA | 59.109 | 41.667 | 8.92 | 0.00 | 45.03 | 2.24 |
100 | 101 | 7.095607 | CCATGAGCGTGGAATAGTAGTTATTTC | 60.096 | 40.741 | 2.49 | 0.00 | 42.02 | 2.17 |
101 | 102 | 7.108841 | TGAGCGTGGAATAGTAGTTATTTCT | 57.891 | 36.000 | 0.00 | 0.00 | 32.09 | 2.52 |
102 | 103 | 8.229253 | TGAGCGTGGAATAGTAGTTATTTCTA | 57.771 | 34.615 | 0.00 | 0.00 | 32.09 | 2.10 |
103 | 104 | 8.857098 | TGAGCGTGGAATAGTAGTTATTTCTAT | 58.143 | 33.333 | 0.00 | 0.00 | 32.09 | 1.98 |
104 | 105 | 9.130312 | GAGCGTGGAATAGTAGTTATTTCTATG | 57.870 | 37.037 | 0.00 | 0.00 | 32.09 | 2.23 |
105 | 106 | 7.599245 | AGCGTGGAATAGTAGTTATTTCTATGC | 59.401 | 37.037 | 0.00 | 0.00 | 32.09 | 3.14 |
106 | 107 | 7.148623 | GCGTGGAATAGTAGTTATTTCTATGCC | 60.149 | 40.741 | 0.00 | 0.00 | 39.25 | 4.40 |
107 | 108 | 7.061905 | CGTGGAATAGTAGTTATTTCTATGCCG | 59.938 | 40.741 | 0.00 | 0.00 | 40.79 | 5.69 |
108 | 109 | 7.871463 | GTGGAATAGTAGTTATTTCTATGCCGT | 59.129 | 37.037 | 0.00 | 0.00 | 40.79 | 5.68 |
109 | 110 | 8.426489 | TGGAATAGTAGTTATTTCTATGCCGTT | 58.574 | 33.333 | 0.00 | 0.00 | 40.79 | 4.44 |
110 | 111 | 8.923683 | GGAATAGTAGTTATTTCTATGCCGTTC | 58.076 | 37.037 | 0.00 | 0.00 | 32.33 | 3.95 |
111 | 112 | 8.516811 | AATAGTAGTTATTTCTATGCCGTTCG | 57.483 | 34.615 | 0.00 | 0.00 | 0.00 | 3.95 |
112 | 113 | 5.287226 | AGTAGTTATTTCTATGCCGTTCGG | 58.713 | 41.667 | 6.90 | 6.90 | 0.00 | 4.30 |
122 | 123 | 3.484547 | CCGTTCGGCGTTGGCTAC | 61.485 | 66.667 | 6.85 | 0.00 | 39.81 | 3.58 |
123 | 124 | 2.735478 | CGTTCGGCGTTGGCTACA | 60.735 | 61.111 | 6.85 | 0.00 | 39.81 | 2.74 |
124 | 125 | 2.858158 | GTTCGGCGTTGGCTACAC | 59.142 | 61.111 | 6.85 | 0.00 | 39.81 | 2.90 |
156 | 157 | 7.966111 | AGATATTTCACACGCATTTAACGTAA | 58.034 | 30.769 | 0.00 | 0.00 | 42.96 | 3.18 |
169 | 171 | 4.914312 | TTAACGTAATGCCGTGAAAGAG | 57.086 | 40.909 | 0.00 | 0.00 | 41.65 | 2.85 |
173 | 175 | 2.093783 | CGTAATGCCGTGAAAGAGGAAC | 59.906 | 50.000 | 0.00 | 0.00 | 0.00 | 3.62 |
197 | 199 | 1.638388 | ATCAGTCCACATGCAACGCG | 61.638 | 55.000 | 3.53 | 3.53 | 0.00 | 6.01 |
264 | 268 | 0.183971 | TTCTTGGGAAGTTCGGCCAA | 59.816 | 50.000 | 2.24 | 11.65 | 0.00 | 4.52 |
321 | 329 | 8.739972 | TGATTGGTTATCTTCTTTCTTTTAGGC | 58.260 | 33.333 | 0.00 | 0.00 | 34.17 | 3.93 |
322 | 330 | 8.650143 | ATTGGTTATCTTCTTTCTTTTAGGCA | 57.350 | 30.769 | 0.00 | 0.00 | 0.00 | 4.75 |
343 | 351 | 2.742372 | CTGGTGGTGCGGTGTAGC | 60.742 | 66.667 | 0.00 | 0.00 | 37.71 | 3.58 |
344 | 352 | 3.238497 | TGGTGGTGCGGTGTAGCT | 61.238 | 61.111 | 0.00 | 0.00 | 38.13 | 3.32 |
345 | 353 | 2.742372 | GGTGGTGCGGTGTAGCTG | 60.742 | 66.667 | 0.00 | 0.00 | 38.13 | 4.24 |
348 | 356 | 2.030562 | GGTGCGGTGTAGCTGTGT | 59.969 | 61.111 | 0.00 | 0.00 | 38.13 | 3.72 |
366 | 374 | 3.827898 | GACTGGTCCGGCTCCGAG | 61.828 | 72.222 | 10.28 | 1.57 | 42.83 | 4.63 |
577 | 606 | 6.651643 | ACAAAGTACAGACCATGCGTAATAAA | 59.348 | 34.615 | 0.00 | 0.00 | 0.00 | 1.40 |
579 | 608 | 7.859325 | AAGTACAGACCATGCGTAATAAAAT | 57.141 | 32.000 | 0.00 | 0.00 | 0.00 | 1.82 |
580 | 609 | 7.478520 | AGTACAGACCATGCGTAATAAAATC | 57.521 | 36.000 | 0.00 | 0.00 | 0.00 | 2.17 |
586 | 615 | 8.559536 | CAGACCATGCGTAATAAAATCATTACT | 58.440 | 33.333 | 4.91 | 0.00 | 38.63 | 2.24 |
587 | 616 | 9.120538 | AGACCATGCGTAATAAAATCATTACTT | 57.879 | 29.630 | 4.91 | 0.00 | 38.63 | 2.24 |
588 | 617 | 9.169468 | GACCATGCGTAATAAAATCATTACTTG | 57.831 | 33.333 | 4.91 | 1.34 | 38.63 | 3.16 |
591 | 620 | 8.957028 | CATGCGTAATAAAATCATTACTTGGTG | 58.043 | 33.333 | 4.91 | 0.00 | 38.63 | 4.17 |
592 | 621 | 6.970043 | TGCGTAATAAAATCATTACTTGGTGC | 59.030 | 34.615 | 4.91 | 1.93 | 38.63 | 5.01 |
593 | 622 | 7.148154 | TGCGTAATAAAATCATTACTTGGTGCT | 60.148 | 33.333 | 4.91 | 0.00 | 38.63 | 4.40 |
594 | 623 | 7.700656 | GCGTAATAAAATCATTACTTGGTGCTT | 59.299 | 33.333 | 4.91 | 0.00 | 38.63 | 3.91 |
713 | 792 | 1.011242 | CACGCACACCAAACTCACG | 60.011 | 57.895 | 0.00 | 0.00 | 0.00 | 4.35 |
714 | 793 | 2.177580 | ACGCACACCAAACTCACGG | 61.178 | 57.895 | 0.00 | 0.00 | 0.00 | 4.94 |
715 | 794 | 1.885388 | CGCACACCAAACTCACGGA | 60.885 | 57.895 | 0.00 | 0.00 | 0.00 | 4.69 |
716 | 795 | 1.433053 | CGCACACCAAACTCACGGAA | 61.433 | 55.000 | 0.00 | 0.00 | 0.00 | 4.30 |
717 | 796 | 0.028902 | GCACACCAAACTCACGGAAC | 59.971 | 55.000 | 0.00 | 0.00 | 0.00 | 3.62 |
770 | 862 | 0.956633 | TATCGCCGACATACTGACCC | 59.043 | 55.000 | 0.00 | 0.00 | 0.00 | 4.46 |
787 | 879 | 3.010420 | GACCCAGAAAGGTGTCATTAGC | 58.990 | 50.000 | 0.00 | 0.00 | 41.42 | 3.09 |
793 | 885 | 5.652014 | CCAGAAAGGTGTCATTAGCCATTAA | 59.348 | 40.000 | 0.00 | 0.00 | 0.00 | 1.40 |
839 | 932 | 4.204978 | GCAACGAGAGAAAACACACATTTG | 59.795 | 41.667 | 0.00 | 0.00 | 0.00 | 2.32 |
922 | 1017 | 3.695825 | ACCCTCCCCCGTCCTCAT | 61.696 | 66.667 | 0.00 | 0.00 | 0.00 | 2.90 |
946 | 1044 | 2.297315 | CTCACTGACACTCCAAGCACTA | 59.703 | 50.000 | 0.00 | 0.00 | 0.00 | 2.74 |
1125 | 1223 | 3.148084 | CCGGCGGGGAAGACATAT | 58.852 | 61.111 | 20.56 | 0.00 | 38.47 | 1.78 |
1796 | 1894 | 1.032014 | GCGGTGGTATGATGGCATTT | 58.968 | 50.000 | 0.00 | 0.00 | 35.94 | 2.32 |
1874 | 1972 | 2.743553 | CATGGGGAGGAAGCATTTCTT | 58.256 | 47.619 | 0.00 | 0.00 | 37.83 | 2.52 |
2013 | 2136 | 7.382218 | TGTTGTTTTTAGGTAGAAGTACGTAGC | 59.618 | 37.037 | 0.00 | 0.00 | 32.49 | 3.58 |
2016 | 2139 | 5.567138 | TTTAGGTAGAAGTACGTAGCACC | 57.433 | 43.478 | 0.00 | 0.00 | 32.49 | 5.01 |
2026 | 2149 | 1.153823 | CGTAGCACCGCTAGCAGTT | 60.154 | 57.895 | 16.45 | 4.52 | 42.11 | 3.16 |
2037 | 2160 | 3.002656 | CCGCTAGCAGTTGGTGATTATTG | 59.997 | 47.826 | 16.45 | 0.00 | 0.00 | 1.90 |
2038 | 2161 | 3.623060 | CGCTAGCAGTTGGTGATTATTGT | 59.377 | 43.478 | 16.45 | 0.00 | 0.00 | 2.71 |
2039 | 2162 | 4.808895 | CGCTAGCAGTTGGTGATTATTGTA | 59.191 | 41.667 | 16.45 | 0.00 | 0.00 | 2.41 |
2040 | 2163 | 5.466728 | CGCTAGCAGTTGGTGATTATTGTAT | 59.533 | 40.000 | 16.45 | 0.00 | 0.00 | 2.29 |
2041 | 2164 | 6.017934 | CGCTAGCAGTTGGTGATTATTGTATT | 60.018 | 38.462 | 16.45 | 0.00 | 0.00 | 1.89 |
2042 | 2165 | 7.467267 | CGCTAGCAGTTGGTGATTATTGTATTT | 60.467 | 37.037 | 16.45 | 0.00 | 0.00 | 1.40 |
2043 | 2166 | 8.190784 | GCTAGCAGTTGGTGATTATTGTATTTT | 58.809 | 33.333 | 10.63 | 0.00 | 0.00 | 1.82 |
2066 | 2189 | 5.957842 | TTTTTGCGAGAGGTGATTATTGT | 57.042 | 34.783 | 0.00 | 0.00 | 0.00 | 2.71 |
2102 | 2225 | 3.498018 | TGGTCGACATGTCACTGAATTTG | 59.502 | 43.478 | 24.93 | 6.00 | 0.00 | 2.32 |
2172 | 2296 | 6.452494 | TTGGTAGTGCAAGTAGTATCTCTC | 57.548 | 41.667 | 0.00 | 0.00 | 0.00 | 3.20 |
2203 | 2327 | 1.375908 | GTGCAGTTGCCCGATCTGA | 60.376 | 57.895 | 1.06 | 0.00 | 41.18 | 3.27 |
2269 | 2393 | 0.035630 | GTGAGAAGCACCAGCCTCAT | 60.036 | 55.000 | 0.00 | 0.00 | 39.89 | 2.90 |
2273 | 2398 | 2.368221 | GAGAAGCACCAGCCTCATCTAT | 59.632 | 50.000 | 0.00 | 0.00 | 43.56 | 1.98 |
2418 | 2544 | 9.793252 | AAATGCAGTATGAAGTACAAATGAATC | 57.207 | 29.630 | 0.00 | 0.00 | 39.69 | 2.52 |
2434 | 2560 | 9.287373 | ACAAATGAATCTTTATGGTTTGCAATT | 57.713 | 25.926 | 0.00 | 0.00 | 0.00 | 2.32 |
2437 | 2563 | 9.729281 | AATGAATCTTTATGGTTTGCAATTTCT | 57.271 | 25.926 | 0.00 | 0.00 | 0.00 | 2.52 |
2439 | 2565 | 9.638239 | TGAATCTTTATGGTTTGCAATTTCTAC | 57.362 | 29.630 | 0.00 | 0.00 | 0.00 | 2.59 |
2440 | 2566 | 9.860898 | GAATCTTTATGGTTTGCAATTTCTACT | 57.139 | 29.630 | 0.00 | 0.00 | 0.00 | 2.57 |
2447 | 2573 | 8.814038 | ATGGTTTGCAATTTCTACTAATCTCT | 57.186 | 30.769 | 0.00 | 0.00 | 0.00 | 3.10 |
2448 | 2574 | 8.635765 | TGGTTTGCAATTTCTACTAATCTCTT | 57.364 | 30.769 | 0.00 | 0.00 | 0.00 | 2.85 |
2449 | 2575 | 8.514594 | TGGTTTGCAATTTCTACTAATCTCTTG | 58.485 | 33.333 | 0.00 | 0.00 | 0.00 | 3.02 |
2450 | 2576 | 8.515414 | GGTTTGCAATTTCTACTAATCTCTTGT | 58.485 | 33.333 | 0.00 | 0.00 | 0.00 | 3.16 |
2451 | 2577 | 9.899226 | GTTTGCAATTTCTACTAATCTCTTGTT | 57.101 | 29.630 | 0.00 | 0.00 | 0.00 | 2.83 |
2454 | 2580 | 9.283768 | TGCAATTTCTACTAATCTCTTGTTTCA | 57.716 | 29.630 | 0.00 | 0.00 | 0.00 | 2.69 |
2491 | 2617 | 7.730364 | ACTAATCAAACAACACACCTAGAAG | 57.270 | 36.000 | 0.00 | 0.00 | 0.00 | 2.85 |
2574 | 2700 | 1.501169 | CTTTGCCTTTTTCCCGCAAG | 58.499 | 50.000 | 0.00 | 0.00 | 42.93 | 4.01 |
2665 | 2795 | 3.123620 | GCACTGAGCAAGGAGGCG | 61.124 | 66.667 | 0.00 | 0.00 | 44.79 | 5.52 |
2673 | 2803 | 0.250901 | AGCAAGGAGGCGATTGTGTT | 60.251 | 50.000 | 0.00 | 0.00 | 39.27 | 3.32 |
2686 | 2816 | 0.388659 | TTGTGTTCCACATTGGCAGC | 59.611 | 50.000 | 0.00 | 0.00 | 44.16 | 5.25 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
18 | 19 | 0.682209 | TACGTCCCTGTGGCCTAGTC | 60.682 | 60.000 | 3.32 | 0.00 | 0.00 | 2.59 |
32 | 33 | 1.708027 | GCCTCGTGCATGTTACGTC | 59.292 | 57.895 | 19.18 | 9.83 | 41.91 | 4.34 |
107 | 108 | 2.858158 | GTGTAGCCAACGCCGAAC | 59.142 | 61.111 | 0.00 | 0.00 | 34.57 | 3.95 |
108 | 109 | 2.735478 | CGTGTAGCCAACGCCGAA | 60.735 | 61.111 | 0.00 | 0.00 | 35.00 | 4.30 |
119 | 120 | 3.489785 | GTGAAATATCTTCCGGCGTGTAG | 59.510 | 47.826 | 6.01 | 0.82 | 0.00 | 2.74 |
120 | 121 | 3.119065 | TGTGAAATATCTTCCGGCGTGTA | 60.119 | 43.478 | 6.01 | 0.00 | 0.00 | 2.90 |
121 | 122 | 2.277084 | GTGAAATATCTTCCGGCGTGT | 58.723 | 47.619 | 6.01 | 0.00 | 0.00 | 4.49 |
122 | 123 | 2.030457 | GTGTGAAATATCTTCCGGCGTG | 59.970 | 50.000 | 6.01 | 0.00 | 0.00 | 5.34 |
123 | 124 | 2.277084 | GTGTGAAATATCTTCCGGCGT | 58.723 | 47.619 | 6.01 | 0.00 | 0.00 | 5.68 |
124 | 125 | 1.257936 | CGTGTGAAATATCTTCCGGCG | 59.742 | 52.381 | 0.00 | 0.00 | 0.00 | 6.46 |
156 | 157 | 2.270352 | TTGTTCCTCTTTCACGGCAT | 57.730 | 45.000 | 0.00 | 0.00 | 0.00 | 4.40 |
169 | 171 | 3.181493 | GCATGTGGACTGATCATTGTTCC | 60.181 | 47.826 | 0.00 | 0.87 | 0.00 | 3.62 |
173 | 175 | 3.729762 | CGTTGCATGTGGACTGATCATTG | 60.730 | 47.826 | 0.00 | 0.00 | 0.00 | 2.82 |
197 | 199 | 3.256558 | GGGCTCATTTCATTGCAAGTTC | 58.743 | 45.455 | 4.94 | 0.00 | 0.00 | 3.01 |
321 | 329 | 4.320456 | ACCGCACCACCAGAGCTG | 62.320 | 66.667 | 0.00 | 0.00 | 0.00 | 4.24 |
322 | 330 | 4.320456 | CACCGCACCACCAGAGCT | 62.320 | 66.667 | 0.00 | 0.00 | 0.00 | 4.09 |
343 | 351 | 2.357517 | GCCGGACCAGTCACACAG | 60.358 | 66.667 | 5.05 | 0.00 | 0.00 | 3.66 |
344 | 352 | 2.842462 | AGCCGGACCAGTCACACA | 60.842 | 61.111 | 5.05 | 0.00 | 0.00 | 3.72 |
345 | 353 | 2.048127 | GAGCCGGACCAGTCACAC | 60.048 | 66.667 | 5.05 | 0.00 | 0.00 | 3.82 |
348 | 356 | 4.671590 | TCGGAGCCGGACCAGTCA | 62.672 | 66.667 | 5.05 | 0.00 | 40.25 | 3.41 |
366 | 374 | 4.450122 | CCATGCACGTGACAGCGC | 62.450 | 66.667 | 22.23 | 0.00 | 34.88 | 5.92 |
367 | 375 | 2.606961 | AACCATGCACGTGACAGCG | 61.607 | 57.895 | 22.23 | 12.49 | 37.94 | 5.18 |
411 | 419 | 2.883253 | GCAGAAGAGGCGCGAGTC | 60.883 | 66.667 | 12.10 | 4.89 | 0.00 | 3.36 |
462 | 470 | 2.279918 | GGACGCGGCCACGATATT | 60.280 | 61.111 | 30.38 | 0.00 | 44.60 | 1.28 |
516 | 524 | 2.843701 | CCACTCACTCACTTTGAAGCT | 58.156 | 47.619 | 0.00 | 0.00 | 0.00 | 3.74 |
577 | 606 | 5.488341 | ACGTAGAAGCACCAAGTAATGATT | 58.512 | 37.500 | 0.00 | 0.00 | 0.00 | 2.57 |
579 | 608 | 4.219944 | AGACGTAGAAGCACCAAGTAATGA | 59.780 | 41.667 | 0.00 | 0.00 | 0.00 | 2.57 |
580 | 609 | 4.495422 | AGACGTAGAAGCACCAAGTAATG | 58.505 | 43.478 | 0.00 | 0.00 | 0.00 | 1.90 |
586 | 615 | 2.626266 | TCTGAAGACGTAGAAGCACCAA | 59.374 | 45.455 | 0.00 | 0.00 | 0.00 | 3.67 |
587 | 616 | 2.235891 | TCTGAAGACGTAGAAGCACCA | 58.764 | 47.619 | 0.00 | 0.00 | 0.00 | 4.17 |
588 | 617 | 3.299340 | TTCTGAAGACGTAGAAGCACC | 57.701 | 47.619 | 0.00 | 0.00 | 0.00 | 5.01 |
591 | 620 | 5.345202 | TCGAAATTTCTGAAGACGTAGAAGC | 59.655 | 40.000 | 15.92 | 0.00 | 34.68 | 3.86 |
592 | 621 | 6.453134 | GCTCGAAATTTCTGAAGACGTAGAAG | 60.453 | 42.308 | 15.92 | 0.00 | 34.68 | 2.85 |
593 | 622 | 5.345202 | GCTCGAAATTTCTGAAGACGTAGAA | 59.655 | 40.000 | 15.92 | 0.00 | 0.00 | 2.10 |
594 | 623 | 4.857588 | GCTCGAAATTTCTGAAGACGTAGA | 59.142 | 41.667 | 15.92 | 1.51 | 0.00 | 2.59 |
689 | 768 | 1.746991 | TTTGGTGTGCGTGTGCTGA | 60.747 | 52.632 | 0.00 | 0.00 | 43.34 | 4.26 |
770 | 862 | 6.150976 | TGTTAATGGCTAATGACACCTTTCTG | 59.849 | 38.462 | 0.00 | 0.00 | 31.68 | 3.02 |
787 | 879 | 5.949354 | TCTGGATTTGGTTAGGTGTTAATGG | 59.051 | 40.000 | 0.00 | 0.00 | 0.00 | 3.16 |
793 | 885 | 2.986728 | AGGTCTGGATTTGGTTAGGTGT | 59.013 | 45.455 | 0.00 | 0.00 | 0.00 | 4.16 |
839 | 932 | 4.149598 | AGATTTTAGGTGGGTTTGTGGTC | 58.850 | 43.478 | 0.00 | 0.00 | 0.00 | 4.02 |
922 | 1017 | 1.342074 | CTTGGAGTGTCAGTGAGGGA | 58.658 | 55.000 | 0.00 | 0.00 | 0.00 | 4.20 |
946 | 1044 | 4.400961 | GAGGCCTTGGAGCGTGCT | 62.401 | 66.667 | 6.77 | 0.00 | 0.00 | 4.40 |
998 | 1096 | 0.979665 | CATCGTGGAGGAGGCCATAT | 59.020 | 55.000 | 5.01 | 0.00 | 40.68 | 1.78 |
1025 | 1123 | 1.381056 | AGCAGGAGGAGAGCGATGT | 60.381 | 57.895 | 0.00 | 0.00 | 0.00 | 3.06 |
1032 | 1130 | 1.309347 | CAGGAGGAGCAGGAGGAGA | 59.691 | 63.158 | 0.00 | 0.00 | 0.00 | 3.71 |
1035 | 1133 | 3.478274 | GCCAGGAGGAGCAGGAGG | 61.478 | 72.222 | 0.00 | 0.00 | 36.89 | 4.30 |
1122 | 1220 | 0.179045 | GGTCCTCGCACTTGGCATAT | 60.179 | 55.000 | 0.00 | 0.00 | 45.17 | 1.78 |
1125 | 1223 | 3.240134 | GAGGTCCTCGCACTTGGCA | 62.240 | 63.158 | 2.28 | 0.00 | 45.17 | 4.92 |
1332 | 1430 | 1.473677 | CCGGTGATGTTGTACGTCCTA | 59.526 | 52.381 | 0.00 | 0.00 | 33.27 | 2.94 |
1563 | 1661 | 0.892063 | AGAGGACGAGCTTGGACTTC | 59.108 | 55.000 | 5.79 | 5.31 | 0.00 | 3.01 |
1782 | 1880 | 1.615392 | GCCAGGAAATGCCATCATACC | 59.385 | 52.381 | 0.00 | 0.00 | 40.02 | 2.73 |
1796 | 1894 | 2.355986 | ATTCGTGCTACCGCCAGGA | 61.356 | 57.895 | 0.00 | 0.00 | 41.02 | 3.86 |
2013 | 2136 | 3.566261 | CACCAACTGCTAGCGGTG | 58.434 | 61.111 | 29.39 | 24.41 | 42.72 | 4.94 |
2016 | 2139 | 3.623060 | ACAATAATCACCAACTGCTAGCG | 59.377 | 43.478 | 10.77 | 7.61 | 0.00 | 4.26 |
2044 | 2167 | 5.957842 | ACAATAATCACCTCTCGCAAAAA | 57.042 | 34.783 | 0.00 | 0.00 | 0.00 | 1.94 |
2045 | 2168 | 6.170506 | ACTACAATAATCACCTCTCGCAAAA | 58.829 | 36.000 | 0.00 | 0.00 | 0.00 | 2.44 |
2046 | 2169 | 5.730550 | ACTACAATAATCACCTCTCGCAAA | 58.269 | 37.500 | 0.00 | 0.00 | 0.00 | 3.68 |
2047 | 2170 | 5.339008 | ACTACAATAATCACCTCTCGCAA | 57.661 | 39.130 | 0.00 | 0.00 | 0.00 | 4.85 |
2048 | 2171 | 5.593095 | ACTACTACAATAATCACCTCTCGCA | 59.407 | 40.000 | 0.00 | 0.00 | 0.00 | 5.10 |
2049 | 2172 | 6.074544 | ACTACTACAATAATCACCTCTCGC | 57.925 | 41.667 | 0.00 | 0.00 | 0.00 | 5.03 |
2050 | 2173 | 8.380743 | AGTACTACTACAATAATCACCTCTCG | 57.619 | 38.462 | 0.00 | 0.00 | 0.00 | 4.04 |
2060 | 2183 | 9.394767 | TCGACCACAATAGTACTACTACAATAA | 57.605 | 33.333 | 4.31 | 0.00 | 32.84 | 1.40 |
2061 | 2184 | 8.830580 | GTCGACCACAATAGTACTACTACAATA | 58.169 | 37.037 | 4.31 | 0.00 | 32.84 | 1.90 |
2062 | 2185 | 7.337689 | TGTCGACCACAATAGTACTACTACAAT | 59.662 | 37.037 | 14.12 | 0.00 | 32.84 | 2.71 |
2063 | 2186 | 6.654582 | TGTCGACCACAATAGTACTACTACAA | 59.345 | 38.462 | 14.12 | 0.00 | 32.84 | 2.41 |
2064 | 2187 | 6.172630 | TGTCGACCACAATAGTACTACTACA | 58.827 | 40.000 | 14.12 | 0.00 | 32.84 | 2.74 |
2065 | 2188 | 6.668541 | TGTCGACCACAATAGTACTACTAC | 57.331 | 41.667 | 14.12 | 0.00 | 32.84 | 2.73 |
2066 | 2189 | 6.825213 | ACATGTCGACCACAATAGTACTACTA | 59.175 | 38.462 | 14.12 | 0.00 | 38.97 | 1.82 |
2067 | 2190 | 5.651139 | ACATGTCGACCACAATAGTACTACT | 59.349 | 40.000 | 14.12 | 0.00 | 38.97 | 2.57 |
2124 | 2248 | 9.729281 | AAACATTTGCTCCTTTGATGATAAAAT | 57.271 | 25.926 | 0.00 | 0.00 | 0.00 | 1.82 |
2136 | 2260 | 3.005791 | GCACTACCAAACATTTGCTCCTT | 59.994 | 43.478 | 0.00 | 0.00 | 36.86 | 3.36 |
2203 | 2327 | 3.243101 | CGAATCAGCGTGTATCACTAGGT | 60.243 | 47.826 | 0.00 | 0.00 | 31.34 | 3.08 |
2265 | 2389 | 4.560311 | CGAATGACAGGGACCATAGATGAG | 60.560 | 50.000 | 0.00 | 0.00 | 0.00 | 2.90 |
2269 | 2393 | 1.412710 | GCGAATGACAGGGACCATAGA | 59.587 | 52.381 | 0.00 | 0.00 | 0.00 | 1.98 |
2273 | 2398 | 0.321564 | CTTGCGAATGACAGGGACCA | 60.322 | 55.000 | 0.00 | 0.00 | 0.00 | 4.02 |
2322 | 2447 | 6.018751 | GTGTACATGACATTCTAATGCGTGAT | 60.019 | 38.462 | 18.04 | 10.07 | 41.14 | 3.06 |
2328 | 2453 | 9.712359 | CAATCAAGTGTACATGACATTCTAATG | 57.288 | 33.333 | 0.00 | 1.13 | 41.14 | 1.90 |
2459 | 2585 | 9.744468 | GGTGTGTTGTTTGATTAGTAGAATTTT | 57.256 | 29.630 | 0.00 | 0.00 | 0.00 | 1.82 |
2460 | 2586 | 9.131791 | AGGTGTGTTGTTTGATTAGTAGAATTT | 57.868 | 29.630 | 0.00 | 0.00 | 0.00 | 1.82 |
2461 | 2587 | 8.691661 | AGGTGTGTTGTTTGATTAGTAGAATT | 57.308 | 30.769 | 0.00 | 0.00 | 0.00 | 2.17 |
2462 | 2588 | 9.436957 | CTAGGTGTGTTGTTTGATTAGTAGAAT | 57.563 | 33.333 | 0.00 | 0.00 | 0.00 | 2.40 |
2497 | 2623 | 4.047166 | TGGAGGATTCACACCCTTATGAT | 58.953 | 43.478 | 0.00 | 0.00 | 31.84 | 2.45 |
2601 | 2729 | 6.038356 | GTGTAATGAAAATGATGCCCTTCAG | 58.962 | 40.000 | 0.00 | 0.00 | 31.70 | 3.02 |
2673 | 2803 | 0.328926 | TGATGAGCTGCCAATGTGGA | 59.671 | 50.000 | 0.00 | 0.00 | 40.96 | 4.02 |
2686 | 2816 | 4.841422 | AGACAGAAATCCCTGTTGATGAG | 58.159 | 43.478 | 0.00 | 0.00 | 46.45 | 2.90 |
2755 | 2892 | 3.775654 | GGGTCTCGGGCTGGACTG | 61.776 | 72.222 | 12.62 | 0.00 | 33.46 | 3.51 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.