Location of motif pairs/triplets/quadruplets in each transcript within the cluster set
t=transcript number
p=position of last motif with respect to ATG for each motif
affy=affymetrix probe id
nm=refseq accession number
ug=unigene accession number
chr=chromosome
pos=chromosomal position
strand=strand
Drosophila Mellanogaster
1 motifs = 144 201 0 0 thresholds = 9.481 ||8.916 ||NaN ||NaN ||
| t | p1 | p2 | nm | ll | ug | chr | pos | strand | seq1 | score1 | strand1 | seq2 | score2 | strand2 |
|---|
| 1 | 2976 | 2987 | NM_169233 | ll.41032 | hb | NaN | NaN | NaN | ttcgcagctcgc | 11.14 | -1 | tcgctgctaagctgg | 9.28 | -1 |
| 4 | 1640 | 1655 | NM_078946 | ll.36039 | eve | NaN | NaN | NaN | atcgcagcgacc | 10.33 | -1 | tcgctgcgattggcc | 10.54 | -1 |
| 6 | -2510 | -2525 | NM_078700 | ll.33059 | run | NaN | NaN | NaN | ttcgcagcgagc | 12.12 | -1 | ggtccttcgcagcga | 10.91 | 1 |
| 7 | -4446 | -4461 | NM_057345 | ll.42037 | abd-A | NaN | NaN | NaN | ttcgcagcgagc | 12.12 | -1 | ctcctttcgcagcga | 9.95 | 1 |
| 8 | 2025 | 2010 | NM_164966 | ll.34569 | salm | NaN | NaN | NaN | ttcgcagcgatt | 10.61 | -1 | gttggttcgcagcga | 9.31 | 1 |
| 8 | -395 | -410 | NM_164966 | ll.34569 | salm | NaN | NaN | NaN | ttcgcagcgagc | 12.12 | -1 | gaacgttcgcagcga | 10.92 | 1 |
2 motifs = 95 135 0 0 thresholds = 10.183 ||9.852 ||NaN ||NaN ||
| t | p1 | p2 | nm | ll | ug | chr | pos | strand | seq1 | score1 | strand1 | seq2 | score2 | strand2 |
|---|
| 1 | 1148 | 1160 | NM_169233 | ll.41032 | hb | NaN | NaN | NaN | tcggccaaaagc | 11.02 | -1 | gcttttggccgatc | 11.92 | -1 |
| 1 | -391 | -403 | NM_169233 | ll.41032 | hb | NaN | NaN | NaN | tcggccaaaatg | 10.55 | -1 | attcggccaaaatg | 11.07 | 1 |
| 1 | -2915 | -2903 | NM_169233 | ll.41032 | hb | NaN | NaN | NaN | tcggccaacatc | 10.33 | -1 | gatgttggccgaac | 11.23 | -1 |
| 1 | -4239 | -4251 | NM_169233 | ll.41032 | hb | NaN | NaN | NaN | tcggccaaaggg | 10.40 | -1 | gttcggccaaaggg | 12.05 | 1 |
| 2 | -60 | -72 | NM_079463 | ll.40287 | kni | NaN | NaN | NaN | tcggccagtagg | 11.18 | -1 | gttcggccagtagg | 12.16 | 1 |
| 4 | 61 | 49 | NM_078946 | ll.36039 | eve | NaN | NaN | NaN | tcggccagtagg | 11.18 | -1 | ggtcggccagtagg | 11.15 | 1 |
| 5 | -4451 | -4463 | NM_079253 | ll.38995 | h | NaN | NaN | NaN | tcggccaggagg | 11.56 | -1 | gctcggccaggagg | 11.03 | 1 |
| 6 | 452 | 440 | NM_078700 | ll.33059 | run | NaN | NaN | NaN | tcggccagcagc | 11.80 | -1 | actcggccagcagc | 11.59 | 1 |
| 6 | -2617 | -2629 | NM_078700 | ll.33059 | run | NaN | NaN | NaN | n | NaN | NaN | aatcggccatcggc | 10.11 | 1 |
| 8 | 4249 | 4237 | NM_164966 | ll.34569 | salm | NaN | NaN | NaN | tcggccagcagc | 11.80 | -1 | agtcggccagcagc | 11.30 | 1 |
| 10 | -2206 | -2218 | NM_080310 | ll.31227 | gt | NaN | NaN | NaN | tcggccatcagg | 11.43 | -1 | gttcggccatcagg | 11.53 | 1 |
3 motifs = 233 264 0 0 thresholds = 7.728 ||7.927 ||NaN ||NaN ||
| t | p1 | p2 | nm | ll | ug | chr | pos | strand | seq1 | score1 | strand1 | seq2 | score2 | strand2 |
|---|
| 1 | -1444 | -1424 | NM_169233 | ll.41032 | hb | NaN | NaN | NaN | gctacctg | 8.64 | -1 | aaaggatt | 8.87 | -1 |
| 2 | -1302 | -1307 | NM_079463 | ll.40287 | kni | NaN | NaN | NaN | gctacctg | 8.64 | -1 | aaagggtt | 9.05 | -1 |
| 5 | -4620 | -4600 | NM_079253 | ll.38995 | h | NaN | NaN | NaN | cctacctg | 8.89 | -1 | aaaggatt | 8.87 | -1 |
| 10 | -2208 | -2223 | NM_080310 | ll.31227 | gt | NaN | NaN | NaN | tctacctg | 8.68 | -1 | aacgggtt | 8.11 | -1 |
4 motifs = 9 233 0 0 thresholds = 7.550 ||7.728 ||NaN ||NaN ||
| t | p1 | p2 | nm | ll | ug | chr | pos | strand | seq1 | score1 | strand1 | seq2 | score2 | strand2 |
|---|
| 1 | -2674 | -2668 | NM_169233 | ll.41032 | hb | NaN | NaN | NaN | ttttttttgc | 8.02 | -1 | gctaccta | 7.73 | -1 |
| 2 | 625 | 646 | NM_079463 | ll.40287 | kni | NaN | NaN | NaN | ttttttattc | 8.26 | -1 | tctacctg | 8.68 | -1 |
| 4 | -2211 | -2197 | NM_078946 | ll.36039 | eve | NaN | NaN | NaN | tttttttttc | 7.68 | -1 | cctaccta | 7.98 | -1 |
| 10 | -2195 | -2208 | NM_080310 | ll.31227 | gt | NaN | NaN | NaN | ttttttacgg | 7.61 | -1 | tctacctg | 8.68 | -1 |
5 motifs = 41 241 0 0 thresholds = 9.521 ||8.467 ||NaN ||NaN ||
| t | p1 | p2 | nm | ll | ug | chr | pos | strand | seq1 | score1 | strand1 | seq2 | score2 | strand2 |
|---|
| 1 | -478 | -496 | NM_169233 | ll.41032 | hb | NaN | NaN | NaN | ctctctcactt | 10.10 | -1 | n | NaN | NaN |
| 8 | -846 | -861 | NM_164966 | ll.34569 | salm | NaN | NaN | NaN | ccctctctctc | 10.96 | -1 | n | NaN | NaN |
| 10 | -314 | -330 | NM_080310 | ll.31227 | gt | NaN | NaN | NaN | ctctctgtctc | 9.61 | -1 | cgaaaggg | 9.07 | -1 |
| 12 | -2181 | -2195 | NM_057311 | ll.34669 | nub | NaN | NaN | NaN | ctctttcgctc | 10.97 | -1 | cgaaaggg | 9.07 | -1 |
6 motifs = 80 212 0 0 thresholds = 10.181 ||8.953 ||NaN ||NaN ||
| t | p1 | p2 | nm | ll | ug | chr | pos | strand | seq1 | score1 | strand1 | seq2 | score2 | strand2 |
|---|
| 1 | 1356 | 1348 | NM_169233 | ll.41032 | hb | NaN | NaN | NaN | ttttttcgccttcc | 12.03 | -1 | tgtcgactttcatgttgttttttttt | 9.37 | -1 |
| 2 | -2408 | -2416 | NM_079463 | ll.40287 | kni | NaN | NaN | NaN | ttttttagccttct | 11.03 | -1 | gttacttttttattgtgttttttttt | 10.93 | -1 |
| 2 | -3604 | -3595 | NM_079463 | ll.40287 | kni | NaN | NaN | NaN | gttcggctaaaaaa | 10.79 | 1 | aaaaaataattttgataccctgcaaa | 9.61 | 1 |
| 4 | -2023 | -2015 | NM_078946 | ll.36039 | eve | NaN | NaN | NaN | tgttttggccgacc | 11.08 | -1 | ttttttgttttggccgaccgattttt | 10.45 | -1 |
| 6 | -605 | -591 | NM_078700 | ll.33059 | run | NaN | NaN | NaN | gcgtggcgaaaaaa | 11.15 | 1 | aaaaaataaaattcaaagcgaagaaa | 12.31 | 1 |
| 8 | 4335 | 4343 | NM_164966 | ll.34569 | salm | NaN | NaN | NaN | agaaagcaaaaaaa | 11.35 | 1 | aaaaaaacagctgcgactgagggaaa | 9.54 | 1 |
| 9 | 5209 | 5219 | NM_080500 | ll.42034 | Ubx | NaN | NaN | NaN | ttttttcgcggagc | 10.63 | -1 | caaaattcagcaagatcagaaacaaa | 10.62 | 1 |
| 10 | -2045 | -2036 | NM_080310 | ll.31227 | gt | NaN | NaN | NaN | ttttttcgctgaat | 10.56 | -1 | tttttttttcgctgaatctggttttt | 11.80 | -1 |
| 11 | -2727 | -2736 | NM_164546 | ll.33583 | odd | NaN | NaN | NaN | ttttttcgcaggcc | 10.93 | -1 | tttgtacttcgattttcgattttttt | 12.47 | -1 |
7 motifs = 156 201 0 0 thresholds = 9.900 ||8.916 ||NaN ||NaN ||
| t | p1 | p2 | nm | ll | ug | chr | pos | strand | seq1 | score1 | strand1 | seq2 | score2 | strand2 |
|---|
| 4 | 1640 | 1655 | NM_078946 | ll.36039 | eve | NaN | NaN | NaN | tcgcagcgacc | 11.01 | -1 | tcgctgcgattggcc | 10.54 | -1 |
| 6 | -2510 | -2525 | NM_078700 | ll.33059 | run | NaN | NaN | NaN | tcgcagcgagc | 11.70 | -1 | ggtccttcgcagcga | 10.91 | 1 |
| 7 | -4446 | -4461 | NM_057345 | ll.42037 | abd-A | NaN | NaN | NaN | tcgcagcgagc | 11.70 | -1 | ctcctttcgcagcga | 9.95 | 1 |
| 8 | -395 | -410 | NM_164966 | ll.34569 | salm | NaN | NaN | NaN | gttcgcagcga | 10.39 | 1 | gaacgttcgcagcga | 10.92 | 1 |
8 motifs = 101 222 0 0 thresholds = 8.962 ||9.549 ||NaN ||NaN ||
| t | p1 | p2 | nm | ll | ug | chr | pos | strand | seq1 | score1 | strand1 | seq2 | score2 | strand2 |
|---|
| 2 | -1930 | -1909 | NM_079463 | ll.40287 | kni | NaN | NaN | NaN | ttttttttattattttt | 13.05 | -1 | tttttgccgccca | 10.64 | -1 |
| 4 | -550 | -534 | NM_078946 | ll.36039 | eve | NaN | NaN | NaN | atttttgcactgccttt | 9.45 | -1 | tttttcccgccct | 10.37 | -1 |
| 6 | -4877 | -4853 | NM_078700 | ll.33059 | run | NaN | NaN | NaN | aaagaaaataaaaaaca | 10.81 | 1 | ttttttctgcgtt | 9.55 | -1 |
| 7 | -2576 | -2587 | NM_057345 | ll.42037 | abd-A | NaN | NaN | NaN | aaagaatggtcaataat | 10.36 | 1 | ttttgtcagcatt | 9.74 | -1 |
| 12 | -3511 | -3497 | NM_057311 | ll.34669 | nub | NaN | NaN | NaN | aaaaaaagcggaaaaaa | 12.14 | 1 | ttttttccgcttt | 9.70 | -1 |
9 motifs = 117 183 0 0 thresholds = 9.905 ||8.369 ||NaN ||NaN ||
| t | p1 | p2 | nm | ll | ug | chr | pos | strand | seq1 | score1 | strand1 | seq2 | score2 | strand2 |
|---|
| 5 | -2079 | -2067 | NM_079253 | ll.38995 | h | NaN | NaN | NaN | cctctgccgccgac | 12.51 | -1 | caacgcctctgcc | 10.11 | -1 |
| 6 | -4767 | -4753 | NM_078700 | ll.33059 | run | NaN | NaN | NaN | gacgtcgccagcgg | 11.15 | 1 | ccatccccctccc | 10.62 | -1 |
| 7 | 213 | 231 | NM_057345 | ll.42037 | abd-A | NaN | NaN | NaN | gctctgccgccgtt | 10.44 | -1 | ctgccgctctgcc | 8.43 | -1 |
| 12 | -4456 | -4472 | NM_057311 | ll.34669 | nub | NaN | NaN | NaN | ccgctgccgctgct | 11.86 | -1 | ggcagcggcggcg | 9.89 | -1 |
10 motifs = 187 201 0 0 thresholds = 9.141 ||8.916 ||NaN ||NaN ||
| t | p1 | p2 | nm | ll | ug | chr | pos | strand | seq1 | score1 | strand1 | seq2 | score2 | strand2 |
|---|
| 4 | 1665 | 1655 | NM_078946 | ll.36039 | eve | NaN | NaN | NaN | cgctgcgattg | 10.02 | 1 | tcgctgcgattggcc | 10.54 | -1 |
| 5 | -230 | -242 | NM_079253 | ll.38995 | h | NaN | NaN | NaN | gtctcgcagcg | 9.52 | -1 | cgcgtctcgcagcgg | 9.87 | 1 |
| 6 | -2513 | -2525 | NM_078700 | ll.33059 | run | NaN | NaN | NaN | ccttcgcagcg | 9.42 | -1 | ggtccttcgcagcga | 10.91 | 1 |
| 7 | -4449 | -4461 | NM_057345 | ll.42037 | abd-A | NaN | NaN | NaN | ctttcgcagcg | 10.02 | -1 | ctcctttcgcagcga | 9.95 | 1 |
| 8 | 2022 | 2010 | NM_164966 | ll.34569 | salm | NaN | NaN | NaN | ggttcgcagcg | 9.80 | -1 | gttggttcgcagcga | 9.31 | 1 |
| 8 | -398 | -410 | NM_164966 | ll.34569 | salm | NaN | NaN | NaN | cgttcgcagcg | 10.67 | -1 | gaacgttcgcagcga | 10.92 | 1 |
11 motifs = 81 227 0 0 thresholds = 9.693 ||8.990 ||NaN ||NaN ||
| t | p1 | p2 | nm | ll | ug | chr | pos | strand | seq1 | score1 | strand1 | seq2 | score2 | strand2 |
|---|
| 5 | 1238 | 1261 | NM_079253 | ll.38995 | h | NaN | NaN | NaN | tggctggcggc | 11.05 | -1 | ccagccagtcaatccgctccc | 10.85 | -1 |
| 6 | -4702 | -4725 | NM_078700 | ll.33059 | run | NaN | NaN | NaN | tcgctgccgac | 10.40 | -1 | agccgctgccgacgtcgctgc | 9.40 | 1 |
| 7 | -4423 | -4434 | NM_057345 | ll.42037 | abd-A | NaN | NaN | NaN | tcgctgccgac | 10.40 | -1 | gcagcgagcccatcatcgccc | 13.53 | -1 |
| 13 | -1961 | -1977 | NM_078834 | ll.34673 | pdm2 | NaN | NaN | NaN | tggctgccggc | 11.16 | -1 | tgccgattggctgccggctgc | 10.48 | 1 |
12 motifs = 110 201 0 0 thresholds = 9.808 ||8.916 ||NaN ||NaN ||
| t | p1 | p2 | nm | ll | ug | chr | pos | strand | seq1 | score1 | strand1 | seq2 | score2 | strand2 |
|---|
| 4 | 1642 | 1655 | NM_078946 | ll.36039 | eve | NaN | NaN | NaN | atcgcagcga | 10.20 | -1 | tcgctgcgattggcc | 10.54 | -1 |
| 6 | -2512 | -2525 | NM_078700 | ll.33059 | run | NaN | NaN | NaN | ttcgcagcga | 10.79 | -1 | ggtccttcgcagcga | 10.91 | 1 |
| 7 | -4448 | -4461 | NM_057345 | ll.42037 | abd-A | NaN | NaN | NaN | ttcgcagcga | 10.79 | -1 | ctcctttcgcagcga | 9.95 | 1 |
| 8 | 2023 | 2010 | NM_164966 | ll.34569 | salm | NaN | NaN | NaN | ttcgcagcga | 10.79 | -1 | gttggttcgcagcga | 9.31 | 1 |
| 8 | -397 | -410 | NM_164966 | ll.34569 | salm | NaN | NaN | NaN | ttcgcagcga | 10.79 | -1 | gaacgttcgcagcga | 10.92 | 1 |
Questions? --> kreiman@mit.edu
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