dme-mir-2500
Changes
| Species | Chrom | Pos | Ref base | Type | A | C | G | T | RNAseq Total | A | C | G | T | Trace Total | Decision | Partition |
| droGri2 | scaffold_15110 | 9071783 | G | 3 | 0 | 0 | 0 | 0 | 0 | 0.556 | 0 | 0.444 | 0 | 18 | Genomic Error | Loop |
| droGri2 | scaffold_15110 | 9071791 | G | 3 | 0 | 0 | 0 | 0 | 0 | 0.556 | 0 | 0.444 | 0 | 18 | Genomic Error | miR* |
The reported D. persimilis ortholog reported in the 12-way alignment is wrong as shown above. Here is the correct ortholog found from the persimilis trace reads.
>dme-mir-2500-dp4
AAGAACTTTTTGCAGGTAAGCCATCACCAGCATTGAAAGCCATTGAAATGCGTCTAAATAGCAGTCTCTCTCCTCCCACAGATCATGTTCCAGGCC
>gnl|ti|780630171:515-611
AAGAACTTTTTGCAGGTAAGCCATCACCAGCATTGAAAGCCATTGAAATGCGTCTAAATAGCAGTCTCTCTCCTCCCACAGATCATGTTCCAGGCC
Corrected alignment
| Species | Coordinate | Alignment |
|---|---|---|
| dm3 | chr3L:16991543-16991639 - | AAGAACTTTCTGCAGGTAAGGA----------------ACACACATATACAATACCG-------TTTGA-------------ATTTCAAATAATCAGGA------TTTTGTGTGTGGACCTCAGATCATGTTCCAGGCC |
| droSim1 | chr3L:16333274-16333368 - | AAGAACTTTCTGCAGGTAAGGA----------------ACACACAT--ACAGTCCCT-------GTTGA-------------ATTTCAAATAATCAGGA------TTTTGTGTGTGGACCTCAGATCATGTTCCAGGCC |
| droSec1 | super_0:9052557-9052651 - | AAGAACTTTCTGCAGGTAAGGA----------------ACACACAT--ACAATCCCT-------GTTGA-------------ATATTAAATAATCAGGA------TTTTGTGTGTGGACCTCAGATCATGTTCCAGGCC |
| droYak2 | chr3L:17082640-17082734 + | AAGAACTTTCTACAGGTCAGGA----------------TCACACAT--ACATTCCCT-------GTAGA-------------ATTTAATTTAATCAGGA------ATTTATGTGTGAACTTTAGATCATGTTCCAGGCC |
| droEre2 | scaffold_4784:16851458-16851552 + | AAGAATTTTCTGCAGGTAAGGA----------------TCGCACAT--ACAATCCCT-------GTCGC-------------ATTTTATGTAATCAGGA------TTTTGCGTGTGAACTTTAGATCATGTTCCAGGCC |
| droAna3 | scaffold_13337:13625775-13625865 + | AAAAACTTTCTGCAGGTGAGCA----------------GTTCA----------------AGCTTAGCGAGGTCTGTTCCAGTT-TCCTAACATTC----------TTCCGCTC-----CTTTAGATCATGTTCCAGGCC |
| dp4 | chrXR_group8:4827167-4827262 - | AAGAACTTTTTGCAGGTAAGCC----ATCACC------------AGCA-------TTGAAAGCCATTGA-------------AATGCGTCTAAATAGCAGTCT--CTCTCCTC-----CCACAGATCATGTTCCAGGCC |
| droPer1 | gnl|ti|780630171:515-611 - | AAGAACTTTTTGCAGGTAAGCC----ATCACC------------AGCA-------TTGAAAGCCATTGA-------------AATGCGTCTAAATAGCAGTCT--CTCTCCTC-----CCACAGATCATGTTCCAGGCC |
| droWil1 | scaffold_180955:197087-197182 - | AAAAACTTTTTACAGGTAAGCC----------------ACAACGAT--GAATGGCTCGAGGGAGATTGA-------------ACTCTATGTAATC-------TCTTCACTTTC-----TTGCAGATAATGTTTCAGGCT |
| droVir3 | scaffold_13049:10166522-10166615 + | AAGAACTTTCTGCAGGTGCGTT----CCCCCTGGCTGATCACATAT--GTCGTTT---------------------------ATACTATATTTT-CGCC------TTTTGCTC-----CTGCAGATCATGTTCCAGGCC |
| droMoj3 | scaffold_6680:10629193-10629280 - | AAGAACTTTCTCCAGGTGAGTT----ACGG-------TTCAC------ATAATTC----------TCGT-------------ATTCCAAATAACGAAAT------CTTTGTCC-----TTGCAGATCATGTTCCAGGCC |
| droGri2 | scaffold_15110:9071735-9071831 - | AAGAACTTGCTGCAGGTGAGATTTTGATCG-------ATTAA------TTAAGTC----------TGG--------CTCTCTTTGCTAAATATGCC--A--CT--TTTTGTGT-----TGGCAGATCATGTTCCAGGCC |