Locus 7391

Sequence ID dm3.chr3L
Location 14,540,074 – 14,540,174
Length 100
Max. P 0.994377
window10174 window10175

overview

Window 4

Location 14,540,074 – 14,540,174
Length 100
Sequences 7
Columns 107
Reading direction forward
Mean pairwise identity 80.97
Shannon entropy 0.34431
G+C content 0.51796
Mean single sequence MFE -35.70
Consensus MFE -20.64
Energy contribution -21.06
Covariance contribution 0.41
Combinations/Pair 1.26
Mean z-score -2.44
Structure conservation index 0.58
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.39
SVM RNA-class probability 0.935224
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 14540074 100 + 24543557
------GUUUAAUAAGUGCGGCGCCAUAAUCUUUGAAGGCCUGACGUCAAAGUGACUGAGUCCGCC-GGCAUUUACAGCCUUCUUGAUCGUUUCGGCGCCGCUGUAU
------...........(((((((((..(((...((((((.((..(((.....)))...(((....-))).....))))))))..)))..)...))))))))..... ( -34.80, z-score =  -2.39, R)
>droPer1.super_41 589524 106 + 728894
AAGUAAGUUUAGUGAGUGCGGCGCCAUUGUCUUAUGGCGCCUGACGUCAAAGUGAUUGAACCCCCAAGGCAUUGACAGCACUCUCAUUCGGUUUG-CGGUGCUGUCU
.((((......(.((((((((((((((......))))))))....(((((.((..(((......))).)).))))).)))))).)..(((.....-))))))).... ( -37.40, z-score =  -2.08, R)
>dp4.chrXR_group6 7236483 106 + 13314419
AAGUAAGUUUAGUGAGUGCGGCGCCAUUGUCUUAUGGCGCCUGACGUCAAAGUGAUUGAACCCCCAAGGCAUUGACAGCACUCUCAUUCGGUUUG-CGGUGCUGUCU
.((((......(.((((((((((((((......))))))))....(((((.((..(((......))).)).))))).)))))).)..(((.....-))))))).... ( -37.40, z-score =  -2.08, R)
>droEre2.scaffold_4784 14506643 100 + 25762168
------GUUUAGUAACUGCGGCGCCAUUAUCUUCGAAGGCCUGACGUCAAAGUGACUUAACCCGCC-GGCAUUUACAGCCUUCUUGAUCGUUUCGGCGCCGCUGUAU
------........((.((((((((.........((((((.((..(((.....)))....((....-))......))))))))..((.....)))))))))).)).. ( -33.70, z-score =  -2.50, R)
>droYak2.chr3L 14625700 100 + 24197627
------GUUUAGUAAGUGCGGCGCCAUUAUCUUCGAAGGCCUGACGUCAAAGUGACUGAACCCGCC-GGCAUUUACCGCCUUCUUGAUCGUUUCGGCGCCGCUGUAU
------.....(((...((((((((.........((((((.....(((.....)))..........-((......))))))))..((.....))))))))))..))) ( -33.30, z-score =  -1.72, R)
>droSec1.super_0 6665413 100 + 21120651
------GUUUAGUAAGUGCGGCGCCAUAAUCUUUGAAGGCCUGACGUCAAAGUGACUGAGCCCGCC-GGCAUUUACAGCCUUCUUGAUUGUUUCGGCGCCGUUGUAU
------.....(((...((((((((((((((...((((((.((..(((.....)))...(((....-))).....))))))))..))))))...))))))))..))) ( -39.20, z-score =  -3.77, R)
>droSim1.chr3L 13863863 93 + 22553184
------GUUUAGUAAGUGCGGCGCCAUAAUCUUUGAAGGCCUGU-------GUGACUGAGCCCGCC-GGCAUUUACAGCCUUCUUGAUCGUUUCGGCGCCGUUGUAU
------.....(((...(((((((((..(((...((((((.(((-------(((.(((.(....))-)))))..)))))))))..)))..)...))))))))..))) ( -34.10, z-score =  -2.56, R)
>consensus
______GUUUAGUAAGUGCGGCGCCAUUAUCUUUGAAGGCCUGACGUCAAAGUGACUGAACCCGCC_GGCAUUUACAGCCUUCUUGAUCGUUUCGGCGCCGCUGUAU
.................((((((((.........((((((.((..(((.....))).....((....))......))))))))..((.....))))))))))..... (-20.64 = -21.06 +   0.41)

alignment

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secondary structure

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dotplot

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Window 5

Location 14,540,074 – 14,540,174
Length 100
Sequences 7
Columns 107
Reading direction reverse
Mean pairwise identity 80.97
Shannon entropy 0.34431
G+C content 0.51796
Mean single sequence MFE -36.39
Consensus MFE -20.92
Energy contribution -22.21
Covariance contribution 1.29
Combinations/Pair 1.22
Mean z-score -3.23
Structure conservation index 0.58
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.69
SVM RNA-class probability 0.994377
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 14540074 100 - 24543557
AUACAGCGGCGCCGAAACGAUCAAGAAGGCUGUAAAUGCC-GGCGGACUCAGUCACUUUGACGUCAGGCCUUCAAAGAUUAUGGCGCCGCACUUAUUAAAC------
.....(((((((((....((((.....(((.......)))-(((.(((((((.....)))).)))..)))......)))).)))))))))...........------ ( -37.90, z-score =  -3.94, R)
>droPer1.super_41 589524 106 - 728894
AGACAGCACCG-CAAACCGAAUGAGAGUGCUGUCAAUGCCUUGGGGGUUCAAUCACUUUGACGUCAGGCGCCAUAAGACAAUGGCGCCGCACUCACUAAACUUACUU
.(((((((((.-((.......)).).))))))))......((((((((((((.....)))).....((((((((......))))))))..)))).))))........ ( -36.60, z-score =  -2.99, R)
>dp4.chrXR_group6 7236483 106 - 13314419
AGACAGCACCG-CAAACCGAAUGAGAGUGCUGUCAAUGCCUUGGGGGUUCAAUCACUUUGACGUCAGGCGCCAUAAGACAAUGGCGCCGCACUCACUAAACUUACUU
.(((((((((.-((.......)).).))))))))......((((((((((((.....)))).....((((((((......))))))))..)))).))))........ ( -36.60, z-score =  -2.99, R)
>droEre2.scaffold_4784 14506643 100 - 25762168
AUACAGCGGCGCCGAAACGAUCAAGAAGGCUGUAAAUGCC-GGCGGGUUAAGUCACUUUGACGUCAGGCCUUCGAAGAUAAUGGCGCCGCAGUUACUAAAC------
.....(((((((((.....(((..(((((((......(((-....)))...(((.....)))....)))))))...)))..)))))))))...........------ ( -37.60, z-score =  -3.07, R)
>droYak2.chr3L 14625700 100 - 24197627
AUACAGCGGCGCCGAAACGAUCAAGAAGGCGGUAAAUGCC-GGCGGGUUCAGUCACUUUGACGUCAGGCCUUCGAAGAUAAUGGCGCCGCACUUACUAAAC------
.....(((((((((.....(((..(((((((((....)))-((((...((((.....))))))))..))))))...)))..)))))))))...........------ ( -40.40, z-score =  -3.80, R)
>droSec1.super_0 6665413 100 - 21120651
AUACAACGGCGCCGAAACAAUCAAGAAGGCUGUAAAUGCC-GGCGGGCUCAGUCACUUUGACGUCAGGCCUUCAAAGAUUAUGGCGCCGCACUUACUAAAC------
......((((((((....((((..(((((((......(((-....)))...(((.....)))....)))))))...)))).))))))))............------ ( -34.60, z-score =  -3.19, R)
>droSim1.chr3L 13863863 93 - 22553184
AUACAACGGCGCCGAAACGAUCAAGAAGGCUGUAAAUGCC-GGCGGGCUCAGUCAC-------ACAGGCCUUCAAAGAUUAUGGCGCCGCACUUACUAAAC------
......((((((((....((((..(((((((((....(((-....)))........-------))).))))))...)))).))))))))............------ ( -31.00, z-score =  -2.65, R)
>consensus
AUACAGCGGCGCCGAAACGAUCAAGAAGGCUGUAAAUGCC_GGCGGGUUCAGUCACUUUGACGUCAGGCCUUCAAAGAUAAUGGCGCCGCACUUACUAAAC______
.....(((((((((..........(((((((......(((.....)))((((.....)))).....)))))))........)))))))))................. (-20.92 = -22.21 +   1.29)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:26:00 2011