Locus 2170

Sequence ID dm3.chr2L
Location 16,730,673 – 16,730,793
Length 120
Max. P 0.658558
window2996 window2997

overview

Window 6

Location 16,730,673 – 16,730,793
Length 120
Sequences 13
Columns 120
Reading direction forward
Mean pairwise identity 72.62
Shannon entropy 0.62436
G+C content 0.54872
Mean single sequence MFE -41.95
Consensus MFE -10.68
Energy contribution -10.77
Covariance contribution 0.09
Combinations/Pair 1.81
Mean z-score -2.09
Structure conservation index 0.25
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.04
SVM RNA-class probability 0.512676
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 16730673 120 + 23011544
UUCCUUCAGGGCUGAGUUCUGUUUCCGACAGGUGGCCACCAUCAGUAUACUGCUGGCCUUGCAGCACUCCUGGAAGUCGGCCACCUCCUUUGAGCAGAACUCCGUCUUGGCACGAUCGCG
......((((((.(((((((((((.....((((((((.(((.(((....))).))).(((.(((.....))).)))..)))))))).....))))))))))).))))))((......)). ( -52.70, z-score =  -4.27, R)
>anoGam1.chr3R 2838428 120 + 53272125
GGCUUUAAGUGCAUCGUUCUGCUCCUGGCAUUUCGCAACCAUAAACAGCCCCGAACCUUUGCAGCAAUCUUCGAACGCCUUUACCUCCGGGAUGCACUUUUCGGUUUUUGCUCGCUCCCG
((((..((((((((((((((((.....))).................((..(((....)))..)).......)))).((.........)))))))))))...)))).............. ( -22.90, z-score =   1.20, R)
>droGri2.scaffold_15252 9758399 120 + 17193109
AUCUCUCAGGGCAGAGUUCUGUUUGCGACAGGUGGCAACCAUGAAUAUGCUGCUCGACUUGCAACACUCCUCAAAAUCGGCCACUUCCUUCGCACAGUGCUCGACUUUGGCGCGAUCUCU
(((.(((((((..((((.((((..((((.(((((((.....(((...((.(((.......))).))....)))......)))))))...)))))))).))))..)))))).).))).... ( -35.70, z-score =  -1.00, R)
>droVir3.scaffold_12963 6542378 120 + 20206255
AUCCCUUAGCGCCGAGUUCUGUUUCCGACAGGUGGCCACCAUGAAUAUGCUGCUCGCCUUACAGCAUUCCUCAAAGUCUGCCACCUCUUUGGUGCAGAAUUCGUCGCGCGCGCGAUCCCU
........((((((((((((((..((((.(((((((.((..(((..((((((.........))))))...)))..))..)))))))..)))).))))))))))..))))........... ( -46.10, z-score =  -4.70, R)
>droMoj3.scaffold_6500 25696493 120 + 32352404
GUCCAUGAGCGCAGAGUUUUGCUUGCGACAGGUGGCCACCAUGAAUAUGCUGCUGGCCUUACAGCAUUCCUCAAAGUCCGCGACUUCUUUAGGACACAGUUCGCUCCGGGCGCGAUCUCU
((((..(((((..(((...((((.((.....))(((((.((.(......))).)))))....))))...)))...((((............))))......))))).))))......... ( -33.00, z-score =   1.12, R)
>droWil1.scaffold_180708 10784907 120 - 12563649
AUCCCUUAGAGCUGCAUUCUGUUUUCGACAUGUGGCCACCAUGAAUAUGCUGCUGGCCUUGCAGCAUUCAUUAAAAUCGGCCACCUCCUUGGUACAGAGUUCCGCUUUGGCUCGAUCUCU
........((((((((((((((..((((...((((((...((((..(((((((.......))))))))))).......))))))....)))).)))))))...))...)))))....... ( -38.00, z-score =  -2.53, R)
>droSim1.chr2L 16428925 120 + 22036055
UUCCUUCAGGGCUGAGUUCUGCUUCCGGCAGGUGGCCACCAUCAGUAUACUGCUGGCCUUGCAGCACUCCUGGAAGUCGGCCACCUCCUUUGAGCAGAACUCCGUCUUUGCACGAUCGCG
.......(((((.(((((((((((..((.((((((((.(((.(((....))).))).(((.(((.....))).)))..))))))))))...))))))))))).))))).((......)). ( -54.30, z-score =  -4.50, R)
>droSec1.super_7 377593 120 + 3727775
UUCCUUCAGGGCUGAGUUCUGCUUCCGGCAGGUGGCCACCAUUAGUAUACUGCUGGCCUUGCAGCAAUCCUGGAAGUCGGCCACCUCCUUUGAGCAGAACUCCGUCUUGGCACGAUCGCG
......((((((.(((((((((((..((.((((((((.(((.(((....))).))).(((.(((.....))).)))..))))))))))...))))))))))).))))))((......)). ( -56.20, z-score =  -4.80, R)
>droYak2.chr2R 16767128 120 - 21139217
UUCCUUGAGGGCUGAGUUUUGCUUCCGGCAGGUGGCCACCAUCAGUAUACUGCUGGCCUUGCAACACUCCUGGAAGUCGGCCACUUCCUUCGAGCAGAACUCCGACUUGGCACGAUCCCG
........(((..(((((((((((..((.((((((((.(((.(((....))).))).(((.((.......)).)))..))))))))))...)))))))))))((........))..))). ( -43.50, z-score =  -1.71, R)
>droEre2.scaffold_4845 19802320 120 + 22589142
UUCCUUAAGGGCUGAGUUUUGCUUCCUGCAGGUGGCGACCAUCAGAAUACUGCUGGCCUUGCAGCACUCCUGGAAGUCGGCCACUUCCUUCGAGCAGAACUCCGUCUUGGCACGAUCCCG
.......(((((.(((((((((((...(.((((((((((..((((.....(((((......)))))...))))..))).))))))).)...))))))))))).)))))............ ( -44.50, z-score =  -1.95, R)
>droAna3.scaffold_12943 1105339 120 - 5039921
UUCCUUGAGGGCGGAGUUUUGUUUACGACAGGUGGCCACCAUCAGGAUGCUGCUGGCCUUGCAGCACUCUCCAAAAUCGGCCACUUCCUUGGCGCAGAACUCAUCCCGGGCCCGGUCGCG
..((....))((((((((((((...(((.((((((((.((....)).((((((.......))))))............))))))))..)))..)))))))))...(((....))).))). ( -46.30, z-score =  -1.30, R)
>dp4.chr4_group3 8639143 120 - 11692001
GUCCCUUAGGGCAGAGUUCUCCUUGCGACAUGUCGCAACCAUGAAGAUGCUGCUGGUCUUGCAGCACGCCUCAAAGUCUGCGACUUCCUUGGUGCAGAGCUCAGCCUUUGCCCGGUCCCG
(.((...(((((.(((((((.(.(((((....)))))((((.((((.((((((.......))))))(((..........))).))))..))))).))))))).))))).....)).)... ( -43.70, z-score =  -1.63, R)
>triCas2.ChLG8 10645047 120 - 15773733
UUCUUUCAGUGCUGCGUUCUCUUUACGACACAUGAAAGUCAUCAAAAUGUUGUUAUUUUUGCAACAUUCGGUGAAUUUCUCGACGGCAUCGGUGCAUUUUUCGUCUCGUGCAAUCUCGCG
..(((((((((...(((.......))).))).))))))(((((..((((((((.......)))))))).))))).......((..(((.((..((.......))..)))))..))..... ( -28.50, z-score =  -1.13, R)
>consensus
UUCCUUCAGGGCUGAGUUCUGCUUCCGACAGGUGGCCACCAUCAAUAUGCUGCUGGCCUUGCAGCACUCCUCGAAGUCGGCCACCUCCUUGGAGCAGAACUCCGCCUUGGCACGAUCCCG
........(((..(.((.((((.......(((((((..............((((........)))).............))))))).......)))).)).)..)))............. (-10.68 = -10.77 +   0.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 16,730,673 – 16,730,793
Length 120
Sequences 13
Columns 120
Reading direction reverse
Mean pairwise identity 72.62
Shannon entropy 0.62436
G+C content 0.54872
Mean single sequence MFE -43.03
Consensus MFE -16.54
Energy contribution -16.09
Covariance contribution -0.45
Combinations/Pair 1.74
Mean z-score -1.45
Structure conservation index 0.38
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.36
SVM RNA-class probability 0.658558
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 16730673 120 - 23011544
CGCGAUCGUGCCAAGACGGAGUUCUGCUCAAAGGAGGUGGCCGACUUCCAGGAGUGCUGCAAGGCCAGCAGUAUACUGAUGGUGGCCACCUGUCGGAAACAGAACUCAGCCCUGAAGGAA
.((...(((......)))((((((((.((...((((((((((.(((..(((..(((((((.......))))))).)))..))))))))))).)).))..)))))))).))((....)).. ( -49.40, z-score =  -2.44, R)
>anoGam1.chr3R 2838428 120 - 53272125
CGGGAGCGAGCAAAAACCGAAAAGUGCAUCCCGGAGGUAAAGGCGUUCGAAGAUUGCUGCAAAGGUUCGGGGCUGUUUAUGGUUGCGAAAUGCCAGGAGCAGAACGAUGCACUUAAAGCC
(((.............)))..(((((((((.((((.((....)).))))....(((((.(...((((((.((((......)))).)))...))).).)))))...)))))))))...... ( -35.72, z-score =  -0.38, R)
>droGri2.scaffold_15252 9758399 120 - 17193109
AGAGAUCGCGCCAAAGUCGAGCACUGUGCGAAGGAAGUGGCCGAUUUUGAGGAGUGUUGCAAGUCGAGCAGCAUAUUCAUGGUUGCCACCUGUCGCAAACAGAACUCUGCCCUGAGAGAU
....(((.(..((..((.(((..((((((((.((..(((((.(((..((((..(((((((.......))))))).))))..)))))))))).))))..))))..))).))..)).).))) ( -37.70, z-score =  -0.63, R)
>droVir3.scaffold_12963 6542378 120 - 20206255
AGGGAUCGCGCGCGCGACGAAUUCUGCACCAAAGAGGUGGCAGACUUUGAGGAAUGCUGUAAGGCGAGCAGCAUAUUCAUGGUGGCCACCUGUCGGAAACAGAACUCGGCGCUAAGGGAU
....(((.(..((((..(((.(((((..((..(.(((((((..(((.((((..(((((((.......))))))).)))).))).))))))).).))...))))).)))))))...).))) ( -47.10, z-score =  -2.72, R)
>droMoj3.scaffold_6500 25696493 120 - 32352404
AGAGAUCGCGCCCGGAGCGAACUGUGUCCUAAAGAAGUCGCGGACUUUGAGGAAUGCUGUAAGGCCAGCAGCAUAUUCAUGGUGGCCACCUGUCGCAAGCAAAACUCUGCGCUCAUGGAC
.(((...(((.(.((.((..((((((((((...((((((...)))))).))))(((((((.......)))))))...)))))).))..)).).)))..(((......))).)))...... ( -37.20, z-score =   0.30, R)
>droWil1.scaffold_180708 10784907 120 + 12563649
AGAGAUCGAGCCAAAGCGGAACUCUGUACCAAGGAGGUGGCCGAUUUUAAUGAAUGCUGCAAGGCCAGCAGCAUAUUCAUGGUGGCCACAUGUCGAAAACAGAAUGCAGCUCUAAGGGAU
.(((((((.(((...((((....))))(((.....))))))))))))).......((((((.(((((.((.........)).)))))...(((.....)))...)))))).......... ( -39.30, z-score =  -1.84, R)
>droSim1.chr2L 16428925 120 - 22036055
CGCGAUCGUGCAAAGACGGAGUUCUGCUCAAAGGAGGUGGCCGACUUCCAGGAGUGCUGCAAGGCCAGCAGUAUACUGAUGGUGGCCACCUGCCGGAAGCAGAACUCAGCCCUGAAGGAA
.((...(((......)))(((((((((((...((((((((((.(((..(((..(((((((.......))))))).)))..))))))))))).)).).)))))))))).))((....)).. ( -57.10, z-score =  -4.26, R)
>droSec1.super_7 377593 120 - 3727775
CGCGAUCGUGCCAAGACGGAGUUCUGCUCAAAGGAGGUGGCCGACUUCCAGGAUUGCUGCAAGGCCAGCAGUAUACUAAUGGUGGCCACCUGCCGGAAGCAGAACUCAGCCCUGAAGGAA
.((...(((......)))(((((((((((...((((((((((.(((...((.(((((((......)))))))...))...))))))))))).)).).)))))))))).))((....)).. ( -52.80, z-score =  -3.36, R)
>droYak2.chr2R 16767128 120 + 21139217
CGGGAUCGUGCCAAGUCGGAGUUCUGCUCGAAGGAAGUGGCCGACUUCCAGGAGUGUUGCAAGGCCAGCAGUAUACUGAUGGUGGCCACCUGCCGGAAGCAAAACUCAGCCCUCAAGGAA
.(((((((.((((..((.(((.....)))....))..))))))).))))..((((.((((..(((((.((.........)).))))).((....))..)))).))))...((....)).. ( -42.10, z-score =  -0.31, R)
>droEre2.scaffold_4845 19802320 120 - 22589142
CGGGAUCGUGCCAAGACGGAGUUCUGCUCGAAGGAAGUGGCCGACUUCCAGGAGUGCUGCAAGGCCAGCAGUAUUCUGAUGGUCGCCACCUGCAGGAAGCAAAACUCAGCCCUUAAGGAA
.(((..(((......)))(((((.(((((....)).(((((.((((....((((((((((.......))))))))))...))))))))).........))).)))))..)))........ ( -45.50, z-score =  -1.37, R)
>droAna3.scaffold_12943 1105339 120 + 5039921
CGCGACCGGGCCCGGGAUGAGUUCUGCGCCAAGGAAGUGGCCGAUUUUGGAGAGUGCUGCAAGGCCAGCAGCAUCCUGAUGGUGGCCACCUGUCGUAAACAAAACUCCGCCCUCAAGGAA
.(((((.((((.(((((....))))).)))......(((((((...(..(.((.((((((.......)))))))))..)...)))))))).))))).........(((........))). ( -45.00, z-score =  -0.59, R)
>dp4.chr4_group3 8639143 120 + 11692001
CGGGACCGGGCAAAGGCUGAGCUCUGCACCAAGGAAGUCGCAGACUUUGAGGCGUGCUGCAAGACCAGCAGCAUCUUCAUGGUUGCGACAUGUCGCAAGGAGAACUCUGCCCUAAGGGAC
..(..(((((((.((..(...(..(((.(....)..(((((((.((.(((((.(((((((.......)))))))))))).))))))))).....)))..).)..)).)))))...))..) ( -45.70, z-score =  -1.16, R)
>triCas2.ChLG8 10645047 120 + 15773733
CGCGAGAUUGCACGAGACGAAAAAUGCACCGAUGCCGUCGAGAAAUUCACCGAAUGUUGCAAAAAUAACAACAUUUUGAUGACUUUCAUGUGUCGUAAAGAGAACGCAGCACUGAAAGAA
.(((...((..((((.(((..........((((...)))).((((.((((.((((((((.........)))))))).).))).)))).))).))))...))...)))............. ( -24.80, z-score =  -0.11, R)
>consensus
CGCGAUCGUGCCAAGACGGAGUUCUGCACCAAGGAAGUGGCCGACUUCGAGGAGUGCUGCAAGGCCAGCAGCAUAUUGAUGGUGGCCACCUGUCGGAAGCAGAACUCAGCCCUGAAGGAA
.........((.........................((((((.(((....((.(((((((.......))))))).))...))))))))).(((.....))).......)).......... (-16.54 = -16.09 +  -0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:46:14 2011