Locus 7427

Sequence ID 2L_DroMel_CAF1
Location 20,616,216 – 20,616,370
Length 154
Max. P 0.905814
window11938 window11939

overview

Window 8

Location 20,616,216 – 20,616,306
Length 90
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 79.96
Mean single sequence MFE -18.63
Consensus MFE -6.68
Energy contribution -8.32
Covariance contribution 1.64
Combinations/Pair 1.06
Mean z-score -2.08
Structure conservation index 0.36
SVM decision value 0.05
SVM RNA-class probability 0.556407
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20616216 90 - 22407834
AAUGCAUA---UUAGCAUCCUAGCCAUAUUUAUGCAGUCCCGAAACCUCGGGCCAGCAACAAAAACACC-------AUCAACUGUGGAAAAACCAGCAAA
.((((...---...))))....((........(((.(.(((((....))))).).))).........((-------((.....))))........))... ( -18.00)
>DroSec_CAF1 135150 93 - 1
AAUGCAUGAUGGUAGCAUCCUAGCCAUAUUUAUGCAGUCCCAAAACCCCGGGCCAGCAACAAAAACACC-------AUCAACUGUGGAAAAACCAGCAAA
..(((.(((((((.((......))........(((.(.(((........))).).)))........)))-------))))....(((.....)))))).. ( -22.10)
>DroSim_CAF1 132028 93 - 1
AAUGCAUGAUGGUAGCAUCCUAGCCAUAUUUAUGCAGUCCCAAAACCUCGGGCCACCAACAAAAACACC-------AUCAACUGUGGAAAAACCAGCAAA
..(((.(((((((.((((.............)))).(.(((........))).)............)))-------))))....(((.....)))))).. ( -20.22)
>DroEre_CAF1 120039 95 - 1
AAUGCAUG---GAG-CAUCCUAUCAAUAUUUAUGCACUCGCGAAUCCGCUGGCCAGCAACAAA-ACAGCAAAAAACAUCAACUAUGGAAAAUGCAGGAAA
..((((((---((.-.............))))))))........((((((....)))......-...(((.....(((.....))).....))).))).. ( -15.64)
>DroYak_CAF1 124667 89 - 1
AAUGCAUG---GAACCAUCGUGGCAAUAUAUAUGCAGUCCCGAAAUAUCGGGCCGCCAACAAA-ACACU-------UUCAAACAUGGUAAAACCAGGAAA
......((---(....(((((((((.......))).(.(((((....))))).).........-.....-------......))))))....)))..... ( -17.20)
>consensus
AAUGCAUG___GUAGCAUCCUAGCCAUAUUUAUGCAGUCCCGAAACCUCGGGCCAGCAACAAAAACACC_______AUCAACUGUGGAAAAACCAGCAAA
..((((((......((......))......))))))(.((((......)))).)..............................(((.....)))..... ( -6.68 =  -8.32 +   1.64)

alignment

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secondary structure

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dotplot

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Window 9

Location 20,616,269 – 20,616,370
Length 101
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 72.63
Mean single sequence MFE -25.06
Consensus MFE -6.06
Energy contribution -7.50
Covariance contribution 1.44
Combinations/Pair 1.19
Mean z-score -1.95
Structure conservation index 0.24
SVM decision value 1.04
SVM RNA-class probability 0.905814
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20616269 101 + 22407834
GGACUGCAUAAAUAUGGCUAGGAUGCUAA---UAUGCAUUGUUUGAAUAUGCGCAAAAUAAACUUAAAACAU----------AUCUA------UACCAAAGAGACUUGAAGUCGCUGUAC
.(((((((((.....(((...(((((...---...))))))))....))))).................((.----------.(((.------........)))..)).))))....... ( -15.10)
>DroSec_CAF1 135203 107 + 1
GGACUGCAUAAAUAUGGCUAGGAUGCUACCAUCAUGCAUU-U------CUGCGGAAAAUAAACUCAAAACAUAGGUAAAUGUAUCUA------UUAUAUAGCGACUUGAAGUCGCUGUAC
...(((((.((((...((...((((....))))..)))))-)------.)))))................(((((((....))))))------)..(((((((((.....))))))))). ( -27.60)
>DroSim_CAF1 132081 113 + 1
GGACUGCAUAAAUAUGGCUAGGAUGCUACCAUCAUGCAUU-UUUGAAUCUGCGCAAAAUAAACUCAAAACAUAGGUAAAUGCAUCUA------UAACAUAGCGACUUGAAGUCGCUGUAC
(((.(((((...((((((...((((....))))..))..(-(((((.................)))))))))).....)))))))).------....((((((((.....)))))))).. ( -26.43)
>DroEre_CAF1 120098 115 + 1
CGAGUGCAUAAAUAUUGAUAGGAUG-CUC---CAUGCAUU-UUUGAGUCUGCGCAAAGUAGAUUUAAAACACAGCCAAAUGUAUUUAGGCAUCUAUCAUAAAGACUUGUACUCGUUUUAC
((((((((.......((((((.(((-((.---.(((((((-(((((((((((.....)))))))))).........))))))))...)))))))))))........))))))))...... ( -38.06)
>DroYak_CAF1 124719 94 + 1
GGACUGCAUAUAUAUUGCCACGAUGGUUC---CAUGCAUU-UUUGAAUCUGCGCAAAAUAAAUUUAAAACAA-G---------------------UCAAAGAGACUUGGAGUCGUUUUAC
.((((.....(((.((((....(((....---)))(((..-........))))))).))).........(((-(---------------------((.....)))))).))))....... ( -18.10)
>consensus
GGACUGCAUAAAUAUGGCUAGGAUGCUAC___CAUGCAUU_UUUGAAUCUGCGCAAAAUAAACUUAAAACAUAG__AAAUG_AUCUA______UAACAUAGAGACUUGAAGUCGCUGUAC
....(((((.....((((......)))).....)))))...........................................................((((.(((.....))).)))).. ( -6.06 =  -7.50 +   1.44)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:36:36 2006