Locus 9062

Sequence ID 3R_DroMel_CAF1
Location 24,216,460 – 24,216,594
Length 134
Max. P 0.931656
window14510 window14511

overview

Window 0

Location 24,216,460 – 24,216,567
Length 107
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 76.82
Mean single sequence MFE -34.82
Consensus MFE -22.42
Energy contribution -22.48
Covariance contribution 0.06
Combinations/Pair 1.12
Mean z-score -1.86
Structure conservation index 0.64
SVM decision value 1.21
SVM RNA-class probability 0.931656
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24216460 107 + 27905053
GA--G----CCCGCCU-UCUCCAAUCUC---GUUAGCCAGCCGUUAGUUGGCAACACUUCCGUCAGGCAGUGCAAGUUUGACACGCGCAUCAACACGCGCUUUGUCAAGCG---CACACU
..--.----...((((-...........---(((.((((((.....)))))))))((....)).)))).((((..((((((((.((((........))))..)))))))))---)))... ( -36.40)
>DroPse_CAF1 39699 112 + 1
AAUGA----UCCGCAU-UCUCCGUCCACAGUGUUGGCCAAACGCUAGUUGGCAACACUUCCGUCAGGCAGUGCAAGUUUGACACGCGCAUCAACACGCGCUUUGUCAACCU---GUGUCU
.....----.......-........(((((.((((((((((((((....)))..((((.((....)).))))...)))))....((((........))))...))))))))---)))... ( -34.20)
>DroGri_CAF1 12437 101 + 1
---------GCCGCGCUGUUGCCACUAA---GCUGGGCGGACAUU-GUUGGCAGCACUUCCGGCAGUCAGUGCAAGUUUGACACGCGCAUCAACACGCGCUUUGUCAACCC---AAC---
---------...(((((((((((...((---(.((.((.(((...-))).))..)))))..))))).))))))....((((((.((((........))))..))))))...---...--- ( -35.50)
>DroSec_CAF1 39101 102 + 1
-----------CGCCU-UCUCCAACCUC---GUUAGCCAGCCGUUAGUUGGCAACACUUCCGUCAGGCAGUGCAAGUUUGACACGCGCAUCAACACGCGCUUUGUCAAGCG---CUCACC
-----------.((((-...........---(((.((((((.....)))))))))((....)).)))).(((...((((((((.((((........))))..)))))))).---..))). ( -34.00)
>DroAna_CAF1 36811 113 + 1
GA--AUUUUACCGCCC-UCUUCACUCUC---GUUAGCCCGCCGG-AGUUGGAAACACUUCCGUCAGGCAGUGCAAGUUUGACACGCGCAUCAACACGCGCUUUGUCAACUGGCCCCCGCC
..--........(((.-.(((((((...---....(((.(.(((-((.((....)).))))).).))))))).))).((((((.((((........))))..))))))..)))....... ( -34.41)
>DroPer_CAF1 39734 112 + 1
AAUGA----UCCGCGU-UCUCCGUCCACAGUGUUGGCCAAACGCUAGUUGGCAACACUUCCGUCAGGCAGUGCAAGUUUGACACGCGCAUCAACACGCGCUUUGUCAACCU---GUGUCU
.....----...(((.-....))).(((((.((((((((((((((....)))..((((.((....)).))))...)))))....((((........))))...))))))))---)))... ( -34.40)
>consensus
_A__A____UCCGCCU_UCUCCAACCAC___GUUAGCCAGACGUUAGUUGGCAACACUUCCGUCAGGCAGUGCAAGUUUGACACGCGCAUCAACACGCGCUUUGUCAACCG___CUCACU
............((.................(((.(((((.......))))))))(((.((....)).)))))....((((((.((((........))))..))))))............ (-22.42 = -22.48 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 24,216,490 – 24,216,594
Length 104
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 83.97
Mean single sequence MFE -33.37
Consensus MFE -25.20
Energy contribution -25.28
Covariance contribution 0.08
Combinations/Pair 1.12
Mean z-score -2.59
Structure conservation index 0.76
SVM decision value 0.65
SVM RNA-class probability 0.811947
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24216490 104 + 27905053
CCGUUAGUUGGCAACACUUCCGUCAGGCAGUGCAAGUUUGACACGCGCAUCAACACGCGCUUUGUCAAGCGCACACUCCUGCGU-------CCUUCGUCCUGCCUCG-GUCU
.((..(((.(....))))..))((((((((..(..((((((((.((((........))))..))))))))(((......)))..-------.....)..)))))).)-)... ( -36.70)
>DroPse_CAF1 39734 105 + 1
ACGCUAGUUGGCAACACUUCCGUCAGGCAGUGCAAGUUUGACACGCGCAUCAACACGCGCUUUGUCAACCUGUGUCUCCAUUCC-------ACCCAGCACUGCAUCCACUCU
(((..(((.(....))))..)))...(((((((.((.((((((.((((........))))..)))))).))(((.........)-------))...)))))))......... ( -32.40)
>DroSec_CAF1 39126 104 + 1
CCGUUAGUUGGCAACACUUCCGUCAGGCAGUGCAAGUUUGACACGCGCAUCAACACGCGCUUUGUCAAGCGCUCACCCCUUCGU-------CCUUCGUCCUGCCUCG-GUCU
.((..(((.(....))))..))((((((((..(..((((((((.((((........))))..))))))))............(.-------....))..)))))).)-)... ( -32.30)
>DroEre_CAF1 43892 110 + 1
CCGUAAGUUGGCAACACUUCCGUCAGGCAGUGCAAGUUUGACACGCGCAUCAACACGCGCUUUGUCAAGCGCUCACUCCUUCGUCCUGCGUCCUUCGUCCUGCU-CG-GGCU
.((.((((.(....))))).))..(((.((((...((((((((.((((........))))..))))))))...)))))))..((((.(((..........))).-.)-))). ( -35.00)
>DroYak_CAF1 41648 103 + 1
CCGUUAGUUGGCAACACUUCCGUCAGGCAGUGCAACUUUGACACGCGCAUCAACACGCGCUUUGUCAAGCGCUCACUCUUUCGU-------CCUUCGUCCUGCC-UG-UUCU
.((..(((.(....))))..)).(((((((..(....((((((.((((........))))..))))))(((..........)))-------.....)..)))))-))-.... ( -31.40)
>DroPer_CAF1 39769 105 + 1
ACGCUAGUUGGCAACACUUCCGUCAGGCAGUGCAAGUUUGACACGCGCAUCAACACGCGCUUUGUCAACCUGUGUCUCCAUUCC-------ACCCAGCACUGCAUCCACUCU
(((..(((.(....))))..)))...(((((((.((.((((((.((((........))))..)))))).))(((.........)-------))...)))))))......... ( -32.40)
>consensus
CCGUUAGUUGGCAACACUUCCGUCAGGCAGUGCAAGUUUGACACGCGCAUCAACACGCGCUUUGUCAAGCGCUCACUCCUUCGU_______CCUUCGUCCUGCCUCG_GUCU
.((..(((.(....))))..))...(((((.((..((((((((.((((........))))..))))))))...(........).............)).)))))........ (-25.20 = -25.28 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:25:48 2006