Locus 5826

Sequence ID 2R_DroMel_CAF1
Location 18,461,863 – 18,461,960
Length 97
Max. P 0.857837
window9332

overview

Window 2

Location 18,461,863 – 18,461,960
Length 97
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 66.70
Mean single sequence MFE -28.36
Consensus MFE -16.22
Energy contribution -16.82
Covariance contribution 0.60
Combinations/Pair 1.10
Mean z-score -1.63
Structure conservation index 0.57
SVM decision value 0.82
SVM RNA-class probability 0.857837
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18461863 97 - 20766785
GGCGAUUAGUUAUUACUCUGUUCAACUGGGCGCAAAUGAACAACUGAGCGGGUGAAUCGAA--GGUUCACCCAGCUAUUUACGUUCAUGGAUCUUCAC----U-----------------
.(((.((((((............)))))).)))..((((((.....(((((((((((....--.)))))))).)))......))))))..........----.----------------- ( -29.00)
>DroSec_CAF1 23873 83 - 1
GGCGAUUACUUAUUGCUCUGUUUAACUGGGCGCAAGUGAACAACUGAGCGGGUGAAUCAAAAGGGUUCACCCAGCA----------------UUUCAC----U-----------------
.((...........((((((((((..((....))..))))))...))))(((((((((.....))))))))).)).----------------......----.----------------- ( -27.20)
>DroSim_CAF1 24120 83 - 1
GGCGAUUACUUAUGGCUCUGUUGAACUGGGCGCAAGUGAACAAGUGAGCGGGUGAAUCGAAAGGGUUCACCCAGCU----------------UUUCAC----U-----------------
...(.((((((...((((.(.....).))))..)))))).).((((((((((((((((.....))))))))).)).----------------..))))----)----------------- ( -28.30)
>DroEre_CAF1 23900 110 - 1
GGAGAUUAGUUAUUGCUCUGUGGCAGUGAACGCAAAUGAACAAUUGAGCGGGAGAAUCGAUAGUGUUCAUCCAGCUCUAAG--CAAAUGAACCCUGAAG--------CUUUUCACGUUCA
.........((((((((....))))))))...............((((((.(((((.(..(((.((((((...((.....)--)..)))))).)))..)--------.))))).)))))) ( -27.00)
>DroYak_CAF1 24701 118 - 1
GGCGAUUACUUAUUGCUCUGUGGAAGUGAACGCAAAUGAACAACUGAGCGGAUGAAUCGAAAGUGUUCAUCCAGCUAUGAA--CAAAUGAACACUAAAGAGCUUUUGCGUUUCAUGUUUA
.(((.((((((.(..(...)..))))))).))).............((((((((((((....).)))))))).))).....--....((((((..(((..((....)).)))..)))))) ( -30.30)
>consensus
GGCGAUUACUUAUUGCUCUGUUGAACUGGGCGCAAAUGAACAACUGAGCGGGUGAAUCGAAAGGGUUCACCCAGCU_U________AUG_A_CUUCAC____U_________________
.((...........(((((((.....((....)).....)))...))))(((((((((.....))))))))).))............................................. (-16.22 = -16.82 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:55:24 2006