Locus 1356

Sequence ID 2L_DroMel_CAF1
Location 3,595,769 – 3,595,862
Length 93
Max. P 0.720799
window2219

overview

Window 9

Location 3,595,769 – 3,595,862
Length 93
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 77.68
Mean single sequence MFE -33.47
Consensus MFE -17.16
Energy contribution -18.72
Covariance contribution 1.56
Combinations/Pair 1.09
Mean z-score -1.98
Structure conservation index 0.51
SVM decision value 0.40
SVM RNA-class probability 0.720799
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3595769 93 + 22407834
AAG-------CCUGGCGCGUAAA------AAAUGCCGAAGGUGGAGCCUGAUUUUCGGCUUUGGGGCGUGGGC--UGAAGAAGCUCCACUGCCGACGCAAAUUAUCCA
..(-------(.((((((((...------..))))....((((((((....((((((((((........))))--)))))).))))))))))))..)).......... ( -33.70)
>DroSec_CAF1 63342 93 + 1
AUG-------CCUGGCGCGUAAA------AAAUGCCGAAGGUGGAGCCUGAUUUUCGGCUUUGGGGCGUGGGC--UGAAGAAGCUCCACUGCCGACGCAAAUUAUCCA
.((-------(.((((((((...------..))))....((((((((....((((((((((........))))--)))))).))))))))))))..)))......... ( -34.50)
>DroEre_CAF1 65218 74 + 1
G-------------------------------CGCCGAAGGUGGAGCCAGAUUUUCGGCU-UGGGGCGUGGGC--UGAAGAAGCUCCACUGGCGACGCAAAUUGUCCA
(-------------------------------((.((..((((((((....(((((((((-(.......))))--)))))).))))))))..)).))).......... ( -32.90)
>DroYak_CAF1 66751 93 + 1
AAG-------CCUGGCGCGUAAA------AAAUGCCGAAGGUGGAGCCAGAUUUUCGGCUUUGGGGCGUGGGC--UGAAGAAGCUCCACUGCCGACGCAAAUUAUCCA
..(-------(.((((((((...------..))))....((((((((....((((((((((........))))--)))))).))))))))))))..)).......... ( -33.70)
>DroAna_CAF1 68852 100 + 1
AAAAUCAGGCCCGGGCGCGUAAA------AAAUGCCGAAGGUGGAGCCAGCUUUUCGGCUUUGGGGCGUGGGC--UGAAGAAGCUCCACUCCCGACGCAAAUUAUCGA
........((....))((((...------....(((((((.((....)).))..)))))....(((.((((((--(.....))).)))).))).)))).......... ( -36.50)
>DroPer_CAF1 70614 88 + 1
G----------CUGCAUCUUAAAUGCCGA--AUGCCGAAGGUGGAGCCAG--------CUUUGGGGCGUGAGCAUUGAAGAAGCUUCACUCCGGAGUCAAAUUAUCGA
.----------..((((.....)))).((--...(((..((((((((...--------(((..(.((....)).)..)))..)))))))).)))..)).......... ( -29.50)
>consensus
AAG_______CCUGGCGCGUAAA______AAAUGCCGAAGGUGGAGCCAGAUUUUCGGCUUUGGGGCGUGGGC__UGAAGAAGCUCCACUGCCGACGCAAAUUAUCCA
................................(((((..((((((((....((((((((((........))))..)))))).))))))))..))..)))......... (-17.16 = -18.72 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:32 2006