Locus 2087

Sequence ID 3R_DroMel_CAF1
Location 5,940,721 – 5,940,820
Length 99
Max. P 0.981586
window3410 window3411

overview

Window 0

Location 5,940,721 – 5,940,820
Length 99
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 71.16
Mean single sequence MFE -26.83
Consensus MFE -10.60
Energy contribution -12.05
Covariance contribution 1.45
Combinations/Pair 1.26
Mean z-score -2.44
Structure conservation index 0.40
SVM decision value 1.89
SVM RNA-class probability 0.981586
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5940721 99 + 27905053
UUUUCCUGAUAGCCAAUACUUCCUAUUUGUA-------UAGGGAGAGUCAUCUGUCGCUGGUUGACUUCUGUUUUACAGAA----AGACCUUCUGCUAUCUGGCACUCC---------A
....((.((((((.....((((((((....)-------))))))).(((....((((.....))))(((((.....)))))----.))).....)))))).))......---------. ( -28.30)
>DroSec_CAF1 54121 105 + 1
CUUUCCUGAUAGCCAAUACUUCCUCUUUGUG-------CAGGGAGAGUCAUCUGCAGCGGGUUGACUUCUGUUUUACGGAA----AGACAUUCUGCUAUCUGGCACUCCAUG---CCCA
.......((((((.....(((((((.....)-------.)))))).(((.((((.((((((......))))))...)))).----.))).....)))))).((((.....))---)).. ( -28.30)
>DroSim_CAF1 42866 105 + 1
CUUUCCUGAUAGCCAAUACUUCCUCUUUGUG-------CAGGGAGAGUCAUCUGCAGCGGGUUGACUUCUGUUUUACAGAA----AGACCUUCUGCUAUCUGGCACUCCAUG---CCCA
...........................((.(-------((.((((.((((...((((.(((((...(((((.....)))))----.))))).))))....)))).)))).))---).)) ( -32.70)
>DroEre_CAF1 44499 94 + 1
CUUUCCUGAUAGCCAAUACUUCCUAUUUAUA-------UACGA--AGUCAUCCGCCGCGGGUUGACUUCUGUU-UACAGAA----AGACCU-UUCCUAUCUG-CACU---------CCA
.......(((((.....(((((.(((....)-------)).))--)))..........(((((...(((((..-..)))))----.)))))-...)))))..-....---------... ( -17.70)
>DroYak_CAF1 45924 104 + 1
CUUUCCUGAUAGCCAAUACUUCCUAUUUAUA-------AACGG--AGUCAUCCGGCGCAGGCUGACUUCUGUU-UACAGAA----AGACCUACUGCUAUCUG-CACUUCAUACAGUCCA
.......((((((.........((.(((.((-------(((((--(((((.((......)).)))).))))))-)).))).----)).......))))))..-................ ( -23.29)
>DroAna_CAF1 54707 98 + 1
---UCUCAAUUGUCAAUACAUCCUAUUUGCAUAUACUACAUUAAGUGUCAUCUGUCCCCAGU-GUC--UUGUU-UACUUGAGCCGGGGGCUUCUGCCC-CCGGCAU-------------
---..((((.((.(((.((((.......(((.(((((......)))))....))).....))-)).--)))..-)).))))(((((((((....))))-)))))..------------- ( -30.70)
>consensus
CUUUCCUGAUAGCCAAUACUUCCUAUUUGUA_______CAGGGAGAGUCAUCUGCCGCGGGUUGACUUCUGUU_UACAGAA____AGACCUUCUGCUAUCUGGCACUCC_______CCA
....((.((((((................................(((((.((......)).)))))((((.....))))..............)))))).))................ (-10.60 = -12.05 +   1.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 5,940,721 – 5,940,820
Length 99
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 71.16
Mean single sequence MFE -29.30
Consensus MFE -8.95
Energy contribution -10.84
Covariance contribution 1.89
Combinations/Pair 1.11
Mean z-score -2.17
Structure conservation index 0.31
SVM decision value 0.54
SVM RNA-class probability 0.773841
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5940721 99 - 27905053
U---------GGAGUGCCAGAUAGCAGAAGGUCU----UUCUGUAAAACAGAAGUCAACCAGCGACAGAUGACUCUCCCUA-------UACAAAUAGGAAGUAUUGGCUAUCAGGAAAA
.---------......((.((((((.((..(((.----(((((.....)))))(((.......)))....)))..))((((-------(....)))))........)))))).)).... ( -26.80)
>DroSec_CAF1 54121 105 - 1
UGGG---CAUGGAGUGCCAGAUAGCAGAAUGUCU----UUCCGUAAAACAGAAGUCAACCCGCUGCAGAUGACUCUCCCUG-------CACAAAGAGGAAGUAUUGGCUAUCAGGAAAG
..((---(((...))))).((((((..((((.((----((((......(((.(((((.(........).)))))....)))-------......).))))))))).))))))....... ( -25.00)
>DroSim_CAF1 42866 105 - 1
UGGG---CAUGGAGUGCCAGAUAGCAGAAGGUCU----UUCUGUAAAACAGAAGUCAACCCGCUGCAGAUGACUCUCCCUG-------CACAAAGAGGAAGUAUUGGCUAUCAGGAAAG
..((---(((...))))).((((((((..(((.(----(((((.....))))))...)))..)).(((...(((.(((((.-------.....)).)))))).)))))))))....... ( -28.60)
>DroEre_CAF1 44499 94 - 1
UGG---------AGUG-CAGAUAGGAA-AGGUCU----UUCUGUA-AACAGAAGUCAACCCGCGGCGGAUGACU--UCGUA-------UAUAAAUAGGAAGUAUUGGCUAUCAGGAAAG
...---------....-..(((((..(-(...((----((((((.-....(((((((.((......)).)))))--))...-------.....))))))))..))..)))))....... ( -24.02)
>DroYak_CAF1 45924 104 - 1
UGGACUGUAUGAAGUG-CAGAUAGCAGUAGGUCU----UUCUGUA-AACAGAAGUCAGCCUGCGCCGGAUGACU--CCGUU-------UAUAAAUAGGAAGUAUUGGCUAUCAGGAAAG
((.(((......))).-))((((((((((..(((----(..((((-(((.((.((((.((......)).)))))--).)))-------))))...))))..)))).))))))....... ( -31.70)
>DroAna_CAF1 54707 98 - 1
-------------AUGCCGG-GGGCAGAAGCCCCCGGCUCAAGUA-AACAA--GAC-ACUGGGGACAGAUGACACUUAAUGUAGUAUAUGCAAAUAGGAUGUAUUGACAAUUGAGA---
-------------..(((((-((((....))))))))).......-.....--..(-((((....))).))...((((((.((((((((.(.....).))))))))...)))))).--- ( -39.70)
>consensus
UGG_______GGAGUGCCAGAUAGCAGAAGGUCU____UUCUGUA_AACAGAAGUCAACCCGCGGCAGAUGACUCUCCCUG_______UACAAAUAGGAAGUAUUGGCUAUCAGGAAAG
...................((((((......(((....(((((.....)))))((((.(........).)))).......................))).......))))))....... ( -8.95 = -10.84 +   1.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:27:02 2006