Locus 5779

Sequence ID 3L_DroMel_CAF1
Location 15,661,598 – 15,661,695
Length 97
Max. P 0.603814
window9179 window9180

overview

Window 9

Location 15,661,598 – 15,661,695
Length 97
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 90.63
Mean single sequence MFE -24.36
Consensus MFE -17.84
Energy contribution -17.84
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.71
Structure conservation index 0.73
SVM decision value 0.02
SVM RNA-class probability 0.543622
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15661598 97 + 23771897
CUCGACUGCAUUUGCAAUUAAUAAUUAUUGCUUUGCAUAAGC---GGCAUUCGGGCGAAGUCUGUUU--UCUGU-U-------CCCACCGAUAUGCAAAUGCCACCGCAA
..((...(((((((((............((((..((....))---))))...(((...((.......--.))..-.-------))).......)))))))))...))... ( -21.80)
>DroSec_CAF1 21410 97 + 1
CUCGACUGCAUUUGCAAUUAAUAAUUAUUGCUUUGCAUAAGC---GGCAUUCGGUCGAAGUCUGUUU--UCUGU-U-------CCCACCGAUAUGCAAAUGCCACCGCAA
..((...(((((((((............((((..((....))---)))).(((((.(.((.......--.))..-.-------.).)))))..)))))))))...))... ( -21.40)
>DroSim_CAF1 21376 102 + 1
CUCGACUGCAUUUGCAAUUAAUAAUUAUUGCUUUGCAUAAGCGGCGGCAUUCGGUCGAAGUCUGUUUUUUUUGU-U-------CCCACCGAUAUGCAAAUGCCACCGCAA
......((((...(((((........)))))..))))...((((.(((((((((((((((........))))).-.-------...))))).......))))).)))).. ( -30.11)
>DroEre_CAF1 21236 97 + 1
CUCGACUGCAUUUGCAAUUAAUAAUUAUUGCUUAGCAUAAGC---GGCUUUCAGGCGAAGUCUGUU---UCUGUUU-------CCCACCGCUAUGCAAAUGCCACCGCAA
..((...(((((((((((........)))))...(((((.((---((.....((((((((....))---)).))))-------....)))))))))))))))...))... ( -23.60)
>DroYak_CAF1 21437 105 + 1
CUCGACUGCAUUUGCAAUUAAUAAUUAUUGCUUUGCAUAAGC---GGCUUUCAGGCGAAGUCUGUUU--UCUGUUUCAAUGCUCCAACCAAUAUGCAAAUGCCACCGCAA
..((...(((((((((.........(((((....((((((((---((....(((((...)))))...--.))))))..))))......))))))))))))))...))... ( -24.90)
>consensus
CUCGACUGCAUUUGCAAUUAAUAAUUAUUGCUUUGCAUAAGC___GGCAUUCGGGCGAAGUCUGUUU__UCUGU_U_______CCCACCGAUAUGCAAAUGCCACCGCAA
..((...(((((((((.............((((.....))))...(((.(((....))))))...............................)))))))))...))... (-17.84 = -17.84 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 15,661,598 – 15,661,695
Length 97
Sequences 5
Columns 110
Reading direction reverse
Mean pairwise identity 90.63
Mean single sequence MFE -29.40
Consensus MFE -20.30
Energy contribution -20.30
Covariance contribution 0.00
Combinations/Pair 1.08
Mean z-score -2.36
Structure conservation index 0.69
SVM decision value 0.14
SVM RNA-class probability 0.603814
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15661598 97 - 23771897
UUGCGGUGGCAUUUGCAUAUCGGUGGG-------A-ACAGA--AAACAGACUUCGCCCGAAUGCC---GCUUAUGCAAAGCAAUAAUUAUUAAUUGCAAAUGCAGUCGAG
...(((..(((((((((((.(((((((-------.-...((--(.......))).)))....)))---)..)))))...(((((........)))))))))))..))).. ( -28.40)
>DroSec_CAF1 21410 97 - 1
UUGCGGUGGCAUUUGCAUAUCGGUGGG-------A-ACAGA--AAACAGACUUCGACCGAAUGCC---GCUUAUGCAAAGCAAUAAUUAUUAAUUGCAAAUGCAGUCGAG
...(((..(((((((((..(((((.((-------(-.....--........))).))))).....---((((.....)))).............)))))))))..))).. ( -28.22)
>DroSim_CAF1 21376 102 - 1
UUGCGGUGGCAUUUGCAUAUCGGUGGG-------A-ACAAAAAAAACAGACUUCGACCGAAUGCCGCCGCUUAUGCAAAGCAAUAAUUAUUAAUUGCAAAUGCAGUCGAG
..((((((((((.......(((((.((-------(-...............))).)))))))))))))))...((((..(((((........)))))...))))...... ( -33.77)
>DroEre_CAF1 21236 97 - 1
UUGCGGUGGCAUUUGCAUAGCGGUGGG-------AAACAGA---AACAGACUUCGCCUGAAAGCC---GCUUAUGCUAAGCAAUAAUUAUUAAUUGCAAAUGCAGUCGAG
...(((..((((((((((((((((.(.-------...)...---..(((.......)))...)))---)).)))))...(((((........)))))))))))..))).. ( -31.20)
>DroYak_CAF1 21437 105 - 1
UUGCGGUGGCAUUUGCAUAUUGGUUGGAGCAUUGAAACAGA--AAACAGACUUCGCCUGAAAGCC---GCUUAUGCAAAGCAAUAAUUAUUAAUUGCAAAUGCAGUCGAG
...(((..(((((((((...((((((..((...........--...(((.......)))......---((....))...))..)))))).....)))))))))..))).. ( -25.40)
>consensus
UUGCGGUGGCAUUUGCAUAUCGGUGGG_______A_ACAGA__AAACAGACUUCGCCCGAAUGCC___GCUUAUGCAAAGCAAUAAUUAUUAAUUGCAAAUGCAGUCGAG
...(((..(((((((((..((((((((........................)))).))))........((((.....)))).............)))))))))..))).. (-20.30 = -20.30 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:42 2006