Locus 3421

Sequence ID 3L_DroMel_CAF1
Location 10,042,691 – 10,042,783
Length 92
Max. P 0.660011
window5347 window5348

overview

Window 7

Location 10,042,691 – 10,042,783
Length 92
Sequences 3
Columns 104
Reading direction forward
Mean pairwise identity 89.71
Mean single sequence MFE -36.37
Consensus MFE -35.40
Energy contribution -35.40
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.12
Structure conservation index 0.97
SVM decision value 0.13
SVM RNA-class probability 0.598534
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10042691 92 + 23771897
------------UCGCGCUCUGGUAUUCGCUGGCACGCCCAGUUCCUGGUGCCGCCCCUUUUGGGCGAACUCCUUGCCAACGGUAUUGCGUGCUCGAGUGUCAC
------------..((((((.((((((((.(((((.((((((...)))).))(((((.....))))).......))))).)))......))))).))))))... ( -35.40)
>DroSec_CAF1 87675 103 + 1
UCCGGUUUUUGUUCGCGCUCUGGUAUUCGCUGGCACGCCCAGUUCCUGGGGCCGCCCCU-UUGGGCGAACUUCUUGCCAACGGCAUUGCGUGCUCGAGUGUCAC
...((..((((..(((((..((....(((.(((((.((((........))))(((((..-..))))).......))))).)))))..)))))..))))..)).. ( -37.40)
>DroSim_CAF1 97477 103 + 1
UCCGGUUUUUGUUCGCGCUCUGGUAUUCGCUGGCACGCCCAGUUCCUGGUGCCGCCCCU-UUGGGCGAACUCCUUGCCAACGGCAUUGCGUGCUCGAGUGUCAC
...((..((((..(((((..((....(((.(((((.((((((...)))).))(((((..-..))))).......))))).)))))..)))))..))))..)).. ( -36.30)
>consensus
UCCGGUUUUUGUUCGCGCUCUGGUAUUCGCUGGCACGCCCAGUUCCUGGUGCCGCCCCU_UUGGGCGAACUCCUUGCCAACGGCAUUGCGUGCUCGAGUGUCAC
..............((((((.((((((((.(((((.((((((...)))).))(((((.....))))).......))))).)))......))))).))))))... (-35.40 = -35.40 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 10,042,691 – 10,042,783
Length 92
Sequences 3
Columns 104
Reading direction reverse
Mean pairwise identity 89.71
Mean single sequence MFE -34.78
Consensus MFE -34.57
Energy contribution -34.57
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.06
Structure conservation index 0.99
SVM decision value 0.27
SVM RNA-class probability 0.660011
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10042691 92 - 23771897
GUGACACUCGAGCACGCAAUACCGUUGGCAAGGAGUUCGCCCAAAAGGGGCGGCACCAGGAACUGGGCGUGCCAGCGAAUACCAGAGCGCGA------------
.......(((.((.(.......((((((((.......(((((.....)))))((.((((...)))))).)))))))).......).)).)))------------ ( -34.04)
>DroSec_CAF1 87675 103 - 1
GUGACACUCGAGCACGCAAUGCCGUUGGCAAGAAGUUCGCCCAA-AGGGGCGGCCCCAGGAACUGGGCGUGCCAGCGAAUACCAGAGCGCGAACAAAAACCGGA
(((...(((..(((.....)))((((((((.......(((((..-..)))))((((........)))).)))))))).......)))))).............. ( -35.40)
>DroSim_CAF1 97477 103 - 1
GUGACACUCGAGCACGCAAUGCCGUUGGCAAGGAGUUCGCCCAA-AGGGGCGGCACCAGGAACUGGGCGUGCCAGCGAAUACCAGAGCGCGAACAAAAACCGGA
(((...(((..(((.....)))((((((((.......(((((..-..)))))((.((((...)))))).)))))))).......)))))).............. ( -34.90)
>consensus
GUGACACUCGAGCACGCAAUGCCGUUGGCAAGGAGUUCGCCCAA_AGGGGCGGCACCAGGAACUGGGCGUGCCAGCGAAUACCAGAGCGCGAACAAAAACCGGA
.......(((.((.(.......((((((((.......(((((.....)))))((.((((...)))))).)))))))).......).)).)))............ (-34.57 = -34.57 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:46 2006