Locus 4790

Sequence ID 2R_DroMel_CAF1
Location 15,750,559 – 15,750,649
Length 90
Max. P 0.900997
window7694 window7695

overview

Window 4

Location 15,750,559 – 15,750,649
Length 90
Sequences 4
Columns 90
Reading direction forward
Mean pairwise identity 91.67
Mean single sequence MFE -21.03
Consensus MFE -17.84
Energy contribution -17.53
Covariance contribution -0.31
Combinations/Pair 1.16
Mean z-score -2.01
Structure conservation index 0.85
SVM decision value 1.02
SVM RNA-class probability 0.900997
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15750559 90 + 20766785
UCUUCCGCUGCCAAUUGGCGUGGGAUUCGGAAUACCACAGCCUCCACCUCCGUCGUACGGAUACUAUUCGUAUCCACAUCACCAUCACCA
..((((((.(((....)))))))))..((((.................))))......((((((.....))))))............... ( -22.03)
>DroSec_CAF1 3448 90 + 1
UCUUCCGCUGCCAAUUGGCGUGGGAUUCGGAAUACCACCGCCUCCACCUCCGUCAUACGGAUACUAUUCGUACCCACAUCACCACCACCA
.........(((....)))(((((....(((...........)))...((((.....))))...........)))))............. ( -20.70)
>DroSim_CAF1 3459 90 + 1
UCUUCCGCUGCCAAUUGGCGUGGGAUUCGGAAUACCACCGACUCCACCUCCGUCGUACGGAUACUAUUCGUACCCACAUCACCAUCACCA
.........(((....)))((((((.((((.......)))).))).........((((((((...)))))))).)))............. ( -23.80)
>DroEre_CAF1 3310 87 + 1
UGUUCCGCUGCCCAUUGGCGUGGGAUUCGGAAUACCACCGCCUCCACCUCCGUCCUAUGGAUACUAUUCGUACCCCU---AUCACCACCA
(((((((...(((((....)))))...)))))))..............(((((...)))))................---.......... ( -17.60)
>consensus
UCUUCCGCUGCCAAUUGGCGUGGGAUUCGGAAUACCACCGCCUCCACCUCCGUCGUACGGAUACUAUUCGUACCCACAUCACCACCACCA
.........(((....)))(((((...((((.................))))...(((((((...))))))))))))............. (-17.84 = -17.53 +  -0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 15,750,559 – 15,750,649
Length 90
Sequences 4
Columns 90
Reading direction reverse
Mean pairwise identity 91.67
Mean single sequence MFE -29.40
Consensus MFE -24.59
Energy contribution -24.40
Covariance contribution -0.19
Combinations/Pair 1.05
Mean z-score -1.64
Structure conservation index 0.84
SVM decision value 0.36
SVM RNA-class probability 0.704856
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15750559 90 - 20766785
UGGUGAUGGUGAUGUGGAUACGAAUAGUAUCCGUACGACGGAGGUGGAGGCUGUGGUAUUCCGAAUCCCACGCCAAUUGGCAGCGGAAGA
(((((.(((.(((.(((((((..(((((.((((.....)))).......))))).))).)))).)))))))))))........(....). ( -28.80)
>DroSec_CAF1 3448 90 - 1
UGGUGGUGGUGAUGUGGGUACGAAUAGUAUCCGUAUGACGGAGGUGGAGGCGGUGGUAUUCCGAAUCCCACGCCAAUUGGCAGCGGAAGA
.....(((((.((((((((((.....)))))))))).))(((..(((((((....)).)))))..))))))(((....)))..(....). ( -31.00)
>DroSim_CAF1 3459 90 - 1
UGGUGAUGGUGAUGUGGGUACGAAUAGUAUCCGUACGACGGAGGUGGAGUCGGUGGUAUUCCGAAUCCCACGCCAAUUGGCAGCGGAAGA
..(((...((..(((((((((.....)))))))))..))(((..(((((((....).))))))..))))))(((....)))..(....). ( -28.20)
>DroEre_CAF1 3310 87 - 1
UGGUGGUGAU---AGGGGUACGAAUAGUAUCCAUAGGACGGAGGUGGAGGCGGUGGUAUUCCGAAUCCCACGCCAAUGGGCAGCGGAACA
..((((.(((---.(((((((.(...((.(((((.........))))).))..).)))))))..)))))))(((....)))......... ( -29.60)
>consensus
UGGUGAUGGUGAUGUGGGUACGAAUAGUAUCCGUACGACGGAGGUGGAGGCGGUGGUAUUCCGAAUCCCACGCCAAUUGGCAGCGGAAGA
..(((..........((((((.....)))))).......(((..(((((.........)))))..))))))(((....)))......... (-24.59 = -24.40 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:29:16 2006