Locus 2910

Sequence ID 2L_DroMel_CAF1
Location 8,374,354 – 8,374,449
Length 95
Max. P 0.984644
window4617 window4618

overview

Window 7

Location 8,374,354 – 8,374,449
Length 95
Sequences 4
Columns 105
Reading direction forward
Mean pairwise identity 78.03
Mean single sequence MFE -27.88
Consensus MFE -17.86
Energy contribution -19.37
Covariance contribution 1.50
Combinations/Pair 1.06
Mean z-score -2.41
Structure conservation index 0.64
SVM decision value 1.98
SVM RNA-class probability 0.984644
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8374354 95 + 22407834
UUUCAAAUAAUUUAAAUCUGGUUGCUGGUUCCGCUCUUGCAAUUCAUUCCGGAACCAG------UUCGAAAGUUGCGAUAUCGAUAACACA----GCUAUCGACC
.......................((((((((((....((.....))...)))))))))------)((((.(((((.(.((....)).).))----))).)))).. ( -23.60)
>DroSim_CAF1 17528 95 + 1
UUUCAAAUAAUUUAAAUUGACUUGCUGGUUCCGCUUUUGCAAUUCAUUUCGGAACCAG------UUCGAAAGUUGCGUUAUCGAUAAGACA----GCUAUCGAGA
.......................((((((((((....((.....))...)))))))))------)((((.(((((..(((....)))..))----))).)))).. ( -24.30)
>DroEre_CAF1 17237 102 + 1
UUUCAAAUAAUUUAAAUCUGA-UGCUGGUUCCGCUCUUGCA-UUCUGUGCGGAACCAGUCGCAGCUCGGAGGUU-CGAUAUCGAUAGGACAUUCACUCAUCGAGC
..................((.-.(((((((((((.(.....-....).)))))))))))..))((((((((..(-((....)))...(.....).)))..))))) ( -30.80)
>DroYak_CAF1 17143 104 + 1
UUUCAAAUAAUUUUAAUCUGGUUGCUGGUUCCGCAUUUGCAGUUCAUUUCGGAACCAGUAGCAGUUCGGAGGUU-UGAUAUCGAUAGGUCACUCACUCAUCGAGU
..((((((...((..(.(((.((((((((((((.(..((.....))..)))))))))))))))).)..)).)))-)))..(((((..((.....))..))))).. ( -32.80)
>consensus
UUUCAAAUAAUUUAAAUCUGGUUGCUGGUUCCGCUCUUGCAAUUCAUUUCGGAACCAG______UUCGAAAGUU_CGAUAUCGAUAAGACA____CCCAUCGAGC
.......................((((((((((................)))))))))).....................((((((((.......)))))))).. (-17.86 = -19.37 +   1.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 8,374,354 – 8,374,449
Length 95
Sequences 4
Columns 105
Reading direction reverse
Mean pairwise identity 78.03
Mean single sequence MFE -25.96
Consensus MFE -19.72
Energy contribution -19.84
Covariance contribution 0.12
Combinations/Pair 1.18
Mean z-score -2.06
Structure conservation index 0.76
SVM decision value 1.63
SVM RNA-class probability 0.968791
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8374354 95 - 22407834
GGUCGAUAGC----UGUGUUAUCGAUAUCGCAACUUUCGAA------CUGGUUCCGGAAUGAAUUGCAAGAGCGGAACCAGCAACCAGAUUUAAAUUAUUUGAAA
.(((((((((----...)))))))))...............------(((((((((...((.....))....)))))))))....(((((.......)))))... ( -24.40)
>DroSim_CAF1 17528 95 - 1
UCUCGAUAGC----UGUCUUAUCGAUAACGCAACUUUCGAA------CUGGUUCCGAAAUGAAUUGCAAAAGCGGAACCAGCAAGUCAAUUUAAAUUAUUUGAAA
..((((.((.----(((.(((....))).))).)).)))).------(((((((((...((.....))....)))))))))(((((.(((....))))))))... ( -22.50)
>DroEre_CAF1 17237 102 - 1
GCUCGAUGAGUGAAUGUCCUAUCGAUAUCG-AACCUCCGAGCUGCGACUGGUUCCGCACAGAA-UGCAAGAGCGGAACCAGCA-UCAGAUUUAAAUUAUUUGAAA
(((((..(.((..(((((.....)))))..-.)))..)))))...(.((((((((((......-.......))))))))))).-((((((.......)))))).. ( -32.92)
>DroYak_CAF1 17143 104 - 1
ACUCGAUGAGUGAGUGACCUAUCGAUAUCA-AACCUCCGAACUGCUACUGGUUCCGAAAUGAACUGCAAAUGCGGAACCAGCAACCAGAUUAAAAUUAUUUGAAA
..((((((.((.....)).))))))..(((-((......(((((...(((((((((...((.....))....)))))))))....))).)).......))))).. ( -24.02)
>consensus
GCUCGAUAAC____UGUCCUAUCGAUAUCG_AACCUCCGAA______CUGGUUCCGAAAUGAAUUGCAAAAGCGGAACCAGCAACCAGAUUUAAAUUAUUUGAAA
..((((((((.......))))))))......................(((((((((................)))))))))....(((((.......)))))... (-19.72 = -19.84 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:17 2006