Locus 1053

Sequence ID X_DroMel_CAF1
Location 3,064,904 – 3,065,005
Length 101
Max. P 0.977086
window1711 window1712

overview

Window 1

Location 3,064,904 – 3,065,005
Length 101
Sequences 4
Columns 101
Reading direction forward
Mean pairwise identity 85.71
Mean single sequence MFE -12.82
Consensus MFE -12.48
Energy contribution -11.47
Covariance contribution -1.00
Combinations/Pair 1.28
Mean z-score -1.99
Structure conservation index 0.97
SVM decision value 1.78
SVM RNA-class probability 0.977086
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3064904 101 + 22224390
AAAAAGGUGGAAACAAAAAAAAUCUGGCAAAAUAAAGGAAAGCAAUGUAGCGAAGGCAGAAUGCUAAAAGGUAAAGUGCAAUCGAACAUUUUGUUAAUAUA
.......((....)).........(((((((((....((..(((.....((....))....((((....))))...)))..))....)))))))))..... ( -16.40)
>DroSec_CAF1 36486 96 + 1
AAAAAGGGAGAAAU-----AAAUCUGGCAAAAUAAAGGAAAGCAAUGUAGCAAAGGUAAAAUGCUAAAAGGUAAAGUGCAAUCGAACAUUUUGUUAAUAUA
..............-----.....(((((((((........((....(((((.........)))))....))...((........)))))))))))..... ( -11.10)
>DroEre_CAF1 37272 95 + 1
AAAAAGA-A-----AAAAGAAAUCUGACGAAAUAAAGGAAAGCAAAGUAGCAAAGGCAGAAUGCUAAAAGGUAAAGUGCAAUCGAACAUUUUGUUAAUAUA
.......-.-----..........(((((((((....((..(((...((.(...(((.....)))....).))...)))..))....)))))))))..... ( -12.80)
>DroYak_CAF1 38133 89 + 1
AGAAAGA-A-----------AAUCUGGCGAAAUAAAGGAAAGCAAUGUAGCAAAGGCGGAAUGCUAAAAAGUAAAGUGCAAUCGAACAUUUUGUUAAUAUA
.......-.-----------....(((((((((....((..(((.....((....))....((((....))))...)))..))....)))))))))..... ( -11.00)
>consensus
AAAAAGA_A__________AAAUCUGGCAAAAUAAAGGAAAGCAAUGUAGCAAAGGCAGAAUGCUAAAAGGUAAAGUGCAAUCGAACAUUUUGUUAAUAUA
........................(((((((((........((......))....(((...((((....))))...)))........)))))))))..... (-12.48 = -11.47 +  -1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 3,064,904 – 3,065,005
Length 101
Sequences 4
Columns 101
Reading direction reverse
Mean pairwise identity 85.71
Mean single sequence MFE -8.58
Consensus MFE -7.02
Energy contribution -7.77
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -1.44
Structure conservation index 0.82
SVM decision value 0.05
SVM RNA-class probability 0.559048
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3064904 101 - 22224390
UAUAUUAACAAAAUGUUCGAUUGCACUUUACCUUUUAGCAUUCUGCCUUCGCUACAUUGCUUUCCUUUAUUUUGCCAGAUUUUUUUUGUUUCCACCUUUUU
......(((((((...((....(((...........((((....((....)).....))))...........)))..))....)))))))........... ( -11.05)
>DroSec_CAF1 36486 96 - 1
UAUAUUAACAAAAUGUUCGAUUGCACUUUACCUUUUAGCAUUUUACCUUUGCUACAUUGCUUUCCUUUAUUUUGCCAGAUUU-----AUUUCUCCCUUUUU
........(((((((...((..(((..........(((((.........)))))...)))..))...)))))))..(((...-----...)))........ ( -10.12)
>DroEre_CAF1 37272 95 - 1
UAUAUUAACAAAAUGUUCGAUUGCACUUUACCUUUUAGCAUUCUGCCUUUGCUACUUUGCUUUCCUUUAUUUCGUCAGAUUUCUUUU-----U-UCUUUUU
.......((.(((((...((..(((..........(((((.........)))))...)))..))...))))).))............-----.-....... (  -7.12)
>DroYak_CAF1 38133 89 - 1
UAUAUUAACAAAAUGUUCGAUUGCACUUUACUUUUUAGCAUUCCGCCUUUGCUACAUUGCUUUCCUUUAUUUCGCCAGAUU-----------U-UCUUUCU
..........(((((...((..(((..........(((((.........)))))...)))..))...))))).........-----------.-....... (  -6.02)
>consensus
UAUAUUAACAAAAUGUUCGAUUGCACUUUACCUUUUAGCAUUCUGCCUUUGCUACAUUGCUUUCCUUUAUUUCGCCAGAUUU__________U_CCUUUUU
........(((((((...((..(((..........(((((.........)))))...)))..))...)))))))........................... ( -7.02 =  -7.77 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:28 2006