Locus 3624

Sequence ID	2L_DroMel_CAF1
Location	10,572,368 – 10,572,462
Length	94
Max. P	0.721748

overview

Window 8

Location	10,572,368 – 10,572,462
Length	94
Sequences	5
Columns	108
Reading direction	forward
Mean pairwise identity	73.37
Mean single sequence MFE	-23.54
Consensus MFE	-14.90
Energy contribution	-14.46
Covariance contribution	-0.44
Combinations/Pair	1.26
Mean z-score	-1.42
Structure conservation index	0.63
SVM decision value	0.11
SVM RNA-class probability	0.587449
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10572368 94 + 22407834
CAACUCUUCG-----ACUCCACCAUCAUCA----CCACCACCUCCUCGUGGCCAGAAAACUUUGUGUCCUGGCAACAAUUUUGGCCA----UUGUGUGGCC-CUAGUU
..........-----...............----((((((.......((((((((((....((((((....)).)))))))))))))----))).))))..-...... ( -20.41)
>DroSec_CAF1 59989 98 + 1
CAACUCUACG-----ACUCCACCAUCACCACCGACCACCACCUCCUCCUGGUCAGGAAACUUUGUGUCCUGGCAACAAUUUUGGCCA----UUGUGUGGCC-CUAGUU
..........-----......(((.(((....(((((...........)))))((....))..)))...)))....((((..(((((----(...))))))-..)))) ( -20.30)
>DroSim_CAF1 59774 98 + 1
CAACUCUACG-----ACUCCACCAUCACCACCGACCACCACCUCCUCCUGGUCAGGAAACUUUGUGUCCUGGCAACAAUUUUGGCCA----UUGUGUGGCC-CUAGUU
..........-----......(((.(((....(((((...........)))))((....))..)))...)))....((((..(((((----(...))))))-..)))) ( -20.30)
>DroEre_CAF1 61070 78 + 1
------------------C---CAUCUCCC----CCACCAGCUGCUCCUGGCCAGGAAACUUUGUGUCCUGGCAACAAUUUUGGCCA----UUGUGUGGCC-CUAGUU
------------------.---........----....(((......)))(((((((.((...)).)))))))...((((..(((((----(...))))))-..)))) ( -23.00)
>DroAna_CAF1 64520 99 + 1
CAAUCGUCCGCCCGGAGUCUGCC--------GGAUCUCUGCCUGU-CCCCGGCAGAAAACUUUGUGUCCAGGCAACAAUUUUGGCCGAAUGCUCUGUGGCCCCGAGUU
...(((...((((((((((.(((--------(((....((((((.-.(...(((((....))))))..)))))).....)))))).)...)))))).)))..)))... ( -33.70)
>consensus
CAACUCUACG_____ACUCCACCAUCACCA__GACCACCACCUCCUCCUGGCCAGGAAACUUUGUGUCCUGGCAACAAUUUUGGCCA____UUGUGUGGCC_CUAGUU
.....................................((((.......(((((((((....((((((....)).)))))))))))))........))))......... (-14.90 = -14.46 +  -0.44)

alignment

secondary structure

dotplot

Window 9

Location	10,572,368 – 10,572,462
Length	94
Sequences	5
Columns	108
Reading direction	reverse
Mean pairwise identity	73.37
Mean single sequence MFE	-31.61
Consensus MFE	-12.88
Energy contribution	-12.76
Covariance contribution	-0.12
Combinations/Pair	1.20
Mean z-score	-1.83
Structure conservation index	0.41
SVM decision value	0.40
SVM RNA-class probability	0.721748
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10572368 94 - 22407834
AACUAG-GGCCACACAA----UGGCCAAAAUUGUUGCCAGGACACAAAGUUUUCUGGCCACGAGGAGGUGGUGG----UGAUGAUGGUGGAGU-----CGAAGAGUUG
.(((..-.((((((..(----(.((((...((((.(((((((.((...)).))))))).)))).....)))).)----)..)).))))..)))-----.......... ( -28.00)
>DroSec_CAF1 59989 98 - 1
AACUAG-GGCCACACAA----UGGCCAAAAUUGUUGCCAGGACACAAAGUUUCCUGACCAGGAGGAGGUGGUGGUCGGUGGUGAUGGUGGAGU-----CGUAGAGUUG
..(((.-(((..(((.(----(.((((..((..(..((((((.((...)).))))..((....)).))..)..))...)))).)).)))..))-----).)))..... ( -33.00)
>DroSim_CAF1 59774 98 - 1
AACUAG-GGCCACACAA----UGGCCAAAAUUGUUGCCAGGACACAAAGUUUCCUGACCAGGAGGAGGUGGUGGUCGGUGGUGAUGGUGGAGU-----CGUAGAGUUG
..(((.-(((..(((.(----(.((((..((..(..((((((.((...)).))))..((....)).))..)..))...)))).)).)))..))-----).)))..... ( -33.00)
>DroEre_CAF1 61070 78 - 1
AACUAG-GGCCACACAA----UGGCCAAAAUUGUUGCCAGGACACAAAGUUUCCUGGCCAGGAGCAGCUGGUGG----GGGAGAUG---G------------------
.(((((-(((((.....----)))))....((((((((((((.((...)).)))))))....))))))))))..----........---.------------------ ( -26.50)
>DroAna_CAF1 64520 99 - 1
AACUCGGGGCCACAGAGCAUUCGGCCAAAAUUGUUGCCUGGACACAAAGUUUUCUGCCGGGG-ACAGGCAGAGAUCC--------GGCAGACUCCGGGCGGACGAUUG
.......((((...........))))..((((((((((((((........(((((((((...-.).))))))))...--------.......))))))).))))))). ( -37.57)
>consensus
AACUAG_GGCCACACAA____UGGCCAAAAUUGUUGCCAGGACACAAAGUUUCCUGACCAGGAGGAGGUGGUGGUC__UGGUGAUGGUGGAGU_____CGUAGAGUUG
.......((((...........))))...........(((((.((...)).)))))((((........)))).................................... (-12.88 = -12.76 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:07 2006