Locus 5007

Sequence ID 2L_DroMel_CAF1
Location 14,389,813 – 14,390,020
Length 207
Max. P 0.996017
window7948 window7949

overview

Window 8

Location 14,389,813 – 14,389,913
Length 100
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 73.78
Mean single sequence MFE -42.32
Consensus MFE -15.36
Energy contribution -17.45
Covariance contribution 2.09
Combinations/Pair 1.36
Mean z-score -2.20
Structure conservation index 0.36
SVM decision value 0.60
SVM RNA-class probability 0.796111
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14389813 100 - 22407834
AUUAUACGACG--------AAGGAGCGG------GCCUUGGUGAA--GGGAACACCCUAUGACCUGGCCAGGCCAGGGCACGGUUCAGGCUCCGAC--UCUGGUCACCAUCUCUGUCC
.......((((--------.(((....(------(((..(((.((--(((....)))).).))).)))).((((((((..(((........))).)--)))))))....))).)))). ( -39.20)
>DroSec_CAF1 10869 100 - 1
AUUAUACGACG--------GAGGAGCGG------GCCUGGGAGAA--GGGAACACCCUAUGACCUGGCCAGGCCAGGCCACGGUUCAGGCUCCGAC--UCUGGUCACCAUCUCUGUCC
.......((((--------(((((((((------(((((.....(--(((....))))..(((((((((......))))).))))))))).))).)--))(((...))).))))))). ( -46.40)
>DroEre_CAF1 10727 101 - 1
AUUAUACGGCGC------AGGGGGGUGG------CGCUGCGAGAA--GGGAACACCCUUUGACCUGGCC-GGCCAGGCCAUGGUUCGGGCUCCGAU--UCUGGUCACCAUCUCUGUCC
.......((.((------((((((((((------((((.((((((--(((....)))))).((((((((-.....))))).)))))))))..((..--..)))))))).))))))))) ( -42.80)
>DroYak_CAF1 10663 102 - 1
AUUAUACGGCG--------GGGGAGUGG------GACUGGGAGAACUGGGUACACCCUCUGACCUGGCCAGGCCAGGCCAUGGUUCAGACUCCGAC--UCUGGUCACCAUCUCUGUCC
.......((((--------(((..((((------.....((((....(((....)))((((((((((((......))))).)).)))))))))(((--....))).))))))))))). ( -43.60)
>DroAna_CAF1 26113 112 - 1
AUUAUACGACUCGAGGCCAGAGGGACAGGACGAACACUGGGGGAG--CCGAACACACUCUGACCUGGCCUGGU----CUAUGGUUCAGACUCCGACUUUCUGGUCACCAUCUCUGGCC
..............(((((((((..(((........)))((((((--(.((((.((....((((......)))----)..)))))).).))))((((....)))).)).))))))))) ( -42.60)
>DroPer_CAF1 16698 90 - 1
AUUAUAUGGCUC--------------CC-----ACACUG-UGGAG--GGGAGCAAACUCUGACCUGGCCAGG----GCUCUGGUUCAGGCUCUGGC--UACGGUCACCAUCUCUUUCC
........((((--------------((-----.(....-.)...--))))))......(((((((((((((----((.(((...)))))))))))--)).)))))............ ( -39.30)
>consensus
AUUAUACGACG________GAGGAGCGG______CACUGGGAGAA__GGGAACACCCUCUGACCUGGCCAGGCCAGGCCAUGGUUCAGGCUCCGAC__UCUGGUCACCAUCUCUGUCC
.......(((...........(((((.....................(((....))).(((((((((((......))))).)).)))))))))(((......))).........))). (-15.36 = -17.45 +   2.09)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 9

Location 14,389,913 – 14,390,020
Length 107
Sequences 4
Columns 114
Reading direction forward
Mean pairwise identity 69.81
Mean single sequence MFE -24.82
Consensus MFE -14.15
Energy contribution -14.65
Covariance contribution 0.50
Combinations/Pair 1.07
Mean z-score -2.27
Structure conservation index 0.57
SVM decision value 2.64
SVM RNA-class probability 0.996017
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14389913 107 + 22407834
ACAAUAAAUUGUCAGGUGGGGGGGCUAGCUGUCAAAAUGCAGGGGCAUAACUCUCUCUC------UUCUCCACCAACCCCCAACCUUGCCACCAAUCCCACCUUACAACCCCA-
........((((.((((((((((((..((.........)).((((..............------............))))......))).))...))))))).)))).....- ( -28.87)
>DroPse_CAF1 14738 84 + 1
ACAAUAAAUUGUCAGGUAGGGCGGCUAGCUGUCAAAAUGCAAGGGCAUAACUCUCUUUC------UCCACCGCCCCCCC-CUGUCCU----------------------GCCU-
.............(((((((((((...((.........))..((((.............------......))))....-)))))))----------------------))))- ( -23.91)
>DroSec_CAF1 10969 104 + 1
ACAAUAAAUUGUCAGGUGGGGCGGCUAGCUGUCAAAAUGCAGGGGCAUAACUCUCUCUCUCGGCCUUCUCCACCAUCCC----------CACCAUACCCACCUUACCACCCAAC
..............(((((((.((....((((......))))((((................))))......))..)))----------))))..................... ( -22.79)
>DroPer_CAF1 16788 85 + 1
ACAAUAAAUUGUCAGGUAGGGCGGCUAGCUGUCAAAAUGCAAGGGCAUAACUCUCUUUC------UCCGCCGCCCCCCCUCUGUCCU----------------------GCCU-
.............(((((((((((...((.........))..((((.............------......)))).....)))))))----------------------))))- ( -23.71)
>consensus
ACAAUAAAUUGUCAGGUAGGGCGGCUAGCUGUCAAAAUGCAAGGGCAUAACUCUCUCUC______UCCUCCACCACCCC_CUGUCCU______________________CCCA_
..............((((((((((....)))))...((((....)))).....................)))))........................................ (-14.15 = -14.65 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:20 2006