Locus 3761

Sequence ID	3L_DroMel_CAF1
Location	10,887,159 – 10,887,250
Length	91
Max. P	0.970577

overview

Window 9

Location	10,887,159 – 10,887,250
Length	91
Sequences	6
Columns	93
Reading direction	forward
Mean pairwise identity	79.79
Mean single sequence MFE	-38.83
Consensus MFE	-32.81
Energy contribution	-32.57
Covariance contribution	-0.25
Combinations/Pair	1.23
Mean z-score	-3.06
Structure conservation index	0.84
SVM decision value	1.66
SVM RNA-class probability	0.970577
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10887159 91 + 23771897
GCUUUUCCGACUGCCGAUUCCAAUCGGUCUGCGGCGGGUGCCGCGCUCCGUUUGGCAGCGCCAAA--AGAGCCAAGAAACGCGAUUGGAAUCG
..............((((((((((((.((((((((....)))))((((..((((((...))))))--.))))..)))....)))))))))))) ( -40.40)
>DroVir_CAF1 8169 79 + 1
------UCAUUCGCCGAUUCCAAUCG-UCUGC-GCGGCUGCUGCGCUCCGUUUGGCAGCGCCAGG--CGGGC----GCUUGCGAUUGGUAUCG
------........((((.(((((((-(..((-((.((....))...(((((((((...))))))--)))))----))..)))))))).)))) ( -40.50)
>DroGri_CAF1 9342 79 + 1
------UCAUUUGCCGAUUCCAAUCG-UCUGU-GCGGCUGCUGUGCUCCGUUUGGCAGCGCCAGG--CGGAC----GAUUGCGAUUGGAAUCA
------.........(((((((((((-(..(.-.(((...)))..)((((((((((...))))))--)))).----....)))))))))))). ( -37.50)
>DroSec_CAF1 19407 90 + 1
GCUU-UCCGACUGCCGAUUCCAAUCGGUCUGCGGCGGGUGCCGCGCUCCGUUUGGCAGCGCCAAA--AGAGCCAAGAAACGCGAUUGGAAUCG
....-.........((((((((((((.((((((((....)))))((((..((((((...))))))--.))))..)))....)))))))))))) ( -40.40)
>DroEre_CAF1 18411 90 + 1
GCUUU-UUGACUGCCGAUUCCAAUCGGUCUGCGGCGGGUGCCGCGCUCCGUUUGGCAGCGCCAAA--AGAGCCAAGAAACGCGAUUGGAAUCG
.....-........((((((((((((.((((((((....)))))((((..((((((...))))))--.))))..)))....)))))))))))) ( -40.40)
>DroAna_CAF1 8612 90 + 1
GCU---UUGACUGCUGAUUCCAAUCGGUCUGCGGCGGGUGUCGCGCUCCGUUUGGCAGCGCCAAAAAAAAGCCAACAAAUGCGAUUGGAAUCG
((.---......)).(((((((((((....(((((....)))))(((...((((((...))))))....))).........))))))))))). ( -33.80)
>consensus
GCU___UCGACUGCCGAUUCCAAUCGGUCUGCGGCGGGUGCCGCGCUCCGUUUGGCAGCGCCAAA__AGAGCCAAGAAACGCGAUUGGAAUCG
...............(((((((((((....(((((....)))))((((..((((((...))))))...)))).........))))))))))). (-32.81 = -32.57 +  -0.25)

alignment

secondary structure

dotplot

Window 0

Location	10,887,159 – 10,887,250
Length	91
Sequences	6
Columns	93
Reading direction	reverse
Mean pairwise identity	79.79
Mean single sequence MFE	-38.97
Consensus MFE	-30.97
Energy contribution	-32.75
Covariance contribution	1.78
Combinations/Pair	1.11
Mean z-score	-3.64
Structure conservation index	0.79
SVM decision value	1.64
SVM RNA-class probability	0.969382
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10887159 91 - 23771897
CGAUUCCAAUCGCGUUUCUUGGCUCU--UUUGGCGCUGCCAAACGGAGCGCGGCACCCGCCGCAGACCGAUUGGAAUCGGCAGUCGGAAAAGC
((((((((((((.((((....(((((--((((((...)))))).)))))(((((....))))))))))))))))))))).............. ( -45.40)
>DroVir_CAF1 8169 79 - 1
CGAUACCAAUCGCAAGC----GCCCG--CCUGGCGCUGCCAAACGGAGCGCAGCAGCCGC-GCAGA-CGAUUGGAAUCGGCGAAUGA------
((((.((((((((..((----(((((--..((((...))))..))).)))).((......-)).).-))))))).))))........------ ( -34.30)
>DroGri_CAF1 9342 79 - 1
UGAUUCCAAUCGCAAUC----GUCCG--CCUGGCGCUGCCAAACGGAGCACAGCAGCCGC-ACAGA-CGAUUGGAAUCGGCAAAUGA------
.((((((((((((....----.((((--..((((...))))..)))).....((....))-...).-))))))))))).........------ ( -28.80)
>DroSec_CAF1 19407 90 - 1
CGAUUCCAAUCGCGUUUCUUGGCUCU--UUUGGCGCUGCCAAACGGAGCGCGGCACCCGCCGCAGACCGAUUGGAAUCGGCAGUCGGA-AAGC
((((((((((((.((((....(((((--((((((...)))))).)))))(((((....))))))))))))))))))))).........-.... ( -45.40)
>DroEre_CAF1 18411 90 - 1
CGAUUCCAAUCGCGUUUCUUGGCUCU--UUUGGCGCUGCCAAACGGAGCGCGGCACCCGCCGCAGACCGAUUGGAAUCGGCAGUCAA-AAAGC
((((((((((((.((((....(((((--((((((...)))))).)))))(((((....)))))))))))))))))))))........-..... ( -45.40)
>DroAna_CAF1 8612 90 - 1
CGAUUCCAAUCGCAUUUGUUGGCUUUUUUUUGGCGCUGCCAAACGGAGCGCGACACCCGCCGCAGACCGAUUGGAAUCAGCAGUCAA---AGC
.(((((((((((..(((((.(((.......(.(((((.((....))))))).).....)))))))).))))))))))).........---... ( -34.50)
>consensus
CGAUUCCAAUCGCAUUUCUUGGCUCU__UUUGGCGCUGCCAAACGGAGCGCGGCACCCGCCGCAGACCGAUUGGAAUCGGCAGUCGA___AGC
((((((((((((.........((((...((((((...))))))..))))(((((....)))))....)))))))))))).............. (-30.97 = -32.75 +   1.78)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:04 2006