Locus 7952

Sequence ID	3L_DroMel_CAF1
Location	21,080,015 – 21,080,204
Length	189
Max. P	0.987558

overview

Window 1

Location	21,080,015 – 21,080,124
Length	109
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	88.45
Mean single sequence MFE	-40.74
Consensus MFE	-33.22
Energy contribution	-32.90
Covariance contribution	-0.32
Combinations/Pair	1.15
Mean z-score	-2.41
Structure conservation index	0.82
SVM decision value	2.08
SVM RNA-class probability	0.987558
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21080015 109 - 23771897
UCACCUGCACGGACCGUCAAAAGGACUAAUCCUUUUUGGGCGCCCCCUGCGGGAUGAGUCGUAAGUGCUGUAGGU---CGCAACAGUGAUUUUCCAU--------CUCUCGCGAUUUGCA
...((((((.((..((((.((((((....))))))...))))..)).))))))..((((((..((.(.((.((((---(((....)))))))..)).--------).))..))))))... ( -39.00)
>DroSec_CAF1 135365 117 - 1
UCACCUGCACGGACCGUCAAAAGGACUAAUCCUUUUUGGGCGUCGCCUGCGGGAUGAGUCGUAAAUGCUGUAGGU---CGCAGCAGUGAUUUUCCAUUUCGUCAUUUCUCGCGACUUGCA
(((((((((.((..((((.((((((....))))))...))))...)))))))).)))............((((((---(((((.((((((..........)))))).)).))))))))). ( -43.20)
>DroSim_CAF1 41481 109 - 1
UCACCUGCACGGACCGUCAAAAGGACUAAUCCUUUUUGGGCGUCCCCUGCGGGAUGAGUCGUAAAUGCUGUAGGU---CGCAGCAGUGAUUUUCCAU--------CUCUCGCGACUUGCA
(((((((((.((..((((.((((((....))))))...))))..)).)))))).)))............((((((---(((((..(((......)))--------..)).))))))))). ( -42.70)
>DroEre_CAF1 57573 111 - 1
UCACCUGCGUGGACCGUCAA-AGGACUAAUCCUUUUUGGGCGUCCCCUGCGGGAUGAGUCGUAAAUGCUGUACUGUACUGUGGCAGUGAUUUACCAA--------CUCUCGCGAUUUGCA
...((((((.((..((((((-((((....))))))...))))..)).))))))..((((.(((((((((((((......)).))))).))))))..)--------)))..((.....)). ( -36.80)
>DroYak_CAF1 29240 109 - 1
UCACCUGCAGGGACCGUCAAGAGGACUAAUCCUUUUUGGGCGUCCCCUGCGGGAUGAGUCGUAAAUGCUGUACAG---CGUAGCAGUGAUUUUCCAA--------CUCUCGCGAUUUGCA
...(((((((((..((((.((((((....))))))...))))..)))))))))..(((((((..(((((....))---)))((.(((.........)--------)))).)))))))... ( -42.00)
>consensus
UCACCUGCACGGACCGUCAAAAGGACUAAUCCUUUUUGGGCGUCCCCUGCGGGAUGAGUCGUAAAUGCUGUAGGU___CGCAGCAGUGAUUUUCCAU________CUCUCGCGAUUUGCA
...((((((.((..((((.((((((....))))))...))))..)).))))))..(((((((...((((((........)))))).((......))..............)))))))... (-33.22 = -32.90 +  -0.32)

alignment

secondary structure

dotplot

Window 2

Location	21,080,084 – 21,080,204
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	97.50
Mean single sequence MFE	-42.68
Consensus MFE	-40.06
Energy contribution	-40.62
Covariance contribution	0.56
Combinations/Pair	1.05
Mean z-score	-1.49
Structure conservation index	0.94
SVM decision value	1.19
SVM RNA-class probability	0.928586
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21080084 120 - 23771897
CCAACAACUAUUUGCACUGGGCGGCGGUCUGCACAUGGGUGCUCUUCAACAUCCAGGGUGAGUGGGUCGUAAAUCAUGCGUCACCUGCACGGACCGUCAAAAGGACUAAUCCUUUUUGGG
(((..........((.....))((((((((((((.((((((........))))))..))).(..(((((((.....))))..)))..).)))))))))(((((((....)))))))))). ( -43.50)
>DroSec_CAF1 135442 120 - 1
CCAACAACUAUUUGCACUGGGCGGCGGUCUGCACAUGGGUGCUCUUCAACAUCCAGGGUGAGUGGGUCGUAAAUCAUGCGUCACCUGCACGGACCGUCAAAAGGACUAAUCCUUUUUGGG
(((..........((.....))((((((((((((.((((((........))))))..))).(..(((((((.....))))..)))..).)))))))))(((((((....)))))))))). ( -43.50)
>DroSim_CAF1 41550 119 - 1
CCAACAACUAUUUGCACUGGGCGGCGGUCUGCACAUGGGUGCUCUUCAACAUCCAGGGUGAGUGGGUCGUA-AUCAUGCGUCACCUGCACGGACCGUCAAAAGGACUAAUCCUUUUUGGG
(((..........((.....))((((((((((((.((((((........))))))..))).(..(((((((-....))))..)))..).)))))))))(((((((....)))))))))). ( -43.50)
>DroEre_CAF1 57645 118 - 1
CCAACAACUAUUUGCACUGGGCGGCGGUCUGCACAUGGGUGCUCUUCAACAUCCAGGGUGAGUG-GUCGUAAAUCAAGCGUCACCUGCGUGGACCGUCAA-AGGACUAAUCCUUUUUGGG
((((.........((.....))(((((((..(.(.((((((........))))))((((((.((-((.....))))....))))))).)..)))))))((-((((....)))))))))). ( -41.00)
>DroYak_CAF1 29309 120 - 1
CCAACAACUAUUUGCACUGGGCGGCGGUCUGCACAUGGGUGCUCUUCAACAUCCAGGGUGAGUGGGUCGUAAAUCAUGCGUCACCUGCAGGGACCGUCAAGAGGACUAAUCCUUUUUGGG
(((..........((.....))((((((((.(((.((((((........))))))..))).(..(((((((.....))))..)))..)..))))))))(((((((....)))))))))). ( -41.90)
>consensus
CCAACAACUAUUUGCACUGGGCGGCGGUCUGCACAUGGGUGCUCUUCAACAUCCAGGGUGAGUGGGUCGUAAAUCAUGCGUCACCUGCACGGACCGUCAAAAGGACUAAUCCUUUUUGGG
(((..........((.....))((((((((((((.((((((........))))))..))).((((((((((.....))))..)))))).)))))))))(((((((....)))))))))). (-40.06 = -40.62 +   0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:01:52 2006