Locus 8679

Sequence ID	X_DroMel_CAF1
Location	21,993,756 – 21,993,858
Length	102
Max. P	0.559660

overview

Window 9

Location	21,993,756 – 21,993,858
Length	102
Sequences	5
Columns	107
Reading direction	forward
Mean pairwise identity	87.88
Mean single sequence MFE	-30.26
Consensus MFE	-21.04
Energy contribution	-21.68
Covariance contribution	0.64
Combinations/Pair	1.04
Mean z-score	-1.83
Structure conservation index	0.70
SVM decision value	0.05
SVM RNA-class probability	0.559660
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21993756 102 + 22224390
UA--UAUGGCAUAUGGCGGCGGAAU---AAUGGAGGCUCCUCCAGCAACAGCAACCGAAGAAAGACCAAGAGAAUCGUGGCGAAAUUGUUGCCACUUCAAAAGCAAU
..--....((...((((..(((...---..(((((....)))))((....))..)))......).)))...(((..(((((((.....))))))))))....))... ( -27.90)
>DroSec_CAF1 54308 102 + 1
UG--UAUGUCAUAUGGCGGCGGAAU---AAUGGAGGCUGCUCCAGCAGCAGCAACCGAAGAAAGACCAAGAGAAUCGUGGCGAAAUUGUUGCCACUUCAAAAGCAAU
..--..((((....))))((.(((.---..(((..((((((.....))))))..)))...................(((((((.....))))))))))....))... ( -27.90)
>DroSim_CAF1 54341 102 + 1
UG--UAUGUCAUAUGGCGGCGGAAU---AAUGGAGGCUGCUCCAGCAGCAGCAACCGAAGAAAGACCAAGAGAAUCGUGGCGAAAUUGUUGCCACUUCAAAAGCAAU
..--..((((....))))((.(((.---..(((..((((((.....))))))..)))...................(((((((.....))))))))))....))... ( -27.90)
>DroEre_CAF1 34879 98 + 1
UAUGUAUGGCAUGUGGCGGCGGAGG---GGAGGAGGCUCCUCCAGCAGCAG---CCGAAGAAAGGCCAAGAGAAACAUGGCGAAAUUGUUGCCACUUCAAAAGC---
......((((...((((.(((((((---((......))))))).))....)---))).......))))...(((...((((((.....)))))).)))......--- ( -33.30)
>DroYak_CAF1 42790 105 + 1
UA--UAUGGCAUGUGGCGGCGGAUGAAGAAUGGAGGCUCCUCCAGCAGCAGCUACCGAAGAAAGGCCAAGAGGAAGAUGGCGAAAUUGUUGCCACUUCAAAAGCAAU
..--..((((...(..(((..(.((.....(((((....)))))....)).)..)))..)....))))....((((.((((((.....))))))))))......... ( -34.30)
>consensus
UA__UAUGGCAUAUGGCGGCGGAAU___AAUGGAGGCUCCUCCAGCAGCAGCAACCGAAGAAAGACCAAGAGAAUCGUGGCGAAAUUGUUGCCACUUCAAAAGCAAU
.............((((..(((........(((((....)))))((....))..)))......).)))...(((..(((((((.....))))))))))......... (-21.04 = -21.68 +   0.64)

alignment

secondary structure

dotplot

Window 0

Location	21,993,756 – 21,993,858
Length	102
Sequences	5
Columns	107
Reading direction	reverse
Mean pairwise identity	87.88
Mean single sequence MFE	-27.00
Consensus MFE	-20.72
Energy contribution	-20.84
Covariance contribution	0.12
Combinations/Pair	1.11
Mean z-score	-1.51
Structure conservation index	0.77
SVM decision value	0.03
SVM RNA-class probability	0.547124
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21993756 102 - 22224390
AUUGCUUUUGAAGUGGCAACAAUUUCGCCACGAUUCUCUUGGUCUUUCUUCGGUUGCUGUUGCUGGAGGAGCCUCCAUU---AUUCCGCCGCCAUAUGCCAUA--UA
............((((((........((((.(.....).))))........(((.((.(.((.(((((....))))).)---)..).)).)))...)))))).--.. ( -26.20)
>DroSec_CAF1 54308 102 - 1
AUUGCUUUUGAAGUGGCAACAAUUUCGCCACGAUUCUCUUGGUCUUUCUUCGGUUGCUGCUGCUGGAGCAGCCUCCAUU---AUUCCGCCGCCAUAUGACAUA--CA
............(((((.........((((.(.....).))))........((..((((((.....))))))..))...---.....)))))...........--.. ( -25.50)
>DroSim_CAF1 54341 102 - 1
AUUGCUUUUGAAGUGGCAACAAUUUCGCCACGAUUCUCUUGGUCUUUCUUCGGUUGCUGCUGCUGGAGCAGCCUCCAUU---AUUCCGCCGCCAUAUGACAUA--CA
............(((((.........((((.(.....).))))........((..((((((.....))))))..))...---.....)))))...........--.. ( -25.50)
>DroEre_CAF1 34879 98 - 1
---GCUUUUGAAGUGGCAACAAUUUCGCCAUGUUUCUCUUGGCCUUUCUUCGG---CUGCUGCUGGAGGAGCCUCCUCC---CCUCCGCCGCCACAUGCCAUACAUA
---.........((((((........((((.(.....).))))........((---(.((.(..(((((.....)))))---...).)).)))...))))))..... ( -30.10)
>DroYak_CAF1 42790 105 - 1
AUUGCUUUUGAAGUGGCAACAAUUUCGCCAUCUUCCUCUUGGCCUUUCUUCGGUAGCUGCUGCUGGAGGAGCCUCCAUUCUUCAUCCGCCGCCACAUGCCAUA--UA
............(((((.........((((.........))))........((((((....)))((((....))))...........))))))))........--.. ( -27.70)
>consensus
AUUGCUUUUGAAGUGGCAACAAUUUCGCCACGAUUCUCUUGGUCUUUCUUCGGUUGCUGCUGCUGGAGGAGCCUCCAUU___AUUCCGCCGCCAUAUGCCAUA__UA
............(((((.........((((.(.....).))))........(((.((....)).((((....))))...........))))))))............ (-20.72 = -20.84 +   0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:10:10 2006