Locus 3430

Sequence ID	3L_DroMel_CAF1
Location	10,068,779 – 10,068,877
Length	98
Max. P	0.730892

overview

Window 9

Location	10,068,779 – 10,068,877
Length	98
Sequences	5
Columns	99
Reading direction	forward
Mean pairwise identity	84.55
Mean single sequence MFE	-28.38
Consensus MFE	-16.91
Energy contribution	-17.19
Covariance contribution	0.28
Combinations/Pair	1.17
Mean z-score	-2.03
Structure conservation index	0.60
SVM decision value	-0.03
SVM RNA-class probability	0.520474
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10068779 98 + 23771897
GCU-ACACAGCUUAUCACUUCUCUAUUGAUAAGCUGCAAAUGGCCAGCGAUAAUAGCGGGGGUUCUUAUCAAAGCGUGGUCGUGCAUUUUAUUGACCAC
(((-...((((((((((.........))))))))))..((..(((.((.......))...)))..)).....)))(((((((..........))))))) ( -29.50)
>DroSec_CAF1 7416 98 + 1
GGU-ACACAGCUUAUCACUUCGUUAUUGAUAAGCUGCAAAUGGCCAGCGAUAAUAGCGGGGCAUCUUAUCAAAGCAUGGUUGUGCAUUUUAUUGACCAC
(((-...((((((((((.........))))))))))((((((.((.((.......)).)).))).........((((....))))......)))))).. ( -27.40)
>DroSim_CAF1 7843 98 + 1
GGU-ACACAGCUUAUCACUUCGUUAUUGAUAAGCUGCAAAUGGCCAGCGAUAAUAGCGGGGCCUCUUAUCAAAGCAUAGUCGCGCAUUUUAUUGACCAC
(((-.((.(((((((((.........)))))))))((....((((.((.......))..))))..........((......)))).......))))).. ( -27.60)
>DroEre_CAF1 7685 89 + 1
----------UUUAUCACUACGUUAUUGAUAAGCCGCAAAUGGUCAGCGAUAAUGGCAGGGUGUCUUAUCAAAGCGUGUUCGUGGGUUUUAUUGACCAC
----------.....(((((((((.((((((((.(((.....((((.......))))...))).))))))))))))))...)))((((.....)))).. ( -26.00)
>DroYak_CAF1 8681 99 + 1
GGUAACACAGCUUAUCACUGCGUUAUUGAUAAGCUGCAAAUGGGCAGCGAUAAUGGCAGGGCCACUUAUCAACACGUUUUCGUGGGUUUUAUUGACCAC
((((((.(((.......))).)))))).....(((((......)))))(((((((((...)))).)))))..((((....))))((((.....)))).. ( -31.40)
>consensus
GGU_ACACAGCUUAUCACUUCGUUAUUGAUAAGCUGCAAAUGGCCAGCGAUAAUAGCGGGGCCUCUUAUCAAAGCGUGGUCGUGCAUUUUAUUGACCAC
.......((((((((((.........))))))))))....(((....((((((..(((.((..................)).)))...)))))).))). (-16.91 = -17.19 +   0.28)

alignment

secondary structure

dotplot

Window 0

Location	10,068,779 – 10,068,877
Length	98
Sequences	5
Columns	99
Reading direction	reverse
Mean pairwise identity	84.55
Mean single sequence MFE	-26.37
Consensus MFE	-18.52
Energy contribution	-19.20
Covariance contribution	0.68
Combinations/Pair	1.12
Mean z-score	-1.92
Structure conservation index	0.70
SVM decision value	0.42
SVM RNA-class probability	0.730892
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10068779 98 - 23771897
GUGGUCAAUAAAAUGCACGACCACGCUUUGAUAAGAACCCCCGCUAUUAUCGCUGGCCAUUUGCAGCUUAUCAAUAGAGAAGUGAUAAGCUGUGU-AGC
((((((............))))))(((.((((((............))))))..))).....(((((((((((.........)))))))))))..-... ( -28.30)
>DroSec_CAF1 7416 98 - 1
GUGGUCAAUAAAAUGCACAACCAUGCUUUGAUAAGAUGCCCCGCUAUUAUCGCUGGCCAUUUGCAGCUUAUCAAUAACGAAGUGAUAAGCUGUGU-ACC
(((((((.......(((......)))...(((((...((...))..)))))..)))))))..(((((((((((.........)))))))))))..-... ( -27.90)
>DroSim_CAF1 7843 98 - 1
GUGGUCAAUAAAAUGCGCGACUAUGCUUUGAUAAGAGGCCCCGCUAUUAUCGCUGGCCAUUUGCAGCUUAUCAAUAACGAAGUGAUAAGCUGUGU-ACC
(((((((....((((.(((.....(((((.....)))))..))))))).....)))))))..(((((((((((.........)))))))))))..-... ( -28.50)
>DroEre_CAF1 7685 89 - 1
GUGGUCAAUAAAACCCACGAACACGCUUUGAUAAGACACCCUGCCAUUAUCGCUGACCAUUUGCGGCUUAUCAAUAACGUAGUGAUAAA----------
((((..........))))..(((((..((((((((..............((((.........))))))))))))...))).))......---------- ( -15.03)
>DroYak_CAF1 8681 99 - 1
GUGGUCAAUAAAACCCACGAAAACGUGUUGAUAAGUGGCCCUGCCAUUAUCGCUGCCCAUUUGCAGCUUAUCAAUAACGCAGUGAUAAGCUGUGUUACC
((((..........))))........(((((((((((((...))))))...(((((......))))).)))))))((((((((.....))))))))... ( -32.10)
>consensus
GUGGUCAAUAAAAUGCACGACCACGCUUUGAUAAGAGGCCCCGCUAUUAUCGCUGGCCAUUUGCAGCUUAUCAAUAACGAAGUGAUAAGCUGUGU_ACC
(((((((..........((....))....(((((............)))))..)))))))..(((((((((((.........)))))))))))...... (-18.52 = -19.20 +   0.68)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:58 2006