Locus 331

Sequence ID	3L_DroMel_CAF1
Location	952,931 – 953,030
Length	99
Max. P	0.960286

overview

Window 5

Location	952,931 – 953,030
Length	99
Sequences	6
Columns	117
Reading direction	forward
Mean pairwise identity	72.51
Mean single sequence MFE	-38.95
Consensus MFE	-17.84
Energy contribution	-21.03
Covariance contribution	3.20
Combinations/Pair	1.18
Mean z-score	-1.74
Structure conservation index	0.46
SVM decision value	0.18
SVM RNA-class probability	0.619850
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 952931 99 + 23771897
AG---UCCGCCCAGUUGGAGGCCACUUGUCAUAGCUGCCAGAACAAG-----CCAUGCUUCGGA----------CUUUUGUCAGUGACCAGGCCUCCAACUUGGUGCACCGCAACAA
.(---(.((((.(((((((((((....((((((((.((........)-----)...)))...((----------(....))).)))))..))))))))))).)))).))........ ( -39.10)
>DroGri_CAF1 98329 98 + 1
AGCU--GCUGCCUGUUUGAGGCCACUUUUCAUAACUGCCAAGGCAGACGGC-GCAUACCGAGGA----------CUUUUGUCAAUGGCCAAACCUCAAAGUCAGUGAAGCU------
((((--((((.((..((((((.............((((....))))..(((-.(((......((----------(....))).))))))...)))))))).))))..))))------ ( -29.60)
>DroSec_CAF1 88349 105 + 1
GG---GCCGCCCAGUUGGAGGCCACUUGUCAUAGCUGCCAGAACAGU-----CCAUGCUGCGGACUGCAGGCAACUUUUGUCAGUGACCAGGCCUCCAAGUUGGUGCACCGCA----
((---..((((.(.(((((((((....(((((((.((((....((((-----((.......))))))..)))).)).......)))))..))))))))).).))))..))...---- ( -46.11)
>DroSim_CAF1 79796 105 + 1
GG---GCCGCCCAGUUGGAGGCCACUUGUCAUAGCUGCCAGAACAGU-----CCAUGCUGCGGACUGCAGGCAACUUUUGUCAGUGACCAGCCUUCCAAGUUGGUGCACCGCA----
((---..((((.(.((((((((((((.(.((.((.((((....((((-----((.......))))))..)))).))..)).)))))....))).))))).).))))..))...---- ( -40.70)
>DroEre_CAF1 89774 101 + 1
GG---GAG-----GUUGGAGGCCACUUGUCAUAGCUGCCAGAGCAGACA----UUUGCUGCGCACUGGAGGCAACUUUUGCCAGUGACCAGGCCUCGUAGUUUCUGCACCGUG----
..---..(-----((..((((((....(((((.....((((.((((.(.----...)))))...)))).((((.....)))).)))))..))))))((((...)))))))...---- ( -37.80)
>DroYak_CAF1 92157 113 + 1
GGUUGGAGGCCCAGUUGGAGGCCACUUGUCAUAGCUGCCAGAACAGAAGAGGCCAUGCUGCGGACUGCAGGCGACUUUUGUCAGUGACCAGGCCUCGAAGUUGGUGCACUGUG----
....(.((((((((((.((((((....(((...((((.....(((((((..(((.(((........))))))..))))))))))))))..)))))).)).)))).)).)).).---- ( -40.40)
>consensus
GG___GCCGCCCAGUUGGAGGCCACUUGUCAUAGCUGCCAGAACAGA_____CCAUGCUGCGGACUGCAGGCAACUUUUGUCAGUGACCAGGCCUCCAAGUUGGUGCACCGCA____
........(((((((((((((((....(((((..(((......)))................(((...((....))...))).)))))..))))))))).)))).)).......... (-17.84 = -21.03 +   3.20)

alignment

secondary structure

dotplot

Window 6

Location	952,931 – 953,030
Length	99
Sequences	6
Columns	117
Reading direction	reverse
Mean pairwise identity	72.51
Mean single sequence MFE	-40.05
Consensus MFE	-17.75
Energy contribution	-18.50
Covariance contribution	0.75
Combinations/Pair	1.35
Mean z-score	-2.24
Structure conservation index	0.44
SVM decision value	1.51
SVM RNA-class probability	0.960286
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 952931 99 - 23771897
UUGUUGCGGUGCACCAAGUUGGAGGCCUGGUCACUGACAAAAG----------UCCGAAGCAUGG-----CUUGUUCUGGCAGCUAUGACAAGUGGCCUCCAACUGGGCGGA---CU
.......(((.(.((.(((((((((((..(((((.(((....)----------)).).(((...(-----((......))).))).))))....))))))))))).)).).)---)) ( -41.00)
>DroGri_CAF1 98329 98 - 1
------AGCUUCACUGACUUUGAGGUUUGGCCAUUGACAAAAG----------UCCUCGGUAUGC-GCCGUCUGCCUUGGCAGUUAUGAAAAGUGGCCUCAAACAGGCAGC--AGCU
------(((((((.((((((..((((.(((((((.(((....)----------))......))).-))))...))))..).)))))))))..((.((((.....)))).))--.))) ( -30.30)
>DroSec_CAF1 88349 105 - 1
----UGCGGUGCACCAACUUGGAGGCCUGGUCACUGACAAAAGUUGCCUGCAGUCCGCAGCAUGG-----ACUGUUCUGGCAGCUAUGACAAGUGGCCUCCAACUGGGCGGC---CC
----...(((((.(((..(((((((((..((((........(((((((.((((((((.....)))-----)))))...))))))).))))....))))))))).))))).))---). ( -51.10)
>DroSim_CAF1 79796 105 - 1
----UGCGGUGCACCAACUUGGAAGGCUGGUCACUGACAAAAGUUGCCUGCAGUCCGCAGCAUGG-----ACUGUUCUGGCAGCUAUGACAAGUGGCCUCCAACUGGGCGGC---CC
----...(((((.(((..(((((.....(((((((......(((((((.((((((((.....)))-----)))))...)))))))......)))))))))))).))))).))---). ( -46.50)
>DroEre_CAF1 89774 101 - 1
----CACGGUGCAGAAACUACGAGGCCUGGUCACUGGCAAAAGUUGCCUCCAGUGCGCAGCAAA----UGUCUGCUCUGGCAGCUAUGACAAGUGGCCUCCAAC-----CUC---CC
----...(((......)))..((((((..((((.((((....((((((......).)))))...----((((......))))))))))))....))))))....-----...---.. ( -32.90)
>DroYak_CAF1 92157 113 - 1
----CACAGUGCACCAACUUCGAGGCCUGGUCACUGACAAAAGUCGCCUGCAGUCCGCAGCAUGGCCUCUUCUGUUCUGGCAGCUAUGACAAGUGGCCUCCAACUGGGCCUCCAACC
----...(((......)))..((((((..((....((((.(((..((((((........))).)))..))).)))).(((..(((((.....)))))..)))))..))))))..... ( -38.50)
>consensus
____UGCGGUGCACCAACUUGGAGGCCUGGUCACUGACAAAAGUUGCCUGCAGUCCGCAGCAUGG_____UCUGUUCUGGCAGCUAUGACAAGUGGCCUCCAACUGGGCGGC___CC
..........((.((...(((((((((..((((((......))............................((((....))))...))))....)))))))))..))))........ (-17.75 = -18.50 +   0.75)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:39:26 2006