Locus 3438

Sequence ID	3L_DroMel_CAF1
Location	10,093,563 – 10,093,685
Length	122
Max. P	0.692042

overview

Window 9

Location	10,093,563 – 10,093,661
Length	98
Sequences	6
Columns	103
Reading direction	reverse
Mean pairwise identity	80.94
Mean single sequence MFE	-24.20
Consensus MFE	-15.32
Energy contribution	-15.52
Covariance contribution	0.19
Combinations/Pair	1.05
Mean z-score	-1.81
Structure conservation index	0.63
SVM decision value	0.33
SVM RNA-class probability	0.692042
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10093563 98 - 23771897
GGCAAACUGGAAAUCUCUGGCGCAUGUUUUAAGCUAAACGACUUGGAUUUAAAAAUAAAUUGAGGUCAGCUAAGAGACAGUGU--ACAAUGCUGAUUUUG---
((((.((((....((((((((....((((......))))(((((.((((((....)))))).))))).))).)))))))))..--....)))).......--- ( -25.10)
>DroPse_CAF1 36694 98 - 1
-----AGUGGCAGUCUCUGGCGCAUGUUUUAAGCUAAACGACUUGGAUUUAAAAAUAAAUUGAGGUCAACUGAGAGACACCAAAAACAAUGUUGCUUCGGCAU
-----..(((..(((((((((...........)))....(((((.((((((....)))))).))))).....)))))).)))..........(((....))). ( -27.40)
>DroSec_CAF1 32567 98 - 1
GGCAAACUGAAAAUCUCUGGCGCAUGUUUUAAGCUAAACUACUUGGAUUUUAAAAUAAAUUGAGGUCAACUAAGAGACAGUGU--GGAAUGCUGAUUUUG---
((((.((((....((((((((...........))).....((((.(((((......))))).))))......)))))))))..--....)))).......--- ( -16.20)
>DroEre_CAF1 36997 98 - 1
GGAAAAGUGGAAAUCUCUGGCGCAUGUUUUAAGCUAAACGACUUGGAUUUAAAAAUAAAUUGAGGUCAGCUCGGAGACAGUGU--GGAAUGCUGAUUUUG---
...(((((.....(((((((.((..((((......))))(((((.((((((....)))))).))))).)))))))))((((((--...))))))))))).--- ( -25.70)
>DroAna_CAF1 31354 90 - 1
GGC--------AAUCUCUGGCGCAUGUUUUAAGCUAAACGACUUGGAUUUAAAAAUAAAUUGAGGUCAGCCGAGAGACACUGU--UGUUUUCUGUUAUUG---
(((--------(.((((((((....((((......))))(((((.((((((....)))))).))))).))).)))))...)))--)..............--- ( -23.50)
>DroPer_CAF1 37293 98 - 1
-----AGUGGCAGUCUCUGGCGCAUGUUUUAAGCUAAACGACUUGGAUUUAAAAAUAAAUUGAGGUCAACUAAGAGACACCAAAAACAAUGUUGCUUCGGCAU
-----..(((..(((((((((...........)))....(((((.((((((....)))))).))))).....)))))).)))..........(((....))). ( -27.30)
>consensus
GGC__AGUGGAAAUCUCUGGCGCAUGUUUUAAGCUAAACGACUUGGAUUUAAAAAUAAAUUGAGGUCAACUAAGAGACACUGU__ACAAUGCUGAUUUUG___
.............((((((((...........)))....(((((.((((((....)))))).))))).....))))).......................... (-15.32 = -15.52 +   0.19)

alignment

secondary structure

dotplot

Window 0

Location	10,093,584 – 10,093,685
Length	101
Sequences	6
Columns	117
Reading direction	reverse
Mean pairwise identity	83.05
Mean single sequence MFE	-31.05
Consensus MFE	-18.44
Energy contribution	-19.50
Covariance contribution	1.06
Combinations/Pair	1.07
Mean z-score	-2.21
Structure conservation index	0.59
SVM decision value	-0.07
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10093584 101 - 23771897
CAGAUGCACUUGCCACUU-------GG------UU---GGGGCAAACUGGAAAUCUCUGGCGCAUGUUUUAAGCUAAACGACUUGGAUUUAAAAAUAAAUUGAGGUCAGCUAAGAGA
(((.(((.((.(((....-------))------).---)).)))..)))....((((((((....((((......))))(((((.((((((....)))))).))))).))).))))) ( -29.60)
>DroSec_CAF1 32588 96 - 1
CAGAUGCACUUGCCAC------------------U---GGGGCAAACUGAAAAUCUCUGGCGCAUGUUUUAAGCUAAACUACUUGGAUUUUAAAAUAAAUUGAGGUCAACUAAGAGA
.........(((((..------------------.---..)))))........((((((((...........))).....((((.(((((......))))).))))......))))) ( -16.80)
>DroSim_CAF1 33378 109 - 1
CAGAUGCACUUGCCACUUGCCACUUGGU-----UU---GGGGCAAGCUGAAAAUCUCUGGCGCAUGUUUUAAGCUAAACGACUUGGAUUUAAAAAUAAAUUGAGGUCAGCUAAGAGA
......((((((((.(..(((....)))-----..---).)))))).))....((((((((....((((......))))(((((.((((((....)))))).))))).))).))))) ( -34.70)
>DroEre_CAF1 37018 114 - 1
CAGCUGCACUUGCCACUUGCCACUUGGCAUUUGGU---GGGGAAAAGUGGAAAUCUCUGGCGCAUGUUUUAAGCUAAACGACUUGGAUUUAAAAAUAAAUUGAGGUCAGCUCGGAGA
..(((...((..(((..((((....))))..))).---.))....))).....(((((((.((..((((......))))(((((.((((((....)))))).))))).))))))))) ( -40.60)
>DroYak_CAF1 34452 117 - 1
CAGAUGCACUUGCCACUUGCCACUUGCCAUGUGGUACGGGGGAAAGCUGGAAAUCUCUGGCGCAUGUUUUAAGCUAAACGACUUGGAUUUAAAAAUAAAUUGAGGUCAGCUAAGAGA
...((((..((.((.(.((((((.......)))))).))).))..((..((....))..)))))).((((.((((....(((((.((((((....)))))).))))))))).)))). ( -35.70)
>DroAna_CAF1 31375 92 - 1
CAGUUGCAGUUGCCACUU-------U-------GU---GGGGC--------AAUCUCUGGCGCAUGUUUUAAGCUAAACGACUUGGAUUUAAAAAUAAAUUGAGGUCAGCCGAGAGA
........((((((.((.-------.-------..---)))))--------)))(((((((....((((......))))(((((.((((((....)))))).))))).))).)))). ( -28.90)
>consensus
CAGAUGCACUUGCCACUU_______GG______GU___GGGGCAAACUGGAAAUCUCUGGCGCAUGUUUUAAGCUAAACGACUUGGAUUUAAAAAUAAAUUGAGGUCAGCUAAGAGA
.........(((((.((.....................)))))))........((((((((....((((......))))(((((.((((((....)))))).))))).))).))))) (-18.44 = -19.50 +   1.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:07 2006