Locus 6220

Sequence ID	2L_DroMel_CAF1
Location	17,309,995 – 17,310,125
Length	130
Max. P	0.998474

overview

Window 9

Location	17,309,995 – 17,310,108
Length	113
Sequences	5
Columns	113
Reading direction	reverse
Mean pairwise identity	93.54
Mean single sequence MFE	-27.75
Consensus MFE	-22.84
Energy contribution	-24.04
Covariance contribution	1.20
Combinations/Pair	1.00
Mean z-score	-3.01
Structure conservation index	0.82
SVM decision value	2.99
SVM RNA-class probability	0.998022
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17309995 113 - 22407834
UGCCAAAUCCCAUCCUUGUAUUUCUCACCUCAUCUCAAACUGCAAGCUUUCAGUUUGAUUCCUGGUUAUUAUUCAGCAAAUAAUCAGGCAGUCAAACAGUUGGCAUAUGUAGA
((((((........((((((....................))))))......((((((((((((((((((........)))))))))).))))))))..))))))........ ( -30.65)
>DroSec_CAF1 7622 113 - 1
UGCCAAAUCGCAUCCUUGUAUUUCUGACCUCAUCUCAAACUGCAAGCUUUCAGUUUGAUUCCUGGUUAUUAUUCAGCAAAUAAUCAGACAGUCAAACAGUUGGCAUAUGUAGA
((((((........((((((.((.(((.......))))).))))))......((((((((.(((((((((........)))))))))..))))))))..))))))........ ( -27.80)
>DroSim_CAF1 9108 113 - 1
UGCCAAAUCGCAUCCUUGUACUUCUGACCUCAUCUCAAACUGCAAGCUUUCAGUUUGAUUCCUGGUUAUUAUUCAGCAAAUAAUCAGACAGUCAAACAGUUGGCAUAUGUAGA
((((((........((((((.((.(((.......))))).))))))......((((((((.(((((((((........)))))))))..))))))))..))))))........ ( -27.80)
>DroEre_CAF1 10115 111 - 1
GGCCAAACCCAAUCCUCGUAUUCCUUACCUCAUCUCAAACUGCAAGCUUUCAGUUUGAUUCCUGGUUAUUAUUCAGCAAAUAAUCAGGCUGU--AACAGUUGGCAUAUGUAGA
.(((((............................((((((((........))))))))..((((((((((........))))))))))....--.....)))))......... ( -25.10)
>DroYak_CAF1 2470 113 - 1
UCCAAAAUCCCAUCCUCGUAUUCUUGACCUCAUCUCAAACUGCAAGCUUUCAGUUUGAUUCCUGGUUAUUAUUCAGCAAAUAAUCAGGCUGUCAAACAGUUGGCAUAUGUAGA
.......................((((.......)))).(((((.(((..(.(((((((.((((((((((........))))))))))..))))))).)..)))...))))). ( -27.40)
>consensus
UGCCAAAUCCCAUCCUUGUAUUUCUGACCUCAUCUCAAACUGCAAGCUUUCAGUUUGAUUCCUGGUUAUUAUUCAGCAAAUAAUCAGGCAGUCAAACAGUUGGCAUAUGUAGA
.......................................(((((.(((..(.((((((((((((((((((........)))))))))).)))))))).)..)))...))))). (-22.84 = -24.04 +   1.20)

alignment

secondary structure

dotplot

Window 0

Location	17,310,035 – 17,310,125
Length	90
Sequences	5
Columns	90
Reading direction	reverse
Mean pairwise identity	93.44
Mean single sequence MFE	-15.30
Consensus MFE	-13.64
Energy contribution	-14.00
Covariance contribution	0.36
Combinations/Pair	1.06
Mean z-score	-2.20
Structure conservation index	0.89
SVM decision value	3.11
SVM RNA-class probability	0.998474
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17310035 90 - 22407834
ACGUAUCUUUAUUGGCUUGCCAAAUCCCAUCCUUGUAUUUCUCACCUCAUCUCAAACUGCAAGCUUUCAGUUUGAUUCCUGGUUAUUAUU
...........((((....))))....................(((.....((((((((........)))))))).....)))....... ( -14.20)
>DroSec_CAF1 7662 90 - 1
ACGUAUCUUUAUUGGCUUGCCAAAUCGCAUCCUUGUAUUUCUGACCUCAUCUCAAACUGCAAGCUUUCAGUUUGAUUCCUGGUUAUUAUU
...........((((....))))...(((....))).....(((((.....((((((((........)))))))).....)))))..... ( -17.40)
>DroSim_CAF1 9148 90 - 1
ACGUAUCUUUAUUGGCUUGCCAAAUCGCAUCCUUGUACUUCUGACCUCAUCUCAAACUGCAAGCUUUCAGUUUGAUUCCUGGUUAUUAUU
...........((((....))))...(((....))).....(((((.....((((((((........)))))))).....)))))..... ( -17.40)
>DroEre_CAF1 10153 90 - 1
ACGUAUCUUUAUUUGCUGGCCAAACCCAAUCCUCGUAUUCCUUACCUCAUCUCAAACUGCAAGCUUUCAGUUUGAUUCCUGGUUAUUAUU
..(((........)))((((((............(((.....)))......((((((((........))))))))....))))))..... ( -13.80)
>DroYak_CAF1 2510 90 - 1
ACGUAUCUUUAUUUGCUUCCAAAAUCCCAUCCUCGUAUUCUUGACCUCAUCUCAAACUGCAAGCUUUCAGUUUGAUUCCUGGUUAUUAUU
..(((........))).........................(((((.....((((((((........)))))))).....)))))..... ( -13.70)
>consensus
ACGUAUCUUUAUUGGCUUGCCAAAUCCCAUCCUUGUAUUUCUGACCUCAUCUCAAACUGCAAGCUUUCAGUUUGAUUCCUGGUUAUUAUU
...........((((....))))..................(((((.....((((((((........)))))))).....)))))..... (-13.64 = -14.00 +   0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:34 2006