Locus 7098

Sequence ID	3R_DroMel_CAF1
Location	18,722,231 – 18,722,324
Length	93
Max. P	0.997957

overview

Window 9

Location	18,722,231 – 18,722,324
Length	93
Sequences	5
Columns	94
Reading direction	forward
Mean pairwise identity	94.00
Mean single sequence MFE	-20.88
Consensus MFE	-18.04
Energy contribution	-17.24
Covariance contribution	-0.80
Combinations/Pair	1.25
Mean z-score	-1.36
Structure conservation index	0.86
SVM decision value	0.46
SVM RNA-class probability	0.744073
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18722231 93 + 27905053
UCAAUUCAAUUGUUUUGCCUUUUUGCGCAAAUGUCCUGCAAUCACGACGCGGCCUGUUUGCCAGCCGCUUGUUUAUUUGCUUGUUUGUU-UGUA
................((......))(((((((..(.((((..((((.(((((.((.....)))))))))))....))))..)..))))-))). ( -21.70)
>DroGri_CAF1 149722 94 + 1
UCAAUUCAAUUGUUUUGCCUUUUUGCGCAAAUGUCCGGCAAUCACAGCGCGGCUUGUUUGUCUGCCGCUUGUUUAUUUGUUUGCCCAUUUUGUA
.............((((((.....).))))).....(((((.(((((.(((((..........)))))))))......).)))))......... ( -19.60)
>DroSec_CAF1 155921 93 + 1
UCAAUUCAAUUGUUUUGCCUUUUUGCGCAAAUGUCCUGCAAUCACGACGCGGCCUGUUUGCCAGUCGCUUGUUUAUUUGCUUGUUUGUU-UGUA
.(((..(((.......((......))(((((((....((((...((((..(((......))).)))).)))).)))))))....))).)-)).. ( -19.10)
>DroSim_CAF1 147566 93 + 1
UCAAUUCAAUUGUUUUGCCUUUUUGCGCAAAUGUCCUGCAAUCACGACGCGGCCUGUUUGCCAGCCGCUUGUUUAUUUGCUUGUUUGUU-UGUA
................((......))(((((((..(.((((..((((.(((((.((.....)))))))))))....))))..)..))))-))). ( -21.70)
>DroEre_CAF1 153634 93 + 1
UCAAUUCAAUUGUUUUGCCUUUUUGCGCAAAUGUCCUGCAAUCACGACGCGGCCUGUUUGCCAGCCGCUUGUUUAUUUGCUUGUUUGUU-UGUG
.........................((((((((..(.((((..((((.(((((.((.....)))))))))))....))))..)..))))-)))) ( -22.30)
>consensus
UCAAUUCAAUUGUUUUGCCUUUUUGCGCAAAUGUCCUGCAAUCACGACGCGGCCUGUUUGCCAGCCGCUUGUUUAUUUGCUUGUUUGUU_UGUA
.............((((((.....).)))))......((((..((((.(((((..(....)..)))))))))....)))).............. (-18.04 = -17.24 +  -0.80)

alignment

secondary structure

dotplot

Window 0

Location	18,722,231 – 18,722,324
Length	93
Sequences	5
Columns	94
Reading direction	reverse
Mean pairwise identity	94.00
Mean single sequence MFE	-23.64
Consensus MFE	-19.44
Energy contribution	-20.28
Covariance contribution	0.84
Combinations/Pair	1.05
Mean z-score	-3.09
Structure conservation index	0.82
SVM decision value	2.97
SVM RNA-class probability	0.997957
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18722231 93 - 27905053
UACA-AACAAACAAGCAAAUAAACAAGCGGCUGGCAAACAGGCCGCGUCGUGAUUGCAGGACAUUUGCGCAAAAAGGCAAAACAAUUGAAUUGA
....-......(((((((((......((((((........))))))(((.((....)).)))))))))((......)).......)))...... ( -25.30)
>DroGri_CAF1 149722 94 - 1
UACAAAAUGGGCAAACAAAUAAACAAGCGGCAGACAAACAAGCCGCGCUGUGAUUGCCGGACAUUUGCGCAAAAAGGCAAAACAAUUGAAUUGA
..(((....(((((.((.........(((((..........)))))....)).))))).....(((((........)))))....)))...... ( -20.62)
>DroSec_CAF1 155921 93 - 1
UACA-AACAAACAAGCAAAUAAACAAGCGACUGGCAAACAGGCCGCGUCGUGAUUGCAGGACAUUUGCGCAAAAAGGCAAAACAAUUGAAUUGA
....-......(((((((((......(((.(((.....)))..)))(((.((....)).)))))))))((......)).......)))...... ( -21.70)
>DroSim_CAF1 147566 93 - 1
UACA-AACAAACAAGCAAAUAAACAAGCGGCUGGCAAACAGGCCGCGUCGUGAUUGCAGGACAUUUGCGCAAAAAGGCAAAACAAUUGAAUUGA
....-......(((((((((......((((((........))))))(((.((....)).)))))))))((......)).......)))...... ( -25.30)
>DroEre_CAF1 153634 93 - 1
CACA-AACAAACAAGCAAAUAAACAAGCGGCUGGCAAACAGGCCGCGUCGUGAUUGCAGGACAUUUGCGCAAAAAGGCAAAACAAUUGAAUUGA
....-......(((((((((......((((((........))))))(((.((....)).)))))))))((......)).......)))...... ( -25.30)
>consensus
UACA_AACAAACAAGCAAAUAAACAAGCGGCUGGCAAACAGGCCGCGUCGUGAUUGCAGGACAUUUGCGCAAAAAGGCAAAACAAUUGAAUUGA
...........(((((((((......((((((........))))))(((.((....)).)))))))))((......)).......)))...... (-19.44 = -20.28 +   0.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:37:18 2006