Locus 2829

Sequence ID	2L_DroMel_CAF1
Location	8,095,911 – 8,096,069
Length	158
Max. P	0.731002

overview

Window 6

Location	8,095,911 – 8,096,031
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	92.73
Mean single sequence MFE	-22.51
Consensus MFE	-18.29
Energy contribution	-19.89
Covariance contribution	1.60
Combinations/Pair	1.00
Mean z-score	-1.41
Structure conservation index	0.81
SVM decision value	0.14
SVM RNA-class probability	0.602360
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8095911 120 + 22407834
UUUACCCAACAAUAUAUGAUCGCACUACUGACAGUGCCCGUCAAACAGUAGAAAACGAAAUAUAUUACACAGGCAUAAACAAUAAAUAUCGAUUUGCUGGUGAUGAUUUCGUUUAGAAUU
................((((.(((((......)))))..)))).........(((((((((.((((((...((((...................)))).)))))))))))))))...... ( -24.51)
>DroSec_CAF1 52111 120 + 1
UUUACCCAACAAUAUAUGAUCGCACUACUGACAGUGCCCGUCAAACAGCAGAAAACGAAAUAUAUUACACAGGCAUAAACAAUAAAUAUCGAUUUGCUGGUGAUGAUUUCGUUUAGAAUU
................((((.(((((......)))))..)))).........(((((((((.((((((...((((...................)))).)))))))))))))))...... ( -24.51)
>DroSim_CAF1 53336 120 + 1
UUUACCCAACAAUAUAUGAUCGCACUACUGACAGUGCCCGUCAAACAGUAGAAAACGAAAUAUAUUACACAGGCAUAAACAAUAAAUAUCGAUUUGCUGGUGAUGAAUUCGUUUAGAAUU
................((((.(((((......)))))..)))).........(((((((...((((((...((((...................)))).))))))..)))))))...... ( -21.31)
>DroEre_CAF1 52629 115 + 1
UUUCCCCAACAA----UGAUCGCACUACUGUCAGUGC-CGUCAAACAGUAGAAAACGAAAUAUAUAACACAGGCAUAAACAAUAAAUAUCGAUUUGCAUAUGUUGAUUUCGUUUAGAAUU
............----((((.(((((......)))))-.)))).........(((((((((...(((((...(((...................)))...))))))))))))))...... ( -22.11)
>DroYak_CAF1 53309 115 + 1
UUUGCCCAACAA----UGAUCGCACUACUGACAGUGCCCGUCAAACAGUAUA-AACGAAAUAUAUUACCCAGGCAUAAACAAUGAAUAUCGAUUUGCAGAUGAUGAUUUCGUUUAGAAUU
............----((((.(((((......)))))..)))).......((-((((((((.(((((.(...(((...................))).).)))))))))))))))..... ( -20.11)
>consensus
UUUACCCAACAAUAUAUGAUCGCACUACUGACAGUGCCCGUCAAACAGUAGAAAACGAAAUAUAUUACACAGGCAUAAACAAUAAAUAUCGAUUUGCUGGUGAUGAUUUCGUUUAGAAUU
................((((.(((((......)))))..)))).........(((((((((.((((((...((((...................)))).)))))))))))))))...... (-18.29 = -19.89 +   1.60)

alignment

secondary structure

dotplot

Window 7

Location	8,095,951 – 8,096,069
Length	118
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	84.09
Mean single sequence MFE	-21.75
Consensus MFE	-15.38
Energy contribution	-17.93
Covariance contribution	2.55
Combinations/Pair	1.00
Mean z-score	-1.88
Structure conservation index	0.71
SVM decision value	0.42
SVM RNA-class probability	0.731002
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8095951 118 + 22407834
UCAAACAGUAGAAAACGAAAUAUAUUACACAGGCAUAAACAAUAAAUAUCGAUUUGCUGGUGAUGAUUUCGUUUAGAAUUUCAGUCAGAAGUCAUAA--AGCUAUGAUUUCAUUCAAAGC
..........(((((((((((.((((((...((((...................)))).))))))))))))))).............(((((((((.--...)))))))))..))..... ( -25.81)
>DroSec_CAF1 52151 116 + 1
UCAAACAGCAGAAAACGAAAUAUAUUACACAGGCAUAAACAAUAAAUAUCGAUUUGCUGGUGAUGAUUUCGUUUAGAAUUUCAGUCAGAAGUCAUAA--AGCUAUGAUUUCAUUUAUA--
............(((((((((.((((((...((((...................)))).))))))))))))))).............(((((((((.--...))))))))).......-- ( -25.61)
>DroSim_CAF1 53376 118 + 1
UCAAACAGUAGAAAACGAAAUAUAUUACACAGGCAUAAACAAUAAAUAUCGAUUUGCUGGUGAUGAAUUCGUUUAGAAUUUCAGUCAGAAGGCAUAA--AGCUAUGAUUUCAUUCAAAUC
............(((((((...((((((...((((...................)))).))))))..))))))).((((...(((((...(((....--.))).)))))..))))..... ( -20.91)
>DroEre_CAF1 52664 120 + 1
UCAAACAGUAGAAAACGAAAUAUAUAACACAGGCAUAAACAAUAAAUAUCGAUUUGCAUAUGUUGAUUUCGUUUAGAAUUUCACGCAGAAGUCAUAUGUACAUAUGAUUUCAUACAAAUC
.......(((..(((((((((...(((((...(((...................)))...)))))))))))))).............((((((((((....)))))))))).)))..... ( -24.21)
>DroYak_CAF1 53345 97 + 1
UCAAACAGUAUA-AACGAAAUAUAUUACCCAGGCAUAAACAAUGAAUAUCGAUUUGCAGAUGAUGAUUUCGUUUAGAAUUUCAGACA----------------------UUAUUAAAAUC
..........((-((((((((.(((((.(...(((...................))).).)))))))))))))))............----------------------........... ( -12.21)
>consensus
UCAAACAGUAGAAAACGAAAUAUAUUACACAGGCAUAAACAAUAAAUAUCGAUUUGCUGGUGAUGAUUUCGUUUAGAAUUUCAGUCAGAAGUCAUAA__AGCUAUGAUUUCAUUCAAAUC
............(((((((((.((((((...((((...................)))).))))))))))))))).............(((((((((......)))))))))......... (-15.38 = -17.93 +   2.55)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:37:18 2006