Locus 1190

Sequence ID	2L_DroMel_CAF1
Location	3,228,489 – 3,228,593
Length	104
Max. P	0.910248

overview

Window 7

Location	3,228,489 – 3,228,593
Length	104
Sequences	5
Columns	105
Reading direction	forward
Mean pairwise identity	93.79
Mean single sequence MFE	-27.84
Consensus MFE	-25.28
Energy contribution	-25.32
Covariance contribution	0.04
Combinations/Pair	1.04
Mean z-score	-1.41
Structure conservation index	0.91
SVM decision value	1.07
SVM RNA-class probability	0.910248
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3228489 104 + 22407834
GAUG-UCUUUUUUCGCAGUGUAAGGGAGCUGCUUGUGUGCCUGGCGGUGCUGUUGAAUAUUGAACAAACAGCAAUGGUAAUUUGAAGAUUAUAAAUCGCAACAUA
....-.........(((((........))))).(((((.....(((((((((((............))))))....((((((....))))))..))))).))))) ( -24.00)
>DroSec_CAF1 62539 99 + 1
------UUUUUGUGGCAGUGUAAGGGAGCUGCUUGUGUGCCUGGCGGUGCUGUUGAAUAUUGAACAAACAGCACUGGUAAUUUGAAGAUUAUAAAUCGCAACAUA
------.......((((((........))))))(((((((....((((((((((............))))))))))((((((....)))))).....)).))))) ( -28.10)
>DroSim_CAF1 61051 105 + 1
GAUGCUAUUUUGUCGCAGUGUAAGGGAGCUGCUUGUGUGCCUGGCGGUGCUGUUGAAUAUUGAACAAACAGCACUGGUAAUUUGAAGAUUAUAAAUCGCAACAUA
..(((.((((.((((((((........))))).........((.((((((((((............)))))))))).)).......)))...)))).)))..... ( -28.70)
>DroEre_CAF1 59021 104 + 1
GAUGC-CUUUUUUGGCAGUGUAAGGGAGUUGCUCGUGUGCCUGGCGGUGCUGUUGAAUAUUGAACAAACAGCACUGGUAAUUUGAAGAUUAUAAAUCGCAACAUA
..(((-(......))))..........((((((((..((((....(((((((((............)))))))))))))...))).(((.....))))))))... ( -30.30)
>DroYak_CAF1 57956 103 + 1
GAUGC--UUUUGUGGCAGUGUAAGGAAGCUGCUUGUGUGCCUGGCGGUGCUGUUGAAUAUUGAACAAACAGCACUGGUAAUUUGAAGAUUAUAAAUCGCAACAUA
.....--......((((((........))))))(((((((....((((((((((............))))))))))((((((....)))))).....)).))))) ( -28.10)
>consensus
GAUGC_CUUUUGUGGCAGUGUAAGGGAGCUGCUUGUGUGCCUGGCGGUGCUGUUGAAUAUUGAACAAACAGCACUGGUAAUUUGAAGAUUAUAAAUCGCAACAUA
..............(((((........)))))..((((((....((((((((((............))))))))))((((((....)))))).....)).)))). (-25.28 = -25.32 +   0.04)

alignment

secondary structure

dotplot

Window 8

Location	3,228,489 – 3,228,593
Length	104
Sequences	5
Columns	105
Reading direction	reverse
Mean pairwise identity	93.79
Mean single sequence MFE	-18.60
Consensus MFE	-15.90
Energy contribution	-16.14
Covariance contribution	0.24
Combinations/Pair	1.05
Mean z-score	-1.21
Structure conservation index	0.85
SVM decision value	-0.05
SVM RNA-class probability	0.505783
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3228489 104 - 22407834
UAUGUUGCGAUUUAUAAUCUUCAAAUUACCAUUGCUGUUUGUUCAAUAUUCAACAGCACCGCCAGGCACACAAGCAGCUCCCUUACACUGCGAAAAAAGA-CAUC
..(((((((((.....))).............(((((((.(........).))))))).......))).))).((((..........)))).........-.... ( -15.20)
>DroSec_CAF1 62539 99 - 1
UAUGUUGCGAUUUAUAAUCUUCAAAUUACCAGUGCUGUUUGUUCAAUAUUCAACAGCACCGCCAGGCACACAAGCAGCUCCCUUACACUGCCACAAAAA------
..(((((((((.....)))............((((((((.(........).))))))))......))).))).((((..........))))........------ ( -17.30)
>DroSim_CAF1 61051 105 - 1
UAUGUUGCGAUUUAUAAUCUUCAAAUUACCAGUGCUGUUUGUUCAAUAUUCAACAGCACCGCCAGGCACACAAGCAGCUCCCUUACACUGCGACAAAAUAGCAUC
..(((((((......................((((((((.(........).)))))))).((...((......)).))..........))))))).......... ( -20.80)
>DroEre_CAF1 59021 104 - 1
UAUGUUGCGAUUUAUAAUCUUCAAAUUACCAGUGCUGUUUGUUCAAUAUUCAACAGCACCGCCAGGCACACGAGCAACUCCCUUACACUGCCAAAAAAG-GCAUC
...((((((((.....)))............((((((((.(........).))))))))..............)))))..........((((......)-))).. ( -21.70)
>DroYak_CAF1 57956 103 - 1
UAUGUUGCGAUUUAUAAUCUUCAAAUUACCAGUGCUGUUUGUUCAAUAUUCAACAGCACCGCCAGGCACACAAGCAGCUUCCUUACACUGCCACAAAA--GCAUC
.((((((((.....((((......))))...((((((((.(........).)))))))))))..((((...(((.......)))....)))).....)--)))). ( -18.00)
>consensus
UAUGUUGCGAUUUAUAAUCUUCAAAUUACCAGUGCUGUUUGUUCAAUAUUCAACAGCACCGCCAGGCACACAAGCAGCUCCCUUACACUGCCACAAAAG_GCAUC
..(((((((((.....)))............((((((((.(........).))))))))......))).))).((((..........)))).............. (-15.90 = -16.14 +   0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:55:51 2006