Locus 7529

Sequence ID	2L_DroMel_CAF1
Location	20,897,393 – 20,897,497
Length	104
Max. P	0.714993

overview

Window 1

Location	20,897,393 – 20,897,497
Length	104
Sequences	5
Columns	104
Reading direction	forward
Mean pairwise identity	84.28
Mean single sequence MFE	-22.38
Consensus MFE	-14.64
Energy contribution	-16.08
Covariance contribution	1.44
Combinations/Pair	1.06
Mean z-score	-1.85
Structure conservation index	0.65
SVM decision value	0.13
SVM RNA-class probability	0.599525
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20897393 104 + 22407834
UUGAUCCCCGCCAUAUGGCGAUUAUUCAAAAUGGGCAAAAAUUAUAUAGCACUGCGCAGGCAUUUUGUAGCUAAUUUGCCACAAAAUUCGACACUUAAUAUGCA
((((....((((....)))).....)))).....(((...........((.((....))))(((((((.((......)).))))))).............))). ( -20.70)
>DroSec_CAF1 92492 104 + 1
UUGAUCCCCGCCAUAUGGCGAUUAUUCAAAAUAGUCAAAAAUUACCUAGCACUGCGCCGACAUUUUGUGGCUCAUUUGCCACAAAAUUCGACACUUAAUAUGCA
((((....((((....)))).....))))....(((............((.....)).((.((((((((((......)))))))))))))))............ ( -27.30)
>DroSim_CAF1 84658 104 + 1
UUGAUCCCCGCCAUAUGGCGAUUAUUCAAAAUAGUCAAAAAUUACAUAGCACUGCGCAGGCAUUUUGUGUCUAAUUUGCCACAAAAUUCGACACUUAAUAUGCA
.........(((....)))((((((.....))))))............((.....))..((((...(((((.(((((......))))).))))).....)))). ( -22.90)
>DroEre_CAF1 82168 101 + 1
UUGAUCCCCGCCACAUGGCAAUAACUCAAAAUAGG-GAAAAUUAUAUAGCGCAGCGCAGGCAUUUUGUGGCUAAUUUGCCACU--AUUCGACACUUAAUAUGCA
....((((.(((....)))..((........))))-))............(((((....)).....(((((......))))).--...............))). ( -21.10)
>DroYak_CAF1 73426 89 + 1
UUGAUCCCCGCCACAUGGCCGGA-------------AAAAAUUAAAUAGCACAGUGCAGGCAUUUUGUGGCUAAUUUGCCACU--AUUCGACACUUAAUAUUCA
......((.(((....))).)).-------------........((((....((((..((.((...(((((......))))).--))))..))))...)))).. ( -19.90)
>consensus
UUGAUCCCCGCCAUAUGGCGAUUAUUCAAAAUAGGCAAAAAUUACAUAGCACUGCGCAGGCAUUUUGUGGCUAAUUUGCCACAAAAUUCGACACUUAAUAUGCA
.........(((....))).............................((.....)).((.((((((((((......))))))))))))............... (-14.64 = -16.08 +   1.44)

alignment

secondary structure

dotplot

Window 2

Location	20,897,393 – 20,897,497
Length	104
Sequences	5
Columns	104
Reading direction	reverse
Mean pairwise identity	84.28
Mean single sequence MFE	-27.08
Consensus MFE	-19.88
Energy contribution	-20.88
Covariance contribution	1.00
Combinations/Pair	1.21
Mean z-score	-1.80
Structure conservation index	0.73
SVM decision value	0.38
SVM RNA-class probability	0.714993
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20897393 104 - 22407834
UGCAUAUUAAGUGUCGAAUUUUGUGGCAAAUUAGCUACAAAAUGCCUGCGCAGUGCUAUAUAAUUUUUGCCCAUUUUGAAUAAUCGCCAUAUGGCGGGGAUCAA
.((((.....((((.(.((((((((((......))))))))))..).)))).)))).............(((.....((....))(((....))))))...... ( -27.20)
>DroSec_CAF1 92492 104 - 1
UGCAUAUUAAGUGUCGAAUUUUGUGGCAAAUGAGCCACAAAAUGUCGGCGCAGUGCUAGGUAAUUUUUGACUAUUUUGAAUAAUCGCCAUAUGGCGGGGAUCAA
.((((.....(((((((((((((((((......)))))))))).))))))).))))...................((((....(((((....)))))...)))) ( -35.10)
>DroSim_CAF1 84658 104 - 1
UGCAUAUUAAGUGUCGAAUUUUGUGGCAAAUUAGACACAAAAUGCCUGCGCAGUGCUAUGUAAUUUUUGACUAUUUUGAAUAAUCGCCAUAUGGCGGGGAUCAA
((((((.((.((((.(.((((((((..........))))))))..).))))..)).)))))).............((((....(((((....)))))...)))) ( -24.10)
>DroEre_CAF1 82168 101 - 1
UGCAUAUUAAGUGUCGAAU--AGUGGCAAAUUAGCCACAAAAUGCCUGCGCUGCGCUAUAUAAUUUUC-CCUAUUUUGAGUUAUUGCCAUGUGGCGGGGAUCAA
.((((.....)))).....--.(((((......)))))...((.(((((((((.((...(((((((..-........))))))).)))).)).))))).))... ( -24.20)
>DroYak_CAF1 73426 89 - 1
UGAAUAUUAAGUGUCGAAU--AGUGGCAAAUUAGCCACAAAAUGCCUGCACUGUGCUAUUUAAUUUUU-------------UCCGGCCAUGUGGCGGGGAUCAA
((((((...(((((.(.((--.(((((......)))))...))..).)))))....)))))).....(-------------(((.(((....))).)))).... ( -24.80)
>consensus
UGCAUAUUAAGUGUCGAAUUUUGUGGCAAAUUAGCCACAAAAUGCCUGCGCAGUGCUAUAUAAUUUUUGACUAUUUUGAAUAAUCGCCAUAUGGCGGGGAUCAA
..........((((...((((((((((......))))))))))....))))................................(((((....)))))....... (-19.88 = -20.88 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:39:03 2006