Locus 7901

Sequence ID	3L_DroMel_CAF1
Location	21,045,791 – 21,045,951
Length	160
Max. P	0.942980

overview

Window 9

Location	21,045,791 – 21,045,911
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	94.72
Mean single sequence MFE	-31.25
Consensus MFE	-26.19
Energy contribution	-26.01
Covariance contribution	-0.19
Combinations/Pair	1.03
Mean z-score	-2.87
Structure conservation index	0.84
SVM decision value	1.22
SVM RNA-class probability	0.932628
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21045791 120 + 23771897
ACUCAUUUCCCAGUCCACAGAAAUGCACGACCACUACUGAGGAGGAAAACUCCCACUUCGUUGAAAACUAUUUCCACCCGCUGAUGACACAUUACUGUCACUCAGCGUUAUGAGCUAAAU
.(((((.............((((((..((((......((.((((.....))))))....)))).....))))))....(((((((((((......))))).))))))..)))))...... ( -27.80)
>DroSec_CAF1 101072 120 + 1
ACUCAUUUCUCAGUCCACAGAAAUGCACGGCCUCUGCUGAGGAGGAAAACUCCCACUUCGUUAGAAACUAUUUCCACCCGCUGAUGACACAUUACUGUCACUCAGCGUUAUGAGCUAAAU
.(((((((((((((((.((....))...)).....))))))))(((((........(((....)))....)))))...(((((((((((......))))).))))))..)))))...... ( -31.00)
>DroSim_CAF1 7311 120 + 1
ACUCAUUUCUCAGUACACAGAAAUGCACGGCCACUGCUGAGGAGGAAAACUCCCACUUCGUUAGAAACUAUUUCCACCCGCUGAUGACACAUUACUGUCACUCAGCGUUAUGAGCUAAAU
.((((((((((((((..((....))...(....))))))))))(((((........(((....)))....)))))...(((((((((((......))))).))))))..)))))...... ( -30.60)
>DroEre_CAF1 23109 120 + 1
ACUCAUUUCCCACUCCGUGGAAAUGCACGAACACUGCUGAGGAGGAAAACUCCCACUUCGUUAGAAACUAUUUCCACCCGCUGAUGACACAUUACUGUCACUCAGCGUUAUGAGCUAAAU
.(((((..........(((((((((....(((...(.((.((((.....)))))))...)))......))))))))).(((((((((((......))))).))))))..)))))...... ( -35.60)
>consensus
ACUCAUUUCCCAGUCCACAGAAAUGCACGACCACUGCUGAGGAGGAAAACUCCCACUUCGUUAGAAACUAUUUCCACCCGCUGAUGACACAUUACUGUCACUCAGCGUUAUGAGCUAAAU
.(((((.............((((((..........((.(((..(((....)))..))).)).......))))))....(((((((((((......))))).))))))..)))))...... (-26.19 = -26.01 +  -0.19)

alignment

secondary structure

dotplot

Window 0

Location	21,045,791 – 21,045,911
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	94.72
Mean single sequence MFE	-38.30
Consensus MFE	-34.67
Energy contribution	-33.67
Covariance contribution	-1.00
Combinations/Pair	1.15
Mean z-score	-1.96
Structure conservation index	0.91
SVM decision value	1.02
SVM RNA-class probability	0.901499
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21045791 120 - 23771897
AUUUAGCUCAUAACGCUGAGUGACAGUAAUGUGUCAUCAGCGGGUGGAAAUAGUUUUCAACGAAGUGGGAGUUUUCCUCCUCAGUAGUGGUCGUGCAUUUCUGUGGACUGGGAAAUGAGU
......(((((..((((((.(((((......))))))))))).((.((((....)))).))...))))).((((((((((.(((.((((......)))).))).)))..))))))).... ( -37.60)
>DroSec_CAF1 101072 120 - 1
AUUUAGCUCAUAACGCUGAGUGACAGUAAUGUGUCAUCAGCGGGUGGAAAUAGUUUCUAACGAAGUGGGAGUUUUCCUCCUCAGCAGAGGCCGUGCAUUUCUGUGGACUGAGAAAUGAGU
.....((((((..((((((.(((((......)))))))))))((.(((((...((((((......)))))).))))).))((.(((((.((...))...))))).)).......)))))) ( -36.80)
>DroSim_CAF1 7311 120 - 1
AUUUAGCUCAUAACGCUGAGUGACAGUAAUGUGUCAUCAGCGGGUGGAAAUAGUUUCUAACGAAGUGGGAGUUUUCCUCCUCAGCAGUGGCCGUGCAUUUCUGUGUACUGAGAAAUGAGU
.....((((((..((((((.(((((......)))))))))))(((.(.......(((....)))(((((((.....)))))..))..).)))((((((....))))))......)))))) ( -37.80)
>DroEre_CAF1 23109 120 - 1
AUUUAGCUCAUAACGCUGAGUGACAGUAAUGUGUCAUCAGCGGGUGGAAAUAGUUUCUAACGAAGUGGGAGUUUUCCUCCUCAGCAGUGUUCGUGCAUUUCCACGGAGUGGGAAAUGAGU
.....((((((..((((((.(((((......))))))))))).((((((((.((..(.((((..(((((((.....)))))..))..)))).).))))))))))..........)))))) ( -41.00)
>consensus
AUUUAGCUCAUAACGCUGAGUGACAGUAAUGUGUCAUCAGCGGGUGGAAAUAGUUUCUAACGAAGUGGGAGUUUUCCUCCUCAGCAGUGGCCGUGCAUUUCUGUGGACUGAGAAAUGAGU
.....(((.....((((((.(((((......)))))))))))((.(((((...((((((......)))))).))))).))..)))..........(((((((........)))))))... (-34.67 = -33.67 +  -1.00)

alignment

secondary structure

dotplot

Window 1

Location	21,045,831 – 21,045,951
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	97.50
Mean single sequence MFE	-40.50
Consensus MFE	-39.47
Energy contribution	-38.73
Covariance contribution	-0.75
Combinations/Pair	1.10
Mean z-score	-2.28
Structure conservation index	0.97
SVM decision value	1.33
SVM RNA-class probability	0.942980
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21045831 120 - 23771897
AAUUGUGAGGGCGCGGUUUCUUGCUGGGCUGCAUCAAUAAAUUUAGCUCAUAACGCUGAGUGACAGUAAUGUGUCAUCAGCGGGUGGAAAUAGUUUUCAACGAAGUGGGAGUUUUCCUCC
..((((((((((...((((((.(((((((((.((......)).))))))....((((((.(((((......)))))))))))))))))))).)))))).))))....((((.....)))) ( -37.60)
>DroSec_CAF1 101112 120 - 1
AAUUGUGAGGGCGCGGUUUCUUGCCGGGCUGCAUCAAUAAAUUUAGCUCAUAACGCUGAGUGACAGUAAUGUGUCAUCAGCGGGUGGAAAUAGUUUCUAACGAAGUGGGAGUUUUCCUCC
..((((((((((.((((.....)))).))).....((.....))..)))))))((((((.(((((......)))))))))))((.(((((...((((((......)))))).))))).)) ( -39.40)
>DroSim_CAF1 7351 119 - 1
AAUUGUGAGGGCGCGGUUUC-UGCCGGGCUGCAUCAAUAAAUUUAGCUCAUAACGCUGAGUGACAGUAAUGUGUCAUCAGCGGGUGGAAAUAGUUUCUAACGAAGUGGGAGUUUUCCUCC
..((((..(((.((.(((((-..((((((((.((......)).))))))....((((((.(((((......)))))))))))))..))))).)).))).))))....((((.....)))) ( -41.30)
>DroEre_CAF1 23149 120 - 1
AAUUGUGAGGGCGCGGCUUCUUGCCGUGCUGCAUCAAUAAAUUUAGCUCAUAACGCUGAGUGACAGUAAUGUGUCAUCAGCGGGUGGAAAUAGUUUCUAACGAAGUGGGAGUUUUCCUCC
..(((((((((((((((.....)))))))).....((.....))..)))))))((((((.(((((......)))))))))))((.(((((...((((((......)))))).))))).)) ( -43.70)
>consensus
AAUUGUGAGGGCGCGGUUUCUUGCCGGGCUGCAUCAAUAAAUUUAGCUCAUAACGCUGAGUGACAGUAAUGUGUCAUCAGCGGGUGGAAAUAGUUUCUAACGAAGUGGGAGUUUUCCUCC
..((((((((((.((((.....)))).))).....((.....))..)))))))((((((.(((((......)))))))))))((.(((((...((((((......)))))).))))).)) (-39.47 = -38.73 +  -0.75)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:00:08 2006