Locus 3657

Sequence ID	2L_DroMel_CAF1
Location	10,620,433 – 10,620,541
Length	108
Max. P	0.898397

overview

Window 9

Location	10,620,433 – 10,620,541
Length	108
Sequences	6
Columns	113
Reading direction	forward
Mean pairwise identity	79.07
Mean single sequence MFE	-29.82
Consensus MFE	-24.24
Energy contribution	-23.47
Covariance contribution	-0.78
Combinations/Pair	1.26
Mean z-score	-1.66
Structure conservation index	0.81
SVM decision value	1.00
SVM RNA-class probability	0.898397
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10620433 108 + 22407834
GUGUUCGUCAGUUAAUA----AAAUACUUUUUAUUCUGCUG-UGCAGGUGGGCUCCAUGCUCAUCAAUCGAGUGACCAACACGGACAUGACCUGGCACCAGGAGGUCACCAAU
.(((....((((.((((----(((....)))))))..))))-.)))(((((((.....)))))))....(.((((((..((......)).((((....)))).)))))))... ( -34.00)
>DroVir_CAF1 59648 106 + 1
AUUUUCAUG--UGCCUAU---AU-UAUAUUUUCAUUUGCCC-UGCAGGUUGGCUCCAUGUUAAUCAAUCGCGUGGCCAACACGGAUAUGACUUGGCACCAGGAGGUCACCAAU
((((((..(--((((...---.(-(((((((....((((..-.))))((((((..(((((.........)))))))))))..))))))))...)))))..))))))....... ( -27.00)
>DroSec_CAF1 496 104 + 1
UAGUUCAUCAGUUCAUGA---AAACACUUUU-----UGCUG-UGCAGGUGGGCUCCAUGCUCAUCAAUCGAGUGACCAACACGGACAUGACCUGGCACCAGGAGGUCACCAAU
...(((((......))))---)..(((....-----....)-))..(((((((.....)))))))....(.((((((..((......)).((((....)))).)))))))... ( -29.40)
>DroSim_CAF1 531 104 + 1
GAGUUCAUCAGUUCUUAA---AAAUACUUUU-----UGCUG-UACAGGUGGGCUCCAUGCUCAUCAAUCGAGUGACCAACACGGACAUGACCUGGCACCAGGAGGUCACCAAU
((((....((((....((---((....))))-----.))))-.)).(((((((.....)))))))..))(.((((((..((......)).((((....)))).)))))))... ( -28.70)
>DroEre_CAF1 989 112 + 1
CAGUCCAUUGGUUAUUAACUAAAACAUUUCCAAUUCUGCUG-UGCAGGUGGGCUCCAUGCUCAUCAAUCGAGUGACCAACACGGACAUGACCUGGCACCAGGAGGUCACCAAU
..((((.(((((((((....................(((..-.)))(((((((.....))))))).....)))))))))...)))).((((((.........))))))..... ( -32.40)
>DroMoj_CAF1 57293 108 + 1
AUAUUUAAA--UGCAUGU---AUAUACAUUUAUAUGUACUCACACAGGUCGGCUCCAUGUUAAUCAAUCGCGUGGCCAACACAGACAUGACCUGGCACCAGGAGGUCACAAAU
.........--.((..((---(((((......))))))).......(((..((.....))..)))....))((((((....((....)).((((....)))).)))))).... ( -27.40)
>consensus
AAGUUCAUCAGUUCAUAA___AAAUACUUUU___U_UGCUG_UGCAGGUGGGCUCCAUGCUCAUCAAUCGAGUGACCAACACGGACAUGACCUGGCACCAGGAGGUCACCAAU
..............................................(((((((.....)))))))......((((((....((....)).((((....)))).)))))).... (-24.24 = -23.47 +  -0.78)

alignment

secondary structure

dotplot

Window 0

Location	10,620,433 – 10,620,541
Length	108
Sequences	6
Columns	113
Reading direction	reverse
Mean pairwise identity	79.07
Mean single sequence MFE	-30.60
Consensus MFE	-21.59
Energy contribution	-21.53
Covariance contribution	-0.05
Combinations/Pair	1.16
Mean z-score	-1.14
Structure conservation index	0.71
SVM decision value	0.11
SVM RNA-class probability	0.586862
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10620433 108 - 22407834
AUUGGUGACCUCCUGGUGCCAGGUCAUGUCCGUGUUGGUCACUCGAUUGAUGAGCAUGGAGCCCACCUGCA-CAGCAGAAUAAAAAGUAUUU----UAUUAACUGACGAACAC
.(((((.(((....))))))))((((..((((((((.((((......)))).))))))))......((((.-..))))(((((((....)))----))))...))))...... ( -31.70)
>DroVir_CAF1 59648 106 - 1
AUUGGUGACCUCCUGGUGCCAAGUCAUAUCCGUGUUGGCCACGCGAUUGAUUAACAUGGAGCCAACCUGCA-GGGCAAAUGAAAAUAUA-AU---AUAGGCA--CAUGAAAAU
.(((((.(((....)))))))).((((.(((((((((..((......))..)))))))))(((..((....-))....((....))...-..---...))).--.)))).... ( -28.30)
>DroSec_CAF1 496 104 - 1
AUUGGUGACCUCCUGGUGCCAGGUCAUGUCCGUGUUGGUCACUCGAUUGAUGAGCAUGGAGCCCACCUGCA-CAGCA-----AAAAGUGUUU---UCAUGAACUGAUGAACUA
...((((....((((....)))).....((((((((.((((......)))).))))))))...)))).(((-(....-----....)))).(---((((......)))))... ( -30.90)
>DroSim_CAF1 531 104 - 1
AUUGGUGACCUCCUGGUGCCAGGUCAUGUCCGUGUUGGUCACUCGAUUGAUGAGCAUGGAGCCCACCUGUA-CAGCA-----AAAAGUAUUU---UUAAGAACUGAUGAACUC
.(((.(((((....)))..(((((....((((((((.((((......)))).))))))))....)))))..-)).))-----).........---.................. ( -27.90)
>DroEre_CAF1 989 112 - 1
AUUGGUGACCUCCUGGUGCCAGGUCAUGUCCGUGUUGGUCACUCGAUUGAUGAGCAUGGAGCCCACCUGCA-CAGCAGAAUUGGAAAUGUUUUAGUUAAUAACCAAUGGACUG
((((((......(((((((.((((....((((((((.((((......)))).))))))))....)))))))-)..)))(((((((.....)))))))....))))))...... ( -34.20)
>DroMoj_CAF1 57293 108 - 1
AUUUGUGACCUCCUGGUGCCAGGUCAUGUCUGUGUUGGCCACGCGAUUGAUUAACAUGGAGCCGACCUGUGUGAGUACAUAUAAAUGUAUAU---ACAUGCA--UUUAAAUAU
...(((((((....)))((((((((...(((((((((..((......))..)))))))))...)))))).)).....))))(((((((((..---..)))))--))))..... ( -30.60)
>consensus
AUUGGUGACCUCCUGGUGCCAGGUCAUGUCCGUGUUGGUCACUCGAUUGAUGAGCAUGGAGCCCACCUGCA_CAGCA_A___AAAAGUAUUU___UUAUGAACUGAUGAACAC
..((((.(((....)))))))(((....((((((((.((((......)))).))))))))....)))(((....))).................................... (-21.59 = -21.53 +  -0.05)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:57 2006