Locus 6711

Sequence ID	X_DroMel_CAF1
Location	16,736,603 – 16,736,817
Length	214
Max. P	0.944130

overview

Window 7

Location	16,736,603 – 16,736,704
Length	101
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	81.02
Mean single sequence MFE	-24.16
Consensus MFE	-17.18
Energy contribution	-16.14
Covariance contribution	-1.04
Combinations/Pair	1.26
Mean z-score	-2.22
Structure conservation index	0.71
SVM decision value	1.34
SVM RNA-class probability	0.944130
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16736603 101 + 22224390
UUGUAUUAUCAGCAUGUG-------------------UCUACAUACCAGGCUCUGGGUCUUUGAGUUUAAUGUAUUCAAACAUUGAACUUUUAUUUACUGUGCAAGUGACCAUAAUGUUG
.........(((((((.(-------------------(((.......)))).)..((((...(((((((((((......)))))))))))......(((.....)))))))...)))))) ( -23.10)
>DroSec_CAF1 24248 94 + 1
-----CUAUCAGCAUGUG-------------------UCUACAUACCAGGC--UGGGUCUUUGAGUUUAAUGUAUUCAAACAUUGAACUUUUAUUUACUGUGCAAGUGACCAUAAUGCUG
-----....((((((..(-------------------(((.......))))--..((((...(((((((((((......)))))))))))......(((.....)))))))...)))))) ( -25.20)
>DroSim_CAF1 22617 94 + 1
-----CUAUCAGCAUGUG-------------------UCUACAUACCAGGC--UGGGUCUUUGAGUUUAAUGUAUUCAAACAUUGAACUUUUAUUUACUGUGCAAGUGACCAUAAUGCUG
-----....((((((..(-------------------(((.......))))--..((((...(((((((((((......)))))))))))......(((.....)))))))...)))))) ( -25.20)
>DroEre_CAF1 15623 105 + 1
-----UUAUCAGUACAUAUCUACUAUAUCUAC-----UAUACAUGCCAGGC--UGGGUCUUUAAGUUUAAUGUAUUCAAACAUUGAACUUUUAUUUGCUGUGCAAGUGACCAUAAU---G
-----.....((((.((((.....)))).)))-----).............--..((((...(((((((((((......)))))))))))..((((((...)))))))))).....---. ( -21.20)
>DroYak_CAF1 15652 109 + 1
-----UUAUCAGCACAUA-CUCGUAUAAGUAUAAGUAUCUACAUACUAGGC--UGGGUCUUUAAGUUUAAUGUAUUCAAACAUUGAACUUUUAUUUACUGUGCAAGUGACCAUAAU---G
-----....((((..(((-((......))))).(((((....)))))..))--))((((...(((((((((((......)))))))))))......(((.....))))))).....---. ( -26.10)
>consensus
_____UUAUCAGCAUGUG___________________UCUACAUACCAGGC__UGGGUCUUUGAGUUUAAUGUAUUCAAACAUUGAACUUUUAUUUACUGUGCAAGUGACCAUAAUG_UG
...........(((((.............................(((.....)))......(((((((((((......)))))))))))........)))))................. (-17.18 = -16.14 +  -1.04)

alignment

secondary structure

dotplot

Window 8

Location	16,736,603 – 16,736,704
Length	101
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	81.02
Mean single sequence MFE	-20.18
Consensus MFE	-13.72
Energy contribution	-13.12
Covariance contribution	-0.60
Combinations/Pair	1.17
Mean z-score	-1.55
Structure conservation index	0.68
SVM decision value	-0.02
SVM RNA-class probability	0.521120
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16736603 101 - 22224390
CAACAUUAUGGUCACUUGCACAGUAAAUAAAAGUUCAAUGUUUGAAUACAUUAAACUCAAAGACCCAGAGCCUGGUAUGUAGA-------------------CACAUGCUGAUAAUACAA
....((((((((((((.....))).......((((.(((((......))))).))))....))))........(((((((...-------------------.))))))).))))).... ( -17.40)
>DroSec_CAF1 24248 94 - 1
CAGCAUUAUGGUCACUUGCACAGUAAAUAAAAGUUCAAUGUUUGAAUACAUUAAACUCAAAGACCCA--GCCUGGUAUGUAGA-------------------CACAUGCUGAUAG-----
((((((....(((((.(((.(((........((((.(((((......))))).))))..........--..)))))).)).))-------------------)..))))))....----- ( -19.75)
>DroSim_CAF1 22617 94 - 1
CAGCAUUAUGGUCACUUGCACAGUAAAUAAAAGUUCAAUGUUUGAAUACAUUAAACUCAAAGACCCA--GCCUGGUAUGUAGA-------------------CACAUGCUGAUAG-----
((((((....(((((.(((.(((........((((.(((((......))))).))))..........--..)))))).)).))-------------------)..))))))....----- ( -19.75)
>DroEre_CAF1 15623 105 - 1
C---AUUAUGGUCACUUGCACAGCAAAUAAAAGUUCAAUGUUUGAAUACAUUAAACUUAAAGACCCA--GCCUGGCAUGUAUA-----GUAGAUAUAGUAGAUAUGUACUGAUAA-----
.---.....((((..((((...))))....(((((.(((((......))))).)))))...))))((--(....((((((.((-----.((....)).)).)))))).)))....----- ( -21.30)
>DroYak_CAF1 15652 109 - 1
C---AUUAUGGUCACUUGCACAGUAAAUAAAAGUUCAAUGUUUGAAUACAUUAAACUUAAAGACCCA--GCCUAGUAUGUAGAUACUUAUACUUAUACGAG-UAUGUGCUGAUAA-----
.---.....(((((((.....)))......(((((.(((((......))))).)))))...))))((--((..(((((....)))))(((((((....)))-)))).))))....----- ( -22.70)
>consensus
CA_CAUUAUGGUCACUUGCACAGUAAAUAAAAGUUCAAUGUUUGAAUACAUUAAACUCAAAGACCCA__GCCUGGUAUGUAGA___________________CACAUGCUGAUAA_____
.........((((..((((...)))).....((((.(((((......))))).))))....))))........(((((((.......................))))))).......... (-13.72 = -13.12 +  -0.60)

alignment

secondary structure

dotplot

Window 9

Location	16,736,704 – 16,736,817
Length	113
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	93.52
Mean single sequence MFE	-26.26
Consensus MFE	-20.91
Energy contribution	-20.83
Covariance contribution	-0.08
Combinations/Pair	1.07
Mean z-score	-2.07
Structure conservation index	0.80
SVM decision value	1.20
SVM RNA-class probability	0.929317
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16736704 113 - 22224390
GGUUUUGCAUAAAAGUACAAAAAGCAUUCGUGUUUACAAAUCAAUAAUGCAAAAAUCCGCACAGUGGGCGUAAUCAACAACCGUUGC-------GACCACGCCCUCUCCUUCCUCAUCAU
((((((((((...........(((((....)))))...........))))))))..))....((.((((((...((((....)))).-------....)))))).))............. ( -23.45)
>DroSec_CAF1 24342 113 - 1
GGUUUUGCAUAAAUGUACAAAAAGCAUUCGUGUUUACAAAUCAAUAAUGCAAAAAUCCGCACGGUGGGCGUAAUCAACAACCGUUGC-------GACCACGCCCUCCCCUUCCUCAUCAU
((((((((((.(.((......(((((....)))))......)).).))))))))..))....((.((((((...((((....)))).-------....)))))).))............. ( -26.60)
>DroSim_CAF1 22711 113 - 1
GGUUUUGCAUAAAUGUACAAAAAGCAUUCGUGUUUACAAAUCAAUAAUGCAAAAAUCCGCACGGUGGGCGUAAUCAACAACCGUUGC-------GACCACGCCCUCCCCUUCCUCAUCAU
((((((((((.(.((......(((((....)))))......)).).))))))))..))....((.((((((...((((....)))).-------....)))))).))............. ( -26.60)
>DroEre_CAF1 15728 111 - 1
GGUUUUGCAUAAAAGUACAAAGAGCACUAGUGUUUACAAAUCAAUAAUGCAAAAAUCCGCAUG-UGGGCGUAAUCAACAACCGUUGC-------GACCACGCCCUCC-CUUCCUCAUCAU
((((((((((...........(((((....)))))...........))))))))..)).....-.((((((...((((....)))).-------....))))))...-............ ( -23.65)
>DroYak_CAF1 15761 120 - 1
GGUUUUGCAUAAAAGUACAAAAAGCAUUUGUGUUUACAAAUCAAUAAUGCAAAAAUCCGCAUGGUAGGCGUAAUCAACAACCGUUGCUGUUGUUGACCACGCCCUCCCCUUCCUCAUCAU
(((((.(((((((.((.......)).)))))))....)))))....((((........))))((..(((((..((((((((.......))))))))..)))))..))............. ( -31.00)
>consensus
GGUUUUGCAUAAAAGUACAAAAAGCAUUCGUGUUUACAAAUCAAUAAUGCAAAAAUCCGCACGGUGGGCGUAAUCAACAACCGUUGC_______GACCACGCCCUCCCCUUCCUCAUCAU
((((((((((...........(((((....)))))...........))))))))..))....((.((((((...((((....))))............)))))).))............. (-20.91 = -20.83 +  -0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:20:30 2006