Locus 5977

Sequence ID	X_DroMel_CAF1
Location	15,380,099 – 15,380,255
Length	156
Max. P	0.982155

overview

Window 6

Location	15,380,099 – 15,380,218
Length	119
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	88.87
Mean single sequence MFE	-20.70
Consensus MFE	-16.72
Energy contribution	-16.96
Covariance contribution	0.25
Combinations/Pair	1.00
Mean z-score	-1.36
Structure conservation index	0.81
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15380099 119 - 22224390
UUGCUCCACAUUUGCAGUCCCAUUUUCGUGGCACUGAUGAUUUAUUCAUCACGAAUCUCUAACCCACUGGCUUCCAUAGAGCUUUAACUAUAUCCCUGUCCACCUAUUAGUGUAUAUAG-
..((((.......(((((.((((....)))).)))(((((.....)))))...................)).......)))).....((((((.((((.........))).).))))))- ( -21.24)
>DroSim_CAF1 15390 119 - 1
UUGCUCCCCAUUUGCAGUCCCAUUUUCGUGGCGCUGAUGAUUUAUUCAUCACGAAUCUCUAACCCACUGGCUACCAUAGAGCUUUAACUCUAUCCCUGUCCAACUAUUAGUGUAUAUAG-
((((.........))))...((((...((((((.((((((.....))))))))..........))))((((....((((((......))))))....).)))......)))).......- ( -20.40)
>DroEre_CAF1 19966 118 - 1
UUGCUCCUCAUUUGCAGUCCCAUUUUUGUGGCGAUGAUGAUUUAUUCAUCACGAAUCUCUAACCCACUUGCUUCCACAGAGCUUUGACUAUAUUCCUGUCCACCUAU--AUUUAUAUAUU
..((((.......((((((((((....)))).)))(((((.....)))))..................))).......))))...(((.........))).......--........... ( -20.34)
>DroYak_CAF1 12122 120 - 1
UUGCUCCUCAUUUGCAGUCCCAUUUUCGUGGCGAUGAUGAUUUAUUCAUCACGAAUCUCUAACCCACUUGCUGCCAUUGAGCUUUUACUACAUUCUUGUUCACCUUUUAGUUUACAUAGU
......((((...(((((.((((....))))((.((((((.....))))))))................)))))...))))...............(((..((......))..))).... ( -20.80)
>consensus
UUGCUCCUCAUUUGCAGUCCCAUUUUCGUGGCGAUGAUGAUUUAUUCAUCACGAAUCUCUAACCCACUGGCUUCCAUAGAGCUUUAACUAUAUCCCUGUCCACCUAUUAGUGUAUAUAG_
..((((.......(((((.((((....))))((.((((((.....))))))))............))).)).......))))...................................... (-16.72 = -16.96 +   0.25)

alignment

secondary structure

dotplot

Window 7

Location	15,380,138 – 15,380,255
Length	117
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	94.51
Mean single sequence MFE	-30.60
Consensus MFE	-27.12
Energy contribution	-27.38
Covariance contribution	0.25
Combinations/Pair	1.00
Mean z-score	-3.14
Structure conservation index	0.89
SVM decision value	1.91
SVM RNA-class probability	0.982155
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15380138 117 - 22224390
CC---ACUGGGAAAACUUCACACGCCGCUUUAUGGCACACUUGCUCCACAUUUGCAGUCCCAUUUUCGUGGCACUGAUGAUUUAUUCAUCACGAAUCUCUAACCCACUGGCUUCCAUAGA
((---(.((((............(((((...((((.((...(((.........))))).))))....)))))..((((((.....))))))...........)))).))).......... ( -30.40)
>DroSim_CAF1 15429 120 - 1
CCACCACUGGGAAAACUUCACACGCCGCUUUAUGGCACACUUGCUCCCCAUUUGCAGUCCCAUUUUCGUGGCGCUGAUGAUUUAUUCAUCACGAAUCUCUAACCCACUGGCUACCAUAGA
...(((.((((...........((((((...((((.((...(((.........))))).))))....)))))).((((((.....))))))...........)))).))).......... ( -32.20)
>DroEre_CAF1 20004 117 - 1
CC---ACUGGGAAAACUUCACACGCCGCUUUAUGGCACACUUGCUCCUCAUUUGCAGUCCCAUUUUUGUGGCGAUGAUGAUUUAUUCAUCACGAAUCUCUAACCCACUUGCUUCCACAGA
..---.(((((((.........((((((...((((.((...(((.........))))).))))....)))))).((((((.....))))))....................)))).))). ( -31.20)
>DroYak_CAF1 12162 117 - 1
CC---ACUGGGAAAACUUCACACGCCGCUUUAUGGCACACUUGCUCCUCAUUUGCAGUCCCAUUUUCGUGGCGAUGAUGAUUUAUUCAUCACGAAUCUCUAACCCACUUGCUGCCAUUGA
..---..((((...........((((((...((((.((...(((.........))))).))))....)))))).((((((.....))))))...........)))).............. ( -28.60)
>consensus
CC___ACUGGGAAAACUUCACACGCCGCUUUAUGGCACACUUGCUCCUCAUUUGCAGUCCCAUUUUCGUGGCGAUGAUGAUUUAUUCAUCACGAAUCUCUAACCCACUGGCUUCCAUAGA
.......((((...........((((((...((((.((...(((.........))))).))))....)))))).((((((.....))))))...........)))).............. (-27.12 = -27.38 +   0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:05 2006