Locus 7560

Sequence ID	X_DroMel_CAF1
Location	18,832,046 – 18,832,157
Length	111
Max. P	0.995790

overview

Window 8

Location	18,832,046 – 18,832,157
Length	111
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	94.74
Mean single sequence MFE	-30.38
Consensus MFE	-26.62
Energy contribution	-26.95
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-2.71
Structure conservation index	0.88
SVM decision value	2.62
SVM RNA-class probability	0.995790
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18832046 111 + 22224390
UUACUUAUAUUCAUAUCC------AUAUCCUUUUGCUGGAACG---CAGCUGCAGCUGCCGCAAAUUGCGGCACGACUUGUGGCAUGCUCCACUUUUAUUAACUUUUUAAUGCAGCAAUG
..................------........((((((....(---((((..((((((((((.....)))))).).).))..)).)))........((((((....)))))))))))).. ( -30.00)
>DroPse_CAF1 93132 112 + 1
UUACUCAUAUUCAUAUCC------AUAUCCUUU--CUGGCAUGGAGCCGCUGCAGCUGCCGCAAAUUGCGGCACGACUUGUGGCAUGCUCCACUUUUAUUAACUUUUUAAUGCAGCAAUG
...............(((------((..((...--..)).)))))...(((((((.((((((.....))))))).....((((......)))).................)))))).... ( -32.30)
>DroSec_CAF1 68900 111 + 1
UUAGUUAUAUUCAUAUCC------AUAUCCUUUUGCUGGAACG---CAGCUGCAGCUGCCGCAAAUUGCGGCACGACUUGUGGCAUGCUCCACUUUUAUUAACUUUUUAAUGCAGCAAUG
..................------........((((((....(---((((..((((((((((.....)))))).).).))..)).)))........((((((....)))))))))))).. ( -30.00)
>DroSim_CAF1 49116 111 + 1
UUACUUAUAUUCAUAUCC------AUAUCCUUUUGCUGGAACG---CAGCUGCAGCUGCCGCAAAUUGCGGCACGACUUGUGGCAUGCUCCACUUUUAUUAACUUUUUAAUGCAGCAAUG
..................------........((((((....(---((((..((((((((((.....)))))).).).))..)).)))........((((((....)))))))))))).. ( -30.00)
>DroEre_CAF1 66628 117 + 1
UUACUUAUAUUCAUAUCCAUAUCCAUAUCCUUUUGCUGGAACG---CAGCUGCAGCUGCCGCAAAUUGCGGCACGACUUGUGGCAUGCUCCACUUUUAUUAACUUUUUAAUGCAGCAAUG
................................((((((....(---((((..((((((((((.....)))))).).).))..)).)))........((((((....)))))))))))).. ( -30.00)
>DroYak_CAF1 65718 111 + 1
UUACUUAUAUUCAUAUCC------AUAUCGCUUUGCUGGAACG---CAGCUGCAGCUGCCGCAAAUUGCGGCACGACUUGUGGCAUGCUCCACUUUUAUUAACUUUUUAAUGCAGCAAUG
..................------........((((((....(---((((..((((((((((.....)))))).).).))..)).)))........((((((....)))))))))))).. ( -30.00)
>consensus
UUACUUAUAUUCAUAUCC______AUAUCCUUUUGCUGGAACG___CAGCUGCAGCUGCCGCAAAUUGCGGCACGACUUGUGGCAUGCUCCACUUUUAUUAACUUUUUAAUGCAGCAAUG
...........................(((.......)))........(((((((.((((((.....))))))).....((((......)))).................)))))).... (-26.62 = -26.95 +   0.33)

alignment

secondary structure

dotplot

Window 9

Location	18,832,046 – 18,832,157
Length	111
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	94.74
Mean single sequence MFE	-31.48
Consensus MFE	-26.98
Energy contribution	-27.01
Covariance contribution	0.03
Combinations/Pair	1.04
Mean z-score	-2.15
Structure conservation index	0.86
SVM decision value	1.26
SVM RNA-class probability	0.937365
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18832046 111 - 22224390
CAUUGCUGCAUUAAAAAGUUAAUAAAAGUGGAGCAUGCCACAAGUCGUGCCGCAAUUUGCGGCAGCUGCAGCUG---CGUUCCAGCAAAAGGAUAU------GGAUAUGAAUAUAAGUAA
....(((((..................((((......)))).(((..((((((.....))))))))))))))..---(((((((.(.....)...)------))).)))........... ( -30.40)
>DroPse_CAF1 93132 112 - 1
CAUUGCUGCAUUAAAAAGUUAAUAAAAGUGGAGCAUGCCACAAGUCGUGCCGCAAUUUGCGGCAGCUGCAGCGGCUCCAUGCCAG--AAAGGAUAU------GGAUAUGAAUAUGAGUAA
..(((((((..................((((......)))).(((..((((((.....)))))))))))))))).((((((((..--...)).)))------)))............... ( -35.80)
>DroSec_CAF1 68900 111 - 1
CAUUGCUGCAUUAAAAAGUUAAUAAAAGUGGAGCAUGCCACAAGUCGUGCCGCAAUUUGCGGCAGCUGCAGCUG---CGUUCCAGCAAAAGGAUAU------GGAUAUGAAUAUAACUAA
....(((((..................((((......)))).(((..((((((.....))))))))))))))..---(((((((.(.....)...)------))).)))........... ( -30.40)
>DroSim_CAF1 49116 111 - 1
CAUUGCUGCAUUAAAAAGUUAAUAAAAGUGGAGCAUGCCACAAGUCGUGCCGCAAUUUGCGGCAGCUGCAGCUG---CGUUCCAGCAAAAGGAUAU------GGAUAUGAAUAUAAGUAA
....(((((..................((((......)))).(((..((((((.....))))))))))))))..---(((((((.(.....)...)------))).)))........... ( -30.40)
>DroEre_CAF1 66628 117 - 1
CAUUGCUGCAUUAAAAAGUUAAUAAAAGUGGAGCAUGCCACAAGUCGUGCCGCAAUUUGCGGCAGCUGCAGCUG---CGUUCCAGCAAAAGGAUAUGGAUAUGGAUAUGAAUAUAAGUAA
....(((((..................((((......)))).(((..((((((.....))))))))))))))((---(......)))......(((..((((........))))..))). ( -31.40)
>DroYak_CAF1 65718 111 - 1
CAUUGCUGCAUUAAAAAGUUAAUAAAAGUGGAGCAUGCCACAAGUCGUGCCGCAAUUUGCGGCAGCUGCAGCUG---CGUUCCAGCAAAGCGAUAU------GGAUAUGAAUAUAAGUAA
....(((((..................((((......)))).(((..((((((.....))))))))))))))..---(((((((.(.....)...)------))).)))........... ( -30.50)
>consensus
CAUUGCUGCAUUAAAAAGUUAAUAAAAGUGGAGCAUGCCACAAGUCGUGCCGCAAUUUGCGGCAGCUGCAGCUG___CGUUCCAGCAAAAGGAUAU______GGAUAUGAAUAUAAGUAA
....(((((..................((((......)))).(((..((((((.....)))))))))))))).....((((((...................))).)))........... (-26.98 = -27.01 +   0.03)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:42:03 2006