Locus 4866

Sequence ID	2R_DroMel_CAF1
Location	15,928,218 – 15,928,349
Length	131
Max. P	0.717625

overview

Window 0

Location	15,928,218 – 15,928,313
Length	95
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	79.97
Mean single sequence MFE	-34.42
Consensus MFE	-23.92
Energy contribution	-25.06
Covariance contribution	1.14
Combinations/Pair	1.11
Mean z-score	-1.47
Structure conservation index	0.69
SVM decision value	0.39
SVM RNA-class probability	0.717625
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15928218 95 - 20766785
ACCAGACACGCGGCGCUAAUAUGGCGCAACAUCCAUGGCAAGUACUUGCCACCUGGACA-----------CCAGG----ACACCG------GGACGCAGGUCGCUG-GACGCAGAA---C
.((((((..((((((((.....)))))....(((.((((((....))))))(((((...-----------)))))----......------))))))..)))..))-)........---. ( -36.10)
>DroSec_CAF1 55786 95 - 1
ACCAGACACGCGGCGCUAAUAUGGCGCAACAUCCAUGGCAAGUACUUGCCACCUGGACA-----------CCAGA----ACACCG------GGACGCAGGUCGCUG-GACGCAGGA---C
.((.(((..((((((((.....)))))....(((.((((((....)))))).((((...-----------)))).----......------))))))..)))((..-...)).)).---. ( -34.20)
>DroSim_CAF1 54405 95 - 1
ACCAGACACGCGGCGCUAAUAUGGCGCAACAUCCAUGGCGAGUACUUGCCACCUGGACA-----------CCAGA----ACACCG------GGACGCAGGUCGCUG-GACGCAGGA---C
.((.(((..((((((((.....)))))....(((.((((((....)))))).((((...-----------)))).----......------))))))..)))((..-...)).)).---. ( -33.90)
>DroEre_CAF1 55326 101 - 1
ACCAGACACGCGGCGCUAAUAUGGCGCAACAUCCAUGGCAAGUACUUGCCACCUGGACA-----------CCAGG----ACGCCGGUCGCAGGACGCAGGACGCAG-GACGCAGGA---C
.((.(((..((((((((.....)))))........((((((....))))))(((((...-----------)))))----.)))..)))((.(..(((.....)).)-..))).)).---. ( -36.60)
>DroYak_CAF1 57664 94 - 1
ACCAGACACGCGGCGCUAAUAUGGCGCAACAUCCAUAGCAAGUACUUGCCACCUGGACA-----------CCAGG----ACG-------CAGGACGCAGGUCGCUG-GACGCAGGA---C
.((.(((..((((((((.....)))))....(((...((((....))))..(((((...-----------)))))----...-------..))))))..)))((..-...)).)).---. ( -33.20)
>DroPer_CAF1 57676 109 - 1
ACCCGCCACGCGGCGCUAAUAUGGCGCAACAUCCAUAGCA----UUUGCCACUUGCCGUCCCUCCUCCUCCCAAAAGAUACUCCU------GGACA-AGGUGUCCGGCACGGACGGCCGU
....(((..(..(((((.....)))))..).(((...((.----...))....(((((..(..(((..(((....((......))------)))..-))).)..))))).))).)))... ( -32.50)
>consensus
ACCAGACACGCGGCGCUAAUAUGGCGCAACAUCCAUGGCAAGUACUUGCCACCUGGACA___________CCAGA____ACACCG______GGACGCAGGUCGCUG_GACGCAGGA___C
.((.(((..((((((((.....)))))....(((.((((((....)))))).((((..............)))).................))))))..)))((......)).))..... (-23.92 = -25.06 +   1.14)

alignment

secondary structure

dotplot

Window 1

Location	15,928,248 – 15,928,349
Length	101
Sequences	6
Columns	105
Reading direction	reverse
Mean pairwise identity	93.55
Mean single sequence MFE	-32.22
Consensus MFE	-27.13
Energy contribution	-26.82
Covariance contribution	-0.30
Combinations/Pair	1.16
Mean z-score	-1.81
Structure conservation index	0.84
SVM decision value	0.33
SVM RNA-class probability	0.691152
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15928248 101 - 20766785
----CAGCCUGCUGUGGCCAACGCCGUCGCUUCAUAAAUUACCAGACACGCGGCGCUAAUAUGGCGCAACAUCCAUGGCAAGUACUUGCCACCUGGACACCAGGA
----...((((.((((((....)))................((((....(..(((((.....)))))..).....((((((....)))))).))))))).)))). ( -34.20)
>DroSec_CAF1 55816 101 - 1
----CAGCCUGCUGUGGCCAACGCCGUCGCUUCAUAAAUUACCAGACACGCGGCGCUAAUAUGGCGCAACAUCCAUGGCAAGUACUUGCCACCUGGACACCAGAA
----....(((.((((((....)))................((((....(..(((((.....)))))..).....((((((....)))))).))))))).))).. ( -31.00)
>DroSim_CAF1 54435 101 - 1
----CAGCCUGCUGUGGCCAACGCCGUCGCUUCAUAAAUUACCAGACACGCGGCGCUAAUAUGGCGCAACAUCCAUGGCGAGUACUUGCCACCUGGACACCAGAA
----....(((.((((((....)))................((((....(..(((((.....)))))..).....((((((....)))))).))))))).))).. ( -30.70)
>DroEre_CAF1 55362 101 - 1
----CAGCCUGCUGUGGCCAACGCCGUCGCUUCAUAAAUUACCAGACACGCGGCGCUAAUAUGGCGCAACAUCCAUGGCAAGUACUUGCCACCUGGACACCAGGA
----...((((.((((((....)))................((((....(..(((((.....)))))..).....((((((....)))))).))))))).)))). ( -34.20)
>DroYak_CAF1 57693 101 - 1
----CAGCCUGCUGUGGCCAACGCCGUCGCUUCAUAAAUUACCAGACACGCGGCGCUAAUAUGGCGCAACAUCCAUAGCAAGUACUUGCCACCUGGACACCAGGA
----..((.((((((((....(((.(((................)))..)))(((((.....))))).....)))))))).))........(((((...))))). ( -32.99)
>DroAna_CAF1 50016 103 - 1
CGGAUAGCCUGCUGCGGCCGUUGCUGUCGCUUCAUAAAUUACCCGACACGCGGCGCUAAUAUGGCGCAACAUCCCCAGCAAGUACUUGCCACCUGGACACCAU--
.((...((.(((((.((..(((((.(((((...................)))))(((.....))))))))..)).))))).))...((((....)).))))..-- ( -30.21)
>consensus
____CAGCCUGCUGUGGCCAACGCCGUCGCUUCAUAAAUUACCAGACACGCGGCGCUAAUAUGGCGCAACAUCCAUGGCAAGUACUUGCCACCUGGACACCAGGA
......((.((((((((....(((.(((................)))..)))(((((.....))))).....)))))))).)).........((((...)))).. (-27.13 = -26.82 +  -0.30)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:06 2006