Locus 8093

Sequence ID	X_DroMel_CAF1
Location	20,149,056 – 20,149,215
Length	159
Max. P	0.984415

overview

Window 4

Location	20,149,056 – 20,149,175
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	86.25
Mean single sequence MFE	-39.40
Consensus MFE	-30.52
Energy contribution	-31.32
Covariance contribution	0.80
Combinations/Pair	1.00
Mean z-score	-1.96
Structure conservation index	0.77
SVM decision value	0.81
SVM RNA-class probability	0.855729
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20149056 119 - 22224390
GG-GCGGAAGCAACCGGGGGGACUCUUUGGCCAAAGUGCUGGGGAGUAGCCUCGUGUUUGUGCAUCAUUUGAUUAACGUAAUCGAAUGACACGCCACAUGUCAGUCAUCCAGAGAGGCAG
.(-(((...((((((((((..((((((..((......))..))))))..))))).))...))).(((((((((((...)))))))))))..))))...((((..((.....))..)))). ( -45.80)
>DroSec_CAF1 4334 101 - 1
GG-G------------------CUCUUUGGCGAAAGUGCUGGGGAGUAGCCUCGUGUUUGUGCAUCAUUUGAUUAACGUAAUCGAAUGACACGCCACAUGUCAGUCAUCCAGAGAGGCAG
..-(------------------(((((..(((....)))..)))))).((((((((..((((..(((((((((((...))))))))))))))).)))(((.....))).....))))).. ( -37.00)
>DroSim_CAF1 9377 101 - 1
GG-G------------------CUCUUUGGCGAAAGUGCUGGGGAGUAGCCUCGUGUUUGUGCAUCAUUUGAUUAACGUAAUCGAAUGACACGCCACAUGUCAGUCAUCCAGAGAGGCAG
..-(------------------(((((..(((....)))..)))))).((((((((..((((..(((((((((((...))))))))))))))).)))(((.....))).....))))).. ( -37.00)
>DroEre_CAF1 252 109 - 1
--GGCGGGAGCAACCAAGG---CUCUUUGGCCAAAGUGCUGGGGAGUAGCCUCGUGUUUGUGCAUCAUUUGAUUAACGUAAUCGAAUGACACGCCACAUGUCAGUCAUCCAGAG------
--(((((......))...(---(((((..((......))..)))))).))).(((((..(((..(((((((((((...)))))))))))..))).)))))..............------ ( -35.80)
>DroYak_CAF1 2205 117 - 1
GGGGCGGGAGCGAGCAAGG---CUCUUUGGCGAAAGUGCUGGGGAGUGGCCUCGUGUUUGUGCAUCAUUUGAUUAACGUAAUCGAAUGACACGCCACAUGUCAGUCAUCCAGAGAGGCAG
...((....))......(.---(((((((((....))(((((.(.(((((....(((....)))(((((((((((...)))))))))))...))))).).)))))....))))))).).. ( -41.40)
>consensus
GG_GCGG_AGC_A_C__GG___CUCUUUGGCGAAAGUGCUGGGGAGUAGCCUCGUGUUUGUGCAUCAUUUGAUUAACGUAAUCGAAUGACACGCCACAUGUCAGUCAUCCAGAGAGGCAG
......................(((((..((......))..)))))..((((((((..((((..(((((((((((...))))))))))))))).)))(((.....))).....))))).. (-30.52 = -31.32 +   0.80)

alignment

secondary structure

dotplot

Window 5

Location	20,149,096 – 20,149,215
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	85.91
Mean single sequence MFE	-40.84
Consensus MFE	-30.22
Energy contribution	-31.64
Covariance contribution	1.42
Combinations/Pair	1.06
Mean z-score	-2.91
Structure conservation index	0.74
SVM decision value	1.97
SVM RNA-class probability	0.984415
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20149096 119 - 22224390
UGUUAUUCCGGUGCGAUUGUACAAACACAAAUGAAGUUGGGG-GCGGAAGCAACCGGGGGGACUCUUUGGCCAAAGUGCUGGGGAGUAGCCUCGUGUUUGUGCAUCAUUUGAUUAACGUA
.((((.((..(((....(((((((((((..........((..-((....))..))((((..((((((..((......))..))))))..))))))))))))))).)))..)).))))... ( -52.20)
>DroSec_CAF1 4374 101 - 1
UGUUUUUCCGGUGCGAUUGUACAAACACAAAUGAAGCUGGGG-G------------------CUCUUUGGCGAAAGUGCUGGGGAGUAGCCUCGUGUUUGUGCAUCAUUUGAUUAACGUA
.(((..((..(((....(((((((((((..........((((-(------------------(((((..(((....)))..))))))..))))))))))))))).)))..))..)))... ( -35.80)
>DroSim_CAF1 9417 101 - 1
UGUUUUUCCGGUGCGAUUGUACAAACACAAAUGAAGCUGGGG-G------------------CUCUUUGGCGAAAGUGCUGGGGAGUAGCCUCGUGUUUGUGCAUCAUUUGAUUAACGUA
.(((..((..(((....(((((((((((..........((((-(------------------(((((..(((....)))..))))))..))))))))))))))).)))..))..)))... ( -35.80)
>DroEre_CAF1 286 115 - 1
UGUUAUCCUGGCGCGAUUGUACAAACACAAAUGAAGCCGG--GGCGGGAGCAACCAAGG---CUCUUUGGCCAAAGUGCUGGGGAGUAGCCUCGUGUUUGUGCAUCAUUUGAUUAACGUA
.((((..(......(((.((((((((((....(....)((--(((((......))...(---(((((..((......))..)))))).))))))))))))))))))....)..))))... ( -39.90)
>DroYak_CAF1 2245 117 - 1
UGUUAUCCCGGUGCGAUUGUACAAACACAAAUGAAGCUGGGGGGCGGGAGCGAGCAAGG---CUCUUUGGCGAAAGUGCUGGGGAGUGGCCUCGUGUUUGUGCAUCAUUUGAUUAACGUA
.((((..(..(((....(((((((((((...............((....))((((...(---(((((..(((....)))..)))))).).)))))))))))))).)))..)..))))... ( -40.50)
>consensus
UGUUAUUCCGGUGCGAUUGUACAAACACAAAUGAAGCUGGGG_GCGG_AGC_A_C__GG___CUCUUUGGCGAAAGUGCUGGGGAGUAGCCUCGUGUUUGUGCAUCAUUUGAUUAACGUA
.((((.((..(((....(((((((((((....((.((((....((....))...........(((((..((......))..))))))))).))))))))))))).)))..)).))))... (-30.22 = -31.64 +   1.42)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:55:17 2006