Locus 6154

Sequence ID	X_DroMel_CAF1
Location	15,718,473 – 15,718,632
Length	159
Max. P	0.919082

overview

Window 5

Location	15,718,473 – 15,718,592
Length	119
Sequences	5
Columns	119
Reading direction	forward
Mean pairwise identity	96.64
Mean single sequence MFE	-52.96
Consensus MFE	-50.08
Energy contribution	-50.04
Covariance contribution	-0.04
Combinations/Pair	1.07
Mean z-score	-1.32
Structure conservation index	0.95
SVM decision value	0.85
SVM RNA-class probability	0.867273
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15718473 119 + 22224390
GGAGGUGGUGGUCGAGGCGGUGGCUUGUCGCGCGGCAAGAGCAGUGUGGACGAGGACGAGGUCGAGAGCAGAUCCUCGUCCAGCGACUCACCCUCGCUAUCGCUAGGCGUGGCCAUCAA
.((((((((((.(((((.(((.(((((((((((.((....)).)))).)))))((((((((((.......)).)))))))).)).)))...))))))))))))).(((...))).)).. ( -55.10)
>DroSec_CAF1 1965 119 + 1
GGAGGUGGUGGUCGAGGCGGUGGCUUGUCGCGCGGCAAGAGCAGUGUGGACGAGGACGAGGUCGAGAGCAGAUCCUCGUCCAGCGACUCACCCUCGCUAUCGCUAGGCGUGGCCAUCAG
.((((((((((.(((((.(((.(((((((((((.((....)).)))).)))))((((((((((.......)).)))))))).)).)))...))))))))))))).(((...))).)).. ( -55.10)
>DroSim_CAF1 1313 119 + 1
GGAGGUGGUGGUCGAGGCGGUGGCUUGUCGCGCGGCAAGAGCAGUGUGGACGAGGACGAGGUCGAGAGCAGAUCCUCGUCCAGCGACUCACCCUCGCUAUCGCUAGGCGUGGCCAUCAG
.((((((((((.(((((.(((.(((((((((((.((....)).)))).)))))((((((((((.......)).)))))))).)).)))...))))))))))))).(((...))).)).. ( -55.10)
>DroEre_CAF1 1935 119 + 1
GGAGGUGGUGGUCGAGGCGGUGGCUUGUCGCGUGGCAAGAGCAGUGUGGACGAGGACGAGGUAGAGAGCAGAUCCUCGUCCAGCGACUCACCCUCGCUGUCACUAGGCGUGGCCAUCAG
.....(((((((((.(((((.((...(((((...((....))....(((((((((((...((.....)).).)))))))))))))))...)).)))))(((....))).))))))))). ( -51.70)
>DroYak_CAF1 1291 119 + 1
GGAGGUGGUGGUCGAGGCGGUGGCUUGUCCCGUGGCAAGAGCAGUGUCGACGAGGACGAGGUCGAUAGCAGAUCCUCAUCCAGCGACUCACCCUCGCUAUCACUAGGCGUGGCCAUCAG
.((((((((((.(((((.(((.(((.(((((((((((.......)))).))).))))((((((.......)).))))....))).)))...))))))))))))).(((...))).)).. ( -47.80)
>consensus
GGAGGUGGUGGUCGAGGCGGUGGCUUGUCGCGCGGCAAGAGCAGUGUGGACGAGGACGAGGUCGAGAGCAGAUCCUCGUCCAGCGACUCACCCUCGCUAUCGCUAGGCGUGGCCAUCAG
.((((((((((.(((((.(((.(((((((((((.((....)).)))).)))))((((((((((.......)).)))))))).)).)))...))))))))))))).(((...))).)).. (-50.08 = -50.04 +  -0.04)

alignment

secondary structure

dotplot

Window 6

Location	15,718,473 – 15,718,592
Length	119
Sequences	5
Columns	119
Reading direction	reverse
Mean pairwise identity	96.64
Mean single sequence MFE	-43.24
Consensus MFE	-40.36
Energy contribution	-40.36
Covariance contribution	-0.00
Combinations/Pair	1.06
Mean z-score	-1.18
Structure conservation index	0.93
SVM decision value	0.25
SVM RNA-class probability	0.654773
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15718473 119 - 22224390
UUGAUGGCCACGCCUAGCGAUAGCGAGGGUGAGUCGCUGGACGAGGAUCUGCUCUCGACCUCGUCCUCGUCCACACUGCUCUUGCCGCGCGACAAGCCACCGCCUCGACCACCACCUCC
((((.((((((.(((.((....)).)))))).((((((((((((((((..(........)..)))))))))))....((....))...)))))........)))))))........... ( -43.90)
>DroSec_CAF1 1965 119 - 1
CUGAUGGCCACGCCUAGCGAUAGCGAGGGUGAGUCGCUGGACGAGGAUCUGCUCUCGACCUCGUCCUCGUCCACACUGCUCUUGCCGCGCGACAAGCCACCGCCUCGACCACCACCUCC
.((.(((.(.(((...)))...(((..(((..((((((((((((((((..(........)..)))))))))))....((....))...)))))..)))..)))...).))).))..... ( -43.70)
>DroSim_CAF1 1313 119 - 1
CUGAUGGCCACGCCUAGCGAUAGCGAGGGUGAGUCGCUGGACGAGGAUCUGCUCUCGACCUCGUCCUCGUCCACACUGCUCUUGCCGCGCGACAAGCCACCGCCUCGACCACCACCUCC
.((.(((.(.(((...)))...(((..(((..((((((((((((((((..(........)..)))))))))))....((....))...)))))..)))..)))...).))).))..... ( -43.70)
>DroEre_CAF1 1935 119 - 1
CUGAUGGCCACGCCUAGUGACAGCGAGGGUGAGUCGCUGGACGAGGAUCUGCUCUCUACCUCGUCCUCGUCCACACUGCUCUUGCCACGCGACAAGCCACCGCCUCGACCACCACCUCC
.((.(((.(((.....)))...(((..(((..((((((((((((((((..(........)..)))))))))))....((....))...)))))..)))..))).....))).))..... ( -43.60)
>DroYak_CAF1 1291 119 - 1
CUGAUGGCCACGCCUAGUGAUAGCGAGGGUGAGUCGCUGGAUGAGGAUCUGCUAUCGACCUCGUCCUCGUCGACACUGCUCUUGCCACGGGACAAGCCACCGCCUCGACCACCACCUCC
..(.((((....(((.(((...(((((((((.(((((.((((((((.((.......))))))))))..).)))).).))))))))))))))....)))).).................. ( -41.30)
>consensus
CUGAUGGCCACGCCUAGCGAUAGCGAGGGUGAGUCGCUGGACGAGGAUCUGCUCUCGACCUCGUCCUCGUCCACACUGCUCUUGCCGCGCGACAAGCCACCGCCUCGACCACCACCUCC
.((.(((.(.(((...)))...(((..(((..((((((((((((((((..(........)..)))))))))))....((....))...)))))..)))..)))...).))).))..... (-40.36 = -40.36 +  -0.00)

alignment

secondary structure

dotplot

Window 7

Location	15,718,513 – 15,718,632
Length	119
Sequences	5
Columns	119
Reading direction	reverse
Mean pairwise identity	96.30
Mean single sequence MFE	-41.02
Consensus MFE	-38.94
Energy contribution	-38.82
Covariance contribution	-0.12
Combinations/Pair	1.10
Mean z-score	-1.37
Structure conservation index	0.95
SVM decision value	1.13
SVM RNA-class probability	0.919082
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15718513 119 - 22224390
ACUCCUAAAUCCACCACAUUCCCCCGAGUGCAACUCGGGAUUGAUGGCCACGCCUAGCGAUAGCGAGGGUGAGUCGCUGGACGAGGAUCUGCUCUCGACCUCGUCCUCGUCCACACUGC
......................((((((.....))))))......((((((.(((.((....)).)))))).)))(.(((((((((((..(........)..))))))))))))..... ( -42.80)
>DroSec_CAF1 2005 119 - 1
ACUCCUAAAUCCACCACAUUCCCCCGAGUGCAACUCGGGUCUGAUGGCCACGCCUAGCGAUAGCGAGGGUGAGUCGCUGGACGAGGAUCUGCUCUCGACCUCGUCCUCGUCCACACUGC
......................((((((.....))))))......((((((.(((.((....)).)))))).)))(.(((((((((((..(........)..))))))))))))..... ( -42.30)
>DroSim_CAF1 1353 119 - 1
ACUCCUAAAUCCACCACAUUCCCCCGAGUGCAACUCGGGUCUGAUGGCCACGCCUAGCGAUAGCGAGGGUGAGUCGCUGGACGAGGAUCUGCUCUCGACCUCGUCCUCGUCCACACUGC
......................((((((.....))))))......((((((.(((.((....)).)))))).)))(.(((((((((((..(........)..))))))))))))..... ( -42.30)
>DroEre_CAF1 1975 119 - 1
ACUCCUAAAUCCACCACAUUCCCCCGAAUGCAACUCGGGACUGAUGGCCACGCCUAGUGACAGCGAGGGUGAGUCGCUGGACGAGGAUCUGCUCUCUACCUCGUCCUCGUCCACACUGC
...........((((.((((..(((((.......)))))...))))(((((.....)))...))...))))(((.(.(((((((((((..(........)..))))))))))))))).. ( -37.70)
>DroYak_CAF1 1331 119 - 1
ACUCCUAAAUCCACCACAUUCCCCCGAGUGCAAUUCGGGACUGAUGGCCACGCCUAGUGAUAGCGAGGGUGAGUCGCUGGAUGAGGAUCUGCUAUCGACCUCGUCCUCGUCGACACUGC
...........((((.((((..(((((((...)))))))...))))....(((.((....)))))..)))).(((((.((((((((.((.......))))))))))..).))))..... ( -40.00)
>consensus
ACUCCUAAAUCCACCACAUUCCCCCGAGUGCAACUCGGGACUGAUGGCCACGCCUAGCGAUAGCGAGGGUGAGUCGCUGGACGAGGAUCUGCUCUCGACCUCGUCCUCGUCCACACUGC
......................((((((.....))))))......((((((.(((.((....)).)))))).)))(.(((((((((((..(........)..))))))))))))..... (-38.94 = -38.82 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:46 2006