Locus 9899

Sequence ID	3R_DroMel_CAF1
Location	26,445,299 – 26,445,395
Length	96
Max. P	0.993925

overview

Window 8

Location	26,445,299 – 26,445,395
Length	96
Sequences	5
Columns	109
Reading direction	forward
Mean pairwise identity	91.11
Mean single sequence MFE	-28.10
Consensus MFE	-21.64
Energy contribution	-21.48
Covariance contribution	-0.16
Combinations/Pair	1.13
Mean z-score	-1.82
Structure conservation index	0.77
SVM decision value	0.56
SVM RNA-class probability	0.782573
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26445299 96 + 27905053
AUGUUGCCAAGGACUGCUGACCACUGUCCAUGCGAAGAGGAGCAGGCAAAUGGAAAAUGAGCAGGAAAAGCCAAAGGGAAGCUGGCGGGGCGGAGG-------------
...(((((.....(((((.((((.((.((.(((........)))))))..)))....).))))).....((((.........))))..)))))...------------- ( -25.80)
>DroSec_CAF1 37535 96 + 1
AUGUUGCCAAGGACUGCUGACCACUGUCCAUGCGAAGAGGAGCAGGCAAAUGGAAAAUGAGCAGGAAAAGCCAAAGGGAAGCUGGCGGGGCGGAGG-------------
...(((((.....(((((.((((.((.((.(((........)))))))..)))....).))))).....((((.........))))..)))))...------------- ( -25.80)
>DroSim_CAF1 37552 96 + 1
AUGUUGCCAAGGACUGCUGACCACUGUCCAUGCGAAGAGGAGCAGGCAAAUGGAAAAUGAGCAGGAAAAGCCAAAGGGAAGCUGGCGGGGCGGAGG-------------
...(((((.....(((((.((((.((.((.(((........)))))))..)))....).))))).....((((.........))))..)))))...------------- ( -25.80)
>DroEre_CAF1 43202 96 + 1
AUGUUGCCAAGGACUGCUGACCACUGUCCAUGCGAAGAGGAGCAGGGAAAUGGAAAAUGAGCAGGAAAAGCCAAGGGGAAACUGGUGGGGCGGAGG-------------
...(((((.....(((((.((((...(((.(((........))).)))..)))....).)))))......(((..((....))..))))))))...------------- ( -31.40)
>DroYak_CAF1 39220 109 + 1
AUGUUGCCAAGGACUGCUGACCACUGUCCAUGCGAAGAGGAGCAGGCAAAUGGAAAAUGAGCAGGAAAAGCCAAAGGGAAGCUGCUGCUGUAGAGGAUGGAGGGUGGAG
....................(((((.(((((.(..(.((.(((((((..((.....))..)).((.....)).........))))).)).)...).))))).))))).. ( -31.70)
>consensus
AUGUUGCCAAGGACUGCUGACCACUGUCCAUGCGAAGAGGAGCAGGCAAAUGGAAAAUGAGCAGGAAAAGCCAAAGGGAAGCUGGCGGGGCGGAGG_____________
...(((((.....(((((.((((....((.(((........)))))....)))....).))))).....((((.........))))..)))))................ (-21.64 = -21.48 +  -0.16)

alignment

secondary structure

dotplot

Window 9

Location	26,445,299 – 26,445,395
Length	96
Sequences	5
Columns	109
Reading direction	reverse
Mean pairwise identity	91.11
Mean single sequence MFE	-23.94
Consensus MFE	-19.42
Energy contribution	-19.86
Covariance contribution	0.44
Combinations/Pair	1.05
Mean z-score	-2.61
Structure conservation index	0.81
SVM decision value	2.44
SVM RNA-class probability	0.993925
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26445299 96 - 27905053
-------------CCUCCGCCCCGCCAGCUUCCCUUUGGCUUUUCCUGCUCAUUUUCCAUUUGCCUGCUCCUCUUCGCAUGGACAGUGGUCAGCAGUCCUUGGCAACAU
-------------.....(((..(((((.......))))).....(((((......(((((..(((((........))).))..)))))..))))).....)))..... ( -25.00)
>DroSec_CAF1 37535 96 - 1
-------------CCUCCGCCCCGCCAGCUUCCCUUUGGCUUUUCCUGCUCAUUUUCCAUUUGCCUGCUCCUCUUCGCAUGGACAGUGGUCAGCAGUCCUUGGCAACAU
-------------.....(((..(((((.......))))).....(((((......(((((..(((((........))).))..)))))..))))).....)))..... ( -25.00)
>DroSim_CAF1 37552 96 - 1
-------------CCUCCGCCCCGCCAGCUUCCCUUUGGCUUUUCCUGCUCAUUUUCCAUUUGCCUGCUCCUCUUCGCAUGGACAGUGGUCAGCAGUCCUUGGCAACAU
-------------.....(((..(((((.......))))).....(((((......(((((..(((((........))).))..)))))..))))).....)))..... ( -25.00)
>DroEre_CAF1 43202 96 - 1
-------------CCUCCGCCCCACCAGUUUCCCCUUGGCUUUUCCUGCUCAUUUUCCAUUUCCCUGCUCCUCUUCGCAUGGACAGUGGUCAGCAGUCCUUGGCAACAU
-------------.....(((...((((.......))))......(((((......((((((((.(((........))).))).)))))..))))).....)))..... ( -22.90)
>DroYak_CAF1 39220 109 - 1
CUCCACCCUCCAUCCUCUACAGCAGCAGCUUCCCUUUGGCUUUUCCUGCUCAUUUUCCAUUUGCCUGCUCCUCUUCGCAUGGACAGUGGUCAGCAGUCCUUGGCAACAU
....................(((((.((((.......))))....)))))..........((((((((........))).((((.((.....)).))))..)))))... ( -21.80)
>consensus
_____________CCUCCGCCCCGCCAGCUUCCCUUUGGCUUUUCCUGCUCAUUUUCCAUUUGCCUGCUCCUCUUCGCAUGGACAGUGGUCAGCAGUCCUUGGCAACAU
.......................(((((((.......))).....(((((......(((((..(((((........))).))..)))))..)))))....))))..... (-19.42 = -19.86 +   0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:44:30 2006