Locus 5189

Sequence ID	X_DroMel_CAF1
Location	13,547,121 – 13,547,217
Length	96
Max. P	0.676632

overview

Window 4

Location	13,547,121 – 13,547,217
Length	96
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	80.70
Mean single sequence MFE	-31.88
Consensus MFE	-22.78
Energy contribution	-22.57
Covariance contribution	-0.22
Combinations/Pair	1.24
Mean z-score	-1.43
Structure conservation index	0.71
SVM decision value	0.30
SVM RNA-class probability	0.676632
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13547121 96 + 22224390
---CC-CCAACCCAUUGCAGUUCUCCUUCGAGAGCUGCAAGUUCAAAAUUCAGCGCAGCAAGGAGGGCACCGGACGUAUCGUGGUCUGGAUGCUGGGCAU
---.(-((...((.(((((((((((....)))))))))))............((...))..))..((((((((((........)))))).)))))))... ( -36.50)
>DroVir_CAF1 1320 95 + 1
AUAUU-UC--UCCAU--CAGUUCUCGUUUGAGAGCUGUAAGUUUAAGAUCCAACGUAGCAAGGAAGGGACAGGACGCAUUGUUGUUUGGAUGCUGGGCAU
.....-..--.....--((((((((....))))))))...(((((..((((((....((((.((.(.(......).).)).))))))))))..))))).. ( -23.50)
>DroPse_CAF1 1728 100 + 1
AUACGAUUGGUUGAUUGCAGUUCUCCUUCGAGAGCUGCAAGUUCAAAAUACAACGCAGCAAAGAGGGCACUGGUCGUAUUGUGGUCUGGAUGCUGGGCAU
(((((((..((((((((((((((((....)))))))))))..)))............((.......))))..)))))))....(((..(...)..))).. ( -33.50)
>DroEre_CAF1 2022 99 + 1
GUAUC-UCACCCCAUCGCAGUUCUCCUUCGAGAGCUGCAAGUUCAAGAUCCAGCGCAGUAAGGAGGGCACCGGACGCAUCGUGGUCUGGAUGCUGGGCAU
.....-..........(((((((((....)))))))))........(.((((((((..........)).((((((........))))))..))))))).. ( -34.30)
>DroAna_CAF1 1947 96 + 1
AUAUC-CC---UUAUCCUAGUUCUCAUUUGAGAGCUGCAAGUUCAAGAUCCAACGAAGCAAGGAGGGCACCGGCCGCAUCGUUGUCUGGAUGCUGGGCAU
....(-((---.(((((((((((((....))))))))........(((..((((((.((......(((....))))).))))))))))))))..)))... ( -30.90)
>DroPer_CAF1 1584 100 + 1
AUUCGAUUGAUUGAUUGCAGUUCUCCUUCGAGAGCUGCAAGUUCAAAAUACAACGCAGCAAAGAGGGCACUGGUCGUAUUGUGGUCUGGAUGCUGGGCAU
......((((....(((((((((((....)))))))))))..)))).......(.(((((...(((.(((..........))).)))...))))).)... ( -32.60)
>consensus
AUACC_UC__UCCAUUGCAGUUCUCCUUCGAGAGCUGCAAGUUCAAAAUCCAACGCAGCAAGGAGGGCACCGGACGCAUCGUGGUCUGGAUGCUGGGCAU
................(((((((((....)))))))))...............(.(((((...(((.(((..........))).)))...))))).)... (-22.78 = -22.57 +  -0.22)

alignment

secondary structure

dotplot

Window 5

Location	13,547,121 – 13,547,217
Length	96
Sequences	6
Columns	100
Reading direction	reverse
Mean pairwise identity	80.70
Mean single sequence MFE	-28.77
Consensus MFE	-17.75
Energy contribution	-18.58
Covariance contribution	0.84
Combinations/Pair	1.14
Mean z-score	-1.59
Structure conservation index	0.62
SVM decision value	0.03
SVM RNA-class probability	0.548619
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13547121 96 - 22224390
AUGCCCAGCAUCCAGACCACGAUACGUCCGGUGCCCUCCUUGCUGCGCUGAAUUUUGAACUUGCAGCUCUCGAAGGAGAACUGCAAUGGGUUGG-GG---
...((((((..((((((........)))((((((..........))))))..........((((((.((((....)))).))))))))))))))-).--- ( -34.00)
>DroVir_CAF1 1320 95 - 1
AUGCCCAGCAUCCAAACAACAAUGCGUCCUGUCCCUUCCUUGCUACGUUGGAUCUUAAACUUACAGCUCUCAAACGAGAACUG--AUGGA--GA-AAUAU
.(((...)))((((..((((...(((..............)))...)))).............(((.((((....)))).)))--.))))--..-..... ( -16.84)
>DroPse_CAF1 1728 100 - 1
AUGCCCAGCAUCCAGACCACAAUACGACCAGUGCCCUCUUUGCUGCGUUGUAUUUUGAACUUGCAGCUCUCGAAGGAGAACUGCAAUCAACCAAUCGUAU
((((.............((.((((((((((((.........)))).)))))))).))...((((((.((((....)))).))))))..........)))) ( -28.40)
>DroEre_CAF1 2022 99 - 1
AUGCCCAGCAUCCAGACCACGAUGCGUCCGGUGCCCUCCUUACUGCGCUGGAUCUUGAACUUGCAGCUCUCGAAGGAGAACUGCGAUGGGGUGA-GAUAC
..((((.(((((........)))))(((((((((..........))))))))).......((((((.((((....)))).))))))..))))..-..... ( -39.30)
>DroAna_CAF1 1947 96 - 1
AUGCCCAGCAUCCAGACAACGAUGCGGCCGGUGCCCUCCUUGCUUCGUUGGAUCUUGAACUUGCAGCUCUCAAAUGAGAACUAGGAUAA---GG-GAUAU
...(((.(((((.(((((((((.((((..((......)))))).))))))..))).))...)))((.((((....)))).)).......---))-).... ( -25.80)
>DroPer_CAF1 1584 100 - 1
AUGCCCAGCAUCCAGACCACAAUACGACCAGUGCCCUCUUUGCUGCGUUGUAUUUUGAACUUGCAGCUCUCGAAGGAGAACUGCAAUCAAUCAAUCGAAU
((((...))))......((.((((((((((((.........)))).)))))))).))...((((((.((((....)))).)))))).............. ( -28.30)
>consensus
AUGCCCAGCAUCCAGACCACAAUACGUCCGGUGCCCUCCUUGCUGCGUUGGAUCUUGAACUUGCAGCUCUCGAAGGAGAACUGCAAUGAA__GA_GAUAU
..((.(((((...((..(((..........)))..))...))))).))............((((((.((((....)))).)))))).............. (-17.75 = -18.58 +   0.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:54 2006