Locus 4742

Sequence ID 2R_DroMel_CAF1
Location 15,571,817 – 15,571,911
Length 94
Max. P 0.653210
window7630 window7631

overview

Window 0

Location 15,571,817 – 15,571,911
Length 94
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 83.61
Mean single sequence MFE -34.58
Consensus MFE -23.16
Energy contribution -24.97
Covariance contribution 1.81
Combinations/Pair 1.12
Mean z-score -2.44
Structure conservation index 0.67
SVM decision value 0.25
SVM RNA-class probability 0.653210
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15571817 94 + 20766785
GGGAUGCGACUCACUGUGUGGGCGAUGGCAGCGACCACAUAUUAAGCAUGCACCACAGUGAGACAGAACCACCAGGGUGGUACA-----CUGAAUCCAG
.((((....(((((((((.(.(((...((................)).))).)))))))))).(((.(((((....)))))...-----))).)))).. ( -32.29)
>DroSec_CAF1 365277 94 + 1
GGGAUGCGACUCACUGUGUGGGCGAUGGCAGCGACCACAUAUUAAGCAUGCACCACAGAGAAGCAGCACCACCAUGGUGUUGCA-----CAGAAUCCAG
.((((.(......((.(((((......(((((.............)).))).))))).))..((((((((.....)))))))).-----..).)))).. ( -32.92)
>DroSim_CAF1 345210 94 + 1
GGGAUGCGACUCACUGUGUGGGCGAUGGCAGCGACCACAUAUUAAGCAUGCACCACAGUGAAGCAGCACCACCAGGGUGGUGCA-----CUGAAUCCAG
.((((((...((((((((.(.(((...((................)).))).))))))))).)).(((((((....))))))).-----....)))).. ( -36.39)
>DroEre_CAF1 353191 93 + 1
GGGAUGCGACUCACUGUGUGGGCGA-GGCAGCGACCACAUAUUAAGCAUGCACCACAGUGAAGCAGCACCACCAGGGUGGUGCA-----CUGCAUCCAG
.(((((((..(((((((((((.((.-.....)).)))).......(....)...)))))))..).(((((((....))))))).-----..)))))).. ( -41.90)
>DroYak_CAF1 368273 94 + 1
GGGAUGCGACUCACUGUGUGGGCGAAUGCAGCGACCACAUAUUAAGCAUGCACCACAGUGAAACAGCACCACCAGGGUGGUGCA-----CUGCAUCCAG
.(((((((..((((((((.(.((..((((................)))))).)))))))))....(((((((....))))))).-----.))))))).. ( -41.59)
>DroAna_CAF1 340337 83 + 1
--------ACUCACUGUGUGGGCGA--GCAGCGACCACAUAUUAAGAAGGCAUCUUCGU-----ACUACGAGUAGGG-GGUGGAAGAAUCUCUAUCAAG
--------((((..(((((((.((.--....)).)))))))....((((....))))..-----.....))))....-((((((......))))))... ( -22.40)
>consensus
GGGAUGCGACUCACUGUGUGGGCGAUGGCAGCGACCACAUAUUAAGCAUGCACCACAGUGAAGCAGCACCACCAGGGUGGUGCA_____CUGAAUCCAG
.((((.....(((((((((((.((.......)).)))).......(....)...)))))))....(((((((....)))))))..........)))).. (-23.16 = -24.97 +   1.81)

alignment

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secondary structure

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dotplot

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Window 1

Location 15,571,817 – 15,571,911
Length 94
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 83.61
Mean single sequence MFE -32.05
Consensus MFE -22.14
Energy contribution -23.87
Covariance contribution 1.72
Combinations/Pair 1.04
Mean z-score -1.72
Structure conservation index 0.69
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15571817 94 - 20766785
CUGGAUUCAG-----UGUACCACCCUGGUGGUUCUGUCUCACUGUGGUGCAUGCUUAAUAUGUGGUCGCUGCCAUCGCCCACACAGUGAGUCGCAUCCC
..((((.(((-----...(((((....))))).))(.((((((((((.((((.....))..(((((....))))).)).).))))))))).)).)))). ( -32.00)
>DroSec_CAF1 365277 94 - 1
CUGGAUUCUG-----UGCAACACCAUGGUGGUGCUGCUUCUCUGUGGUGCAUGCUUAAUAUGUGGUCGCUGCCAUCGCCCACACAGUGAGUCGCAUCCC
.(((((((..-----.(((.((((.....)))).)))..((.(((((.((((.....))..(((((....))))).))))))).)).))))).)).... ( -26.60)
>DroSim_CAF1 345210 94 - 1
CUGGAUUCAG-----UGCACCACCCUGGUGGUGCUGCUUCACUGUGGUGCAUGCUUAAUAUGUGGUCGCUGCCAUCGCCCACACAGUGAGUCGCAUCCC
..((((.(((-----((((((((....))))))).)))(((((((((.((((.....))..(((((....))))).)).).))))))))...).)))). ( -35.00)
>DroEre_CAF1 353191 93 - 1
CUGGAUGCAG-----UGCACCACCCUGGUGGUGCUGCUUCACUGUGGUGCAUGCUUAAUAUGUGGUCGCUGCC-UCGCCCACACAGUGAGUCGCAUCCC
..((((((((-----((((((((....))))))).)))((((((((..(((((.....)))))((.((.....-.)).)).))))))))...)))))). ( -41.80)
>DroYak_CAF1 368273 94 - 1
CUGGAUGCAG-----UGCACCACCCUGGUGGUGCUGUUUCACUGUGGUGCAUGCUUAAUAUGUGGUCGCUGCAUUCGCCCACACAGUGAGUCGCAUCCC
..((((((..-----.(((((((....))))))).(.((((((((((((.((((................)))).))))...)))))))).))))))). ( -42.59)
>DroAna_CAF1 340337 83 - 1
CUUGAUAGAGAUUCUUCCACC-CCCUACUCGUAGU-----ACGAAGAUGCCUUCUUAAUAUGUGGUCGCUGC--UCGCCCACACAGUGAGU--------
.....................-....(((((..((-----..((((....)))).......((((.((....--.)).))))))..)))))-------- ( -14.30)
>consensus
CUGGAUUCAG_____UGCACCACCCUGGUGGUGCUGCUUCACUGUGGUGCAUGCUUAAUAUGUGGUCGCUGCCAUCGCCCACACAGUGAGUCGCAUCCC
................(((((((....)))))))...........(((((..(((((...(((((.((.......)).)))))...))))).))))).. (-22.14 = -23.87 +   1.72)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:16 2006