Locus 551

Sequence ID 3R_DroMel_CAF1
Location 2,051,522 – 2,051,617
Length 95
Max. P 0.867688
window877 window878

overview

Window 7

Location 2,051,522 – 2,051,617
Length 95
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 81.95
Mean single sequence MFE -25.27
Consensus MFE -16.74
Energy contribution -17.13
Covariance contribution 0.39
Combinations/Pair 1.19
Mean z-score -2.68
Structure conservation index 0.66
SVM decision value 0.86
SVM RNA-class probability 0.867688
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2051522 95 + 27905053
CCAUGUCAU--------UCAAUCUACUCGAUUCCAAAUACCGC--AAUGCU---CAUUGCACAUUGCACAUUGAAUUGUGGUCUCAAUUGAAUGUGCGGCAAAUGAGA
.........--------........((((.((((.......((--(((...---.))))).....(((((((.(((((......))))).))))))))).)).)))). ( -26.10)
>DroSec_CAF1 195026 95 + 1
CCAUGUCAU--------UCAAUCAACUCGAUUCCAAAUACCGC--AAUGCG---CAUUGCACAUUGCACAUUGAAUUGUGGUCUCAAUUGAAUGUGCGGCAAAUGAGA
.........--------........((((.((((.......((--(((...---.))))).....(((((((.(((((......))))).))))))))).)).)))). ( -26.10)
>DroSim_CAF1 199951 95 + 1
CCCUGUCAU--------UCAAUCAACUCGAUUCCAAAUACCGC--AAUGCG---CAUUGCACAUUGCACAUUGAAUUGUGGUCUCAAUUGAAUGUGCGGCAAAUGAGA
.........--------........((((.((((.......((--(((...---.))))).....(((((((.(((((......))))).))))))))).)).)))). ( -26.10)
>DroEre_CAF1 194916 88 + 1
CCAUGUCAU--------UCAAUCAACUCGAUUUCAUAUACCGC--AAUGC----------ACACUGCACAUUGAAUUGUUGUCUCAAUUGAAUGUGCCGCAAAUGAGA
.....((((--------(.((((.....))))...........--..(((----------.....(((((((.(((((......))))).))))))).)))))))).. ( -17.90)
>DroYak_CAF1 198408 95 + 1
CGACGUCAU--------UCAAUCAACUCGAUUUCAUAUACCGC--AAUGCA---CAUUGCACACUGCACAUUGAAUUGUUGUCUCAAUUGAAUGUGCUGCAAAUGAGA
.........--------........(((.((((((......((--(((...---.))))).....(((((((.(((((......))))).))))))))).))))))). ( -23.20)
>DroAna_CAF1 171171 108 + 1
CUGUCUCAUUCAAUCAUUCAAUCAUCUAGAUCCCAAGCACAAUAAAAUGUGCCAGAGUGCAGAUUGCACAUUUCAUUGUGGACCUGAUUGAAUGUGCGGCAAAUGAGA
...(((((((....((((((((((....(.(((((((((((......)))))....((((.....))))......))).))).))))))))))).......))))))) ( -32.20)
>consensus
CCAUGUCAU________UCAAUCAACUCGAUUCCAAAUACCGC__AAUGCG___CAUUGCACAUUGCACAUUGAAUUGUGGUCUCAAUUGAAUGUGCGGCAAAUGAGA
.........................((((..................(((........)))..(((((((((.(((((......))))).)))))))))....)))). (-16.74 = -17.13 +   0.39)

alignment

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secondary structure

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dotplot

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Window 8

Location 2,051,522 – 2,051,617
Length 95
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 81.95
Mean single sequence MFE -27.82
Consensus MFE -17.17
Energy contribution -17.10
Covariance contribution -0.07
Combinations/Pair 1.21
Mean z-score -2.24
Structure conservation index 0.62
SVM decision value 0.40
SVM RNA-class probability 0.719210
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2051522 95 - 27905053
UCUCAUUUGCCGCACAUUCAAUUGAGACCACAAUUCAAUGUGCAAUGUGCAAUG---AGCAUU--GCGGUAUUUGGAAUCGAGUAGAUUGA--------AUGACAUGG
..(((..(((((((((((.(((((......))))).))))))).....(((((.---...)))--))))))..)))((((.....))))..--------......... ( -26.80)
>DroSec_CAF1 195026 95 - 1
UCUCAUUUGCCGCACAUUCAAUUGAGACCACAAUUCAAUGUGCAAUGUGCAAUG---CGCAUU--GCGGUAUUUGGAAUCGAGUUGAUUGA--------AUGACAUGG
((.((..(((((((((((.(((((......))))).)))))))(((((((...)---))))))--..))))..)))).((((.....))))--------......... ( -28.10)
>DroSim_CAF1 199951 95 - 1
UCUCAUUUGCCGCACAUUCAAUUGAGACCACAAUUCAAUGUGCAAUGUGCAAUG---CGCAUU--GCGGUAUUUGGAAUCGAGUUGAUUGA--------AUGACAGGG
.........((...((((((((..(.((((((......)))(((((((((...)---))))))--))))).((((....)))))..)))))--------)))...)). ( -28.70)
>DroEre_CAF1 194916 88 - 1
UCUCAUUUGCGGCACAUUCAAUUGAGACAACAAUUCAAUGUGCAGUGU----------GCAUU--GCGGUAUAUGAAAUCGAGUUGAUUGA--------AUGACAUGG
..((((((...(((((((.(((((......))))).))))))).((((----------((...--...))))))...............))--------))))..... ( -20.00)
>DroYak_CAF1 198408 95 - 1
UCUCAUUUGCAGCACAUUCAAUUGAGACAACAAUUCAAUGUGCAGUGUGCAAUG---UGCAUU--GCGGUAUAUGAAAUCGAGUUGAUUGA--------AUGACGUCG
..((((.(((.(((((((.(((((......))))).)))))))....((((((.---...)))--)))))).))))...((((((......--------..))).))) ( -24.60)
>DroAna_CAF1 171171 108 - 1
UCUCAUUUGCCGCACAUUCAAUCAGGUCCACAAUGAAAUGUGCAAUCUGCACUCUGGCACAUUUUAUUGUGCUUGGGAUCUAGAUGAUUGAAUGAUUGAAUGAGACAG
((((((((......(((((((((((((((((((((((((((((.............)))))))))))))).....)))))....))))))))))...))))))))... ( -38.72)
>consensus
UCUCAUUUGCCGCACAUUCAAUUGAGACCACAAUUCAAUGUGCAAUGUGCAAUG___CGCAUU__GCGGUAUUUGGAAUCGAGUUGAUUGA________AUGACAUGG
..(((..(((.(((((((.(((((......))))).)))))))((((((........)))))).....)))..)))((((.....))))................... (-17.17 = -17.10 +  -0.07)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:52 2006