Locus 4920

Sequence ID 3L_DroMel_CAF1
Location 13,671,998 – 13,672,126
Length 128
Max. P 0.983908
window7773 window7774 window7775

overview

Window 3

Location 13,671,998 – 13,672,105
Length 107
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 85.94
Mean single sequence MFE -33.74
Consensus MFE -27.56
Energy contribution -27.93
Covariance contribution 0.38
Combinations/Pair 1.10
Mean z-score -1.61
Structure conservation index 0.82
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13671998 107 + 23771897
UGAAAUGAAUGUGAUUGCCAUGCCU----------CCAUCCAUACGGCCAACACAGCUGCUGUUUCUGCCUCUCGUGGCUGUCGGAAGCAGUUAUUAUGGCAGCAUAUUUGCC-GCUU
......(((((((.((((((((((.----------..........)))......(((((((......(((......))).......)))))))...))))))))))))))...-.... ( -32.02)
>DroPse_CAF1 66026 107 + 1
UGAAAUGAAUGUGAUUGCCA-GCGUGGCGACGCAUGCCACCGCCUGGCCCCC----------CCCCUUCCACUCAUAGCUGUCGGAAGCAGUUAUUAUGGCAGCAUAUUUCCCAGCUC
......(((((((...((((-((((((((.....))))).)).)))))....----------...((.(((...(((((((.(....))))))))..))).)))))))))........ ( -33.10)
>DroSec_CAF1 79344 107 + 1
UGAAAUGAAUGUGAUUGCCAUGCCU----------CCAUCCACACGGCCAACACAGCUGCUGUUUCUGCCUCUAGUGGCUGUCGGAAGCAGUUAUUAUGGCAGCAUAUUUGCC-GCUU
......(((((((.((((((((((.----------..........)))......(((((((......(((......))).......)))))))...))))))))))))))...-.... ( -32.02)
>DroSim_CAF1 89522 107 + 1
UGAAAUGAAUGUGAUUGCCGUGCCU----------CCAUCCACACGGCCAACACAGCUGCUGUUUCUGCCUCUAGUGGCUGUCGGAAGCAGUUAUUAUGGCAGCAUAUUUGCC-GCUU
.........((((...((((((...----------.......))))))...))))((.((.((..(((((..(((((((((.(....)))))))))).)))))...))..)).-)).. ( -37.00)
>DroEre_CAF1 84581 107 + 1
UGAAAUGAAUGUGAUUGCCAUGCCU----------CCGUCCACACGGCCAACACAGCUGCUGCUUCUGCCUCUCGUGGCUGUCGGAAGCAGUUAUUAUGGCAGCAUAUUUGCC-GCUU
......(((((((.((((((((...----------((((....))))...........((((((((((((......)))....)))))))))...)))))))))))))))...-.... ( -35.60)
>DroYak_CAF1 87934 110 + 1
UGAAAUGAAUGUGAUUGCCAUGCCU-------CCUCCAUCCACACGGCCAACACAGCUGCUGUUUCUGCCUCUCGUGGCUGUCGGAAGCAGUUAUUAUGGCAGCAUAUUUGCC-GCUU
......(((((((.(((((((((.(-------((..((.((((..(((....((((...))))....)))....)))).))..))).))).......)))))))))))))...-.... ( -32.71)
>consensus
UGAAAUGAAUGUGAUUGCCAUGCCU__________CCAUCCACACGGCCAACACAGCUGCUGUUUCUGCCUCUCGUGGCUGUCGGAAGCAGUUAUUAUGGCAGCAUAUUUGCC_GCUU
......(((((((.((((((((.......................(((....((((...))))....)))....(((((((.(....)))))))))))))))))))))))........ (-27.56 = -27.93 +   0.38)

alignment

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secondary structure

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dotplot

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Window 4

Location 13,672,028 – 13,672,126
Length 98
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 95.10
Mean single sequence MFE -31.30
Consensus MFE -25.88
Energy contribution -25.92
Covariance contribution 0.04
Combinations/Pair 1.04
Mean z-score -1.92
Structure conservation index 0.83
SVM decision value 1.26
SVM RNA-class probability 0.936911
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13672028 98 + 23771897
CAUACGGCCAACACAGCUGCUGUUUCUGCCUCUCGUGGCUGUCGGAAGCAGUUAUUAUGGCAGCAUAUUUGCCGCUUUUGGGGGCAUUCGAAAUUCCC
......(((..((.(((.((.((..(((((....(((((((.(....))))))))...)))))...))..)).)))..))..)))............. ( -31.00)
>DroSec_CAF1 79374 98 + 1
CACACGGCCAACACAGCUGCUGUUUCUGCCUCUAGUGGCUGUCGGAAGCAGUUAUUAUGGCAGCAUAUUUGCCGCUUUUUGGGGCAUUCAAAAUUCCC
.(((((((.......)))).)))..(((((..(((((((((.(....)))))))))).)))))......((((.(.....).))))............ ( -31.40)
>DroSim_CAF1 89552 98 + 1
CACACGGCCAACACAGCUGCUGUUUCUGCCUCUAGUGGCUGUCGGAAGCAGUUAUUAUGGCAGCAUAUUUGCCGCUUUUUGGGGCAUUCAAAAUUCCC
.(((((((.......)))).)))..(((((..(((((((((.(....)))))))))).)))))......((((.(.....).))))............ ( -31.40)
>DroEre_CAF1 84611 98 + 1
CACACGGCCAACACAGCUGCUGCUUCUGCCUCUCGUGGCUGUCGGAAGCAGUUAUUAUGGCAGCAUAUUUGCCGCUUUUUGGCGCUUUCGAAAUUCCC
......(((((...(((.((((((((((((......)))....)))))))))......(((((.....))))))))..)))))............... ( -32.40)
>DroYak_CAF1 87967 98 + 1
CACACGGCCAACACAGCUGCUGUUUCUGCCUCUCGUGGCUGUCGGAAGCAGUUAUUAUGGCAGCAUAUUUGCCGCUUUUUGGCACUCUCGUAAUUCCC
......(((((...(((.((.((..(((((....(((((((.(....))))))))...)))))...))..)).)))..)))))............... ( -30.30)
>consensus
CACACGGCCAACACAGCUGCUGUUUCUGCCUCUCGUGGCUGUCGGAAGCAGUUAUUAUGGCAGCAUAUUUGCCGCUUUUUGGGGCAUUCGAAAUUCCC
.......((((...(((.((((((((((((......)))....)))))))))......(((((.....))))))))..))))................ (-25.88 = -25.92 +   0.04)

alignment

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secondary structure

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dotplot

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Window 5

Location 13,672,028 – 13,672,126
Length 98
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 95.10
Mean single sequence MFE -31.56
Consensus MFE -27.74
Energy contribution -28.54
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -1.85
Structure conservation index 0.88
SVM decision value 1.96
SVM RNA-class probability 0.983908
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13672028 98 - 23771897
GGGAAUUUCGAAUGCCCCCAAAAGCGGCAAAUAUGCUGCCAUAAUAACUGCUUCCGACAGCCACGAGAGGCAGAAACAGCAGCUGUGUUGGCCGUAUG
(((.............)))....(((((.((((((((((........(((((((((.......)).))))))).....))))).))))).)))))... ( -32.84)
>DroSec_CAF1 79374 98 - 1
GGGAAUUUUGAAUGCCCCAAAAAGCGGCAAAUAUGCUGCCAUAAUAACUGCUUCCGACAGCCACUAGAGGCAGAAACAGCAGCUGUGUUGGCCGUGUG
(((............))).....(((((.((((((((((........(((((((............))))))).....))))).))))).)))))... ( -30.12)
>DroSim_CAF1 89552 98 - 1
GGGAAUUUUGAAUGCCCCAAAAAGCGGCAAAUAUGCUGCCAUAAUAACUGCUUCCGACAGCCACUAGAGGCAGAAACAGCAGCUGUGUUGGCCGUGUG
(((............))).....(((((.((((((((((........(((((((............))))))).....))))).))))).)))))... ( -30.12)
>DroEre_CAF1 84611 98 - 1
GGGAAUUUCGAAAGCGCCAAAAAGCGGCAAAUAUGCUGCCAUAAUAACUGCUUCCGACAGCCACGAGAGGCAGAAGCAGCAGCUGUGUUGGCCGUGUG
.((.....(....)..)).....(((((.((((((((((........(((((((((.......)).))))))).....))))).))))).)))))... ( -31.82)
>DroYak_CAF1 87967 98 - 1
GGGAAUUACGAGAGUGCCAAAAAGCGGCAAAUAUGCUGCCAUAAUAACUGCUUCCGACAGCCACGAGAGGCAGAAACAGCAGCUGUGUUGGCCGUGUG
.((...(((....))))).....(((((.((((((((((........(((((((((.......)).))))))).....))))).))))).)))))... ( -32.92)
>consensus
GGGAAUUUCGAAUGCCCCAAAAAGCGGCAAAUAUGCUGCCAUAAUAACUGCUUCCGACAGCCACGAGAGGCAGAAACAGCAGCUGUGUUGGCCGUGUG
(((............))).....(((((.((((((((((........(((((((((.......)).))))))).....))))).))))).)))))... (-27.74 = -28.54 +   0.80)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:07 2006