Locus 7795

Sequence ID 3L_DroMel_CAF1
Location 20,812,649 – 20,812,749
Length 100
Max. P 0.701037
window12683 window12684

overview

Window 3

Location 20,812,649 – 20,812,749
Length 100
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 82.56
Mean single sequence MFE -26.30
Consensus MFE -20.79
Energy contribution -20.10
Covariance contribution -0.69
Combinations/Pair 1.19
Mean z-score -1.35
Structure conservation index 0.79
SVM decision value 0.02
SVM RNA-class probability 0.544347
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20812649 100 + 23771897
GAAUC--UGUGGCAGUUGUACGUGUCAUUUGGCUGCAGUUUUAUUUGCUUGGCCAUAAUGCAAGUUUAUGUUUAUGGCCCAGCUCCGAAGGGC--UCCUCGCAU---
(((.(--((..((...((.......))....))..))).)))....(((.((((((((.(((......))))))))))).))).((....)).--.........--- ( -29.10)
>DroPse_CAF1 80559 87 + 1
CAAUC--UGUGGCAGUUGUACGUGUCAUUUGGCUGCAGUUUUAUUUGCUUGGCCAUAAUGCAAGUUUAUGUUUAUGGCCCUGCUCUGCU------------------
....(--((..((...((.......))....))..)))........((..((((((((.(((......)))))))))))..))......------------------ ( -24.60)
>DroEre_CAF1 69382 103 + 1
GAAUC--UGUGGCAGUUGUACGUGUCAUUUGGCUGCAGUUUUAUUUGCUCGGCCAUAAUGCAAGUUUAUGUUUAUGGUCCUGCUCCGAAGGGC--UCCUCGCUCCUC
(((.(--((..((...((.......))....))..))).)))....((..((((((((.(((......)))))))))))..))...((.((((--.....)))).)) ( -26.90)
>DroWil_CAF1 91796 93 + 1
ACAUCUGUGUGGCAGUUGUACGUGUCAUUUGGCUGCAGUUUUAUUUACUUGGCCAUAAUGCAAGUUUAUGUUUAUGGCCCUGCUCCA----GC--UCCA--------
.........(((.(((((.....(((....))).((((............((((((((.(((......)))))))))))))))..))----))--))))-------- ( -24.10)
>DroAna_CAF1 69737 102 + 1
GAUUC--UGUGGCAGUUGUACGUGUCAUUUGGCUGCAGCUUUAUUUGCUCGGCCAUAAUGCAAGUUUAUGUUUAUGGCCCUGUCCCACUUGGUCCUGCUCCUGC---
((((.--.((((.(((((((...(((....))))))))))......((..((((((((.(((......)))))))))))..)).))))..))))..........--- ( -28.50)
>DroPer_CAF1 81136 87 + 1
CAAUC--UGUGGCAGUUGUACGUGUCAUUUGGCUGCAGUUUUAUUUGCUUGGCCAUAAUGCAAGUUUAUGUUUAUGGCCCUGCUCUGCU------------------
....(--((..((...((.......))....))..)))........((..((((((((.(((......)))))))))))..))......------------------ ( -24.60)
>consensus
GAAUC__UGUGGCAGUUGUACGUGUCAUUUGGCUGCAGUUUUAUUUGCUUGGCCAUAAUGCAAGUUUAUGUUUAUGGCCCUGCUCCGCU__GC__UCCU________
.......((.((((((((((...(((....))))))))............((((((((.(((......)))))))))))))))).)).................... (-20.79 = -20.10 +  -0.69)

alignment

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secondary structure

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dotplot

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Window 4

Location 20,812,649 – 20,812,749
Length 100
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 82.56
Mean single sequence MFE -22.58
Consensus MFE -16.77
Energy contribution -17.13
Covariance contribution 0.36
Combinations/Pair 1.06
Mean z-score -1.79
Structure conservation index 0.74
SVM decision value 0.35
SVM RNA-class probability 0.701037
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20812649 100 - 23771897
---AUGCGAGGA--GCCCUUCGGAGCUGGGCCAUAAACAUAAACUUGCAUUAUGGCCAAGCAAAUAAAACUGCAGCCAAAUGACACGUACAACUGCCACA--GAUUC
---.(.(((((.--...))))).)(((.((((((((.((......))..)))))))).)))..........((((....(((...)))....))))....--..... ( -24.10)
>DroPse_CAF1 80559 87 - 1
------------------AGCAGAGCAGGGCCAUAAACAUAAACUUGCAUUAUGGCCAAGCAAAUAAAACUGCAGCCAAAUGACACGUACAACUGCCACA--GAUUG
------------------.((((.((..((((((((.((......))..))))))))..)).......((((((......)).)).))....))))....--..... ( -21.40)
>DroEre_CAF1 69382 103 - 1
GAGGAGCGAGGA--GCCCUUCGGAGCAGGACCAUAAACAUAAACUUGCAUUAUGGCCGAGCAAAUAAAACUGCAGCCAAAUGACACGUACAACUGCCACA--GAUUC
((((.((.....--)).))))(..(((((........)....((.((((((.((((...(((........))).)))))))).)).))....))))..).--..... ( -22.20)
>DroWil_CAF1 91796 93 - 1
--------UGGA--GC----UGGAGCAGGGCCAUAAACAUAAACUUGCAUUAUGGCCAAGUAAAUAAAACUGCAGCCAAAUGACACGUACAACUGCCACACAGAUGU
--------....--.(----((..((((((((((((.((......))..))))))))...........((((((......)).)).))....))))....))).... ( -20.90)
>DroAna_CAF1 69737 102 - 1
---GCAGGAGCAGGACCAAGUGGGACAGGGCCAUAAACAUAAACUUGCAUUAUGGCCGAGCAAAUAAAGCUGCAGCCAAAUGACACGUACAACUGCCACA--GAAUC
---...(..((((......(((......((((((((.((......))..))))))))..(((........)))..........)))......))))..).--..... ( -25.50)
>DroPer_CAF1 81136 87 - 1
------------------AGCAGAGCAGGGCCAUAAACAUAAACUUGCAUUAUGGCCAAGCAAAUAAAACUGCAGCCAAAUGACACGUACAACUGCCACA--GAUUG
------------------.((((.((..((((((((.((......))..))))))))..)).......((((((......)).)).))....))))....--..... ( -21.40)
>consensus
________AGGA__GC__AGCGGAGCAGGGCCAUAAACAUAAACUUGCAUUAUGGCCAAGCAAAUAAAACUGCAGCCAAAUGACACGUACAACUGCCACA__GAUUC
........................((((((((((((.((......))..))))))))..(((........)))...................))))........... (-16.77 = -17.13 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:57:04 2006