Locus 7873

Sequence ID X_DroMel_CAF1
Location 19,608,105 – 19,608,244
Length 139
Max. P 0.882785
window12915 window12916

overview

Window 5

Location 19,608,105 – 19,608,214
Length 109
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.10
Mean single sequence MFE -24.80
Consensus MFE -18.99
Energy contribution -18.83
Covariance contribution -0.16
Combinations/Pair 1.04
Mean z-score -1.95
Structure conservation index 0.77
SVM decision value 0.76
SVM RNA-class probability 0.842280
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19608105 109 + 22224390
CUGAGCGCAACAUC-UUGCCGAAAAAUUAAAAUUACAGAUGGU-UUGUUGCUGGAUGAGCAUAUGUACAGGAAACCAGUUUUUAUGUUCAACAAACAAAAACCAAGAA--------A-CC
....(.((((....-)))))...................((((-((.(((...(.((((((((...((.(....)..))...)))))))).)...)))))))))....--------.-.. ( -20.50)
>DroPse_CAF1 16202 107 + 1
GAGAGAGCAACAUCGUUGCCGAAAAAUUAAAAUUACAGAUGGUUUUGUUGCUGGAUGAGCAUAUGUACAGGAAACCAGUUUUUAUGUUCAACAAACAAA-ACCAAGAA------------
....(.(((((...))))))...................((((((((((....(.((((((((...((.(....)..))...)))))))).).))))))-))))....------------ ( -27.50)
>DroSec_CAF1 13919 117 + 1
CUGAGCGCAACAUC-UUGCCGAAAAAUUAAAAUUACAGAUGGU-UUGUUGCUGGAUGAGCAUAUGUACAGGAAACCAGUUUUUAUGUUCAACAAACAAAAACCAAGAAACCAAGAAA-CC
....(.((((....-)))))...................((((-((.(((...(.((((((((...((.(....)..))...)))))))).)...))))))))).............-.. ( -20.50)
>DroAna_CAF1 16397 117 + 1
GGGAGGGCAACAUC-UUGCCGAAAAAUUAAAAUUACAGAUGGU-UUGUUGCUGGAUGAGCAUAUGUACAGGAAACCAGUUUUUAUGUUCGACAAACACCA-GAAAGAACACAAGAACUCC
.(((((((((....-)))))...................((((-((....((((..(((((((...((.(....)..))...)))))))(.....).)))-)...)))).))....)))) ( -28.00)
>DroPer_CAF1 17018 107 + 1
GAGAGAGCAACAUCGUUGCCGAAAAAUUAAAAUUACAGAUGGUUUUGUUGCUGGAUGAGCAUAUGUACAGGAAACCAGUUUUUAUGUUCAACAAACAAA-ACCAAGAA------------
....(.(((((...))))))...................((((((((((....(.((((((((...((.(....)..))...)))))))).).))))))-))))....------------ ( -27.50)
>consensus
GAGAGAGCAACAUC_UUGCCGAAAAAUUAAAAUUACAGAUGGU_UUGUUGCUGGAUGAGCAUAUGUACAGGAAACCAGUUUUUAUGUUCAACAAACAAAAACCAAGAA__________CC
......((((((.....((((..................))))..))))))((..((((((((...((.(....)..))...)))))))).))........................... (-18.99 = -18.83 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 6

Location 19,608,144 – 19,608,244
Length 100
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 79.77
Mean single sequence MFE -25.19
Consensus MFE -15.14
Energy contribution -15.90
Covariance contribution 0.76
Combinations/Pair 1.16
Mean z-score -2.13
Structure conservation index 0.60
SVM decision value 0.92
SVM RNA-class probability 0.882785
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19608144 100 + 22224390
GGU-UUGUUGCUGGAUGAGCAUAUGUACAGGAAACCAGUUUUUAUGUUCAACAAACAAAAACCAAGAA--------A-CCAAGA--AACGCACGGGCACCGAAA--AUCGAG-----UA-
(((-((.(((...(.((((((((...((.(....)..))...)))))))).)...)))))))).....--------.-......--...((....))((((...--..)).)-----).- ( -19.40)
>DroPse_CAF1 16242 93 + 1
GGUUUUGUUGCUGGAUGAGCAUAUGUACAGGAAACCAGUUUUUAUGUUCAACAAACAAA-ACCAAGAA---------------A--AACGCACGA---ACGAGA--AUCGAGUG---UA-
(((((((((....(.((((((((...((.(....)..))...)))))))).).))))))-))).....---------------.--.((((.(((---......--.))).)))---).- ( -27.60)
>DroSec_CAF1 13958 108 + 1
GGU-UUGUUGCUGGAUGAGCAUAUGUACAGGAAACCAGUUUUUAUGUUCAACAAACAAAAACCAAGAAACCAAGAAA-CCAAGA--AACGCACGGGCACCGAAA--ACCGAG-----UA-
(((-((.(((...(.((((((((...((.(....)..))...)))))))).)...))))))))..............-......--...((.(((.........--.))).)-----).- ( -21.30)
>DroAna_CAF1 16436 118 + 1
GGU-UUGUUGCUGGAUGAGCAUAUGUACAGGAAACCAGUUUUUAUGUUCGACAAACACCA-GAAAGAACACAAGAACUCCAAGAAAAACGCACGGCAGCCGAAAGAAUCGCGCGCCGUAG
(((-((.(((.((.(((....))).))))).)))))(((((((.(((((...........-....))))).))))))).............(((((.(((((.....))).))))))).. ( -30.06)
>DroPer_CAF1 17058 93 + 1
GGUUUUGUUGCUGGAUGAGCAUAUGUACAGGAAACCAGUUUUUAUGUUCAACAAACAAA-ACCAAGAA---------------A--AACGCACGA---ACGAGA--AUCGAGUG---UA-
(((((((((....(.((((((((...((.(....)..))...)))))))).).))))))-))).....---------------.--.((((.(((---......--.))).)))---).- ( -27.60)
>consensus
GGU_UUGUUGCUGGAUGAGCAUAUGUACAGGAAACCAGUUUUUAUGUUCAACAAACAAAAACCAAGAA__________CCAAGA__AACGCACGG___CCGAAA__AUCGAG_G___UA_
(((..((((....(.((((((((...((.(....)..))...)))))))).).))))...))).........................(((.(((............))).)))...... (-15.14 = -15.90 +   0.76)

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 12:49:40 2006