Locus 3416

Sequence ID 3R_DroMel_CAF1
Location 9,289,928 – 9,290,039
Length 111
Max. P 0.929484
window5482 window5483

overview

Window 2

Location 9,289,928 – 9,290,039
Length 111
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 84.20
Mean single sequence MFE -36.14
Consensus MFE -31.94
Energy contribution -31.80
Covariance contribution -0.14
Combinations/Pair 1.04
Mean z-score -1.80
Structure conservation index 0.88
SVM decision value 0.73
SVM RNA-class probability 0.834609
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9289928 111 + 27905053
-----UUUUGCUGGGCAACUCGCCGCUUUAAUAAGCACUUGGGCAGCAGGAGGUAUUGCGGACACGAACCUAACUCCUGCGGCACUAGUACUUAGGAAAGCGAACUUGGUAAGUAG----
-----.((((((.(((.....)))(((((..((((.(((...((.(((((((......((....)).......))))))).))...))).))))..)))))......))))))...---- ( -39.42)
>DroPse_CAF1 59504 110 + 1
-----CACUGUUGGACCAC-CGCCGCUUUAAUAAGCACUUGGGCAGCAGGAGGUAUUGCGGACACGAACCUAACUCCUGCGGCACUAGUACUUAGGAAAGCAAACCGCCAAAAUGC----
-----.....((((.....-....(((((..((((.(((...((.(((((((......((....)).......))))))).))...))).))))..)))))......)))).....---- ( -33.38)
>DroWil_CAF1 62444 111 + 1
-----UUAAGUAGGUAAAGUCGUCGCUUUAAUAAGCACUUGGGCAGCAGGAGGUAUUACGGACACGAACCAAACUCCUGCGGCACUAGUACUUAGUAAAGCAAUACGCUUCGUUCA----
-----.......((..(((.(((.((((((.((((.(((...((.(((((((......((....)).......))))))).))...))).)))).))))))...))))))..))..---- ( -33.22)
>DroYak_CAF1 61859 115 + 1
-----UUUUGCUGGGCAACUCGCCGCUUUAAUAAGCACUUGGGCAGCAGGAGGUAUUGCGGACACGAACCUAACUCCUGCGGCACUAGUACUUAGGAAAGCGAACUUGGUAAGUACAUCG
-----.((((((.(((.....)))(((((..((((.(((...((.(((((((......((....)).......))))))).))...))).))))..)))))......))))))....... ( -39.42)
>DroAna_CAF1 60581 115 + 1
UUGUAUUUUGCUGGACAACUCGCCGCUUUAAUAAGCACUUGGGCAGCAGGAGGUAUUGCGGACACGAACCUAACUCCUGCGGCACUAGUACUUAGGAAAGCGA-CUUCGCAGGAAG----
.....((((((.((........))(((((..((((.(((...((.(((((((......((....)).......))))))).))...))).))))..)))))..-....))))))..---- ( -38.02)
>DroPer_CAF1 62355 110 + 1
-----CACUGUUGGACCAC-CGCCGCUUUAAUAAGCACUUGGGCAGCAGGAGGUAUUGCGGACACGAACCUAACUCCUGCGGCACUAGUACUUAGGAAAGCAAACCGCCAAAAUGC----
-----.....((((.....-....(((((..((((.(((...((.(((((((......((....)).......))))))).))...))).))))..)))))......)))).....---- ( -33.38)
>consensus
_____UUUUGCUGGACAACUCGCCGCUUUAAUAAGCACUUGGGCAGCAGGAGGUAUUGCGGACACGAACCUAACUCCUGCGGCACUAGUACUUAGGAAAGCAAACCGCGUAAGUAC____
............((........))(((((..((((.(((...((.(((((((......((....)).......))))))).))...))).))))..)))))................... (-31.94 = -31.80 +  -0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 9,289,928 – 9,290,039
Length 111
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 84.20
Mean single sequence MFE -37.27
Consensus MFE -33.74
Energy contribution -33.35
Covariance contribution -0.39
Combinations/Pair 1.07
Mean z-score -2.02
Structure conservation index 0.91
SVM decision value 1.20
SVM RNA-class probability 0.929484
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9289928 111 - 27905053
----CUACUUACCAAGUUCGCUUUCCUAAGUACUAGUGCCGCAGGAGUUAGGUUCGUGUCCGCAAUACCUCCUGCUGCCCAAGUGCUUAUUAAAGCGGCGAGUUGCCCAGCAAAA-----
----...........((.((((((..((((((((.(.((.(((((((....(((((....)).)))..))))))).)).).))))))))..))))))))...((((...))))..----- ( -35.80)
>DroPse_CAF1 59504 110 - 1
----GCAUUUUGGCGGUUUGCUUUCCUAAGUACUAGUGCCGCAGGAGUUAGGUUCGUGUCCGCAAUACCUCCUGCUGCCCAAGUGCUUAUUAAAGCGGCG-GUGGUCCAACAGUG-----
----.(((((((((.(.(((((((..((((((((.(.((.(((((((....(((((....)).)))..))))))).)).).))))))))..)))))))..-.).).)))).))))----- ( -36.20)
>DroWil_CAF1 62444 111 - 1
----UGAACGAAGCGUAUUGCUUUACUAAGUACUAGUGCCGCAGGAGUUUGGUUCGUGUCCGUAAUACCUCCUGCUGCCCAAGUGCUUAUUAAAGCGACGACUUUACCUACUUAA-----
----.....(((((((...((((((.((((((((.(.((.(((((((....(((((....)).)))..))))))).)).).)))))))).)))))).))).))))..........----- ( -38.60)
>DroYak_CAF1 61859 115 - 1
CGAUGUACUUACCAAGUUCGCUUUCCUAAGUACUAGUGCCGCAGGAGUUAGGUUCGUGUCCGCAAUACCUCCUGCUGCCCAAGUGCUUAUUAAAGCGGCGAGUUGCCCAGCAAAA-----
...(((.............(((((..((((((((.(.((.(((((((....(((((....)).)))..))))))).)).).))))))))..)))))(((.....)))..)))...----- ( -36.50)
>DroAna_CAF1 60581 115 - 1
----CUUCCUGCGAAG-UCGCUUUCCUAAGUACUAGUGCCGCAGGAGUUAGGUUCGUGUCCGCAAUACCUCCUGCUGCCCAAGUGCUUAUUAAAGCGGCGAGUUGUCCAGCAAAAUACAA
----......((((.(-(((((((..((((((((.(.((.(((((((....(((((....)).)))..))))))).)).).))))))))..))))))))...)))).............. ( -40.30)
>DroPer_CAF1 62355 110 - 1
----GCAUUUUGGCGGUUUGCUUUCCUAAGUACUAGUGCCGCAGGAGUUAGGUUCGUGUCCGCAAUACCUCCUGCUGCCCAAGUGCUUAUUAAAGCGGCG-GUGGUCCAACAGUG-----
----.(((((((((.(.(((((((..((((((((.(.((.(((((((....(((((....)).)))..))))))).)).).))))))))..)))))))..-.).).)))).))))----- ( -36.20)
>consensus
____GUACUUACGAAGUUCGCUUUCCUAAGUACUAGUGCCGCAGGAGUUAGGUUCGUGUCCGCAAUACCUCCUGCUGCCCAAGUGCUUAUUAAAGCGGCGAGUUGUCCAACAAAA_____
.................(((((((..((((((((.(.((.(((((((....(((((....)).)))..))))))).)).).))))))))..)))))))...................... (-33.74 = -33.35 +  -0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:28 2006