Locus 5209

Sequence ID 2R_DroMel_CAF1
Location 16,958,614 – 16,958,711
Length 97
Max. P 0.897435
window8322 window8323

overview

Window 2

Location 16,958,614 – 16,958,711
Length 97
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 76.97
Mean single sequence MFE -26.94
Consensus MFE -12.08
Energy contribution -12.47
Covariance contribution 0.39
Combinations/Pair 1.16
Mean z-score -2.42
Structure conservation index 0.45
SVM decision value 1.00
SVM RNA-class probability 0.897435
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16958614 97 + 20766785
CAUUUUCGUGUCAGUUUCAUGUAGCAUAUUGCAUGUGGCACGAUGCAGUGCAGUUAAACAUAAUGCAUAAUGCAAACGGAUGCA--------AAAACAAA----------GUAAA
(((((((((((((....(((((((....)))))))))))))))(((((((((...........)))))..))))...)))))..--------........----------..... ( -23.90)
>DroPse_CAF1 65019 100 + 1
CAUUUGCAUGUCAGCUGUA-GUUGCACGUUGCAUGUGGCACGCUGCAC--CAGUGCCACAUAAUGCAUAAUGCAAGCGGAUGCAUU--GCCAGAAAUAAA----------GUAAA
.....((((((...((((.-.(((((...((((((((((((.......--..))))))))...))))...)))))))))..))).)--))..........----------..... ( -30.90)
>DroEre_CAF1 57039 97 + 1
CAUUUUCGUGUCAGUUACAUGUAGCAUGUUGCAUGUGGCACGAUGCAGUGCAGUUAAGCAUAAUGCAUAAUGCAAACGGAUGCA--------AAAACAAA----------GUAAA
.......(((((.(((((((((((....)))))))).(((..(((((((((......))))..)))))..))).))).))))).--------........----------..... ( -28.10)
>DroYak_CAF1 58161 92 + 1
UAUUUUCGUGUCAGUUUCAUGUAGCAUGUUGCAUGUGGCACGAUGC-----AGUUAAACAUAAUGCUUUAUGCAAACUGAUGCA--------AAAACAAA----------GUAAA
.......((((((((((((((.(((((.((((((........))))-----)).........))))).)))).)))))))))).--------........----------..... ( -24.60)
>DroAna_CAF1 60188 106 + 1
CAUUUUCGUGUCAG-------CGGCGAGUUGCAUGUGGCACGAUGCAG--CAGUUAAACAUAAUGUAUAAUGUAAGCGGAUGCACUACGCCAAAAACAAAACAAAAAAAGGAAAA
..(((((((....)-------)(((((((.((((.(((((..(((((.--.............)))))..)))...)).))))))).))))..................))))). ( -23.24)
>DroPer_CAF1 67197 100 + 1
CAUUUGCAUGUCAGCUGUA-GUUGCACGUUGCAUGUGGCACGCUGCAC--CAGUGCCACAUAAUGCAUAAUGCAAGCGGAUGCAUU--GCCAGAAAUAAA----------GUAAA
.....((((((...((((.-.(((((...((((((((((((.......--..))))))))...))))...)))))))))..))).)--))..........----------..... ( -30.90)
>consensus
CAUUUUCGUGUCAGUUGCA_GUAGCAUGUUGCAUGUGGCACGAUGCAG__CAGUUAAACAUAAUGCAUAAUGCAAACGGAUGCA________AAAACAAA__________GUAAA
.......(((((.((........))...((((((...(((..(((.............)))..)))...))))))...)))))................................ (-12.08 = -12.47 +   0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 16,958,614 – 16,958,711
Length 97
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 76.97
Mean single sequence MFE -24.53
Consensus MFE -12.57
Energy contribution -12.93
Covariance contribution 0.36
Combinations/Pair 1.16
Mean z-score -2.07
Structure conservation index 0.51
SVM decision value 0.73
SVM RNA-class probability 0.835409
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16958614 97 - 20766785
UUUAC----------UUUGUUUU--------UGCAUCCGUUUGCAUUAUGCAUUAUGUUUAACUGCACUGCAUCGUGCCACAUGCAAUAUGCUACAUGAAACUGACACGAAAAUG
.....----------...(((((--------((..((.((((.(((...((((..(((......((((......)))).....)))..))))...))))))).))..))))))). ( -20.30)
>DroPse_CAF1 65019 100 - 1
UUUAC----------UUUAUUUCUGGC--AAUGCAUCCGCUUGCAUUAUGCAUUAUGUGGCACUG--GUGCAGCGUGCCACAUGCAACGUGCAAC-UACAGCUGACAUGCAAAUG
.....----------..(((.((.(((--((((((......)))))).(((((((((((((((..--.......))))))))))....)))))..-....))))).)))...... ( -28.70)
>DroEre_CAF1 57039 97 - 1
UUUAC----------UUUGUUUU--------UGCAUCCGUUUGCAUUAUGCAUUAUGCUUAACUGCACUGCAUCGUGCCACAUGCAACAUGCUACAUGUAACUGACACGAAAAUG
.....----------...(((((--------((..((.((((((((...((((.((((...........)))).))))...)))))(((((...)))))))).))..))))))). ( -21.90)
>DroYak_CAF1 58161 92 - 1
UUUAC----------UUUGUUUU--------UGCAUCAGUUUGCAUAAAGCAUUAUGUUUAACU-----GCAUCGUGCCACAUGCAACAUGCUACAUGAAACUGACACGAAAAUA
.....----------..((((((--------((..(((((((((((...((((.((((......-----)))).))))...))))..((((...)))))))))))..)))))))) ( -25.60)
>DroAna_CAF1 60188 106 - 1
UUUUCCUUUUUUUGUUUUGUUUUUGGCGUAGUGCAUCCGCUUACAUUAUACAUUAUGUUUAACUG--CUGCAUCGUGCCACAUGCAACUCGCCG-------CUGACACGAAAAUG
........(((((((...(((..(((((.(((((((..((..((((........))))......)--).((.....))...)))).))))))))-------..)))))))))).. ( -22.00)
>DroPer_CAF1 67197 100 - 1
UUUAC----------UUUAUUUCUGGC--AAUGCAUCCGCUUGCAUUAUGCAUUAUGUGGCACUG--GUGCAGCGUGCCACAUGCAACGUGCAAC-UACAGCUGACAUGCAAAUG
.....----------..(((.((.(((--((((((......)))))).(((((((((((((((..--.......))))))))))....)))))..-....))))).)))...... ( -28.70)
>consensus
UUUAC__________UUUGUUUU________UGCAUCCGCUUGCAUUAUGCAUUAUGUUUAACUG__CUGCAUCGUGCCACAUGCAACAUGCUAC_UGAAACUGACACGAAAAUG
...............(((((.((.........((((....((((((...((((.((((...........)))).))))...)))))).))))...........)).))))).... (-12.57 = -12.93 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:11 2006