Locus 5738

Sequence ID 2L_DroMel_CAF1
Location 16,337,166 – 16,337,285
Length 119
Max. P 0.942197
window9091 window9092

overview

Window 1

Location 16,337,166 – 16,337,285
Length 119
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 77.71
Mean single sequence MFE -32.32
Consensus MFE -16.80
Energy contribution -17.92
Covariance contribution 1.11
Combinations/Pair 1.25
Mean z-score -1.86
Structure conservation index 0.52
SVM decision value 0.20
SVM RNA-class probability 0.629891
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16337166 119 + 22407834
AAUAGACUUCCUGGCUUCUAAGUGCGCCGCAAUGAUCUCUACAGCAUUCCCUUGGACACCACAUGGUUGUGCCAGCAUCCUUUUUGGAUGUUUGCUGGAUUUCUGAGAGCUUGUUUCUU-
..((((..(((.(((..........)))((((...........((((..((.((.......)).))..))))..((((((.....)))))))))).)))..))))..............- ( -30.30)
>DroSec_CAF1 11074 119 + 1
AAUAGACAUCCUGGCUUUUAAGUGCGCCGCAAUGAUCUCUACAGCAUUCUCUUGGACACCACAUGGUUGUGCCAGCAUCCUUUUUGGAUGUUUGUUGGAUUUCUGUGAGGUUAUUCCUA-
............(((..........)))(.(((((((((.((((...(((..((((((((....)).))).)))((((((.....)))))).....)))...))))))))))))).)..- ( -32.20)
>DroSim_CAF1 11701 119 + 1
AAUAGACAUCCUGGCUUUUAAGUGCGCCGCAAUGAUCUCUACAGCAUUCUCUUGGACACCACAUGGUUGUGCCAGCAUCCUUUUUGGAUGUUUGUUGGAUUUCUGUGAGGUUAUUCCUA-
............(((..........)))(.(((((((((.((((...(((..((((((((....)).))).)))((((((.....)))))).....)))...))))))))))))).)..- ( -32.20)
>DroEre_CAF1 11572 119 + 1
AACAGACUUCCUGCCUUCUAAGCGCGCCGCAAUGUUCUCUGCAGCAUUCCCUUGGACACCACAUGGUUGUGCCGGCAUCCUUUUUGGAUGUUUGCAGGACUUCUGUGAGUUUGUUUCUU-
(((((((((((.((((....)).))((.(((........))).))........)))...((((.((((.(((..((((((.....))))))..))).))))..))))))))))))....- ( -39.30)
>DroYak_CAF1 12650 116 + 1
AAUAGACUUCCUGCUCCC---GCGCACCACAAUGUUCUCCACAGCAUUCCCUCGGACACCACAUGGUGGUACCGGCAUCCUUUUUGGAUGUAUUUAGGAUUUCUGUGAGUUUAUUUCUU-
((((((((...(((....---..))).............(((((...(((..(((.((((....))))...)))((((((.....)))))).....)))...)))))))))))))....- ( -33.80)
>DroAna_CAF1 8844 105 + 1
AACAU-UAUCCAGACUUCUGACCACUCCGCAGCAUUGUCUGCAGCAUUCCAUUGGACACCACAUGGUGGUGCCCUCAUCCCUA---ACUG-----------UCUGACAAGCGGUUCCUGA
.....-....(((....)))......((((....(((((.((((.........((.((((((...)))))).)).........---.)))-----------)..)))))))))....... ( -26.11)
>consensus
AAUAGACAUCCUGGCUUCUAAGCGCGCCGCAAUGAUCUCUACAGCAUUCCCUUGGACACCACAUGGUUGUGCCAGCAUCCUUUUUGGAUGUUUGUUGGAUUUCUGUGAGGUUAUUCCUU_
..............................((((..(((.((((...(((..((((((((....))).)).)))((((((.....)))))).....)))...)))))))..))))..... (-16.80 = -17.92 +   1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 16,337,166 – 16,337,285
Length 119
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 77.71
Mean single sequence MFE -34.52
Consensus MFE -19.25
Energy contribution -19.70
Covariance contribution 0.45
Combinations/Pair 1.23
Mean z-score -2.32
Structure conservation index 0.56
SVM decision value 1.32
SVM RNA-class probability 0.942197
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16337166 119 - 22407834
-AAGAAACAAGCUCUCAGAAAUCCAGCAAACAUCCAAAAAGGAUGCUGGCACAACCAUGUGGUGUCCAAGGGAAUGCUGUAGAGAUCAUUGCGGCGCACUUAGAAGCCAGGAAGUCUAUU
-...............(((..(((.((...(((((.....)))))...)).........((((.((.(((....((((((((......))))))))..))).)).)))))))..)))... ( -30.90)
>DroSec_CAF1 11074 119 - 1
-UAGGAAUAACCUCACAGAAAUCCAACAAACAUCCAAAAAGGAUGCUGGCACAACCAUGUGGUGUCCAAGAGAAUGCUGUAGAGAUCAUUGCGGCGCACUUAAAAGCCAGGAUGUCUAUU
-.(((.....)))...(((.((((......(((((.....))))).((((...(((....)))......(((..((((((((......))))))))..)))....)))))))).)))... ( -31.30)
>DroSim_CAF1 11701 119 - 1
-UAGGAAUAACCUCACAGAAAUCCAACAAACAUCCAAAAAGGAUGCUGGCACAACCAUGUGGUGUCCAAGAGAAUGCUGUAGAGAUCAUUGCGGCGCACUUAAAAGCCAGGAUGUCUAUU
-.(((.....)))...(((.((((......(((((.....))))).((((...(((....)))......(((..((((((((......))))))))..)))....)))))))).)))... ( -31.30)
>DroEre_CAF1 11572 119 - 1
-AAGAAACAAACUCACAGAAGUCCUGCAAACAUCCAAAAAGGAUGCCGGCACAACCAUGUGGUGUCCAAGGGAAUGCUGCAGAGAACAUUGCGGCGCGCUUAGAAGGCAGGAAGUCUGUU
-.............(((((..((((((...(((((.....)))))..((.(((.((....)))))))..(((..((((((((......))))))))..))).....))))))..))))). ( -41.60)
>DroYak_CAF1 12650 116 - 1
-AAGAAAUAAACUCACAGAAAUCCUAAAUACAUCCAAAAAGGAUGCCGGUACCACCAUGUGGUGUCCGAGGGAAUGCUGUGGAGAACAUUGUGGUGCGC---GGGAGCAGGAAGUCUAUU
-...............(((..((((.....(((((.....)))))((((((((((.((((....((((.((.....)).))))..)))).))))))).)---))....))))..)))... ( -37.20)
>DroAna_CAF1 8844 105 - 1
UCAGGAACCGCUUGUCAGA-----------CAGU---UAGGGAUGAGGGCACCACCAUGUGGUGUCCAAUGGAAUGCUGCAGACAAUGCUGCGGAGUGGUCAGAAGUCUGGAUA-AUGUU
(((((.((((((..(((..-----------(...---...)..)))(((((((((...))))))))).........((((((......))))))))))))......)))))...-..... ( -34.80)
>consensus
_AAGAAACAACCUCACAGAAAUCCAACAAACAUCCAAAAAGGAUGCUGGCACAACCAUGUGGUGUCCAAGGGAAUGCUGUAGAGAACAUUGCGGCGCACUUAGAAGCCAGGAAGUCUAUU
................(((..(((......(((((.....)))))..((.((.(((....))))))).......((((((((......)))))))).............)))..)))... (-19.25 = -19.70 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:30 2006