Locus 5925

Sequence ID 2L_DroMel_CAF1
Location 16,710,375 – 16,710,653
Length 278
Max. P 0.977209
window9420 window9421 window9422

overview

Window 0

Location 16,710,375 – 16,710,494
Length 119
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 93.85
Mean single sequence MFE -30.10
Consensus MFE -28.74
Energy contribution -28.86
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -2.61
Structure conservation index 0.95
SVM decision value 1.79
SVM RNA-class probability 0.977209
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16710375 119 + 22407834
UUAUGUCUCUGCCAGCAGGACAAAAGCAAAUUAAUUAAAUUAUAGCAAUUCCUC-AACACUUAUGCUGUAAUUGAUGUUGGGGCACCAACACCAUGUGAACUAGCUGCAGCUCAUAACAA
(((((...((((.(((((..((...............((((((((((.......-........))))))))))(.((((((....)))))).)...))..)).)))))))..)))))... ( -30.16)
>DroSec_CAF1 164970 119 + 1
UUAUGUCUCUGCCAGCAGGACAA-AGCAAAUUAAUUAAAUUAUAGCAAUUCCUGUUACACUUAUGCUGUAAUUGCUGUUGGGGCACCAACACCAUGUGAACUAGCUGCAGCUCAUAACGA
(((((...((((.(((((..((.-.............((((((((((................))))))))))(.((((((....)))))).)...))..)).)))))))..)))))... ( -30.09)
>DroEre_CAF1 166244 117 + 1
UUAUGUCUCUGCCAGCAGGACAA-AGCAAAUUAAUUAAAUUAUAGCAAUUCCUC-AACAUUUAUGCUGUAAUUGAUGUUGGGCCACC-ACAGCAUGUGAACUAGCUGCGGCUCAUAACAA
...((((.(((....))))))).-.............((((((((((.......-........))))))))))..(((((((((...-.((((..(....)..)))).))))))..))). ( -30.06)
>consensus
UUAUGUCUCUGCCAGCAGGACAA_AGCAAAUUAAUUAAAUUAUAGCAAUUCCUC_AACACUUAUGCUGUAAUUGAUGUUGGGGCACCAACACCAUGUGAACUAGCUGCAGCUCAUAACAA
(((((...((((.(((((..((...............((((((((((................))))))))))(.((((((....)))))).)...))..)).)))))))..)))))... (-28.74 = -28.86 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 16,710,494 – 16,710,613
Length 119
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 93.31
Mean single sequence MFE -32.00
Consensus MFE -29.78
Energy contribution -30.03
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.99
Structure conservation index 0.93
SVM decision value 0.75
SVM RNA-class probability 0.840723
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16710494 119 + 22407834
AAGGCAUACGGCUCAUUGGCCUAUAUAAAAUGCCAGUGCCAUGCCAAGGCAUAAACAA-AAGGCAGAAAUGAUUAAUAAACUGAAGCCAAAAAGGGGGCGGCACAUCAGCUCCGCUGGUG
..(((((..((((....))))........))))).(((((((((....))))......-....((....))..............(((........))))))))((((((...)))))). ( -33.70)
>DroSec_CAF1 165089 119 + 1
AAGGCAUACGGCUCAUUGGCCUAUAUAAAAUGCCAGUGCCAUGCCAAGGCAUAAACAA-AAGGCAGAAAUGAUUAAUAAACUGAAGCCAAAAAGGGGGCGGCACAUCAGCUCCGCUGGUG
..(((((..((((....))))........))))).(((((((((....))))......-....((....))..............(((........))))))))((((((...)))))). ( -33.70)
>DroEre_CAF1 166361 110 + 1
AAGGCAUACGGCUCAUUGGCCUAUAUAAAAUGCCAGUGCCA----------UAAACAAAAAGGCAGAAGUGAUUAAUAAACUGAAGCCAAAAAGGGGGCGGCACAUCAGCUCCGCUGGUG
..(((((..((((....))))........))))).(((((.----------................(((.........)))...(((........))))))))((((((...)))))). ( -28.60)
>consensus
AAGGCAUACGGCUCAUUGGCCUAUAUAAAAUGCCAGUGCCAUGCCAAGGCAUAAACAA_AAGGCAGAAAUGAUUAAUAAACUGAAGCCAAAAAGGGGGCGGCACAUCAGCUCCGCUGGUG
..(((((..((((....))))........))))).(((((((((....)))).................................(((........))))))))((((((...)))))). (-29.78 = -30.03 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 16,710,534 – 16,710,653
Length 119
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 92.76
Mean single sequence MFE -27.67
Consensus MFE -23.30
Energy contribution -23.33
Covariance contribution 0.03
Combinations/Pair 1.03
Mean z-score -1.88
Structure conservation index 0.84
SVM decision value -0.04
SVM RNA-class probability 0.511241
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16710534 119 + 22407834
AUGCCAAGGCAUAAACAA-AAGGCAGAAAUGAUUAAUAAACUGAAGCCAAAAAGGGGGCGGCACAUCAGCUCCGCUGGUGUGUGGAAUACAGAUGAUGUGACAUAAUUGAAAAACCGGAG
((((....))))......-..((((....)).(((((...(((..(((........))).((((((((((...))))))))))......)))(((......))).)))))....)).... ( -28.30)
>DroSec_CAF1 165129 119 + 1
AUGCCAAGGCAUAAACAA-AAGGCAGAAAUGAUUAAUAAACUGAAGCCAAAAAGGGGGCGGCACAUCAGCUCCGCUGGUGUGUGGAAUACAGAUGAUGUGACAUAAUUGAAAAACCGGAG
((((....))))......-..((((....)).(((((...(((..(((........))).((((((((((...))))))))))......)))(((......))).)))))....)).... ( -28.30)
>DroEre_CAF1 166401 110 + 1
A----------UAAACAAAAAGGCAGAAGUGAUUAAUAAACUGAAGCCAAAAAGGGGGCGGCACAUCAGCUCCGCUGGUGUGUGGAAUACAGAUGAUGUGACAUAAUUGAAAAUCCGGAG
.----------..........(((...(((.........)))...))).....(((..(.((((((((((...)))))))))).)..((((.....)))).............))).... ( -26.40)
>consensus
AUGCCAAGGCAUAAACAA_AAGGCAGAAAUGAUUAAUAAACUGAAGCCAAAAAGGGGGCGGCACAUCAGCUCCGCUGGUGUGUGGAAUACAGAUGAUGUGACAUAAUUGAAAAACCGGAG
((((....))))...........(((..(((.(((.....(((..(((........))).((((((((((...))))))))))......)))......))))))..)))........... (-23.30 = -23.33 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:45 2006