Locus 8642

Sequence ID	3R_DroMel_CAF1
Location	23,109,962 – 23,110,122
Length	160
Max. P	0.907011

overview

Window 8

Location	23,109,962 – 23,110,082
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	87.42
Mean single sequence MFE	-37.06
Consensus MFE	-31.10
Energy contribution	-31.18
Covariance contribution	0.08
Combinations/Pair	1.23
Mean z-score	-1.84
Structure conservation index	0.84
SVM decision value	1.05
SVM RNA-class probability	0.907011
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23109962 120 + 27905053
UGGAGGAAAAAUGCACCACUGCCAUAAUUGAGGCUCUGCAGCGCAACAAUCCCAGCCUGAUGGCCGUGCUGAAGGCCACAAACUUGCUGGUAAAGAAGUUCCCCAAGCUGCAACUCCUUC
.((((((.............(((........)))..((((((.........(((((.((.(((((........))))))).....)))))....(........)..))))))..)))))) ( -35.10)
>DroSim_CAF1 15153 120 + 1
UGGAGGAAAAAUGCACCACUGCCAUAAUUGAGGCUCUGCAGCGGAACAAUCCCAGCCUGAUGGCCGUGCUCAAGGCCACAAACUUGCUGGUAAAGAAGUUCCCCAAGCUGCAACUCCUUC
.((((((.............(((........)))..(((((((((((....(((((.((.(((((........))))))).....))))).......)))))....))))))..)))))) ( -40.20)
>DroEre_CAF1 13479 120 + 1
UGGAGGAAAAAUGCACCACUGCCAUAAUUGAGGCUCUGCAGCGGAACAAUCCCAGCCUGAUGGCCGUGCUCAAGGCCACAAACUUGCUGGUAAAGAAGUUCCCCAAGCUGCAACUCCUUC
.((((((.............(((........)))..(((((((((((....(((((.((.(((((........))))))).....))))).......)))))....))))))..)))))) ( -40.20)
>DroYak_CAF1 13437 120 + 1
UGGAGGAAAAAUGCACCACUGCCAUAAUUGAGGCUCUGCAGCGGAACAAUCCCAGUCUGAUGGCCGUGCUCAAGGCCACAAACUUGCUGGUAAAGAAGUUCCCCAAGCUGCAACUCCUUC
.((((((.............(((........)))..(((((((((((....(((((.((.(((((........))))))).....))))).......)))))....))))))..)))))) ( -38.60)
>DroAna_CAF1 12864 120 + 1
UAGAGGAAAAGUGCAUCACUGCCGUUCUCGAAGCUCUCAAGAGAAAUAGUCCCAGUCUUUUGCCCAUUUUGAAGGCCACUAACCUUCUGGUGAAAAAGUUUCCGAGAUUGGAGCUUCUCC
..(((((..((((...))))....)))))((((((((....))).......((((((((..(((.........)))(((((......)))))...........)))))))).)))))... ( -31.20)
>consensus
UGGAGGAAAAAUGCACCACUGCCAUAAUUGAGGCUCUGCAGCGGAACAAUCCCAGCCUGAUGGCCGUGCUCAAGGCCACAAACUUGCUGGUAAAGAAGUUCCCCAAGCUGCAACUCCUUC
.((((((.............(((........)))..(((((((((((....(((((....(((((........))))).......))))).......)))))....))))))..)))))) (-31.10 = -31.18 +   0.08)

alignment

secondary structure

dotplot

Window 9

Location	23,109,962 – 23,110,082
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	87.42
Mean single sequence MFE	-42.90
Consensus MFE	-34.04
Energy contribution	-35.00
Covariance contribution	0.96
Combinations/Pair	1.17
Mean z-score	-1.90
Structure conservation index	0.79
SVM decision value	0.87
SVM RNA-class probability	0.871390
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23109962 120 - 27905053
GAAGGAGUUGCAGCUUGGGGAACUUCUUUACCAGCAAGUUUGUGGCCUUCAGCACGGCCAUCAGGCUGGGAUUGUUGCGCUGCAGAGCCUCAAUUAUGGCAGUGGUGCAUUUUUCCUCCA
...(((....(((((((..((((((((.....)).))))))((((((........)))))))))))))(((....(((((..(...(((........))).)..)))))....)))))). ( -45.20)
>DroSim_CAF1 15153 120 - 1
GAAGGAGUUGCAGCUUGGGGAACUUCUUUACCAGCAAGUUUGUGGCCUUGAGCACGGCCAUCAGGCUGGGAUUGUUCCGCUGCAGAGCCUCAAUUAUGGCAGUGGUGCAUUUUUCCUCCA
...(((((((((((....(((((.......(((((......((((((........))))))...)))))....)))))))))))).(((........)))...............)))). ( -44.80)
>DroEre_CAF1 13479 120 - 1
GAAGGAGUUGCAGCUUGGGGAACUUCUUUACCAGCAAGUUUGUGGCCUUGAGCACGGCCAUCAGGCUGGGAUUGUUCCGCUGCAGAGCCUCAAUUAUGGCAGUGGUGCAUUUUUCCUCCA
...(((((((((((....(((((.......(((((......((((((........))))))...)))))....)))))))))))).(((........)))...............)))). ( -44.80)
>DroYak_CAF1 13437 120 - 1
GAAGGAGUUGCAGCUUGGGGAACUUCUUUACCAGCAAGUUUGUGGCCUUGAGCACGGCCAUCAGACUGGGAUUGUUCCGCUGCAGAGCCUCAAUUAUGGCAGUGGUGCAUUUUUCCUCCA
...(((((((((((....(((((.......((....(((((((((((........))))).)))))).))...)))))))))))).(((........)))...............)))). ( -42.70)
>DroAna_CAF1 12864 120 - 1
GGAGAAGCUCCAAUCUCGGAAACUUUUUCACCAGAAGGUUAGUGGCCUUCAAAAUGGGCAAAAGACUGGGACUAUUUCUCUUGAGAGCUUCGAGAACGGCAGUGAUGCACUUUUCCUCUA
(((((((((((((((((((...(((((.(.(((((((((.....))))))....)))).))))).)))))).........))).)))))))(((((..(((....)))..))))).))). ( -37.00)
>consensus
GAAGGAGUUGCAGCUUGGGGAACUUCUUUACCAGCAAGUUUGUGGCCUUGAGCACGGCCAUCAGGCUGGGAUUGUUCCGCUGCAGAGCCUCAAUUAUGGCAGUGGUGCAUUUUUCCUCCA
...(((((((((((....(((((.......(((((......((((((........))))))...)))))....)))))))))))).(((........)))...............)))). (-34.04 = -35.00 +   0.96)

alignment

secondary structure

dotplot

Window 0

Location	23,110,002 – 23,110,122
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	87.08
Mean single sequence MFE	-47.36
Consensus MFE	-34.54
Energy contribution	-36.14
Covariance contribution	1.60
Combinations/Pair	1.16
Mean z-score	-2.12
Structure conservation index	0.73
SVM decision value	0.72
SVM RNA-class probability	0.832779
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23110002 120 - 27905053
UGGCGUUGCAGGCAGUGAUAGAAGUGCUCCAACUUCAGCGGAAGGAGUUGCAGCUUGGGGAACUUCUUUACCAGCAAGUUUGUGGCCUUCAGCACGGCCAUCAGGCUGGGAUUGUUGCGC
..((((.((((((.((((.((((((.((((((((.((((.......)))).)).)))))).))))))))))..)).(((((((((((........))))).))))))....)))).)))) ( -46.40)
>DroSim_CAF1 15193 120 - 1
UGGCGUUGCAGGCAAUGAUAGAAGUGCUCCAGCUUCAGCGGAAGGAGUUGCAGCUUGGGGAACUUCUUUACCAGCAAGUUUGUGGCCUUGAGCACGGCCAUCAGGCUGGGAUUGUUCCGC
..(((..((((.(......((((((.((((((((.((((.......)))).))).))))).))))))...(((((......((((((........))))))...)))))).))))..))) ( -47.10)
>DroEre_CAF1 13519 120 - 1
UGGCGUUGCAGGCAGUGAUAGAAGUGCUCCAGCUUCAGCGGAAGGAGUUGCAGCUUGGGGAACUUCUUUACCAGCAAGUUUGUGGCCUUGAGCACGGCCAUCAGGCUGGGAUUGUUCCGC
..(((..((((((.((((.((((((.((((((((.((((.......)))).))).))))).))))))))))..)).(((((((((((........))))).))))))....))))..))) ( -48.00)
>DroYak_CAF1 13477 120 - 1
UGGCGUUGCAGGCAGUGAUAGAAGUGCUCCAGCUUCAGCGGAAGGAGUUGCAGCUUGGGGAACUUCUUUACCAGCAAGUUUGUGGCCUUGAGCACGGCCAUCAGACUGGGAUUGUUCCGC
..(((..((((((.((((.((((((.((((((((.((((.......)))).))).))))).))))))))))..)).(((((((((((........))))).))))))....))))..))) ( -48.50)
>DroAna_CAF1 12904 120 - 1
UGCCGCUGCAGGCAGCGGUAGAAGUGCUCCAGGCGCAGGCGGAGAAGCUCCAAUCUCGGAAACUUUUUCACCAGAAGGUUAGUGGCCUUCAAAAUGGGCAAAAGACUGGGACUAUUUCUC
((((((((....))))))))((((((..((((((.((((.(((((((.(((......)))..))))))).)).((((((.....))))))....)).))......))))..).))))).. ( -46.80)
>consensus
UGGCGUUGCAGGCAGUGAUAGAAGUGCUCCAGCUUCAGCGGAAGGAGUUGCAGCUUGGGGAACUUCUUUACCAGCAAGUUUGUGGCCUUGAGCACGGCCAUCAGGCUGGGAUUGUUCCGC
..(((..((((........((((((.((((((((.((((.......)))).))).))))).))))))...((....(((((((((((........))))).)))))).)).))))..))) (-34.54 = -36.14 +   1.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:16:07 2006