Locus 5737

Sequence ID 2L_DroMel_CAF1
Location 16,336,912 – 16,337,049
Length 137
Max. P 0.852302
window9089 window9090

overview

Window 9

Location 16,336,912 – 16,337,011
Length 99
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 73.90
Mean single sequence MFE -30.73
Consensus MFE -18.69
Energy contribution -17.07
Covariance contribution -1.63
Combinations/Pair 1.52
Mean z-score -1.57
Structure conservation index 0.61
SVM decision value 0.79
SVM RNA-class probability 0.852302
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16336912 99 + 22407834
---------------------CUGCUCCUCUUCCUCCAUGUAGGAAUAGGUGAGGUUUCCCGCUUCUUGACGAUAAUCGCAACUAGAUCUAUAACUUGAUGUUAGAGGGGAAUCCAGCAA
---------------------.(((((((.(((((......))))).)))...((.(((((.((..(((.((.....)))))..))..((.((((.....)))).))))))).)))))). ( -28.10)
>DroSec_CAF1 10823 99 + 1
---------------------CUGCUCCUCUUCCUCCAUGUAGGAAUAUGUGAGGUUUCCCCCUCCUUGACGAUAAUCGCAGCUAGAUCUAUAACUGGAUGUUCGAGGGGAAUCUAGCAA
---------------------.((((......(((((((((....))))).))))....((((((.(((.((.....)))))((((........))))......)))))).....)))). ( -27.30)
>DroSim_CAF1 11450 99 + 1
---------------------CUGCUCCUCUUCCUCCAUGUAGGAAUAUGUGAGGUUUCCCCCUCCUUGACGAUAAUCGCAGCUAGAUCUAUAACUGGAUGUUCGAGGGGAAUCUAGCAA
---------------------.((((......(((((((((....))))).))))....((((((.(((.((.....)))))((((........))))......)))))).....)))). ( -27.30)
>DroEre_CAF1 11330 99 + 1
---------------------CUGCUCCUCUUCCUCCAUAUAGGAAUAGCUAAGGUUUCCGCCUCCUUGGCGAUAAUCGCGACUAGAUCUGUAACUGGAUGUUUGAGGGGAACCCAGCAG
---------------------(((((((((..(.((((((((((..(((....((((..((((.....))))..))))....)))..))))))..)))).)...))))((...))))))) ( -31.80)
>DroYak_CAF1 12396 99 + 1
---------------------CUGCUCCUCUUCCUCCAUAUAGGAAUAGGUAAGGUUUCCGCCUUCUUGGCGAUAAUCGCAGCUAGAUCUAUAACUUGAUGUUCGAGGGGAACCAGGUAG
---------------------((((((((.(((((......))))).)))...((((((((((.....))).....(((.(((...(((........))))))))).))))))).))))) ( -30.60)
>DroAna_CAF1 8544 120 + 1
CGGAUGAGCUUCUUCCCGCUCCUCCUCUUCCUCCUCCACAUAGGAGUAGGUCAGAUGCCCACCUCCACUCUGAAAAUCAGGGGAAGUCACAACAUUAGAGCCCCGUGGGGUGUCCGCCAG
.(((.((((........)))).)))(((.(((.((((.....)))).)))..))).(..((((.((((..((.....))((((...((.........)).))))))))))))..)..... ( -39.30)
>consensus
_____________________CUGCUCCUCUUCCUCCAUAUAGGAAUAGGUGAGGUUUCCCCCUCCUUGACGAUAAUCGCAGCUAGAUCUAUAACUGGAUGUUCGAGGGGAAUCCAGCAA
......................(((((((.(((((......))))).)))...(((((((..((..(((.((.....)))))..))(((........))).......))))))).)))). (-18.69 = -17.07 +  -1.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 16,336,931 – 16,337,049
Length 118
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 74.55
Mean single sequence MFE -35.42
Consensus MFE -14.81
Energy contribution -14.60
Covariance contribution -0.21
Combinations/Pair 1.50
Mean z-score -2.04
Structure conservation index 0.42
SVM decision value 0.41
SVM RNA-class probability 0.725846
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16336931 118 - 22407834
--UCGGGGAGUAUUACCAUCCUACUGGUGAAUCCAUGUACUUGCUGGAUUCCCCUCUAACAUCAAGUUAUAGAUCUAGUUGCGAUUAUCGUCAAGAAGCGGGAAACCUCACCUAUUCCUA
--..(((((...((((((......))))))(((((.((....))))))))))))..........((..((((.(((.(..(((.....)))).))).(.((....)).)..))))..)). ( -30.60)
>DroSec_CAF1 10842 118 - 1
--ACGGGGAGUAUUACCGUCCUACUGGGGAAUCCAUGUACUUGCUAGAUUCCCCUCGAACAUCCAGUUAUAGAUCUAGCUGCGAUUAUCGUCAAGGAGGGGGAAACCUCACAUAUUCCUA
--...((((((((.....((((...((((((((...((....))..)))))))).(((..(((((((((......)))))).)))..)))...))))((((....))))..)))))))). ( -43.20)
>DroSim_CAF1 11469 118 - 1
--ACGGGGAGUAUUACCGUCCUACUGGGGAAUCCAUGUACUUGCUAGAUUCCCCUCGAACAUCCAGUUAUAGAUCUAGCUGCGAUUAUCGUCAAGGAGGGGGAAACCUCACAUAUUCCUA
--...((((((((.....((((...((((((((...((....))..)))))))).(((..(((((((((......)))))).)))..)))...))))((((....))))..)))))))). ( -43.20)
>DroEre_CAF1 11349 118 - 1
--ACGAGGUGUAUUACCAUCCCAGUGGUGAAUCCAUGUAUCUGCUGGGUUCCCCUCAAACAUCCAGUUACAGAUCUAGUCGCGAUUAUCGCCAAGGAGGCGGAAACCUUAGCUAUUCCUA
--...(((.((((((((((....)))))))............((((((((((((((.(((.....)))............(((.....)))....)))).)).)))).))))))).))). ( -31.30)
>DroYak_CAF1 12415 118 - 1
--ACGAGGAGUAUUACCAUCCUAAGGGAGAAUCCACUUACCUACCUGGUUCCCCUCGAACAUCAAGUUAUAGAUCUAGCUGCGAUUAUCGCCAAGAAGGCGGAAACCUUACCUAUUCCUA
--...(((((((.........((((((.....)).)))).......((((.((...((..(((.(((((......)))))..)))..))(((.....))))).)))).....))))))). ( -26.40)
>DroAna_CAF1 8584 109 - 1
AUAGGAAGA-----------GUAGUGGACCCUCCAUCUACCUGGCGGACACCCCACGGGGCUCUAAUGUUGUGACUUCCCCUGAUUUUCAGAGUGGAGGUGGGCAUCUGACCUACUCCUA
.(((((((.-----------(((((((.....))).))))))((((((..(((..((.(((......))).))((((((((((.....))).).)))))))))..)))).))...))))) ( -37.80)
>consensus
__ACGAGGAGUAUUACCAUCCUACUGGAGAAUCCAUGUACCUGCUGGAUUCCCCUCGAACAUCCAGUUAUAGAUCUAGCUGCGAUUAUCGUCAAGGAGGGGGAAACCUCACCUAUUCCUA
.....(((((((...(((......)))....(((........((((((((.....................)))))))).(((.....))).........))).........))))))). (-14.81 = -14.60 +  -0.21)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:28 2006