Locus 5755

Sequence ID	3R_DroMel_CAF1
Location	14,984,564 – 14,984,695
Length	131
Max. P	0.855016

overview

Window 0

Location	14,984,564 – 14,984,667
Length	103
Sequences	6
Columns	106
Reading direction	forward
Mean pairwise identity	78.27
Mean single sequence MFE	-33.78
Consensus MFE	-22.13
Energy contribution	-22.88
Covariance contribution	0.75
Combinations/Pair	1.25
Mean z-score	-1.71
Structure conservation index	0.66
SVM decision value	0.80
SVM RNA-class probability	0.855016
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14984564 103 + 27905053
CC---ACUGUGUCCACCAAUCUCGGCGUGGGAAUGGGUCUGGGAUUGCCCGUGCAGGGCGAACAGCUGCGCGGAGCUUCCAAUUCCAGUAACAAUAAUAACAACAA
..---..(((.....(((.((((.....)))).)))..((((((((((((((((((.........)))))))).))....))))))))..)))............. ( -31.60)
>DroSec_CAF1 4202 100 + 1
CC---ACUGUGUCCACCAAUCUCGGCGUGGGAAUGGGUCUGGGAUUUCCCGUGCAGGCUGAACAGCUGCGCGGAGCUUCUAAUCCCAGUAACAAUAAUAACAA---
..---..(((.....(((.((((.....)))).)))..((((((((.(((((((((.((....)))))))))).).....))))))))..)))..........--- ( -33.50)
>DroSim_CAF1 3781 100 + 1
CC---ACUGUGUCCACCAAUCUCGGCGUUGGAAUGGGUCUGGGAUUUCCCGUGCAGGCUGAACAGCUGCGCGGAGCUUCUAAUCCCAGUAACAGUAAUAACAA---
..---(((((.(((((((((......)))))..)))).((((((((.(((((((((.((....)))))))))).).....))))))))..)))))........--- ( -37.20)
>DroEre_CAF1 4133 98 + 1
CC---ACCGUGUCCCCCAAUCUCGGCGUGGGAAUGGGUCUGGGAUUGCCCGUGCAGGCCGACCAGCUGCGCGGAGCUUCUAAUCCCAGUAACAAUAAUAAC-----
..---.((((.((((((......))...))))))))..((((((((((((((((((.(......))))))))).))....)))))))).............----- ( -37.30)
>DroYak_CAF1 3776 97 + 1
CC---ACCGUGUCUCCCAAUCUCGGCGUAGGAAUGGGUCUGGGAUUGCCCGUGCAGGCCGACCAGCUGCGCGGAGCUUCUAAUCCCACUAACAACAAUAA------
..---.((((..(((((......)).).))..))))...(((((((((((((((((.(......))))))))).))....))))))).............------ ( -31.80)
>DroPer_CAF1 3271 94 + 1
CUCAGGCAGCAUCAAACAAUCUGAGCGC---CAUGGGACUAGGGCUGCCGUUGCAGCCGGAUCAUUUCCGACAUGGCAGCAAUCCAAGUAACA------ACAA---
(((((((.((.(((.......)))))))---).))))(((.((((((((((....(.((((.....)))).)))))))))...)).)))....------....--- ( -31.30)
>consensus
CC___ACUGUGUCCACCAAUCUCGGCGUGGGAAUGGGUCUGGGAUUGCCCGUGCAGGCCGAACAGCUGCGCGGAGCUUCUAAUCCCAGUAACAAUAAUAACAA___
...............(((.(((.......))).)))..((((((((((((((((((.........)))))))).)....))))))))).................. (-22.13 = -22.88 +   0.75)

alignment

secondary structure

dotplot

Window 1

Location	14,984,598 – 14,984,695
Length	97
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	78.71
Mean single sequence MFE	-24.50
Consensus MFE	-17.53
Energy contribution	-18.92
Covariance contribution	1.39
Combinations/Pair	1.17
Mean z-score	-1.37
Structure conservation index	0.72
SVM decision value	0.53
SVM RNA-class probability	0.771605
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14984598 97 + 27905053
UCUGGGAUUGCCCGUGCAGGGCGAACAGCUGCGCGGAGCUUCCAAUUCCAGUAACAAUAAUAACAACAACAACAAGGUGUACAAGCGUUACAACA---GC
.((((((..((((((((((.........)))))))).)).))).......(((((.............((......))((....)))))))..))---). ( -26.10)
>DroVir_CAF1 3703 91 + 1
UAUGGGCUUGGCCGUGCAACCAGAUCACAUGCGAAAUGUAGGUAAUUUGAACAUUA------GCAA---UAACAAACUGAAUAAGCGGUACAACAGUGGC
.....((((((((((.....(((...((((.....)))).(.((((......))))------.)..---.......))).....))))).))..)))... ( -13.60)
>DroSec_CAF1 4236 94 + 1
UCUGGGAUUUCCCGUGCAGGCUGAACAGCUGCGCGGAGCUUCUAAUCCCAGUAACAAUAAUAACAA---CAACAAGGUGUACAAGCGAUACAACA---GC
.((((((((.(((((((((.((....)))))))))).).....))))))))...............---.......((((.......))))....---.. ( -26.90)
>DroSim_CAF1 3815 94 + 1
UCUGGGAUUUCCCGUGCAGGCUGAACAGCUGCGCGGAGCUUCUAAUCCCAGUAACAGUAAUAACAA---CAACAAGGUGUACAAGCGAUACAACA---GC
.((((((((.(((((((((.((....)))))))))).).....))))))))...............---.......((((.......))))....---.. ( -26.90)
>DroEre_CAF1 4167 91 + 1
UCUGGGAUUGCCCGUGCAGGCCGACCAGCUGCGCGGAGCUUCUAAUCCCAGUAACAAUAAUAAC------AACAAGGUGUACAAACGAUACAACA---GC
.((((((((((((((((((.(......))))))))).))....)))))))).............------......((((.......))))....---.. ( -28.10)
>DroYak_CAF1 3810 88 + 1
UCUGGGAUUGCCCGUGCAGGCCGACCAGCUGCGCGGAGCUUCUAAUCCCACUAACAACAAUAA---------CAAGGUGUACAAGCGAUACAACA---GC
..(((((((((((((((((.(......))))))))).))....))))))).............---------....((((.......))))....---.. ( -25.40)
>consensus
UCUGGGAUUGCCCGUGCAGGCCGAACAGCUGCGCGGAGCUUCUAAUCCCAGUAACAAUAAUAACAA___CAACAAGGUGUACAAGCGAUACAACA___GC
.((((((((((((((((((.........)))))))).))....))))))))................................................. (-17.53 = -18.92 +   1.39)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:03:56 2006