Locus 3413

Sequence ID	3L_DroMel_CAF1
Location	10,009,477 – 10,009,575
Length	98
Max. P	0.858441

overview

Window 5

Location	10,009,477 – 10,009,575
Length	98
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	80.22
Mean single sequence MFE	-31.68
Consensus MFE	-18.33
Energy contribution	-19.55
Covariance contribution	1.22
Combinations/Pair	1.17
Mean z-score	-2.36
Structure conservation index	0.58
SVM decision value	0.82
SVM RNA-class probability	0.858441
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10009477 98 + 23771897
GUCGUUGCGAGUGUGUGCGUUAGUUGUCAAAAGUGCGAGAGCCAUGUUUUUCGCACUUUUAUGCACUCUCGG--UGGAUUUU--------CACAAGAGGAGUUGUAGC---
...(((((((.(..((((((........(((((((((((((......)))))))))))))))))))((((.(--(((....)--------)))..))))).)))))))--- ( -31.80)
>DroSec_CAF1 62309 97 + 1
GUCGUUGCGAGUGUGUGCGUUAGUUGUCAAAAGUGCGAGAACCAUGUUUUUCGCACUUUUAUGCACUCUCUG--UGGAUUUU--------CAC-AGAGCAGUUGUAGC---
...(((((((.(((((((((........(((((((((((((......)))))))))))))))))))..((((--(((....)--------)))-)))))).)))))))--- ( -38.90)
>DroSim_CAF1 71981 94 + 1
GUCGUUGCAAGUGUGUGCGUUAGUUGUCAAAAGUGCGAGAACCAUGUUUUUCGCACUUUUAUGCACUC------UGGAUUUU--------CAGAAGAGGAGCUGUAGC---
...((((((.((..((((((........(((((((((((((......)))))))))))))))))))((------(((....)--------))))......))))))))--- ( -29.80)
>DroEre_CAF1 64513 105 + 1
GUCGUUGCGAGUGUGUGCGUUAGUUGUCAAAAGUGCGAGAGCCAUGUUUUUCGCACUUUUAUGCACUCUUGG--UGGCUUUUUUUUUGUGCAC-AGAGCAGCAGUAAU---
...(((((...((((..((..(((..(((((((((((((((......)))))))))))..........))))--..))).......))..)))-)..)))))......--- ( -35.00)
>DroYak_CAF1 63983 97 + 1
GUCGUUGCGAGUGUAUGCGUUAGUUGUCAAAAGUGCGAGAACCAUGUUUUUCGCACUUUUAUGCACUCUGGC--UGAAUUUU--------CAC-AGAGGAGCCGUAAU---
...((((((((((((((((.....))).(((((((((((((......))))))))))))))))))))).(((--(...(((.--------...-.))).)))))))))--- ( -32.70)
>DroAna_CAF1 60518 91 + 1
GUCGCUGCGAG----------AGUUGUCAAAAGUGCGAACGCCAUGUUUUUCUCACUUUUAUGCACUUUCGUCCUGG-UUGC------UGCAC-GG-GGAAUC-UAACAUA
......(((((----------(((.((.(((((((.(((..........))).)))))))..))))))))))(((((-(...------.)).)-))-).....-....... ( -21.90)
>consensus
GUCGUUGCGAGUGUGUGCGUUAGUUGUCAAAAGUGCGAGAACCAUGUUUUUCGCACUUUUAUGCACUCUCGG__UGGAUUUU________CAC_AGAGGAGCUGUAAC___
........(((((((((((.....))).(((((((((((((......)))))))))))))))))))))........................................... (-18.33 = -19.55 +   1.22)

alignment

secondary structure

dotplot

Window 6

Location	10,009,477 – 10,009,575
Length	98
Sequences	6
Columns	111
Reading direction	reverse
Mean pairwise identity	80.22
Mean single sequence MFE	-22.95
Consensus MFE	-13.66
Energy contribution	-14.38
Covariance contribution	0.72
Combinations/Pair	1.06
Mean z-score	-2.04
Structure conservation index	0.60
SVM decision value	0.53
SVM RNA-class probability	0.771317
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10009477 98 - 23771897
---GCUACAACUCCUCUUGUG--------AAAAUCCA--CCGAGAGUGCAUAAAAGUGCGAAAAACAUGGCUCUCGCACUUUUGACAACUAACGCACACACUCGCAACGAC
---((.........(((((((--------......))--.)))))((((..((((((((((............))))))))))(........)))))......))...... ( -21.90)
>DroSec_CAF1 62309 97 - 1
---GCUACAACUGCUCU-GUG--------AAAAUCCA--CAGAGAGUGCAUAAAAGUGCGAAAAACAUGGUUCUCGCACUUUUGACAACUAACGCACACACUCGCAACGAC
---........((((((-(((--------......))--))))(((((..(((((((((((.((......)).)))))))))))....(....)....))))))))..... ( -28.90)
>DroSim_CAF1 71981 94 - 1
---GCUACAGCUCCUCUUCUG--------AAAAUCCA------GAGUGCAUAAAAGUGCGAAAAACAUGGUUCUCGCACUUUUGACAACUAACGCACACACUUGCAACGAC
---......((......((((--------......))------))((((..((((((((((.((......)).))))))))))(........)))))......))...... ( -21.10)
>DroEre_CAF1 64513 105 - 1
---AUUACUGCUGCUCU-GUGCACAAAAAAAAAGCCA--CCAAGAGUGCAUAAAAGUGCGAAAAACAUGGCUCUCGCACUUUUGACAACUAACGCACACACUCGCAACGAC
---.....(((.....(-((((...........((.(--(.....)))).(((((((((((............))))))))))).........))))).....)))..... ( -23.80)
>DroYak_CAF1 63983 97 - 1
---AUUACGGCUCCUCU-GUG--------AAAAUUCA--GCCAGAGUGCAUAAAAGUGCGAAAAACAUGGUUCUCGCACUUUUGACAACUAACGCAUACACUCGCAACGAC
---.....((((.....-((.--------...))..)--))).(((((..(((((((((((.((......)).)))))))))))....(....)....)))))........ ( -23.80)
>DroAna_CAF1 60518 91 - 1
UAUGUUA-GAUUCC-CC-GUGCA------GCAA-CCAGGACGAAAGUGCAUAAAAGUGAGAAAAACAUGGCGUUCGCACUUUUGACAACU----------CUCGCAGCGAC
..(((.(-((.(((-..-((...------...)-)..)))(((((((((......((.(........).))....))))))))).....)----------)).)))..... ( -18.20)
>consensus
___GCUACAACUCCUCU_GUG________AAAAUCCA__CCGAGAGUGCAUAAAAGUGCGAAAAACAUGGCUCUCGCACUUUUGACAACUAACGCACACACUCGCAACGAC
...........................................(((((..(((((((((((............)))))))))))....(....)....)))))........ (-13.66 = -14.38 +   0.72)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:34 2006