Locus 5373

Sequence ID	3R_DroMel_CAF1
Location	14,116,754 – 14,116,846
Length	92
Max. P	0.998830

overview

Window 6

Location	14,116,754 – 14,116,846
Length	92
Sequences	6
Columns	95
Reading direction	forward
Mean pairwise identity	88.82
Mean single sequence MFE	-52.70
Consensus MFE	-46.77
Energy contribution	-46.69
Covariance contribution	-0.08
Combinations/Pair	1.22
Mean z-score	-4.02
Structure conservation index	0.89
SVM decision value	3.24
SVM RNA-class probability	0.998830
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14116754 92 + 27905053
UGCCGCCAGUGACCGCCGAUGCCAUCGAGGAGUUGGACUU---GGUCAUGUUCUGCCCAUUGACCAGCACCUUGGGCGGCGGCGGUCGCGGCGGU
.((((((.((((((((((.((((..(((((.(((((...(---((.((.....)).)))....))))).))))))))).)))))))))))))))) ( -56.00)
>DroSec_CAF1 3945 92 + 1
UGCCGCCAGUGACCGCAGAUGCCAUCGAGGAGUUGGACUU---GGCCAUGUUCUGCCCAUUGACCAGCACCUUGGGCGGCGGCGGUCGCGGCGGU
.((((((.((((((((...((((..(((((.(((((...(---((.((.....)).)))....))))).)))))))))...)))))))))))))) ( -50.90)
>DroSim_CAF1 3885 92 + 1
UGCCGCCAGUGACCGCCGAUGCCAUCGAGGAGUUGGACUU---GGCCAUGUUCUGCCCAUUGACCAGCACCUUGGGCGGCGGCGGUCGCGGCGGU
.((((((.((((((((((.((((..(((((.(((((...(---((.((.....)).)))....))))).))))))))).)))))))))))))))) ( -56.00)
>DroEre_CAF1 3960 92 + 1
UACCGCCAGUGACCGCCGAUGCCAUCGAGGAGGUGGGCUU---GGCCACGUUCUGCCCAUUGACCAGCACCUUGGGCGGCGGCGGUCGCGGCGGC
..(((((.((((((((((.((((..(((((.(.(((...(---((.((.....)).)))....))).).))))))))).))))))))))))))). ( -53.60)
>DroYak_CAF1 4204 92 + 1
UACCGCCAGUGACCGCCGAUGCCAUCGAGGAGGUGGACUU---GGCCACGUUCUGCCCAUUGACCAGCACCUUGGGCGGCGGUGGUCGCGGCGGU
.((((((.((((((((((.((((..(((((.(.(((...(---((.((.....)).)))....))).).))))))))).)))))))))))))))) ( -51.60)
>DroAna_CAF1 4107 92 + 1
UACCGCCCCCGUUCGUCGCUGCCGUUGAGG---UGGAGUUUGGGGUCAUCUUCUGCCCAUUAACCAGCACCUUCGGUGGCGGCGGUCGUGGCGGU
.((((((..((..((((((..(((..((((---((..(((..((((........))))...)))...)))))))))..))))))..)).)))))) ( -48.10)
>consensus
UACCGCCAGUGACCGCCGAUGCCAUCGAGGAGUUGGACUU___GGCCAUGUUCUGCCCAUUGACCAGCACCUUGGGCGGCGGCGGUCGCGGCGGU
.((((((.((((((((((.((((..(((((.(.(((.......(((........)))......))).).))))))))).)))))))))))))))) (-46.77 = -46.69 +  -0.08)

alignment

secondary structure

dotplot

Window 7

Location	14,116,754 – 14,116,846
Length	92
Sequences	6
Columns	95
Reading direction	reverse
Mean pairwise identity	88.82
Mean single sequence MFE	-42.23
Consensus MFE	-34.45
Energy contribution	-35.78
Covariance contribution	1.33
Combinations/Pair	1.00
Mean z-score	-2.27
Structure conservation index	0.82
SVM decision value	0.48
SVM RNA-class probability	0.752610
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14116754 92 - 27905053
ACCGCCGCGACCGCCGCCGCCCAAGGUGCUGGUCAAUGGGCAGAACAUGACC---AAGUCCAACUCCUCGAUGGCAUCGGCGGUCACUGGCGGCA
.((((((.((((((((..(((..(((.(.(((.(..(((.((.....)).))---).).))).).)))....)))..)))))))).).))))).. ( -43.30)
>DroSec_CAF1 3945 92 - 1
ACCGCCGCGACCGCCGCCGCCCAAGGUGCUGGUCAAUGGGCAGAACAUGGCC---AAGUCCAACUCCUCGAUGGCAUCUGCGGUCACUGGCGGCA
.((((((.((((((.((((..(.(((.(.(((.(..(((.((.....)).))---).).))).).))).).))))....)))))).).))))).. ( -39.80)
>DroSim_CAF1 3885 92 - 1
ACCGCCGCGACCGCCGCCGCCCAAGGUGCUGGUCAAUGGGCAGAACAUGGCC---AAGUCCAACUCCUCGAUGGCAUCGGCGGUCACUGGCGGCA
.((((((.((((((((..(((..(((.(.(((.(..(((.((.....)).))---).).))).).)))....)))..)))))))).).))))).. ( -45.80)
>DroEre_CAF1 3960 92 - 1
GCCGCCGCGACCGCCGCCGCCCAAGGUGCUGGUCAAUGGGCAGAACGUGGCC---AAGCCCACCUCCUCGAUGGCAUCGGCGGUCACUGGCGGUA
(((((((.((((((((..(((..((((((((((((.((.......)))))))---.)))..)))).......)))..)))))))).).)))))). ( -46.10)
>DroYak_CAF1 4204 92 - 1
ACCGCCGCGACCACCGCCGCCCAAGGUGCUGGUCAAUGGGCAGAACGUGGCC---AAGUCCACCUCCUCGAUGGCAUCGGCGGUCACUGGCGGUA
(((((((.((((.(((..(((..(((.(.(((.(..(((.((.....)).))---).).))).).)))....)))..))).)))).).)))))). ( -41.00)
>DroAna_CAF1 4107 92 - 1
ACCGCCACGACCGCCGCCACCGAAGGUGCUGGUUAAUGGGCAGAAGAUGACCCCAAACUCCA---CCUCAACGGCAGCGACGAACGGGGGCGGUA
((((((.((..((.(((..(((.(((((..((((...(((((.....)).)))..)))).))---)))...)))..))).))..))..)))))). ( -37.40)
>consensus
ACCGCCGCGACCGCCGCCGCCCAAGGUGCUGGUCAAUGGGCAGAACAUGGCC___AAGUCCAACUCCUCGAUGGCAUCGGCGGUCACUGGCGGCA
.((((((.((((((((..(((..(((.(.(((.....((.((.....)).)).......))).).)))....)))..)))))))).).))))).. (-34.45 = -35.78 +   1.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:12 2006