Locus 6360

Sequence ID	3R_DroMel_CAF1
Location	16,664,081 – 16,664,182
Length	101
Max. P	0.953016

overview

Window 1

Location	16,664,081 – 16,664,182
Length	101
Sequences	6
Columns	105
Reading direction	forward
Mean pairwise identity	79.55
Mean single sequence MFE	-29.20
Consensus MFE	-22.17
Energy contribution	-21.82
Covariance contribution	-0.36
Combinations/Pair	1.33
Mean z-score	-2.38
Structure conservation index	0.76
SVM decision value	1.43
SVM RNA-class probability	0.953016
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16664081 101 + 27905053
UCAACAAUGCAGACCAGCAGAAAGACCUAAAAUGGUGGUCGAACAAUCAUGGCAUUAACAUGGCCAUGAAUUGGCCAUCAUUUGUGGUGAGUUUUCUG----UUU
...............((((((((((((..(((((((((((((....(((((((.........))))))).)))))))))))))..)))...)))))))----)). ( -36.10)
>DroVir_CAF1 7510 104 + 1
UUAACAAUGCGGACCAACAAAAGGACUUGAAAUGGUGGUCAAAUAAUCAUGGCAUAAAUAUGGCCAUGAAUUGGCCAGCAUUUGUGGUAAGUCUU-AGUCGGAAA
.............((.((...(((((((((((((.(((((((....(((((((.........))))))).))))))).)))))....))))))))-.)).))... ( -32.40)
>DroGri_CAF1 8053 98 + 1
UUAACAAUGCGGACCAACAAAAGGACUUGAAAUGGUGGUCAAAUAAUCAUGGCAUUAACAUGGCCAUGAACUGGCCGGCAUUUGUGGUAAGAG-------AGACA
.........(..((((.(((......)))(((((.((((((.....(((((((.........)))))))..)))))).))))).))))..)..-------..... ( -26.20)
>DroMoj_CAF1 6845 104 + 1
UCAACAAUGCGGACCAACAAAAGGACUUGAAAUGGUGGUCAAAUAACCAUGGUAUCAAUAUGGCCAUGAACUGGCCUGCAUUUGUGGUAAGUGUUUAGAUGG-UA
.....(((((..((((.((((.....((((.((.(((((......))))).)).))))...(((((.....)))))....))))))))..))))).......-.. ( -27.80)
>DroAna_CAF1 6320 100 + 1
UCAACAAUGCGGACCAGCAGAAAGACCUCAAAUUUUGGUCAAAUAAAUAUGGUAUUAACAUGGCUAUGAACUGGCCGGCAUUUGUGGUGAGUU-UCUG----ACU
...............((((((((.(((.(((((.(((((((.(((..((((.......))))..)))....))))))).))))).)))...))-))))----.)) ( -24.30)
>DroPer_CAF1 8061 101 + 1
UCAACAAUGCGGACCAGCAGAAGGAUCUGAAGUGGUGGUCAAACAAUCAUGGUAUUAACAUGGCCAUGAACUGGCCAAUCUUUGUGGUAAGCUGUGUG----CCC
...(((..((..((((.((((....))))(((...((((((.....(((((((.........)))))))..))))))..)))..))))..))..))).----... ( -28.40)
>consensus
UCAACAAUGCGGACCAACAAAAGGACCUGAAAUGGUGGUCAAAUAAUCAUGGCAUUAACAUGGCCAUGAACUGGCCAGCAUUUGUGGUAAGUUUU_UG____ACA
........((..((((.(((......)))(((((.((((((.....(((((((.........)))))))..)))))).))))).))))..))............. (-22.17 = -21.82 +  -0.36)

alignment

secondary structure

dotplot

Window 2

Location	16,664,081 – 16,664,182
Length	101
Sequences	6
Columns	105
Reading direction	reverse
Mean pairwise identity	79.55
Mean single sequence MFE	-23.60
Consensus MFE	-16.46
Energy contribution	-16.55
Covariance contribution	0.09
Combinations/Pair	1.33
Mean z-score	-1.73
Structure conservation index	0.70
SVM decision value	0.79
SVM RNA-class probability	0.850439
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16664081 101 - 27905053
AAA----CAGAAAACUCACCACAAAUGAUGGCCAAUUCAUGGCCAUGUUAAUGCCAUGAUUGUUCGACCACCAUUUUAGGUCUUUCUGCUGGUCUGCAUUGUUGA
.((----((((((....(((..(((((.((((.((((((((((.((....)))))))))..))).).))).)))))..))).))))(((......))).)))).. ( -23.60)
>DroVir_CAF1 7510 104 - 1
UUUCCGACU-AAGACUUACCACAAAUGCUGGCCAAUUCAUGGCCAUAUUUAUGCCAUGAUUAUUUGACCACCAUUUCAAGUCCUUUUGUUGGUCCGCAUUGUUAA
...(((((.-..(((((.....(((((.(((.(((.(((((((.........)))))))....))).))).))))).))))).....)))))............. ( -25.90)
>DroGri_CAF1 8053 98 - 1
UGUCU-------CUCUUACCACAAAUGCCGGCCAGUUCAUGGCCAUGUUAAUGCCAUGAUUAUUUGACCACCAUUUCAAGUCCUUUUGUUGGUCCGCAUUGUUAA
.....-------...........(((((.((((((.(((((((.((....)))))))))..((((((........)))))).......)))))).)))))..... ( -25.00)
>DroMoj_CAF1 6845 104 - 1
UA-CCAUCUAAACACUUACCACAAAUGCAGGCCAGUUCAUGGCCAUAUUGAUACCAUGGUUAUUUGACCACCAUUUCAAGUCCUUUUGUUGGUCCGCAUUGUUGA
..-................((..(((((.(((((.....))))).............((((....))))((((...((((....)))).))))..)))))..)). ( -23.10)
>DroAna_CAF1 6320 100 - 1
AGU----CAGA-AACUCACCACAAAUGCCGGCCAGUUCAUAGCCAUGUUAAUACCAUAUUUAUUUGACCAAAAUUUGAGGUCUUUCUGCUGGUCCGCAUUGUUGA
...----....-.......((..(((((.(((((((....((((..(((((............)))))((.....)).)).))....))))))).)))))..)). ( -21.00)
>DroPer_CAF1 8061 101 - 1
GGG----CACACAGCUUACCACAAAGAUUGGCCAGUUCAUGGCCAUGUUAAUACCAUGAUUGUUUGACCACCACUUCAGAUCCUUCUGCUGGUCCGCAUUGUUGA
(((----(...((((.............((((((.....))))))............((..((((((........))))))...)).)))))))).......... ( -23.00)
>consensus
UGU____CA_AAAACUUACCACAAAUGCUGGCCAGUUCAUGGCCAUGUUAAUACCAUGAUUAUUUGACCACCAUUUCAAGUCCUUCUGCUGGUCCGCAUUGUUGA
.......................(((((.((((((.((((((...........)))))).................((((....)))))))))).)))))..... (-16.46 = -16.55 +   0.09)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:19:36 2006