Locus 6988

Sequence ID 3R_DroMel_CAF1
Location 18,430,514 – 18,430,605
Length 91
Max. P 0.964134
window11329 window11330

overview

Window 9

Location 18,430,514 – 18,430,605
Length 91
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 79.30
Mean single sequence MFE -17.98
Consensus MFE -15.54
Energy contribution -15.27
Covariance contribution -0.28
Combinations/Pair 1.12
Mean z-score -2.41
Structure conservation index 0.86
SVM decision value 1.56
SVM RNA-class probability 0.964134
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18430514 91 + 27905053
-AUA------AC-UUUCAAA-UUAUUCAACAGAUGUCCGACAAUCUGCACAAUGCAAUACGCAUACAUCACGCACUGGCCACCAAGGCCAACGACUACAC
-...------..-.......-........(((((........)))))....((((.....))))......((...(((((.....))))).))....... ( -16.00)
>DroVir_CAF1 14402 97 + 1
-UUAACCCCUUCGUCUGUUUUCCUUUC--CAGAUGUCCGACAAUUUGCAUAAUGCAAUACGCAUACAUCACGCACUGGCCACCAUGGCCAACGACUACAC
-...........(((............--..(((((..(.....((((.....))))....)..)))))......(((((.....)))))..)))..... ( -20.10)
>DroGri_CAF1 15294 95 + 1
-UUAA----UUUGUAUAUUCUUUCUCACACAGAUGUCCGACAAUCUGCACAAUGCGAUACGCAUACAUCACGCACUGGCCACUAUGGCCAAUGACUACAC
-....----..((((..............(((((........)))))....(((((...)))))........((.(((((.....))))).))..)))). ( -19.20)
>DroEre_CAF1 16463 95 + 1
CUUA-C--GUAC-UUUCAAA-UUGUUCAACAGAUGUCCGACAAUCUGCACAAUGCAAUACGCAUACAUCACGCACUGGCCACCAAGGCCAACGACUACAC
....-(--((..-.......-.(((....(((((........)))))....((((.....)))).......))).(((((.....))))))))....... ( -18.00)
>DroMoj_CAF1 14004 98 + 1
-UUGACCAACAC-UUUGCUAUAAUUCCAACAGAUGUCCGACAAUCUGCAUAAUGCUAUACGCAUACAUCACGCACUGGCCACUAUGGCCAACGAUUACAC
-...........-..(((...........(((((........)))))....((((.....)))).......))).(((((.....))))).......... ( -18.60)
>DroAna_CAF1 15923 90 + 1
-CUA------A--UCCCAAU-UCAAUCCACAGAUGUCCGACAAUCUGCACAAUGCCAUUCGCAUUCACCACGCACUGGCCACCAUGGCCAACGACUACAC
-...------.--.......-........(((((........)))))...(((((.....))))).....((...(((((.....))))).))....... ( -16.00)
>consensus
_UUA_____UAC_UUUCAAA_UUAUUCAACAGAUGUCCGACAAUCUGCACAAUGCAAUACGCAUACAUCACGCACUGGCCACCAUGGCCAACGACUACAC
.............................(((((........)))))....((((.....))))......((...(((((.....))))).))....... (-15.54 = -15.27 +  -0.28)

alignment

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secondary structure

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dotplot

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Window 0

Location 18,430,514 – 18,430,605
Length 91
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 79.30
Mean single sequence MFE -27.87
Consensus MFE -19.86
Energy contribution -19.70
Covariance contribution -0.16
Combinations/Pair 1.12
Mean z-score -1.80
Structure conservation index 0.71
SVM decision value 0.95
SVM RNA-class probability 0.889050
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18430514 91 - 27905053
GUGUAGUCGUUGGCCUUGGUGGCCAGUGCGUGAUGUAUGCGUAUUGCAUUGUGCAGAUUGUCGGACAUCUGUUGAAUAA-UUUGAAA-GU------UAU-
.........((((((.....)))))).(((..(((((.......)))))..)))(((((((..(((....)))..))))-)))....-..------...- ( -25.10)
>DroVir_CAF1 14402 97 - 1
GUGUAGUCGUUGGCCAUGGUGGCCAGUGCGUGAUGUAUGCGUAUUGCAUUAUGCAAAUUGUCGGACAUCUG--GAAAGGAAAACAGACGAAGGGGUUAA-
.....(((.((((((.....))))))(((((((((((.......)))))))))))........))).((((--..........))))(....)......- ( -28.90)
>DroGri_CAF1 15294 95 - 1
GUGUAGUCAUUGGCCAUAGUGGCCAGUGCGUGAUGUAUGCGUAUCGCAUUGUGCAGAUUGUCGGACAUCUGUGUGAGAAAGAAUAUACAAA----UUAA-
((((((.((((((((.....)))))))))((((((......)))))).(..(((((((.(.....))))))))..).......)))))...----....- ( -30.10)
>DroEre_CAF1 16463 95 - 1
GUGUAGUCGUUGGCCUUGGUGGCCAGUGCGUGAUGUAUGCGUAUUGCAUUGUGCAGAUUGUCGGACAUCUGUUGAACAA-UUUGAAA-GUAC--G-UAAG
(((...((.((((((.....)))))).(((..(((((.......)))))..)))(((((((..(((....)))..))))-)))))..-.)))--.-.... ( -28.70)
>DroMoj_CAF1 14004 98 - 1
GUGUAAUCGUUGGCCAUAGUGGCCAGUGCGUGAUGUAUGCGUAUAGCAUUAUGCAGAUUGUCGGACAUCUGUUGGAAUUAUAGCAAA-GUGUUGGUCAA-
....((((.((((((.....))))))((((((((((.........))))))))))))))(.(.(((((.(((((......)))))..-))))).).)..- ( -30.50)
>DroAna_CAF1 15923 90 - 1
GUGUAGUCGUUGGCCAUGGUGGCCAGUGCGUGGUGAAUGCGAAUGGCAUUGUGCAGAUUGUCGGACAUCUGUGGAUUGA-AUUGGGA--U------UAG-
...(((((.((((((.....))))))((((..(((.((....))..)))..))))((((..(((....)))..))))..-.....))--)------)).- ( -23.90)
>consensus
GUGUAGUCGUUGGCCAUGGUGGCCAGUGCGUGAUGUAUGCGUAUUGCAUUGUGCAGAUUGUCGGACAUCUGUUGAAAAA_UAUGAAA_GUA_____UAA_
...(((((.((((((.....))))))((((((((((.........))))))))))))))).(((....)))............................. (-19.86 = -19.70 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:34:55 2006