Locus 4569

Sequence ID X_DroMel_CAF1
Location 11,994,085 – 11,994,224
Length 139
Max. P 0.981973
window7511 window7512

overview

Window 1

Location 11,994,085 – 11,994,204
Length 119
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 94.59
Mean single sequence MFE -28.63
Consensus MFE -24.76
Energy contribution -25.02
Covariance contribution 0.25
Combinations/Pair 1.12
Mean z-score -2.43
Structure conservation index 0.86
SVM decision value 1.90
SVM RNA-class probability 0.981973
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11994085 119 + 22224390
UUUAUUAAUCAUUGGGGCUCCAGUUUUUGCCAGCAAUUUUCCUGCCAACUCAUGGUAAAUAAAAUGAAAGUUUUACGUUGAACUCUUCAUCAUCGGCCUCAACUUGAGUUGGCAA-ACUU
..........((((.(((..........)))..)))).....((((((((((.(((.......((((((((((......))))).))))).....)))......)))))))))).-.... ( -29.70)
>DroPse_CAF1 130943 119 + 1
UUUAUUAAUCAUUCGGGCUCCAGUU-UUGCCAGCAAUUUUCCUGCCAACUCAUGGCAAAUAAAAUGAAAGUUUCCCGUUGAACUCUUCAUCAUCGGCUUCAACUUGAAAUGGCAAAACUU
.....................((((-(((((..((.(((...(((((.....)))))...))).))...(((((..((((((..(.........)..))))))..)))))))))))))). ( -27.30)
>DroSec_CAF1 33177 119 + 1
UUUAUUAAUCAUUGGGGCUCCAGUUUUUGCCAGCAAUUUUGCUGCCAACUCAUGGUAAAUAAAAUGAAAGUUUUACGUUGAACUCUUUAUCAUCGGCCUCAACUUGAGUUGGCAA-ACUU
...............(((..........)))((((....))))(((((((((.(((...((((((....))))))((.(((........))).)))))......)))))))))..-.... ( -30.00)
>DroEre_CAF1 32004 119 + 1
UUUAUUAAUCAUUGGGGCUCCAGUUUUUGCCUGCAAUUUUCCUGCCAACUCAUGGUAAAUAAAAUGAAAGUUUCACGUUGAACUCUUCAUCAUCGGCCUCAACUUGAGUUGGCCA-ACUU
..........((((((((..........)))).))))......(((((((((.(((.......((((((((((......))))).))))).....)))......)))))))))..-.... ( -27.80)
>DroYak_CAF1 33192 119 + 1
UUUAUUAAUCAUUGGGGCUCCAGUUUUUGCCGGCAAUUUUCCUGCCAACUCAUGGUAAAUAAAAUGAAAGUUUUACGUUGAACUCUUCAUCAUCGGCCUCAACUUGAGUUGGCAA-ACUU
..........(((((....))))).((((((((((.......))))((((((.(((.......((((((((((......))))).))))).....)))......)))))))))))-)... ( -29.70)
>DroPer_CAF1 135751 119 + 1
UUUAUUAAUCAUUCGGGCUCCAGUU-UUGCCAGCAAUUUUCCUGCCAACUCAUGGCAAAUAAAAUGAAAGUUUCCCGUUGAACUCUUCAUCAUCGGCUUCAACUUGAAAUGGCAAAACUU
.....................((((-(((((..((.(((...(((((.....)))))...))).))...(((((..((((((..(.........)..))))))..)))))))))))))). ( -27.30)
>consensus
UUUAUUAAUCAUUGGGGCUCCAGUUUUUGCCAGCAAUUUUCCUGCCAACUCAUGGUAAAUAAAAUGAAAGUUUCACGUUGAACUCUUCAUCAUCGGCCUCAACUUGAGUUGGCAA_ACUU
...............(((..........)))...........((((((((((.(((.......((((((((((......))))).))))).....)))......))))))))))...... (-24.76 = -25.02 +   0.25)

alignment

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secondary structure

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dotplot

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Window 2

Location 11,994,125 – 11,994,224
Length 99
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.91
Mean single sequence MFE -22.95
Consensus MFE -20.95
Energy contribution -21.20
Covariance contribution 0.25
Combinations/Pair 1.13
Mean z-score -1.55
Structure conservation index 0.91
SVM decision value 0.68
SVM RNA-class probability 0.820856
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11994125 99 + 22224390
CCUGCCAACUCAUGGUAAAUAAAAUGAAAGUUUUACGUUGAACUCUUCAUCAUCGGCCUCAACUUGAGUUGGCAA-ACUUUCUCUCUCUAGCUCGCCUUG--------------------
..((((((((((.(((.......((((((((((......))))).))))).....)))......)))))))))).-........................-------------------- ( -24.30)
>DroPse_CAF1 130982 114 + 1
CCUGCCAACUCAUGGCAAAUAAAAUGAAAGUUUCCCGUUGAACUCUUCAUCAUCGGCUUCAACUUGAAAUGGCAAAACUUUCUCUCCC--UCCC----AGUAGUUGUAUGGGCGUUCGUG
..(((((.....)))))........((((((((.(((.(((........))).))).(((.....)))......)))))))).....(--.(((----(.........)))).)...... ( -21.60)
>DroSec_CAF1 33217 97 + 1
GCUGCCAACUCAUGGUAAAUAAAAUGAAAGUUUUACGUUGAACUCUUUAUCAUCGGCCUCAACUUGAGUUGGCAA-ACUUUCUCUCUC--GCUCGCCUUG--------------------
..((((((((((.(((...((((((....))))))((.(((........))).)))))......)))))))))).-............--..........-------------------- ( -24.10)
>DroEre_CAF1 32044 97 + 1
CCUGCCAACUCAUGGUAAAUAAAAUGAAAGUUUCACGUUGAACUCUUCAUCAUCGGCCUCAACUUGAGUUGGCCA-ACUUUCCCUCUC--GCUCGCCCAG--------------------
...(((((((((.(((.......((((((((((......))))).))))).....)))......)))))))))..-............--..........-------------------- ( -21.80)
>DroYak_CAF1 33232 97 + 1
CCUGCCAACUCAUGGUAAAUAAAAUGAAAGUUUUACGUUGAACUCUUCAUCAUCGGCCUCAACUUGAGUUGGCAA-ACUUUCUCUCUC--GCUCGCCUUG--------------------
..((((((((((.(((.......((((((((((......))))).))))).....)))......)))))))))).-............--..........-------------------- ( -24.30)
>DroPer_CAF1 135790 114 + 1
CCUGCCAACUCAUGGCAAAUAAAAUGAAAGUUUCCCGUUGAACUCUUCAUCAUCGGCUUCAACUUGAAAUGGCAAAACUUUCUCUCCC--UCCC----AGUAGUUGUAUGGGCGUUCGUG
..(((((.....)))))........((((((((.(((.(((........))).))).(((.....)))......)))))))).....(--.(((----(.........)))).)...... ( -21.60)
>consensus
CCUGCCAACUCAUGGUAAAUAAAAUGAAAGUUUCACGUUGAACUCUUCAUCAUCGGCCUCAACUUGAGUUGGCAA_ACUUUCUCUCUC__GCUCGCCUAG____________________
..((((((((((.(((.......((((((((((......))))).))))).....)))......)))))))))).............................................. (-20.95 = -21.20 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:22 2006