Locus 2407

Sequence ID	X_DroMel_CAF1
Location	6,438,694 – 6,438,789
Length	95
Max. P	0.934742

overview

Window 3

Location	6,438,694 – 6,438,789
Length	95
Sequences	6
Columns	96
Reading direction	forward
Mean pairwise identity	73.94
Mean single sequence MFE	-35.05
Consensus MFE	-17.02
Energy contribution	-17.16
Covariance contribution	0.14
Combinations/Pair	1.20
Mean z-score	-1.65
Structure conservation index	0.49
SVM decision value	-0.07
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6438694 95 + 22224390
AUUGCUGCGCAUAAUGGCCUCACUAAUGGCCAGCCAAAAGAUGCUGGCCAAAAGACUCAGCGAGAACUAUGUGUCGCGCUAUGAGGUGGUGGCCG-
..(((...)))....((((((((...((((((((........)))))))).....(((((((.((.(.....))).)))..)))))))).)))).- ( -36.20)
>DroVir_CAF1 2559 93 + 1
GCUGCUCCGCAUUGUGGCCGCCUUGAUGGCCAGCAACAAGACGCUGCCGCAUCGCCUCAGCGAAGCCUAUGUGGGCCGCUAUGCUGUGU---CCCA
(..((.(.((((.((((((........(((.(((........))))))((.((((....)))).)).......)))))).)))).).))---..). ( -34.10)
>DroEre_CAF1 1572 92 + 1
GUUGCUGCGCAUAAUGGCCUCACUAAUGGCCAGCAAGAAGAUGCUGGCCAGGAGACUCAGCGAGAACUAUGUAUCGCGCUAUGAGGUUG---CCG-
......(.(((.....((((((((..(((((((((......)))))))))..))....((((.((........)).)))).))))))))---)).- ( -35.30)
>DroWil_CAF1 1489 95 + 1
ACUCUUACGCAUAUUGGCUUCCCUAAUGGCCAGCAAGAAAAUGCUGGCGAAUCGCCUGAGCGAGGUCUAUGUCGGUCGCUAUGGAGUCGCGUCUG-
(((((...((..((((((..........(((((((......)))))))((.((((....))))..))...)))))).))...)))))........- ( -29.30)
>DroYak_CAF1 1825 92 + 1
GUUGCUGCACAUAAUGGCCUCACUAAUGGCCAGCAAGAAGAUGCUGGCCAAAAGACUCAGCGAGAACUAUGUAUCGCGCUAUGAGGUUG---CCG-
...............(((((((((..(((((((((......)))))))))..))....((((.((........)).)))).))))))).---...- ( -32.20)
>DroMoj_CAF1 1914 93 + 1
GCUGCUGCGCAUUGUGGCAGCUUUGAUGGCCAGCAACAAGGCGCUGCCGCGGCGCCUCAGCGAUGCCUAUGUGGGCCGCUUUGCGCUGC---CCGA
(((((..(.....)..)))))......(((.(((........))))))(((((((...((((..((((....))))))))..)))))))---.... ( -43.20)
>consensus
GCUGCUGCGCAUAAUGGCCUCACUAAUGGCCAGCAAGAAGAUGCUGGCCAAAAGACUCAGCGAGAACUAUGUGGCGCGCUAUGAGGUGG___CCG_
................(((((.......((((((........))))))..........((((..............))))..)))))......... (-17.02 = -17.16 +   0.14)

alignment

secondary structure

dotplot

Window 4

Location	6,438,694 – 6,438,789
Length	95
Sequences	6
Columns	96
Reading direction	reverse
Mean pairwise identity	73.94
Mean single sequence MFE	-35.37
Consensus MFE	-15.67
Energy contribution	-16.33
Covariance contribution	0.67
Combinations/Pair	1.28
Mean z-score	-2.23
Structure conservation index	0.44
SVM decision value	1.24
SVM RNA-class probability	0.934742
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6438694 95 - 22224390
-CGGCCACCACCUCAUAGCGCGACACAUAGUUCUCGCUGAGUCUUUUGGCCAGCAUCUUUUGGCUGGCCAUUAGUGAGGCCAUUAUGCGCAGCAAU
-.((((.....((((..(((.((........)).))))))).((..((((((((........))))))))..))...))))....(((...))).. ( -34.20)
>DroVir_CAF1 2559 93 - 1
UGGG---ACACAGCAUAGCGGCCCACAUAGGCUUCGCUGAGGCGAUGCGGCAGCGUCUUGUUGCUGGCCAUCAAGGCGGCCACAAUGCGGAGCAGC
((((---.(...((...)).))))).....(((((((((.(((....(((((((.....)))))))(((.....))).))).))..)))))))... ( -36.90)
>DroEre_CAF1 1572 92 - 1
-CGG---CAACCUCAUAGCGCGAUACAUAGUUCUCGCUGAGUCUCCUGGCCAGCAUCUUCUUGCUGGCCAUUAGUGAGGCCAUUAUGCGCAGCAAC
-.(.---...)......(((((...(((((((((((((((......(((((((((......))))))))))))))))))..))))))))).))... ( -36.00)
>DroWil_CAF1 1489 95 - 1
-CAGACGCGACUCCAUAGCGACCGACAUAGACCUCGCUCAGGCGAUUCGCCAGCAUUUUCUUGCUGGCCAUUAGGGAAGCCAAUAUGCGUAAGAGU
-...(((((.(.((..(((((............)))))..)).)....(((((((......))))))).....((....))....)))))...... ( -27.70)
>DroYak_CAF1 1825 92 - 1
-CGG---CAACCUCAUAGCGCGAUACAUAGUUCUCGCUGAGUCUUUUGGCCAGCAUCUUCUUGCUGGCCAUUAGUGAGGCCAUUAUGUGCAGCAAC
-.(.---...)........((..(((((((((((((((((......(((((((((......))))))))))))))))))..))))))))..))... ( -37.30)
>DroMoj_CAF1 1914 93 - 1
UCGG---GCAGCGCAAAGCGGCCCACAUAGGCAUCGCUGAGGCGCCGCGGCAGCGCCUUGUUGCUGGCCAUCAAAGCUGCCACAAUGCGCAGCAGC
..((---.((((((..(((((((......)))..))))(((((((.......)))))))).))))).))......((((((.....).)))))... ( -40.10)
>consensus
_CGG___CCACCUCAUAGCGCCACACAUAGUCCUCGCUGAGGCGAUUCGCCAGCAUCUUCUUGCUGGCCAUUAGUGAGGCCAUUAUGCGCAGCAAC
..........((((.(((((..((.....))...))))).........(((((((......))))))).......))))................. (-15.67 = -16.33 +   0.67)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:44 2006