Locus 9847

Sequence ID	3R_DroMel_CAF1
Location	26,230,631 – 26,230,741
Length	110
Max. P	0.943965

overview

Window 9

Location	26,230,631 – 26,230,741
Length	110
Sequences	6
Columns	114
Reading direction	forward
Mean pairwise identity	79.72
Mean single sequence MFE	-32.55
Consensus MFE	-25.87
Energy contribution	-26.03
Covariance contribution	0.17
Combinations/Pair	1.00
Mean z-score	-2.23
Structure conservation index	0.79
SVM decision value	1.34
SVM RNA-class probability	0.943965
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26230631 110 + 27905053
CCUCCUACUCCAAUCCUCGU-UGUCCUGCGACAGGAGCAAUUCGCGCUUUGUGCGAGGACAUGGCCA---AAAUUAGCAUUUGACCAUAAAUUGGGCCAUGCACUUGCACUUGG
.........((((((((.((-((.....))))))))((.....)).....(((((((..((((((((---((.......)))).(((.....)))))))))..))))))))))) ( -36.10)
>DroPse_CAF1 209339 88 + 1
--------------------------AGCGACUACAGCAAUUCACGCUUUGUGCGAGGACAUGGCCAACGAAAUUAGCAUUUGACUAUAAAUUGGGCCAUGCACUUGCACUUGG
--------------------------.((.......))........((..(((((((..(((((((........((((....).))).......)))))))..)))))))..)) ( -29.06)
>DroEre_CAF1 206696 110 + 1
CCGCCCACUCCAAGCCGCGC-UGUCCUGCGACAGCAGCAAUUCGCGCUUUGUGCGAGGACAUGGCCA---AAAUUAGCAUUUGACCAUAAAUUGGGCCAUGCACUUGCACUUGG
.........((((...((((-((((....)))))).((.....))))...(((((((..((((((((---((.......)))).(((.....)))))))))..))))))))))) ( -40.30)
>DroYak_CAF1 207913 110 + 1
CCUCCUACUCCAAUAUUCGU-UCUCCUGCGACAGGAGCAAUUCGCGCUUUGUGCGAGGACAUGGCCA---AAAUUAGCAUUUGACCAUAAAUUGGGCCAUGCACUUGCACUUGG
.........((((.....((-(((((((...)))))).))).........(((((((..((((((((---((.......)))).(((.....)))))))))..))))))))))) ( -34.20)
>DroAna_CAF1 209697 106 + 1
G-----UUUCCAAAAAUCGAGAGACCAGCGACAAGAGCAAUUCGCGCUUUGUGCGAGGACAUGACCA---AAAUUAGCAUUUGACCAUAAAUUGGGCCAUGCACUUGCACUUGG
.-----...((((......((((....((((..........)))).))))(((((((..((((..((---((.......)))).(((.....)))..))))..))))))))))) ( -26.60)
>DroPer_CAF1 211527 88 + 1
--------------------------AGCGACUACAGCAAUUCACGCUUUGUGCGAGGACAUGGCCAACGAAAUUAGCAUUUGACUAUAAAUUGGGCCAUGCACUUGCACUUGG
--------------------------.((.......))........((..(((((((..(((((((........((((....).))).......)))))))..)))))))..)) ( -29.06)
>consensus
C_____ACUCCAA___UCG__UGUCCAGCGACAACAGCAAUUCGCGCUUUGUGCGAGGACAUGGCCA___AAAUUAGCAUUUGACCAUAAAUUGGGCCAUGCACUUGCACUUGG
...........................((.......))........((..(((((((..(((((((...........(....)...........)))))))..)))))))..)) (-25.87 = -26.03 +   0.17)

alignment

secondary structure

dotplot

Window 0

Location	26,230,631 – 26,230,741
Length	110
Sequences	6
Columns	114
Reading direction	reverse
Mean pairwise identity	79.72
Mean single sequence MFE	-33.38
Consensus MFE	-27.01
Energy contribution	-26.43
Covariance contribution	-0.58
Combinations/Pair	1.14
Mean z-score	-1.92
Structure conservation index	0.81
SVM decision value	1.13
SVM RNA-class probability	0.919115
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26230631 110 - 27905053
CCAAGUGCAAGUGCAUGGCCCAAUUUAUGGUCAAAUGCUAAUUU---UGGCCAUGUCCUCGCACAAAGCGCGAAUUGCUCCUGUCGCAGGACA-ACGAGGAUUGGAGUAGGAGG
((..((((....)))).((((((((((((((((((.......))---)))))))(((((.(((((.((((.....))))..))).))))))).-....))))))).)).))... ( -37.30)
>DroPse_CAF1 209339 88 - 1
CCAAGUGCAAGUGCAUGGCCCAAUUUAUAGUCAAAUGCUAAUUUCGUUGGCCAUGUCCUCGCACAAAGCGUGAAUUGCUGUAGUCGCU--------------------------
....((((.((..(((((((.(((...((((.....)))).....))))))))))..)).))))..((((.....)))).........-------------------------- ( -26.90)
>DroEre_CAF1 206696 110 - 1
CCAAGUGCAAGUGCAUGGCCCAAUUUAUGGUCAAAUGCUAAUUU---UGGCCAUGUCCUCGCACAAAGCGCGAAUUGCUGCUGUCGCAGGACA-GCGCGGCUUGGAGUGGGCGG
((..((((....)))).(((((...((((((((((.......))---))))))))(((((((.......)))).((((.((((((....))))-))))))...))).))))))) ( -44.30)
>DroYak_CAF1 207913 110 - 1
CCAAGUGCAAGUGCAUGGCCCAAUUUAUGGUCAAAUGCUAAUUU---UGGCCAUGUCCUCGCACAAAGCGCGAAUUGCUCCUGUCGCAGGAGA-ACGAAUAUUGGAGUAGGAGG
((..((((.((..(((((((.((....((((.....))))..))---.)))))))..)).))))...........((((((..(((.......-.))).....))))))))... ( -35.10)
>DroAna_CAF1 209697 106 - 1
CCAAGUGCAAGUGCAUGGCCCAAUUUAUGGUCAAAUGCUAAUUU---UGGUCAUGUCCUCGCACAAAGCGCGAAUUGCUCUUGUCGCUGGUCUCUCGAUUUUUGGAAA-----C
((((((((.((..(((((((.((....((((.....))))..))---.)))))))..)).))))..(((((((.......))).)))).............))))...-----. ( -29.80)
>DroPer_CAF1 211527 88 - 1
CCAAGUGCAAGUGCAUGGCCCAAUUUAUAGUCAAAUGCUAAUUUCGUUGGCCAUGUCCUCGCACAAAGCGUGAAUUGCUGUAGUCGCU--------------------------
....((((.((..(((((((.(((...((((.....)))).....))))))))))..)).))))..((((.....)))).........-------------------------- ( -26.90)
>consensus
CCAAGUGCAAGUGCAUGGCCCAAUUUAUGGUCAAAUGCUAAUUU___UGGCCAUGUCCUCGCACAAAGCGCGAAUUGCUCCUGUCGCAGGACA__CGA___UUGGAGU_____G
....((((.((..(((((((.......((((.....))))........)))))))..)).)))).....((((..........))))........................... (-27.01 = -26.43 +  -0.58)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:43:27 2006