Locus 5522

Sequence ID	X_DroMel_CAF1
Location	14,293,078 – 14,293,218
Length	140
Max. P	0.500000

overview

Window 0

Location	14,293,078 – 14,293,178
Length	100
Sequences	6
Columns	107
Reading direction	forward
Mean pairwise identity	78.75
Mean single sequence MFE	-37.07
Consensus MFE	-26.80
Energy contribution	-28.72
Covariance contribution	1.92
Combinations/Pair	1.08
Mean z-score	-0.96
Structure conservation index	0.72
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14293078 100 + 22224390
U------CCGUU-UCGUUCUAGGCGAGCAUCCGGCGGCAAUGCAUACGGGCAACAACGGUAACUCUACGGCGUCCCAGCCGCCGGUCUUGCUGCCGCUGGUCCUGCU
.------.....-((((.....))))(((.(((((((((..(((.((.(((.......(((....)))(((......)))))).))..))))))))))))...))). ( -41.10)
>DroPse_CAF1 8990 94 + 1
UCCGAU---AUU-CAAUUGCAGGCGAACAUCCGGCGGCCAUGCAU---------CAUGGAAACUCGGCGCCACUUCAGCCACCGGCUUUGAUCUCGAUGUUGAUGCU
......---...-.....(((..(.((((((.((((.(((((...---------)))(....)..)))))).....((((...))))........))))))).))). ( -22.40)
>DroSec_CAF1 6003 100 + 1
U------CCGUU-CCGUUUCAGGCGAGCAUCCGGCGGCAAUGCAUACGGGCAACAACGGUAACUCCACGGCGUCCCAGCCGCCGGUCCUGCUGCCGCUGGUCCUGCU
.------.((((-........))))((((.(((((((((..(((.((.(((......((.....))..(((......)))))).))..))))))))))))...)))) ( -40.50)
>DroSim_CAF1 6521 106 + 1
UCCGUUUCCGUU-UCGUUCCAGGCGAGCAUCCGGCGGCAAUGCAUACGGGCAACAACGGUAACUCCACGGCGUCCCAGCCGCCGGUCCUGCUGCCGCUGGUCCUGCU
............-((((.....))))(((.(((((((((..(((.((.(((......((.....))..(((......)))))).))..))))))))))))...))). ( -41.30)
>DroEre_CAF1 5273 94 + 1
U-------------CAUUCCAGGCGAGCAUCCGGCGGCAAUGCACACGGGCAACAAUGGCAACUCCACGGCGAGCCAGCCGCCAGUCCUGCUGCCGCUGGUCCUGCU
.-------------...........((((.(((((((((..(((...((((.....(((.....))).((((.(....))))).))))))))))))))))...)))) ( -37.30)
>DroYak_CAF1 7652 107 + 1
UCCGUUUUCGUUUCCAUUCCAGGCGAGCAUCCGGCGGCAAUGCAUACGGGCAACAACGGUAACUCCACGGCGACCCAGCCGCCAGUCCUGCUGCCGCUGGUCCUGCU
.......((((((.......))))))(((.(((((((((..(((.((.(((......((.....))..(((......)))))).))..))))))))))))...))). ( -39.80)
>consensus
U______CCGUU_CCAUUCCAGGCGAGCAUCCGGCGGCAAUGCAUACGGGCAACAACGGUAACUCCACGGCGUCCCAGCCGCCGGUCCUGCUGCCGCUGGUCCUGCU
.........................((((.(((((((((..(((.((.(((......((.....))..(((......)))))).))..))))))))))))...)))) (-26.80 = -28.72 +   1.92)

alignment

secondary structure

dotplot

Window 1

Location	14,293,098 – 14,293,218
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	69.24
Mean single sequence MFE	-44.38
Consensus MFE	-21.32
Energy contribution	-22.55
Covariance contribution	1.23
Combinations/Pair	1.40
Mean z-score	-1.48
Structure conservation index	0.48
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14293098 120 + 22224390
CAUCCGGCGGCAAUGCAUACGGGCAACAACGGUAACUCUACGGCGUCCCAGCCGCCGGUCUUGCUGCCGCUGGUCCUGCUCACCUGCAGCACACUGAUGCUCCUCCAGCUGGUGGCCAGC
...(((((((((..(((.((.(((.......(((....)))(((......)))))).))..))))))))))))..(((..((((.((((((......))))......)).))))..))). ( -48.20)
>DroPse_CAF1 9013 111 + 1
CAUCCGGCGGCCAUGCAU---------CAUGGAAACUCGGCGCCACUUCAGCCACCGGCUUUGAUCUCGAUGUUGAUGCUUGUCUGCAGCACUCUGAUUCUGCUGCACGCCUCUGCCUGC
.....((((((((((...---------)))))......((((......(((.((.((((.(((....))).)))).)).)))..(((((((.........))))))))))).)))))... ( -33.60)
>DroSim_CAF1 6547 120 + 1
CAUCCGGCGGCAAUGCAUACGGGCAACAACGGUAACUCCACGGCGUCCCAGCCGCCGGUCCUGCUGCCGCUGGUCCUGCUCACAUGCAGCACACUGAUGCUCCUCCAGCUGGUGGCCAGC
((((((((((((..(((.((.(((......((.....))..(((......)))))).))..)))))))))))((.((((......)))).))...))))........(((((...))))) ( -47.20)
>DroEre_CAF1 5287 120 + 1
CAUCCGGCGGCAAUGCACACGGGCAACAAUGGCAACUCCACGGCGAGCCAGCCGCCAGUCCUGCUGCCGCUGGUCCUGCUCACCUGCAGCACGCUGAUGCUCCUCCAGCUGGUGGCCAGC
.....(((((((.(((.((..(....)..))))).......((((.(....))))).....)))))))(((((((((((......))))((.((((.........))))))..))))))) ( -48.00)
>DroWil_CAF1 5171 109 + 1
CAUCCGGCGGCAAUGCAU---------CAUGGCAACUCGGCGCCGCUGCAACCGCCGGCAAUGCUGUCAUUGCUCCUACUCACAUGCGGUGUACUGCUGCUAUUGCAAUCCUCCGCCC--
.....(((((...((((.---------.((((((.(...(((((((((........(((((((....)))))))........)).)))))))...).)))))))))).....))))).-- ( -39.79)
>DroAna_CAF1 51670 111 + 1
CAUCCGGCGGCAAUGCA---------CCACGGCAACUCUGGGGCAUUUCGACCGCCGGGCCUGGUCUCGCUGCUGCUCUUCUUGUGCGGAGCGCCGCUGCUCAUCCAGGCGGUCACCUUU
...(((((((((((((.---------(((.(....)..))).)))))..).)))))))((((((....((.((.((.((((......)))).)).)).))....)))))).......... ( -49.50)
>consensus
CAUCCGGCGGCAAUGCAU________CAACGGCAACUCCACGGCGUUCCAGCCGCCGGUCCUGCUGCCGCUGGUCCUGCUCACCUGCAGCACACUGAUGCUCCUCCAGCCGGUGGCCAGC
...((((((((...................(....).....((....)).))))))))....((..(((((((....((.......(((....)))..))....)))).)))..)).... (-21.32 = -22.55 +   1.23)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:00 2006