Locus 5650

Sequence ID	X_DroMel_CAF1
Location	14,598,501 – 14,598,640
Length	139
Max. P	0.808417

overview

Window 7

Location	14,598,501 – 14,598,608
Length	107
Sequences	6
Columns	113
Reading direction	forward
Mean pairwise identity	71.18
Mean single sequence MFE	-25.48
Consensus MFE	-7.54
Energy contribution	-8.21
Covariance contribution	0.67
Combinations/Pair	1.39
Mean z-score	-2.23
Structure conservation index	0.30
SVM decision value	0.64
SVM RNA-class probability	0.808417
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14598501 107 + 22224390
CAACCAAAUUUAGUAUAAAUUAAAUGCCAU--UUGCGUAGAUUUAUUCAGGCCAUAAUUAUAAUUAAUUGGGCUUGACAAAUGGCCUGGGAU-GGUACGAGAUUGUCACC---
...(((.(((((((....)))))))(((((--(((...........(((((((.((((((....))))))))))))))))))))).)))((.-.((.....))..))...--- ( -29.60)
>DroPse_CAF1 85603 98 + 1
---------UCAGAAGAGG----AGACUGU--UUUACUAAAUUGACUUAACUAAUAAUUAUAAUUAAUUCGGCUUGACAAAUGGCUUGGAAUUUGUGCGAGUAUCCCACGAGU
---------..((((.((.----...)).)--)))...............................((((((((((((((((........)))))).)))))......))))) ( -16.20)
>DroSim_CAF1 73750 107 + 1
CAACCAAAUUUAGUAUAAAUUAAAUGCCAU--UUGCGUAGAUUUAUUCAGGCCAUAAUUAUAAUUAAUUGGGCUUGACAAAUGGCCUGGGAU-GGUACGAGAUUGUCACC---
...(((.(((((((....)))))))(((((--(((...........(((((((.((((((....))))))))))))))))))))).)))((.-.((.....))..))...--- ( -29.60)
>DroEre_CAF1 69658 96 + 1
CAACCAAAUUUAGAAUAAAUGAAUUGCCAU--UUGCGUAGAUUUAUUCAGGCCAUAAUUAUAAUUAAUUGGGCUUGACAAAUGGCCUGGGAU------------GUCACC---
...(((((((((.......))))))(((((--(((...........(((((((.((((((....))))))))))))))))))))).)))...------------......--- ( -25.90)
>DroYak_CAF1 70200 107 + 1
CAACCAAAUUUAGAAUAAAUGAAAUACCAU--UUGAGUCGAUUUAUUCAGGCCAUAAUUAUAAUUAAUUGGGCUUGACAAAUGGCUUGGGAU-GGUACGAGAUUGCCACC---
........................((((((--(..((((.((((..(((((((.((((((....))))))))))))).))))))))..).))-)))).............--- ( -27.20)
>DroAna_CAF1 109437 97 + 1
CAACCGAGUGUGGAAUAAAUUAAAUGCGAGAGUGGUUCAAAUUGUGUUCGCCAAUAAUUAUAAUUAAUUUAGCUUGGCAAAUCACUCGGGA-------------AUCACC---
...(((((((..(((((((((...(((....))).....)))).)))))(((((.(((((....)))))....)))))....)))))))..-------------......--- ( -24.40)
>consensus
CAACCAAAUUUAGAAUAAAUUAAAUGCCAU__UUGCGUAGAUUUAUUCAGGCCAUAAUUAUAAUUAAUUGGGCUUGACAAAUGGCCUGGGAU_GGUACGAGAUUGUCACC___
.........................(((((................(((((((.((((((....)))))))))))))...)))))............................ ( -7.54 =  -8.21 +   0.67)

alignment

secondary structure

dotplot

Window 8

Location	14,598,534 – 14,598,640
Length	106
Sequences	5
Columns	110
Reading direction	forward
Mean pairwise identity	75.45
Mean single sequence MFE	-23.56
Consensus MFE	-14.38
Energy contribution	-15.60
Covariance contribution	1.22
Combinations/Pair	1.11
Mean z-score	-1.58
Structure conservation index	0.61
SVM decision value	0.14
SVM RNA-class probability	0.603297
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14598534 106 + 22224390
CGUAGAUUUAUUCAGGCCAUAAUUAUAAUUAAUUGGGCUUGACAAAUGGCCUGGGAUGGUACGAGAUUGUCACCG----AAAUUUGGAUUAAAGAAAGGGUUGUCGAAAU
...........(((((((.((((((....)))))))))))))...(..((((..((..((.....))..)).(((----(...))))..........))))..)...... ( -23.70)
>DroSim_CAF1 73783 106 + 1
CGUAGAUUUAUUCAGGCCAUAAUUAUAAUUAAUUGGGCUUGACAAAUGGCCUGGGAUGGUACGAGAUUGUCACCG----AAAUUUGGAUUAAAGAAAGGGUUGUCGAAAU
...........(((((((.((((((....)))))))))))))...(..((((..((..((.....))..)).(((----(...))))..........))))..)...... ( -23.70)
>DroEre_CAF1 69691 93 + 1
CGUAGAUUUAUUCAGGCCAUAAUUAUAAUUAAUUGGGCUUGACAAAUGGCCUGGGAU-----------GUCACCG----AAAUUUGUAUUUAAGUAAGGGUGG--AAAAU
..........(((((((((((((((....))))).(......)..))))))))))..-----------.(((((.----..(((((....)))))...)))))--..... ( -21.00)
>DroYak_CAF1 70233 106 + 1
AGUCGAUUUAUUCAGGCCAUAAUUAUAAUUAAUUGGGCUUGACAAAUGGCUUGGGAUGGUACGAGAUUGCCACCG----AAAUCUGGAUUAAAGAAAGGGUUGUCAAAAU
.(.((((((..(((((((.((((((....))))))))))))).....(..((.((.(((((......))))))).----))..).............)))))).)..... ( -26.00)
>DroAna_CAF1 109472 92 + 1
UUCAAAUUGUGUUCGCCAAUAAUUAUAAUUAAUUUAGCUUGGCAAAUCACUCGGGA------------AUCACCGCCAAAAAUUUGGAUGGAAUU----GGAC--ACAAA
......(((((((((((((.(((((....)))))....))))).............------------....(((((((....)))).)))....----))))--)))). ( -23.40)
>consensus
CGUAGAUUUAUUCAGGCCAUAAUUAUAAUUAAUUGGGCUUGACAAAUGGCCUGGGAUGGUACGAGAUUGUCACCG____AAAUUUGGAUUAAAGAAAGGGUUGUCAAAAU
...........(((((((.((((((....)))))))))))))(((((....(((((((((.....)))))).)))......)))))........................ (-14.38 = -15.60 +   1.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:12 2006