Locus 3592

Sequence ID	3R_DroMel_CAF1
Location	9,699,094 – 9,699,241
Length	147
Max. P	0.978689

overview

Window 9

Location	9,699,094 – 9,699,208
Length	114
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	75.37
Mean single sequence MFE	-37.09
Consensus MFE	-16.92
Energy contribution	-17.47
Covariance contribution	0.56
Combinations/Pair	1.47
Mean z-score	-2.37
Structure conservation index	0.46
SVM decision value	1.35
SVM RNA-class probability	0.944870
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9699094 114 - 27905053
CCACA------UCCGCAUCUGCCGCCCGGCCAAAUUCCACUUGGAAUCUUUCCCGGCGGACCGCAUCCCGGGCAUCCUCCGCCCCACGGACACCAUCCGUUCGGGAGUGCGCCGCAUCUG
.....------...((.....(((((.((....(((((....)))))....)).)))))..((((((((((((.......)))).(((((.....)))))..)))).))))..))..... ( -44.00)
>DroVir_CAF1 7367 114 - 1
CCACCGCC---GCCGCAUUUGCCGCCUGGUCA---UCCGCUGGGCAUCUUUCCAGCUGGCCCACAUCCGGGUCAUCCGCCGCCCCAUGGCCAUCAUCCAUUCGUGACUGCACCGCAUCUG
.....((.---((.((....)).))..(((((---(..((((((......))))))((((((......))))))...((((.....))))............)))))).....))..... ( -32.50)
>DroPse_CAF1 19628 111 - 1
CCGCC------CCCGCAUCUACCGCCCGGCCA---CCCAUUGGGCAUCUUUCCGGGCGGGCCACAUCCAGGACAUCCCCCACCCCAUGGCCAUCAUCCCUUCGGGGCGGCUCCUCAUCUC
(((((------((.........(((((((...---(((...))).......)))))))(((((......((.......))......)))))...........)))))))........... ( -41.30)
>DroMoj_CAF1 8709 117 - 1
CCGCCGCCACCACCGCAUCUGAUGCCCGGCCA---UCCGCUAGGCAUAUUUCCAGGCGGUCCCCAUCCAGGACAUCCACCGCCUCAUGGUCAUCAUCCAUUUGUGGCCGCUCCUCAUCUA
..((.(((((.(((((.....(((((..((..---...))..)))))........))))).........(((.....((((.....)))).....)))....))))).)).......... ( -35.32)
>DroAna_CAF1 21307 114 - 1
CCACA------UCCGCAUCUACCGCCCGGCCAAAUACCGCUCGGCCUAUUCCCGGGCGGUCCGCAUCCCGUACAUCCAUCGCCCCAUGGACACCAUCCCUUCGGAGGACCUCCGCACCUG
.....------...((.......((((((.......((....)).......))))))(((((............(((((......))))).....(((....))))))))...))..... ( -32.84)
>DroPer_CAF1 19669 108 - 1
CCGCC------CCCGCAUCUGCCGCCCGGCCA---CCCAUUGGGCAUCUUUCCG-GCGGGCCACAUCCAGGGCAUCCCCCACCCCAUGGCCAUCAUCCCUUCGG-GCGGCU-CUCAUCUC
..((.------...))....(((((((((((.---.......)))........(-(..(((((......(((.....)))......))))).....))...)))-))))).-........ ( -36.60)
>consensus
CCACC______CCCGCAUCUGCCGCCCGGCCA___UCCACUGGGCAUCUUUCCGGGCGGGCCACAUCCAGGACAUCCACCGCCCCAUGGCCAUCAUCCCUUCGGGGCGGCUCCGCAUCUG
..............((.....((((((((.......((....)).......))))))))..........(((.....((((.....)))).....)))..........)).......... (-16.92 = -17.47 +   0.56)

alignment

secondary structure

dotplot

Window 0

Location	9,699,134 – 9,699,241
Length	107
Sequences	6
Columns	117
Reading direction	reverse
Mean pairwise identity	74.90
Mean single sequence MFE	-34.73
Consensus MFE	-20.50
Energy contribution	-21.67
Covariance contribution	1.17
Combinations/Pair	1.32
Mean z-score	-2.21
Structure conservation index	0.59
SVM decision value	1.82
SVM RNA-class probability	0.978689
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9699134 107 - 27905053
-------CUUCCGCCCGUGCCAACUGGACCGCCACAUGGUCCACA---UCCGCAUCUGCCGCCCGGCCAAAUUCCACUUGGAAUCUUUCCCGGCGGACCGCAUCCCGGGCAUCCUCC
-------.....((((((((....(((((((.....)))))))..---...)))....(((((.((....(((((....)))))....)).))))).........)))))....... ( -39.60)
>DroVir_CAF1 7407 114 - 1
UCCGCAGCAUCCGCCCGUGCCAACGGGGCCACAUCAUGGUCCACCGCCGCCGCAUUUGCCGCCUGGUCA---UCCGCUGGGCAUCUUUCCAGCUGGCCCACAUCCGGGUCAUCCGCC
......((....(((((.(......((((((......((...((((..((.((....)).)).))))..---.))((((((......))))))))))))....)))))).....)). ( -38.20)
>DroPse_CAF1 19668 108 - 1
UCCU---CAUCCGCCCGUGCCAACAGGACCGCCGCAUGGUCCGCC---CCCGCAUCUACCGCCCGGCCA---CCCAUUGGGCAUCUUUCCGGGCGGGCCACAUCCAGGACAUCCCCC
((((---.....((((((((.....((((((.....))))))...---...)))).....((((((...---(((...))).......)))))))))).......))))........ ( -36.80)
>DroWil_CAF1 7556 99 - 1
UUCU---CAUCCACCCGUGCCAACUGGACCGCCACUUGGUCCUCC---UCCGCAUUUGCCACCUGGCCA---UCCACUU---AUGUUUCCCGGC------CAUCCAGCGCAUCCACC
....---.........((((.....((((((.....))))))...---...((....))....(((((.---...((..---..)).....)))------))....))))....... ( -21.70)
>DroAna_CAF1 21347 107 - 1
-------CAUCCUCCCGUGCCAACUGGACCGCCCCACGGCCCACA---UCCGCAUCUACCGCCCGGCCAAAUACCGCUCGGCCUAUUCCCGGGCGGUCCGCAUCCCGUACAUCCAUC
-------.........((((....((((((((((..(((......---.)))........(((.(((........))).)))........))))))))))......))))....... ( -33.70)
>DroPer_CAF1 19707 107 - 1
UCCU---CAUCCGCCCGUGCCAACAGGACCGCCGCAUGGUCCGCC---CCCGCAUCUGCCGCCCGGCCA---CCCAUUGGGCAUCUUUCCG-GCGGGCCACAUCCAGGGCAUCCCCC
....---.....((((((((.....((....))))))((((((((---...((....)).((((((...---....))))))........)-))))))).......))))....... ( -38.40)
>consensus
UCCU___CAUCCGCCCGUGCCAACUGGACCGCCACAUGGUCCACC___UCCGCAUCUGCCGCCCGGCCA___UCCACUGGGCAUCUUUCCGGGCGGGCCACAUCCAGGGCAUCCACC
................(((......((((((.....))))))................((((((((.......((....)).......))))))))..)))................ (-20.50 = -21.67 +   1.17)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:05:19 2006