Locus 2626

Sequence ID	2R_DroMel_CAF1
Location	9,276,730 – 9,276,862
Length	132
Max. P	0.559052

overview

Window 2

Location	9,276,730 – 9,276,825
Length	95
Sequences	6
Columns	108
Reading direction	reverse
Mean pairwise identity	78.99
Mean single sequence MFE	-30.70
Consensus MFE	-14.07
Energy contribution	-14.57
Covariance contribution	0.50
Combinations/Pair	1.39
Mean z-score	-2.16
Structure conservation index	0.46
SVM decision value	-0.00
SVM RNA-class probability	0.532566
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9276730 95 - 20766785
GGCCACUUUACGGCAUGUCAGCUUCAUCUGCACCAC-------------CACCCUCGCUCCAGAAUUUUUUUUUUUAUGGAAGCCAAGAGGUGGCGGCCUAUUUCACA
((((.......((..((.(((......))))))).(-------------((((((.(((((((((........))).))).)))..)).))))).))))......... ( -26.00)
>DroSec_CAF1 161946 105 - 1
GGCCACUUUACGGCAUGUCAGCUUCAUCUGCACCACCUACU---CCCGCCACACCCGCUCUACAAUUUUUUUUUUUAUGUUGGCCAAGGGGUGGCGGCCUAUUUCACA
((((.......((..((.(((......))))))).......---...(((((.(((......((((............)))).....))))))))))))......... ( -28.30)
>DroSim_CAF1 147934 103 - 1
GGCCACUUUACGGCAUGUCAGCUUCAUCUGCACCACCUACU---CCCGCCACACCCGCUCCACAAAUUU--UUUUUAUGUUGGCCAAGGGGUGGCGGCCUAUUUCACA
((((.......((..((.(((......))))))).......---...(((((.(((...(((((.....--......)).)))....))))))))))))......... ( -28.70)
>DroEre_CAF1 148265 102 - 1
GGCCACUUUACGGCAUGUCAGCUUCAUCUGCACCACCCCCUAGCCCCCCUGGCCCG--UCCACAAAUUU--UU--UAUGGGGGCCAAGGGGCGGCGGCCUAUUUCACA
((((.......((..((.(((......)))))))........(((((((((((((.--.(((.((....--.)--).)))))))).))))).)))))))......... ( -39.80)
>DroYak_CAF1 146230 106 - 1
GGCCACUUUACGGCAUGUCAGCUUCAUCUGCACCACCCGCUACCCCCACUACCACGGCUCCAAAAAUUU--UUUGUAUGGGGGCCAAGGGGCGGCGGCCUAUUUCACA
((((.......((...(((((......))).))...))((..((((.........((((((...((...--.)).....))))))..))))..))))))......... ( -31.50)
>DroAna_CAF1 153712 92 - 1
GGCCACUUUACGGCGUGUCAGCUUCAUCUGUGGCGCCU------CCCGCUUC-CCUUCCCCAAAACUU-------UA--CGGGCCAAGGGGUGACGGCCUAUUUCACA
((((.......(((((..(((......)))..))))).------..(((..(-((((.(((.......-------..--.)))..))))))))..))))......... ( -29.90)
>consensus
GGCCACUUUACGGCAUGUCAGCUUCAUCUGCACCACCU_CU___CCCGCCACCCCCGCUCCACAAAUUU__UUUUUAUGGGGGCCAAGGGGUGGCGGCCUAUUUCACA
((((.......((..((.(((......)))))))....................(((((((..........................))))))).))))......... (-14.07 = -14.57 +   0.50)

alignment

secondary structure

dotplot

Window 3

Location	9,276,767 – 9,276,862
Length	95
Sequences	6
Columns	108
Reading direction	reverse
Mean pairwise identity	83.68
Mean single sequence MFE	-25.56
Consensus MFE	-18.71
Energy contribution	-18.43
Covariance contribution	-0.28
Combinations/Pair	1.10
Mean z-score	-1.72
Structure conservation index	0.73
SVM decision value	0.05
SVM RNA-class probability	0.559052
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9276767 95 - 20766785
UUCAUUUUUGUGUGACAAGUUUUCUGUGGUUCAGUGGGGCCACUUUACGGCAUGUCAGCUUCAUCUGCACCAC-------------CACCCUCGCUCCAGAAUUUUUU
.((((......)))).(((..(((((..((...((((.(((.......)))......((.......))....)-------------)))....))..)))))..))). ( -20.70)
>DroSec_CAF1 161983 105 - 1
UUCAUUUUUGUGUGACAAGUUUUCUGUGGUUCAGUGGGGCCACUUUACGGCAUGUCAGCUUCAUCUGCACCACCUACU---CCCGCCACACCCGCUCUACAAUUUUUU
..........((((...(((....((((((..(((((((((.......)))......((.......))....))))))---...))))))...))).))))....... ( -24.00)
>DroSim_CAF1 147971 103 - 1
UUCAUUUUUGUGUGACAAGUUUUCUGUGGUUCAGUGGGGCCACUUUACGGCAUGUCAGCUUCAUCUGCACCACCUACU---CCCGCCACACCCGCUCCACAAAUUU--
......((((((.((...((....((((((..(((((((((.......)))......((.......))....))))))---...))))))...))))))))))...-- ( -26.90)
>DroEre_CAF1 148300 104 - 1
UUCAUUUUUGUGUGACAAGUUUUCUGUGGUUCAGUGGGGCCACUUUACGGCAUGUCAGCUUCAUCUGCACCACCCCCUAGCCCCCCUGGCCCG--UCCACAAAUUU--
......((((((.(((.((....))..((..(((.(((((........((..((.(((......)))))))........))))).)))..)))--))))))))...-- ( -29.99)
>DroYak_CAF1 146267 106 - 1
UUCAUUUUUGUGUGACAAGUUUUCUGUGGUUCAGUGGGGCCACUUUACGGCAUGUCAGCUUCAUCUGCACCACCCGCUACCCCCACUACCACGGCUCCAAAAAUUU--
.((((......)))).((((((((((((((..(((((((........(((...(((((......))).))...)))....)))))))))))))).....)))))))-- ( -27.30)
>DroAna_CAF1 153743 98 - 1
UUCAUUUUAGUGUGACAAGUUUUCUGUGGUUCACUGGGGCCACUUUACGGCGUGUCAGCUUCAUCUGUGGCGCCU------CCCGCUUC-CCUUCCCCAAAACUU---
.((((......)))).(((((((..(((((((....))))))).....(((((..(((......)))..))))).------........-........)))))))--- ( -24.50)
>consensus
UUCAUUUUUGUGUGACAAGUUUUCUGUGGUUCAGUGGGGCCACUUUACGGCAUGUCAGCUUCAUCUGCACCACCU_CU___CCCGCCACCCCCGCUCCACAAAUUU__
.........((((((((.(((....(((((((....))))))).....))).)))))((.......))..)))................................... (-18.71 = -18.43 +  -0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:34:55 2006