Locus 6031

Sequence ID	3L_DroMel_CAF1
Location	16,075,321 – 16,075,419
Length	98
Max. P	0.683453

overview

Window 5

Location	16,075,321 – 16,075,419
Length	98
Sequences	6
Columns	107
Reading direction	forward
Mean pairwise identity	79.32
Mean single sequence MFE	-31.43
Consensus MFE	-21.74
Energy contribution	-22.72
Covariance contribution	0.97
Combinations/Pair	1.11
Mean z-score	-1.31
Structure conservation index	0.69
SVM decision value	0.27
SVM RNA-class probability	0.659707
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16075321 98 + 23771897
C---GGGCAUCAUGCCAAAGUGCGGCGGCGGUCCAUUGCCCAUGCGCCCAAAGCGCUGGGCACCUGCAAUGGU---AAUUUGAAAUAUAAAUAU--A-UUUGUGCAU
.---..((((..(((((...(((((.((....))..((((((.((((.....)))))))))).))))).))))---).....((((((....))--)-))))))).. ( -33.70)
>DroVir_CAF1 4205 102 + 1
CGCCAGGCAUCAUGCCAAAGUGUGGCGGCGGUCCAUUGCCCAUGCGUCCAAAGCGCUGAGCGCCUGUGAUAUAGAUGAUUCGUUAUAU--AUGCGGAAUUUAUU---
(((.((((.(((.((((.....))))(((((....)))))...((((.....)))))))..)))))))..((((((..(((((.....--..))))))))))).--- ( -28.10)
>DroSec_CAF1 4237 98 + 1
C---GGGCAUCAUGCCAAAGUGCGGCGGCGGUCCAUUGCCCAUGCGCCCAAAGCGCUGGGCACCUGCAAUGGU---AAUUUGAAAUAUACAUAU--A-UUUGUGCUC
.---((((((..(((((...(((((.((....))..((((((.((((.....)))))))))).))))).))))---).....((((((....))--)-))))))))) ( -35.90)
>DroSim_CAF1 10396 98 + 1
C---GGGCAUCAUGCCAAAGUGCGGCGGCGGUCCAUUGCCCAUGCGCCCAAAGCGCUGGGCACCUGCAAUGGU---AAUUUGAAAUAUACAUAC--A-UUUGUGCUC
.---((((.((((((((...(((((.((....))..((((((.((((.....)))))))))).))))).))))---)...))).....(((...--.-..))))))) ( -34.20)
>DroEre_CAF1 4188 94 + 1
C---GGGCAUCAUGCCAAAGUGCGGCGGCGGUCCAUUGCCCAUACGCCCAAAACGCUGGGCACCUGCAAUGGC---AAUUCG----AAAUGUAU--A-UUUGUGUUC
.---((((((..(((((...(((((.(((((....))))).....(((((......)))))..))))).))))---).....----((((....--)-))))))))) ( -28.80)
>DroMoj_CAF1 3874 100 + 1
CGCCAGGCAUCAUGCCAAAGUGUGGCGGAGGUCCAUUGCCCAUGCGACCAAAGCGCUGGGCCCCUGUGAUCAAAAUUAAUAAUAAUAU--AUAC--AUUUUGUU---
((((((((.....)))......)))))..((((((..(((((.(((.......))))))))...)).)))).................--....--........--- ( -27.90)
>consensus
C___GGGCAUCAUGCCAAAGUGCGGCGGCGGUCCAUUGCCCAUGCGCCCAAAGCGCUGGGCACCUGCAAUGGU___AAUUUGAAAUAUA_AUAC__A_UUUGUGCUC
....((((....((((.......))))...))))..((((((.((((.....))))))))))............................................. (-21.74 = -22.72 +   0.97)

alignment

secondary structure

dotplot

Window 6

Location	16,075,321 – 16,075,419
Length	98
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	79.32
Mean single sequence MFE	-30.82
Consensus MFE	-23.15
Energy contribution	-22.82
Covariance contribution	-0.33
Combinations/Pair	1.26
Mean z-score	-1.20
Structure conservation index	0.75
SVM decision value	0.31
SVM RNA-class probability	0.683453
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16075321 98 - 23771897
AUGCACAAA-U--AUAUUUAUAUUUCAAAUU---ACCAUUGCAGGUGCCCAGCGCUUUGGGCGCAUGGGCAAUGGACCGCCGCCGCACUUUGGCAUGAUGCCC---G
..(((((..-.--..................---.(((((((..((((((((....))))))))....)))))))......((((.....)))).)).)))..---. ( -32.40)
>DroVir_CAF1 4205 102 - 1
---AAUAAAUUCCGCAU--AUAUAACGAAUCAUCUAUAUCACAGGCGCUCAGCGCUUUGGACGCAUGGGCAAUGGACCGCCGCCACACUUUGGCAUGAUGCCUGGCG
---.........(((..--.......((....)).......((((((((((((((....).))).)))))...((....))((((.....)))).....)))))))) ( -28.30)
>DroSec_CAF1 4237 98 - 1
GAGCACAAA-U--AUAUGUAUAUUUCAAAUU---ACCAUUGCAGGUGCCCAGCGCUUUGGGCGCAUGGGCAAUGGACCGCCGCCGCACUUUGGCAUGAUGCCC---G
(.(((((..-.--..................---.(((((((..((((((((....))))))))....)))))))......((((.....)))).)).))).)---. ( -33.00)
>DroSim_CAF1 10396 98 - 1
GAGCACAAA-U--GUAUGUAUAUUUCAAAUU---ACCAUUGCAGGUGCCCAGCGCUUUGGGCGCAUGGGCAAUGGACCGCCGCCGCACUUUGGCAUGAUGCCC---G
(.(((((..-.--..................---.(((((((..((((((((....))))))))....)))))))......((((.....)))).)).))).)---. ( -33.00)
>DroEre_CAF1 4188 94 - 1
GAACACAAA-U--AUACAUUU----CGAAUU---GCCAUUGCAGGUGCCCAGCGUUUUGGGCGUAUGGGCAAUGGACCGCCGCCGCACUUUGGCAUGAUGCCC---G
.........-.--((((....----......---(((......)))((((((....))))))))))(((((..((....))((((.....))))....)))))---. ( -28.90)
>DroMoj_CAF1 3874 100 - 1
---AACAAAAU--GUAU--AUAUUAUUAUUAAUUUUGAUCACAGGGGCCCAGCGCUUUGGUCGCAUGGGCAAUGGACCUCCGCCACACUUUGGCAUGAUGCCUGGCG
---..((((((--..((--(......)))..))))))....((((.(((((((((....).))).)))))...((....))((((.....))))......))))... ( -29.30)
>consensus
GAGCACAAA_U__AUAU_UAUAUUUCAAAUU___ACCAUUGCAGGUGCCCAGCGCUUUGGGCGCAUGGGCAAUGGACCGCCGCCGCACUUUGGCAUGAUGCCC___G
............................................((((((((....))))))))..(((((..((....))((((.....))))....))))).... (-23.15 = -22.82 +  -0.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:07:25 2006