Locus 7684

Sequence ID	2L_DroMel_CAF1
Location	21,668,099 – 21,668,302
Length	203
Max. P	0.993379

overview

Window 1

Location	21,668,099 – 21,668,204
Length	105
Sequences	6
Columns	112
Reading direction	reverse
Mean pairwise identity	76.20
Mean single sequence MFE	-26.17
Consensus MFE	-21.73
Energy contribution	-19.60
Covariance contribution	-2.13
Combinations/Pair	1.52
Mean z-score	-1.64
Structure conservation index	0.83
SVM decision value	1.49
SVM RNA-class probability	0.958903
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21668099 105 - 22407834
UUAAAUAGAAGAAGAAUAAACU--UU--C--GGAUGCUGUUUAAACGCUGACUCGGGACCGCUUUCCUAAUGUUCAAACGAGUCAUGUUAAGGCAGUUACCUUACACUA-AU
.....(((.....(((......--))--)--((..(((((((.((((.((((((((((......))))...((....)))))))))))).)))))))..)).....)))-.. ( -25.40)
>DroPse_CAF1 1955 107 - 1
AAAUAUAGAAGUAGAGAAAAUUACUU--G--GGAAGCUGUUGAAACGCUGCCUUGGGACCGCUUUCCUAAUGUCCAAACGAGGCAUGCCAAGGCAGCGACCCUACAUUC-AC
........((((((......))))))--(--((..((((((.....(((((((((((((............))))...))))))).))...))))))..))).......-.. ( -31.90)
>DroWil_CAF1 2388 110 - 1
AAAAAUAAAAGUAGAUCAAAUA--UUUUAAAAAAAACUGUUGAAACGCUGCAUCGAGACCUCUUUCCUAAUGUCUAAACGUUGCAUGCUAAGGCAGUUAUUUUACAAUUUAU
.......((((((.......))--)))).((((.(((((((.....((((((.((((((............))))...)).)))).))...))))))).))))......... ( -17.50)
>DroYak_CAF1 2195 108 - 1
AUAAAUAGAAGGAGAUCAAACU--UUCUC--GGAUACUGUUUAAACGCUGACUGGGAACCGCUUUUUUAAUGUUCUAACGAGUCAUGUUAAGGCAGUUACCAUACACUAAAC
.....(((...((((.......--.))))--((..(((((((.((((.(((((.(((((............)))))....))))))))).)))))))..)).....)))... ( -25.40)
>DroAna_CAF1 1862 105 - 1
AAAAAUAGAAGCAGAACAUACC--GC--A--GGUAGCUGUUGAAACGCUGCCUCGGGACCUCUUUCCUAAUGUCCCAACGAGUCAUGCUAAGGCAGUCCCCUCACACUU-AU
.........((((..((.....--(.--(--((((((.((....))))))))))(((((............))))).....))..)))).(((......))).......-.. ( -24.90)
>DroPer_CAF1 2045 107 - 1
AAAUAUAGAAGUAGAGAAAAUUACUU--G--GGAAGCUGUUGAAACGCUGCCUUGGGACCGCUUUCCUAAUGUCCAAACGAGGCAUGCCAAGGCAGCGACCCUACAUUC-AC
........((((((......))))))--(--((..((((((.....(((((((((((((............))))...))))))).))...))))))..))).......-.. ( -31.90)
>consensus
AAAAAUAGAAGUAGAACAAACU__UU__A__GGAAGCUGUUGAAACGCUGCCUCGGGACCGCUUUCCUAAUGUCCAAACGAGGCAUGCUAAGGCAGUUACCUUACACUA_AC
...............................((..((((((.....(((((((((((((............))))...))))))).))...))))))..))........... (-21.73 = -19.60 +  -2.13)

alignment

secondary structure

dotplot

Window 2

Location	21,668,204 – 21,668,302
Length	98
Sequences	6
Columns	103
Reading direction	reverse
Mean pairwise identity	76.07
Mean single sequence MFE	-40.82
Consensus MFE	-27.26
Energy contribution	-26.35
Covariance contribution	-0.91
Combinations/Pair	1.33
Mean z-score	-2.94
Structure conservation index	0.67
SVM decision value	2.39
SVM RNA-class probability	0.993379
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21668204 98 - 22407834
ACAAAACGUGUGGCGCUUAGCGGGCGGCUUCUUGAAAGACAUCUCCGCA---AGGAAAGUC--CUUUUAGAGUCUCUCGUGCUGACGGCGCCACAAGUGGACC
.....((.(((((((((..(((((.((((.((.(((.(((...(((...---.)))..)))--.))).)))))).)))))......))))))))).))..... ( -39.60)
>DroPse_CAF1 2062 99 - 1
ACAAAACGUGUGACGCUGAGCGUGCGACAUCUUGAAAGUU-CCCCCGUA---CGGGGGCCCCUUUUUUAGAGUCGCGCGUGCUGAGGGCGCUACAAGUGCUAU
.....((.((((.((((..(((((((((.(((.(((((..-(((((...---.)))))...)))))..))))))))))))......)))).)))).))..... ( -40.90)
>DroEre_CAF1 2355 98 - 1
ACAUAACGUGUGGCGCUGAGCGGGCGGCUUCUUGAAAGACUUCUCCCCA---GGGGCAGUC--UUUUUAGUGUCGCUCGUGCUGAGGGCGCCACAAGUGGACC
.(((....(((((((((..(((((((((..((.((((((((.((((...---)))).))))--)))).)).)))))))))......))))))))).))).... ( -47.60)
>DroYak_CAF1 2303 101 - 1
ACAAAACGUGUGGCACUGAGCGGGCGGCUUCUUGAAAGACAUCUCCCCAAGGGGGGCAUUC--UUUUUAAAGUCGCUCGUGCUGAAAGCGCCACAAGUGGACC
.....((.((((((.....(((((((((((...((((((...(((((....)))))...))--))))..)))))))))))((.....)))))))).))..... ( -44.50)
>DroAna_CAF1 1967 83 - 1
ACAAAACGUGUGACGCUGAGCGUGCGGCAUCUUGGACUA------------------AUUG--UCUUUAGAGUCGCGCGUGCUGAGGGCGCCACAAGUGCCAC
.((..(((((((((((((......)))).(((.((((..------------------...)--)))..))))))))))))..))..(((((.....))))).. ( -34.40)
>DroPer_CAF1 2152 99 - 1
ACAAAACGUGUGACGCUGAGCGUGCGACAUCUUGAAAGUU-CCUCCGUA---CGGGGGCCCCUUUUUUAGAGUCGCGCGUGCUGAGGGCGCUACAAGUGCUAU
.....((.((((.((((..(((((((((.(((.(((((..-(((((...---.)))))...)))))..))))))))))))......)))).)))).))..... ( -37.90)
>consensus
ACAAAACGUGUGACGCUGAGCGGGCGGCAUCUUGAAAGAC_UCUCCGCA___CGGGCACUC__UUUUUAGAGUCGCGCGUGCUGAGGGCGCCACAAGUGCAAC
.....((.((((.((((..(((((((((...(((((((.....((((.....)))).......))))))).)))))))))......)))).)))).))..... (-27.26 = -26.35 +  -0.91)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:42:41 2006