Locus 6420

Sequence ID	X_DroMel_CAF1
Location	16,101,133 – 16,101,343
Length	210
Max. P	0.913114

overview

Window 9

Location	16,101,133 – 16,101,245
Length	112
Sequences	5
Columns	114
Reading direction	forward
Mean pairwise identity	90.96
Mean single sequence MFE	-33.56
Consensus MFE	-27.98
Energy contribution	-27.74
Covariance contribution	-0.24
Combinations/Pair	1.10
Mean z-score	-1.72
Structure conservation index	0.83
SVM decision value	1.07
SVM RNA-class probability	0.910801
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16101133 112 + 22224390
UGACUUCAUCGCAACAUGACGAUGAAUAGAUGGCCGAAAGGUUAAUGUUAA--UGUUGGAUAAACAGCGUUCGGAAGAGCUCGUCUUAGAGCUGCUGUUCCGGAAACGAUUGUU
((((((((((((.....).)))))))....(((((....)))))..)))).--....(((...(((((..((....))((((......)))).))))))))(....)....... ( -36.70)
>DroSec_CAF1 3041 112 + 1
UGACCUCAUCGCAACAUGAUGAUGAAUAGAAGGCCGAAGGGUUAAUGUUAA--UGUUGGAUAAACAGCGUUCGGAAGAGCUCGUCAUAGAGCUGCUGUUCCGGAAACGAUUGUU
.......(((.((((((.......((((...((((....))))..)))).)--)))))))).((((((..((....))((((......)))).)))))).((....))...... ( -32.80)
>DroSim_CAF1 1689 112 + 1
UGACCUCAUCGCAACAUGCUGAUGAAUAGAAGGCCGAAGGGUUAAUGUUAA--UGUUGGAUAAACAGCGUUCGGAAGAGCUCGUCUUGGAGCUGCUGUUCCGGAAACGAUUGUU
((((.(((((((.....)).)))))......((((....))))...)))).--.((((......))))((((....))))((((.(((((((....)))))))..))))..... ( -33.90)
>DroEre_CAF1 16137 112 + 1
UGACUUCAUCGCAACAUGAUGAUGAAAAGCAGGUCCUAGGGUUAAUGUUAG--AGUUGGAUAAACAGCGUUCGGAAGAGCUCGUGUUGGAGCUGCUGUUCCGGAAACGAUUGUU
.....((((((.....)))))).(((.(((((.(((...............--.((((......))))((((....)))).......))).))))).)))((....))...... ( -33.90)
>DroYak_CAF1 1703 114 + 1
AGACUUCAUCGCAACAUGAUGAUGAAAAGAAGGCCGUAGGGUUAAUGUUUAUGUGGUGGAUAAACAGCGUUCGGAAUAGCUCGUCUUUGAGCAGCAGUUCCGGAAACGAUUGUU
....(((((((((.(((....))).......((((....))))........)))))))))..(((((((((((((((.(((((....)))))....)))))))..))).))))) ( -30.50)
>consensus
UGACUUCAUCGCAACAUGAUGAUGAAUAGAAGGCCGAAGGGUUAAUGUUAA__UGUUGGAUAAACAGCGUUCGGAAGAGCUCGUCUUAGAGCUGCUGUUCCGGAAACGAUUGUU
((((.(((((((.....).))))))......((((....))))...)))).......(((...(((((..((....))((((......)))).))))))))(....)....... (-27.98 = -27.74 +  -0.24)

alignment

secondary structure

dotplot

Window 0

Location	16,101,173 – 16,101,268
Length	95
Sequences	6
Columns	99
Reading direction	forward
Mean pairwise identity	84.36
Mean single sequence MFE	-27.05
Consensus MFE	-18.76
Energy contribution	-19.68
Covariance contribution	0.92
Combinations/Pair	1.17
Mean z-score	-2.09
Structure conservation index	0.69
SVM decision value	-0.03
SVM RNA-class probability	0.515961
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16101173 95 + 22224390
GUUAAUGUUAA--UGUUGGAUAAACAGCGUUCGGAAGAGCUCGUCUUAGAGCUGCUGUUCCGGA--AACGAUUGUUUAAAAUUCCUUAGUUUGGCAGCU
.....((((((--....(((((((((((((((((((((((((......))))).))..))))).--.))).)))))))....))).....))))))... ( -27.30)
>DroSec_CAF1 3081 95 + 1
GUUAAUGUUAA--UGUUGGAUAAACAGCGUUCGGAAGAGCUCGUCAUAGAGCUGCUGUUCCGGA--AACGAUUGUUUAAAAUUCCUUAGUUUGGCAGCU
.....((((((--....(((((((((((((((((((((((((......))))).))..))))).--.))).)))))))....))).....))))))... ( -27.30)
>DroSim_CAF1 1729 95 + 1
GUUAAUGUUAA--UGUUGGAUAAACAGCGUUCGGAAGAGCUCGUCUUGGAGCUGCUGUUCCGGA--AACGAUUGUUUAAAAUUCCUUAGUUUGGCAGCU
.....((((((--....((((((((((.((((....))))((((.(((((((....))))))).--.)))))))))))....))).....))))))... ( -27.30)
>DroEre_CAF1 16177 95 + 1
GUUAAUGUUAG--AGUUGGAUAAACAGCGUUCGGAAGAGCUCGUGUUGGAGCUGCUGUUCCGGA--AACGAUUGUUUAAAAUUCCUUAGUUUGGCAGCU
.....((((((--(.(.((((((((((.((((....))))((((..((((((....))))))..--.)))))))))))....)))..).)))))))... ( -29.60)
>DroYak_CAF1 1743 97 + 1
GUUAAUGUUUAUGUGGUGGAUAAACAGCGUUCGGAAUAGCUCGUCUUUGAGCAGCAGUUCCGGA--AACGAUUGUUUCAAAUUCCUUAGUUUGGCAGCU
((((((((((((.......)))))))......(((((.(((((....)))))((((((..((..--..))))))))....))))).....))))).... ( -24.00)
>DroAna_CAF1 33583 90 + 1
---AUUUUUAG--UGCU-GACCAACAGGGUUCGGAAGAGUUCGCUUCCGAACAACUAUUCUAAAUCAUUAAUUGUUUUAAAUUCUU---UUUGGCAGCU
---........--.(((-(.((((.((((((((((((......)))))))))........((((.((.....)).))))....)))---.)))))))). ( -26.80)
>consensus
GUUAAUGUUAA__UGUUGGAUAAACAGCGUUCGGAAGAGCUCGUCUUAGAGCUGCUGUUCCGGA__AACGAUUGUUUAAAAUUCCUUAGUUUGGCAGCU
.....((((((......(((((((((((((((((((.(((((......)))))....))))))....))).)))))))....))).....))))))... (-18.76 = -19.68 +   0.92)

alignment

secondary structure

dotplot

Window 1

Location	16,101,245 – 16,101,343
Length	98
Sequences	6
Columns	98
Reading direction	reverse
Mean pairwise identity	91.02
Mean single sequence MFE	-23.93
Consensus MFE	-22.11
Energy contribution	-22.20
Covariance contribution	0.09
Combinations/Pair	1.09
Mean z-score	-1.48
Structure conservation index	0.92
SVM decision value	1.09
SVM RNA-class probability	0.913114
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16101245 98 - 22224390
AAAGAAAACCACCAGCUUCCCAAAGCCUGAUUACGAAAUCCAGUGUCCUGGGGAGUGGCCUCAUUUGUCGCUCUAAGCUGCCAAACUAAGGAAUUUUA
............((((((((((..((((((((....))).))).))..))))(((((((.......))))))).))))))((.......))....... ( -24.80)
>DroSec_CAF1 3153 98 - 1
AAAGAAAACCACCAGCUUCCCAAAACCUGAUUACGAAAUCCAGUGUCGUGGGGAGUGGCCUCAUUUGUCGCUCUAAGCUGCCAAACUAAGGAAUUUUA
............((((((((((..((((((((....))).))).))..))))(((((((.......))))))).))))))((.......))....... ( -25.60)
>DroSim_CAF1 1801 98 - 1
AAAGAAAACCACCAGCUUCCCAAAACCUGAUUACGAAAUCCAGUGUCGUGGGGAGUGGCCUCAUUUGUCGCUCUAAGCUGCCAAACUAAGGAAUUUUA
............((((((((((..((((((((....))).))).))..))))(((((((.......))))))).))))))((.......))....... ( -25.60)
>DroEre_CAF1 16249 98 - 1
AAAGAAAACCACCAGCUUCCCAAAACCUGAUUACCAAAUCCAGUGUCGUGGGGAGUGGCCUCAUUUGUCGCUCUAAGCUGCCAAACUAAGGAAUUUUA
............((((((((((..((((((((....))).))).))..))))(((((((.......))))))).))))))((.......))....... ( -25.60)
>DroYak_CAF1 1817 98 - 1
GAAGAAAACCACCAGCUUCCCAAAACCUGAUUACGAAAUCCAGUGUCGUGGGGAGUGGCCUCAUUUGUCGCUCUAAGCUGCCAAACUAAGGAAUUUGA
............((((((((((..((((((((....))).))).))..))))(((((((.......))))))).))))))((.......))....... ( -25.60)
>DroAna_CAF1 33653 92 - 1
AAAGAAAACCACCAGCUUCCUGUAAACUGCGUAGAAA---CAGAGUUAAAGGGAGUUGCCUCAUUUGUCGCUCUAAGCUGCCAAA---AAGAAUUUAA
............(((((((((...((((..((....)---)..))))..))))))))).....((((.(((.....)).).))))---.......... ( -16.40)
>consensus
AAAGAAAACCACCAGCUUCCCAAAACCUGAUUACGAAAUCCAGUGUCGUGGGGAGUGGCCUCAUUUGUCGCUCUAAGCUGCCAAACUAAGGAAUUUUA
............((((((((((..(((((...........))).))..))))(((((((.......))))))).)))))).................. (-22.11 = -22.20 +   0.09)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:17 2006