Locus 3426

Sequence ID	X_DroMel_CAF1
Location	9,155,513 – 9,155,630
Length	117
Max. P	0.989751

overview

Window 6

Location	9,155,513 – 9,155,630
Length	117
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	94.11
Mean single sequence MFE	-37.75
Consensus MFE	-34.74
Energy contribution	-34.82
Covariance contribution	0.08
Combinations/Pair	1.06
Mean z-score	-1.24
Structure conservation index	0.92
SVM decision value	0.58
SVM RNA-class probability	0.789292
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9155513 117 + 22224390
GUAUCGCCGGGUUAGCCGCGAAGGAGCCAAAUAGAGAUUGCCAAUUUGGCGGCCUCUCACCUCGCGAUAUUGGCCCAUUCACGAGCAUAAAUCAAAGCCAACA--AACCGGUUCCGGUU-
.....(((((....((((.(((((.(((((...(((..((((.....))))..)))((.......))..))))))).))).)).)).........((((....--....))))))))).- ( -36.10)
>DroSec_CAF1 8152 119 + 1
GAAUCGCCGGGUUAGCCGCGAAGGACCCAAAUAGAGAUUGCCAAUUUGGCGGCCUCUCACCUCGCGAUUUUGGCCCAUUCACGAGCAUAAAUCAAAGCCAACAAAAACCGGUUCCGGUU-
(((((((.((((...((.....))))))....((((..((((.....))))..))))......)))))))((((......................)))).....(((((....)))))- ( -33.75)
>DroSim_CAF1 9211 119 + 1
GAAUCGCCGGGUUAGCCGCGAAGGAGCCAAACAGAGAUUGCCAAUUUGGCGGCCUCUCACCUCGCGAUUUUGGCCCAUUCACGAGCAUAAAUCAAAGCCAACAAAAACCGGUUCCGGUU-
.....(((((....((((.(((((.((((((..(((..((((.....))))..)))((.......)).)))))))).))).)).)).........((((..........))))))))).- ( -35.70)
>DroEre_CAF1 8495 117 + 1
CAAUCGCCGGGUUAGCCGCGAAGGAGCCAAAUGGAGAUUGCCAAUUUGGCGGCCUCUCACCUCGCGAUUUUGGCCCAUUCCCGAGCGUGAACCAAAGCCACCA--AACCGGUUCCGGCU-
.....((((((...((((....((.(((((((((......)).)))))))(((...((((((((.((...........)).)))).))))......))).)).--...)))))))))).- ( -42.10)
>DroYak_CAF1 8658 118 + 1
CAAUCGCCGGGUUAGCCGCGAAGGAGCCAAAUAGAGAUUGCCAAUUUGGCGGCCUCUCACCUCGCGAUUUUGGCCCAUUCACGGGCAUAAAUCAAAGCCAACA--AACCGGUUCCGGUUG
(((((((((((((.((.((((.((.(......((((..((((.....))))..))))).))))))(((((..((((......))))..)))))...)).))).--..))))...)))))) ( -41.10)
>consensus
GAAUCGCCGGGUUAGCCGCGAAGGAGCCAAAUAGAGAUUGCCAAUUUGGCGGCCUCUCACCUCGCGAUUUUGGCCCAUUCACGAGCAUAAAUCAAAGCCAACA__AACCGGUUCCGGUU_
.....(((((....((((.(((((.((((((.((((..((((.....))))..))))...........)))))))).))).)).)).........((((..........))))))))).. (-34.74 = -34.82 +   0.08)

alignment

secondary structure

dotplot

Window 7

Location	9,155,513 – 9,155,630
Length	117
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	94.11
Mean single sequence MFE	-45.40
Consensus MFE	-39.48
Energy contribution	-39.12
Covariance contribution	-0.36
Combinations/Pair	1.14
Mean z-score	-1.96
Structure conservation index	0.87
SVM decision value	2.18
SVM RNA-class probability	0.989751
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9155513 117 - 22224390
-AACCGGAACCGGUU--UGUUGGCUUUGAUUUAUGCUCGUGAAUGGGCCAAUAUCGCGAGGUGAGAGGCCGCCAAAUUGGCAAUCUCUAUUUGGCUCCUUCGCGGCUAACCCGGCGAUAC
-.((((....))))(--((((((.((........((.((((((.(((((((((((....))))(((((..(((.....)))..)))))..))))))).)))))))).)).)))))))... ( -44.40)
>DroSec_CAF1 8152 119 - 1
-AACCGGAACCGGUUUUUGUUGGCUUUGAUUUAUGCUCGUGAAUGGGCCAAAAUCGCGAGGUGAGAGGCCGCCAAAUUGGCAAUCUCUAUUUGGGUCCUUCGCGGCUAACCCGGCGAUUC
-(((((....))))).(((((((.((........((.((((((.(((((...(((....))).(((((..(((.....)))..))))).....))))))))))))).)).)))))))... ( -42.00)
>DroSim_CAF1 9211 119 - 1
-AACCGGAACCGGUUUUUGUUGGCUUUGAUUUAUGCUCGUGAAUGGGCCAAAAUCGCGAGGUGAGAGGCCGCCAAAUUGGCAAUCUCUGUUUGGCUCCUUCGCGGCUAACCCGGCGAUUC
-(((((....))))).(((((((.((........((.((((((.(((((((((((....))).(((((..(((.....)))..))))).)))))))).)))))))).)).)))))))... ( -45.00)
>DroEre_CAF1 8495 117 - 1
-AGCCGGAACCGGUU--UGGUGGCUUUGGUUCACGCUCGGGAAUGGGCCAAAAUCGCGAGGUGAGAGGCCGCCAAAUUGGCAAUCUCCAUUUGGCUCCUUCGCGGCUAACCCGGCGAUUG
-.(((((..((((((--((((((((((...((((.((((.((.(.......).)).))))))))))))))))))))))))..........((((((.......)))))).)))))..... ( -51.10)
>DroYak_CAF1 8658 118 - 1
CAACCGGAACCGGUU--UGUUGGCUUUGAUUUAUGCCCGUGAAUGGGCCAAAAUCGCGAGGUGAGAGGCCGCCAAAUUGGCAAUCUCUAUUUGGCUCCUUCGCGGCUAACCCGGCGAUUG
..((((....))))(--((((((.((........(((.(((((.(((((((((((....))).(((((..(((.....)))..))))).)))))))).)))))))).)).)))))))... ( -44.50)
>consensus
_AACCGGAACCGGUU__UGUUGGCUUUGAUUUAUGCUCGUGAAUGGGCCAAAAUCGCGAGGUGAGAGGCCGCCAAAUUGGCAAUCUCUAUUUGGCUCCUUCGCGGCUAACCCGGCGAUUC
.(((((....)))))....(((((((..((((((....)))))))))))))((((((..(((....((((((......(.(((.......))).)......)))))).)))..)))))). (-39.48 = -39.12 +  -0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:07 2006