Locus 7417

Sequence ID	X_DroMel_CAF1
Location	18,502,331 – 18,502,485
Length	154
Max. P	0.950226

overview

Window 9

Location	18,502,331 – 18,502,432
Length	101
Sequences	3
Columns	108
Reading direction	reverse
Mean pairwise identity	84.98
Mean single sequence MFE	-23.80
Consensus MFE	-14.61
Energy contribution	-15.27
Covariance contribution	0.67
Combinations/Pair	1.00
Mean z-score	-2.52
Structure conservation index	0.61
SVM decision value	0.15
SVM RNA-class probability	0.607113
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18502331 101 - 22224390
ACUUAACGCACUACUAACUCAGUGCCACAGUCACCGACUUUUGAAAUGUGUGUUGUAAACACA-------GGCAAGAGCCGCAGAUACAGAUACAUUAACAGACACAG
.......(((((........)))))....(((..((.((((((...(((((.......)))))-------..)))))).))..)))...................... ( -20.50)
>DroSec_CAF1 10630 97 - 1
ACUUAACGCACUACUAACUCAGUGCCACAGUCACCGACUUUUGAAAUGUGUGUUGUAAACACA-------GGCAAGAGUCGCAGAUACAGAUACAUUAACAAAC----
.......(((((........)))))....(((..(((((((((...(((((.......)))))-------..)))))))))..)))..................---- ( -25.50)
>DroAna_CAF1 11739 102 - 1
ACUUAACGCACUACUAACUCAGUGCCACAGUCACCGACUUUUGAAAUGUGUGUUGUAAACACACACAGGCAGCAAUAGCCGAAGAGUCACACACAC--ACACAC----
.......(((((........)))))..........(((((((....(((((((.(....))))))))(((.......))).)))))))........--......---- ( -25.40)
>consensus
ACUUAACGCACUACUAACUCAGUGCCACAGUCACCGACUUUUGAAAUGUGUGUUGUAAACACA_______GGCAAGAGCCGCAGAUACAGAUACAUUAACAAAC____
.......(((((........)))))....(((..((.((((((.....(((((.....))))).........)))))).))..)))...................... (-14.61 = -15.27 +   0.67)

alignment

secondary structure

dotplot

Window 0

Location	18,502,392 – 18,502,485
Length	93
Sequences	5
Columns	95
Reading direction	forward
Mean pairwise identity	92.22
Mean single sequence MFE	-37.42
Consensus MFE	-28.76
Energy contribution	-28.72
Covariance contribution	-0.04
Combinations/Pair	1.12
Mean z-score	-2.24
Structure conservation index	0.77
SVM decision value	1.09
SVM RNA-class probability	0.912889
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18502392 93 + 22224390
AAGUCGGUGACUGUGGCACUGAGUUAGUAGUGCGUUAAGUCAACGAACGCAGUCGCGCAGACGCCGACUGAGG--ACGUCGACAGAGACAGCGGA
..(((.(((((((((((((((......))))))(((.....)))...)))))))))(..((((((......))--.))))..)...)))...... ( -35.60)
>DroSec_CAF1 10687 93 + 1
AAGUCGGUGACUGUGGCACUGAGUUAGUAGUGCGUUAAGUCAACGAACGCAGUCGCGCAGACGCCGACUGAGG--ACGUCGACAGCGGCAGCGGA
...(((.(((((...((((((......))))))....))))).))).(((.(((((...((((((......))--.))))....))))).))).. ( -38.90)
>DroEre_CAF1 10761 93 + 1
AAGUCGGUGACUGUGGCACUGAGUUAGUAGUGCGUUAAGUCAACGAACGCAGUCGCGCAGACGCCGACCGAGG--ACGUCGACAGAGGCAGCGGG
..(((.(((((((((((((((......))))))(((.....)))...)))))))))...((((((......))--.)))))))............ ( -35.20)
>DroYak_CAF1 10787 93 + 1
AAGUCGGUGACUGUGGCACUGAGUUAGUAGUGCGUUAAGUCAACGAACGCAGUCGCGCAGACGCCGACAGAGG--ACGUCGACAGAGGCAGCGGG
..(((.(((((((((((((((......))))))(((.....)))...)))))))))...((((((......))--.)))))))............ ( -35.20)
>DroMoj_CAF1 18385 95 + 1
AAGUCGGUGACUGUGGCACUGAGUUAGUAGUGCGUUAAGUCAACGAACGCUGCCGCGCAGACGCUGACUGCGGCCGCGAUGGCAGCGGCAACAGC
...(((.(((((...((((((......))))))....))))).))).(((((((((((.(.(((.....))).).))).))))))))........ ( -42.20)
>consensus
AAGUCGGUGACUGUGGCACUGAGUUAGUAGUGCGUUAAGUCAACGAACGCAGUCGCGCAGACGCCGACUGAGG__ACGUCGACAGAGGCAGCGGA
..(((((((.(((((((((((......))))))..........(((......)))))))).))))))).........(((......)))...... (-28.76 = -28.72 +  -0.04)

alignment

secondary structure

dotplot

Window 1

Location	18,502,392 – 18,502,485
Length	93
Sequences	5
Columns	95
Reading direction	reverse
Mean pairwise identity	92.22
Mean single sequence MFE	-33.20
Consensus MFE	-25.58
Energy contribution	-25.54
Covariance contribution	-0.04
Combinations/Pair	1.16
Mean z-score	-2.45
Structure conservation index	0.77
SVM decision value	1.40
SVM RNA-class probability	0.950226
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18502392 93 - 22224390
UCCGCUGUCUCUGUCGACGU--CCUCAGUCGGCGUCUGCGCGACUGCGUUCGUUGACUUAACGCACUACUAACUCAGUGCCACAGUCACCGACUU
...(((((....(((((((.--.(.((((((.((....)))))))).)..))))))).....(((((........))))).)))))......... ( -33.30)
>DroSec_CAF1 10687 93 - 1
UCCGCUGCCGCUGUCGACGU--CCUCAGUCGGCGUCUGCGCGACUGCGUUCGUUGACUUAACGCACUACUAACUCAGUGCCACAGUCACCGACUU
...((((.....(((((((.--.(.((((((.((....)))))))).)..))))))).....(((((........)))))..))))......... ( -32.10)
>DroEre_CAF1 10761 93 - 1
CCCGCUGCCUCUGUCGACGU--CCUCGGUCGGCGUCUGCGCGACUGCGUUCGUUGACUUAACGCACUACUAACUCAGUGCCACAGUCACCGACUU
...((((.....(((((((.--.(.((((((.((....)))))))).)..))))))).....(((((........)))))..))))......... ( -31.40)
>DroYak_CAF1 10787 93 - 1
CCCGCUGCCUCUGUCGACGU--CCUCUGUCGGCGUCUGCGCGACUGCGUUCGUUGACUUAACGCACUACUAACUCAGUGCCACAGUCACCGACUU
..(((.((...((((((((.--....))))))))...))))).......(((.(((((....(((((........)))))...))))).)))... ( -28.80)
>DroMoj_CAF1 18385 95 - 1
GCUGUUGCCGCUGCCAUCGCGGCCGCAGUCAGCGUCUGCGCGGCAGCGUUCGUUGACUUAACGCACUACUAACUCAGUGCCACAGUCACCGACUU
((....))(((((((..(((((.(((.....))).))))).))))))).(((.(((((....(((((........)))))...))))).)))... ( -40.40)
>consensus
CCCGCUGCCUCUGUCGACGU__CCUCAGUCGGCGUCUGCGCGACUGCGUUCGUUGACUUAACGCACUACUAACUCAGUGCCACAGUCACCGACUU
..(((.((...(((((((.........)))))))...))))).......(((.(((((....(((((........)))))...))))).)))... (-25.58 = -25.54 +  -0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:38:23 2006