Locus 6928

Sequence ID	2L_DroMel_CAF1
Location	19,291,638 – 19,291,785
Length	147
Max. P	0.738692

overview

Window 2

Location	19,291,638 – 19,291,748
Length	110
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	83.31
Mean single sequence MFE	-37.22
Consensus MFE	-27.67
Energy contribution	-27.84
Covariance contribution	0.17
Combinations/Pair	1.11
Mean z-score	-1.84
Structure conservation index	0.74
SVM decision value	0.25
SVM RNA-class probability	0.652107
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19291638 110 + 22407834
GGCUCAGUGGUUCGGGGGCG-----G--AUA---UGGAGCCACAAAAUUGGCAUCGCCAUCGUCGGUGUGUUGAUUUAUGCAACAUUGACGUUGACGCUGCAAAGUCACAUUUGGCUGGU
(((((....(((((....))-----)--)).---..))))).........(((.((.((.(((((((((((........)).))))))))).)).)).)))..(((((....)))))... ( -37.20)
>DroPse_CAF1 14555 99 + 1
--------------AGGGCG-----U--AUACAGUGGUGCCACAAAGUUGGCAGCGCCAUCGUCGCUGUGUUGAUUUAUGCAACAUUGACGUUGACGCUGCAAAGUCACAUUUGGUUUCU
--------------..(((.-----.--.....(((....))).......((((((.((.(((((..((((((.......))))))))))).)).))))))...)))............. ( -31.00)
>DroEre_CAF1 38644 110 + 1
GGCUCAGCAGUUCGGGGGCG-----G--AUA---UGGAGCCACAAAAUUGGCAGCGCCAUCGUCGGUGUGUUGAUUUAUGCAACAUUGACGUUGACGCUGCAAAGUCACAUUUGGCUGGU
(((((....(((((....))-----)--)).---..))))).........((((((.((.(((((((((((........)).))))))))).)).))))))..(((((....)))))... ( -42.70)
>DroYak_CAF1 38741 109 + 1
GGCUCAGUGGUUCGGGGGCG-----G--AUA---UGG-GCCACAAAAUUGGCAGCGCCAUCGUCGGUGUGUUGAUUUAUGCAACAUUGACGUUGACGCUGCAAAGUCACAUUUUGCUGGU
((((((...(((((....))-----)--)).---)))-))).((((((((((((((.((.(((((((((((........)).))))))))).)).)))))).....)).))))))..... ( -41.30)
>DroAna_CAF1 57055 113 + 1
GG--CAGUAG--CGGGGGCGCGACGGAUAUA---UAGAGCCACAAAAUUGGCAGCGUUAUCGUCGGUGUGUUGAUUUAUGCAACAUUGACGUUGAUGCUGCAAAGUCACAUUUGGCUGUU
.(--((((.(--((....)))(((((.....---.....)).........(((((((((.(((((((((((........)).))))))))).)))))))))...))).......))))). ( -40.10)
>DroPer_CAF1 14929 99 + 1
--------------AGGGCG-----U--AUACAGUGGUGCCACAAAGUUGGCAGCGCCAUCGUCGCUGUGUUGAUUUAUGCAACAUUGACGUUGACGCUGCAAAGUCACAUUUGGUUUCU
--------------..(((.-----.--.....(((....))).......((((((.((.(((((..((((((.......))))))))))).)).))))))...)))............. ( -31.00)
>consensus
GG__CAGU_G__CGGGGGCG_____G__AUA___UGGAGCCACAAAAUUGGCAGCGCCAUCGUCGGUGUGUUGAUUUAUGCAACAUUGACGUUGACGCUGCAAAGUCACAUUUGGCUGGU
................(((...................))).........((((((.((.(((((((((((........)).))))))))).)).))))))..(((((....)))))... (-27.67 = -27.84 +   0.17)

alignment

secondary structure

dotplot

Window 3

Location	19,291,638 – 19,291,748
Length	110
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	83.31
Mean single sequence MFE	-28.53
Consensus MFE	-23.84
Energy contribution	-24.70
Covariance contribution	0.86
Combinations/Pair	1.04
Mean z-score	-1.72
Structure conservation index	0.84
SVM decision value	0.44
SVM RNA-class probability	0.738692
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19291638 110 - 22407834
ACCAGCCAAAUGUGACUUUGCAGCGUCAACGUCAAUGUUGCAUAAAUCAACACACCGACGAUGGCGAUGCCAAUUUUGUGGCUCCA---UAU--C-----CGCCCCCGAACCACUGAGCC
....((((...(((.....(((.(((((.((((..(((((.......)))))....)))).))))).)))....((((.(((....---...--.-----.)))..)))).))))).)). ( -24.50)
>DroPse_CAF1 14555 99 - 1
AGAAACCAAAUGUGACUUUGCAGCGUCAACGUCAAUGUUGCAUAAAUCAACACAGCGACGAUGGCGCUGCCAACUUUGUGGCACCACUGUAU--A-----CGCCCU--------------
...........(((.....(((((((((.((((..(((((.......)))))....)))).)))))))))..((...(((....))).))..--.-----)))...-------------- ( -29.10)
>DroEre_CAF1 38644 110 - 1
ACCAGCCAAAUGUGACUUUGCAGCGUCAACGUCAAUGUUGCAUAAAUCAACACACCGACGAUGGCGCUGCCAAUUUUGUGGCUCCA---UAU--C-----CGCCCCCGAACUGCUGAGCC
..((((.............(((((((((.((((..(((((.......)))))....)))).)))))))))....((((.(((....---...--.-----.)))..))))..)))).... ( -32.90)
>DroYak_CAF1 38741 109 - 1
ACCAGCAAAAUGUGACUUUGCAGCGUCAACGUCAAUGUUGCAUAAAUCAACACACCGACGAUGGCGCUGCCAAUUUUGUGGC-CCA---UAU--C-----CGCCCCCGAACCACUGAGCC
....((.....(((.....(((((((((.((((..(((((.......)))))....)))).)))))))))....((((.(((-...---...--.-----.)))..)))).)))...)). ( -30.90)
>DroAna_CAF1 57055 113 - 1
AACAGCCAAAUGUGACUUUGCAGCAUCAACGUCAAUGUUGCAUAAAUCAACACACCGACGAUAACGCUGCCAAUUUUGUGGCUCUA---UAUAUCCGUCGCGCCCCCG--CUACUG--CC
...(((....((((....((((((((........))))))))........)))).((((((((.....((((......))))....---..))).))))).......)--))....--.. ( -24.70)
>DroPer_CAF1 14929 99 - 1
AGAAACCAAAUGUGACUUUGCAGCGUCAACGUCAAUGUUGCAUAAAUCAACACAGCGACGAUGGCGCUGCCAACUUUGUGGCACCACUGUAU--A-----CGCCCU--------------
...........(((.....(((((((((.((((..(((((.......)))))....)))).)))))))))..((...(((....))).))..--.-----)))...-------------- ( -29.10)
>consensus
ACCAGCCAAAUGUGACUUUGCAGCGUCAACGUCAAUGUUGCAUAAAUCAACACACCGACGAUGGCGCUGCCAAUUUUGUGGCUCCA___UAU__C_____CGCCCCCG__C_ACUG__CC
....((((.....((.((.(((((((((.((((..(((((.......)))))....)))).))))))))).)).))..))))...................................... (-23.84 = -24.70 +   0.86)

alignment

secondary structure

dotplot

Window 4

Location	19,291,668 – 19,291,785
Length	117
Sequences	6
Columns	118
Reading direction	forward
Mean pairwise identity	90.68
Mean single sequence MFE	-41.45
Consensus MFE	-34.36
Energy contribution	-34.20
Covariance contribution	-0.16
Combinations/Pair	1.24
Mean z-score	-1.98
Structure conservation index	0.83
SVM decision value	0.32
SVM RNA-class probability	0.685142
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19291668 117 + 22407834
CACAAAAUUGGCAUCGCCAUCGUCGGUGUGUUGAUUUAUGCAACAUUGACGUUGACGCUGCAAAGUCACAUUUGGCUGGUGGUCGAAAGCUGUUUGGGCUGGGCUCGAACUCAGCUC-
..((((...(((.((((((((((((((((((........)).))))))))((.(((........)))))........))))).)))..))).))))(((((((......))))))).- ( -37.70)
>DroPse_CAF1 14574 110 + 1
CACAAAGUUGGCAGCGCCAUCGUCGCUGUGUUGAUUUAUGCAACAUUGACGUUGACGCUGCAAAGUCACAUUUGGUUUCUGGUCGAGAGCUGUUGGGGCCUGGUUGGGGC--------
..........((((((.((.(((((..((((((.......))))))))))).)).))))))...(((.((...(((..(.((.(....)))...)..)))....)).)))-------- ( -35.30)
>DroSec_CAF1 32774 117 + 1
CACAAAAUUGGCAGCGCCAUCGUCGGUGUGUUGAUUUAUGCAACAUUGACGUUGACGCUGCAAAGUCACAUUUGGCUGGUGGUCGAAAGCUGUUUGGGCUGGGCUCGAACUCAGCUC-
(((.......((((((.((.(((((((((((........)).))))))))).)).))))))..(((((....))))).)))......((((((((((((...))))))))..)))).- ( -43.70)
>DroEre_CAF1 38674 116 + 1
CACAAAAUUGGCAGCGCCAUCGUCGGUGUGUUGAUUUAUGCAACAUUGACGUUGACGCUGCAAAGUCACAUUUGGCUGGUGGUCGAGAGCUGUUUGGGCUG-GCUCAAACUCAGCUC-
(((.......((((((.((.(((((((((((........)).))))))))).)).))))))..(((((....))))).))).....((((((((((((...-.)))))))..)))))- ( -45.80)
>DroYak_CAF1 38770 117 + 1
CACAAAAUUGGCAGCGCCAUCGUCGGUGUGUUGAUUUAUGCAACAUUGACGUUGACGCUGCAAAGUCACAUUUUGCUGGUGGUCGAAAGCUGUUUGGGCUGGGCUCAAACUCAGCUC-
..........((((((.((.(((((((((((........)).))))))))).)).)))))).............(((((.((.(....)))((((((((...)))))))))))))..- ( -42.60)
>DroAna_CAF1 57088 118 + 1
CACAAAAUUGGCAGCGUUAUCGUCGGUGUGUUGAUUUAUGCAACAUUGACGUUGAUGCUGCAAAGUCACAUUUGGCUGUUGGUCGAAAGCUGUUUGGGCCGGGCUCUAACUCCGGUCU
..((((....(((((((((.(((((((((((........)).))))))))).)))))))))..(((((....)))))...((.(....))).))))(((((((.......))))))). ( -43.60)
>consensus
CACAAAAUUGGCAGCGCCAUCGUCGGUGUGUUGAUUUAUGCAACAUUGACGUUGACGCUGCAAAGUCACAUUUGGCUGGUGGUCGAAAGCUGUUUGGGCUGGGCUCGAACUCAGCUC_
..........((((((.((.(((((((((((........)).))))))))).)).)))))).........((((((.....))))))....((((((((...))))))))........ (-34.36 = -34.20 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:23:07 2006