Locus 3892

Sequence ID	2L_DroMel_CAF1
Location	11,388,038 – 11,388,226
Length	188
Max. P	0.909104

overview

Window 3

Location	11,388,038 – 11,388,133
Length	95
Sequences	6
Columns	102
Reading direction	forward
Mean pairwise identity	93.08
Mean single sequence MFE	-31.62
Consensus MFE	-26.44
Energy contribution	-26.58
Covariance contribution	0.14
Combinations/Pair	1.08
Mean z-score	-2.39
Structure conservation index	0.84
SVM decision value	1.06
SVM RNA-class probability	0.909104
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11388038 95 + 22407834
CUAUUUAAGGCCAAGAUUUGAUUGUCAAGCGGAGAUAUGCCAAUUUCUCAGUCG-------GAUCCUGGCAGCUCACAGCUUGUCGGACAUUGUUCUGGCUA
........(((((..((.((.(((.(((((.(((...(((((...(((.....)-------))...))))).)))...))))).))).))..))..))))). ( -32.40)
>DroPse_CAF1 130374 95 + 1
CUAUUUAAGGCCGAGAUUUGAUUGUCAAGCGGAGAUAUGCCAAUUUCUCAGUCG-------AGUCUUGGCAGCUCACAGCUUGUCGGACAUUGUUCUGGCUA
........(((((..((.((.(((.(((((.(((...((((((...(((....)-------))..)))))).)))...))))).))).))..))..))))). ( -34.40)
>DroYak_CAF1 108589 95 + 1
CUAUUUAAGGCCAAGAUUUGAUUGUCAAGCGGAGAUAUGCCAAUUUCUCAGUCG-------GAUCCUGGCAGCUCACAGCUUGUCGGACAUUGUUCUGGCUA
........(((((..((.((.(((.(((((.(((...(((((...(((.....)-------))...))))).)))...))))).))).))..))..))))). ( -32.40)
>DroMoj_CAF1 141126 102 + 1
CUAUUUAAGGCCGAGAUUUGAUUGUCAAGCGUAGAUAUGCCAAUUUCUCUGUCGCCAUUUGGGCCUUGGCAGCUCACAGCUUGUCGGACAUUGUUCUGGCUA
........(((((..((.((.(((.(((((((.((..((((((..........(((.....))).))))))..)))).))))).))).))..))..))))). ( -29.00)
>DroAna_CAF1 94599 95 + 1
CUAUUUAAGGCCGAGAUUUGAUUGUCCGGCGGAGAUAUGCCAAUUUCUCAGUCG-------GUUCCUGGCAGCUCACAGCUUGUCGGACAUUGUUCUAGCUA
........(((..(((......(((((((((((((.((....)).)))).((((-------(...)))))(((.....))))))))))))....))).))). ( -27.10)
>DroPer_CAF1 129480 95 + 1
CUAUUUAAGGCCGAGAUUUGAUUGUCAAGCGGAGAUAUGCCAAUUUCUCAGUCG-------AGUCUUGGCAGCUCACAGCUUGUCGGACAUUGUUCUGGCUA
........(((((..((.((.(((.(((((.(((...((((((...(((....)-------))..)))))).)))...))))).))).))..))..))))). ( -34.40)
>consensus
CUAUUUAAGGCCGAGAUUUGAUUGUCAAGCGGAGAUAUGCCAAUUUCUCAGUCG_______GGUCCUGGCAGCUCACAGCUUGUCGGACAUUGUUCUGGCUA
........(((((..((.((.(((.(((((.(((...(((((........................))))).)))...))))).))).))..))..))))). (-26.44 = -26.58 +   0.14)

alignment

secondary structure

dotplot

Window 4

Location	11,388,133 – 11,388,226
Length	93
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	81.78
Mean single sequence MFE	-21.56
Consensus MFE	-12.24
Energy contribution	-13.91
Covariance contribution	1.67
Combinations/Pair	1.00
Mean z-score	-1.99
Structure conservation index	0.57
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11388133 93 - 22407834
GCUUCAAUCGAGGCGACUCCAAUCGCCGCCACAUGCAAC-------AUUCGGCAUUCUG-------CAUUCGGCAUUCAAGAUCCAGCACUCAACACUCAACACUCA
(((...(((..(((((......)))))(((..(((((..-------...........))-------)))..)))......)))..)))................... ( -21.12)
>DroSec_CAF1 105094 93 - 1
GCUUCAAUCGAGGCGACUCCGAUCGCCGCCACAUGCAAC-------AUUCGGCAUUCUG-------CAUUCGGCAUCCAAGAUCCAGCACUCAACACUCAACACUCA
(((...(((..(((((......)))))(((..(((((..-------...........))-------)))..)))......)))..)))................... ( -21.12)
>DroSim_CAF1 112032 86 - 1
GCUUCAAUCGAGGCGACUCCGAUCGCCGCCACAUGCAAC-------AUUCGGCUUUCUG-------CAUUCGGCAUCCAAGAUCCAGCACUCA-------ACACUCA
(((...(((..(((((......)))))(((..(((((..-------...........))-------)))..)))......)))..))).....-------....... ( -21.12)
>DroEre_CAF1 108699 100 - 1
GCUUCAAUCGAGGCGACUCCGAUCGCCGCCACAUGCAAC-------AUUCGGCAUUCUGCAUUCGGCAUUCGGCAUUCAAGAUCCAGCACUCAACACUCAACACUCA
(((...(((..(((((......)))))(((..((((...-------.....((.....)).....))))..)))......)))..)))................... ( -22.82)
>DroYak_CAF1 108684 107 - 1
GCUUCAAUCGAGGCGACUCCGAUCGCCGCCACAUGCAACAUUCAACAUUCGGCAUUCUGCAUUCUGCAUUCGGCAUUCAAGAUCCAGCACUCAACACUCAACACUCA
(((...(((..(((((......)))))(((..(((((........(....)((.....))....)))))..)))......)))..)))................... ( -22.20)
>DroAna_CAF1 94694 82 - 1
GCAUCAAUCGAGGCGACUGCGAUCGCCGCCGCAUGCAAC-------AUU--GCAUCGUA----------GCAGCAUA------GCAACUUGCAACACCCAACACUCA
((.........(((((......)))))((..((((((..-------..)--)))).)..----------)).))...------((.....))............... ( -21.00)
>consensus
GCUUCAAUCGAGGCGACUCCGAUCGCCGCCACAUGCAAC_______AUUCGGCAUUCUG_______CAUUCGGCAUUCAAGAUCCAGCACUCAACACUCAACACUCA
(((...(((..(((((......)))))(((..((((...............))))..(((.....)))...)))......)))..)))................... (-12.24 = -13.91 +   1.67)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:54 2006