Locus 547

Sequence ID	2L_DroMel_CAF1
Location	1,694,765 – 1,694,871
Length	106
Max. P	0.809560

overview

Window 6

Location	1,694,765 – 1,694,871
Length	106
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	73.88
Mean single sequence MFE	-54.27
Consensus MFE	-30.67
Energy contribution	-29.53
Covariance contribution	-1.13
Combinations/Pair	1.46
Mean z-score	-1.66
Structure conservation index	0.57
SVM decision value	0.64
SVM RNA-class probability	0.809560
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1694765 106 + 22407834
UUGAGCUUGGCCGGU---A---------UGGCA--GCUGGCGGAGGAAUGGCGGCGGCUGCAAAUGCGGCGGCCAGUAGCCUGAGCACCCUAGCGGCCAGCGCGAAUAUCGUUGACAGAU
....(.(..((.(((---(---------(.((.--((((((..(((....(((((.(((((....))))).))).))..)))..((......)).))))))))..)))))))..)).... ( -43.00)
>DroPse_CAF1 8301 115 + 1
CUGAGUCUGGCAGGUGCCCUUAG-----UGGCAUGGCCGCCGGUGGAAUGGCAGCCGCCGCCAGUGUGGCGGCCAGCGGAUUGAGUGCCUUGGCGGCCAGUGCGAAUGCACUGGAUCGCU
((.((((((((..(((((.....-----.))))).)))((((......)))).((((((((....))))))))....))))).))......((((((((((((....))))))).))))) ( -57.50)
>DroGri_CAF1 5523 118 + 1
CUGAGCCUGGCGGGCGCACUUAGCGGCAUGGCU--GCUGCUGGUGGCAUGGCUGCGGCGGCAAGCGUUGCGGCAAGCGGCCUGAGCGCUCUGGCGGCCAGUGCUGGUGCGCUGGAUCGUU
..((((....(((((.((((.(((((((....)--))))))))))((...(((((((((.....)))))))))..)).)))))...)))).((((((((((((....))))))).))))) ( -62.40)
>DroWil_CAF1 6863 106 + 1
CUUAGCCUGGCUGGA---U---------UUACA--GCUGCCGGAGGCAUGGCUGCUGCUGCCAGUGUGGCAGCCAGCGGUUUGAGCGCCUUGGCGGCCAGUGCCAAUGCUCUGGAUCGUU
....(((.(((((..---.---------...))--)))((((.((((..(((((((((((((.....))))).)))))))).....)))))))))))(((.((....)).)))....... ( -49.60)
>DroAna_CAF1 4511 109 + 1
CUGAGCCUGGCCGGAGCCC---------UGAGC--GCUGCUGGGGGAAUGGCAGCGGCUGCCAGUGUGGCUGCCAGCGGACUGAGCGCCUUGGCGGCCAGUGCCAAUGCCCUGGACAGAU
....(((.(((....))).---------.).))--.((((..(((.(.(((((..(((((((((...(((.(((((....))).))))))))))))))..))))).).)))..).))).. ( -53.80)
>DroPer_CAF1 4970 115 + 1
CUGAGUCUGGCAGGUGCCCUUAG-----UGGCAUGGCCGCCGGUGGAAUGGCAGCUGCCGCCAGUGUGGCGGCCAGCGGAUUGAGUGCCUUGGCGGCCAGUGCGAAUGCACUGGAUCGCU
((.((((((((..(((((.....-----.))))).)))((((......)))).(((((((((.....))))).))))))))).))......((((((((((((....))))))).))))) ( -59.30)
>consensus
CUGAGCCUGGCAGGUGCCC_________UGGCA__GCUGCCGGUGGAAUGGCAGCGGCUGCCAGUGUGGCGGCCAGCGGACUGAGCGCCUUGGCGGCCAGUGCGAAUGCACUGGAUCGAU
....(((((((........................((.((((......)))).((((((((....))))))))..))........(((....)))))))).))................. (-30.67 = -29.53 +  -1.13)

alignment

secondary structure

dotplot

Window 7

Location	1,694,765 – 1,694,871
Length	106
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	73.88
Mean single sequence MFE	-45.70
Consensus MFE	-19.88
Energy contribution	-20.93
Covariance contribution	1.06
Combinations/Pair	1.25
Mean z-score	-1.89
Structure conservation index	0.43
SVM decision value	0.24
SVM RNA-class probability	0.647400
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1694765 106 - 22407834
AUCUGUCAACGAUAUUCGCGCUGGCCGCUAGGGUGCUCAGGCUACUGGCCGCCGCAUUUGCAGCCGCCGCCAUUCCUCCGCCAGC--UGCCA---------U---ACCGGCCAAGCUCAA
.................(.((((((((.((.((((((..(((...((((.((.((.......)).)).)))).......))))))--.))).---------)---).))))).))).).. ( -34.80)
>DroPse_CAF1 8301 115 - 1
AGCGAUCCAGUGCAUUCGCACUGGCCGCCAAGGCACUCAAUCCGCUGGCCGCCACACUGGCGGCGGCUGCCAUUCCACCGGCGGCCAUGCCA-----CUAAGGGCACCUGCCAGACUCAG
.(((..(((((((....))))))).)))...((((............((((((.....))))))(((((((........))))))).)))).-----.....(((....)))........ ( -55.20)
>DroGri_CAF1 5523 118 - 1
AACGAUCCAGCGCACCAGCACUGGCCGCCAGAGCGCUCAGGCCGCUUGCCGCAACGCUUGCCGCCGCAGCCAUGCCACCAGCAGC--AGCCAUGCCGCUAAGUGCGCCCGCCAGGCUCAG
...((.((.((((((..(((.((((.((..((....)).(((.((..((......))..)).))))).)))))))....(((.((--(....))).)))..))))))......)).)).. ( -41.30)
>DroWil_CAF1 6863 106 - 1
AACGAUCCAGAGCAUUGGCACUGGCCGCCAAGGCGCUCAAACCGCUGGCUGCCACACUGGCAGCAGCAGCCAUGCCUCCGGCAGC--UGUAA---------A---UCCAGCCAGGCUAAG
.........((((...(((....)))((....)))))).....((((.(((((.....)))))))))((((.((((...))))((--((...---------.---..))))..))))... ( -44.90)
>DroAna_CAF1 4511 109 - 1
AUCUGUCCAGGGCAUUGGCACUGGCCGCCAAGGCGCUCAGUCCGCUGGCAGCCACACUGGCAGCCGCUGCCAUUCCCCCAGCAGC--GCUCA---------GGGCUCCGGCCAGGCUCAG
..((((...(((...(((((.((((.((((.(((((.(((....))))).)))....)))).)))).)))))...)))..)))).--(((..---------.(((....))).))).... ( -47.10)
>DroPer_CAF1 4970 115 - 1
AGCGAUCCAGUGCAUUCGCACUGGCCGCCAAGGCACUCAAUCCGCUGGCCGCCACACUGGCGGCAGCUGCCAUUCCACCGGCGGCCAUGCCA-----CUAAGGGCACCUGCCAGACUCAG
.(((..(((((((....))))))).)))...((((............((((((.....)))))).((((((........))))))..)))).-----.....(((....)))........ ( -50.90)
>consensus
AACGAUCCAGGGCAUUCGCACUGGCCGCCAAGGCGCUCAAUCCGCUGGCCGCCACACUGGCAGCCGCUGCCAUUCCACCGGCAGC__UGCCA_________GGGCACCGGCCAGGCUCAG
......((((.((....)).))))..((....))..........(((((.(((.....))).(((((.(((........))).))..)))...................)))))...... (-19.88 = -20.93 +   1.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:39:04 2006