Locus 501

Sequence ID	2L_DroMel_CAF1
Location	1,496,565 – 1,496,685
Length	120
Max. P	0.891109

overview

Window 1

Location	1,496,565 – 1,496,685
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	77.17
Mean single sequence MFE	-40.30
Consensus MFE	-19.42
Energy contribution	-22.70
Covariance contribution	3.28
Combinations/Pair	1.28
Mean z-score	-2.31
Structure conservation index	0.48
SVM decision value	0.96
SVM RNA-class probability	0.891109
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1496565 120 + 22407834
GCAGGAUACUGGCAGUUUACAAUGACUAGUGCCAAUCUGAAUGGAUUUCAGUUUUGUGAGAACUGCGAGGCCAUACUCGAUGUAGGCACUUCCCUAAUUGUUGUGCCUGAGCAAGUCCUA
..(((((.((.(((((((.((..((((....(((.......))).....))))...)).))))))).)).........(...(((((((.............)))))))..)..))))). ( -35.02)
>DroSec_CAF1 114221 120 + 1
GCAGGAUACUGGCAGUUUACAAUGACAAGUGCCAAUCUGAAUGGCUUUCAGUUUUGUGAAAACUGCGAAGCCAUACUCGAUGUAGGCACUUCCCUAAUUGUUGUGCCAGAGCAAGUCCUA
..(((((.((((((....(((((...(((((((.(((.((((((((((((((((.....)))))).))))))))..)))))...))))))).....)))))..)))))).....))))). ( -44.20)
>DroEre_CAF1 120437 120 + 1
GCAGGAUAUUGGCAAUUUACGAUGACGAGCGCCACGGUGAAUGGGUUUCAGUUUUGUGAGAACUGCGAGGCCAUACUCGAUGUGGGCACUUCCCUAAUUGUGGUGCCUGAGCCAGUCCUA
..(((((..((((......((....)).((((((((((....(((...((((((.....)))))).((((((.(((.....)))))).))))))..))))))))))....))))))))). ( -43.00)
>DroWil_CAF1 169089 120 + 1
CAAGGAUAUUGGCAAUUUGAAAUGACCAGCGCCACACUGAACGAUCAAGAGUUUUGUGACAAUUGUCAGGCAAUUCUCGAUGUGGGCACUUCUCUAAUUGUUGUGCCCAACUCGGAGAUA
...((...((((((........)).))))..))...((((...(((.((((((.(.((((....)))).).)))))).))).(((((((..(.......)..)))))))..))))..... ( -33.40)
>DroYak_CAF1 117409 120 + 1
GCAGGAUACUGGCAAUUUACCAUGACAAGUGCCUCGGUGAGUGGCUUUCAGUUUUGUGCGAACUGCGAGGCCAUAUUGGAUGUGGGCACUUCGCUAAUUGUUGUGCCUAAGCCAGUCCUA
..((((..(((((...(((((..(........)..)))))((((((((((((((.....)))))).))))))))........(((((((...((.....)).))))))).))))))))). ( -42.50)
>DroAna_CAF1 140805 120 + 1
CAGGGCUAUUGGCAAUUCACAAUGGGCAGUGCCGACAUAAAUGGCACAAACUUUUGCAACAAAUGCGAGGCCAUACUCGAUGUGGGCACCUCUCUGAUGGUGAUUCCCCAAAAUGCCCUA
.(((((..((((....((((...(((..(((((.((((..(((((.......((((((.....))))))))))).....)))).)))))..))).....))))....))))...))))). ( -43.71)
>consensus
GCAGGAUACUGGCAAUUUACAAUGACAAGUGCCAAGCUGAAUGGCUUUCAGUUUUGUGAGAACUGCGAGGCCAUACUCGAUGUGGGCACUUCCCUAAUUGUUGUGCCUGAGCAAGUCCUA
..(((((...((((....(((((....((((((........(((((((((((((.....)))))).)))))))(((.....)))))))))......)))))..)))).......))))). (-19.42 = -22.70 +   3.28)

alignment

secondary structure

dotplot

Window 2

Location	1,496,565 – 1,496,685
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	77.17
Mean single sequence MFE	-36.48
Consensus MFE	-16.67
Energy contribution	-16.82
Covariance contribution	0.14
Combinations/Pair	1.26
Mean z-score	-2.15
Structure conservation index	0.46
SVM decision value	0.43
SVM RNA-class probability	0.732999
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1496565 120 - 22407834
UAGGACUUGCUCAGGCACAACAAUUAGGGAAGUGCCUACAUCGAGUAUGGCCUCGCAGUUCUCACAAAACUGAAAUCCAUUCAGAUUGGCACUAGUCAUUGUAAACUGCCAGUAUCCUGC
(((((..((((..((((..(((((..((..((((((...(((....((((.....(((((.......)))))....))))...))).))))))..)))))))....))))))))))))). ( -32.70)
>DroSec_CAF1 114221 120 - 1
UAGGACUUGCUCUGGCACAACAAUUAGGGAAGUGCCUACAUCGAGUAUGGCUUCGCAGUUUUCACAAAACUGAAAGCCAUUCAGAUUGGCACUUGUCAUUGUAAACUGCCAGUAUCCUGC
(((((......((((((..(((((..((.(((((((...(((....(((((((..((((((.....)))))).)))))))...))).))))))).)))))))....))))))..))))). ( -44.60)
>DroEre_CAF1 120437 120 - 1
UAGGACUGGCUCAGGCACCACAAUUAGGGAAGUGCCCACAUCGAGUAUGGCCUCGCAGUUCUCACAAAACUGAAACCCAUUCACCGUGGCGCUCGUCAUCGUAAAUUGCCAAUAUCCUGC
(((((.((((...(((.((((.....(((.....))).......(.((((.....(((((.......)))))....)))).)...)))).)))((....))......))))...))))). ( -31.20)
>DroWil_CAF1 169089 120 - 1
UAUCUCCGAGUUGGGCACAACAAUUAGAGAAGUGCCCACAUCGAGAAUUGCCUGACAAUUGUCACAAAACUCUUGAUCGUUCAGUGUGGCGCUGGUCAUUUCAAAUUGCCAAUAUCCUUG
..((((..(((((....))))..)..))))((((((((((((((((.((...((((....))))...)).)))))))......))).))))))((.((........)))).......... ( -31.90)
>DroYak_CAF1 117409 120 - 1
UAGGACUGGCUUAGGCACAACAAUUAGCGAAGUGCCCACAUCCAAUAUGGCCUCGCAGUUCGCACAAAACUGAAAGCCACUCACCGAGGCACUUGUCAUGGUAAAUUGCCAGUAUCCUGC
((((((((((...(((..........(((((.(((......((.....))....))).))))).((....))...)))....((((.(((....))).)))).....)))))..))))). ( -36.90)
>DroAna_CAF1 140805 120 - 1
UAGGGCAUUUUGGGGAAUCACCAUCAGAGAGGUGCCCACAUCGAGUAUGGCCUCGCAUUUGUUGCAAAAGUUUGUGCCAUUUAUGUCGGCACUGCCCAUUGUGAAUUGCCAAUAGCCCUG
((((((...((((.((.((((.((..(...((((((.((((.....((((((..((.((((...)))).))..).)))))..)))).)))))).)..)).)))).)).))))..)))))) ( -41.60)
>consensus
UAGGACUGGCUCAGGCACAACAAUUAGGGAAGUGCCCACAUCGAGUAUGGCCUCGCAGUUCUCACAAAACUGAAAGCCAUUCAGAGUGGCACUGGUCAUUGUAAAUUGCCAAUAUCCUGC
.............((((.............((((((..........((((.....(((((.......)))))....)))).......)))))).............)))).......... (-16.67 = -16.82 +   0.14)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:37:42 2006