Locus 742

Sequence ID	2L_DroMel_CAF1
Location	2,129,132 – 2,129,277
Length	145
Max. P	0.813041

overview

Window 3

Location	2,129,132 – 2,129,237
Length	105
Sequences	4
Columns	105
Reading direction	reverse
Mean pairwise identity	83.97
Mean single sequence MFE	-24.57
Consensus MFE	-18.73
Energy contribution	-19.60
Covariance contribution	0.87
Combinations/Pair	1.21
Mean z-score	-1.85
Structure conservation index	0.76
SVM decision value	0.65
SVM RNA-class probability	0.813041
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2129132 105 - 22407834
UUUCAUUUUGAUUCGAACACUCGUUGCGGAAUGUCGCUAUACUUUGCGUUUCUCACGACACUGAUAAUCAGCCUUGUGAAUAGUCAAUACUUUAACUACAAUCAG
...(((((((...(((....)))...))))))).(((........)))....((((((..(((.....)))..)))))).((((.((....)).))))....... ( -19.90)
>DroSim_CAF1 128530 105 - 1
UUUCAUUUCGAUUCGAACACUCGUUGCGGAAUGACGCUAUACUUUGCGUUUCUCGCGACGCUGAUAAUCAGCCUUGCGAGUGGUCAAAACUUUAACUACAAUCAG
..((((((((...(((....)))...))))))))(((........)))....((((((.((((.....)))).))))))(((((.((....)).)))))...... ( -32.30)
>DroEre_CAF1 132092 105 - 1
UUUCAUUUCAUUUUGAACACUCGUUGCGAAAUGACGCUAUACCUUGCGUUUCUGGCGACGCUGAUAAUCAGUUUUGCGAAUUGCAAACACAAUAACAAAAAUCAG
.......(((((((((((....))).)))))))).........(((((.(((..((((.((((.....)))).))))))).)))))................... ( -22.50)
>DroYak_CAF1 134578 105 - 1
AUUCAUUUUAUUCGGAACACUCGUUGCGAAAUGACGCUUUACUUUGCGUUUCUCGCGACGCUGAUAAUCAGCUUUGCACUUUGUCAAAACUUAAACAACAAACAG
..............((.((...(((((((...(((((........)))))..)))))))((((.....)))).........)))).................... ( -23.60)
>consensus
UUUCAUUUCAAUUCGAACACUCGUUGCGAAAUGACGCUAUACUUUGCGUUUCUCGCGACGCUGAUAAUCAGCCUUGCGAAUUGUCAAAACUUUAACAACAAUCAG
..((((((((...(((....)))...))))))))(((........)))....((((((.((((.....)))).)))))).......................... (-18.73 = -19.60 +   0.87)

alignment

secondary structure

dotplot

Window 4

Location	2,129,164 – 2,129,277
Length	113
Sequences	4
Columns	113
Reading direction	reverse
Mean pairwise identity	86.73
Mean single sequence MFE	-34.58
Consensus MFE	-26.90
Energy contribution	-27.02
Covariance contribution	0.13
Combinations/Pair	1.28
Mean z-score	-1.49
Structure conservation index	0.78
SVM decision value	0.12
SVM RNA-class probability	0.592483
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2129164 113 - 22407834
GCAGAGUGCUGAGUUCGCAGGGUAAGUUCUAAGUACUCGAUUUCAUUUUGAUUCGAACACUCGUUGCGGAAUGUCGCUAUACUUUGCGUUUCUCACGACACUGAUAAUCAGCC
....(((((((((..(((((((((.......(((..((((..((.....)).))))..)))....((((....))))..)))))))))...)))).).))))........... ( -29.10)
>DroSim_CAF1 128562 113 - 1
GCAGAGCGCUGAGUUCGCCGGGUAAGUUCUAAGCGCUCGAUUUCAUUUCGAUUCGAACACUCGUUGCGGAAUGACGCUAUACUUUGCGUUUCUCGCGACGCUGAUAAUCAGCC
((.(((((((.((..(.........)..)).)))))))....((((((((...(((....)))...)))))))).))......(((((.....))))).((((.....)))). ( -37.60)
>DroEre_CAF1 132124 113 - 1
GCAGAGUGCUGAGUUCGCGGAGUAAAUUCUAGGCGCUUGAUUUCAUUUCAUUUUGAACACUCGUUGCGAAAUGACGCUAUACCUUGCGUUUCUGGCGACGCUGAUAAUCAGUU
...(((((..(((..(((..((......))..))))))...((((........)))))))))(((((.(...(((((........)))))..).)))))((((.....)))). ( -29.50)
>DroYak_CAF1 134610 113 - 1
GCUGAGGGCUGAGUUCGCAGAGUAAAUUCUAAGAGCUCGGAUUCAUUUUAUUCGGAACACUCGUUGCGAAAUGACGCUUUACUUUGCGUUUCUCGCGACGCUGAUAAUCAGCU
((((((((((((((((..((((....))))..)))))))).))).......((((......((((((((...(((((........)))))..))))))))))))...))))). ( -42.10)
>consensus
GCAGAGUGCUGAGUUCGCAGAGUAAAUUCUAAGCGCUCGAUUUCAUUUCAAUUCGAACACUCGUUGCGAAAUGACGCUAUACUUUGCGUUUCUCGCGACGCUGAUAAUCAGCC
...((((((((((((..(...)..)))))..)))))))........................(((((((...(((((........)))))..)))))))((((.....)))). (-26.90 = -27.02 +   0.13)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:32 2006