Locus 5073

Sequence ID	2L_DroMel_CAF1
Location	14,505,310 – 14,505,417
Length	107
Max. P	0.991946

overview

Window 4

Location	14,505,310 – 14,505,417
Length	107
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	91.53
Mean single sequence MFE	-28.66
Consensus MFE	-22.08
Energy contribution	-22.52
Covariance contribution	0.44
Combinations/Pair	1.03
Mean z-score	-2.55
Structure conservation index	0.77
SVM decision value	1.58
SVM RNA-class probability	0.965359
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14505310 107 + 22407834
UUGACAUACAAUAACUGAAAGAGAUUUACAGCCGUUGGGCCUUGCUCUAUCUCGGCGUGUACCCGUAAUUUCCAGUUACCAGAUUUCACUUUUUU-----------AUU--UGUGUGUUU
..(((((((((....((((((((...((((((((..((((...)))).....)))).))))...(((((.....))))).........)))))))-----------).)--)))))))). ( -28.20)
>DroSec_CAF1 36984 107 + 1
UUGACAUACAAUAACUGAAAGAGAUUUACAGCCGUUGGGCCUCGCUCUAUCUCGGCGUGUACCCGUAAUUUCCAGUUACCAGAUUUCACUUUUUU-----------AUU--UGUGUGUUU
..(((((((((....((((((((...((((((((..((((...)))).....)))).))))...(((((.....))))).........)))))))-----------).)--)))))))). ( -28.20)
>DroSim_CAF1 21690 107 + 1
UUGACAUACAAUAACUGAAAGAGAUUUACAGCCGUUGGGCCUCGCUCUAUCUCGGCGUGUACCCGUAAUUUCCAGUUACCAGAUUUCACUUUUUU-----------AUU--UGUGUGUUU
..(((((((((....((((((((...((((((((..((((...)))).....)))).))))...(((((.....))))).........)))))))-----------).)--)))))))). ( -28.20)
>DroEre_CAF1 30561 119 + 1
UUGACACACAAUAACUGAAAGAGAUUUACAGCCAG-GGGCCUUGCUCUAUCUCGGCGUGUAGCCGUAAUUUCCAGUUACCAGAUUUCACCUUUUUUUCUGGUUUUUAUUUCUGUGUGUUU
..((((((((.((((((...(((((....(((.((-....)).)))..)))))(((.....)))........))))))(((((.............)))))..........)))))))). ( -36.12)
>DroYak_CAF1 26237 106 + 1
UUGACAUACAAUAACUGAAAGAGAUUUACAGCCCGUGGGCCUUGCUCUAUCUCGUCGUGUACCCGUAAUUUCCAGUUACCAGAUUUCACUUUUU------------AUU--UGUGUGUUU
..(((((((((....((((((((((...(((((....)))..))....)))))...(((.....(((((.....))))).......))).))))------------).)--)))))))). ( -22.60)
>consensus
UUGACAUACAAUAACUGAAAGAGAUUUACAGCCGUUGGGCCUUGCUCUAUCUCGGCGUGUACCCGUAAUUUCCAGUUACCAGAUUUCACUUUUUU___________AUU__UGUGUGUUU
..((((((((.((((((...((((((((((((((..((((...)))).....)))).)))).....))))))))))))...(....)........................)))))))). (-22.08 = -22.52 +   0.44)

alignment

secondary structure

dotplot

Window 5

Location	14,505,310 – 14,505,417
Length	107
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	91.53
Mean single sequence MFE	-26.74
Consensus MFE	-22.74
Energy contribution	-22.58
Covariance contribution	-0.16
Combinations/Pair	1.04
Mean z-score	-2.15
Structure conservation index	0.85
SVM decision value	2.30
SVM RNA-class probability	0.991946
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14505310 107 - 22407834
AAACACACA--AAU-----------AAAAAAGUGAAAUCUGGUAACUGGAAAUUACGGGUACACGCCGAGAUAGAGCAAGGCCCAACGGCUGUAAAUCUCUUUCAGUUAUUGUAUGUCAA
.........--...-----------.......(((.((..(((((((((((......(((....)))(((((.......((((....))))....))))))))))))))))..)).))). ( -23.90)
>DroSec_CAF1 36984 107 - 1
AAACACACA--AAU-----------AAAAAAGUGAAAUCUGGUAACUGGAAAUUACGGGUACACGCCGAGAUAGAGCGAGGCCCAACGGCUGUAAAUCUCUUUCAGUUAUUGUAUGUCAA
.........--...-----------.......(((.((..(((((((((((......(((....)))(((((.......((((....))))....))))))))))))))))..)).))). ( -23.90)
>DroSim_CAF1 21690 107 - 1
AAACACACA--AAU-----------AAAAAAGUGAAAUCUGGUAACUGGAAAUUACGGGUACACGCCGAGAUAGAGCGAGGCCCAACGGCUGUAAAUCUCUUUCAGUUAUUGUAUGUCAA
.........--...-----------.......(((.((..(((((((((((......(((....)))(((((.......((((....))))....))))))))))))))))..)).))). ( -23.90)
>DroEre_CAF1 30561 119 - 1
AAACACACAGAAAUAAAAACCAGAAAAAAAGGUGAAAUCUGGUAACUGGAAAUUACGGCUACACGCCGAGAUAGAGCAAGGCCC-CUGGCUGUAAAUCUCUUUCAGUUAUUGUGUGUCAA
..((((((((........((((((.............))))))((((((((.....(((.....)))((((((.(((.((....-)).))).))..)))))))))))).))))))))... ( -37.32)
>DroYak_CAF1 26237 106 - 1
AAACACACA--AAU------------AAAAAGUGAAAUCUGGUAACUGGAAAUUACGGGUACACGACGAGAUAGAGCAAGGCCCACGGGCUGUAAAUCUCUUUCAGUUAUUGUAUGUCAA
.........--...------------......(((.((..(((((((((((....((......))..(((((.......((((....))))....))))))))))))))))..)).))). ( -24.70)
>consensus
AAACACACA__AAU___________AAAAAAGUGAAAUCUGGUAACUGGAAAUUACGGGUACACGCCGAGAUAGAGCAAGGCCCAACGGCUGUAAAUCUCUUUCAGUUAUUGUAUGUCAA
................................(((.((..(((((((((((....((......))..(((((.......((((....))))....))))))))))))))))..)).))). (-22.74 = -22.58 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:17 2006