Locus 4951

Sequence ID	2L_DroMel_CAF1
Location	14,220,379 – 14,220,472
Length	93
Max. P	0.751487

overview

Window 5

Location	14,220,379 – 14,220,472
Length	93
Sequences	6
Columns	97
Reading direction	forward
Mean pairwise identity	83.11
Mean single sequence MFE	-29.60
Consensus MFE	-21.26
Energy contribution	-21.96
Covariance contribution	0.70
Combinations/Pair	1.20
Mean z-score	-1.71
Structure conservation index	0.72
SVM decision value	0.12
SVM RNA-class probability	0.591962
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14220379 93 + 22407834
AUGCCUGGCGAAUGCCAA--ACAGUCGCCUUGGCACUGGAGGUGUUUU--CUUGGCACUUGAUUAAAAUGCAGCGACUGCGUUUCGAUGGCCAUAAG
.((((.(((((.((....--.)).)))))..)))).((((((((((..--...))))))).((..((((((((...))))))))..))..))).... ( -32.10)
>DroGri_CAF1 42740 90 + 1
AUACCAAGCCAGCGCCAAGUGCAAGUGCUUUUC------AAUUGUUGUUGCUUGGCAUGUGCUUAAAAUGCUAAGUAUGUUUUG-UAUUUUUAUUGU
((((.((((....(((((((((((.((.....)------).))))....)))))))..(((((((......))))))))))).)-)))......... ( -20.50)
>DroSec_CAF1 53234 93 + 1
AUGCCUGGCGAAUGCCAA--ACAGUCGCCUUGGCACUGGAGGUGUUUU--CUUGGCACUUGAUUAAAAUGCAGCGACUGCGUUUCGAUGGCCAUAAG
.((((.(((((.((....--.)).)))))..)))).((((((((((..--...))))))).((..((((((((...))))))))..))..))).... ( -32.10)
>DroSim_CAF1 45446 93 + 1
AUGCCUGGCGAAUGCCAA--ACAGUCUCCUUGGCACUGGAGGUGUUUU--CUUGGCACUUGAUUAAAAUGCAGCGACUGCGUUUCGAUGGCCAUAAG
..(((...(((.((((((--(((.(((((........))))))))...--.)))))).)))((..((((((((...))))))))..)))))...... ( -29.90)
>DroEre_CAF1 54310 93 + 1
AUGCCUGGCGAAUGCCAA--ACAGUCGCCUUGGCUCUGGAGGUGUUUU--CUUGGCACUUGAUUAAAAUGCAGCGACUGCGUUUCGAUGGCCAUAAG
..(((.(((((.((....--.)).)))))..)))..((((((((((..--...))))))).((..((((((((...))))))))..))..))).... ( -30.90)
>DroYak_CAF1 42490 93 + 1
AUGCCUGGCGAAUGCCAA--ACAGUCGCCUUGGCACUGGAGGUGUUUU--CUUGGCACUUGAUUAAAAUGCAGCGACUGCGUUUCGAUGGCCAUAAG
.((((.(((((.((....--.)).)))))..)))).((((((((((..--...))))))).((..((((((((...))))))))..))..))).... ( -32.10)
>consensus
AUGCCUGGCGAAUGCCAA__ACAGUCGCCUUGGCACUGGAGGUGUUUU__CUUGGCACUUGAUUAAAAUGCAGCGACUGCGUUUCGAUGGCCAUAAG
.....((((....(((((.......((((((.......)))))).......))))).....((..((((((((...))))))))..)).)))).... (-21.26 = -21.96 +   0.70)

alignment

secondary structure

dotplot

Window 6

Location	14,220,379 – 14,220,472
Length	93
Sequences	6
Columns	97
Reading direction	reverse
Mean pairwise identity	83.11
Mean single sequence MFE	-26.88
Consensus MFE	-19.74
Energy contribution	-21.55
Covariance contribution	1.81
Combinations/Pair	1.16
Mean z-score	-2.16
Structure conservation index	0.73
SVM decision value	0.48
SVM RNA-class probability	0.751487
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14220379 93 - 22407834
CUUAUGGCCAUCGAAACGCAGUCGCUGCAUUUUAAUCAAGUGCCAAG--AAAACACCUCCAGUGCCAAGGCGACUGU--UUGGCAUUCGCCAGGCAU
......(((........(((((((((((((((.....))))))....--....(((.....)))....)))))))))--.((((....))))))).. ( -30.20)
>DroGri_CAF1 42740 90 - 1
ACAAUAAAAAUA-CAAAACAUACUUAGCAUUUUAAGCACAUGCCAAGCAACAACAAUU------GAAAAGCACUUGCACUUGGCGCUGGCUUGGUAU
............-......(((((.(((......(((....(((((((((......))------)....((....)).))))))))).))).))))) ( -17.60)
>DroSec_CAF1 53234 93 - 1
CUUAUGGCCAUCGAAACGCAGUCGCUGCAUUUUAAUCAAGUGCCAAG--AAAACACCUCCAGUGCCAAGGCGACUGU--UUGGCAUUCGCCAGGCAU
......(((........(((((((((((((((.....))))))....--....(((.....)))....)))))))))--.((((....))))))).. ( -30.20)
>DroSim_CAF1 45446 93 - 1
CUUAUGGCCAUCGAAACGCAGUCGCUGCAUUUUAAUCAAGUGCCAAG--AAAACACCUCCAGUGCCAAGGAGACUGU--UUGGCAUUCGCCAGGCAU
......(((........((((((...((((((.....))))))....--........(((........)))))))))--.((((....))))))).. ( -25.10)
>DroEre_CAF1 54310 93 - 1
CUUAUGGCCAUCGAAACGCAGUCGCUGCAUUUUAAUCAAGUGCCAAG--AAAACACCUCCAGAGCCAAGGCGACUGU--UUGGCAUUCGCCAGGCAU
......(((........(((((((((((((((.....))))))....--.......((....))....)))))))))--.((((....))))))).. ( -28.00)
>DroYak_CAF1 42490 93 - 1
CUUAUGGCCAUCGAAACGCAGUCGCUGCAUUUUAAUCAAGUGCCAAG--AAAACACCUCCAGUGCCAAGGCGACUGU--UUGGCAUUCGCCAGGCAU
......(((........(((((((((((((((.....))))))....--....(((.....)))....)))))))))--.((((....))))))).. ( -30.20)
>consensus
CUUAUGGCCAUCGAAACGCAGUCGCUGCAUUUUAAUCAAGUGCCAAG__AAAACACCUCCAGUGCCAAGGCGACUGU__UUGGCAUUCGCCAGGCAU
......(((........(((((((((((((((.....))))))..........(((.....)))....)))))))))...((((....))))))).. (-19.74 = -21.55 +   1.81)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:50 2006