Locus 9083

Sequence ID	3R_DroMel_CAF1
Location	24,253,544 – 24,253,693
Length	149
Max. P	0.913702

overview

Window 2

Location	24,253,544 – 24,253,656
Length	112
Sequences	6
Columns	115
Reading direction	forward
Mean pairwise identity	89.41
Mean single sequence MFE	-41.83
Consensus MFE	-32.35
Energy contribution	-33.43
Covariance contribution	1.09
Combinations/Pair	1.09
Mean z-score	-2.56
Structure conservation index	0.77
SVM decision value	0.06
SVM RNA-class probability	0.561771
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24253544 112 + 27905053
UGUUGCUGCUGUCGUUUCUAAUGCCCUGAUCUAAGUCCUUUUGGCACCCUCGCACAAACGGAAGCGAUUUGUAGGGGGUGCC--G-GGCAAAGGAAUUUUGUCAUCAGGGUUGAC
..........((((........((((((((.(((.((((((((((((((((..(((((((....)).))))).)))))))))--)-...))))))...)))..)))))))))))) ( -43.40)
>DroSec_CAF1 76508 112 + 1
UGUUGCUGCUGUCGUUUCUAAUGCCCUGGUCUAAGUCCUUUUGGCACCCUCGCACAAACGGAAGCGAUUUGUAGGGGGUGCC--G-GGCAUAGGAAUUUUGUCAUCAGGGUAGAC
.....(((.((.((.((((.((((((.((.......))....(((((((((..(((((((....)).))))).)))))))))--)-))))).))))...)).)).)))....... ( -45.70)
>DroSim_CAF1 81055 112 + 1
UGUUGCUGCUGUCGCUUCUAAUGCCUUGGUCUAAGUCCUUUUGGCACCCUCGCACAAACGGAAGCGAUUUGUAGGGGGUGCC--G-GGCAUAGGAAUUUUGUCAUCAGGGUUGAC
.....(((.((.((.((((.((((((.((.......))....(((((((((..(((((((....)).))))).)))))))))--)-))))).))))...)).)).)))....... ( -41.50)
>DroEre_CAF1 81810 110 + 1
UGUUG---CUGUCGUUUCUAAUGCCCUGGUCUAAGUCCUUUUCGCACCCUCGCACAAACGGAAGCGAUUUGUAGGGGGUGCC--GGGGCAUAGGAAUUUUGUCAUCAGGGUUGAC
.....---..((((........(((((((((((.(((((....((((((((..(((((((....)).))))).)))))))).--))))).)))((......)))))))))))))) ( -40.60)
>DroYak_CAF1 80063 113 + 1
UGUUGCCGCUGUCGAUUCUAAUGCCCUAGUCUAAGUCCUUUUGGCACCCUCGCACAAACGGAAGCGAUUUGUAGGGGGUGCC--GGGGCAUAGGAAUUUUGUCAUCAGGGUUGAC
....(((.(((..((((((.(((((((.....(((....)))(((((((((..(((((((....)).))))).)))))))))--))))))).))).....)))..)))))).... ( -45.20)
>DroAna_CAF1 73773 105 + 1
UGUUGC---------UUCUAAUGCCCUGGCCUAAGUCCUU-UGGCACCCUCGCACAAACGGAAACGAUUUUUGUGGGUUUCAAAAGGGCAUGGGAACUUUGUCAUCAGGGUUAAC
......---------.......(((((((((((.((((((-(((.((((..(((.(((((....)).))).))))))).)).))))))).))))..........))))))).... ( -34.60)
>consensus
UGUUGCUGCUGUCGUUUCUAAUGCCCUGGUCUAAGUCCUUUUGGCACCCUCGCACAAACGGAAGCGAUUUGUAGGGGGUGCC__G_GGCAUAGGAAUUUUGUCAUCAGGGUUGAC
......................(((((((((((.(((.....(((((((((..(((((((....)).))))).)))))))))....))).)))((......)))))))))).... (-32.35 = -33.43 +   1.09)

alignment

secondary structure

dotplot

Window 3

Location	24,253,579 – 24,253,693
Length	114
Sequences	6
Columns	119
Reading direction	forward
Mean pairwise identity	88.84
Mean single sequence MFE	-42.26
Consensus MFE	-33.78
Energy contribution	-35.39
Covariance contribution	1.62
Combinations/Pair	1.12
Mean z-score	-3.14
Structure conservation index	0.80
SVM decision value	1.09
SVM RNA-class probability	0.913702
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24253579 114 + 27905053
UCCUUUUGGCACCCUCGCACAAACGGAAGCGAUUUGUAGGGGGUGCC--G-GGCAAAGGAAUUUUGUCAUCAGGGUUGACCCAAUGGUCUCUGAUUGAUAUAUGCACAGGGGAAAAA--
((((((((((((((((..(((((((....)).))))).)))))))))--)-...))))))....((((((((((...((((....))))))))).))))).................-- ( -43.10)
>DroSec_CAF1 76543 114 + 1
UCCUUUUGGCACCCUCGCACAAACGGAAGCGAUUUGUAGGGGGUGCC--G-GGCAUAGGAAUUUUGUCAUCAGGGUAGACCCAUUGGUCUCUGAUUGAUAUAUGCACAGGGGAAAAA--
((((((((((((((((..(((((((....)).))))).)))))))))--)-.(((((.......(((((((((...(((((....))))))))).))))))))))..))))))....-- ( -46.71)
>DroSim_CAF1 81090 114 + 1
UCCUUUUGGCACCCUCGCACAAACGGAAGCGAUUUGUAGGGGGUGCC--G-GGCAUAGGAAUUUUGUCAUCAGGGUUGACCCAAUGGUCUCUGAUUGAUAUAUGCACAGGGGAAAAA--
((((((((((((((((..(((((((....)).))))).)))))))))--)-.(((((.......((((((((((...((((....))))))))).))))))))))..))))))....-- ( -46.11)
>DroEre_CAF1 81842 117 + 1
UCCUUUUCGCACCCUCGCACAAACGGAAGCGAUUUGUAGGGGGUGCC--GGGGCAUAGGAAUUUUGUCAUCAGGGUUGACCCAAUGGCCUCUGAUUGAUAUAUGCACAAGGGGAAAAAA
(((((((.((((((((..(((((((....)).))))).)))))))).--...(((((.......(((((((((((((........)))).)))).))))))))))..)))))))..... ( -42.91)
>DroYak_CAF1 80098 117 + 1
UCCUUUUGGCACCCUCGCACAAACGGAAGCGAUUUGUAGGGGGUGCC--GGGGCAUAGGAAUUUUGUCAUCAGGGUUGACCCAAUGGUCUCUGAUUGAUAUAUGCACAGGGGGAAAAAC
((((((((((((((((..(((((((....)).))))).)))))))))--...(((((.......((((((((((...((((....))))))))).))))))))))..)))))))..... ( -47.01)
>DroAna_CAF1 73799 116 + 1
UCCUU-UGGCACCCUCGCACAAACGGAAACGAUUUUUGUGGGUUUCAAAAGGGCAUGGGAACUUUGUCAUCAGGGUUAACUCGAAAGU--UUGAUUGAUAAACGCACAUAGAAAAAAAC
.((((-(((.((((..(((.(((((....)).))).))))))).)).)))))((.(((((((((((....)))))))..))))...((--(((.....))))))).............. ( -27.70)
>consensus
UCCUUUUGGCACCCUCGCACAAACGGAAGCGAUUUGUAGGGGGUGCC__G_GGCAUAGGAAUUUUGUCAUCAGGGUUGACCCAAUGGUCUCUGAUUGAUAUAUGCACAGGGGAAAAA__
((((((.(((((((((..(((((((....)).))))).))))))))).....(((((.......(((((((((((...(((....))))))))).))))))))))..))))))...... (-33.78 = -35.39 +   1.62)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:26:16 2006