Locus 7307

Sequence ID	3R_DroMel_CAF1
Location	19,287,753 – 19,287,861
Length	108
Max. P	0.944410

overview

Window 7

Location	19,287,753 – 19,287,861
Length	108
Sequences	6
Columns	109
Reading direction	forward
Mean pairwise identity	92.86
Mean single sequence MFE	-28.03
Consensus MFE	-24.56
Energy contribution	-25.78
Covariance contribution	1.22
Combinations/Pair	1.04
Mean z-score	-1.98
Structure conservation index	0.88
SVM decision value	1.34
SVM RNA-class probability	0.944410
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19287753 108 + 27905053
UUUAAAACUUUAAUGAGCCGCAAAAUAAUUGUAAAUGCGACUCAUGUCGCCCAAACAAACGUAUUGCGGUGAGAAAAUACAGAUCCAGC-AGGGGUCUGCUGGCAAAGA
.......((((.....(((((((.((..((((....(((((....)))))....))))..)).)))))))..............(((((-((....))))))).)))). ( -33.60)
>DroSec_CAF1 83589 108 + 1
UUUAAAACUUUAAUGAGCCUCAAAAUAAUUGCAAAUGCGACUCAUGUCGCCCAAACAAACGUAUUGCGGUGAGAAAAUACAGAUCCAGC-AGGGGUCUGCUGGCAAAGA
................(((........(((((((..(((((....)))))....((....)).))))))).........(((((((...-..)))))))..)))..... ( -27.10)
>DroSim_CAF1 85511 108 + 1
UUUAAAACUUUAAUGAGCCGCAAAAUAAUUGCAAAUGCGACUCAUGUCGCCCAAACAAACGUAUUGCGGUGAGAAAAUACAGAUCCAGC-AGGGGUCUGCUGGCAAAGA
.......((((.....(((((((.((..(((.....(((((....))))).....)))..)).)))))))..............(((((-((....))))))).)))). ( -31.90)
>DroEre_CAF1 84878 108 + 1
UUUAAAACUUUAAUGAGCCGCAAAAUAAUUGCAAAUGCUACUCAUGUCGCCCAAACAAACGUAUUGCGGUGAGAAAAUACAGAUCCAGC-GGGGGUCUGCUGGCGAAGA
.......((((........((((.....))))....((((....(.((((((((((....)).))).))))).).....(((((((...-..))))))).)))))))). ( -26.40)
>DroYak_CAF1 88454 108 + 1
UUUAAAACUUUAAUGAGCCGCAAAAUAAUUGCAAAUGCGACUCAUGUCGCCCAAACAAACGUAUUGCGGUGAGAAAAUACAGAUCCAGC-GGGGGUCCGCUGCCCAAGA
................(((((((.((..(((.....(((((....))))).....)))..)).)))))))...............((((-((....))))))....... ( -28.90)
>DroAna_CAF1 85216 103 + 1
UUUAAAACUUUAAUGAGCCGCAAAAUAAUUGCAAAUGCGACUCGUGUCGCCCAAACA----UAUCGCGGUGAGAAAAGCCACAUCCAGCCAGGGGUCUGCCA--AAAGU
......(((((.....(((((((.....))))....(((((....))))).......----......))).......(.((.((((......)))).)).).--))))) ( -20.30)
>consensus
UUUAAAACUUUAAUGAGCCGCAAAAUAAUUGCAAAUGCGACUCAUGUCGCCCAAACAAACGUAUUGCGGUGAGAAAAUACAGAUCCAGC_AGGGGUCUGCUGGCAAAGA
.......((((.....(((((((.((..(((.....(((((....))))).....)))..)).))))))).........(((((((......))))))).....)))). (-24.56 = -25.78 +   1.22)

alignment

secondary structure

dotplot

Window 8

Location	19,287,753 – 19,287,861
Length	108
Sequences	6
Columns	109
Reading direction	reverse
Mean pairwise identity	92.86
Mean single sequence MFE	-30.64
Consensus MFE	-24.66
Energy contribution	-24.88
Covariance contribution	0.23
Combinations/Pair	1.23
Mean z-score	-2.22
Structure conservation index	0.80
SVM decision value	0.12
SVM RNA-class probability	0.592400
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19287753 108 - 27905053
UCUUUGCCAGCAGACCCCU-GCUGGAUCUGUAUUUUCUCACCGCAAUACGUUUGUUUGGGCGACAUGAGUCGCAUUUACAAUUAUUUUGCGGCUCAUUAAAGUUUUAAA
.((((((((((((....))-)))))...............((((((.....((((....(((((....)))))....)))).....)))))).....)))))....... ( -34.30)
>DroSec_CAF1 83589 108 - 1
UCUUUGCCAGCAGACCCCU-GCUGGAUCUGUAUUUUCUCACCGCAAUACGUUUGUUUGGGCGACAUGAGUCGCAUUUGCAAUUAUUUUGAGGCUCAUUAAAGUUUUAAA
......(((((((....))-)))))...((((........((((((.....))))..))(((((....)))))...)))).....(((((((((......))))))))) ( -29.10)
>DroSim_CAF1 85511 108 - 1
UCUUUGCCAGCAGACCCCU-GCUGGAUCUGUAUUUUCUCACCGCAAUACGUUUGUUUGGGCGACAUGAGUCGCAUUUGCAAUUAUUUUGCGGCUCAUUAAAGUUUUAAA
.((((((((((((....))-)))))...............((((((.....((((....(((((....)))))....)))).....)))))).....)))))....... ( -34.60)
>DroEre_CAF1 84878 108 - 1
UCUUCGCCAGCAGACCCCC-GCUGGAUCUGUAUUUUCUCACCGCAAUACGUUUGUUUGGGCGACAUGAGUAGCAUUUGCAAUUAUUUUGCGGCUCAUUAAAGUUUUAAA
...(((((.(((((.((..-...)).)))))...........((((.....))))...))))).((((((.(((.............))).))))))............ ( -25.52)
>DroYak_CAF1 88454 108 - 1
UCUUGGGCAGCGGACCCCC-GCUGGAUCUGUAUUUUCUCACCGCAAUACGUUUGUUUGGGCGACAUGAGUCGCAUUUGCAAUUAUUUUGCGGCUCAUUAAAGUUUUAAA
...((((((((((....))-))))................((((((.....((((....(((((....)))))....)))).....))))))))))............. ( -33.80)
>DroAna_CAF1 85216 103 - 1
ACUUU--UGGCAGACCCCUGGCUGGAUGUGGCUUUUCUCACCGCGAUA----UGUUUGGGCGACACGAGUCGCAUUUGCAAUUAUUUUGCGGCUCAUUAAAGUUUUAAA
((.((--..((((....)).))..)).))((((((.....((((((.(----((.(((.(((((....))))).....))).))).))))))......))))))..... ( -26.50)
>consensus
UCUUUGCCAGCAGACCCCU_GCUGGAUCUGUAUUUUCUCACCGCAAUACGUUUGUUUGGGCGACAUGAGUCGCAUUUGCAAUUAUUUUGCGGCUCAUUAAAGUUUUAAA
......(((((((....)).)))))...............((((((.....((((....(((((....)))))....)))).....))))))................. (-24.66 = -24.88 +   0.23)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:42:39 2006