Locus 3496

Sequence ID	2L_DroMel_CAF1
Location	10,206,664 – 10,206,769
Length	105
Max. P	0.788894

overview

Window 0

Location	10,206,664 – 10,206,769
Length	105
Sequences	6
Columns	105
Reading direction	forward
Mean pairwise identity	79.56
Mean single sequence MFE	-42.84
Consensus MFE	-24.07
Energy contribution	-22.77
Covariance contribution	-1.30
Combinations/Pair	1.44
Mean z-score	-1.97
Structure conservation index	0.56
SVM decision value	0.38
SVM RNA-class probability	0.712924
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10206664 105 + 22407834
CGGCAGGGGGACGCCCACACAGUGCCUGCGCAGCUGGUCGUUCAGCGAGUGCAGCUGUUUGUAGCGCAGGACGCAGUGGUGGAUGCCGUUGAUGUGUAUGUUGUA
(((((.(....)..((((((.((((((((((.(((((....)))))...(((((....)))))))))))).))).)).)))).)))))................. ( -43.00)
>DroVir_CAF1 221780 105 + 1
UGGCAGGGCGGCGUCUGUGCAACGCCUACGCAGCUGUUCGUGCAGUGCGUGCAGCUGCUUGUAGCGCAGGCAGCAGUGAUAGUUGCCAUUGAUAUAGAUGUUGUA
.......(((((((((((((((.((((((((((((((.(((.....))).))))))))..)))).)).((((((.......)))))).))).)))))))))))). ( -49.30)
>DroGri_CAF1 197240 105 + 1
GGGCAGGGCGGCGUCUGUGCAACGGCUGCGCAGCUGUUCGUGCAACGCGUGCAGCUGCUUGUACCGCAGGCAGCAAUGAUAGUUGCCAUUUAUAUAAAUGUUGUA
.(((((.(((((((.((..((((((((....))))))).)..)))))).))).((((((((.....))))))))........))))).................. ( -44.20)
>DroYak_CAF1 122898 105 + 1
CGGCAGGGGGACACCCACACAGUGCCUGCGCAGCUGCUCGUUCAGCGAGUGCAGCUGUUUGUAGCGCAGGACGCAGUGGUGGAUGCCGUUGAUGUGUAUGUUGUA
((((((((.....))).(((.(((((((((((((((((((.....)))..)))))).......))))))).))).))).....)))))................. ( -44.41)
>DroMoj_CAF1 277126 105 + 1
CGGCAAGGCGGCGUCCGCGCAACGCCUACGCAGCUGUUCGUGCAACGCGUGCAGCUGCUUGUAGCGCAAGCAGCAAUGAUAGUUACCAUUAAUGUAGAUAUUGUA
.....((((((((....)))..)))))..((((((((.((((...)))).)))))))).(((.((....)).)))(..(((.((((.......)))).)))..). ( -39.70)
>DroAna_CAF1 133584 105 + 1
GGGAAGGCUCACGCCCACGCAGUGCCUGCGCAACUGCUCGUUCAGGGAGUGUAACUGUUUGUAGCGCAGGCAGCAGUGGUAGGCGCCGUUGAUGUGUAUGUUGUA
.....(((.(.(..((((((..(((((((((.(((.(((.....))))))...((.....)).))))))))))).))))..)).))).................. ( -36.40)
>consensus
CGGCAGGGCGACGCCCACGCAACGCCUGCGCAGCUGUUCGUGCAGCGAGUGCAGCUGCUUGUAGCGCAGGCAGCAGUGAUAGUUGCCAUUGAUGUAUAUGUUGUA
.......((((((..((((....((((((((((((((...(((...))).))))))))..)))).))......(((((........))))).))))..)))))). (-24.07 = -22.77 +  -1.30)

alignment

secondary structure

dotplot

Window 1

Location	10,206,664 – 10,206,769
Length	105
Sequences	6
Columns	105
Reading direction	reverse
Mean pairwise identity	79.56
Mean single sequence MFE	-34.79
Consensus MFE	-20.00
Energy contribution	-19.25
Covariance contribution	-0.74
Combinations/Pair	1.43
Mean z-score	-2.05
Structure conservation index	0.57
SVM decision value	0.58
SVM RNA-class probability	0.788894
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10206664 105 - 22407834
UACAACAUACACAUCAACGGCAUCCACCACUGCGUCCUGCGCUACAAACAGCUGCACUCGCUGAACGACCAGCUGCGCAGGCACUGUGUGGGCGUCCCCCUGCCG
.................((((((((((.((.(.(.(((((((.......(((((...(((.....))).))))))))))))).).)))))))........))))) ( -33.41)
>DroVir_CAF1 221780 105 - 1
UACAACAUCUAUAUCAAUGGCAACUAUCACUGCUGCCUGCGCUACAAGCAGCUGCACGCACUGCACGAACAGCUGCGUAGGCGUUGCACAGACGCCGCCCUGCCA
.................(((((.........(((((.((.....)).))))).((((((((((......))).))))).((((((.....))))))))..))))) ( -35.40)
>DroGri_CAF1 197240 105 - 1
UACAACAUUUAUAUAAAUGGCAACUAUCAUUGCUGCCUGCGGUACAAGCAGCUGCACGCGUUGCACGAACAGCUGCGCAGCCGUUGCACAGACGCCGCCCUGCCC
.....(((((....)))))((((......)))).((..(((((....(((((((....((.....))..)))))))((((...))))......)))))...)).. ( -29.20)
>DroYak_CAF1 122898 105 - 1
UACAACAUACACAUCAACGGCAUCCACCACUGCGUCCUGCGCUACAAACAGCUGCACUCGCUGAACGAGCAGCUGCGCAGGCACUGUGUGGGUGUCCCCCUGCCG
..................(((((((((.((.(.(.(((((((.......((((((..(((.....))))))))))))))))).).)))))))))))......... ( -39.51)
>DroMoj_CAF1 277126 105 - 1
UACAAUAUCUACAUUAAUGGUAACUAUCAUUGCUGCUUGCGCUACAAGCAGCUGCACGCGUUGCACGAACAGCUGCGUAGGCGUUGCGCGGACGCCGCCUUGCCG
..................(((((........((((((((.....)))))))).((((((((((......)))).)))).((((((.....)))))))).))))). ( -36.50)
>DroAna_CAF1 133584 105 - 1
UACAACAUACACAUCAACGGCGCCUACCACUGCUGCCUGCGCUACAAACAGUUACACUCCCUGAACGAGCAGUUGCGCAGGCACUGCGUGGGCGUGAGCCUUCCC
...................((((((((((....(((((((((.((.....(((.((.....))))).....)).))))))))).)).)))))))).......... ( -34.70)
>consensus
UACAACAUACACAUCAACGGCAACUACCACUGCUGCCUGCGCUACAAACAGCUGCACGCGCUGAACGAACAGCUGCGCAGGCACUGCGCGGACGCCGCCCUGCCG
..................((((....((..(((((((((((.......((((((...............))))))))))))))..)))..))........)))). (-20.00 = -19.25 +  -0.74)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:50 2006