Locus 9833

Sequence ID	3R_DroMel_CAF1
Location	26,155,846 – 26,155,957
Length	111
Max. P	0.704597

overview

Window 3

Location	26,155,846 – 26,155,957
Length	111
Sequences	6
Columns	119
Reading direction	forward
Mean pairwise identity	79.44
Mean single sequence MFE	-26.28
Consensus MFE	-11.68
Energy contribution	-12.57
Covariance contribution	0.89
Combinations/Pair	1.08
Mean z-score	-2.42
Structure conservation index	0.44
SVM decision value	0.24
SVM RNA-class probability	0.649051
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26155846 111 + 27905053
UUCGCUGAAUGGUGUUCACAUGUCUAUAGCUAUUUUUAUGGCAAACUU-UUUAUUUGCACCUCAUAAAAUGCGGUAAAUGCGCCGUGCUGUAUGCA-------ACACAAUGCCAAAUAA
.........(((((((....(((.((((((...((((((((((((...-....)))))....))))))).(((((......))))))))))).)))-------....)))))))..... ( -26.90)
>DroVir_CAF1 196444 104 + 1
-----------UUCUACACAUGUCUAUGGC-AUUUUUAUGGCAAACUU-UUUAUUUGCACCUCAUAAAAUGC--CAAAUGCGCCGCGUUGUAUGCAGCACUAAACACAAUGCGGCAGAC
-----------..........((((.((((-(((((.((((((((...-....)))))....))))))))))--)).....((((((((((..............)))))))))))))) ( -32.44)
>DroPse_CAF1 148710 100 + 1
----------UGUGC-CCCAUGUCUAUGGCAAUUUUUAUGGCAAACUU-UUUAUUUGCACCUCAUAAAAUGCGGCAAAUGCGCCAUGUUCCAUGCA-------ACACAAUGCGAAAGAA
----------((((.-..((((..((((((...((((((((((((...-....)))))....))))))).(((.....)))))))))...))))..-------.))))...(....).. ( -23.40)
>DroGri_CAF1 182243 104 + 1
-----------UUCUACACAUGUCUAUGGC-AUUUUUAUGGCAAACUU-UUUAUUUGCACCUCAUAAAAUGC--CAAAUGCCCCGCGUUGUAUGCAGCACUAAACACAAUGCAGCAGAC
-----------..........((((.((((-(((((.((((((((...-....)))))....))))))))))--))...((...(((((((..............))))))).)))))) ( -23.74)
>DroAna_CAF1 150010 112 + 1
UCCUCUGAGUUGUGCUCACAUGUCUAUGGCAAUUUUUAUGGGAAACUUUUUUAUUUGCACCUCAUAAAAAGCGGCAAAUGCGCCGUUCACUAUGCA-------ACACAAUGCCAAAGAA
.....((((.....))))....(((.(((((.((((((((((..................))))))))))(((((......)))))..........-------......))))).))). ( -27.77)
>DroPer_CAF1 151069 100 + 1
----------UGUGC-CCCAUGUCUAUGGCAAUUUUUAUGGCAAACUU-UUUAUUUGCACCUCAUAAAAUGCGGCAAAUGCGCCAUGUUCCAUGCA-------ACACAAUGCGAAAGAA
----------((((.-..((((..((((((...((((((((((((...-....)))))....))))))).(((.....)))))))))...))))..-------.))))...(....).. ( -23.40)
>consensus
__________UGUGC_CACAUGUCUAUGGCAAUUUUUAUGGCAAACUU_UUUAUUUGCACCUCAUAAAAUGCGGCAAAUGCGCCGUGUUCUAUGCA_______ACACAAUGCGAAAGAA
..................((((..((((((...((((((((((((........)))))....))))))).(((.....)))))))))...))))......................... (-11.68 = -12.57 +   0.89)

alignment

secondary structure

dotplot

Window 4

Location	26,155,846 – 26,155,957
Length	111
Sequences	6
Columns	119
Reading direction	reverse
Mean pairwise identity	79.44
Mean single sequence MFE	-30.40
Consensus MFE	-13.71
Energy contribution	-14.02
Covariance contribution	0.31
Combinations/Pair	1.07
Mean z-score	-2.46
Structure conservation index	0.45
SVM decision value	0.36
SVM RNA-class probability	0.704597
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26155846 111 - 27905053
UUAUUUGGCAUUGUGU-------UGCAUACAGCACGGCGCAUUUACCGCAUUUUAUGAGGUGCAAAUAAA-AAGUUUGCCAUAAAAAUAGCUAUAGACAUGUGAACACCAUUCAGCGAA
.......((.((((((-------((....)))))))).))......(((.(((((((....((((((...-..)))))))))))))...............((((.....))))))).. ( -23.60)
>DroVir_CAF1 196444 104 - 1
GUCUGCCGCAUUGUGUUUAGUGCUGCAUACAACGCGGCGCAUUUG--GCAUUUUAUGAGGUGCAAAUAAA-AAGUUUGCCAUAAAAAU-GCCAUAGACAUGUGUAGAA-----------
.(((((.(((...(((((((((((((.......)))))))...((--((((((((((....((((((...-..))))))))).)))))-)))))))))))))))))).----------- ( -37.40)
>DroPse_CAF1 148710 100 - 1
UUCUUUCGCAUUGUGU-------UGCAUGGAACAUGGCGCAUUUGCCGCAUUUUAUGAGGUGCAAAUAAA-AAGUUUGCCAUAAAAAUUGCCAUAGACAUGGG-GCACA----------
...........(((((-------(.((((....(((((((.......)).(((((((....((((((...-..)))))))))))))...)))))...)))).)-)))))---------- ( -28.90)
>DroGri_CAF1 182243 104 - 1
GUCUGCUGCAUUGUGUUUAGUGCUGCAUACAACGCGGGGCAUUUG--GCAUUUUAUGAGGUGCAAAUAAA-AAGUUUGCCAUAAAAAU-GCCAUAGACAUGUGUAGAA-----------
.....((((((.(((((((((.((((.......)))).))...((--((((((((((....((((((...-..))))))))).)))))-)))))))))))))))))..----------- ( -34.80)
>DroAna_CAF1 150010 112 - 1
UUCUUUGGCAUUGUGU-------UGCAUAGUGAACGGCGCAUUUGCCGCUUUUUAUGAGGUGCAAAUAAAAAAGUUUCCCAUAAAAAUUGCCAUAGACAUGUGAGCACAACUCAGAGGA
((((((((..((((((-------(.((((((...(((((....))))).((((((((.((.((..........))..)))))))))).........)).))))))))))).)))))))) ( -28.80)
>DroPer_CAF1 151069 100 - 1
UUCUUUCGCAUUGUGU-------UGCAUGGAACAUGGCGCAUUUGCCGCAUUUUAUGAGGUGCAAAUAAA-AAGUUUGCCAUAAAAAUUGCCAUAGACAUGGG-GCACA----------
...........(((((-------(.((((....(((((((.......)).(((((((....((((((...-..)))))))))))))...)))))...)))).)-)))))---------- ( -28.90)
>consensus
UUCUUUCGCAUUGUGU_______UGCAUACAACACGGCGCAUUUGCCGCAUUUUAUGAGGUGCAAAUAAA_AAGUUUGCCAUAAAAAUUGCCAUAGACAUGUG_ACACA__________
.......(((((((((........)))))......(((((.......)).(((((((....((((((......)))))))))))))...)))......))))................. (-13.71 = -14.02 +   0.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:43:13 2006