Locus 6185

Sequence ID	X_DroMel_CAF1
Location	15,775,331 – 15,775,530
Length	199
Max. P	0.973373

overview

Window 9

Location	15,775,331 – 15,775,451
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	94.33
Mean single sequence MFE	-28.45
Consensus MFE	-25.48
Energy contribution	-25.96
Covariance contribution	0.48
Combinations/Pair	1.06
Mean z-score	-1.66
Structure conservation index	0.90
SVM decision value	1.71
SVM RNA-class probability	0.973373
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15775331 120 - 22224390
GGACUGUAUGUCCUGUGCGCGUGAGCUAUGUAUGAAUGUAUCAGCGCCGGAGUCUUGUUUAAAAAUACACACUAUUCUUGCAUCAAAUCGUGCACAACACAAAAAAAUAUGUACAUUUCA
((((.....))))((((((((((((((..((((....)))).)))((.(((((..(((.((....)).)))..))))).)).)))...))))))))........................ ( -28.90)
>DroSec_CAF1 5890 120 - 1
GGACUGUAUGUCCUGUGCGCGUGAGCUAUGUACGAAUGUAUCAGCGCCAGAGUCUUGUUUAAAAAUACACACUAUUCUUGCAUUAAAUCGUGCACAACACAAAAAAAAAUGUACAAUUCA
((((.....))))(((((((....))..(((((((..((....))((.(((((..(((.((....)).)))..))))).))......)))))))................)))))..... ( -30.50)
>DroSim_CAF1 4324 120 - 1
GGACUGUAUGUCCUGUGCGCGUGAGCUAUGUAUGAAUGUAUCAGCGCCAGAGUCUUGUUUAAAAAUACACACUAUUCUUGCAUUAAAUCGUGCACAACACAAAAAAAUAUGUACAAUUCA
((((.....))))(((((((....))..(((((((..((....))((.(((((..(((.((....)).)))..))))).))......)))))))................)))))..... ( -28.70)
>DroEre_CAF1 5979 120 - 1
GGACUGUAUGUCCUGUGCGCGUGAGCUAUGUAUCAAUGUAUCAGCGCCAGAGUCUUCUUUAAAAAUACACACUAUUCUUGCAUCAAAUCGUUCACAGCACACACGAAUAUGUACAAUUCG
((((.....))))(((((..((((((...........((....))((.(((((....................))))).))........)))))).)))))..(((((.......))))) ( -26.05)
>DroYak_CAF1 5589 120 - 1
GGACUGUAUGUCCUGUGCGCGUGAGCUAUGUAUGAAUGUAUCAGCGCCAGAGUCUUGUUUAAAAAUACACACUAUUCUUGCACCAAAUCGUUCACAACACACACAAAUAUGUACAUUUCG
((((.....))))(((((((....))..(((.((((((.....(.((.(((((..(((.((....)).)))..))))).)).).....))))))..)))...........)))))..... ( -28.10)
>consensus
GGACUGUAUGUCCUGUGCGCGUGAGCUAUGUAUGAAUGUAUCAGCGCCAGAGUCUUGUUUAAAAAUACACACUAUUCUUGCAUCAAAUCGUGCACAACACAAAAAAAUAUGUACAAUUCA
((((.....))))(((((((....))..(((((((..((....))((.(((((..(((.((....)).)))..))))).))......)))))))................)))))..... (-25.48 = -25.96 +   0.48)

alignment

secondary structure

dotplot

Window 0

Location	15,775,411 – 15,775,530
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	96.82
Mean single sequence MFE	-25.82
Consensus MFE	-22.78
Energy contribution	-23.14
Covariance contribution	0.36
Combinations/Pair	1.04
Mean z-score	-1.62
Structure conservation index	0.88
SVM decision value	1.08
SVM RNA-class probability	0.912490
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15775411 119 + 22224390
UACAUUCAUACAUAGCUCACGCGCACAGGACAUACAGUCCUAACAUAA-AAUUCUCGUUCGUUUUCACGCCAUCGCAUCUAUUGUGUUACAUAGCGCCCAAAAAACGAGAAGUAAAGAAC
........(((...((......))..(((((.....))))).......-..((((((((..((....(((...((((.....)))).......)))...))..)))))))))))...... ( -22.50)
>DroSec_CAF1 5970 119 + 1
UACAUUCGUACAUAGCUCACGCGCACAGGACAUACAGUCCUAACAUAA-AAUUCUCGUUCGUUUUCACGCCAUCGCAUCUAUUGUGUUACAUAGCGCCCAAAAAGCGAGAAAUAAAGUGC
..............((....))(((((((((.....))))).......-..((((((((..((....(((...((((.....)))).......)))...))..)))))))).....)))) ( -26.60)
>DroSim_CAF1 4404 119 + 1
UACAUUCAUACAUAGCUCACGCGCACAGGACAUACAGUCCUAACAUAA-AAUUCUCGUUCGUUUUCACGCCAUCGCAUCUAUUGUGUUACAUAGCGCCCAAAAAGCGAGAAGUAAAGUGC
..............((....))(((((((((.....))))).......-..((((((((..((....(((...((((.....)))).......)))...))..)))))))).....)))) ( -26.60)
>DroEre_CAF1 6059 120 + 1
UACAUUGAUACAUAGCUCACGCGCACAGGACAUACAGUCCUAACAUAAAAAUUCUCGUUCGUUUUCACGCCAUCGCAUCUAUUGUGUUACAUAGCGGCCAAAAAACGAGAAGUAAAGAGC
..............((((........(((((.....)))))..........((((((((..((....(((...((((.....)))).......)))...))..)))))))).....)))) ( -26.70)
>DroYak_CAF1 5669 119 + 1
UACAUUCAUACAUAGCUCACGCGCACAGGACAUACAGUCCUAACAUAA-AAUUCUCGUUCGUUUUCACGCCAUCGCAUCUAUUGUGUUACAUAGCGGCCAAAAAGCGAGAAGUAAAGAGC
..............((((........(((((.....))))).......-..((((((((..((....(((...((((.....)))).......)))...))..)))))))).....)))) ( -26.70)
>consensus
UACAUUCAUACAUAGCUCACGCGCACAGGACAUACAGUCCUAACAUAA_AAUUCUCGUUCGUUUUCACGCCAUCGCAUCUAUUGUGUUACAUAGCGCCCAAAAAGCGAGAAGUAAAGAGC
..............((((........(((((.....)))))..........((((((((..((....(((...((((.....)))).......)))...))..)))))))).....)))) (-22.78 = -23.14 +   0.36)

alignment

secondary structure

dotplot

Window 1

Location	15,775,411 – 15,775,530
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	96.82
Mean single sequence MFE	-34.54
Consensus MFE	-29.12
Energy contribution	-28.96
Covariance contribution	-0.16
Combinations/Pair	1.03
Mean z-score	-1.58
Structure conservation index	0.84
SVM decision value	0.42
SVM RNA-class probability	0.729132
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15775411 119 - 22224390
GUUCUUUACUUCUCGUUUUUUGGGCGCUAUGUAACACAAUAGAUGCGAUGGCGUGAAAACGAACGAGAAUU-UUAUGUUAGGACUGUAUGUCCUGUGCGCGUGAGCUAUGUAUGAAUGUA
((((..(((((((((((((((..((((((((((.(......).))).)))))))..))).)))))))))..-....((((((((.....)))))).))((....))...))).))))... ( -37.00)
>DroSec_CAF1 5970 119 - 1
GCACUUUAUUUCUCGCUUUUUGGGCGCUAUGUAACACAAUAGAUGCGAUGGCGUGAAAACGAACGAGAAUU-UUAUGUUAGGACUGUAUGUCCUGUGCGCGUGAGCUAUGUACGAAUGUA
((((.....((((((.(((((..((((((((((.(......).))).)))))))..))).)).))))))..-.......(((((.....)))))))))((....)).............. ( -34.80)
>DroSim_CAF1 4404 119 - 1
GCACUUUACUUCUCGCUUUUUGGGCGCUAUGUAACACAAUAGAUGCGAUGGCGUGAAAACGAACGAGAAUU-UUAUGUUAGGACUGUAUGUCCUGUGCGCGUGAGCUAUGUAUGAAUGUA
((((.....((((((.(((((..((((((((((.(......).))).)))))))..))).)).))))))..-.......(((((.....)))))))))((....)).............. ( -34.70)
>DroEre_CAF1 6059 120 - 1
GCUCUUUACUUCUCGUUUUUUGGCCGCUAUGUAACACAAUAGAUGCGAUGGCGUGAAAACGAACGAGAAUUUUUAUGUUAGGACUGUAUGUCCUGUGCGCGUGAGCUAUGUAUCAAUGUA
((((.....(((((((((.((..((((((((((.(......).))).)))))).)..)).))))))))).....((((((((((.....))))))...)))))))).............. ( -35.20)
>DroYak_CAF1 5669 119 - 1
GCUCUUUACUUCUCGCUUUUUGGCCGCUAUGUAACACAAUAGAUGCGAUGGCGUGAAAACGAACGAGAAUU-UUAUGUUAGGACUGUAUGUCCUGUGCGCGUGAGCUAUGUAUGAAUGUA
((((.....((((((.((.((..((((((((((.(......).))).)))))).)..)).)).))))))..-..((((((((((.....))))))...)))))))).............. ( -31.00)
>consensus
GCUCUUUACUUCUCGCUUUUUGGGCGCUAUGUAACACAAUAGAUGCGAUGGCGUGAAAACGAACGAGAAUU_UUAUGUUAGGACUGUAUGUCCUGUGCGCGUGAGCUAUGUAUGAAUGUA
((.......((((((..((((.(.(((((((((.(......).))).))))))).))))....)))))).........((((((.....)))))).))((....)).............. (-29.12 = -28.96 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:06:45 2006