Locus 94

Sequence ID	4_DroMel_CAF1
Location	705,932 – 706,032
Length	100
Max. P	0.658615

overview

Window 7

Location	705,932 – 706,032
Length	100
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	82.40
Mean single sequence MFE	-21.11
Consensus MFE	-13.73
Energy contribution	-13.90
Covariance contribution	0.17
Combinations/Pair	1.20
Mean z-score	-2.04
Structure conservation index	0.65
SVM decision value	0.26
SVM RNA-class probability	0.658615
Prediction	RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 705932 100 + 1281640
GGCAAAUAUCAUACCCACAGCUCAUUGCUCGCCCACAAUAUCAAUUAGUCCUACCGACUCACUGUUAGGUAUGGGUGAACAUUCUGCAAAUCAACAAAAU
...................((....((.(((((((...(((((((.((((.....))))....))).))))))))))).))....))............. ( -18.30)
>DroPse_CAF1 15690 100 + 1
AGCGAACACUAUACCCACCGCCCAUUGCUCACCCACAACCUCCAUAAGUCCAACGGACUCUCUUUUGGGUCUGGGCGAGCACUCUGUGAACAGAAACAUU
.(((..............)))....(((((.((((..((((.....(((((...))))).......)))).)))).))))).((((....))))...... ( -28.64)
>DroSim_CAF1 6461 100 + 1
GGCAAAUAUCAUACCCACAGCUCACUGCUCGCCCACAAUAUCAAUUAGUCCUACCGACUCACUUUUAGGUAUGGGUGAACAUUCUGCAAACCAACAAAAU
.(((...............((.....))(((((((...........((((.....)))).(((....))).)))))))......)))............. ( -16.90)
>DroEre_CAF1 19207 100 + 1
GGCAAAUAUCAUACCCACAGCUCACUGCUCGCCCACAAUCUCAGUUAGUCCAACCGACUCUCUUUUAGGUAUGGGUGAACAUUCUGCAAAUCAACAAAAU
.(((...............((.....))(((((((..((((.((..((((.....))))..))...)))).)))))))......)))............. ( -20.20)
>DroYak_CAF1 9693 100 + 1
GACAAAUAUCAUACCUACAGCUCACUGCUCGCCCACAAUCUCAAUAAGCCCUACCGACUCUCUUUUAGGUAUGGGUGAACAUUCUGGAAAUCAACAAAAU
.............((....((.....))(((((((................((((............))))))))))).......))............. ( -13.99)
>DroPer_CAF1 15859 100 + 1
AGCGAACACUAUACCCACCGCCCAUUGCUCACCCACAACCUCCAUAAGUCCAACGGACUCUCUUUUGGGUCUGGGCGAGCACUCUGUGAACAGAAACAUU
.(((..............)))....(((((.((((..((((.....(((((...))))).......)))).)))).))))).((((....))))...... ( -28.64)
>consensus
GGCAAAUAUCAUACCCACAGCUCACUGCUCGCCCACAAUCUCAAUAAGUCCAACCGACUCUCUUUUAGGUAUGGGUGAACAUUCUGCAAACCAACAAAAU
.(((...............((.....))(((((((..((((.....((((.....)))).......)))).)))))))......)))............. (-13.73 = -13.90 +   0.17)

alignment

secondary structure

dotplot

Window 8

Location	705,932 – 706,032
Length	100
Sequences	6
Columns	100
Reading direction	reverse
Mean pairwise identity	82.40
Mean single sequence MFE	-29.98
Consensus MFE	-22.88
Energy contribution	-22.58
Covariance contribution	-0.30
Combinations/Pair	1.29
Mean z-score	-1.49
Structure conservation index	0.76
SVM decision value	0.16
SVM RNA-class probability	0.612978
Prediction	RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 705932 100 - 1281640
AUUUUGUUGAUUUGCAGAAUGUUCACCCAUACCUAACAGUGAGUCGGUAGGACUAAUUGAUAUUGUGGGCGAGCAAUGAGCUGUGGGUAUGAUAUUUGCC
....((((((((..(((..(((((.((((((..((.((((.((((.....)))).)))).)).)))))).))))).....)))..))).)))))...... ( -28.60)
>DroPse_CAF1 15690 100 - 1
AAUGUUUCUGUUCACAGAGUGCUCGCCCAGACCCAAAAGAGAGUCCGUUGGACUUAUGGAGGUUGUGGGUGAGCAAUGGGCGGUGGGUAUAGUGUUCGCU
.....(((((....)))))(((((((((((((((....(.((((((...)))))).).).)))).))))))))))..(((((.((....)).)))))... ( -36.40)
>DroSim_CAF1 6461 100 - 1
AUUUUGUUGGUUUGCAGAAUGUUCACCCAUACCUAAAAGUGAGUCGGUAGGACUAAUUGAUAUUGUGGGCGAGCAGUGAGCUGUGGGUAUGAUAUUUGCC
........((((..(....(((((.((((((......(((.((((.....)))).))).....)))))).))))))..))))...((((.......)))) ( -26.10)
>DroEre_CAF1 19207 100 - 1
AUUUUGUUGAUUUGCAGAAUGUUCACCCAUACCUAAAAGAGAGUCGGUUGGACUAACUGAGAUUGUGGGCGAGCAGUGAGCUGUGGGUAUGAUAUUUGCC
....((((((((..(((..(((((.((((((.((...((..((((.....))))..)).))..)))))).))))).....)))..))).)))))...... ( -29.00)
>DroYak_CAF1 9693 100 - 1
AUUUUGUUGAUUUCCAGAAUGUUCACCCAUACCUAAAAGAGAGUCGGUAGGGCUUAUUGAGAUUGUGGGCGAGCAGUGAGCUGUAGGUAUGAUAUUUGUC
((((((........)))))).......((((((((...(.....).....(((((((((...(((....))).))))))))).))))))))......... ( -23.40)
>DroPer_CAF1 15859 100 - 1
AAUGUUUCUGUUCACAGAGUGCUCGCCCAGACCCAAAAGAGAGUCCGUUGGACUUAUGGAGGUUGUGGGUGAGCAAUGGGCGGUGGGUAUAGUGUUCGCU
.....(((((....)))))(((((((((((((((....(.((((((...)))))).).).)))).))))))))))..(((((.((....)).)))))... ( -36.40)
>consensus
AUUUUGUUGAUUUGCAGAAUGUUCACCCAUACCUAAAAGAGAGUCGGUAGGACUAAUUGAGAUUGUGGGCGAGCAAUGAGCUGUGGGUAUGAUAUUUGCC
.........(..(((((..(((((.((((((..........((((.....)))).........)))))).))))).....)))))..)............ (-22.88 = -22.58 +  -0.30)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:34:28 2006