Locus 10130

Sequence ID	3R_DroMel_CAF1
Location	27,175,633 – 27,175,859
Length	226
Max. P	0.969334

overview

Window 5

Location	27,175,633 – 27,175,753
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	72.70
Mean single sequence MFE	-26.28
Consensus MFE	-13.60
Energy contribution	-15.24
Covariance contribution	1.64
Combinations/Pair	1.05
Mean z-score	-1.69
Structure conservation index	0.52
SVM decision value	0.19
SVM RNA-class probability	0.628538
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27175633 120 + 27905053
AUUGGGCAGAUCAAAAUCAUUUUGCACAGCUUGCGUACUAACGAUAUGUUUUUGGGCAUAUCGAAUUCAUUGCUGAAAUGAGAUGGAAAUGGAAUAAUAUUGUACAGUUUGCCAUCAUAU
....(((((((............(((.....)))((((...(((((((((....)))))))))..((((((.....))))))...................)))).)))))))....... ( -28.70)
>DroSec_CAF1 72093 117 + 1
AUUGGGCAGAUCAAAAACAUUUUGCACAGCUUGCGUACUAACGAUAUGUUUUUGGGCAUAUCGAAUUCAUUGCUUGAAUGAGAUGGAAAUGGAA---UAUUAUACAGUUUGCCAUCAUAU
.(..(((((..............(((.....))).......(((((((((....)))))))))......)))))..)....(((((...((...---.......)).....))))).... ( -26.50)
>DroSim_CAF1 75384 117 + 1
AUUGGGCAGAUCAAAAACAUUUUGCACAGCUUGCGUACUAACGAUAUGUUUUUGGGCAUAUCGAAUUCAUUGCUUGAAUGAGAUGGAAAUGGAA---UAUUGUACAGUUUGCCAUCAUAU
....(((((((............(((.....)))((((...(((((((((....)))))))))..(((((..(......)..))))).......---....)))).)))))))....... ( -28.70)
>DroEre_CAF1 72919 92 + 1
AUUGGGCAGACCGAAAACAUUUCGCAGUG-----CCACUAAAGAUGUGUA---------AUCACAUUCAUUGUUUUACUGAGAUGGAAAUAGAG---UAUUGC-----UUGAUG------
((..((((((((.....((((...(((((-----..((....((((((..---------..))))))....))..))))).))))......).)---).))))-----)..)).------ ( -22.40)
>DroYak_CAF1 75867 94 + 1
AUUGGGCAGAUC---------UUGC---------CUACUUUAGAUAUGUAUGUAGGCAUAUCAAAUUCACUGUUUAAAUGAGAUUGAAAUAGGG---UAUUGUACAGUUUGCCAU-----
....(((((((.---------.(((---------.((((((((((((((......)))))))...((((.(.((.....)).).)))).)))))---))..)))..)))))))..----- ( -25.10)
>consensus
AUUGGGCAGAUCAAAAACAUUUUGCACAGCUUGCGUACUAACGAUAUGUUUUUGGGCAUAUCGAAUUCAUUGCUUAAAUGAGAUGGAAAUGGAA___UAUUGUACAGUUUGCCAUCAUAU
....(((((((...............................(((((((......)))))))...((((((.....))))))........................)))))))....... (-13.60 = -15.24 +   1.64)

alignment

secondary structure

dotplot

Window 6

Location	27,175,753 – 27,175,859
Length	106
Sequences	5
Columns	109
Reading direction	forward
Mean pairwise identity	77.06
Mean single sequence MFE	-19.80
Consensus MFE	-2.90
Energy contribution	-4.86
Covariance contribution	1.96
Combinations/Pair	1.14
Mean z-score	-2.32
Structure conservation index	0.15
SVM decision value	1.64
SVM RNA-class probability	0.969334
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27175753 106 + 27905053
GGAUUUGAGGAAACAACUACAACUACAUAAGUAUGAACAUGUGGCAAACAUUCCCCAACAAUGUGUAUCAAAUAUCAUUUCAAAUAUAUAUAC---AGCCAACAUCCCA
(((((((.((((....(((((....(((....)))....)))))......)))).)))...(((((((...((((........))))))))))---)......)))).. ( -14.30)
>DroSec_CAF1 72210 105 + 1
GGAUUUGGGGAACUCACUACAACUACAUAAGUAUGAACCUGUGGCAAACAUUCCCCAACAAUGCGUAACAAAUAUCAUUUGAAAUACAUAUAC---AGC-ACCAUCCCA
((((((((((((....(((((....(((....)))....)))))......))))))))...((((((.......((....))........)))---.))-)..)))).. ( -19.26)
>DroSim_CAF1 75501 105 + 1
GGAUUUGGGGAAACCACUACAACUACAUAAGUAUGAACAUGUGGCAAACAUUCCCCAACAAUGUGUAUCAAAUAUCAUUUGAAAUACACAUAC---AGC-ACCAUCCCA
((((((((((((.((((......(((....))).......))))......))))))))..(((((((((((((...))))))..)))))))..---...-...)))).. ( -26.52)
>DroEre_CAF1 73011 93 + 1
-GAGUAGAGGAA------ACAACUUUAUAAAUAUAGGCAUGUGGCAAACAUUCCCCGACAAUGUGUAUCAAAUAUCAUUUG--------AUACAUCGGC-AGCAUCCCA
-..((((((...------....)))))).......((.((((.((..(((((.......)))))(((((((((...)))))--------))))....))-.)))).)). ( -21.40)
>DroYak_CAF1 75961 97 + 1
-UAGUA----UU------ACAUAUGUGUAUAUAUGGACAUGUGGCAAACAUUCCCCAACAAUGUGUAUCAAAUAUCAUUUGCAAUACACAUACGUCUGC-AACAUCGCA
-..((.----..------.(((((((.((....)).)))))))....))...........(((((((((((((...)))))..))))))))......((-......)). ( -17.50)
>consensus
GGAUUUGAGGAA___ACUACAACUACAUAAGUAUGAACAUGUGGCAAACAUUCCCCAACAAUGUGUAUCAAAUAUCAUUUGAAAUACACAUAC___AGC_AACAUCCCA
........(((............................(((((..........))).))(((((((((((((...)))))..)))))))).............))).. ( -2.90 =  -4.86 +   1.96)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:49:33 2006