Locus 9170

Sequence ID 3R_DroMel_CAF1
Location 24,447,063 – 24,447,197
Length 134
Max. P 0.904834
window14666 window14667

overview

Window 6

Location 24,447,063 – 24,447,166
Length 103
Sequences 5
Columns 107
Reading direction reverse
Mean pairwise identity 79.69
Mean single sequence MFE -14.82
Consensus MFE -9.32
Energy contribution -10.72
Covariance contribution 1.40
Combinations/Pair 1.00
Mean z-score -1.91
Structure conservation index 0.63
SVM decision value 0.58
SVM RNA-class probability 0.788223
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24447063 103 - 27905053
UACAC-A-AAA-A-GAGGCCAUGAAUUAAAUUUUGUAUUCAUGCCCUCCAGCACCACCACUACUUCAUUUUCUCCUUUUCCCUUUAAUUUCGCUGCCAGCCCACAGC
.....-.-...-.-((((.(((((((..........))))))).))))...........................................((((........)))) ( -15.80)
>DroSim_CAF1 21104 103 - 1
UACAC-A-AAA-A-GAGGCCAUGAAUUAAAUUUUGUAUUCAUGCCCUCCAGCACCACCACUACUUCAUUUUCUUCGUUUCCCUUUAAUUUCGCUGCCAGCCCACAGC
.....-.-...-.-((((.(((((((..........))))))).))))...........................................((((........)))) ( -15.80)
>DroEre_CAF1 20979 104 - 1
UACAC-A-AAAAA-GAGGCCAUGAAUUAAAUUUUGUAUUCAUGUCCUCCAGCACCACCACUACUUAAUUUUCUCCUUCUUCCUUCAAUUUUGCUGCCAGCCCACAGA
.....-.-.....-((((.(((((((..........))))))).))))(((((.....................................)))))............ ( -15.09)
>DroYak_CAF1 22002 105 - 1
UACAC-A-AAAAAGGAGGCCAUGAAUUAAAUUUUGUAUUCAUGUCCUCCAGCACCGCCACUUCUUAAUUUUCUCCUUUUGCCUUCAAUUCUGCUGCCAGCCCACAGC
....(-(-(((..(((((.(((((((..........))))))).))))).((...))..................)))))...........((((........)))) ( -19.90)
>DroAna_CAF1 21307 82 - 1
CCCAACAAAAA-A-GAGGCCAUGAAUUAAAUUUCGUAUUCAUCUGC-----CA-CCCCACU-------UUUCCACU-----CAUCCAUUUUCGUG-----CCACAGC
...........-.-..(((.((((((..........))))))..))-----).-.......-------........-----..............-----....... (  -7.50)
>consensus
UACAC_A_AAA_A_GAGGCCAUGAAUUAAAUUUUGUAUUCAUGUCCUCCAGCACCACCACUACUUAAUUUUCUCCUUUUCCCUUCAAUUUUGCUGCCAGCCCACAGC
..............((((.(((((((..........))))))).))))...........................................((((........)))) ( -9.32 = -10.72 +   1.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 24,447,103 – 24,447,197
Length 94
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 70.55
Mean single sequence MFE -21.48
Consensus MFE -5.78
Energy contribution -7.45
Covariance contribution 1.67
Combinations/Pair 1.00
Mean z-score -2.44
Structure conservation index 0.27
SVM decision value 1.04
SVM RNA-class probability 0.904834
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24447103 94 - 27905053
---UCGAAUGGGGAGCACAA-G-UUGC-CUUUAAGUUUACAC-A-AAA-A-GAGGCCAUGAAUUAAAUUUUGUAUUCAUGCCCUCCAG--CACC------ACCACUACUUC---A
---..((((((((.((....-(-(.((-......))..))..-.-...-.-((((.(((((((..........))))))).))))..)--).))------.)))....)))---. ( -21.10)
>DroSim_CAF1 21144 94 - 1
---UCGAAUGGGGAGCACAA-G-UUCC-CUUAAAGUUUACAC-A-AAA-A-GAGGCCAUGAAUUAAAUUUUGUAUUCAUGCCCUCCAG--CACC------ACCACUACUUC---A
---..(((.(((((((....-)-))))-))............-.-...-.-((((.(((((((..........))))))).))))...--....------........)))---. ( -23.20)
>DroEre_CAF1 21019 96 - 1
---UCGAAUGGGGAACACAA-G-UUCCCCUUUAAGUUUACAC-A-AAAAA-GAGGCCAUGAAUUAAAUUUUGUAUUCAUGUCCUCCAG--CACC------ACCACUACUUA---A
---......(((((((....-)-)))))).((((((......-.-.....-((((.(((((((..........))))))).))))...--....------......)))))---) ( -27.01)
>DroWil_CAF1 21860 109 - 1
AAAAGGGAUGGGAAAGAAGAGGGUAUAACUUUAAGUUUCCGU-A---A-A-GUUGCCAUGAAUAAAAUUUCGAAUUCUUUUGCCACAAACCACUGUACAAACGAAUACUUCUGAA
....((..((((..(((((((((((..((((((........)-)---)-)-)))))).((((......))))..))))))).)).))..))........................ ( -19.20)
>DroYak_CAF1 22042 97 - 1
---UCGAAUGGGCAACACAA-G-UUCCCCUUUAAGUUUACAC-A-AAAAAGGAGGCCAUGAAUUAAAUUUUGUAUUCAUGUCCUCCAG--CACC------GCCACUUCUUA---A
---..(((..((((((....-)-)).................-.-.....(((((.(((((((..........))))))).)))))..--....------)))..)))...---. ( -22.70)
>DroAna_CAF1 21336 81 - 1
-------AAAGGCAGCGUAG-G-AUAUCCUUAAAGUGCCCAACAAAAA-A-GAGGCCAUGAAUUAAAUUUCGUAUUCAUCUGC-------CA-C------CCCACU---------
-------...((((.(..((-(-....)))....))))).........-.-..(((.((((((..........))))))..))-------).-.------......--------- ( -15.70)
>consensus
___UCGAAUGGGGAACACAA_G_UUCCCCUUUAAGUUUACAC_A_AAA_A_GAGGCCAUGAAUUAAAUUUUGUAUUCAUGUCCUCCAG__CACC______ACCACUACUUC___A
...................................................((((.(((((((..........))))))).)))).............................. ( -5.78 =  -7.45 +   1.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:28:05 2006