Locus 6434

Sequence ID 2R_DroMel_CAF1
Location 20,094,118 – 20,094,219
Length 101
Max. P 0.880742
window10263 window10264

overview

Window 3

Location 20,094,118 – 20,094,219
Length 101
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 75.13
Mean single sequence MFE -13.26
Consensus MFE -10.88
Energy contribution -10.35
Covariance contribution -0.53
Combinations/Pair 1.27
Mean z-score -1.04
Structure conservation index 0.82
SVM decision value 0.91
SVM RNA-class probability 0.880742
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20094118 101 + 20766785
AUCAUUUCCAAAUACUCAGCUGGGC-GCAAUUUCACGCACAGUUACGCGCUUUUUUCACGCUAUUUACC--------------ACUUUUCCCAUUUUUCCCUUAUUCCCAGCGAUU
..................((((((.-((........))........(((.........)))........--------------.......................)))))).... ( -15.30)
>DroPse_CAF1 9124 110 + 1
UUAAUUUUCGAAUUUCAACUUGGGC-GCAAUUUAACGCACAGUUACGCGCUUUUUUCAUACCCUUCCUUUAAUGUCUUAACAAACCUUU----UUUUCGGCUU-UUCCCAACAAUU
.......(((((.........((((-((....((((.....)))).))))))....................(((....))).......----..)))))...-............ ( -11.20)
>DroSec_CAF1 8382 100 + 1
UUCAUUUUCGAAUACUCAGCUGGGC-GCAAUUUCACGCACAGUUACGCGCUUUUUUCACGCUAUUUCCC--------------ACUUUUCCCAUUUUCCCCUU-UUCCCAGCGAUU
..................((((((.-((........))........(((.........)))........--------------....................-..)))))).... ( -15.30)
>DroSim_CAF1 8362 100 + 1
UUCAUUUUCGAAUACUCAGCUGGGC-GCAAUUUCACGCACAGUUACGCGCUUUUUUCACGCUAUUUCCC--------------ACUUUUCCCAUUUUCCCCUU-UUCCCAGCGAUU
..................((((((.-((........))........(((.........)))........--------------....................-..)))))).... ( -15.30)
>DroEre_CAF1 8396 91 + 1
UUCAUUUUCGAAUACUCAGCUGGGC-GCAAUUUCACGCACAGUUACGCGCUUUUUUCACACUAUUUCCC--------------ACUU-UU-------CCA-UU-UUCCCGGCGGUU
..................((((((.-((........))..(((.....)))..................--------------....-..-------...-..-..)))))).... ( -11.60)
>DroAna_CAF1 9017 97 + 1
GCCAAUUAACAAUAUUUGGCUUGGCAGCAAUUUUACGCACAGUUACGCGCUUUUUUCAUACAAUUUUCC--------------AGCUU----AUAUACUCUUU-UCCCAAGCAAUU
..................((((((............((........))(((..................--------------)))..----...........-..)))))).... ( -10.87)
>consensus
UUCAUUUUCGAAUACUCAGCUGGGC_GCAAUUUCACGCACAGUUACGCGCUUUUUUCACACUAUUUCCC______________ACUUUUC__AUUUUCCCCUU_UUCCCAGCGAUU
..................((((((..((........))..(((.....))).......................................................)))))).... (-10.88 = -10.35 +  -0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 20,094,118 – 20,094,219
Length 101
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 75.13
Mean single sequence MFE -19.14
Consensus MFE -13.92
Energy contribution -13.70
Covariance contribution -0.22
Combinations/Pair 1.15
Mean z-score -1.01
Structure conservation index 0.73
SVM decision value 0.44
SVM RNA-class probability 0.736131
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20094118 101 - 20766785
AAUCGCUGGGAAUAAGGGAAAAAUGGGAAAAGU--------------GGUAAAUAGCGUGAAAAAAGCGCGUAACUGUGCGUGAAAUUGC-GCCCAGCUGAGUAUUUGGAAAUGAU
..((((((((.....................(.--------------.((.(...((((.......)))).).))..)(((......)))-.)))))).))............... ( -20.80)
>DroPse_CAF1 9124 110 - 1
AAUUGUUGGGAA-AAGCCGAAAA----AAAGGUUUGUUAAGACAUUAAAGGAAGGGUAUGAAAAAAGCGCGUAACUGUGCGUUAAAUUGC-GCCCAAGUUGAAAUUCGAAAAUUAA
...((((..((.-(((((.....----...))))).))..)))).........((((..((....((((((......))))))...))..-))))..................... ( -21.00)
>DroSec_CAF1 8382 100 - 1
AAUCGCUGGGAA-AAGGGGAAAAUGGGAAAAGU--------------GGGAAAUAGCGUGAAAAAAGCGCGUAACUGUGCGUGAAAUUGC-GCCCAGCUGAGUAUUCGAAAAUGAA
..((((((((..-..................(.--------------.(..(...((((.......)))).)..)..)(((......)))-.)))))).))............... ( -20.20)
>DroSim_CAF1 8362 100 - 1
AAUCGCUGGGAA-AAGGGGAAAAUGGGAAAAGU--------------GGGAAAUAGCGUGAAAAAAGCGCGUAACUGUGCGUGAAAUUGC-GCCCAGCUGAGUAUUCGAAAAUGAA
..((((((((..-..................(.--------------.(..(...((((.......)))).)..)..)(((......)))-.)))))).))............... ( -20.20)
>DroEre_CAF1 8396 91 - 1
AACCGCCGGGAA-AA-UGG-------AA-AAGU--------------GGGAAAUAGUGUGAAAAAAGCGCGUAACUGUGCGUGAAAUUGC-GCCCAGCUGAGUAUUCGAAAAUGAA
..((((......-..-...-------..-..))--------------))(((...((((.......))))....(((.((((......))-)).))).......)))......... ( -15.46)
>DroAna_CAF1 9017 97 - 1
AAUUGCUUGGGA-AAAGAGUAUAU----AAGCU--------------GGAAAAUUGUAUGAAAAAAGCGCGUAACUGUGCGUAAAAUUGCUGCCAAGCCAAAUAUUGUUAAUUGGC
....((((((..-......(((((----((..(--------------....).)))))))......(((((....)))))............)))))).................. ( -17.20)
>consensus
AAUCGCUGGGAA_AAGGGGAAAAU__GAAAAGU______________GGGAAAUAGCGUGAAAAAAGCGCGUAACUGUGCGUGAAAUUGC_GCCCAGCUGAGUAUUCGAAAAUGAA
....((((((........................................................(((((....)))))((......))..)))))).................. (-13.92 = -13.70 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:55 2006