Locus 1502

Sequence ID 2L_DroMel_CAF1
Location 4,059,863 – 4,060,054
Length 191
Max. P 0.993817
window2434 window2435

overview

Window 4

Location 4,059,863 – 4,059,957
Length 94
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 92.01
Mean single sequence MFE -22.87
Consensus MFE -19.10
Energy contribution -19.93
Covariance contribution 0.83
Combinations/Pair 1.12
Mean z-score -2.12
Structure conservation index 0.84
SVM decision value 0.64
SVM RNA-class probability 0.807816
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4059863 94 - 22407834
GCAAUCACAAUCCAAAUGGAGGCUUAAAGUCACUGGAUUU--UUUGCAUUUUAAUAGCCAUUUGCGGCACUUAAAAGCCCAAAAGCAAAUGGGAAA
((((....((((((...(..(((.....))).))))))).--.))))..........(((((((((((........))).....)))))))).... ( -23.70)
>DroSec_CAF1 192170 94 - 1
GCAAUCACAAUCCAAAUGGAGGCUUAAAGUCACUGGAUUU--UUUGCAUUUUAAUAGCCAUUUGCGGCACUUAAAAGCCCAAAAGCAAAUGGGAAA
((((....((((((...(..(((.....))).))))))).--.))))..........(((((((((((........))).....)))))))).... ( -23.70)
>DroSim_CAF1 193663 94 - 1
GCAAUCACAAUCCAAAUGGAGGCUUAAAGUCACUGGAUUU--UUUGCAUUUUAAUAGCCAUUUGCGGCACUUAAAAGCCCAAAAGCAAAUGGGAAA
((((....((((((...(..(((.....))).))))))).--.))))..........(((((((((((........))).....)))))))).... ( -23.70)
>DroEre_CAF1 200312 96 - 1
ACACUCACAAUCCAAAUGGAGGCUUAAAGUCACAGGAUUUUUUUUGCAUUUUAAUAGCCAUUUGCGGCACUUAAAAGCCCAAAAGCAAAUGGGAAA
..........(((....))).((..((((((....))))))....))..........(((((((((((........))).....)))))))).... ( -21.20)
>DroYak_CAF1 205298 94 - 1
-CAAUCACAAUCCAAACGGAGGCUUAAAGUCACAGGAUUU-UUUUGCAUUUUAAUAGCCAUUUGCGGCUCUUAAAAGCCCAAAAGCAAAUGGGAAA
-.........(((....))).((..((((((....)))))-)...))..........((((((((((((......)))).....)))))))).... ( -22.60)
>DroAna_CAF1 237857 95 - 1
GCGGUCACAAUCCGGUAUGGGACUUAAAGCCACUAGAUUU-UUUUGCAUUUUAAUUGCCAUUUGCGGCACUUAAAAGCCCGAAAGCAAAUGGGGAA
((((....((((..((...((........))))..)))).-..)))).......((.(((((((((((........))).....)))))))).)). ( -22.30)
>consensus
GCAAUCACAAUCCAAAUGGAGGCUUAAAGUCACUGGAUUU__UUUGCAUUUUAAUAGCCAUUUGCGGCACUUAAAAGCCCAAAAGCAAAUGGGAAA
((((....((((((....(.(((.....))).)))))))....))))..........(((((((((((........))).....)))))))).... (-19.10 = -19.93 +   0.83)

alignment

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secondary structure

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dotplot

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Window 5

Location 4,059,957 – 4,060,054
Length 97
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 94.32
Mean single sequence MFE -24.92
Consensus MFE -22.02
Energy contribution -22.62
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.98
Structure conservation index 0.88
SVM decision value 2.43
SVM RNA-class probability 0.993817
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4059957 97 + 22407834
GAUUGUGAGUGUGGAAAACGCAAAGCCGAGAGCUCAUAUAUGCGAGUGCCAGUGUAAAUGGGGCUUAAAUACAGAUUUGGUCUUGGCCAAAUGAAAA
..(((((.((((.....)))).(((((....((((........)))).(((.......))))))))...)))))(((((((....)))))))..... ( -26.60)
>DroSec_CAF1 192264 97 + 1
GAUUGUGAGUGUGGAAAACGCAAAGCCGAAAGCUCAUAUAUGCGAGGGCCAGUGUAAAUGGGGCUUAAAUACAGAUUUGGUCCUGGCCAAAUGAAAA
..(((((.((((.....)))).(((((....)(((((.(((((........))))).)))))))))...)))))(((((((....)))))))..... ( -25.30)
>DroSim_CAF1 193757 97 + 1
GAUUGUGAGUGUGGAAAACGCAAAGCCGAAAGCUCAUAUAUGCGAGUGCCAGUGUAAAUGCGGCUUAAAUACAGAUUUGGUCCUGGCCAAAUGAAAA
..(((((.((((.....)))).((((((......(((.(((((........))))).)))))))))...)))))(((((((....)))))))..... ( -25.00)
>DroEre_CAF1 200408 96 + 1
GAGUGUGAGUGUGGAAAACGCAAAGCCGAAAGCUCAUAUAUGCGAGUU-CAGUGUAAAUGGGGCUUAAAUACAGAUUUGGUCUUGGCCAAAUGAAAA
..((((..((((.....)))).(((((....)(((((.(((((.....-..))))).)))))))))..))))..(((((((....)))))))..... ( -24.90)
>DroYak_CAF1 205392 91 + 1
-----UGAGUGUGGAAAACGCAAAGCCGAAAGCUCAUGUAUGCGAGUG-CAGUGUAAAUGGGGCUUAAAUACAGAUUUGGUCUUGGCCAAAUGAAAA
-----(((((.(((...........)))...)))))(((((..((((.-(.((....)).).))))..))))).(((((((....)))))))..... ( -22.80)
>consensus
GAUUGUGAGUGUGGAAAACGCAAAGCCGAAAGCUCAUAUAUGCGAGUGCCAGUGUAAAUGGGGCUUAAAUACAGAUUUGGUCUUGGCCAAAUGAAAA
...((((.((((.....)))).(((((....)(((((.(((((........))))).)))))))))...)))).(((((((....)))))))..... (-22.02 = -22.62 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:09 2006