Locus 6970

Sequence ID 2L_DroMel_CAF1
Location 19,362,763 – 19,362,870
Length 107
Max. P 0.964908
window11116 window11117

overview

Window 6

Location 19,362,763 – 19,362,870
Length 107
Sequences 5
Columns 114
Reading direction forward
Mean pairwise identity 70.14
Mean single sequence MFE -31.46
Consensus MFE -14.82
Energy contribution -13.38
Covariance contribution -1.44
Combinations/Pair 1.30
Mean z-score -1.85
Structure conservation index 0.47
SVM decision value 0.76
SVM RNA-class probability 0.843395
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19362763 107 + 22407834
ACGACGCCCAUGUCAAACGAUGUGUGCGUGUGCCAUUGUCAAUGCCGCUUUGGCACUGCAUAAGUU--AAAGGACAUUUGUG----GUGUGGUGGGGGGGGGGGGGGGUUG-GU
.((((.(((.......((((((.(((....)))))))))(..(.((.((.(.((((..((...(((--....)))...))..----)))).).)).)).)..)))).))))-.. ( -35.90)
>DroPse_CAF1 39799 93 + 1
ACUUCUCUUUUGUCAAACGAUGUGUGCG--UGCCGUUGUCAAUGCCGCU-UAGCACUGCAUACAUAUGUAUGUAUGUCUGAAGAGACAA-----AAG-------------GACA
...((.((((((((.......(((.(((--(..........)))))))(-(((.(((((((((....))))))).))))))...)))))-----)))-------------)).. ( -26.90)
>DroSec_CAF1 26262 89 + 1
ACACCGCCCAUGUCAAACGAUGUGUGCGUGUGCCAUUGUCAAUGCCGCUUUGGCACUGCAUAAGUU--UAGGAACAUUUGGG----CUG-----GGG-------------G-GG
...((.((((.(((((((....((((((.((((((..((.......))..)))))))))))).)))--).....(....)))----)))-----)).-------------)-). ( -32.90)
>DroSim_CAF1 26625 89 + 1
ACGCCGCCCAUGUCAAACGAUGUGUGCGUGUGCCAUUGUCAAUGCCGCUUUGGCACUGCAUAAGUU--UAGGAACAUUUGGG----CUG-----GGG-------------G-GC
..(((.((((.(((((((....((((((.((((((..((.......))..)))))))))))).)))--).....(....)))----)))-----)).-------------)-)) ( -34.80)
>DroPer_CAF1 44842 93 + 1
ACUUCUCUUUUGUCAAACGAUGUGUGCG--UGCCGUUGUCAAUGCUGCU-UAGCACUGCAUACAUAUGUAUGUAUGUCUGAAGAGACAA-----AAG-------------GACA
...((.((((((((.........((((.--.((.((.......)).)).-..)))).((((((((....)))))))).......)))))-----)))-------------)).. ( -26.80)
>consensus
ACGCCGCCCAUGUCAAACGAUGUGUGCGUGUGCCAUUGUCAAUGCCGCUUUGGCACUGCAUAAGUU__UAGGAACAUUUGAG____CUG_____GGG_____________G_GA
......(((.............((((((.((((((..((.......))..)))))))))))).(((......)))...................)))................. (-14.82 = -13.38 +  -1.44)

alignment

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secondary structure

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dotplot

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Window 7

Location 19,362,763 – 19,362,870
Length 107
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 70.14
Mean single sequence MFE -25.16
Consensus MFE -15.54
Energy contribution -14.66
Covariance contribution -0.88
Combinations/Pair 1.25
Mean z-score -1.85
Structure conservation index 0.62
SVM decision value 1.57
SVM RNA-class probability 0.964908
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19362763 107 - 22407834
AC-CAACCCCCCCCCCCCCCCACCACAC----CACAAAUGUCCUUU--AACUUAUGCAGUGCCAAAGCGGCAUUGACAAUGGCACACGCACACAUCGUUUGACAUGGGCGUCGU
..-..................((.((.(----(....(((((....--(((...(((((((((.....))))))).)).((((....)).))....))).))))).)).)).)) ( -21.80)
>DroPse_CAF1 39799 93 - 1
UGUC-------------CUU-----UUGUCUCUUCAGACAUACAUACAUAUGUAUGCAGUGCUA-AGCGGCAUUGACAACGGCA--CGCACACAUCGUUUGACAAAAGAGAAGU
..((-------------(((-----(((((........(((((((....)))))))(((((((.-...)))))))..(((((..--........))))).)))))))).))... ( -24.00)
>DroSec_CAF1 26262 89 - 1
CC-C-------------CCC-----CAG----CCCAAAUGUUCCUA--AACUUAUGCAGUGCCAAAGCGGCAUUGACAAUGGCACACGCACACAUCGUUUGACAUGGGCGGUGU
..-(-------------(((-----((.----..((((((......--......(((((((((.....))))))).)).((((....)).))...))))))...)))).))... ( -25.90)
>DroSim_CAF1 26625 89 - 1
GC-C-------------CCC-----CAG----CCCAAAUGUUCCUA--AACUUAUGCAGUGCCAAAGCGGCAUUGACAAUGGCACACGCACACAUCGUUUGACAUGGGCGGCGU
((-(-------------.((-----((.----..((((((......--......(((((((((.....))))))).)).((((....)).))...))))))...)))).))).. ( -30.10)
>DroPer_CAF1 44842 93 - 1
UGUC-------------CUU-----UUGUCUCUUCAGACAUACAUACAUAUGUAUGCAGUGCUA-AGCAGCAUUGACAACGGCA--CGCACACAUCGUUUGACAAAAGAGAAGU
..((-------------(((-----(((((........(((((((....)))))))(((((((.-...)))))))..(((((..--........))))).)))))))).))... ( -24.00)
>consensus
UC_C_____________CCC_____CAG____CCCAAAUGUACAUA__AACUUAUGCAGUGCCAAAGCGGCAUUGACAAUGGCACACGCACACAUCGUUUGACAUGGGCGAAGU
..................................(((((...............(((((((((.....))))))).))...((....)).......)))))............. (-15.54 = -14.66 +  -0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:24:13 2006