Locus 7043

Sequence ID 2L_DroMel_CAF1
Location 19,693,065 – 19,693,163
Length 98
Max. P 0.935566
window11235 window11236

overview

Window 5

Location 19,693,065 – 19,693,163
Length 98
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 76.46
Mean single sequence MFE -32.73
Consensus MFE -13.01
Energy contribution -16.15
Covariance contribution 3.14
Combinations/Pair 1.07
Mean z-score -2.42
Structure conservation index 0.40
SVM decision value 0.76
SVM RNA-class probability 0.842529
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19693065 98 + 22407834
ACCAUUUAAUGCUUGUUUUGAAUGGUUCAGCGGGCCCUAAACAAUA------------G--GCCGGCCUG-----UUGGGGAAAUGCUGGCUGCAGCGGAAGUGCAACAAGCGUAAU
........(((((((((......(((.(((((..(((....(((((------------(--(....))))-----))))))...))))))))(((.(....)))))))))))))... ( -36.90)
>DroVir_CAF1 117966 109 + 1
GGCAUUUAAUGGUUGUU-UGAAUGGUUCAGCGAUUCCUAAACAACAACAAUAACAACAGCAGCAAUUGUG-----UUGCUG--UUGCUGGCGCCCCGGAAAGCGCAACAAGCGUAAU
(((........((((((-(((((.(.....).))))..)))))))........(((((((((((....))-----))))))--))).....))).......((((.....))))... ( -34.90)
>DroSec_CAF1 114814 97 + 1
ACCAUUUAAUGCUUGUU-UGAAUGGUUCAGCGGGCCCUAAACAAUA------------G--GCCAGUCUG-----UUGGGGCAAUGCUGGCUGCACCGGAAGUGCAACAAGCGUAAU
........(((((((((-.....(((.(((((.((((....(((((------------(--(....))))-----)))))))..))))))))(((.(....)))))))))))))... ( -35.90)
>DroSim_CAF1 94040 97 + 1
ACCAUUUAAUGCUUGUU-UGAAUGGUUCAGCGGACCCUAAACAAUA------------G--GCCAGUCUG-----UUGGGGCAAUGCUGGCUGCACCGGAAGUGCAACAAGCGUAAU
(((((((((.......)-))))))))(((((((((((((.....))------------)--)...)))))-----))))....(((((.(.((((.(....))))).).)))))... ( -33.30)
>DroYak_CAF1 89770 88 + 1
UCCAUUUAAUGCUUGUU-UGAAUGGUUCAACGGGCCCUAAACAAUA------------G--GCUA-------------GGGAAU-GCCUGCUGCACAGGAAGUGCAACAAGCGUAAU
.((((((((.......)-))))))).........(((((..(....------------)--..))-------------))).((-((.((.(((((.....))))).)).))))... ( -26.00)
>DroAna_CAF1 90941 102 + 1
AACAUUUAAUGGUUGUA-UGAAUGGUUGAGCGAUUCCUAAACAAUA------------G--GCCAGACCGGCUAGAUGGCAGGCUGGCGGCUGCACAGGAAGUGCAACAAGCGUAAU
........(((.((((.-.((((.(.....).))))..........------------.--(((((.((.(((....))).)))))))...(((((.....))))))))).)))... ( -29.40)
>consensus
ACCAUUUAAUGCUUGUU_UGAAUGGUUCAGCGGGCCCUAAACAAUA____________G__GCCAGUCUG_____UUGGGGAAAUGCUGGCUGCACCGGAAGUGCAACAAGCGUAAU
........(((((((((......(((.(((((..((((((...................................))))))...))))))))((((.....)))))))))))))... (-13.01 = -16.15 +   3.14)

alignment

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secondary structure

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dotplot

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Window 6

Location 19,693,065 – 19,693,163
Length 98
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 76.46
Mean single sequence MFE -28.47
Consensus MFE -14.74
Energy contribution -15.38
Covariance contribution 0.64
Combinations/Pair 1.12
Mean z-score -2.25
Structure conservation index 0.52
SVM decision value 1.25
SVM RNA-class probability 0.935566
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19693065 98 - 22407834
AUUACGCUUGUUGCACUUCCGCUGCAGCCAGCAUUUCCCCAA-----CAGGCCGGC--C------------UAUUGUUUAGGGCCCGCUGAACCAUUCAAAACAAGCAUUAAAUGGU
.....(((.((((((.......)))))).)))..........-----..(((.(((--(------------(........))))).)))..((((((.((........)).)))))) ( -27.30)
>DroVir_CAF1 117966 109 - 1
AUUACGCUUGUUGCGCUUUCCGGGGCGCCAGCAA--CAGCAA-----CACAAUUGCUGCUGUUGUUAUUGUUGUUGUUUAGGAAUCGCUGAACCAUUCA-AACAACCAUUAAAUGCC
.....((.....((((((....)))))).(((((--(((((.-----((....)).))))))))))...((((((((((((......))))))......-))))))........)). ( -30.10)
>DroSec_CAF1 114814 97 - 1
AUUACGCUUGUUGCACUUCCGGUGCAGCCAGCAUUGCCCCAA-----CAGACUGGC--C------------UAUUGUUUAGGGCCCGCUGAACCAUUCA-AACAAGCAUUAAAUGGU
.....(((.(((((((.....))))))).)))..........-----(((.(.(((--(------------(........))))).)))).((((((.(-(.......)).)))))) ( -30.50)
>DroSim_CAF1 94040 97 - 1
AUUACGCUUGUUGCACUUCCGGUGCAGCCAGCAUUGCCCCAA-----CAGACUGGC--C------------UAUUGUUUAGGGUCCGCUGAACCAUUCA-AACAAGCAUUAAAUGGU
.....(((.(((((((.....))))))).)))..........-----(((.(.(((--(------------(........))))).)))).((((((.(-(.......)).)))))) ( -27.80)
>DroYak_CAF1 89770 88 - 1
AUUACGCUUGUUGCACUUCCUGUGCAGCAGGC-AUUCCC-------------UAGC--C------------UAUUGUUUAGGGCCCGUUGAACCAUUCA-AACAAGCAUUAAAUGGA
.....(((((((((((.....)))))))))))-...(((-------------(((.--(------------....).)))))).........(((((.(-(.......)).))))). ( -28.50)
>DroAna_CAF1 90941 102 - 1
AUUACGCUUGUUGCACUUCCUGUGCAGCCGCCAGCCUGCCAUCUAGCCGGUCUGGC--C------------UAUUGUUUAGGAAUCGCUCAACCAUUCA-UACAACCAUUAAAUGUU
.....(.(((..((..((((((.((((..(((((((.((......)).)).)))))--.------------..)))).))))))..)).))).).....-................. ( -26.60)
>consensus
AUUACGCUUGUUGCACUUCCGGUGCAGCCAGCAUUGCCCCAA_____CAGACUGGC__C____________UAUUGUUUAGGGCCCGCUGAACCAUUCA_AACAAGCAUUAAAUGGU
.....(((.(((((((.....))))))).)))...........................................((((((......))))))........................ (-14.74 = -15.38 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:26:00 2006