Locus 5938

Sequence ID X_DroMel_CAF1
Location 15,327,791 – 15,327,885
Length 94
Max. P 0.587181
window9631 window9632

overview

Window 1

Location 15,327,791 – 15,327,885
Length 94
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.79
Mean single sequence MFE -27.24
Consensus MFE -18.54
Energy contribution -18.57
Covariance contribution 0.03
Combinations/Pair 1.13
Mean z-score -1.53
Structure conservation index 0.68
SVM decision value 0.11
SVM RNA-class probability 0.587181
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15327791 94 + 22224390
--UUGCAGGCCAGUCGGGCCGUAAAUGACGAAAUUUAAGCAUCUAUAUAUUUAUGGCCCAGAGUUUUUGCACUGGAAAACCA----CUGUGGCAAACGGA--------------------
--.......((....((((((((((((....................))))))))))))...(((((..((.(((....)))----.))..).)))))).-------------------- ( -26.45)
>DroSim_CAF1 8348 94 + 1
--UUGCAGGCCAGUCGGGCCGUAAAUGACGAAAUUUAAGCAUCCAUAUAUUUAUGGCCCAGAGUUUUUGCACUGGAAAACUA----CUGUGGCAAACGAA--------------------
--(((...((((...((((((((((((....................))))))))))))(((((((((......))))))).----)).))))...))).-------------------- ( -27.05)
>DroEre_CAF1 8400 94 + 1
--UUGCAGGCCAGUCGGGCCGUAAAUGACGAAAUUUAAGCAUCCAUAUAUUUAUGGCCCAGAGUUUUUGCACUGGAAAACUA----CUGUGGCAAACGAA--------------------
--(((...((((...((((((((((((....................))))))))))))(((((((((......))))))).----)).))))...))).-------------------- ( -27.05)
>DroYak_CAF1 8108 94 + 1
--UUGCAGGCCAGUCGGGCCGUAAAUGACGAAAUUUAAGCAUCCAUAUAUUUAUGGCCCAGAGUUUUUGCACUGGAAAACUA----CUGUGGCAAUCGAA--------------------
--(((...((((...((((((((((((....................))))))))))))(((((((((......))))))).----)).))))...))).-------------------- ( -27.05)
>DroAna_CAF1 29425 94 + 1
UUUUGCAGGCCAGUCGGGUCGUAAAUGACGAAAUUUAAGCGCCCAUAUAUUUAUGGCCCAGACUUUUUGCACUGGAAAAAUA----CUAAGA--AACAGG--------------------
((((.(((((.((((((((((((((((....................)))))))))))).))))....)).))).))))...----......--......-------------------- ( -23.55)
>DroPer_CAF1 14313 116 + 1
--UUGCAGGCCAGUCAGGCCAUAAAUGACGAAAUUUAAGCGGCCAUAUAUUUAUAGCCCAGACUUUUUGCACUGGAAAACUGAGUGCUAACA--GCCCGGGGUAGUGCAGGGGCAGGUGG
--.(((.((((.....)))).(((((......))))).)))((((((....))).((((.......((((((((.....(((.(.((.....--))))))..)))))))))))).))).. ( -32.31)
>consensus
__UUGCAGGCCAGUCGGGCCGUAAAUGACGAAAUUUAAGCAUCCAUAUAUUUAUGGCCCAGAGUUUUUGCACUGGAAAACUA____CUGUGGCAAACGAA____________________
...(((.((((.....)))).(((((......))))).))).(((((....))))).((((.((....)).))))............................................. (-18.54 = -18.57 +   0.03)

alignment

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secondary structure

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dotplot

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Window 2

Location 15,327,791 – 15,327,885
Length 94
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.79
Mean single sequence MFE -25.40
Consensus MFE -16.40
Energy contribution -16.68
Covariance contribution 0.28
Combinations/Pair 1.13
Mean z-score -1.65
Structure conservation index 0.65
SVM decision value 0.07
SVM RNA-class probability 0.567819
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15327791 94 - 22224390
--------------------UCCGUUUGCCACAG----UGGUUUUCCAGUGCAAAAACUCUGGGCCAUAAAUAUAUAGAUGCUUAAAUUUCGUCAUUUACGGCCCGACUGGCCUGCAA--
--------------------...((..((((((.----(((....))).)).........((((((.(((((....((((......))))....))))).))))))..))))..))..-- ( -25.80)
>DroSim_CAF1 8348 94 - 1
--------------------UUCGUUUGCCACAG----UAGUUUUCCAGUGCAAAAACUCUGGGCCAUAAAUAUAUGGAUGCUUAAAUUUCGUCAUUUACGGCCCGACUGGCCUGCAA--
--------------------...((..((((.((----.((((((........))))))))(((((.(((((..(((((.........))))).))))).)))))...))))..))..-- ( -25.10)
>DroEre_CAF1 8400 94 - 1
--------------------UUCGUUUGCCACAG----UAGUUUUCCAGUGCAAAAACUCUGGGCCAUAAAUAUAUGGAUGCUUAAAUUUCGUCAUUUACGGCCCGACUGGCCUGCAA--
--------------------...((..((((.((----.((((((........))))))))(((((.(((((..(((((.........))))).))))).)))))...))))..))..-- ( -25.10)
>DroYak_CAF1 8108 94 - 1
--------------------UUCGAUUGCCACAG----UAGUUUUCCAGUGCAAAAACUCUGGGCCAUAAAUAUAUGGAUGCUUAAAUUUCGUCAUUUACGGCCCGACUGGCCUGCAA--
--------------------...(...((((.((----.((((((........))))))))(((((.(((((..(((((.........))))).))))).)))))...))))...)..-- ( -22.90)
>DroAna_CAF1 29425 94 - 1
--------------------CCUGUU--UCUUAG----UAUUUUUCCAGUGCAAAAAGUCUGGGCCAUAAAUAUAUGGGCGCUUAAAUUUCGUCAUUUACGACCCGACUGGCCUGCAAAA
--------------------......--......----...((((.(((.((....((((.((((((((....)))))...........((((.....))))))))))).))))).)))) ( -20.40)
>DroPer_CAF1 14313 116 - 1
CCACCUGCCCCUGCACUACCCCGGGC--UGUUAGCACUCAGUUUUCCAGUGCAAAAAGUCUGGGCUAUAAAUAUAUGGCCGCUUAAAUUUCGUCAUUUAUGGCCUGACUGGCCUGCAA--
.....(((....((.......(((((--(.((.(((((.........))))).)).))))))(((((((....)))))))))..................((((.....)))).))).-- ( -33.10)
>consensus
____________________UCCGUUUGCCACAG____UAGUUUUCCAGUGCAAAAACUCUGGGCCAUAAAUAUAUGGAUGCUUAAAUUUCGUCAUUUACGGCCCGACUGGCCUGCAA__
........................................((...(((((..........((((((.(((((..(((((.........))))).))))).)))))))))))...)).... (-16.40 = -16.68 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:58 2006