Locus 7198

Sequence ID 3L_DroMel_CAF1
Location 19,314,756 – 19,314,961
Length 205
Max. P 0.991518
window11689 window11690 window11691

overview

Window 9

Location 19,314,756 – 19,314,854
Length 98
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.77
Mean single sequence MFE -24.02
Consensus MFE -17.03
Energy contribution -17.25
Covariance contribution 0.22
Combinations/Pair 1.08
Mean z-score -1.58
Structure conservation index 0.71
SVM decision value 0.78
SVM RNA-class probability 0.847611
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19314756 98 + 23771897
GUUAUUUGUGCACGUCUGGCGAUGCAGUCGAGUGUUUAAUUUGAUUAAUUUUGUCAAGUUUAAAGCAAACACGAAUCGCUCUGCACUCUGCCAAAAAA----------------------
................(((((((((((.(((((((((((((((((.......))))))))......))))))...)))..))))).)).)))).....---------------------- ( -24.50)
>DroGri_CAF1 119202 92 + 1
GUUAUUUGUGCACGUCUGGCGAUGCACUCGAGUGUUUAAUUUGAUUAAUUUUGUCAAGCUUAAAGCAAAUACAAGU----UUGCACAGUGCCAAAU------------------------
...(((((.(((((..((((((.....((((((.....))))))......))))))..).....((((((....))----))))...)))))))))------------------------ ( -25.30)
>DroWil_CAF1 65856 92 + 1
GUUAUUUGUGCACGUCUGGCGAAGCAGUCGAGUGUUUAAUUUGAUUAAUUUUGUCAAGUCUAGAGUAAAUACGAAAUUCACUGCAUUCUGUU----------------------------
.......(((((((.(((......))).)).((((((((((((((.......)))))))......))))))).........)))))......---------------------------- ( -17.10)
>DroMoj_CAF1 108817 92 + 1
GUUAUUUGUGCACGUCUGGCGAUGCAGUCGAGUGUUUAAUUUGAUUAAUUUUGUCAAGUUUUAGGCAAAUACAAAU----UUGCACUGUGCCAAAU------------------------
...(((((.((((...((((((...((((((((.....))))))))....))))))......((((((((....))----)))).)))))))))))------------------------ ( -25.00)
>DroAna_CAF1 131110 120 + 1
GUUAUUUGUGCACGUCUGGCGAUGCAGUCGAGUGUUUAAUUUGAUUAAUUUUGUCAAGUUUAAAGCAAACACGAAGCGUUCUGCACUCUGCCAAAAAAAAAAAAGAAGAAGGAAAGGUGG
................(((((((((((.((.((((((((((((((.......))))))))......))))))....))..))))).)).))))........................... ( -24.80)
>DroPer_CAF1 84918 100 + 1
GUUAUUUGCGCACGUCUGGCAGUGCAGUCGAGUGUUUAAUUUGAUUAAUUUUGUCAAGUUUAAAGCAAAUACGAAAUGCUCUGCAUACUGCCAAAAAAAG--------------------
....((((.(((.((...((((.(((.(((..(((((((((((((.......))))))))..)))))....)))..))).))))..))))))))).....-------------------- ( -27.40)
>consensus
GUUAUUUGUGCACGUCUGGCGAUGCAGUCGAGUGUUUAAUUUGAUUAAUUUUGUCAAGUUUAAAGCAAAUACGAAU_GCUCUGCACUCUGCCAAAA________________________
.......(((((((.(((......))).)).((((((((((((((.......))))))))......)))))).........))))).................................. (-17.03 = -17.25 +   0.22)

alignment

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secondary structure

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dotplot

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Window 0

Location 19,314,854 – 19,314,945
Length 91
Sequences 4
Columns 91
Reading direction reverse
Mean pairwise identity 97.79
Mean single sequence MFE -26.48
Consensus MFE -25.09
Energy contribution -25.34
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.95
Structure conservation index 0.95
SVM decision value 0.64
SVM RNA-class probability 0.807114
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19314854 91 - 23771897
CCCAAUUUGGCACGCCCAAGGGCCCUCACAAAUAAAUAAAACGCAGCUGGAGAAACUGAAGAGCUGCAAACUGGCAGCCGGAAGCUGGGAA
((((.((((((..(((....)))...................((((((.............)))))).........))))))...)))).. ( -27.02)
>DroSec_CAF1 148072 90 - 1
CCCAAUUUGGCACGCCCAAGGGCCCUCACAAAUAAAUAAAACGCAGCUGGAGA-ACUGAAGAGCUGCAAACUGGCAGCCGGAAGCUGGGAA
((((.((((((..(((....)))...................((((((.....-.......)))))).........))))))...)))).. ( -27.10)
>DroSim_CAF1 164652 90 - 1
CCCAAUUUGGCACGCCCAAGGACCCUCACAAAUAAAUAAAACGCAGCUGGAGA-ACUGAAGAGCUGCAAACUGGCAGCCGGAAGCUGGGAA
((((.((((((..(((..((....))................((((((.....-.......)))))).....))).))))))...)))).. ( -24.70)
>DroEre_CAF1 148352 90 - 1
CCCAAUUUGGCACGCCCAAGGGCCCUCACAAAUAAAUAAAACGCAGCUGGAGA-ACUGGAGAGCUGCAAACUGGGAGCCGGAAGCUGGGAA
((((.((((((..(((....)))...................((((((.....-.......)))))).........))))))...)))).. ( -27.10)
>consensus
CCCAAUUUGGCACGCCCAAGGGCCCUCACAAAUAAAUAAAACGCAGCUGGAGA_ACUGAAGAGCUGCAAACUGGCAGCCGGAAGCUGGGAA
((((.((((((..(((....)))...................((((((.............)))))).........))))))...)))).. (-25.09 = -25.34 +   0.25)

alignment

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secondary structure

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dotplot

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Window 1

Location 19,314,868 – 19,314,961
Length 93
Sequences 5
Columns 107
Reading direction reverse
Mean pairwise identity 75.51
Mean single sequence MFE -27.00
Consensus MFE -18.31
Energy contribution -19.86
Covariance contribution 1.55
Combinations/Pair 1.00
Mean z-score -2.26
Structure conservation index 0.68
SVM decision value 2.27
SVM RNA-class probability 0.991518
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19314868 93 - 23771897
CACCG--------------AGUGCAGAGUGCCCAAUUUGGCACGCCCAAGGGCCCUCACAAAUAAAUAAAACGCAGCUGGAGAAACUGAAGAGCUGCAAACUGGCAG
..(((--------------.(((.((.(((((......)))))(((....))).))))).............((((((.............))))))....)))... ( -27.52)
>DroSec_CAF1 148086 88 - 1
----G--------------AGGGCCGAGUGCCCAAUUUGGCACGCCCAAGGGCCCUCACAAAUAAAUAAAACGCAGCUGGAGA-ACUGAAGAGCUGCAAACUGGCAG
----(--------------((((((..(((((......))))).......)))))))...............((((((.....-.......)))))).......... ( -31.20)
>DroSim_CAF1 164666 88 - 1
----G--------------AGUGCCGAGUGCCCAAUUUGGCACGCCCAAGGACCCUCACAAAUAAAUAAAACGCAGCUGGAGA-ACUGAAGAGCUGCAAACUGGCAG
----.--------------.(((((((((.....)))))))))(((..((....))................((((((.....-.......)))))).....))).. ( -26.70)
>DroEre_CAF1 148366 106 - 1
CACCGAGUGUAGAGUGUAGAGUGCCGAGUGCCCAAUUUGGCACGCCCAAGGGCCCUCACAAAUAAAUAAAACGCAGCUGGAGA-ACUGGAGAGCUGCAAACUGGGAG
..((.(((.....(((.((.(((((((((.....)))))))))(((....))).))))).............((((((.....-.......))))))..))).)).. ( -37.40)
>DroAna_CAF1 131260 72 - 1
CUCUG--------------AGUGCCGAGUGCCCAAUUUGCCACGCCCAAGGGCUCUCACAA-CAAAUACAAAAA--------------------UGCCAAAAUACAA
...((--------------((((.(((((.....))))).)))(((....)))..)))...-............--------------------............. ( -12.20)
>consensus
C_C_G______________AGUGCCGAGUGCCCAAUUUGGCACGCCCAAGGGCCCUCACAAAUAAAUAAAACGCAGCUGGAGA_ACUGAAGAGCUGCAAACUGGCAG
....................(((((((((.....)))))))))(((....)))...................((((((.............)))))).......... (-18.31 = -19.86 +   1.55)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:40:37 2006