Locus 4334

Sequence ID 2L_DroMel_CAF1
Location 12,410,896 – 12,410,986
Length 90
Max. P 0.639211
window6828 window6829

overview

Window 8

Location 12,410,896 – 12,410,986
Length 90
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 79.65
Mean single sequence MFE -25.98
Consensus MFE -11.22
Energy contribution -11.67
Covariance contribution 0.45
Combinations/Pair 1.25
Mean z-score -2.42
Structure conservation index 0.43
SVM decision value 0.06
SVM RNA-class probability 0.564026
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12410896 90 + 22407834
UCAUUUACAAGUGCAAAUAUUUACCUUUGGUGUUGCAUAUGAAAGUGGGCUACCUGCUGGCAAAUAUGCACCAUGGAUAUAUUUGUU-------GGU---
......((....((((((((...((..((((((...((.((..((..((...))..))..)).))..)))))).))..)))))))).-------.))--- ( -24.00)
>DroVir_CAF1 308053 90 + 1
UCAUUUACAAGUGCAAAUAUUUACCUUUUGCGGCGCAUACGAAAGUGGGCUACAGCCUGGCAAAUAUGCAGCGUGGAAAUUUUAAUG-------CAU---
..........(((((...((((.((...((((((((.(((....))).))....)))..(((....))).))).)))))).....))-------)))--- ( -21.30)
>DroPse_CAF1 322715 100 + 1
UCAUUUACAAGUGCAAAUAUUUACAUUUCGUGGUGCAUAUGAAAGUGGGCUACAUGCUGGCAAAUAUGCACCAUGGAUAUAUUUAUGGAAUGGUAGUACU
.........(((((...(((((.(((((((((((((((((....((.(((.....))).))..)))))))))))))).......))))))))...))))) ( -32.11)
>DroMoj_CAF1 314003 90 + 1
UCAUUUACAAGUGCAAAUAUUUACCUUUUAUGGCGCACAUGAAAGUGGGCUACAGCCGGGCAAAUAUGCAGCAUGGAUGUUUAUGUG-------CAU---
.(((..(((.((((..((((((.(((....((((.(((......))).)))).....))).))))))...))))...)))..)))..-------...--- ( -23.00)
>DroAna_CAF1 221822 90 + 1
UCAUUUGCAAGUGCAAAUAUUUACAAUUCGUGGUGCAUACGAAAGUGGGCUGCCCUUCGGCAAAUACACACUAUGGAUAUAUUUAUU-------GGC---
..((((((....)))))).......(((((((((((.(((....))).))((((....)))).......))))))))).........-------...--- ( -24.30)
>DroPer_CAF1 325404 100 + 1
UCAUUUACAAGUGCAAAUAUUUACAUUUCGUGGUGCAUAUGAAAGUGGGCUACAUGCUGGCAAAUAUGCACCAUGGAUAUAUUUAUGGAAAGGUAGUACU
.........(((((............((((((((((((((....((.(((.....))).))..))))))))))))))..(((((......)))))))))) ( -31.20)
>consensus
UCAUUUACAAGUGCAAAUAUUUACAUUUCGUGGUGCAUAUGAAAGUGGGCUACAUGCUGGCAAAUAUGCACCAUGGAUAUAUUUAUG_______AGU___
..........(((((.....((((.(((((((.....)))))))))))((((.....)))).....)))))............................. (-11.22 = -11.67 +   0.45)

alignment

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secondary structure

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dotplot

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Window 9

Location 12,410,896 – 12,410,986
Length 90
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 79.65
Mean single sequence MFE -19.21
Consensus MFE -11.99
Energy contribution -10.75
Covariance contribution -1.24
Combinations/Pair 1.40
Mean z-score -1.58
Structure conservation index 0.62
SVM decision value 0.22
SVM RNA-class probability 0.639211
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12410896 90 - 22407834
---ACC-------AACAAAUAUAUCCAUGGUGCAUAUUUGCCAGCAGGUAGCCCACUUUCAUAUGCAACACCAAAGGUAAAUAUUUGCACUUGUAAAUGA
---...-------........((((..(((((((((((((((....))))).........))))))...))))..))))..(((((((....))))))). ( -17.50)
>DroVir_CAF1 308053 90 - 1
---AUG-------CAUUAAAAUUUCCACGCUGCAUAUUUGCCAGGCUGUAGCCCACUUUCGUAUGCGCCGCAAAAGGUAAAUAUUUGCACUUGUAAAUGA
---...-------.......((((.((.(.((((((((((((.(((....)))..........(((...)))...))))))))..))))).)).)))).. ( -18.00)
>DroPse_CAF1 322715 100 - 1
AGUACUACCAUUCCAUAAAUAUAUCCAUGGUGCAUAUUUGCCAGCAUGUAGCCCACUUUCAUAUGCACCACGAAAUGUAAAUAUUUGCACUUGUAAAUGA
..................((((.((..((((((((((......((.....))........)))))))))).)).))))...(((((((....))))))). ( -19.34)
>DroMoj_CAF1 314003 90 - 1
---AUG-------CACAUAAACAUCCAUGCUGCAUAUUUGCCCGGCUGUAGCCCACUUUCAUGUGCGCCAUAAAAGGUAAAUAUUUGCACUUGUAAAUGA
---..(-------(((((.............(((....)))..(((....))).......))))))(((......)))...(((((((....))))))). ( -20.80)
>DroAna_CAF1 221822 90 - 1
---GCC-------AAUAAAUAUAUCCAUAGUGUGUAUUUGCCGAAGGGCAGCCCACUUUCGUAUGCACCACGAAUUGUAAAUAUUUGCACUUGCAAAUGA
---..(-------(((............((((.((...((((....)))))).)))).((((.......))))))))....(((((((....))))))). ( -20.30)
>DroPer_CAF1 325404 100 - 1
AGUACUACCUUUCCAUAAAUAUAUCCAUGGUGCAUAUUUGCCAGCAUGUAGCCCACUUUCAUAUGCACCACGAAAUGUAAAUAUUUGCACUUGUAAAUGA
..................((((.((..((((((((((......((.....))........)))))))))).)).))))...(((((((....))))))). ( -19.34)
>consensus
___ACC_______CAUAAAUAUAUCCAUGGUGCAUAUUUGCCAGCAUGUAGCCCACUUUCAUAUGCACCACGAAAGGUAAAUAUUUGCACUUGUAAAUGA
...........................((.(((((((((((......)))).........))))))).))...........(((((((....))))))). (-11.99 = -10.75 +  -1.24)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:18 2006