Locus 692

Sequence ID 2R_DroMel_CAF1
Location 3,406,991 – 3,407,084
Length 93
Max. P 0.994620
window1219 window1220

overview

Window 9

Location 3,406,991 – 3,407,084
Length 93
Sequences 4
Columns 93
Reading direction forward
Mean pairwise identity 80.59
Mean single sequence MFE -21.16
Consensus MFE -17.89
Energy contribution -18.07
Covariance contribution 0.19
Combinations/Pair 1.12
Mean z-score -1.45
Structure conservation index 0.85
SVM decision value 0.22
SVM RNA-class probability 0.641032
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3406991 93 + 20766785
AAAUUUCAUUUUAGUGCCAAGCUGCCAGGCAGUCAGCUUGUGUGUUUAUUUGGAUUAAGCUGUACAUGUUUUUUAUGGUGUAGUUGUAGGGGG
....((((....((..((((((((.(.....).))))))).)..))....))))...(((((((((((.....))).))))))))........ ( -19.20)
>DroSec_CAF1 37237 89 + 1
AAAUUUCAUUUUAGUGCCAAGCUGCCAGGCUGGCAGCUUGUGUGUUUAUUUGGAUUAAGCUGUACAUGUUUUUUAUGAGGUAGAGGUUG----
....((((....((..((((((((((.....))))))))).)..))....)))).(((.((.(((..((.....))...))).)).)))---- ( -25.40)
>DroSim_CAF1 36549 89 + 1
AAAUUUCAUUUUAGUGCCGAGCUGCCAGGCUGGCAGCUUGUGUGUUUAUUUGGAUUAAGCUGUACAUGUUUUUUAUGAGGUAGAGGGGG----
....((((....((..((((((((((.....))))))))).)..))....))))....(((...((((.....)))).)))........---- ( -24.30)
>DroYak_CAF1 40767 70 + 1
AAAUUUCAUUUUAGUGCCAGGCUGG--------CAGCUUGUGUGUUUAUUUGGAUUAAGCUGCAAAUGAUUUUUAUGG---------------
(((..((((((((((.....))))(--------(((((((...............))))))))))))))..)))....--------------- ( -15.76)
>consensus
AAAUUUCAUUUUAGUGCCAAGCUGCCAGGCUGGCAGCUUGUGUGUUUAUUUGGAUUAAGCUGUACAUGUUUUUUAUGAGGUAGAGGU_G____
....((((....((..((((((((((.....))))))))).)..))....))))....................................... (-17.89 = -18.07 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 3,406,991 – 3,407,084
Length 93
Sequences 4
Columns 93
Reading direction reverse
Mean pairwise identity 80.59
Mean single sequence MFE -13.38
Consensus MFE -11.09
Energy contribution -12.15
Covariance contribution 1.06
Combinations/Pair 1.00
Mean z-score -2.58
Structure conservation index 0.83
SVM decision value 2.50
SVM RNA-class probability 0.994620
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3406991 93 - 20766785
CCCCCUACAACUACACCAUAAAAAACAUGUACAGCUUAAUCCAAAUAAACACACAAGCUGACUGCCUGGCAGCUUGGCACUAAAAUGAAAUUU
.....................................................(((((((.((....)))))))))................. ( -11.30)
>DroSec_CAF1 37237 89 - 1
----CAACCUCUACCUCAUAAAAAACAUGUACAGCUUAAUCCAAAUAAACACACAAGCUGCCAGCCUGGCAGCUUGGCACUAAAAUGAAAUUU
----.................................................(((((((((.....)))))))))................. ( -17.40)
>DroSim_CAF1 36549 89 - 1
----CCCCCUCUACCUCAUAAAAAACAUGUACAGCUUAAUCCAAAUAAACACACAAGCUGCCAGCCUGGCAGCUCGGCACUAAAAUGAAAUUU
----.................................................(.(((((((.....))))))).)................. ( -13.30)
>DroYak_CAF1 40767 70 - 1
---------------CCAUAAAAAUCAUUUGCAGCUUAAUCCAAAUAAACACACAAGCUG--------CCAGCCUGGCACUAAAAUGAAAUUU
---------------.........(((((((((((((.................))))))--------)..((...))....))))))..... ( -11.53)
>consensus
____C_ACCUCUACCCCAUAAAAAACAUGUACAGCUUAAUCCAAAUAAACACACAAGCUGCCAGCCUGGCAGCUUGGCACUAAAAUGAAAUUU
.....................................................(((((((((.....)))))))))................. (-11.09 = -12.15 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:47 2006