Locus 4409

Sequence ID 3R_DroMel_CAF1
Location 11,645,837 – 11,645,997
Length 160
Max. P 0.995611
window7199 window7200

overview

Window 9

Location 11,645,837 – 11,645,957
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.42
Mean single sequence MFE -38.40
Consensus MFE -35.00
Energy contribution -34.92
Covariance contribution -0.08
Combinations/Pair 1.11
Mean z-score -1.93
Structure conservation index 0.91
SVM decision value 2.60
SVM RNA-class probability 0.995611
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11645837 120 - 27905053
UACUCGGUGUACUCGCCUGGAAUUUUGCGAAAGUCAAAGUUCAGACAUAUGAAGGGAUGUGGGCCACACGAUCCCUUAAUCGAGUAUAUAUCGAAGGGCAUGUUGUGAGUGAGAAGGCUA
(((((((((((((((.(((.((((((((....).)))))))))).......((((((((((.....))).)))))))...))))))))).((....)).......))))))......... ( -39.60)
>DroSec_CAF1 26689 120 - 1
UACUCGGUGUACUCGCCUGGAAUUUUGCGGAAGUCGAAGUUUAAACAGAUGAAGGGAUGUGGGCCACACGAUCCCUUAAUCGAGUAUAUAUCGAAGGGCAUGUUGUGAGUGAGCAGGCUA
...(((((((((((.....(((((((((....).)))))))).....(((.((((((((((.....))).))))))).)))))))))..)))))..(((.((((.......)))).))). ( -39.90)
>DroSim_CAF1 28875 120 - 1
UACUCGGUGUACUCGCCUGGAAUUUUGCGGAAAUCGAAGUUUAGACAGAUGAAGGGAUGUGGGCCACAUGAUCCCUUAAUCGAGUAUAUAUCGAAGGGCAUGUUGUGAGUGAGCAGGCUA
...((((((((((((.(((.(((((((.......)))))))))).).(((.((((((((((.....))).))))))).)))))))))..)))))..(((.((((.......)))).))). ( -33.70)
>DroEre_CAF1 24583 120 - 1
UACUCGGUGUACUCGCCCGGAAUUUUGCGGAAGUCAAAGUUUAGACAGAUGAAAGGAUGUGGGCCACACGAUCCCUUAAUUGAGUAUAUAUCGAAGGGCAUGUUGUGAGUGAGUAGGCUA
.....(((.(((((((((.(((((((((....).))))))))..(((..(....)..)))))))..((((((((((...((((.......))))))))...))))))...))))).))). ( -39.60)
>DroYak_CAF1 27171 120 - 1
UACUCGGUGUACUCGCCCGGAAUUUUGCGGAAGUCAAAGUUUAGACAGAUGAAGGGAUGUGGGCCGCACGAUCCCUUAAUCGAGUAUAUAUCGAAGGGCAUGUUGUGAGUGAGCAGGCUA
...(((((((((((.....(((((((((....).)))))))).....(((.((((((((((.....))).))))))).)))))))))..)))))..(((.((((.......)))).))). ( -39.20)
>consensus
UACUCGGUGUACUCGCCUGGAAUUUUGCGGAAGUCAAAGUUUAGACAGAUGAAGGGAUGUGGGCCACACGAUCCCUUAAUCGAGUAUAUAUCGAAGGGCAUGUUGUGAGUGAGCAGGCUA
((((((((((((((.....(((((((((....).)))))))).....(((.((((((((((.....))).))))))).))))))))))).((....)).......))))))......... (-35.00 = -34.92 +  -0.08)

alignment

Postscript

secondary structure

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dotplot

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Window 0

Location 11,645,877 – 11,645,997
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.00
Mean single sequence MFE -37.52
Consensus MFE -34.78
Energy contribution -35.54
Covariance contribution 0.76
Combinations/Pair 1.10
Mean z-score -1.39
Structure conservation index 0.93
SVM decision value 1.18
SVM RNA-class probability 0.927150
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11645877 120 - 27905053
CUCCAGAUUGUCGUCUGUGAUGAACUGCGCCUUAACGGAGUACUCGGUGUACUCGCCUGGAAUUUUGCGAAAGUCAAAGUUCAGACAUAUGAAGGGAUGUGGGCCACACGAUCCCUUAAU
...((...((((......((.(.(((.((......)).))).)))((((....))))..(((((((((....).)))))))).))))..))((((((((((.....))).)))))))... ( -37.70)
>DroSec_CAF1 26729 120 - 1
CUCCAGAUUGUCGUCUGUAAUGAACUGCGCCUUAACAGAGUACUCGGUGUACUCGCCUGGAAUUUUGCGGAAGUCGAAGUUUAAACAGAUGAAGGGAUGUGGGCCACACGAUCCCUUAAU
..........((((((((..((((((.((.(((..((((((.((.((((....)))).)).))))))...))).)).)))))).))))))))(((((((((.....))).)))))).... ( -40.60)
>DroSim_CAF1 28915 120 - 1
CUCCAGAUUGUCGUCUGUAAUGAACUGCGCCUUAACAGAGUACUCGGUGUACUCGCCUGGAAUUUUGCGGAAAUCGAAGUUUAGACAGAUGAAGGGAUGUGGGCCACAUGAUCCCUUAAU
..........((((((((..((((((.((..((..((((((.((.((((....)))).)).))))))..))...)).)))))).))))))))(((((((((.....))).)))))).... ( -36.20)
>DroEre_CAF1 24623 120 - 1
CUCUAGAUUGUCGUCUGUGAUGAACUGUGCCUUAACGGAGUACUCGGUGUACUCGCCCGGAAUUUUGCGGAAGUCAAAGUUUAGACAGAUGAAAGGAUGUGGGCCACACGAUCCCUUAAU
..........((((((((..((((((.((.(((....((((((.....))))))..(((........)))))).)).)))))).))))))))..(((((((.....))).))))...... ( -37.10)
>DroYak_CAF1 27211 120 - 1
CUCUAGAUUGUCGUCAGUAAUGAACUGCGCCUUAACUGAGUACUCGGUGUACUCGCCCGGAAUUUUGCGGAAGUCAAAGUUUAGACAGAUGAAGGGAUGUGGGCCGCACGAUCCCUUAAU
.......((((((.((((.....))))).........((((((.....)))))).....(((((((((....).)))))))).)))))...((((((((((.....))).)))))))... ( -36.00)
>consensus
CUCCAGAUUGUCGUCUGUAAUGAACUGCGCCUUAACAGAGUACUCGGUGUACUCGCCUGGAAUUUUGCGGAAGUCAAAGUUUAGACAGAUGAAGGGAUGUGGGCCACACGAUCCCUUAAU
..........((((((((..((((((.((.(((..((((((.((.((((....)))).)).))))))...))).)).)))))).))))))))(((((((((.....))).)))))).... (-34.78 = -35.54 +   0.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:23 2006