Locus 2895

Sequence ID 2L_DroMel_CAF1
Location 8,319,566 – 8,319,669
Length 103
Max. P 0.998473
window4598 window4599

overview

Window 8

Location 8,319,566 – 8,319,669
Length 103
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 88.97
Mean single sequence MFE -37.80
Consensus MFE -30.96
Energy contribution -30.88
Covariance contribution -0.08
Combinations/Pair 1.19
Mean z-score -2.76
Structure conservation index 0.82
SVM decision value 1.06
SVM RNA-class probability 0.907765
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8319566 103 + 22407834
AAUACAUCGGUGACCAUGCGAUUGCGAUCCAAAUAGGUUUGCUGGUACAAAGAUUGC---UGGUGCAGCGACUGCAUGGUCACCGAGGGCACUUGGUAGAUGGGGA
....(((((((((((((((....((((.((.....)).))))........((.((((---((...)))))))))))))))))))(((....)))....)))).... ( -39.80)
>DroSec_CAF1 2324 103 + 1
AAUACAUCGGUGACCAUGCGAUUGCGAUCCAAAUAGGUUUGCUGGUACAAAGAUUGC---UGGUGCAGCGACUGCAUGGUCACCGAGGGCACUUGGUAAAUGGGUA
....(.(((((((((((((....((((.((.....)).))))........((.((((---((...))))))))))))))))))))).)..(((((.....))))). ( -38.20)
>DroSim_CAF1 2314 103 + 1
AAUACAUCGGUGACCAUGCGAUUGCGAUCCAAAUAGGUUUGCUGGUACAAAGAUUGC---UGGUGCAGCGACUGCAUGGUCACCGAGGGCACUUGGUAAAUGGGUA
....(.(((((((((((((....((((.((.....)).))))........((.((((---((...))))))))))))))))))))).)..(((((.....))))). ( -38.20)
>DroEre_CAF1 2423 106 + 1
AAUACAUCGGUGACCAUGCGAUUGCGAUCCAAAUAGGUUUGCUGGUACAAGGAUUGCUGCUGGUGCAUCGACUGCAUGGUCACCGAGGGCACUUGAUAUAUGGGGA
....(.((((((((((((((...(((((((...(((.....)))......)))))))(((....))).....)))))))))))))).).................. ( -38.50)
>DroWil_CAF1 2554 103 + 1
AUGACAUCAGUUACCAUACGAUUGCGAUCCAAAUAGGUUUGCUGAUACAUGGAUUGC---UGGCGCAUUGAUUGUGUAGCCACUGUGGGCAACUGGAAAACUGGUA
......((((((.(((((.....((((((((....((....))......))))))))---((((((((.....)))).)))).)))))..)))))).......... ( -30.10)
>DroYak_CAF1 2397 103 + 1
AAUACAUCGGUGACCAUGCGAUUGCGGUCCAAGUAGGUUUGCUGGUACAAGGAUUGC---UGGUGCAGCGACUGCAUGGUCACCGAGGGCACUUGGUAGAUGGGGA
....((((((((((((((((.((((.(((((.((((.((((......))))..))))---))).)).)))).))))))))))))(((....)))....)))).... ( -42.00)
>consensus
AAUACAUCGGUGACCAUGCGAUUGCGAUCCAAAUAGGUUUGCUGGUACAAAGAUUGC___UGGUGCAGCGACUGCAUGGUCACCGAGGGCACUUGGUAAAUGGGGA
....(.((((((((((((((.((((...(((....(((((..........))))).....)))....)))).)))))))))))))).).................. (-30.96 = -30.88 +  -0.08)

alignment

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secondary structure

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dotplot

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Window 9

Location 8,319,566 – 8,319,669
Length 103
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 88.97
Mean single sequence MFE -34.50
Consensus MFE -30.19
Energy contribution -29.62
Covariance contribution -0.58
Combinations/Pair 1.24
Mean z-score -4.08
Structure conservation index 0.88
SVM decision value 3.11
SVM RNA-class probability 0.998473
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8319566 103 - 22407834
UCCCCAUCUACCAAGUGCCCUCGGUGACCAUGCAGUCGCUGCACCA---GCAAUCUUUGUACCAGCAAACCUAUUUGGAUCGCAAUCGCAUGGUCACCGAUGUAUU
.............(((((..(((((((((((((....((((...))---)).............((...((.....))...))....))))))))))))).))))) ( -35.60)
>DroSec_CAF1 2324 103 - 1
UACCCAUUUACCAAGUGCCCUCGGUGACCAUGCAGUCGCUGCACCA---GCAAUCUUUGUACCAGCAAACCUAUUUGGAUCGCAAUCGCAUGGUCACCGAUGUAUU
.............(((((..(((((((((((((....((((...))---)).............((...((.....))...))....))))))))))))).))))) ( -35.60)
>DroSim_CAF1 2314 103 - 1
UACCCAUUUACCAAGUGCCCUCGGUGACCAUGCAGUCGCUGCACCA---GCAAUCUUUGUACCAGCAAACCUAUUUGGAUCGCAAUCGCAUGGUCACCGAUGUAUU
.............(((((..(((((((((((((....((((...))---)).............((...((.....))...))....))))))))))))).))))) ( -35.60)
>DroEre_CAF1 2423 106 - 1
UCCCCAUAUAUCAAGUGCCCUCGGUGACCAUGCAGUCGAUGCACCAGCAGCAAUCCUUGUACCAGCAAACCUAUUUGGAUCGCAAUCGCAUGGUCACCGAUGUAUU
.............(((((..(((((((((((((......(((....)))((.((((..(((..........)))..)))).))....))))))))))))).))))) ( -37.80)
>DroWil_CAF1 2554 103 - 1
UACCAGUUUUCCAGUUGCCCACAGUGGCUACACAAUCAAUGCGCCA---GCAAUCCAUGUAUCAGCAAACCUAUUUGGAUCGCAAUCGUAUGGUAACUGAUGUCAU
...........((((((((....(((....))).....(((((...---((.(((((.(((..........))).))))).))...)))))))))))))....... ( -26.20)
>DroYak_CAF1 2397 103 - 1
UCCCCAUCUACCAAGUGCCCUCGGUGACCAUGCAGUCGCUGCACCA---GCAAUCCUUGUACCAGCAAACCUACUUGGACCGCAAUCGCAUGGUCACCGAUGUAUU
.............(((((..(((((((((((((.((.(((((....---))).(((..(((..........)))..)))..)).)).))))))))))))).))))) ( -36.20)
>consensus
UACCCAUUUACCAAGUGCCCUCGGUGACCAUGCAGUCGCUGCACCA___GCAAUCCUUGUACCAGCAAACCUAUUUGGAUCGCAAUCGCAUGGUCACCGAUGUAUU
.............(((((..(((((((((((((......(((.......)))............((...((.....))...))....))))))))))))).))))) (-30.19 = -29.62 +  -0.58)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:38:58 2006