Locus 10707

Sequence ID dm3.chr3R
Location 15,909,204 – 15,909,303
Length 99
Max. P 0.999090
window14718 window14719

overview

Window 8

Location 15,909,204 – 15,909,303
Length 99
Sequences 7
Columns 105
Reading direction forward
Mean pairwise identity 71.27
Shannon entropy 0.55853
G+C content 0.39994
Mean single sequence MFE -26.01
Consensus MFE -16.02
Energy contribution -16.97
Covariance contribution 0.95
Combinations/Pair 1.32
Mean z-score -2.61
Structure conservation index 0.62
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.64
SVM RNA-class probability 0.999090
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr3R 15909204 99 + 27905053
---GGGAGGGAAAAGUGGGUGGAG--AU-CAUACGUGUGCAUAUGCUAAAAGUAUGUACAAAGAUUGAUUUCCCUUUGUUUGCCUUUUAGUGUGUGUGAAUGUGU
---((((((.(((...(((.((((--((-((....(((((((((.......))))))))).....)))))))))))..))).))))))................. ( -30.20, z-score =  -3.64, R)
>droSim1.chr3R 21956971 99 - 27517382
---GGGAGGGAAAUAUGGGUGGGG--AU-CAUACGUGUGCAUAUGCUAAAAGUAUGUACAAAGAUUGAUUUCCCUUUGUUUGCCUUUUAGUGUGUGUGAAUGUGU
---((((((.(((((.(((.((..--((-((....(((((((((.......))))))))).....))))..)))))))))).))))))................. ( -30.50, z-score =  -3.25, R)
>droYak2.chr3R 4695603 83 + 28832112
-------------------UGGGG--AU-CAUACGUGUGCAUAUGCUAAAAGUAUGUACAAAGAUUGAUUUCCCUUUGUUUGCCUUUUAGUGUGUGUGAAUGUGU
-------------------.....--..-.((((((.(((((((((((((((.....((((((..........))))))....))))))))))))))).)))))) ( -24.30, z-score =  -3.26, R)
>droEre2.scaffold_4770 11995730 86 - 17746568
----------------GGGUGGGG--AU-CGUACGUGUGCAUAUGCUAAAAGUAUGUACAAAGAUUGAUUUCCCUUUGUUUGCCUUUUAGUGUGUGUGAAUGUGU
----------------........--..-..(((((.(((((((((((((((.....((((((..........))))))....))))))))))))))).))))). ( -23.40, z-score =  -2.29, R)
>droAna3.scaffold_13340 2479292 99 + 23697760
---GGGGCAAGAGGGAGGAUGGGGCUAU-CAUACGUGUGCAUAUGGUAAAAGUAUGUACAAAGAUUGAUUUCCCUUUGUUUGCCUUUUAGUAUGUG--AAUGUGU
---...((((((((.(((..((((..((-((....(((((((((.......))))))))).....))))..))))...))).)))))).)).....--....... ( -29.10, z-score =  -2.23, R)
>droMoj3.scaffold_6540 14093949 84 - 34148556
-------------------UGCGCUCACAUAUGCCUACCAAUAUGCUGAAAGUACCUACAAAGAUUGAUUUCCCUUUGUUUGCCUUUUAGCGC-UG-CGAUGUGC
-------------------.((((((.(((((........))))((((((((.....((((((..........))))))....))))))))..-.)-.)).)))) ( -19.00, z-score =  -1.91, R)
>droGri2.scaffold_15074 355895 101 - 7742996
CUAUGUGUGUCUGCUCAUAUGUGUAUACAUAUGCCUAGCAAUAUGCUGAA--UACAUAUAUGUUAAGAUUUCCCUUUGUUUGCCUUUUAGCGC-UG-GGAUAUAU
..((((((((((...(((((((((((.((...((.((....)).)))).)--))))))))))...))))..(((..((((........)))).-.)-)))))))) ( -25.60, z-score =  -1.66, R)
>consensus
____G___________GGGUGGGG__AU_CAUACGUGUGCAUAUGCUAAAAGUAUGUACAAAGAUUGAUUUCCCUUUGUUUGCCUUUUAGUGUGUGUGAAUGUGU
..............................((((((...(((((((((((((.....((((((..........))))))....)))))))))))))...)))))) (-16.02 = -16.97 +   0.95)

alignment

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secondary structure

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dotplot

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Window 9

Location 15,909,204 – 15,909,303
Length 99
Sequences 7
Columns 105
Reading direction reverse
Mean pairwise identity 71.27
Shannon entropy 0.55853
G+C content 0.39994
Mean single sequence MFE -16.33
Consensus MFE -7.22
Energy contribution -8.96
Covariance contribution 1.74
Combinations/Pair 1.05
Mean z-score -1.94
Structure conservation index 0.44
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.39
SVM RNA-class probability 0.934233
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr3R 15909204 99 - 27905053
ACACAUUCACACACACUAAAAGGCAAACAAAGGGAAAUCAAUCUUUGUACAUACUUUUAGCAUAUGCACACGUAUG-AU--CUCCACCCACUUUUCCCUCCC---
...............(((((((....(((((((........))))))).....)))))))((((((....))))))-..--.....................--- ( -15.70, z-score =  -2.54, R)
>droSim1.chr3R 21956971 99 + 27517382
ACACAUUCACACACACUAAAAGGCAAACAAAGGGAAAUCAAUCUUUGUACAUACUUUUAGCAUAUGCACACGUAUG-AU--CCCCACCCAUAUUUCCCUCCC---
...............(((((((....(((((((........))))))).....)))))))((((((....))))))-..--.....................--- ( -15.70, z-score =  -2.35, R)
>droYak2.chr3R 4695603 83 - 28832112
ACACAUUCACACACACUAAAAGGCAAACAAAGGGAAAUCAAUCUUUGUACAUACUUUUAGCAUAUGCACACGUAUG-AU--CCCCA-------------------
...............(((((((....(((((((........))))))).....)))))))((((((....))))))-..--.....------------------- ( -15.70, z-score =  -3.04, R)
>droEre2.scaffold_4770 11995730 86 + 17746568
ACACAUUCACACACACUAAAAGGCAAACAAAGGGAAAUCAAUCUUUGUACAUACUUUUAGCAUAUGCACACGUACG-AU--CCCCACCC----------------
...............(((((((....(((((((........))))))).....)))))))................-..--........---------------- ( -11.60, z-score =  -1.46, R)
>droAna3.scaffold_13340 2479292 99 - 23697760
ACACAUU--CACAUACUAAAAGGCAAACAAAGGGAAAUCAAUCUUUGUACAUACUUUUACCAUAUGCACACGUAUG-AUAGCCCCAUCCUCCCUCUUGCCCC---
.......--............((((((((((((........)))))))............((((((....))))))-..................)))))..--- ( -16.20, z-score =  -1.85, R)
>droMoj3.scaffold_6540 14093949 84 + 34148556
GCACAUCG-CA-GCGCUAAAAGGCAAACAAAGGGAAAUCAAUCUUUGUAGGUACUUUCAGCAUAUUGGUAGGCAUAUGUGAGCGCA-------------------
((.....)-).-(((((.((((((..(((((((........)))))))..)).))))..((((((........)))))).))))).------------------- ( -21.30, z-score =  -1.39, R)
>droGri2.scaffold_15074 355895 101 + 7742996
AUAUAUCC-CA-GCGCUAAAAGGCAAACAAAGGGAAAUCUUAACAUAUAUGUA--UUCAGCAUAUUGCUAGGCAUAUGUAUACACAUAUGAGCAGACACACAUAG
.....(((-(.-..(((....))).......))))..(((...(((((.((((--(...((((((.((...))))))))))))).)))))...)))......... ( -18.10, z-score =  -0.92, R)
>consensus
ACACAUUCACACACACUAAAAGGCAAACAAAGGGAAAUCAAUCUUUGUACAUACUUUUAGCAUAUGCACACGUAUG_AU__CCCCACCC___________C____
...............(((((((....(((((((........))))))).....)))))))((((((....))))))............................. ( -7.22 =  -8.96 +   1.74)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:29:00 2011