Locus 8375

Sequence ID dm3.chr3L
Location 22,329,752 – 22,329,864
Length 112
Max. P 0.958737
window11502 window11503

overview

Window 2

Location 22,329,752 – 22,329,864
Length 112
Sequences 7
Columns 119
Reading direction forward
Mean pairwise identity 73.07
Shannon entropy 0.53156
G+C content 0.49942
Mean single sequence MFE -32.53
Consensus MFE -11.85
Energy contribution -14.80
Covariance contribution 2.95
Combinations/Pair 1.34
Mean z-score -1.87
Structure conservation index 0.36
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.14
SVM RNA-class probability 0.561303
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 22329752 112 + 24543557
---GGGAGCUGGACUUAAAUUCACGUACGAGGACC----GAAAUGGCCACAGCUCUUACCUAUGGCCAAAGUCAAGCCCAAAGGCAAAGCCAUAGCUACAGCAAUAUGGCCGUGGCCAA
---((((((((.........((......))((.((----.....)))).)))))))).....((((((.......(((....)))...((((((((....))..))))))..)))))). ( -37.80, z-score =  -2.07, R)
>droSim1.chr3L 21664116 112 + 22553184
---GGGAGCUGAACUUAAAUUCACGUACGAGGACC----GAAAUGACCACAGCUCUUACCUAUGGCCAAAGUCAAGCCCAAAGGCAAAGCCAUAGCUACAGCUAUAUGGCCGUGGCCAA
---((((((((.........((......))((...----.......)).)))))))).....((((((..((((.(((....)))......(((((....))))).))))..)))))). ( -35.40, z-score =  -2.41, R)
>droSec1.super_11 2265817 112 + 2888827
---GGGAGCUGAACUUAAAUUCACGUACGAGGACC----GAAAUGGCCACAGCUCUUACCUAUGGCCAAAGUCAAGCCCAAAGGCAAAGCCAUAGCUACAGCUAUAUGGCCGUGGCCAA
---((((((((.........((......))((.((----.....)))).)))))))).....((((((..((((.(((....)))......(((((....))))).))))..)))))). ( -39.20, z-score =  -2.79, R)
>droYak2.chr3L 22741414 111 + 24197627
---GGGAGCUGGACUUAAAUUCACGUACGAU-ACC----GAAAUGGCCACAGCUCUUACCUAUGGCCAAAGUCAAGCCCAAAGGCAAAGCCAUAGCUACAGCUAUAUUGCCGUGGCCAA
---.((.(((.(((((...........((..-..)----)...((((((.((.......)).))))))))))).)))))...(((...)))...(((((.((......)).)))))... ( -34.50, z-score =  -1.81, R)
>droEre2.scaffold_4784 22000252 111 + 25762168
---GGGAGCUGGACUUAAAUUCACGUACCAGGACC----GGAAUGGCCACAGCUCU-ACCUAUGGCCAAAGUCAAGCCCAAAGGCAAAGCCAUAGCUACGGCUAUAUGGCCGUGACCAA
---.((.(((.(((((...........((......----))..((((((.((....-..)).))))))))))).)))))...((((..((((((((....))))..))))..)).)).. ( -40.60, z-score =  -2.60, R)
>droAna3.scaffold_13337 22068897 112 + 23293914
---GGCAACUGGACUUAAACCCACGUACAAGGACCAUUCGAAAUGGCCACAGCUCUCACCUACAGCCAAAGUCAUGCCCAAUGCCA---CCAAUACCACAUUCCCAUGCCCAUGUCCA-
---(((((((((........))).))....((..((((.(..(((((....(((.........)))....)))))..).))))...---))...............))))........- ( -17.10, z-score =   0.76, R)
>droGri2.scaffold_15110 14710726 99 + 24565398
AAAAGUAACAAAUUUACCGCAUGCGGACAAAUGCA---UAAGGCGUCCAAAGCUUUUACGUCUAUCCGAAUACGGACAUACAGCCA---UCGGAUACACAUGCAU--------------
................(((....)))....(((((---((((((.......)))))...((.(((((((....((........)).---))))))).))))))))-------------- ( -23.10, z-score =  -2.18, R)
>consensus
___GGGAGCUGGACUUAAAUUCACGUACGAGGACC____GAAAUGGCCACAGCUCUUACCUAUGGCCAAAGUCAAGCCCAAAGGCAAAGCCAUAGCUACAGCUAUAUGGCCGUGGCCAA
....((.(((..((((...(((........)))..........((((((.((.......)).))))))))))..)))))...((((..((((((((....))..))))))..)).)).. (-11.85 = -14.80 +   2.95)

alignment

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secondary structure

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dotplot

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Window 3

Location 22,329,752 – 22,329,864
Length 112
Sequences 7
Columns 119
Reading direction reverse
Mean pairwise identity 73.07
Shannon entropy 0.53156
G+C content 0.49942
Mean single sequence MFE -38.14
Consensus MFE -22.15
Energy contribution -24.16
Covariance contribution 2.01
Combinations/Pair 1.52
Mean z-score -1.62
Structure conservation index 0.58
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.66
SVM RNA-class probability 0.958737
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 22329752 112 - 24543557
UUGGCCACGGCCAUAUUGCUGUAGCUAUGGCUUUGCCUUUGGGCUUGACUUUGGCCAUAGGUAAGAGCUGUGGCCAUUUC----GGUCCUCGUACGUGAAUUUAAGUCCAGCUCCC---
..(((...(((((((..((....)))))))))..)))...(((((.((((((((((((((.......))))))))).(((----(((......)).))))...))))).)))))..--- ( -40.60, z-score =  -1.78, R)
>droSim1.chr3L 21664116 112 - 22553184
UUGGCCACGGCCAUAUAGCUGUAGCUAUGGCUUUGCCUUUGGGCUUGACUUUGGCCAUAGGUAAGAGCUGUGGUCAUUUC----GGUCCUCGUACGUGAAUUUAAGUUCAGCUCCC---
.((((((((((..((((((....))))))..(((((((...((((.......))))..))))))).))))))))))....----............(((((....)))))......--- ( -38.50, z-score =  -1.59, R)
>droSec1.super_11 2265817 112 - 2888827
UUGGCCACGGCCAUAUAGCUGUAGCUAUGGCUUUGCCUUUGGGCUUGACUUUGGCCAUAGGUAAGAGCUGUGGCCAUUUC----GGUCCUCGUACGUGAAUUUAAGUUCAGCUCCC---
.((((((((((..((((((....))))))..(((((((...((((.......))))..))))))).))))))))))....----............(((((....)))))......--- ( -41.20, z-score =  -2.02, R)
>droYak2.chr3L 22741414 111 - 24197627
UUGGCCACGGCAAUAUAGCUGUAGCUAUGGCUUUGCCUUUGGGCUUGACUUUGGCCAUAGGUAAGAGCUGUGGCCAUUUC----GGU-AUCGUACGUGAAUUUAAGUCCAGCUCCC---
.((((((((((..((((((....))))))..(((((((...((((.......))))..))))))).)))))))))).(((----(((-(...))).))))................--- ( -40.40, z-score =  -1.92, R)
>droEre2.scaffold_4784 22000252 111 - 25762168
UUGGUCACGGCCAUAUAGCCGUAGCUAUGGCUUUGCCUUUGGGCUUGACUUUGGCCAUAGGU-AGAGCUGUGGCCAUUCC----GGUCCUGGUACGUGAAUUUAAGUCCAGCUCCC---
..((..(((((......))))).(((((((((((((((...((((.......))))..))))-)))))))))))....))----((..((((.((..........))))))..)).--- ( -46.20, z-score =  -2.99, R)
>droAna3.scaffold_13337 22068897 112 - 23293914
-UGGACAUGGGCAUGGGAAUGUGGUAUUGG---UGGCAUUGGGCAUGACUUUGGCUGUAGGUGAGAGCUGUGGCCAUUUCGAAUGGUCCUUGUACGUGGGUUUAAGUCCAGUUGCC---
-(((((.(((((.....(((((.(......---).)))))((((.(((...((((..(((.(....))))..))))..)))....))))..........))))).)))))......--- ( -31.20, z-score =   0.74, R)
>droGri2.scaffold_15110 14710726 99 - 24565398
--------------AUGCAUGUGUAUCCGA---UGGCUGUAUGUCCGUAUUCGGAUAGACGUAAAAGCUUUGGACGCCUUA---UGCAUUUGUCCGCAUGCGGUAAAUUUGUUACUUUU
--------------.((((((.(..(((((---.((((((.((((((....)))))).)).....)))))))))..)..))---))))((((.(((....)))))))............ ( -28.90, z-score =  -1.78, R)
>consensus
UUGGCCACGGCCAUAUAGCUGUAGCUAUGGCUUUGCCUUUGGGCUUGACUUUGGCCAUAGGUAAGAGCUGUGGCCAUUUC____GGUCCUCGUACGUGAAUUUAAGUCCAGCUCCC___
.((((((((((..((((((....))))))..(((((((.(((.(........).))).))))))).))))))))))........................................... (-22.15 = -24.16 +   2.01)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:44:26 2011