Locus 10351

Sequence ID dm3.chr3R
Location 13,213,471 – 13,213,646
Length 175
Max. P 0.834141
window14234 window14235

overview

Window 4

Location 13,213,471 – 13,213,591
Length 120
Sequences 15
Columns 120
Reading direction reverse
Mean pairwise identity 81.83
Shannon entropy 0.40953
G+C content 0.48333
Mean single sequence MFE -37.41
Consensus MFE -21.90
Energy contribution -20.79
Covariance contribution -1.11
Combinations/Pair 1.61
Mean z-score -1.37
Structure conservation index 0.59
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.02
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>dm3.chr3R 13213471 120 - 27905053
CGAUUGACUGAGAAGUAGGCAGGCGUUUUUUGCCGUCAACUUCACCUCCAGAUAGUUGACGCAUGCUCUGGCUAAGUGCGGGACAAUGUACUUCUUGGCUGCAUAGAGCGUGGCCAGAAU
......(((....))).(((.((((.....))))(((((((((.......)).))))))).(((((((((((((((((((......))))))...)))))....)))))))))))..... ( -41.40, z-score =  -1.43, R)
>droSim1.chr3R 19258331 120 + 27517382
CGAUUGACUGAGAAGUAGGCAGGCGUUUUUUGCCGUCAACUUCACCUCCAGAUAGUUGACGCAUGCUCUGGCUAAGUGCGGGACAAUGUACUUCUUGGCUGCAUACAGCGUGGCCAGAAU
..............(((.((.((((.....))))(((((((((.......)).))))))))).)))((((((((((((((......)))))).....((((....)))).)))))))).. ( -41.20, z-score =  -1.47, R)
>droSec1.super_12 1188265 120 + 2123299
CGAUUGACUGAGAAGUAGGCAGGCGUUUUUUGCCGUCAACUUCACCUCCAGAUAGUUGACGCAUGCUCUGGCUAAGUGCGGGACAAUGUACUUCUUGGCUGCAUACAGCGUGGCCAGAAU
..............(((.((.((((.....))))(((((((((.......)).))))))))).)))((((((((((((((......)))))).....((((....)))).)))))))).. ( -41.20, z-score =  -1.47, R)
>droYak2.chr3R 17305281 120 - 28832112
CGAUUGACUGAGAAGUAGGCAGGCGUUUUUUGCCGUCAACUUCACCUCCAGGUAGUUGACGCAUGCUCUGGCUAAGUGCGGGACGAUGUACUUCUUGGCCGCAUAUAGCGUGGCCAGAAU
.........((((((((.((.((((.....))))(((((((..(((....)))))))))))).((.(((.((.....)).)))))...))))))))((((((.......))))))..... ( -45.20, z-score =  -2.23, R)
>droEre2.scaffold_4770 9330120 120 + 17746568
CGAUUGACUGAGAAGUAGGCAGGCGUUUUUUGCCGUCAACUUCACCUCCAGGUAGUUGACGCAUGCUCUGGCUAAGUGCGGGACGAUGUACUUCUUGGCCGCAUAUAGCGUGGCCAGAAU
.........((((((((.((.((((.....))))(((((((..(((....)))))))))))).((.(((.((.....)).)))))...))))))))((((((.......))))))..... ( -45.20, z-score =  -2.23, R)
>droAna3.scaffold_13340 10424806 120 - 23697760
CGAUUGACUGAGAAGUAGGCAGGCGUUUUUUGCCGUCAACUUCACUUCCAGAUAGUUAACACAGGCUCUGGCCAGAUGGGGCACGAUGUACUUUUUGGCAGCGUACAGCGUAGCCAGGAU
.(.(((((((.(((((.(((.((((.....))))))).))))).(.....).))))))))(((.((((((......))))))....)))...(((((((.(((.....))).))))))). ( -36.40, z-score =  -0.76, R)
>dp4.chr2 21580416 120 + 30794189
CGAUUGACUGAGAAGUAGGCAGGCGUUUUUUGCCGUCAGUUUCACUUCCAAAUAGUUGACGCACGCCCGUGCCAGAUGCGGUACAAUGUACUUUUUGGCCGCAUACAGAGUGGCCAAGAU
.........(((((((((((.((((.....))))((((..(............)..))))....))).(((((......)))))....))))))))((((((.......))))))..... ( -37.80, z-score =  -1.60, R)
>droPer1.super_0 8801965 120 + 11822988
CGAUUGACUGAGAAGUAGGCAGGCGUUUUUUGCCGUCAGUUUCACUUCCAAAUAGUUGACGCACGCCCGUGCCAGAUGCGGUACAAUGUACUUUUUGGCCGCAUACAGAGUGGCCAAGAU
.........(((((((((((.((((.....))))((((..(............)..))))....))).(((((......)))))....))))))))((((((.......))))))..... ( -37.80, z-score =  -1.60, R)
>droWil1.scaffold_181089 1813920 120 - 12369635
CGAUUGACUGAGAAGUAGGCAGGCGUUUUUUGCCGUCAACUUAACCUCGAGAUAGUUGACGCAUGCGCGAGCCAAAUGGGGAACAAUAUACUUCUUAGCCGCAUAAAGAGUGGCCAAAAU
...(((..((((((((((((..((((....(((.(((((((............)))))))))).))))..))).....(....)....)))))))))(((((.......))))))))... ( -40.00, z-score =  -3.22, R)
>droVir3.scaffold_13047 14322990 120 - 19223366
CGAUUGACUGAGAAGUAGGCAGGCGUUUUUUGCCGUCAGUUUUACUUCCAGAUAGUUGACGCAGGCUCGCGCCAAAUGUGGCACAAUAUAUUUCUUGGCUGCAUACAAAGUGGCCAGUAU
((((((.(((.(((((((((.((((.....))))))).....))))))))).)))))).....(((.(((.....(((..((.(((........)))))..))).....))))))..... ( -38.10, z-score =  -1.74, R)
>droMoj3.scaffold_6540 17740295 120 - 34148556
CGAUUGACUGAGAAGUAGGCAGGCGUUUUUUGCCGUCAACUUGACUUCCAGAUAGUUGACGCAGGCGCGCGCCAAGUGUGGCACAAUAUACUUUUUAGCUGCGUACAAUGUGGCCAGUAU
..((((..(((((((((.((.((((.....))))(((((((............))))))))).(.(((((.....))))).)......)))))))))((..(((...)))..)))))).. ( -38.40, z-score =  -1.02, R)
>droGri2.scaffold_14830 623058 120 + 6267026
CGAUUGACUGAGAAGUAGGCAGGCGUUUUUUGCCGUCAACUUAACUUCGAGAUAAUUGACACAGGCGCGCGCCAAAUGUGGCACAAUAUACUUCUUGGCUGCAUACAAAGUGGCCAAAAU
.........((((((((.((.((((.....))))(((((.(((.(.....).))))))))......))(.((((....)))).)....))))))))(((..(.......)..)))..... ( -35.10, z-score =  -1.49, R)
>anoGam1.chr2R 54742279 120 - 62725911
CGACUGGCUCAGCAGCAGACAGGCGUUUUUCGCCGUGAGACUAGUUUCCAGAUAGUUGACGCACGCCCGGGCCAGAUGUGGUACGAUGUACUUUUUCGCGACGUACAGCGUUGCCAGCAC
...(((((((.((........((((.....))))(((.(((((.........)))))....)))))..))))))).(((((((((.(((((...........))))).)).))))).)). ( -40.20, z-score =  -0.82, R)
>apiMel3.Group12 2956319 120 + 9182753
AGAUUGACUUAAAAGUAAACAUGCAUUUUUUGCUGUUAAACUUGUUUCUAAAUAAUUAACACAUGCUCUUGCUAAAUGAGGGACUAUAUAUUUUUUAGCAACAUAAAGUGUUGCUAAUAC
............((((.((((.(((.....)))))))..))))((..((...............((....))......))..))..........((((((((((...))))))))))... ( -20.40, z-score =  -0.23, R)
>triCas2.ChLG7 13895862 120 + 17478683
CGAUUGACUCAACAAGAGACAGGCGUUUUUCGCAGUCAGACUAGUUUCGAGAUAGUUCACACAGGCACGCGCCAAAUGCGGAACGAUAUAUUUUUUCGCUACGUAUAAAGUUGCAAGAAC
.......(((.......(((..(((.....))).))).((......)))))...((((.....(((....)))..(((((...(((.........)))...)))))..........)))) ( -22.80, z-score =   0.79, R)
>consensus
CGAUUGACUGAGAAGUAGGCAGGCGUUUUUUGCCGUCAACUUCACUUCCAGAUAGUUGACGCAUGCUCGGGCCAAAUGCGGGACAAUGUACUUCUUGGCUGCAUACAGCGUGGCCAGAAU
...(((....((((((((((.((((.....)))))))......................((((.((....))....))))........)))))))..(((((.......))))))))... (-21.90 = -20.79 +  -1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 13,213,526 – 13,213,646
Length 120
Sequences 15
Columns 120
Reading direction forward
Mean pairwise identity 87.52
Shannon entropy 0.28835
G+C content 0.51776
Mean single sequence MFE -41.07
Consensus MFE -27.15
Energy contribution -26.19
Covariance contribution -0.95
Combinations/Pair 1.50
Mean z-score -2.13
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.85
SVM RNA-class probability 0.834141
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 13213526 120 + 27905053
CAUGCGUCAACUAUCUGGAGGUGAAGUUGACGGCAAAAAACGCCUGCCUACUUCUCAGUCAAUCGCGUCUGUUCGAGGAGCCCGAGCUGAUGCAACGUUGCUGGGAAGUGAUCGACGCCC
...(((((........(((((((...(((....)))....))))).))((((((((((.((((.(((((.(((((.(....)))))).)))))...))))))))))))))...))))).. ( -47.70, z-score =  -3.14, R)
>droSim1.chr3R 19258386 120 - 27517382
CAUGCGUCAACUAUCUGGAGGUGAAGUUGACGGCAAAAAACGCCUGCCUACUUCUCAGUCAAUCGCGUCUGUUCGAGGAGCCCGAGCUGAUGCAACGUUGCUGGGAAGUGAUCGACGCCC
...(((((........(((((((...(((....)))....))))).))((((((((((.((((.(((((.(((((.(....)))))).)))))...))))))))))))))...))))).. ( -47.70, z-score =  -3.14, R)
>droSec1.super_12 1188320 120 - 2123299
CAUGCGUCAACUAUCUGGAGGUGAAGUUGACGGCAAAAAACGCCUGCCUACUUCUCAGUCAAUCGCGUCUGUUCGAGGAGCCCGAACUGAUGCAACGUUGCUGGGAAGUGAUCGACGCCC
...(((((........(((((((...(((....)))....))))).))((((((((((.((((.(((((.(((((.(....)))))).)))))...))))))))))))))...))))).. ( -47.70, z-score =  -3.55, R)
>droYak2.chr3R 17305336 120 + 28832112
CAUGCGUCAACUACCUGGAGGUGAAGUUGACGGCAAAAAACGCCUGCCUACUUCUCAGUCAAUCGCGUCUGUUCGAGGAGCCCGAGCUGAUGCAACGUUGCUGGGAAGUGAUCGACGCCC
...(((((........(((((((...(((....)))....))))).))((((((((((.((((.(((((.(((((.(....)))))).)))))...))))))))))))))...))))).. ( -47.70, z-score =  -3.14, R)
>droEre2.scaffold_4770 9330175 120 - 17746568
CAUGCGUCAACUACCUGGAGGUGAAGUUGACGGCAAAAAACGCCUGCCUACUUCUCAGUCAAUCGCGUCUGUUCGAGGAGCCCGAGCUGAUGCAACGUUGCUGGGAAGUGAUCGACGCGC
...(((((........(((((((...(((....)))....))))).))((((((((((.((((.(((((.(((((.(....)))))).)))))...))))))))))))))...))))).. ( -48.60, z-score =  -3.04, R)
>droAna3.scaffold_13340 10424861 120 + 23697760
CCUGUGUUAACUAUCUGGAAGUGAAGUUGACGGCAAAAAACGCCUGCCUACUUCUCAGUCAAUCGCGUCUGUUCGAGGAGCCAGAACUGAUGCAGCGUUGCUGGGAAGUGAUAGACGCGC
.(((((((((((.((.......)))))))))((((.........))))((((((((((.((((.(((((.((((..(....).)))).)))))...))))))))))))))))))...... ( -40.30, z-score =  -1.61, R)
>dp4.chr2 21580471 120 - 30794189
CGUGCGUCAACUAUUUGGAAGUGAAACUGACGGCAAAAAACGCCUGCCUACUUCUCAGUCAAUCGCGUCUUUUCGAGGAGCCCGAACUGAUGCAGCGUUGCUGGGAAGUGAUCGACGCCC
...(((((........(..((.....))..)((((.........))))((((((((((.((((.(((((..((((.(....)))))..)))))...))))))))))))))...))))).. ( -41.20, z-score =  -1.95, R)
>droPer1.super_0 8802020 120 - 11822988
CGUGCGUCAACUAUUUGGAAGUGAAACUGACGGCAAAAAACGCCUGCCUACUUCUCAGUCAAUCGCGUCUUUUCGAGGAGCCCGAACUGAUGCAGCGUUGCUGGGAAGUGAUCGACGCCC
...(((((........(..((.....))..)((((.........))))((((((((((.((((.(((((..((((.(....)))))..)))))...))))))))))))))...))))).. ( -41.20, z-score =  -1.95, R)
>droWil1.scaffold_181089 1813975 120 + 12369635
CAUGCGUCAACUAUCUCGAGGUUAAGUUGACGGCAAAAAACGCCUGCCUACUUCUCAGUCAAUCGCGUCUUUUCGAGGAGCCCGAACUGAUGCAGCGUUGCUGGGAAGUGAUCGACGCUC
...((((((((((((....)))..)))))))((((.........))))((((((((((.((((.(((((..((((.(....)))))..)))))...))))))))))))))......)).. ( -42.70, z-score =  -2.21, R)
>droVir3.scaffold_13047 14323045 120 + 19223366
CCUGCGUCAACUAUCUGGAAGUAAAACUGACGGCAAAAAACGCCUGCCUACUUCUCAGUCAAUCGCGUCUUUUCGAGGAGCCCGAACUGAUGCAACGUUGCUGGGAAGUGAUCGAUGCUC
...(((((........(..((.....))..)((((.........))))((((((((((.((((.(((((..((((.(....)))))..)))))...))))))))))))))...))))).. ( -39.80, z-score =  -2.82, R)
>droMoj3.scaffold_6540 17740350 120 + 34148556
CCUGCGUCAACUAUCUGGAAGUCAAGUUGACGGCAAAAAACGCCUGCCUACUUCUCAGUCAAUCGCGUCUUUUCGAGGAGCCCGAACUGAUGCAACGUUGCUGGGAAGUGAUAGAUGCCC
...(((((........((..(((.....)))(((.......)))..))((((((((((.((((.(((((..((((.(....)))))..)))))...))))))))))))))...))))).. ( -42.00, z-score =  -2.87, R)
>droGri2.scaffold_14830 623113 120 - 6267026
CCUGUGUCAAUUAUCUCGAAGUUAAGUUGACGGCAAAAAACGCCUGCCUACUUCUCAGUCAAUCGCGUCUAUUCGAGGAGCCCGAACUGAUGCAACGUUGCUGGGAAGUGAUCGAUGCCC
.....(((((((............)))))))((((.........))))((((((((((.((((.(((((..((((.(....)))))..)))))...)))))))))))))).......... ( -37.10, z-score =  -2.18, R)
>anoGam1.chr2R 54742334 120 + 62725911
CGUGCGUCAACUAUCUGGAAACUAGUCUCACGGCGAAAAACGCCUGUCUGCUGCUGAGCCAGUCGCGCUUGUUCGAGGAACCGGAAUUGAUGCAGCGCUGCUGGGAAGUGAUCGAUGCGC
.(((((((.((((...(....))))).((((((((.....))))..............(((((.(((((.((((((..........)))).))))))).)))))...))))..))))))) ( -41.10, z-score =  -0.35, R)
>apiMel3.Group12 2956374 120 - 9182753
CAUGUGUUAAUUAUUUAGAAACAAGUUUAACAGCAAAAAAUGCAUGUUUACUUUUAAGUCAAUCUCGUUUGUUUGAAGAACCAGAUCUUAUGCAACGUUGCUGGGAAGUUAUAGAUGCUC
..((((((((................)))))).))......((((.(..(((((..((.(((...((((.((...((((......))))..)))))))))))..)))))...).)))).. ( -19.99, z-score =   0.81, R)
>triCas2.ChLG7 13895917 118 - 17478683
CCUGUGUGAACUAUCUCGAAACUAGUCUGACUGCGAAAAACGCCUGUCUCUUGUUGAGUCAAUCGCGUCUUUUCGAAGAACCGGAACUGAUGCAACGAUGUUGGGAGGUGAUUGACGC--
...((((.((.((((((.....(((((((.((.((((((((((.((.(((.....))).))...)))).)))))).))...))).))))...((((...)))).)))))).)).))))-- ( -31.20, z-score =  -0.77, R)
>consensus
CAUGCGUCAACUAUCUGGAAGUGAAGUUGACGGCAAAAAACGCCUGCCUACUUCUCAGUCAAUCGCGUCUGUUCGAGGAGCCCGAACUGAUGCAACGUUGCUGGGAAGUGAUCGACGCCC
...(((((.......................((((.........))))(((((((.((.((((.(((((..(((.........)))..)))))...)))))).)))))))...))))).. (-27.15 = -26.19 +  -0.95)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:22:19 2011