Locus 7567

Sequence ID dm3.chr3L
Location 15,610,075 – 15,610,178
Length 103
Max. P 0.979516
window10416 window10417

overview

Window 6

Location 15,610,075 – 15,610,168
Length 93
Sequences 7
Columns 116
Reading direction forward
Mean pairwise identity 73.81
Shannon entropy 0.47098
G+C content 0.55068
Mean single sequence MFE -26.87
Consensus MFE -12.70
Energy contribution -13.50
Covariance contribution 0.80
Combinations/Pair 1.23
Mean z-score -2.25
Structure conservation index 0.47
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.42
SVM RNA-class probability 0.938029
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr3L 15610075 93 + 24543557
----------------------GUAGACGUCCUCGUCCUG-CCAGCUGGCCCUGCCCCAUCUCCAUGUCCUUGGGGUUGGUAAACACGGCUCCAAAUUGCCGUUUAAAUUUCUCCC
----------------------...((((....))))..(-((....)))((.((((((............)))))).)).....(((((........)))))............. ( -27.20, z-score =  -2.31, R)
>droWil1.scaffold_180727 1001637 71 - 2741493
---------------------------------------------GUGGAUGUGGAUGCUGUUGCUGUCCUUGGGGUUGGUAAACAAGGCUCAAAAUUGCCGUUUAAAUUUCUCCC
---------------------------------------------........((((((....)).))))..((((....(((((..(((........)))))))).....)))). ( -17.20, z-score =  -0.54, R)
>droSim1.chr3L 14949508 93 + 22553184
----------------------GGAGCCGUGCCCGUCCUG-CCAGCUGCCCCUGCCCCAUCUCCAUGUCCUUGGGGUUGGUAAACACGGCUCCAAAUUGCCGUUUAAAUUUCUCCC
----------------------(((((((((...((....-...))((((...((((((............)))))).))))..)))))))))....................... ( -30.90, z-score =  -2.79, R)
>droSec1.super_0 7722749 93 + 21120651
----------------------GGAGCCGUUCCCGUCCUG-CCAGCUGCCCCUGCCCCAUCUCCAUGUCCUUGGGGUUGGUAAACACGGCUCCAAAUUGCCGUUUAAAUUUCUCCC
----------------------((((((((....((..((-(((...(((((.....(((....))).....)))))))))).))))))))))....................... ( -28.70, z-score =  -2.55, R)
>droYak2.chr3L 18158140 87 + 24197627
----------------------GAUGCCGUCGUCGUCCUG-CCAGCUG------CCCCAUCUCCAUGUCCUUGGGGUUGGUAAACACGGCUCCAAAUUGCCGUUUAAAUUUCUCCC
----------------------((((....))))((..((-(((...(------(((((............))))))))))).))(((((........)))))............. ( -24.00, z-score =  -2.03, R)
>droEre2.scaffold_4784 17868210 87 + 25762168
----------------------GAUGCCGUCCUCGUCCUG-CCAGCUG------CCCCAUCUCCAUGUCCUUGGGGCUGGUAAACACGGCUCCAAAUUGCCGUUUAAAUUUCUCCC
----------------------((((.......)))).((-(((...(------(((((............)))))))))))...(((((........)))))............. ( -23.60, z-score =  -2.01, R)
>droAna3.scaffold_13337 11744984 114 - 23293914
GUUGCCUUUACCCUGAGUCCUGGUCCUGGUCCUGGUCCCCUCCAGCUUCAGC--UCCCCUUUCCUUGUCCUUGGGGUUGGUAAACACGGCACCAAAUUGCCGUUUAAAUUUCUCCC
.(((((...((((..((..(.((..((((..((((......))))..)))).--.)).........)..))..)))).)))))..((((((......))))))............. ( -36.50, z-score =  -3.55, R)
>consensus
______________________GAAGCCGUCCUCGUCCUG_CCAGCUGCCCCUGCCCCAUCUCCAUGUCCUUGGGGUUGGUAAACACGGCUCCAAAUUGCCGUUUAAAUUUCUCCC
........................................................(((.(((((......))))).))).....(((((........)))))............. (-12.70 = -13.50 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 15,610,081 – 15,610,178
Length 97
Sequences 10
Columns 115
Reading direction forward
Mean pairwise identity 71.63
Shannon entropy 0.51466
G+C content 0.51044
Mean single sequence MFE -21.43
Consensus MFE -16.25
Energy contribution -16.19
Covariance contribution -0.06
Combinations/Pair 1.07
Mean z-score -1.46
Structure conservation index 0.76
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.02
SVM RNA-class probability 0.979516
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr3L 15610081 97 + 24543557
------------------GUCCUCGUCCUGCCAGCUGGCCCUGCCCCAUCUCCAUGUCCUUGGGGUUGGUAAACACGGCUCCAAAUUGCCGUUUAAAUUUCUCCCCAAUGUCUAC
------------------...........(((....)))((.((((((............)))))).)).....(((((........)))))....................... ( -23.30, z-score =  -1.43, R)
>droWil1.scaffold_180727 1001643 75 - 2741493
----------------------------------------GUGGAUGCUGUUGCUGUCCUUGGGGUUGGUAAACAAGGCUCAAAAUUGCCGUUUAAAUUUCUCCCCAAUGGCCUC
----------------------------------------..((((((....)).))))((((((....(((((..(((........)))))))).......))))))....... ( -21.40, z-score =  -1.28, R)
>droGri2.scaffold_15121 124759 73 - 279557
------------------------------------------UUGCUUGUCCUUUGUCCUUGGGGUUGGUAAACACGGCACCAAAUUGCCGUUUAAAUUUCUCCCCAAUGUGUGC
------------------------------------------.................((((((..(((....((((((......))))))....)))...))))))....... ( -17.90, z-score =  -0.84, R)
>droSim1.chr3L 14949514 97 + 22553184
------------------GUGCCCGUCCUGCCAGCUGCCCCUGCCCCAUCUCCAUGUCCUUGGGGUUGGUAAACACGGCUCCAAAUUGCCGUUUAAAUUUCUCCCCAAUGUCUAC
------------------(((..(((.........((((...((((((............)))))).))))...(((((........)))))...............)))..))) ( -21.70, z-score =  -0.84, R)
>droSec1.super_0 7722755 97 + 21120651
------------------GUUCCCGUCCUGCCAGCUGCCCCUGCCCCAUCUCCAUGUCCUUGGGGUUGGUAAACACGGCUCCAAAUUGCCGUUUAAAUUUCUCCCCAAUGUCUAC
------------------......((..(((((...(((((.....(((....))).....)))))))))).))(((((........)))))....................... ( -21.60, z-score =  -1.46, R)
>droYak2.chr3L 18158146 91 + 24197627
------------------GUCGUCGUCCUGCCAGCU------GCCCCAUCUCCAUGUCCUUGGGGUUGGUAAACACGGCUCCAAAUUGCCGUUUAAAUUUCUCCCCAAUGUCUAC
------------------......((..(((((...------((((((............))))))))))).))(((((........)))))....................... ( -22.20, z-score =  -2.01, R)
>droEre2.scaffold_4784 17868216 91 + 25762168
------------------GUCCUCGUCCUGCCAGCU------GCCCCAUCUCCAUGUCCUUGGGGCUGGUAAACACGGCUCCAAAUUGCCGUUUAAAUUUCUCCCCAAUGUCUAC
------------------......((..(((((...------((((((............))))))))))).))(((((........)))))....................... ( -23.60, z-score =  -2.73, R)
>droAna3.scaffold_13337 11744993 115 - 23293914
ACCCUGAGUCCUGGUCCUGGUCCUGGUCCCCUCCAGCUUCAGCUCCCCUUUCCUUGUCCUUGGGGUUGGUAAACACGGCACCAAAUUGCCGUUUAAAUUUCUCCCCAAUGUCUAC
.....(((....((..((((..((((......))))..))))..))...)))...(.(.((((((..(((....((((((......))))))....)))...)))))).).)... ( -31.20, z-score =  -1.65, R)
>dp4.chrXR_group6 13162049 73 - 13314419
------------------------------------------AUCGUCGUUCGUUGUCCUUGGGGUUGGUAAACACGGCACCAAAUUGCCGUUUAAAUUUCUCCUCAAUGUCUAC
------------------------------------------..........((.(.(.((((((..(((....((((((......))))))....)))...)))))).).).)) ( -15.70, z-score =  -1.19, R)
>droPer1.super_12 1577205 73 - 2414086
------------------------------------------AUCGUCGUUCGUUGUCCUUGGGGUUGGUAAACACGGCACCAAAUUGCCGUUUAAAUUUCUCCUCAAUGUCUAC
------------------------------------------..........((.(.(.((((((..(((....((((((......))))))....)))...)))))).).).)) ( -15.70, z-score =  -1.19, R)
>consensus
__________________GU_C_CGUCCUGCCAGCU______GCCCCAUCUCCAUGUCCUUGGGGUUGGUAAACACGGCUCCAAAUUGCCGUUUAAAUUUCUCCCCAAUGUCUAC
...........................................................((((((..(((....(((((........)))))....)))...))))))....... (-16.25 = -16.19 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:29:20 2011