Locus 7592

Sequence ID 2L_DroMel_CAF1
Location 21,000,658 – 21,000,785
Length 127
Max. P 0.960424
window12205 window12206 window12207

overview

Window 5

Location 21,000,658 – 21,000,748
Length 90
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 80.24
Mean single sequence MFE -12.23
Consensus MFE -11.46
Energy contribution -11.34
Covariance contribution -0.12
Combinations/Pair 1.12
Mean z-score -1.58
Structure conservation index 0.94
SVM decision value 0.83
SVM RNA-class probability 0.862121
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21000658 90 + 22407834
--CAUAGCUCUAAUAUUUGC-CACAACCAUUCGAGCGCAUGUAUCUACCAGAUGCAGAAUGUUUCUUUCCUCUUUAUUCC-------UCUUUUUUAUUUC
--....((((.(((..(((.-..)))..))).))))...((((((.....))))))(((((.............))))).-------............. ( -12.02)
>DroSec_CAF1 49313 90 + 1
--CAUAGCUCUAAUAUUUGC-CACAACCAUUCGAGCGCAUGUAUCUACCAGAUGCAGAAUGUUUCUUUCCUCUUUAUUCC-------UCUUUUUUAUUUC
--....((((.(((..(((.-..)))..))).))))...((((((.....))))))(((((.............))))).-------............. ( -12.02)
>DroSim_CAF1 49762 90 + 1
--CAUAGCUCUAAUAUUUGC-CACAACCAUUCGAGCGCAUGUAUCUACCAGAUGCAGAAUGUUUCUUUCCUCUUUAUUCC-------UCUUUUUUAUUUC
--....((((.(((..(((.-..)))..))).))))...((((((.....))))))(((((.............))))).-------............. ( -12.02)
>DroEre_CAF1 55059 83 + 1
--CAUAGCUCUAAUAUUUGC-CACAGCCAUUCGAGCGCAUGUAUCUACCAGAUGCAGAAUGUUUCUUUCCCCUUU-----UUUAUUU---------CUUU
--....((((.(((....((-....)).))).))))...((((((.....))))))...................-----.......---------.... ( -11.30)
>DroAna_CAF1 80932 76 + 1
AACAUAGCUCUAAUAUUUGCACAGAACCAUUCGAGUGCAUGUAUCUACCAGAUGCAGAAUGUACUUUUUU-UU-----------------------UUUC
.((((............(((((.((.....))..)))))((((((.....))))))..))))........-..-----------------------.... ( -13.80)
>consensus
__CAUAGCUCUAAUAUUUGC_CACAACCAUUCGAGCGCAUGUAUCUACCAGAUGCAGAAUGUUUCUUUCCUCUUUAUUCC_______UCUUUUUUAUUUC
......((((.(((..(((....)))..))).))))...((((((.....))))))............................................ (-11.46 = -11.34 +  -0.12)

alignment

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secondary structure

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dotplot

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Window 6

Location 21,000,695 – 21,000,785
Length 90
Sequences 4
Columns 97
Reading direction forward
Mean pairwise identity 86.63
Mean single sequence MFE -8.84
Consensus MFE -8.30
Energy contribution -8.30
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.72
Structure conservation index 0.94
SVM decision value 1.04
SVM RNA-class probability 0.904821
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21000695 90 + 22407834
GUAUCUACCAGAUGCAGAAUGUUUCUUUCCUCUUUAUUCC-------UCUUUUUUAUUUCUUCCUCUACAGCUUUUCCACAAAUCUGGCUUGCAUUU
(((((.....))))).(((((.............))))).-------.......................((....(((......)))...)).... (  -9.02)
>DroSec_CAF1 49350 90 + 1
GUAUCUACCAGAUGCAGAAUGUUUCUUUCCUCUUUAUUCC-------UCUUUUUUAUUUCUUCCUCUACAGCUUUUCCACAAAUCUGGCUUGCAUUU
(((((.....))))).(((((.............))))).-------.......................((....(((......)))...)).... (  -9.02)
>DroSim_CAF1 49799 90 + 1
GUAUCUACCAGAUGCAGAAUGUUUCUUUCCUCUUUAUUCC-------UCUUUUUUAUUUCUUCCUCUACAGCUUUUCCACAAAUCUGGCUUGCAUUU
(((((.....))))).(((((.............))))).-------.......................((....(((......)))...)).... (  -9.02)
>DroEre_CAF1 55096 83 + 1
GUAUCUACCAGAUGCAGAAUGUUUCUUUCCCCUUU-----UUUAUUU---------CUUUUUCUUCUACAGCUUUUCCACAAAUCUGGCUUGCAUUU
(((((.....)))))....................-----.......---------..............((....(((......)))...)).... (  -8.30)
>consensus
GUAUCUACCAGAUGCAGAAUGUUUCUUUCCUCUUUAUUCC_______UCUUUUUUAUUUCUUCCUCUACAGCUUUUCCACAAAUCUGGCUUGCAUUU
(((((.....))))).......................................................((....(((......)))...)).... ( -8.30 =  -8.30 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 7

Location 21,000,695 – 21,000,785
Length 90
Sequences 4
Columns 97
Reading direction reverse
Mean pairwise identity 86.63
Mean single sequence MFE -13.03
Consensus MFE -12.49
Energy contribution -12.30
Covariance contribution -0.19
Combinations/Pair 1.07
Mean z-score -1.90
Structure conservation index 0.96
SVM decision value 1.51
SVM RNA-class probability 0.960424
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21000695 90 - 22407834
AAAUGCAAGCCAGAUUUGUGGAAAAGCUGUAGAGGAAGAAAUAAAAAAGA-------GGAAUAAAGAGGAAAGAAACAUUCUGCAUCUGGUAGAUAC
........((((((..((..(((...((........))............-------..........(........).)))..))))))))...... ( -12.80)
>DroSec_CAF1 49350 90 - 1
AAAUGCAAGCCAGAUUUGUGGAAAAGCUGUAGAGGAAGAAAUAAAAAAGA-------GGAAUAAAGAGGAAAGAAACAUUCUGCAUCUGGUAGAUAC
........((((((..((..(((...((........))............-------..........(........).)))..))))))))...... ( -12.80)
>DroSim_CAF1 49799 90 - 1
AAAUGCAAGCCAGAUUUGUGGAAAAGCUGUAGAGGAAGAAAUAAAAAAGA-------GGAAUAAAGAGGAAAGAAACAUUCUGCAUCUGGUAGAUAC
........((((((..((..(((...((........))............-------..........(........).)))..))))))))...... ( -12.80)
>DroEre_CAF1 55096 83 - 1
AAAUGCAAGCCAGAUUUGUGGAAAAGCUGUAGAAGAAAAAG---------AAAUAAA-----AAAGGGGAAAGAAACAUUCUGCAUCUGGUAGAUAC
........((((((((((..(.....)..))))........---------.......-----...(.((((.......)))).).))))))...... ( -13.70)
>consensus
AAAUGCAAGCCAGAUUUGUGGAAAAGCUGUAGAGGAAGAAAUAAAAAAGA_______GGAAUAAAGAGGAAAGAAACAUUCUGCAUCUGGUAGAUAC
........((((((..((..(((...((.....))................................(........).)))..))))))))...... (-12.49 = -12.30 +  -0.19)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:40:39 2006