Locus 2764

Sequence ID 3L_DroMel_CAF1
Location 7,800,254 – 7,800,377
Length 123
Max. P 0.995592
window4319 window4320 window4321

overview

Window 9

Location 7,800,254 – 7,800,346
Length 92
Sequences 5
Columns 95
Reading direction reverse
Mean pairwise identity 73.01
Mean single sequence MFE -31.78
Consensus MFE -19.72
Energy contribution -19.48
Covariance contribution -0.24
Combinations/Pair 1.32
Mean z-score -2.34
Structure conservation index 0.62
SVM decision value 2.59
SVM RNA-class probability 0.995592
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7800254 92 - 23771897
CCUUGCCACCGCUGAGCAGCUUGCCACUGCAAGUGGUGCACAAUCUGCCGCAUUUGUUGGCCGGCAACAGUGGCGGCAACACGGGCAACAAU---
..(((((.((((((....(((.((((..((((((((.(((.....)))).))))))))))).)))..)))))).)))))....(....)...--- ( -37.70)
>DroSec_CAF1 9952 92 - 1
CCUUGCCACCGCUGAGCAGCUUGCCACUGCAAGUGGUGCACAAUCUGCCGCACUUGUUGGCCGGCAACAGUGGCGGCAACAAUGCCAACAAC---
..(((((.((((((....(((.((((..((((((((.(((.....)))).))))))))))).)))..)))))).))))).............--- ( -39.00)
>DroWil_CAF1 38579 86 - 1
CAUUGCCGCCCUUGAGUAGUUUACCUCUGCAAGUGGUUAAUAAUUUGCCACAUUUAUUGG---GCAAUAAUAACAAUAAU---AAUAACAAU---
.......((((....((((.......))))..(((((.........))))).......))---))...............---.........--- ( -18.10)
>DroYak_CAF1 10521 95 - 1
CCUUGCCGCCGCUGAGCAGCUUGCCACUGCAAGUGGUGCACAAUCUGCCGCAUUUGUUGGCCGGCAACGGUGGCAGCAACGCGGGCAACAAUGCC
..((((.(((((((....(((.((((..((((((((.(((.....)))).))))))))))).)))..))))))).))))....((((....)))) ( -38.80)
>DroMoj_CAF1 27467 77 - 1
CAUUGCCACCAUUGAGCAGCCUGCCGCUGCAGGUGGUCCACAAUUUGCCCCAUUUGCUGGCUGGCAA---------------CACGAACAAC---
...(((((....)).)))(((.((((..((((((((..((.....))..)))))))))))).)))..---------------..........--- ( -25.30)
>consensus
CCUUGCCACCGCUGAGCAGCUUGCCACUGCAAGUGGUGCACAAUCUGCCGCAUUUGUUGGCCGGCAACAGUGGCAGCAAC__GGCCAACAAU___
..(((((((((((..((((.......)))).)))))).........((((.......)))).)))))............................ (-19.72 = -19.48 +  -0.24)

alignment

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secondary structure

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dotplot

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Window 0

Location 7,800,275 – 7,800,377
Length 102
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 77.30
Mean single sequence MFE -43.98
Consensus MFE -25.20
Energy contribution -24.10
Covariance contribution -1.10
Combinations/Pair 1.47
Mean z-score -2.85
Structure conservation index 0.57
SVM decision value 2.15
SVM RNA-class probability 0.989092
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7800275 102 + 23771897
A------CUGUUGCCGGCCAACAAAUGCGGCAGAUUGUGCACCACUUGCAGUGGCAAGCUGCUCAGCGGUGGCAAGG------CUGCCGUCUGCGACAUGUUGCCGAGCAACUG
.------..(((((((((.((((.....(((((.((((.((((.((.(((((.....)))))..)).))))))))..------)))))(((...))).)))))))).))))).. ( -46.60)
>DroVir_CAF1 28115 108 + 1
GUUGUUGCCAUUGCCUGCCAGCAGGUGUGGCAAAUUGUGCACCACCUGCAGCGGCAGGCUGCUCAGUGGCGGCAACG------UCGCCGCUUGCGACAUAUUGCCAAGCAUUUG
(((((((((((((((((((.(((((((..(((.....)))..)))))))...))))))).....))))))))))))(------((((.....)))))....(((...))).... ( -55.40)
>DroSec_CAF1 9973 102 + 1
A------CUGUUGCCGGCCAACAAGUGCGGCAGAUUGUGCACCACUUGCAGUGGCAAGCUGCUCAGCGGUGGCAAGG------CCGCCGUCUGCGACAUGUUGCCGAGCAACUG
.------..(((((((((.((((.(((((((...((((.((((.((.(((((.....)))))..)).)))))))).)------))))((....)))).)))))))).))))).. ( -47.60)
>DroWil_CAF1 38597 105 + 1
A------UUAUUGC---CCAAUAAAUGUGGCAAAUUAUUAACCACUUGCAGAGGUAAACUACUCAAGGGCGGCAAUGUUGCUGCCGUCGUUUGCGACAUGUUGCCCAACAGUUG
.------...((((---(((.....)).))))).....((((........(((........)))..((((((((.((((((.((....))..))))))))))))))....)))) ( -31.90)
>DroYak_CAF1 10545 102 + 1
A------CCGUUGCCGGCCAACAAAUGCGGCAGAUUGUGCACCACUUGCAGUGGCAAGCUGCUCAGCGGCGGCAAGG------CUGCCGUCUGCGACAUGUUGCCGAGCAACUG
.------..(((((((((.((((..((..((((((((.(((...(((((....))))).))).)))(((((((...)------)))))))))))..)))))))))).))))).. ( -46.10)
>DroMoj_CAF1 27477 98 + 1
----------UUGCCAGCCAGCAAAUGGGGCAAAUUGUGGACCACCUGCAGCGGCAGGCUGCUCAAUGGUGGCAAUG------UUGUUCCUUGCGACAUGUUGCCCAGCAUUUG
----------...........((((((((((((......(.(((((.(((((.....))))).....)))))).(((------((((.....))))))).))))))..)))))) ( -36.30)
>consensus
A______CUGUUGCCGGCCAACAAAUGCGGCAAAUUGUGCACCACUUGCAGUGGCAAGCUGCUCAGCGGCGGCAAGG______CCGCCGUCUGCGACAUGUUGCCGAGCAACUG
.........(((((..(.((((..(((..((((..((.(((...(((((....))))).))).))(((((((...........)))))))))))..))))))).)..))))).. (-25.20 = -24.10 +  -1.10)

alignment

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secondary structure

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dotplot

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Window 1

Location 7,800,275 – 7,800,377
Length 102
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 77.30
Mean single sequence MFE -43.13
Consensus MFE -32.67
Energy contribution -31.73
Covariance contribution -0.94
Combinations/Pair 1.36
Mean z-score -3.08
Structure conservation index 0.76
SVM decision value 1.99
SVM RNA-class probability 0.984983
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7800275 102 - 23771897
CAGUUGCUCGGCAACAUGUCGCAGACGGCAG------CCUUGCCACCGCUGAGCAGCUUGCCACUGCAAGUGGUGCACAAUCUGCCGCAUUUGUUGGCCGGCAACAG------U
..(((((.(((((((((((.(((((.(((..------....)))((((((..((((.......)))).))))))......))))).)))..)))).)))))))))..------. ( -46.10)
>DroVir_CAF1 28115 108 - 1
CAAAUGCUUGGCAAUAUGUCGCAAGCGGCGA------CGUUGCCGCCACUGAGCAGCCUGCCGCUGCAGGUGGUGCACAAUUUGCCACACCUGCUGGCAGGCAAUGGCAACAAC
....((((((((...(((((((.....))))------)))....))))...))))((((((((..(((((((..(((.....)))..)))))))))))))))..((....)).. ( -53.60)
>DroSec_CAF1 9973 102 - 1
CAGUUGCUCGGCAACAUGUCGCAGACGGCGG------CCUUGCCACCGCUGAGCAGCUUGCCACUGCAAGUGGUGCACAAUCUGCCGCACUUGUUGGCCGGCAACAG------U
..(((((.(((((((((((.(((((((((((------........)))))).(((((((((....))))))..)))....))))).)))..)))).)))))))))..------. ( -47.50)
>DroWil_CAF1 38597 105 - 1
CAACUGUUGGGCAACAUGUCGCAAACGACGGCAGCAACAUUGCCGCCCUUGAGUAGUUUACCUCUGCAAGUGGUUAAUAAUUUGCCACAUUUAUUGG---GCAAUAA------U
.(((..((((((.....((((....))))(((((.....)))))))))....((((.......)))).))..)))......(((((.((.....)))---))))...------. ( -32.10)
>DroYak_CAF1 10545 102 - 1
CAGUUGCUCGGCAACAUGUCGCAGACGGCAG------CCUUGCCGCCGCUGAGCAGCUUGCCACUGCAAGUGGUGCACAAUCUGCCGCAUUUGUUGGCCGGCAACGG------U
..(((((.(((((((((((.(((((.(((..------....)))((((((..((((.......)))).))))))......))))).)))..)))).)))))))))..------. ( -46.40)
>DroMoj_CAF1 27477 98 - 1
CAAAUGCUGGGCAACAUGUCGCAAGGAACAA------CAUUGCCACCAUUGAGCAGCCUGCCGCUGCAGGUGGUCCACAAUUUGCCCCAUUUGCUGGCUGGCAA----------
..((((...(((((..((((....)..))).------..)))))..)))).....(((.((((..((((((((..((.....))..)))))))))))).)))..---------- ( -33.10)
>consensus
CAAUUGCUCGGCAACAUGUCGCAAACGGCAG______CCUUGCCACCGCUGAGCAGCUUGCCACUGCAAGUGGUGCACAAUCUGCCGCAUUUGUUGGCCGGCAACAG______U
....((((.(.((((((((.(((((.(((((........)))))((((((..((((.......)))).))))))......))))).)))..))))).).))))........... (-32.67 = -31.73 +  -0.94)

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 10:41:10 2006