Locus 1807

Sequence ID 3R_DroMel_CAF1
Location 5,164,823 – 5,164,922
Length 99
Max. P 0.950675
window2975 window2976

overview

Window 5

Location 5,164,823 – 5,164,922
Length 99
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 80.13
Mean single sequence MFE -21.69
Consensus MFE -12.52
Energy contribution -14.13
Covariance contribution 1.61
Combinations/Pair 1.22
Mean z-score -2.93
Structure conservation index 0.58
SVM decision value 1.40
SVM RNA-class probability 0.950675
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5164823 99 + 27905053
CUUCUCC-UUUUCGACUGCACAAUGCACUUCUUUUUCUUCUUCCGCAACCUUGUG-CGUGUGCCCACAUGUUUACAUAAAGUGCAACUGUGUGCACGAAAA
.......-.(((((..((((((.(((((((..............(((......))-)(((((..(....)..))))).)))))))....))))))))))). ( -25.40)
>DroPse_CAF1 3351 84 + 1
CUUUUCCCCAUAUGGCUGUACAAUGCACUCGCCC----UCACACUCAACCUUGUAGCAAACUUACAUAUAUGUACAUAGA---------UAUGU----AAA
........(((((...((((((..((....))..----.............(((((.....)))))....))))))...)---------)))).----... ( -10.20)
>DroSec_CAF1 3445 99 + 1
CUUCUCC-UUUUCGCCUGCACAAUGCACUUCUUCUUCUUCAUCCACAACCUUGUG-AGUGUGCCCACAUGUUUACAUAAAGUGCAACUGUGUGCACGAAAA
.......-.(((((..((((((.(((((((.............((((....))))-.(((((..(....)..))))).)))))))....))))))))))). ( -25.50)
>DroSim_CAF1 3440 99 + 1
CUUCUCC-UUUUCGCCUGCACAAUGCACUUCUUCUUCUUCAUCCACAACCUUGUG-CGUGUGCCCACAUGUUUACAUAAAGUGCAACUGUGUGCACGAAAA
.......-.(((((..((((((.(((((((.............((((....))))-(((((....)))))........)))))))....))))))))))). ( -25.50)
>DroEre_CAF1 3098 99 + 1
CUUCUCC-UUUUCGCCUGUAAAAUGCACUUCUUCUUCUUCUGCCACAACCUUGUG-CAUGUGCCCACAUGUUUACAUAAAGUGCAACUGUGUGCACGAAAA
.......-.((((.........((((((........................)))-)))((((.((((.((((((.....))).))))))).)))))))). ( -21.36)
>DroYak_CAF1 3488 99 + 1
CUUCUCU-CUUUCGCCUGUACACUGCACUUCUUCUUCUUCUGCCACAACCUUGUG-CAUGUGCCCACAUGUUUACAUAAAGUGCAACUGUAUGCACGAAAA
.......-.(((((..((((((.(((((((.............((((....))))-(((((....)))))........)))))))..))))))..))))). ( -22.20)
>consensus
CUUCUCC_UUUUCGCCUGCACAAUGCACUUCUUCUUCUUCAUCCACAACCUUGUG_CAUGUGCCCACAUGUUUACAUAAAGUGCAACUGUGUGCACGAAAA
.........(((((..((((((.(((((((.............((((....)))).(((((....)))))........)))))))..))))))..))))). (-12.52 = -14.13 +   1.61)

alignment

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secondary structure

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dotplot

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Window 6

Location 5,164,823 – 5,164,922
Length 99
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 80.13
Mean single sequence MFE -25.49
Consensus MFE -13.65
Energy contribution -15.65
Covariance contribution 2.00
Combinations/Pair 1.26
Mean z-score -1.89
Structure conservation index 0.54
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5164823 99 - 27905053
UUUUCGUGCACACAGUUGCACUUUAUGUAAACAUGUGGGCACACG-CACAAGGUUGCGGAAGAAGAAAAAGAAGUGCAUUGUGCAGUCGAAAA-GGAGAAG
((((((((((((....((((((((.....(((.((((.(....).-))))..))).(....)........)))))))).))))))..))))))-....... ( -28.10)
>DroPse_CAF1 3351 84 - 1
UUU----ACAUA---------UCUAUGUACAUAUAUGUAAGUUUGCUACAAGGUUGAGUGUGA----GGGCGAGUGCAUUGUACAGCCAUAUGGGGAAAAG
((.----.((((---------(...((((((...(((((.((((..((((........)))).----))))...)))))))))))...)))))..)).... ( -18.40)
>DroSec_CAF1 3445 99 - 1
UUUUCGUGCACACAGUUGCACUUUAUGUAAACAUGUGGGCACACU-CACAAGGUUGUGGAUGAAGAAGAAGAAGUGCAUUGUGCAGGCGAAAA-GGAGAAG
((((((((((((....((((((((.(((..(....)..)))((..-((((....))))..))........)))))))).)))))..)))))))-....... ( -28.60)
>DroSim_CAF1 3440 99 - 1
UUUUCGUGCACACAGUUGCACUUUAUGUAAACAUGUGGGCACACG-CACAAGGUUGUGGAUGAAGAAGAAGAAGUGCAUUGUGCAGGCGAAAA-GGAGAAG
((((((((((((....((((((((..........(((....))).-((((....))))............)))))))).)))))..)))))))-....... ( -28.20)
>DroEre_CAF1 3098 99 - 1
UUUUCGUGCACACAGUUGCACUUUAUGUAAACAUGUGGGCACAUG-CACAAGGUUGUGGCAGAAGAAGAAGAAGUGCAUUUUACAGGCGAAAA-GGAGAAG
(((((((.........((((((((.......(((((....)))))-((((....))))............))))))))........)))))))-....... ( -22.63)
>DroYak_CAF1 3488 99 - 1
UUUUCGUGCAUACAGUUGCACUUUAUGUAAACAUGUGGGCACAUG-CACAAGGUUGUGGCAGAAGAAGAAGAAGUGCAGUGUACAGGCGAAAG-AGAGAAG
(((((((...((((.(((((((((.......(((((....)))))-((((....))))............)))))))))))))...)))))))-....... ( -27.00)
>consensus
UUUUCGUGCACACAGUUGCACUUUAUGUAAACAUGUGGGCACACG_CACAAGGUUGUGGAAGAAGAAGAAGAAGUGCAUUGUACAGGCGAAAA_GGAGAAG
(((((((...((((((.(((((((..........(((....)))..((((....))))............)))))))))))))...)))))))........ (-13.65 = -15.65 +   2.00)

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 10:20:00 2006