Locus 2851

Sequence ID 3R_DroMel_CAF1
Location 7,661,390 – 7,661,547
Length 157
Max. P 0.942005
window4608 window4609

overview

Window 8

Location 7,661,390 – 7,661,510
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 94.89
Mean single sequence MFE -43.45
Consensus MFE -37.74
Energy contribution -38.10
Covariance contribution 0.36
Combinations/Pair 1.14
Mean z-score -1.33
Structure conservation index 0.87
SVM decision value -0.02
SVM RNA-class probability 0.524831
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7661390 120 - 27905053
CAGGCGGGCAAUUGCCGAAAUGAAUGAAGAUGAAGUGAACCGGGCUUGUCCGGCACUUGAACUGCCUGCCAGCACUCCGGUCCCAAGAUUGAUUGGCCUCCAGUCGAAGUCGACUCGGAU
..(((((((.(((.....)))......((.(.(((((..(((((....)))))))))).).))))))))).....(((((((......((((((((...))))))))....))).)))). ( -42.00)
>DroSec_CAF1 16847 120 - 1
CAGGCGGGCAAUUACCCAAAUGAAUGAAGAUGAAGUGAACCGGGCUUGUCCGGCACUUGAACUGCCUGCCAGCACUCCGGUCCCAAGAUUGAUUGGCCUCCAGUCGAAGUCGCCUCGGAU
..(((((((.......((......)).((.(.(((((..(((((....)))))))))).).))))))))).....(((((......((((((((((...)))))))..)))...))))). ( -38.90)
>DroSim_CAF1 16426 120 - 1
CAGGCGGGCAAUUGCCCAAAUGAAUGAAGAUGAAGUGAACCGGGCUUGUCCGGCACUUGAACUGCCUGCCAGCACUCCGGUCCCAAGAUUGAUUGGCCUCCAGCCGAAGUCGCCUCGGAU
(((((((((....))))..........((.(.(((((..(((((....)))))))))).).))))))).......(((((......((((..(((((.....)))))))))...))))). ( -41.10)
>DroEre_CAF1 16748 120 - 1
CAGGCGGGCAAUUGCCCAAAUGAAUGAAGAUGAAGUGAACCGGGCUUGUCCGGCACUUGAACUGCCUGCUAGCACUCCGGGCCCAAGAUUGAUUGGCCUCCAGUCGAAGUCGACUGGGAU
(((((((((....))))..........((.(.(((((..(((((....)))))))))).).)))))))..........(((((.((......)))))))(((((((....)))))))... ( -48.70)
>DroYak_CAF1 15923 120 - 1
CAGGCGGGCAAUUGCCCAAAUGAAUGAAGAUGAAGUGAACCGGGCUUGUCCGGCACUUGAACUGCCUGCCAGCACUCCGGGCCCAAGAUUGAUUGGCCUCCAGUCGAAGUCGACUCGGAU
(((((((((....))))..........((.(.(((((..(((((....)))))))))).).))))))).......((((((((.((......))))))...(((((....))))))))). ( -46.10)
>DroAna_CAF1 19731 120 - 1
CAGGCGGGCAAUUGCCCAAAUGAAUGAAGAUGAAGUGAAGCGGGCCUGCCCGGCACUUGAACUGCCUGCCAGAACUCCAGCCCCAAGAUUGAUUGGCCUCCGGUUGAAGUUGGCUCGGAA
.((((((((....))))..........((.(.(((((...((((....)))).))))).).))))))((((..(((.(((((((((......)))).....))))).)))))))...... ( -43.90)
>consensus
CAGGCGGGCAAUUGCCCAAAUGAAUGAAGAUGAAGUGAACCGGGCUUGUCCGGCACUUGAACUGCCUGCCAGCACUCCGGUCCCAAGAUUGAUUGGCCUCCAGUCGAAGUCGACUCGGAU
(((((((((....))))..........((.(.(((((..(((((....)))))))))).).))))))).......(((((..((((......))))...))(((((....))))).))). (-37.74 = -38.10 +   0.36)

alignment

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secondary structure

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dotplot

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Window 9

Location 7,661,430 – 7,661,547
Length 117
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 89.17
Mean single sequence MFE -38.37
Consensus MFE -34.48
Energy contribution -34.57
Covariance contribution 0.09
Combinations/Pair 1.07
Mean z-score -1.90
Structure conservation index 0.90
SVM decision value 1.32
SVM RNA-class probability 0.942005
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7661430 117 + 27905053
CCGGAGUGCUGGCAGGCAGUUCAAGUGCCGGACAAGCCCGGUUCACUUCAUCUUCAUUCAUUUCGGCAAUUGCCCGCCUGUCGCCUGCACAAAUUUCCCAUCCCUG---GUCCUUUUCGC
..(((((((((((((((((...(((((((((......))))..)))))...))...........(((....))).))))))))...)))).......(((....))---))))....... ( -37.30)
>DroSec_CAF1 16887 117 + 1
CCGGAGUGCUGGCAGGCAGUUCAAGUGCCGGACAAGCCCGGUUCACUUCAUCUUCAUUCAUUUGGGUAAUUGCCCGCCUGUCGCCUGCACACAGUUCCCAUCCCUG---GUCCUUUUCGC
..(((((((((((((((((...(((((((((......))))..)))))...))..........((((....))))))))))))...)))).......(((....))---))))....... ( -39.00)
>DroSim_CAF1 16466 117 + 1
CCGGAGUGCUGGCAGGCAGUUCAAGUGCCGGACAAGCCCGGUUCACUUCAUCUUCAUUCAUUUGGGCAAUUGCCCGCCUGUCGCCUGCACACAGUUCCCAUUCCUG---GUCCUUUUCGC
..(((((((((((((((((...(((((((((......))))..)))))...))..........((((....))))))))))))...)))).......(((....))---))))....... ( -41.20)
>DroEre_CAF1 16788 120 + 1
CCGGAGUGCUAGCAGGCAGUUCAAGUGCCGGACAAGCCCGGUUCACUUCAUCUUCAUUCAUUUGGGCAAUUGCCCGCCUGUCGCCUGCACAAAGUUCCCGUCCCUUUCCAUCCUUCGCGC
..(((((((..((((((((...(((((((((......))))..)))))...))..........((((....)))))))))).....))))((((.........))))...)))....... ( -35.80)
>DroYak_CAF1 15963 120 + 1
CCGGAGUGCUGGCAGGCAGUUCAAGUGCCGGACAAGCCCGGUUCACUUCAUCUUCAUUCAUUUGGGCAAUUGCCCGCCUGUCGCCUGCACAAAGUACCCAUCCCUUUCCAUCCUGUUCGC
..((.(((((.((((((((...(((((((((......))))..)))))...)).....((..(((((....)))))..))..))))))....)))))))..................... ( -40.30)
>DroAna_CAF1 19771 107 + 1
CUGGAGUUCUGGCAGGCAGUUCAAGUGCCGGGCAGGCCCGCUUCACUUCAUCUUCAUUCAUUUGGGCAAUUGCCCGCCUGUCGCCCGAACAGUGU--CCUUUC-----------UUUCGC
..(((((((((((((((((...(((((.((((....))))...)))))...))..........((((....))))))))))))...))))....)--))....-----------...... ( -36.60)
>consensus
CCGGAGUGCUGGCAGGCAGUUCAAGUGCCGGACAAGCCCGGUUCACUUCAUCUUCAUUCAUUUGGGCAAUUGCCCGCCUGUCGCCUGCACAAAGUUCCCAUCCCUG___GUCCUUUUCGC
.....((((((((((((((...(((((((((......))))..)))))...))..........((((....))))))))))))...)))).............................. (-34.48 = -34.57 +   0.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:15 2006