Locus 5779

Sequence ID 2R_DroMel_CAF1
Location 18,311,605 – 18,311,701
Length 96
Max. P 0.706728
window9257 window9258

overview

Window 7

Location 18,311,605 – 18,311,701
Length 96
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 84.09
Mean single sequence MFE -37.02
Consensus MFE -24.48
Energy contribution -25.08
Covariance contribution 0.60
Combinations/Pair 1.11
Mean z-score -1.69
Structure conservation index 0.66
SVM decision value -0.03
SVM RNA-class probability 0.519614
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18311605 96 + 20766785
-GGCUCGCGAGCAACUUGUGCUCCGUGGGCAAAGAUGCCGGAGCCAGCUCUUGGCAG--UAGCC----GAAAACUGCUC-AAGGGACUCCAGCAGAU-----UACGAUA
-.(((((((((((.....)))).))))))).((..(((.((((....((((((((((--(....----....))))).)-))))).)))).)))..)-----)...... ( -40.60)
>DroSec_CAF1 4879 96 + 1
-GGCUCGCGAGCAACUUGUGCUCCGGGGGCAAAGAUGCCGGAGCCAGCUCUUGGCAG--UGUCC----GAAAACUGCUC-AAGGGACUCCAGCAGAU-----UACGAUA
-.((((.((((((.....)))).)).)))).((..(((.((((....((((((((((--(....----....))))).)-))))).)))).)))..)-----)...... ( -39.30)
>DroEre_CAF1 4875 96 + 1
-GGCUCGCGAGCAACUUGUGCUCCGGGGGCAAAGAUGCCGGAGCCAGCACUUGGCAG--UGGCC----GAAAACUGCUC-AAGGGACUCCAGCAGAU-----UACAAUG
-.((((.((((((.....)))).)).)))).((..(((.((((((....((((((((--(....----....))))).)-))))).)))).)))..)-----)...... ( -37.20)
>DroYak_CAF1 4773 96 + 1
-GGCUCGCGAGCAACUUGUGCUCCGGGGGCAAAGAUGCCGGAGCCAGCUCUUGGCAG--UGGCC----GAAAACUGUCC-AAGGGACUCCAGCAGAU-----UACGAUG
-.((((.((((((.....)))).)).)))).((..(((.((((....((((((((((--(....----....)))).))-))))).)))).)))..)-----)...... ( -39.30)
>DroAna_CAF1 4396 109 + 1
AAGCUCUCGGACAACCUUUGGGUUGAGGCCAAAGAUGCCGGAGCCGACUCUUGAAAGCUUGGUCUCAGGAACACUGCUCUAAGGGACGCCAGCAGAUAUUACUACGAUG
..((((.(((.((..((((((.......)))))).)))))))))((..((((((..........))))))...(((((....((....))))))).........))... ( -28.70)
>consensus
_GGCUCGCGAGCAACUUGUGCUCCGGGGGCAAAGAUGCCGGAGCCAGCUCUUGGCAG__UGGCC____GAAAACUGCUC_AAGGGACUCCAGCAGAU_____UACGAUG
.(((((.((.(((.(((.((((.....))))))).)))))))))).......(((......))).........(((((....((....))))))).............. (-24.48 = -25.08 +   0.60)

alignment

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secondary structure

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dotplot

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Window 8

Location 18,311,605 – 18,311,701
Length 96
Sequences 5
Columns 109
Reading direction reverse
Mean pairwise identity 84.09
Mean single sequence MFE -36.94
Consensus MFE -24.32
Energy contribution -23.84
Covariance contribution -0.48
Combinations/Pair 1.22
Mean z-score -2.00
Structure conservation index 0.66
SVM decision value 0.37
SVM RNA-class probability 0.706728
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18311605 96 - 20766785
UAUCGUA-----AUCUGCUGGAGUCCCUU-GAGCAGUUUUC----GGCUA--CUGCCAAGAGCUGGCUCCGGCAUCUUUGCCCACGGAGCACAAGUUGCUCGCGAGCC-
.......-----....((((((((..(((-(..(((((((.----(((..--..))).)))))))(((((((((....))))...))))).))))..)))).).))).- ( -39.30)
>DroSec_CAF1 4879 96 - 1
UAUCGUA-----AUCUGCUGGAGUCCCUU-GAGCAGUUUUC----GGACA--CUGCCAAGAGCUGGCUCCGGCAUCUUUGCCCCCGGAGCACAAGUUGCUCGCGAGCC-
....(((-----(..((((((((((((((-(.(((((....----....)--)))))))).)..))))))))))...))))...(((((((.....))))).))....- ( -36.80)
>DroEre_CAF1 4875 96 - 1
CAUUGUA-----AUCUGCUGGAGUCCCUU-GAGCAGUUUUC----GGCCA--CUGCCAAGUGCUGGCUCCGGCAUCUUUGCCCCCGGAGCACAAGUUGCUCGCGAGCC-
....(((-----(..((((((((((((((-(.(((((....----....)--)))))))).)..))))))))))...))))...(((((((.....))))).))....- ( -36.50)
>DroYak_CAF1 4773 96 - 1
CAUCGUA-----AUCUGCUGGAGUCCCUU-GGACAGUUUUC----GGCCA--CUGCCAAGAGCUGGCUCCGGCAUCUUUGCCCCCGGAGCACAAGUUGCUCGCGAGCC-
.......-----....((((((((..(((-(..(((((((.----(((..--..))).)))))))(((((((((....))))...))))).))))..)))).).))).- ( -38.60)
>DroAna_CAF1 4396 109 - 1
CAUCGUAGUAAUAUCUGCUGGCGUCCCUUAGAGCAGUGUUCCUGAGACCAAGCUUUCAAGAGUCGGCUCCGGCAUCUUUGGCCUCAACCCAAAGGUUGUCCGAGAGCUU
..((.(((.((((.(((((((....))....))))))))).))).))..((((((((((((((((....)))).)))).((...(((((....))))).)))))))))) ( -33.50)
>consensus
CAUCGUA_____AUCUGCUGGAGUCCCUU_GAGCAGUUUUC____GGCCA__CUGCCAAGAGCUGGCUCCGGCAUCUUUGCCCCCGGAGCACAAGUUGCUCGCGAGCC_
..............(((((((....))....))))).........(((......))).......((((((((((.(((((((....).))).))).))).)).))))). (-24.32 = -23.84 +  -0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:12 2006