Locus 4913

Sequence ID 3R_DroMel_CAF1
Location 12,894,810 – 12,894,904
Length 94
Max. P 0.939172
window8040 window8041

overview

Window 0

Location 12,894,810 – 12,894,904
Length 94
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 79.99
Mean single sequence MFE -40.65
Consensus MFE -26.36
Energy contribution -24.92
Covariance contribution -1.44
Combinations/Pair 1.30
Mean z-score -2.52
Structure conservation index 0.65
SVM decision value 1.28
SVM RNA-class probability 0.939172
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12894810 94 + 27905053
UGGGCUGCCCCUGCUGGCUGGAGGUUCACUUUAGUCAUCUGCGGUGACAGUACCUGAUGCUGGCCCGUUCGGCAGG------ACCUCAUUCGGCAUC-CC-A
.(((.((((((((((((((((((.....))))))))....((((.(.(((((.....))))).)))))..))))))------.........)))).)-))-. ( -38.90)
>DroPse_CAF1 9337 95 + 1
UGGGCUGUCCCUGCUGGCUGGAAGUGCAUUUCAGCCACCUGCGGUGACAAUACUUGCUGCUGGCCCUUACGGCAGU------AAUUUCACCAGCAGCGCC-C
.((((((((.(((((((((((((.....)))))))))...)))).))))......((((((((...((((....))------)).....)))))))))))-) ( -46.10)
>DroSim_CAF1 13427 94 + 1
UGGGCUGCCCCUGCUGGCUGGAGGUUCACUUUAGCCAUCUGCGGUGACAGUACCUGAUGCAGGCCCGUUCGGCAGG------ACCUCAUUCGGCAUC-CC-A
.(((.((((((((((((((((((.....)))))))).(((((((((....))))....))))).......))))))------.........)))).)-))-. ( -39.30)
>DroYak_CAF1 12804 94 + 1
UGGGCUGCCCCUGCUGGCUGGAGGUUCACUUUAGCCAUCUGCGGUGACAGUACCUGAUGCAGGCCCGUUCGGCAGG------ACCUCAUUCGGUAAC-CC-A
.((((((.(.(((((((((((((.....)))))))))...)))).).)))((((.((((.(((.((........))------.))))))).)))).)-))-. ( -38.70)
>DroAna_CAF1 10207 101 + 1
UGCGCUGCCCCUGCUGGCUGGACGUGAACUUCAGCCACCUGCGGUGACAGUACCUGAUGCAGGCGCUCUCGGCGGUCACCCUACCACACCUGCCAUC-UCUG
...((((.(.((((((((((((.(....)))))))))...)))).).))))....((((((((.((.....))(((......)))...)))).))))-.... ( -35.30)
>DroPer_CAF1 10362 95 + 1
UGGGCUGUCCCUGCUGGCUGGAGGUGCAUUUCAGCCACCUGCGGUGACAAUACUUGCUGCUGGCCCUUACGGCAGU------AAUUUCACCAGCAGCGCC-C
.((((((((.(((((((((((((.....)))))))))...)))).))))......((((((((...((((....))------)).....)))))))))))-) ( -45.60)
>consensus
UGGGCUGCCCCUGCUGGCUGGAGGUGCACUUCAGCCACCUGCGGUGACAGUACCUGAUGCAGGCCCGUUCGGCAGG______ACCUCAUCCGGCAUC_CC_A
.(((((((..(((((((((((((.....)))))))))...))))...(((...)))..)).))))).................................... (-26.36 = -24.92 +  -1.44)

alignment

Postscript

secondary structure

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dotplot

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Window 1

Location 12,894,810 – 12,894,904
Length 94
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 79.99
Mean single sequence MFE -40.72
Consensus MFE -21.01
Energy contribution -20.62
Covariance contribution -0.39
Combinations/Pair 1.17
Mean z-score -2.38
Structure conservation index 0.52
SVM decision value 0.55
SVM RNA-class probability 0.777789
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12894810 94 - 27905053
U-GG-GAUGCCGAAUGAGGU------CCUGCCGAACGGGCCAGCAUCAGGUACUGUCACCGCAGAUGACUAAAGUGAACCUCCAGCCAGCAGGGGCAGCCCA
.-((-(.((((....(((((------((((((.....))).((((((.(((......)))...)))).))..)).).)))))...((....)))))).))). ( -30.80)
>DroPse_CAF1 9337 95 - 1
G-GGCGCUGCUGGUGAAAUU------ACUGCCGUAAGGGCCAGCAGCAAGUAUUGUCACCGCAGGUGGCUGAAAUGCACUUCCAGCCAGCAGGGACAGCCCA
(-((((((((((((....((------((....))))..)))))))))......((((.((...(.((((((...........)))))).).)))))))))). ( -46.20)
>DroSim_CAF1 13427 94 - 1
U-GG-GAUGCCGAAUGAGGU------CCUGCCGAACGGGCCUGCAUCAGGUACUGUCACCGCAGAUGGCUAAAGUGAACCUCCAGCCAGCAGGGGCAGCCCA
.-((-(.((((..(((((((------((........)))))).)))..))))(((((.((((...(((((..((.....))..))))))).)))))))))). ( -38.10)
>DroYak_CAF1 12804 94 - 1
U-GG-GUUACCGAAUGAGGU------CCUGCCGAACGGGCCUGCAUCAGGUACUGUCACCGCAGAUGGCUAAAGUGAACCUCCAGCCAGCAGGGGCAGCCCA
.-((-(.((((..(((((((------((........)))))).)))..))))(((((.((((...(((((..((.....))..))))))).)))))))))). ( -37.50)
>DroAna_CAF1 10207 101 - 1
CAGA-GAUGGCAGGUGUGGUAGGGUGACCGCCGAGAGCGCCUGCAUCAGGUACUGUCACCGCAGGUGGCUGAAGUUCACGUCCAGCCAGCAGGGGCAGCGCA
....-((((.((((((((((.((....)))))....)))))))))))..(..(((((.((...(.((((((..(....)...)))))).).)))))))..). ( -45.50)
>DroPer_CAF1 10362 95 - 1
G-GGCGCUGCUGGUGAAAUU------ACUGCCGUAAGGGCCAGCAGCAAGUAUUGUCACCGCAGGUGGCUGAAAUGCACCUCCAGCCAGCAGGGACAGCCCA
(-((((((((((((....((------((....))))..)))))))))......((((.((...(.((((((...........)))))).).)))))))))). ( -46.20)
>consensus
U_GG_GAUGCCGAAUGAGGU______ACUGCCGAAAGGGCCAGCAUCAGGUACUGUCACCGCAGAUGGCUAAAGUGAACCUCCAGCCAGCAGGGGCAGCCCA
.....((((((......)...........(((.....)))..)))))..(..(((((.((...(.(((((.............))))).).)))))))..). (-21.01 = -20.62 +  -0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:53 2006