Locus 7106

Sequence ID 2L_DroMel_CAF1
Location 19,921,312 – 19,921,419
Length 107
Max. P 0.938342
window11345 window11346

overview

Window 5

Location 19,921,312 – 19,921,419
Length 107
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 80.52
Mean single sequence MFE -40.46
Consensus MFE -31.78
Energy contribution -32.17
Covariance contribution 0.39
Combinations/Pair 1.08
Mean z-score -1.39
Structure conservation index 0.79
SVM decision value 0.40
SVM RNA-class probability 0.721138
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19921312 107 + 22407834
AUUCGCAACAGUCGCGGCUCCUUGGACAGCAUUGGAACCGCCGCAAACGGCAGCUCAGCGGCCAGCCAGGCCAGCUCCAGCGGCGGCUCCACCACUACCCACGCCC------A----
....((.......))(((....(((..((...((((.(((((((....((.((((....((((.....)))))))))).))))))).))))...))..))).))).------.---- ( -40.70)
>DroGri_CAF1 136787 102 + 1
AUUCGCAGCAGUCGCGGAUCGCUUGAUAGCAUUGGCACCGCUGCCAACGGCAGCUCGGCGGCCAGCCAGGCCAGCUCCAGUGGAGGAUCCACCAGC---------AACA------GC
....((.((....))((((((((....))).(((((...((((((...))))))..(((.....)))..)))))((((...)))))))))....))---------....------.. ( -40.30)
>DroSec_CAF1 97362 107 + 1
AUUCGCAACAGUCGCGGCUCCUUGGACAGCAUUGGAACCGCCGCGAACGGCAGCUCAGCGGCCAGCCAGGCCAGCUCCAGCGGCGGCUCCACCACCACCCACGUCC------A----
..((((.......)))).....(((((.....((((.(((((((....((.((((....((((.....)))))))))).))))))).))))...........))))------)---- ( -40.09)
>DroWil_CAF1 170252 117 + 1
AUACGGAAUAGUCGCGGUUCAUUGGAUAGCAUUGGAACCGCCGCAAACGGCAGCUCAGCGGCCAGUCAGGCCAGCUCCAGCGGCGGCUCCAGCUCCACCACCAAUAAUACCAACUCU
...............(((..(((((..(((..((((.(((((((....((.((((....((((.....)))))))))).))))))).)))))))......)))))...)))...... ( -42.00)
>DroYak_CAF1 103349 113 + 1
AUUCGCAAUAGUCGCGGCUCCUUGGACAGCAUUGGAACCGCCGCGAACGGCAGCUCAGCGGCCAGCCAGGCCAGCUCCAGCGGCGGCUCCACCACCACCCACGCCCACGCCCA----
....((.....((((((((((.((.....))..)))...)))))))..(((.(((.(((((((.....)))).)))..)))((.((.....)).))......)))...))...---- ( -40.70)
>DroAna_CAF1 111571 117 + 1
AUUCGCAAUAGUCGAGGCUCUUUGGACAGCAUCGGAACCGCCGCGAACGGUAGCUCUGCUGCCAGCCAGGCCAGCUCCAGCGGCGGCUCCACCACCACCCACAGCCACGCCCACUCC
..((((....).)))((((...(((........(((.(((((((....((((((...))))))(((.......)))...))))))).)))........))).))))........... ( -38.99)
>consensus
AUUCGCAACAGUCGCGGCUCCUUGGACAGCAUUGGAACCGCCGCGAACGGCAGCUCAGCGGCCAGCCAGGCCAGCUCCAGCGGCGGCUCCACCACCACCCACGCCCAC____A____
.............((...((....))..))...(((.(((((((....((.((((....((((.....)))))))))).))))))).)))........................... (-31.78 = -32.17 +   0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 19,921,312 – 19,921,419
Length 107
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 80.52
Mean single sequence MFE -56.05
Consensus MFE -39.52
Energy contribution -41.97
Covariance contribution 2.45
Combinations/Pair 1.08
Mean z-score -2.58
Structure conservation index 0.71
SVM decision value 1.27
SVM RNA-class probability 0.938342
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19921312 107 - 22407834
----U------GGGCGUGGGUAGUGGUGGAGCCGCCGCUGGAGCUGGCCUGGCUGGCCGCUGAGCUGCCGUUUGCGGCGGUUCCAAUGCUGUCCAAGGAGCCGCGACUGUUGCGAAU
----.------.(((.(((..(((..(((((((((((((((((((((((.....))))....)))).)))...))))))))))))..)))..)))....)))((((...)))).... ( -57.50)
>DroGri_CAF1 136787 102 - 1
GC------UGUU---------GCUGGUGGAUCCUCCACUGGAGCUGGCCUGGCUGGCCGCCGAGCUGCCGUUGGCAGCGGUGCCAAUGCUAUCAAGCGAUCCGCGACUGCUGCGAAU
((------.(((---------((.(((((.....)))))((((((....((((((((.(((..((((((...)))))))))))))..))))...)))..)))))))).))....... ( -43.80)
>DroSec_CAF1 97362 107 - 1
----U------GGACGUGGGUGGUGGUGGAGCCGCCGCUGGAGCUGGCCUGGCUGGCCGCUGAGCUGCCGUUCGCGGCGGUUCCAAUGCUGUCCAAGGAGCCGCGACUGUUGCGAAU
----.------((.(.((((..((..((((((((((((...(((.((((.....)))))))((((....))))))))))))))))..))..)))).)...))((((...)))).... ( -56.10)
>DroWil_CAF1 170252 117 - 1
AGAGUUGGUAUUAUUGGUGGUGGAGCUGGAGCCGCCGCUGGAGCUGGCCUGACUGGCCGCUGAGCUGCCGUUUGCGGCGGUUCCAAUGCUAUCCAAUGAACCGCGACUAUUCCGUAU
..((((((..((((((((((((....(((((((((((((((((((((((.....))))....)))).)))...)))))))))))).))))).)))))))..).)))))......... ( -54.00)
>DroYak_CAF1 103349 113 - 1
----UGGGCGUGGGCGUGGGUGGUGGUGGAGCCGCCGCUGGAGCUGGCCUGGCUGGCCGCUGAGCUGCCGUUCGCGGCGGUUCCAAUGCUGUCCAAGGAGCCGCGACUAUUGCGAAU
----(((.(((((.(.((((..((..((((((((((((...(((.((((.....)))))))((((....))))))))))))))))..))..))))....)))))).)))........ ( -61.00)
>DroAna_CAF1 111571 117 - 1
GGAGUGGGCGUGGCUGUGGGUGGUGGUGGAGCCGCCGCUGGAGCUGGCCUGGCUGGCAGCAGAGCUACCGUUCGCGGCGGUUCCGAUGCUGUCCAAAGAGCCUCGACUAUUGCGAAU
(.(((((.((.((((.((((..((..((((((((((((....((((.((.....)))))).((((....))))))))))))))))..))..))))...)))).)).))))).).... ( -63.90)
>consensus
____U____GUGGGCGUGGGUGGUGGUGGAGCCGCCGCUGGAGCUGGCCUGGCUGGCCGCUGAGCUGCCGUUCGCGGCGGUUCCAAUGCUGUCCAAGGAGCCGCGACUAUUGCGAAU
................(((((((((.(((((((((((((((((((((((.....))))....)))).)))...)))))))))))).)))))))))......((((.....))))... (-39.52 = -41.97 +   2.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:27:38 2006