Locus 5639

Sequence ID X_DroMel_CAF1
Location 14,570,997 – 14,571,127
Length 130
Max. P 0.956365
window9158 window9159

overview

Window 8

Location 14,570,997 – 14,571,091
Length 94
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.17
Mean single sequence MFE -32.39
Consensus MFE -25.63
Energy contribution -25.63
Covariance contribution 0.00
Combinations/Pair 1.06
Mean z-score -2.64
Structure conservation index 0.79
SVM decision value 1.47
SVM RNA-class probability 0.956365
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14570997 94 - 22224390
CUGUGGCACGUAGUCGUUA-------GCGUUGAAAAGCGCGAAAGCGUAGC-AUUGACUGCCAAAUGAAAAGCCA-------GGCAAAUAAAAGCCAUCCCAAAGAGCA-----------
...((((..(((((((...-------(((((....)))((....))...))-..)))))))....(....)))))-------(((........))).............----------- ( -27.50)
>DroPse_CAF1 52596 120 - 1
GUGCGGCACGUAGUCGCCGCAGUUGCAUGUUGAAAAGCGCGAAAGCGUAGCCGUUGACUGCCAAAUGAAAAGCCAGUCCAAAGGCAAAUAAAUGCCGGCCAAAAGGGCUUUCCACUGAUG
((((((((.(((((((.((..(((((..(((....)))((....))))))))).)))))))..........(((........))).......)))))(((.....)))....)))..... ( -40.50)
>DroEre_CAF1 40913 94 - 1
CUGUGGCACGUAGUCGUUA-------GCGUUGAAAAGCGCGAAAGCGUAGC-AUUGACUGCCAAAUGAAAAGCCA-------GGCAAAUAAAAGCCAUCCAAAAGAGCA-----------
...((((..(((((((...-------(((((....)))((....))...))-..)))))))....(....)))))-------(((........))).............----------- ( -27.50)
>DroYak_CAF1 42942 94 - 1
CUGUGGCACGUAGUCGUUA-------GCGUUGAAAAGCGCGAAAGCGUAGC-AUUGACUGCCAAAUGAAAAGCCA-------GGCAAAUAAAAGCCAGCCAAAAGAGCA-----------
...((((..(((((((...-------(((((....)))((....))...))-..)))))))..............-------(((........))).))))........----------- ( -29.60)
>DroAna_CAF1 71441 93 - 1
CUGCAGCACGUAGUCGUUA-------GCGUUGAAAAGCGCGAAAGCGUAGC-AUUGACUGCCAAAUGAA-AGCCA-------GGCAAAUAAAAGCCAGCCAAAAGGGCA-----------
...((....(((((((...-------(((((....)))((....))...))-..)))))))....))..-.....-------(((........))).(((.....))).----------- ( -27.80)
>DroPer_CAF1 52100 120 - 1
CUGCGGCACGUAGUCGCCGCAGUUGCAUGUUGAAAAGCGCGAAAGCGUAGCCGUUGACUGCCAAAUGAAAAGCCAGUCCAAAGGCAAAUAAAUGCCGGCCAAAAGGGCUUUCCACUGAUG
(((((((........)))))))..(((.((..(...((((....)))).....)..)))))....((.((((((........((((......)))).........)))))).))...... ( -41.43)
>consensus
CUGCGGCACGUAGUCGUUA_______GCGUUGAAAAGCGCGAAAGCGUAGC_AUUGACUGCCAAAUGAAAAGCCA_______GGCAAAUAAAAGCCAGCCAAAAGAGCA___________
...((((..((((((.............(((....)))((....)).........))))))..........(((........)))........))))....................... (-25.63 = -25.63 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 14,571,024 – 14,571,127
Length 103
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 83.41
Mean single sequence MFE -32.74
Consensus MFE -25.61
Energy contribution -25.58
Covariance contribution -0.03
Combinations/Pair 1.07
Mean z-score -3.38
Structure conservation index 0.78
SVM decision value 1.30
SVM RNA-class probability 0.939109
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14571024 103 - 22224390
UAUUAAAGAGGGAAU-CUUGGUAAAAGGCAGUUAA-AACUGUGGCACGUAGUCGUUA-------GCGUUGAAAAGCGCGAAAGCGUAGC-AUUGACUGCCAAAUGAAAAGCCA-----
.....((((.....)-)))(((....(((((((((-...(((...((((..((....-------(((((....)))))))..)))).))-))))))))))...(....)))).----- ( -28.90)
>DroSec_CAF1 46674 93 - 1
----------GGGGU-CUUGGUAAAAGGCAGUUAA-AACUGUGGCACGUAGUCGUUA-------GCGUUGAAAAGCGCGAAAGCGUAGC-AUUGACUGCCAAAUGAAAAGCCA-----
----------..((.-(((..((...(((((((((-...(((...((((..((....-------(((((....)))))))..)))).))-))))))))))...))..))))).----- ( -29.70)
>DroEre_CAF1 40940 102 - 1
CAUUAAAGAGGG-GU-CUUGGUAAAAGGCAGUUAA-AACUGUGGCACGUAGUCGUUA-------GCGUUGAAAAGCGCGAAAGCGUAGC-AUUGACUGCCAAAUGAAAAGCCA-----
...........(-(.-(((..((...(((((((((-...(((...((((..((....-------(((((....)))))))..)))).))-))))))))))...))..))))).----- ( -29.70)
>DroYak_CAF1 42969 103 - 1
CAUUAAAGAGGG-UUCCUUGGUAAAAGGCAGUUAA-AACUGUGGCACGUAGUCGUUA-------GCGUUGAAAAGCGCGAAAGCGUAGC-AUUGACUGCCAAAUGAAAAGCCA-----
..(((..((((.-..))))..)))...(((((...-.)))))(((..(((((((...-------(((((....)))((....))...))-..)))))))....(....)))).----- ( -29.60)
>DroAna_CAF1 71468 93 - 1
---------GGGGCU-GUAGGUAAAAGGCAGUUAA-AACUGCAGCACGUAGUCGUUA-------GCGUUGAAAAGCGCGAAAGCGUAGC-AUUGACUGCCAAAUGAA-AGCCA-----
---------..((((-..........(((((((((-..((((.(((((....)))..-------(((((....)))))....)))))).-.))))))))).......-)))).----- ( -34.13)
>DroPer_CAF1 52140 107 - 1
----------GGCAG-AGUGGUAAAAGGCAGUUAAAAACUGCGGCACGUAGUCGCCGCAGUUGCAUGUUGAAAAGCGCGAAAGCGUAGCCGUUGACUGCCAAAUGAAAAGCCAGUCCA
----------....(-(.((((....(((((((((.(((((((((........)))))))))((..(((....)))((....))...))..)))))))))...(....))))).)).. ( -44.40)
>consensus
_________GGG_AU_CUUGGUAAAAGGCAGUUAA_AACUGUGGCACGUAGUCGUUA_______GCGUUGAAAAGCGCGAAAGCGUAGC_AUUGACUGCCAAAUGAAAAGCCA_____
...................(((....(((((((((...((((.(((((....))).........(((((....)))))....))))))...)))))))))...(....))))...... (-25.61 = -25.58 +  -0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:55 2006