Locus 2665

Sequence ID 3R_DroMel_CAF1
Location 7,153,220 – 7,153,328
Length 108
Max. P 0.710664
window4325 window4326

overview

Window 5

Location 7,153,220 – 7,153,328
Length 108
Sequences 3
Columns 113
Reading direction forward
Mean pairwise identity 71.69
Mean single sequence MFE -37.30
Consensus MFE -20.39
Energy contribution -20.07
Covariance contribution -0.32
Combinations/Pair 1.32
Mean z-score -1.75
Structure conservation index 0.55
SVM decision value 0.37
SVM RNA-class probability 0.710664
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7153220 108 + 27905053
G-AUGCAUGGACGGAU-GGGGCACAUGAACAGUGCACAGCCAGGAGCAACAGCUCCCACAGCUGCCACAC---UACCUCCCUGCAGAUGUAUCUGUAUCUGCGAAAUGGUAUG
.-((((..(((.((.(-((.((((.......)))).((((..(((((....)))))....)))).....)---))))))).((((((((......)))))))).....)))). ( -35.60)
>DroVir_CAF1 134121 111 + 1
GAAUUGAGCGCGAAAUGGCGGCAG--CAACAAUGCAAAGCUAGGAGCAACAGCGCGCCCCCAAACCACACAUGUGCAUGUAUGUACAUGUGUGUGCGUGUGCAAAGUGGAUGG
...(((.(((((...(((.(((.(--((....)))...(((.(......))))..))).)))...((((((((((((....))))))))))))..))))).)))......... ( -39.70)
>DroSec_CAF1 86133 106 + 1
G-AUGCAUGGACGGAU-GGGGCAC--GAACAGUGCACAGCCAGGAGCAACAGCUCCCACAGCUGCCACAC---UACCUCCCUGCAGAUGUAUCUGUAUCUGCGAUAUGGUAUG
.-((((..(((.((.(-((.((((--.....)))).((((..(((((....)))))....)))).....)---))))))).((((((((......)))))))).....)))). ( -36.60)
>consensus
G_AUGCAUGGACGGAU_GGGGCAC__GAACAGUGCACAGCCAGGAGCAACAGCUCCCACAGCUGCCACAC___UACCUCCCUGCAGAUGUAUCUGUAUCUGCGAAAUGGUAUG
....((......((......((((.......))))....)).(((((....)))))....))...........((((....((((((((......))))))))....)))).. (-20.39 = -20.07 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 7,153,220 – 7,153,328
Length 108
Sequences 3
Columns 113
Reading direction reverse
Mean pairwise identity 71.69
Mean single sequence MFE -39.43
Consensus MFE -18.65
Energy contribution -21.10
Covariance contribution 2.45
Combinations/Pair 1.15
Mean z-score -2.18
Structure conservation index 0.47
SVM decision value 0.04
SVM RNA-class probability 0.553149
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7153220 108 - 27905053
CAUACCAUUUCGCAGAUACAGAUACAUCUGCAGGGAGGUA---GUGUGGCAGCUGUGGGAGCUGUUGCUCCUGGCUGUGCACUGUUCAUGUGCCCC-AUCCGUCCAUGCAU-C
..((((.(..(((((((........)))))).)..)))))---(((((((((((..((((((....))))))))))))((((.......))))...-.......)))))..-. ( -41.50)
>DroVir_CAF1 134121 111 - 1
CCAUCCACUUUGCACACGCACACACAUGUACAUACAUGCACAUGUGUGGUUUGGGGGCGCGCUGUUGCUCCUAGCUUUGCAUUGUUG--CUGCCGCCAUUUCGCGCUCAAUUC
(((..(....(((....)))(((((((((.((....)).))))))))))..)))(((((((..((.((.....((...(((....))--).)).)).))..)))))))..... ( -37.80)
>DroSec_CAF1 86133 106 - 1
CAUACCAUAUCGCAGAUACAGAUACAUCUGCAGGGAGGUA---GUGUGGCAGCUGUGGGAGCUGUUGCUCCUGGCUGUGCACUGUUC--GUGCCCC-AUCCGUCCAUGCAU-C
..((((...((((((((........)))))).))..))))---(((((((((((..((((((....))))))))))))((((.....--))))...-.......)))))..-. ( -39.00)
>consensus
CAUACCAUUUCGCAGAUACAGAUACAUCUGCAGGGAGGUA___GUGUGGCAGCUGUGGGAGCUGUUGCUCCUGGCUGUGCACUGUUC__GUGCCCC_AUCCGUCCAUGCAU_C
...........((((((........)))))).(((.((..........((((((..((((((....))))))))))))((((.......))))......)).)))........ (-18.65 = -21.10 +   2.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:41 2006