Locus 9137

Sequence ID	3R_DroMel_CAF1
Location	24,382,888 – 24,382,983
Length	95
Max. P	0.912691

overview

Window 7

Location	24,382,888 – 24,382,983
Length	95
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	79.26
Mean single sequence MFE	-38.02
Consensus MFE	-24.67
Energy contribution	-26.15
Covariance contribution	1.48
Combinations/Pair	1.12
Mean z-score	-2.11
Structure conservation index	0.65
SVM decision value	1.08
SVM RNA-class probability	0.912691
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24382888 95 + 27905053
------------GCGGGAUGAAGGGGCUGGGCUCGAAGUGCUCCUACGCAUGGCUAAUGAGGCGGCCAUUAAGUUGGUCACCUAAUUGGGGCCAAGUGUAGA-AGCG---G
------------...........((((...))))....((((.((((((.(((((....(((.(((((......))))).)))......))))).)))))).-))))---. ( -36.80)
>DroSec_CAF1 205135 95 + 1
------------GCGGGAUGGAGGGGCUGAGCACCAAGUGCUCCUCCGCAUGGCUAAUGAGGCGGCCAUUAAGUUGGUCACCUAAUUGGGGCCAAGUGUAGA-AGCG---G
------------((.....((((((((............))))))))((.(((((....(((.(((((......))))).)))......))))).)).....-.)).---. ( -38.50)
>DroSim_CAF1 213763 95 + 1
------------GCGGGAUGGAGGGGCUGGGCACCAAGUGCUCCUCCGCAUGGCUAAUGAGGCGGCCAUUAAGUUGGUCACCUAAUUGGGGCCAAGUGUAGA-AGCG---G
------------((.....((((((((..(....)....))))))))((.(((((....(((.(((((......))))).)))......))))).)).....-.)).---. ( -39.30)
>DroEre_CAF1 219327 107 + 1
GCGGAGGCGGAGGCGGUCUAGAGGGGCUGGGCUCCAAGUGCUCCUCCGCAUGGCUAAUGAGGCGGCCAUUAAGUUGGUCACCUAAUUGGGGCCAAGUGUAGA-AGCG---G
((....(((((((((((((....))))))(((.......)))))))))).(((((....(((.(((((......))))).)))......)))))........-.)).---. ( -44.30)
>DroWil_CAF1 184143 91 + 1
------------ACG----GCUUUGGCUUAG-UCAAAGUGCUUCUUGGCAUGGCUAAUGAGGCAACCAUUAAGUUGGUCAACUAAUUGGGGCCAAGUGUAUGUAGGU---G
------------..(----((((..(.((((-(.....(((((((((((...))))).))))))((((......))))..))))))..)))))..............---. ( -27.90)
>DroAna_CAF1 207982 104 + 1
GUGGAGGCUGAGGCG----GAGGGGGCUUGG--CCAAGUGCUUCUCGGCAUGGCUAAUGAGCCAGCCAUAAAGUUGGUCACCUAAUUGGGGCCAAGUGUAGA-AGAAGGCG
.....(((..((.(.----.....).))..)--))..((.(((((((((.(((((....))))))))....(.((((((.((.....)))))))).)...).-))))))). ( -41.30)
>consensus
____________GCGGGAUGGAGGGGCUGGGCUCCAAGUGCUCCUCCGCAUGGCUAAUGAGGCGGCCAUUAAGUUGGUCACCUAAUUGGGGCCAAGUGUAGA_AGCG___G
............((.......((((((............)))))).(((.(((((....(((.(((((......))))).)))......))))).)))......))..... (-24.67 = -26.15 +   1.48)

alignment

secondary structure

dotplot

Window 8

Location	24,382,888 – 24,382,983
Length	95
Sequences	6
Columns	111
Reading direction	reverse
Mean pairwise identity	79.26
Mean single sequence MFE	-27.98
Consensus MFE	-15.82
Energy contribution	-17.27
Covariance contribution	1.44
Combinations/Pair	1.14
Mean z-score	-1.88
Structure conservation index	0.57
SVM decision value	0.32
SVM RNA-class probability	0.687812
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24382888 95 - 27905053
C---CGCU-UCUACACUUGGCCCCAAUUAGGUGACCAACUUAAUGGCCGCCUCAUUAGCCAUGCGUAGGAGCACUUCGAGCCCAGCCCCUUCAUCCCGC------------
.---.(((-(((((.(.((((...(((.(((((.(((......))).))))).))).)))).).))))))))...........................------------ ( -30.10)
>DroSec_CAF1 205135 95 - 1
C---CGCU-UCUACACUUGGCCCCAAUUAGGUGACCAACUUAAUGGCCGCCUCAUUAGCCAUGCGGAGGAGCACUUGGUGCUCAGCCCCUCCAUCCCGC------------
(---(((.-........((((...(((.(((((.(((......))).))))).))).)))).))))..((((((...))))))................------------ ( -28.50)
>DroSim_CAF1 213763 95 - 1
C---CGCU-UCUACACUUGGCCCCAAUUAGGUGACCAACUUAAUGGCCGCCUCAUUAGCCAUGCGGAGGAGCACUUGGUGCCCAGCCCCUCCAUCCCGC------------
.---.((.-........((((...(((.(((((.(((......))).))))).))).))))...(((((.((...(((...))))).))))).....))------------ ( -28.00)
>DroEre_CAF1 219327 107 - 1
C---CGCU-UCUACACUUGGCCCCAAUUAGGUGACCAACUUAAUGGCCGCCUCAUUAGCCAUGCGGAGGAGCACUUGGAGCCCAGCCCCUCUAGACCGCCUCCGCCUCCGC
.---.((.-........((((...(((.(((((.(((......))).))))).))).)))).(((((((.....((((((........))))))....)))))))....)) ( -34.30)
>DroWil_CAF1 184143 91 - 1
C---ACCUACAUACACUUGGCCCCAAUUAGUUGACCAACUUAAUGGUUGCCUCAUUAGCCAUGCCAAGAAGCACUUUGA-CUAAGCCAAAGC----CGU------------
.---...........((((((.......((((....))))..(((((((......))))))))))))).....(((((.-......))))).----...------------ ( -18.60)
>DroAna_CAF1 207982 104 - 1
CGCCUUCU-UCUACACUUGGCCCCAAUUAGGUGACCAACUUUAUGGCUGGCUCAUUAGCCAUGCCGAGAAGCACUUGG--CCAAGCCCCCUC----CGCCUCAGCCUCCAC
........-......(((((((......(((((.....((((.(((((((((....))))).)))).)))))))))))--))))).......----............... ( -28.40)
>consensus
C___CGCU_UCUACACUUGGCCCCAAUUAGGUGACCAACUUAAUGGCCGCCUCAUUAGCCAUGCGGAGGAGCACUUGGAGCCCAGCCCCUCCAUCCCGC____________
.................((((...(((.(((((.(((......))).))))).))).))))...(((((.((............)).)))))................... (-15.82 = -17.27 +   1.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:27:23 2006