Locus 3170

Sequence ID	X_DroMel_CAF1
Location	8,419,413 – 8,419,524
Length	111
Max. P	0.997874

overview

Window 4

Location	8,419,413 – 8,419,524
Length	111
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	83.77
Mean single sequence MFE	-42.12
Consensus MFE	-24.42
Energy contribution	-24.58
Covariance contribution	0.16
Combinations/Pair	1.24
Mean z-score	-2.16
Structure conservation index	0.58
SVM decision value	0.16
SVM RNA-class probability	0.612038
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8419413 111 + 22224390
AAGCUUUUGUUGUAGUGUAAC---------CGGAGCAUCAGCGCGUGAGCUUUUCGGUAUUCACGCUGCACUGACGGAUGGUCACACUAUGCGCGGCAUUUGGCAUUUUUGGCCGCGCAA
..........((((((((.((---------((((((....))((....))..))))))....)))))))).((((.....)))).....((((((((..............)))))))). ( -39.94)
>DroSec_CAF1 4682 111 + 1
AAGCUUUUGUUGUAGUGUAAC---------CGAAGCAUCCGCGCGUGAGCUUUUUGGUAUUUACGCCUCACUGGCGGAUGGUCACACUGUGCGCGGCAUUUGGCAUUUUUGGCCGCGCAA
............((((((.((---------(.....((((((((....)).....(((......)))......))))))))).))))))((((((((..............)))))))). ( -40.74)
>DroSim_CAF1 2323 110 + 1
AAGCUUUUGUUGUAGUGUAAC---------CGAA-CAUCCGCGCGUGAGCUUUUUGGUAUUUACGCCUCACUGGCGGAUGGUCACACUGUGCGCGGCAUUUGGCAUUUUUGGCCGCGCAA
............((((((.((---------(...-.((((((((....)).....(((......)))......))))))))).))))))((((((((..............)))))))). ( -41.14)
>DroEre_CAF1 4997 111 + 1
AAGCUUUCGCUGUAGUGUGAC---------GGUAACAGCAGCGUGCGAGCUUUUUGGUAUUUACGCUGCACCGGCGAACGGUCACACUGCGCUCGGCUUUUGGUAUUUUUGGCCGCGCAA
.(((....)))((((((((((---------.......((((((((.(.(((....))).).))))))))..((.....))))))))))))((.(((((............))))).)).. ( -45.80)
>DroYak_CAF1 2326 120 + 1
AAGCUUUCGUUAUAAUGUGACCGUAGCGACCGUAACAGCAGCGUGCGAGCUUUUCAGUAUUUACGCUGCGCUGACGGACGGUCACACUGCACGCGACUUUUGGCAUUUUUGGCCGCGCAA
..((..((((..((.(((((((((.....((((....((((((((.(.(((....))).).))))))))....))))))))))))).))...)))).....(((.......))))).... ( -43.00)
>consensus
AAGCUUUUGUUGUAGUGUAAC_________CGAAACAUCAGCGCGUGAGCUUUUUGGUAUUUACGCUGCACUGGCGGAUGGUCACACUGUGCGCGGCAUUUGGCAUUUUUGGCCGCGCAA
.(((....)))(((((((........................(((((((((....)))..))))))......(((.....))))))))))(((((((..............))))))).. (-24.42 = -24.58 +   0.16)

alignment

secondary structure

dotplot

Window 5

Location	8,419,413 – 8,419,524
Length	111
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	83.77
Mean single sequence MFE	-42.36
Consensus MFE	-30.71
Energy contribution	-29.07
Covariance contribution	-1.64
Combinations/Pair	1.39
Mean z-score	-3.73
Structure conservation index	0.72
SVM decision value	2.95
SVM RNA-class probability	0.997874
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8419413 111 - 22224390
UUGCGCGGCCAAAAAUGCCAAAUGCCGCGCAUAGUGUGACCAUCCGUCAGUGCAGCGUGAAUACCGAAAAGCUCACGCGCUGAUGCUCCG---------GUUACACUACAACAAAAGCUU
.((((((((..............))))))))((((((((((...(((((((...((((((............)))))))))))))....)---------)))))))))............ ( -44.44)
>DroSec_CAF1 4682 111 - 1
UUGCGCGGCCAAAAAUGCCAAAUGCCGCGCACAGUGUGACCAUCCGCCAGUGAGGCGUAAAUACCAAAAAGCUCACGCGCGGAUGCUUCG---------GUUACACUACAACAAAAGCUU
.((((((((..............)))))))).(((((((((((((((..(((((.(..............))))))..)))))).....)---------))))))))............. ( -41.78)
>DroSim_CAF1 2323 110 - 1
UUGCGCGGCCAAAAAUGCCAAAUGCCGCGCACAGUGUGACCAUCCGCCAGUGAGGCGUAAAUACCAAAAAGCUCACGCGCGGAUG-UUCG---------GUUACACUACAACAAAAGCUU
.((((((((..............)))))))).(((((((((((((((..(((((.(..............))))))..)))))).-...)---------))))))))............. ( -42.18)
>DroEre_CAF1 4997 111 - 1
UUGCGCGGCCAAAAAUACCAAAAGCCGAGCGCAGUGUGACCGUUCGCCGGUGCAGCGUAAAUACCAAAAAGCUCGCACGCUGCUGUUACC---------GUCACACUACAGCGAAAGCUU
..(((((((..............)))..))))((((((((.((..((.((((((((..............))).)))).).))....)).---------))))))))..(((....))). ( -37.88)
>DroYak_CAF1 2326 120 - 1
UUGCGCGGCCAAAAAUGCCAAAAGUCGCGUGCAGUGUGACCGUCCGUCAGCGCAGCGUAAAUACUGAAAAGCUCGCACGCUGCUGUUACGGUCGCUACGGUCACAUUAUAACGAAAGCUU
..(((((((..............)))))))..(((((((((((((((.((((((((((.....((....)).....))))))).))))))).....)))))))))))....(....)... ( -45.54)
>consensus
UUGCGCGGCCAAAAAUGCCAAAUGCCGCGCACAGUGUGACCAUCCGCCAGUGCAGCGUAAAUACCAAAAAGCUCACGCGCUGAUGCUACG_________GUUACACUACAACAAAAGCUU
.((((((((..............)))))))).((((((((((((.((..(((.(((..............))))))..)).))))..............))))))))............. (-30.71 = -29.07 +  -1.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:52:57 2006