Locus 6252

Sequence ID	3R_DroMel_CAF1
Location	16,307,491 – 16,307,583
Length	92
Max. P	0.995394

overview

Window 9

Location	16,307,491 – 16,307,583
Length	92
Sequences	5
Columns	96
Reading direction	forward
Mean pairwise identity	91.64
Mean single sequence MFE	-20.49
Consensus MFE	-17.76
Energy contribution	-17.88
Covariance contribution	0.12
Combinations/Pair	1.11
Mean z-score	-1.20
Structure conservation index	0.87
SVM decision value	-0.03
SVM RNA-class probability	0.519764
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16307491 92 + 27905053
UCCACUAUCUGGAUAGCCUCACCUGCCGCCAGAUUACCUGGCGAGGACCUAAAAA----AAAAAAGAGAAAGAAAAGCGAAACCAGGAUUAAAGCC
.......(((((...((....(((..((((((.....)))))))))..((.....----.....))..........))....)))))......... ( -18.20)
>DroSec_CAF1 5097 96 + 1
UCCACUAUCUGGAUGGCCUCACCUGCCGCCAGAUUACCUGGCGAGGACCUCAAAAAAAAAGAAAAGAGAAAGAAAAGCGAAACCAGGAUUAAAGCC
.......(((((.(.((....(((..((((((.....)))))))))..(((..............)))........)).)..)))))......... ( -20.64)
>DroSim_CAF1 10256 95 + 1
UCCACUAUCUGGAUGGCCUCACCUGCCGCCAGAUUACCUGGCGAGGACCUCAAAA-AAAAGAAAAGAGAAAGAAAAGCGAAACCAGGAUUAAAGCC
.......(((((.(.((....(((..((((((.....)))))))))..(((....-.........)))........)).)..)))))......... ( -20.72)
>DroEre_CAF1 8233 89 + 1
UCUACUAUCUGGAUGGCCUCACCUGCCGCCAGAUUACCUGGCGAGGACUUCAAAA----A---AAGAGAAAGGAAAGCGAAACCAGGAUUAAAGCC
......((((((.((((.......))))))))))..(((((((....((((....----.---....).))).....))...)))))......... ( -20.10)
>DroYak_CAF1 17095 92 + 1
UCCACUAUCUGGAUGGCCUCACCUGCCGCCAGAUUACCUGGCGAGGCUCUCAAAA----AGAAAUGAAAAAGGAAAGUGAAACCAGGAUUAAAGCC
((((.....))))(((..((((...(((((((.....)))))(((...)))....----............))...))))..)))........... ( -22.80)
>consensus
UCCACUAUCUGGAUGGCCUCACCUGCCGCCAGAUUACCUGGCGAGGACCUCAAAA____AGAAAAGAGAAAGAAAAGCGAAACCAGGAUUAAAGCC
.......(((((...((....(((..((((((.....)))))))))..(((..............)))........))....)))))......... (-17.76 = -17.88 +   0.12)

alignment

secondary structure

dotplot

Window 0

Location	16,307,491 – 16,307,583
Length	92
Sequences	5
Columns	96
Reading direction	reverse
Mean pairwise identity	91.64
Mean single sequence MFE	-27.81
Consensus MFE	-25.36
Energy contribution	-24.92
Covariance contribution	-0.44
Combinations/Pair	1.20
Mean z-score	-1.92
Structure conservation index	0.91
SVM decision value	2.57
SVM RNA-class probability	0.995394
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16307491 92 - 27905053
GGCUUUAAUCCUGGUUUCGCUUUUCUUUCUCUUUUUU----UUUUUAGGUCCUCGCCAGGUAAUCUGGCGGCAGGUGAGGCUAUCCAGAUAGUGGA
(((((((..((((.....((((...............----.....))))..(((((((.....)))))))))))))))))).((((.....)))) ( -23.15)
>DroSec_CAF1 5097 96 - 1
GGCUUUAAUCCUGGUUUCGCUUUUCUUUCUCUUUUCUUUUUUUUUGAGGUCCUCGCCAGGUAAUCUGGCGGCAGGUGAGGCCAUCCAGAUAGUGGA
(((((((..((((..............((((..............))))...(((((((.....)))))))))))))))))).((((.....)))) ( -28.64)
>DroSim_CAF1 10256 95 - 1
GGCUUUAAUCCUGGUUUCGCUUUUCUUUCUCUUUUCUUUU-UUUUGAGGUCCUCGCCAGGUAAUCUGGCGGCAGGUGAGGCCAUCCAGAUAGUGGA
(((((((..((((..............((((.........-....))))...(((((((.....)))))))))))))))))).((((.....)))) ( -28.72)
>DroEre_CAF1 8233 89 - 1
GGCUUUAAUCCUGGUUUCGCUUUCCUUUCUCUU---U----UUUUGAAGUCCUCGCCAGGUAAUCUGGCGGCAGGUGAGGCCAUCCAGAUAGUAGA
.(((.......(((((((((((.((.....(((---(----....)))).....(((((.....))))))).))))))))))).......)))... ( -27.44)
>DroYak_CAF1 17095 92 - 1
GGCUUUAAUCCUGGUUUCACUUUCCUUUUUCAUUUCU----UUUUGAGAGCCUCGCCAGGUAAUCUGGCGGCAGGUGAGGCCAUCCAGAUAGUGGA
...........(((((((((((.((.((((((.....----...))))))....(((((.....))))))).)))))))))))((((.....)))) ( -31.10)
>consensus
GGCUUUAAUCCUGGUUUCGCUUUUCUUUCUCUUUUCU____UUUUGAGGUCCUCGCCAGGUAAUCUGGCGGCAGGUGAGGCCAUCCAGAUAGUGGA
.(((.......(((((((((((.((..((((..............)))).....(((((.....))))))).))))))))))).......)))... (-25.36 = -24.92 +  -0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:48 2006