Locus 5976

Sequence ID	3L_DroMel_CAF1
Location	15,985,002 – 15,985,162
Length	160
Max. P	0.685480

overview

Window 1

Location	15,985,002 – 15,985,122
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	98.00
Mean single sequence MFE	-30.05
Consensus MFE	-29.49
Energy contribution	-30.09
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-1.18
Structure conservation index	0.98
SVM decision value	0.26
SVM RNA-class probability	0.658813
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15985002 120 - 23771897
AACGAAGACGUAGACAAAGUCGGCGAAACAACAAAGCGAAAAUCUCUGCAUUGGGGCACACGCCAUUCCGAACAUCAAAGCGCGCCGCCAGCACAGAUUUUCUGAGGUUACCAACGCCAC
......(((.........)))((((............((((((((.(((..((((((...(((................))).))).)))))).))))))))...((...))..)))).. ( -31.29)
>DroSec_CAF1 14276 120 - 1
AACGAAGACGUAGACAAAGUCGGCGAAACAACAAAGCGAAAAUCUCUGCAUUGGGGCACACGCCAUUCCGAACAUCAAAGCGCGCCGCCAGCACAGAUUUUCUGAGGUUACCAACGCCAC
......(((.........)))((((............((((((((.(((..((((((...(((................))).))).)))))).))))))))...((...))..)))).. ( -31.29)
>DroSim_CAF1 15094 120 - 1
AACGAAGACGUAGACAAAGUCGGCGAAACAACAAAGCGAAAAUCUCUGCAUUGGGGCACACGCCAUUCCGAACAUCAAAGCGCGCCGCCAGCACAGAUUUUCUGAGGUUACCAACGCCAC
......(((.........)))((((............((((((((.(((..((((((...(((................))).))).)))))).))))))))...((...))..)))).. ( -31.29)
>DroEre_CAF1 14999 120 - 1
AACUAAGACGUAGACAAAGUCGGCGAAACAACAAAGCGAAUAUCUCUGCAUAGGGGCACACGCCAUUCCCAACAUCAAAGCGCGCCGCCAGCACAGAUUUUCUGAGGUUACCAACGCCAC
......(((.........)))((((............(((.((((.(((...(((((...(((................))).))).)).))).)))).)))...((...))..)))).. ( -26.49)
>DroYak_CAF1 14463 120 - 1
AACUAAGACGUAGACAAAGUCGGCGAAACAACAAAGCGAAAAUCUCUGCAUAGGGGCACACGCCAUUCGGAACAUCAAAGCGCGCCGCCAGCACAGAUUUUCUGAGGUUACCAACGCCAC
......(((.........)))((((............((((((((.(((...(((((....)))...(((..(........)..))))).))).))))))))...((...))..)))).. ( -29.90)
>consensus
AACGAAGACGUAGACAAAGUCGGCGAAACAACAAAGCGAAAAUCUCUGCAUUGGGGCACACGCCAUUCCGAACAUCAAAGCGCGCCGCCAGCACAGAUUUUCUGAGGUUACCAACGCCAC
......(((.........)))((((............((((((((.(((..((((((...(((................))).))).)))))).))))))))...((...))..)))).. (-29.49 = -30.09 +   0.60)

alignment

secondary structure

dotplot

Window 2

Location	15,985,042 – 15,985,162
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	96.67
Mean single sequence MFE	-34.92
Consensus MFE	-31.65
Energy contribution	-32.25
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-1.27
Structure conservation index	0.91
SVM decision value	0.32
SVM RNA-class probability	0.685480
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15985042 120 - 23771897
AAAUUGCUGUUGCAUGGCGAUGGUGUUGUUGUUGGCCGGCAACGAAGACGUAGACAAAGUCGGCGAAACAACAAAGCGAAAAUCUCUGCAUUGGGGCACACGCCAUUCCGAACAUCAAAG
...(((.(((((.((((((.((((.((((((((.((((....)...(((.........))))))..)))))))).)).....((((......))))..))))))))..).)))).))).. ( -35.20)
>DroSec_CAF1 14316 120 - 1
AAAUUGCUGUUGCAUGGCGAUGGUGUUGUUGUUGGCCGGCAACGAAGACGUAGACAAAGUCGGCGAAACAACAAAGCGAAAAUCUCUGCAUUGGGGCACACGCCAUUCCGAACAUCAAAG
...(((.(((((.((((((.((((.((((((((.((((....)...(((.........))))))..)))))))).)).....((((......))))..))))))))..).)))).))).. ( -35.20)
>DroSim_CAF1 15134 120 - 1
AAAUUGCUGUUGCAUGGCGAUGUUGUUGUUGUUGGCCGGCAACGAAGACGUAGACAAAGUCGGCGAAACAACAAAGCGAAAAUCUCUGCAUUGGGGCACACGCCAUUCCGAACAUCAAAG
...(((.(((((.((((((.((((.((((((((.((((....)...(((.........))))))..))))))))))))....((((......))))....))))))..).)))).))).. ( -34.20)
>DroEre_CAF1 15039 120 - 1
AAAUUACUGUUGCAUGGCGACGGUGUUGUUGUUGGCAGGCAACUAAGACGUAGACAAAGUCGGCGAAACAACAAAGCGAAUAUCUCUGCAUAGGGGCACACGCCAUUCCCAACAUCAAAG
.......(((((.((((((...(((((((((((.((((....))..(((.........))).))..))))))...(((........))).....))))).))))))...)))))...... ( -32.80)
>DroYak_CAF1 14503 120 - 1
AAAUUGCUGUUGCAUGGCGAUGGUGUUGUUGUUGGCCGGCAACUAAGACGUAGACAAAGUCGGCGAAACAACAAAGCGAAAAUCUCUGCAUAGGGGCACACGCCAUUCGGAACAUCAAAG
...(((.((((.(((((((.((((.((((((((.((((((..(((.....))).....))))))..)))))))).)).....(((((....)))))..))))))))..).)))).))).. ( -37.20)
>consensus
AAAUUGCUGUUGCAUGGCGAUGGUGUUGUUGUUGGCCGGCAACGAAGACGUAGACAAAGUCGGCGAAACAACAAAGCGAAAAUCUCUGCAUUGGGGCACACGCCAUUCCGAACAUCAAAG
...(((.(((((.((((((...(((((((((((.((((((..................))))))..))))))...(((........))).....))))).)))))).)..)))).))).. (-31.65 = -32.25 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:43 2006