Locus 5921

Sequence ID	2L_DroMel_CAF1
Location	16,706,959 – 16,707,159
Length	200
Max. P	0.978509

overview

Window 1

Location	16,706,959 – 16,707,079
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	95.56
Mean single sequence MFE	-37.53
Consensus MFE	-35.37
Energy contribution	-36.37
Covariance contribution	1.00
Combinations/Pair	1.00
Mean z-score	-2.88
Structure conservation index	0.94
SVM decision value	1.82
SVM RNA-class probability	0.978509
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16706959 120 + 22407834
GAACAGCUGGAAUGAGUUGCAAACAUCACAGACAAUGCCGUUUAAAUGGAAAAUUGUUAGACGUCACAGGCCAGCGAGAGCUACAACCUAAACAGUCAGGCGACCAGUUGUCAGCUGUUC
((((((((((..((.(((((..........((((((.((((....))))...)))))).(((.....(((..(((....)))....))).....)))..)))))))....)))))))))) ( -41.50)
>DroSec_CAF1 161606 120 + 1
GAACAGCUGGAAUGAGUUGCAAACAUCACAGACAAUGCCGUUUAAAUGGAAAAUUGUUAGACGUCACAGGCCAGCAAGAGCUACAACCUAAACAGUCAGGCGACCAGUUGUCAGCUGUUC
((((((((((..((.(((((..........((((((.((((....))))...)))))).(((.....(((..(((....)))....))).....)))..)))))))....)))))))))) ( -38.80)
>DroEre_CAF1 162766 120 + 1
GAACAGCUGGAAUGAGUUGCGAACAUCACAGACAAUGCCUUUUAAAUGGAAAAUUGUUAGACGUCACAGGCCAGCGAUAGCUACAACCUAAGCAGUCCGAAGACCAGUUGUCAGCUGUUC
((((((((((..((.(((.((.........((((((.((........))...)))))).(((.....(((..(((....)))....))).....)))))..)))))....)))))))))) ( -32.30)
>consensus
GAACAGCUGGAAUGAGUUGCAAACAUCACAGACAAUGCCGUUUAAAUGGAAAAUUGUUAGACGUCACAGGCCAGCGAGAGCUACAACCUAAACAGUCAGGCGACCAGUUGUCAGCUGUUC
((((((((((..((.(((((..........((((((.((((....))))...)))))).(((.....(((..(((....)))....))).....)))..)))))))....)))))))))) (-35.37 = -36.37 +   1.00)

alignment

secondary structure

dotplot

Window 2

Location	16,706,959 – 16,707,079
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	95.56
Mean single sequence MFE	-36.47
Consensus MFE	-34.49
Energy contribution	-34.27
Covariance contribution	-0.22
Combinations/Pair	1.02
Mean z-score	-2.06
Structure conservation index	0.95
SVM decision value	0.88
SVM RNA-class probability	0.872509
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16706959 120 - 22407834
GAACAGCUGACAACUGGUCGCCUGACUGUUUAGGUUGUAGCUCUCGCUGGCCUGUGACGUCUAACAAUUUUCCAUUUAAACGGCAUUGUCUGUGAUGUUUGCAACUCAUUCCAGCUGUUC
(((((((((......((((((((((....))))))...(((....)))))))((..(((((..(((((...((........)).)))))....)))).)..))........))))))))) ( -35.20)
>DroSec_CAF1 161606 120 - 1
GAACAGCUGACAACUGGUCGCCUGACUGUUUAGGUUGUAGCUCUUGCUGGCCUGUGACGUCUAACAAUUUUCCAUUUAAACGGCAUUGUCUGUGAUGUUUGCAACUCAUUCCAGCUGUUC
(((((((((......((((((((((....))))))...(((....)))))))((..(((((..(((((...((........)).)))))....)))).)..))........))))))))) ( -35.80)
>DroEre_CAF1 162766 120 - 1
GAACAGCUGACAACUGGUCUUCGGACUGCUUAGGUUGUAGCUAUCGCUGGCCUGUGACGUCUAACAAUUUUCCAUUUAAAAGGCAUUGUCUGUGAUGUUCGCAACUCAUUCCAGCUGUUC
(((((((((((((((((((....)))).....)))))).((((....)))).(((((((((..(((((...((........)).)))))....)))).)))))........))))))))) ( -38.40)
>consensus
GAACAGCUGACAACUGGUCGCCUGACUGUUUAGGUUGUAGCUCUCGCUGGCCUGUGACGUCUAACAAUUUUCCAUUUAAACGGCAUUGUCUGUGAUGUUUGCAACUCAUUCCAGCUGUUC
(((((((((((((((((((....)))).....))))))(((....)))((..(((((((((..(((((...((........)).)))))....)))).)))))..))....))))))))) (-34.49 = -34.27 +  -0.22)

alignment

secondary structure

dotplot

Window 3

Location	16,707,039 – 16,707,159
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	94.43
Mean single sequence MFE	-30.10
Consensus MFE	-30.81
Energy contribution	-31.03
Covariance contribution	0.23
Combinations/Pair	1.07
Mean z-score	-1.62
Structure conservation index	1.02
SVM decision value	0.87
SVM RNA-class probability	0.870950
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16707039 120 + 22407834
CUACAACCUAAACAGUCAGGCGACCAGUUGUCAGCUGUUCGGGGAAAACUUUACGCUGCACCGCACAAAAUCACCAAACAAUGGCCCACAAUUAGGUUGGCCCUUAAGUCAAGUUCCUUU
......((..((((((..(((((....))))).))))))..))...(((((.((((......))..................((((.((......)).)))).....)).)))))..... ( -28.80)
>DroSec_CAF1 161686 119 + 1
CUACAACCUAAACAGUCAGGCGACCAGUUGUCAGCUGUUCGGGGAAAACUUUACGCUGCACCGCACAAAAUC-CCAAACAAUGGCCAACAAUUAGGUUGGCCCUUAAGUCAAGUUCCUUU
......((..((((((..(((((....))))).))))))..))...(((((.((((......))........-.........(((((((......))))))).....)).)))))..... ( -32.90)
>DroEre_CAF1 162846 117 + 1
CUACAACCUAAGCAGUCCGAAGACCAGUUGUCAGCUGUUCGGGGAAAACUUUACGCUGCACCGCACAAAAUC-CAACACAAUGGCCAACAAUUAGGUUGGCCCUUAAGUCAAGUUCCU--
......((..((((((..((.((....)).)).))))))..))...(((((.((((......))........-.........(((((((......))))))).....)).)))))...-- ( -28.60)
>consensus
CUACAACCUAAACAGUCAGGCGACCAGUUGUCAGCUGUUCGGGGAAAACUUUACGCUGCACCGCACAAAAUC_CCAAACAAUGGCCAACAAUUAGGUUGGCCCUUAAGUCAAGUUCCUUU
......((..((((((..(((((....))))).))))))..))...(((((.((((......))..................(((((((......))))))).....)).)))))..... (-30.81 = -31.03 +   0.23)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:36 2006