Locus 6484

Sequence ID	X_DroMel_CAF1
Location	16,261,693 – 16,261,848
Length	155
Max. P	0.994958

overview

Window 0

Location	16,261,693 – 16,261,813
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	96.53
Mean single sequence MFE	-19.18
Consensus MFE	-17.51
Energy contribution	-17.32
Covariance contribution	-0.19
Combinations/Pair	1.10
Mean z-score	-1.84
Structure conservation index	0.91
SVM decision value	0.54
SVM RNA-class probability	0.774360
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16261693 120 + 22224390
AACACACCAACACAAACAAACGCAUUUGCACACGUAGCUGAAGUCGAAAAGACAAAUGCAAAACAAAACAUUUCCAUCGUUUGUUUUGAUCACUUUCAUUCGCCUUUCCGACAGCUAAUU
.....................((....)).....(((((...((((.((((.(.(((((((((((((............)))))))))........)))).).)))).)))))))))... ( -19.50)
>DroSec_CAF1 9990 120 + 1
AACACACCAACACAAACAAACGCAUGUGCACACAUAGCUGAAGUCGAAAAGACAAAUGCAAAACAAAACAUUUCCAUCUUUUGUUUUGAUCACUUUCAUUCGCCUUUCCGACAGCUAAUU
.....................((....)).....(((((...((((.((((.(.((((((((((((((.((....)).))))))))))........)))).).)))).)))))))))... ( -20.80)
>DroEre_CAF1 10100 120 + 1
AACACACCAACACAAACAAACGCAUGUGCACGCAUAGCUGAAGUCGAAAAGACAAACGCAAAACAAAACAUUUCCAUCGUUUGUUUUGAUCACUUUCAUUCGCCUUUCCGAUUGCUAAUU
.....................((....))..(((.....((((.((((((((((((((...................))))))))))((......)).)))).)))).....)))..... ( -18.11)
>DroYak_CAF1 9995 120 + 1
AACACACCAACACAAACAAACGCAUGUGCACACAUAGCUAAAGUCGAAAAGACAAAUGCAAAACAAAACAUUUCCAUCGUUUGUUUUGAUCACUUUCAUUCGCCUUUCCGAUAGCUAAUU
.....................((....)).....(((((...((((.((((.(.(((((((((((((............)))))))))........)))).).)))).)))))))))... ( -18.30)
>consensus
AACACACCAACACAAACAAACGCAUGUGCACACAUAGCUGAAGUCGAAAAGACAAAUGCAAAACAAAACAUUUCCAUCGUUUGUUUUGAUCACUUUCAUUCGCCUUUCCGACAGCUAAUU
.....................((....)).....((((((..(((.....))).....(((((((((............))))))))).......................))))))... (-17.51 = -17.32 +  -0.19)

alignment

secondary structure

dotplot

Window 1

Location	16,261,693 – 16,261,813
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	96.53
Mean single sequence MFE	-37.05
Consensus MFE	-34.61
Energy contribution	-34.92
Covariance contribution	0.31
Combinations/Pair	1.05
Mean z-score	-3.39
Structure conservation index	0.93
SVM decision value	1.87
SVM RNA-class probability	0.980680
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16261693 120 - 22224390
AAUUAGCUGUCGGAAAGGCGAAUGAAAGUGAUCAAAACAAACGAUGGAAAUGUUUUGUUUUGCAUUUGUCUUUUCGACUUCAGCUACGUGUGCAAAUGCGUUUGUUUGUGUUGGUGUGUU
...(((((((((((((((((((((........(((((((((..((....))..)))))))))))))))))))))))))...))))).(..(((.((((((......)))))).)))..). ( -36.80)
>DroSec_CAF1 9990 120 - 1
AAUUAGCUGUCGGAAAGGCGAAUGAAAGUGAUCAAAACAAAAGAUGGAAAUGUUUUGUUUUGCAUUUGUCUUUUCGACUUCAGCUAUGUGUGCACAUGCGUUUGUUUGUGUUGGUGUGUU
...(((((((((((((((((((((........((((((((((.((....)).))))))))))))))))))))))))))...))))).....(((((((((......)))....)))))). ( -41.00)
>DroEre_CAF1 10100 120 - 1
AAUUAGCAAUCGGAAAGGCGAAUGAAAGUGAUCAAAACAAACGAUGGAAAUGUUUUGUUUUGCGUUUGUCUUUUCGACUUCAGCUAUGCGUGCACAUGCGUUUGUUUGUGUUGGUGUGUU
.(((((((.(((((((((((((((........(((((((((..((....))..))))))))))))))))))))))))....(((.((((((....))))))..)))..)))))))..... ( -34.50)
>DroYak_CAF1 9995 120 - 1
AAUUAGCUAUCGGAAAGGCGAAUGAAAGUGAUCAAAACAAACGAUGGAAAUGUUUUGUUUUGCAUUUGUCUUUUCGACUUUAGCUAUGUGUGCACAUGCGUUUGUUUGUGUUGGUGUGUU
...(((((((((((((((((((((........(((((((((..((....))..))))))))))))))))))))))))...)))))).....(((((((((......)))....)))))). ( -35.90)
>consensus
AAUUAGCUAUCGGAAAGGCGAAUGAAAGUGAUCAAAACAAACGAUGGAAAUGUUUUGUUUUGCAUUUGUCUUUUCGACUUCAGCUAUGUGUGCACAUGCGUUUGUUUGUGUUGGUGUGUU
...(((((((((((((((((((((........(((((((((..((....))..))))))))))))))))))))))))...))))))...(..((((((((......)))))..)))..). (-34.61 = -34.92 +   0.31)

alignment

secondary structure

dotplot

Window 2

Location	16,261,733 – 16,261,848
Length	115
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	89.36
Mean single sequence MFE	-29.97
Consensus MFE	-27.47
Energy contribution	-27.29
Covariance contribution	-0.19
Combinations/Pair	1.06
Mean z-score	-2.69
Structure conservation index	0.92
SVM decision value	2.53
SVM RNA-class probability	0.994958
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16261733 115 - 22224390
UCAUACUUGAAUGUCGAUAGCA-----AUACAACGGCAAGAAUUAGCUGUCGGAAAGGCGAAUGAAAGUGAUCAAAACAAACGAUGGAAAUGUUUUGUUUUGCAUUUGUCUUUUCGACUU
(((....)))..((((((((((-----((.(........).))).))))))(((((((((((((........(((((((((..((....))..))))))))))))))))))))))))).. ( -32.60)
>DroSec_CAF1 10030 115 - 1
UUCAACUUGAAUAUCGAUAGCA-----AUACAACGACUAGAAUUAGCUGUCGGAAAGGCGAAUGAAAGUGAUCAAAACAAAAGAUGGAAAUGUUUUGUUUUGCAUUUGUCUUUUCGACUU
.............(((((((((-----((.(........).))).))))))(((((((((((((........((((((((((.((....)).)))))))))))))))))))))))))... ( -32.90)
>DroEre_CAF1 10140 120 - 1
CCUUACUUAAAUAUCGAUAGCACAGCACUACAGCGACAAGAAUUAGCAAUCGGAAAGGCGAAUGAAAGUGAUCAAAACAAACGAUGGAAAUGUUUUGUUUUGCGUUUGUCUUUUCGACUU
........................((......))...............(((((((((((((((........(((((((((..((....))..))))))))))))))))))))))))... ( -25.80)
>DroYak_CAF1 10035 112 - 1
CCUCACUUAAAUAUCGAUAGCA-----AUACA---ACAAUAAUUAGCUAUCGGAAAGGCGAAUGAAAGUGAUCAAAACAAACGAUGGAAAUGUUUUGUUUUGCAUUUGUCUUUUCGACUU
.............((((((((.-----.....---..........))))))(((((((((((((........(((((((((..((....))..))))))))))))))))))))))))... ( -28.59)
>consensus
CCUUACUUAAAUAUCGAUAGCA_____AUACAACGACAAGAAUUAGCUAUCGGAAAGGCGAAUGAAAGUGAUCAAAACAAACGAUGGAAAUGUUUUGUUUUGCAUUUGUCUUUUCGACUU
.............((((((((........................))))))(((((((((((((........(((((((((..((....))..))))))))))))))))))))))))... (-27.47 = -27.29 +  -0.19)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:00 2006