Locus 5956

Sequence ID	X_DroMel_CAF1
Location	15,349,628 – 15,349,719
Length	91
Max. P	0.894349

overview

Window 6

Location	15,349,628 – 15,349,719
Length	91
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	58.37
Mean single sequence MFE	-35.82
Consensus MFE	-12.20
Energy contribution	-12.85
Covariance contribution	0.65
Combinations/Pair	1.22
Mean z-score	-2.13
Structure conservation index	0.34
SVM decision value	0.98
SVM RNA-class probability	0.894349
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15349628 91 + 22224390
CAGAUGACCGGCGGAGGAGCUGCCGCCACAGCUGCUCCUGUUGGU-UAAAUCCUCAAAUCGCUUAAGGAAUCGAGGAAUUUUCCACACCUUU----------------------------
....((((((((((((.(((((......))))).)))).))))))-))..(((((...((.......))...)))))...............---------------------------- ( -31.80)
>DroPse_CAF1 12487 98 + 1
UGGCUGACUGUGACAGGAGCUGUUCCCGCGGCU---------GGC-CAGUUCCUCGAAGCGUUUGAGGAAGCGCGGCACCUUCCACACCAUCAGCCGGCUCUU------------GGGCG
.((((((.((((..(((((((((....))))))---------.((-(.(((((((((.....)))))).)))..))).)))..))))...)))))).(((...------------.))). ( -42.50)
>DroSec_CAF1 8586 119 + 1
CAGAUGACCAGCGGAGGAGCUGCCGCCGCAGCUACUCCUGUUGGU-UAAUUCCUCAAAUCGCUUGAGGAAUCGUGGAAUUUUCCACACCUUUAGCUUGAUCUUCGAUCGUGUUUCGGCCG
....((((((((((((.((((((....)))))).)))).))))))-))(((((((((.....))))))))).(((((....))))).((...(((.(((((...))))).)))..))... ( -49.50)
>DroSim_CAF1 8403 88 + 1
NNNNNNNNNNNNNNNNNNNNNNCUAUCGUAGC----CAUGUUGGUGUAAAUCCUCAAAACGCUUGAGGAAUCGUGGAAUUUUCCACACUUUU----------------------------
..............................((----(.....))).....(((((((.....)))))))...(((((....)))))......---------------------------- ( -17.90)
>DroYak_CAF1 10004 91 + 1
CAGCUGAGCGGCGGAUGAGAUGCUGCCGCAGCUGCUUCUGUUGGU-UAAGUCCUCGAAUCGCUUGAGAAAACGUGGAAUUUUCCACACCUUU----------------------------
(((((..(((((((........))))))))))))........(((-......(((((.....))))).....(((((....))))))))...---------------------------- ( -30.70)
>DroPer_CAF1 13152 98 + 1
UGGCUGACUGUGACAGGAGCUGUUCCCGCGGCU---------GGC-CAGUUCCUCGAAGCGUUUGAGGAAGCGCGGCACCUUCCACACCAUCAGCCGGCUCUU------------GGGCG
.((((((.((((..(((((((((....))))))---------.((-(.(((((((((.....)))))).)))..))).)))..))))...)))))).(((...------------.))). ( -42.50)
>consensus
CAGCUGACCGGCGGAGGAGCUGCUGCCGCAGCU___CCUGUUGGU_UAAUUCCUCAAAUCGCUUGAGGAAUCGUGGAAUUUUCCACACCUUU____________________________
.................((((((....)))))).........((......(((((((.....)))))))...(.((......)).).))............................... (-12.20 = -12.85 +   0.65)

alignment

secondary structure

dotplot

Window 7

Location	15,349,628 – 15,349,719
Length	91
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	58.37
Mean single sequence MFE	-33.58
Consensus MFE	-12.22
Energy contribution	-11.58
Covariance contribution	-0.64
Combinations/Pair	1.42
Mean z-score	-1.78
Structure conservation index	0.36
SVM decision value	0.68
SVM RNA-class probability	0.821452
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15349628 91 - 22224390
----------------------------AAAGGUGUGGAAAAUUCCUCGAUUCCUUAAGCGAUUUGAGGAUUUA-ACCAACAGGAGCAGCUGUGGCGGCAGCUCCUCCGCCGGUCAUCUG
----------------------------..((((((((..((.(((((((.(((....).)).))))))).)).-.)))...((((.((((((....)))))).))))......))))). ( -32.40)
>DroPse_CAF1 12487 98 - 1
CGCCC------------AAGAGCCGGCUGAUGGUGUGGAAGGUGCCGCGCUUCCUCAAACGCUUCGAGGAACUG-GCC---------AGCCGCGGGAACAGCUCCUGUCACAGUCAGCCA
.((..------------....)).(((((((..((((...(((((((.(.((((((.........)))))))))-)).---------.)))((((((.....))))))))))))))))). ( -38.10)
>DroSec_CAF1 8586 119 - 1
CGGCCGAAACACGAUCGAAGAUCAAGCUAAAGGUGUGGAAAAUUCCACGAUUCCUCAAGCGAUUUGAGGAAUUA-ACCAACAGGAGUAGCUGCGGCGGCAGCUCCUCCGCUGGUCAUCUG
.((((.......((((...)))).(((....((((((((....)))))(((((((((((...))))))))))).-)))....((((.((((((....)))))).)))))))))))..... ( -50.30)
>DroSim_CAF1 8403 88 - 1
----------------------------AAAAGUGUGGAAAAUUCCACGAUUCCUCAAGCGUUUUGAGGAUUUACACCAACAUG----GCUACGAUAGNNNNNNNNNNNNNNNNNNNNNN
----------------------------...((((((((....)))))((.((((((((...)))))))).))...........----)))............................. ( -15.70)
>DroYak_CAF1 10004 91 - 1
----------------------------AAAGGUGUGGAAAAUUCCACGUUUUCUCAAGCGAUUCGAGGACUUA-ACCAACAGAAGCAGCUGCGGCAGCAUCUCAUCCGCCGCUCAGCUG
----------------------------...((((((((....)))))((((((...........))))))...-)))........((((((((((............)))))..))))) ( -26.90)
>DroPer_CAF1 13152 98 - 1
CGCCC------------AAGAGCCGGCUGAUGGUGUGGAAGGUGCCGCGCUUCCUCAAACGCUUCGAGGAACUG-GCC---------AGCCGCGGGAACAGCUCCUGUCACAGUCAGCCA
.((..------------....)).(((((((..((((...(((((((.(.((((((.........)))))))))-)).---------.)))((((((.....))))))))))))))))). ( -38.10)
>consensus
____________________________AAAGGUGUGGAAAAUUCCACGAUUCCUCAAGCGAUUCGAGGAAUUA_ACCAACAGG___AGCUGCGGCAGCAGCUCCUCCGCCGGUCAGCUG
...............................(((((((......))))...(((((.........)))))..................)))............................. (-12.22 = -11.58 +  -0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:00:29 2006