Locus 2180

Sequence ID	2R_DroMel_CAF1
Location	8,066,102 – 8,066,211
Length	109
Max. P	0.849272

overview

Window 2

Location	8,066,102 – 8,066,199
Length	97
Sequences	6
Columns	116
Reading direction	forward
Mean pairwise identity	77.29
Mean single sequence MFE	-24.77
Consensus MFE	-15.00
Energy contribution	-15.75
Covariance contribution	0.75
Combinations/Pair	1.13
Mean z-score	-1.63
Structure conservation index	0.61
SVM decision value	0.49
SVM RNA-class probability	0.755446
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8066102 97 + 20766785
-----CA----UACAUAAAU--------CCUGCUCG--CUCCAUCGCCAUUAGGUGUUUGAUGGCUGCUUGUAAUUAGCAUAAUUGAAAUGUAGCCACAGAAACCGGGGUUCGCAA
-----..----.........--------..(((..(--((((..((((....))))((((.(((((((...((((((...))))))....)))))))))))....)))))..))). ( -29.10)
>DroVir_CAF1 16620 84 + 1
--------UGGCACAUAAAU--------CCUG---G---CCCAGAGCCAUUAGGUGUUUGAUGGCUGCUUGUAAUUAGCAUAAUUGAAAUGUAAUAAAAGGAGUGG----------
--------...(((.....(--------(((.---.---.....(((((((((....)))))))))(((.......)))...................))))))).---------- ( -17.00)
>DroSim_CAF1 15154 95 + 1
-----C--------AUAAAU--------CCUGCUCGAACCCCAUAGCCAUUAGGUGUUUGAUGGCUGCUUGUAAUUAGCAUAAUUGAAAUGUAGCCACAGAAACCGGGGUUCGCAA
-----.--------......--------..(((..(((((((...(((....))).((((.(((((((...((((((...))))))....)))))))))))....)))))))))). ( -32.80)
>DroEre_CAF1 29548 88 + 1
-----C--------AUAAAU--------CCUGCUCG--CCCCAUUGCCAUUAGGUGUUUGAUGGCUGCUUGUAAUUAGCAUAAUUGAAAUGUAGCCACAGGAACCGGGCUU-----
-----.--------......--------...(((((--(......)).....(((.((((.(((((((...((((((...))))))....))))))))))).)))))))..----- ( -24.60)
>DroYak_CAF1 29477 95 + 1
-----C--------AUAAAUCCUGAAAUCCUGCUCG--CCCCAUUGCCAUUAGGUGUUUGAUGGCUGCUUGUAAUUAGCAUAAUUGAAAUGUAGCCACAGAAACCGGG-UU-----
-----.--------...........(((((.....(--(......)).....(((.((((.(((((((...((((((...))))))....))))))))))).))))))-))----- ( -23.60)
>DroAna_CAF1 30154 93 + 1
UCCUACAAGAGCCCAUAAAU--------CCU---CG---CCCAUGGCCAUUAGGUGUUUGAUGGCUGCUUGUAAUUAGCAUAAUUGAAAUGUAACCACAG---CCGGG------AA
(((((((((((((..(((((--------(((---.(---((...)))....))).)))))..)))).))))).....((((.......))))........---..)))------). ( -21.50)
>consensus
_____C________AUAAAU________CCUGCUCG__CCCCAUAGCCAUUAGGUGUUUGAUGGCUGCUUGUAAUUAGCAUAAUUGAAAUGUAGCCACAGAAACCGGG_UU_____
.......................................(((...(((....))).((((.(((((((...((((((...))))))....)))))))))))....)))........ (-15.00 = -15.75 +   0.75)

alignment

secondary structure

dotplot

Window 3

Location	8,066,121 – 8,066,211
Length	90
Sequences	6
Columns	92
Reading direction	forward
Mean pairwise identity	83.70
Mean single sequence MFE	-30.27
Consensus MFE	-22.36
Energy contribution	-22.52
Covariance contribution	0.16
Combinations/Pair	1.26
Mean z-score	-2.88
Structure conservation index	0.74
SVM decision value	0.78
SVM RNA-class probability	0.849272
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8066121 90 + 20766785
--CUCCAUCGCCAUUAGGUGUUUGAUGGCUGCUUGUAAUUAGCAUAAUUGAAAUGUAGCCACAGAAACCGGGGUUCGCAACGGGGUGAAAAG
--.....(((((........((((.(((((((...((((((...))))))....)))))))))))..(((..(....)..)))))))).... ( -27.70)
>DroSec_CAF1 31240 92 + 1
AACCCCAUAGCCAUUAGGUGUUUGAUGGCUGCUUGUAAUUAGCAUAAUUGAAAUGUAGCCACAGAAACCGGGGUUCGCAACGGGGUGAAAAG
.(((((..((((....(((.((((.(((((((...((((((...))))))....))))))))))).)))..))))......)))))...... ( -31.20)
>DroSim_CAF1 15169 92 + 1
AACCCCAUAGCCAUUAGGUGUUUGAUGGCUGCUUGUAAUUAGCAUAAUUGAAAUGUAGCCACAGAAACCGGGGUUCGCAACGGGGUGAAAAG
.(((((..((((....(((.((((.(((((((...((((((...))))))....))))))))))).)))..))))......)))))...... ( -31.20)
>DroEre_CAF1 29563 84 + 1
--CCCCAUUGCCAUUAGGUGUUUGAUGGCUGCUUGUAAUUAGCAUAAUUGAAAUGUAGCCACAGGAACCGGGCUU------GGGGUGAAAAG
--(((((..(((....(((.((((.(((((((...((((((...))))))....))))))))))).))).))).)------))))....... ( -33.40)
>DroYak_CAF1 29500 83 + 1
--CCCCAUUGCCAUUAGGUGUUUGAUGGCUGCUUGUAAUUAGCAUAAUUGAAAUGUAGCCACAGAAACCGGG-UU------GGGGUGGAAAG
--(((((..(((....(((.((((.(((((((...((((((...))))))....))))))))))).))).))-))------))))....... ( -31.50)
>DroPer_CAF1 4635 82 + 1
---CCCAUGGCCAUUAGGUGUUCGAUGGCCGCUUGUAAUUAGCAUAAUUGAAAUGUGUACGGGG----UGGGGCAUGCGGCGGG---GGCAC
---((((((((((((........))))))).((((((....((((.......)))).)))))))----))))...(((......---.))). ( -26.60)
>consensus
__CCCCAUAGCCAUUAGGUGUUUGAUGGCUGCUUGUAAUUAGCAUAAUUGAAAUGUAGCCACAGAAACCGGGGUUCGCAACGGGGUGAAAAG
..((((...(((....(((.((((.(((((((...((((((...))))))....))))))))))).)))..))).......))))....... (-22.36 = -22.52 +   0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:16 2006