Locus 7693

Sequence ID	X_DroMel_CAF1
Location	19,175,767 – 19,175,857
Length	90
Max. P	0.646290

overview

Window 7

Location	19,175,767 – 19,175,857
Length	90
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	76.06
Mean single sequence MFE	-29.82
Consensus MFE	-19.28
Energy contribution	-19.37
Covariance contribution	0.09
Combinations/Pair	1.23
Mean z-score	-1.27
Structure conservation index	0.65
SVM decision value	0.23
SVM RNA-class probability	0.646290
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19175767 90 + 22224390
-----------------------------CUGGAC-GACACUUACCAAGCGAAAGCUUUUCACCAGAAUCUGGUGGCAGUGUAAACCCUAGCAGUGCCAUGGAGGCGAUCAGUACGCACG
-----------------------------((((.(-(...(((...((((....))))...(((((...)))))((((.(((........))).))))...))).)).))))........ ( -26.90)
>DroVir_CAF1 12785 120 + 1
GGUUUCUGGUUUCUGGAUUUGAGUGUGUAUUAGAUGGACACUUACCAAGCGAGAGCUUCUCACCAGAAUCUGGUGGCAGGGUAAACCCUAGCAGUGCCAUCGAUGCGAUCAAUACGCAUG
....((..(...)..)).....(((((((((.(((((.((((....((((....))))..((((((...))))))((((((....)))).)))))))))))(((...)))))))))))). ( -42.30)
>DroGri_CAF1 12416 117 + 1
GGUUUUUGGAUUGU---UUCUGCUGUGUAUUAAAUGGACACUUACCAAGCGAGAGCUUUUCACCAGAAUCUGGUGGCAGUGUGAACCCUAGCAGUGCCAUCGAUGCGAUCAAUACGCACG
((((((((((..((---(..((((..(((.............)))..))))..)))..))))..))))))((((((((.(((........))).)))))))).((((.......)))).. ( -33.12)
>DroWil_CAF1 16446 88 + 1
-----------------------------CUG-AU-GA-ACUUACCAAGCGAGAGCUUCUCACCAGAAUCUGGUGGCAGUGUAAAACCUAGCAAUGCCAUCGAUGCGAUCAAUACGCAUG
-----------------------------(((-.(-((-.......((((....)))).))).)))....((((((((.(((........))).))))))))(((((.......))))). ( -25.20)
>DroYak_CAF1 16912 90 + 1
-----------------------------CUGGAC-GACACUUACCAAGCGAAAGCUUUUCACCAGAAUCUGGUGGCAGUGUAAACCCUAGCAGUGCCAUGGAGGCGAUCAGUACGCACG
-----------------------------((((.(-(...(((...((((....))))...(((((...)))))((((.(((........))).))))...))).)).))))........ ( -26.90)
>DroPer_CAF1 43229 90 + 1
-----------------------------CUGGGC-AACACUUACCAAGUGAAAGCUUCUCACCAGAAUCUGGCGGAAGUGUAAACCCUAGCAGUGCCAUGGAGGCAAUUAGUACGCACG
-----------------------------(((((.-.((((((.((((((....))))....((((...)))).))))))))....)))))...((((.....))))............. ( -24.50)
>consensus
_____________________________CUGGAC_GACACUUACCAAGCGAAAGCUUCUCACCAGAAUCUGGUGGCAGUGUAAACCCUAGCAGUGCCAUCGAGGCGAUCAAUACGCACG
.............................((((....(((((....((((....)))).(((((((...))))))).))))).....))))..((((....((.....)).....)))). (-19.28 = -19.37 +   0.09)

alignment

secondary structure

dotplot

Window 8

Location	19,175,767 – 19,175,857
Length	90
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	76.06
Mean single sequence MFE	-28.18
Consensus MFE	-20.56
Energy contribution	-20.17
Covariance contribution	-0.39
Combinations/Pair	1.17
Mean z-score	-0.91
Structure conservation index	0.73
SVM decision value	0.17
SVM RNA-class probability	0.615035
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19175767 90 - 22224390
CGUGCGUACUGAUCGCCUCCAUGGCACUGCUAGGGUUUACACUGCCACCAGAUUCUGGUGAAAAGCUUUCGCUUGGUAAGUGUC-GUCCAG-----------------------------
.(..((((((.((((((.....)))...((.(((((((.......((((((...))))))..))))))).))..))).)))).)-)..)..----------------------------- ( -24.90)
>DroVir_CAF1 12785 120 - 1
CAUGCGUAUUGAUCGCAUCGAUGGCACUGCUAGGGUUUACCCUGCCACCAGAUUCUGGUGAGAAGCUCUCGCUUGGUAAGUGUCCAUCUAAUACACACUCAAAUCCAGAAACCAGAAACC
.(((((.......))))).(((((((((((.((((....))))))((((((...))))))..((((....))))....)))).)))))................................ ( -34.20)
>DroGri_CAF1 12416 117 - 1
CGUGCGUAUUGAUCGCAUCGAUGGCACUGCUAGGGUUCACACUGCCACCAGAUUCUGGUGAAAAGCUCUCGCUUGGUAAGUGUCCAUUUAAUACACAGCAGAA---ACAAUCCAAAAACC
.((((.(((((((...))))))))))).....(((((....((((((((((...))))))..((((....)))).....((((.........)))).))))..---..)))))....... ( -31.40)
>DroWil_CAF1 16446 88 - 1
CAUGCGUAUUGAUCGCAUCGAUGGCAUUGCUAGGUUUUACACUGCCACCAGAUUCUGGUGAGAAGCUCUCGCUUGGUAAGU-UC-AU-CAG-----------------------------
.(((((.......))))).(((((..(((((((((......((.(((((((...)))))).).)).....)))))))))..-))-))-)..----------------------------- ( -26.90)
>DroYak_CAF1 16912 90 - 1
CGUGCGUACUGAUCGCCUCCAUGGCACUGCUAGGGUUUACACUGCCACCAGAUUCUGGUGAAAAGCUUUCGCUUGGUAAGUGUC-GUCCAG-----------------------------
.(..((((((.((((((.....)))...((.(((((((.......((((((...))))))..))))))).))..))).)))).)-)..)..----------------------------- ( -24.90)
>DroPer_CAF1 43229 90 - 1
CGUGCGUACUAAUUGCCUCCAUGGCACUGCUAGGGUUUACACUUCCGCCAGAUUCUGGUGAGAAGCUUUCACUUGGUAAGUGUU-GCCCAG-----------------------------
.............((((.....))))......((((..(((((((((((((...)))))((((...))))....)).)))))).-))))..----------------------------- ( -26.80)
>consensus
CGUGCGUACUGAUCGCAUCCAUGGCACUGCUAGGGUUUACACUGCCACCAGAUUCUGGUGAAAAGCUCUCGCUUGGUAAGUGUC_AUCCAG_____________________________
...(((.......)))......((((((((((((.......((..((((((...))))))...))......)))))).)))))).................................... (-20.56 = -20.17 +  -0.39)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:45:13 2006