Locus 2233

Sequence ID	3L_DroMel_CAF1
Location	6,191,903 – 6,192,002
Length	99
Max. P	0.868954

overview

Window 6

Location	6,191,903 – 6,192,002
Length	99
Sequences	6
Columns	109
Reading direction	forward
Mean pairwise identity	77.91
Mean single sequence MFE	-28.97
Consensus MFE	-19.38
Energy contribution	-19.55
Covariance contribution	0.17
Combinations/Pair	1.06
Mean z-score	-1.66
Structure conservation index	0.67
SVM decision value	0.86
SVM RNA-class probability	0.868954
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6191903 99 + 23771897
----UUCUUUUCGUAUUCCUUUGGUGGAGCUCAUCCAACCGCACUGGAUGGCUCUUCUCGAGCAACUGAUGGCACCGCAGCGAGAAGUUUUCCUCGAGACC---CC---
----..................((((((((.((((((.......))))))))))).((((((.((((..(.((......)).)..))))...)))))))))---..--- ( -31.60)
>DroVir_CAF1 3408 94 + 1
----UUAUUUA----UUUCUU-CCCAGAGCCCAUCCAACCGCACUGGAUGGCUCGUCGCGAGCAACUGAACUUCAUGCAGUGAGAAGUUUUCCUCGGUGCC---UC---
----.......----......-..(((....((((((.......))))))(((((...)))))..)))........(((.((((........)))).))).---..--- ( -24.60)
>DroGri_CAF1 3225 101 + 1
----UUAUUUAUUUAUUUCUU-ACCAGAGCCCAUCCAACCGCACUGGAUGGCUCGUCGCGAGCAACUGAACUUCAUGCAGCGAGAAGUUUUCCUCGGUACC---CAGAC
----.............((((-(((.(((((.(((((.......)))))))))).((((..(((..((.....))))).))))............))))..---.))). ( -27.60)
>DroMoj_CAF1 3212 96 + 1
----CAAUUCACU--UUUCUU-UUCAGAGCCCAUCCAACCGCACUGGAUGGCUCGUCGCGAGCAACUGAAGUUCAUGCAGUGAGAAGUUUUCCUCGGUACC---CC---
----.........--...(((-(((((((((.(((((.......))))))))))...((((((.......))))..))..)))))))..............---..--- ( -24.60)
>DroAna_CAF1 2963 103 + 1
AAGGUCCUUUCACUUUUCCUUUCUAGGAGCUCAUCCAACCGCACUGGAUGGCUCGUCGCGAGCAACUGACGGAACUGCAGCGAGAAUCUUUCCUCGAUGCC---CC---
..((...........((((.......((((.((((((.......))))))))))((((........))))))))..(((.((((........)))).))))---).--- ( -29.60)
>DroPer_CAF1 2705 102 + 1
----UUAUUUUGGUAUUUCUUUUAGAGAGCCCAUCCAACCGCACUGGAUGGCUCCUCGCGAGCAAGUGAUGUCACUGCAGCGAGAAGUUUUCCUCGAGACCGACCC---
----.......(((...((((...(((((((((((((.......)))))))...(((((..(((.(((....)))))).)))))..))))))...))))...))).--- ( -35.80)
>consensus
____UUAUUUACGUAUUUCUU_CCCAGAGCCCAUCCAACCGCACUGGAUGGCUCGUCGCGAGCAACUGAAGUUAAUGCAGCGAGAAGUUUUCCUCGAUACC___CC___
..........................((((.((((((.......)))))))))).((((..(((...........))).)))).......................... (-19.38 = -19.55 +   0.17)

alignment

secondary structure

dotplot

Window 7

Location	6,191,903 – 6,192,002
Length	99
Sequences	6
Columns	109
Reading direction	reverse
Mean pairwise identity	77.91
Mean single sequence MFE	-31.66
Consensus MFE	-24.86
Energy contribution	-25.20
Covariance contribution	0.34
Combinations/Pair	1.12
Mean z-score	-1.32
Structure conservation index	0.79
SVM decision value	0.78
SVM RNA-class probability	0.849846
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6191903 99 - 23771897
---GG---GGUCUCGAGGAAAACUUCUCGCUGCGGUGCCAUCAGUUGCUCGAGAAGAGCCAUCCAGUGCGGUUGGAUGAGCUCCACCAAAGGAAUACGAAAAGAA----
---.(---(.(((((((...((((....((......))....)))).))))))).(((((((((((.....))))))).))))..))..................---- ( -31.20)
>DroVir_CAF1 3408 94 - 1
---GA---GGCACCGAGGAAAACUUCUCACUGCAUGAAGUUCAGUUGCUCGCGACGAGCCAUCCAGUGCGGUUGGAUGGGCUCUGGG-AAGAAA----UAAAUAA----
---..---.(((..(((((....)))))..)))......(((.((((....))))(((((((((((.....)))))).)))))....-..))).----.......---- ( -27.30)
>DroGri_CAF1 3225 101 - 1
GUCUG---GGUACCGAGGAAAACUUCUCGCUGCAUGAAGUUCAGUUGCUCGCGACGAGCCAUCCAGUGCGGUUGGAUGGGCUCUGGU-AAGAAAUAAAUAAAUAA----
.((..---.(((.((((((....)))))).)))..))..(((.((((....))))(((((((((((.....)))))).)))))....-..)))............---- ( -29.40)
>DroMoj_CAF1 3212 96 - 1
---GG---GGUACCGAGGAAAACUUCUCACUGCAUGAACUUCAGUUGCUCGCGACGAGCCAUCCAGUGCGGUUGGAUGGGCUCUGAA-AAGAAA--AGUGAAUUG----
---((---....))((((....))))(((((........((((((((....))))(((((((((((.....)))))).)))))))))-......--)))))....---- ( -29.04)
>DroAna_CAF1 2963 103 - 1
---GG---GGCAUCGAGGAAAGAUUCUCGCUGCAGUUCCGUCAGUUGCUCGCGACGAGCCAUCCAGUGCGGUUGGAUGAGCUCCUAGAAAGGAAAAGUGAAAGGACCUU
---((---((((.((((((....)))))).)))..((((....((((....))))(((((((((((.....))))))).)))).......))))...........))). ( -35.60)
>DroPer_CAF1 2705 102 - 1
---GGGUCGGUCUCGAGGAAAACUUCUCGCUGCAGUGACAUCACUUGCUCGCGAGGAGCCAUCCAGUGCGGUUGGAUGGGCUCUCUAAAAGAAAUACCAAAAUAA----
---.(((...(((.((((....((((((((.((((((....))).)))..))))))))((((((((.....))))))))..))))....)))...))).......---- ( -37.40)
>consensus
___GG___GGUACCGAGGAAAACUUCUCGCUGCAGGAACUUCAGUUGCUCGCGACGAGCCAUCCAGUGCGGUUGGAUGGGCUCUGAA_AAGAAAUAAGUAAAUAA____
.........(((.((((((....)))))).))).......((.((((....))))(((((((((((.....))))))).)))).......))................. (-24.86 = -25.20 +   0.34)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:27:27 2006