Locus 7176

Sequence ID	3R_DroMel_CAF1
Location	18,914,286 – 18,914,377
Length	91
Max. P	0.986270

overview

Window 4

Location	18,914,286 – 18,914,377
Length	91
Sequences	6
Columns	101
Reading direction	forward
Mean pairwise identity	76.58
Mean single sequence MFE	-25.29
Consensus MFE	-9.49
Energy contribution	-9.82
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-3.22
Structure conservation index	0.38
SVM decision value	2.04
SVM RNA-class probability	0.986270
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18914286 91 + 27905053
CAAUAACGCCGUUAGCCGUGCUCCAUCUGCAUUUAUCAUAACUUUUGUGUGUUCUUUGCUUUGAUGGCG---CUGCU---GUGGCUC--G-CGGUUAU-UG
(((((..(((((.(((((.((.(((((.(((.....((((.(....))))).....)))...))))).)---)....---.))))).--)-)))))))-)) ( -30.80)
>DroPse_CAF1 28495 90 + 1
CAAUAAUGCCUUUAGCUAUGCUCCAUCUGCAUUUAUCAUAACUUUUGUGUUUUAUUUGCUUUGAUGGCG---UUGCG---UAGCCCC--C-AGGCUGU-U-
.......((((...(((((((.(((((.(((..((.((((.....))))...))..)))...)))))..---..)))---))))...--.-))))...-.- ( -28.00)
>DroGri_CAF1 28766 95 + 1
CAAUAAUGCUGCUAGCUAUGCUCCAUCUGCAUUUAUCAUAACUUUCCUCUUUUAUUUGCCUUGAUGGCAGCAUUGCC---ACCAGUC--U-UGUUUUUCUC
.(((((.((((...((.((((((((((.(((..((.................))..)))...))))).))))).)).---..)))).--)-))))...... ( -23.83)
>DroMoj_CAF1 29863 94 + 1
CAAUAACGCUGCCAGCUAUACUCCAUCUGCAUUUAUCAUAACUUUAGUCCUUUAUUUGCCUUGAUGGCAACACUGCC---ACAGGUC--G-CAUUUGU-UG
((((((.((.(((...............(((..((.....((....))....))..)))..((.(((((....))))---)))))).--)-)..))))-)) ( -17.20)
>DroAna_CAF1 26205 96 + 1
CAAUAAUGCCGUUAGCCGUGCUCCAUCUGCAUUUAUCAUAACUUUUGUGUGUUAUUUGCUUUGAUGGCA---UCGCCCUCUUCGCCCUCG-GGGCCAU-UG
.....(((((((((((.((((.......)))).....(((((........)))))..)))..)))))))---).(((((..........)-))))...-.. ( -23.30)
>DroPer_CAF1 28565 91 + 1
CAAUAAUGCCUUUAGCUAUGCUCCAUCUGCAUUUAUCAUAACUUUUGUGUUUUAUUUGCUUUGAUGGCG---UUGCG---UAGCCCC--CAAGGCUGU-U-
.......(((((..(((((((.(((((.(((..((.((((.....))))...))..)))...)))))..---..)))---))))...--.)))))...-.- ( -28.60)
>consensus
CAAUAAUGCCGUUAGCUAUGCUCCAUCUGCAUUUAUCAUAACUUUUGUGUUUUAUUUGCUUUGAUGGCA___UUGCC___UAGGCCC__G_AGGCUGU_UG
..............((......(((((.(((..((.....((....))....))..)))...))))).......))......................... ( -9.49 =  -9.82 +   0.33)

alignment

secondary structure

dotplot

Window 5

Location	18,914,286 – 18,914,377
Length	91
Sequences	6
Columns	101
Reading direction	reverse
Mean pairwise identity	76.58
Mean single sequence MFE	-22.70
Consensus MFE	-8.88
Energy contribution	-8.74
Covariance contribution	-0.14
Combinations/Pair	1.08
Mean z-score	-2.15
Structure conservation index	0.39
SVM decision value	0.02
SVM RNA-class probability	0.544128
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18914286 91 - 27905053
CA-AUAACCG-C--GAGCCAC---AGCAG---CGCCAUCAAAGCAAAGAACACACAAAAGUUAUGAUAAAUGCAGAUGGAGCACGGCUAACGGCGUUAUUG
((-(((((((-.--.((((..---....(---(.(((((...(((...(((........)))........))).))))).))..))))..)))..)))))) ( -21.20)
>DroPse_CAF1 28495 90 - 1
-A-ACAGCCU-G--GGGGCUA---CGCAA---CGCCAUCAAAGCAAAUAAAACACAAAAGUUAUGAUAAAUGCAGAUGGAGCAUAGCUAAAGGCAUUAUUG
-.-...((((-.--..(((((---.((..---..(((((...(((.((..(((......)))...))...))).))))).)).)))))..))))....... ( -23.50)
>DroGri_CAF1 28766 95 - 1
GAGAAAAACA-A--GACUGGU---GGCAAUGCUGCCAUCAAGGCAAAUAAAAGAGGAAAGUUAUGAUAAAUGCAGAUGGAGCAUAGCUAGCAGCAUUAUUG
..........-.--(.(((.(---(((.(((((.(((((...(((.........................))).)))))))))).)))).))))....... ( -25.01)
>DroMoj_CAF1 29863 94 - 1
CA-ACAAAUG-C--GACCUGU---GGCAGUGUUGCCAUCAAGGCAAAUAAAGGACUAAAGUUAUGAUAAAUGCAGAUGGAGUAUAGCUGGCAGCGUUAUUG
..-...((((-(--..((...---(((.(((...(((((...(((.......(((....)))........))).)))))..))).)))))..))))).... ( -21.16)
>DroAna_CAF1 26205 96 - 1
CA-AUGGCCC-CGAGGGCGAAGAGGGCGA---UGCCAUCAAAGCAAAUAACACACAAAAGUUAUGAUAAAUGCAGAUGGAGCACGGCUAACGGCAUUAUUG
..-((.((((-(.........).)))).)---).(((((...(((.(((((........)))))......))).))))).((.((.....))))....... ( -21.30)
>DroPer_CAF1 28565 91 - 1
-A-ACAGCCUUG--GGGGCUA---CGCAA---CGCCAUCAAAGCAAAUAAAACACAAAAGUUAUGAUAAAUGCAGAUGGAGCAUAGCUAAAGGCAUUAUUG
-.-...(((((.--..(((((---.((..---..(((((...(((.((..(((......)))...))...))).))))).)).))))).)))))....... ( -24.00)
>consensus
CA_ACAACCG_C__GAGCCAA___GGCAA___CGCCAUCAAAGCAAAUAAAACACAAAAGUUAUGAUAAAUGCAGAUGGAGCAUAGCUAACGGCAUUAUUG
.........................((.......(((((...(((.........................))).)))))(((...)))....))....... ( -8.88 =  -8.74 +  -0.14)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:39:15 2006