Locus 2920

Sequence ID 3R_DroMel_CAF1
Location 7,831,489 – 7,831,591
Length 102
Max. P 0.947580
window4700 window4701

overview

Window 0

Location 7,831,489 – 7,831,591
Length 102
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 83.64
Mean single sequence MFE -22.23
Consensus MFE -17.60
Energy contribution -18.27
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -3.47
Structure conservation index 0.79
SVM decision value 1.37
SVM RNA-class probability 0.947580
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7831489 102 + 27905053
CGCCGGAGCAAUUGAAUUGAACGGAAAUUCUGUUUGCAUAUGUGAAUAAAACAUAUGCAAA----AAGUAGGCAAAAUGCGAAAAAGGCAUAG-GCACAAAAGGAGC
.(((...((.........((((((.....))))))((((((((.......))))))))...----......))...((((.......)))).)-))........... ( -26.50)
>DroPse_CAF1 23017 95 + 1
CGCCA-CGCAAUUGAAUUGAACGGAAAUUCUGUUUGCAUAUGUGAAUAAAACAUAUGCAAA----AAAGAA-CAAA----G-AAAAACCAAAUAGCAAAAAGUAAA-
.....-.((.........((((((.....))))))((((((((.......))))))))...----......-....----.-............))..........- ( -18.00)
>DroSec_CAF1 20325 101 + 1
CGCCGGAGCAAUUGAAUUGAACGGAAAUUCUGUUUGCAUAUGUGAAUAAAACAUAUGCAAA----AAGUAGGCAAAAUGGGAAAAAGGCAUA--GCACAAAAGGAGC
.(((...((.........((((((.....))))))((((((((.......))))))))...----..)).)))...................--............. ( -21.50)
>DroSim_CAF1 22214 101 + 1
CGCCGGAGCAAUUGAAUUGAACGGAAAUUCUGUUUGCAUAUGUGAAUAAAACAUAUGCAAA----AAGUAGGCGAAAUGCGAAAAAGGCAAA--ACACAAAAGGAGC
((((...((.........((((((.....))))))((((((((.......))))))))...----..)).))))...(((.......)))..--............. ( -24.80)
>DroAna_CAF1 22090 105 + 1
CGCCGG-GCAAUUGAAUUGAACGGAAAUUCUGUUUGCAUAUGUGAAUAAAACAUAUGCAAAAAAAAAGGAGGUAAAAUGCGAAA-AGGCAAAAAACUGAAAAUGGGC
..(((.-.((((...))))..)))...((((.(((((((((((.......))))))))))).....))))(((....(((....-..)))....))).......... ( -24.60)
>DroPer_CAF1 22913 95 + 1
CGCCA-CGCAAUUGAAUUGAACGGAAAUUCUGUUUGCAUAUGUGAAUAAAACAUAUGCAAA----AAAGAA-CAAA----G-AAAAACCAAAUAGCAAAAAGUAAA-
.....-.((.........((((((.....))))))((((((((.......))))))))...----......-....----.-............))..........- ( -18.00)
>consensus
CGCCGGAGCAAUUGAAUUGAACGGAAAUUCUGUUUGCAUAUGUGAAUAAAACAUAUGCAAA____AAGGAGGCAAAAUGCGAAAAAGGCAAA__GCACAAAAGGAGC
.(((..............((((((.....))))))((((((((.......))))))))............................))).................. (-17.60 = -18.27 +   0.67)

alignment

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secondary structure

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dotplot

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Window 1

Location 7,831,489 – 7,831,591
Length 102
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 83.64
Mean single sequence MFE -19.77
Consensus MFE -15.22
Energy contribution -15.33
Covariance contribution 0.11
Combinations/Pair 1.05
Mean z-score -2.92
Structure conservation index 0.77
SVM decision value 0.98
SVM RNA-class probability 0.894802
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7831489 102 - 27905053
GCUCCUUUUGUGC-CUAUGCCUUUUUCGCAUUUUGCCUACUU----UUUGCAUAUGUUUUAUUCACAUAUGCAAACAGAAUUUCCGUUCAAUUCAAUUGCUCCGGCG
...........((-(...((.......((.....))...((.----(((((((((((.......))))))))))).))....................))...))). ( -20.80)
>DroPse_CAF1 23017 95 - 1
-UUUACUUUUUGCUAUUUGGUUUUU-C----UUUG-UUCUUU----UUUGCAUAUGUUUUAUUCACAUAUGCAAACAGAAUUUCCGUUCAAUUCAAUUGCG-UGGCG
-..........(((((((((.....-.----...(-((((..----(((((((((((.......))))))))))).)))))...........))))....)-)))). ( -19.75)
>DroSec_CAF1 20325 101 - 1
GCUCCUUUUGUGC--UAUGCCUUUUUCCCAUUUUGCCUACUU----UUUGCAUAUGUUUUAUUCACAUAUGCAAACAGAAUUUCCGUUCAAUUCAAUUGCUCCGGCG
((.........))--...................(((.....----(((((((((((.......)))))))))))..(((((.......))))).........))). ( -18.50)
>DroSim_CAF1 22214 101 - 1
GCUCCUUUUGUGU--UUUGCCUUUUUCGCAUUUCGCCUACUU----UUUGCAUAUGUUUUAUUCACAUAUGCAAACAGAAUUUCCGUUCAAUUCAAUUGCUCCGGCG
........((((.--...........))))...((((.....----(((((((((((.......)))))))))))..(((((.......))))).........)))) ( -20.20)
>DroAna_CAF1 22090 105 - 1
GCCCAUUUUCAGUUUUUUGCCU-UUUCGCAUUUUACCUCCUUUUUUUUUGCAUAUGUUUUAUUCACAUAUGCAAACAGAAUUUCCGUUCAAUUCAAUUGC-CCGGCG
(((........((....(((..-....)))....)).....((((.(((((((((((.......))))))))))).))))....................-..))). ( -19.60)
>DroPer_CAF1 22913 95 - 1
-UUUACUUUUUGCUAUUUGGUUUUU-C----UUUG-UUCUUU----UUUGCAUAUGUUUUAUUCACAUAUGCAAACAGAAUUUCCGUUCAAUUCAAUUGCG-UGGCG
-..........(((((((((.....-.----...(-((((..----(((((((((((.......))))))))))).)))))...........))))....)-)))). ( -19.75)
>consensus
GCUCAUUUUGUGC__UUUGCCUUUUUCGCAUUUUGCCUACUU____UUUGCAUAUGUUUUAUUCACAUAUGCAAACAGAAUUUCCGUUCAAUUCAAUUGCUCCGGCG
..................(((.........................(((((((((((.......)))))))))))..(((((.......))))).........))). (-15.22 = -15.33 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:47 2006