Locus 2493

Sequence ID X_DroMel_CAF1
Location 6,624,463 – 6,624,594
Length 131
Max. P 0.999694
window4077 window4078 window4079

overview

Window 7

Location 6,624,463 – 6,624,554
Length 91
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 72.49
Mean single sequence MFE -27.87
Consensus MFE -20.97
Energy contribution -21.86
Covariance contribution 0.89
Combinations/Pair 1.09
Mean z-score -1.35
Structure conservation index 0.75
SVM decision value 1.24
SVM RNA-class probability 0.934675
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6624463 91 + 22224390
-----------------------------CCCAUUGAUAUGGGUAAAAAAUAUGCAAGUGCUUUCGCACUUCAGCGGUUUAGUUAGUUCUUAUCACAAAAUUGCGCUAGUGCGAGAUUAA
-----------------------------(((((....)))))..........((....))(((((((((...(((((((.((...........)).)))))))...))))))))).... ( -25.30)
>DroSim_CAF1 16214 119 + 1
UCGUUUCAUUUUGGACAGAAGACCAUCGCCCCAUUGAUAGGGGAAUAAAAUAUGCAAGUGCUUUCGCACUUUAGCGGUUUGGUUAGUUCUUAUCACAAAAUUGCGCUAGUGCGAGAUUA-
..(((((((((((((.(((((((((...((((.......)))).........(((((((((....))))))..)))...)))))..))))..)).)))))).(((....))))))))..- ( -30.70)
>DroEre_CAF1 12521 103 + 1
ACUUUG-------GACA---CACCAUCGCCCCAUUGAUGUGGGA-ACAAAUAUGCAAGUGCUUUCGCACUUUGGCGGUUGGGUUAGUUCUUAUCA-----UUGUGCUAGUGCGAGAUUA-
..(((.-------(.((---(.((((((((((((....))))..-..........((((((....)))))).))))).)))..((((.(......-----..).)))))))).)))...- ( -27.60)
>consensus
_C_UU________GACA____ACCAUCGCCCCAUUGAUAUGGGAAAAAAAUAUGCAAGUGCUUUCGCACUUUAGCGGUUUGGUUAGUUCUUAUCACAAAAUUGCGCUAGUGCGAGAUUA_
.............................(((((....)))))..........((....))(((((((((...(((((((.................)))))))...))))))))).... (-20.97 = -21.86 +   0.89)

alignment

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secondary structure

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dotplot

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Window 8

Location 6,624,463 – 6,624,554
Length 91
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 72.49
Mean single sequence MFE -27.43
Consensus MFE -17.69
Energy contribution -17.80
Covariance contribution 0.11
Combinations/Pair 1.06
Mean z-score -2.43
Structure conservation index 0.64
SVM decision value 3.90
SVM RNA-class probability 0.999694
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6624463 91 - 22224390
UUAAUCUCGCACUAGCGCAAUUUUGUGAUAAGAACUAACUAAACCGCUGAAGUGCGAAAGCACUUGCAUAUUUUUUACCCAUAUCAAUGGG-----------------------------
........((..(((((.......((.......)).........)))))((((((....))))))))..........(((((....)))))----------------------------- ( -22.29)
>DroSim_CAF1 16214 119 - 1
-UAAUCUCGCACUAGCGCAAUUUUGUGAUAAGAACUAACCAAACCGCUAAAGUGCGAAAGCACUUGCAUAUUUUAUUCCCCUAUCAAUGGGGCGAUGGUCUUCUGUCCAAAAUGAAACGA
-......(((....)))..((((((.((((.(((...((((....((..((((((....)))))))).........(((((((....))))).)))))).)))))))))))))....... ( -33.00)
>DroEre_CAF1 12521 103 - 1
-UAAUCUCGCACUAGCACAA-----UGAUAAGAACUAACCCAACCGCCAAAGUGCGAAAGCACUUGCAUAUUUGU-UCCCACAUCAAUGGGGCGAUGGUG---UGUC-------CAAAGU
-......(((((((......-----....................((..((((((....))))))))....((((-.((((......)))))))))))))---))..-------...... ( -27.00)
>consensus
_UAAUCUCGCACUAGCGCAAUUUUGUGAUAAGAACUAACCAAACCGCUAAAGUGCGAAAGCACUUGCAUAUUUUUUUCCCAUAUCAAUGGGGCGAUGGU____UGUC________AA_G_
........((.((..(((......)))...)).................((((((....))))))))..........(((........)))............................. (-17.69 = -17.80 +   0.11)

alignment

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secondary structure

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dotplot

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Window 9

Location 6,624,474 – 6,624,594
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 88.76
Mean single sequence MFE -28.96
Consensus MFE -22.12
Energy contribution -22.48
Covariance contribution 0.36
Combinations/Pair 1.10
Mean z-score -1.63
Structure conservation index 0.76
SVM decision value 0.23
SVM RNA-class probability 0.643314
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6624474 120 - 22224390
UAUGUGAUUGUUGUGAAAAUAUUGCUAGACAUGCAGAGUUUUAAUCUCGCACUAGCGCAAUUUUGUGAUAAGAACUAACUAAACCGCUGAAGUGCGAAAGCACUUGCAUAUUUUUUACCC
...((..((((((..(((....((((((...(((.(((.......))))))))))))...)))..))))))..))..........((..((((((....))))))))............. ( -30.60)
>DroSec_CAF1 18429 117 - 1
GAUGUGAUUGUUGUGAAAAUAUUGCCAGGCGUGCAGAGU--UAAUCUCGCGCUAGCGCA-UUUUGUGAUAAGAACUAACCAAACCGCUAAAGUGCGAAAGCACUUGCAUAUUUUAUUCCC
...((..((((((..(((....((((.((((((.(((..--...))))))))).).)))-)))..))))))..))..........((..((((((....))))))))............. ( -33.60)
>DroSim_CAF1 16254 118 - 1
GAUGUGAUUGUUGUGAAAAUAUUGCCAGGCGUGCAGAGU--UAAUCUCGCACUAGCGCAAUUUUGUGAUAAGAACUAACCAAACCGCUAAAGUGCGAAAGCACUUGCAUAUUUUAUUCCC
...((..((((((..((...(((((...((((((.(((.--....)))))))..)))))))))..))))))..))..........((..((((((....))))))))............. ( -30.40)
>DroEre_CAF1 12551 112 - 1
UAUGUGAUUGUUGUGAAAAUAUUGUCAGACAUGCAGAGU--UAAUCUCGCACUAGCACAA-----UGAUAAGAACUAACCCAACCGCCAAAGUGCGAAAGCACUUGCAUAUUUGU-UCCC
(((((.((..(((((.......((.....))(((.(((.--....))))))....)))))-----..))....................((((((....))))))))))).....-.... ( -25.40)
>DroYak_CAF1 12816 112 - 1
GAUGUGAUUGUUGUGAAAACAUUGCCAGACAUGCAGAGU--UAAUCUCGCAC-AGCGCAA-----UGAUAAGAACUAAACAAACCGCUAAAGUGCGAAAGUACUUGCAUAUUUUUGUACC
((((((.(((((((.....((((((......(((.(((.--....)))))).-...))))-----))......))..))))).......((((((....)))))).))))))........ ( -24.80)
>consensus
GAUGUGAUUGUUGUGAAAAUAUUGCCAGACAUGCAGAGU__UAAUCUCGCACUAGCGCAAUUUUGUGAUAAGAACUAACCAAACCGCUAAAGUGCGAAAGCACUUGCAUAUUUUUUUCCC
((((((.((.((((.(....(((((......(((.(((.......)))))).....)))))....).)))).))...............((((((....)))))).))))))........ (-22.12 = -22.48 +   0.36)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:36:12 2006