Locus 421

Sequence ID	2R_DroMel_CAF1
Location	2,460,080 – 2,460,204
Length	124
Max. P	0.963660

overview

Window 8

Location	2,460,080 – 2,460,181
Length	101
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	78.18
Mean single sequence MFE	-32.45
Consensus MFE	-31.42
Energy contribution	-31.42
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.07
Structure conservation index	0.97
SVM decision value	1.56
SVM RNA-class probability	0.963660
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2460080 101 + 20766785
----------------ACUACAAAAUAU--UGGUCGCCCAACGUGGGGCUCGAACCCACGACCCUGAGAUUAAGAGUCUCAUGCUCUACCGACUGAGCUAGCCGGGCAGGUAAACAAAA-
----------------............--.....((((..((((((.......))))))....((((((.....)))))).((((........)))).....))))............- ( -31.50)
>DroPse_CAF1 31926 110 + 1
CAGAAAAAUGAC-A--AAAGAAAAA----AACGUCGCCCAACGUGGGGCUCGAACCCACGACCCUGAGAUUAAGAGUCUCAUGCUCUACCGACUGAGCUAGCCGGGCAUGUAAUUUA---
............-.--.........----.((((.((((..((((((.......))))))....((((((.....)))))).((((........)))).....))))))))......--- ( -33.30)
>DroEre_CAF1 21227 90 + 1
-----------------------------UGCAUCGCCCAACGUGGGGCUCGAACCCACGACCCUGAGAUUAAGAGUCUCAUGCUCUACCGACUGAGCUAGCCGGGCAGGUAAACGAAU-
-----------------------------(((...((((..((((((.......))))))....((((((.....)))))).((((........)))).....))))..))).......- ( -32.10)
>DroYak_CAF1 20962 103 + 1
----------------AGAGUAAAAUAUAUUGAUCGCCCAACGUGGGGCUCGAACCCACGACCCUGAGAUUAAGAGUCUCAUGCUCUACCGACUGAGCUAGCCGGGCAUGUGAAUUUGG-
----------------...................((((..((((((.......))))))....((((((.....)))))).((((........)))).....))))............- ( -31.50)
>DroAna_CAF1 18608 110 + 1
---------GGCCAAAAAUAAAAAAUUG-UAAGUCGCCCAACGUGGGGCUCGAACCCACGACCCUGAGAUUAAGAGUCUCAUGCUCUACCGACUGAGCUAGCCGGGCUGUUGAAAUUAGG
---------(((.....((((....)))-).....)))...((((((.......))))))..(((((..((((.(((((...((((........)))).....))))).))))..))))) ( -33.00)
>DroPer_CAF1 22964 110 + 1
CAGAAAAAUGAC-A--AAAGAAAAA----AACGUCGCCCAACGUGGGGCUCGAACCCACGACCCUGAGAUUAAGAGUCUCAUGCUCUACCGACUGAGCUAGCCGGGCAUGUAAUUUA---
............-.--.........----.((((.((((..((((((.......))))))....((((((.....)))))).((((........)))).....))))))))......--- ( -33.30)
>consensus
________________AAAGAAAAA____UACGUCGCCCAACGUGGGGCUCGAACCCACGACCCUGAGAUUAAGAGUCUCAUGCUCUACCGACUGAGCUAGCCGGGCAGGUAAAUUAA__
...................................((((..((((((.......))))))....((((((.....)))))).((((........)))).....))))............. (-31.42 = -31.42 +   0.00)

alignment

secondary structure

dotplot

Window 9

Location	2,460,080 – 2,460,181
Length	101
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	78.18
Mean single sequence MFE	-33.65
Consensus MFE	-32.73
Energy contribution	-32.73
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.44
Structure conservation index	0.97
SVM decision value	0.91
SVM RNA-class probability	0.879728
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2460080 101 - 20766785
-UUUUGUUUACCUGCCCGGCUAGCUCAGUCGGUAGAGCAUGAGACUCUUAAUCUCAGGGUCGUGGGUUCGAGCCCCACGUUGGGCGACCA--AUAUUUUGUAGU----------------
-...........((((((((..((((........))))....((((((.......))))))(((((.......)))))))))))))....--............---------------- ( -32.80)
>DroPse_CAF1 31926 110 - 1
---UAAAUUACAUGCCCGGCUAGCUCAGUCGGUAGAGCAUGAGACUCUUAAUCUCAGGGUCGUGGGUUCGAGCCCCACGUUGGGCGACGUU----UUUUUCUUU--U-GUCAUUUUUCUG
---..........(((((((..((((........))))....((((((.......))))))(((((.......))))))))))))((((..----.........--)-)))......... ( -35.20)
>DroEre_CAF1 21227 90 - 1
-AUUCGUUUACCUGCCCGGCUAGCUCAGUCGGUAGAGCAUGAGACUCUUAAUCUCAGGGUCGUGGGUUCGAGCCCCACGUUGGGCGAUGCA-----------------------------
-...........((((((((..((((........))))....((((((.......))))))(((((.......))))))))))))).....----------------------------- ( -32.80)
>DroYak_CAF1 20962 103 - 1
-CCAAAUUCACAUGCCCGGCUAGCUCAGUCGGUAGAGCAUGAGACUCUUAAUCUCAGGGUCGUGGGUUCGAGCCCCACGUUGGGCGAUCAAUAUAUUUUACUCU----------------
-...........((((((((..((((........))))....((((((.......))))))(((((.......)))))))))))))..................---------------- ( -33.00)
>DroAna_CAF1 18608 110 - 1
CCUAAUUUCAACAGCCCGGCUAGCUCAGUCGGUAGAGCAUGAGACUCUUAAUCUCAGGGUCGUGGGUUCGAGCCCCACGUUGGGCGACUUA-CAAUUUUUUAUUUUUGGCC---------
.............(((((((..((((........))))....((((((.......))))))(((((.......))))))))))))......-...................--------- ( -32.90)
>DroPer_CAF1 22964 110 - 1
---UAAAUUACAUGCCCGGCUAGCUCAGUCGGUAGAGCAUGAGACUCUUAAUCUCAGGGUCGUGGGUUCGAGCCCCACGUUGGGCGACGUU----UUUUUCUUU--U-GUCAUUUUUCUG
---..........(((((((..((((........))))....((((((.......))))))(((((.......))))))))))))((((..----.........--)-)))......... ( -35.20)
>consensus
__UUAAUUUACAUGCCCGGCUAGCUCAGUCGGUAGAGCAUGAGACUCUUAAUCUCAGGGUCGUGGGUUCGAGCCCCACGUUGGGCGACGUA____UUUUUCUUU________________
.............(((((((..((((........))))....((((((.......))))))(((((.......))))))))))))................................... (-32.73 = -32.73 +  -0.00)

alignment

secondary structure

dotplot

Window 0

Location	2,460,102 – 2,460,204
Length	102
Sequences	6
Columns	102
Reading direction	forward
Mean pairwise identity	84.74
Mean single sequence MFE	-32.85
Consensus MFE	-26.90
Energy contribution	-26.90
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.65
Structure conservation index	0.82
SVM decision value	0.13
SVM RNA-class probability	0.599740
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2460102 102 + 20766785
ACGUGGGGCUCGAACCCACGACCCUGAGAUUAAGAGUCUCAUGCUCUACCGACUGAGCUAGCCGGGCAGGUAAACAAAAUUGCCGUCUGUCAAAACUCGGGA
.((((((.......)))))).(((((((((.....)))))).((((........))))..(.(((((.(((((......)))))))))).).......))). ( -37.40)
>DroPse_CAF1 31959 86 + 1
ACGUGGGGCUCGAACCCACGACCCUGAGAUUAAGAGUCUCAUGCUCUACCGACUGAGCUAGCCGGGCAUGUAAUUUA----------GGCCAAAAC------
.((((((.......)))))).(((((((((.....)))))).((((........)))).....)))...........----------.........------ ( -26.90)
>DroSim_CAF1 22401 102 + 1
ACGUGGGGCUCGAACCCACGACCCUGAGAUUAAGAGUCUCAUGCUCUACCGACUGAGCUAGCCGGGCAGGUAAACGGAUAUGCUGUCUGUCAAAACUCGGGA
.((((((.......)))))).(((((((((.....)))))).((((........))))..(.((((((((((......))).))))))).).......))). ( -35.70)
>DroEre_CAF1 21238 102 + 1
ACGUGGGGCUCGAACCCACGACCCUGAGAUUAAGAGUCUCAUGCUCUACCGACUGAGCUAGCCGGGCAGGUAAACGAAUUCGCUGUCUGUCAAAACUCGGGA
.((((((.......)))))).(((((((((.....)))))).((((........))))..(.(((((((.....((....))))))))).).......))). ( -35.30)
>DroYak_CAF1 20986 102 + 1
ACGUGGGGCUCGAACCCACGACCCUGAGAUUAAGAGUCUCAUGCUCUACCGACUGAGCUAGCCGGGCAUGUGAAUUUGGUCGCUGGCUGUCAAAACGAUCUA
.((((((.......))))))......(((((.(((((.....)))))...(((..(((((((.((.((........)).)))))))))))).....))))). ( -34.90)
>DroPer_CAF1 22997 86 + 1
ACGUGGGGCUCGAACCCACGACCCUGAGAUUAAGAGUCUCAUGCUCUACCGACUGAGCUAGCCGGGCAUGUAAUUUA----------GGCCAAAAC------
.((((((.......)))))).(((((((((.....)))))).((((........)))).....)))...........----------.........------ ( -26.90)
>consensus
ACGUGGGGCUCGAACCCACGACCCUGAGAUUAAGAGUCUCAUGCUCUACCGACUGAGCUAGCCGGGCAGGUAAACUAA_U_GCUGUCUGUCAAAACUCGGGA
.((((((.......)))))).(((((((((.....)))))).((((........)))).....))).................................... (-26.90 = -26.90 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:38:12 2006