Locus 2191

Sequence ID	2R_DroMel_CAF1
Location	8,095,610 – 8,095,711
Length	101
Max. P	0.916083

overview

Window 7

Location	8,095,610 – 8,095,711
Length	101
Sequences	6
Columns	113
Reading direction	forward
Mean pairwise identity	75.84
Mean single sequence MFE	-27.12
Consensus MFE	-14.52
Energy contribution	-15.10
Covariance contribution	0.58
Combinations/Pair	1.26
Mean z-score	-2.07
Structure conservation index	0.54
SVM decision value	1.11
SVM RNA-class probability	0.916083
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8095610 101 + 20766785
AAUAAAA----------UUUUA--ACACUCACCUUAUCCAGCGUGAAAGAGAUGUAGGCAUAAAUGCCAAACAUUUCACGCAUCGUGUCCUCGAACGUAUUCGAGUCCAUGUU
.......----------.....--................((((((....(((((.((((....))))..)))))))))))..((((..((((((....))))))..)))).. ( -28.10)
>DroVir_CAF1 12933 109 + 1
U---GGAUUCAUCAUCGUUUGAGC-AGCUUACCUUAUCUAGCGUGAAGGAUAUGUAGGCAUAGAUGCCAAACAUUUCGCGCAUGGUGUCCUCAAAGGUAUUCGAGUCCAUGUU
(---((((((.....(.((((((.-.((((((..(((((........))))).))))))...(((((((..(.......)..))))))))))))).).....))))))).... ( -33.30)
>DroPse_CAF1 10638 98 + 1
U---AUA----------UUACA--CCACAUACCUUGUCCAGCGUAAAGGAUACGUAGGCGUAAAUGCCGAACAUUUCACGCAUCGUGUCCUCGAACGUGUUCGAGUCCAUGUU
.---...----------.....--..((((..((((..((.(((..((((((((...(((((((((.....))))).))))..))))))))...)))))..))))...)))). ( -29.50)
>DroWil_CAF1 12449 101 + 1
AGUGUAA----------UCUUU--CUACCUACCUUAUCGAGCGUGAAAGAUAUGUAGGCGUAGAUACCAAACAUUUCUCUCAUUGUAUCCUCAAACGUAUUCGAGUCCAUAUU
(((((..----------....(--((((((((..((((..........)))).)))))..))))......)))))...(((...((((........))))..)))........ ( -13.80)
>DroAna_CAF1 10427 109 + 1
AAAAAUA---AUGAUGAUCCAAGUCCAC-UACCUUAUCCAGCGUGAAAGAUAUGUAGGCAUAGAUGCCAAACAUCUCACGCAUCGUGUCUUCGAACGUGGUGGAGUCCAUAUU
.......---.............(((((-(((........((((((.....((((.((((....))))..)))).)))))).(((......)))..))))))))......... ( -28.50)
>DroPer_CAF1 10602 98 + 1
U---AUA----------UUCCA--CCACAUACCUUGUCCAGCGUAAAGGAUACGUAGGCGUAAAUGCCGAACAUUUCACGCAUCGUGUCCUCGAACGUGUUCGAGUCCAUGUU
.---...----------.....--..((((..((((..((.(((..((((((((...(((((((((.....))))).))))..))))))))...)))))..))))...)))). ( -29.50)
>consensus
A___AUA__________UUUCA__CCACAUACCUUAUCCAGCGUGAAAGAUAUGUAGGCAUAAAUGCCAAACAUUUCACGCAUCGUGUCCUCGAACGUAUUCGAGUCCAUGUU
........................................((((((((........((((....)))).....))))))))..((((..(((..........)))..)))).. (-14.52 = -15.10 +   0.58)

alignment

secondary structure

dotplot

Window 8

Location	8,095,610 – 8,095,711
Length	101
Sequences	6
Columns	113
Reading direction	reverse
Mean pairwise identity	75.84
Mean single sequence MFE	-26.95
Consensus MFE	-19.46
Energy contribution	-19.43
Covariance contribution	-0.03
Combinations/Pair	1.27
Mean z-score	-1.30
Structure conservation index	0.72
SVM decision value	0.86
SVM RNA-class probability	0.868692
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8095610 101 - 20766785
AACAUGGACUCGAAUACGUUCGAGGACACGAUGCGUGAAAUGUUUGGCAUUUAUGCCUACAUCUCUUUCACGCUGGAUAAGGUGAGUGU--UAAAA----------UUUUAUU
..(.((..((((((....))))))..)).)..(((((((((((..((((....)))).))))....)))))))..((((((((......--....)----------))))))) ( -29.20)
>DroVir_CAF1 12933 109 - 1
AACAUGGACUCGAAUACCUUUGAGGACACCAUGCGCGAAAUGUUUGGCAUCUAUGCCUACAUAUCCUUCACGCUAGAUAAGGUAAGCU-GCUCAAACGAUGAUGAAUCC---A
..(((((.((((((....))))))....)))))........((((((((.((.(((((...((((..........))))))))))).)-)).)))))(((.....))).---. ( -25.40)
>DroPse_CAF1 10638 98 - 1
AACAUGGACUCGAACACGUUCGAGGACACGAUGCGUGAAAUGUUCGGCAUUUACGCCUACGUAUCCUUUACGCUGGACAAGGUAUGUGG--UGUAA----------UAU---A
....((..((((((....))))))..)).(((((.(((.....))))))))((((((.(((((.((((..........)))))))))))--)))).----------...---. ( -29.80)
>DroWil_CAF1 12449 101 - 1
AAUAUGGACUCGAAUACGUUUGAGGAUACAAUGAGAGAAAUGUUUGGUAUCUACGCCUACAUAUCUUUCACGCUCGAUAAGGUAGGUAG--AAAGA----------UUACACU
..(((.((((((((....)))))).......(((((((.((((..(((......))).)))).)))))))...)).)))..((((....--.....----------))))... ( -20.70)
>DroAna_CAF1 10427 109 - 1
AAUAUGGACUCCACCACGUUCGAAGACACGAUGCGUGAGAUGUUUGGCAUCUAUGCCUACAUAUCUUUCACGCUGGAUAAGGUA-GUGGACUUGGAUCAUCAU---UAUUUUU
......((.((((((((..(((......))).(((((((((((..((((....))))...)))))..))))))...........-))))...)))))).....---....... ( -28.70)
>DroPer_CAF1 10602 98 - 1
AACAUGGACUCGAACACGUUCGAGGACACGAUGCGUGAAAUGUUCGGCAUUUACGCCUACGUAUCCUUUACGCUGGACAAGGUAUGUGG--UGGAA----------UAU---A
..(.((..((((((....))))))..)).)..(((((((.((.....)))))))))(((((((.((((..........)))))))))))--.....----------...---. ( -27.90)
>consensus
AACAUGGACUCGAACACGUUCGAGGACACGAUGCGUGAAAUGUUUGGCAUCUACGCCUACAUAUCCUUCACGCUGGAUAAGGUAAGUGG__UAAAA__________UAU___A
....((..((((((....))))))..))....(((((((((((..(((......))).))))....)))))))........................................ (-19.46 = -19.43 +  -0.03)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:31 2006