Locus 446

Sequence ID	2R_DroMel_CAF1
Location	2,565,068 – 2,565,276
Length	208
Max. P	0.965530

overview

Window 4

Location	2,565,068 – 2,565,166
Length	98
Sequences	6
Columns	98
Reading direction	forward
Mean pairwise identity	74.23
Mean single sequence MFE	-19.57
Consensus MFE	-11.50
Energy contribution	-11.25
Covariance contribution	-0.25
Combinations/Pair	1.23
Mean z-score	-1.74
Structure conservation index	0.59
SVM decision value	0.97
SVM RNA-class probability	0.891866
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2565068 98 + 20766785
GAUACAUCAACUAAAUUCACAUAAUAUUUAUAUGUCCUCCGGUAGUAUGUGAUCUGCCUGCUGAUCCUGCUGUGCCUGCAGAUUUAUAUUAUCGCGGC
..................(((((.......)))))((..((((((((((.(((((((..((............))..))))))))))))))))).)). ( -21.30)
>DroPse_CAF1 1936 91 + 1
AA----UGAUCACAUCUGACAUUAUCUUUC---CCUUCCUCCCAGUAUGUGAUCUGCCUCUUGAUCCUGCUCUGCCUGCAGAUCUACAUCAUUGCUGC
..----.(((((((((((............---.........))).)))))))).((....((((...(.((((....)))).)...))))..))... ( -19.10)
>DroSec_CAF1 2179 95 + 1
GAUACAUCAACUAAAUUCACAUAAUAUUUA---AUCCUCCGGUAGUAUGUGAUCUGCCUGCUGAUCCUGCUGUGCCUGCAGAUCUACAUUAUCGCGGC
..............................---..((..(((((..(((((((((((..((............))..))))))).))))))))).)). ( -19.20)
>DroEre_CAF1 2154 93 + 1
AGUAUUUAGUAAUAUGCAA--UAAUCUUUA---AUUCUCUGCUAGUAUGUGAUCUGCCUGCUGAUUUUGCUGUGCCUGCAGAUUUACAUAAUCGCCGC
.((((........))))..--.........---.......((...((((((((((((..((............))..))))).)))))))...))... ( -17.90)
>DroYak_CAF1 2314 95 + 1
GAUAUGUAAUCAAAAUCAAAUUAAUAUUAA---AUACUCUGGUAGUAUGUGAUCUGCCUGCUAAUCCUGCUGUGCCUGCAGAUCUACAUAAUCGCCGC
(((.....)))...................---.......(((..((((((((((((..((............))..))))))).)))))...))).. ( -20.80)
>DroPer_CAF1 1936 91 + 1
AA----UGAUCACAUCUGACAUUAUCUUUC---CCUUCCUCCCAGUAUGUGAUCUGCCUCUUGAUCCUGCUCUGCCUGCAGAUCUACAUCAUUGCUGC
..----.(((((((((((............---.........))).)))))))).((....((((...(.((((....)))).)...))))..))... ( -19.10)
>consensus
AAUA__UAAUCAAAAUUAACAUAAUAUUUA___AUUCUCUGCUAGUAUGUGAUCUGCCUGCUGAUCCUGCUGUGCCUGCAGAUCUACAUAAUCGCCGC
..............................................(((((((((((..((............))..))))))).))))......... (-11.50 = -11.25 +  -0.25)

alignment

secondary structure

dotplot

Window 5

Location	2,565,166 – 2,565,276
Length	110
Sequences	6
Columns	116
Reading direction	reverse
Mean pairwise identity	75.97
Mean single sequence MFE	-44.32
Consensus MFE	-21.23
Energy contribution	-21.87
Covariance contribution	0.64
Combinations/Pair	1.32
Mean z-score	-2.48
Structure conservation index	0.48
SVM decision value	1.58
SVM RNA-class probability	0.965530
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2565166 110 - 20766785
------GACUUACCUUUUGCUCAAGGAGCGAUAUGCGCUCCACAUUGGUCCUUUGAUCAGCCCAGGUGGCCAGGAAAUCCUUCUUGGAUCGCUCCACGUAGUCCGUGGAGUGGGCU
------...((((((...((....((((((.....))))))....(((((....)))))))..))))))(((((((....))))))).((((((((((.....))))))))))... ( -44.20)
>DroPse_CAF1 2027 116 - 1
UCUCCCCACUCACCUUCUGCUCGAUGAGGGAGAGGCGCUCGACAUUGGUUCUGGGAUCUGACCAGAGGGCCAGGAACUCGCUCCGCGACCUCUCCACAUAGUUCGUUGAGUGGGCU
....((((((((.(....(((..(((..((((((((((.......(((((((((.......)))))..))))(((......)))))).))))))).))))))..).)))))))).. ( -48.60)
>DroSec_CAF1 2274 107 - 1
---------UUACCUUUUGCUCGAGGAGCGAUAUGCGUUCCACAUUGGCCCUUUGAUCAGCCCAGGUGGCCAGGAAGUCCUUCUUGGAUCGCUCCACGUAGUCCGUGGAGUGGGCU
---------...............((((((.....)))))).....(((((...((((.(((.....)))((((((....))))))))))((((((((.....))))))))))))) ( -43.00)
>DroEre_CAF1 2247 108 - 1
--------CUUACCCUUUGCUCGAGGAGCGCUAUCCGCUCCACACUGUCCCUUUGAUCAGCCCAGCUGGCCAGGAAGUCCUUCCUGGAGCGCUCUACGUAGUCCGUAGAGUGGGCU
--------................((((((.....)))))).................(((((.(((..(((((((....))))))))))((((((((.....))))))))))))) ( -44.30)
>DroAna_CAF1 2835 110 - 1
------CCAUUACCUUUUGUUCAAUGAAGGAGAUGCGCUCUGCAUUAGCCUUUUGAUCGGCCCAGAGCCCGAGGAAAUCCCUCUUCGAGCGCUCCACAUAGUCCGUGGAAUGGGCA
------(((((.((...((..(.(((..((((.(((((((((.....(((........))).)))))).((((((......)))))).))))))).))).)..)).)))))))... ( -37.20)
>DroPer_CAF1 2027 116 - 1
UCUCCCCACUCACCUUCUGCUCGAUGAGGGAGAGGCGCUCGACAUUGGUUCUGGGAUCUGACCAGAGGGCCAGGAACUCGCUCCGCGACCUCUCCACAUAGUUCGUUGAGUGGGCU
....((((((((.(....(((..(((..((((((((((.......(((((((((.......)))))..))))(((......)))))).))))))).))))))..).)))))))).. ( -48.60)
>consensus
______CACUUACCUUUUGCUCGAGGAGCGAGAUGCGCUCCACAUUGGCCCUUUGAUCAGCCCAGAGGGCCAGGAAAUCCCUCCUCGACCGCUCCACAUAGUCCGUGGAGUGGGCU
........................((((.(.....).))))..................(((((..(((((((((......)))))).)))((((((.......))))))))))). (-21.23 = -21.87 +   0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:38:46 2006