Locus 5147

Sequence ID	X_DroMel_CAF1
Location	13,426,056 – 13,426,151
Length	95
Max. P	0.986431

overview

Window 8

Location	13,426,056 – 13,426,151
Length	95
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	76.13
Mean single sequence MFE	-16.82
Consensus MFE	-12.23
Energy contribution	-13.28
Covariance contribution	1.06
Combinations/Pair	1.12
Mean z-score	-1.60
Structure conservation index	0.73
SVM decision value	1.30
SVM RNA-class probability	0.939557
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13426056 95 + 22224390
UAUCCAUUUUUUUUUUU-UUUUUUUUGUUGUGGCAAGGUGAAU----AUCCUUGCACACAGACAGACACUCACACAGACACACGAGCCUUGUCCGUCCUA
.................-..........((((((((((.....----..)))))).))))(((.(((((((............)))...)))).)))... ( -21.30)
>DroSec_CAF1 21587 96 + 1
UACCCAUUUUUUUUUUUGUUUUUUUUUUUGUAGCAAGGAGAAU----AUCCUUGCACACAGACAGACACUCACACAGACACACGAGCCUUGUCCGUCCUA
............................(((.(((((((....----.))))))))))..(((.(((((((............)))...)))).)))... ( -20.00)
>DroSim_CAF1 20888 87 + 1
UACCCAUUUUUUU---------UUUUUUUGUAGCAAGGAGAAU----AUCCUUGCACACAGACAGACACUCACACAGACACACGAGCCUUGUCCGUCCUA
.............---------......(((.(((((((....----.))))))))))..(((.(((((((............)))...)))).)))... ( -20.00)
>DroEre_CAF1 16504 79 + 1
UAGCCAUUUUUUU-------------A----CGCAAAGAGGAU----AUCGUUGCACACAGAUAGACACCCACACAGACACACGAGCCUUGUCCGUCCUA
.............-------------.----.((((.((....----.)).)))).....((..((((.....................))))..))... (  -8.70)
>DroYak_CAF1 31263 83 + 1
UAACCUUUUUUUU-------------UUUGUAGCAAGGAGUAU----AUCCUUGCACACAGACAGACACUCACACAGACACACGAGCCUUGUCCGUCCUA
.............-------------..(((.(((((((....----.))))))))))..(((.(((((((............)))...)))).)))... ( -20.00)
>DroPer_CAF1 33607 89 + 1
----CAUUAU----UUUGUUUUCUU-UUUG--CCACUGAACGCACUCCUCCACACACACAGACAGGCACUCACACAGCCAUAUGAGCCUUGUCCGUCCUA
----......----..(((.(((..-....--.....))).))).............((.((((((..((((..........)))).)))))).)).... ( -10.90)
>consensus
UACCCAUUUUUUU_________UUU_UUUGUAGCAAGGAGAAU____AUCCUUGCACACAGACAGACACUCACACAGACACACGAGCCUUGUCCGUCCUA
................................(((((((.........))))))).....(((.(((((((............)))...)))).)))... (-12.23 = -13.28 +   1.06)

alignment

secondary structure

dotplot

Window 9

Location	13,426,056 – 13,426,151
Length	95
Sequences	6
Columns	100
Reading direction	reverse
Mean pairwise identity	76.13
Mean single sequence MFE	-25.88
Consensus MFE	-20.31
Energy contribution	-20.48
Covariance contribution	0.17
Combinations/Pair	1.24
Mean z-score	-2.59
Structure conservation index	0.79
SVM decision value	2.04
SVM RNA-class probability	0.986431
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13426056 95 - 22224390
UAGGACGGACAAGGCUCGUGUGUCUGUGUGAGUGUCUGUCUGUGUGCAAGGAU----AUUCACCUUGCCACAACAAAAAAAA-AAAAAAAAAAAUGGAUA
..((((((((...(((((..(....)..)))))))))))))(((.((((((..----.....)))))))))...........-................. ( -29.70)
>DroSec_CAF1 21587 96 - 1
UAGGACGGACAAGGCUCGUGUGUCUGUGUGAGUGUCUGUCUGUGUGCAAGGAU----AUUCUCCUUGCUACAAAAAAAAAAACAAAAAAAAAAAUGGGUA
..((((((((...(((((..(....)..)))))))))))))(((.(((((((.----....))))))))))............................. ( -29.30)
>DroSim_CAF1 20888 87 - 1
UAGGACGGACAAGGCUCGUGUGUCUGUGUGAGUGUCUGUCUGUGUGCAAGGAU----AUUCUCCUUGCUACAAAAAAA---------AAAAAAAUGGGUA
..((((((((...(((((..(....)..)))))))))))))(((.(((((((.----....)))))))))).......---------............. ( -29.30)
>DroEre_CAF1 16504 79 - 1
UAGGACGGACAAGGCUCGUGUGUCUGUGUGGGUGUCUAUCUGUGUGCAACGAU----AUCCUCUUUGCG----U-------------AAAAAAAUGGCUA
..(((..(((...(((((..(....)..))))))))..)))....((((.((.----....)).)))).----.-------------............. ( -15.60)
>DroYak_CAF1 31263 83 - 1
UAGGACGGACAAGGCUCGUGUGUCUGUGUGAGUGUCUGUCUGUGUGCAAGGAU----AUACUCCUUGCUACAAA-------------AAAAAAAAGGUUA
..((((((((...(((((..(....)..)))))))))))))(((.(((((((.----....))))))))))...-------------............. ( -29.30)
>DroPer_CAF1 33607 89 - 1
UAGGACGGACAAGGCUCAUAUGGCUGUGUGAGUGCCUGUCUGUGUGUGUGGAGGAGUGCGUUCAGUGG--CAAA-AAGAAAACAAA----AUAAUG----
..(.(((((((.(((((((((....))))))..)))))))))).).(((.......(((........)--))..-......)))..----......---- ( -22.06)
>consensus
UAGGACGGACAAGGCUCGUGUGUCUGUGUGAGUGUCUGUCUGUGUGCAAGGAU____AUUCUCCUUGCUACAAA_AAA_________AAAAAAAUGGGUA
..((((((((...(((((..(....)..)))))))))))))....(((((((.........)))))))................................ (-20.31 = -20.48 +   0.17)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:04 2006