Locus 7354

Sequence ID	2L_DroMel_CAF1
Location	20,499,791 – 20,499,906
Length	115
Max. P	0.865096

overview

Window 5

Location	20,499,791 – 20,499,906
Length	115
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	83.86
Mean single sequence MFE	-24.35
Consensus MFE	-19.88
Energy contribution	-19.68
Covariance contribution	-0.19
Combinations/Pair	1.14
Mean z-score	-1.89
Structure conservation index	0.82
SVM decision value	0.48
SVM RNA-class probability	0.751276
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20499791 115 + 22407834
UUC-AACUGUCUAUCGAGCAGUCUCAUCUACAGCUCUCGGUAAUCCCCAAGUGCUGCUGAACAUGAGAAUAACACACGUAAUGCAUAUUUAAACAUUUGCUGAUAGCAAAUGAC----AA
.((-(..((.(((((.((((((((((((..((((.((.((......)).)).))))..))...)))))...((....)).................))))))))))))..))).----.. ( -26.70)
>DroPse_CAF1 56112 100 + 1
--------------------CUUUCAUCUACAGCUCUCGGUAAUCCCCAAGUGCUGCUCAACAUGGGAAUAACACACGUAAUGCAUAUUUAAACAUUUGCUGAUGGCAAAUGACACACAA
--------------------.(..(((...((((.((.((......)).)).))))......)))..).........................(((((((.....)))))))........ ( -18.60)
>DroSec_CAF1 16766 115 + 1
UUC-AACUGUAUAUCGAGCAGUCUCAUCUACAGCUCUCGGUAAUCCCCAAGUGCUGUUGAACAUGAGAAUAACACACGUAAUGCAUAUUUAAACAUUUGCUGAUAGCAAAUGAC----AA
...-...(((((..((.....(((((((.(((((.((.((......)).)).))))).))...)))))........))..)))))........(((((((.....)))))))..----.. ( -27.62)
>DroYak_CAF1 15961 115 + 1
UUU-CAAUGUCUAUCGAGCAGUCACAUCUACAGCUCUUGGUAAUCCCCAAGUGCUGCUGAACAUGAGAAUAACACACGUAAUGCAUAUUUAAACAUUUGCUGAUAGCAAGUGAC----AA
..(-((.((.(((((.(((((.....((..((((.(((((......))))).))))..))..(((...((.((....)).)).)))..........))))))))))))..))).----.. ( -27.00)
>DroAna_CAF1 8602 116 + 1
UUCCAACUCUCUAUCGAGGACUCUCAUCGACAGCUCCUGGUAAUCCCCAAGUGCUGAUGAACAUGAGAAUAACACACGUAAUGCAUAUUUAAACAUUUGCUGAUAGCAAAUGAC----AA
......(((......)))...((((((((.((((.(.(((......))).).)))).)))...))))).........................(((((((.....)))))))..----.. ( -26.20)
>DroPer_CAF1 62020 100 + 1
--------------------CUUUCAUCUACAGCUCUCGGUAAUCCCCAAGUGCUGCUGAACAUGGGAAUAACACACGUAAUGCAUAUUUAAACAUUUGCUGAUGGCAAAUGACACACAA
--------------------.(..((((..((((.((.((......)).)).))))..))...))..).........................(((((((.....)))))))........ ( -20.00)
>consensus
UUC_AACUGUCUAUCGAGCACUCUCAUCUACAGCUCUCGGUAAUCCCCAAGUGCUGCUGAACAUGAGAAUAACACACGUAAUGCAUAUUUAAACAUUUGCUGAUAGCAAAUGAC____AA
.....................((((((...((((.((.((......)).)).))))......)))))).........................(((((((.....)))))))........ (-19.88 = -19.68 +  -0.19)

alignment

secondary structure

dotplot

Window 6

Location	20,499,791 – 20,499,906
Length	115
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	83.86
Mean single sequence MFE	-33.05
Consensus MFE	-26.04
Energy contribution	-25.90
Covariance contribution	-0.14
Combinations/Pair	1.11
Mean z-score	-2.56
Structure conservation index	0.79
SVM decision value	0.85
SVM RNA-class probability	0.865096
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20499791 115 - 22407834
UU----GUCAUUUGCUAUCAGCAAAUGUUUAAAUAUGCAUUACGUGUGUUAUUCUCAUGUUCAGCAGCACUUGGGGAUUACCGAGAGCUGUAGAUGAGACUGCUCGAUAGACAGUU-GAA
..----.(((.((((((((((((........(((((((.....)))))))..((((((.(...(((((.(((((......))))).)))))).)))))).)))).))))).))).)-)). ( -38.80)
>DroPse_CAF1 56112 100 - 1
UUGUGUGUCAUUUGCCAUCAGCAAAUGUUUAAAUAUGCAUUACGUGUGUUAUUCCCAUGUUGAGCAGCACUUGGGGAUUACCGAGAGCUGUAGAUGAAAG--------------------
.((((((((((((((.....))))))).....)))))))..(((((.(.....).)))))...(((((.(((((......))))).))))).........-------------------- ( -27.40)
>DroSec_CAF1 16766 115 - 1
UU----GUCAUUUGCUAUCAGCAAAUGUUUAAAUAUGCAUUACGUGUGUUAUUCUCAUGUUCAACAGCACUUGGGGAUUACCGAGAGCUGUAGAUGAGACUGCUCGAUAUACAGUU-GAA
..----.(((.(((.((((((((........(((((((.....)))))))..((((((.(...(((((.(((((......))))).)))))).)))))).)))).))))..))).)-)). ( -33.50)
>DroYak_CAF1 15961 115 - 1
UU----GUCACUUGCUAUCAGCAAAUGUUUAAAUAUGCAUUACGUGUGUUAUUCUCAUGUUCAGCAGCACUUGGGGAUUACCAAGAGCUGUAGAUGUGACUGCUCGAUAGACAUUG-AAA
..----.(((..(((((((((((........(((((((.....)))))))....(((((((..(((((.(((((......))))).))))).))))))).)))).))))).)).))-).. ( -35.70)
>DroAna_CAF1 8602 116 - 1
UU----GUCAUUUGCUAUCAGCAAAUGUUUAAAUAUGCAUUACGUGUGUUAUUCUCAUGUUCAUCAGCACUUGGGGAUUACCAGGAGCUGUCGAUGAGAGUCCUCGAUAGAGAGUUGGAA
..----..(((((((.....)))))))....(((((((.....)))))))(((((((...((..((((.(((((......))))).))))..))))))))).(((....)))........ ( -34.40)
>DroPer_CAF1 62020 100 - 1
UUGUGUGUCAUUUGCCAUCAGCAAAUGUUUAAAUAUGCAUUACGUGUGUUAUUCCCAUGUUCAGCAGCACUUGGGGAUUACCGAGAGCUGUAGAUGAAAG--------------------
.((((((((((((((.....))))))).....)))))))..(((((.(.....).)))))((.(((((.(((((......))))).))))).))......-------------------- ( -28.50)
>consensus
UU____GUCAUUUGCUAUCAGCAAAUGUUUAAAUAUGCAUUACGUGUGUUAUUCUCAUGUUCAGCAGCACUUGGGGAUUACCGAGAGCUGUAGAUGAGACUGCUCGAUAGACAGUU_GAA
........(((((((.....)))))))..........(((((((((.(.....).)))))...(((((.(((((......))))).))))).))))........................ (-26.04 = -25.90 +  -0.14)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:34:35 2006