Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 92 of 105
Found at i:16256025 original size:30 final size:29
Alignment explanation
Indices: 16255991--16256101 Score: 118
Period size: 28 Copynumber: 3.8 Consensus size: 29
16255981 GTATGAAAAG
*
16255991 TTTAGGATTTTGATTTTAGAGTTTGAAGAT
1 TTTAGGGTTTTGATTTTAGAGTTTG-AGAT
* *
16256021 TTTAGGGTTTTGATTTTAAAATTTGAGA-
1 TTTAGGGTTTTGATTTTAGAGTTTGAGAT
* * *
16256049 TTTGGGGTTTTGATTTAAGGGTTTG-GAT
1 TTTAGGGTTTTGATTTTAGAGTTTGAGAT
* *
16256077 TTTAGGGGTTTGGATTTAAGAGTTT
1 TTTA-GGGTTTTGATTTTAGAGTTT
16256102 AAAGGTTTGG
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
27 2 0.03
28 23 0.34
29 21 0.31
30 22 0.32
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.50
Consensus pattern (29 bp):
TTTAGGGTTTTGATTTTAGAGTTTGAGAT
Found at i:16256037 original size:14 final size:14
Alignment explanation
Indices: 16255991--16256093 Score: 64
Period size: 14 Copynumber: 7.1 Consensus size: 14
16255981 GTATGAAAAG
*
16255991 TTTAGGATTTTGAT
1 TTTAGGGTTTTGAT
* *
16256005 TTTAGAGTTTGAAGAT
1 TTTAGGGTTT--TGAT
16256021 TTTAGGGTTTTGAT
1 TTTAGGGTTTTGAT
*** *
16256035 TTTA-AAATTTGAGA
1 TTTAGGGTTTTGA-T
*
16256049 TTTGGGGTTTTGAT
1 TTTAGGGTTTTGAT
* *
16256063 TTAAGGGTTTGGAT
1 TTTAGGGTTTTGAT
*
16256077 TTTAGGGGTTTGGAT
1 TTTA-GGGTTTTGAT
16256092 TT
1 TT
16256094 AAGAGTTTAA
Statistics
Matches: 66, Mismatches: 18, Indels: 9
0.71 0.19 0.10
Matches are distributed among these distances:
13 5 0.08
14 32 0.48
15 17 0.26
16 12 0.18
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.50
Consensus pattern (14 bp):
TTTAGGGTTTTGAT
Found at i:16256080 original size:15 final size:15
Alignment explanation
Indices: 16256053--16256189 Score: 70
Period size: 15 Copynumber: 8.9 Consensus size: 15
16256043 TTGAGATTTG
*
16256053 GGGTTTTGA-TTTAA
1 GGGTTTGGATTTTAA
*
16256067 GGGTTTGGATTTTAG
1 GGGTTTGGATTTTAA
16256082 GGGTTTGGA-TTTAA
1 GGGTTTGGATTTTAA
* ** *
16256096 GAGTTTAAAGGTTT--
1 GGGTTTGGA-TTTTAA
*
16256110 GGAATTTCGGATTTTAGA
1 GG-GTTT-GGATTTTA-A
16256128 GGGCTTTGGATTTT-A
1 GGG-TTTGGATTTTAA
* *
16256143 GGAGTTTCGAATTTTAG
1 GG-GTTT-GGATTTTAA
16256160 GGGTTTGGA-TTTAA
1 GGGTTTGGATTTTAA
16256174 GGGATTTTGGATTTTA
1 GGG--TTTGGATTTTA
16256190 GGGATTTCAA
Statistics
Matches: 92, Mismatches: 16, Indels: 27
0.68 0.12 0.20
Matches are distributed among these distances:
14 26 0.28
15 27 0.29
16 21 0.23
17 13 0.14
18 5 0.05
ACGTcount: A:0.21, C:0.02, G:0.32, T:0.45
Consensus pattern (15 bp):
GGGTTTGGATTTTAA
Found at i:16256158 original size:16 final size:16
Alignment explanation
Indices: 16256137--16256244 Score: 55
Period size: 16 Copynumber: 6.8 Consensus size: 16
16256127 AGGGCTTTGG
16256137 ATTTTAGGAGTTTCGA
1 ATTTTAGGAGTTTCGA
* *
16256153 ATTTTAGGGGTTT-GG
1 ATTTTAGGAGTTTCGA
* * *
16256168 ATTTAAGG-GATTTTGG
1 ATTTTAGGAG-TTTCGA
*
16256184 ATTTTAGG-GATTTCAA
1 ATTTTAGGAG-TTTCGA
* *
16256200 ATTTT--GAGATTTTGG
1 ATTTTAGGAG-TTTCGA
*
16256215 ATTTTAGGGAATTTCGA
1 ATTTTA-GGAGTTTCGA
*
16256232 ATTTTAAGAGTTT
1 ATTTTAGGAGTTT
16256245 TAGAAACTTA
Statistics
Matches: 71, Mismatches: 15, Indels: 12
0.72 0.15 0.12
Matches are distributed among these distances:
14 2 0.03
15 21 0.30
16 36 0.51
17 10 0.14
18 2 0.03
ACGTcount: A:0.25, C:0.03, G:0.26, T:0.46
Consensus pattern (16 bp):
ATTTTAGGAGTTTCGA
Found at i:16256183 original size:47 final size:48
Alignment explanation
Indices: 16256132--16256244 Score: 124
Period size: 47 Copynumber: 2.4 Consensus size: 48
16256122 TTTAGAGGGC
* *
16256132 TTTGGATTTTAGGAGTTTCGAATTTT-AGGGGTTTGGATTTAAGGG-AT
1 TTTGGATTTTAGGAGTTTCAAATTTTGA-GAGTTTGGATTTAAGGGAAT
* *
16256179 TTTGGATTTTAGG-GATTTCAAATTTTGAGATTTTGGATTTTAGGGAAT
1 TTTGGATTTTAGGAG-TTTCAAATTTTGAGAGTTTGGATTTAAGGGAAT
* * *
16256227 TTCGAATTTTAAGAGTTT
1 TTTGGATTTTAGGAGTTT
16256245 TAGAAACTTA
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
46 1 0.02
47 37 0.67
48 16 0.29
49 1 0.02
ACGTcount: A:0.24, C:0.03, G:0.27, T:0.47
Consensus pattern (48 bp):
TTTGGATTTTAGGAGTTTCAAATTTTGAGAGTTTGGATTTAAGGGAAT
Found at i:16256188 original size:31 final size:30
Alignment explanation
Indices: 16256113--16256192 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 30
16256103 AAGGTTTGGA
16256113 ATTTCGGATTTTAGAGGGCTTTGGATTTTA-GG
1 ATTTCGGATTTTAG-GGG-TTTGGA-TTTAGGG
*
16256145 AGTTTCGAATTTTAGGGGTTTGGATTTAAGGG
1 A-TTTCGGATTTTAGGGGTTTGGATTT-AGGG
*
16256177 ATTTTGGATTTTAGGG
1 ATTTCGGATTTTAGGG
16256193 ATTTCAAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
30 3 0.07
31 20 0.48
32 7 0.17
33 12 0.29
ACGTcount: A:0.20, C:0.04, G:0.33, T:0.44
Consensus pattern (30 bp):
ATTTCGGATTTTAGGGGTTTGGATTTAGGG
Found at i:16256211 original size:31 final size:32
Alignment explanation
Indices: 16256176--16256245 Score: 106
Period size: 31 Copynumber: 2.2 Consensus size: 32
16256166 GGATTTAAGG
*
16256176 GATTTTGGATTTTAGGG-ATTTCAAATTTTGA
1 GATTTTGGATTTTAGGGAATTTCAAATTTTAA
*
16256207 GATTTTGGATTTTAGGGAATTTCGAATTTTAA
1 GATTTTGGATTTTAGGGAATTTCAAATTTTAA
16256239 GAGTTTT
1 GA-TTTT
16256246 AGAAACTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 17 0.49
32 14 0.40
33 4 0.11
ACGTcount: A:0.26, C:0.03, G:0.23, T:0.49
Consensus pattern (32 bp):
GATTTTGGATTTTAGGGAATTTCAAATTTTAA
Found at i:16257749 original size:3 final size:3
Alignment explanation
Indices: 16257741--16257771 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
16257731 ATTTTTTAAA
16257741 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
16257772 AAATAATAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:16257749 original size:16 final size:16
Alignment explanation
Indices: 16257716--16257745 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16257706 CTATTTTCTT
16257716 TTTTTTAATAATTATA
1 TTTTTTAATAATTATA
16257732 TTTTTTAA-AATTAT
1 TTTTTTAATAATTAT
16257746 TATTATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTTTTAATAATTATA
Found at i:16258034 original size:18 final size:18
Alignment explanation
Indices: 16258011--16258048 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
16258001 GATAATAAAT
16258011 AAAGGCCGTTCACATATC
1 AAAGGCCGTTCACATATC
16258029 AAAGGCCGTTCACATATC
1 AAAGGCCGTTCACATATC
16258047 AA
1 AA
16258049 TATTATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.21
Consensus pattern (18 bp):
AAAGGCCGTTCACATATC
Found at i:16261543 original size:1 final size:1
Alignment explanation
Indices: 16261537--16261567 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
16261527 GAAATGTAAA
16261537 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
16261568 CGCTTGATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:16262740 original size:16 final size:16
Alignment explanation
Indices: 16262713--16262777 Score: 78
Period size: 16 Copynumber: 4.0 Consensus size: 16
16262703 ATAATTATTT
16262713 TTTAATTATTTATTTAA
1 TTTAA-TATTTATTTAA
*
16262730 TTTAATATTTATAT-A
1 TTTAATATTTATTTAA
*
16262745 TTTTATATTTATTTAA
1 TTTAATATTTATTTAA
*
16262761 TTTTATATTTATATTAA
1 TTTAATATTTAT-TTAA
16262778 AAATAATCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
15 13 0.30
16 21 0.49
17 9 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTAATATTTATTTAA
Found at i:16262792 original size:19 final size:20
Alignment explanation
Indices: 16262768--16262811 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
16262758 TAATTTTATA
*
16262768 TTTATA-TTAAAAATAATCT
1 TTTATATTTAAAAATAATAT
16262787 TTTATATTTTAAAAATAATAT
1 TTTATA-TTTAAAAATAATAT
16262808 TTTA
1 TTTA
16262812 CTAATTTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.27
21 16 0.73
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTATATTTAAAAATAATAT
Found at i:16262800 original size:21 final size:22
Alignment explanation
Indices: 16262774--16262820 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
16262764 TATATTTATA
* *
16262774 TTAAAAATAATCTTTTA-TATT
1 TTAAAAATAATATTTTACTAAT
16262795 TTAAAAATAATATTTTACTAAT
1 TTAAAAATAATATTTTACTAAT
16262817 TTAA
1 TTAA
16262821 GGTCGAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (22 bp):
TTAAAAATAATATTTTACTAAT
Found at i:16263816 original size:2 final size:2
Alignment explanation
Indices: 16263809--16263850 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
16263799 CATTCCACGT
*
16263809 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16263851 AAGTAATGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16271605 original size:2 final size:2
Alignment explanation
Indices: 16271598--16271633 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
16271588 TCAGTGTTAA
16271598 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16271634 TACTCTGATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16274237 original size:21 final size:21
Alignment explanation
Indices: 16274213--16274257 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
16274203 TTTCAACCAA
*
16274213 AACAAATACATATTCATGTAC
1 AACAAATACATACTCATGTAC
* *
16274234 AACAAATATATACTCATGTGC
1 AACAAATACATACTCATGTAC
16274255 AAC
1 AAC
16274258 TATACATCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.27
Consensus pattern (21 bp):
AACAAATACATACTCATGTAC
Found at i:16278362 original size:2 final size:2
Alignment explanation
Indices: 16278357--16278382 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16278347 AAAAAAAAAA
16278357 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
16278383 CACCTCTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16284158 original size:27 final size:27
Alignment explanation
Indices: 16284105--16284158 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
16284095 TATAAGATAA
* *
16284105 TTATGATATTATTTAATTTAATGTTAT
1 TTATAATATTATTTAATTTAATCTTAT
*
16284132 TTATAATATTATTTTATTATAA-CTTAT
1 TTATAATATTATTTAATT-TAATCTTAT
16284159 CATAATCTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (27 bp):
TTATAATATTATTTAATTTAATCTTAT
Found at i:16285316 original size:2 final size:2
Alignment explanation
Indices: 16285309--16285367 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
16285299 GCCTTGTTGT
16285309 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16285351 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
16285368 GCATTTCCAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:16288248 original size:16 final size:16
Alignment explanation
Indices: 16288227--16288257 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
16288217 CTACTCACAG
16288227 CAATTAATTTTTTTAA
1 CAATTAATTTTTTTAA
16288243 CAATTAATTTTTTTA
1 CAATTAATTTTTTTA
16288258 TCACTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (16 bp):
CAATTAATTTTTTTAA
Found at i:16288657 original size:2 final size:2
Alignment explanation
Indices: 16288650--16288686 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
16288640 AGGTTGACTT
16288650 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
16288687 GCTAATTAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:16294045 original size:24 final size:24
Alignment explanation
Indices: 16294018--16294073 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
16294008 TTTCTTTAAA
* *
16294018 AATTTTTTCAATAATATTTATAAT
1 AATTTTTTAAATAATAATTATAAT
*
16294042 AATTTTTTAAATCATAATTATAAT
1 AATTTTTTAAATAATAATTATAAT
16294066 AATTTTTT
1 AATTTTTT
16294074 TTAATATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (24 bp):
AATTTTTTAAATAATAATTATAAT
Found at i:16294219 original size:24 final size:24
Alignment explanation
Indices: 16294192--16294244 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
16294182 AACATAAATT
*
16294192 TTTTTTCAATCATAATTATAATAA
1 TTTTTTCAATAATAATTATAATAA
*
16294216 TTTTTTTAATAATAATTATAATAA
1 TTTTTTCAATAATAATTATAATAA
*
16294240 ATTTT
1 TTTTT
16294245 ATTATTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (24 bp):
TTTTTTCAATAATAATTATAATAA
Found at i:16296155 original size:98 final size:98
Alignment explanation
Indices: 16296025--16296222 Score: 315
Period size: 98 Copynumber: 2.0 Consensus size: 98
16296015 TGTAAATTTA
* *
16296025 AAAACATCTCATCCACCCATCCATTCTCTTGGCTCTGGAGGAACCAATGCTTGTTTGTCAATAGG
1 AAAACATCTCACCCACCCATCCATTCTCTTGGCTCTGGAGGAACCAATGCTTGTGTGTCAATAGG
* *
16296090 TGAGGGTTCCGATGCAGTTGGGATAGGCGGTAG
66 TGAGGCTTCCGATGCAGTTGGGATAGGCAGTAG
* * *
16296123 AAAACATCTCACCCACCCATCGATTCTTTTGGCTCTGGAGGAGCCAATGCTTGTGTGTCAATAGG
1 AAAACATCTCACCCACCCATCCATTCTCTTGGCTCTGGAGGAACCAATGCTTGTGTGTCAATAGG
* *
16296188 TGAGGCTTCTGATGCAGTTGGGGTAGGCAGTAG
66 TGAGGCTTCCGATGCAGTTGGGATAGGCAGTAG
16296221 AA
1 AA
16296223 CTATATTCCT
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (98 bp):
AAAACATCTCACCCACCCATCCATTCTCTTGGCTCTGGAGGAACCAATGCTTGTGTGTCAATAGG
TGAGGCTTCCGATGCAGTTGGGATAGGCAGTAG
Found at i:16300252 original size:133 final size:133
Alignment explanation
Indices: 16300014--16300278 Score: 449
Period size: 133 Copynumber: 2.0 Consensus size: 133
16300004 TGTAGAAAAG
* *
16300014 AATGTCTTGCCAATGCACACACGTGTGCTCAAATGAATGTTGCCATCTTGTGTAGATAAGTGTTA
1 AATGTCTTGCCAATGCACACACGTGTGCTCAAATGAATCTTGCCATCTTGTGTAGACAAGTGTTA
* * *
16300079 ATTTTTTGTATCAATTGATAGCTTAGTCTTTTTGCTAGCTGGTGGTATGGTATTTTAAGTTTTGA
66 ATTTTTTGTATCAATTGATAACTTAGTCTTTTTGCTAGCTGGCGGTATAGTATTTTAAGTTTTGA
16300144 ACC
131 ACC
* * *
16300147 AATGTTTTGCCAATGCACACACTTGTGCTCAAATGAATCTTGCCATCTTGTTTAGACAAGTGTTA
1 AATGTCTTGCCAATGCACACACGTGTGCTCAAATGAATCTTGCCATCTTGTGTAGACAAGTGTTA
*
16300212 ATTTTTTGTGTCAATTGATAACTTAGTCTTTTTGCTAGCTGGCGGTATAGTATTTTAAGTTTTGA
66 ATTTTTTGTATCAATTGATAACTTAGTCTTTTTGCTAGCTGGCGGTATAGTATTTTAAGTTTTGA
16300277 AC
131 AC
16300279 TATCCTCTCT
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
133 123 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.41
Consensus pattern (133 bp):
AATGTCTTGCCAATGCACACACGTGTGCTCAAATGAATCTTGCCATCTTGTGTAGACAAGTGTTA
ATTTTTTGTATCAATTGATAACTTAGTCTTTTTGCTAGCTGGCGGTATAGTATTTTAAGTTTTGA
ACC
Found at i:16306326 original size:21 final size:21
Alignment explanation
Indices: 16306302--16306341 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
16306292 TAATTACACC
16306302 CATAATC-ATATATTATATTCA
1 CATAATCAAT-TATTATATTCA
16306323 CATAATCAATTATTATATT
1 CATAATCAATTATTATATT
16306342 ACTAATAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (21 bp):
CATAATCAATTATTATATTCA
Found at i:16306364 original size:22 final size:21
Alignment explanation
Indices: 16306324--16306368 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
16306314 TTATATTCAC
* * *
16306324 ATAATCAATTATTATATTACTA
1 ATAATCAACTACTAAATTA-TA
16306346 ATAATCAACTACTAAATTATA
1 ATAATCAACTACTAAATTATA
16306367 AT
1 AT
16306369 TGAACTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (21 bp):
ATAATCAACTACTAAATTATA
Found at i:16308249 original size:3 final size:3
Alignment explanation
Indices: 16308241--16308280 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
16308231 AACTTCACCT
*
16308241 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TAA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
16308281 GGTTATCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.35, C:0.30, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:16309220 original size:25 final size:25
Alignment explanation
Indices: 16309191--16309240 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
16309181 ATACTACTTA
16309191 GTAAATTATGAATAGTCATTCACAT
1 GTAAATTATGAATAGTCATTCACAT
16309216 GTAAATTATGAATAGTCATTCACAT
1 GTAAATTATGAATAGTCATTCACAT
16309241 CAAAACACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (25 bp):
GTAAATTATGAATAGTCATTCACAT
Found at i:16310754 original size:72 final size:72
Alignment explanation
Indices: 16310637--16310840 Score: 336
Period size: 72 Copynumber: 2.8 Consensus size: 72
16310627 GACAAAGACC
*
16310637 CACTGTTCAATCTTGGAGATTTTCGCAACCCAGTCGTTGAATTCACACAATTTGTTGAAAGCTCA
1 CACTGTTCAATCTTGGAGATCTTCGCAACCCAGTCGTTGAATTCACACAATTTGTTGAAAGCTCA
*
16310702 CTTGATA
66 CTTAATA
* *
16310709 CACTGTTCAATCTTGGAGATCTTCGCAACCCAGTCGTAGAATTCACACAATTTGTCGAAAGCTCA
1 CACTGTTCAATCTTGGAGATCTTCGCAACCCAGTCGTTGAATTCACACAATTTGTTGAAAGCTCA
16310774 CTTAATA
66 CTTAATA
* * * *
16310781 AACTGTTCAATCTTGGGGATCTTCGCAACCCATTCGTTGAATTCACACAATTTGCTGAAA
1 CACTGTTCAATCTTGGAGATCTTCGCAACCCAGTCGTTGAATTCACACAATTTGTTGAAA
16310841 CACTACTTGA
Statistics
Matches: 122, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 122 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (72 bp):
CACTGTTCAATCTTGGAGATCTTCGCAACCCAGTCGTTGAATTCACACAATTTGTTGAAAGCTCA
CTTAATA
Found at i:16311843 original size:11 final size:11
Alignment explanation
Indices: 16311817--16311854 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
16311807 TATAAAACTC
16311817 TTTTTTTAT-A
1 TTTTTTTATAA
*
16311827 -TATTTTATAA
1 TTTTTTTATAA
16311837 TTTTTTTATAA
1 TTTTTTTATAA
16311848 TTTTTTT
1 TTTTTTT
16311855 TCTTTTTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 7 0.29
10 1 0.04
11 16 0.67
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTTTATAA
Found at i:16311860 original size:20 final size:20
Alignment explanation
Indices: 16311815--16311861 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
16311805 TATATAAAAC
16311815 TCTTTTTTTATATATTTTAT
1 TCTTTTTTTATATATTTTAT
** *
16311835 AATTTTTTTATA-ATTTTTTT
1 TCTTTTTTTATATA-TTTTAT
16311855 TCTTTTT
1 TCTTTTT
16311862 GATATTAAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (20 bp):
TCTTTTTTTATATATTTTAT
Found at i:16314428 original size:52 final size:51
Alignment explanation
Indices: 16314349--16314448 Score: 119
Period size: 52 Copynumber: 1.9 Consensus size: 51
16314339 TATAACCATA
* * *
16314349 CAAACTTGCTTATTAAGAATCTCTTTCTTTTTAAAATTATTCTTCTGCAAGT
1 CAAACTTGCCTATTAAAAATCTCTTTC-TTTAAAAATTATTCTTCTGCAAGT
* * * * *
16314401 CAAATTTGCCTATTAAAAATTTTTTTCTTTAAAAATTCTTCTTTTGCA
1 CAAACTTGCCTATTAAAAATCTCTTTCTTTAAAAATTATTCTTCTGCA
16314449 CTTGTCTATC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
51 18 0.45
52 22 0.55
ACGTcount: A:0.30, C:0.16, G:0.06, T:0.48
Consensus pattern (51 bp):
CAAACTTGCCTATTAAAAATCTCTTTCTTTAAAAATTATTCTTCTGCAAGT
Found at i:16316320 original size:13 final size:11
Alignment explanation
Indices: 16316300--16316346 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
16316290 TGATAAATTA
16316300 AAATATAATAT
1 AAATATAATAT
16316311 AATGATATAATAT
1 AA--ATATAATAT
16316324 AAATATAATA-
1 AAATATAATAT
*
16316334 AAAAATAATAT
1 AAATATAATAT
16316345 AA
1 AA
16316347 TTTAAAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
10 9 0.28
11 12 0.38
13 11 0.34
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (11 bp):
AAATATAATAT
Found at i:16321910 original size:11 final size:11
Alignment explanation
Indices: 16321872--16321924 Score: 61
Period size: 11 Copynumber: 4.8 Consensus size: 11
16321862 ATCTCATAAT
16321872 AGATTTGTTTG
1 AGATTTGTTTG
* * **
16321883 AAATTTATTAA
1 AGATTTGTTTG
*
16321894 AAATTTGTTTG
1 AGATTTGTTTG
16321905 AGATTTGTTTG
1 AGATTTGTTTG
16321916 AGATTTGTT
1 AGATTTGTT
16321925 AGATATTACT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.19, T:0.53
Consensus pattern (11 bp):
AGATTTGTTTG
Found at i:16322070 original size:51 final size:53
Alignment explanation
Indices: 16321994--16322104 Score: 127
Period size: 51 Copynumber: 2.1 Consensus size: 53
16321984 TTTAAAAAGT
* *
16321994 AAGTTTGATTTACAAGAGAAGAATTTAAAAAAAAAAAAAGATTCTTAATAGAC
1 AAGTTTGACTTACAAGAGAAAAATTTAAAAAAAAAAAAAGATTCTTAATAGAC
** * * * *
16322047 AAGTTTGACTTACAA-A-AAAAATTTTTAAGAGAAAATAGATTCTTAATGGAC
1 AAGTTTGACTTACAAGAGAAAAATTTAAAAAAAAAAAAAGATTCTTAATAGAC
*
16322098 AAATTTG
1 AAGTTTG
16322105 TATAGTTATA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
51 34 0.69
52 1 0.02
53 14 0.29
ACGTcount: A:0.50, C:0.06, G:0.14, T:0.30
Consensus pattern (53 bp):
AAGTTTGACTTACAAGAGAAAAATTTAAAAAAAAAAAAAGATTCTTAATAGAC
Found at i:16322243 original size:21 final size:21
Alignment explanation
Indices: 16322217--16322260 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
16322207 ACTCTACGCC
*
16322217 TATGTTTGTTTGTGAGTGGAT
1 TATGTTTGTTTGTGAGTGAAT
16322238 TATGTTTGTTTGTGAGTGAAT
1 TATGTTTGTTTGTGAGTGAAT
16322259 TA
1 TA
16322261 GAGGAGACTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.30, T:0.52
Consensus pattern (21 bp):
TATGTTTGTTTGTGAGTGAAT
Found at i:16322336 original size:33 final size:33
Alignment explanation
Indices: 16322289--16322352 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
16322279 CACGTAAGTA
*
16322289 TGATATATGAGAGCATATGGGTATATGTTTAAT
1 TGATATATGAGAGCATATGGATATATGTTTAAT
*
16322322 TGATGTATGAGAGCATATGGATATATGTTTA
1 TGATATATGAGAGCATATGGATATATGTTTA
16322353 GTTATGTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.33, C:0.03, G:0.25, T:0.39
Consensus pattern (33 bp):
TGATATATGAGAGCATATGGATATATGTTTAAT
Found at i:16323613 original size:2 final size:2
Alignment explanation
Indices: 16323606--16323646 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
16323596 TTGTCACATC
16323606 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16323647 CCCATTCCTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:16325865 original size:29 final size:30
Alignment explanation
Indices: 16325796--16325866 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 30
16325786 ATTTTATCAT
* * *
16325796 TTAAAGGTTCAATTGAATTGTAGTAAAAGA
1 TTAAAAGTTTAATTGAATTGTAATAAAAGA
* *
16325826 TTAAGAGTTTAATTG-ATTGTAATAAAATA
1 TTAAAAGTTTAATTGAATTGTAATAAAAGA
*
16325855 TTAAAATTTTAA
1 TTAAAAGTTTAA
16325867 ATAATTATTG
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 22 0.65
30 12 0.35
ACGTcount: A:0.45, C:0.01, G:0.14, T:0.39
Consensus pattern (30 bp):
TTAAAAGTTTAATTGAATTGTAATAAAAGA
Found at i:16328539 original size:30 final size:31
Alignment explanation
Indices: 16328436--16328540 Score: 94
Period size: 30 Copynumber: 3.5 Consensus size: 31
16328426 ACAATTTTAT
16328436 ATTAA-AATTTTATTTAAA-TATAAATTAAAG
1 ATTAAGAA-TTTATTTAAAGTATAAATTAAAG
* * *
16328466 GTTAATAATTTATTTAAAG-ATAAATTAAAA
1 ATTAAGAATTTATTTAAAGTATAAATTAAAG
* **
16328496 ATTAAGGGA-TTATTT-GGGTATAAATTAAAG
1 ATTAA-GAATTTATTTAAAGTATAAATTAAAG
*
16328526 TTTAAGAATTTATTT
1 ATTAAGAATTTATTT
16328541 TTATTTAGAT
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
29 3 0.05
30 54 0.90
31 3 0.05
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (31 bp):
ATTAAGAATTTATTTAAAGTATAAATTAAAG
Found at i:16329252 original size:3 final size:3
Alignment explanation
Indices: 16329244--16329283 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
16329234 TTTCTCGTAG
16329244 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
16329284 TATTATTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:16329288 original size:3 final size:3
Alignment explanation
Indices: 16329282--16329322 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
16329272 AATAATAATA
16329282 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
16329323 ACGTGCTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:16335017 original size:28 final size:27
Alignment explanation
Indices: 16334993--16335051 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
16334983 ATATTTATAC
16334993 TTAT-TTGTTGAAAGTGATGGATTTAA
1 TTATATTGTTGAAAGTGATGGATTTAA
* * *
16335019 TTGTATTGTTGAAATTGATGGATTTTA
1 TTATATTGTTGAAAGTGATGGATTTAA
16335046 -TATATT
1 TTATATT
16335052 AAGAATTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (27 bp):
TTATATTGTTGAAAGTGATGGATTTAA
Found at i:16336470 original size:25 final size:26
Alignment explanation
Indices: 16336424--16336475 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
16336414 TGATAATTCA
16336424 AATGCCTTCTGAAATTATAGATGGAC
1 AATGCCTTCTGAAATTATAGATGGAC
* *
16336450 AATGCCTTTTG-AATTGTAGATGGAC
1 AATGCCTTCTGAAATTATAGATGGAC
16336475 A
1 A
16336476 GAGTATTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 14 0.58
26 10 0.42
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (26 bp):
AATGCCTTCTGAAATTATAGATGGAC
Found at i:16339189 original size:90 final size:90
Alignment explanation
Indices: 16339092--16339268 Score: 309
Period size: 90 Copynumber: 2.0 Consensus size: 90
16339082 AGGTTCACTA
* *
16339092 TTTTTTTTTCCAAGAGAACGTGACTGAATACATTGAATTTCATATTCAAATCAATGATGCCTCTC
1 TTTTTTTTTCCAAGAGAACGTGACCGAATACATTGAATTTCATATTCAAATCAATGATGACTCTC
*
16339157 AACACATGGATAACGCACTCTTCAT
66 AACACATGGATAACACACTCTTCAT
* *
16339182 TTTTTTTTTCCAGGAGAACGTGACCGAGTACATTGAATTTCATATTCAAATCAATGATGACTCTC
1 TTTTTTTTTCCAAGAGAACGTGACCGAATACATTGAATTTCATATTCAAATCAATGATGACTCTC
16339247 AACACATGGATAACACACTCTT
66 AACACATGGATAACACACTCTT
16339269 TATGGCAGAA
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 82 1.00
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (90 bp):
TTTTTTTTTCCAAGAGAACGTGACCGAATACATTGAATTTCATATTCAAATCAATGATGACTCTC
AACACATGGATAACACACTCTTCAT
Found at i:16340244 original size:2 final size:2
Alignment explanation
Indices: 16340237--16340262 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16340227 TGTTGTAATC
16340237 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
16340263 TTGCAAAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16342055 original size:10 final size:10
Alignment explanation
Indices: 16342040--16342069 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
16342030 TTCGAATTTT
16342040 TATATTTTAA
1 TATATTTTAA
16342050 TATATTTTAA
1 TATATTTTAA
16342060 T-TATTTTAA
1 TATATTTTAA
16342069 T
1 T
16342070 TAATAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:16342066 original size:9 final size:9
Alignment explanation
Indices: 16342042--16342071 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
16342032 CGAATTTTTA
16342042 TATTTTAAT
1 TATTTTAAT
16342051 ATATTTTAAT
1 -TATTTTAAT
16342061 TATTTTAAT
1 TATTTTAAT
16342070 TA
1 TA
16342072 ATAAAAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTTAAT
Found at i:16344777 original size:40 final size:40
Alignment explanation
Indices: 16344733--16344844 Score: 106
Period size: 40 Copynumber: 2.7 Consensus size: 40
16344723 TTTGATTATT
* *
16344733 TAATTATATT-TTAATTTATTAATTAATTATTTAA-TAATTA
1 TAATTATATTATT-ATATAATAATTAATT-TTTAATTAATTA
16344773 TAATT-TAATTATTATATAATAATTAATTTTTAATTAATTA
1 TAATTAT-ATTATTATATAATAATTAATTTTTAATTAATTA
*
16344813 TATACTTATATTATT-TGATTATAATTATATTT
1 TA-A-TTATATTATTAT-ATAATAATTA-ATTT
16344845 AAAAAATAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
39 6 0.10
40 29 0.48
41 4 0.07
42 17 0.28
43 5 0.08
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (40 bp):
TAATTATATTATTATATAATAATTAATTTTTAATTAATTA
Found at i:16344792 original size:25 final size:26
Alignment explanation
Indices: 16344751--16344816 Score: 91
Period size: 25 Copynumber: 2.6 Consensus size: 26
16344741 TTTTAATTTA
*
16344751 TTAATTAATTATTTAATAATT-ATAAT
1 TTAATTAATTATATAATAATTAAT-AT
*
16344777 TTAATT-ATTATATAATAATTAATTT
1 TTAATTAATTATATAATAATTAATAT
16344802 TTAATTAATTATATA
1 TTAATTAATTATATA
16344817 CTTATATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
25 20 0.56
26 16 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
TTAATTAATTATATAATAATTAATAT
Found at i:16346346 original size:21 final size:19
Alignment explanation
Indices: 16346322--16346364 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
16346312 ACTAATAAAA
16346322 ATTAATTAATTATATAATTAT
1 ATTAATTAA-T-TATAATTAT
* *
16346343 ATTATTTGATTATAATTAT
1 ATTAATTAATTATAATTAT
16346362 ATT
1 ATT
16346365 TAAAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 12 0.60
20 1 0.05
21 7 0.35
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
ATTAATTAATTATAATTAT
Found at i:16353577 original size:6 final size:6
Alignment explanation
Indices: 16353560--16353589 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
16353550 AATAAAATAT
*
16353560 TTCGAG TCCGAG TTCGAG TTCGAG TTCGAG
1 TTCGAG TTCGAG TTCGAG TTCGAG TTCGAG
16353590 CATGAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.20, G:0.33, T:0.30
Consensus pattern (6 bp):
TTCGAG
Found at i:16354041 original size:27 final size:28
Alignment explanation
Indices: 16354009--16354074 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 28
16353999 TATTAAAAAT
* *
16354009 TATATTAATAAAAATT-TTAAATTATT-
1 TATATTAATAAAAATTAATAAATAATTA
*
16354035 TAATATTTAT-AAAATTAATAAATAATTA
1 T-ATATTAATAAAAATTAATAAATAATTA
16354063 TATATTAATAAA
1 TATATTAATAAA
16354075 TTAATAGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
26 7 0.22
27 22 0.69
28 3 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
TATATTAATAAAAATTAATAAATAATTA
Found at i:16354071 original size:18 final size:18
Alignment explanation
Indices: 16353996--16354075 Score: 69
Period size: 18 Copynumber: 4.6 Consensus size: 18
16353986 AAAACAAGAT
*
16353996 AATTATTAAA-AATTAT-
1 AATTAATAAATAATTATA
*
16354012 -ATTAATAAA-AATTTTA
1 AATTAATAAATAATTATA
* * *
16354028 AATTATTTAATATTTATAA
1 AATTAATAAATAATTAT-A
16354047 AATTAATAAATAATTATA
1 AATTAATAAATAATTATA
*
16354065 TATTAATAAAT
1 AATTAATAAAT
16354076 TAATAGTTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
15 13 0.26
17 7 0.14
18 15 0.30
19 15 0.30
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AATTAATAAATAATTATA
Found at i:16354075 original size:26 final size:26
Alignment explanation
Indices: 16353996--16354080 Score: 70
Period size: 27 Copynumber: 3.3 Consensus size: 26
16353986 AAAACAAGAT
* *
16353996 AATTATTAAA-AATTATATTAATAA-A
1 AATTAATAAATAATTATA-TATTAATA
* * *
16354021 AATT-TTAAATTATT-TAATATTTATAA
1 AATTAATAAATAATTAT-ATATTAAT-A
16354047 AATTAATAAATAATTATATATTAATA
1 AATTAATAAATAATTATATATTAATA
16354073 AATTAATA
1 AATTAATA
16354081 GTTTTGCTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
24 10 0.21
25 8 0.17
26 14 0.29
27 15 0.31
28 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
AATTAATAAATAATTATATATTAATA
Found at i:16354806 original size:105 final size:106
Alignment explanation
Indices: 16354689--16354885 Score: 290
Period size: 107 Copynumber: 1.9 Consensus size: 106
16354679 CCATCACTAA
* *
16354689 AAAAGAATTGTAATATGAAAATAA-AAAAAA-ATTATAGTTACTGAAATTTGAATTCTAAATATA
1 AAAAGAATTGTAATATGAAAATAAGAAAAAAGATTATAGTTACTGAAATTTGAATTCTAAAAACA
*
16354752 CTATATTACCTAACTTCTAAAAAAATTTGGACCCATAGCTG
66 CTATATCACCTAACTTCTAAAAAAATTTGGACCCATAGCTG
* * *
16354793 AAAAGTAATTGTAATATGAAAATAAGAAAAAAGATTGTAGTTACTGAAATTTGAGTTTTAAAAAC
1 AAAAG-AATTGTAATATGAAAATAAGAAAAAAGATTATAGTTACTGAAATTTGAATTCTAAAAAC
* * *
16354858 ACTATATCACCTAATTTTTAAAATAATT
65 ACTATATCACCTAACTTCTAAAAAAATT
16354886 GTATGAATAA
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
104 5 0.06
105 19 0.23
106 6 0.07
107 51 0.63
ACGTcount: A:0.48, C:0.09, G:0.10, T:0.33
Consensus pattern (106 bp):
AAAAGAATTGTAATATGAAAATAAGAAAAAAGATTATAGTTACTGAAATTTGAATTCTAAAAACA
CTATATCACCTAACTTCTAAAAAAATTTGGACCCATAGCTG
Found at i:16355043 original size:13 final size:14
Alignment explanation
Indices: 16355020--16355048 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
16355010 GAAAGTGGAG
16355020 ATGATGTATAAAAT
1 ATGATGTATAAAAT
16355034 ATGA-GTATAAAAT
1 ATGATGTATAAAAT
16355047 AT
1 AT
16355049 AGGAAAAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (14 bp):
ATGATGTATAAAAT
Found at i:16355261 original size:13 final size:13
Alignment explanation
Indices: 16355239--16355273 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
16355229 AATTTTTTAA
* *
16355239 ATTTTGATATATT
1 ATTTTAATATAAT
16355252 ATTTTAATATAAT
1 ATTTTAATATAAT
16355265 ATTTTAATA
1 ATTTTAATA
16355274 ATTTTAGTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (13 bp):
ATTTTAATATAAT
Found at i:16355323 original size:11 final size:10
Alignment explanation
Indices: 16355311--16355356 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
16355301 TTATTTTTAT
16355311 TTTATAAAAA
1 TTTATAAAAA
16355321 TTTA-AAAAA
1 TTTATAAAAA
*
16355330 TATATAAAAA
1 TTTATAAAAA
*
16355340 TTTAAAAAAA
1 TTTATAAAAA
*
16355350 TATATAA
1 TTTATAA
16355357 TTTGATACAG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
9 8 0.27
10 22 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
TTTATAAAAA
Found at i:16355337 original size:19 final size:20
Alignment explanation
Indices: 16355313--16355356 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
16355303 ATTTTTATTT
16355313 TATAAAAATTT-AAAAAATA
1 TATAAAAATTTAAAAAAATA
16355332 TATAAAAATTTAAAAAAATA
1 TATAAAAATTTAAAAAAATA
16355352 TATAA
1 TATAA
16355357 TTTGATACAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
TATAAAAATTTAAAAAAATA
Found at i:16371010 original size:33 final size:33
Alignment explanation
Indices: 16370945--16371011 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
16370935 AGGTGTTAAC
* *
16370945 AATGGTATTGGGCCTGGCCGGCCTGTTAGTGTT
1 AATGGTATTGGGCCTGGCCGGCCAGTGAGTGTT
* *
16370978 AATGGTATTGGGCCTGGCCGTCCAGTGGGTGTT
1 AATGGTATTGGGCCTGGCCGGCCAGTGAGTGTT
16371011 A
1 A
16371012 GCAATGGAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.13, C:0.18, G:0.37, T:0.31
Consensus pattern (33 bp):
AATGGTATTGGGCCTGGCCGGCCAGTGAGTGTT
Found at i:16377170 original size:2 final size:2
Alignment explanation
Indices: 16377165--16377200 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
16377155 ACACACACAC
16377165 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16377201 GCCCTTACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16377247 original size:2 final size:2
Alignment explanation
Indices: 16377240--16377286 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
16377230 CTTCCTTCAT
16377240 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16377282 TA TA T
1 TA TA T
16377287 TGAGTTGGTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:16383173 original size:9 final size:9
Alignment explanation
Indices: 16383159--16383203 Score: 72
Period size: 9 Copynumber: 5.0 Consensus size: 9
16383149 TTATTGTTAT
16383159 GTTTTAATA
1 GTTTTAATA
16383168 GTTTTAATA
1 GTTTTAATA
*
16383177 GTTTCAATA
1 GTTTTAATA
16383186 GTTTTAATA
1 GTTTTAATA
*
16383195 GTTTCAATA
1 GTTTTAATA
16383204 CATGATATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.51
Consensus pattern (9 bp):
GTTTTAATA
Found at i:16383185 original size:18 final size:18
Alignment explanation
Indices: 16383159--16383203 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
16383149 TTATTGTTAT
*
16383159 GTTTTAATAGTTTTAATA
1 GTTTCAATAGTTTTAATA
16383177 GTTTCAATAGTTTTAATA
1 GTTTCAATAGTTTTAATA
16383195 GTTTCAATA
1 GTTTCAATA
16383204 CATGATATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.51
Consensus pattern (18 bp):
GTTTCAATAGTTTTAATA
Found at i:16387104 original size:19 final size:19
Alignment explanation
Indices: 16387067--16387104 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
16387057 TTAACACAAT
16387067 AATCTTTAAAATGAAATAAA
1 AATCTTTAAAA-GAAATAAA
16387087 AATCTTTATAAA-AAATAA
1 AATCTTTA-AAAGAAATAA
16387105 TTGTTAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 8 0.47
21 3 0.18
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (19 bp):
AATCTTTAAAAGAAATAAA
Found at i:16387757 original size:29 final size:29
Alignment explanation
Indices: 16387725--16387848 Score: 69
Period size: 29 Copynumber: 4.3 Consensus size: 29
16387715 TTAAGGTATG
*
16387725 AAAGGTTTAGGGTTTTGGTTTTAGAGTTT
1 AAAGGTTTAGGGTTTTGGTTTAAGAGTTT
* * *
16387754 AAAGATTTTA-GGTTTTCAGTTTTAA-AATTT
1 AAAG-GTTTAGGGTTTT--GGTTTAAGAGTTT
* * * *
16387784 -GAGGTTTGGGGTTTTGATTTAAGGGTTT
1 AAAGGTTTAGGGTTTTGGTTTAAGAGTTT
** *
16387812 GCA-TTTTAAGGG-TTTGGATTTAAGAGTTT
1 AAAGGTTT-AGGGTTTTGG-TTTAAGAGTTT
16387841 AAAGGTTT
1 AAAGGTTT
16387849 GGGATTTCGA
Statistics
Matches: 68, Mismatches: 18, Indels: 17
0.66 0.17 0.17
Matches are distributed among these distances:
27 6 0.09
28 13 0.19
29 33 0.49
30 11 0.16
31 5 0.07
ACGTcount: A:0.24, C:0.02, G:0.27, T:0.47
Consensus pattern (29 bp):
AAAGGTTTAGGGTTTTGGTTTAAGAGTTT
Found at i:16387768 original size:23 final size:22
Alignment explanation
Indices: 16387737--16387790 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
16387727 AGGTTTAGGG
16387737 TTTT-GGTTTT-AGAGTTTAAAGA
1 TTTTAGGTTTTCAG-GTTTAAA-A
*
16387759 TTTTAGGTTTTCAGTTTTAAAA
1 TTTTAGGTTTTCAGGTTTAAAA
*
16387781 TTTGAGGTTT
1 TTTTAGGTTT
16387791 GGGGTTTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 14 0.50
23 12 0.43
24 2 0.07
ACGTcount: A:0.24, C:0.02, G:0.20, T:0.54
Consensus pattern (22 bp):
TTTTAGGTTTTCAGGTTTAAAA
Found at i:16387811 original size:14 final size:14
Alignment explanation
Indices: 16387792--16387840 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
16387782 TTGAGGTTTG
16387792 GGGTTTTGATTTAA
1 GGGTTTTGATTTAA
16387806 GGG-TTTGCATTTTAA
1 GGGTTTTG-A-TTTAA
*
16387821 GGGTTTGGATTTAA
1 GGGTTTTGATTTAA
*
16387835 GAGTTT
1 GGGTTT
16387841 AAAGGTTTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
13 4 0.13
14 14 0.47
15 9 0.30
16 3 0.10
ACGTcount: A:0.20, C:0.02, G:0.31, T:0.47
Consensus pattern (14 bp):
GGGTTTTGATTTAA
Found at i:16387819 original size:15 final size:15
Alignment explanation
Indices: 16387801--16387832 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16387791 GGGGTTTTGA
16387801 TTTAAGGGTTTGCAT
1 TTTAAGGGTTTGCAT
*
16387816 TTTAAGGGTTTGGAT
1 TTTAAGGGTTTGCAT
16387831 TT
1 TT
16387833 AAGAGTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.28, T:0.50
Consensus pattern (15 bp):
TTTAAGGGTTTGCAT
Found at i:16387879 original size:17 final size:16
Alignment explanation
Indices: 16387859--16387921 Score: 90
Period size: 16 Copynumber: 3.8 Consensus size: 16
16387849 GGGATTTCGA
*
16387859 ATTTTATGGGGTTTTAG
1 ATTTTA-GGGGTTTTGG
16387876 ATTTTAGGGGTTTTGG
1 ATTTTAGGGGTTTTGG
*
16387892 ATTTTAGAGGATTTTGG
1 ATTTTAG-GGGTTTTGG
16387909 ATTTTAGGGGTTT
1 ATTTTAGGGGTTT
16387922 GAATTTAAGG
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
16 21 0.50
17 21 0.50
ACGTcount: A:0.17, C:0.00, G:0.32, T:0.51
Consensus pattern (16 bp):
ATTTTAGGGGTTTTGG
Found at i:16387887 original size:16 final size:16
Alignment explanation
Indices: 16387859--16387940 Score: 85
Period size: 16 Copynumber: 5.1 Consensus size: 16
16387849 GGGATTTCGA
16387859 ATTTTATGGGGTTTTAG
1 ATTTTA-GGGGTTTTAG
*
16387876 ATTTTAGGGGTTTTGG
1 ATTTTAGGGGTTTTAG
* *
16387892 ATTTTAGAGGATTTTGG
1 ATTTTAG-GGGTTTTAG
*
16387909 ATTTTAGGGGTTTGA-
1 ATTTTAGGGGTTTTAG
* *
16387924 ATTTAAGGAGTTTTAG
1 ATTTTAGGGGTTTTAG
16387940 A
1 A
16387941 AATTAAGATT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
15 12 0.22
16 22 0.40
17 21 0.38
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (16 bp):
ATTTTAGGGGTTTTAG
Found at i:16391170 original size:29 final size:29
Alignment explanation
Indices: 16391138--16391292 Score: 86
Period size: 29 Copynumber: 5.3 Consensus size: 29
16391128 GGTTTAAGGT
16391138 TTTAATTTTAGGGTTTAAAGGATTTAGGG
1 TTTAATTTTAGGGTTTAAAGGATTTAGGG
* * * * ***
16391167 TTTAGTTTTAGGATTTGAAGGGTTTAATA
1 TTTAATTTTAGGGTTTAAAGGATTTAGGG
* *
16391196 TTTAGGTTTTAGGGTTT-GA-GATTT-GGG
1 TTTA-ATTTTAGGGTTTAAAGGATTTAGGG
* * *
16391223 ATTTTGATTTTAGGGTTTAGAGG-TTTGGGG
1 --TTTAATTTTAGGGTTTAAAGGATTTAGGG
* * *
16391253 TTTCAATTTTAGAGTTTGAA-GATTTTAAGG
1 TTT-AATTTTAGGGTTTAAAGGA-TTTAGGG
*
16391283 TTTAGTTTTA
1 TTTAATTTTA
16391293 AAGTTTGAGG
Statistics
Matches: 95, Mismatches: 22, Indels: 18
0.70 0.16 0.13
Matches are distributed among these distances:
28 19 0.20
29 53 0.56
30 23 0.24
ACGTcount: A:0.23, C:0.01, G:0.28, T:0.48
Consensus pattern (29 bp):
TTTAATTTTAGGGTTTAAAGGATTTAGGG
Found at i:16391176 original size:22 final size:21
Alignment explanation
Indices: 16391156--16391226 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 21
16391146 TAGGGTTTAA
16391156 AGGATTT-AGGGTTTAGTTTT
1 AGGATTTAAGGGTTTAGTTTT
*
16391176 AGGATTTGAAGGGTTTAATATTT
1 AGGATTT-AAGGGTTTAGT-TTT
* *
16391199 AGG-TTTTAGGGTTTGAGATTT
1 AGGATTTAAGGGTTT-AGTTTT
*
16391220 GGGATTT
1 AGGATTT
16391227 TGATTTTAGG
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
20 7 0.17
21 12 0.29
22 16 0.39
23 6 0.15
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (21 bp):
AGGATTTAAGGGTTTAGTTTT
Found at i:16391320 original size:86 final size:87
Alignment explanation
Indices: 16391142--16391356 Score: 256
Period size: 86 Copynumber: 2.5 Consensus size: 87
16391132 TAAGGTTTTA
* * * * *
16391142 ATTTTAGGGTTTAAAGGATTTAGGGTTT-AGTTTTAG-GATTTGAAGGGTTTAATATTTAGGTTT
1 ATTTTAGGGTTTAGAGG-TTTGGGGTTTCAATTTTAGAG-TTTGAAGAGTTTAAGATTTAGGTTT
** * *
16391205 TAGGGTTTGAGATTTGGGATTTTG
64 TAAAGTTTGAGATTTGGGATATCG
* *
16391229 ATTTTAGGGTTTAGAGGTTTGGGGTTTCAATTTTAGAGTTTGAAGATTTTAAGGTTTA-GTTTTA
1 ATTTTAGGGTTTAGAGGTTTGGGGTTTCAATTTTAGAGTTTGAAGAGTTTAAGATTTAGGTTTTA
* *
16391293 AAGTTTGAGGTTTGGGGTATCG
66 AAGTTTGAGATTTGGGATATCG
* *
16391315 ATTTTAGGGTTTGGAGGTTTGGGGTTTCGATTTTAGAGTTTG
1 ATTTTAGGGTTTAGAGGTTTGGGGTTTCAATTTTAGAGTTTG
16391357 GAAGTATGGG
Statistics
Matches: 111, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
86 71 0.64
87 39 0.35
88 1 0.01
ACGTcount: A:0.21, C:0.01, G:0.31, T:0.47
Consensus pattern (87 bp):
ATTTTAGGGTTTAGAGGTTTGGGGTTTCAATTTTAGAGTTTGAAGAGTTTAAGATTTAGGTTTTA
AAGTTTGAGATTTGGGATATCG
Found at i:16391344 original size:29 final size:29
Alignment explanation
Indices: 16391202--16391473 Score: 219
Period size: 29 Copynumber: 9.4 Consensus size: 29
16391192 AATATTTAGG
* *
16391202 TTTTAGGGTTT-GAGATTTGGGATTTTGA
1 TTTTAGGGTTTGGAGGTTTGGGGTTTTGA
* **
16391230 TTTTAGGGTTTAGAGGTTTGGGGTTTCAA
1 TTTTAGGGTTTGGAGGTTTGGGGTTTTGA
* * * ** *
16391259 TTTTAGAGTTTGAAGATTTTAAGGTTTAG-
1 TTTTAGGGTTTGGAG-GTTTGGGGTTTTGA
** * *
16391288 TTTTAAAGTTT-GAGGTTTGGGGTATCGA
1 TTTTAGGGTTTGGAGGTTTGGGGTTTTGA
*
16391316 TTTTAGGGTTTGGAGGTTTGGGGTTTCGA
1 TTTTAGGGTTTGGAGGTTTGGGGTTTTGA
* * *
16391345 TTTTAGAGTTTGGAAGTATGGGGTTTTGA
1 TTTTAGGGTTTGGAGGTTTGGGGTTTTGA
*** *
16391374 TTTTAGGGTTTGGAGGTTTTAAAGTTTTTA
1 TTTTAGGGTTTGGAGG-TTTGGGGTTTTGA
* *
16391404 TTTTAGGGTTT-GAGGTATGGGATTTTGA
1 TTTTAGGGTTTGGAGGTTTGGGGTTTTGA
* * * *
16391432 TTTTAGGATTTGAAGTTTTTTAGGGTTTTGA
1 TTTTAGGGTTTGGAG--GTTTGGGGTTTTGA
16391463 TTTTAGGGTTT
1 TTTTAGGGTTT
16391474 AAAGGGTTTA
Statistics
Matches: 190, Mismatches: 46, Indels: 13
0.76 0.18 0.05
Matches are distributed among these distances:
27 8 0.04
28 39 0.21
29 96 0.51
30 27 0.14
31 20 0.11
ACGTcount: A:0.19, C:0.01, G:0.32, T:0.49
Consensus pattern (29 bp):
TTTTAGGGTTTGGAGGTTTGGGGTTTTGA
Found at i:16391385 original size:86 final size:85
Alignment explanation
Indices: 16391142--16391392 Score: 238
Period size: 86 Copynumber: 2.9 Consensus size: 85
16391132 TAAGGTTTTA
* * * * * **
16391142 ATTTTAGGGTTTAAAGGATTTAGGGTTT-AGTTTTAG-GATTTGAAGGGTTTAATATTTAGGTTT
1 ATTTTAGGGTTTAGAGG-TTTGGGGTTTCAATTTTAGAG-TTTGAA-GATATAAGGTTTA-GTTT
* * *
16391205 TAGGGTTTGAGATTTGGGATTTTG
62 TAGGGTTTGAGGTTTGGGATATCG
* *
16391229 ATTTTAGGGTTTAGAGGTTTGGGGTTTCAATTTTAGAGTTTGAAGATTTTAAGGTTTAGTTTTAA
1 ATTTTAGGGTTTAGAGGTTTGGGGTTTCAATTTTAGAGTTTGAAGA-TATAAGGTTTAGTTTTAG
* *
16391294 AGTTTGAGGTTTGGGGTATCG
65 GGTTTGAGGTTTGGGATATCG
* * ** *
16391315 ATTTTAGGGTTTGGAGGTTTGGGGTTTCGATTTTAGAGTTTGGAAG-TATGGGGTTTTGATTTTA
1 ATTTTAGGGTTTAGAGGTTTGGGGTTTCAATTTTAGAGTTT-GAAGATATAAGGTTTAG-TTTTA
16391379 GGGTTTGGAGGTTT
64 GGGTTT-GAGGTTT
16391393 TAAAGTTTTT
Statistics
Matches: 138, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
85 8 0.06
86 80 0.58
87 49 0.36
88 1 0.01
ACGTcount: A:0.20, C:0.01, G:0.32, T:0.46
Consensus pattern (85 bp):
ATTTTAGGGTTTAGAGGTTTGGGGTTTCAATTTTAGAGTTTGAAGATATAAGGTTTAGTTTTAGG
GTTTGAGGTTTGGGATATCG
Found at i:16391676 original size:22 final size:22
Alignment explanation
Indices: 16391620--16391690 Score: 74
Period size: 22 Copynumber: 3.1 Consensus size: 22
16391610 TTTTATGAAA
* *
16391620 AATTCTTATTACTATTATTATTT
1 AATT-TTATTATTATTACTATTT
16391643 -ATTAGTTATTATTATTAACT-TTT
1 AATT--TTATTATTATT-ACTATTT
16391666 AATTTTATTATTATTACTATTT
1 AATTTTATTATTATTACTATTT
16391688 AAT
1 AAT
16391691 AATTTTCCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
21 3 0.07
22 20 0.49
23 13 0.32
24 5 0.12
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (22 bp):
AATTTTATTATTATTACTATTT
Found at i:16393167 original size:17 final size:17
Alignment explanation
Indices: 16393142--16393184 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
16393132 CATCAGCCCC
*
16393142 TTGTTTTTTGCTTTT-TT
1 TTGTATTTTG-TTTTGTT
16393159 TTGTATTTTGTTTTGTT
1 TTGTATTTTGTTTTGTT
16393176 TTGTATTTT
1 TTGTATTTT
16393185 TTTAATGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.05, C:0.02, G:0.14, T:0.79
Consensus pattern (17 bp):
TTGTATTTTGTTTTGTT
Found at i:16395100 original size:2 final size:2
Alignment explanation
Indices: 16395093--16395134 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
16395083 ATTACAATCC
16395093 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16395135 GGCAGAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16396802 original size:25 final size:26
Alignment explanation
Indices: 16396753--16396803 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
16396743 TTTTTTAAAA
16396753 AATATATTAAAAATGTTTAAAATATT
1 AATATATTAAAAATGTTTAAAATATT
*
16396779 AATAT-TTAAATAT-TTTAAATATATT
1 AATATATTAAAAATGTTTAAA-ATATT
16396804 TTGAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 6 0.26
25 12 0.52
26 5 0.22
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (26 bp):
AATATATTAAAAATGTTTAAAATATT
Found at i:16397009 original size:3 final size:3
Alignment explanation
Indices: 16397001--16397041 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
16396991 AGTTCTTGTT
16397001 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
16397042 TTTAATTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:16398114 original size:3 final size:3
Alignment explanation
Indices: 16398100--16398157 Score: 55
Period size: 3 Copynumber: 19.3 Consensus size: 3
16398090 TTATTGTTTT
* * *
16398100 ATA ATA AGTA ATA ATA ACA AAA ATA A-A ATA ATA ATA ATA ATA GTA
1 ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
16398145 ATA TTG ATA ATA A
1 ATA ATA ATA ATA A
16398158 CAACAATAAC
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
2 2 0.05
3 39 0.89
4 3 0.07
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:16398357 original size:3 final size:3
Alignment explanation
Indices: 16398351--16398403 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
16398341 TATCAAGTAG
16398351 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
16398399 TAA TA
1 TAA TA
16398404 GATTGTTATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:16398612 original size:21 final size:21
Alignment explanation
Indices: 16398587--16398626 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16398577 AACTTTAAAA
*
16398587 TCTAAAATTTAAAATCAAATT
1 TCTAAAACTTAAAATCAAATT
*
16398608 TCTAAACCTTAAAATCAAA
1 TCTAAAACTTAAAATCAAA
16398627 ACCCTAAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.33
Consensus pattern (21 bp):
TCTAAAACTTAAAATCAAATT
Found at i:16398646 original size:16 final size:16
Alignment explanation
Indices: 16398625--16398726 Score: 94
Period size: 16 Copynumber: 6.7 Consensus size: 16
16398615 CTTAAAATCA
16398625 AAACCCTAAAACCTTC
1 AAACCCTAAAACCTTC
16398641 AAACCCTAAAA-C-T-
1 AAACCCTAAAACCTTC
*
16398654 AAACTCT-AAACCTTCC
1 AAACCCTAAAACCTT-C
* *
16398670 AAACCCT-AAA-TTTG
1 AAACCCTAAAACCTTC
16398684 AAACCCT-AAACCTTCC
1 AAACCCTAAAACCTT-C
16398700 AAACCCTAAAACC-TC
1 AAACCCTAAAACCTTC
16398715 TAAACCCTAAAA
1 -AAACCCTAAAA
16398727 TTGAAACCAT
Statistics
Matches: 72, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
12 3 0.04
13 7 0.10
14 12 0.17
15 6 0.08
16 39 0.54
17 5 0.07
ACGTcount: A:0.45, C:0.34, G:0.01, T:0.20
Consensus pattern (16 bp):
AAACCCTAAAACCTTC
Found at i:16398651 original size:30 final size:30
Alignment explanation
Indices: 16398611--16398725 Score: 137
Period size: 30 Copynumber: 3.8 Consensus size: 30
16398601 TCAAATTTCT
* *
16398611 AAACCTTAAAATCAAAACCCTAAAACCTT-C
1 AAACCCTAAAATCTAAACCCT-AAACCTTCC
*
16398641 AAACCCTAAAA-CTAAACTCTAAACCTTCC
1 AAACCCTAAAATCTAAACCCTAAACCTTCC
*
16398670 AAACCCT-AAATTTGAAACCCTAAACCTTCC
1 AAACCCTAAAATCT-AAACCCTAAACCTTCC
16398700 AAACCCTAAAACCTCTAAACCCTAAA
1 AAACCCTAAAA--TCTAAACCCTAAA
16398726 ATTGAAACCA
Statistics
Matches: 73, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
28 10 0.14
29 16 0.22
30 32 0.44
31 3 0.04
32 10 0.14
33 2 0.03
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.20
Consensus pattern (30 bp):
AAACCCTAAAATCTAAACCCTAAACCTTCC
Found at i:16407735 original size:2 final size:2
Alignment explanation
Indices: 16407701--16407725 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16407691 AACTCGAATT
16407701 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
16407726 GAATTATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16413311 original size:21 final size:21
Alignment explanation
Indices: 16413287--16413329 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
16413277 ACATCAAGTT
*
16413287 ATCCTACATCACCAATGCGAC
1 ATCCTACATCACCAATACGAC
16413308 ATCCTACATCACCAATACGAC
1 ATCCTACATCACCAATACGAC
16413329 A
1 A
16413330 ACCTTTCAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.37, G:0.07, T:0.19
Consensus pattern (21 bp):
ATCCTACATCACCAATACGAC
Found at i:16424223 original size:16 final size:16
Alignment explanation
Indices: 16424202--16424253 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 16
16424192 CTTAATTTAT
16424202 AATTTTTATTTAAATA
1 AATTTTTATTTAAATA
* *
16424218 AATTTTTAATATAAATT
1 AATTTTT-ATTTAAATA
16424235 AATTTTTATTTAAAATA
1 AATTTTTATTT-AAATA
16424252 AA
1 AA
16424254 AACTTATTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 10 0.33
17 20 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTTTTATTTAAATA
Found at i:16424301 original size:28 final size:28
Alignment explanation
Indices: 16424246--16424312 Score: 91
Period size: 29 Copynumber: 2.4 Consensus size: 28
16424236 ATTTTTATTT
* **
16424246 AAAATAAAAACTTATTTCGATATAAATAA
1 AAAATAAAAAATTATTTAAATATAAAT-A
16424275 AAAATAAAAAATTATTTAAATAT-AATA
1 AAAATAAAAAATTATTTAAATATAAATA
16424302 AAAATAAAAAA
1 AAAATAAAAAA
16424313 AGATTTATCT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
27 12 0.34
28 3 0.09
29 20 0.57
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.28
Consensus pattern (28 bp):
AAAATAAAAAATTATTTAAATATAAATA
Found at i:16424313 original size:28 final size:29
Alignment explanation
Indices: 16424246--16424313 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
16424236 ATTTTTATTT
* **
16424246 AAAAT-AAAAACTTATTTCGATATAAATA
1 AAAATAAAAAAATTATTTAAATATAAATA
16424274 AAAA-ATAAAAAATTATTTAAATAT-AATA
1 AAAATA-AAAAAATTATTTAAATATAAATA
16424302 AAAATAAAAAAA
1 AAAATAAAAAAA
16424314 GATTTATCTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
28 18 0.53
29 16 0.47
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (29 bp):
AAAATAAAAAAATTATTTAAATATAAATA
Found at i:16424318 original size:27 final size:29
Alignment explanation
Indices: 16424265--16424319 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 29
16424255 ACTTATTTCG
**
16424265 ATATAAATAAAAAATAAAAAATTATTTAA
1 ATATAAATAAAAAATAAAAAAAGATTTAA
16424294 ATAT-AAT-AAAAATAAAAAAAGATTTA
1 ATATAAATAAAAAATAAAAAAAGATTTA
16424320 TCTAATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 17 0.71
28 3 0.12
29 4 0.17
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (29 bp):
ATATAAATAAAAAATAAAAAAAGATTTAA
Found at i:16425122 original size:3 final size:3
Alignment explanation
Indices: 16425114--16425158 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
16425104 ATTCCTTTCT
16425114 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
16425159 CGTCTTCTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:16427279 original size:17 final size:17
Alignment explanation
Indices: 16427247--16427278 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16427237 AAGGACTAGT
16427247 TTTTCTTTTCCTTTTTC
1 TTTTCTTTTCCTTTTTC
16427264 TTTTCTTTT-CTTTTT
1 TTTTCTTTTCCTTTTT
16427279 TTCTTAGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTCTTTTCCTTTTTC
Found at i:16430186 original size:23 final size:22
Alignment explanation
Indices: 16430157--16430204 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
16430147 CTTTCCTTTC
16430157 AAAAAATCTATAAAAATAAAATA
1 AAAAAATCTATAAAAA-AAAATA
* * *
16430180 AAAAAATTTTTAGAAAAAAATA
1 AAAAAATCTATAAAAAAAAATA
16430202 AAA
1 AAA
16430205 TATGTACATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (22 bp):
AAAAAATCTATAAAAAAAAATA
Found at i:16430963 original size:16 final size:16
Alignment explanation
Indices: 16430929--16430966 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
16430919 TTTCTTTTTC
16430929 AAAAAAATAAAAGCAAT
1 AAAAAAATAAAAG-AAT
16430946 AAAAAAATCAAAAG-AT
1 AAAAAAAT-AAAAGAAT
16430962 AAAAA
1 AAAAA
16430967 GCAAATCGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.35
17 8 0.40
18 5 0.25
ACGTcount: A:0.79, C:0.05, G:0.05, T:0.11
Consensus pattern (16 bp):
AAAAAAATAAAAGAAT
Found at i:16435515 original size:14 final size:14
Alignment explanation
Indices: 16435496--16435527 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
16435486 TAATGATTAA
16435496 CTAAGGTTGGTATG
1 CTAAGGTTGGTATG
16435510 CTAAGGTTGGTATG
1 CTAAGGTTGGTATG
16435524 CTAA
1 CTAA
16435528 AACTAATAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.25, C:0.09, G:0.31, T:0.34
Consensus pattern (14 bp):
CTAAGGTTGGTATG
Found at i:16442476 original size:15 final size:16
Alignment explanation
Indices: 16442443--16442476 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
16442433 TGTTCATTTA
*
16442443 TTTGGTTTGTTTTAAT
1 TTTGCTTTGTTTTAAT
16442459 TTTGCTTTG-TTTAAT
1 TTTGCTTTGTTTTAAT
16442474 TTT
1 TTT
16442477 ATTAAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.12, C:0.03, G:0.15, T:0.71
Consensus pattern (16 bp):
TTTGCTTTGTTTTAAT
Found at i:16442532 original size:9 final size:9
Alignment explanation
Indices: 16442477--16442522 Score: 65
Period size: 9 Copynumber: 4.8 Consensus size: 9
16442467 GTTTAATTTT
16442477 ATTAAAATTA
1 ATTAAAA-TA
16442487 ATTAAAATA
1 ATTAAAATA
16442496 ATATAATAATA
1 AT-TAA-AATA
16442507 ATTAAAATA
1 ATTAAAATA
16442516 ATTAAAA
1 ATTAAAA
16442523 ATTAAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
9 15 0.44
10 13 0.38
11 6 0.18
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
ATTAAAATA
Found at i:16442986 original size:17 final size:17
Alignment explanation
Indices: 16442964--16442999 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
16442954 CAATGCCAAC
16442964 GTAAAAAAAAAAAAAAA
1 GTAAAAAAAAAAAAAAA
16442981 GTAAAAAAAAAAAAAAA
1 GTAAAAAAAAAAAAAAA
16442998 GT
1 GT
16443000 TTGACTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.83, C:0.00, G:0.08, T:0.08
Consensus pattern (17 bp):
GTAAAAAAAAAAAAAAA
Found at i:16445300 original size:2 final size:2
Alignment explanation
Indices: 16445295--16445319 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16445285 TTATTAGACT
16445295 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
16445320 GCCCACATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16449218 original size:22 final size:21
Alignment explanation
Indices: 16449182--16449222 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
16449172 AAATGATTTT
16449182 ATTTATAAGCAAAAAGTGATAA
1 ATTTATAAGCAAAAA-TGATAA
16449204 ATTTATAAG-ATAAAATGAT
1 ATTTATAAGCA-AAAATGAT
16449223 TATGTAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.54, C:0.02, G:0.12, T:0.32
Consensus pattern (21 bp):
ATTTATAAGCAAAAATGATAA
Found at i:16450094 original size:14 final size:14
Alignment explanation
Indices: 16450075--16450109 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
16450065 AGTATATCAT
*
16450075 TTATAATTATTATA
1 TTATAATTAATATA
16450089 TTATAATTAATATA
1 TTATAATTAATATA
16450103 TTA-AATT
1 TTATAATT
16450110 TTAGAGTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTATAATTAATATA
Found at i:16453965 original size:1 final size:1
Alignment explanation
Indices: 16453959--16453986 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
16453949 CGAATCAAGG
16453959 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
16453987 AAATGAGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:16454962 original size:14 final size:15
Alignment explanation
Indices: 16454936--16454965 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
16454926 GAAAATAAAA
16454936 AAAATTATAAATATT
1 AAAATTATAAATATT
16454951 AAAATT-TAAATATT
1 AAAATTATAAATATT
16454965 A
1 A
16454966 TATTTGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AAAATTATAAATATT
Found at i:16459401 original size:22 final size:24
Alignment explanation
Indices: 16459363--16459407 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
16459353 TACAATTATT
*
16459363 TTTAAAAGTTAATATTT-AATAAA
1 TTTAAAAGTTAAGATTTGAATAAA
16459386 TTTAAAA-TTAAGATTTGAATAA
1 TTTAAAAGTTAAGATTTGAATAA
16459408 CTGTAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (24 bp):
TTTAAAAGTTAAGATTTGAATAAA
Found at i:16461189 original size:15 final size:15
Alignment explanation
Indices: 16461165--16461194 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16461155 CGAATCAAAC
*
16461165 CGATTTTGATCGGTT
1 CGATTATGATCGGTT
16461180 CGATTATGATCGGTT
1 CGATTATGATCGGTT
16461195 GGTTCGATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.13, G:0.27, T:0.43
Consensus pattern (15 bp):
CGATTATGATCGGTT
Found at i:16461446 original size:2 final size:2
Alignment explanation
Indices: 16461434--16461466 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
16461424 AGTGATTGTG
*
16461434 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16461467 GAAACCTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:16468736 original size:62 final size:62
Alignment explanation
Indices: 16468665--16468788 Score: 167
Period size: 62 Copynumber: 2.0 Consensus size: 62
16468655 GAAGTGCCCA
* * ** **
16468665 ATTAACTTAAAAAGAATCACAATTTAATTCAAAACGTAATTTAATTGATTATGTAATTATTT
1 ATTAACTTAAAAAGAATCACAACTGAATTCAAAACAAAATTTAATTGATTATACAATTATTT
* * *
16468727 ATTAACTTAAAAAGAATCATAACTGATTTCGAAACAAAATTTAATTGATTATACAATTATTT
1 ATTAACTTAAAAAGAATCACAACTGAATTCAAAACAAAATTTAATTGATTATACAATTATTT
16468789 TTTATAAGTA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
62 53 1.00
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (62 bp):
ATTAACTTAAAAAGAATCACAACTGAATTCAAAACAAAATTTAATTGATTATACAATTATTT
Found at i:16473400 original size:51 final size:51
Alignment explanation
Indices: 16473333--16473447 Score: 158
Period size: 51 Copynumber: 2.3 Consensus size: 51
16473323 ATTGTCATTG
* * *
16473333 TAGCTCTGAGCAGCATTATTCTCATTCTGACCTCCATTTTCGTTGTTGGTA
1 TAGCTCTGAGCAGCATTACTCTCATTATGACCTCCATTTTCATTGTTGGTA
* * * *
16473384 TAGCTCTGAGCAGCATTGCTCTCATTATGATCTGCATTTTCATTGTTGGTG
1 TAGCTCTGAGCAGCATTACTCTCATTATGACCTCCATTTTCATTGTTGGTA
*
16473435 TTGCTCTGAGCAG
1 TAGCTCTGAGCAG
16473448 TATTTACATT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.17, C:0.22, G:0.21, T:0.40
Consensus pattern (51 bp):
TAGCTCTGAGCAGCATTACTCTCATTATGACCTCCATTTTCATTGTTGGTA
Found at i:16479487 original size:15 final size:14
Alignment explanation
Indices: 16479467--16479496 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
16479457 GAATCAGCTC
16479467 TTTCTTTTTTCTTTT
1 TTTCTTTTTT-TTTT
16479482 TTTCTTTTTTTTTT
1 TTTCTTTTTTTTTT
16479496 T
1 T
16479497 CTGTTGTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTCTTTTTTTTTT
Found at i:16480321 original size:29 final size:29
Alignment explanation
Indices: 16480288--16480344 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
16480278 TGAAAAGGTC
16480288 TATAATTACACAATCTATAGCAAAAGCTT
1 TATAATTACACAATCTATAGCAAAAGCTT
16480317 TATAATTACACAATCTATAGCAAAAGCT
1 TATAATTACACAATCTATAGCAAAAGCT
16480345 AAAGAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.30
Consensus pattern (29 bp):
TATAATTACACAATCTATAGCAAAAGCTT
Found at i:16484413 original size:16 final size:16
Alignment explanation
Indices: 16484394--16484441 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
16484384 ATAATATTAT
16484394 TTTTTAATAAATTTAA
1 TTTTTAATAAATTTAA
16484410 TTTTT-AT-AATATT-A
1 TTTTTAATAAAT-TTAA
16484424 TTTTTAA-ATAATTTAA
1 TTTTTAATA-AATTTAA
16484440 TT
1 TT
16484442 CATATATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
14 9 0.33
15 7 0.26
16 11 0.41
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTTTAATAAATTTAA
Found at i:16484451 original size:29 final size:30
Alignment explanation
Indices: 16484333--16484451 Score: 140
Period size: 31 Copynumber: 4.1 Consensus size: 30
16484323 TTTATTTTTT
16484333 TTATTTTTAAA-AATTTAA-TCTTATAATA
1 TTATTTTTAAATAATTTAATTCTTATAATA
* *
16484361 TTA--TTTAAAGAAATTTAATCCTTATAATA
1 TTATTTTTAAA-TAATTTAATTCTTATAATA
* *
16484390 TTATTTTTTAATAAATTTAATTTTTATAATA
1 TTATTTTTAAAT-AATTTAATTCTTATAATA
*
16484421 TTATTTTTAAATAATTTAATTCATAT-ATA
1 TTATTTTTAAATAATTTAATTCTTATAATA
16484450 TT
1 TT
16484452 GTTAATAATT
Statistics
Matches: 77, Mismatches: 8, Indels: 11
0.80 0.08 0.11
Matches are distributed among these distances:
26 6 0.08
28 10 0.13
29 17 0.22
30 12 0.16
31 32 0.42
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (30 bp):
TTATTTTTAAATAATTTAATTCTTATAATA
Found at i:16484451 original size:60 final size:58
Alignment explanation
Indices: 16484336--16484451 Score: 146
Period size: 60 Copynumber: 2.0 Consensus size: 58
16484326 ATTTTTTTTA
*
16484336 TTTTTAAAAATTTAATCTTATAATATTATTTAAAGAAATTTAATCCTTATAATATTAT
1 TTTTTAAAAATTTAATCTTATAATATTATTTAAAGAAATTTAATCCATATAATATTAT
* * *
16484394 TTTTTAATAAATTTAATTTTTATAATATTATTTTTAAA-TAATTTAATTCATAT-ATATT
1 TTTTTAA-AAATTTAA-TCTTATAATATTA--TTTAAAGAAATTTAATCCATATAATATT
16484452 GTTAATAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
58 7 0.14
59 8 0.16
60 17 0.34
61 12 0.24
62 6 0.12
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (58 bp):
TTTTTAAAAATTTAATCTTATAATATTATTTAAAGAAATTTAATCCATATAATATTAT
Found at i:16489428 original size:3 final size:3
Alignment explanation
Indices: 16489420--16489460 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
16489410 TAACTTATCG
16489420 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
16489461 GTGAGTTAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:16493881 original size:83 final size:83
Alignment explanation
Indices: 16493788--16493956 Score: 302
Period size: 83 Copynumber: 2.0 Consensus size: 83
16493778 TGATGCAAAA
*
16493788 CAACAAAATATATTTATTGGAAGGAAATGACAGGACGCTGGAAATTCACTAGTGTTTGAAATATT
1 CAACAAAATATATTTATTGGAAGGAAATGACAGAACGCTGGAAATTCACTAGTGTTTGAAATATT
16493853 TGCTTTGAATTGATATGT
66 TGCTTTGAATTGATATGT
* * *
16493871 CAACAAAATATATTTATTGGAAGGAAATGACAGAACGTTTGAAATTCACTAGTGTTTGAGATATT
1 CAACAAAATATATTTATTGGAAGGAAATGACAGAACGCTGGAAATTCACTAGTGTTTGAAATATT
16493936 TGCTTTGAATTGATATGT
66 TGCTTTGAATTGATATGT
16493954 CAA
1 CAA
16493957 TGTCCTCCCC
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (83 bp):
CAACAAAATATATTTATTGGAAGGAAATGACAGAACGCTGGAAATTCACTAGTGTTTGAAATATT
TGCTTTGAATTGATATGT
Done.