Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 28 of 127
Found at i:5976613 original size:65 final size:66
Alignment explanation
Indices: 5976521--5976697 Score: 171
Period size: 65 Copynumber: 2.7 Consensus size: 66
5976511 TCAATATAGG
* * * * * * *
5976521 TCATTTA-TTTTTTAACCTTGTGATTTAGTCCTAGTAACTTATTTTCGA-CTTCATCTTAGTCTA
1 TCATTTATTTTTTTAACCTTATGATTTAGTCCCAATAACTTATTTTCAATC-TCAACTTAGGCCA
5976584 AA
65 AA
* * * *
5976586 TCATTTATTTTTTTGA-CTTATGGTTTAGTCCCAATCACTTATTTTCAATCTCAACTTAGGCCAG
1 TCATTTATTTTTTTAACCTTATGATTTAGTCCCAATAACTTATTTTCAATCTCAACTTAGGCCAA
5976650 A
66 A
* * * * * *
5976651 TCATTTATTTTTCTAACTTTACGGTTCAGTCCCAATCACTTATTTTC
1 TCATTTATTTTTTTAACCTTATGATTTAGTCCCAATAACTTATTTTC
5976698 TTTCTCGGAT
Statistics
Matches: 93, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
65 58 0.62
66 35 0.38
ACGTcount: A:0.24, C:0.20, G:0.09, T:0.47
Consensus pattern (66 bp):
TCATTTATTTTTTTAACCTTATGATTTAGTCCCAATAACTTATTTTCAATCTCAACTTAGGCCAA
A
Found at i:5976721 original size:66 final size:66
Alignment explanation
Indices: 5976585--5976763 Score: 191
Period size: 66 Copynumber: 2.7 Consensus size: 66
5976575 CTTAGTCTAA
* * *
5976585 ATCATTTATTTTTTTGAC-TTATGGTTTAGTCCCAATCACTTATTTTCAATCTCAACTTAGGCCA
1 ATCATTTATTTTTTTAACTTTACGGTTTAGTCCCAATCACTTATTTTCAATCTCAACTCAGGCCA
5976649 G
66 G
* * ** * * *
5976650 ATCATTTATTTTTCTAACTTTACGGTTCAGTCCCAATCACTTATTTTCTTTCTCGGA-TCAGTCT
1 ATCATTTATTTTTTTAACTTTACGGTTTAGTCCCAATCACTTATTTTCAATCTC-AACTCAGGCC
5976714 AG
65 AG
* * * * *
5976716 CTCATTTATTTGTTTTTACTTTACGGTTTAATCCCAATTATTTATTTT
1 ATCATTTATTT-TTTTAACTTTACGGTTTAGTCCCAATCACTTATTTT
5976764 AATGTTGTTT
Statistics
Matches: 94, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
65 16 0.17
66 47 0.50
67 31 0.33
ACGTcount: A:0.22, C:0.20, G:0.09, T:0.49
Consensus pattern (66 bp):
ATCATTTATTTTTTTAACTTTACGGTTTAGTCCCAATCACTTATTTTCAATCTCAACTCAGGCCA
G
Found at i:5976804 original size:43 final size:43
Alignment explanation
Indices: 5976749--5976876 Score: 163
Period size: 43 Copynumber: 3.0 Consensus size: 43
5976739 CGGTTTAATC
*
5976749 CCAATTAT-TTATTTTAATGTTGTTTAGCCTCTGTGTAGAGGAG
1 CCAATT-TCTTATTTTAATGTTGTTTAGCCTCTGTATAGAGGAG
* * * *
5976792 CCTATTTCTTATTTTAAAGTTGTTTAGCCTCTGAATAGATGAG
1 CCAATTTCTTATTTTAATGTTGTTTAGCCTCTGTATAGAGGAG
*
5976835 CCAATTTCTTAGTTTAAAT-TTGTTT-GCCTCTGTATAGAGGAG
1 CCAATTTCTTA-TTTTAATGTTGTTTAGCCTCTGTATAGAGGAG
5976877 TTTAGTTTGT
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
42 16 0.22
43 52 0.71
44 5 0.07
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.44
Consensus pattern (43 bp):
CCAATTTCTTATTTTAATGTTGTTTAGCCTCTGTATAGAGGAG
Found at i:5978307 original size:5 final size:6
Alignment explanation
Indices: 5978285--5978320 Score: 63
Period size: 6 Copynumber: 5.8 Consensus size: 6
5978275 TAGATGTAGG
5978285 TTTTTC TTTTTCC TTTTTC TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTT-C TTTTTC TTTTTC TTTTTC TTTTT
5978321 TTATTTTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:5978327 original size:19 final size:19
Alignment explanation
Indices: 5978285--5978320 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
5978275 TAGATGTAGG
5978285 TTTTTCTTTTTCCTTTTTC
1 TTTTTCTTTTTCCTTTTTC
5978304 TTTTTCTTTTT-CTTTTT
1 TTTTTCTTTTTCCTTTTT
5978321 TTATTTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTTCTTTTTCCTTTTTC
Found at i:5978334 original size:8 final size:8
Alignment explanation
Indices: 5978316--5978389 Score: 89
Period size: 8 Copynumber: 9.4 Consensus size: 8
5978306 TTTCTTTTTC
*
5978316 TTTTTTTA
1 TTTTTTGA
5978324 TTTTTTGA
1 TTTTTTGA
5978332 TTTTTTGA
1 TTTTTTGA
5978340 TTTTTTGA
1 TTTTTTGA
*
5978348 TATTTTGA
1 TTTTTTGA
**
5978356 AATTTTGA
1 TTTTTTGA
5978364 -TTTTTGA
1 TTTTTTGA
5978371 -TTTTTGA
1 TTTTTTGA
5978378 TTTTTTTGA
1 -TTTTTTGA
5978387 TTT
1 TTT
5978390 GTTTACCAAG
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
7 13 0.22
8 40 0.67
9 7 0.12
ACGTcount: A:0.16, C:0.00, G:0.11, T:0.73
Consensus pattern (8 bp):
TTTTTTGA
Found at i:5978508 original size:3 final size:3
Alignment explanation
Indices: 5978500--5978528 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
5978490 TTTTATGTAT
5978500 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
5978529 TACTATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:5978600 original size:23 final size:21
Alignment explanation
Indices: 5978580--5978636 Score: 75
Period size: 19 Copynumber: 2.9 Consensus size: 21
5978570 TAATTTATAA
5978580 ATTATATTATTGCATGATTAT
1 ATTATATTATTGCATGATTAT
* *
5978601 A-T-TATTACTGTATGA-TAT
1 ATTATATTATTGCATGATTAT
5978619 ATTATATTATTGCATGAT
1 ATTATATTATTGCATGAT
5978637 GATTTTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
18 4 0.14
19 12 0.41
20 12 0.41
21 1 0.03
ACGTcount: A:0.33, C:0.05, G:0.11, T:0.51
Consensus pattern (21 bp):
ATTATATTATTGCATGATTAT
Found at i:5982406 original size:27 final size:26
Alignment explanation
Indices: 5982365--5982415 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
5982355 AAAAAAAAAA
5982365 AAAAAAAAACAACCTAGGATTCATTTG
1 AAAAAAAAACAACCTAGGA-TCATTTG
*
5982392 AAAAAAAAACCACCTAGGATCATT
1 AAAAAAAAACAACCTAGGATCATT
5982416 CTCCAAGCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.53, C:0.18, G:0.10, T:0.20
Consensus pattern (26 bp):
AAAAAAAAACAACCTAGGATCATTTG
Found at i:5983017 original size:9 final size:9
Alignment explanation
Indices: 5983003--5983027 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
5982993 AAGAAACTTT
5983003 ATGACTTAG
1 ATGACTTAG
5983012 ATGACTTAG
1 ATGACTTAG
5983021 ATGACTT
1 ATGACTT
5983028 GAAATCAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (9 bp):
ATGACTTAG
Found at i:5983093 original size:19 final size:19
Alignment explanation
Indices: 5983069--5983109 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
5983059 CGTTGTGAGG
5983069 GTGCTATAACTTTCTTCAC
1 GTGCTATAACTTTCTTCAC
5983088 GTGCTATAACTTTCTTCAC
1 GTGCTATAACTTTCTTCAC
5983107 GTG
1 GTG
5983110 TAACCGTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (19 bp):
GTGCTATAACTTTCTTCAC
Found at i:5986125 original size:60 final size:59
Alignment explanation
Indices: 5985869--5986285 Score: 512
Period size: 59 Copynumber: 6.9 Consensus size: 59
5985859 TTTTGTGTGG
* *
5985869 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA--CCTTTTTTTGAAATTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTCTTTTTTTTGAAA-TTTATTTTCAA
*
5985927 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAACCTTTTTTTTTTTTTGGAAATTTTGATTTTC
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAA----TTCTTTTTTTT-GAAA-TTT-ATTTTC
5985992 AA
58 AA
* *
5985994 GGAAAATTGATACCTTCAACTTTTCC-CTAAAAA-TATTTTTTTTGAAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAATTCTTTTTTTTG-AAA-TTT-ATTTTCAA
5986055 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTCCTTTTTTTTGAAATTTATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATT-CTTTTTTTTGAAATTTATTTTCAA
*
5986115 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTCCTTTTTTTGAAATTTATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTCTTTTTTTTGAAATTTATTTTCAA
* * *
5986174 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-T-ATTTTTTGGAAATTTA-TTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTCTTTTTTTTGAAATTTATTTTC-AA
* *
5986231 GGAAGATTGATACTTTCAACTTTTCC-CTAAAAATAT-TTTTTTTTGGAATTT-TTTT
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAAT-TCTTTTTTTTGAAATTTATTTT
5986286 ATTTTTATTT
Statistics
Matches: 325, Mismatches: 16, Indels: 35
0.86 0.04 0.09
Matches are distributed among these distances:
56 5 0.02
57 46 0.14
58 29 0.09
59 76 0.23
60 44 0.14
61 58 0.18
62 5 0.02
63 9 0.03
65 7 0.02
66 14 0.04
67 32 0.10
ACGTcount: A:0.32, C:0.14, G:0.08, T:0.46
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTCTTTTTTTTGAAATTTATTTTCAA
Found at i:5987707 original size:1 final size:1
Alignment explanation
Indices: 5987697--5987800 Score: 91
Period size: 1 Copynumber: 104.0 Consensus size: 1
5987687 CAACTCAACA
* * * *** * * * * *
5987697 TTTTTATTTTTTTATTTTTATTTTTTTTAAATTTTTGTTTTTTGTTTTTTGTTTTTTGTTTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
5987762 TTTTTTTTTTTTTGTTTTTTTTGTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
5987801 ACCGAATTCC
Statistics
Matches: 81, Mismatches: 22, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 81 1.00
ACGTcount: A:0.06, C:0.00, G:0.07, T:0.88
Consensus pattern (1 bp):
T
Found at i:5987715 original size:14 final size:13
Alignment explanation
Indices: 5987697--5987800 Score: 102
Period size: 14 Copynumber: 7.4 Consensus size: 13
5987687 CAACTCAACA
*
5987697 TTTTTATTTTTTT
1 TTTTTGTTTTTTT
*
5987710 ATTTTTATTTTTTT
1 -TTTTTGTTTTTTT
5987724 TAAATTTTTGTTTTTTGT
1 T----TTTTGTTTTTT-T
5987742 TTTTTGTTTTTTGT
1 TTTTTGTTTTTT-T
5987756 TTTTTGTTTTTTTT
1 TTTTTG-TTTTTTT
5987770 TTTTTGTTTTTTT
1 TTTTTGTTTTTTT
5987783 TGTTTT-TTTTTTT
1 T-TTTTGTTTTTTT
5987796 TTTTT
1 TTTTT
5987801 ACCGAATTCC
Statistics
Matches: 82, Mismatches: 1, Indels: 16
0.83 0.01 0.16
Matches are distributed among these distances:
12 4 0.05
13 17 0.21
14 43 0.52
15 6 0.07
17 10 0.12
18 2 0.02
ACGTcount: A:0.06, C:0.00, G:0.07, T:0.88
Consensus pattern (13 bp):
TTTTTGTTTTTTT
Found at i:5987738 original size:7 final size:7
Alignment explanation
Indices: 5987728--5987800 Score: 107
Period size: 7 Copynumber: 10.7 Consensus size: 7
5987718 TTTTTTTAAA
5987728 TTTTTGT
1 TTTTTGT
5987735 TTTTTGT
1 TTTTTGT
5987742 TTTTTGT
1 TTTTTGT
5987749 TTTTTGT
1 TTTTTGT
5987756 TTTTTGT
1 TTTTTGT
*
5987763 TTTTTTT
1 TTTTTGT
5987770 TTTTTGT
1 TTTTTGT
5987777 TTTTT-T
1 TTTTTGT
5987783 TGTTTT-T
1 T-TTTTGT
5987790 TTTTT-T
1 TTTTTGT
5987796 TTTTT
1 TTTTT
5987801 ACCGAATTCC
Statistics
Matches: 63, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
6 12 0.19
7 51 0.81
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (7 bp):
TTTTTGT
Found at i:5987752 original size:21 final size:20
Alignment explanation
Indices: 5987697--5987800 Score: 106
Period size: 21 Copynumber: 5.0 Consensus size: 20
5987687 CAACTCAACA
*
5987697 TTTTTATTTTTTTATTTTTAT-
1 TTTTT-TTTTTTTGTTTTT-TG
5987718 TTTTTTTAAATTTTTGTTTTTTG
1 TTTTTTT---TTTTTGTTTTTTG
5987741 TTTTTTGTTTTTTGTTTTTTG
1 TTTTTT-TTTTTTGTTTTTTG
5987762 TTTTTTTTTTTTTGTTTTTT-
1 -TTTTTTTTTTTTGTTTTTTG
5987782 TTGTTTTTTTTTT-TTTTTT
1 TT-TTTTTTTTTTGTTTTTT
5987801 ACCGAATTCC
Statistics
Matches: 75, Mismatches: 1, Indels: 16
0.82 0.01 0.17
Matches are distributed among these distances:
19 8 0.11
20 12 0.16
21 31 0.41
22 7 0.09
23 16 0.21
24 1 0.01
ACGTcount: A:0.06, C:0.00, G:0.07, T:0.88
Consensus pattern (20 bp):
TTTTTTTTTTTTGTTTTTTG
Found at i:5987936 original size:41 final size:41
Alignment explanation
Indices: 5987808--5988249 Score: 719
Period size: 41 Copynumber: 10.9 Consensus size: 41
5987798 TTTACCGAAT
*
5987808 TCCTCTAAACAGAGGCACCACGAACTTTGGAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCACG-ACTTT-GAAAAGTAAATTGC
*
5987851 TCCTCTCAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGC
5987893 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGC
5987934 TCCTCTAAACAGAGG--CCACGACTTTGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGC
5987973 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGC
5988014 TCCTCTAAACAGAGG---CACGACTTTGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGC
5988052 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGC
*
5988093 TCCTCTAAACAGAGGCACGA--ACTTTGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGC
5988132 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGC
5988173 TCCTCTAAACAGAGGCA--ACGAACTTTGGAAAA-TAAATTGC
1 TCCTCTAAACAGAGGCACCACG-ACTTT-GAAAAGTAAATTGC
5988213 TCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAAT
1 TCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAAT
5988250 ACTCCTAGAC
Statistics
Matches: 384, Mismatches: 5, Indels: 23
0.93 0.01 0.06
Matches are distributed among these distances:
38 38 0.10
39 85 0.22
40 44 0.11
41 151 0.39
42 45 0.12
43 21 0.05
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (41 bp):
TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGC
Found at i:5987986 original size:80 final size:80
Alignment explanation
Indices: 5987808--5988249 Score: 741
Period size: 80 Copynumber: 5.5 Consensus size: 80
5987798 TTTACCGAAT
* *
5987808 TCCTCTAAACAGAGGCACCACGAACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGGCACCACG
1 TCCTCTAAACAGAGGCACCACG-ACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGG--CCACG
5987873 ACTTTGGAAAAGTAAATTGC
62 ACTTT-GAAAAGTAAATTGC
5987893 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCCACGACTT
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCCACGACTT
5987958 TGAAAAGTAAATTGC
66 TGAAAAGTAAATTGC
5987973 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGG-CACGACTT
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCCACGACTT
5988037 TGAAAAGTAAATTGC
66 TGAAAAGTAAATTGC
5988052 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGG-CACGAACT
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCCACG-ACT
5988116 TTGAAAAGTAAATTGC
65 TTGAAAAGTAAATTGC
*
5988132 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACT
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCCACG-ACT
5988197 TTGGAAAA-TAAATTGC
65 TT-GAAAAGTAAATTGC
5988213 TCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAAT
1 TCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAAT
5988250 ACTCCTAGAC
Statistics
Matches: 350, Mismatches: 3, Indels: 13
0.96 0.01 0.04
Matches are distributed among these distances:
79 86 0.25
80 161 0.46
81 44 0.13
82 5 0.01
83 27 0.08
84 5 0.01
85 22 0.06
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (80 bp):
TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCCACGACTT
TGAAAAGTAAATTGC
Found at i:5988255 original size:159 final size:160
Alignment explanation
Indices: 5987808--5988249 Score: 750
Period size: 159 Copynumber: 2.7 Consensus size: 160
5987798 TTTACCGAAT
* *
5987808 TCCTCTAAACAGAGGCACCACGAACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGGCACCACG
1 TCCTCTAAACAGAGGCACCACG-ACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACG
5987873 ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCT
62 ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA-CACGACTTTGAAAAGTAAATTGCTCCT
5987938 CTAAACAGAGGCCACGACTTTGAAAAGTAAATTGC
126 CTAAACAGAGGCCACGACTTTGAAAAGTAAATTGC
5987973 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGC-ACGACTT
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGACTT
5988037 T-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAA
66 TGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA-CACGACTTTGAAAAGTAAATTGCTCCTCTAA
5988101 ACAGAGG-CACGAACTTTGAAAAGTAAATTGC
130 ACAGAGGCCACG-ACTTTGAAAAGTAAATTGC
5988132 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACT
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG-ACT
5988197 TTGGAAAA-TAAATTGCTCCTCTAAACAGAGGCA-ACGAACTTTGAAAAGTAAAT
65 TTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACACG-ACTTTGAAAAGTAAAT
5988250 ACTCCTAGAC
Statistics
Matches: 270, Mismatches: 2, Indels: 15
0.94 0.01 0.05
Matches are distributed among these distances:
158 4 0.01
159 149 0.55
160 27 0.10
161 30 0.11
162 5 0.02
163 28 0.10
164 5 0.02
165 22 0.08
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (160 bp):
TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGACTT
TGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACACGACTTTGAAAAGTAAATTGCTCCTCTAAA
CAGAGGCCACGACTTTGAAAAGTAAATTGC
Found at i:5989477 original size:6 final size:6
Alignment explanation
Indices: 5989459--5989488 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
5989449 ATTTTTTCAT
5989459 TTTTTC TTCTTTC TTTTTC TTTTTC TTTTT
1 TTTTTC TT-TTTC TTTTTC TTTTTC TTTTT
5989489 TTTCATCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:5989489 original size:7 final size:7
Alignment explanation
Indices: 5989432--5989489 Score: 66
Period size: 8 Copynumber: 8.1 Consensus size: 7
5989422 AATTTGGATC
5989432 TCTTTTT
1 TCTTTTT
5989439 TCATTTTT
1 TC-TTTTT
5989447 TCATTTTT
1 TC-TTTTT
5989455 TCATTTTT
1 TC-TTTTT
*
5989463 TCTTCTT
1 TCTTTTT
5989470 TC-TTTT
1 TCTTTTT
5989476 TC-TTTT
1 TCTTTTT
5989482 TCTTTTT
1 TCTTTTT
5989489 T
1 T
5989490 TTCATCATCT
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
6 11 0.23
7 13 0.28
8 23 0.49
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (7 bp):
TCTTTTT
Found at i:5989490 original size:15 final size:15
Alignment explanation
Indices: 5989458--5989508 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
5989448 CATTTTTTCA
5989458 TTTT-TTCTTCTTTCT
1 TTTTCTTCTTCTTT-T
*
5989473 TTTTCTTTTTCTTTT
1 TTTTCTTCTTCTTTT
* *
5989488 TTTTCATCATCTTTT
1 TTTTCTTCTTCTTTT
5989503 TTTTCT
1 TTTTCT
5989509 CATTCTTCAC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
15 22 0.73
16 8 0.27
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTCTTCTTCTTTT
Found at i:5989515 original size:15 final size:15
Alignment explanation
Indices: 5989465--5989515 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
5989455 TCATTTTTTC
**
5989465 TTCTTTCTTTTTCTTT
1 TTCTTT-TTTTTCTCA
5989481 TTCTTTTTTTTCATCA
1 TTCTTTTTTTTC-TCA
5989497 -TCTTTTTTTTCTCA
1 TTCTTTTTTTTCTCA
5989511 TTCTT
1 TTCTT
5989516 CACCTATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 3 0.10
15 21 0.68
16 7 0.23
ACGTcount: A:0.06, C:0.20, G:0.00, T:0.75
Consensus pattern (15 bp):
TTCTTTTTTTTCTCA
Found at i:5993389 original size:58 final size:57
Alignment explanation
Indices: 5993327--5993600 Score: 422
Period size: 58 Copynumber: 4.7 Consensus size: 57
5993317 TTTTGTGTGG
* * *
5993327 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAATATTTTTTAAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAAT-TTTTTTGAAATTTTATTTTTAA
* *
5993385 GGAAAATTGATACTTTCAACTTTTCCTCAAAACATTTTTTTGAAATTTTATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTGAAATTTTATTTTTAA
* *
5993442 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAATTTTGTTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-ATTTTTTTGAAATTTTATTTTTAA
* *
5993500 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATGTTTTTTTGAAATTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-ATTTTTTTGAAATTTTATTTTTAA
5993558 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAACCTTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAA--TTTTTTT
5993601 TTTTTTTTGG
Statistics
Matches: 198, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
57 51 0.26
58 140 0.71
59 7 0.04
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTGAAATTTTATTTTTAA
Found at i:5993467 original size:115 final size:114
Alignment explanation
Indices: 5993327--5993600 Score: 424
Period size: 115 Copynumber: 2.4 Consensus size: 114
5993317 TTTTGTGTGG
*
5993327 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAATATTTTTTAAAAATTTATTTTTAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAAT-TTTTTTAAAAATTTATTTTTAAGGAAAAT
*
5993392 TGATACTTTCAACTTTTCCTCAAAACA-TTTTTTTGAAATTTTATTTTCAA
65 TGATACTTTCAACTTTTCCCCAAAA-AGTTTTTTTGAAATTTTATTTTCAA
* * * *
5993442 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAATTTTGTTTTTAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-ATTTTTTTAAAAATTTATTTTTAAGGAAAAT
*
5993507 TGATACTTTCAACTTTTCCCCAAAAATGTTTTTTTGAAATTTTATTTTTAA
65 TGATACTTTCAACTTTTCCCCAAAAA-GTTTTTTTGAAATTTTATTTTCAA
5993558 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAACCTTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAA--TTTTTTT
5993601 TTTTTTTTGG
Statistics
Matches: 146, Mismatches: 8, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
114 1 0.01
115 82 0.56
116 56 0.38
117 7 0.05
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (114 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTAAAAATTTATTTTTAAGGAAAATT
GATACTTTCAACTTTTCCCCAAAAAGTTTTTTTGAAATTTTATTTTCAA
Found at i:5993636 original size:127 final size:124
Alignment explanation
Indices: 5993363--5993728 Score: 432
Period size: 127 Copynumber: 3.0 Consensus size: 124
5993353 CCAAAAAATA
* * * * * *
5993363 TTTTTTAAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTC-AAAACATTTTTTTG
1 TTTTTTGAAATTTTGTTTTCAAGGAAAATTGATACCTTCAACTTTTCC-CAAAAATATTTTTTTG
* *
5993427 AAA-TTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTC-AAAAAC--------CT
65 AAACTTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCC-CAAAAAACATTTTTTTTT
* * *
5993478 TTTTTTGAAATTTTGTTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATGTTTTTTTG
1 TTTTTTGAAATTTTGTTTTCAAGGAAAATTGATACCTTCAACTTTT-CCCAAAAATATTTTTTTG
* * *
5993543 AAA-TTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAACCTTTTTTTTT
65 AAACTTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCC-CAAAAAACATTTTTTTTT
* *
5993603 TTTTTTGGAAATTTTGATTTTCAAGGAAAATTGATACCTTCAACTTTTTCCTAAAATATTTTTTT
1 TTTTTT-GAAATTTTG-TTTTCAAGGAAAATTGATACCTTCAACTTTTCCCAAAAATATTTTTTT
* *
5993668 GAAACTTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTT
64 GAAACTTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCCAAAAAACATTTTTTTTT
5993729 GAAAATTGAT
Statistics
Matches: 220, Mismatches: 17, Indels: 17
0.87 0.07 0.07
Matches are distributed among these distances:
115 44 0.20
116 56 0.25
117 6 0.03
125 7 0.03
126 42 0.19
127 65 0.30
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.48
Consensus pattern (124 bp):
TTTTTTGAAATTTTGTTTTCAAGGAAAATTGATACCTTCAACTTTTCCCAAAAATATTTTTTTGA
AACTTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCCAAAAAACATTTTTTTTT
Found at i:5993678 original size:58 final size:60
Alignment explanation
Indices: 5993602--5993726 Score: 209
Period size: 58 Copynumber: 2.1 Consensus size: 60
5993592 CCTTTTTTTT
* *
5993602 TTTTTTTGGAAATTTTGATTTTCAAGGAAAATTGATACCTTCAACTTTTTCCT-AAAATA
1 TTTTTTTGGAAACTTTGATTTTCAAGGAAAATTGATACCTTCAACTTTTCCCTAAAAATA
*
5993661 TTTTTTT-GAAACTTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATA
1 TTTTTTTGGAAACTTTGATTTTCAAGGAAAATTGATACCTTCAACTTTTCCCTAAAAATA
5993720 TTTTTTT
1 TTTTTTT
5993727 TTGAAAATTG
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
58 42 0.68
59 20 0.32
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.48
Consensus pattern (60 bp):
TTTTTTTGGAAACTTTGATTTTCAAGGAAAATTGATACCTTCAACTTTTCCCTAAAAATA
Found at i:5993737 original size:43 final size:43
Alignment explanation
Indices: 5993686--5993778 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 43
5993676 GATTTTCAAG
*
5993686 GAAAATTGATACTTTCAACTTTTCC-CTAAAAATAT-TTTTTTTT
1 GAAAATTGATACTTTCAACTTTTCCTC-AAAAAT-TCCTTTTTTT
5993729 GAAAATTGATACTTTCAACTTTTCCTCAAAAATTCCTTTTTTT
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATTCCTTTTTTT
5993772 GAAAATT
1 GAAAATT
5993779 TTGATTTTCA
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
42 1 0.02
43 45 0.96
44 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.05, T:0.46
Consensus pattern (43 bp):
GAAAATTGATACTTTCAACTTTTCCTCAAAAATTCCTTTTTTT
Found at i:5993768 original size:60 final size:58
Alignment explanation
Indices: 5993712--5993940 Score: 241
Period size: 62 Copynumber: 3.8 Consensus size: 58
5993702 AACTTTTCCC
**
5993712 TAAAAATATTTTTTTTTGAAAATTGATACTTTCAACTTTTCCTCAAAAATTCCTTTTTT
1 TAAAAAT-TTTTTTTAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATTCCTTTTTT
*
5993771 TGAAAATTTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATTCCTTTTTT
1 TAAAAATTTT--TTTT--AGGAAAATTGATACTTTCAACTTTTCCTCAAAAATTCCTTTTTT
** * * *
5993833 TTGAAATTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAA-T--ATTTTT
1 TAAAAATTT-TTTT-TAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATTCCTTTTTT
* * *
5993890 TGAAAATTTATTTCTAAGGAAGATTGATACTTTCAACTTTTCC-CTAAAAAT
1 TAAAAATTT-TTT-TTAGGAAAATTGATACTTTCAACTTTTCCTC-AAAAAT
5993941 ATTTTTTTTT
Statistics
Matches: 150, Mismatches: 11, Indels: 19
0.83 0.06 0.11
Matches are distributed among these distances:
56 1 0.01
57 48 0.32
58 4 0.03
59 7 0.05
60 37 0.25
61 3 0.02
62 49 0.33
63 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (58 bp):
TAAAAATTTTTTTTAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATTCCTTTTTT
Found at i:5993795 original size:62 final size:60
Alignment explanation
Indices: 5993729--5993940 Score: 310
Period size: 60 Copynumber: 3.5 Consensus size: 60
5993719 ATTTTTTTTT
5993729 GAAAATTGATACTTTCAACTTTTCCTCAAAAATTCCTTTTTTTGAAAATTTTGATTTTCAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATTCCTTTTTTTGAAAA-TTT-ATTTTCAAG
5993791 GAAAATTGATACTTTCAACTTTTCCTCAAAAATTCCTTTTTTTTG-AAATTTATTTTCAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATTCC-TTTTTTTGAAAATTTATTTTCAAG
* *
5993851 GAAAATTGATACTTTCAACTTTTCCCCAAAAA-T--ATTTTTTGAAAATTTA-TTTCTAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATTCCTTTTTTTGAAAATTTATTTTC-AAG
*
5993908 GAAGATTGATACTTTCAACTTTTCC-CTAAAAAT
1 GAAAATTGATACTTTCAACTTTTCCTC-AAAAAT
5993941 ATTTTTTTTT
Statistics
Matches: 142, Mismatches: 3, Indels: 14
0.89 0.02 0.09
Matches are distributed among these distances:
56 12 0.08
57 39 0.27
59 1 0.01
60 40 0.28
61 3 0.02
62 39 0.27
63 8 0.06
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.43
Consensus pattern (60 bp):
GAAAATTGATACTTTCAACTTTTCCTCAAAAATTCCTTTTTTTGAAAATTTATTTTCAAG
Found at i:5993840 original size:105 final size:101
Alignment explanation
Indices: 5993628--5993838 Score: 302
Period size: 105 Copynumber: 2.0 Consensus size: 101
5993618 GATTTTCAAG
5993628 GAAAATTGATACCTTCAACTTTTTCCTAAAATATTTTTTTGAAACTTTGATTTTCAAGGAAAATT
1 GAAAATTGATACCTTCAACTTTTTCCTAAAATATTTTTTTGAAACTTTGATTTTCAAGGAAAATT
5993693 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTT
66 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTT
* * *
5993729 GAAAATTGATACTTTCAAC-TTTTCCTCAAAAATTCCTTTTTTTGAAAATTTTGATTTTCAAGGA
1 GAAAATTGATACCTTCAACTTTTTCCT--AAAA-T-ATTTTTTTG-AAACTTTGATTTTCAAGGA
5993793 AAATTGATACTTTCAACTTTT-CCTCAAAAAT-TCCTTTTTTTT
61 AAATTGATACTTTCAACTTTTCCCT-AAAAATAT--TTTTTTTT
5993835 GAAA
1 GAAA
5993839 TTTATTTTCA
Statistics
Matches: 99, Mismatches: 3, Indels: 11
0.88 0.03 0.10
Matches are distributed among these distances:
100 7 0.07
101 18 0.18
102 4 0.04
103 1 0.01
104 12 0.12
105 45 0.45
106 12 0.12
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.45
Consensus pattern (101 bp):
GAAAATTGATACCTTCAACTTTTTCCTAAAATATTTTTTTGAAACTTTGATTTTCAAGGAAAATT
GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTT
Found at i:5993916 original size:57 final size:58
Alignment explanation
Indices: 5993729--5993947 Score: 284
Period size: 57 Copynumber: 3.7 Consensus size: 58
5993719 ATTTTTTTTT
* *
5993729 GAAAATTGATACTTTCAACTTTTCCTCAAAAATTCCTTTTTTTGAAAATTTTGATTTTCAAG
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATT--ATTTTTTGAAAA-TTT-ATTTTCAAG
* *
5993791 GAAAATTGATACTTTCAACTTTTCCTCAAAAATTCCTTTTTTTTG-AAATTTATTTTCAAG
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAA-T--TATTTTTTGAAAATTTATTTTCAAG
5993851 GAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTGAAAATTTA-TTTCTAAG
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATTATTTTTTGAAAATTTATTTTC-AAG
* *
5993908 GAAGATTGATACTTTCAACTTTTCCCTAAAAA-TATTTTTT
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATTATTTTTT
5993948 TTTGGAATTT
Statistics
Matches: 148, Mismatches: 4, Indels: 15
0.89 0.02 0.09
Matches are distributed among these distances:
56 12 0.08
57 48 0.32
60 40 0.27
61 3 0.02
62 35 0.24
63 9 0.06
65 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.45
Consensus pattern (58 bp):
GAAAATTGATACTTTCAACTTTTCCCCAAAAATTATTTTTTGAAAATTTATTTTCAAG
Found at i:5994423 original size:19 final size:19
Alignment explanation
Indices: 5994399--5994443 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
5994389 GAACACCGGT
*
5994399 GCCGGATTCTGGGAAA-GTC
1 GCCGGAATCT-GGAAATGTC
*
5994418 GCCGGAATCTGGAAATTTC
1 GCCGGAATCTGGAAATGTC
5994437 GCCGGAA
1 GCCGGAA
5994444 GTTGGCCGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.24, C:0.22, G:0.33, T:0.20
Consensus pattern (19 bp):
GCCGGAATCTGGAAATGTC
Found at i:5994506 original size:26 final size:26
Alignment explanation
Indices: 5994465--5994514 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
5994455 TTCGACCAGT
*
5994465 TTCTGGGATTCTTCGCCGGAAACTGG
1 TTCTGGGATTCTTCGCCGAAAACTGG
5994491 TTCTGGGATT-TCTCGCCGAAAACT
1 TTCTGGGATTCT-TCGCCGAAAACT
5994515 TCAAAGTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 1 0.05
26 21 0.95
ACGTcount: A:0.18, C:0.24, G:0.26, T:0.32
Consensus pattern (26 bp):
TTCTGGGATTCTTCGCCGAAAACTGG
Found at i:6000119 original size:27 final size:26
Alignment explanation
Indices: 6000078--6000128 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
6000068 TCCAAAAAAA
6000078 AAAAAAAAACAACCTAGGATTCATTTG
1 AAAAAAAAACAACCTAGGA-TCATTTG
*
6000105 AAAAAAAAACCACCTAGGATCATT
1 AAAAAAAAACAACCTAGGATCATT
6000129 CTCCAAGCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.53, C:0.18, G:0.10, T:0.20
Consensus pattern (26 bp):
AAAAAAAAACAACCTAGGATCATTTG
Found at i:6002701 original size:10 final size:10
Alignment explanation
Indices: 6002680--6002739 Score: 56
Period size: 10 Copynumber: 6.3 Consensus size: 10
6002670 TACTATGCTT
6002680 AAAAAATG-A
1 AAAAAATGAA
6002689 AAAAAATGAA
1 AAAAAATGAA
*
6002699 AAAAAAT-ATG
1 AAAAAATGA-A
6002709 AAAAAATGAA
1 AAAAAATGAA
*
6002719 AAATAA--AA
1 AAAAAATGAA
*
6002727 AAAAAGTGAA
1 AAAAAATGAA
6002737 AAA
1 AAA
6002740 GAAAGACTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
8 6 0.15
9 9 0.22
10 25 0.61
11 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (10 bp):
AAAAAATGAA
Found at i:6002712 original size:20 final size:20
Alignment explanation
Indices: 6002680--6002739 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
6002670 TACTATGCTT
6002680 AAAAAATGAAAAAAATGAAA
1 AAAAAATGAAAAAAATGAAA
6002700 AAAAATATG-AAAAAATGAAA
1 AAAAA-ATGAAAAAAATGAAA
* *
6002720 AATAAA--AAAAAAGTGAAA
1 AAAAAATGAAAAAAATGAAA
6002738 AA
1 AA
6002740 GAAAGACTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
18 12 0.33
19 1 0.03
20 20 0.56
21 3 0.08
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (20 bp):
AAAAAATGAAAAAAATGAAA
Found at i:6003898 original size:43 final size:41
Alignment explanation
Indices: 6003739--6003910 Score: 281
Period size: 41 Copynumber: 4.1 Consensus size: 41
6003729 ATGATTGTCA
*
6003739 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
6003780 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTATAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
6003821 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
6003862 AGGAGCAATTTATGTTTCTCAAAGTCGTTGAGCCTCTGTTTAG
1 AGGAGCAATTTA-CTTT-TCAAAGTCGTGGTGCCTCTGTTTAG
6003905 AGGAGC
1 AGGAGC
6003911 TTTGGTCAAA
Statistics
Matches: 123, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
41 91 0.74
42 3 0.02
43 29 0.24
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:6003934 original size:7 final size:7
Alignment explanation
Indices: 6003918--6003975 Score: 52
Period size: 7 Copynumber: 8.7 Consensus size: 7
6003908 AGCTTTGGTC
6003918 AAAAAC-
1 AAAAACA
6003924 AAAAACA
1 AAAAACA
6003931 AAAAACA
1 AAAAACA
6003938 AACAAA-A
1 AA-AAACA
*
6003945 AAAGA-A
1 AAAAACA
*
6003951 TAAAA-A
1 AAAAACA
*
6003957 AAACACA
1 AAAAACA
6003964 AAAAACA
1 AAAAACA
6003971 AAAAA
1 AAAAA
6003976 AAATGAAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
6 16 0.37
7 24 0.56
8 3 0.07
ACGTcount: A:0.84, C:0.12, G:0.02, T:0.02
Consensus pattern (7 bp):
AAAAACA
Found at i:6003940 original size:11 final size:10
Alignment explanation
Indices: 6003919--6003978 Score: 61
Period size: 10 Copynumber: 5.9 Consensus size: 10
6003909 GCTTTGGTCA
6003919 AAAACAAAAAC
1 AAAA-AAAAAC
6003930 AAAAAACAAAC
1 AAAAAA-AAAC
6003941 AAAAAAAGAA-
1 AAAAAAA-AAC
*
6003951 TAAAAAAAAC
1 AAAAAAAAAC
*
6003961 -ACAAAAAAC
1 AAAAAAAAAC
6003970 AAAAAAAAA
1 AAAAAAAAA
6003979 TGAAAATGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
9 10 0.24
10 16 0.38
11 16 0.38
ACGTcount: A:0.85, C:0.12, G:0.02, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:6004262 original size:21 final size:21
Alignment explanation
Indices: 6004185--6004262 Score: 50
Period size: 21 Copynumber: 3.5 Consensus size: 21
6004175 TATTTTATTA
6004185 TTTATTTAT-TATTACTATGTAT
1 TTTATTTATAT-TTA-TATGTAT
* * * *
6004207 TAATATATGTATATTTTTATTTTT
1 T--T-TATTTATATTTATATGTAT
* *
6004231 TTTGTTAATATTTATATGTAT
1 TTTATTTATATTTATATGTAT
6004252 TTTATTTATAT
1 TTTATTTATAT
6004263 AGTTATATAT
Statistics
Matches: 40, Mismatches: 12, Indels: 9
0.66 0.20 0.15
Matches are distributed among these distances:
21 22 0.55
22 2 0.05
24 7 0.17
25 8 0.20
26 1 0.03
ACGTcount: A:0.28, C:0.01, G:0.05, T:0.65
Consensus pattern (21 bp):
TTTATTTATATTTATATGTAT
Found at i:6004274 original size:83 final size:81
Alignment explanation
Indices: 6004164--6004314 Score: 189
Period size: 83 Copynumber: 1.8 Consensus size: 81
6004154 TTTTTTCTTT
* * *
6004164 TGTATTTTATGTATTTTATTATTTATTTATTATTACTATGTATTAATATATGTA-TATTTTTATT
1 TGTATTTTATGTATTATATTATATATTTATTATTA-TAT-TA-TAATATATGTAGTATTATTATT
*
6004228 TTTTTTGTTAATATTTATA
63 ATTTTTGTTAATATTTATA
* * *
6004247 TGTATTTTATTTA-TATAGTTATATATTTATTATTATATTATAATTTATTTAGTATTATTATTAT
1 TGTATTTTATGTATTATA-TTATATATTTATTATTATATTATAATATATGTAGTATTATTATTAT
6004311 TTTT
65 TTTT
6004315 ATCTTGTAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
80 9 0.15
81 16 0.27
82 6 0.10
83 28 0.47
ACGTcount: A:0.29, C:0.01, G:0.05, T:0.65
Consensus pattern (81 bp):
TGTATTTTATGTATTATATTATATATTTATTATTATATTATAATATATGTAGTATTATTATTATT
TTTGTTAATATTTATA
Found at i:6004296 original size:74 final size:72
Alignment explanation
Indices: 6004143--6004281 Score: 158
Period size: 74 Copynumber: 1.9 Consensus size: 72
6004133 TTATTTTATA
* * ** * *
6004143 TTATGTTTATTTTTTTTCTTTTGTATTTTATGTATTTTATTATTTATTTATTATTACTATGTATT
1 TTATTTTTATTTTTTTTCGTTAATATTTTATGTATTTTATTATATAGTTATTATTA-TATGTATT
6004208 AATATATG
65 AATATATG
6004216 TATATTTTTATTTTTTTT-GTTAATATTTATATGTATTTTATTTATATAGTTATATATT-TAT-T
1 T-TATTTTTATTTTTTTTCGTTAATATTT-TATGTATTTTA-TTATATAGTTAT-TATTATATGT
6004278 ATTA
62 ATTA
6004282 TATTATAATT
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
73 13 0.23
74 29 0.52
75 10 0.18
76 4 0.07
ACGTcount: A:0.26, C:0.01, G:0.06, T:0.67
Consensus pattern (72 bp):
TTATTTTTATTTTTTTTCGTTAATATTTTATGTATTTTATTATATAGTTATTATTATATGTATTA
ATATATG
Found at i:6004307 original size:20 final size:18
Alignment explanation
Indices: 6004252--6004312 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 18
6004242 TTATATGTAT
6004252 TTTATTTATATAGTTATATA
1 TTTATTTATATA-TTATA-A
6004272 TTTA-TTATTATATTATAA
1 TTTATTTA-TATATTATAA
*
6004290 TTTATTTAGTATTATTATTA
1 TTTATTTA-TA-TATTATAA
6004310 TTT
1 TTT
6004313 TTATCTTGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
18 5 0.14
19 13 0.36
20 18 0.50
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (18 bp):
TTTATTTATATATTATAA
Found at i:6005276 original size:16 final size:16
Alignment explanation
Indices: 6005252--6005291 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
6005242 TCGCTCCAGG
6005252 TTTTT-TTTTAAATTT
1 TTTTTATTTTAAATTT
**
6005267 TTTTTATTTTTTATTT
1 TTTTTATTTTAAATTT
6005283 TTTTTATTT
1 TTTTTATTT
6005292 ATTAGATTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTTATTTTAAATTT
Found at i:6005334 original size:11 final size:10
Alignment explanation
Indices: 6005318--6005398 Score: 60
Period size: 11 Copynumber: 7.7 Consensus size: 10
6005308 TTAATATTCT
6005318 TTTTATCTTTA
1 TTTTAT-TTTA
6005329 TTTTATTTTAA
1 TTTTATTTT-A
*
6005340 TTTTGTTTTA
1 TTTTATTTTA
*
6005350 CTTTT-CTTTA
1 -TTTTATTTTA
6005360 TTTTATTTTTTA
1 TTTTA--TTTTA
6005372 TTTTCATTTTCA
1 TTTT-ATTTT-A
6005384 -TTT-TTTTA
1 TTTTATTTTA
6005392 TTTTATT
1 TTTTATT
6005399 ATTCAATTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 19
0.73 0.04 0.24
Matches are distributed among these distances:
8 1 0.02
9 11 0.19
10 10 0.17
11 26 0.45
12 9 0.16
13 1 0.02
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (10 bp):
TTTTATTTTA
Found at i:6005342 original size:6 final size:5
Alignment explanation
Indices: 6005318--6005398 Score: 60
Period size: 5 Copynumber: 15.4 Consensus size: 5
6005308 TTAATATTCT
* *
6005318 TTTTA TCTTTA TTTTA TTTTAA TTTTG TTTTA CTTTT- CTTTA TTTTA
1 TTTTA T-TTTA TTTTA TTTT-A TTTTA TTTTA -TTTTA TTTTA TTTTA
6005365 TTTTTTA TTTTCA TTTTCA -TTT- TTTTA TTTTA TT
1 --TTTTA TTTT-A TTTT-A TTTTA TTTTA TTTTA TT
6005399 ATTCAATTTT
Statistics
Matches: 63, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
4 6 0.10
5 31 0.49
6 21 0.33
7 5 0.08
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:6005370 original size:27 final size:28
Alignment explanation
Indices: 6005330--6005401 Score: 80
Period size: 27 Copynumber: 2.6 Consensus size: 28
6005320 TTATCTTTAT
* *
6005330 TTTATTTTA-ATTTTGTTTT-ACTTTTC-
1 TTTATTTTATTTTTTATTTTCA-TTTTCA
6005356 TTTATTTTATTTTTTATTTTCATTTTCA
1 TTTATTTTATTTTTTATTTTCATTTTCA
6005384 TTT-TTTTATTTTATTATT
1 TTTATTTTATTTT-TTATT
6005402 CAATTTTCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
26 9 0.22
27 22 0.55
28 9 0.22
ACGTcount: A:0.17, C:0.06, G:0.01, T:0.76
Consensus pattern (28 bp):
TTTATTTTATTTTTTATTTTCATTTTCA
Found at i:6005390 original size:20 final size:21
Alignment explanation
Indices: 6005365--6005413 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 21
6005355 CTTTATTTTA
6005365 TTTTTTATTTTCATT-TTC-AT
1 TTTTTTATTTT-ATTATTCAAT
6005385 TTTTTTATTTTATTATTCAAT
1 TTTTTTATTTTATTATTCAAT
6005406 TTTCTTTA
1 TTT-TTTA
6005414 AATAAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 3 0.12
20 14 0.54
21 5 0.19
22 4 0.15
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTTTATTTTATTATTCAAT
Found at i:6005392 original size:32 final size:32
Alignment explanation
Indices: 6005323--6005408 Score: 97
Period size: 32 Copynumber: 2.7 Consensus size: 32
6005313 ATTCTTTTTA
*
6005323 TCTTTATTTTA-TTTTAATTTTGTTTTACTTT
1 TCTTTATTTTATTTTTAATTTTATTTTACTTT
*
6005354 TCTTTATTTTATTTTTTATTTTCATTTT-CATTT
1 TCTTTATTTTATTTTTAATTTT-ATTTTAC-TTT
*
6005387 T-TTTATTTTATTATTCAATTTT
1 TCTTTATTTTATT-TTTAATTTT
6005409 CTTTAAATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
31 11 0.23
32 21 0.45
33 15 0.32
ACGTcount: A:0.17, C:0.07, G:0.01, T:0.74
Consensus pattern (32 bp):
TCTTTATTTTATTTTTAATTTTATTTTACTTT
Found at i:6005407 original size:27 final size:24
Alignment explanation
Indices: 6005359--6005409 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
6005349 ACTTTTCTTT
6005359 ATTTTATTTTTTATTTTCATTTTC
1 ATTTTATTTTTTATTTTCATTTTC
*
6005383 ATTTTTTTATTTTATTATTCAATTTTC
1 ATTTTATT-TTTTATT-TTC-ATTTTC
6005410 TTTAAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 7 0.30
25 7 0.30
26 3 0.13
27 6 0.26
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.73
Consensus pattern (24 bp):
ATTTTATTTTTTATTTTCATTTTC
Found at i:6005563 original size:119 final size:119
Alignment explanation
Indices: 6005426--6006124 Score: 913
Period size: 119 Copynumber: 5.9 Consensus size: 119
6005416 TAAAAATAAA
*
6005426 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAATTTCAAAAAAAT
1 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCAAAAAAA-
*
6005490 GTTTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCC
65 GTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCC
*
6005545 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTTC--AAAAA
1 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAA-ATTTCAAAAAAA
* * * * *
6005608 --TATTTTTCAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAATTTCAA
65 GTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC-C
* * * *
6005661 AAAAGATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC-CAAAAA
1 AAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCAAAAAAA
* * * *
6005725 --TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTT-AAAAT-AAAATTT-C
65 GTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCC
* *
6005775 AAAAATGGTTTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAATTTCAAA
1 AAAAA-----TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTC-AA
*
6005839 AAAAAGGTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCC
60 AAAAAGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCC
* * *
6005899 AAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAAATTTTAAAAAAAG
1 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCAAAAAAA-
6005963 GTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCC
65 GTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCC
* *
6006018 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCCAAAAAAA
1 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTT-C---AAAA
* * *
6006083 AAAATATTTTTTGGGGAAAAGTTGAAAGTATCAAATTTTCCT
62 AAAGTTTTTTTTGAGGAAAAGTTGAAAGTATC-AATTTTCCT
6006125 GCAGAAGAAC
Statistics
Matches: 519, Mismatches: 37, Indels: 43
0.87 0.06 0.07
Matches are distributed among these distances:
113 1 0.00
114 4 0.01
115 7 0.01
116 59 0.11
117 92 0.18
118 48 0.09
119 201 0.39
120 10 0.02
121 38 0.07
122 5 0.01
123 32 0.06
124 22 0.04
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (119 bp):
AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCAAAAAAAG
TTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCC
Found at i:6005584 original size:58 final size:58
Alignment explanation
Indices: 6005426--6006124 Score: 827
Period size: 58 Copynumber: 11.7 Consensus size: 58
6005416 TAAAAATAAA
* *
6005426 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAATTTCAA
1 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTC-C
* * * *
6005484 AAAAATGTTTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCC
1 AAAAA---TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCC
* *
6005545 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTTC
1 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCC
* *
6005603 AAAAATATTTTTCAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAATTTCAA
1 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTC-C
* * *
6005661 AAAAGATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCC
1 AAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCC
* *
6005720 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTT-AAAAT-AAAATTT-C
1 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCC
* * *
6005775 AAAAATGGTTTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAATTTCAAA
1 AAAAA-----TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTC--C
* * *
6005839 AAAAAGGTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCC
1 AAAAA--TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCC
* * **
6005899 AAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAAATTTTAA
1 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAA-TTTCC
* * *
6005957 AAAAAGGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCC
1 AAAAA---TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCC
* *
6006018 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCC
1 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCC
*
6006076 AAAAAAAAAAATATTTTTTGGGGAAAAGTTGAAAGTATCAAATTTTCCT
1 ------AAAAATA-TTTTTGAGGAAAAGTTGAAAGTATC-AATTTTCCT
6006125 GCAGAAGAAC
Statistics
Matches: 560, Mismatches: 51, Indels: 52
0.84 0.08 0.08
Matches are distributed among these distances:
55 6 0.01
56 6 0.01
57 14 0.03
58 237 0.42
59 45 0.08
60 45 0.08
61 144 0.26
62 17 0.03
64 12 0.02
65 25 0.04
66 9 0.02
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (58 bp):
AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCC
Found at i:6005799 original size:177 final size:177
Alignment explanation
Indices: 6005440--6006122 Score: 995
Period size: 177 Copynumber: 3.8 Consensus size: 177
6005430 ATATTTTTGG
* *
6005440 GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAATGTTTTTTTTGAGAAA
1 GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAA-GATTTTTTTGAGGAA
6005505 AAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCCAAAAATATTTTTGAGGAAAAGTTGA
65 AAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCCAAAAATATTTTTGAGGAAAAGTTGA
* * *
6005570 AAGTATCAATTTTCCTTAAAAATCAAAGTTTTCAAAAA---TATTTTTCA
130 AAGTATCAATTTTTCTTAAAAAT-AAA-ATTTCAAAAAGGTTTTTTTTCA
6005617 GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC-AAAAAAGATTTTTTTGAGGAAA
1 GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAGATTTTTTTGAGGAAA
*
6005681 AGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCCAAAAATATTTTTGGGGAAAAGTTGAA
66 AGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCCAAAAATATTTTTGAGGAAAAGTTGAA
*
6005746 AGTATCAATTTTTCTT-AAAATAAAATTTCAAAAATGGTTTTTTTTTTA
131 AGTATCAATTTTTCTTAAAAATAAAATTTCAAAAA-GG-TTTTTTTTCA
*
6005794 GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAAGGTTTTTTTGAGGAA
1 GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC-AAAAAAAGATTTTTTTGAGGAA
*
6005859 AAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCCAAAAATATTTTTGAGAAAAAGTTGA
65 AAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCCAAAAATATTTTTGAGGAAAAGTTGA
* *
6005924 AAGTATCAATTTTTCTTAAAAATAAAATTTTAAAAAAAGGTTTTTTTTGA
130 AAGTATCAATTTTTCTTAAAAATAAAA-TTT-CAAAAAGGTTTTTTTTCA
* * * * *
6005974 GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC--CAAAA-ATATTTTTGGGGAA
1 GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAATTTCAAAAAAAGATTTTTTTGAGGAA
* *
6006036 AAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCCAAAAAAAAAAATATTTTTTGGGGAA
65 AAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCC------AAAAATA-TTTTTGAGGAA
*
6006101 AAGTTGAAAGTATCAAATTTTC
123 AAGTTGAAAGTATCAATTTTTC
6006123 CTGCAGAAGA
Statistics
Matches: 466, Mismatches: 22, Indels: 29
0.90 0.04 0.06
Matches are distributed among these distances:
172 9 0.02
173 3 0.01
174 5 0.01
175 93 0.20
176 6 0.01
177 141 0.30
178 4 0.01
179 100 0.21
180 51 0.11
181 12 0.03
182 5 0.01
183 7 0.02
184 30 0.06
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (177 bp):
GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAGATTTTTTTGAGGAAA
AGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCCAAAAATATTTTTGAGGAAAAGTTGAA
AGTATCAATTTTTCTTAAAAATAAAATTTCAAAAAGGTTTTTTTTCA
Found at i:6016698 original size:16 final size:16
Alignment explanation
Indices: 6016654--6016699 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
6016644 TTCTTCTTTT
6016654 GTATT-TTATGTATT-
1 GTATTATTATGTATTA
6016668 GTATTATTTAT-TATTA
1 GTATTA-TTATGTATTA
*
6016684 TTATTATTATGTATTA
1 GTATTATTATGTATTA
6016700 ATATATGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 5 0.19
15 8 0.30
16 14 0.52
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (16 bp):
GTATTATTATGTATTA
Found at i:6017273 original size:31 final size:31
Alignment explanation
Indices: 6017238--6017304 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
6017228 AATTTCCAGA
* *
6017238 TTCCGACGAA-AATTTCGGCGAA-ATTTGAATT
1 TTCCGAC-AACAATTCCGGCGAACA-TTGAAGT
*
6017269 TTCCGGCAACAATTCCGGCGAACATTGAAGT
1 TTCCGACAACAATTCCGGCGAACATTGAAGT
6017300 TTCCG
1 TTCCG
6017305 GCGACCAGCC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
30 2 0.06
31 28 0.90
32 1 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (31 bp):
TTCCGACAACAATTCCGGCGAACATTGAAGT
Found at i:6017305 original size:31 final size:31
Alignment explanation
Indices: 6017248--6017306 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
6017238 TTCCGACGAA
* *
6017248 AATTTCGGCGAAATTTGAATTTTCCGGCAAC
1 AATTCCGGCGAAATTTGAAGTTTCCGGCAAC
6017279 AATTCCGGCGAACA-TTGAAGTTTCCGGC
1 AATTCCGGCGAA-ATTTGAAGTTTCCGGC
6017307 GACCAGCCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (31 bp):
AATTCCGGCGAAATTTGAAGTTTCCGGCAAC
Found at i:6018191 original size:118 final size:117
Alignment explanation
Indices: 6017861--6018500 Score: 821
Period size: 118 Copynumber: 5.3 Consensus size: 117
6017851 CCAAAAATAT
* *
6017861 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC----AAAAAATAT
1 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAA-TTTCAAAAAAAAAATAT
* * *
6017922 TTTTGGGGAAAAGTTGAAAATATCAATTTTCCTCAGAAATAAA-TTTCAAAAAAAGAAAA
65 TTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC------A-AAAA
* *
6017981 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCCAAAAAAAA
1 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC-T--CAG--AAATAAATTT-CAAAAAAAA
*
6018046 AA-ATATTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTATAAATAAATTTTCAAAAA
60 AATAT-TTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAA
*
6018104 ATATTTTTGGGGAAAAGTTAAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAAAAAAAATAT
1 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTC-AAAAAAAAAATAT
6018169 TTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAA
65 TTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAA
6018222 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAAAAAAATATT
1 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAAAAAAATATT
6018287 TTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTTTCAAAAAAA
66 TTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAA-TTTTC--AAAAA
* * ***
6018347 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTTCAAAAAAAGGGT-T
1 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAA-TTTCAAAAAAAAAATAT
* *
6018411 TTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTTCCAAAAA
65 TTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTTCAAAAA
6018465 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
6018501 CTACAAAAAA
Statistics
Matches: 477, Mismatches: 18, Indels: 52
0.87 0.03 0.10
Matches are distributed among these distances:
117 48 0.10
118 162 0.34
119 7 0.01
120 45 0.09
121 4 0.01
122 8 0.02
123 45 0.09
124 32 0.07
125 63 0.13
126 12 0.03
128 2 0.00
129 45 0.09
130 4 0.01
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.34
Consensus pattern (117 bp):
ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAAAAAAATATT
TTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAA
Found at i:6018354 original size:243 final size:241
Alignment explanation
Indices: 6017852--6018500 Score: 853
Period size: 243 Copynumber: 2.7 Consensus size: 241
6017842 TAAAAAATTC
* *
6017852 CAAAAATATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC----
1 CAAAAA-AAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAA
* * *
6017913 AAAAAATATTTTTGGGGAAAAGTTGAAAATATCAATTTTCCTCAGAAATAAA-TTTCAAAAAAAG
65 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC------A-
*
6017977 AAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCCAAAA
123 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAG-AAAATAAATTTCCAAAA
*
6018042 AAAAAAATATTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTATAAATAAATTTT
186 AAAAAAATATTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* *
6018098 C--AAAAAATATTTTTGGGGAAAAGTTAAAAGTATCAATTTTCCTCAGAAATAAA-TTTCAAAAA
1 CAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC-AAAA
6018160 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAATA
65 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAATA
*
6018225 TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC-T-CAG-AAATAAATTT-C-AAAAAAAAAATA
130 TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAGAAAATAAATTTCCAAAAAAAAAAATA
6018285 TTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTTT
195 -TTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-----AAAAATAAA-TTTT
*
6018339 CAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTTCAAAAA
1 CAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAA
*** * *
6018404 AAGGGT-TTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTTCCAAAAAA
66 AAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTTCAAAAAA
6018466 TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
128 TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
6018501 CTACAAAAAA
Statistics
Matches: 366, Mismatches: 18, Indels: 41
0.86 0.04 0.10
Matches are distributed among these distances:
234 12 0.03
235 35 0.10
236 10 0.03
238 2 0.01
240 10 0.03
241 76 0.21
242 10 0.03
243 150 0.41
244 7 0.02
246 1 0.00
247 49 0.13
248 4 0.01
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.34
Consensus pattern (241 bp):
CAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAA
AAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAATAT
TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAGAAAATAAATTTCCAAAAAAAAAAATAT
TTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
Found at i:6022366 original size:17 final size:17
Alignment explanation
Indices: 6022331--6022408 Score: 52
Period size: 17 Copynumber: 4.5 Consensus size: 17
6022321 GTGAAGAATG
** *
6022331 AAAAAAAAAGATGATGA
1 AAAAAAAAAGAAAAAGA
6022348 AAAAAAAAAGAAAAAG-
1 AAAAAAAAAGAAAAAGA
**
6022364 AAAAAGCAAGAAAGAAGA
1 AAAAAAAAAGAAA-AAGA
* *
6022382 AAAAATGAAA-AAAATGA
1 AAAAA-AAAAGAAAAAGA
6022399 AAAAATAAAA
1 AAAAA-AAAA
6022409 AAAGAGATTC
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
16 11 0.22
17 28 0.56
18 8 0.16
19 3 0.06
ACGTcount: A:0.78, C:0.01, G:0.14, T:0.06
Consensus pattern (17 bp):
AAAAAAAAAGAAAAAGA
Found at i:6022409 original size:17 final size:17
Alignment explanation
Indices: 6022344--6022411 Score: 59
Period size: 17 Copynumber: 4.0 Consensus size: 17
6022334 AAAAAAGATG
6022344 ATGAAAAAA-AAAAGAAA
1 ATGAAAAAATAAAA-AAA
* ** *
6022361 AAGAAAAAGCAAGAAAGA
1 ATGAAAAAATAA-AAAAA
*
6022379 A-GAAAAAATGAAAAAA
1 ATGAAAAAATAAAAAAA
6022395 ATGAAAAAATAAAAAAA
1 ATGAAAAAATAAAAAAA
6022412 GAGATTCAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
16 5 0.12
17 28 0.70
18 5 0.12
19 2 0.05
ACGTcount: A:0.79, C:0.01, G:0.13, T:0.06
Consensus pattern (17 bp):
ATGAAAAAATAAAAAAA
Found at i:6023748 original size:42 final size:42
Alignment explanation
Indices: 6023650--6023937 Score: 398
Period size: 42 Copynumber: 7.0 Consensus size: 42
6023640 GTCTAGGAGT
*
6023650 ATTTACTTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
* *
6023691 ATTTATTTTTCCCAAAGTCGTGGTGCCTCTGTTTAGAGAAGCA
1 ATTTACTTTT-CCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
6023734 ATTTACTTTTCCAAAGTCGTGGTACCTCTATTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
6023776 ATTTACTTTT-CAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
6023816 ATTTACTTTT-CAAAGT--TCGGTGCCTCTGTTTAGAAGAGCA
1 ATTTACTTTTCCAAAGTCGT-GGTGCCTCTGTTTAGAGGAGCA
*
6023856 ATTTAC-TTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
6023897 ATTTAC-TTTCCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1 ATTTACTTTTCC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGC
6023938 TTTGGTAAAA
Statistics
Matches: 223, Mismatches: 13, Indels: 21
0.87 0.05 0.08
Matches are distributed among these distances:
37 1 0.00
39 4 0.02
40 64 0.29
41 49 0.22
42 77 0.35
43 28 0.13
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (42 bp):
ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
Found at i:6023965 original size:16 final size:16
Alignment explanation
Indices: 6023944--6024015 Score: 90
Period size: 16 Copynumber: 4.4 Consensus size: 16
6023934 GAGCTTTGGT
6023944 AAAAAAAAAAAAAAAC
1 AAAAAAAAAAAAAAAC
*
6023960 AAAAAAAAAAAAAAAT
1 AAAAAAAAAAAAAAAC
* *
6023976 AATAAAAACAAAAAAAT
1 AA-AAAAAAAAAAAAAC
*
6023993 AAAAAAACAAAAAAAC
1 AAAAAAAAAAAAAAAC
*
6024009 CAAAAAA
1 AAAAAAA
6024016 TGTTGAGTTG
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
16 36 0.71
17 15 0.29
ACGTcount: A:0.89, C:0.07, G:0.00, T:0.04
Consensus pattern (16 bp):
AAAAAAAAAAAAAAAC
Found at i:6023966 original size:17 final size:17
Alignment explanation
Indices: 6023944--6024015 Score: 83
Period size: 17 Copynumber: 4.3 Consensus size: 17
6023934 GAGCTTTGGT
6023944 AAAAAAAAAAAAAAAC-
1 AAAAAAAAAAAAAAACA
*
6023960 AAAAAAAAAAAAAAATA
1 AAAAAAAAAAAAAAACA
* * *
6023977 ATAAAAACAAAAAAATA
1 AAAAAAAAAAAAAAACA
* *
6023994 AAAAAACAAAAAAACCA
1 AAAAAAAAAAAAAAACA
6024011 AAAAA
1 AAAAA
6024016 TGTTGAGTTG
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
16 15 0.32
17 32 0.68
ACGTcount: A:0.89, C:0.07, G:0.00, T:0.04
Consensus pattern (17 bp):
AAAAAAAAAAAAAAACA
Found at i:6024015 original size:1 final size:1
Alignment explanation
Indices: 6023944--6024007 Score: 74
Period size: 1 Copynumber: 64.0 Consensus size: 1
6023934 GAGCTTTGGT
* * * * * *
6023944 AAAAAAAAAAAAAAACAAAAAAAAAAAAAAATAATAAAAACAAAAAAATAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6024008 CCAAAAAATG
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.91, C:0.05, G:0.00, T:0.05
Consensus pattern (1 bp):
A
Found at i:6024129 original size:20 final size:20
Alignment explanation
Indices: 6024104--6024147 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
6024094 TGTAGACACC
6024104 CAATTGGGTCC-GGCCCAGAT
1 CAATTGGG-CCTGGCCCAGAT
6024124 CAATTGGGCCTGGCCCAGAT
1 CAATTGGGCCTGGCCCAGAT
6024144 CAAT
1 CAAT
6024148 AATGGGTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.23, C:0.30, G:0.27, T:0.20
Consensus pattern (20 bp):
CAATTGGGCCTGGCCCAGAT
Found at i:6024328 original size:18 final size:17
Alignment explanation
Indices: 6024211--6024329 Score: 56
Period size: 16 Copynumber: 7.2 Consensus size: 17
6024201 TCTTTTGTAT
6024211 TTTATGTAT-TGTAT-TA
1 TTTATGTATAT-TATATA
6024227 TTTAT-TATTATTAT-TA
1 TTTATGTA-TATTATATA
*
6024243 -TTATGTAT-TAATATA
1 TTTATGTATATTATATA
* * *
6024258 TGTATATAT-TTATTTA
1 TTTATGTATATTATATA
* * *
6024274 TTTATTTTTTGTTA-ATA
1 TTTA-TGTATATTATATA
* *
6024291 TTTATGTGTATTTTATTA
1 TTTATGTATATTATA-TA
6024309 TTTATGTATATATATATA
1 TTTATGTATAT-TATATA
6024327 TTT
1 TTT
6024330 TTTTTATCTT
Statistics
Matches: 78, Mismatches: 15, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
14 3 0.04
15 9 0.12
16 32 0.41
17 11 0.14
18 20 0.26
19 3 0.04
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (17 bp):
TTTATGTATATTATATA
Found at i:6027957 original size:14 final size:14
Alignment explanation
Indices: 6027938--6027968 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6027928 TTATTTAAAG
6027938 AAAAATCAAAATAA
1 AAAAATCAAAATAA
*
6027952 AAAAATTAAAATAA
1 AAAAATCAAAATAA
6027966 AAA
1 AAA
6027969 GGAATGAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAAATCAAAATAA
Found at i:6028140 original size:60 final size:57
Alignment explanation
Indices: 6027999--6028174 Score: 237
Period size: 59 Copynumber: 3.0 Consensus size: 57
6027989 TTTTGTGTAG
6027999 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAAATTTCGA-TTTTCAA
1 GGAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTGAAAATTT--ATTTTTCAA
* * **
6028058 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCCCTTTCTTGAAAATTTATTTTTGGA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAAT--ATTTTTTGAAAATTTATTTTTCAA
6028118 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTTATTTTTC
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATA-TTTTTTGAAAATTTATTTTTC
6028175 TTTTAAAGAA
Statistics
Matches: 104, Mismatches: 7, Indels: 12
0.85 0.06 0.10
Matches are distributed among these distances:
58 6 0.06
59 48 0.46
60 37 0.36
61 13 0.12
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.44
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGAAAATTTATTTTTCAA
Found at i:6028151 original size:119 final size:120
Alignment explanation
Indices: 6027999--6028406 Score: 364
Period size: 119 Copynumber: 3.4 Consensus size: 120
6027989 TTTTGTGTAG
6027999 GGAAAATTGATACTTTCAACTTTTTCCC-AAAAATA-TTTTTTGAAAATTTCGA-TTTTCAAGGA
1 GGAAAATTGATACTTTCAAC-TTTTCCCTAAAAATATTTTTTTGAAAATTTCGATTTTTCAAGGA
* *
6028061 AAATTGATACTTTCAACTTTTCCTCAAAAATCCCTTTCTTGAAAATTTATTTTTGGA
65 AAATTGATACTTTCAACTTTTACTCAAAAAT-CCTTTATTGAAAATTTATTTTTGGA
6028118 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTT--ATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTTCGATTTTTC----AA
* * * * * *** * *** * **** * ** * *
6028181 AGAAAAATCAAAATAAAAAAATGAAAAT-AAAAAGGAATGAAAGAATGATTTTTTTTTTTGTGTA
62 GGAAAATTGATACT-TTCAACTTTTACTCAAAAATCCTTTATTGAA--A-ATTTATTTTTG-G-A
6028245 GGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTG-AAATTTCGATTTTTCAAGG
1 -GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTGAAAATTTCGATTTTTCAAGG
* * * * *
6028309 AAAATGGATACTTTCAACTTTTTCTCAAAAATCCTTTTTTGAAAATTTACTTTT-AA
64 AAAATTGATACTTTCAACTTTTACTCAAAAATCCTTTATTGAAAATTTATTTTTGGA
*
6028365 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT
6028407 TGGAATTTTT
Statistics
Matches: 219, Mismatches: 52, Indels: 37
0.71 0.17 0.12
Matches are distributed among these distances:
118 15 0.07
119 66 0.30
120 15 0.07
122 4 0.02
123 23 0.11
124 6 0.03
125 13 0.06
126 20 0.09
127 1 0.00
128 41 0.19
129 8 0.04
130 7 0.03
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (120 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTTCGATTTTTCAAGGAA
AATTGATACTTTCAACTTTTACTCAAAAATCCTTTATTGAAAATTTATTTTTGGA
Found at i:6028222 original size:16 final size:14
Alignment explanation
Indices: 6028183--6028213 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6028173 TCTTTTAAAG
*
6028183 AAAAATCAAAATAA
1 AAAAATGAAAATAA
6028197 AAAAATGAAAATAA
1 AAAAATGAAAATAA
6028211 AAA
1 AAA
6028214 GGAATGAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.81, C:0.03, G:0.03, T:0.13
Consensus pattern (14 bp):
AAAAATGAAAATAA
Found at i:6028372 original size:247 final size:247
Alignment explanation
Indices: 6027928--6028462 Score: 827
Period size: 249 Copynumber: 2.2 Consensus size: 247
6027918 CGTCGTCGGA
*
6027928 TTATTTAAAGAAAAATCAAAATAAAAAAATTAAAATAAAAAGGAATGAAAGAATGATTTTTTTTT
1 TTATTTAAAGAAAAATCAAAATAAAAAAATAAAAATAAAAAGGAATGAAAGAATGATTTTTTTTT
6027993 GTGTAGGGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAAATTTCGATTTTCAA
66 GTGTAGGGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAAATTTCGATTTTCAA
* * *
6028058 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCCCTTTCTTGAAAATTTATTTTTGGAGGAAA
131 GGAAAATGGATACTTTCAACTTTTCCTCAAAAATCCCTTTCTTGAAAATTTACTTTTGAAGGAAA
6028123 ATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTT-GAA-AATTTATTT
196 ATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAATAATTTATTT
* *
6028172 TTCTTTTAAAGAAAAATCAAAATAAAAAAATGAAAATAAAAAGGAATGAAAGAATGATTTTTTTT
1 TT-ATTTAAAGAAAAATCAAAATAAAAAAATAAAAATAAAAAGGAATGAAAGAATGA--TTTTTT
6028237 TTTGTGTAGGGAAAATTGATACTTTCAAC-TTTTCCCTAAAAATATTTTTTTTG-AAATTTCGAT
63 TTTGTGTAGGGAAAATTGATACTTTCAACTTTTTCCC-AAAAATA--TTTTTTGAAAATTTCGA-
* *
6028300 TTTTCAAGGAAAATGGATACTTTCAACTTTTTCTCAAAAAT-CCTTTTTTGAAAATTTACTTTT-
124 TTTTCAAGGAAAATGGATACTTTCAACTTTTCCTCAAAAATCCCTTTCTTGAAAATTTACTTTTG
* **
6028363 AAGGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTGGAATTTTTTATTT
189 AAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAATAATTTATTT
6028422 TTATTTAAAGAAAATAT-AATAAT-AAAAAATAAAAATAAAAA
1 TTATTTAAAGAAAA-ATCAA-AATAAAAAAATAAAAATAAAAA
6028463 TAAAAAGAAT
Statistics
Matches: 267, Mismatches: 12, Indels: 19
0.90 0.04 0.06
Matches are distributed among these distances:
244 2 0.01
245 52 0.19
246 7 0.03
247 77 0.29
248 36 0.13
249 79 0.30
250 14 0.05
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (247 bp):
TTATTTAAAGAAAAATCAAAATAAAAAAATAAAAATAAAAAGGAATGAAAGAATGATTTTTTTTT
GTGTAGGGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAAATTTCGATTTTCAA
GGAAAATGGATACTTTCAACTTTTCCTCAAAAATCCCTTTCTTGAAAATTTACTTTTGAAGGAAA
ATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAATAATTTATTT
Found at i:6028414 original size:58 final size:60
Alignment explanation
Indices: 6028246--6028414 Score: 229
Period size: 58 Copynumber: 2.8 Consensus size: 60
6028236 TTTTGTGTAG
* *
6028246 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTCGATTTTTCAA
1 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTGAAATTTC-ACTTTTCAA
* **
6028307 GGAAAATGGATACTTTCAACTTTTT-CTCAAAAAT-CCTTTTTTGAAAATTT-ACTTTT-AA
1 GGAAAATTGATACTTTCAACTTTTTCCT-AAAAATATTTTTTTTG-AAATTTCACTTTTCAA
*
6028365 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTGGAATTT
1 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTGAAATTT
6028415 TTTATTTTTA
Statistics
Matches: 95, Mismatches: 9, Indels: 11
0.83 0.08 0.10
Matches are distributed among these distances:
58 37 0.39
59 14 0.15
60 9 0.09
61 35 0.37
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.46
Consensus pattern (60 bp):
GGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTGAAATTTCACTTTTCAA
Found at i:6029520 original size:3 final size:3
Alignment explanation
Indices: 6029514--6029556 Score: 70
Period size: 3 Copynumber: 14.3 Consensus size: 3
6029504 ATATTAAAAA
6029514 AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT AAT -AT AAT AAT A
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT A
6029557 TGTAACTATA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6029520 original size:16 final size:18
Alignment explanation
Indices: 6029515--6029556 Score: 63
Period size: 16 Copynumber: 2.5 Consensus size: 18
6029505 TATTAAAAAA
6029515 ATAATAAT-AATAATAA-
1 ATAATAATAAATAATAAT
6029531 ATAATAAT-AATAATAAT
1 ATAATAATAAATAATAAT
6029548 ATAATAATA
1 ATAATAATA
6029557 TGTAACTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 16 0.67
17 8 0.33
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
ATAATAATAAATAATAAT
Found at i:6029635 original size:17 final size:17
Alignment explanation
Indices: 6029613--6029652 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
6029603 ACAGATATAC
6029613 AAAAAAGA-AAAAAGAGA
1 AAAAAAGAGAAAAAGA-A
*
6029630 AAAAAAGAGAGAAAGAA
1 AAAAAAGAGAAAAAGAA
6029647 AAAAAA
1 AAAAAA
6029653 AACATACAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAAAAGAGAAAAAGAA
Found at i:6029653 original size:18 final size:17
Alignment explanation
Indices: 6029613--6029653 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
6029603 ACAGATATAC
*
6029613 AAAAAAGAAAAAAGAGA
1 AAAAAAGAAAAAAGAAA
*
6029630 AAAAAAGAGAGAAAGAAA
1 AAAAAAGA-AAAAAGAAA
6029648 AAAAAA
1 AAAAAA
6029654 ACATACAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAAAAGAAAAAAGAAA
Found at i:6029853 original size:24 final size:24
Alignment explanation
Indices: 6029823--6029883 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
6029813 AACATTGTCA
6029823 TTTTTTGTTTTTTGTATATAT-ATT
1 TTTTTTGTTTTTTGT-TATATGATT
* * * *
6029847 TTTTTTGTGTTTTGTTTTTTGTTT
1 TTTTTTGTTTTTTGTTATATGATT
6029871 TTTTTTGTTTTTT
1 TTTTTTGTTTTTT
6029884 TTTTTATCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 3 0.10
24 28 0.90
ACGTcount: A:0.07, C:0.00, G:0.11, T:0.82
Consensus pattern (24 bp):
TTTTTTGTTTTTTGTTATATGATT
Found at i:6029864 original size:14 final size:12
Alignment explanation
Indices: 6029845--6029888 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
6029835 TGTATATATA
*
6029845 TTTTTTTTGTGT
1 TTTTTTTTTTGT
*
6029857 TTTGTTTTTTG-
1 TTTTTTTTTTGT
6029868 -TTTTTTTTTGT
1 TTTTTTTTTTGT
6029879 TTTTTTTTTT
1 TTTTTTTTTT
6029889 ATCAAAGCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 9 0.33
12 18 0.67
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (12 bp):
TTTTTTTTTTGT
Found at i:6029871 original size:22 final size:22
Alignment explanation
Indices: 6029846--6029888 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
6029836 GTATATATAT
6029846 TTTTTTTGTGTTTTGTTTTTTG
1 TTTTTTTGTGTTTTGTTTTTTG
* *
6029868 TTTTTTTTTGTTTTTTTTTTT
1 TTTTTTTGTGTTTTGTTTTTT
6029889 ATCAAAGCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (22 bp):
TTTTTTTGTGTTTTGTTTTTTG
Found at i:6029989 original size:41 final size:41
Alignment explanation
Indices: 6029895--6030305 Score: 679
Period size: 41 Copynumber: 10.0 Consensus size: 41
6029885 TTTTATCAAA
* * *
6029895 GCTCCTCTAAATAGAGGCTCAACGACTTTAAGAAACA-TAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT--GAAA-AGTAAATT
6029938 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
6029979 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAA-TAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
6030019 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
6030060 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
6030101 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
6030142 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
6030184 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
6030225 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
6030267 GCTCCTCTAAACAGAGGCA--ACGGAACTTTG-AAAGTAAAT
1 GCTCCTCTAAACAGAGGCACCAC-G-ACTTTGAAAAGTAAAT
6030306 ACTCCTAGAC
Statistics
Matches: 355, Mismatches: 7, Indels: 15
0.94 0.02 0.04
Matches are distributed among these distances:
40 52 0.15
41 202 0.57
42 75 0.21
43 26 0.07
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:6030212 original size:83 final size:82
Alignment explanation
Indices: 6029895--6030305 Score: 679
Period size: 83 Copynumber: 5.0 Consensus size: 82
6029885 TTTTATCAAA
* * *
6029895 GCTCCTCTAAATAGAGGCTCAACGACTTTAAGAAACA-TAAATTGCTCCTCTAAACAGAGGCACC
1 GCTCCTCTAAACAGAGGCACCACGACTTT--GAAA-AGTAAATTGCTCCTCTAAACAGAGGCACC
6029959 ACGACTTTGAAAAGTAAATT
63 ACGACTTTGAAAAGTAAATT
6029979 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAA-TAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
6030043 ACTTTGAAAAGTAAATT
66 ACTTTGAAAAGTAAATT
6030060 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
*
6030125 ACTTTGGAAAGTAAATT
66 ACTTTGAAAAGTAAATT
6030142 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
6030207 GACTTTGAAAAGTAAATT
65 GACTTTGAAAAGTAAATT
*
6030225 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--AC
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
6030288 GGAACTTTG-AAAGTAAAT
65 -G-ACTTTGAAAAGTAAAT
6030306 ACTCCTAGAC
Statistics
Matches: 317, Mismatches: 6, Indels: 10
0.95 0.02 0.03
Matches are distributed among these distances:
81 84 0.26
82 89 0.28
83 118 0.37
84 26 0.08
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (82 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
ACTTTGAAAAGTAAATT
Found at i:6030249 original size:124 final size:123
Alignment explanation
Indices: 6029895--6030305 Score: 679
Period size: 124 Copynumber: 3.3 Consensus size: 123
6029885 TTTTATCAAA
* * *
6029895 GCTCCTCTAAATAGAGGCTCAACGACTTTAAGAAACA-TAAATTGCTCCTCTAAACAGAGGCACC
1 GCTCCTCTAAACAGAGGCACCACGACTTT--GAAA-AGTAAATTGCTCCTCTAAACAGAGGCACC
*
6029959 ACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT-GAAAATAAATT
63 ACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
6030019 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
6030084 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
66 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
6030142 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
6030207 GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
65 GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATT
6030267 GCTCCTCTAAACAGAGGCA--ACGGAACTTTG-AAAGTAAAT
1 GCTCCTCTAAACAGAGGCACCAC-G-ACTTTGAAAAGTAAAT
6030306 ACTCCTAGAC
Statistics
Matches: 276, Mismatches: 5, Indels: 13
0.94 0.02 0.04
Matches are distributed among these distances:
121 1 0.00
122 80 0.29
123 50 0.18
124 111 0.40
125 34 0.12
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (123 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
Found at i:6031552 original size:9 final size:9
Alignment explanation
Indices: 6031532--6031581 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
6031522 TTTGAATCTC
6031532 TTTTTTT-A
1 TTTTTTTCA
6031540 -TTTTTTCA
1 TTTTTTTCA
6031548 -TTTTTTCA
1 TTTTTTTCA
* *
6031556 TTTTTTCCCT
1 TTTTTT-TCA
6031566 TTTTTTTCA
1 TTTTTTTCA
6031575 TTTTTTT
1 TTTTTTT
6031582 TTCTTTTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
7 6 0.17
8 9 0.26
9 13 0.37
10 7 0.20
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:6031580 original size:8 final size:8
Alignment explanation
Indices: 6031532--6031562 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
6031522 TTTGAATCTC
*
6031532 TTTTTTTA
1 TTTTTTCA
6031540 TTTTTTCA
1 TTTTTTCA
6031548 TTTTTTCA
1 TTTTTTCA
6031556 TTTTTTC
1 TTTTTTC
6031563 CCTTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTTCA
Found at i:6031588 original size:19 final size:18
Alignment explanation
Indices: 6031540--6031590 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
6031530 TCTTTTTTTA
*
6031540 TTTTTTCATTTTTTCATT
1 TTTTTTCTTTTTTTCATT
**
6031558 TTTTCCCTTTTTTTTCATTT
1 TTTTTTC-TTTTTTTCA-TT
6031578 TTTTTTCTTTTTT
1 TTTTTTCTTTTTT
6031591 CTCTTTTCTC
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 5 0.19
19 14 0.54
20 7 0.27
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTTCTTTTTTTCATT
Found at i:6031588 original size:27 final size:27
Alignment explanation
Indices: 6031540--6031606 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
6031530 TCTTTTTTTA
*
6031540 TTTTTTCATTTTTTCATTTTTTCCCTT
1 TTTTTTCATTTTTTCATTTTTTCCCTC
* **
6031567 TTTTTTCATTTTTT-TTTCTTTTTTCTC
1 TTTTTTCATTTTTTCATT-TTTTCCCTC
*
6031594 TTTTCTCATTTTT
1 TTTTTTCATTTTT
6031607 CATCCATATC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (27 bp):
TTTTTTCATTTTTTCATTTTTTCCCTC
Found at i:6036544 original size:21 final size:22
Alignment explanation
Indices: 6036495--6036544 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 22
6036485 TAAATAATGA
6036495 ATATTTATTTATATAAAAAAGT
1 ATATTTATTTATATAAAAAAGT
* *
6036517 A-AATTATTT-T-TAAAAATTGT
1 ATATTTATTTATATAAAAA-AGT
6036537 ATATTTAT
1 ATATTTAT
6036545 AATTATAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
19 6 0.26
20 4 0.17
21 12 0.52
22 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (22 bp):
ATATTTATTTATATAAAAAAGT
Found at i:6038402 original size:14 final size:13
Alignment explanation
Indices: 6038379--6038411 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
6038369 AACATCAACG
6038379 AAAAAA-AAACCA
1 AAAAAATAAACCA
6038391 TAAAAAATAAACCA
1 -AAAAAATAAACCA
6038405 AAAAAAT
1 AAAAAAT
6038412 GAAATCAACG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.79, C:0.12, G:0.00, T:0.09
Consensus pattern (13 bp):
AAAAAATAAACCA
Found at i:6044820 original size:59 final size:59
Alignment explanation
Indices: 6044745--6044963 Score: 295
Period size: 58 Copynumber: 3.7 Consensus size: 59
6044735 TTTGTACATG
*
6044745 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTTG-AAACTTTAATTTCGA
1 GGAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTTTGAAAACTTTAATTTTGA
* ** * * *
6044804 GGAAAATTGATGCTTTCAACTTTTCCTCAAAAAT-TCATCTTTGAAAAC-TTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTTTGAAAACTTTAATTTTGA
6044862 GGAAAATTGATACTTTCAACTTTTCTCCAAAAATA--TTTTTTGAAAACTTTAATTTTGA
1 GGAAAATTGATACTTTCAACTTTTC-CCAAAAATATTTTTTTTGAAAACTTTAATTTTGA
*
6044920 AGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTG
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTTTTG
6044964 GATTTTATTT
Statistics
Matches: 139, Mismatches: 13, Indels: 15
0.83 0.08 0.09
Matches are distributed among these distances:
57 10 0.07
58 90 0.65
59 32 0.23
60 7 0.05
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.43
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTTGAAAACTTTAATTTTGA
Found at i:6045031 original size:21 final size:22
Alignment explanation
Indices: 6045001--6045041 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
6044991 AAATAAAATG
6045001 AAAGTGAAAATAAAAATAAAGA
1 AAAGTGAAAATAAAAATAAAGA
6045023 AAAGT-AAAATAAAAATAAA
1 AAAGTGAAAATAAAAATAAA
6045042 AAATAAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.15
Consensus pattern (22 bp):
AAAGTGAAAATAAAAATAAAGA
Found at i:6045059 original size:18 final size:18
Alignment explanation
Indices: 6044978--6045050 Score: 69
Period size: 21 Copynumber: 3.9 Consensus size: 18
6044968 TTATTTAAAG
*
6044978 AAAATAAATAATAAAAT-
1 AAAATAAAAAATAAAATA
* *
6044995 AAAAT-GAAAGTGAAAATA
1 AAAATAAAAAAT-AAAATA
6045013 AAAATAAAGAAAAGTAAAATA
1 AAAAT-AA-AAAA-TAAAATA
6045034 AAAATAAAAAATAAAAT
1 AAAATAAAAAATAAAAT
6045051 GAAGATAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
16 3 0.07
17 10 0.22
18 11 0.24
19 4 0.09
20 2 0.04
21 14 0.31
22 1 0.02
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (18 bp):
AAAATAAAAAATAAAATA
Found at i:6045949 original size:16 final size:16
Alignment explanation
Indices: 6045928--6045960 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6045918 CTTCAGCCGA
*
6045928 AAAAAATCAAAAAAAT
1 AAAAAATAAAAAAAAT
6045944 AAAAAATAAAAAAAAT
1 AAAAAATAAAAAAAAT
6045960 A
1 A
6045961 TTAGTAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (16 bp):
AAAAAATAAAAAAAAT
Found at i:6046053 original size:22 final size:22
Alignment explanation
Indices: 6046009--6046062 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
6045999 AAATTAACAT
6046009 ATAAATTA-AAAATAATAATAG
1 ATAAATTATAAAATAATAATAG
*
6046030 ATAAATTATAACAT-ATAAATAG
1 ATAAATTATAAAATAAT-AATAG
*
6046052 ATAAATAATAA
1 ATAAATTATAA
6046063 TAAATATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 10 0.34
22 19 0.66
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (22 bp):
ATAAATTATAAAATAATAATAG
Found at i:6046071 original size:26 final size:26
Alignment explanation
Indices: 6046042--6046102 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
6046032 AAATTATAAC
*
6046042 ATATAAATAGATAAATAATAATAAAT
1 ATATAAATAGATAAATAAAAATAAAT
* * *
6046068 ATATAACTAGGTAAATAAAAATATAT
1 ATATAAATAGATAAATAAAAATAAAT
6046094 ATATAAATA
1 ATATAAATA
6046103 TTAACAGAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (26 bp):
ATATAAATAGATAAATAAAAATAAAT
Found at i:6046197 original size:15 final size:14
Alignment explanation
Indices: 6046143--6046202 Score: 56
Period size: 15 Copynumber: 4.4 Consensus size: 14
6046133 AAAAAAGAAA
6046143 AAATAA-TAATAAT
1 AAATAAGTAATAAT
*
6046156 AAA-GA-TATATATAT
1 AAATAAGTA-ATA-AT
6046170 AAAT-AGTAATAAT
1 AAATAAGTAATAAT
6046183 AAATAAGTAAATAAT
1 AAATAAGT-AATAAT
6046198 AAATA
1 AAATA
6046203 CATAAAAGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
12 3 0.08
13 12 0.30
14 12 0.30
15 13 0.32
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (14 bp):
AAATAAGTAATAAT
Found at i:6046207 original size:8 final size:7
Alignment explanation
Indices: 6046143--6046208 Score: 57
Period size: 8 Copynumber: 9.4 Consensus size: 7
6046133 AAAAAAGAAA
6046143 AAATAAT
1 AAATAAT
6046150 -AATAAT
1 AAATAAT
*
6046156 AAA-GAT
1 AAATAAT
*
6046162 ATATATAT
1 AAATA-AT
*
6046170 AAATAGT
1 AAATAAT
6046177 -AATAAT
1 AAATAAT
6046183 AAATAAGT
1 AAATAA-T
6046191 AAATAAT
1 AAATAAT
6046198 AAATACAT
1 AAATA-AT
6046206 AAA
1 AAA
6046209 AGATAAAGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
6 15 0.32
7 14 0.30
8 18 0.38
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.29
Consensus pattern (7 bp):
AAATAAT
Found at i:6046241 original size:8 final size:8
Alignment explanation
Indices: 6046230--6046287 Score: 50
Period size: 8 Copynumber: 7.6 Consensus size: 8
6046220 ATATATATAT
6046230 ATAAAAAA
1 ATAAAAAA
6046238 ATAAAAAA
1 ATAAAAAA
*
6046246 AT-ATAAA
1 ATAAAAAA
*
6046253 AT-ATAAA
1 ATAAAAAA
*
6046260 ATACAAAA
1 ATAAAAAA
* *
6046268 ATAATAAT
1 ATAAAAAA
6046276 A-AAAAAA
1 ATAAAAAA
6046283 ATAAA
1 ATAAA
6046288 GTGGACCAAC
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
7 18 0.45
8 22 0.55
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (8 bp):
ATAAAAAA
Found at i:6046253 original size:15 final size:14
Alignment explanation
Indices: 6046180--6046287 Score: 56
Period size: 15 Copynumber: 7.0 Consensus size: 14
6046170 AAATAGTAAT
* *
6046180 AATAAATAAGTAAA
1 AATAAAAAAATAAA
* *
6046194 TAATAAATACATAAA
1 -AATAAAAAAATAAA
6046209 AGATAAAGAAAATATATA
1 A-ATAAA-AAAATA-A-A
6046227 TATATAAAAAAATAAA
1 -A-ATAAAAAAATAAA
6046243 AA-AATATAAAATATAA
1 AATAA-A-AAAATA-AA
* *
6046259 AATACAAAAATAAT
1 AATAAAAAAATAAA
6046273 AATAAAAAAAATAAA
1 AAT-AAAAAAATAAA
6046288 GTGGACCAAC
Statistics
Matches: 74, Mismatches: 9, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
13 2 0.03
14 7 0.09
15 39 0.53
16 10 0.14
17 3 0.04
18 7 0.09
19 6 0.08
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (14 bp):
AATAAAAAAATAAA
Found at i:6046260 original size:22 final size:23
Alignment explanation
Indices: 6046132--6046287 Score: 84
Period size: 22 Copynumber: 6.5 Consensus size: 23
6046122 AAGAAAGAAG
*
6046132 AAAAAAA-GAAAAAATAATAATA
1 AAAAAAATAAAAAAATAATAATA
* * * * * *
6046154 ATAAAGATATATATATAAATAGTA
1 AAAAAAATAAAAAAAT-AATAATA
* **
6046178 ATAATAAATAAGTAAATAATAAATA
1 A-AAAAAATAAAAAAATAAT-AATA
*
6046203 CATAAAAGATAAAGAAAATATATATATA
1 -A-AAAAAATAAA-AAAATA-ATA-ATA
6046231 TAAAAAAATAAAAAAAT-ATAA-A
1 -AAAAAAATAAAAAAATAATAATA
* *
6046253 ATATAAAATACAAAAATAATAATA
1 A-AAAAAATAAAAAAATAATAATA
6046277 AAAAAAATAAA
1 AAAAAAATAAA
6046288 GTGGACCAAC
Statistics
Matches: 99, Mismatches: 24, Indels: 21
0.69 0.17 0.15
Matches are distributed among these distances:
21 1 0.01
22 19 0.19
23 17 0.17
24 15 0.15
25 12 0.12
26 14 0.14
27 15 0.15
28 6 0.06
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.23
Consensus pattern (23 bp):
AAAAAAATAAAAAAATAATAATA
Found at i:6046274 original size:33 final size:34
Alignment explanation
Indices: 6046217--6046280 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
6046207 AAAGATAAAG
* *
6046217 AAAATATATATATATAAAAAAATAA-AAAAATAT
1 AAAATATATAAATACAAAAAAATAATAAAAATAT
6046250 AAAATATA-AAATACAAAAATAATAATAAAAA
1 AAAATATATAAATACAAAAA-AATAATAAAAA
6046281 AAATAAAGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 9 0.33
33 13 0.48
34 5 0.19
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (34 bp):
AAAATATATAAATACAAAAAAATAATAAAAATAT
Found at i:6046625 original size:42 final size:42
Alignment explanation
Indices: 6046466--6046860 Score: 372
Period size: 42 Copynumber: 9.1 Consensus size: 42
6046456 ATTTGATCAA
* *
6046466 GGCTCATCTAAGCAGAGGCTCAACGACTTTGAAAAACATAAACAAT
1 GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAA-AT--A-AAT
* *
6046512 -GTTCCTCTAATCAGAGGCTCAATGACTTTGAAAATGAATAAA-
1 GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAA--AATAAAT
* * *
6046554 AGCTCCTCTAATCAGAGGCTTAATGACTTTGAAAAAATAAAT
1 GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAAT
* * *
6046596 GGCTCATCTAATGAGAGGCTCAACAACTTTGAAAAGATATAAACAAT
1 GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAA-A-AT--A-AAT
*
6046643 -GCTCCTCTAATCAGAGGCTCAACAACTTTGGAAAATAAATAAA-
1 GGCTCCTCTAATCAGAGGCTCAACGACTTT-G-AAA-AAATAAAT
* * *
6046686 GGCTCATCTAATCAGAGGCTTAACGACTTTGGAAAAATAAAT
1 GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAAT
* * * * * *
6046728 GGCTCCTTTAATTAGAGGCTCAACAACTTTGGAAAGATAAACAA
1 GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAAT-AA-AT
* *
6046772 AGCTCCTCTAATCAGAGGCTCGACGACTTTGAAAATGAATAAA-
1 GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAA--AATAAAT
*
6046815 -GCTCCTTTAATCAGAGGCTCAACGACTTTG-AAAAATAAAT
1 GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAAT
6046855 GGCTCC
1 GGCTCC
6046861 CTGACAATCA
Statistics
Matches: 295, Mismatches: 34, Indels: 45
0.79 0.09 0.12
Matches are distributed among these distances:
39 6 0.02
41 21 0.07
42 91 0.31
43 38 0.13
44 62 0.21
45 33 0.11
46 32 0.11
47 7 0.02
48 4 0.01
49 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (42 bp):
GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAAT
Found at i:6046716 original size:132 final size:128
Alignment explanation
Indices: 6046466--6046859 Score: 560
Period size: 132 Copynumber: 3.0 Consensus size: 128
6046456 ATTTGATCAA
* *
6046466 GGCTCATCTAA-GCAGAGGCTCAACGACTTTGAAAA-ACATAAACAATGTTCCTCTAATCAGAGG
1 GGCTCATCTAATG-AGAGGCTCAACAACTTTGAAAAGA-ATAAACAATGCTCCTCTAATCAGAGG
* *
6046529 CTCAATGACTTTGAAAATGAATAAAAGCTCCTCTAATCAGAGGCTTAATGACTTTGAAAAAATAA
64 CTCAACGACTTTGAAAATGAAT-AAAGCTCCTCTAATCAGAGGCTTAACGACTTTG-AAAAATAA
6046594 AT
127 AT
6046596 GGCTCATCTAATGAGAGGCTCAACAACTTTGAAAAGATATAAACAATGCTCCTCTAATCAGAGGC
1 GGCTCATCTAATGAGAGGCTCAACAACTTTGAAAAGA-ATAAACAATGCTCCTCTAATCAGAGGC
* * *
6046661 TCAACAACTTTGGAAAATAAATAAAGGCTCATCTAATCAGAGGCTTAACGACTTTGGAAAAATAA
65 TCAACGACTTT-GAAAATGAATAAA-GCTCCTCTAATCAGAGGCTTAACGACTTT-GAAAAATAA
6046726 AT
127 AT
* * * * *
6046728 GGCTCCTTTAATTAGAGGCTCAACAACTTTGGAAAG-ATAAACAAAGCTCCTCTAATCAGAGGCT
1 GGCTCATCTAATGAGAGGCTCAACAACTTTGAAAAGAATAAACAATGCTCCTCTAATCAGAGGCT
* * *
6046792 CGACGACTTTGAAAATGAATAAAGCTCCTTTAATCAGAGGCTCAACGACTTTGAAAAATAAAT
66 CAACGACTTTGAAAATGAATAAAGCTCCTCTAATCAGAGGCTTAACGACTTTGAAAAATAAAT
6046855 GGCTC
1 GGCTC
6046860 CCTGACAATC
Statistics
Matches: 240, Mismatches: 19, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
127 16 0.07
128 26 0.11
129 12 0.05
130 67 0.28
131 40 0.17
132 78 0.32
133 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (128 bp):
GGCTCATCTAATGAGAGGCTCAACAACTTTGAAAAGAATAAACAATGCTCCTCTAATCAGAGGCT
CAACGACTTTGAAAATGAATAAAGCTCCTCTAATCAGAGGCTTAACGACTTTGAAAAATAAAT
Found at i:6046759 original size:86 final size:85
Alignment explanation
Indices: 6046467--6046854 Score: 392
Period size: 86 Copynumber: 4.5 Consensus size: 85
6046457 TTTGATCAAG
* * * * * * * *
6046467 GCTCATCTAAGCAGAGGCTCAACGACTTTGAAAAACATAAA-CAATGTTCCTCTAATCAGAGGCT
1 GCTCCTCTAATCAGAGGCTCAACAACTTTG-GAAA-ATAAATAAAGGCTCATCTAATCAGAGGCT
*
6046531 CAATGACTTTGAAAATGAATAAAA
64 CAACGACTTTGAAAA-GAAT-AAA
* ** *
6046555 GCTCCTCTAATCAGAGGCTTAATGACTTT-G-AAA-AAATAAATGGCTCATCTAATGAGAGGCTC
1 GCTCCTCTAATCAGAGGCTCAACAACTTTGGAAAATAAATAAA-GGCTCATCTAATCAGAGGCTC
*
6046617 AACAACTTTGAAAAGATATAAACAA
65 AACGACTTTGAAAAGA-AT--A-AA
*
6046642 TGCTCCTCTAATCAGAGGCTCAACAACTTTGGAAAATAAATAAAGGCTCATCTAATCAGAGGCTT
1 -GCTCCTCTAATCAGAGGCTCAACAACTTTGGAAAATAAATAAAGGCTCATCTAATCAGAGGCTC
*
6046707 AACGACTTTGGAAA-AATAAA
65 AACGACTTTGAAAAGAATAAA
* * * *
6046727 TGGCTCCTTTAATTAGAGGCTCAACAACTTTGGAAAGATAAACAAA-GCTCCTCTAATCAGAGGC
1 --GCTCCTCTAATCAGAGGCTCAACAACTTTGGAAA-ATAAATAAAGGCTCATCTAATCAGAGGC
*
6046791 TCGACGACTTTGAAAATGAATAAA
63 TCAACGACTTTGAAAA-GAATAAA
* * *
6046815 GCTCCTTTAATCAGAGGCTCAACGACTTTGAAAAATAAAT
1 GCTCCTCTAATCAGAGGCTCAACAACTTTGGAAAATAAAT
6046855 GGCTCCCTGA
Statistics
Matches: 256, Mismatches: 31, Indels: 29
0.81 0.10 0.09
Matches are distributed among these distances:
83 3 0.01
84 5 0.02
85 40 0.16
86 96 0.38
87 10 0.04
88 59 0.23
89 2 0.01
90 34 0.13
91 7 0.03
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (85 bp):
GCTCCTCTAATCAGAGGCTCAACAACTTTGGAAAATAAATAAAGGCTCATCTAATCAGAGGCTCA
ACGACTTTGAAAAGAATAAA
Found at i:6047861 original size:16 final size:16
Alignment explanation
Indices: 6047842--6047886 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
6047832 CATTCATTTT
6047842 TTTTCTTTTTTTTTAA
1 TTTTCTTTTTTTTTAA
6047858 TTTT-TTTCTTTTTTAA
1 TTTTCTTT-TTTTTTAA
6047874 TTTTCATTTTTTT
1 TTTTC-TTTTTTT
6047887 CTTTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 3 0.12
16 16 0.62
17 4 0.15
18 3 0.12
ACGTcount: A:0.11, C:0.07, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTCTTTTTTTTTAA
Found at i:6047863 original size:22 final size:21
Alignment explanation
Indices: 6047838--6047897 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
6047828 TTTTCATTCA
*
6047838 TTTTTTTTCTTTTTTTTTAAT
1 TTTTTTTTTTTTTTTTTTAAT
** *
6047859 TTTTTTCTTTTTTAATTTTCAT
1 TTTTTT-TTTTTTTTTTTTAAT
*
6047881 TTTTTTCTTTTTTTTTT
1 TTTTTTTTTTTTTTTTT
6047898 ATTTCAAGCA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
21 14 0.45
22 17 0.55
ACGTcount: A:0.08, C:0.07, G:0.00, T:0.85
Consensus pattern (21 bp):
TTTTTTTTTTTTTTTTTTAAT
Found at i:6058370 original size:60 final size:57
Alignment explanation
Indices: 6058279--6058552 Score: 318
Period size: 59 Copynumber: 4.6 Consensus size: 57
6058269 TGTACAGGGG
**
6058279 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAACTTTAATTTCGGGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAACTTT-ATTTCAAGA
**
6058338 AAAATTGATACTTTCAACTTTTTCCCCAAAAATA-TTTTTTGAAAACTTTAATTTTGAGA
1 AAAATTGATACTTTCAAC-TTTTCCCCAAAAATATTTTTTTG-AAACTTT-ATTTCAAGA
* *** * *
6058397 AAAATTGATACTTTCAACTTTTCCTCAAAACCCCTTTTTTTGAAAATTTATTCTTAAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAA-ATATTTTTTTGAAACTTTATT-TCAAGA
* * *
6058456 AAAATTGATACTTTCAACTTTTTCCCTAAATATATTTTTTGGAAAGCTTGT-TTTCAAAGA
1 AAAATTGATACTTTCAAC-TTTTCCCCAAAAATATTTTTTTGAAA-CTT-TATTTC-AAGA
6058516 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTT
6058553 GTTTTGGATT
Statistics
Matches: 187, Mismatches: 19, Indels: 18
0.83 0.08 0.08
Matches are distributed among these distances:
58 21 0.11
59 108 0.58
60 57 0.30
61 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.42
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAACTTTATTTCAAGA
Found at i:6058574 original size:118 final size:116
Alignment explanation
Indices: 6058279--6058575 Score: 364
Period size: 118 Copynumber: 2.5 Consensus size: 116
6058269 TGTACAGGGG
* ***
6058279 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAACTTTAATTTCGGGAAAAATT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAA-TTTTATTTAAAGAAAAATT
**
6058344 GATACTTTCAACTTTTTCCCCAAAAATATTTTTTGAAAACTTTAATTTTGAGA
65 GATACTTTCAACTTTTTCCCCAAAAATATTTTTTGAAAACTTT-ATTTAAAGA
* **** * *
6058397 AAAATTGATACTTTCAACTTTTCCTCAAAACCCCTTTTTTTGAAAATTTATTCTTAAGAAAAATT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTATT-TAAAGAAAAATT
* * *
6058462 GATACTTTCAACTTTTTCCCTAAATATATTTTTTGGAAAGCTTGT-TTTCAAAGA
65 GATACTTTCAACTTTTTCCCCAAAAATATTTTTT-GAAAACTT-TATTT-AAAGA
*
6058516 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTGTTTTG-GATTTTATTTAAAGAAA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTT-TTTTGAAATTTTATTTAAAGAAA
6058576 TAAATAATAA
Statistics
Matches: 151, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
117 5 0.03
118 91 0.60
119 49 0.32
120 6 0.04
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.43
Consensus pattern (116 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTATTTAAAGAAAAATTG
ATACTTTCAACTTTTTCCCCAAAAATATTTTTTGAAAACTTTATTTAAAGA
Found at i:6058606 original size:22 final size:21
Alignment explanation
Indices: 6058595--6058654 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
6058585 AAACAAAATG
6058595 AAAGTGAAAATAAAAATAAAGA
1 AAAGT-AAAATAAAAATAAAGA
6058617 AAAGTAAAATAAAAATAAA-A
1 AAAGTAAAATAAAAATAAAGA
* *
6058637 AAA-TAAAATGAAGATAAA
1 AAAGTAAAATAAAAATAAA
6058655 TAAACTAATC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
19 13 0.36
20 4 0.11
21 14 0.39
22 5 0.14
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAGTAAAATAAAAATAAAGA
Found at i:6059073 original size:19 final size:19
Alignment explanation
Indices: 6059028--6059066 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
6059018 AACTCCGGTT
* *
6059028 GAATATCACCGAATTCTGG
1 GAATTTCACCGAAATCTGG
6059047 GAATTTCACCGAAATCTGG
1 GAATTTCACCGAAATCTGG
6059066 G
1 G
6059067 TTTTTCATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (19 bp):
GAATTTCACCGAAATCTGG
Found at i:6059213 original size:19 final size:19
Alignment explanation
Indices: 6059191--6059233 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
6059181 TTTCATCGAA
6059191 AAATTCAAC-TGAAATATGG
1 AAATT-AACTTGAAATATGG
**
6059210 AAATTTTCTTGAAATATGG
1 AAATTAACTTGAAATATGG
6059229 AAATT
1 AAATT
6059234 TTCTAGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.35
Consensus pattern (19 bp):
AAATTAACTTGAAATATGG
Found at i:6059234 original size:19 final size:19
Alignment explanation
Indices: 6059200--6059243 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
6059190 AAAATTCAAC
6059200 TGAAATATGGAAATTTTCT
1 TGAAATATGGAAATTTTCT
6059219 TGAAATATGGAAATTTTCT
1 TGAAATATGGAAATTTTCT
*
6059238 AGAAAT
1 TGAAAT
6059244 TTCTAGAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.39
Consensus pattern (19 bp):
TGAAATATGGAAATTTTCT
Found at i:6059530 original size:8 final size:8
Alignment explanation
Indices: 6059517--6059546 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
6059507 ATTTTCAGCC
6059517 AAAAAAAT
1 AAAAAAAT
6059525 AAAAAAAT
1 AAAAAAAT
6059533 -AAAAAAT
1 AAAAAAAT
6059540 AAAAAAA
1 AAAAAAA
6059547 ATTATTAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:6059538 original size:15 final size:15
Alignment explanation
Indices: 6059518--6059546 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6059508 TTTTCAGCCA
6059518 AAAAAATAAAAAAAT
1 AAAAAATAAAAAAAT
6059533 AAAAAATAAAAAAA
1 AAAAAATAAAAAAA
6059547 ATTATTAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAAAATAAAAAAAT
Found at i:6059620 original size:21 final size:22
Alignment explanation
Indices: 6059595--6059643 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
6059585 GAAAATTAAC
6059595 AGATAAATTA-AAAATA-ATAAT
1 AGATAAATTATAAAATATA-AAT
*
6059616 AGATAAATTATAACATATAAAT
1 AGATAAATTATAAAATATAAAT
6059638 AGATAA
1 AGATAA
6059644 GTAATAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 10 0.40
22 14 0.56
23 1 0.04
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (22 bp):
AGATAAATTATAAAATATAAAT
Found at i:6059711 original size:10 final size:10
Alignment explanation
Indices: 6059696--6059729 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
6059686 ATATTAACAG
6059696 AAAAGAAAGA
1 AAAAGAAAGA
6059706 AAAAGAAAGA
1 AAAAGAAAGA
6059716 AGAAA-AAAGA
1 A-AAAGAAAGA
6059726 AAAA
1 AAAA
6059730 AATGATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 3 0.13
10 17 0.74
11 3 0.13
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (10 bp):
AAAAGAAAGA
Found at i:6059799 original size:8 final size:7
Alignment explanation
Indices: 6059736--6059855 Score: 60
Period size: 7 Copynumber: 17.3 Consensus size: 7
6059726 AAAAAATGAT
6059736 AATAAT-
1 AATAATA
6059742 AATAATA
1 AATAATA
*
6059749 AA-GATA
1 AATAATA
*
6059755 TATATATA
1 AATA-ATA
*
6059763 AAT-AGA
1 AATAATA
6059769 AATAATA
1 AATAATA
6059776 AATAAGTA
1 AATAA-TA
6059784 AATAATA
1 AATAATA
6059791 AATACATA
1 AATA-ATA
6059799 AA-AGATA
1 AATA-ATA
*
6059806 AAGAA-A
1 AATAATA
6059812 ATATATATA
1 A-ATA-ATA
*
6059821 TATATATA
1 AATA-ATA
6059829 AA-ATATA
1 AATA-ATA
6059836 AA-AAT-
1 AATAATA
6059841 AATAAT-
1 AATAATA
6059847 AATAATA
1 AATAATA
6059854 AA
1 AA
6059856 AAAAGTGGAC
Statistics
Matches: 92, Mismatches: 10, Indels: 23
0.74 0.08 0.18
Matches are distributed among these distances:
5 2 0.02
6 28 0.30
7 34 0.37
8 27 0.29
9 1 0.01
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (7 bp):
AATAATA
Found at i:6059800 original size:15 final size:15
Alignment explanation
Indices: 6059760--6059794 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
6059750 AGATATATAT
6059760 ATAAAT-AG-AAATA
1 ATAAATAAGTAAATA
6059773 ATAAATAAGTAAATA
1 ATAAATAAGTAAATA
6059788 ATAAATA
1 ATAAATA
6059795 CATAAAAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.30
14 2 0.10
15 12 0.60
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (15 bp):
ATAAATAAGTAAATA
Found at i:6062035 original size:14 final size:13
Alignment explanation
Indices: 6062012--6062044 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
6062002 AACATCAACG
6062012 AAAAAA-AAACCA
1 AAAAAATAAACCA
6062024 CAAAAAATAAACCA
1 -AAAAAATAAACCA
6062038 AAAAAAT
1 AAAAAAT
6062045 GAAATCAACG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.79, C:0.15, G:0.00, T:0.06
Consensus pattern (13 bp):
AAAAAATAAACCA
Found at i:6065474 original size:1 final size:1
Alignment explanation
Indices: 6065470--6065526 Score: 60
Period size: 1 Copynumber: 57.0 Consensus size: 1
6065460 TTTTCATTCA
* * * ** *
6065470 TTTTTTTTCTTTTTTTTATTTTTTTCTTTTTTTTTCATTTTTTCTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
6065527 CAAGCATAGT
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.04, C:0.07, G:0.00, T:0.89
Consensus pattern (1 bp):
T
Done.