Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 106 of 160
Found at i:20085340 original size:52 final size:51
Alignment explanation
Indices: 20085243--20085345 Score: 122
Period size: 52 Copynumber: 2.0 Consensus size: 51
20085233 TAGGATATGA
** *
20085243 AAGGTTTAGGGTTTTGATTTTTGAGTTTGGAGATTTTAGGGTTTGGGTTTT
1 AAGGTTTAGGGTTTTGATTTAGGAGTTTGGAGATTTTAGGGTTTGGATTTT
20085294 AAGGTTTTAGGGTTTTGATTTAAGGA-TTT-G-GATTTTAGGGATTTTGGATTTT
1 AAGG-TTTAGGGTTTTGATTT-AGGAGTTTGGAGATTTTAGGG--TTTGGATTTT
20085346 GGGTTTGGAT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
50 10 0.22
51 5 0.11
52 28 0.62
53 2 0.04
ACGTcount: A:0.18, C:0.00, G:0.31, T:0.50
Consensus pattern (51 bp):
AAGGTTTAGGGTTTTGATTTAGGAGTTTGGAGATTTTAGGGTTTGGATTTT
Found at i:20085341 original size:16 final size:16
Alignment explanation
Indices: 20085298--20085448 Score: 138
Period size: 16 Copynumber: 9.8 Consensus size: 16
20085288 GGTTTTAAGG
20085298 TTTTAGGG-TTTT-GA
1 TTTTAGGGATTTTGGA
*
20085312 -TTTAAGGA-TTTGGA
1 TTTTAGGGATTTTGGA
20085326 TTTTAGGGATTTTGGA
1 TTTTAGGGATTTTGGA
20085342 TTTT-GGG--TTTGGA
1 TTTTAGGGATTTTGGA
* **
20085355 TTTTAGGGGTTTCAGA
1 TTTTAGGGATTTTGGA
** *
20085371 TTTTAGGGGGTTTGAA
1 TTTTAGGGATTTTGGA
*
20085387 TTTAAGGGATTTTGGA
1 TTTTAGGGATTTTGGA
20085403 TTTTTAGGG-TTTTGGA
1 -TTTTAGGGATTTTGGA
*
20085419 TTTTATGAGATTTTGGA
1 TTTTA-GGGATTTTGGA
*
20085436 TTTTAGGGGTTTT
1 TTTTAGGGATTTT
20085449 AGAAACCTAT
Statistics
Matches: 111, Mismatches: 16, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
13 19 0.17
14 5 0.05
15 15 0.14
16 53 0.48
17 19 0.17
ACGTcount: A:0.18, C:0.01, G:0.31, T:0.50
Consensus pattern (16 bp):
TTTTAGGGATTTTGGA
Found at i:20085346 original size:36 final size:36
Alignment explanation
Indices: 20085274--20085346 Score: 85
Period size: 36 Copynumber: 2.0 Consensus size: 36
20085264 TGAGTTTGGA
* * * *
20085274 GATTTTAGGGTTTGGGTTTTAAGGTTTTAGGGTTTT
1 GATTTAAGGATTTGGATTTTAAGGTTTTAGGATTTT
*
20085310 GATTTAAGGATTTGGATTTTAGGGATTTT-GGATTTT
1 GATTTAAGGATTTGGATTTTAAGG-TTTTAGGATTTT
20085346 G
1 G
20085347 GGTTTGGATT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
36 27 0.87
37 4 0.13
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.51
Consensus pattern (36 bp):
GATTTAAGGATTTGGATTTTAAGGTTTTAGGATTTT
Found at i:20086948 original size:34 final size:32
Alignment explanation
Indices: 20086905--20086967 Score: 90
Period size: 34 Copynumber: 1.9 Consensus size: 32
20086895 TTTTTTTTGT
20086905 TTTTATTATTATAATTAATAATTATTTAAAAAAA
1 TTTTATTATTATAATT-ATAATTA-TTAAAAAAA
* *
20086939 TTTTATTATTATTATTATTATTATTAAAA
1 TTTTATTATTATAATTATAATTATTAAAA
20086968 TTAAAACAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 6 0.22
33 6 0.22
34 15 0.56
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (32 bp):
TTTTATTATTATAATTATAATTATTAAAAAAA
Found at i:20087083 original size:20 final size:20
Alignment explanation
Indices: 20087058--20087095 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
20087048 AATATATTAT
20087058 AATATAAAATGCCATGCAGC
1 AATATAAAATGCCATGCAGC
*
20087078 AATATAAAATGTCATGCA
1 AATATAAAATGCCATGCA
20087096 AATATATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.16, G:0.13, T:0.24
Consensus pattern (20 bp):
AATATAAAATGCCATGCAGC
Found at i:20087102 original size:20 final size:20
Alignment explanation
Indices: 20087058--20087104 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
20087048 AATATATTAT
*
20087058 AATATAAAATGCCATGCAGC
1 AATATAAAATGCCATGCAGA
*
20087078 AATATAAAATGTCATGCA-A
1 AATATAAAATGCCATGCAGA
20087097 ATATATAA
1 A-ATATAA
20087105 TCATGAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.51, C:0.13, G:0.11, T:0.26
Consensus pattern (20 bp):
AATATAAAATGCCATGCAGA
Found at i:20087216 original size:24 final size:23
Alignment explanation
Indices: 20087185--20087245 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 23
20087175 AATATCTTTC
20087185 AAATATAATATTC-ATCATACAAT
1 AAATATAATA-TCAATCATACAAT
20087208 AATATATAATATCATATCATACAAT
1 AA-ATATAATATCA-ATCATACAAT
*
20087233 AAATATAAAATCA
1 AAATATAATATCA
20087246 TGCAATAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
23 4 0.12
24 18 0.53
25 12 0.35
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (23 bp):
AAATATAATATCAATCATACAAT
Found at i:20087231 original size:25 final size:24
Alignment explanation
Indices: 20087198--20087246 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
20087188 TATAATATTC
*
20087198 ATCATACAATAATATATAATATCAT
1 ATCATACAATAA-ATATAAAATCAT
20087223 ATCATACAATAAATATAAAATCAT
1 ATCATACAATAAATATAAAATCAT
20087247 GCAATAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (24 bp):
ATCATACAATAAATATAAAATCAT
Found at i:20087394 original size:41 final size:41
Alignment explanation
Indices: 20087348--20087766 Score: 364
Period size: 41 Copynumber: 10.3 Consensus size: 41
20087338 AATAGACATA
* * *
20087348 CAATTAAATATATAATCATGCAATTAACAATGTAAAACATA
1 CAATTAAATATATAATCATGCAATTAACAATATAAATCATG
* *
20087389 TAATTAAATATCTAATCATGCAATTAACAATATAAATCATG
1 CAATTAAATATATAATCATGCAATTAACAATATAAATCATG
* *
20087430 CAATTAAATATATAATAATGTAATTAACAATATAAATCATG
1 CAATTAAATATATAATCATGCAATTAACAATATAAATCATG
* *
20087471 CAATTAAAAATATAATCATGCAATAAACAATATAAATCATG
1 CAATTAAATATATAATCATGCAATTAACAATATAAATCATG
* * * **
20087512 CAATAAAATATATGATCATGCAATTAATAGCATAAATCATG
1 CAATTAAATATATAATCATGCAATTAACAATATAAATCATG
* *
20087553 TAATCAAATATATAATCATGCAATT-A-AATATATAATCATG
1 CAATTAAATATATAATCATGCAATTAACAATATA-AATCATG
* *
20087593 CAATT-AATAATATAAAACATGCAATT-A-AATATATTATCATG
1 CAATTAAAT-ATAT-AATCATGCAATTAACAATATA-AATCATG
* * * * * *
20087634 TAATTACCAATATA-AAACATGCAAAT-A-TATAT-TATGATG
1 CAATTA--AATATATAATCATGCAATTAACAATATAAATCATG
* *
20087673 CAATTAACA-ATATAAAACATGCAATT-A-AATATATTATCATG
1 CAATTAA-ATATAT-AATCATGCAATTAACAATATA-AATCATG
* * *
20087714 CAATTAACA-ATATAAAACATGCAAAT-A-AATATATTATCATG
1 CAATTAA-ATATAT-AATCATGCAATTAACAATATA-AATCATG
20087755 CAATTAAATATA
1 CAATTAAATATA
20087767 AAATAATAAT
Statistics
Matches: 328, Mismatches: 38, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
37 4 0.01
38 1 0.00
39 34 0.10
40 16 0.05
41 267 0.81
43 3 0.01
44 3 0.01
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.32
Consensus pattern (41 bp):
CAATTAAATATATAATCATGCAATTAACAATATAAATCATG
Found at i:20087454 original size:61 final size:61
Alignment explanation
Indices: 20087354--20087766 Score: 394
Period size: 61 Copynumber: 6.7 Consensus size: 61
20087344 CATACAATTA
* * ** *
20087354 AATATATAATCATGCAATTAACA-ATGTAAAACATATAATTAAATATCTAATCATGCAATTAAC
1 AATATA-AATCATGCAATTAA-ATATAT-AATCATGCAATTAAATATATAATCATGCAATTAAC
* * *
20087417 AATATAAATCATGCAATTAAATATATAATAATGTAATTAACA-ATATAAATCATGCAATTAAA
1 AATATAAATCATGCAATTAAATATATAATCATGCAATTAA-ATATAT-AATCATGCAATTAAC
* * * *
20087479 AATAT-AATCATGCAA-TAAACAATATAAATCATGCAATAAAATATATGATCATGCAATTAAT
1 AATATAAATCATGCAATTAAA-TATAT-AATCATGCAATTAAATATATAATCATGCAATTAAC
** * * *
20087540 AGCATAAATCATGTAATCAAATATATAATCATGCAATTAAATATATAATCATGCAATTAAT
1 AATATAAATCATGCAATTAAATATATAATCATGCAATTAAATATATAATCATGCAATTAAC
* * * * *
20087601 AATATAAAACATGCAATTAAATATATTATCATGTAATTACCAATATA-AAACATGCAAAT-A-
1 AATATAAATCATGCAATTAAATATATAATCATGCAATTA--AATATATAATCATGCAATTAAC
* * * * *
20087661 TATAT-TATGATGCAATTAACA-ATATAAAACATGCAATTAAATATATTATCATGCAATTAAC
1 AATATAAATCATGCAATTAA-ATATAT-AATCATGCAATTAAATATATAATCATGCAATTAAC
* * *
20087722 AATATAAAACATGCAAATAAATATATTATCATGCAATTAAATATA
1 AATATAAATCATGCAATTAAATATATAATCATGCAATTAAATATA
20087767 AAATAATAAT
Statistics
Matches: 288, Mismatches: 45, Indels: 36
0.78 0.12 0.10
Matches are distributed among these distances:
58 6 0.02
59 24 0.08
60 20 0.07
61 134 0.47
62 89 0.31
63 15 0.05
ACGTcount: A:0.52, C:0.11, G:0.06, T:0.32
Consensus pattern (61 bp):
AATATAAATCATGCAATTAAATATATAATCATGCAATTAAATATATAATCATGCAATTAAC
Found at i:20087685 original size:80 final size:80
Alignment explanation
Indices: 20087424--20087769 Score: 325
Period size: 80 Copynumber: 4.3 Consensus size: 80
20087414 AACAATATAA
* * * *
20087424 ATCATGCAATTAAATATATAATA-ATGTAATTAACA-ATATAAATCATGCAATTAAAAATAT-AA
1 ATCATGCAATTAAA-ATATAAAACATGCAATTAA-ATATAT-TATCATGCAATTAACAATATAAA
* * *
20087486 TCATGC-AATAAACAATATAA
63 ACATGCAAAT-AA-TATAT-T
* * * * * *
20087506 ATCATGCAA-TAAAATATATGATCATGCAATT-AATAGCATAAATCATGTAA-TCA-AATATATA
1 ATCATGCAATTAAAATATA-AAACATGCAATTAAATA-TAT-TATCATGCAATTAACAATATA-A
* * *
20087567 ATCATGCAATTAAATATATA
62 AACATGCAAAT-AATATATT
* *
20087587 ATCATGCAATTAATAATATAAAACATGCAATTAAATATATTATCATGTAATTACCAATATAAAAC
1 ATCATGCAATTAA-AATATAAAACATGCAATTAAATATATTATCATGCAATTAACAATATAAAAC
20087652 ATGCAAAT-ATATATT
65 ATGCAAATAATATATT
*
20087667 ATGATGCAATTAACAATATAAAACATGCAATTAAATATATTATCATGCAATTAACAATATAAAAC
1 ATCATGCAATTAA-AATATAAAACATGCAATTAAATATATTATCATGCAATTAACAATATAAAAC
20087732 ATGCAAATAAATATATT
65 ATGCAAAT-AATATATT
20087749 ATCATGCAATT-AAATATAAAA
1 ATCATGCAATTAAAATATAAAA
20087770 TAATAATAAT
Statistics
Matches: 227, Mismatches: 23, Indels: 30
0.81 0.08 0.11
Matches are distributed among these distances:
80 95 0.42
81 28 0.12
82 83 0.37
83 21 0.09
ACGTcount: A:0.52, C:0.11, G:0.06, T:0.32
Consensus pattern (80 bp):
ATCATGCAATTAAAATATAAAACATGCAATTAAATATATTATCATGCAATTAACAATATAAAACA
TGCAAATAATATATT
Found at i:20087726 original size:102 final size:100
Alignment explanation
Indices: 20087355--20087746 Score: 349
Period size: 102 Copynumber: 3.9 Consensus size: 100
20087345 ATACAATTAA
* ** *
20087355 ATATATAATCATGCAATTAACAATGTAAAACATATAATTAAATATCT-AATCATGCAATTAACAA
1 ATATATAATCATGCAATTAACAATATAAAACATGCAATTAAATATATAAATCATGCAATTAA-AA
*
20087419 TATA-AATCATGCAATTAAATATATAATA-ATGTAATT
65 TATATAATCATGCAATTAAATATA-AA-ACATGTAAAT
* * * *
20087455 AACAATATAAATCATGCAATTAAAAATAT-AATCATGCAA-TAAACAATATAAATCATGCAA-TA
1 -A-TATAT-AATCATGCAATTAACAATATAAAACATGCAATTAAA-TATATAAATCATGCAATTA
* * * *
20087517 AAATATATGATCATGCAATTAATAGCATAAATCATGTAATCAA
62 AAATATATAATCATGCAATTAA-A-TATAAAACATGTAA--AT
* *
20087560 ATATATAATCATGCAATT-A-AATATATAATCATGCAATT-AATAATATAAAACATGCAATT-AA
1 ATATATAATCATGCAATTAACAATATA-AAACATGCAATTAAAT-ATATAAATCATGCAATTAAA
* * *
20087621 ATATATTATCATGTAATTACCAATATAAAACATGCAAAT
64 ATATATAATCATGCAATTA--AATATAAAACATGTAAAT
* * *
20087660 ATATATTATGATGCAATTAACAATATAAAACATGCAATTAAATATAT-TATCATGCAATTAACAA
1 ATATATAATCATGCAATTAACAATATAAAACATGCAATTAAATATATAAATCATGCAATTAA-AA
* *
20087724 TATA-AAACATGCAAATAAATATA
65 TATATAATCATGCAATTAAATATA
20087747 TTATCATGCA
Statistics
Matches: 238, Mismatches: 31, Indels: 46
0.76 0.10 0.15
Matches are distributed among these distances:
99 6 0.03
100 32 0.13
101 38 0.16
102 113 0.47
103 44 0.18
104 5 0.02
ACGTcount: A:0.52, C:0.11, G:0.06, T:0.31
Consensus pattern (100 bp):
ATATATAATCATGCAATTAACAATATAAAACATGCAATTAAATATATAAATCATGCAATTAAAAT
ATATAATCATGCAATTAAATATAAAACATGTAAAT
Found at i:20087776 original size:3 final size:3
Alignment explanation
Indices: 20087764--20087824 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
20087754 GCAATTAAAT
20087764 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
20087811 ATA ATA ATA ATA AT
1 ATA ATA ATA ATA AT
20087825 GCAATCACAC
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.04
3 55 0.96
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:20087879 original size:20 final size:20
Alignment explanation
Indices: 20087839--20087931 Score: 78
Period size: 20 Copynumber: 4.6 Consensus size: 20
20087829 TCACACAAAT
*
20087839 AAATAAATTGATAATCATGC
1 AAATAAATTAATAATCATGC
* *
20087859 AAATAAATTAATAACCGTGC
1 AAATAAATTAATAATCATGC
** * *
20087879 AAGCATATTAATAGTCATGC
1 AAATAAATTAATAATCATGC
* **
20087899 AAATATATTAATAAATCACAC
1 AAATAAATTAAT-AATCATGC
*
20087920 AAATATATTAAT
1 AAATAAATTAAT
20087932 CATATAAATA
Statistics
Matches: 58, Mismatches: 14, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
20 41 0.71
21 17 0.29
ACGTcount: A:0.51, C:0.12, G:0.08, T:0.30
Consensus pattern (20 bp):
AAATAAATTAATAATCATGC
Found at i:20088562 original size:6 final size:6
Alignment explanation
Indices: 20088551--20088579 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
20088541 TCTCACATTT
20088551 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
20088580 TACTAATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:20088952 original size:48 final size:47
Alignment explanation
Indices: 20088898--20088988 Score: 146
Period size: 47 Copynumber: 1.9 Consensus size: 47
20088888 GAAACTTTTG
** *
20088898 AAAATAAAATGGTCCCCCATAATTGAGGCTTTGGAACTTTGAAATTGA
1 AAAATAAAATCCT-CCCCACAATTGAGGCTTTGGAACTTTGAAATTGA
20088946 AAAATAAAATCCTCCCCACAATTGAGGCTTTGGAACTTTGAAA
1 AAAATAAAATCCTCCCCACAATTGAGGCTTTGGAACTTTGAAA
20088989 AATAAAATGC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
47 29 0.73
48 11 0.28
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.27
Consensus pattern (47 bp):
AAAATAAAATCCTCCCCACAATTGAGGCTTTGGAACTTTGAAATTGA
Found at i:20089017 original size:42 final size:42
Alignment explanation
Indices: 20088942--20089126 Score: 194
Period size: 43 Copynumber: 4.4 Consensus size: 42
20088932 AACTTTGAAA
* * *
20088942 TTGAAAAATAAAATCCTC-CCCACAATTGAGGCTTTGGAACT
1 TTGAAAAATAAAATGCTCTCCCACAACTGAGGCTTTAGAACT
* * *
20088983 TTGAAAAATAAAATGCTCTTCCACAACTGAGGCTTTGGAATT
1 TTGAAAAATAAAATGCTCTCCCACAACTGAGGCTTTAGAACT
* * * *
20089025 TTGGAAAAATAAAATGCT-TCTCTATAACTGAGGTTTTAGAAAT
1 TT-GAAAAATAAAATGCTCTC-CCACAACTGAGGCTTTAGAACT
* * * *
20089068 TTGAAAAAGTAAAATACTCCCCCACAACTGAGGTTTTAAAACTT
1 TTGAAAAA-TAAAATGCTCTCCCACAACTGAGGCTTTAGAAC-T
20089112 TTGAAAAATAAAATG
1 TTGAAAAATAAAATG
20089127 AGATCATTCT
Statistics
Matches: 121, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
41 17 0.14
42 29 0.24
43 65 0.54
44 10 0.08
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.30
Consensus pattern (42 bp):
TTGAAAAATAAAATGCTCTCCCACAACTGAGGCTTTAGAACT
Found at i:20089316 original size:13 final size:13
Alignment explanation
Indices: 20089298--20089322 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20089288 TTCCAAACAT
20089298 ATGCAATGAATGC
1 ATGCAATGAATGC
20089311 ATGCAATGAATG
1 ATGCAATGAATG
20089323 AAAAGATTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (13 bp):
ATGCAATGAATGC
Found at i:20095016 original size:262 final size:258
Alignment explanation
Indices: 20094699--20095197 Score: 662
Period size: 262 Copynumber: 1.9 Consensus size: 258
20094689 TGAGTGGATT
* * *
20094699 AGTGAAGTAATTTTTCTGCCAAAAATGCCTGTAGTAATCCCTTTAAAATTTGACTACGAGATTAT
1 AGTGAAGGAATTTTTCTGCCAAAAATGCCTGTAATAATCCCTTTAAAATTTGACTACGACATTAT
* *
20094764 TGAAGGCGTTTTAACTAAAATACACCTTTAATAATCCCAAAAAAA-TTTTAAAAGAAAATTATTA
66 TGAAGGCGTTTTAACAAAAAGACACCTTTAATAATCCCAAAAAAAGTTTTAAAA-AAAATTATTA
* *
20094828 AAGGCCTTTTTTTTTTTAGAAAACATCTTCAAAAATCCGATCCATTTTTTCAATAACTTGTTTAT
130 AAGG-C--ATTTTTTTTAGAAAACACCTTCAAAAATCCGATCCATTTTTTCAATAACTTGTTTAT
*
20094893 TGGAGGCAT-TTTTATGCCAAAAATACCTTCAATAATCCAATCCAAAATTTACTGATATAAAATT
192 TGAAGG--TGTTTTATGCCAAAAATACCTTCAATAATCCAATCCAAAATTTACTGATATAAAATT
20094957 TATA
255 TATA
* ** * *
20094961 AGTGAAGGCATTTTTCTGCTTAAAATGCTTTTAATAAT-CCTCTTAAAATTTGACTACGACATTA
1 AGTGAAGGAATTTTTCTGCCAAAAATGCCTGTAATAATCCCT-TTAAAATTTGACTACGACATTA
* * ** * * *
20095025 TTGAAGGTGTTTTTACAAAAAGATGCCTTTAATTATCCCAAAAAAAGTTTTAAAAAATATTATTG
65 TTGAAGGCGTTTTAACAAAAAGACACCTTTAATAATCCCAAAAAAAGTTTTAAAAAAAATTATTA
* * * * *
20095090 AAGGCATTTTTTTTAGAAAACACCTTCAATAATCTGGTCTATTTTTTCAATAGCTTGTTTATTGA
130 AAGGCATTTTTTTTAGAAAACACCTTCAAAAATCCGATCCATTTTTTCAATAACTTGTTTATTGA
* * *
20095155 AGGTGTTTTATGCCAAAAATATCTTTAATAATCCAGTCCAAAA
195 AGGTGTTTTATGCCAAAAATACCTTCAATAATCCAATCCAAAA
20095198 ATATTACGAG
Statistics
Matches: 206, Mismatches: 28, Indels: 10
0.84 0.11 0.04
Matches are distributed among these distances:
257 1 0.00
258 35 0.17
259 55 0.27
261 4 0.02
262 103 0.50
263 8 0.04
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (258 bp):
AGTGAAGGAATTTTTCTGCCAAAAATGCCTGTAATAATCCCTTTAAAATTTGACTACGACATTAT
TGAAGGCGTTTTAACAAAAAGACACCTTTAATAATCCCAAAAAAAGTTTTAAAAAAAATTATTAA
AGGCATTTTTTTTAGAAAACACCTTCAAAAATCCGATCCATTTTTTCAATAACTTGTTTATTGAA
GGTGTTTTATGCCAAAAATACCTTCAATAATCCAATCCAAAATTTACTGATATAAAATTTATA
Found at i:20101990 original size:160 final size:162
Alignment explanation
Indices: 20101713--20102070 Score: 413
Period size: 160 Copynumber: 2.2 Consensus size: 162
20101703 GAATGAATAA
* * * * *
20101713 ACTTTTTGTGCCATTAAAAGGTAAAAATGC-AAATTAATAGTTATTGTTCTGCTTTAATAGTTTT
1 ACTTTTTGTGCCATTAAAAGGTAAAAATACAAAATTAATAGTTATTATTCTGCTTTAACAATTTG
* * *
20101777 GATAGTTTCAATACATGATATTAAACTTAACCAAAGTATTGAACTTAGTTTCTATGATTGATATG
66 GATAGCTTCAATACATGATATTAAACTTAACCAAAGTATTAAACTTAGTTTCTACGATTGATATG
* *
20101842 TATGAAAAAGTTATTGTTTACGTCTATTTA-G
131 TATGAAAAAGTTATCGTTTACATCTATTTAGG
* * * * * **
20101873 ACTTTTTGTGCCGTTAAAAGATAAAAATACAAAATT-GTTGTTGTTATTCTTTTTTAACAATTTG
1 ACTTTTTGTGCCATTAAAAGGTAAAAATACAAAATTAATAGTTATTATTCTGCTTTAACAATTTG
** * * *
20101937 GATAGCTTCAATACATGATATTAAACTTGTCCGAA-TGATTAAACTTGGTTTCTACGGTTGATAT
66 GATAGCTTCAATACATGATATTAAACTTAACCAAAGT-ATTAAACTTAGTTTCTACGATTGATAT
* *
20102001 GTGTGAAAAAGTTGTCGTTTACATCTATTTAGG
130 GTATGAAAAAGTTATCGTTTACATCTATTTAGG
* * *
20102034 ACTATTTT-TGCCTTTTAAAGGCAAAAATAC-AAATTAA
1 ACT-TTTTGTGCCATTAAAAGGTAAAAATACAAAATTAA
20102071 ACTTTTGGAT
Statistics
Matches: 164, Mismatches: 29, Indels: 9
0.81 0.14 0.04
Matches are distributed among these distances:
159 1 0.01
160 132 0.80
161 27 0.16
162 4 0.02
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.41
Consensus pattern (162 bp):
ACTTTTTGTGCCATTAAAAGGTAAAAATACAAAATTAATAGTTATTATTCTGCTTTAACAATTTG
GATAGCTTCAATACATGATATTAAACTTAACCAAAGTATTAAACTTAGTTTCTACGATTGATATG
TATGAAAAAGTTATCGTTTACATCTATTTAGG
Found at i:20102090 original size:160 final size:158
Alignment explanation
Indices: 20101777--20102145 Score: 383
Period size: 160 Copynumber: 2.3 Consensus size: 158
20101767 TAATAGTTTT
* ** * * *
20101777 GATAGTTTCAATACATGATATTAAACTTAACCAAAGTATTGAACTTAGTTTCTATGATTGATATG
1 GATAGCTTCAATACATGATATTAAACTTGTCCAATG-ATTGAACTTGGTTTCTACGATTGATATG
* * *
20101842 TATGAAAAAGTTATTGTTTACGTCTATTTAGACTTTTTGTGCCGTTAAAAGATAAAAATACAAAA
65 TATGAAAAAGTTATCGTTTACATCTATTTAGACTTTTTGTGCCGTTAAAAGACAAAAATACAAAA
* * *
20101907 TTGTTGTTGTTATTCTTTTTTAACAATTTG
130 TTCTTGTTGTGATGC-TTTTTAACAATTTG
* *
20101937 GATAGCTTCAATACATGATATTAAACTTGTCCGAATGATTAAACTTGGTTTCTACGGTTGATATG
1 GATAGCTTCAATACATGATATTAAACTTGTCC-AATGATTGAACTTGGTTTCTACGATTGATATG
* * * * *
20102002 TGTGAAAAAGTTGTCGTTTACATCTATTTAGGACTATTTT-TGCCTTTTAAAGGCAAAAATAC-A
65 TATGAAAAAGTTATCGTTTACATCTATTTA-GACT-TTTTGTGCCGTTAAAAGACAAAAATACAA
**
20102065 AATTAAACTT-TTG-GATGGC-TTTTAACTGTTTG
128 AATT---CTTGTTGTGAT-GCTTTTTAACAATTTG
* * *
20102097 GATGGCTTCAAT--ATGATATTAAACTTGTCCAAATAATTGAATTTGGTTT
1 GATAGCTTCAATACATGATATTAAACTTGTCC-AATGATTGAACTTGGTTT
20102146 TCATAATCAA
Statistics
Matches: 176, Mismatches: 26, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
158 33 0.19
160 106 0.60
161 27 0.15
162 8 0.05
163 2 0.01
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.41
Consensus pattern (158 bp):
GATAGCTTCAATACATGATATTAAACTTGTCCAATGATTGAACTTGGTTTCTACGATTGATATGT
ATGAAAAAGTTATCGTTTACATCTATTTAGACTTTTTGTGCCGTTAAAAGACAAAAATACAAAAT
TCTTGTTGTGATGCTTTTTAACAATTTG
Found at i:20103384 original size:18 final size:19
Alignment explanation
Indices: 20103350--20103387 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
20103340 CATTTTTCTA
20103350 TTAATAAAAATAATAAATT
1 TTAATAAAAATAATAAATT
20103369 TTAA-AAAAA-AAGTAAATT
1 TTAATAAAAATAA-TAAATT
20103387 T
1 T
20103388 CTTAATTTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 2 0.11
18 12 0.67
19 4 0.22
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
TTAATAAAAATAATAAATT
Found at i:20104506 original size:21 final size:20
Alignment explanation
Indices: 20104482--20104534 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
20104472 AAATATTTGA
20104482 ATTAAAAAATAAAATTAATAT
1 ATTAAAAAATAAAATT-ATAT
20104503 ATTAAAATCAA-AAAATTATAT
1 ATTAAAA--AATAAAATTATAT
*
20104524 AATAAATAAAT
1 ATTAAA-AAAT
20104535 TTTTAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
20 2 0.07
21 16 0.59
22 7 0.26
23 2 0.07
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (20 bp):
ATTAAAAAATAAAATTATAT
Found at i:20112752 original size:123 final size:125
Alignment explanation
Indices: 20112563--20112931 Score: 681
Period size: 123 Copynumber: 3.0 Consensus size: 125
20112553 CTCAAAACAG
* * *
20112563 ATATAGCATGAAGTGAGGAAAGAAATGCAAAATTGTGGATTTGCCTAACTGCTAAAACCAAACGC
1 ATATAGCATGAAGCGAAGAAAGAAATGCAAAATTGTGGATTTGCCTAACTACTAAAACCAAACGC
20112628 AGCTTCTTCCAACAATTTCTGTCCAAAATAAGGAGAAGAGTGTCATAAAAAAGTCAAACC
66 AGCTTCTTCCAACAATTTCTGTCCAAAATAAGGAGAAGAGTGTCATAAAAAAGTCAAACC
20112688 ATATAGCATGAAGCGAAGAAAGAAATGCAAAA-T-TGGATTTGCCTAACTACTAAAACCAAACGC
1 ATATAGCATGAAGCGAAGAAAGAAATGCAAAATTGTGGATTTGCCTAACTACTAAAACCAAACGC
20112751 AGCTTCTTCCAACAATTTCTGTCCAAAATAAGGAGAAGAGTGTCATAAAAAAGTCAAACC
66 AGCTTCTTCCAACAATTTCTGTCCAAAATAAGGAGAAGAGTGTCATAAAAAAGTCAAACC
20112811 ATATAGCATGAAGCGAAGAAAGAAATGCAAAATTGTGGATTTGCCTAACTACTAAAACCAAACGC
1 ATATAGCATGAAGCGAAGAAAGAAATGCAAAATTGTGGATTTGCCTAACTACTAAAACCAAACGC
*
20112876 AGCTTCTTCCAACAATTTCTGTCCAAAATAAGGAGAAGAGTGTCA-CAAAAAGTCAA
66 AGCTTCTTCCAACAATTTCTGTCCAAAATAAGGAGAAGAGTGTCATAAAAAAGTCAA
20112932 CCCAAATCGA
Statistics
Matches: 238, Mismatches: 4, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
123 121 0.51
124 12 0.05
125 105 0.44
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.22
Consensus pattern (125 bp):
ATATAGCATGAAGCGAAGAAAGAAATGCAAAATTGTGGATTTGCCTAACTACTAAAACCAAACGC
AGCTTCTTCCAACAATTTCTGTCCAAAATAAGGAGAAGAGTGTCATAAAAAAGTCAAACC
Found at i:20114767 original size:8 final size:9
Alignment explanation
Indices: 20114737--20114797 Score: 52
Period size: 9 Copynumber: 6.6 Consensus size: 9
20114727 AACTTTTTTG
20114737 AATTTTTAT
1 AATTTTTAT
20114746 AATTTTT-T
1 AATTTTTAT
20114754 GAATTTTTAT
1 -AATTTTTAT
* *
20114764 ATTTTTTAGAA
1 AATTTTT--AT
20114775 AATTTTTAT
1 AATTTTTAT
*
20114784 ATTTTTTAT
1 AATTTTTAT
*
20114793 TATTT
1 AATTT
20114798 AAATAATAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
8 1 0.02
9 32 0.78
10 1 0.02
11 7 0.17
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (9 bp):
AATTTTTAT
Found at i:20114797 original size:18 final size:17
Alignment explanation
Indices: 20114710--20114790 Score: 89
Period size: 18 Copynumber: 4.7 Consensus size: 17
20114700 AATCAAAATA
20114710 TTTA-ATTTTTTG--TT
1 TTTATATTTTTTGAATT
20114724 TTTA-ACTTTTTTGAATT
1 TTTATA-TTTTTTGAATT
20114741 TTTATAATTTTTTGAATT
1 TTTAT-ATTTTTTGAATT
20114759 TTTATATTTTTTAGAAAATT
1 TTTATATTTTTT-G--AATT
20114779 TTTATATTTTTT
1 TTTATATTTTTT
20114791 ATTATTTAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
14 5 0.08
15 7 0.12
17 13 0.22
18 17 0.29
19 1 0.02
20 16 0.27
ACGTcount: A:0.25, C:0.01, G:0.05, T:0.69
Consensus pattern (17 bp):
TTTATATTTTTTGAATT
Found at i:20115958 original size:28 final size:28
Alignment explanation
Indices: 20115927--20115980 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
20115917 ATGGGGCATT
* *
20115927 AAAAAAAAAAAGAAAAAAATGCAAAAGC
1 AAAAAAAAAAACAAAAAAATGAAAAAGC
*
20115955 AAAAAAAAAGACAAAAAAATGAAAAA
1 AAAAAAAAAAACAAAAAAATGAAAAA
20115981 AATATTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.81, C:0.06, G:0.09, T:0.04
Consensus pattern (28 bp):
AAAAAAAAAAACAAAAAAATGAAAAAGC
Found at i:20117294 original size:14 final size:15
Alignment explanation
Indices: 20117275--20117303 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20117265 TCATTTTTGG
20117275 TGAAAA-TTAAACAT
1 TGAAAATTTAAACAT
20117289 TGAAAATTTAAACAT
1 TGAAAATTTAAACAT
20117304 AGATCTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (15 bp):
TGAAAATTTAAACAT
Found at i:20117950 original size:22 final size:21
Alignment explanation
Indices: 20117914--20117969 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
20117904 TTGAGATTTA
** *
20117914 TAAGACCTCCGGGCATAATCTT
1 TAAGACCTCTTGGCACAA-CTT
20117936 TAAGACCTCTTGGCACAACTT
1 TAAGACCTCTTGGCACAACTT
20117957 TCAAGACCT-TTGG
1 T-AAGACCTCTTGG
20117970 TAAAAGATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.27
22 22 0.73
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (21 bp):
TAAGACCTCTTGGCACAACTT
Found at i:20117986 original size:127 final size:125
Alignment explanation
Indices: 20117822--20118092 Score: 330
Period size: 125 Copynumber: 2.2 Consensus size: 125
20117812 GACCTCCGAA
20117822 CACAACTTTCAAAACTTCGAGCAAAAGATTTTAAAATTTTTAAAGTTTCATTACCTCTGATTAG-
1 CACAACTTTCAAAACTTCGAGCAAAAGATTTTAAAATTTTTAAAG-TTCATTACCTCTGATTAGA
* * * * * * *
20117886 GATGAGTATTCAAAGATTTTGAGATTTATAAGACCTCCGGGCATAATCTTTAAGACCTCTTGG
65 GA--AGCATTCAAAAATTTTAAAATTTATAAGACCTCCGAGCATAATCTCTAAGACCTCTAGG
* * * * *
20117949 CACAACTTTCAAGACCTTTG-GTAAAAGATTTTTAAATTTTTAAAGTTCATTACCTTTGATTAGA
1 CACAACTTTCAA-AACTTCGAGCAAAAGATTTTAAAATTTTTAAAGTTCATTACCTCTGATTAGA
* * *
20118013 GAAGCATTCAAAAATTTTAAAATTTGTAAGACTTTCGAGCATAATCTCTAAGACCTCTAGG
65 GAAGCATTCAAAAATTTTAAAATTTATAAGACCTCCGAGCATAATCTCTAAGACCTCTAGG
* * *
20118074 CATAATTTTTAAAACTTCG
1 CACAACTTTCAAAACTTCG
20118093 GGCATGATTT
Statistics
Matches: 122, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
124 5 0.04
125 58 0.48
126 17 0.14
127 37 0.30
128 5 0.04
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (125 bp):
CACAACTTTCAAAACTTCGAGCAAAAGATTTTAAAATTTTTAAAGTTCATTACCTCTGATTAGAG
AAGCATTCAAAAATTTTAAAATTTATAAGACCTCCGAGCATAATCTCTAAGACCTCTAGG
Found at i:20118424 original size:111 final size:110
Alignment explanation
Indices: 20118207--20118449 Score: 294
Period size: 111 Copynumber: 2.2 Consensus size: 110
20118197 GTTGATTCTG
* * *
20118207 TAAGACCTTCGGACATAATTTTGATTCGTGATGTTATCCTGATCGATTCTTTATTTTTTGACTTG
1 TAAGACCTTCGGACATAATTTTGATTCGCGATATTATCCTGATCGATTCTTTATTTTTTGACTTA
* *
20118272 CGGTGTTATTTCGATCGATTCTGTAAGACCTCCAAGCATGATTTT
66 CGATGTTATCTCGATCGATTCTGTAAGACCTCCAAGCATGATTTT
* * *
20118317 TAAGACTTTC-GAGCATAATTTCT-ATTCGCGATATTGTCCTGATTGATTCTTTATTTTTTTGAC
1 TAAGACCTTCGGA-CATAATTT-TGATTCGCGATATTATCCTGATCGATTCTTTA-TTTTTTGAC
* * * ***
20118380 TTACGATGTTGTCTGGGTCGATTCTGTAAGACCTCTGGGCATGATTTT
63 TTACGATGTTATCTCGATCGATTCTGTAAGACCTCCAAGCATGATTTT
*
20118428 TAAGACC-TCTGAACATAATTTT
1 TAAGACCTTC-GGACATAATTTT
20118450 TAAAATCTTC
Statistics
Matches: 112, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
109 2 0.02
110 46 0.41
111 63 0.56
112 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (110 bp):
TAAGACCTTCGGACATAATTTTGATTCGCGATATTATCCTGATCGATTCTTTATTTTTTGACTTA
CGATGTTATCTCGATCGATTCTGTAAGACCTCCAAGCATGATTTT
Found at i:20118431 original size:22 final size:22
Alignment explanation
Indices: 20118406--20118452 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
20118396 GTCGATTCTG
** *
20118406 TAAGACCTCTGGGCATGATTTT
1 TAAGACCTCTGAACATAATTTT
20118428 TAAGACCTCTGAACATAATTTT
1 TAAGACCTCTGAACATAATTTT
20118450 TAA
1 TAA
20118453 AATCTTCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (22 bp):
TAAGACCTCTGAACATAATTTT
Found at i:20128516 original size:8 final size:7
Alignment explanation
Indices: 20128485--20128509 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
20128475 GAGCATAAAA
20128485 TTTTGTT
1 TTTTGTT
20128492 TTTTGTT
1 TTTTGTT
20128499 TTTTGTT
1 TTTTGTT
20128506 TTTT
1 TTTT
20128510 TGGTTTTCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (7 bp):
TTTTGTT
Found at i:20130201 original size:12 final size:12
Alignment explanation
Indices: 20130184--20130217 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
20130174 GCAATTGACT
20130184 GCCCTAGCAACG
1 GCCCTAGCAACG
20130196 GCCCTAGCAACG
1 GCCCTAGCAACG
*
20130208 GCCATAGCAA
1 GCCCTAGCAA
20130218 TTGCCTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.29, C:0.38, G:0.24, T:0.09
Consensus pattern (12 bp):
GCCCTAGCAACG
Found at i:20130527 original size:66 final size:65
Alignment explanation
Indices: 20130420--20130554 Score: 234
Period size: 66 Copynumber: 2.1 Consensus size: 65
20130410 GACAACAATT
*
20130420 GAAACTCAGAAAGTAAGCATTATAATGCTTAATGTCGGGTATACAAATTTTGACATTCTAGATGG
1 GAAACTCAGAAAGTAAGCATTATAATGCTTAATGTCAGGTATACAAA-TTTGACATTCTAGATGG
20130485 A
65 A
* *
20130486 GAAACTCAGAAAGTAAGCATTCTAATGCTTAATGTCAGGTATACAAATTTGACATTTTAGATGGA
1 GAAACTCAGAAAGTAAGCATTATAATGCTTAATGTCAGGTATACAAATTTGACATTCTAGATGGA
20130551 GAAA
1 GAAA
20130555 AAAGCCTAAG
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
65 21 0.32
66 45 0.68
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (65 bp):
GAAACTCAGAAAGTAAGCATTATAATGCTTAATGTCAGGTATACAAATTTGACATTCTAGATGGA
Found at i:20133660 original size:162 final size:162
Alignment explanation
Indices: 20133446--20133848 Score: 481
Period size: 162 Copynumber: 2.5 Consensus size: 162
20133436 TTTGGATAAA
* * * * * *
20133446 TTTAATATCATGTAATATGAGCTATCTAAACTATTAGAACA-AAACAATAACTGCAAATTTACAT
1 TTTAATATCATGT-ATTTAAGCTATCTAAATTATTAAAACATAAA-TATAACTGCAAAATTACAT
* * * * *
20133510 TTTTACCTTTTAACGTTGCAA-AAAGTCTTAAACAGACATAAATCGTAACTTATTCATACATATC
64 TTTTACCTTTTAACGATGCAACAAAGTCCTAAAAAGACATAAATCATAACTTATTCACACATATC
* *
20133574 AAATCAT-GAAAACTAAGTTCAATTATTCGAACAAG
129 -AATCATAG-AAACTAAGTTCAATCATTCAAACAAG
* * *
20133609 TTTAATATCATGTATTTAAGCTATCTAAATTGTTAAAACATAAATATAACTGTAAAATTATATTT
1 TTTAATATCATGTATTTAAGCTATCTAAATTATTAAAACATAAATATAACTGCAAAATTACATTT
* * * *
20133674 TTACCTTTTAATGATGCAACAAAGTCCTAAAAAGACATAAATTATAACTTTTTCACATATATCAA
66 TTACCTTTTAACGATGCAACAAAGTCCTAAAAAGACATAAATCATAACTTATTCACACATATCAA
* *
20133739 TCCTAGAAACTAAGTTCAATCATTCAAATAAG
131 TCATAGAAACTAAGTTCAATCATTCAAACAAG
* ** * *
20133771 TTTAATATCATGTATTGAAAATATCTAAATTATTAAAACATAAATAAAAGC-CCAAAATTACATT
1 TTTAATATCATGTATTTAAGCTATCTAAATTATTAAAACATAAATATAA-CTGCAAAATTACATT
*
20133835 TTTGCCTTTTAACG
65 TTTACCTTTTAACG
20133849 GCACAAAAAA
Statistics
Matches: 204, Mismatches: 32, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
162 150 0.74
163 54 0.26
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.35
Consensus pattern (162 bp):
TTTAATATCATGTATTTAAGCTATCTAAATTATTAAAACATAAATATAACTGCAAAATTACATTT
TTACCTTTTAACGATGCAACAAAGTCCTAAAAAGACATAAATCATAACTTATTCACACATATCAA
TCATAGAAACTAAGTTCAATCATTCAAACAAG
Found at i:20134061 original size:57 final size:57
Alignment explanation
Indices: 20133994--20134104 Score: 136
Period size: 57 Copynumber: 1.9 Consensus size: 57
20133984 AAATTTATAT
*
20133994 TTTTGTCTTTTAATAG-CATAAAAAGTCT-TAAACAAATATAAACGGTAACTTTTTTAA
1 TTTTGCCTTTTAA-AGTCATAAAAAGT-TATAAACAAATATAAACGGTAACTTTTTTAA
* * * **
20134051 TTTTGCCTTTTAACGTCATAAAAAGTTATGAACATATATAAATTGTAACTTTTT
1 TTTTGCCTTTTAAAGTCATAAAAAGTTATAAACAAATATAAACGGTAACTTTTT
20134105 CACAAATATC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
56 2 0.04
57 44 0.96
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (57 bp):
TTTTGCCTTTTAAAGTCATAAAAAGTTATAAACAAATATAAACGGTAACTTTTTTAA
Found at i:20134320 original size:161 final size:158
Alignment explanation
Indices: 20134097--20134586 Score: 488
Period size: 161 Copynumber: 3.0 Consensus size: 158
20134087 TATAAATTGT
* * *
20134097 AACTTTTTCACAAATATCAATTGTGAAAAGCAAGTTCAATCATTTGGACAAGTTTAATATCATGT
1 AACTTTTTCA-AAATATCAATCGTGAAAACCAAGTTCAATCATTT-GAAAAGTTTAATATCATGT
*
20134162 ATTGAAGCTT-TCTAAAATGTTAAAACAGAATAATAAACT-CAAATTTATATTTGAGCCTTTTAA
64 ATTGAAG-TTATCTAAAATGTTAAAACA-AATAATAAACTACAAATTTATATTTTAGCCTTTTAA
** *
20134225 CGTTACAAAAAGTGTTAAATAAATATAAACGAC
127 CGACACAAAAAGTGTTAAA-AAATATAAACAAC
* * * *
20134258 AACTTTTTCAAATATATCAATCGTGAAAACCAAATTCAATTATTCGAATAAGTTTAATATCATAT
1 AACTTTTTCAAA-ATATCAATCGTGAAAACCAAGTTCAATCATTTGAA-AAGTTTAATATCATGT
* * * * * * *
20134323 ATTTAAGTTATCTAAATTGTTAAAACATAT-ATATAAGTACAAAATTATATTTTTGCCCTTTAAC
64 ATTGAAGTTATCTAAAATGTTAAAACAAATAATA-AACTACAAATTTATATTTTAGCCTTTTAAC
* * *
20134387 GACACAACAAAATTTTAAAAAGATATAAACAAT
128 GACACAA-AAAGTGTTAAAAA-ATATAAACAAC
* * * * *
20134420 AACTTTTTCATACATATCAACCATAAAAATCAAGTTCAATCATTTTGACAAA-TTTAATATCATG
1 AACTTTTTCA-AAATATCAATCGTGAAAACCAAGTTCAATCA-TTTGA-AAAGTTTAATATCATG
* * * * * *
20134484 TTTTGAAGTTATCCAAACTGTTAAAACAAAACAAT-AATTACAAATTTACATTTTTA-CCTTTTA
63 TATTGAAGTTATCTAAAATGTTAAAAC-AAATAATAAACTACAAATTTATA-TTTTAGCCTTTTA
* *
20134547 ACAACACAAAAAGTGCTAAACAAATATAAACAAC
126 ACGACACAAAAAGTGTTAAA-AAATATAAACAAC
20134581 AACTTT
1 AACTTT
20134587 CTTATTTAAT
Statistics
Matches: 269, Mismatches: 46, Indels: 28
0.78 0.13 0.08
Matches are distributed among these distances:
159 3 0.01
160 11 0.04
161 126 0.47
162 113 0.42
163 13 0.05
164 3 0.01
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (158 bp):
AACTTTTTCAAAATATCAATCGTGAAAACCAAGTTCAATCATTTGAAAAGTTTAATATCATGTAT
TGAAGTTATCTAAAATGTTAAAACAAATAATAAACTACAAATTTATATTTTAGCCTTTTAACGAC
ACAAAAAGTGTTAAAAAATATAAACAAC
Found at i:20146393 original size:15 final size:16
Alignment explanation
Indices: 20146369--20146403 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
20146359 ATTAAGGTTA
*
20146369 ATTAATTAAAAAA-TT
1 ATTAAATAAAAAATTT
20146384 ATTAAATAAAAAATTT
1 ATTAAATAAAAAATTT
20146400 ATTA
1 ATTA
20146404 TTAATTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATTAAATAAAAAATTT
Found at i:20146939 original size:3 final size:3
Alignment explanation
Indices: 20146931--20146974 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
20146921 TGATGGCCAA
* *
20146931 AAT AAT AAT AAC AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
20146975 CAACAACAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:20146951 original size:12 final size:12
Alignment explanation
Indices: 20146934--20147031 Score: 79
Period size: 12 Copynumber: 7.7 Consensus size: 12
20146924 TGGCCAAAAT
20146934 AATAATAACAAC
1 AATAATAACAAC
* *
20146946 AATAATAATAAT
1 AATAATAACAAC
* *
20146958 AATAATAATAAT
1 AATAATAACAAC
*
20146970 AATAACAACAAC
1 AATAATAACAAC
20146982 AATAACAATAGCAGCAAC
1 AAT---AATA--A-CAAC
* *
20147000 AACAACAACAAC
1 AATAATAACAAC
20147012 AATAATAACAAC
1 AATAATAACAAC
20147024 AATAATAA
1 AATAATAA
20147032 TAATAAAACA
Statistics
Matches: 70, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
12 56 0.80
13 1 0.01
15 6 0.09
17 1 0.01
18 6 0.09
ACGTcount: A:0.65, C:0.15, G:0.02, T:0.17
Consensus pattern (12 bp):
AATAATAACAAC
Found at i:20147045 original size:3 final size:3
Alignment explanation
Indices: 20146973--20147025 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
20146963 TAATAATAAT
* * * * * *
20146973 AAC AAC AAC AAT AAC AAT AGC AGC AAC AAC AAC AAC AAC AAT AAT AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
20147021 AAC AA
1 AAC AA
20147026 TAATAATAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.64, C:0.25, G:0.04, T:0.08
Consensus pattern (3 bp):
AAC
Found at i:20147742 original size:35 final size:35
Alignment explanation
Indices: 20147695--20147830 Score: 137
Period size: 35 Copynumber: 3.9 Consensus size: 35
20147685 TCATTTTTTT
* *
20147695 ACTTATGATTCAATCTTGATCATTTTTATTTATCG
1 ACTTATGGTTCAATCTTGATCATTCTTATTTATCG
*
20147730 ACTTATGGTTCAATCTTGGTCATTCTTATTTATCG
1 ACTTATGGTTCAATCTTGATCATTCTTATTTATCG
** * * * * * * *
20147765 ACTTACAGTTTAGTCTTAATTATTTTTATTTCTTG
1 ACTTATGGTTCAATCTTGATCATTCTTATTTATCG
* **
20147800 ACTTGTGGTTCAATCCCGATCATTCTTATTT
1 ACTTATGGTTCAATCTTGATCATTCTTATTT
20147831 CTCAATTTGT
Statistics
Matches: 78, Mismatches: 23, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
35 78 1.00
ACGTcount: A:0.22, C:0.16, G:0.11, T:0.51
Consensus pattern (35 bp):
ACTTATGGTTCAATCTTGATCATTCTTATTTATCG
Found at i:20147803 original size:70 final size:70
Alignment explanation
Indices: 20147713--20147900 Score: 214
Period size: 70 Copynumber: 2.7 Consensus size: 70
20147703 TTCAATCTTG
* * * * * *
20147713 ATCATTTTTATTTATCGACTTATGGTTCAATCTTGGTCATTCTTATTTATCGACTTACAGTTTAG
1 ATCATTTTTATTTCTTGACTTGTGGTTCAATCCTGGTCATTCTTATTTATCAACTTACAGCTTAG
*
20147778 TCTTA
66 TCCTA
* * * * * ***
20147783 ATTATTTTTATTTCTTGACTTGTGGTTCAATCCCGATCATTCTTATTTCTCAATTTGTGGCTTAG
1 ATCATTTTTATTTCTTGACTTGTGGTTCAATCCTGGTCATTCTTATTTATCAACTTACAGCTTAG
20147848 TCCTA
66 TCCTA
* * *
20147853 ATCATTTTTATTTCTTGACTTGTGGTTCGATCCTAGTCATGCTTATTT
1 ATCATTTTTATTTCTTGACTTGTGGTTCAATCCTGGTCATTCTTATTT
20147901 TTTGACTAGC
Statistics
Matches: 97, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
70 97 1.00
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.51
Consensus pattern (70 bp):
ATCATTTTTATTTCTTGACTTGTGGTTCAATCCTGGTCATTCTTATTTATCAACTTACAGCTTAG
TCCTA
Found at i:20147831 original size:35 final size:35
Alignment explanation
Indices: 20147790--20147907 Score: 112
Period size: 35 Copynumber: 3.4 Consensus size: 35
20147780 TTAATTATTT
*
20147790 TTATTTCTTGACTTGTGGTTCAATCCCGATCATTC
1 TTATTTCTTGACTTGTGGTTCAATCCCAATCATTC
** * * * *
20147825 TTATTTCTCAATTTGTGGCTT-AGTCCTAATCATTT
1 TTATTTCTTGACTTGTGG-TTCAATCCCAATCATTC
* * * *
20147860 TTATTTCTTGACTTGTGGTTCGATCCTAGTCATGC
1 TTATTTCTTGACTTGTGGTTCAATCCCAATCATTC
*
20147895 TTATTTTTTGACT
1 TTATTTCTTGACT
20147908 AGCAGCTTTG
Statistics
Matches: 65, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
34 2 0.03
35 61 0.94
36 2 0.03
ACGTcount: A:0.17, C:0.19, G:0.14, T:0.50
Consensus pattern (35 bp):
TTATTTCTTGACTTGTGGTTCAATCCCAATCATTC
Found at i:20150133 original size:21 final size:21
Alignment explanation
Indices: 20150107--20150148 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
20150097 GCTTTATTGC
20150107 TTTTTTTTAAAGAAAAAATTA
1 TTTTTTTTAAAGAAAAAATTA
* *
20150128 TTTTTTTTAAAGGAAGAATTA
1 TTTTTTTTAAAGAAAAAATTA
20150149 AATGAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.48
Consensus pattern (21 bp):
TTTTTTTTAAAGAAAAAATTA
Found at i:20150679 original size:16 final size:16
Alignment explanation
Indices: 20150658--20150707 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 16
20150648 GATATTGGGG
20150658 AATTAAATAATAAAAA
1 AATTAAATAATAAAAA
20150674 AATT-AAT--TAAAAA
1 AATTAAATAATAAAAA
*
20150687 AATGAAGAATAATAAAAA
1 AAT-TA-AATAATAAAAA
20150705 AAT
1 AAT
20150708 AAAAAAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
13 9 0.32
15 3 0.11
16 7 0.25
18 9 0.32
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (16 bp):
AATTAAATAATAAAAA
Found at i:20151076 original size:48 final size:47
Alignment explanation
Indices: 20151015--20151151 Score: 136
Period size: 48 Copynumber: 2.9 Consensus size: 47
20151005 AAGAAAAAAA
20151015 TCCTAAAACCCTAGAACCCTGAAACCTTGAGACCTTAAAATCCC-TAAG
1 TCCTAAAA-CCTAGAACCCT-AAACCTTGAGACCTTAAAATCCCTTAAG
** *
20151063 TCCTAGAAACCTAGAACCCTAAAACCTCAAGATCTTAAAA-CCCTTAAG
1 TCCTA-AAACCTAGAACCCT-AAACCTTGAGACCTTAAAATCCCTTAAG
* * * * *
20151111 TCCTAAAAATCTAAAACCC-AAAACTTGAAACCCTAAAATCC
1 TCCT-AAAACCTAGAACCCTAAACCTTGAGACCTTAAAATCC
20151152 AAAATCTCAA
Statistics
Matches: 73, Mismatches: 12, Indels: 9
0.78 0.13 0.10
Matches are distributed among these distances:
46 13 0.18
47 5 0.07
48 51 0.70
49 4 0.05
ACGTcount: A:0.42, C:0.30, G:0.07, T:0.20
Consensus pattern (47 bp):
TCCTAAAACCTAGAACCCTAAACCTTGAGACCTTAAAATCCCTTAAG
Found at i:20151148 original size:30 final size:29
Alignment explanation
Indices: 20151116--20151192 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 29
20151106 TTAAGTCCTA
* **
20151116 AAAATCTAAAACCCAAAA-CTTGAAACCCT
1 AAAATCCAAAACCCAAAATC-AAAAACCCT
*
20151145 AAAATCCAAAATCTCAAAATCAAAAACCCT
1 AAAATCCAAAA-CCCAAAATCAAAAACCCT
*
20151175 AAAATCGAAAACCCAAAA
1 AAAATCCAAAACCCAAAA
20151193 AACATCATTC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
29 16 0.40
30 23 0.57
31 1 0.03
ACGTcount: A:0.57, C:0.26, G:0.03, T:0.14
Consensus pattern (29 bp):
AAAATCCAAAACCCAAAATCAAAAACCCT
Found at i:20151193 original size:15 final size:15
Alignment explanation
Indices: 20151115--20151193 Score: 63
Period size: 15 Copynumber: 5.3 Consensus size: 15
20151105 CTTAAGTCCT
*
20151115 AAAAATCTAAAACCC
1 AAAAATCGAAAACCC
* *
20151130 AAAACTTG-AAACCC
1 AAAAATCGAAAACCC
* * *
20151144 TAAAATCCAAAATCTC
1 AAAAATCGAAAA-CCC
*
20151160 -AAAATCAAAAACCC
1 AAAAATCGAAAACCC
*
20151174 TAAAATCGAAAACCC
1 AAAAATCGAAAACCC
20151189 AAAAA
1 AAAAA
20151194 ACATCATTCA
Statistics
Matches: 49, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
14 12 0.24
15 35 0.71
16 2 0.04
ACGTcount: A:0.58, C:0.25, G:0.03, T:0.14
Consensus pattern (15 bp):
AAAAATCGAAAACCC
Found at i:20151236 original size:14 final size:15
Alignment explanation
Indices: 20151208--20151250 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
20151198 CATTCAAACC
*
20151208 CTAAAACCTTGAAAT
1 CTAAAACCTTAAAAT
*
20151223 -TAAAACCCTAAAAT
1 CTAAAACCTTAAAAT
*
20151237 CCAAAACCTTAAAA
1 CTAAAACCTTAAAA
20151251 CCTTGAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.53, C:0.23, G:0.02, T:0.21
Consensus pattern (15 bp):
CTAAAACCTTAAAAT
Found at i:20151250 original size:37 final size:36
Alignment explanation
Indices: 20151203--20151332 Score: 131
Period size: 37 Copynumber: 3.5 Consensus size: 36
20151193 AACATCATTC
20151203 AAACCCTAAAACCTTGAAATTAAAACCCTAAAATCCA
1 AAACCCTAAAACCTTGAAATTAAAA-CCTAAAATCCA
*
20151240 AAACCTTAAAACCTTGAAATTAAAAACCTAAAAT-CA
1 AAACCCTAAAACCTTGAAATT-AAAACCTAAAATCCA
** * *
20151276 AAACCCTAATTCCTTAAAACCTTAAAACCT-AATTCCTTA
1 AAACCCTAAAACCTTGAAA--TTAAAACCTAAAATCC--A
*
20151315 AAA-CCTTAAACCTTGAAA
1 AAACCCTAAAACCTTGAAA
20151333 CCAAAAATTT
Statistics
Matches: 77, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
36 20 0.26
37 36 0.47
38 17 0.22
39 4 0.05
ACGTcount: A:0.49, C:0.25, G:0.02, T:0.24
Consensus pattern (36 bp):
AAACCCTAAAACCTTGAAATTAAAACCTAAAATCCA
Found at i:20151253 original size:8 final size:8
Alignment explanation
Indices: 20151203--20151334 Score: 70
Period size: 8 Copynumber: 17.6 Consensus size: 8
20151193 AACATCATTC
*
20151203 AAACCCTA
1 AAACCTTA
*
20151211 AAACCTTG
1 AAACCTTA
20151219 AAA--TTA
1 AAACCTTA
*
20151225 AAACCCTA
1 AAACCTTA
20151233 AAATCC--A
1 AAA-CCTTA
20151240 AAACCTTA
1 AAACCTTA
*
20151248 AAACCTTG
1 AAACCTTA
20151256 AAA--TTAA
1 AAACCTT-A
20151263 AAACC-TA
1 AAACCTTA
*
20151270 AAA--TCA
1 AAACCTTA
*
20151276 AAACCCTA
1 AAACCTTA
**
20151284 ATTCCTTA
1 AAACCTTA
20151292 AAACCTTA
1 AAACCTTA
20151300 AAACC-TA
1 AAACCTTA
**
20151307 ATTCCTTA
1 AAACCTTA
20151315 AAACCTT-
1 AAACCTTA
*
20151322 AAACCTTG
1 AAACCTTA
20151330 AAACC
1 AAACC
20151335 AAAAATTTAA
Statistics
Matches: 93, Mismatches: 18, Indels: 26
0.68 0.13 0.19
Matches are distributed among these distances:
6 13 0.14
7 23 0.25
8 55 0.59
9 2 0.02
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.23
Consensus pattern (8 bp):
AAACCTTA
Found at i:20151259 original size:23 final size:23
Alignment explanation
Indices: 20151222--20151272 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
20151212 AACCTTGAAA
*
20151222 TTAAAACCCTAAAATCCAAAACC
1 TTAAAACCCTAAAATCAAAAACC
* * *
20151245 TTAAAACCTTGAAATTAAAAACC
1 TTAAAACCCTAAAATCAAAAACC
20151268 -TAAAA
1 TTAAAA
20151273 TCAAAACCCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.55, C:0.22, G:0.02, T:0.22
Consensus pattern (23 bp):
TTAAAACCCTAAAATCAAAAACC
Found at i:20151308 original size:23 final size:24
Alignment explanation
Indices: 20151275--20151324 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
20151265 ACCTAAAATC
20151275 AAAACCCTAATTCCTTAAAACCTT
1 AAAACCCTAATTCCTTAAAACCTT
20151299 AAAA-CCTAATTCCTTAAAACCTT
1 AAAACCCTAATTCCTTAAAACCTT
20151322 AAA
1 AAA
20151325 CCTTGAAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (24 bp):
AAAACCCTAATTCCTTAAAACCTT
Found at i:20151328 original size:15 final size:15
Alignment explanation
Indices: 20151287--20151334 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
20151277 AACCCTAATT
20151287 CCTTAAAACCTTAAAA
1 CCTT-AAACCTTAAAA
*
20151303 CC-TAATTCCTTAAAA
1 CCTTAA-ACCTTAAAA
*
20151318 CCTTAAACCTTGAAA
1 CCTTAAACCTTAAAA
20151333 CC
1 CC
20151335 AAAAATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
14 2 0.07
15 20 0.74
16 5 0.19
ACGTcount: A:0.42, C:0.29, G:0.02, T:0.27
Consensus pattern (15 bp):
CCTTAAACCTTAAAA
Found at i:20152728 original size:30 final size:30
Alignment explanation
Indices: 20152687--20152748 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
20152677 TGGTAGATAT
20152687 ATCTATATATAATAAAATAATATTTTATTC
1 ATCTATATATAATAAAATAATATTTTATTC
*
20152717 ATCTCTATATAATAAAATAATATTTTATTC
1 ATCTATATATAATAAAATAATATTTTATTC
20152747 AT
1 AT
20152749 TTGAAATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (30 bp):
ATCTATATATAATAAAATAATATTTTATTC
Found at i:20160182 original size:13 final size:13
Alignment explanation
Indices: 20160164--20160188 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20160154 TCATTGGTAA
20160164 ATAAAGATAAAAG
1 ATAAAGATAAAAG
20160177 ATAAAGATAAAA
1 ATAAAGATAAAA
20160189 TAAGATATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (13 bp):
ATAAAGATAAAAG
Found at i:20163116 original size:28 final size:28
Alignment explanation
Indices: 20163082--20163135 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
20163072 TCTGCTAGAG
20163082 AATATCAATCAAGTAATTTAAAAGAGCT
1 AATATCAATCAAGTAATTTAAAAGAGCT
20163110 AATATCAATCAAGTAATTTAAAAGAG
1 AATATCAATCAAGTAATTTAAAAGAG
20163136 TTTCTTACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.52, C:0.09, G:0.11, T:0.28
Consensus pattern (28 bp):
AATATCAATCAAGTAATTTAAAAGAGCT
Found at i:20167718 original size:15 final size:16
Alignment explanation
Indices: 20167688--20167726 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
20167678 TCCTCTTAAA
*
20167688 ATTATAATTATTTTAT
1 ATTATAAATATTTTAT
20167704 ATTATAAAT-TTTTAT
1 ATTATAAATATTTTAT
*
20167719 ATTTTAAA
1 ATTATAAA
20167727 ACTAATATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTATAAATATTTTAT
Found at i:20178852 original size:20 final size:20
Alignment explanation
Indices: 20178827--20178864 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
20178817 TATTTTAAGG
20178827 TCATGAGATATCATAATATT
1 TCATGAGATATCATAATATT
*
20178847 TCATGATATATCATAATA
1 TCATGAGATATCATAATA
20178865 AATTGTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (20 bp):
TCATGAGATATCATAATATT
Found at i:20180567 original size:220 final size:220
Alignment explanation
Indices: 20180172--20180575 Score: 492
Period size: 220 Copynumber: 1.8 Consensus size: 220
20180162 TATTATGTTT
* * * * * *
20180172 TAATAATATCTTTTTACATTTGTTGTTACTTTTTATTACATTTAAAATTATTACAATTTTTTTAT
1 TAATAATATCTTTTTACACTTGTTGTTACTTTTCATTACACTTAAAATTATTACAACTTTTTAAA
* * * *
20180237 TAAGGTATAGTGATACTTCTAACTATTTTACGTAAAATAATACCAATTTTATGATTATTCTCACT
66 AAAGGTATAGTGACACTTCTAACTATTTTACATAAAATAATACCAATTTTATGATTACTCTCACT
* * * * * *
20180302 ATTTTATGTTAACTTTTATTTTTTTATTTAAAGTTATTTTTTATTTTTAATAATAATTTTTTTAT
131 ATTTTATATTAACTCTTATTATTTTATTTAAAGTTACTATTTATTTGTAATAATAATTTTTTTAT
20180367 ATTACCAACTTAATTATTTACATTA
196 ATTACCAACTTAATTATTTACATTA
* * ** *
20180392 TAATAATATCTTTTTATACTTGTTGTTACTTTTCATTACGCTTAGGATTATTATAACTTTTTAAA
1 TAATAATATCTTTTTACACTTGTTGTTACTTTTCATTACACTTAAAATTATTACAACTTTTTAAA
* * * ** *
20180457 AAAGTGT-TA-TGACACTTCTAATTATTTTACATCAAATGATATTAATTTTATGATTACTCTCAT
66 AAAG-GTATAGTGACACTTCTAACTATTTTACATAAAATAATACCAATTTTATGATTACTCTCAC
*
20180520 TCATTTTATATTAA-TACTTATTATTTTGTTTAGAA-TTACTATTTATTTGTAATAAT
130 T-ATTTTATATTAACT-CTTATTATTTTATTTA-AAGTTACTATTTATTTGTAATAAT
20180576 TCTTTTATGT
Statistics
Matches: 152, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
219 47 0.31
220 101 0.66
221 4 0.03
ACGTcount: A:0.32, C:0.09, G:0.06, T:0.53
Consensus pattern (220 bp):
TAATAATATCTTTTTACACTTGTTGTTACTTTTCATTACACTTAAAATTATTACAACTTTTTAAA
AAAGGTATAGTGACACTTCTAACTATTTTACATAAAATAATACCAATTTTATGATTACTCTCACT
ATTTTATATTAACTCTTATTATTTTATTTAAAGTTACTATTTATTTGTAATAATAATTTTTTTAT
ATTACCAACTTAATTATTTACATTA
Found at i:20180889 original size:19 final size:18
Alignment explanation
Indices: 20180804--20180891 Score: 61
Period size: 19 Copynumber: 4.7 Consensus size: 18
20180794 TATTCTTATT
* **
20180804 TTTTTATGTTAACACGTA
1 TTTTTATGTTATCAATTA
*
20180822 TTTTTTTGTTTAT-AATTA
1 TTTTTATG-TTATCAATTA
* * *
20180840 TTTTTTATTTGTAACAATAA
1 -TTTTTATGT-TATCAATTA
20180860 TTTTGTATGTTATCAACTTA
1 TTTT-TATGTTATCAA-TTA
20180880 TTTTTATGTTAT
1 TTTTTATGTTAT
20180892 AATAAAATCT
Statistics
Matches: 53, Mismatches: 11, Indels: 11
0.71 0.15 0.15
Matches are distributed among these distances:
18 11 0.21
19 28 0.53
20 14 0.26
ACGTcount: A:0.26, C:0.06, G:0.08, T:0.60
Consensus pattern (18 bp):
TTTTTATGTTATCAATTA
Found at i:20181080 original size:24 final size:24
Alignment explanation
Indices: 20181052--20181109 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
20181042 GATACTCGAC
20181052 TCGAGCTCGATCGAGTTTTATTTT
1 TCGAGCTCGATCGAGTTTTATTTT
20181076 TCGAGCTCGATCGAGTTTTATTTT
1 TCGAGCTCGATCGAGTTTTATTTT
*
20181100 TCAAGCTCGA
1 TCGAGCTCGA
20181110 GCTCAATTCG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (24 bp):
TCGAGCTCGATCGAGTTTTATTTT
Found at i:20181551 original size:15 final size:13
Alignment explanation
Indices: 20181523--20181547 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20181513 TGCTAATACT
20181523 TTTTTTTATTTAA
1 TTTTTTTATTTAA
20181536 TTTTTTTATTTA
1 TTTTTTTATTTA
20181548 TAATACTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTTTATTTAA
Found at i:20181787 original size:21 final size:21
Alignment explanation
Indices: 20181763--20181830 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
20181753 TTTTTTTTAT
20181763 TTGTAATAATATCTTTTTACA
1 TTGTAATAATATCTTTTTACA
* * **
20181784 TTGTCAACTTA-AT-TATTTATG
1 TTGT-AA-TAATATCTTTTTACA
*
20181805 TTTTAATAATATCTTTTTACA
1 TTGTAATAATATCTTTTTACA
20181826 CTTGT
1 -TTGT
20181831 TATTGCCTTT
Statistics
Matches: 32, Mismatches: 10, Indels: 9
0.63 0.20 0.18
Matches are distributed among these distances:
19 2 0.06
20 4 0.12
21 17 0.53
22 7 0.22
23 2 0.06
ACGTcount: A:0.29, C:0.10, G:0.06, T:0.54
Consensus pattern (21 bp):
TTGTAATAATATCTTTTTACA
Found at i:20182578 original size:214 final size:217
Alignment explanation
Indices: 20182337--20182817 Score: 500
Period size: 214 Copynumber: 2.2 Consensus size: 217
20182327 ACGTTTTTTA
* * ** *
20182337 TTACCTTTCATTATGTTTATG-ATTATCATAACTTTTTCTTAAAAGTGTTACGGCACTTATAACT
1 TTACTTTTCATTATGTTTA-GAATTATCATAACTTTTTATTAAAAGTGTTACAACACTTATAACC
* *
20182401 ATTTTACGGT-AAAAAATACCAATTTTATAATTATTATTATCCTTTTACATTAACACCTATTTTT
65 ATTTTA-GGTCAAAAAAGACCAATTTTATAATTATTATCA-CCTTTTACATTAACACCTATTTTT
* * * * *
20182465 T-GTGTAAGATT-TTTTTTATTAATAATACTAATTTTTTTACATTACTAATTTAATTATTTATGT
128 TGGTGTAAAATTATTTTTTATTAATAATAATAATTCTTTTACATTACCAATTTAACTATTTATGT
20182528 T-CTAATAATAT-TTTTT-TCACATG-
193 TAC-AATAATATATTTTTAT-ACATGT
* * *
20182551 TTACTTTTCATTATGTTTAGAATTATCATAA-TATTTTATT-AAAGT-TTAACAATACTTGTGAC
1 TTACTTTTCATTATGTTTAGAATTATCATAACT-TTTTATTAAAAGTGTT-ACAACACTTATAAC
* * * * * * ***
20182613 CATTTTATGTCAAATAAGACTAATTTTATAATTATTCTCACTTTTTATATTAACTTTTATTTTTT
64 CATTTTAGGTCAAAAAAGACCAATTTTATAATTATTATCACCTTTTACATTAACACCTATTTTTT
* * * *
20182678 GGTTTAAAATTATTTTTTATTTATAATAATAATTCTTTTACATTACCACTTTAACTATTTTTGTT
129 GGTGTAAAATTATTTTTTATTAATAATAATAATTCTTTTACATTACCAATTTAACTATTTATGTT
**
20182743 ACAATAATATATTTTTATATGTGTT
194 ACAATAATATATTTTTATACATG-T
* * *
20182768 ATTACTTTTCATTACGTTTATAACTATCATAACTTTTTATTAAAA-TGTTA
1 -TTACTTTTCATTATGTTTAGAATTATCATAACTTTTTATTAAAAGTGTTA
20182818 AGACATTTCT
Statistics
Matches: 219, Mismatches: 33, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
212 24 0.11
213 54 0.25
214 88 0.40
215 9 0.04
216 1 0.00
218 37 0.17
219 6 0.03
ACGTcount: A:0.32, C:0.11, G:0.06, T:0.52
Consensus pattern (217 bp):
TTACTTTTCATTATGTTTAGAATTATCATAACTTTTTATTAAAAGTGTTACAACACTTATAACCA
TTTTAGGTCAAAAAAGACCAATTTTATAATTATTATCACCTTTTACATTAACACCTATTTTTTGG
TGTAAAATTATTTTTTATTAATAATAATAATTCTTTTACATTACCAATTTAACTATTTATGTTAC
AATAATATATTTTTATACATGT
Found at i:20183271 original size:19 final size:19
Alignment explanation
Indices: 20183224--20183273 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
20183214 TTTATTTTAT
* *
20183224 TTAATAAA-TAATATTTAA
1 TTAATAAATTAAAATTAAA
*
20183242 TGTAATTAATTAAAATTAAA
1 T-TAATAAATTAAAATTAAA
20183262 TTAATAAATTAA
1 TTAATAAATTAA
20183274 CAAGTAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 1 0.04
19 16 0.62
20 9 0.35
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
TTAATAAATTAAAATTAAA
Found at i:20188905 original size:13 final size:13
Alignment explanation
Indices: 20188887--20188916 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
20188877 TTTCGTTTGG
20188887 TTAATTTTTGAAA
1 TTAATTTTTGAAA
20188900 TTAATTTTTGAAA
1 TTAATTTTTGAAA
20188913 TTAA
1 TTAA
20188917 GAAATTCGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (13 bp):
TTAATTTTTGAAA
Found at i:20193937 original size:31 final size:31
Alignment explanation
Indices: 20193902--20193960 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
20193892 ATTATCAATA
* * *
20193902 AATAAAATGATGTTATTTCATTAATAAAATG
1 AATAAAATGATATCATCTCATTAATAAAATG
*
20193933 AATAAGATGATATCATCTCATTAATAAA
1 AATAAAATGATATCATCTCATTAATAAA
20193961 TAAATTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.36
Consensus pattern (31 bp):
AATAAAATGATATCATCTCATTAATAAAATG
Found at i:20194689 original size:20 final size:21
Alignment explanation
Indices: 20194651--20194695 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
20194641 AATGACATAT
20194651 TTAATTAATCATAAAATT-AA
1 TTAATTAATCATAAAATTAAA
* **
20194671 TTAATTAATTATATGATTAAA
1 TTAATTAATCATAAAATTAAA
20194692 TTAA
1 TTAA
20194696 ATAGTGCCAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
TTAATTAATCATAAAATTAAA
Found at i:20197575 original size:20 final size:19
Alignment explanation
Indices: 20197545--20197583 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 19
20197535 TATTGGACAG
20197545 TTAACTCCAAATAATTGAATT
1 TTAACTCC-AA-AATTGAATT
20197566 TTAA-TCCAAAATTGAATT
1 TTAACTCCAAAATTGAATT
20197584 AACTTGGATC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.50
19 2 0.11
20 3 0.17
21 4 0.22
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (19 bp):
TTAACTCCAAAATTGAATT
Found at i:20197900 original size:15 final size:15
Alignment explanation
Indices: 20197880--20197930 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
20197870 TTGATTTGAC
20197880 TTTTTTGTTTTTTTA
1 TTTTTTGTTTTTTTA
*
20197895 TTTTTTGTTTATTT-
1 TTTTTTGTTTTTTTA
*
20197909 TGTTTTGTTTGTTTTA
1 TTTTTTGTTT-TTTTA
20197925 TTTTTT
1 TTTTTT
20197931 TCCTTTTTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 9 0.30
15 16 0.53
16 5 0.17
ACGTcount: A:0.06, C:0.00, G:0.10, T:0.84
Consensus pattern (15 bp):
TTTTTTGTTTTTTTA
Found at i:20197914 original size:14 final size:14
Alignment explanation
Indices: 20197882--20197928 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
20197872 GATTTGACTT
20197882 TTTTGTTT-TTTTA
1 TTTTGTTTATTTTA
*
20197895 TTTTTTGTTTATTTTG
1 --TTTTGTTTATTTTA
*
20197911 TTTTGTTTGTTTTA
1 TTTTGTTTATTTTA
20197925 TTTT
1 TTTT
20197929 TTTCCTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 16 0.57
15 8 0.29
16 4 0.14
ACGTcount: A:0.06, C:0.00, G:0.11, T:0.83
Consensus pattern (14 bp):
TTTTGTTTATTTTA
Found at i:20198236 original size:84 final size:84
Alignment explanation
Indices: 20198109--20198297 Score: 222
Period size: 84 Copynumber: 2.2 Consensus size: 84
20198099 ATTGTATCTG
* * * * *
20198109 AAAGTCTTACAAATC-TAGACACTAAAATGGGCTCAGCTAGAAAGAGTTGCAAATCTTACT-TGG
1 AAAGTCTTACAAATCTTA-ACACTAAAATAGACTCAGCTAGAAAGACTTACAAATCTT-CTCTGA
*
20198172 AGGACTTACAGATTATGCTCA
64 AGGACTTACAGATTATGCCCA
* * * *
20198193 AAGAG-CTTACAAATCTTAATACTAAAATAGATTCAGCTTGAAAGACTTACAAATCTTGTCTGAA
1 AA-AGTCTTACAAATCTTAACACTAAAATAGACTCAGCTAGAAAGACTTACAAATCTTCTCTGAA
*
20198257 GGACTTAGAGATTATGCCCA
65 GGACTTACAGATTATGCCCA
*
20198277 AAAGTCTTATAAATCTTAACA
1 AAAGTCTTACAAATCTTAACA
20198298 TTTATAAAAG
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
83 3 0.03
84 81 0.92
85 4 0.05
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (84 bp):
AAAGTCTTACAAATCTTAACACTAAAATAGACTCAGCTAGAAAGACTTACAAATCTTCTCTGAAG
GACTTACAGATTATGCCCA
Found at i:20198372 original size:53 final size:50
Alignment explanation
Indices: 20198303--20198446 Score: 153
Period size: 53 Copynumber: 2.8 Consensus size: 50
20198293 TAACATTTAT
* * *
20198303 AAAAGCTCTTCTAATAAGAGGCATTGAAACTTTAAAGATTTCATTTTAAAAA
1 AAAAACTCATCTAATAAGAGGCATTGAAACTTTAAA-ATTTCA-TCTAAAAA
* * * *
20198355 AAAAGGCTCATTTAATAAGCGGCATTGAAATTTTAAAAATTTCATCTAAAAA
1 AAAA-ACTCATCTAATAAGAGGCATTGAAACTTT-AAAATTTCATCTAAAAA
* * * *
20198407 AAAAATTTATCTAATCAGAGGCATTAAAACTTTAAAATTT
1 AAAAACTCATCTAATAAGAGGCATTGAAACTTTAAAATTT
20198447 AAACATTTTG
Statistics
Matches: 77, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
50 7 0.09
51 21 0.27
52 15 0.19
53 31 0.40
54 3 0.04
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (50 bp):
AAAAACTCATCTAATAAGAGGCATTGAAACTTTAAAATTTCATCTAAAAA
Found at i:20198530 original size:41 final size:40
Alignment explanation
Indices: 20198476--20198948 Score: 182
Period size: 41 Copynumber: 11.7 Consensus size: 40
20198466 CTTAAAAATC
*
20198476 ATTTAA-ATATTTGCTCGAAAGTCTTGGAAAATCATTAAAAA
1 ATTTAAGAT-TTTGCTCGAAAGTCTTGG-AAATCATTTAAAA
*
20198517 ATTTAAGATTTTGCAC-AAAGGTCTTTGGAAATCA-TTAAAA
1 ATTTAAGATTTTGCTCGAAA-GTC-TTGGAAATCATTTAAAA
* * * * *
20198557 ACATGAA-ATTTTGCCCGAAGATTTTTGGAAATCATTTAAAA
1 A-TTTAAGATTTTGCTCGAA-AGTCTTGGAAATCATTTAAAA
* ** * * * **
20198598 TTTTGAA-ATTTTATTTGAAGGTCTTCGAAAATCATTCCAAA
1 ATTT-AAGATTTTGCTCGAAAGTCTT-GGAAATCATTTAAAA
* * * * * *
20198639 ATTTAAAATTTTGC-CGTGAGATTTTTGG-AATCA-TTCAGA
1 ATTTAAGATTTTGCTC--GAAAGTCTTGGAAATCATTTAAAA
* * * * * *
20198678 ATTCTAAAATTTTGC-CTAGAGGTCTTAGAAATTATTTAGAA
1 ATT-TAAGATTTTGCTCGA-AAGTCTTGGAAATCATTTAAAA
* * * *
20198719 ATTTAAGATTTTGCTTGGATA-TCTTTGGAAATCATTTGAGA
1 ATTTAAGATTTTGC-TCGAAAGTC-TTGGAAATCATTTAAAA
* * * * *
20198760 ATTTAAAATTTTGC-CTAAAGATCTTAGAATTCATTCAAAA
1 ATTTAAGATTTTGCTCGAAAG-TCTTGGAAATCATTTAAAA
* * ** *
20198800 TTTTAAGATTTTGCTTG-AAGATCTTTGGAAATTGTTTGAAA
1 ATTTAAGATTTTGCTCGAAAG-TC-TTGGAAATCATTTAAAA
* * * *
20198841 ATTTAAGGTTTTGCCCGAAAGTCTTGGAATTCATTTAGAA
1 ATTTAAGATTTTGCTCGAAAGTCTTGGAAATCATTTAAAA
* * * ** *
20198881 ATCTAAAGATTTTGC-CTAAAGATCTTGAAAATTGTTCAAAA
1 AT-TTAAGATTTTGCTCGAAAG-TCTTGGAAATCATTTAAAA
* * *
20198922 ATATGAAG-TTTTGCTTGAAGGTCTTGG
1 AT-TTAAGATTTTGCTCGAAAGTCTTGG
20198949 TACTTATTAT
Statistics
Matches: 311, Mismatches: 94, Indels: 55
0.68 0.20 0.12
Matches are distributed among these distances:
38 1 0.00
39 13 0.04
40 126 0.41
41 155 0.50
42 16 0.05
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (40 bp):
ATTTAAGATTTTGCTCGAAAGTCTTGGAAATCATTTAAAA
Found at i:20198568 original size:40 final size:41
Alignment explanation
Indices: 20198499--20198597 Score: 112
Period size: 40 Copynumber: 2.4 Consensus size: 41
20198489 CTCGAAAGTC
* *
20198499 TTGGAAAATCATTAAAAAATTTAAGATTTTGCACAAAGGTCT
1 TTGG-AAATCATTAAAAAATTGAAGATTTTGCACAAAGATCT
* * *
20198541 TTGGAAATCATTAAAAACA-TGAA-ATTTTGCCCGAAGATTT
1 TTGGAAATCATTAAAAA-ATTGAAGATTTTGCACAAAGATCT
*
20198581 TTGGAAATCATTTAAAA
1 TTGGAAATCATTAAAAA
20198598 TTTTGAAATT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
40 29 0.58
41 16 0.32
42 5 0.10
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.33
Consensus pattern (41 bp):
TTGGAAATCATTAAAAAATTGAAGATTTTGCACAAAGATCT
Found at i:20198701 original size:81 final size:81
Alignment explanation
Indices: 20198516--20198831 Score: 231
Period size: 81 Copynumber: 3.9 Consensus size: 81
20198506 ATCATTAAAA
* * * * * **
20198516 AATTTAAGATTTTGCAC-AAAGGTCTTTGGAAATCATTAAAAACATGAA-ATTTTGCCCGAAGAT
1 AATTTAAAATTTTGC-CTAAAGGTC-TTAGAAATCATTCAAAA-TTTAAGATTTTG-CCGTGGAT
*
20198579 -T-TTTGGAAATCATTT-AA
62 ATCTTTGGAAATCATTTCAG
* *** * * *
20198596 AATTTTGAAATTTTATTTGAAGGTCTTCGAAAATCATTCCAAAATTTAAAATTTTGCCGTGAGAT
1 AA-TTTAAAATTTTGCCTAAAGGTCTTAG-AAATCATT-CAAAATTTAAGATTTTGCCGTG-GAT
20198661 -T-TTTGG-AATCA-TTCAG
62 ATCTTTGGAAATCATTTCAG
* * * *
20198677 AATTCTAAAATTTTGCCTAGAGGTCTTAGAAATTATTTAGAAATTTAAGATTTTG-CTTGGATAT
1 AATT-TAAAATTTTGCCTAAAGGTCTTAGAAATCATTCA-AAATTTAAGATTTTGCCGTGGATAT
*
20198741 CTTTGGAAATCATTTGAG
64 CTTTGGAAATCATTTCAG
* * * * *
20198759 AATTTAAAATTTTGCCTAAAGATCTTAGAATTCATTCAAAATTTTAAGATTTTG-CTTGAAGATC
1 AATTTAAAATTTTGCCTAAAGGTCTTAGAAATCATTCAAAA-TTTAAGATTTTGCCGTGGATATC
20198823 TTTGGAAAT
65 TTTGGAAAT
20198832 TGTTTGAAAA
Statistics
Matches: 190, Mismatches: 32, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
78 3 0.02
79 5 0.03
80 38 0.20
81 117 0.62
82 27 0.14
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (81 bp):
AATTTAAAATTTTGCCTAAAGGTCTTAGAAATCATTCAAAATTTAAGATTTTGCCGTGGATATCT
TTGGAAATCATTTCAG
Found at i:20198730 original size:40 final size:40
Alignment explanation
Indices: 20198637--20198910 Score: 145
Period size: 40 Copynumber: 6.8 Consensus size: 40
20198627 AATCATTCCA
* * * * * *
20198637 AAATTTAAAATTTTGCCGT-GAGATTTTTGGAATCATTCAG
1 AAATTTAAGATTTTGCC-TAGAGATCTTAGAAATTATTTAG
* *
20198677 -AATTCTAAAATTTTGCCTAGAGGTCTTAGAAATTATTTAG
1 AAATT-TAAGATTTTGCCTAGAGATCTTAGAAATTATTTAG
* * * * *
20198717 AAATTTAAGATTTTGCTTGGATATCTTTGGAAATCATTT-G
1 AAATTTAAGATTTTGCCTAGAGATC-TTAGAAATTATTTAG
* * *
20198757 AGAATTTAAAATTTTGCCTAAAGATCTTAG-AATTCATTCA-
1 A-AATTTAAGATTTTGCCTAGAGATCTTAGAAATT-ATTTAG
* * *
20198797 AAATTTTAAGATTTTG-CTTGAAGATCTTTGGAAATTGTTT-G
1 AAA-TTTAAGATTTTGCCTAG-AGATC-TTAGAAATTATTTAG
* * * *
20198838 AAAATTTAAGGTTTTGCC-CGAAAGTCTT-GGAATTCATTTAG
1 -AAATTTAAGATTTTGCCTAGAGA-TCTTAGAAATT-ATTTAG
* *
20198879 AAATCTAAAGATTTTGCCTAAAGATCTT-GAAA
1 AAAT-TTAAGATTTTGCCTAGAGATCTTAGAAA
20198911 ATTGTTCAAA
Statistics
Matches: 177, Mismatches: 38, Indels: 37
0.70 0.15 0.15
Matches are distributed among these distances:
39 17 0.10
40 78 0.44
41 72 0.41
42 10 0.06
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (40 bp):
AAATTTAAGATTTTGCCTAGAGATCTTAGAAATTATTTAG
Found at i:20198838 original size:81 final size:81
Alignment explanation
Indices: 20198675--20198916 Score: 267
Period size: 81 Copynumber: 3.0 Consensus size: 81
20198665 GGAATCATTC
* *
20198675 AGAATTCTAAAATTTTGCCTAGAGGTCTTAGAAATT-ATTTAGAAA-TTTAAGATTTTGCTTGGA
1 AGAATT-TAAAATTTTGCCTA-AAGTCTTAG-AATTCATTTAGAAATTTTAAGATTTTGCTTGAA
* **
20198738 TATCTTTGGAAATCATTTG
63 GATCTTTGGAAATTGTTTG
*
20198757 AGAATTTAAAATTTTGCCTAAAGATCTTAGAATTCATTCA-AAATTTTAAGATTTTGCTTGAAGA
1 AGAATTTAAAATTTTGCCTAAAG-TCTTAGAATTCATTTAGAAATTTTAAGATTTTGCTTGAAGA
20198821 TCTTTGGAAATTGTTTG
65 TCTTTGGAAATTGTTTG
* ** * * * * * *
20198838 AAAATTTAAGGTTTTGCCCGAAAGTCTTGGAATTCATTTAGAAATCTAAAGATTTTGCCTAAAGA
1 AGAATTTAAAATTTTG-CCTAAAGTCTTAGAATTCATTTAGAAATTTTAAGATTTTGCTTGAAGA
*
20198903 TC-TTGAAAATTGTT
65 TCTTTGGAAATTGTT
20198917 CAAAAATATG
Statistics
Matches: 138, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
80 9 0.07
81 95 0.69
82 34 0.25
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (81 bp):
AGAATTTAAAATTTTGCCTAAAGTCTTAGAATTCATTTAGAAATTTTAAGATTTTGCTTGAAGAT
CTTTGGAAATTGTTTG
Found at i:20198933 original size:81 final size:82
Alignment explanation
Indices: 20198768--20198935 Score: 191
Period size: 81 Copynumber: 2.1 Consensus size: 82
20198758 GAATTTAAAA
* * * * * *
20198768 TTTTG-CCTAAAGATCTTAGAATTCATTCAAAATTTTAAGATTTTGCTTGAAGATCTTTGGAAAT
1 TTTTGCCCGAAAGATCTTAGAATTCATTCAAAATCTAAAGATTTTGCCTAAAGATCTTTGAAAAT
** *
20198832 TGTTTGAAAATTTAAGG
66 TGTTCAAAAATTGAAGG
* *
20198849 TTTTGCCCGAAAG-TCTTGGAATTCATTTAGAAATCTAAAGATTTTGCCTAAAGATC-TTGAAAA
1 TTTTGCCCGAAAGATCTTAGAATTCATTCA-AAATCTAAAGATTTTGCCTAAAGATCTTTGAAAA
20198912 TTGTTCAAAAATATGAA-G
65 TTGTTCAAAAAT-TGAAGG
20198930 TTTTGC
1 TTTTGC
20198936 TTGAAGGTCT
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
81 42 0.58
82 31 0.42
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (82 bp):
TTTTGCCCGAAAGATCTTAGAATTCATTCAAAATCTAAAGATTTTGCCTAAAGATCTTTGAAAAT
TGTTCAAAAATTGAAGG
Found at i:20200963 original size:30 final size:30
Alignment explanation
Indices: 20200929--20200986 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
20200919 AATCATTCAT
* *
20200929 TTTTTTAATTTTTTGTCCTTTTTTTCTTTG
1 TTTTTGAATTTTTTGTCATTTTTTTCTTTG
** *
20200959 TTTTTGGTTTTTTTTTCATTTTTTTCTT
1 TTTTTGAATTTTTTGTCATTTTTTTCTT
20200987 CTTTTTCCCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.05, C:0.09, G:0.07, T:0.79
Consensus pattern (30 bp):
TTTTTGAATTTTTTGTCATTTTTTTCTTTG
Found at i:20203652 original size:103 final size:104
Alignment explanation
Indices: 20203451--20203644 Score: 239
Period size: 103 Copynumber: 1.9 Consensus size: 104
20203441 ATTTTATTTA
* * ** * * * *
20203451 TGAAAACAATTTATTTTTAGAAATATTTTTTTAATATATTAGTAAGAGTTTTTTGTAAAAATTAT
1 TGAAAACAATTTATTTTCAAAAATATCCTTCTAATATATTAGTAAGAATTTTCTATAAAAATTAT
*
20203516 CCTCTAATATACTGGTAGAATTGAAAAATTATTTGTTTG
66 CCTCCAATATACTGGTAGAATTGAAAAATTATTTGTTTG
* *
20203555 TGAAAACAATTTATTTTCAAAAATA-CCTTCTAATATGTTAGTAA-AATTTTCTATCAAAGATTA
1 TGAAAACAATTTATTTTCAAAAATATCCTTCTAATATATTAGTAAGAATTTTCTAT-AAAAATTA
** *
20203618 TCCTCCAATATGTTGGTAGGATTGAAA
65 TCCTCCAATATACTGGTAGAATTGAAA
20203645 TTTTATTTAT
Statistics
Matches: 75, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
102 7 0.09
103 45 0.60
104 23 0.31
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.42
Consensus pattern (104 bp):
TGAAAACAATTTATTTTCAAAAATATCCTTCTAATATATTAGTAAGAATTTTCTATAAAAATTAT
CCTCCAATATACTGGTAGAATTGAAAAATTATTTGTTTG
Found at i:20203837 original size:20 final size:20
Alignment explanation
Indices: 20203803--20203913 Score: 90
Period size: 20 Copynumber: 5.5 Consensus size: 20
20203793 AGGCAGAAAC
*
20203803 TATCATGCAAATAATATCATA
1 TATCATGC-AATAATATAATA
*
20203824 TATCATGTAATAATATAATA
1 TATCATGCAATAATATAATA
20203844 TATCATGCAATAATA-ATATAA
1 TATCATGCAATAATATA-AT-A
*
20203865 TATCATACAA-ATATATTAAT-
1 TATCATGCAATA-ATA-TAATA
*
20203885 TATCTTGCAAT--TA-AATA
1 TATCATGCAATAATATAATA
20203902 TAATCATGCAAT
1 T-ATCATGCAAT
20203914 TAATGCAAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 19
0.74 0.07 0.19
Matches are distributed among these distances:
16 3 0.04
17 1 0.01
18 11 0.15
19 1 0.01
20 36 0.48
21 20 0.27
22 2 0.03
23 1 0.01
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.37
Consensus pattern (20 bp):
TATCATGCAATAATATAATA
Found at i:20203857 original size:23 final size:22
Alignment explanation
Indices: 20203803--20203867 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 22
20203793 AGGCAGAAAC
*
20203803 TATCATGCA-AATAATATCATA
1 TATCATGCATAATAATATAATA
20203824 TATCATG--TAATAATATAATA
1 TATCATGCATAATAATATAATA
20203844 TATCATGCAATAATAATATAATA
1 TATCATGC-ATAATAATATAATA
20203867 T
1 T
20203868 CATACAAATA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
20 18 0.46
21 7 0.18
23 14 0.36
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.37
Consensus pattern (22 bp):
TATCATGCATAATAATATAATA
Found at i:20204614 original size:20 final size:19
Alignment explanation
Indices: 20204585--20204638 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 19
20204575 AAAATCAACA
20204585 AAAAATCCCAACAAAAATCTC
1 AAAAATCCCAA-AAAAAT-TC
20204606 AAAAA-CCCAAAAAAATTC
1 AAAAATCCCAAAAAAATTC
20204624 AAAAATTCCCAAAAA
1 AAAAA-TCCCAAAAA
20204639 CAAAAGATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.23
19 6 0.19
20 13 0.42
21 5 0.16
ACGTcount: A:0.63, C:0.24, G:0.00, T:0.13
Consensus pattern (19 bp):
AAAAATCCCAAAAAAATTC
Found at i:20205253 original size:6 final size:6
Alignment explanation
Indices: 20205242--20205270 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
20205232 AAATTAAATC
20205242 AAATTA AAATTA AAATTA AAATTA AAATT
1 AAATTA AAATTA AAATTA AAATTA AAATT
20205271 TTCCTATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
AAATTA
Found at i:20205927 original size:17 final size:17
Alignment explanation
Indices: 20205907--20205990 Score: 59
Period size: 17 Copynumber: 4.9 Consensus size: 17
20205897 TTTCATAGAG
20205907 ATAAGAATTTCAGTTTC
1 ATAAGAATTTCAGTTTC
20205924 ATAAGAACTTT-A-TATTC
1 ATAAGAA-TTTCAGT-TTC
* *
20205941 ATAAGAGTTTTATGTTT-
1 ATAAGAATTTCA-GTTTC
* *
20205958 TTAAAAATTTCA-TATTC
1 ATAAGAATTTCAGT-TTC
*
20205975 GTAAGAATTTCAGTTT
1 ATAAGAATTTCAGTTT
20205991 AGAATTTTAG
Statistics
Matches: 52, Mismatches: 7, Indels: 16
0.69 0.09 0.21
Matches are distributed among these distances:
15 1 0.02
16 6 0.12
17 38 0.73
18 6 0.12
19 1 0.02
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (17 bp):
ATAAGAATTTCAGTTTC
Found at i:20205945 original size:34 final size:33
Alignment explanation
Indices: 20205907--20205991 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 33
20205897 TTTCATAGAG
*
20205907 ATAAGAATTTCAGTTTCATAAGAACTTT-ATATTC
1 ATAAGAATTTCAGTTT-ATAA-AAATTTCATATTC
* * *
20205941 ATAAGAGTTTTATGTTTTTAAAAATTTCATATTC
1 ATAAGAATTTCA-GTTTATAAAAATTTCATATTC
*
20205975 GTAAGAATTTCAGTTTA
1 ATAAGAATTTCAGTTTA
20205992 GAATTTTAGT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
33 9 0.22
34 28 0.68
35 4 0.10
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (33 bp):
ATAAGAATTTCAGTTTATAAAAATTTCATATTC
Found at i:20206404 original size:16 final size:16
Alignment explanation
Indices: 20206383--20206414 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
20206373 TTCACATCTA
*
20206383 AAATTTTAAAGATTCT
1 AAATTTCAAAGATTCT
20206399 AAATTTCAAAGATTCT
1 AAATTTCAAAGATTCT
20206415 CTTTTGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (16 bp):
AAATTTCAAAGATTCT
Found at i:20207863 original size:12 final size:12
Alignment explanation
Indices: 20207848--20207881 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
20207838 TTTTTTCTTT
20207848 TTTATTTTTTTA
1 TTTATTTTTTTA
20207860 TTTA-TTTTTTA
1 TTTATTTTTTTA
20207871 TTCTATTTTTT
1 TT-TATTTTTT
20207882 GCCACTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 9 0.45
12 6 0.30
13 5 0.25
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTATTTTTTTA
Found at i:20207869 original size:11 final size:11
Alignment explanation
Indices: 20207848--20207881 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
20207838 TTTTTTCTTT
20207848 TTTATTTTTTTA
1 TTTA-TTTTTTA
20207860 TTTATTTTTTA
1 TTTATTTTTTA
20207871 TTCTATTTTTT
1 TT-TATTTTTT
20207882 GCCACTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTATTTTTTA
Found at i:20209240 original size:3 final size:3
Alignment explanation
Indices: 20209227--20209255 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
20209217 AGAGGAAAGA
20209227 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
20209256 GATGATGATC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:20209287 original size:12 final size:12
Alignment explanation
Indices: 20209254--20209296 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
20209244 AATAATAATA
*
20209254 ATGATGATGATC
1 ATGATAATGATC
* *
20209266 ATCATGATGATC
1 ATGATAATGATC
*
20209278 ATGATAATGATG
1 ATGATAATGATC
20209290 ATGATAA
1 ATGATAA
20209297 GTATATTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.33
Consensus pattern (12 bp):
ATGATAATGATC
Found at i:20209339 original size:3 final size:3
Alignment explanation
Indices: 20209333--20209377 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
20209323 ATAATAATAA
20209333 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
20209378 CAAAATAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TAG
Found at i:20209469 original size:42 final size:45
Alignment explanation
Indices: 20209410--20209494 Score: 122
Period size: 42 Copynumber: 2.0 Consensus size: 45
20209400 ATATACTACA
*
20209410 ATAATATAAATATAATATGCTACACTATA-T-C-ATAATAATAAT
1 ATAATATAAATATAATATGCGACACTATACTACTATAATAATAAT
* *
20209452 ATAATGTAAATATAATATGCGATACTATACTACTATAATAATA
1 ATAATATAAATATAATATGCGACACTATACTACTATAATAATA
20209495 TAGTACTTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
42 26 0.70
43 1 0.03
44 1 0.03
45 9 0.24
ACGTcount: A:0.51, C:0.09, G:0.05, T:0.35
Consensus pattern (45 bp):
ATAATATAAATATAATATGCGACACTATACTACTATAATAATAAT
Found at i:20209493 original size:37 final size:39
Alignment explanation
Indices: 20209402--20209496 Score: 104
Period size: 42 Copynumber: 2.4 Consensus size: 39
20209392 AAACAACAAT
* *
20209402 ATACTACAATAATATAAATATAATATGCTACACTATATC
1 ATACTATAATAATATAAATATAATATGCGACACTATATC
* * *
20209441 ATAATAATAATATAATGTAAATATAATATGCGATACTATA-C
1 ATACT-AT-A-ATAATATAAATATAATATGCGACACTATATC
20209482 -TACTATAATAATATA
1 ATACTATAATAATATA
20209497 GTACTTGTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
37 7 0.15
38 1 0.02
39 6 0.13
40 4 0.09
41 2 0.04
42 26 0.57
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.35
Consensus pattern (39 bp):
ATACTATAATAATATAAATATAATATGCGACACTATATC
Found at i:20211811 original size:2 final size:2
Alignment explanation
Indices: 20211770--20211795 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20211760 TGATAAATTA
20211770 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
20211796 GCTGCCTGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20213233 original size:13 final size:13
Alignment explanation
Indices: 20213215--20213239 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20213205 TCACATTTTG
20213215 ATTTTTTTAATTA
1 ATTTTTTTAATTA
20213228 ATTTTTTTAATT
1 ATTTTTTTAATT
20213240 TTTACCTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTTTTTAATTA
Found at i:20213779 original size:3 final size:3
Alignment explanation
Indices: 20213771--20213815 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
20213761 TTTAAAGGAC
20213771 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
20213816 TCTATTTCAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:20216714 original size:16 final size:16
Alignment explanation
Indices: 20216689--20216726 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 16
20216679 AGAAATGAGT
20216689 AGAAAAAAAATAAAGGAA
1 AGAAAAAAAA-AAA-GAA
20216707 AGAAAAAAAAAAAGAA
1 AGAAAAAAAAAAAGAA
20216723 AGAA
1 AGAA
20216727 GTCTGCCATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 7 0.35
17 3 0.15
18 10 0.50
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.03
Consensus pattern (16 bp):
AGAAAAAAAAAAAGAA
Found at i:20227874 original size:27 final size:27
Alignment explanation
Indices: 20227844--20227896 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
20227834 TATGCTTTAA
20227844 AAATTCTATATATTTTAATTTGGATTC
1 AAATTCTATATATTTTAATTTGGATTC
* * * *
20227871 AAATTCTTTATTTTTTTATTTTGATT
1 AAATTCTATATATTTTAATTTGGATT
20227897 TTTTAGAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.60
Consensus pattern (27 bp):
AAATTCTATATATTTTAATTTGGATTC
Found at i:20229076 original size:2 final size:2
Alignment explanation
Indices: 20229069--20229095 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
20229059 TACTTATAAA
20229069 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
20229096 AAGCAATAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20231569 original size:34 final size:32
Alignment explanation
Indices: 20231522--20231586 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 32
20231512 ATGTTTAATT
20231522 TAATATTTAAAATTTAAAATTT-TTAATATGATAA
1 TAATATTTAAAATTT---ATTTATTAATATGATAA
20231556 TAATA-TTATAAATTTATTTATTAATATGATA
1 TAATATTTA-AAATTTATTTATTAATATGATA
20231587 TTTATTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
31 4 0.14
32 11 0.38
33 3 0.10
34 11 0.38
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (32 bp):
TAATATTTAAAATTTATTTATTAATATGATAA
Found at i:20232407 original size:2 final size:2
Alignment explanation
Indices: 20232395--20232432 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
20232385 CTCCCATTAG
*
20232395 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20232433 AAATTGACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:20234072 original size:27 final size:26
Alignment explanation
Indices: 20234039--20234093 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 26
20234029 TTGGACAAAT
20234039 TTAAAAACATTT-CTCATTTGAAGATTTC
1 TTAAAAA-ATTTAC-CATTTGAA-ATTTC
20234067 TTAAAAAATTTACCATTTGAAATTTC
1 TTAAAAAATTTACCATTTGAAATTTC
20234093 T
1 T
20234094 AATAATCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 6 0.23
27 12 0.46
28 8 0.31
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.44
Consensus pattern (26 bp):
TTAAAAAATTTACCATTTGAAATTTC
Found at i:20235142 original size:2 final size:2
Alignment explanation
Indices: 20235137--20235163 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
20235127 TCTTTGACTG
20235137 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
20235164 TTTGCCTACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20235738 original size:43 final size:43
Alignment explanation
Indices: 20235629--20236259 Score: 306
Period size: 43 Copynumber: 14.3 Consensus size: 43
20235619 TTTGAGAAAC
* **
20235629 AAATAAAGCTCATT-TAAGTAGAGGCTTAATAAC-TTGAAAAAAA
1 AAATAAAGCTC-TTCTAAGTAGAGGCTCAATAACTTTG-AAACTA
*
20235672 TAAATAAAGCTCCTCTAAGTAGAGGCTCAATAACTTTGAAACTA
1 -AAATAAAGCTCTTCTAAGTAGAGGCTCAATAACTTTGAAACTA
* **
20235716 AAAAAAAGCTCTTCTAAGTAGAGGCTCAACGACTTTTGAAAC-A
1 AAATAAAGCTCTTCTAAGTAGAGGCTCAATAAC-TTTGAAACTA
* * * * *
20235759 TAAATAAAGCGCCTT-TAAGTAGTGGCTTAACAATTTTGAAAACT-
1 -AAATAAAGC-TCTTCTAAGTAGAGGCTCAATAACTTTG-AAACTA
* * * *
20235803 AAATAAAGCACCTCTAAATAGAGG-TCAATGACTTTTGAAAC-A
1 AAATAAAGCTCTTCTAAGTAGAGGCTCAATAAC-TTTGAAACTA
* * * * *
20235845 TAAATAAAGCTCCTCTAAGTAGATGTTCAACAACTTTAAAAACT-
1 -AAATAAAGCTCTTCTAAGTAGAGGCTCAATAACTTT-GAAACTA
* * * * * *
20235889 AAATAAAGTTCTTTTAAGCAAAGGCTTAACT-ACTTTTAAAACATAAAACA
1 AAATAAAGCTCTTCTAAGTAGAGGCTCAA-TAAC-TTTGAAAC-T-----A
* *
20235939 TAAATAAAGCTCCTCTAAATAGAGGCTCAATAACTTTGAAAACT-
1 -AAATAAAGCTCTTCTAAGTAGAGGCTCAATAACTTTG-AAACTA
* * * **
20235983 AAATAAGGCTCCTCTAAATAGAGGCTCAATGTCTTTTGAAAC-A
1 AAATAAAGCTCTTCTAAGTAGAGGCTCAATAAC-TTTGAAACTA
* * * * * * *
20236026 TAAATAAAGCT-TATCTAAGTAAAAGTTAAATGACTTTGAAAATT
1 -AAATAAAGCTCT-TCTAAGTAGAGGCTCAATAACTTTGAAACTA
* * * *
20236070 AAATAAGGCTCCTCTAAGCAGAGGCTCAATGACTTTTGAAAC-A
1 AAATAAAGCTCTTCTAAGTAGAGGCTCAATAAC-TTTGAAACTA
* * * * * *
20236113 TAAATAAAACTCTTTTAAGCAAAAGCTCAACAACTTTGAAAACT-
1 -AAATAAAGCTCTTCTAAGTAGAGGCTCAATAACTTTG-AAACTA
* * * * * **
20236157 AAATAAAACTTCTT-TGAGTAGAGGTTTAACGATTTTTGAAA-TA
1 AAATAAAGC-TCTTCTAAGTAGAGGCTCAA-TAACTTTGAAACTA
* * **
20236200 TAAATAAAGCTCTTTTAAGTAGAGACTCAACTATTTTTGAAAC-A
1 -AAATAAAGCTCTTCTAAGTAGAGGCTCAA-TAACTTTGAAACTA
20236244 TAAATAAAGCTCTTCT
1 -AAATAAAGCTCTTCT
20236260 TGAAACATAA
Statistics
Matches: 454, Mismatches: 91, Indels: 84
0.72 0.14 0.13
Matches are distributed among these distances:
42 11 0.02
43 203 0.45
44 201 0.44
45 6 0.01
50 5 0.01
51 28 0.06
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (43 bp):
AAATAAAGCTCTTCTAAGTAGAGGCTCAATAACTTTGAAACTA
Found at i:20235740 original size:87 final size:86
Alignment explanation
Indices: 20235624--20236259 Score: 517
Period size: 87 Copynumber: 7.2 Consensus size: 86
20235614 CAACTTTTGA
* * *** *
20235624 GAAAC-AAATAAAGCTCATT-TAAGTAGAGGCTTAATAACTTGAAAAAAATAAATAAAGCTCCTC
1 GAAACTAAATAAAGCTC-TTCTAAGTAGAGGCTCAATGACTTTTGAAACATAAATAAAGCTCCTC
20235687 TAAGTAGAGGCTCAATAACTTT
65 TAAGTAGAGGCTCAATAACTTT
* * * *
20235709 GAAACTAAAAAAAAGCTCTTCTAAGTAGAGGCTCAACGACTTTTGAAACATAAATAAAGCGCCTT
1 GAAACT-AAATAAAGCTCTTCTAAGTAGAGGCTCAATGACTTTTGAAACATAAATAAAGCTCCTC
* * * *
20235774 TAAGTAGTGGCTTAACAATTTT
65 TAAGTAGAGGCTCAATAACTTT
* * *
20235796 GAAAACTAAATAAAGCACCTCTAAATAGAGG-TCAATGACTTTTGAAACATAAATAAAGCTCCTC
1 G-AAACTAAATAAAGCTCTTCTAAGTAGAGGCTCAATGACTTTTGAAACATAAATAAAGCTCCTC
* * *
20235860 TAAGTAGATGTTCAACAACTTT
65 TAAGTAGAGGCTCAATAACTTT
* * * * * * *
20235882 AAAAACTAAATAAAGTTCTTTTAAGCAAAGGCTTAACT-ACTTTTAAAACATAAAACATAAATAA
1 -GAAACTAAATAAAGCTCTTCTAAGTAGAGGCTCAA-TGAC-TTT------TGAAACATAAATAA
*
20235946 AGCTCCTCTAAATAGAGGCTCAATAACTTT
57 AGCTCCTCTAAGTAGAGGCTCAATAACTTT
* * * * **
20235976 GAAAACTAAATAAGGCTCCTCTAAATAGAGGCTCAATGTCTTTTGAAACATAAATAAAGCTTATC
1 G-AAACTAAATAAAGCTCTTCTAAGTAGAGGCTCAATGACTTTTGAAACATAAATAAAGCTCCTC
* * * * *
20236041 TAAGTAAAAGTTAAATGACTTT
65 TAAGTAGAGGCTCAATAACTTT
* * * * * * *
20236063 GAAAATTAAATAAGGCTCCTCTAAGCAGAGGCTCAATGACTTTTGAAACATAAATAAAACTCTTT
1 G-AAACTAAATAAAGCTCTTCTAAGTAGAGGCTCAATGACTTTTGAAACATAAATAAAGCTCCTC
* * * *
20236128 TAAGCAAAAGCTCAACAACTTT
65 TAAGTAGAGGCTCAATAACTTT
* * * * * * * *
20236150 GAAAACTAAATAAAACTTCTT-TGAGTAGAGGTTTAACGATTTTTGAAATATAAATAAAGCTCTT
1 G-AAACTAAATAAAGC-TCTTCTAAGTAGAGGCTCAATGACTTTTGAAACATAAATAAAGCTCCT
* * **
20236214 TTAAGTAGAGACTCAACTATTTTT
64 CTAAGTAGAGGCTCAA-TAACTTT
20236238 GAAACATAAATAAAGCTCTTCT
1 GAAAC-TAAATAAAGCTCTTCT
20236260 TGAAACATAA
Statistics
Matches: 439, Mismatches: 92, Indels: 37
0.77 0.16 0.07
Matches are distributed among these distances:
85 5 0.01
86 71 0.16
87 266 0.61
88 27 0.06
93 4 0.01
94 66 0.15
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (86 bp):
GAAACTAAATAAAGCTCTTCTAAGTAGAGGCTCAATGACTTTTGAAACATAAATAAAGCTCCTCT
AAGTAGAGGCTCAATAACTTT
Found at i:20236115 original size:181 final size:180
Alignment explanation
Indices: 20235754--20236116 Score: 467
Period size: 181 Copynumber: 2.0 Consensus size: 180
20235744 ACGACTTTTG
* * * * *
20235754 AAACATAAATAAAGCGCCTTTAAGTAGTGGCTTAACAATTTTGAAAACTAAATAAAGCACCTCTA
1 AAACATAAATAAAGCGCCTCTAAATAGAGGCTCAACAACTTTGAAAACTAAATAAAGCACCTCTA
* * * *
20235819 AATAGAGGTCAATGACTTTTGAAACATAAATAAAGCTCCTCTAAGTAGATGTTCAACAACTTTAA
66 AATAGAGGTCAATGACTTTTGAAACATAAATAAAGCTCATCTAAGTAAAAGTTAAACAACTTTAA
* * * *
20235884 AAACTAAATAAAGTTCTTTTAAGCAAAGGCTTAACTACTTTTAAAACATA
131 AAACTAAATAAAGCTCCTCTAAGCAAAGGCTCAACTACTTTTAAAACATA
* * * *
20235934 AAACATAAATAAAGCTCCTCTAAATAGAGGCTCAATAACTTTGAAAACTAAATAAGGCTCCTCTA
1 AAACATAAATAAAGCGCCTCTAAATAGAGGCTCAACAACTTTGAAAACTAAATAAAGCACCTCTA
* * ** *
20235999 AATAGAGGCTCAATGTCTTTTGAAACATAAATAAAGCTTATCTAAGTAAAAGTTAAATGACTTTG
66 AATAGAGG-TCAATGACTTTTGAAACATAAATAAAGCTCATCTAAGTAAAAGTTAAACAACTTTA
* * * *
20236064 AAAATTAAATAAGGCTCCTCTAAGCAGAGGCTCAA-TGACTTTTGAAACATA
130 AAAACTAAATAAAGCTCCTCTAAGCAAAGGCTCAACT-ACTTTTAAAACATA
20236115 AA
1 AA
20236117 TAAAACTCTT
Statistics
Matches: 155, Mismatches: 26, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
180 65 0.42
181 90 0.58
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.28
Consensus pattern (180 bp):
AAACATAAATAAAGCGCCTCTAAATAGAGGCTCAACAACTTTGAAAACTAAATAAAGCACCTCTA
AATAGAGGTCAATGACTTTTGAAACATAAATAAAGCTCATCTAAGTAAAAGTTAAACAACTTTAA
AAACTAAATAAAGCTCCTCTAAGCAAAGGCTCAACTACTTTTAAAACATA
Found at i:20236256 original size:44 final size:43
Alignment explanation
Indices: 20235934--20236259 Score: 223
Period size: 44 Copynumber: 7.5 Consensus size: 43
20235924 TTAAAACATA
* * **
20235934 AAACATAAATAAAGCTCCTCTAAATAGAGGCTCAATAACTTTG
1 AAACATAAATAAAGCTCTTCTAAGTAGAGGCTCAATATTTTTG
* * * *
20235977 AAA-ACTAAATAAGGCTCCTCTAAATAGAGGCTCAATGTCTTTTG
1 AAACA-TAAATAAAGCTCTTCTAAGTAGAGGCTCAATAT-TTTTG
* * * * *
20236021 AAACATAAATAAAGCT-TATCTAAGTAAAAGTTAAATGA-CTTTG
1 AAACATAAATAAAGCTCT-TCTAAGTAGAGGCTCAAT-ATTTTTG
* * * *
20236064 AAA-ATTAAATAAGGCTCCTCTAAGCAGAGGCTCAATGACTTTTG
1 AAACA-TAAATAAAGCTCTTCTAAGTAGAGGCTCAAT-ATTTTTG
* * * * * * **
20236108 AAACATAAATAAAACTCTTTTAAGCAAAAGCTCAACAACTTTG
1 AAACATAAATAAAGCTCTTCTAAGTAGAGGCTCAATATTTTTG
* * * * *
20236151 AAA-ACTAAATAAAACTTCTT-TGAGTAGAGGTTTAACGATTTTTG
1 AAACA-TAAATAAAGC-TCTTCTAAGTAGAGGCTCAA-TATTTTTG
* * *
20236195 AAATATAAATAAAGCTCTTTTAAGTAGAGACTCAACTATTTTTG
1 AAACATAAATAAAGCTCTTCTAAGTAGAGGCTCAA-TATTTTTG
20236239 AAACATAAATAAAGCTCTTCT
1 AAACATAAATAAAGCTCTTCT
20236260 TGAAACATAA
Statistics
Matches: 222, Mismatches: 47, Indels: 27
0.75 0.16 0.09
Matches are distributed among these distances:
42 3 0.01
43 96 0.43
44 120 0.54
45 3 0.01
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (43 bp):
AAACATAAATAAAGCTCTTCTAAGTAGAGGCTCAATATTTTTG
Found at i:20236270 original size:67 final size:67
Alignment explanation
Indices: 20236192--20236322 Score: 183
Period size: 67 Copynumber: 2.0 Consensus size: 67
20236182 TTAACGATTT
* * * * * * *
20236192 TTGAAATATAAATAAAGC-TCTTTTAAGTAGAGACTCAACTATTTTTGAAACATAAATAAAGCTC
1 TTGAAACATAAATAAAACTTC-TCTAAGTAGAAACTCAACAACTTTTGAAAAATAAATAAAGCTC
20236256 TTC
65 TTC
20236259 TTGAAACATAAATAAAACTTCTCTAAGTAGAAACTCAACAACTTTTGAAAAATAAATAAAGCTC
1 TTGAAACATAAATAAAACTTCTCTAAGTAGAAACTCAACAACTTTTGAAAAATAAATAAAGCTC
20236323 ATTTAAACAG
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
67 54 0.96
68 2 0.04
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.31
Consensus pattern (67 bp):
TTGAAACATAAATAAAACTTCTCTAAGTAGAAACTCAACAACTTTTGAAAAATAAATAAAGCTCT
TC
Found at i:20236690 original size:33 final size:33
Alignment explanation
Indices: 20236648--20236711 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
20236638 AAATTAATGC
*
20236648 ACTAAACATTTA-AAGATGCAATGCATGCTATGT
1 ACTAAACATTCAGAA-ATGCAATGCATGCTATGT
*
20236681 ACTAAACATTCAGAAATGTAATGCATGCTAT
1 ACTAAACATTCAGAAATGCAATGCATGCTAT
20236712 ACAAATGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (33 bp):
ACTAAACATTCAGAAATGCAATGCATGCTATGT
Found at i:20237760 original size:18 final size:18
Alignment explanation
Indices: 20237737--20237777 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
20237727 TGAGTCTTCA
*
20237737 TTTTCCCTCATTTTATAT
1 TTTTCCATCATTTTATAT
**
20237755 TTTTCCATTTTTTTATAT
1 TTTTCCATCATTTTATAT
20237773 TTTTC
1 TTTTC
20237778 TCTTATTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTCCATCATTTTATAT
Found at i:20237784 original size:29 final size:28
Alignment explanation
Indices: 20237752--20237850 Score: 73
Period size: 29 Copynumber: 3.6 Consensus size: 28
20237742 CCTCATTTTA
*
20237752 TATTTTTCCATTTTTTTATATTTTTCTCT
1 TATTTTTCCATTTTTTTAT-TTTTTATCT
* *
20237781 TATTTCTCTTATTTTTCTTATTTTTTAT-T
1 TATTTTTC-CATTTTT-TTATTTTTTATCT
* * *
20237810 TTTTTATTTCA-TTTTTTATTTTTTTTC-
1 TATTT-TTCCATTTTTTTATTTTTTATCT
20237837 T-TTTTT-CATTTTTT
1 TATTTTTCCATTTTTT
20237851 CATCCATTAT
Statistics
Matches: 57, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
24 2 0.04
25 7 0.12
26 3 0.05
27 11 0.19
28 4 0.07
29 13 0.23
30 13 0.23
31 4 0.07
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (28 bp):
TATTTTTCCATTTTTTTATTTTTTATCT
Found at i:20237801 original size:18 final size:17
Alignment explanation
Indices: 20237773--20237819 Score: 62
Period size: 16 Copynumber: 2.8 Consensus size: 17
20237763 TTTTTTATAT
20237773 TTTTCTCTTATTTCTCTTA
1 TTTT-TCTTATTTCT-TTA
20237792 TTTTTCTTATTT-TTTA
1 TTTTTCTTATTTCTTTA
20237808 TTTTT-TTATTTC
1 TTTTTCTTATTTC
20237820 ATTTTTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 6 0.22
16 8 0.30
17 1 0.04
18 8 0.30
19 4 0.15
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTCTTATTTCTTTA
Found at i:20237818 original size:24 final size:23
Alignment explanation
Indices: 20237780--20237850 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 23
20237770 TATTTTTCTC
*
20237780 TTATTTCTCTTATTTTTCTTATTTT
1 TTATTT-TTTTATTTTT-TTATTTT
*
20237805 TTATTTTTTTA---TTTCATTTT
1 TTATTTTTTTATTTTTTTATTTT
20237825 TTATTTTTTT-TCTTTTTTCATTTT
1 TTATTTTTTTAT-TTTTTT-ATTTT
20237849 TT
1 TT
20237851 CATCCATTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
20 16 0.42
21 2 0.05
23 3 0.08
24 11 0.29
25 6 0.16
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.80
Consensus pattern (23 bp):
TTATTTTTTTATTTTTTTATTTT
Found at i:20237831 original size:17 final size:17
Alignment explanation
Indices: 20237811--20237848 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
20237801 TTTTTTATTT
20237811 TTTTATTTCATTTTTT-A
1 TTTTATTTC-TTTTTTCA
*
20237828 TTTTTTTTCTTTTTTCA
1 TTTTATTTCTTTTTTCA
20237845 TTTT
1 TTTT
20237849 TTCATCCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTATTTCTTTTTTCA
Found at i:20237835 original size:9 final size:9
Alignment explanation
Indices: 20237747--20237842 Score: 54
Period size: 9 Copynumber: 10.2 Consensus size: 9
20237737 TTTTCCCTCA
20237747 TTTTATATTT
1 TTTTAT-TTT
**
20237757 TTCCATTTT
1 TTTTATTTT
20237766 TTTATATTTT
1 TTT-TATTTT
*
20237776 TCTCTTATTTC
1 T-T-TTATTTT
*
20237787 TCTTATTTT
1 TTTTATTTT
*
20237796 TCTTA--TT
1 TTTTATTTT
20237803 TTTTA-TTT
1 TTTTATTTT
20237811 TTTTATTTCATT
1 TTTTA-TT--TT
20237823 TTTTATTTT
1 TTTTATTTT
*
20237832 TTTTCTTTT
1 TTTTATTTT
20237841 TT
1 TT
20237843 CATTTTTTCA
Statistics
Matches: 69, Mismatches: 9, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
7 6 0.09
8 7 0.10
9 28 0.41
10 11 0.16
11 9 0.13
12 8 0.12
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTATTTT
Done.