Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008717.1 Hibiscus syriacus cultivar Beakdansim tig00111772_pilon, 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: 3453450
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 16
Found at i:2553226 original size:18 final size:18
Alignment explanation
Indices: 2553203--2553278 Score: 92
Period size: 18 Copynumber: 4.6 Consensus size: 18
2553193 CAACGGTCAA
2553203 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
2553221 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
*
2553239 ----T--GGTAAACGGGT
1 CGGGTCGGGTCAACGGGT
*
2553251 CGGGTCGGGTCAATGGGT
1 CGGGTCGGGTCAACGGGT
2553269 CGGGTCGGGT
1 CGGGTCGGGT
2553279 TGTGACCGGT
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
12 10 0.20
14 1 0.02
16 1 0.02
18 37 0.76
ACGTcount: A:0.12, C:0.18, G:0.50, T:0.20
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:2553238 original size:8 final size:8
Alignment explanation
Indices: 2553175--2553221 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
2553165 GGTCAACTCC
2553175 GGTCAAC-
1 GGTCAACG
2553182 GGTCAACG
1 GGTCAACG
2553190 GGTCAAC-
1 GGTCAACG
2553197 GGTCAACG
1 GGTCAACG
2553205 GGT---CG
1 GGTCAACG
2553210 GGTCAACG
1 GGTCAACG
2553218 GGTC
1 GGTC
2553222 GGGTCGGGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
5 5 0.14
7 14 0.40
8 16 0.46
ACGTcount: A:0.21, C:0.26, G:0.38, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:2553238 original size:13 final size:13
Alignment explanation
Indices: 2553182--2553226 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
2553172 TCCGGTCAAC
*
2553182 GGTCAACGGGTCAAC
1 GGTCAACGGGTC--G
2553197 GGTCAACGGGTCG
1 GGTCAACGGGTCG
2553210 GGTCAACGGGTCG
1 GGTCAACGGGTCG
2553223 GGTC
1 GGTC
2553227 GGGTCAACGG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 17 0.59
15 12 0.41
ACGTcount: A:0.18, C:0.24, G:0.42, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:2553250 original size:30 final size:31
Alignment explanation
Indices: 2553197--2553273 Score: 120
Period size: 30 Copynumber: 2.5 Consensus size: 31
2553187 ACGGGTCAAC
*
2553197 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTAAACGGGTCGGGTCG
*
2553228 GGTCAACGGGT-TGGTAAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTAAACGGGTCGGGTCG
*
2553258 GGTCAATGGGTCGGGT
1 GGTCAACGGGTCGGGT
2553274 CGGGTTGTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 27 0.66
31 14 0.34
ACGTcount: A:0.14, C:0.18, G:0.48, T:0.19
Consensus pattern (31 bp):
GGTCAACGGGTCGGGTAAACGGGTCGGGTCG
Found at i:2555433 original size:24 final size:24
Alignment explanation
Indices: 2555406--2555512 Score: 106
Period size: 24 Copynumber: 4.5 Consensus size: 24
2555396 AAACGGAGAT
*
2555406 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * *
2555430 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * * *
2555454 GTTAGGAATCAGAACAGATTTCAG
1 ATCAGAAATCAAAACAGAATTCAG
** *
2555478 ATCAGATGTCAAAACAGAATTCAA
1 ATCAGAAATCAAAACAGAATTCAG
2555502 ATCAGAAATCA
1 ATCAGAAATCA
2555513 GATAAAATAT
Statistics
Matches: 63, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 63 1.00
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:2555512 original size:48 final size:48
Alignment explanation
Indices: 2555406--2555514 Score: 128
Period size: 48 Copynumber: 2.3 Consensus size: 48
2555396 AAACGGAGAT
* * * *
2555406 ATCAGAAATCAAAACATAATTCAGATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
* * * * * *
2555454 GTTAGGAATCAGAACAGATTTCAGATCAGATGTCAAAACAGAATTCAA
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
2555502 ATCAGAAATCAGA
1 ATCAGAAATCAGA
2555515 TAAAATATTC
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.48, C:0.17, G:0.16, T:0.20
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
Found at i:2557988 original size:7 final size:7
Alignment explanation
Indices: 2557976--2558007 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
2557966 TGGTCAACTC
2557976 CGGTCAA
1 CGGTCAA
2557983 CGGTCAA
1 CGGTCAA
2557990 CGGGTCAA
1 C-GGTCAA
2557998 CGGTCAA
1 CGGTCAA
2558005 CGG
1 CGG
2558008 GTCGGGTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.25, C:0.28, G:0.34, T:0.12
Consensus pattern (7 bp):
CGGTCAA
Found at i:2557997 original size:15 final size:15
Alignment explanation
Indices: 2557977--2558023 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
2557967 GGTCAACTCC
2557977 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
2557992 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
*
2558007 GGTC--GGGTCAACG
1 GGTCAACGGTCAACG
2558020 GGTC
1 GGTC
2558024 GGGTCGGGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 12 0.39
15 19 0.61
ACGTcount: A:0.21, C:0.26, G:0.38, T:0.15
Consensus pattern (15 bp):
GGTCAACGGTCAACG
Found at i:2558028 original size:18 final size:18
Alignment explanation
Indices: 2558005--2558080 Score: 92
Period size: 18 Copynumber: 4.6 Consensus size: 18
2557995 CAACGGTCAA
2558005 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
2558023 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
*
2558041 ----T--GGTAAACGGGT
1 CGGGTCGGGTCAACGGGT
*
2558053 CGGGTCGGGTCAATGGGT
1 CGGGTCGGGTCAACGGGT
2558071 CGGGTCGGGT
1 CGGGTCGGGT
2558081 TGTGACCGGT
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
12 10 0.20
14 1 0.02
16 1 0.02
18 37 0.76
ACGTcount: A:0.12, C:0.18, G:0.50, T:0.20
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:2558040 original size:8 final size:8
Alignment explanation
Indices: 2557977--2558023 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
2557967 GGTCAACTCC
2557977 GGTCAAC-
1 GGTCAACG
2557984 GGTCAACG
1 GGTCAACG
2557992 GGTCAAC-
1 GGTCAACG
2557999 GGTCAACG
1 GGTCAACG
2558007 GGT---CG
1 GGTCAACG
2558012 GGTCAACG
1 GGTCAACG
2558020 GGTC
1 GGTC
2558024 GGGTCGGGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
5 5 0.14
7 14 0.40
8 16 0.46
ACGTcount: A:0.21, C:0.26, G:0.38, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:2558040 original size:13 final size:13
Alignment explanation
Indices: 2557984--2558028 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
2557974 TCCGGTCAAC
*
2557984 GGTCAACGGGTCAAC
1 GGTCAACGGGTC--G
2557999 GGTCAACGGGTCG
1 GGTCAACGGGTCG
2558012 GGTCAACGGGTCG
1 GGTCAACGGGTCG
2558025 GGTC
1 GGTC
2558029 GGGTCAACGG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 17 0.59
15 12 0.41
ACGTcount: A:0.18, C:0.24, G:0.42, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:2558052 original size:30 final size:31
Alignment explanation
Indices: 2557999--2558075 Score: 120
Period size: 30 Copynumber: 2.5 Consensus size: 31
2557989 ACGGGTCAAC
*
2557999 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTAAACGGGTCGGGTCG
*
2558030 GGTCAACGGGT-TGGTAAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTAAACGGGTCGGGTCG
*
2558060 GGTCAATGGGTCGGGT
1 GGTCAACGGGTCGGGT
2558076 CGGGTTGTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 27 0.66
31 14 0.34
ACGTcount: A:0.14, C:0.18, G:0.48, T:0.19
Consensus pattern (31 bp):
GGTCAACGGGTCGGGTAAACGGGTCGGGTCG
Found at i:2560235 original size:24 final size:24
Alignment explanation
Indices: 2560208--2560314 Score: 106
Period size: 24 Copynumber: 4.5 Consensus size: 24
2560198 AAACGGAGAT
*
2560208 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * *
2560232 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * * *
2560256 GTTAGGAATCAGAACAGATTTCAG
1 ATCAGAAATCAAAACAGAATTCAG
** *
2560280 ATCAGATGTCAAAACAGAATTCAA
1 ATCAGAAATCAAAACAGAATTCAG
2560304 ATCAGAAATCA
1 ATCAGAAATCA
2560315 GATAAAATAT
Statistics
Matches: 63, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 63 1.00
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:2560314 original size:48 final size:48
Alignment explanation
Indices: 2560208--2560316 Score: 128
Period size: 48 Copynumber: 2.3 Consensus size: 48
2560198 AAACGGAGAT
* * * *
2560208 ATCAGAAATCAAAACATAATTCAGATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
* * * * * *
2560256 GTTAGGAATCAGAACAGATTTCAGATCAGATGTCAAAACAGAATTCAA
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
2560304 ATCAGAAATCAGA
1 ATCAGAAATCAGA
2560317 TAAAATATTC
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.48, C:0.17, G:0.16, T:0.20
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
Found at i:2562790 original size:7 final size:7
Alignment explanation
Indices: 2562778--2562809 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
2562768 TGGTCAACTC
2562778 CGGTCAA
1 CGGTCAA
2562785 CGGTCAA
1 CGGTCAA
2562792 CGGGTCAA
1 C-GGTCAA
2562800 CGGTCAA
1 CGGTCAA
2562807 CGG
1 CGG
2562810 GTCGGGTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.25, C:0.28, G:0.34, T:0.12
Consensus pattern (7 bp):
CGGTCAA
Found at i:2562799 original size:15 final size:15
Alignment explanation
Indices: 2562779--2562825 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
2562769 GGTCAACTCC
2562779 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
2562794 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
*
2562809 GGTC--GGGTCAACG
1 GGTCAACGGTCAACG
2562822 GGTC
1 GGTC
2562826 GGGTCGGGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 12 0.39
15 19 0.61
ACGTcount: A:0.21, C:0.26, G:0.38, T:0.15
Consensus pattern (15 bp):
GGTCAACGGTCAACG
Found at i:2562830 original size:18 final size:18
Alignment explanation
Indices: 2562807--2562882 Score: 92
Period size: 18 Copynumber: 4.6 Consensus size: 18
2562797 CAACGGTCAA
2562807 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
2562825 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
*
2562843 ----T--GGTAAACGGGT
1 CGGGTCGGGTCAACGGGT
*
2562855 CGGGTCGGGTCAATGGGT
1 CGGGTCGGGTCAACGGGT
2562873 CGGGTCGGGT
1 CGGGTCGGGT
2562883 TGTGACCGGT
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
12 10 0.20
14 1 0.02
16 1 0.02
18 37 0.76
ACGTcount: A:0.12, C:0.18, G:0.50, T:0.20
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:2562842 original size:8 final size:8
Alignment explanation
Indices: 2562779--2562825 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
2562769 GGTCAACTCC
2562779 GGTCAAC-
1 GGTCAACG
2562786 GGTCAACG
1 GGTCAACG
2562794 GGTCAAC-
1 GGTCAACG
2562801 GGTCAACG
1 GGTCAACG
2562809 GGT---CG
1 GGTCAACG
2562814 GGTCAACG
1 GGTCAACG
2562822 GGTC
1 GGTC
2562826 GGGTCGGGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
5 5 0.14
7 14 0.40
8 16 0.46
ACGTcount: A:0.21, C:0.26, G:0.38, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:2562842 original size:13 final size:13
Alignment explanation
Indices: 2562786--2562830 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
2562776 TCCGGTCAAC
*
2562786 GGTCAACGGGTCAAC
1 GGTCAACGGGTC--G
2562801 GGTCAACGGGTCG
1 GGTCAACGGGTCG
2562814 GGTCAACGGGTCG
1 GGTCAACGGGTCG
2562827 GGTC
1 GGTC
2562831 GGGTCAACGG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 17 0.59
15 12 0.41
ACGTcount: A:0.18, C:0.24, G:0.42, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:2562854 original size:30 final size:31
Alignment explanation
Indices: 2562801--2562877 Score: 120
Period size: 30 Copynumber: 2.5 Consensus size: 31
2562791 ACGGGTCAAC
*
2562801 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTAAACGGGTCGGGTCG
*
2562832 GGTCAACGGGT-TGGTAAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTAAACGGGTCGGGTCG
*
2562862 GGTCAATGGGTCGGGT
1 GGTCAACGGGTCGGGT
2562878 CGGGTTGTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 27 0.66
31 14 0.34
ACGTcount: A:0.14, C:0.18, G:0.48, T:0.19
Consensus pattern (31 bp):
GGTCAACGGGTCGGGTAAACGGGTCGGGTCG
Found at i:2564583 original size:3 final size:3
Alignment explanation
Indices: 2564571--2564706 Score: 83
Period size: 3 Copynumber: 43.0 Consensus size: 3
2564561 ACCCTTATAT
* * * * *
2564571 ATA ATAA ATA ATA TTA ATA GTG ATA ACA ATA CTA ATA GATA ATA ATA
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
* * * * *
2564618 ATA CTA TATA ATA ATAA ATA GTA CTA CTA ATA CATT ATA ATA ATAA ATA
1 ATA ATA -ATA ATA AT-A ATA ATA ATA ATA ATA -ATA ATA ATA AT-A ATA
* * * *
2564667 ATA ATA GTA CTA AGTA TTA AAA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA
2564707 GTAAATTAAC
Statistics
Matches: 102, Mismatches: 24, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
3 84 0.82
4 18 0.18
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2564617 original size:16 final size:16
Alignment explanation
Indices: 2564571--2564707 Score: 77
Period size: 16 Copynumber: 8.4 Consensus size: 16
2564561 ACCCTTATAT
* *
2564571 ATAATAAATAATATTA
1 ATAATAGATAATAATA
* *
2564587 ATAGT-GATAACAATA
1 ATAATAGATAATAATA
*
2564602 CTAATAGATAATAATA
1 ATAATAGATAATAATA
* *
2564618 ATACTATATAATAAT-
1 ATAATAGATAATAATA
*
2564633 A-AATAGTACTACTAATA
1 ATAATAG-A-TAATAATA
*
2564650 CATTATA-ATAATAAATA
1 -ATAATAGATAAT-AATA
*
2564667 ATAATAGTACTAAGTATTA
1 ATAATAG-A-TAA-TAATA
*
2564686 AAAATA-ATAATAATA
1 ATAATAGATAATAATA
2564701 ATAATAG
1 ATAATAG
2564708 TAAATTAACG
Statistics
Matches: 89, Mismatches: 20, Indels: 24
0.67 0.15 0.18
Matches are distributed among these distances:
14 3 0.03
15 21 0.24
16 42 0.47
17 6 0.07
18 2 0.02
19 14 0.16
20 1 0.01
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (16 bp):
ATAATAGATAATAATA
Found at i:2564673 original size:35 final size:34
Alignment explanation
Indices: 2564610--2564709 Score: 103
Period size: 35 Copynumber: 2.9 Consensus size: 34
2564600 TACTAATAGA
* *
2564610 TAATAATAATACTATATAATAATAAATAGTACT-AC
1 TAATAAAAATAATA-ATAATAAT-AATAGTACTAAC
** *
2564645 TAATACATTATAATAATAAATAATAATAGTACTAAG
1 TAATA-AAAATAATAAT-AATAATAATAGTACTAAC
*
2564681 TATTAAAAATAATAATAATAATAATAGTA
1 TAATAAAAATAATAATAATAATAATAGTA
2564710 AATTAACGAA
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
34 13 0.23
35 25 0.45
36 18 0.32
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.34
Consensus pattern (34 bp):
TAATAAAAATAATAATAATAATAATAGTACTAAC
Found at i:2566992 original size:29 final size:29
Alignment explanation
Indices: 2566907--2566992 Score: 77
Period size: 29 Copynumber: 2.9 Consensus size: 29
2566897 TGTGAATATG
*
2566907 GCCTTTAATTTATTT-TTTATTTCAA-TTTA
1 GCCTTT-ATTTTTTTATTTA-TTCAATTTTA
* * * *
2566936 ACCATTTGTCTTTTTTATTTGTTTAATTTTA
1 GCC-TTTAT-TTTTTTATTTATTCAATTTTA
2566967 GCCTTTATTTTTTTATTTATTCAATT
1 GCCTTTATTTTTTTATTTATTCAATT
2566993 AGGTCCTATA
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
29 19 0.43
30 16 0.36
31 9 0.20
ACGTcount: A:0.21, C:0.10, G:0.05, T:0.64
Consensus pattern (29 bp):
GCCTTTATTTTTTTATTTATTCAATTTTA
Found at i:2567396 original size:95 final size:95
Alignment explanation
Indices: 2567273--2567473 Score: 325
Period size: 95 Copynumber: 2.1 Consensus size: 95
2567263 TAATATTTAA
* * *
2567273 TTTA-GTAAATTCAGTTATCGGTAATTAGAAGAATACTTTTAGGGGTCATTTTCACTCTTATC-G
1 TTTAGGTAAATTCAATTATCAGTAATTAGAAGAATAATTTTAGGGGTCATTTTCACTCTTATCAG
2567336 AAATATTATTTCTTAATTATTTGAATAAAAC
66 -AATATTATTTCTTAATTATTTGAATAAAAC
* *
2567367 TTTAGGTAAATTCAATTATTAGTAATTAGACGAATAATTTTAGGGGTCATTTTCACTCTTATCAG
1 TTTAGGTAAATTCAATTATCAGTAATTAGAAGAATAATTTTAGGGGTCATTTTCACTCTTATCAG
2567432 AATATTATTTCTTAATTATTTGAATAAAAC
66 AATATTATTTCTTAATTATTTGAATAAAAC
*
2567462 TTTAGGTTAATT
1 TTTAGGTAAATT
2567474 ATTAGAGTAA
Statistics
Matches: 99, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
94 4 0.04
95 94 0.95
96 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.44
Consensus pattern (95 bp):
TTTAGGTAAATTCAATTATCAGTAATTAGAAGAATAATTTTAGGGGTCATTTTCACTCTTATCAG
AATATTATTTCTTAATTATTTGAATAAAAC
Found at i:2569529 original size:13 final size:13
Alignment explanation
Indices: 2569511--2569541 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
2569501 ACCCCGAATA
2569511 CATTACCCCAACC
1 CATTACCCCAACC
2569524 CATTACCCCAACC
1 CATTACCCCAACC
2569537 CATTA
1 CATTA
2569542 ACATCAGACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.48, G:0.00, T:0.19
Consensus pattern (13 bp):
CATTACCCCAACC
Found at i:2570388 original size:24 final size:23
Alignment explanation
Indices: 2570348--2570392 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
2570338 TAAATTTTAA
*
2570348 AATATTATTTTTGAAAACATATAT
1 AATATTAGTTTTGAAAA-ATATAT
2570372 AATATATAGTTTT-AAAAATAT
1 AATAT-TAGTTTTGAAAAATAT
2570393 TTTTTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 4 0.21
24 9 0.47
25 6 0.32
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.44
Consensus pattern (23 bp):
AATATTAGTTTTGAAAAATATAT
Found at i:2570398 original size:39 final size:38
Alignment explanation
Indices: 2570325--2570607 Score: 262
Period size: 38 Copynumber: 7.6 Consensus size: 38
2570315 TAGTATATAT
* *
2570325 AACATATGTAATATA-AATTTT-AAAATATTATTTTTGAA
1 AACATATATAATATATAGTTTTAAAAATA-T-TTTTTGAA
*
2570363 AACATATATAATATATAGTTTTAAAAATATTTTTTTAA
1 AACATATATAATATATAGTTTTAAAAATATTTTTTGAA
** * * *
2570401 AATGTATAAAATATATAGTTTTGAAAATA-TTTTTAAA
1 AACATATATAATATATAGTTTTAAAAATATTTTTTGAA
* * * *
2570438 AATATATATAATATATAATTTTGAAAATATTTTTTTAAA
1 AACATATATAATATATAGTTTTAAAAATA-TTTTTTGAA
* **
2570477 AACATATATAATATATAGTTTTGAAAATATTTTTAAAA
1 AACATATATAATATATAGTTTTAAAAATATTTTTTGAA
*
2570515 AACA-A-ATAATATATA-TTTTAAAAACA-TTTTTGAA
1 AACATATATAATATATAGTTTTAAAAATATTTTTTGAA
* * **
2570549 AACGTATAATATATATATATTTTTAAAAATA-GATTTGAA
1 AACATAT-ATA-ATATATAGTTTTAAAAATATTTTTTGAA
*
2570588 AAC--ATATAATATATAATTTT
1 AACATATATAATATATAGTTTT
2570608 TTAAAAAATT
Statistics
Matches: 213, Mismatches: 23, Indels: 21
0.83 0.09 0.08
Matches are distributed among these distances:
34 9 0.04
35 21 0.10
36 13 0.06
37 39 0.18
38 65 0.31
39 60 0.28
40 6 0.03
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (38 bp):
AACATATATAATATATAGTTTTAAAAATATTTTTTGAA
Found at i:2570446 original size:75 final size:73
Alignment explanation
Indices: 2570353--2570607 Score: 289
Period size: 75 Copynumber: 3.4 Consensus size: 73
2570343 TTTAAAATAT
* *
2570353 TATTTTTGAAAACATATATAATATATAGTTTTAAAAATATTTTTTTAAAATGTATAAAATATATA
1 TATTTTT-AAAAAATATATAATATATA-TTTTAAAAATATTTTTTTAAAACGTATAAAATATATA
2570418 GTTTTGAAAA
64 GTTTTGAAAA
* * *
2570428 TATTTTTAAAAATATATATAATATATAATTTTGAAAATATTTTTTTAAAAACATATATAATATAT
1 TATTTTTAAAAA-ATATATAATATAT-ATTTTAAAAATATTTTTTT-AAAACGTATAAAATATAT
2570493 AGTTTTGAAAA
63 AGTTTTGAAAA
* * * *
2570504 TATTTTTAAAAAACAAATAATATATATTTTAAAAACA-TTTTTGAAAACGTATAATATATATATA
1 TATTTTTAAAAAATATATAATATATATTTTAAAAATATTTTTTTAAAACGTATAA-A-ATATATA
* *
2570568 TTTTTAAAAA
64 GTTTTGAAAA
** * *
2570578 TAGATTT-GAAAACATATAATATATAATTTT
1 TATTTTTAAAAAATATATAATATAT-ATTTT
2570608 TTAAAAAATT
Statistics
Matches: 156, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
72 9 0.06
73 21 0.13
74 39 0.25
75 48 0.31
76 39 0.25
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (73 bp):
TATTTTTAAAAAATATATAATATATATTTTAAAAATATTTTTTTAAAACGTATAAAATATATAGT
TTTGAAAA
Found at i:2570609 original size:37 final size:37
Alignment explanation
Indices: 2570513--2570614 Score: 120
Period size: 39 Copynumber: 2.8 Consensus size: 37
2570503 ATATTTTTAA
* **
2570513 AAAACAAATAATATAT-A--TTTTAAAAACATTTTTG
1 AAAACATATAATATATAATTTTTTAAAAACAGATTTG
* *
2570547 AAAACGTATAATATATATATATTTTTAAAAATAGATTTG
1 AAAACATATAATATATA-AT-TTTTTAAAAACAGATTTG
2570586 AAAACATATAATATATAATTTTTTAAAAA
1 AAAACATATAATATATAATTTTTTAAAAA
2570615 ATTGATTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
34 14 0.25
36 1 0.02
37 10 0.18
38 2 0.04
39 30 0.53
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (37 bp):
AAAACATATAATATATAATTTTTTAAAAACAGATTTG
Found at i:2570654 original size:18 final size:18
Alignment explanation
Indices: 2570633--2570686 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
2570623 TTGAAAACAC
*
2570633 ATTTTTT-TTTTGTTTTTT
1 ATTTTTTATTTT-TTTTTA
2570651 ATTTTTTATTTTTTTTTA
1 ATTTTTTATTTTTTTTTA
2570669 ATTTTTTAATTTTATTTT
1 ATTTTTT-ATTTT-TTTT
2570687 GCTGTTATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 19 0.59
19 9 0.28
20 4 0.12
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (18 bp):
ATTTTTTATTTTTTTTTA
Found at i:2570655 original size:14 final size:13
Alignment explanation
Indices: 2570634--2570667 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
2570624 TGAAAACACA
*
2570634 TTTTTTTTTTGTT
1 TTTTTTTTTTATT
2570647 TTTTATTTTTTATT
1 TTTT-TTTTTTATT
2570661 TTTTTTT
1 TTTTTTT
2570668 AATTTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.06, C:0.00, G:0.03, T:0.91
Consensus pattern (13 bp):
TTTTTTTTTTATT
Found at i:2570662 original size:24 final size:24
Alignment explanation
Indices: 2570636--2570686 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
2570626 AAAACACATT
* *
2570636 TTTTTTTT-GTTTTTTATTTTTTAT
1 TTTTTTTTAATTTTTTA-ATTTTAT
2570660 TTTTTTTTAATTTTTTAATTTTAT
1 TTTTTTTTAATTTTTTAATTTTAT
2570684 TTT
1 TTT
2570687 GCTGTTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.84
Consensus pattern (24 bp):
TTTTTTTTAATTTTTTAATTTTAT
Found at i:2571911 original size:20 final size:19
Alignment explanation
Indices: 2571865--2571913 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
2571855 CTAAACTTAA
2571865 TTCATT-TTTTAATTCATT
1 TTCATTATTTTAATTCATT
2571883 TAT-ATTTATTTTAATATCATT
1 T-TCA-TTATTTTAAT-TCATT
2571904 TTCATTATTT
1 TTCATTATTT
2571914 AACTTTCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
18 2 0.08
19 3 0.12
20 14 0.54
21 7 0.27
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (19 bp):
TTCATTATTTTAATTCATT
Found at i:2579961 original size:201 final size:200
Alignment explanation
Indices: 2579475--2580049 Score: 666
Period size: 201 Copynumber: 2.9 Consensus size: 200
2579465 TTGAGAAACC
* * * * **
2579475 ATTTACAACATAGCTCAAGGCGAGAAGGGTTATCTGTCAATGAAAACTTTCGAGTTTAATTCTAT
1 ATTTACAGCATAACTCAA-GCGAGAAGGGCTATCTGTCAACGAAAACTTTCGAGTTCGATTCTAT
* * * *
2579540 TTAGCTCGAGGGCGTATCAACTGTATGGTAGCAACAAGGAACTACTTTCCAGTTGAATTTTAAAC
65 TAAGCTCGAGGGAGTATCAACTGCATGGTAGCAACAAGGAACTACTTTCCGGTTGAATTTTAAAC
* * * * *
2579605 CAAGGTCTTTAAGCCTAGATGAAGACCTAAGTTGGC-GCGATTTAGCAACAATGAACTATTTCCC
130 CAAGGTCTTTAAGCCTAGAAGAAAACCTAGGTTGGCTGCGATTTAGCAACAAGGAACTATCTCCC
2579669 AACCGA
195 AACCGA
* * * ** * * *
2579675 ATTTACAGCATAGCTTAAGTCAAGAAAAGCTGTCGGTCAACGAAAACTTTTGAGTTCGATTCTAT
1 ATTTACAGCATAACTCAAG-CGAGAAGGGCTATCTGTCAACGAAAACTTTCGAGTTCGATTCTAT
* * * * * * * *
2579740 AAAGATCAAGGAAGTATCAACTACATGGTAGCAGCAAGGAACCACTTTCTGGTTGAATTTTAAAC
65 TAAGCTCGAGGGAGTATCAACTGCATGGTAGCAACAAGGAACTACTTTCCGGTTGAATTTTAAAC
* * * * **
2579805 CAAGGACTTTAAGCCTTGAAGAATACCTAGGTTGGCTGCGATTTAGCAGCGGGGAACTATCTCCC
130 CAAGGTCTTTAAGCCTAGAAGAAAACCTAGGTTGGCTGCGATTTAGCAACAAGGAACTATCTCCC
* *
2579870 AGCCTA
195 AACCGA
* * *
2579876 ATTTATAGTATAACTCAATGCGAGAAGGGCTATCTGTCAACGAAAACTTTCGAGTTCGATTCCAT
1 ATTTACAGCATAACTCAA-GCGAGAAGGGCTATCTGTCAACGAAAACTTTCGAGTTCGATTCTAT
* * *
2579941 TCAGCTCGAGGGTGTATCAACTGCATGGTAGCAACGAGGAACTACTTTCCGGTTGAATTTTAAAC
65 TAAGCTCGAGGGAGTATCAACTGCATGGTAGCAACAAGGAACTACTTTCCGGTTGAATTTTAAAC
* * * * *
2580006 CGAGGTCTTTAAGCCAAGAAGAAAACCAAGGTTGACTACGATTT
130 CAAGGTCTTTAAGCCTAGAAGAAAACCTAGGTTGGCTGCGATTT
2580050 GGAAATAAGA
Statistics
Matches: 306, Mismatches: 66, Indels: 5
0.81 0.18 0.01
Matches are distributed among these distances:
199 1 0.00
200 135 0.44
201 169 0.55
202 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (200 bp):
ATTTACAGCATAACTCAAGCGAGAAGGGCTATCTGTCAACGAAAACTTTCGAGTTCGATTCTATT
AAGCTCGAGGGAGTATCAACTGCATGGTAGCAACAAGGAACTACTTTCCGGTTGAATTTTAAACC
AAGGTCTTTAAGCCTAGAAGAAAACCTAGGTTGGCTGCGATTTAGCAACAAGGAACTATCTCCCA
ACCGA
Found at i:2580516 original size:38 final size:37
Alignment explanation
Indices: 2580473--2580823 Score: 433
Period size: 37 Copynumber: 9.4 Consensus size: 37
2580463 AACATATATA
*
2580473 ATATAGTTTTGAAAACATTTTTGGAAAATGTATATAAT
1 ATATAGTTTTTAAAACATTTTT-GAAAATGTATATAAT
* *
2580511 ATATAGTTTTGAAATCATTTTTTGAAAATGTATATAAT
1 ATATAGTTTTTAAAACA-TTTTTGAAAATGTATATAAT
* *
2580549 ATATAGTTTTGAAAATAGTTTTTGAAAATGTATATAAT
1 ATATAGTTTTTAAAACA-TTTTTGAAAATGTATATAAT
* *
2580587 ATATAGTTTTGAAAACATTTTTGAAAATATATATAAT
1 ATATAGTTTTTAAAACATTTTTGAAAATGTATATAAT
* *
2580624 ATATAGTTTTTAAGACATTTTTTTGAAAACGTATATAAT
1 ATATAGTTTTTAAAACA--TTTTTGAAAATGTATATAAT
* *
2580663 ATATAGTTTTTAAAACATTTTTAAAAACGTATATAAT
1 ATATAGTTTTTAAAACATTTTTGAAAATGTATATAAT
**
2580700 ATATAGTTTTTAAAACATTTTT-AAAA-ACATATAAT
1 ATATAGTTTTTAAAACATTTTTGAAAATGTATATAAT
* **
2580735 ATATAGTTTTTAAAACATTGTTGAAAACATATATAAT
1 ATATAGTTTTTAAAACATTTTTGAAAATGTATATAAT
*
2580772 ATATAGTTTTTAAAA-ATACTTTTGAAAA--CATATAAT
1 ATATAGTTTTTAAAACAT--TTTTGAAAATGTATATAAT
*
2580808 ATATAATTTTTTAAAA
1 ATAT-AGTTTTTAAAA
2580824 AATGATTTTT
Statistics
Matches: 286, Mismatches: 19, Indels: 17
0.89 0.06 0.05
Matches are distributed among these distances:
35 28 0.10
36 21 0.07
37 108 0.38
38 90 0.31
39 39 0.14
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (37 bp):
ATATAGTTTTTAAAACATTTTTGAAAATGTATATAAT
Found at i:2580568 original size:12 final size:12
Alignment explanation
Indices: 2580551--2580615 Score: 53
Period size: 12 Copynumber: 5.2 Consensus size: 12
2580541 TATATAATAT
2580551 ATAGTTTTGAAA
1 ATAGTTTTGAAA
2580563 ATAGTTTTTGAAA
1 ATAG-TTTTGAAA
*
2580576 AT-GTATAT-AATA
1 ATAGT-TTTGAA-A
2580588 TATAGTTTTGAAA
1 -ATAGTTTTGAAA
* *
2580601 ACATTTTTGAAA
1 ATAGTTTTGAAA
2580613 ATA
1 ATA
2580616 TATATAATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
11 3 0.07
12 20 0.48
13 15 0.36
14 4 0.10
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.43
Consensus pattern (12 bp):
ATAGTTTTGAAA
Found at i:2580584 original size:76 final size:73
Alignment explanation
Indices: 2580463--2580817 Score: 421
Period size: 76 Copynumber: 4.8 Consensus size: 73
2580453 TAGTATATAT
* *
2580463 AACATATAT-A-ATATAGTTTTGAAAACATTTTTGGAAAATGTATATAATATATAGTTTTGAAAT
1 AACATATATAATATATAGTTTTGAAAATATTTTT-GAAAA-GTATATAATATATAGTTTTGAAAA
2580526 CATTTTTTGAA
64 CA-TTTTTGAA
**
2580537 AATGTATATAATATATAGTTTTGAAAATAGTTTTTGAAAATGTATATAATATATAGTTTTGAAAA
1 AACATATATAATATATAGTTTTGAAAATA-TTTTTGAAAA-GTATATAATATATAGTTTTGAAAA
2580602 CATTTTTGAA
64 CATTTTTGAA
* * * *
2580612 AATATATATAATATATAGTTTTTAAGACATTTTTTTGAAAACGTATATAATATATAGTTTTTAAA
1 AACATATATAATATATAGTTTTGAA-A-ATATTTTTGAAAA-GTATATAATATATAGTTTTGAAA
*
2580677 ACATTTTTAAA
63 ACATTTTTGAA
* * * ** *
2580688 AACGTATATAATATATAGTTTTTAAAACATTTTT-AAAAACATATAATATATAGTTTTTAAAACA
1 AACATATATAATATATAGTTTTGAAAATATTTTTGAAAAGTATATAATATATAGTTTTGAAAACA
*
2580752 TTGTTGAA
66 TTTTTGAA
* * * *
2580760 AACATATATAATATATAGTTTTTAAAAATACTTTTGAAAA-CATATAATATATAATTTT
1 AACATATATAATATATAG-TTTTGAAAATATTTTTGAAAAGTATATAATATATAGTTTT
2580818 TTAAAAAATG
Statistics
Matches: 251, Mismatches: 23, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
72 47 0.19
73 34 0.14
74 17 0.07
75 33 0.13
76 113 0.45
77 7 0.03
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (73 bp):
AACATATATAATATATAGTTTTGAAAATATTTTTGAAAAGTATATAATATATAGTTTTGAAAACA
TTTTTGAA
Found at i:2583145 original size:15 final size:15
Alignment explanation
Indices: 2583122--2583155 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2583112 ATATTAATTA
*
2583122 CTAATTTACTAACTT
1 CTAACTTACTAACTT
*
2583137 CTAACTTACTAATTT
1 CTAACTTACTAACTT
2583152 CTAA
1 CTAA
2583156 AAAAATATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (15 bp):
CTAACTTACTAACTT
Found at i:2583882 original size:138 final size:137
Alignment explanation
Indices: 2583678--2583925 Score: 354
Period size: 138 Copynumber: 1.8 Consensus size: 137
2583668 TTTTAAATTA
*
2583678 TATTCAATTCAATAATTGATCAAAATTGACTAGGTTAATAATTAGAGCCTCCATTTTAGGGTTAA
1 TATTCAATTCAATAATTGATCAAAATTGACTAGGTTAATAATTAGAGCCTCCATTCTAGGGTTAA
*
2583743 TTTCATATTTAGTCCTTTAATTTAGGGGAATTCTTAATTTGGTCATCACTTTTGCTCGAGGTTAA
66 TTTCATATTTAATCCTTTAATTTAGGGGAATTCTTAATTTGGTCATCACTTTTGCTCGAGGTTAA
2583808 TTTTAAT
131 TTTTAAT
* * * ** * **
2583815 TATTCGATTCAATAATTGGTTAAAATTGGTTAGAGTTAATAATTAGATCCTCCATTCTA-TTTCT
1 TATTCAATTCAATAATTGATCAAAATTGACTAG-GTTAATAATTAGAGCCTCCATTCTAGGGT-T
* * *
2583879 AATTTCATGTTTAATCCTTTAATTTAGGGGAATTTTTTATTTGGTCA
64 AATTTCATATTTAATCCTTTAATTTAGGGGAATTCTTAATTTGGTCA
2583926 CTACTCCATT
Statistics
Matches: 96, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
137 29 0.30
138 67 0.70
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (137 bp):
TATTCAATTCAATAATTGATCAAAATTGACTAGGTTAATAATTAGAGCCTCCATTCTAGGGTTAA
TTTCATATTTAATCCTTTAATTTAGGGGAATTCTTAATTTGGTCATCACTTTTGCTCGAGGTTAA
TTTTAAT
Found at i:2586841 original size:76 final size:74
Alignment explanation
Indices: 2586643--2587009 Score: 291
Period size: 76 Copynumber: 4.9 Consensus size: 74
2586633 AAATATCATC
* * * *
2586643 TTTCTTAAGACTATTTCTCTAGAAACTTCAA-CTTCGTAT-TTC-TTAAGATTATTTCCCTAGAA
1 TTTCTTAAGACTATTTCCCTAGAAACCTAAATC-TC--ATCTTCTTTAAGATTATTTCTCTAGAA
* *
2586705 ATTTCAATTTGGT
63 ACTTGAATTT-GT
* * * * ** *
2586718 TTTCCTTAACACT-TTTTCCTAGAAA-CAAGAATCTCGTCTTCCGTAAGATTGTTTCTCTAGAAA
1 TTT-CTTAAGACTATTTCCCTAGAAACCTA-AATCTCATCTTCTTTAAGATTATTTCTCTAGAAA
2586781 CTT-AATTCTTGT
64 CTTGAA-T-TTGT
* *
2586793 ATTTCTTAAGACTATTTCCCTAGAAACCTAAATCTCATCTTCTTTAAGACTATTTTTCTAGAAAC
1 -TTTCTTAAGACTATTTCCCTAGAAACCTAAATCTCATCTTCTTTAAGATTATTTCTCTAGAAAC
2586858 TTGAATTTCGT
65 TTGAATTT-GT
* * * * * *
2586869 TTTCCTTTAGACTATTTCCCTAGAAACCTTAATCTCGTCTTTTTTAAGATTGTTTCTTTAGAAAC
1 TTT-CTTAAGACTATTTCCCTAGAAACCTAAATCTCATCTTCTTTAAGATTATTTCTCTAGAAA-
*
2586934 CTTGAATTCGT
64 CTTGAATTTGT
* * * * * *
2586945 CTTTCTTAAGATTGTTTCCCTAGAAACCTCAAA-CT-ACTCTTCCTTAAAATGATTTCCCTAGAA
1 -TTTCTTAAGACTATTTCCCTAGAAACCT-AAATCTCA-TCTTCTTTAAGATTATTTCTCTAGAA
2587008 AC
63 AC
2587010 ATCAAATTTA
Statistics
Matches: 234, Mismatches: 41, Indels: 34
0.76 0.13 0.11
Matches are distributed among these distances:
73 1 0.00
74 5 0.02
75 54 0.23
76 157 0.67
77 17 0.07
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (74 bp):
TTTCTTAAGACTATTTCCCTAGAAACCTAAATCTCATCTTCTTTAAGATTATTTCTCTAGAAACT
TGAATTTGT
Found at i:2586916 original size:114 final size:112
Alignment explanation
Indices: 2586648--2586935 Score: 290
Period size: 114 Copynumber: 2.5 Consensus size: 112
2586638 TCATCTTTCT
** *
2586648 TAAGACTATTTCTCTAGAAACTTCAA-CTTCGTATTTCTTAAGATTATTTCCCTAGAAATTTCAA
1 TAAGACTATTTCTCTAGAAACTT-AATC-TCGTATTTCTTAAGATTATTTCCCTAGAAACCTAAA
* ** *
2586712 TTTGGTTTTCCTTAACACTTTTTCCTAGAAACAAGAATCTCGTCTTCCG
64 TCTCATCTTCCTTAACACTTTTTCCTAGAAACAAGAATCTCGTCTTCCG
* * * *
2586761 TAAGATTGTTTCTCTAGAAACTTAATTCTTGTATTTCTTAAGACTATTTCCCTAGAAACCTAAAT
1 TAAGACTATTTCTCTAGAAACTTAA-TCTCGTATTTCTTAAGATTATTTCCCTAGAAACCTAAAT
* * * ** * * *
2586826 CTCATCTTCTTTAAGACTATTTTTCTAGAAACTTGAATTTCGTTTTCCT
65 CTCATCTTCCTTAACACT-TTTTCCTAGAAACAAGAATCTCGTCTTCCG
* * * * * **
2586875 TTAGACTATTTCCCTAGAAACCTTAATCTCGTCTTTTTTAAGATTGTTTCTTTAGAAACCT
1 TAAGACTATTTCTCTAGAAA-CTTAATCTCGTATTTCTTAAGATTATTTCCCTAGAAACCT
2586936 TGAATTCGTC
Statistics
Matches: 141, Mismatches: 30, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
112 2 0.01
113 65 0.46
114 69 0.49
115 5 0.04
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.43
Consensus pattern (112 bp):
TAAGACTATTTCTCTAGAAACTTAATCTCGTATTTCTTAAGATTATTTCCCTAGAAACCTAAATC
TCATCTTCCTTAACACTTTTTCCTAGAAACAAGAATCTCGTCTTCCG
Found at i:2586963 original size:152 final size:150
Alignment explanation
Indices: 2586643--2587014 Score: 380
Period size: 152 Copynumber: 2.5 Consensus size: 150
2586633 AAATATCATC
* * * *
2586643 TTTCTTAAGACTATTTCTCTAGAAACTTCAA-CTTCGTAT-TTC-TTAAGATTATTTCCCTAGAA
1 TTTCTTAAGACTATTTCCCTAGAAACCTAAATC-TC--ATCTTCTTTAAGACTATTTCCCTAGAA
* * *
2586705 ATTTCAATTTGGTTTTCCTTAACACTTTTTCCTAGAAACAAGAATCTCGTCTTCCGTAAGATTGT
63 ACTTCAATTTCGTTTTCCTTAACACTTTTCCCTAGAAACAAGAATCTCGTCTTCCGTAAGATTGT
2586770 TTCTCTAGAAACTTAATTCTTGTA
128 TTCTCTAGAAACTTAATTC-TGTA
**
2586794 TTTCTTAAGACTATTTCCCTAGAAACCTAAATCTCATCTTCTTTAAGACTATTTTTCTAGAAACT
1 TTTCTTAAGACTATTTCCCTAGAAACCTAAATCTCATCTTCTTTAAGACTATTTCCCTAGAAACT
* * * *** ***
2586859 TGAATTTCGTTTTCCTTTAGACTATTTCCCTAGAAACCTTAATCTCGTCTTTTTTAAGATTGTTT
66 TCAATTTCGTTTTCCTTAACACT-TTTCCCTAGAAACAAGAATCTCGTCTTCCGTAAGATTGTTT
* *
2586924 CTTTAGAAACCTTGAATTC-GTC
130 CTCTAGAAA-CTT-AATTCTGTA
* * * *
2586946 TTTCTTAAGATTGTTTCCCTAGAAACCTCAAA-CT-ACTCTTCCTTAA-AATGATTTCCCTAGAA
1 TTTCTTAAGACTATTTCCCTAGAAACCT-AAATCTCA-TCTTCTTTAAGACT-ATTTCCCTAGAA
*
2587008 ACATCAA
63 ACTTCAA
2587015 ATTTATCTTC
Statistics
Matches: 184, Mismatches: 28, Indels: 17
0.80 0.12 0.07
Matches are distributed among these distances:
149 2 0.01
150 3 0.02
151 71 0.39
152 97 0.53
153 6 0.03
154 5 0.03
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (150 bp):
TTTCTTAAGACTATTTCCCTAGAAACCTAAATCTCATCTTCTTTAAGACTATTTCCCTAGAAACT
TCAATTTCGTTTTCCTTAACACTTTTCCCTAGAAACAAGAATCTCGTCTTCCGTAAGATTGTTTC
TCTAGAAACTTAATTCTGTA
Found at i:2586973 original size:38 final size:37
Alignment explanation
Indices: 2586641--2586971 Score: 226
Period size: 38 Copynumber: 8.8 Consensus size: 37
2586631 AAAAATATCA
* * *
2586641 TCTTTCTTAAGACTATTTCTCTAGAAACTTCAACTTCG
1 TCTTTCTTAAGATTATTTCCCTAGAAACTTGAA-TTCG
* * * *
2586679 TATTTCTTAAGATTATTTCCCTAGAAATTTCAATTTGG
1 TCTTTCTTAAGATTATTTCCCTAGAAACTTGAA-TTCG
* **
2586717 T-TTTCCTTAACACTT-TTT-CCTAGAAACAAGAATCTCG
1 TCTTT-CTTAAGA-TTATTTCCCTAGAAACTTGAAT-TCG
* * * *
2586754 TCTTCCGTAAGATTGTTTCTCTAGAAACTT-AATTCTTG
1 TCTTTCTTAAGATTATTTCCCTAGAAACTTGAATTC--G
* * * * *
2586792 TATTTCTTAAGACTATTTCCCTAGAAACCTAAATCTCA
1 TCTTTCTTAAGATTATTTCCCTAGAAACTTGAAT-TCG
* **
2586830 TC-TTCTTTAAGACTATTTTTCTAGAAACTTGAATTTCG
1 TCTTTC-TTAAGATTATTTCCCTAGAAACTTGAA-TTCG
* *
2586868 T-TTTCCTTTAGACTATTTCCCTAGAAACCTT-AATCTCG
1 TCTTT-CTTAAGATTATTTCCCTAGAAA-CTTGAAT-TCG
* * **
2586906 TCTTTTTTAAGATTGTTTCTTTAGAAACCTTGAATTCG
1 TCTTTCTTAAGATTATTTCCCTAGAAA-CTTGAATTCG
*
2586944 TCTTTCTTAAGATTGTTTCCCTAGAAAC
1 TCTTTCTTAAGATTATTTCCCTAGAAAC
2586972 CTCAAACTAC
Statistics
Matches: 231, Mismatches: 44, Indels: 37
0.74 0.14 0.12
Matches are distributed among these distances:
36 5 0.02
37 32 0.14
38 176 0.76
39 16 0.07
40 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.44
Consensus pattern (37 bp):
TCTTTCTTAAGATTATTTCCCTAGAAACTTGAATTCG
Found at i:2586991 original size:38 final size:38
Alignment explanation
Indices: 2586641--2587015 Score: 167
Period size: 38 Copynumber: 9.9 Consensus size: 38
2586631 AAAAATATCA
* * * *
2586641 TCTTTCTTAAGACTATTTCTCTAGAAACTTC-AACTTCG
1 TCTTTCTTAAGATTGTTTCCCTAGAAACCTCAAAC-TCG
* * ** ** *
2586679 TATTTCTTAAGATTATTTCCCTAGAAATTTCAATTTGG
1 TCTTTCTTAAGATTGTTTCCCTAGAAACCTCAAACTCG
* *** *
2586717 T-TTTCCTTAACACTT-TTT-CCTAGAAACAAGAATCTCG
1 TCTTT-CTTAAGA-TTGTTTCCCTAGAAACCTCAAACTCG
* * * * * *
2586754 TCTTCCGTAAGATTGTTTCTCTAGAAA-CTTAATTCTTG
1 TCTTTCTTAAGATTGTTTCCCTAGAAACCTCAA-ACTCG
* * * *
2586792 TATTTCTTAAGACTATTTCCCTAGAAACCT-AAATCTCA
1 TCTTTCTTAAGATTGTTTCCCTAGAAACCTCAAA-CTCG
* * ** * * **
2586830 TC-TTCTTTAAGACTATTTTTCTAGAAACTTGAATTTCG
1 TCTTTC-TTAAGATTGTTTCCCTAGAAACCTCAAACTCG
* * * * *
2586868 T-TTTCCTTTAGACTATTTCCCTAGAAACCTTAATCTCG
1 TCTTT-CTTAAGATTGTTTCCCTAGAAACCTCAAACTCG
* ** ** *
2586906 TCTTTTTTAAGATTGTTTCTTTAGAAACCTTGAATTCG
1 TCTTTCTTAAGATTGTTTCCCTAGAAACCTCAAACTCG
2586944 TCTTTCTTAAGATTGTTTCCCTAGAAACCTCAAACTAC-
1 TCTTTCTTAAGATTGTTTCCCTAGAAACCTCAAACT-CG
* * *
2586982 TCTTCCTTAA-AATGATTTCCCTAGAAACATCAAA
1 TCTTTCTTAAGATTG-TTTCCCTAGAAACCTCAAA
2587016 TTTATCTTCC
Statistics
Matches: 259, Mismatches: 62, Indels: 32
0.73 0.18 0.09
Matches are distributed among these distances:
36 2 0.01
37 33 0.13
38 212 0.82
39 12 0.05
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (38 bp):
TCTTTCTTAAGATTGTTTCCCTAGAAACCTCAAACTCG
Found at i:2588008 original size:17 final size:19
Alignment explanation
Indices: 2587986--2588026 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
2587976 TGAACATCGA
2587986 ATGCATT-T-CATGCACCG
1 ATGCATTCTCCATGCACCG
*
2588003 ATGCATTCTCCATGCATCG
1 ATGCATTCTCCATGCACCG
2588022 ATGCA
1 ATGCA
2588027 CTAGGCTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
18 1 0.05
19 13 0.62
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (19 bp):
ATGCATTCTCCATGCACCG
Found at i:2588046 original size:64 final size:64
Alignment explanation
Indices: 2587929--2588072 Score: 188
Period size: 64 Copynumber: 2.2 Consensus size: 64
2587919 TTTTCAAAGG
*
2587929 CATGCACCGATGCA-TCAGTCCATGCATCGATGCACCTATGATTTAATTGAACATCGAATGCATT
1 CATGCACCGATGCATTCA-TCCATGCATCGATGCACCTAGGATTT-ATTGAACATCGAATGCATT
2587993 T
64 T
2587994 CATGCACCGATGCATTC-TCCATGCATCGATGCA-CTAGGCTATTT-TTGAAACATCGAATGCAT
1 CATGCACCGATGCATTCATCCATGCATCGATGCACCTAGG--ATTTATTG-AACATCGAATGCAT
2588056 TT
63 TT
* *
2588058 TATGCATCGATGCAT
1 CATGCACCGATGCAT
2588073 CCTTAGTGCA
Statistics
Matches: 72, Mismatches: 3, Indels: 9
0.86 0.04 0.11
Matches are distributed among these distances:
63 7 0.10
64 45 0.62
65 18 0.25
66 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (64 bp):
CATGCACCGATGCATTCATCCATGCATCGATGCACCTAGGATTTATTGAACATCGAATGCATTT
Found at i:2592908 original size:24 final size:22
Alignment explanation
Indices: 2592881--2592959 Score: 81
Period size: 24 Copynumber: 3.5 Consensus size: 22
2592871 CACTGAACAA
2592881 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGATGCAT-CC-TTGAATG
*
2592905 TGCATCGATGCATCC--GCATG
1 TGCATCGATGCATCCTTGAATG
* *
2592925 ATGCACCGATGCATGCCTTGAATA
1 -TGCATCGATGCAT-CCTTGAATG
2592949 TGCATCGATGC
1 TGCATCGATGC
2592960 TTCATCTTCT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
20 4 0.09
21 12 0.26
22 2 0.04
23 12 0.26
24 16 0.35
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.28
Consensus pattern (22 bp):
TGCATCGATGCATCCTTGAATG
Found at i:2596963 original size:12 final size:12
Alignment explanation
Indices: 2596946--2596970 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2596936 ACTCAACAAT
2596946 ACTGCTACAGTA
1 ACTGCTACAGTA
2596958 ACTGCTACAGTA
1 ACTGCTACAGTA
2596970 A
1 A
2596971 TTTCAGCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (12 bp):
ACTGCTACAGTA
Found at i:2598218 original size:100 final size:102
Alignment explanation
Indices: 2598045--2598246 Score: 390
Period size: 100 Copynumber: 2.0 Consensus size: 102
2598035 AATCCTTTTC
2598045 TATTTGACTTGCTTCGATCACAAATCAATCACGATCTGAATAAATCACAAATTCATAACGATTAC
1 TATTTGACTTGCTTCGATCACAAATCAATCACGATCTGAATAAATCACAAATTCATAACGATTAC
2598110 ATATGTTAGTATTGTACTATCAT-AA-ACGTTCTATA
66 ATATGTTAGTATTGTACTATCATAAACACGTTCTATA
2598145 TATTTGACTTGCTTCGATCACAAATCAATCACGATCTGAATAAATCACAAATTCATAACGATTAC
1 TATTTGACTTGCTTCGATCACAAATCAATCACGATCTGAATAAATCACAAATTCATAACGATTAC
2598210 ATATGTTAGTATTGTACTATCATAAACACGTTCTATA
66 ATATGTTAGTATTGTACTATCATAAACACGTTCTATA
2598247 ACAATTCCAT
Statistics
Matches: 100, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
100 88 0.88
101 2 0.02
102 10 0.10
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (102 bp):
TATTTGACTTGCTTCGATCACAAATCAATCACGATCTGAATAAATCACAAATTCATAACGATTAC
ATATGTTAGTATTGTACTATCATAAACACGTTCTATA
Found at i:2606605 original size:22 final size:22
Alignment explanation
Indices: 2606577--2606631 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
2606567 CACCAAACTT
2606577 CAAAAGTGCCTCAGCACTGATA
1 CAAAAGTGCCTCAGCACTGATA
* ** *
2606599 CAAAAGTGCATTTGCAGTGATA
1 CAAAAGTGCCTCAGCACTGATA
*
2606621 CTAAAGTGCCT
1 CAAAAGTGCCT
2606632 TAACACTGCT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (22 bp):
CAAAAGTGCCTCAGCACTGATA
Found at i:2615395 original size:19 final size:19
Alignment explanation
Indices: 2615371--2615407 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2615361 TGAAAATGAT
*
2615371 TTGATTTTGAAAGACAAAG
1 TTGATTTTGAAAAACAAAG
2615390 TTGATTTTGAAAAACAAA
1 TTGATTTTGAAAAACAAA
2615408 ATGAAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.05, G:0.16, T:0.32
Consensus pattern (19 bp):
TTGATTTTGAAAAACAAAG
Found at i:2624652 original size:23 final size:24
Alignment explanation
Indices: 2624622--2624666 Score: 83
Period size: 23 Copynumber: 1.9 Consensus size: 24
2624612 ATGACGGCAC
2624622 TTATCTAGATT-AAAAAATAAACG
1 TTATCTAGATTAAAAAAATAAACG
2624645 TTATCTAGATTAAAAAAATAAA
1 TTATCTAGATTAAAAAAATAAA
2624667 TGATAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.31
Consensus pattern (24 bp):
TTATCTAGATTAAAAAAATAAACG
Found at i:2628440 original size:65 final size:65
Alignment explanation
Indices: 2628323--2628478 Score: 206
Period size: 65 Copynumber: 2.4 Consensus size: 65
2628313 ACACTAGGGC
* * * * *
2628323 TGCATCGGTACACTAATTACATTCGATGTTTCAAAATAGCCATGAGCCCATCGATGCATGG-TCT
1 TGCATCGGTACACAAAATGCATTCGATGTTTCAAAATAGCAAAGAGCCCATCGATGCATGGCT-T
2628387 G
65 G
* ** **
2628388 TGCATCGATACACAAAATGCATTCGATGTTTCAAAATATTAAAGAGTGCATCGATGCATGGCTTG
1 TGCATCGGTACACAAAATGCATTCGATGTTTCAAAATAGCAAAGAGCCCATCGATGCATGGCTTG
2628453 TGCATCGGTACACAAAATGCATTCGA
1 TGCATCGGTACACAAAATGCATTCGA
2628479 AATAGAGTGT
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
65 78 0.99
66 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (65 bp):
TGCATCGGTACACAAAATGCATTCGATGTTTCAAAATAGCAAAGAGCCCATCGATGCATGGCTTG
Found at i:2628860 original size:30 final size:30
Alignment explanation
Indices: 2628803--2628860 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
2628793 ATTTAGTAGA
*
2628803 TTTTAAGATTTTCTTTGAAAATCATTTTGT
1 TTTTAAGATTTTATTTGAAAATCATTTTGT
2628833 TTTTAAGATTTTATTTGAAAATCATTTT
1 TTTTAAGATTTTATTTGAAAATCATTTT
2628861 TAAAATAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.29, C:0.05, G:0.09, T:0.57
Consensus pattern (30 bp):
TTTTAAGATTTTATTTGAAAATCATTTTGT
Found at i:2630415 original size:13 final size:14
Alignment explanation
Indices: 2630380--2630417 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
2630370 AGGATAGTCA
*
2630380 TATTTGGAAATTAT
1 TATTTGAAAATTAT
2630394 TGATTTGAAAATTAT
1 T-ATTTGAAAATTAT
2630409 T-TTTGAAAA
1 TATTTGAAAA
2630418 CAATGTTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 8 0.36
14 1 0.05
15 13 0.59
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.47
Consensus pattern (14 bp):
TATTTGAAAATTAT
Found at i:2630526 original size:20 final size:21
Alignment explanation
Indices: 2630499--2630538 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
2630489 AACCAATGAT
2630499 TTTCAAAA-T-AATTTTTTTA
1 TTTCAAAATTCAATTTTTTTA
2630518 TTTCGAAAATTCAATTTTTTT
1 TTTC-AAAATTCAATTTTTTT
2630539 TAAAAGTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 4 0.22
21 1 0.06
22 9 0.50
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTCAAAATTCAATTTTTTTA
Found at i:2637324 original size:20 final size:20
Alignment explanation
Indices: 2637301--2637349 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
2637291 TAAAAAAATT
*
2637301 ACAGATTACCTAGAGCAAAA
1 ACAGCTTACCTAGAGCAAAA
2637321 ACAGCTTACCTAGAGCAAAA
1 ACAGCTTACCTAGAGCAAAA
2637341 ACAGCTTAC
1 ACAGCTTAC
2637350 AGTCATGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.45, C:0.24, G:0.14, T:0.16
Consensus pattern (20 bp):
ACAGCTTACCTAGAGCAAAA
Found at i:2648038 original size:66 final size:65
Alignment explanation
Indices: 2647904--2648059 Score: 194
Period size: 66 Copynumber: 2.4 Consensus size: 65
2647894 TACACTAGGG
* *
2647904 GTGCATCGGTACACTAATTAT--ATTCGATGTTTCAAAATAGCAATGAGTGCATCGATGCATGGT
1 GTGCATCGGTACA-TAA-AATGCATTCAATGTTTCAAAATAGCAATGAGTGCATCGATGCATGGT
2647967 CT
64 CT
* *
2647969 GTGCATCGGTACATAAAATGCATTCAATGTTTCAAAAATATTCAA-GAGTGTATCGATGCATGG-
1 GTGCATCGGTACATAAAATGCATTCAATGTTTC-AAAATA-GCAATGAGTGCATCGATGCATGGT
2648032 CTT
64 C-T
*
2648035 GTGCATCGGTACACAAAATGCATTC
1 GTGCATCGGTACATAAAATGCATTC
2648060 GAAATAGAGT
Statistics
Matches: 81, Mismatches: 5, Indels: 9
0.85 0.05 0.09
Matches are distributed among these distances:
63 2 0.02
64 3 0.04
65 25 0.31
66 48 0.59
67 3 0.04
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (65 bp):
GTGCATCGGTACATAAAATGCATTCAATGTTTCAAAATAGCAATGAGTGCATCGATGCATGGTCT
Found at i:2650228 original size:52 final size:53
Alignment explanation
Indices: 2650130--2650240 Score: 143
Period size: 52 Copynumber: 2.1 Consensus size: 53
2650120 ATTTATATTG
* * * *
2650130 TATGATACTTGATTTTGTTAATATTTAAAAAAGATTATGATGAGTGAATGATA
1 TATGATACTTGATTGTGATAATATTTAAAAAAGATTATGATAAGTGAAAGATA
* * *
2650183 TATGATACTTGATTGTGATGATGTTT-GAAAAGATTATGATAAGTGAAAGATA
1 TATGATACTTGATTGTGATAATATTTAAAAAAGATTATGATAAGTGAAAGATA
*
2650235 GATGAT
1 TATGAT
2650241 TTAATGTAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
52 28 0.56
53 22 0.44
ACGTcount: A:0.39, C:0.02, G:0.21, T:0.39
Consensus pattern (53 bp):
TATGATACTTGATTGTGATAATATTTAAAAAAGATTATGATAAGTGAAAGATA
Found at i:2652196 original size:15 final size:15
Alignment explanation
Indices: 2652176--2652214 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
2652166 AATCAGATAT
*
2652176 TTGAAAGGAAATGAC
1 TTGAAAGGAAATGAA
*
2652191 TTGAAAGAAAATGAA
1 TTGAAAGGAAATGAA
2652206 TT-AAAGGAA
1 TTGAAAGGAA
2652215 TTCAAAGTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.54, C:0.03, G:0.23, T:0.21
Consensus pattern (15 bp):
TTGAAAGGAAATGAA
Found at i:2652356 original size:15 final size:15
Alignment explanation
Indices: 2652336--2652365 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2652326 TAACCTTTTG
*
2652336 ATGAAAAGGCTTAAC
1 ATGAAAAGACTTAAC
2652351 ATGAAAAGACTTAAC
1 ATGAAAAGACTTAAC
2652366 TTTTGGATGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (15 bp):
ATGAAAAGACTTAAC
Found at i:2652398 original size:23 final size:23
Alignment explanation
Indices: 2652350--2652420 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
2652340 AAAGGCTTAA
* *
2652350 CATGAAAAGACTTA-AC-TTTTG
1 CATGAAAAGACTAACACTTTTTT
* *
2652371 GATGAAATGACATAACA-TTTTTT
1 CATGAAAAGAC-TAACACTTTTTT
*
2652394 CATGAAAAGACTTACACTTTTTT
1 CATGAAAAGACTAACACTTTTTT
2652417 CATG
1 CATG
2652421 GATTAAGTTG
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
21 9 0.23
22 6 0.15
23 24 0.62
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (23 bp):
CATGAAAAGACTAACACTTTTTT
Found at i:2658520 original size:12 final size:12
Alignment explanation
Indices: 2658503--2658570 Score: 57
Period size: 12 Copynumber: 5.7 Consensus size: 12
2658493 CCCTACTACA
2658503 TTCTCTTCTTCC
1 TTCTCTTCTTCC
* *
2658515 TTCTCTTCTACT
1 TTCTCTTCTTCC
*
2658527 TTCTCTTCTTCT
1 TTCTCTTCTTCC
* *
2658539 TTTTCTTCATCC
1 TTCTCTTCTTCC
*
2658551 -TCACTTTCTTCC
1 TTCTC-TTCTTCC
*
2658563 TCCTCTTC
1 TTCTCTTC
2658571 CACCTTGCCA
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
11 2 0.05
12 39 0.91
13 2 0.05
ACGTcount: A:0.04, C:0.38, G:0.00, T:0.57
Consensus pattern (12 bp):
TTCTCTTCTTCC
Found at i:2658525 original size:24 final size:24
Alignment explanation
Indices: 2658498--2658546 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
2658488 ATCTCCCCTA
2658498 CTACATTCTCTTCTTCCTTCTCTT
1 CTACATTCTCTTCTTCCTTCTCTT
* * *
2658522 CTACTTTCTCTTCTTCTTTTTCTT
1 CTACATTCTCTTCTTCCTTCTCTT
2658546 C
1 C
2658547 ATCCTCACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.06, C:0.35, G:0.00, T:0.59
Consensus pattern (24 bp):
CTACATTCTCTTCTTCCTTCTCTT
Found at i:2661363 original size:20 final size:19
Alignment explanation
Indices: 2661323--2661363 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
2661313 TTTGAGACCG
**
2661323 ATTATAGGTAGAAATTGAT
1 ATTATAGGTAGAAATAAAT
2661342 ATTATAGGTAGAAAATAAAT
1 ATTATAGGTAG-AAATAAAT
2661362 AT
1 AT
2661364 CAATACTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (19 bp):
ATTATAGGTAGAAATAAAT
Found at i:2664985 original size:16 final size:17
Alignment explanation
Indices: 2664954--2664989 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 17
2664944 GTTAACTTGT
2664954 AAATTTTGCATGTGAATG
1 AAATTTTG-ATGTGAATG
2664972 AAATTTTG-TGTGAATG
1 AAATTTTGATGTGAATG
2664988 AA
1 AA
2664990 GTTATGTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
18 8 0.44
ACGTcount: A:0.36, C:0.03, G:0.22, T:0.39
Consensus pattern (17 bp):
AAATTTTGATGTGAATG
Found at i:2665025 original size:47 final size:48
Alignment explanation
Indices: 2664971--2665063 Score: 145
Period size: 49 Copynumber: 1.9 Consensus size: 48
2664961 GCATGTGAAT
*
2664971 GAAATTTTG-TGTGAAT-GAAGTTATGTATGTGATTACCAAAGTTATAA
1 GAAATTTTGATGTGAATGGAA-TTATGGATGTGATTACCAAAGTTATAA
2665018 GAAATTTTGTATGTGAATGGAATTATGGATGTGATTACCAAAGTTA
1 GAAATTTTG-ATGTGAATGGAATTATGGATGTGATTACCAAAGTTA
2665064 GCAAATATTG
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
47 9 0.21
49 30 0.71
50 3 0.07
ACGTcount: A:0.35, C:0.04, G:0.23, T:0.38
Consensus pattern (48 bp):
GAAATTTTGATGTGAATGGAATTATGGATGTGATTACCAAAGTTATAA
Found at i:2672596 original size:146 final size:146
Alignment explanation
Indices: 2672332--2672620 Score: 445
Period size: 146 Copynumber: 2.0 Consensus size: 146
2672322 AACAATTTGC
* *
2672332 TATTTATAATTTTGAAAAAATATATGCAAAGTATGAAAATGTCCAAGTATCAATACTTCTTAGGT
1 TATTTATAATGTTGAAAAAATATATGCAAAGTATGAAAATGTCCAAGTATCAATACTTCTTAGGA
* * * * * *
2672397 TGATATGGATACTTTTATTCCAGTATGTTTGTCAAATAATTTGAATGCCAAATGTATCGATACAT
66 TGATATGGATACTTTTATTCCAGTATGATTCTCAAACAATTTGAACGCAAAATGTATCGATACAC
2672462 AT-TATTAAAGTATATA
131 ATATA-TAAAGTATATA
* * *
2672478 TATTTATAATGTTGAAACAATATATGCAAAGTATGAAAATTTCCAAGTATCAATACTTCTTATGA
1 TATTTATAATGTTGAAAAAATATATGCAAAGTATGAAAATGTCCAAGTATCAATACTTCTTAGGA
* *
2672543 TGGTATGGATACTTTTATTCCAGTATGATTCTCAAACAATTTGCACGCAAAATGTATCGATACAC
66 TGATATGGATACTTTTATTCCAGTATGATTCTCAAACAATTTGAACGCAAAATGTATCGATACAC
2672608 ATATATAAAGTAT
131 ATATATAAAGTAT
2672621 CGATACTTTG
Statistics
Matches: 129, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
146 127 0.98
147 2 0.02
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.37
Consensus pattern (146 bp):
TATTTATAATGTTGAAAAAATATATGCAAAGTATGAAAATGTCCAAGTATCAATACTTCTTAGGA
TGATATGGATACTTTTATTCCAGTATGATTCTCAAACAATTTGAACGCAAAATGTATCGATACAC
ATATATAAAGTATATA
Found at i:2672759 original size:20 final size:21
Alignment explanation
Indices: 2672729--2672768 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
2672719 ACAAGTATTG
2672729 ATACTTTTTATAT-AGGTATGA
1 ATACTTTTTAT-TCAGGTATGA
2672750 ATAC-TTTTATTCAGGTATG
1 ATACTTTTTATTCAGGTATG
2672769 CTTCTCAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.06
20 13 0.72
21 4 0.22
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.47
Consensus pattern (21 bp):
ATACTTTTTATTCAGGTATGA
Found at i:2673069 original size:199 final size:198
Alignment explanation
Indices: 2672544--2673527 Score: 994
Period size: 199 Copynumber: 5.1 Consensus size: 198
2672534 TTCTTATGAT
* * *
2672544 GGTATGGATACTTTTATTCCAGTATGATTCTCAAACAATTTGCACGCAAAATGTATCGATACACA
1 GGTATGGATACTTTTATTCTAGTATGCTTCTCAAACAATTTGCACACAAAATGTATCGATACACA
* * *
2672609 TATATAAAGTATCGATACTTTGAATTTCCAAACCTATTACTTT-AAGTAATAGGTA-AATTAACA
66 TATATAAAGTATCGATACTTGGAATTTCAAAACCTATTACTTTAAAGTAA-A-ATATAATTAACA
* * * * *
2672672 ATGTAAATGGTAAAAGTCTACCAGTATAATGATAATTA-GCATAAATA-ACAAGTATTGATACTT
129 ATGTAAATAGTAAAAGTCTATCGGTATAATGATAA-TAGGCGTAAATACA-AAGTATCGATA-TT
2672735 TTTATATA
191 TTTATATA
* *
2672743 GGTATGAATACTTTTATTC-AGGTATGCTTCTCAAACATTTTGCACACAAAATGTATC-A-ACAC
1 GGTATGGATACTTTTATTCTA-GTATGCTTCTCAAACAATTTGCACACAAAATGTATCGATACAC
* * * * * *
2672805 ATGTATGAAGTATTGTTACTTGGAATTTCGAAACCTATTACTTTAAAGTAATAGGTA-AATTAAC
65 ATATATAAAGTATCGATACTTGGAATTTCAAAACCTATTACTTTAAAGTAA-A-ATATAATTAAC
* *
2672869 AATATAAATAGTAAAAGTCTATTGGTATAATGATAAT-GGCGTAAATACAAAGTATCGATATTTT
128 AATGTAAATAGTAAAAGTCTATCGGTATAATGATAATAGGCGTAAATACAAAGTATCGATATTTT
2672933 TCATATA
193 T-ATATA
* * * * * *
2672940 AGTATGGATATTTTTATTCTAGTATGCTTCTCAAACAATTTGCACGCAAAATATATCAATACACC
1 GGTATGGATACTTTTATTCTAGTATGCTTCTCAAACAATTTGCACACAAAATGTATCGATACACA
* **
2673005 TGTATAAAGTATCGATACTTGGAATTTTGAAACCTATTACTTTAAAGTAAAATATAAGTTAACAA
66 TATATAAAGTATCGATACTTGGAATTTCAAAACCTATTACTTTAAAGTAAAATATAA-TTAACAA
* * * * * * *
2673070 TGTAAACAGTAAACGTCTATCGGTATAATGATAATAAGCATAACTATC-AAGTATTGATACTTTT
130 TGTAAATAGTAAAAGTCTATCGGTATAATGATAATAGGCGTAAATA-CAAAGTATCGATATTTTT
2673134 AT-T-
194 ATATA
** * *
2673137 -CCA--G-------TA---T-G--T--TTCTCAAACAATTTGCACATAAAAAT-TATCGATATAC
1 GGTATGGATACTTTTATTCTAGTATGCTTCTCAAACAATTTGCACA-CAAAATGTATCGATACAC
* * *
2673183 ATATATAAAGTATCAATACTTGAAATTTCAAAACCTATTACTATAAAGTAATAAGTA-AATTAAC
65 ATATATAAAGTATCGATACTTGGAATTTCAAAACCTATTACTTTAAAGTAA-AA-TATAATTAAC
* *** * * * *
2673247 AATGTAAAT-GATAAAAGTCTACCAACATAATGATAATAGGTGTAAAAACCAAGTATCGATACTT
128 AATGTAAATAG-TAAAAGTCTATCGGTATAATGATAATAGGCGTAAATACAAAGTATCGATATTT
*
2673311 TAATATA
192 TTATATA
*
2673318 GGTGTGGATACTTTTATTCTAGTATGCTTCTCAAACAATTTGCACACAAAATGTATCGATACACA
1 GGTATGGATACTTTTATTCTAGTATGCTTCTCAAACAATTTGCACACAAAATGTATCGATACACA
* **
2673383 TATATAAAATATCGATACTTGGAATTTCAAAACCTATTACTTTAAAGT-AGGT-TAATTAACAAT
66 TATATAAAGTATCGATACTTGGAATTTCAAAACCTATTACTTTAAAGTAAAATATAATTAACAAT
* * * * * ***
2673446 GTAAATGGTAAAAGTCTATCGGTATATTGATAATAGGCGTAGATACCAAGTATGGATGCCTTTAT
131 GTAAATAGTAAAAGTCTATCGGTATAATGATAATAGGCGTAAATACAAAGTATCGATATTTTTAT
2673511 ATA
196 ATA
*
2673514 GGTATCGATACTTT
1 GGTATGGATACTTT
2673528 AGATCCAAAA
Statistics
Matches: 656, Mismatches: 89, Indels: 83
0.79 0.11 0.10
Matches are distributed among these distances:
178 2 0.00
179 127 0.19
180 10 0.02
181 3 0.00
183 1 0.00
184 2 0.00
187 2 0.00
191 2 0.00
194 2 0.00
195 1 0.00
196 83 0.13
197 119 0.18
198 65 0.10
199 215 0.33
200 21 0.03
201 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (198 bp):
GGTATGGATACTTTTATTCTAGTATGCTTCTCAAACAATTTGCACACAAAATGTATCGATACACA
TATATAAAGTATCGATACTTGGAATTTCAAAACCTATTACTTTAAAGTAAAATATAATTAACAAT
GTAAATAGTAAAAGTCTATCGGTATAATGATAATAGGCGTAAATACAAAGTATCGATATTTTTAT
ATA
Found at i:2673279 original size:179 final size:179
Alignment explanation
Indices: 2672939--2673284 Score: 439
Period size: 179 Copynumber: 1.9 Consensus size: 179
2672929 TTTTTCATAT
* * *
2672939 AAGTATGGATATTTTTATTCTAGTATGCTTCTCAAACAATTTGCACGCAAAATATATCAATACAC
1 AAGTATGGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCACGAAAAATATATCAATACAC
* * * * ** *
2673004 CTGTATAAAGTATCGATACTTGGAATTTTGAAACCTATTACTTTAAAGTAAAATATAAGTTAACA
66 ATATATAAAGTATCAATACTTGAAATTTCAAAACCTATTACTATAAAGTAAAATATAAGTTAACA
* * ***
2673069 ATGTAAACAGTAAACGTCTATCGGTATAATGATAATAAGCATAACTATC
131 ATGTAAACAGTAAAAGTCTACCAACATAATGATAATAAGCATAACTATC
* * * * *
2673118 AAGTATTGATACTTTTATTCCAGTATGTTTCTCAAACAATTTGCACATAAAAAT-TATCGATATA
1 AAGTATGGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCAC-GAAAAATATATCAATACA
2673182 CATATATAAAGTATCAATACTTGAAATTTCAAAACCTATTACTATAAAGTAATAAGTA-AA-TTA
65 CATATATAAAGTATCAATACTTGAAATTTCAAAACCTATTACTATAAAGTAA-AA-TATAAGTTA
*
2673245 ACAATGTAAA-TGATAAAAGTCTACCAACATAATGATAATA
128 ACAATGTAAACAG-TAAAAGTCTACCAACATAATGATAATA
2673285 GGTGTAAAAA
Statistics
Matches: 142, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
178 1 0.01
179 130 0.92
180 9 0.06
181 2 0.01
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (179 bp):
AAGTATGGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCACGAAAAATATATCAATACAC
ATATATAAAGTATCAATACTTGAAATTTCAAAACCTATTACTATAAAGTAAAATATAAGTTAACA
ATGTAAACAGTAAAAGTCTACCAACATAATGATAATAAGCATAACTATC
Found at i:2680492 original size:176 final size:177
Alignment explanation
Indices: 2680159--2680508 Score: 443
Period size: 176 Copynumber: 2.0 Consensus size: 177
2680149 GATAAAACTG
* * ** * ***
2680159 GTAAAGAGCTACGAGAATTGTTGAAATTTGTATCGATATGTTTATAAGTATATGTGTTAAAGTAT
1 GTAAAGAGCTACCAGAATTGTTGAAATTTGTATCAATACATTTATAAGTATATATACCAAAGTAT
** * * * *
2680224 CGGTACTGCAGGAATTTAAAAGAATTGCAATAATAGAAACTATAAAGTATCAATACCTTACACAC
66 CACTACTGCAGGAATTTAAAAGAACTGAAATAATAGAAACTATAAAGAATCAATAACTTACACAC
2680289 ATGTATCAATACATGACAATATAACAGGATGAAATTTGACAAAATAA
131 ATGTATCAATACATGACAATATAACAGGATGAAATTTGACAAAATAA
*
2680336 GTAAAGAGCTACCAGAATTGTTGAAATTTGTATCAATACATTTATAAGTATATATACCATAGTAT
1 GTAAAGAGCTACCAGAATTGTTGAAATTTGTATCAATACATTTATAAGTATATATACCAAAGTAT
** * ** * * *
2680401 CACTACTTTA-GTATTTAAAAGAACTGAAATAATA-ATGCGTATAAAGAATCTATAACTTAGAGA
66 CACTACTGCAGGAATTTAAAAGAACTGAAATAATAGAAAC-TATAAAGAATCAATAACTTACACA
** *
2680464 CATGTATTGATACATGACAATATAACAGGTTGAAATTTGACAAAA
130 CATGTATCAATACATGACAATATAACAGGATGAAATTTGACAAAA
2680509 CTAGTTTTAA
Statistics
Matches: 146, Mismatches: 26, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
175 2 0.01
176 82 0.56
177 62 0.42
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (177 bp):
GTAAAGAGCTACCAGAATTGTTGAAATTTGTATCAATACATTTATAAGTATATATACCAAAGTAT
CACTACTGCAGGAATTTAAAAGAACTGAAATAATAGAAACTATAAAGAATCAATAACTTACACAC
ATGTATCAATACATGACAATATAACAGGATGAAATTTGACAAAATAA
Found at i:2683188 original size:15 final size:16
Alignment explanation
Indices: 2683163--2683192 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2683153 TAATGTGGAG
2683163 AAAAAATATGATGAAT
1 AAAAAATATGATGAAT
2683179 AAAAAA-ATGATGAA
1 AAAAAATATGATGAA
2683193 GAAGAAAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.20
Consensus pattern (16 bp):
AAAAAATATGATGAAT
Found at i:2683200 original size:15 final size:15
Alignment explanation
Indices: 2683161--2683200 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
2683151 TGTAATGTGG
2683161 AGAAAAAATATGATGA
1 AGAAAAAA-ATGATGA
*
2683177 ATAAAAAAATGATGA
1 AGAAAAAAATGATGA
2683192 AGAAGAAAA
1 AGAA-AAAA
2683201 GTTAGATGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (15 bp):
AGAAAAAAATGATGA
Found at i:2686809 original size:130 final size:130
Alignment explanation
Indices: 2686650--2686975 Score: 512
Period size: 131 Copynumber: 2.5 Consensus size: 130
2686640 ACATATTATT
2686650 GTGTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAGTATCGATACT
1 GTGTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAGTATCGATACT
* * *
2686715 GATATGA-CATTATCGATTCTTGTACATTTACACCTATTTTCATTATATCAA-TAGAAACGTTTA
66 GATAT-ATCAGTATCGATACTTGGACATTTACACCTATTTTCATTATA-CAAGTAGAAACGTTTA
2686778 CC
129 CC
* * *
2686780 GTGTACATTATTAATTTACCTATTACTTTAAAGTAATAGGTTTCAGAATTATAAGTATCGATAGT
1 GTGTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAGTATCGATA-C
* * *
2686845 TTATATATGAGTATCGATACTTGGACATTTACGCCTATTTTCATTATACAAGTAGAAACGTTTAC
65 TGATATATCAGTATCGATACTTGGACATTTACACCTATTTTCATTATACAAGTAGAAACGTTTAC
2686910 C
130 C
* *
2686911 ATGTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGTATCGATACT
1 GTGTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAGTATCGATACT
2686976 TGGACATTTA
Statistics
Matches: 179, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
130 66 0.37
131 113 0.63
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.40
Consensus pattern (130 bp):
GTGTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAGTATCGATACT
GATATATCAGTATCGATACTTGGACATTTACACCTATTTTCATTATACAAGTAGAAACGTTTACC
Found at i:2687047 original size:110 final size:110
Alignment explanation
Indices: 2686854--2687079 Score: 328
Period size: 110 Copynumber: 2.1 Consensus size: 110
2686844 TTTATATATG
* * * * *
2686854 AGTATCGATACTTGGACATTTACGCCTATTTTCATTATACAAGTAGAAACGTTTACCATGTACAT
1 AGTATCGATACTTGGACATTTACACATACTTTCATTAAACAAGTAGAAACGTTAACCATGTACAT
*
2686919 TGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATA
66 TGTTAATTTACCTATTACTTTAAAGTAATACGTTTCGAAATTATA
* * * *
2686964 AGTATCGATACTTGGACATTTATACATACTTTCATTAAAC-CGATAGAAAGGTTAACCGTGTACA
1 AGTATCGATACTTGGACATTTACACATACTTTCATTAAACAAG-TAGAAACGTTAACCATGTACA
* *
2687028 TTGTTAATTTACCTATTACTTTAAAGTAGTACGTTTTGAAATTATA
65 TTGTTAATTTACCTATTACTTTAAAGTAATACGTTTCGAAATTATA
2687074 AGTATC
1 AGTATC
2687080 AATATTTTAT
Statistics
Matches: 103, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
109 1 0.01
110 102 0.99
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.38
Consensus pattern (110 bp):
AGTATCGATACTTGGACATTTACACATACTTTCATTAAACAAGTAGAAACGTTAACCATGTACAT
TGTTAATTTACCTATTACTTTAAAGTAATACGTTTCGAAATTATA
Found at i:2687471 original size:75 final size:74
Alignment explanation
Indices: 2687388--2687552 Score: 208
Period size: 75 Copynumber: 2.2 Consensus size: 74
2687378 TGAAGATTTA
** * *
2687388 CACCTATTTTATTTTACTGTTTACAAAATTAGTAACCTTTAAACAAACAGGTAGGT-ATTTTAAC
1 CACCTATTTTATTTTACCATTTACAAAATTACTAACCTTTAAACAAACAGGCAGGTGA--TTAAC
2687452 ATAATAGGTAG
64 ATAATAGGTAG
** ** *
2687463 CACCTATTTTATTTTACCATTTACATGATTACTAACCTTTAAACAAACCTGCATGTGATTAACAT
1 CACCTATTTTATTTTACCATTTACAAAATTACTAACCTTTAAACAAACAGGCAGGTGATTAACAT
2687528 AATAGGTAG
66 AATAGGTAG
2687537 C-CCTTATTTTATTTTA
1 CACC-TATTTTATTTTA
2687553 ACCAGTTAAG
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
73 2 0.03
74 29 0.37
75 47 0.59
76 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (74 bp):
CACCTATTTTATTTTACCATTTACAAAATTACTAACCTTTAAACAAACAGGCAGGTGATTAACAT
AATAGGTAG
Found at i:2687874 original size:33 final size:33
Alignment explanation
Indices: 2687831--2687911 Score: 92
Period size: 33 Copynumber: 2.5 Consensus size: 33
2687821 GATATGGAGA
* *
2687831 AATCATCCAACAACTC-ATCGAAAAATCTTGACC
1 AATCAACCAACAACTCTATC-AAAAATCTCGACC
* *
2687864 AATCAACCAACAACTCTTTCTAAAATCTCGACC
1 AATCAACCAACAACTCTATCAAAAATCTCGACC
* *
2687897 ACTCAACCAATAACT
1 AATCAACCAACAACT
2687912 GTTCGGAGAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
33 39 0.95
34 2 0.05
ACGTcount: A:0.42, C:0.32, G:0.04, T:0.22
Consensus pattern (33 bp):
AATCAACCAACAACTCTATCAAAAATCTCGACC
Found at i:2688741 original size:33 final size:33
Alignment explanation
Indices: 2688660--2688742 Score: 96
Period size: 33 Copynumber: 2.5 Consensus size: 33
2688650 AATTCTTTGA
* * *
2688660 AGAGTTGTTGGTTGATTGGTCGGGATTTTCTGT
1 AGAGTTGTTGATTGATTGGTCGAGATTTTCCGT
* * *
2688693 AGATTTGCTGTTTGATTGGTCGAGATTTTCCG-
1 AGAGTTGTTGATTGATTGGTCGAGATTTTCCGT
2688725 ATGAGTTGTTGATTGATT
1 A-GAGTTGTTGATTGATT
2688743 TCTCCATATC
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
32 1 0.02
33 40 0.98
ACGTcount: A:0.16, C:0.07, G:0.31, T:0.46
Consensus pattern (33 bp):
AGAGTTGTTGATTGATTGGTCGAGATTTTCCGT
Found at i:2688924 original size:2 final size:2
Alignment explanation
Indices: 2688917--2688979 Score: 119
Period size: 2 Copynumber: 32.0 Consensus size: 2
2688907 TTGATTGTTA
2688917 AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2688958 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
2688980 GTATGTATAA
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 59 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2691425 original size:18 final size:18
Alignment explanation
Indices: 2691404--2691446 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
2691394 AATACCTTAC
2691404 TTGAGAAGAAGACATTGG
1 TTGAGAAGAAGACATTGG
***
2691422 TTGAGAAGAAGGTTTTGG
1 TTGAGAAGAAGACATTGG
2691440 TTGAGAA
1 TTGAGAA
2691447 CAACTGCGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.35, C:0.02, G:0.35, T:0.28
Consensus pattern (18 bp):
TTGAGAAGAAGACATTGG
Found at i:2709649 original size:24 final size:24
Alignment explanation
Indices: 2709613--2709667 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
2709603 TATTTTCTCT
2709613 TTTTCTTTCTTTTGAGTACTTGCAA
1 TTTTCTTTCTTTTGAGTACTT-CAA
*
2709638 TTTTC-TTCTTTTGAGTGCTTCAA
1 TTTTCTTTCTTTTGAGTACTTCAA
2709661 -TTTCTTT
1 TTTTCTTT
2709668 GCTATTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 4 0.14
23 5 0.18
24 14 0.50
25 5 0.18
ACGTcount: A:0.13, C:0.16, G:0.11, T:0.60
Consensus pattern (24 bp):
TTTTCTTTCTTTTGAGTACTTCAA
Found at i:2722966 original size:168 final size:164
Alignment explanation
Indices: 2722556--2723202 Score: 802
Period size: 168 Copynumber: 3.9 Consensus size: 164
2722546 GGAACTATTG
* *** * *
2722556 GCAGTATAACTCAAGGCGAGAAGGGTTATCTGTCAGTTAACACCTTCGAGTTTGATTACACTCAG
1 GCAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAG
* * *
2722621 CTCAAAGGCACCATCATTTGTAGCATAGCTCAAGGCAAGAAGGGCTACCTGC-CAAAGACCTTCG
66 CTCAAAGGCA-CATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCACAAAGACCTTCG
2722685 AGTTCGATTACACTT-AGCTCAAAGGCACATCATTT
130 AGTTCGATTACA-TTCAGCTCAAAGGCACATCATTT
* * * * *
2722720 GCAGCATAGCTCAAGGCAAGAAGGGCTATCTG-C--CAAATACCTTCAAGTTCGATTACACTCAG
1 GCAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAG
* *
2722782 CTCAAAGGCACATCATTTGCAGTATAGCTCAAGGCAAGAAGGGATATCTGCCAACAAAGACCTTC
66 CTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTG-C-ACAAAGACCTTC
* * *
2722847 GAATTCGATTATATTCAGCTCAAAGGCATATCAAATTT
129 GAGTTCGATTACATTCAGCTCAAAGGCACATC--ATTT
* *
2722885 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAG
1 GCAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAG
* * *
2722950 CTCAAAGGCGCATCATTTGCAGCATAGCTCAAGGTAAGAAGGGTTATATGTCATCAAAGACCTTC
66 CTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTG-CA-CAAAGACCTTC
*
2723015 GAGTTCGATTACACTCAGCTCAAAGGCACATCATTT
129 GAGTTCGATTACATTCAGCTCAAAGGCACATCATTT
* * * * *
2723051 GTAGTATAGCTCAAGGCGAGAAGGGTTATCTGACAATAAAAGACCTTCGAGTTCGATTACACTCA
1 GCAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAA-CAAAGACCTTCGAGTTCGATTACACTCA
* * * * * * *
2723116 GCTCAAAGGCACATCATTTACAGCATAACTCAAGGCGATAAGGGTTATCTGTCAATAAAAACTTT
65 GCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTG-C-ACAAAGACCTT
*
2723181 CGAGTTTGACTT-CATTCAGCTC
128 CGAGTTCGA-TTACATTCAGCTC
2723203 GATGACTTAT
Statistics
Matches: 419, Mismatches: 51, Indels: 23
0.85 0.10 0.05
Matches are distributed among these distances:
160 36 0.09
161 35 0.08
162 2 0.00
163 38 0.09
164 28 0.07
165 32 0.08
166 35 0.08
167 98 0.23
168 115 0.27
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.25
Consensus pattern (164 bp):
GCAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAG
CTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCACAAAGACCTTCGA
GTTCGATTACATTCAGCTCAAAGGCACATCATTT
Found at i:2723010 original size:83 final size:83
Alignment explanation
Indices: 2722556--2723186 Score: 801
Period size: 83 Copynumber: 7.6 Consensus size: 83
2722546 GGAACTATTG
* * * * * *
2722556 GCAGTATAACTCAAGGCGAGAAGGGTTATCTGTCAGT-TAACACCTTCGAGTTTGATTACACTCA
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTCA-TCAAAGACCTTCGAGTTCGATTACACTCA
2722620 GCTCAAAGGCACCATCATTT
65 GCTCAAAGGCA-CATCATTT
* * * *
2722640 GTAGCATAGCTCAAGGCAAGAAGGGCTACCTG-C--CAAAGACCTTCGAGTTCGATTACACTTAG
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTCATCAAAGACCTTCGAGTTCGATTACACTCAG
2722702 CTCAAAGGCACATCATTT
66 CTCAAAGGCACATCATTT
* * *
2722720 GCAGCATAGCTCAAGGCAAGAAGGGCTATCTG-C--CAAATACCTTCAAGTTCGATTACACTCAG
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTCATCAAAGACCTTCGAGTTCGATTACACTCAG
2722782 CTCAAAGGCACATCATTT
66 CTCAAAGGCACATCATTT
* * * * * * *
2722800 GCAGTATAGCTCAAGGCAAGAAGGGATATCTGCCAACAAAGACCTTCGAATTCGATTATATTCAG
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTCATCAAAGACCTTCGAGTTCGATTACACTCAG
*
2722865 CTCAAAGGCATATCAAATTT
66 CTCAAAGGCACATC--ATTT
* * * *
2722885 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAG
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTCATCAAAGACCTTCGAGTTCGATTACACTCAG
*
2722950 CTCAAAGGCGCATCATTT
66 CTCAAAGGCACATCATTT
* *
2722968 GCAGCATAGCTCAAGGTAAGAAGGGTTATATGTCATCAAAGACCTTCGAGTTCGATTACACTCAG
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTCATCAAAGACCTTCGAGTTCGATTACACTCAG
2723033 CTCAAAGGCACATCATTT
66 CTCAAAGGCACATCATTT
* * * * *
2723051 GTAGTATAGCTCAAGGCGAGAAGGGTTATCTGACAATAAAAGACCTTCGAGTTCGATTACACTCA
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTC-ATCAAAGACCTTCGAGTTCGATTACACTCA
2723116 GCTCAAAGGCACATCATTT
65 GCTCAAAGGCACATCATTT
* * * * * *
2723135 ACAGCATAACTCAAGGCGATAAGGGTTATCTGTCAAT-AAAAACTTTCGAGTT
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTC-ATCAAAGACCTTCGAGTT
2723187 TGACTTCATT
Statistics
Matches: 484, Mismatches: 56, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
80 113 0.23
81 35 0.07
83 159 0.33
84 105 0.22
85 72 0.15
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (83 bp):
GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTCATCAAAGACCTTCGAGTTCGATTACACTCAG
CTCAAAGGCACATCATTT
Found at i:2723747 original size:16 final size:16
Alignment explanation
Indices: 2723726--2723760 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
2723716 ATCTTACATA
*
2723726 ATTATAATATTTATAT
1 ATTATAATAATTATAT
*
2723742 ATTATATTAATTATAT
1 ATTATAATAATTATAT
2723758 ATT
1 ATT
2723761 TATTATTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTATAATAATTATAT
Found at i:2729205 original size:3 final size:3
Alignment explanation
Indices: 2729192--2729283 Score: 71
Period size: 3 Copynumber: 31.3 Consensus size: 3
2729182 AAACATAAGC
* * * ** ** *
2729192 AAT ATT AAT AAT AAT ACT AAT AAT AAT TAT AAT TTT AAT TGT TAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
2729240 AAT AAT AAT AGT AAT AAT -AT AAT ATT AAT AAT TAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2729284 TTTATAACCC
Statistics
Matches: 67, Mismatches: 20, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
2 4 0.06
3 63 0.94
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.42
Consensus pattern (3 bp):
AAT
Found at i:2729526 original size:53 final size:53
Alignment explanation
Indices: 2729469--2729571 Score: 170
Period size: 53 Copynumber: 1.9 Consensus size: 53
2729459 GTTTGCTCCA
*
2729469 TCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTACCTACGAGTTCGCTCTC
1 TCTTGCTTCAGGGAGTAGAACTAGAACAATCTTCTACCTACGAGTTCGCTCTC
* * *
2729522 TCTTGCTTCAGGGAGTAGAATTAGAACAATCTTCTGCCTACGGGTTCGCT
1 TCTTGCTTCAGGGAGTAGAACTAGAACAATCTTCTACCTACGAGTTCGCT
2729572 TCACTATTCT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.31
Consensus pattern (53 bp):
TCTTGCTTCAGGGAGTAGAACTAGAACAATCTTCTACCTACGAGTTCGCTCTC
Found at i:2732212 original size:18 final size:19
Alignment explanation
Indices: 2732168--2732214 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
2732158 AAGTTAGTAC
*
2732168 AAATAAGATAACAAAATGAC
1 AAATAA-ATAACAAAATGAA
*
2732188 AAA-AAATAACAATA-GAA
1 AAATAAATAACAAAATGAA
2732205 AAATAAATAA
1 AAATAAATAA
2732215 ATTAATACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 5 0.21
18 14 0.58
19 2 0.08
20 3 0.12
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.15
Consensus pattern (19 bp):
AAATAAATAACAAAATGAA
Found at i:2735075 original size:18 final size:18
Alignment explanation
Indices: 2735045--2735099 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
2735035 GGAAAACTCA
* *
2735045 AAATGATTCATTATTGTG
1 AAATGCTTCATTATTCTG
* *
2735063 AAATGCTTTATTATTCTT
1 AAATGCTTCATTATTCTG
2735081 AAATGCTTCATTATTCTG
1 AAATGCTTCATTATTCTG
2735099 A
1 A
2735100 CATCATTTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (18 bp):
AAATGCTTCATTATTCTG
Found at i:2744065 original size:3 final size:3
Alignment explanation
Indices: 2744052--2744141 Score: 58
Period size: 3 Copynumber: 30.3 Consensus size: 3
2744042 AAACATAAGC
* * * ** ** *
2744052 AAT ATT AAT AAT AAT ACT AAT AAT AAT TAT AAT TTT AAT TGT TAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
2744100 AAT AAT AAT AAT AGCT -AT AAT -AT AAT ATT AAT AAT TAT AAT A
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2744142 TTATATTTAT
Statistics
Matches: 64, Mismatches: 20, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
2 3 0.05
3 60 0.94
4 1 0.02
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (3 bp):
AAT
Found at i:2744147 original size:20 final size:20
Alignment explanation
Indices: 2744059--2744153 Score: 73
Period size: 20 Copynumber: 4.7 Consensus size: 20
2744049 AGCAATATTA
* * *
2744059 ATAATAATACTAATAATAATT
1 ATAATATTAATAATTATAA-T
* **
2744080 ATAATTTTAATTGTTATAAT
1 ATAATATTAATAATTATAAT
* **
2744100 AATAATAATAATAGCTATAAT
1 -ATAATATTAATAATTATAAT
2744121 ATAATATTAATAATTATAAT
1 ATAATATTAATAATTATAAT
* *
2744141 ATTATATTTATAA
1 ATAATATTAATAA
2744154 CCCGGACAAA
Statistics
Matches: 58, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 29 0.50
21 29 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
ATAATATTAATAATTATAAT
Found at i:2744392 original size:18 final size:18
Alignment explanation
Indices: 2744369--2744403 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
2744359 GGTTTAACTC
2744369 GACCCGAACCGTTGATCT
1 GACCCGAACCGTTGATCT
2744387 GACCCGAACCGTTGATC
1 GACCCGAACCGTTGATC
2744404 GGTCTGATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.34, G:0.23, T:0.20
Consensus pattern (18 bp):
GACCCGAACCGTTGATCT
Found at i:2744423 original size:22 final size:22
Alignment explanation
Indices: 2744405--2744467 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 22
2744395 CCGTTGATCG
*
2744405 GTCTGATCGTTGACCTTGACCA
1 GTCTGATCGTTGACTTTGACCA
** * * *
2744427 GTCAAACCGTTGACTTTGGCCT
1 GTCTGATCGTTGACTTTGACCA
2744449 GTCTGATCGTTGACTTTGA
1 GTCTGATCGTTGACTTTGA
2744468 TCAAAAAAGT
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (22 bp):
GTCTGATCGTTGACTTTGACCA
Found at i:2745226 original size:31 final size:31
Alignment explanation
Indices: 2745177--2745292 Score: 169
Period size: 31 Copynumber: 3.7 Consensus size: 31
2745167 GCGAGCCTTC
*
2745177 GGTAGGCTCTGAGGCCCCGAGATCTTTCTTG
1 GGTAGGCCCTGAGGCCCCGAGATCTTTCTTG
* *
2745208 GGTAGGCCCTGCGACCCCGAGATCTTTCTTG
1 GGTAGGCCCTGAGGCCCCGAGATCTTTCTTG
* *
2745239 GGTAGGCCCTGTGGCCCCGAGAACTTTCTTG
1 GGTAGGCCCTGAGGCCCCGAGATCTTTCTTG
* *
2745270 GGTAGGCTCTGAGGCCCCAAGAT
1 GGTAGGCCCTGAGGCCCCGAGAT
2745293 GTTCCCTTAG
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 75 1.00
ACGTcount: A:0.15, C:0.28, G:0.32, T:0.25
Consensus pattern (31 bp):
GGTAGGCCCTGAGGCCCCGAGATCTTTCTTG
Found at i:2758475 original size:15 final size:15
Alignment explanation
Indices: 2758451--2758483 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
2758441 TCATCAACTG
2758451 ACCCGCCGACCACCA
1 ACCCGCCGACCACCA
*
2758466 ACCCGTCGACCACCA
1 ACCCGCCGACCACCA
2758481 ACC
1 ACC
2758484 ACCAATTGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.27, C:0.58, G:0.12, T:0.03
Consensus pattern (15 bp):
ACCCGCCGACCACCA
Found at i:2761158 original size:3 final size:3
Alignment explanation
Indices: 2761150--2761201 Score: 61
Period size: 3 Copynumber: 17.0 Consensus size: 3
2761140 TCATTTTGTT
**
2761150 TTA TTA TTA TTA TTA AAA TTA TTA TTA TT- TTA TTA TTA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
2761195 TATA TTA
1 T-TA TTA
2761202 CAAGCCCAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 34 0.79
4 7 0.16
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:2762631 original size:31 final size:31
Alignment explanation
Indices: 2762590--2762650 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
2762580 ATAATTAAAT
*
2762590 ATTATAAAAATTATAATTTAGTTTTATTTAA
1 ATTATAAAAATTATAATATAGTTTTATTTAA
* * *
2762621 ATTATTAAAATTTTAATATATTTTTATTTA
1 ATTATAAAAATTATAATATAGTTTTATTTA
2762651 TTAATATCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (31 bp):
ATTATAAAAATTATAATATAGTTTTATTTAA
Found at i:2763432 original size:11 final size:11
Alignment explanation
Indices: 2763385--2763437 Score: 51
Period size: 10 Copynumber: 5.2 Consensus size: 11
2763375 TTTCTTTCAA
2763385 ATTT-TTTATT
1 ATTTATTTATT
*
2763395 ACTTA-TTATT
1 ATTTATTTATT
*
2763405 -TTTATATATT
1 ATTTATTTATT
*
2763415 A-TTATTTTTT
1 ATTTATTTATT
2763425 ATTTATTTATT
1 ATTTATTTATT
2763436 AT
1 AT
2763438 ATTCAAGAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
9 3 0.09
10 20 0.61
11 10 0.30
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (11 bp):
ATTTATTTATT
Found at i:2765874 original size:17 final size:17
Alignment explanation
Indices: 2765839--2765875 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
2765829 TACATTCATA
2765839 TTTTTATATTTGCATTT
1 TTTTTATATTTGCATTT
2765856 TTTTTCATATTTGCATTT
1 TTTTT-ATATTTGCATTT
2765874 TT
1 TT
2765876 ACGTTCGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.16, C:0.08, G:0.05, T:0.70
Consensus pattern (17 bp):
TTTTTATATTTGCATTT
Found at i:2774260 original size:166 final size:164
Alignment explanation
Indices: 2773979--2774300 Score: 529
Period size: 166 Copynumber: 1.9 Consensus size: 164
2773969 AGAATGAGCA
* *
2773979 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAACATAATGAGAAAACGA
1 TTATCTGGAGATTGGGGCATGTTACCCAATCAACAGGTTATTT-AAAAACATAATGAGAAAACGA
* **
2774044 TTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTTC
65 TTTCCAAAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTTC
*
2774109 TTAGTTTTTTTACTTATTAAACTATTTCCAACAACC
130 TTAGTTTTTTTACTTAGTAAAC-ATTTCCAACAACC
*
2774145 TTATCTGGAGATTGGGGCATGTTACCCAATCAACAGGTTATCTT-GAAACATAATGAGAAAACGA
1 TTATCTGGAGATTGGGGCATGTTACCCAATCAACAGGTTAT-TTAAAAACATAATGAGAAAACGA
*
2774209 TTTCCAAAGTTTCTCATTCAATCTTTTCTGAAAATGAAATTGTTGAAAAGTAAGAAAATGATTTT
65 TTTCCAAAGTTTCTCATTCAATCTTTTCT-AAAATGAAATTGTTGAAAAGTAAGAAAACGATTTT
2774274 CTTAGTTTTTTTACTTAGTAAACATTT
129 CTTAGTTTTTTTACTTAGTAAACATTT
2774301 TCCATTGAAA
Statistics
Matches: 146, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
165 49 0.34
166 95 0.65
167 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (164 bp):
TTATCTGGAGATTGGGGCATGTTACCCAATCAACAGGTTATTTAAAAACATAATGAGAAAACGAT
TTCCAAAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTTCT
TAGTTTTTTTACTTAGTAAACATTTCCAACAACC
Found at i:2774692 original size:73 final size:73
Alignment explanation
Indices: 2774314--2774675 Score: 663
Period size: 73 Copynumber: 5.0 Consensus size: 73
2774304 ATTGAAATAG
2774314 CAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTCGAGACAGTTTCACT
1 CAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTCGAGACAGTTTCACT
*
2774379 TGAAACAA
66 CGAAACAA
2774387 CAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTCGAGACAGTTTCACT
1 CAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTCGAGACAGTTTCACT
2774452 CGAAACAA
66 CGAAACAA
*
2774460 CAATTTAGCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTCGAGACAGTTTCACT
1 CAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTCGAGACAGTTTCACT
*
2774525 CGAAATAGA
66 CGAAACA-A
*
2774534 -AATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTGTCTCGCTCGAGACAGTTTCACT
1 CAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTCGAGACAGTTTCACT
2774598 CGAAACAA
66 CGAAACAA
*
2774606 CAATTTATCTCACTTGAGATTGTTTTCCTTAAAACAAAATTTGTCTCGCTCGAGACAGTTTCACT
1 CAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTCGAGACAGTTTCACT
2774671 CGAAA
66 CGAAA
2774676 AAGAAATTTC
Statistics
Matches: 279, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
72 1 0.00
73 277 0.99
74 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (73 bp):
CAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTCGAGACAGTTTCACT
CGAAACAA
Found at i:2774838 original size:3 final size:3
Alignment explanation
Indices: 2774830--2774880 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
2774820 TCATTTTGTT
** *
2774830 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTA ATA -TA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
2774875 TTA TTA
1 TTA TTA
2774881 CAAGCCCAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
2 2 0.05
3 36 0.88
4 3 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:2774854 original size:21 final size:20
Alignment explanation
Indices: 2774830--2774880 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 20
2774820 TCATTTTGTT
2774830 TTATTATTATTATTAAAATTA
1 TTATTATTATTATTAAAA-TA
*
2774851 TTATTATTATTATTAATATA
1 TTATTATTATTATTAAAATA
2774871 TATATTATTA
1 T-TATTATTA
2774881 CAAGCCCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 3 0.11
21 25 0.89
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTATTATTATTATTAAAATA
Found at i:2776423 original size:31 final size:31
Alignment explanation
Indices: 2776382--2776442 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
2776372 ATAATTAAAT
*
2776382 ATTATAAAAATTATAATTTAGTTTTATTTAA
1 ATTATAAAAATTATAATATAGTTTTATTTAA
* * *
2776413 ATTATTAAAATTTTAATATATTTTTATTTA
1 ATTATAAAAATTATAATATAGTTTTATTTA
2776443 TTAATATCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (31 bp):
ATTATAAAAATTATAATATAGTTTTATTTAA
Found at i:2784278 original size:39 final size:39
Alignment explanation
Indices: 2784209--2784285 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
2784199 TTAAAGAGTT
* **
2784209 GTAACTATTTTTTATTACCCTTTAGTTTTTATTTGTATG
1 GTAACTATTTCTTATTACCCTTTAACTTTTATTTGTATG
*
2784248 GTAATTATTTCTTATTATCCC-TTAACTTTTATTTGTAT
1 GTAACTATTTCTTATTA-CCCTTTAACTTTTATTTGTAT
2784286 CACCTAATGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 30 0.91
40 3 0.09
ACGTcount: A:0.22, C:0.12, G:0.08, T:0.58
Consensus pattern (39 bp):
GTAACTATTTCTTATTACCCTTTAACTTTTATTTGTATG
Found at i:2785988 original size:82 final size:81
Alignment explanation
Indices: 2785843--2786025 Score: 258
Period size: 82 Copynumber: 2.2 Consensus size: 81
2785833 CTTTAGCGGC
* * * *
2785843 GTTTTTCCAACAAACGCCGCGATAGAGTGGTAATTTAGCAGCGTTTATAGCACAAACATCAGAAT
1 GTTTTTCCAACAAACACCGCAATAGAGTAGTAATTTAGCAGCGTTTATAGCACAAACACCAGAAT
*
2785908 AGGGTTGTTTATAGTG
66 AGGGTCGTTTATAGTG
* **
2785924 GCTTTTTCCAACAAACACCGCAATAGAGTAGTAATTTAGCGGCGTTTATAGCACAAATGCCAGAA
1 G-TTTTTCCAACAAACACCGCAATAGAGTAGTAATTTAGCAGCGTTTATAGCACAAACACCAGAA
*
2785989 TAGGGTCGTTTATAGTT
65 TAGGGTCGTTTATAGTG
2786006 GTGTTTTCCAAACAAACACC
1 GT-TTTTCC-AACAAACACC
2786026 ACAACAGGGT
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
81 2 0.02
82 78 0.87
83 10 0.11
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (81 bp):
GTTTTTCCAACAAACACCGCAATAGAGTAGTAATTTAGCAGCGTTTATAGCACAAACACCAGAAT
AGGGTCGTTTATAGTG
Found at i:2786050 original size:82 final size:81
Alignment explanation
Indices: 2785844--2786054 Score: 219
Period size: 82 Copynumber: 2.6 Consensus size: 81
2785834 TTTAGCGGCG
* * * * * * *
2785844 TTTTTCCAACAAACGCCGCGATAGAGTGGTAATTTAGCAGCGTTTATAGCACAAACATCAGAATA
1 TTTTTCCAACAAACACCACAACAGAGTAGT-ATTTAGCGGCGTTTATAGCACAAACACCAGAATA
*
2785909 GGGTTGTTTATAGTGGC
65 GGGTCGTTTATAGTGGC
* * **
2785926 TTTTTCCAACAAACACCGCAATAGAGTAGTAATTTAGCGGCGTTTATAGCACAAATGCCAGAATA
1 TTTTTCCAACAAACACCACAACAGAGTAGT-ATTTAGCGGCGTTTATAGCACAAACACCAGAATA
*
2785991 GGGTCGTTTATAGTTG-
65 GGGTCGTTTATAGTGGC
* * *
2786007 TGTTTTCCAAACAAACACCACAACAGGGTTGT-TTATAGTGGCGTTTAT
1 T-TTTTCC-AACAAACACCACAACAGAGTAGTATT-TAGCGGCGTTTAT
2786055 CTAACAAACG
Statistics
Matches: 112, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
81 3 0.03
82 90 0.80
83 19 0.17
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (81 bp):
TTTTTCCAACAAACACCACAACAGAGTAGTATTTAGCGGCGTTTATAGCACAAACACCAGAATAG
GGTCGTTTATAGTGGC
Found at i:2786061 original size:41 final size:41
Alignment explanation
Indices: 2785894--2786063 Score: 123
Period size: 41 Copynumber: 4.1 Consensus size: 41
2785884 CGTTTATAGC
* * * *
2785894 ACAAACATCAGAATAGGGTTGTTTATAGTGGC-TTTTTCCA
1 ACAAACACCACAATAGGGTTGTTTATAGTGGCGTTTATCAA
* * * * *
2785934 ACAAACACCGCAATAGAGTAGTAATT-TAGCGGCGTTTAT-AGC
1 ACAAACACCACAATAGGGTTGT--TTATAGTGGCGTTTATCA-A
** * * * *
2785976 ACAAATGCCAGAATAGGGTCGTTTATAGTTGTGTTT-TCCAA
1 ACAAACACCACAATAGGGTTGTTTATAGTGGCGTTTAT-CAA
* *
2786017 ACAAACACCACAACAGGGTTGTTTATAGTGGCGTTTATCTA
1 ACAAACACCACAATAGGGTTGTTTATAGTGGCGTTTATCAA
2786058 ACAAAC
1 ACAAAC
2786064 GCCGCGATAG
Statistics
Matches: 95, Mismatches: 27, Indels: 15
0.69 0.20 0.11
Matches are distributed among these distances:
40 20 0.21
41 51 0.54
42 24 0.25
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (41 bp):
ACAAACACCACAATAGGGTTGTTTATAGTGGCGTTTATCAA
Found at i:2786123 original size:123 final size:123
Alignment explanation
Indices: 2785894--2786124 Score: 340
Period size: 123 Copynumber: 1.9 Consensus size: 123
2785884 CGTTTATAGC
* * * *
2785894 ACAAACATCAGAATAGGGTTGTTTATAGTGGCTTTTTCCAACAAACACCGCAATAGAGTAGTAAT
1 ACAAACACCACAACAGGGTTGTTTATAGTGGCTTTATCCAACAAACACCGCAATAGAGTAGTAAT
2785959 TTAGCGGCGTTTATAGCACAAATGCCAGAATAGGGTCGTTTATAGTTGTGTTTTCCAA
66 TTAGCGGCGTTTATAGCACAAATGCCAGAATAGGGTCGTTTATAGTTGTGTTTTCCAA
* * *
2786017 ACAAACACCACAACAGGGTTGTTTATAGTGGCGTTTATCTAACAAACGCCGCGATAGAGTAGTAA
1 ACAAACACCACAACAGGGTTGTTTATAGTGGC-TTTATCCAACAAACACCGCAATAGAGTAGTAA
* * *
2786082 TTTAGCGGCGTTT-TAGGACAAATGCC-GTAATATGGTTGTTTAT
65 TTTAGCGGCGTTTATAGCACAAATGCCAG-AATAGGGTCGTTTAT
2786125 TGTGGCGTTT
Statistics
Matches: 96, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
122 1 0.01
123 54 0.56
124 41 0.43
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.30
Consensus pattern (123 bp):
ACAAACACCACAACAGGGTTGTTTATAGTGGCTTTATCCAACAAACACCGCAATAGAGTAGTAAT
TTAGCGGCGTTTATAGCACAAATGCCAGAATAGGGTCGTTTATAGTTGTGTTTTCCAA
Found at i:2786134 original size:40 final size:39
Alignment explanation
Indices: 2786087--2786191 Score: 105
Period size: 33 Copynumber: 2.8 Consensus size: 39
2786077 AGTAATTTAG
*
2786087 CGGCGTTTTAGGACAAATGCCGTAATATGGTTGTTTATTG
1 CGGCGTTTTA-GACAAATGCCGTAATATGGTTGTTTATTA
* *
2786127 TGGCG-TTT-GTC---T-CCGTAATATGGTTGTTTATTA
1 CGGCGTTTTAGACAAATGCCGTAATATGGTTGTTTATTA
* *
2786160 CGGCGTTTTTAGACAAATGCCATAATAGGGTT
1 CGGCG-TTTTAGACAAATGCCGTAATATGGTT
2786192 CATCAATAGT
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
33 24 0.47
34 1 0.02
35 3 0.06
36 2 0.04
37 2 0.04
39 4 0.08
40 15 0.29
ACGTcount: A:0.22, C:0.13, G:0.26, T:0.39
Consensus pattern (39 bp):
CGGCGTTTTAGACAAATGCCGTAATATGGTTGTTTATTA
Found at i:2792967 original size:16 final size:16
Alignment explanation
Indices: 2792936--2792969 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
2792926 CTTACTCCCA
2792936 TAAAATTTTATCAATT
1 TAAAATTTTATCAATT
2792952 TAAAAGTTTTAT-AATT
1 TAAAA-TTTTATCAATT
2792968 TA
1 TA
2792970 GGAGTATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (16 bp):
TAAAATTTTATCAATT
Found at i:2798313 original size:21 final size:20
Alignment explanation
Indices: 2798289--2798355 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 20
2798279 AGTTGAAAAT
*
2798289 GAAGCGAGTGAAGCATAGAGA
1 GAAGC-AGTGAAGCACAGAGA
* *
2798310 GAAGCAGCAGAAGAACAGAGA
1 GAAGCAG-TGAAGCACAGAGA
*
2798331 GAAGCAGTGGTAGCACAGAGA
1 GAAGCAGT-GAAGCACAGAGA
2798352 GAAG
1 GAAG
2798356 TAGCATATCA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
20 2 0.05
21 36 0.95
ACGTcount: A:0.45, C:0.12, G:0.37, T:0.06
Consensus pattern (20 bp):
GAAGCAGTGAAGCACAGAGA
Found at i:2798808 original size:43 final size:43
Alignment explanation
Indices: 2798760--2798874 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 43
2798750 AATTTAGATA
2798760 TTTTGCGGCGTTTGTAACAAAAAACGCCGCTATATACCAAACC
1 TTTTGCGGCGTTTGTAACAAAAAACGCCGCTATATACCAAACC
* * *** *
2798803 TTTTGCAGCGTTT-TATCCAAAAAACATTGCTATATACCAGACC
1 TTTTGCGGCGTTTGTA-ACAAAAAACGCCGCTATATACCAAACC
* * **
2798846 TGTTGCGGTGTTTGT-ATGAAAAACGCCGC
1 TTTTGCGGCGTTTGTAACAAAAAACGCCGC
2798875 AAAATATCTA
Statistics
Matches: 55, Mismatches: 15, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
42 10 0.18
43 44 0.80
44 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (43 bp):
TTTTGCGGCGTTTGTAACAAAAAACGCCGCTATATACCAAACC
Found at i:2798953 original size:85 final size:84
Alignment explanation
Indices: 2798848--2799038 Score: 190
Period size: 84 Copynumber: 2.3 Consensus size: 84
2798838 ACCAGACCTG
* * * *** * * *
2798848 TTGCGGTGTTTGTAT-GAAAAACGCCGCAAAATATC-TAATTTTTTGTGGCGTTTTTATGTAGAA
1 TTGCGGCGTTTGTATCCAAAAACCCCGCAAAATATCTTAACCATTTGCGGCG--TTTAT-AAAAA
* *
2798911 CGCCACTATATA-ATAGACTTT
63 CGCCACTATAGATATAGACATT
* *
2798932 TTGCGGCGTTTGTATCCAAAAAACCCCGCTAAATATCTTAACCATTTGCGGCGTTTATAAAAACT
1 TTGCGGCGTTTGTATCC-AAAAACCCCGCAAAATATCTTAACCATTTGCGGCGTTTATAAAAACG
* *
2798997 CCTCTATAGATGTAGACATT
65 CCACTATAGATATAGACATT
2799017 TTGCGGCGTTTGTATCCAAAAA
1 TTGCGGCGTTTGTATCCAAAAA
2799039 AACATCGTTA
Statistics
Matches: 88, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
84 31 0.35
85 29 0.33
86 17 0.19
87 11 0.12
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (84 bp):
TTGCGGCGTTTGTATCCAAAAACCCCGCAAAATATCTTAACCATTTGCGGCGTTTATAAAAACGC
CACTATAGATATAGACATT
Found at i:2802666 original size:56 final size:56
Alignment explanation
Indices: 2802567--2802707 Score: 169
Period size: 56 Copynumber: 2.5 Consensus size: 56
2802557 TTTTATTAAG
* * * * *
2802567 TAATTTATTTATTTAACCTGATTAATTAAATTAATTATAATCATTACAAGCTAAAA
1 TAATTTATGTATTGAACATGAATAATTAAATTAATTATAATCATTAAAAGCTAAAA
* *
2802623 TAATTTATCGGTATTGAATATGAATAATTAAATTAA-T-TAATCATTAAAAGTTAAAA
1 TAATTTAT--GTATTGAACATGAATAATTAAATTAATTATAATCATTAAAAGCTAAAA
* *
2802679 TAATTTATTTATTGAACATGATTAATTAA
1 TAATTTATGTATTGAACATGAATAATTAA
2802708 CTAACTAATT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
54 18 0.25
56 33 0.45
57 1 0.01
58 21 0.29
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (56 bp):
TAATTTATGTATTGAACATGAATAATTAAATTAATTATAATCATTAAAAGCTAAAA
Found at i:2808138 original size:51 final size:51
Alignment explanation
Indices: 2808079--2808180 Score: 177
Period size: 51 Copynumber: 2.0 Consensus size: 51
2808069 GATATTGTTC
2808079 TTACAGTATCAATACTACGTGAACAGTACCGATAATATTCATGTGGTACAT
1 TTACAGTATCAATACTACGTGAACAGTACCGATAATATTCATGTGGTACAT
** *
2808130 TTACAGTATCGGTACTACGTGAACAGTGCCGATAATATTCATGTGGTACAT
1 TTACAGTATCAATACTACGTGAACAGTACCGATAATATTCATGTGGTACAT
2808181 ATACCAAAGG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (51 bp):
TTACAGTATCAATACTACGTGAACAGTACCGATAATATTCATGTGGTACAT
Found at i:2811499 original size:202 final size:203
Alignment explanation
Indices: 2811164--2811557 Score: 491
Period size: 202 Copynumber: 1.9 Consensus size: 203
2811154 ATGTTGGGTA
* *
2811164 TTGGGATTGGGTGCTTGAAAGGATCAAATAAGTATTTTTGGGATAAAATCATATGAACAATGGTG
1 TTGGGATTGGGTGCTTGAAAGGATCAAATAAGTAGTTTTGGGATAAAATCATATGAACAAGGGTG
* * * * *
2811229 ATTTTGGGGTGTTTGATCGATAAAACAGGTTTGATCTTGGGTTTAGGTGTTTGTAAGGATCGAAT
66 ATTTTGGGGTGTTTGATCCAAAAAACAAGTTTGATCTTGGGTTTAGGTGTTTGTAAAGATCAAAT
* *
2811294 GAGGGTTTTGA-GATGAACAC-GAATGAACA-AGGGTTGAGTTTTGGG-TGTTTGATCCAAAAAA
131 GAGGGTTTTGAGGATGAACACGGAA-GAACACA-AGTTGA-ATTTGGGATGTTTGATCCAAAAAA
2811355 CAAGTTTGATC
193 CAAGTTTGATC
* * * * * *
2811366 TTGGGTTTTGGTGTTTGTAAGGATCAAATAAG-GGTTTTGGGATGAACA-CGA-ATGAACAAGGG
1 TTGGGATTGGGTGCTTGAAAGGATCAAATAAGTAGTTTTGGGAT-AAAATC-ATATGAACAAGGG
* *
2811428 TTGAGTTTT-GGGTGTTTGATCCAAAAAACCAAGTTTGATTTTGGGTTT-TGTGTTTGTAAAGAT
64 -TGA-TTTTGGGGTGTTTGATCCAAAAAA-CAAGTTTGATCTTGGGTTTAGGTGTTTGTAAAGAT
*
2811491 CAAATGAGGGTTTTGAGGATGAACACGGAAGAACACAAGTTGAATTTGGGATGTTTGATCGAAAA
126 CAAATGAGGGTTTTGAGGATGAACACGGAAGAACACAAGTTGAATTTGGGATGTTTGATCCAAAA
2811556 AA
191 AA
2811558 ATAGAATGAT
Statistics
Matches: 165, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
201 20 0.12
202 86 0.52
203 55 0.33
204 4 0.02
ACGTcount: A:0.30, C:0.07, G:0.29, T:0.33
Consensus pattern (203 bp):
TTGGGATTGGGTGCTTGAAAGGATCAAATAAGTAGTTTTGGGATAAAATCATATGAACAAGGGTG
ATTTTGGGGTGTTTGATCCAAAAAACAAGTTTGATCTTGGGTTTAGGTGTTTGTAAAGATCAAAT
GAGGGTTTTGAGGATGAACACGGAAGAACACAAGTTGAATTTGGGATGTTTGATCCAAAAAACAA
GTTTGATC
Found at i:2811569 original size:101 final size:101
Alignment explanation
Indices: 2811216--2811557 Score: 464
Period size: 101 Copynumber: 3.4 Consensus size: 101
2811206 ATAAAATCAT
* * * * *
2811216 ATGAACAATGG-TGA-TTTTGGGGTGTTTGATCGATAAAACAGGTTTGATCTTGGGTTTAGGTGT
1 ATGAACAAGGGTTGAGTTTT-GGGTGTTTGATCCAAAAAACAAGTTTGATCTTGGGTTT-TGTGT
*
2811279 TTGTAAGGATCGAATGAGGGTTTTGA-GATGAACACGA
64 TTGTAAGGATCAAATGAGGGTTTTGAGGATGAACACGA
2811316 ATGAACAAGGGTTGAGTTTTGGGTGTTTGATCCAAAAAACAAGTTTGATCTTGGGTTTTGGTGTT
1 ATGAACAAGGGTTGAGTTTTGGGTGTTTGATCCAAAAAACAAGTTTGATCTTGGGTTTT-GTGTT
*
2811381 TGTAAGGATCAAATAAGGGTTTTG-GGATGAACACGA
65 TGTAAGGATCAAATGAGGGTTTTGAGGATGAACACGA
*
2811417 ATGAACAAGGGTTGAGTTTTGGGTGTTTGATCCAAAAAACCAAGTTTGATTTTGGGTTTTGTGTT
1 ATGAACAAGGGTTGAGTTTTGGGTGTTTGATCCAAAAAA-CAAGTTTGATCTTGGGTTTTGTGTT
*
2811482 TGTAAAGATCAAATGAGGGTTTTGAGGATGAACACGGA
65 TGTAAGGATCAAATGAGGGTTTTGAGGATGAACAC-GA
* * *
2811520 A-GAACACA-AGTTGA-ATTTGGGATGTTTGATCGAAAAAA
1 ATGAACA-AGGGTTGAGTTTTGGG-TGTTTGATCCAAAAAA
2811558 ATAGAATGAT
Statistics
Matches: 220, Mismatches: 13, Indels: 16
0.88 0.05 0.06
Matches are distributed among these distances:
100 10 0.05
101 148 0.67
102 58 0.26
103 4 0.02
ACGTcount: A:0.30, C:0.08, G:0.30, T:0.33
Consensus pattern (101 bp):
ATGAACAAGGGTTGAGTTTTGGGTGTTTGATCCAAAAAACAAGTTTGATCTTGGGTTTTGTGTTT
GTAAGGATCAAATGAGGGTTTTGAGGATGAACACGA
Found at i:2811859 original size:20 final size:20
Alignment explanation
Indices: 2811812--2811849 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2811802 AACCCAATTA
2811812 ATTGAATTTAAGTTTTATTT
1 ATTGAATTTAAGTTTTATTT
*
2811832 ATTGAATTTAAGCTTTAT
1 ATTGAATTTAAGTTTTAT
2811850 ATTTTTAATT
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:0.32, C:0.03, G:0.11, T:0.55
Consensus pattern (20 bp):
ATTGAATTTAAGTTTTATTT
Done.