Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 129 of 335
Found at i:38539817 original size:27 final size:27
Alignment explanation
Indices: 38539766--38539817 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
38539756 ATAAGTAACC
**
38539766 AACAATACAAATAATACAATTAATATT
1 AACAATACAAATAATACAAACAATATT
* *
38539793 AACATTACAAATAATATAAACAATA
1 AACAATACAAATAATACAAACAATA
38539818 AAAAACAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.27
Consensus pattern (27 bp):
AACAATACAAATAATACAAACAATATT
Found at i:38544800 original size:32 final size:32
Alignment explanation
Indices: 38544763--38544859 Score: 185
Period size: 32 Copynumber: 3.0 Consensus size: 32
38544753 AATGCTTATC
38544763 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
*
38544795 ATGCCCATCATTCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
38544827 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
38544859 A
1 A
38544860 AATGCATACA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 63 1.00
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:38559951 original size:26 final size:26
Alignment explanation
Indices: 38559920--38560027 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
38559910 TGAAATTCCC
*
38559920 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
38559946 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
38559972 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
38559998 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
38560024 ATCA
1 ATCA
38560028 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:38566969 original size:26 final size:26
Alignment explanation
Indices: 38566938--38567045 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
38566928 TGAAATTCCC
*
38566938 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
38566964 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
38566990 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
38567016 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
38567042 ATCA
1 ATCA
38567046 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:38573576 original size:20 final size:20
Alignment explanation
Indices: 38573534--38573576 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
38573524 TTTATATTAA
* *
38573534 ATTATTATTATTTAATAGGT
1 ATTATTATTAGTTAATAGAT
38573554 ATTATTATTAAGTTAA-AGAT
1 ATTATTATT-AGTTAATAGAT
38573574 ATT
1 ATT
38573577 TACTAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (20 bp):
ATTATTATTAGTTAATAGAT
Found at i:38573985 original size:11 final size:12
Alignment explanation
Indices: 38573955--38573988 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
38573945 GTATGTTTAC
38573955 TTATTATATAAG
1 TTATTATATAAG
38573967 TATATTAT-TAAG
1 T-TATTATATAAG
38573979 TTATTATATA
1 TTATTATATA
38573989 TATATATAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (12 bp):
TTATTATATAAG
Found at i:38575009 original size:20 final size:20
Alignment explanation
Indices: 38574979--38575016 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
38574969 AAAAGTGTGA
38574979 TTATTGTG-AAATTGAATAT
1 TTATTGTGAAAATTGAATAT
38574998 TTATTAGTGAAAATTGAAT
1 TTATT-GTGAAAATTGAAT
38575017 GGAAGTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 3 0.18
21 9 0.53
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (20 bp):
TTATTGTGAAAATTGAATAT
Found at i:38575068 original size:16 final size:16
Alignment explanation
Indices: 38575047--38575080 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
38575037 ATATATAGTT
38575047 AATTAATT-AAAATATG
1 AATTAATTGAAAAT-TG
38575063 AATTAATTGAAAATTG
1 AATTAATTGAAAATTG
38575079 AA
1 AA
38575081 AAGTGAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (16 bp):
AATTAATTGAAAATTG
Found at i:38576592 original size:25 final size:27
Alignment explanation
Indices: 38576555--38576607 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
38576545 TCAAACATGC
38576555 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
38576581 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
38576607 A
1 A
38576608 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:38578149 original size:26 final size:26
Alignment explanation
Indices: 38578091--38578225 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
38578081 CATGATATTC
38578091 TTATCATGAAACATTTACCTAACC-A
1 TTATCATGAAACATTTACCTAACCTA
*
38578116 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
38578142 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
38578168 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
38578194 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
38578220 TTATCA
1 TTATCA
38578226 ATTTGTATCA
Statistics
Matches: 105, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 24 0.23
26 81 0.77
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:38578588 original size:19 final size:19
Alignment explanation
Indices: 38578564--38578615 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 19
38578554 TTACATCGAC
38578564 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAATTTAAT
* * *
38578583 TGTTACAGTAT-ATCTAAT
1 TGTTACTGAATAATTTAAT
* *
38578601 TTTTACTTAATAATT
1 TGTTACTGAATAATT
38578616 GACTGTTACT
Statistics
Matches: 24, Mismatches: 8, Indels: 2
0.71 0.24 0.06
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.50
Consensus pattern (19 bp):
TGTTACTGAATAATTTAAT
Found at i:38578669 original size:18 final size:18
Alignment explanation
Indices: 38578641--38578755 Score: 88
Period size: 18 Copynumber: 6.3 Consensus size: 18
38578631 ACCGATCAAT
* *
38578641 TGATTGATATTGAATAAC
1 TGATTGTTACTGAATAAC
* * *
38578659 TGATTATTATTGAATAAT
1 TGATTGTTACTGAATAAC
*
38578677 TGATTGTTACCGAATAAC
1 TGATTGTTACTGAATAAC
* *
38578695 TGACTGTTACTGAATAAA
1 TGATTGTTACTGAATAAC
* * * *
38578713 TAATT-TTTCTGATTGAC
1 TGATTGTTACTGAATAAC
*
38578730 TGATTGTTAATGAATATTAC
1 TGATTGTTACTGAATA--AC
38578750 TGATTG
1 TGATTG
38578756 ATTAATTACT
Statistics
Matches: 73, Mismatches: 21, Indels: 4
0.74 0.21 0.04
Matches are distributed among these distances:
17 12 0.16
18 53 0.73
20 8 0.11
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.43
Consensus pattern (18 bp):
TGATTGTTACTGAATAAC
Found at i:38580065 original size:25 final size:25
Alignment explanation
Indices: 38580028--38580078 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
38580018 TCAAACATGC
38580028 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTT-ACCCTAGGGGT
* *
38580054 ATTTCGGT-AATTTATCCTAGGGGT
1 ATTTAGGTCAATTTACCCTAGGGGT
38580078 A
1 A
38580079 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 11 0.48
25 5 0.22
26 7 0.30
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (25 bp):
ATTTAGGTCAATTTACCCTAGGGGT
Found at i:38581588 original size:26 final size:26
Alignment explanation
Indices: 38581552--38581687 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
38581542 CATGAAATTC
*
38581552 TTATCATGAAATATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
38581578 TTATTATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
38581604 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
38581630 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
38581656 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
38581682 TTATCA
1 TTATCA
38581688 ATTTATATCA
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 105 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:38585123 original size:26 final size:26
Alignment explanation
Indices: 38585087--38585196 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
38585077 TGATACAAAT
38585087 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
38585113 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
38585139 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
38585165 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
38585191 TGATAA
1 TGATAA
38585197 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:38588263 original size:39 final size:39
Alignment explanation
Indices: 38588218--38588297 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
38588208 GATTTCATGA
38588218 TATGTCAGTTTTTATTATTTCTGATTGAGATAGATGGTT
1 TATGTCAGTTTTTATTATTTCTGATTGAGATAGATGGTT
38588257 TATGTCAGTTTTTATTATTTCTGATTGAGATAGATGGTT
1 TATGTCAGTTTTTATTATTTCTGATTGAGATAGATGGTT
38588296 TA
1 TA
38588298 CATTCTAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.24, C:0.05, G:0.20, T:0.51
Consensus pattern (39 bp):
TATGTCAGTTTTTATTATTTCTGATTGAGATAGATGGTT
Found at i:38589406 original size:3 final size:3
Alignment explanation
Indices: 38589283--38589388 Score: 164
Period size: 3 Copynumber: 36.3 Consensus size: 3
38589273 TAAATGTTAG
38589283 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
** *
38589331 TAT TAT TAT TAT TAT TAT TAT TAT TAT GGT T-T TA- TAT TA- AAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
38589376 TAT TAT TAT TAT T
1 TAT TAT TAT TAT T
38589389 TAATAGGTAT
Statistics
Matches: 95, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
2 5 0.05
3 90 0.95
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:38589672 original size:12 final size:13
Alignment explanation
Indices: 38589648--38589711 Score: 62
Period size: 14 Copynumber: 4.8 Consensus size: 13
38589638 TGTGTTTACT
38589648 TATTATATAAGTA
1 TATTATATAAGTA
38589661 TATTAT-TAAGTA
1 TATTATATAAGTA
38589673 TATATATATATA-TA
1 TAT-TATATA-AGTA
38589687 TATATATATATA-TA
1 TAT-TATATA-AGTA
38589701 TATATATATAA
1 TAT-TATATAA
38589712 AAAGAGAAGA
Statistics
Matches: 48, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
12 9 0.19
13 10 0.21
14 28 0.58
15 1 0.02
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (13 bp):
TATTATATAAGTA
Found at i:38589678 original size:2 final size:2
Alignment explanation
Indices: 38589671--38589710 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
38589661 TATTATTAAG
38589671 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
38589711 AAAAGAGAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:38590518 original size:22 final size:23
Alignment explanation
Indices: 38590488--38590531 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
38590478 TGATGTGAAA
38590488 ATTGAAAAATAAATATTT-GTTAT
1 ATTGAAAAA-AAATATTTAGTTAT
*
38590511 ATTG-AAAAATATATTTAGTTA
1 ATTGAAAAAAAATATTTAGTTA
38590532 GAAGTGTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 8 0.42
23 4 0.21
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (23 bp):
ATTGAAAAAAAATATTTAGTTAT
Found at i:38590526 original size:21 final size:23
Alignment explanation
Indices: 38590488--38590531 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
38590478 TGATGTGAAA
38590488 ATTGAAAAATAAATATTT-GTTAT
1 ATTGAAAAAT-AATATTTAGTTAT
38590511 ATTGAAAAAT-ATATTTAGTTA
1 ATTGAAAAATAATATTTAGTTA
38590532 GAAGTGTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.30
22 4 0.20
23 10 0.50
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (23 bp):
ATTGAAAAATAATATTTAGTTAT
Found at i:38590638 original size:22 final size:22
Alignment explanation
Indices: 38590604--38590657 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
38590594 AGTGGATGGA
*
38590604 AGTTTATTGAATTGAAAATATAT
1 AGTTAATTGAATT-AAAATATAT
38590627 AGTTAATT-AATTAAAATATGA-
1 AGTTAATTGAATTAAAATAT-AT
38590648 A-TTAATTGAA
1 AGTTAATTGAA
38590658 AATTGAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 6 0.21
21 10 0.36
22 5 0.18
23 7 0.25
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (22 bp):
AGTTAATTGAATTAAAATATAT
Found at i:38590652 original size:16 final size:16
Alignment explanation
Indices: 38590631--38590664 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
38590621 ATATATAGTT
38590631 AATTAATT-AAAATATG
1 AATTAATTGAAAAT-TG
38590647 AATTAATTGAAAATTG
1 AATTAATTGAAAATTG
38590663 AA
1 AA
38590665 AAGTTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (16 bp):
AATTAATTGAAAATTG
Found at i:38591165 original size:36 final size:36
Alignment explanation
Indices: 38591110--38591192 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
38591100 ATAACCGATC
* ** * *
38591110 AATTGATTGATACTGAATAACTAATTATTATTGAAT
1 AATTGATTGTTACCAAATAACTAACTATTACTGAAT
*
38591146 AATTGATTGTTACCAAATAACTGACTATTACTGAAT
1 AATTGATTGTTACCAAATAACTAACTATTACTGAAT
* *
38591182 AAATAATTGTT
1 AATTGATTGTT
38591193 CTGATTGACT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (36 bp):
AATTGATTGTTACCAAATAACTAACTATTACTGAAT
Found at i:38591182 original size:18 final size:18
Alignment explanation
Indices: 38591120--38591183 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
38591110 AATTGATTGA
*
38591120 TACTGAATAACTAATTAT
1 TACTGAATAACTGATTAT
* * *
38591138 TATTGAATAATTGATTGT
1 TACTGAATAACTGATTAT
** *
38591156 TACCAAATAACTGACTAT
1 TACTGAATAACTGATTAT
38591174 TACTGAATAA
1 TACTGAATAA
38591184 ATAATTGTTC
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (18 bp):
TACTGAATAACTGATTAT
Found at i:38593938 original size:2 final size:2
Alignment explanation
Indices: 38593931--38593967 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
38593921 CAAATGTTAG
38593931 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
38593968 ATGTGGATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:38596282 original size:38 final size:37
Alignment explanation
Indices: 38596244--38596316 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 37
38596234 GATTGGAACA
* *
38596244 AAAAACACAATTGACTCCAATGGCAATAGGTCAAAAC
1 AAAAACACAAATCACTCCAATGGCAATAGGTCAAAAC
* * * *
38596281 AAGACCATAAATCACTCCATTGGCAATAGGTCAAAA
1 AAAAACACAAATCACTCCAATGGCAATAGGTCAAAA
38596317 ACCACTATTC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.47, C:0.22, G:0.14, T:0.18
Consensus pattern (37 bp):
AAAAACACAAATCACTCCAATGGCAATAGGTCAAAAC
Found at i:38596944 original size:25 final size:26
Alignment explanation
Indices: 38596916--38596985 Score: 60
Period size: 25 Copynumber: 2.8 Consensus size: 26
38596906 TAAGATATTA
38596916 ATACCAAATGAAAATTTATAATTTC-
1 ATACCAAATGAAAATTTATAATTTCG
38596941 ATACTACAAA--AAATATTTA-AATTTCG
1 ATAC--CAAATGAAA-ATTTATAATTTCG
* *
38596967 A-AACAAATGAACATTTATA
1 ATACCAAATGAAAATTTATA
38596986 GATAGATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
23 4 0.11
24 5 0.14
25 17 0.47
26 6 0.17
27 4 0.11
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.33
Consensus pattern (26 bp):
ATACCAAATGAAAATTTATAATTTCG
Found at i:38597385 original size:2 final size:2
Alignment explanation
Indices: 38597378--38597414 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
38597368 AATTGGACAT
38597378 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
38597415 AGTTTTTGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:38598357 original size:2 final size:2
Alignment explanation
Indices: 38598350--38598408 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
38598340 GGAAACGGTT
38598350 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
38598392 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
38598409 TCTACTACTA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:38602507 original size:47 final size:46
Alignment explanation
Indices: 38602389--38602562 Score: 192
Period size: 47 Copynumber: 3.7 Consensus size: 46
38602379 ATAATCTCAC
* * * *
38602389 CCATAATGAGCTCGGAACACAACTCAATGAGCTCCGG-TGTTTGCAT
1 CCATAATGAACTCGGAACACAACTCAACGAG-TTCGGATGCTTGCAT
*
38602435 CCATAATGAACTCAGAACACAACTCAACGAGTTCGGATGCTTGCAT
1 CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTTGCAT
* *
38602481 CCATAAGTGAACTCGGAACGCAACTCAACGAGTTCGGATGCCT-CAT
1 CCATAA-TGAACTCGGAACACAACTCAACGAGTTCGGATGCTTGCAT
* * *
38602527 -AATTCTCACGAACTCGGAACACAACTCAACGAGTTC
1 CCA---TAATGAACTCGGAACACAACTCAACGAGTTC
38602563 AGATCTCAAT
Statistics
Matches: 111, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
45 5 0.05
46 45 0.41
47 59 0.53
48 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTTGCAT
Found at i:38607136 original size:66 final size:67
Alignment explanation
Indices: 38607027--38607156 Score: 235
Period size: 66 Copynumber: 2.0 Consensus size: 67
38607017 AATCCTTTTC
*
38607027 AGAGAGCACACTCCCGCAAACCTCATTGCTTACAGTGGGATTACCAGTCCAGGCTAAATCCCCTG
1 AGAGAGCACACTCCCGCAAACCTCATTGCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
38607092 TA
66 TA
*
38607094 AGAGAGCACACTCCCGCGAACCTCATT-CTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCT
1 AGAGAGCACACTCCCGCAAACCTCATTGCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCT
38607157 ATAACATATA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
66 35 0.57
67 26 0.43
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.20
Consensus pattern (67 bp):
AGAGAGCACACTCCCGCAAACCTCATTGCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
TA
Found at i:38607263 original size:58 final size:54
Alignment explanation
Indices: 38607128--38607265 Score: 161
Period size: 58 Copynumber: 2.5 Consensus size: 54
38607118 ATTCTTACAG
* *
38607128 CGGGATTACCAGTCCAGGCTAAATCCCCTATAACATATACTCAAAGAGTATTGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTATAACAAATACTCAAAGAGTATTAT
* * *
38607182 CGGGATTACCAGTTCAGGCTAAATCCCCTGCAATGACAAATACTCTATAGAGCT-TTAT
1 CGGGATTACCAGTCCAGGCTAAATCCCCT---ATAACAAATACTC-AAAGAG-TATTAT
* *
38607240 CTGGATTACCAGTCCAGGTTAAATCC
1 CGGGATTACCAGTCCAGGCTAAATCC
38607266 AGACTCACAC
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
54 28 0.39
57 11 0.15
58 31 0.44
59 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (54 bp):
CGGGATTACCAGTCCAGGCTAAATCCCCTATAACAAATACTCAAAGAGTATTAT
Found at i:38609044 original size:17 final size:18
Alignment explanation
Indices: 38609022--38609055 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38609012 CACATTGAAG
38609022 TGTTTT-ATTAAAAACCT
1 TGTTTTCATTAAAAACCT
*
38609039 TGTTTTCATTGAAAACC
1 TGTTTTCATTAAAAACC
38609056 CTTCTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.44
Consensus pattern (18 bp):
TGTTTTCATTAAAAACCT
Found at i:38610351 original size:28 final size:28
Alignment explanation
Indices: 38610281--38610382 Score: 152
Period size: 28 Copynumber: 3.7 Consensus size: 28
38610271 TGGCCCCTTT
*
38610281 AGGCCCAATCTCATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* *
38610309 -GACCCAATCACATTCATATGGCCTATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
38610336 AGGCCCAATCACATTCATATGGCCCGTC
1 AGGCCCAATCACATTCATATGGCCCATC
*
38610364 AAGCCCAATCACATTCATA
1 AGGCCCAATCACATTCATA
38610383 GTCATACAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 24 0.36
28 42 0.64
ACGTcount: A:0.29, C:0.34, G:0.13, T:0.24
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:38618286 original size:21 final size:20
Alignment explanation
Indices: 38618262--38618301 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
38618252 TGAGTTATTT
*
38618262 GAAGTTTAATGATAGATTATG
1 GAAGCTTAATGATAG-TTATG
*
38618283 GAAGCTTGATGATAGTTAT
1 GAAGCTTAATGATAGTTAT
38618302 ACAAGTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.38
Consensus pattern (20 bp):
GAAGCTTAATGATAGTTATG
Found at i:38618942 original size:22 final size:23
Alignment explanation
Indices: 38618894--38618942 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
38618884 AACTCACCAT
* *
38618894 AGCTTGTATGAGCTTACTGATTC
1 AGCTTGAAAGAGCTTACTGATTC
38618917 AGCTTGAAAGAGCTTACTG-TTC
1 AGCTTGAAAGAGCTTACTGATTC
38618939 AGCT
1 AGCT
38618943 CAATAAAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (23 bp):
AGCTTGAAAGAGCTTACTGATTC
Found at i:38618963 original size:24 final size:24
Alignment explanation
Indices: 38618936--38618992 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
38618926 GAGCTTACTG
*
38618936 TTCAGCTCAATAAAGCTTCCCATT
1 TTCAGCTCAATAAAGCTTACCATT
* * *
38618960 TTCAACTCAATAGAGCTTACTATT
1 TTCAGCTCAATAAAGCTTACCATT
*
38618984 ATCAGCTCA
1 TTCAGCTCA
38618993 TGAAGAGCTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.33
Consensus pattern (24 bp):
TTCAGCTCAATAAAGCTTACCATT
Found at i:38621317 original size:30 final size:30
Alignment explanation
Indices: 38621277--38621333 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
38621267 ACGGCCATGA
38621277 CACACAGGCATGTGGACTACCCGTGTGTCT
1 CACACAGGCATGTGGACTACCCGTGTGTCT
* *
38621307 CACACGGGCATGTGGATTACCCGTGTG
1 CACACAGGCATGTGGACTACCCGTGTG
38621334 GGAGTGTCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.19, C:0.28, G:0.30, T:0.23
Consensus pattern (30 bp):
CACACAGGCATGTGGACTACCCGTGTGTCT
Found at i:38624573 original size:10 final size:11
Alignment explanation
Indices: 38624558--38624605 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
38624548 ATTTTGATGT
*
38624558 ACATGATTTG-
1 ACATGATATGC
38624568 ACATGATATGC
1 ACATGATATGC
38624579 ACATGATATG-
1 ACATGATATGC
*
38624589 -TATGATATGC
1 ACATGATATGC
38624599 ACATGAT
1 ACATGAT
38624606 GTATTCATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 8 0.25
10 9 0.28
11 15 0.47
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (11 bp):
ACATGATATGC
Found at i:38624704 original size:25 final size:26
Alignment explanation
Indices: 38624652--38624747 Score: 119
Period size: 26 Copynumber: 3.8 Consensus size: 26
38624642 GAGGAAGTGC
* *
38624652 AAAAGGGC-TATGCCCCAG-TTACCG
1 AAAAGGGCTTTTGCCCCAGTTTACAG
*
38624676 AAAAGAGC-TTTGCCCCAGTTTACAG
1 AAAAGGGCTTTTGCCCCAGTTTACAG
38624701 AAAAGGGCTTTTGCCCCAGTTTATCA-
1 AAAAGGGCTTTTGCCCCAGTTTA-CAG
*
38624727 AAAAGGGCTTTTTCCCCAGTT
1 AAAAGGGCTTTTGCCCCAGTT
38624748 ATTAAAAGAG
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
24 16 0.25
25 12 0.19
26 34 0.53
27 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCCAGTTTACAG
Found at i:38624760 original size:25 final size:26
Alignment explanation
Indices: 38624662--38624760 Score: 86
Period size: 26 Copynumber: 3.9 Consensus size: 26
38624652 AAAAGGGCTA
*
38624662 TGCCCCAG-TTACCGAAAAGA-GC-TT
1 TGCCCCAGTTTATC-AAAAGAGGCTTT
38624686 TGCCCCAGTTTA-CAGAAA-AGGGCTTT
1 TGCCCCAGTTTATCA-AAAGA-GGCTTT
38624712 TGCCCCAGTTTATCAAAA-AGGGCTTT
1 TGCCCCAGTTTATCAAAAGA-GGCTTT
* *
38624738 TTCCCCAG-TTATTAAAAGAGGCT
1 TGCCCCAGTTTATCAAAAGAGGCT
38624761 AGGCCTCCAG
Statistics
Matches: 66, Mismatches: 2, Indels: 13
0.81 0.02 0.16
Matches are distributed among these distances:
23 2 0.03
24 12 0.18
25 17 0.26
26 33 0.50
27 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (26 bp):
TGCCCCAGTTTATCAAAAGAGGCTTT
Found at i:38625004 original size:33 final size:33
Alignment explanation
Indices: 38624962--38625046 Score: 122
Period size: 31 Copynumber: 2.7 Consensus size: 33
38624952 TTGTTACAGT
38624962 AAAGGCTTCGGCCCAGTGATATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATATGAATAATGA
* *
38624995 AAAGGCTTCGGCCCAGTG--ACATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATATGAATAATGA
*
38625026 GAAGGCTTCGGCCCAGT-ATAT
1 AAAGGCTTCGGCCCAGTGATAT
38625047 GCTGAGATTG
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
31 27 0.59
32 1 0.02
33 18 0.39
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.24
Consensus pattern (33 bp):
AAAGGCTTCGGCCCAGTGATATATGAATAATGA
Found at i:38626481 original size:27 final size:27
Alignment explanation
Indices: 38626459--38626673 Score: 232
Period size: 27 Copynumber: 7.9 Consensus size: 27
38626449 ATTACCAAAG
* *
38626459 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
*
38626486 TACCCTCGACTTACAAAAAATTACCATTT
1 TACCCTCGATTTAC--AAAATTACCATTT
* * *
38626515 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
**
38626542 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* * *
38626569 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTT
* **
38626596 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* ***
38626623 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCATTT
* *
38626650 TACCCTTGGTTTACAAAATTACCA
1 TACCCTCGATTTACAAAATTACCA
38626674 AAATACCCTC
Statistics
Matches: 163, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
27 137 0.84
29 26 0.16
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:38626587 original size:54 final size:54
Alignment explanation
Indices: 38626459--38626671 Score: 264
Period size: 54 Copynumber: 3.9 Consensus size: 54
38626449 ATTACCAAAG
* * **
38626459 TACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAC--AAAATTACTGTTT
* *
38626515 TACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTGTTT
* * *
38626569 TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTGTTT
* * *** * *
38626623 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTAC
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTAC
38626672 CAAAATACCC
Statistics
Matches: 140, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
54 103 0.74
56 37 0.26
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTGTTT
Found at i:38626676 original size:27 final size:27
Alignment explanation
Indices: 38626623--38626955 Score: 190
Period size: 27 Copynumber: 12.3 Consensus size: 27
38626613 ATTACTGTTT
* * * *
38626623 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
*
38626650 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
38626677 TACCC-TCGATCAGTAAAATTACCAAAA
1 TACCCTTGGTTTA-TAAAATTACCAAAA
* * * * *
38626704 TACCC-TAGTCTGTAAAATTGCTAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
38626730 TACCCATGATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
38626757 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * * *
38626784 TACCAC-TAGTTTGTGAAATTACCGAAA
1 TACC-CTTGGTTTATAAAATTACCAAAA
*** *
38626811 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * * * * *
38626838 TACCCCTGATATACAAAGTTA-TAGAAA
1 TACCCTTGGTTTATAAAATTACCA-AAA
* *
38626865 TACCCTTGAGTTTTTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAT-AAAATTACCA-AAA
* * **
38626894 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
38626921 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
*
38626948 CACCCTTG
1 TACCCTTG
38626956 TAGGATGAAA
Statistics
Matches: 244, Mismatches: 54, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
26 23 0.09
27 194 0.80
28 8 0.03
29 19 0.08
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
TACCCTTGGTTTATAAAATTACCAAAA
Found at i:38626681 original size:54 final size:54
Alignment explanation
Indices: 38626569--38626953 Score: 217
Period size: 54 Copynumber: 7.1 Consensus size: 54
38626559 ATTACTGTTT
* *** * * *****
38626569 TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAA
* *
38626623 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAA
* * * * * * *
38626677 TACCCTCGA-TCAGTAAAATTACCAAAATACCC-TAGTCTGTAAAATTGCTAAAA
1 TACCCTCGATTTA-TAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAA
* * * * *
38626730 TACCCAT-GATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
1 TACCC-TCGATTTATAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAA
* * * ** *** *
38626784 TACCACTAG-TTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACC-CTCGATTTATAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAA
* * * * *
38626838 TACCC-CTGATATACAAAGTTA-TAGAAATACCCTTGAGTTTTTAAAAATTA-TAGAAA
1 TACCCTC-GATTTATAAAATTACTA-AAATACCCTTG-GTTTAT-AAAATTACCA-AAA
* * * * * * * *
38626894 TACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAA
*
38626948 CACCCT
1 TACCCT
38626954 TGTAGGATGA
Statistics
Matches: 261, Mismatches: 55, Indels: 30
0.75 0.16 0.09
Matches are distributed among these distances:
53 45 0.17
54 166 0.64
55 13 0.05
56 36 0.14
57 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAA
Found at i:38626708 original size:81 final size:78
Alignment explanation
Indices: 38626623--38626925 Score: 234
Period size: 80 Copynumber: 3.7 Consensus size: 78
38626613 ATTACTGTTT
* * *
38626623 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATC
1 TACCCTAG-TTTATAAAATTACTAAAATACCCTTGATTTACAAAATTACCAAAATACCC-CGAT-
38626688 AGTAAAATTACCAAAA
63 AGTAAAATTACCAAAA
* * * * ** * *
38626704 TACCCTAGTCTGTAAAATTGCTAAAATACCCATGATTTGTAAAATTACCAAAATACCCCTAGTTT
1 TACCCTAGTTTATAAAATTACTAAAATACCCTTGATTTACAAAATTACCAAAATACCCC--GATA
38626769 GTAAAATTACCAAAA
64 GTAAAATTACCAAAA
* * ** ** **
38626784 TACCACTAGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATA
1 TACC-CTAGTTTATAAAATTACTAAAATACCCTTGATTTACAAAATTACCAAAATACCCC-GATA
*
38626849 -TACAAAGTTA-TAGAAA
64 GTA-AAA-TTACCA-AAA
* * * **
38626865 TACCCTTGAGTTTTTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCC
1 TACCC-T-AGTTTAT-AAAATTACTA-AAATACCCTTGATTTACAAAATTACCAAAATACCC
38626926 TTGGTTTGTA
Statistics
Matches: 177, Mismatches: 35, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
79 3 0.02
80 68 0.38
81 67 0.38
82 6 0.03
83 33 0.19
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.30
Consensus pattern (78 bp):
TACCCTAGTTTATAAAATTACTAAAATACCCTTGATTTACAAAATTACCAAAATACCCCGATAGT
AAAATTACCAAAA
Found at i:38626752 original size:80 final size:80
Alignment explanation
Indices: 38626637--38626843 Score: 256
Period size: 80 Copynumber: 2.6 Consensus size: 80
38626627 CTCGATTTAC
* **
38626637 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TCAGTAAAATTACCA
1 AAAATTACTAAAATACCC-TGATTTGTAAAATTACCAAAATACCC-CGAGTCAGTAAAATTACCA
38626701 AAATACC-CTAGTCTGT
64 AAATACCACTAGTCTGT
* * **
38626717 AAAATTGCTAAAATACCCATGATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACTAAAATACCC-TGATTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
*
38626782 AATACCACTAGTTTGT
65 AATACCACTAGTCTGT
* ** *
38626798 GAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCC
1 AAAATTACTAAAATACCCT-GATTTGTAAAATTACCAAAATACCCC
38626844 TGATATACAA
Statistics
Matches: 110, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
79 2 0.02
80 61 0.55
81 47 0.43
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.28
Consensus pattern (80 bp):
AAAATTACTAAAATACCCTGATTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAAA
ATACCACTAGTCTGT
Found at i:38626892 original size:29 final size:29
Alignment explanation
Indices: 38626849--38626932 Score: 104
Period size: 29 Copynumber: 3.0 Consensus size: 29
38626839 ACCCCTGATA
*
38626849 TACAAAGTTATAGAAATACCCTTGAGTTTT
1 TACAAAATTATAGAAATACCCTTG-GTTTT
*
38626879 TA-AAAATTATAGAAATACCATTGG--TT
1 TACAAAATTATAGAAATACCCTTGGTTTT
38626905 TACAAAATTACT-GAAATACCCTTGGTTT
1 TACAAAATTA-TAGAAATACCCTTGGTTT
38626933 GTAGATTTAC
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
26 4 0.09
27 19 0.40
28 2 0.04
29 20 0.43
30 2 0.04
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (29 bp):
TACAAAATTATAGAAATACCCTTGGTTTT
Found at i:38627016 original size:27 final size:27
Alignment explanation
Indices: 38626973--38627046 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
38626963 AAATGACTAA
*
38626973 AATACCCCTATTA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
38627000 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
*
38627027 AATACCCCTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
38627047 TGATGAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 3 0.08
27 35 0.90
28 1 0.03
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:38627897 original size:25 final size:25
Alignment explanation
Indices: 38627859--38627978 Score: 195
Period size: 25 Copynumber: 4.8 Consensus size: 25
38627849 AGGAAATGCT
* *
38627859 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
38627884 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
38627909 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
38627934 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
38627959 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
38627979 ATTAAAAGAG
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 92 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:38628002 original size:75 final size:75
Alignment explanation
Indices: 38627859--38628003 Score: 195
Period size: 75 Copynumber: 1.9 Consensus size: 75
38627849 AGGAAATGCT
* **
38627859 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCC
1 AAAAGGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCC
38627924 CAGTTTATCA
66 CAGTTTATCA
* * **
38627934 AAAAGGGCTTTGCCCCAGTTTATCAAAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCC
1 AAAAGGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTACCGAAAAG-GGCTAGGCC
38627997 TCCAGTT
65 -CCAGTT
38628004 ATATGATAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
73 5 0.08
74 10 0.16
75 46 0.75
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (75 bp):
AAAAGGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCC
CAGTTTATCA
Found at i:38628185 original size:42 final size:42
Alignment explanation
Indices: 38628126--38628217 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
38628116 TAGTCTCCCC
*
38628126 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
*
38628168 AAATGGGCTTGCATACATTCATTGATATTTCATGTGTTATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
38628210 AAATGGGC
1 AAATGGGC
38628218 CTATAGGCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
Found at i:38629060 original size:27 final size:26
Alignment explanation
Indices: 38629026--38629176 Score: 176
Period size: 27 Copynumber: 5.6 Consensus size: 26
38629016 CGATTTATAC
* *
38629026 CGTTTTACCCTTGATTTATAGAATTA
1 CGTTTTACCCTCGATTTACAGAATTA
38629052 TCGTTTTACCCTCGATTTACAGAATTA
1 -CGTTTTACCCTCGATTTACAGAATTA
* * *
38629079 TCATTTTACCCTCTATTTATAGAATTA
1 -CGTTTTACCCTCGATTTACAGAATTA
*
38629106 CTGTTTTACCCTTGATTTACAGAATTA
1 C-GTTTTACCCTCGATTTACAGAATTA
* * *
38629133 CTATTTTACCCTCGACTTACAAAATTA
1 C-GTTTTACCCTCGATTTACAGAATTA
38629160 CCGTTTTACCCTCGATT
1 -CGTTTTACCCTCGATT
38629177 GTGAAATTAC
Statistics
Matches: 107, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 1 0.01
27 105 0.98
28 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.09, T:0.43
Consensus pattern (26 bp):
CGTTTTACCCTCGATTTACAGAATTA
Found at i:38629112 original size:54 final size:54
Alignment explanation
Indices: 38629028--38629176 Score: 196
Period size: 54 Copynumber: 2.8 Consensus size: 54
38629018 ATTTATACCG
38629028 TTTTACCCT-TGATTTATAGAATTA-TCGTTTTACCCTCGATTTACAGAATTA-TCA
1 TTTTACCCTCT-ATTTATAGAATTACT-GTTTTACCCTCGATTTACAGAATTACT-A
*
38629082 TTTTACCCTCTATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTA
1 TTTTACCCTCTATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACTA
* * * * *
38629136 TTTTACCCTCGACTTACAAAATTACCGTTTTACCCTCGATT
1 TTTTACCCTCTATTTATAGAATTACTGTTTTACCCTCGATT
38629177 GTGAAATTAC
Statistics
Matches: 85, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
54 82 0.96
55 3 0.04
ACGTcount: A:0.27, C:0.21, G:0.08, T:0.44
Consensus pattern (54 bp):
TTTTACCCTCTATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACTA
Found at i:38629198 original size:27 final size:26
Alignment explanation
Indices: 38629168--38629310 Score: 110
Period size: 27 Copynumber: 5.3 Consensus size: 26
38629158 TACCGTTTTA
**
38629168 CCCTCGATTGTGAAATTACTGAAATAC
1 CCCT-GATTGTGAAATTACCAAAATAC
* *
38629195 CCCT-ATAGGGTAGAATTACCAAAATAC
1 CCCTGATTGTG-A-AATTACCAAAATAC
* *
38629222 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCT-GATTGTGAAATTACCAAAATAC
* * *
38629249 CACTGGTTTGTGAAATTACCGAAATA-
1 CCCT-GATTGTGAAATTACCAAAATAC
* *
38629275 CCCTCAATTTGTAAAATTACCAAAATAC
1 CCCT-GA-TTGTGAAATTACCAAAATAC
38629303 CCCTGATT
1 CCCTGATT
38629311 TACAAAATTA
Statistics
Matches: 91, Mismatches: 19, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
25 4 0.04
26 6 0.07
27 74 0.81
28 5 0.05
29 2 0.02
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (26 bp):
CCCTGATTGTGAAATTACCAAAATAC
Found at i:38629249 original size:54 final size:54
Alignment explanation
Indices: 38629166--38629309 Score: 143
Period size: 54 Copynumber: 2.7 Consensus size: 54
38629156 ATTACCGTTT
* * **
38629166 TACCCTCGA-TTGTGAAATTACTGAAATACCCCT-ATAGGGT-AGAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGAT-GGGTGA-AATTACCAAAA
* * * ** *
38629219 TACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCCTGATGGGTGAAATTACCAAAA
38629273 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGAT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGAT
38629310 TTACAAAATT
Statistics
Matches: 73, Mismatches: 13, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
52 1 0.01
53 5 0.07
54 64 0.88
55 3 0.04
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATGGGTGAAATTACCAAAA
Found at i:38629311 original size:27 final size:27
Alignment explanation
Indices: 38629208--38629414 Score: 143
Period size: 27 Copynumber: 7.6 Consensus size: 27
38629198 TATAGGGTAG
38629208 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAA
* * *
38629235 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTGATTTGTAA
* *
38629262 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-GATTTGTAA
**
38629289 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCCTGATTTGTAA
* *
38629316 AATTA-CAGAAATACCCTTGACTTTCTAAA
1 AATTACCA-AAATACCCCTGA-TTTGT-AA
* ** * **
38629345 AATTA-TAGAAATACCATTGTTTTACAA
1 AATTACCA-AAATACCCCTGATTTGTAA
* * * *
38629372 AATTACTAAAATACCCTTGGTTTGTAG
1 AATTACCAAAATACCCCTGATTTGTAA
* *
38629399 ATTTACCAAAACACCC
1 AATTACCAAAATACCC
38629415 TTGTAGGATG
Statistics
Matches: 145, Mismatches: 28, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
26 5 0.03
27 109 0.75
28 12 0.08
29 19 0.13
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGATTTGTAA
Found at i:38629318 original size:81 final size:81
Alignment explanation
Indices: 38629175--38629330 Score: 201
Period size: 81 Copynumber: 1.9 Consensus size: 81
38629165 TTACCCTCGA
* * * **
38629175 TTGTGAAATTACTGAAATACCCCTATAGGGTAGAATTACCAAAATACCCCTAGTTTGTAAAATTA
1 TTGTGAAATTACCGAAATACCCCAATAGGGTAAAATTACCAAAATACCCCTAGTTTACAAAATTA
38629240 CCA-AAATACCACTGGT
66 -CAGAAATACCACTGGT
**
38629256 TTGTGAAATTACCGAAATACCCTCAAT-TTGTAAAATTACCAAAATACCCCT-GATTTACAAAAT
1 TTGTGAAATTACCGAAATACCC-CAATAGGGTAAAATTACCAAAATACCCCTAG-TTTACAAAAT
38629319 TACAGAAATACC
64 TACAGAAATACC
38629331 CTTGACTTTC
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
80 3 0.05
81 59 0.91
82 3 0.05
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (81 bp):
TTGTGAAATTACCGAAATACCCCAATAGGGTAAAATTACCAAAATACCCCTAGTTTACAAAATTA
CAGAAATACCACTGGT
Found at i:38629319 original size:54 final size:55
Alignment explanation
Indices: 38629208--38629388 Score: 172
Period size: 54 Copynumber: 3.3 Consensus size: 55
38629198 TATAGGGTAG
* * * ***
38629208 AATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGA
1 AATTACCGAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTGATTTACAA
*
38629262 AATTACCGAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTGATTTACAA
1 AATTACCGAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTGATTTACAA
* * * * * *
38629316 AATTACAGAAATACCCT-TGACTTTCTAAAAATTA-TAGAAATACCATTGTTTTACAA
1 AATTACCGAAATACCCTCT-AATTTGT-AAAATTACCA-AAATACCACTGATTTACAA
**
38629372 AATTACTAAAATACCCT
1 AATTACCGAAATACCCT
38629389 TGGTTTGTAG
Statistics
Matches: 106, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
54 61 0.58
55 7 0.07
56 38 0.36
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.30
Consensus pattern (55 bp):
AATTACCGAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTGATTTACAA
Found at i:38644985 original size:16 final size:17
Alignment explanation
Indices: 38644961--38644993 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
38644951 GTATATAATA
*
38644961 GAATTATTTGAT-ATAT
1 GAATGATTTGATGATAT
38644977 GAATGATTTGATGATAT
1 GAATGATTTGATGATAT
38644994 ATCGAATCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (17 bp):
GAATGATTTGATGATAT
Found at i:38645155 original size:22 final size:23
Alignment explanation
Indices: 38645116--38645219 Score: 106
Period size: 24 Copynumber: 4.4 Consensus size: 23
38645106 TAGCTTGTAT
* *
38645116 GAGCATACTGATTCAGCTCGAA-A
1 GAGCTTACTGTTTCAGCTC-AATA
38645139 GAGCTTACTG-TTCAGCTCAATA
1 GAGCTTACTGTTTCAGCTCAATA
*
38645161 GAGCTTCCTGTTTTCAGCTCAATA
1 GAGCTTACTG-TTTCAGCTCAATA
*
38645185 GAGTTTACTGTTATCAGCTC-ATGAA
1 GAGCTTACTGTT-TCAGCTCAAT--A
38645210 GAGCTTACTG
1 GAGCTTACTG
38645220 GCCATGTCTC
Statistics
Matches: 70, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
21 2 0.03
22 18 0.26
23 13 0.19
24 27 0.39
25 10 0.14
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (23 bp):
GAGCTTACTGTTTCAGCTCAATA
Found at i:38647290 original size:59 final size:59
Alignment explanation
Indices: 38647180--38647301 Score: 181
Period size: 59 Copynumber: 2.1 Consensus size: 59
38647170 AAGACCTGGC
* * * *
38647180 CACATGGCCGTGTGGCTAATGGGGAATTTAGGGATTCCACACGGGCGTGTGTTTTGGGA
1 CACATGACCGTGTGGCTAATGGGGAATTTAGGGATTCCACACGAGCATGTGTTTTGAGA
* * *
38647239 CACATGACCGTGTGGCTAATTGGGAATTTAGGGATTCCACATGAGTATGTGTTTTGAGA
1 CACATGACCGTGTGGCTAATGGGGAATTTAGGGATTCCACACGAGCATGTGTTTTGAGA
38647298 CACA
1 CACA
38647302 CGGTCATGTC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.23, C:0.16, G:0.32, T:0.29
Consensus pattern (59 bp):
CACATGACCGTGTGGCTAATGGGGAATTTAGGGATTCCACACGAGCATGTGTTTTGAGA
Found at i:38653041 original size:29 final size:29
Alignment explanation
Indices: 38653008--38653139 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
38652998 GTGACGAGAT
*
38653008 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
38653037 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
38653066 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
38653095 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
38653124 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
38653140 AGCTCGAGGG
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:38658592 original size:137 final size:137
Alignment explanation
Indices: 38658346--38658632 Score: 538
Period size: 137 Copynumber: 2.1 Consensus size: 137
38658336 TATTGGGCCT
** *
38658346 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCAAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
38658411 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
38658476 CATATGC
131 CATATGC
38658483 AAGCCCATTTGGGTAACAGTGGTACTGGGCAAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCAAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
38658548 AGCCCCTTATTCAGATAATAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
38658613 CATATGC
131 CATATGC
38658620 AAGCCCATTTGGG
1 AAGCCCATTTGGG
38658633 GAGACTACTC
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 146 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCAAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:38660445 original size:26 final size:26
Alignment explanation
Indices: 38660409--38660544 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
38660399 CATGATATTC
38660409 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
38660435 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
38660461 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
38660487 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
38660513 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
38660539 TTATCA
1 TTATCA
38660545 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:38661778 original size:27 final size:27
Alignment explanation
Indices: 38661741--38661906 Score: 210
Period size: 27 Copynumber: 6.1 Consensus size: 27
38661731 GCATGGCTGT
* * *
38661741 CAGAACAGATA-ATGTGACAGAGTCAC
1 CAGATCAGATATATGTGGCAGAGCCAC
38661767 CAGATACAGATA-ATTGTGGCAGAGCCAC
1 CAGAT-CAGATATA-TGTGGCAGAGCCAC
* *
38661795 TAGAACAGATATATGTGGCAGAGCCAC
1 CAGATCAGATATATGTGGCAGAGCCAC
*
38661822 CAGATCAGATATTTGTGGCAGAGCCAC
1 CAGATCAGATATATGTGGCAGAGCCAC
* *
38661849 CAGATCAGATATTTGTGGTAGAGCCAC
1 CAGATCAGATATATGTGGCAGAGCCAC
* *
38661876 CAGATCAGATATTTGTGGCATAGCCAC
1 CAGATCAGATATATGTGGCAGAGCCAC
38661903 CAGA
1 CAGA
38661907 ACGCTTCCTC
Statistics
Matches: 126, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
26 4 0.03
27 106 0.84
28 16 0.13
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
CAGATCAGATATATGTGGCAGAGCCAC
Found at i:38661801 original size:54 final size:54
Alignment explanation
Indices: 38661741--38661908 Score: 248
Period size: 54 Copynumber: 3.1 Consensus size: 54
38661731 GCATGGCTGT
* * *
38661741 CAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATTGTGGCAGAGCCAC
1 CAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAGAGCCAC
*
38661795 TAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCAC
1 CAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCAC
* * * *
38661849 CAGATCAGATATTTGTGGTAGAGCCACCAGATCAGATATTTGTGGCATAGCCAC
1 CAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCAC
38661903 CAGAAC
1 CAGAAC
38661909 GCTTCCTCCA
Statistics
Matches: 103, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
54 85 0.83
55 18 0.17
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (54 bp):
CAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCAC
Found at i:38663557 original size:26 final size:26
Alignment explanation
Indices: 38663521--38663656 Score: 229
Period size: 26 Copynumber: 5.2 Consensus size: 26
38663511 CATGAAATTC
38663521 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
38663547 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
38663573 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
38663599 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
38663625 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
38663651 TTATCA
1 TTATCA
38663657 ATTTGTATCA
Statistics
Matches: 107, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
26 105 0.98
27 2 0.02
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:38664446 original size:24 final size:24
Alignment explanation
Indices: 38664393--38664446 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
38664383 TTATTAGATG
38664393 TTTTGA-ATGTATTTGAGATTCAA
1 TTTTGATATGTATTTGAGATTCAA
* * *
38664416 TTATGATATG-ATTTGTGATTATAA
1 TTTTGATATGTATTTGAGATT-CAA
38664440 TTTTGAT
1 TTTTGAT
38664447 CCGATAGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 14 0.56
24 11 0.44
ACGTcount: A:0.30, C:0.02, G:0.17, T:0.52
Consensus pattern (24 bp):
TTTTGATATGTATTTGAGATTCAA
Found at i:38667287 original size:69 final size:68
Alignment explanation
Indices: 38667183--38667405 Score: 277
Period size: 69 Copynumber: 3.2 Consensus size: 68
38667173 TGCACAAACG
* * * *
38667183 AGAAAGAGAGGGAGGGAGCATGCTTGGCGGCATGGATTGGAGCTTGGGACAATTACAGATATACA
1 AGAAAGAGAGTGAGGGAGCATGTTTGGCGGCATGGATTGGAGCTTGGGACAATTATAGATAAACA
38667248 AAT
66 AAT
* * * * *
38667251 ACGAAAGAGAGTGCGGAAGCATGTTTGGGGGCATGGATTGGAGATTGGGACAATTGTAGATAAAC
1 A-GAAAGAGAGTGAGGGAGCATGTTTGGCGGCATGGATTGGAGCTTGGGACAATTATAGATAAAC
38667316 AAAT
65 AAAT
* * * *
38667320 AAGAAAGAGAGTGTGGGAGCATGTTTGGCGGCATGGATTGGAGCTTTGTACAA-TAGTAGATACA
1 -AGAAAGAGAGTGAGGGAGCATGTTTGGCGGCATGGATTGGAGCTTGGGACAATTA-TAGATAAA
38667384 CAAAT
64 CAAAT
38667389 GAGAAAGAGAGGTGAGG
1 -AGAAAGAGA-GTGAGG
38667406 TGTTGAAACC
Statistics
Matches: 132, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
68 2 0.02
69 124 0.94
70 6 0.05
ACGTcount: A:0.35, C:0.09, G:0.35, T:0.21
Consensus pattern (68 bp):
AGAAAGAGAGTGAGGGAGCATGTTTGGCGGCATGGATTGGAGCTTGGGACAATTATAGATAAACA
AAT
Found at i:38674028 original size:17 final size:18
Alignment explanation
Indices: 38673987--38674028 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
38673977 AATTATAGTT
*
38673987 TTTAGGATTTTAAATAAA
1 TTTAGGGTTTTAAATAAA
38674005 TTTAGGGTTTTAAATAAA
1 TTTAGGGTTTTAAATAAA
38674023 -TTAGGG
1 TTTAGGG
38674029 CTTAGGGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (18 bp):
TTTAGGGTTTTAAATAAA
Found at i:38674109 original size:86 final size:85
Alignment explanation
Indices: 38673945--38674111 Score: 223
Period size: 82 Copynumber: 2.0 Consensus size: 85
38673935 ATTATTTAAA
* *
38673945 TTAGGGTTAATGGTTTTCAAATAAATTAAGTAAATTATAGTTTTTAGGATTTTAAATAAATTTAG
1 TTAGGGTTAATGGTTTTCAAATAAATTAAGTAAATTATAGGTTCTAGGATTTTAAATAAATTTAG
*
38674010 GGTTTTAAATAAATTAGGGC
66 GGTTTAAAATAAATTAGGGC
* * *
38674030 TTAGGGTTTATGGTTTT-AAATAGATTAA-TAAATTA-GGGTTCTAGGATTTTAAATAAATTAAG
1 TTAGGGTTAATGGTTTTCAAATAAATTAAGTAAATTATAGGTTCTAGGATTTTAAATAAA-T---
38674092 TTAGGGTTTAAAATAAATTA
62 TTAGGGTTTAAAATAAATTA
38674112 AATTAGGGTT
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
82 19 0.26
83 8 0.11
84 10 0.14
85 16 0.22
86 19 0.26
ACGTcount: A:0.38, C:0.02, G:0.18, T:0.42
Consensus pattern (85 bp):
TTAGGGTTAATGGTTTTCAAATAAATTAAGTAAATTATAGGTTCTAGGATTTTAAATAAATTTAG
GGTTTAAAATAAATTAGGGC
Found at i:38674119 original size:22 final size:22
Alignment explanation
Indices: 38674071--38674122 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
38674061 ATTAGGGTTC
* * *
38674071 TAGGATTTTAAATAAATTAAGT
1 TAGGGTTTAAAATAAATTAAAT
38674093 TAGGGTTTAAAATAAATTAAAT
1 TAGGGTTTAAAATAAATTAAAT
38674115 TAGGGTTT
1 TAGGGTTT
38674123 GGGTTTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.40
Consensus pattern (22 bp):
TAGGGTTTAAAATAAATTAAAT
Found at i:38674134 original size:21 final size:21
Alignment explanation
Indices: 38674108--38674156 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
38674098 TTTAAAATAA
*
38674108 ATTAAATTAGGGTTTGGGTTT
1 ATTAAATTAAGGTTTGGGTTT
38674129 ATTAAATTAAGGTTTGGGTTT
1 ATTAAATTAAGGTTTGGGTTT
*
38674150 TTTAAAT
1 ATTAAAT
38674157 AGATTAAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (21 bp):
ATTAAATTAAGGTTTGGGTTT
Found at i:38674169 original size:34 final size:34
Alignment explanation
Indices: 38674131--38674199 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
38674121 TTGGGTTTAT
* * *
38674131 TAAATTAAGGTT-TGGGTTTTTTAAATAGATTAAG
1 TAAATTAAGGTTCTAGG-ATTTTAAATAAATTAAG
*
38674165 TAAATTAGGGTTCTAGGATTTTAAATAAATTAAG
1 TAAATTAAGGTTCTAGGATTTTAAATAAATTAAG
38674199 T
1 T
38674200 TAGGGTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 27 0.90
35 3 0.10
ACGTcount: A:0.38, C:0.01, G:0.19, T:0.42
Consensus pattern (34 bp):
TAAATTAAGGTTCTAGGATTTTAAATAAATTAAG
Found at i:38674187 original size:107 final size:107
Alignment explanation
Indices: 38674043--38674422 Score: 602
Period size: 107 Copynumber: 3.6 Consensus size: 107
38674033 GGGTTTATGG
38674043 TTTTAAATAGATTAA-TAAATTAGGGTTCTAGGATTTTAAATAAATTAAGTTAGGGTTTAAAATA
1 TTTTAAATAGATTAAGTAAATTAGGGTTCTAGGATTTTAAATAAATTAAGTTAGGGTTTAAAATA
* *
38674107 AATTAAATTAGGGTTTGGGTTTATTAAATTAAGGTTTGGGTT
66 AATTAAATTAGGGTTTAGGTTTATTAAATTAAGGTTTGTGTT
38674149 TTTTAAATAGATTAAGTAAATTAGGGTTCTAGGATTTTAAATAAATTAAGTTAGGGTTTAAAATA
1 TTTTAAATAGATTAAGTAAATTAGGGTTCTAGGATTTTAAATAAATTAAGTTAGGGTTTAAAATA
*
38674214 AATTAAATTAGGGTTTTTGGTTTATTAAATTAAGGTTTGTGTT
66 AATTAAATTAGGG-TTTAGGTTTATTAAATTAAGGTTTGTGTT
* * *
38674257 TTTTAAATAGATTAAGTAAATTAAGGTTTTAGGGTTTTAAATAAATTAAGTTA-GGTTTAAAATA
1 TTTTAAATAGATTAAGTAAATTAGGGTTCTAGGATTTTAAATAAATTAAGTTAGGGTTTAAAATA
* * *
38674321 AATTAAATTAAGGTTTTAGGTTTATTAAATTAGGGTTTATGTT
66 AATTAAATT-AGGGTTTAGGTTTATTAAATTAAGGTTTGTGTT
* * * * *
38674364 TTTTAAATTGATTAAGTAAATTAGGGTTTTAGGGTTTTAAATAAATTAAATTAAGGTTT
1 TTTTAAATAGATTAAGTAAATTAGGGTTCTAGGATTTTAAATAAATTAAGTTAGGGTTT
38674423 TGGGTTTATT
Statistics
Matches: 258, Mismatches: 12, Indels: 6
0.93 0.04 0.02
Matches are distributed among these distances:
106 15 0.06
107 158 0.61
108 85 0.33
ACGTcount: A:0.37, C:0.01, G:0.18, T:0.44
Consensus pattern (107 bp):
TTTTAAATAGATTAAGTAAATTAGGGTTCTAGGATTTTAAATAAATTAAGTTAGGGTTTAAAATA
AATTAAATTAGGGTTTAGGTTTATTAAATTAAGGTTTGTGTT
Found at i:38674212 original size:22 final size:22
Alignment explanation
Indices: 38674178--38674229 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
38674168 ATTAGGGTTC
* * *
38674178 TAGGATTTTAAATAAATTAAGT
1 TAGGGTTTAAAATAAATTAAAT
38674200 TAGGGTTTAAAATAAATTAAAT
1 TAGGGTTTAAAATAAATTAAAT
38674222 TAGGGTTT
1 TAGGGTTT
38674230 TTGGTTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.40
Consensus pattern (22 bp):
TAGGGTTTAAAATAAATTAAAT
Found at i:38674262 original size:21 final size:22
Alignment explanation
Indices: 38674215--38674264 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
38674205 TTTAAAATAA
* *
38674215 ATTAAATTAGGGTTTTTGGTTT
1 ATTAAATTAAGGTTTGTGGTTT
38674237 ATTAAATTAAGGTTTGT-GTTT
1 ATTAAATTAAGGTTTGTGGTTT
*
38674258 TTTAAAT
1 ATTAAAT
38674265 AGATTAAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.28, C:0.00, G:0.18, T:0.54
Consensus pattern (22 bp):
ATTAAATTAAGGTTTGTGGTTT
Found at i:38674277 original size:34 final size:34
Alignment explanation
Indices: 38674239--38674307 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
38674229 TTTGGTTTAT
** *
38674239 TAAATTAAGGTTTGT-GTTTTTTAAATAGATTAAG
1 TAAATTAAGGTTT-TAGGGTTTTAAATAAATTAAG
38674273 TAAATTAAGGTTTTAGGGTTTTAAATAAATTAAG
1 TAAATTAAGGTTTTAGGGTTTTAAATAAATTAAG
38674307 T
1 T
38674308 TAGGTTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 1 0.03
34 30 0.97
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (34 bp):
TAAATTAAGGTTTTAGGGTTTTAAATAAATTAAG
Found at i:38674313 original size:21 final size:22
Alignment explanation
Indices: 38674289--38674338 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
38674279 AAGGTTTTAG
*
38674289 GGTTTTAAATAAATTAAGTT-A
1 GGTTTTAAATAAATTAAATTAA
*
38674310 GGTTTAAAATAAATTAAATTAA
1 GGTTTTAAATAAATTAAATTAA
38674332 GGTTTTA
1 GGTTTTA
38674339 GGTTTATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (22 bp):
GGTTTTAAATAAATTAAATTAA
Found at i:38674347 original size:22 final size:21
Alignment explanation
Indices: 38674322--38674372 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
38674312 TTTAAAATAA
*
38674322 ATTAAATTAAGGTTTTAGGTTT
1 ATTAAATT-AGGGTTTAGGTTT
*
38674344 ATTAAATTAGGGTTTATGTTT
1 ATTAAATTAGGGTTTAGGTTT
*
38674365 TTTAAATT
1 ATTAAATT
38674373 GATTAAGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (21 bp):
ATTAAATTAGGGTTTAGGTTT
Found at i:38674412 original size:34 final size:34
Alignment explanation
Indices: 38674346--38674412 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
38674336 TTAGGTTTAT
** **
38674346 TAAATTAGGGTTTATGTTTTTTAAATTGATTAAG
1 TAAATTAGGGTTTATGGGTTTTAAATAAATTAAG
38674380 TAAATTAGGGTTT-TAGGGTTTTAAATAAATTAA
1 TAAATTAGGGTTTAT-GGGTTTTAAATAAATTAA
38674413 ATTAAGGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 1 0.04
34 27 0.96
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (34 bp):
TAAATTAGGGTTTATGGGTTTTAAATAAATTAAG
Found at i:38674433 original size:22 final size:24
Alignment explanation
Indices: 38674407--38674463 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 24
38674397 GTTTTAAATA
38674407 AATTAAATTAAGGTTT-TGGGTTT
1 AATTAAATTAAGGTTTATGGGTTT
* *
38674430 -ATTAAATTAGGGTTTATGGTTTT
1 AATTAAATTAAGGTTTATGGGTTT
*
38674453 AAATAAATTAA
1 AATTAAATTAA
38674464 ATTAGGGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 14 0.50
23 6 0.21
24 8 0.29
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.46
Consensus pattern (24 bp):
AATTAAATTAAGGTTTATGGGTTT
Found at i:38674436 original size:215 final size:214
Alignment explanation
Indices: 38674043--38674451 Score: 613
Period size: 215 Copynumber: 1.9 Consensus size: 214
38674033 GGGTTTATGG
*
38674043 TTTTAAATAGATTAATAAATTAGGGTTCTAGGATTTTAAATAAATTAAGTTAGGGTTTAAAATAA
1 TTTTAAATAGATTAATAAATTAAGGTTCTAGGATTTTAAATAAATTAAGTTAGGGTTTAAAATAA
* *
38674108 ATTAAATTAGGGTTTGGGTTTATTAAATTAAGGTTTGGGTTTTTTAAATAGATTAAGTAAATTAG
66 ATTAAATTAGGGTTTAGGTTTATTAAATTAAGGTTTAGGTTTTTTAAATAGATTAAGTAAATTAG
* * *
38674173 GGTTCTAGGATTTTAAATAAATTAAGTTAGGGTTTAAAATAAATTAAATTAGGGTTTTTGGTTTA
131 GGTTCTAGGATTTTAAATAAATTAAATTAAGGTTTAAAATAAATTAAATTAGGGTTTATGGTTTA
38674238 TTAAATTAAGGTTTGTGTT
196 TTAAATTAAGGTTTGTGTT
* *
38674257 TTTTAAATAGATTAAGTAAATTAAGGTTTTAGGGTTTTAAATAAATTAAGTTA-GGTTTAAAATA
1 TTTTAAATAGATTAA-TAAATTAAGGTTCTAGGATTTTAAATAAATTAAGTTAGGGTTTAAAATA
* * * *
38674321 AATTAAATTAAGGTTTTAGGTTTATTAAATTAGGGTTTATGTTTTTTAAATTGATTAAGTAAATT
65 AATTAAATT-AGGGTTTAGGTTTATTAAATTAAGGTTTAGGTTTTTTAAATAGATTAAGTAAATT
* * **** **
38674386 AGGGTTTTAGGGTTTTAAATAAATTAAATTAAGGTTTTGGGTTTATTAAATTAGGGTTTATGGTT
129 AGGGTTCTAGGATTTTAAATAAATTAAATTAAGGTTTAAAATAAATTAAATTAGGGTTTATGGTT
38674451 T
194 T
38674452 TAAATAAATT
Statistics
Matches: 173, Mismatches: 20, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
214 35 0.20
215 138 0.80
ACGTcount: A:0.36, C:0.00, G:0.19, T:0.45
Consensus pattern (214 bp):
TTTTAAATAGATTAATAAATTAAGGTTCTAGGATTTTAAATAAATTAAGTTAGGGTTTAAAATAA
ATTAAATTAGGGTTTAGGTTTATTAAATTAAGGTTTAGGTTTTTTAAATAGATTAAGTAAATTAG
GGTTCTAGGATTTTAAATAAATTAAATTAAGGTTTAAAATAAATTAAATTAGGGTTTATGGTTTA
TTAAATTAAGGTTTGTGTT
Found at i:38674827 original size:126 final size:125
Alignment explanation
Indices: 38674531--38674904 Score: 516
Period size: 126 Copynumber: 3.0 Consensus size: 125
38674521 TTTTACCCTG
* * * * * *
38674531 AAAAAATAATTTTGACAAGACATTTTTAAACAAATAATGTCAAAAACGCTTCAAGTAGGATGCAC
1 AAAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTCAAAAACACTTCAAGCAGGATGCAC
* * * * * * *
38674596 TGTCAGTAAAAATACAAAAAAAAACTACCACGTGGA-CTTTTTTCGCTATAGTAGTTCCTG
66 TGTCAGCAAAAATACAGAAAAAAGCTCCCACGTGGAGCTCTTTT-GCTACAGTAGTTCCTA
38674656 AAAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTCAAAAACACTTCAAGCAGGATGCAC
1 AAAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTCAAAAACACTTCAAGCAGGATGCAC
38674721 TGTCAGCAAAAATACAGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCTA
66 TGTCAGCAAAAATACAGAAAAAAGCTCCCACGTGGA-GCTCTTTTGCTACAGTAGTTCCTA
** * *
38674782 AAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACACTTTAAGCAGGATCCAC
1 AAAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTCAAAAACACTTCAAGCAGGATGCAC
* * * * *
38674847 TGTCAGCAAAATTTCTGAAAAAAGCTCTCACGTGGATGCTCTTTTTCTACAGTAGTTC
66 TGTCAGCAAAAATACAGAAAAAAGCTCCCACGTGGA-GCTCTTTTGCTACAGTAGTTC
38674905 ATGCTTGGCC
Statistics
Matches: 224, Mismatches: 23, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
125 91 0.41
126 127 0.57
127 6 0.03
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.27
Consensus pattern (125 bp):
AAAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTCAAAAACACTTCAAGCAGGATGCAC
TGTCAGCAAAAATACAGAAAAAAGCTCCCACGTGGAGCTCTTTTGCTACAGTAGTTCCTA
Found at i:38675338 original size:12 final size:12
Alignment explanation
Indices: 38675323--38675353 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
38675313 TTCTCTTTTA
38675323 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
38675335 TTTTTCTTTCTC
1 TTTTTCTTTCCC
38675347 TTTTTCT
1 TTTTTCT
38675354 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:38680067 original size:46 final size:46
Alignment explanation
Indices: 38680017--38680192 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
38680007 TGGTTGAGCA
38680017 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
38680063 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
38680108 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
38680156 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38680193 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:38680173 original size:93 final size:93
Alignment explanation
Indices: 38680014--38680185 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
38680004 GGATGGTTGA
* * *
38680014 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38680079 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
38680107 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38680172 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
38680186 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:38687621 original size:46 final size:46
Alignment explanation
Indices: 38687571--38687746 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
38687561 TGGTTGAGCA
38687571 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
38687617 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
38687662 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
38687710 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38687747 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:38687727 original size:93 final size:93
Alignment explanation
Indices: 38687568--38687739 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
38687558 GGATGGTTGA
* *
38687568 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38687633 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
38687661 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38687726 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
38687740 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:38691145 original size:19 final size:19
Alignment explanation
Indices: 38691121--38691158 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
38691111 AACTCGACAG
38691121 TGGCATGTACTCCTAAACT
1 TGGCATGTACTCCTAAACT
38691140 TGGCATGTACTCCTAAACT
1 TGGCATGTACTCCTAAACT
38691159 CACTTTCGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (19 bp):
TGGCATGTACTCCTAAACT
Found at i:38691618 original size:12 final size:12
Alignment explanation
Indices: 38691603--38691633 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
38691593 TTCTCTTTTA
38691603 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
38691615 TTTTTCTTTCTC
1 TTTTTCTTTCCC
38691627 TTTTTCT
1 TTTTTCT
38691634 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:38694283 original size:18 final size:18
Alignment explanation
Indices: 38694241--38694284 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
38694231 GACTGGGAAA
* **
38694241 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGACT
*
38694259 AGTATACATATAAGGACT
1 AGGATACATATAAGGACT
38694277 AGGATACA
1 AGGATACA
38694285 CACCTTTCAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGGACT
Found at i:38695625 original size:9 final size:10
Alignment explanation
Indices: 38695597--38695630 Score: 52
Period size: 9 Copynumber: 3.4 Consensus size: 10
38695587 CATATATTAT
38695597 AAATACATAAA
1 AAATA-ATAAA
38695608 AAATAATAAA
1 AAATAATAAA
38695618 AAAT-ATAAA
1 AAATAATAAA
38695627 AAAT
1 AAAT
38695631 TACCTTTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.39
10 9 0.39
11 5 0.22
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (10 bp):
AAATAATAAA
Found at i:38696236 original size:3 final size:3
Alignment explanation
Indices: 38696228--38696260 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
38696218 TACTTTTAAC
*
38696228 ATT ATT ATT A-T ATT ATT ATT ATT ATT AAT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
38696261 GTATATGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:38696384 original size:24 final size:24
Alignment explanation
Indices: 38696354--38696507 Score: 102
Period size: 24 Copynumber: 6.8 Consensus size: 24
38696344 TTCTAATATG
38696354 TATATATTATGTA-A-ATATTTTAA
1 TATATATTATGTACATATATTTT-A
*
38696377 TACTATATTATGTATATATATTTTA
1 TA-TATATTATGTACATATATTTTA
*
38696402 TATATGTTATGTACATATATTTT-
1 TATATATTATGTACATATATTTTA
38696425 T-TA-A-TAT-T--ATAT-TTTTA
1 TATATATTATGTACATATATTTTA
38696442 TATATTATTATGT--ATATATTTTA
1 TATA-TATTATGTACATATATTTTA
* *
38696465 -ATATCATTA-GTTATATATTTTTTA
1 TATAT-ATTATG-TACATATATTTTA
* *
38696489 TACTATTTTATGTATATAT
1 TA-TATATTATGTACATAT
38696508 TTCTAATACT
Statistics
Matches: 109, Mismatches: 5, Indels: 32
0.75 0.03 0.22
Matches are distributed among these distances:
16 4 0.04
17 5 0.05
18 2 0.02
19 1 0.01
20 4 0.04
21 5 0.05
22 15 0.14
23 8 0.07
24 39 0.36
25 15 0.14
26 11 0.10
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.58
Consensus pattern (24 bp):
TATATATTATGTACATATATTTTA
Found at i:38696435 original size:15 final size:15
Alignment explanation
Indices: 38696417--38696449 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
38696407 GTTATGTACA
38696417 TATATTTTT-TAATAT
1 TATATTTTTAT-ATAT
38696432 TATATTTTTATATAT
1 TATATTTTTATATAT
38696447 TAT
1 TAT
38696450 TATGTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 16 0.94
16 1 0.06
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TATATTTTTATATAT
Found at i:38696993 original size:24 final size:22
Alignment explanation
Indices: 38696924--38696993 Score: 65
Period size: 23 Copynumber: 3.0 Consensus size: 22
38696914 TTTACCCTAT
38696924 TATAT-TTATTATTAATATTAGTA
1 TATATATT-TTATT-ATATTAGTA
38696947 TATATATTTTATTATATGT-GTA
1 TATATATTTTATTATAT-TAGTA
38696969 TATATATACTTT-TTATATATAGTA
1 TATATAT--TTTATTATAT-TAGTA
38696993 T
1 T
38696994 TATTTTATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
22 14 0.34
23 18 0.44
24 9 0.22
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.57
Consensus pattern (22 bp):
TATATATTTTATTATATTAGTA
Found at i:38697015 original size:17 final size:17
Alignment explanation
Indices: 38696967--38697005 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
38696957 ATTATATGTG
*
38696967 TATATATA-TACT-TTT
1 TATATATAGTATTATTT
38696982 TATATATAGTATTATTT
1 TATATATAGTATTATTT
38696999 TATATAT
1 TATATAT
38697006 CATTATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.38
16 3 0.14
17 10 0.48
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (17 bp):
TATATATAGTATTATTT
Found at i:38697024 original size:12 final size:12
Alignment explanation
Indices: 38696921--38697033 Score: 67
Period size: 12 Copynumber: 9.3 Consensus size: 12
38696911 ATTTTTACCC
38696921 TATTATATTTAT
1 TATTATATTTAT
*
38696933 TATTA-ATATTAG
1 TATTATAT-TTAT
38696945 TA-TATATATT-T
1 TATTATAT-TTAT
38696956 TATTATATGTGTA-
1 TATTATAT-T-TAT
38696969 TATATATACTTT-T
1 TAT-TATA-TTTAT
*
38696982 TA-TATATAGTAT
1 TATTATAT-TTAT
* *
38696994 TATTTTATATAT
1 TATTATATTTAT
*
38697006 CATTATATTTAT
1 TATTATATTTAT
*
38697018 TATTATACTTAT
1 TATTATATTTAT
38697030 TATT
1 TATT
38697034 TTCACTATTG
Statistics
Matches: 79, Mismatches: 11, Indels: 22
0.71 0.10 0.20
Matches are distributed among these distances:
10 1 0.01
11 11 0.14
12 50 0.63
13 11 0.14
14 5 0.06
15 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.59
Consensus pattern (12 bp):
TATTATATTTAT
Found at i:38698696 original size:24 final size:24
Alignment explanation
Indices: 38698628--38698703 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 24
38698618 AATAAAAATT
38698628 AATTAAAATTACATAAATGAAAAA
1 AATTAAAATTACATAAATGAAAAA
* **
38698652 AA-T---ATTAAATAATAT-TCAAA
1 AATTAAAATTACATAA-ATGAAAAA
38698672 AATTAAAATTACATAAATGAAAAA
1 AATTAAAATTACATAAATGAAAAA
38698696 ATATTAAA
1 A-ATTAAA
38698704 TAATATTCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 13
0.67 0.10 0.22
Matches are distributed among these distances:
20 13 0.33
21 3 0.08
23 3 0.08
24 14 0.36
25 6 0.15
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (24 bp):
AATTAAAATTACATAAATGAAAAA
Found at i:38698704 original size:24 final size:24
Alignment explanation
Indices: 38698633--38698704 Score: 73
Period size: 23 Copynumber: 3.2 Consensus size: 24
38698623 AAATTAATTA
38698633 AAATTACATAAATGAAAAAAATATT
1 AAATTACATAAATG-AAAAAATATT
** *
38698658 AAA-TA-AT--ATTCAAAAAT-TA
1 AAATTACATAAATGAAAAAATATT
38698677 AAATTACATAAATGAAAAAATATT
1 AAATTACATAAATGAAAAAATATT
38698701 AAAT
1 AAAT
38698705 AATATTCAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 11
0.68 0.11 0.21
Matches are distributed among these distances:
19 4 0.11
20 8 0.22
21 4 0.11
23 10 0.28
24 7 0.19
25 3 0.08
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (24 bp):
AAATTACATAAATGAAAAAATATT
Found at i:38698709 original size:43 final size:44
Alignment explanation
Indices: 38698628--38698723 Score: 167
Period size: 43 Copynumber: 2.2 Consensus size: 44
38698618 AATAAAAATT
38698628 AATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAAA
1 AATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAAA
38698672 AATTAAAATTACATAAATG-AAAAAATATTAAATAATATTCAAA
1 AATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAAA
**
38698715 TTTTAAAAT
1 AATTAAAAT
38698724 AAACCGTTAC
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
43 31 0.62
44 19 0.38
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.32
Consensus pattern (44 bp):
AATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAAA
Found at i:38700594 original size:21 final size:21
Alignment explanation
Indices: 38700564--38700608 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
38700554 ACAATACATA
38700564 AAACAATATAAACTTATGCAC
1 AAACAATATAAACTTATGCAC
*
38700585 AAACATTATAAACTTATGCAC
1 AAACAATATAAACTTATGCAC
38700606 AAA
1 AAA
38700609 TGTCACCGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.53, C:0.18, G:0.04, T:0.24
Consensus pattern (21 bp):
AAACAATATAAACTTATGCAC
Found at i:38701891 original size:17 final size:17
Alignment explanation
Indices: 38701869--38701901 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
38701859 TTGTATAAAA
38701869 TTTATT-TTATTGTTAAT
1 TTTATTATTATT-TTAAT
38701886 TTTATTATTATTTTAA
1 TTTATTATTATTTTAA
38701902 AGACATTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTATTATTATTTTAAT
Found at i:38701912 original size:30 final size:30
Alignment explanation
Indices: 38701878--38701939 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
38701868 ATTTATTTTA
38701878 TTGTTAATTTTATTATTATTTTAAAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
* *
38701908 TTGTTAATTTTATTATTATTTTAGAGATAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
38701938 TT
1 TT
38701940 ACTTGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:38709567 original size:69 final size:69
Alignment explanation
Indices: 38709471--38709666 Score: 329
Period size: 69 Copynumber: 2.8 Consensus size: 69
38709461 TCTCGAATGC
* * * *
38709471 ACAAATGAGAAAGAGAGGGAGGGAGCATGTTTGGCGGCATGGATTGGAGCTTGGGACAATTACAG
1 ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGGGGCATGGATTGGAGCTTGGGACAATTACAG
38709536 ATAG
66 ATAG
*
38709540 ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGGGGCATGGATTGGAGCTTGGGACAATTCCAG
1 ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGGGGCATGGATTGGAGCTTGGGACAATTACAG
38709605 ATAG
66 ATAG
* *
38709609 ACAAATAAGAAAGAGAGTGTGGAAGCATGTTTGGGGGCATGGATTGGAGGTTGGGACA
1 ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGGGGCATGGATTGGAGCTTGGGACA
38709667 CTCAAGGATA
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 120 1.00
ACGTcount: A:0.34, C:0.09, G:0.37, T:0.20
Consensus pattern (69 bp):
ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGGGGCATGGATTGGAGCTTGGGACAATTACAG
ATAG
Found at i:38715895 original size:30 final size:30
Alignment explanation
Indices: 38715861--38715920 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
38715851 CCCTATCATG
*
38715861 CCTTGAATCACCATCAATATCATCATCTTT
1 CCTTGAATCACCATCAACATCATCATCTTT
38715891 CCTTGAATCACCATCAACATCATCATCTTT
1 CCTTGAATCACCATCAACATCATCATCTTT
38715921 ACCCCATCTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.32, G:0.03, T:0.35
Consensus pattern (30 bp):
CCTTGAATCACCATCAACATCATCATCTTT
Found at i:38718601 original size:29 final size:29
Alignment explanation
Indices: 38718555--38718611 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
38718545 CATTTTTTTT
* **
38718555 ATTAATTAGAAATTTAAGTTTATTTTAAA
1 ATTAATTAGAAATATAAGTCGATTTTAAA
38718584 ATTAATTAGAGAA-ATAAGTCGATTTTAA
1 ATTAATTAGA-AATATAAGTCGATTTTAA
38718612 GAGATAAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 22 0.92
30 2 0.08
ACGTcount: A:0.46, C:0.02, G:0.11, T:0.42
Consensus pattern (29 bp):
ATTAATTAGAAATATAAGTCGATTTTAAA
Found at i:38718834 original size:9 final size:9
Alignment explanation
Indices: 38718822--38718882 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
38718812 TTCACATCAT
38718822 TCTCTCAAC
1 TCTCTCAAC
*
38718831 TCTCACAAAC
1 TCTCTC-AAC
*
38718841 TTTCTCAAC
1 TCTCTCAAC
* *
38718850 TCTCTTAAAT
1 TCTC-TCAAC
* *
38718860 TCTATCAAG
1 TCTCTCAAC
38718869 TCTCTCAAC
1 TCTCTCAAC
38718878 TCTCT
1 TCTCT
38718883 AGTTTTGATT
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
9 26 0.67
10 13 0.33
ACGTcount: A:0.26, C:0.34, G:0.02, T:0.38
Consensus pattern (9 bp):
TCTCTCAAC
Found at i:38721307 original size:19 final size:18
Alignment explanation
Indices: 38721284--38721342 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
38721274 ATTATAAAAA
38721284 AATAAAAAAATAAAATTT
1 AATAAAAAAATAAAATTT
** * *
38721302 AGATAAATTATTAAATTTT
1 A-ATAAAAAAATAAAATTT
38721321 AATAAAAATATATAAAATTT
1 AATAAAAA-A-ATAAAATTT
38721341 AA
1 AA
38721343 AATTATTAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
18 6 0.20
19 15 0.50
20 9 0.30
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (18 bp):
AATAAAAAAATAAAATTT
Found at i:38721627 original size:10 final size:10
Alignment explanation
Indices: 38721612--38721743 Score: 50
Period size: 10 Copynumber: 13.7 Consensus size: 10
38721602 TTGGTACGAT
38721612 AATTTTTATA
1 AATTTTTATA
38721622 AATTTTTTATGA
1 AA-TTTTTAT-A
38721634 AA--TTTAT-
1 AATTTTTATA
38721641 -ATTTCTT-TA
1 AATTT-TTATA
*
38721650 CATTTTGTATA
1 AATTTT-TATA
* *
38721661 ATTTTCTTATG
1 AATTT-TTATA
* *
38721672 ACTTTATA-A
1 AATTTTTATA
38721681 AA-TTTTATA
1 AATTTTTATA
*
38721690 TATTTTTAT-
1 AATTTTTATA
*
38721699 -ATTTCTATA
1 AATTTTTATA
*
38721708 TA-TTTTATA
1 AATTTTTATA
*
38721717 TATTTTTATA
1 AATTTTTATA
*
38721727 ATTTTTTATA
1 AATTTTTATA
*
38721737 TATTTTT
1 AATTTTT
38721744 TGACGATTTT
Statistics
Matches: 92, Mismatches: 15, Indels: 30
0.67 0.11 0.22
Matches are distributed among these distances:
6 1 0.01
8 13 0.14
9 19 0.21
10 36 0.39
11 19 0.21
12 4 0.04
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (10 bp):
AATTTTTATA
Found at i:38721716 original size:27 final size:27
Alignment explanation
Indices: 38721682--38721760 Score: 95
Period size: 27 Copynumber: 2.8 Consensus size: 27
38721672 ACTTTATAAA
38721682 ATTTTATATATTTTTATATTTCTATAT
1 ATTTTATATATTTTTATATTTCTATAT
*
38721709 ATTTTATATATTTTTATAATTTTTTATAT
1 ATTTTATATATTTTTAT-A-TTTCTATAT
* *
38721738 ATTTTTTGACGATTTTTATATTT
1 ATTTTAT-A-TATTTTTATATTT
38721761 TTTCTAATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
27 17 0.38
28 1 0.02
29 17 0.38
30 2 0.04
31 8 0.18
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (27 bp):
ATTTTATATATTTTTATATTTCTATAT
Found at i:38721736 original size:29 final size:28
Alignment explanation
Indices: 38721682--38721784 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 28
38721672 ACTTTATAAA
*
38721682 ATTTTATATATTTTTATA-TTTCTATAT
1 ATTTTATATATTTTTATATTTTTTATAT
38721709 ATTTTATATATTTTTATAATTTTTTATAT
1 ATTTTATATATTTTTAT-ATTTTTTATAT
* * *
38721738 ATTTTTTGACGATTTTTATATTTTTTCTAAT
1 ATTTTAT-A-TATTTTTATATTTTTTAT-AT
* *
38721769 ATTTAATAAATTTTTA
1 ATTTTATATATTTTTA
38721785 AGATTTGATT
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
27 17 0.27
28 1 0.02
29 21 0.33
30 10 0.16
31 15 0.23
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (28 bp):
ATTTTATATATTTTTATATTTTTTATAT
Found at i:38721763 original size:10 final size:10
Alignment explanation
Indices: 38721683--38721744 Score: 56
Period size: 10 Copynumber: 6.3 Consensus size: 10
38721673 CTTTATAAAA
*
38721683 TTTTATATAT
1 TTTTATATTT
38721693 TTTTATATTT
1 TTTTATATTT
* *
38721703 CTATATA-TT
1 TTTTATATTT
*
38721712 TTATATATTT
1 TTTTATATTT
*
38721722 TTATA-ATTT
1 TTTTATATTT
38721731 TTTATATATTT
1 TTT-TATATTT
38721742 TTT
1 TTT
38721745 GACGATTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
9 14 0.32
10 23 0.52
11 7 0.16
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTATATTT
Found at i:38723431 original size:2 final size:2
Alignment explanation
Indices: 38723424--38723450 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
38723414 AATTTAAATG
38723424 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
38723451 TTTGATTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:38726538 original size:19 final size:18
Alignment explanation
Indices: 38726499--38726558 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
38726489 TACTATTTTT
* *
38726499 AAAA-ATAAAAAATCATT
1 AAAATATAAAAAATTATA
*
38726516 AAAATGATTAAAAATTATA
1 AAAAT-ATAAAAAATTATA
*
38726535 AAAATATAAAAGAAATATA
1 AAAATATAAAA-AATTATA
38726554 AAAAT
1 AAAAT
38726559 CCAATATGGC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 4 0.11
18 5 0.14
19 26 0.74
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (18 bp):
AAAATATAAAAAATTATA
Found at i:38727267 original size:26 final size:26
Alignment explanation
Indices: 38727238--38727353 Score: 153
Period size: 26 Copynumber: 4.5 Consensus size: 26
38727228 TGGTACAAAT
** *
38727238 TGATAATGGGTTAGGTGAATGTTCCA
1 TGATAATGAATTAGGTAAATGTTCCA
*
38727264 TGATAATGAATTAGGTAAATATTCCA
1 TGATAATGAATTAGGTAAATGTTCCA
*
38727290 TGATAATGAATTAGGTAAATGTTTCA
1 TGATAATGAATTAGGTAAATGTTCCA
** *
38727316 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGAATTAGGTAAATGTTCCA
38727342 TGATAA-GAATTA
1 TGATAATGAATTA
38727354 CATGTCTTTT
Statistics
Matches: 80, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
25 4 0.05
26 76 0.95
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATGAATTAGGTAAATGTTCCA
Done.