Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr10
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: 21822658
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 1067834 characters in sequence are not A, C, G, or T
File 24 of 59
Found at i:8845753 original size:68 final size:67
Alignment explanation
Indices: 8845570--8845735 Score: 217
Period size: 68 Copynumber: 2.4 Consensus size: 67
8845560 GCATGTTGGT
* *
8845570 ATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGATCAAGTA
1 ATGATTAATGCCAT-AGAATATGTATATGATGTAAATTCCATATACCATATGAGATGATCAAGTA
*
8845635 TGC
65 TAC
* * * * *
8845638 ATGATGT-ATACTATAGGATGATGTATATGATGTAAATTCCATATACCATATGAGGTGATTAAGT
1 ATGAT-TAATGCCATAGAAT-ATGTATATGATGTAAATTCCATATACCATATGAGATGATCAAGT
8845702 ATAC
64 ATAC
8845706 ATGATTAATGCCATGAGAATATGTATATGA
1 ATGATTAATGCCAT-AGAATATGTATATGA
8845736 AAGACATTCC
Statistics
Matches: 83, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
67 4 0.05
68 75 0.90
69 4 0.05
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.34
Consensus pattern (67 bp):
ATGATTAATGCCATAGAATATGTATATGATGTAAATTCCATATACCATATGAGATGATCAAGTAT
AC
Found at i:8845882 original size:30 final size:31
Alignment explanation
Indices: 8845846--8845915 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
8845836 ATCATAAAAT
**
8845846 GCCCAAGG-GCAATAGGGATATATGTTGCCA
1 GCCCAAGGTGCAATAGGGATATACATTGCCA
* * *
8845876 GCCCAAGGTGTAATGGGGATGTACATTGCCA
1 GCCCAAGGTGCAATAGGGATATACATTGCCA
8845907 GCCCAAGGT
1 GCCCAAGGT
8845916 TGATGGGGGT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 8 0.24
31 26 0.76
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.20
Consensus pattern (31 bp):
GCCCAAGGTGCAATAGGGATATACATTGCCA
Found at i:8854953 original size:21 final size:21
Alignment explanation
Indices: 8854897--8854955 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
8854887 AGAAAGTTTT
*
8854897 TCGCTGAAGCAAGATTGAATC
1 TCGCTGAAGCAAAATTGAATC
* *
8854918 TCGCTGCAGCGAAATTGAATC
1 TCGCTGAAGCAAAATTGAATC
*
8854939 TCGCTGTAGCAAAATTG
1 TCGCTGAAGCAAAATTG
8854956 TAACCCAGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (21 bp):
TCGCTGAAGCAAAATTGAATC
Found at i:8855014 original size:60 final size:60
Alignment explanation
Indices: 8854916--8855049 Score: 164
Period size: 60 Copynumber: 2.2 Consensus size: 60
8854906 CAAGATTGAA
* * * *
8854916 TCTCGCTGCAGCGAAATTGAATCTCGCTGTAGCAAAATTGT-AACCCAGAAACAGAATGTT
1 TCTCACTGCAGCGAAATTCAATCTCGCTGCAGCAAAATT-TCAACCCAGAAACAGAAAGTT
* **
8854976 TTTCACTGCAGC-AAATTTCAATCTCGCTGCAGTGAAATTTCAACCCAGAAACAGAAAGTT
1 TCTCACTGCAGCGAAA-TTCAATCTCGCTGCAGCAAAATTTCAACCCAGAAACAGAAAGTT
*
8855036 TCTCGCTGCAGCGA
1 TCTCACTGCAGCGA
8855050 GAATGTATTT
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
59 4 0.06
60 57 0.92
61 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (60 bp):
TCTCACTGCAGCGAAATTCAATCTCGCTGCAGCAAAATTTCAACCCAGAAACAGAAAGTT
Found at i:8855338 original size:12 final size:12
Alignment explanation
Indices: 8855321--8855359 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
8855311 ATATACCCAT
8855321 CACCATCATGCA
1 CACCATCATGCA
8855333 CACCATC---C-
1 CACCATCATGCA
8855341 CACCATCATGCA
1 CACCATCATGCA
8855353 CACCATC
1 CACCATC
8855360 CCATCATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
8 7 0.30
9 1 0.04
11 1 0.04
12 14 0.61
ACGTcount: A:0.31, C:0.49, G:0.05, T:0.15
Consensus pattern (12 bp):
CACCATCATGCA
Found at i:8855377 original size:20 final size:20
Alignment explanation
Indices: 8855321--8855369 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
8855311 ATATACCCAT
8855321 CACCATCATGCACACCATCC
1 CACCATCATGCACACCATCC
8855341 CACCATCATGCACACCATCC
1 CACCATCATGCACACCATCC
*
8855361 CATCATCAT
1 CACCATCAT
8855370 CATCACCAGC
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:0.31, C:0.47, G:0.04, T:0.18
Consensus pattern (20 bp):
CACCATCATGCACACCATCC
Found at i:8858890 original size:33 final size:33
Alignment explanation
Indices: 8858848--8858931 Score: 150
Period size: 33 Copynumber: 2.5 Consensus size: 33
8858838 TGCTAACTCA
*
8858848 GCTATGTGCGAGTGGGAGTGCGTAGCTGACCCG
1 GCTATGTGCGAGTGGGAGTGCATAGCTGACCCG
8858881 GCTATGTGCGAGTGGGAGTGCATAGCTGACCCG
1 GCTATGTGCGAGTGGGAGTGCATAGCTGACCCG
*
8858914 GCTATGTGCGAGTAGGAG
1 GCTATGTGCGAGTGGGAG
8858932 AACGCATAAG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.18, C:0.19, G:0.42, T:0.21
Consensus pattern (33 bp):
GCTATGTGCGAGTGGGAGTGCATAGCTGACCCG
Found at i:8858996 original size:2 final size:2
Alignment explanation
Indices: 8858989--8859018 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
8858979 ATGATGATTG
*
8858989 AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8859019 GGTATATGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:8862008 original size:21 final size:21
Alignment explanation
Indices: 8861982--8862103 Score: 88
Period size: 21 Copynumber: 5.8 Consensus size: 21
8861972 AGATAGGATA
8861982 TAAATTTAAATTTAATTTGTT
1 TAAATTTAAATTTAATTTGTT
**
8862003 TAAATTTAAA-TT-ATCTATCCAT
1 TAAATTTAAATTTAAT-T-T-GTT
* *
8862025 TATATTTAAGTTTAATTTGTT
1 TAAATTTAAATTTAATTTGTT
* * **
8862046 TAAATTTAAA-TGAAGATTAAT
1 TAAATTTAAATTTAA-TTTGTT
* *
8862067 TACATTTAAATTTAATTAGTT
1 TAAATTTAAATTTAATTTGTT
*
8862088 TAAATTTAAATATAAT
1 TAAATTTAAATTTAAT
8862104 ATCTTATCTC
Statistics
Matches: 74, Mismatches: 20, Indels: 14
0.69 0.19 0.13
Matches are distributed among these distances:
19 2 0.03
20 6 0.08
21 48 0.65
22 13 0.18
23 3 0.04
24 2 0.03
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (21 bp):
TAAATTTAAATTTAATTTGTT
Found at i:8862081 original size:16 final size:15
Alignment explanation
Indices: 8862062--8862096 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
8862052 TAAATGAAGA
8862062 TTAATTACATTTAAAT
1 TTAATTA-ATTTAAAT
*
8862078 TTAATTAGTTTAAAT
1 TTAATTAATTTAAAT
8862093 TTAA
1 TTAA
8862097 ATATAATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (15 bp):
TTAATTAATTTAAAT
Found at i:8862089 original size:42 final size:43
Alignment explanation
Indices: 8861985--8862098 Score: 149
Period size: 42 Copynumber: 2.7 Consensus size: 43
8861975 TAGGATATAA
* ** * *
8861985 ATTTAAATTTAATTTGTTTAAATTTAAATTATCTATCCATTAT
1 ATTTAAATTTAATTTGTTTAAATTTAAATGATAGATCAATTAC
* *
8862028 ATTTAAGTTTAATTTGTTTAAATTTAAATGA-AGATTAATTAC
1 ATTTAAATTTAATTTGTTTAAATTTAAATGATAGATCAATTAC
*
8862070 ATTTAAATTTAATTAGTTTAAATTTAAAT
1 ATTTAAATTTAATTTGTTTAAATTTAAAT
8862099 ATAATATCTT
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
42 33 0.53
43 29 0.47
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (43 bp):
ATTTAAATTTAATTTGTTTAAATTTAAATGATAGATCAATTAC
Found at i:8862705 original size:2 final size:2
Alignment explanation
Indices: 8862700--8862744 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
8862690 ACACACACAA
8862700 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8862742 AT A
1 AT A
8862745 AANAGTATGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8863399 original size:3 final size:3
Alignment explanation
Indices: 8863391--8863415 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
8863381 CTAGCAGCTT
8863391 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
8863416 CTTTCACGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:8864203 original size:42 final size:42
Alignment explanation
Indices: 8864156--8864281 Score: 180
Period size: 42 Copynumber: 3.0 Consensus size: 42
8864146 GTAATGATAT
* *
8864156 TGACCCGACTATGTGCGAGTAGGAGTGTGTATAAGCCGATGC
1 TGACCCGACTATGTGCGAGTGGGAGTGTGCATAAGCCGATGC
** *
8864198 TGACCCGGTTATGTGCGAGTGGGAGTGTGCATAAGCCGCTGC
1 TGACCCGACTATGTGCGAGTGGGAGTGTGCATAAGCCGATGC
* * *
8864240 TGACCTGACTATGTGCGAGTGGGAGTGCGCATAAGCTGATGC
1 TGACCCGACTATGTGCGAGTGGGAGTGTGCATAAGCCGATGC
8864282 ATATGAGCTG
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.36, T:0.24
Consensus pattern (42 bp):
TGACCCGACTATGTGCGAGTGGGAGTGTGCATAAGCCGATGC
Found at i:8864330 original size:2 final size:2
Alignment explanation
Indices: 8864325--8864352 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8864315 ATGATTGATG
8864325 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
8864353 CATCAATCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8864449 original size:42 final size:42
Alignment explanation
Indices: 8864402--8864521 Score: 177
Period size: 42 Copynumber: 2.9 Consensus size: 42
8864392 ATATGCATCA
* *
8864402 GCTTATGCGCACTCCCACTCGCACATAGTCAGGTCAGCAGCG
1 GCTTATGCACACTCCCACTCGCACATAGTCGGGTCAGCAGCG
** *
8864444 GCTTATGCACACTCCCACTCGCACATAACCGGGTCAGCATCG
1 GCTTATGCACACTCCCACTCGCACATAGTCGGGTCAGCAGCG
* *
8864486 GCTTATACACACTCCTACTCGCACATAGTCGGGTCA
1 GCTTATGCACACTCCCACTCGCACATAGTCGGGTCA
8864522 ATATCATTAC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.23, C:0.36, G:0.20, T:0.21
Consensus pattern (42 bp):
GCTTATGCACACTCCCACTCGCACATAGTCGGGTCAGCAGCG
Found at i:8865270 original size:3 final size:3
Alignment explanation
Indices: 8865262--8865286 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
8865252 AACGTGAAAG
8865262 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
8865287 AAGCTGCTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:8866757 original size:2 final size:2
Alignment explanation
Indices: 8866750--8866774 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8866740 CATGTTTATG
8866750 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8866775 GTTATAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8868761 original size:17 final size:17
Alignment explanation
Indices: 8868739--8868790 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
8868729 AAAAGATTTC
8868739 TTAAATAATTATTTTTA
1 TTAAATAATTATTTTTA
*
8868756 TTAAAT-TTTA-TTTTA
1 TTAAATAATTATTTTTA
*
8868771 -TAAAAAATTATTTTTA
1 TTAAATAATTATTTTTA
8868787 TTAA
1 TTAA
8868791 TGACTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
14 4 0.14
15 8 0.28
16 8 0.28
17 9 0.31
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTAAATAATTATTTTTA
Found at i:8868769 original size:15 final size:16
Alignment explanation
Indices: 8868739--8868790 Score: 61
Period size: 15 Copynumber: 3.2 Consensus size: 16
8868729 AAAAGATTTC
8868739 TTAAATAATTATTTTTA
1 TTAAA-AATTATTTTTA
**
8868756 TTAAATTTTA-TTTTA
1 TTAAAAATTATTTTTA
*
8868771 TAAAAAATTATTTTTA
1 TTAAAAATTATTTTTA
8868787 TTAA
1 TTAA
8868791 TGACTTTTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
15 12 0.43
16 11 0.39
17 5 0.18
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTAAAAATTATTTTTA
Found at i:8879946 original size:22 final size:22
Alignment explanation
Indices: 8879921--8879973 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
8879911 TTTCTATGCT
*
8879921 TTACTATAAGAATTAAG-TTAAA
1 TTACTATAA-AATTAAGCCTAAA
8879943 TTACTATCAAAATTAAGCCTAAA
1 TTACTAT-AAAATTAAGCCTAAA
*
8879966 TAACTATA
1 TTACTATA
8879974 TATCATAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 15 0.56
23 12 0.44
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.34
Consensus pattern (22 bp):
TTACTATAAAATTAAGCCTAAA
Found at i:8897384 original size:16 final size:16
Alignment explanation
Indices: 8897363--8897414 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
8897353 GATTGAAACT
8897363 TAATTTATGTTTGATG
1 TAATTTATGTTTGATG
*
8897379 TAATTTA--TTTGCT-
1 TAATTTATGTTTGATG
*
8897392 T-ATTTATGTTTGGTG
1 TAATTTATGTTTGATG
8897407 TAATTTAT
1 TAATTTAT
8897415 TTGTTTGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
12 5 0.17
13 1 0.03
14 10 0.33
15 1 0.03
16 13 0.43
ACGTcount: A:0.23, C:0.02, G:0.15, T:0.60
Consensus pattern (16 bp):
TAATTTATGTTTGATG
Found at i:8897394 original size:24 final size:25
Alignment explanation
Indices: 8897366--8897417 Score: 68
Period size: 28 Copynumber: 2.0 Consensus size: 25
8897356 TGAAACTTAA
8897366 TTTATGTTTGATGTAATTTATTTGC
1 TTTATGTTTGATGTAATTTATTTGC
*
8897391 TTATTTATGTTTGGTGTAATTTATTTG
1 ---TTTATGTTTGATGTAATTTATTTG
8897418 TTTGTAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.19, C:0.02, G:0.17, T:0.62
Consensus pattern (25 bp):
TTTATGTTTGATGTAATTTATTTGC
Found at i:8901982 original size:66 final size:66
Alignment explanation
Indices: 8901869--8902029 Score: 200
Period size: 66 Copynumber: 2.4 Consensus size: 66
8901859 AAGTTGGTTG
* * * * *
8901869 TTGGGTTTTGGTTGATCCCGGTAAAAACCATTGTTGTAAGTTGTGGTTGAGTCTTTGAACAACCA
1 TTGGGTTTTGGTTGAGCCC-GTGAAAACCATTGTTGTAAGTTATGGTTGAGCCTTTGAAAAACCA
8901934 CT
65 CT
8901936 TTGGGTTTTGGTTGAGCCCGTGAAAACCATTG-TG-AATGGTTATGGTTGAGCCTTTGAAAAACC
1 TTGGGTTTTGGTTGAGCCCGTGAAAACCATTGTTGTAA--GTTATGGTTGAGCCTTTGAAAAACC
8901999 ACT
64 ACT
* * *
8902002 TTGGGTTTTAGTTTAGCCCATGCAAAAC
1 TTGGGTTTTGGTTGAGCCCGTG-AAAAC
8902030 TAGTGTAAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
64 2 0.02
65 2 0.02
66 56 0.67
67 23 0.28
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (66 bp):
TTGGGTTTTGGTTGAGCCCGTGAAAACCATTGTTGTAAGTTATGGTTGAGCCTTTGAAAAACCAC
T
Found at i:8905306 original size:67 final size:67
Alignment explanation
Indices: 8905265--8905416 Score: 205
Period size: 67 Copynumber: 2.3 Consensus size: 67
8905255 CTATTATTGT
* *
8905265 AGGTTGTGGTTGAGCCTTTGAAAAACCACTTTGGGTTTTGGTTGAGCCCGTGATAAACCATTGCG
1 AGGTTATGGTTGAGCCTTTGAAAAACCACTTTGGGTTTTGGTTGAGCCCGTGAAAAACCATTGCG
8905330 AA
66 AA
* * * * * **
8905332 AGGTTATGGTTGAGCCTTTGAAAAACCACTTTGGGTTTTAGTTTAGCCTGTGAAAAACTAGTGTA
1 AGGTTATGGTTGAGCCTTTGAAAAACCACTTTGGGTTTTGGTTGAGCCCGTGAAAAACCATTGCG
8905397 AA
66 AA
* *
8905399 AGGTTTTGGGTGAGCCTT
1 AGGTTATGGTTGAGCCTT
8905417 GTAAAAGCCA
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
67 74 1.00
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.34
Consensus pattern (67 bp):
AGGTTATGGTTGAGCCTTTGAAAAACCACTTTGGGTTTTGGTTGAGCCCGTGAAAAACCATTGCG
AA
Found at i:8905312 original size:32 final size:32
Alignment explanation
Indices: 8905266--8905389 Score: 124
Period size: 32 Copynumber: 3.8 Consensus size: 32
8905256 TATTATTGTA
* *
8905266 GGTTGTGGTTGAGCCTTTGAAAAACCACTTTG
1 GGTTTTGGTTGAGCCTGTGAAAAACCACTTTG
* * *
8905298 GGTTTTGGTTGAGCCCGTGATAAACCA-TTGCG
1 GGTTTTGGTTGAGCCTGTGAAAAACCACTT-TG
* *
8905330 AAAGGTTATGGTTGAGCCTTTGAAAAACCACTTTG
1 ---GGTTTTGGTTGAGCCTGTGAAAAACCACTTTG
* *
8905365 GGTTTTAGTTTAGCCTGTGAAAAAC
1 GGTTTTGGTTGAGCCTGTGAAAAAC
8905390 TAGTGTAAAA
Statistics
Matches: 73, Mismatches: 14, Indels: 10
0.75 0.14 0.10
Matches are distributed among these distances:
31 2 0.03
32 45 0.62
35 24 0.33
36 2 0.03
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (32 bp):
GGTTTTGGTTGAGCCTGTGAAAAACCACTTTG
Found at i:8908613 original size:20 final size:20
Alignment explanation
Indices: 8908576--8908613 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8908566 GCCAAACCAA
* *
8908576 GAGAAAAGAAGAACAAAAGG
1 GAGAAAAGAAAAAAAAAAGG
8908596 GAGAAAAGAAAAAAAAAA
1 GAGAAAAGAAAAAAAAAA
8908614 CCTAAGTGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.74, C:0.03, G:0.24, T:0.00
Consensus pattern (20 bp):
GAGAAAAGAAAAAAAAAAGG
Found at i:8910401 original size:22 final size:22
Alignment explanation
Indices: 8910376--8910426 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
8910366 TTAGAATGGT
*
8910376 ATCAGAGCTTTTAGTTTTAAAG
1 ATCAGAGCCTTTAGTTTTAAAG
* *
8910398 ATCAAAGCCTTTGGTTTTAAAG
1 ATCAGAGCCTTTAGTTTTAAAG
*
8910420 ATTAGAG
1 ATCAGAG
8910427 TACAAAGCTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (22 bp):
ATCAGAGCCTTTAGTTTTAAAG
Found at i:8918221 original size:28 final size:28
Alignment explanation
Indices: 8918189--8918266 Score: 106
Period size: 28 Copynumber: 2.8 Consensus size: 28
8918179 TAAGCATAGT
8918189 GGTAAAATAGTAATTTTGCCACCTTAAG
1 GGTAAAATAGTAATTTTGCCACCTTAAG
* *
8918217 GGTAAAATGGTAATTTTGCCACCTTAGG
1 GGTAAAATAGTAATTTTGCCACCTTAAG
*
8918245 GGCAAAATTA-TAATTTT-CCACC
1 GGTAAAA-TAGTAATTTTGCCACC
8918267 ACCAGGACAC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
27 5 0.11
28 39 0.87
29 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (28 bp):
GGTAAAATAGTAATTTTGCCACCTTAAG
Found at i:8926557 original size:29 final size:29
Alignment explanation
Indices: 8926525--8926580 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
8926515 TCGGTGCTTC
* * *
8926525 CCTCTCTTGGGAGCACCGATCAATGCTCT
1 CCTCCCTTGGGAGAACCAATCAATGCTCT
*
8926554 CCTCCCTTGGGAGAACCAATCGATGCT
1 CCTCCCTTGGGAGAACCAATCAATGCT
8926581 ATTTTTTTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.20, C:0.34, G:0.21, T:0.25
Consensus pattern (29 bp):
CCTCCCTTGGGAGAACCAATCAATGCTCT
Found at i:8932481 original size:18 final size:18
Alignment explanation
Indices: 8932458--8932497 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
8932448 TTCGGGCACG
* *
8932458 GTGGTGGAGGTGGTGGCT
1 GTGGTGGAAGTAGTGGCT
*
8932476 GTGGTGGAAGTAGTGGTT
1 GTGGTGGAAGTAGTGGCT
8932494 GTGG
1 GTGG
8932498 AGGTGAAGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.10, C:0.03, G:0.57, T:0.30
Consensus pattern (18 bp):
GTGGTGGAAGTAGTGGCT
Found at i:8936769 original size:2 final size:2
Alignment explanation
Indices: 8936762--8936800 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
8936752 CAAAAAGAGA
8936762 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8936801 ATCCTAAGTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8937912 original size:32 final size:32
Alignment explanation
Indices: 8937876--8937953 Score: 138
Period size: 32 Copynumber: 2.4 Consensus size: 32
8937866 CCAGAACTGC
8937876 ATGTGCACAAATGAAGAGCCAATCACAGAAGG
1 ATGTGCACAAATGAAGAGCCAATCACAGAAGG
*
8937908 ATGTGTACAAATGAAGAGCCAATCACAGAAGG
1 ATGTGCACAAATGAAGAGCCAATCACAGAAGG
*
8937940 ACGTGCACAAATGA
1 ATGTGCACAAATGA
8937954 TGCTACTGCA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (32 bp):
ATGTGCACAAATGAAGAGCCAATCACAGAAGG
Found at i:8943235 original size:59 final size:58
Alignment explanation
Indices: 8943172--8943283 Score: 138
Period size: 59 Copynumber: 1.9 Consensus size: 58
8943162 TTATTTATTA
8943172 AAATATAAGTTTAATAT-ATTATATTTTTTATTATTAATTTTTA-TATAATATTATCTCTT
1 AAATATAAGTTTAATATCA-TATA--TTTTATTATTAATTTTTATTATAATATTATCTCTT
** * * *
8943231 AAATATATTTTTAATGTCATATATTTTATTTTTATTTTTTATTATAATATTAT
1 AAATATAAGTTTAATATCATATATTTTATTATTAATTTTTATTATAATATTAT
8943284 TATTTTACTT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
57 16 0.35
58 11 0.24
59 18 0.39
60 1 0.02
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.60
Consensus pattern (58 bp):
AAATATAAGTTTAATATCATATATTTTATTATTAATTTTTATTATAATATTATCTCTT
Found at i:8943323 original size:48 final size:48
Alignment explanation
Indices: 8943265--8943387 Score: 132
Period size: 47 Copynumber: 2.6 Consensus size: 48
8943255 TTTATTTTTA
* *
8943265 TTTTT-TATTATAATATTATTATTTTACTTT-TATTTCTT-TAATATAAT
1 TTTTTATATTATAATATT-TTATTTTAATTTCTAATTCTTATAATAT-AT
*
8943312 TTTTTATATTAT-ATATTTTATTTTAATTTCTAATTCTTATATTATAT
1 TTTTTATATTATAATATTTTATTTTAATTTCTAATTCTTATAATATAT
*
8943359 ATTTTAT-TT-TAATATTTTTTATTTTAATT
1 TTTTTATATTATAATA--TTTTATTTTAATT
8943388 ATAACATTAT
Statistics
Matches: 66, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
45 1 0.02
46 16 0.24
47 25 0.38
48 24 0.36
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.67
Consensus pattern (48 bp):
TTTTTATATTATAATATTTTATTTTAATTTCTAATTCTTATAATATAT
Found at i:8947232 original size:19 final size:20
Alignment explanation
Indices: 8947193--8947232 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
8947183 TTTTCCTACT
*
8947193 TCATTTTCTCACCATAATTCA
1 TCATTTTCTAACCA-AATTCA
8947214 TCATTTTCTAACC-AATTCA
1 TCATTTTCTAACCAAATTCA
8947233 CTTAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.42
Consensus pattern (20 bp):
TCATTTTCTAACCAAATTCA
Found at i:8950453 original size:13 final size:13
Alignment explanation
Indices: 8950435--8950459 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8950425 TTTCAGAAAA
8950435 TTTATAAAATCAT
1 TTTATAAAATCAT
8950448 TTTATAAAATCA
1 TTTATAAAATCA
8950460 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:8951710 original size:20 final size:20
Alignment explanation
Indices: 8951693--8951730 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8951683 CCTCAAATCT
*
8951693 TACTCCAATGAGTCAAATTA
1 TACTCCAATAAGTCAAATTA
*
8951713 TACTCGAATAAGTCAAAT
1 TACTCCAATAAGTCAAAT
8951731 GGGGCCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (20 bp):
TACTCCAATAAGTCAAATTA
Found at i:8959165 original size:67 final size:68
Alignment explanation
Indices: 8959071--8959221 Score: 198
Period size: 67 Copynumber: 2.2 Consensus size: 68
8959061 ACATACATTT
* * * * * * *
8959071 TCATGGCATTCATCATGCATACTTAATCATCTTATATGGTATATGGAAT-TATATCATATACACA
1 TCATGGCATTTATCATGCATACCTAATCACCTCATATGGTATATGGAATGTACATCACATAAACA
8959135 ATC
66 ATC
*
8959138 TCATGGCATTTATTATGC-TCACCTAATCACCTCATATGGTATATGGAATGTACATCACATAAAC
1 TCATGGCATTTATCATGCAT-ACCTAATCACCTCATATGGTATATGGAATGTACATCACATAAAC
8959202 AATC
65 AATC
*
8959206 TTATGGCATTTATCAT
1 TCATGGCATTTATCAT
8959222 ACCACACATG
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
66 1 0.01
67 42 0.58
68 29 0.40
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.36
Consensus pattern (68 bp):
TCATGGCATTTATCATGCATACCTAATCACCTCATATGGTATATGGAATGTACATCACATAAACA
ATC
Found at i:8960948 original size:17 final size:18
Alignment explanation
Indices: 8960915--8960949 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
8960905 GCTTGGCAAG
8960915 ATGACAAAGCTTATGATTA
1 ATGACAAAGC-TATGATTA
8960934 ATGACAAAG-TATGATT
1 ATGACAAAGCTATGATT
8960950 TTTAAGGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
19 9 0.56
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.31
Consensus pattern (18 bp):
ATGACAAAGCTATGATTA
Found at i:8964419 original size:49 final size:48
Alignment explanation
Indices: 8964333--8964449 Score: 148
Period size: 49 Copynumber: 2.4 Consensus size: 48
8964323 CAATCCACTA
* *
8964333 ACAAAGATTCTTGC-TTTTGAACGGGAAGCAATTACCCTTACACAATTC
1 ACAAAGATTCTTGCATTTT-AACGGGAAGCAATAACCCTTACACAATCC
* *
8964381 ACAAAGGGATT-TTGCATTTTAACGGTAAGCGATAACCCTTACACAATCC
1 ACAAA--GATTCTTGCATTTTAACGGGAAGCAATAACCCTTACACAATCC
*
8964430 ATAAAGATTCTTGCATTTTA
1 ACAAAGATTCTTGCATTTTA
8964450 CCTAGTTCAA
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
47 4 0.07
48 15 0.25
49 33 0.55
50 8 0.13
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.31
Consensus pattern (48 bp):
ACAAAGATTCTTGCATTTTAACGGGAAGCAATAACCCTTACACAATCC
Found at i:8969712 original size:2 final size:2
Alignment explanation
Indices: 8969705--8969799 Score: 181
Period size: 2 Copynumber: 47.5 Consensus size: 2
8969695 AACACCTTAC
8969705 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
8969747 AN AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8969789 AT AT AT AT AT A
1 AT AT AT AT AT A
8969800 CAGTATACAT
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 91 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8973798 original size:19 final size:19
Alignment explanation
Indices: 8973772--8973816 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
8973762 AAAATCAAAT
*
8973772 TATCTTTCATT-TTCTTTCC
1 TATCTTTC-TTCTCCTTTCC
*
8973791 TTTCTTTCTTCTCCTTTCC
1 TATCTTTCTTCTCCTTTCC
8973810 TATCTTT
1 TATCTTT
8973817 TCTTACTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 2 0.09
19 20 0.91
ACGTcount: A:0.07, C:0.29, G:0.00, T:0.64
Consensus pattern (19 bp):
TATCTTTCTTCTCCTTTCC
Found at i:8974704 original size:55 final size:55
Alignment explanation
Indices: 8974645--8974806 Score: 270
Period size: 55 Copynumber: 2.9 Consensus size: 55
8974635 TGATGACGGG
*
8974645 TGATTCTAGCTATGTGCAGTGTGGGAGTGCACATGAGCTGATGACCGGTGGATGA
1 TGATTCTAGCTATGTGCAGTGTGGGAGTGCACATGAGCTGATGACCGATGGATGA
* * *
8974700 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCGATGGGTGA
1 TGATTCTAGCTATGTGCAGTGTGGGAGTGCACATGAGCTGATGACCGATGGATGA
*
8974755 TGATTCTAGCCATGTGCAGTGTGGGAGTGCACATGAGCTGATGAGCCGATGG
1 TGATTCTAGCTATGTGCAGTGTGGGAGTGCACATGAGCTGATGA-CCGATGG
8974807 TTGTATACAT
Statistics
Matches: 99, Mismatches: 7, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
55 92 0.93
56 7 0.07
ACGTcount: A:0.21, C:0.16, G:0.37, T:0.26
Consensus pattern (55 bp):
TGATTCTAGCTATGTGCAGTGTGGGAGTGCACATGAGCTGATGACCGATGGATGA
Found at i:8974738 original size:28 final size:28
Alignment explanation
Indices: 8974652--8974738 Score: 65
Period size: 28 Copynumber: 3.1 Consensus size: 28
8974642 GGGTGATTCT
*
8974652 AGCTATGTGCAGTGTGGGAGTGCACATG
1 AGCTATGTGCGGTGTGGGAGTGCACATG
** * * *
8974680 AGCTGATGACCGGTG-GATGA-TG-A-TTCC
1 AGCT-ATGTGCGGTGTG-GGAGTGCACAT-G
8974707 AGCTATGTGCGGTGTGGGAGTGCACATG
1 AGCTATGTGCGGTGTGGGAGTGCACATG
8974735 AGCT
1 AGCT
8974739 GATGACCGAT
Statistics
Matches: 41, Mismatches: 11, Indels: 14
0.62 0.17 0.21
Matches are distributed among these distances:
26 11 0.27
27 8 0.20
28 12 0.29
29 10 0.24
ACGTcount: A:0.21, C:0.16, G:0.38, T:0.25
Consensus pattern (28 bp):
AGCTATGTGCGGTGTGGGAGTGCACATG
Found at i:8977413 original size:24 final size:25
Alignment explanation
Indices: 8977362--8977413 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
8977352 GTGGTCGCGA
* *
8977362 CCACGTATATCAACTTGTGGCCTAG
1 CCACATATATCAACCTGTGGCCTAG
*
8977387 CCACATATATCAACCT-TGGCCTTG
1 CCACATATATCAACCTGTGGCCTAG
8977411 CCA
1 CCA
8977414 TGTATATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27
Consensus pattern (25 bp):
CCACATATATCAACCTGTGGCCTAG
Found at i:8977419 original size:24 final size:25
Alignment explanation
Indices: 8977362--8977420 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
8977352 GTGGTCGCGA
*
8977362 CCACGTATATCAACTTGTGGCCTAG
1 CCACGTATATCAACCTGTGGCCTAG
* *
8977387 CCACATATATCAACCT-TGGCCTTG
1 CCACGTATATCAACCTGTGGCCTAG
*
8977411 CCATGTATAT
1 CCACGTATAT
8977421 ATATCACAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 15 0.52
25 14 0.48
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (25 bp):
CCACGTATATCAACCTGTGGCCTAG
Found at i:8979522 original size:20 final size:20
Alignment explanation
Indices: 8979497--8979536 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
8979487 CTATTATAAT
*
8979497 TATTTTTATTTACTTTTTTA
1 TATTTTTATATACTTTTTTA
*
8979517 TATTTTTATATATTTTTTTA
1 TATTTTTATATACTTTTTTA
8979537 AATCAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (20 bp):
TATTTTTATATACTTTTTTA
Found at i:8980362 original size:18 final size:19
Alignment explanation
Indices: 8980323--8980362 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
8980313 TTAATATTTT
*
8980323 AATAATATTTTATTAGTAA
1 AATAATATTTTATTACTAA
*
8980342 AATATTATTTTATT-CTAA
1 AATAATATTTTATTACTAA
8980360 AAT
1 AAT
8980363 TCTCTACTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (19 bp):
AATAATATTTTATTACTAA
Found at i:8988220 original size:55 final size:55
Alignment explanation
Indices: 8988128--8988381 Score: 409
Period size: 55 Copynumber: 4.6 Consensus size: 55
8988118 CATTTCATGT
* * *
8988128 ATGTGCACTCCCACACAGCACATAGCTCGAATTATCATCCACCGGTCATCAGCTC
1 ATGTGCACTCCCACACCGCACATAGCTGGAATCATCATCCACCGGTCATCAGCTC
*
8988183 ATGTGCACTCCCACACCGCACATAGCTGGAATCATCATCCACCGGTCATCAACTC
1 ATGTGCACTCCCACACCGCACATAGCTGGAATCATCATCCACCGGTCATCAGCTC
* *
8988238 ATGTGCACTCCTACACCGTACATAGCTGGAATCATCATCCACCGGTCATCAGCTC
1 ATGTGCACTCCCACACCGCACATAGCTGGAATCATCATCCACCGGTCATCAGCTC
* **
8988293 ATGTGCACTCCCACACCTCACATAGCTGGAATCATCATCCACTAGTCATCAGCTC
1 ATGTGCACTCCCACACCGCACATAGCTGGAATCATCATCCACCGGTCATCAGCTC
* *
8988348 ATGTGCACTCTCACACCGCACATAGCTAGAATCA
1 ATGTGCACTCCCACACCGCACATAGCTGGAATCA
8988382 CTTGTCATCA
Statistics
Matches: 184, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 184 1.00
ACGTcount: A:0.28, C:0.36, G:0.15, T:0.22
Consensus pattern (55 bp):
ATGTGCACTCCCACACCGCACATAGCTGGAATCATCATCCACCGGTCATCAGCTC
Found at i:9008133 original size:25 final size:26
Alignment explanation
Indices: 9008092--9008141 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 26
9008082 TTAATAATTG
9008092 ATAATTTAAATATTAATATTTTATTT
1 ATAATTTAAATATTAATATTTTATTT
9008118 ATAATTT-AATATTAATATTTTATT
1 ATAATTTAAATATTAATATTTTATT
9008142 AAAAATTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
ATAATTTAAATATTAATATTTTATTT
Found at i:9008148 original size:25 final size:26
Alignment explanation
Indices: 9008094--9008148 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 26
9008084 AATAATTGAT
* *
9008094 AATTTAAATATTAATATTTTATTTAT
1 AATTTAAATATTAATATTTTATTAAA
9008120 AATTT-AATATTAATATTTTATTAAA
1 AATTTAAATATTAATATTTTATTAAA
9008145 AATT
1 AATT
9008149 GGAATCAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 22 0.81
26 5 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
AATTTAAATATTAATATTTTATTAAA
Found at i:9010519 original size:17 final size:15
Alignment explanation
Indices: 9010474--9010520 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
9010464 TTTTTTTTTC
*
9010474 CCTTT-TCCTTCCTT
1 CCTTTCTCCTTTCTT
9010488 -CTTTCTCCTTTCTT
1 CCTTTCTCCTTTCTT
9010502 CCTTTCTCTCTTTGCTT
1 CCTTTCTC-CTTT-CTT
9010519 CC
1 CC
9010521 AAGCCGATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 4 0.14
14 8 0.29
15 7 0.25
16 4 0.14
17 5 0.18
ACGTcount: A:0.00, C:0.40, G:0.02, T:0.57
Consensus pattern (15 bp):
CCTTTCTCCTTTCTT
Found at i:9014362 original size:14 final size:14
Alignment explanation
Indices: 9014327--9014362 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
9014317 AGAGAGAGTG
9014327 AGGGTGAAAGAAAT
1 AGGGTGAAAGAAAT
*
9014341 -GAGTGAAAGAAAT
1 AGGGTGAAAGAAAT
9014354 AGGGTGAAA
1 AGGGTGAAA
9014363 TAGCCTAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.50, C:0.00, G:0.36, T:0.14
Consensus pattern (14 bp):
AGGGTGAAAGAAAT
Found at i:9016105 original size:20 final size:19
Alignment explanation
Indices: 9016079--9016135 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
9016069 TTTTTTGGTA
9016079 GCCATCTATCAATAGATTT
1 GCCATCTATCAATAGATTT
** *
9016098 GACCATCTATGGATGGATTT
1 G-CCATCTATCAATAGATTT
*
9016118 GCTCATCTATCCATAGAT
1 GC-CATCTATCAATAGAT
9016136 ATTCTTTAGG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
19 2 0.07
20 28 0.93
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (19 bp):
GCCATCTATCAATAGATTT
Found at i:9021316 original size:18 final size:18
Alignment explanation
Indices: 9021277--9021316 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9021267 TTAGGGAAAT
* * *
9021277 CTAGTTATGATTAGAGCT
1 CTAGCTATGATTAGACCA
9021295 CTAGCTATGATTAGACCA
1 CTAGCTATGATTAGACCA
9021313 CTAG
1 CTAG
9021317 TTTTGTGGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (18 bp):
CTAGCTATGATTAGACCA
Found at i:9022076 original size:20 final size:21
Alignment explanation
Indices: 9022037--9022076 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
9022027 TAAAAATTAC
**
9022037 TAATTTTTATTATTTTTTAAT
1 TAATTTTTATTATTAATTAAT
9022058 TAATTTTT-TTATTAATTAA
1 TAATTTTTATTATTAATTAA
9022077 AAAAAAGAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TAATTTTTATTATTAATTAAT
Found at i:9022773 original size:54 final size:52
Alignment explanation
Indices: 9022714--9022840 Score: 146
Period size: 54 Copynumber: 2.4 Consensus size: 52
9022704 ATACTATAAC
* * *
9022714 AATAAATTGTACATATCCTTAATCAAAATAACACAAATTCCATAAGAAAAAAAA
1 AATAAATTGTACATATCCATAATCAAAACAACACAAATTCCACAAG--AAAAAA
**** * * *
9022768 AATAAAACACACATATCCATAATCAAAACAACATAAATTCTACAAGAACAAA
1 AATAAATTGTACATATCCATAATCAAAACAACACAAATTCCACAAGAAAAAA
9022820 AATAAATTGTACATATCCATA
1 AATAAATTGTACATATCCATA
9022841 GCATATCCAT
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
52 22 0.37
54 37 0.63
ACGTcount: A:0.57, C:0.17, G:0.03, T:0.23
Consensus pattern (52 bp):
AATAAATTGTACATATCCATAATCAAAACAACACAAATTCCACAAGAAAAAA
Found at i:9026249 original size:13 final size:14
Alignment explanation
Indices: 9026217--9026262 Score: 58
Period size: 13 Copynumber: 3.3 Consensus size: 14
9026207 TACTCAACAG
* *
9026217 TTAAATTTAATGATA
1 TTAAAATTAAT-AAA
9026232 TTAAAATTAA-AAA
1 TTAAAATTAATAAA
9026245 TTAAAATTAATAAA
1 TTAAAATTAATAAA
9026259 TTAA
1 TTAA
9026263 TAAAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 12 0.43
14 7 0.25
15 9 0.32
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (14 bp):
TTAAAATTAATAAA
Found at i:9027158 original size:49 final size:49
Alignment explanation
Indices: 9027041--9027136 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 49
9027031 CTGAGCTCCT
*
9027041 CTCTCTCTCTCTCTCTCTCTCTTCATTTCTAGTTGTAGAGAGACGACCN
1 CTCTCTCTCTCTCTCTCTCTCTTCATTTCTAGTTGTAGAGAGACGACCA
9027090 CTCTCTCTCTCTCTCTCTCTCTTCATTTCTAGTTGTAGAGAGA-GACC
1 CTCTCTCTCTCTCTCTCTCTCTTCATTTCTAGTTGTAGAGAGACGACC
9027137 CATCTTCTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 4 0.09
49 43 0.91
ACGTcount: A:0.15, C:0.32, G:0.12, T:0.40
Consensus pattern (49 bp):
CTCTCTCTCTCTCTCTCTCTCTTCATTTCTAGTTGTAGAGAGACGACCA
Found at i:9044684 original size:29 final size:28
Alignment explanation
Indices: 9044637--9044810 Score: 136
Period size: 29 Copynumber: 6.0 Consensus size: 28
9044627 ATGGCAGTTT
*
9044637 AACATGTTTATCTTAATTTAGACAAGAA
1 AACATGTTTGTCTTAATTTAGACAAGAA
*
9044665 AACATGTTTGGTCTTAATTTAGGCAAGAA
1 AACATGTTT-GTCTTAATTTAGACAAGAA
** * *
9044694 ATTATGTTTTTCTTAATTTAAAACAAGAAA
1 AACATGTTTGTCTTAATTT-AGACAAG-AA
* *
9044724 AATATTTTTTGTCTT-ATTCTAGACAAGAA
1 AACA-TGTTTGTCTTAATT-TAGACAAGAA
* * *
9044753 AACATATTTGTCTCAATTTGGACAAGATA
1 AACATGTTTGTCTTAATTTAGACAAGA-A
* *
9044782 AA-ATATTGTTGTCTTAATTAAAGACAAGA
1 AACAT-GT-TTGTCTTAATT-TAGACAAGA
9044811 GTTGTCTTAA
Statistics
Matches: 117, Mismatches: 19, Indels: 17
0.76 0.12 0.11
Matches are distributed among these distances:
28 36 0.31
29 41 0.35
30 24 0.21
31 16 0.14
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.38
Consensus pattern (28 bp):
AACATGTTTGTCTTAATTTAGACAAGAA
Found at i:9053811 original size:32 final size:32
Alignment explanation
Indices: 9053775--9053875 Score: 105
Period size: 32 Copynumber: 3.1 Consensus size: 32
9053765 AAGCTTTTAC
*
9053775 AATGGTTTTTCACGAGATCAACCAAAACCCAA
1 AATGGTTTTTCACGAGATCAACCAAAACCAAA
* * * * *
9053807 AATGGCTTTTCA-AAGGCTCAACCATAACCTTTAAC
1 AATGGTTTTTCACGA-GATCAACCAAAACC---AAA
9053842 AATGGTTTTTCACGAGATCAACCAAAACCAAA
1 AATGGTTTTTCACGAGATCAACCAAAACCAAA
9053874 AA
1 AA
9053876 ACTAACTTTT
Statistics
Matches: 53, Mismatches: 11, Indels: 10
0.72 0.15 0.14
Matches are distributed among these distances:
31 1 0.02
32 27 0.51
35 24 0.45
36 1 0.02
ACGTcount: A:0.41, C:0.24, G:0.12, T:0.24
Consensus pattern (32 bp):
AATGGTTTTTCACGAGATCAACCAAAACCAAA
Found at i:9053863 original size:35 final size:35
Alignment explanation
Indices: 9053768--9053870 Score: 115
Period size: 35 Copynumber: 3.0 Consensus size: 35
9053758 TCCCACCAAG
*
9053768 CTTTTACAATGGTTTTTCACGAGATCAACCAAAAC
1 CTTTAACAATGGTTTTTCACGAGATCAACCAAAAC
* * * * *
9053803 C--CAA-AATGGCTTTTCA-AAGGCTCAACCATAAC
1 CTTTAACAATGGTTTTTCACGA-GATCAACCAAAAC
9053835 CTTTAACAATGGTTTTTCACGAGATCAACCAAAAC
1 CTTTAACAATGGTTTTTCACGAGATCAACCAAAAC
9053870 C
1 C
9053871 AAAAAACTAA
Statistics
Matches: 52, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
31 1 0.02
32 23 0.44
33 1 0.02
34 2 0.04
35 24 0.46
36 1 0.02
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.27
Consensus pattern (35 bp):
CTTTAACAATGGTTTTTCACGAGATCAACCAAAAC
Found at i:9056086 original size:99 final size:99
Alignment explanation
Indices: 9055915--9056110 Score: 383
Period size: 99 Copynumber: 2.0 Consensus size: 99
9055905 TCATCAATAA
9055915 GACATCAATTACAATGAGTTATAAGTCTAACTGGATGGAGTCCATGAGATTAATATGCCTTGTAA
1 GACATCAATTACAATGAGTTATAAGTCTAACTGGATGGAGTCCATGAGATTAATATGCCTTGTAA
9055980 AGAAACTGTAATGGGTTCTAGTTATGAGATTCCT
66 AGAAACTGTAATGGGTTCTAGTTATGAGATTCCT
9056014 GACATCAATTACAATGAGTTATAAGTCTAACTGGATGGAGTCCATGAGATTAATATGCCTTGTAA
1 GACATCAATTACAATGAGTTATAAGTCTAACTGGATGGAGTCCATGAGATTAATATGCCTTGTAA
*
9056079 AGAAACTGTAATGGGTTCTAGTTATTAGATTC
66 AGAAACTGTAATGGGTTCTAGTTATGAGATTC
9056111 TTATACATCA
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 96 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.33
Consensus pattern (99 bp):
GACATCAATTACAATGAGTTATAAGTCTAACTGGATGGAGTCCATGAGATTAATATGCCTTGTAA
AGAAACTGTAATGGGTTCTAGTTATGAGATTCCT
Found at i:9058582 original size:15 final size:15
Alignment explanation
Indices: 9058562--9058592 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9058552 TTCTACAATG
9058562 ACATGTGGGCCCCTA
1 ACATGTGGGCCCCTA
9058577 ACATGTGGGCCCCTA
1 ACATGTGGGCCCCTA
9058592 A
1 A
9058593 AATCAACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.26, T:0.19
Consensus pattern (15 bp):
ACATGTGGGCCCCTA
Found at i:9069169 original size:2 final size:2
Alignment explanation
Indices: 9069162--9069191 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
9069152 TCCAGGGAAC
9069162 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9069192 TTCATATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9074619 original size:32 final size:31
Alignment explanation
Indices: 9074567--9074683 Score: 184
Period size: 31 Copynumber: 3.7 Consensus size: 31
9074557 CAACGTTGGC
9074567 GTGTAACAACATTTGACTTGATATGCATGGA
1 GTGTAACAACATTTGACTTGATATGCATGGA
*
9074598 GTGTAACAACATTTTGACTTGATATGCATGGC
1 GTGTAACAACA-TTTGACTTGATATGCATGGA
9074630 GTGTAACAACACTTT-ACTTGATATGCATGGCA
1 GTGTAACAACA-TTTGACTTGATATGCATGG-A
9074662 -TGTAACAACATTTGACTTGATA
1 GTGTAACAACATTTGACTTGATA
9074684 CACATCGCTT
Statistics
Matches: 80, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
30 3 0.04
31 44 0.55
32 33 0.41
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (31 bp):
GTGTAACAACATTTGACTTGATATGCATGGA
Found at i:9074666 original size:63 final size:62
Alignment explanation
Indices: 9074563--9074683 Score: 201
Period size: 63 Copynumber: 1.9 Consensus size: 62
9074553 ATGTCAACGT
9074563 TGGCGTGTAACAACATTTGACTTGATATGCATGGAGTGTAACAACATTTTGACTTGATATGCA
1 TGGCGTGTAACAACATTTGACTTGATATGCATGGAGTGTAACAACA-TTTGACTTGATATGCA
9074626 TGGCGTGTAACAACACTTT-ACTTGATATGCATGGCA-TGTAACAACATTTGACTTGATA
1 TGGCGTGTAACAACA-TTTGACTTGATATGCATGG-AGTGTAACAACATTTGACTTGATA
9074684 CACATCGCTT
Statistics
Matches: 56, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
62 12 0.21
63 40 0.71
64 4 0.07
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.33
Consensus pattern (62 bp):
TGGCGTGTAACAACATTTGACTTGATATGCATGGAGTGTAACAACATTTGACTTGATATGCA
Found at i:9075014 original size:32 final size:32
Alignment explanation
Indices: 9074978--9075126 Score: 111
Period size: 35 Copynumber: 4.5 Consensus size: 32
9074968 TTTACTGGGA
* * *
9074978 TCAACTAAAACCCAAAGTGATTTTTCAAAAGC
1 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
* ** *
9075010 TCAACCACAACCTTTCACAA-TGGTTTTTCACGGGT
1 TCAACCAAAACC---CA-AAGTGGTTTTTCAAAGGC
9075045 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
1 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
* * * ** *
9075077 TCAACCACAACCTACAACAATGGTTTTTTACGGGA
1 TCAACCAAAACC--CAA-AGTGGTTTTTCAAAGGC
9075112 TCAACCAAAACCCAA
1 TCAACCAAAACCCAA
9075127 CAACTAACTT
Statistics
Matches: 91, Mismatches: 18, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
31 2 0.02
32 35 0.38
33 3 0.03
34 3 0.03
35 46 0.51
36 2 0.02
ACGTcount: A:0.37, C:0.27, G:0.12, T:0.24
Consensus pattern (32 bp):
TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
Found at i:9075059 original size:67 final size:66
Alignment explanation
Indices: 9074951--9075126 Score: 255
Period size: 67 Copynumber: 2.6 Consensus size: 66
9074941 GTTTAGCCAA
* *
9074951 AACCTTTCACAATAGTTTTTACTGGGATCAACTAAAACCCAAAGTGATTTTTCAAAAGCTCAACC
1 AACCTTTCACAATGGTTTTTAC-GGGATCAACCAAAACCCAAAGTGATTTTTCAAAAGCTCAACC
9075016 AC
65 AC
* * *
9075018 AACCTTTCACAATGGTTTTTCACGGGTTCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
1 AACCTTTCACAATGGTTTTT-ACGGGATCAACCAAAACCCAAAGTGATTTTTCAAAAGCTCAACC
9075083 AC
65 AC
*
9075085 AACC-TACAACAATGGTTTTTTACGGGATCAACCAAAACCCAA
1 AACCTTTC-ACAATGG-TTTTTACGGGATCAACCAAAACCCAA
9075127 CAACTAACTT
Statistics
Matches: 99, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
66 2 0.02
67 90 0.91
68 7 0.07
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.26
Consensus pattern (66 bp):
AACCTTTCACAATGGTTTTTACGGGATCAACCAAAACCCAAAGTGATTTTTCAAAAGCTCAACCA
C
Found at i:9075116 original size:35 final size:34
Alignment explanation
Indices: 9075026--9075129 Score: 115
Period size: 32 Copynumber: 3.1 Consensus size: 34
9075016 ACAACCTTTC
*
9075026 ACAATGGTTTTTCACGGGTTCAACCAAAACC-CA
1 ACAATGGTTTTTCACGGGATCAACCAAAACCTCA
* ** * *
9075059 A-AGTGGTTTTTCAAAGGCTCAACCACAACCTACA
1 ACAATGGTTTTTCACGGGATCAACCAAAACCT-CA
*
9075093 ACAATGGTTTTTTACGGGATCAACCAAAACC-CA
1 ACAATGGTTTTTCACGGGATCAACCAAAACCTCA
9075126 ACAA
1 ACAA
9075130 CTAACTTTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
32 24 0.42
33 7 0.12
34 3 0.05
35 23 0.40
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (34 bp):
ACAATGGTTTTTCACGGGATCAACCAAAACCTCA
Found at i:9076017 original size:17 final size:17
Alignment explanation
Indices: 9075995--9076029 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
9075985 GGAGGTTTTC
9075995 CTCCCCCTAAGTGTGTG
1 CTCCCCCTAAGTGTGTG
* *
9076012 CTCCCCTTTAGTGTGTG
1 CTCCCCCTAAGTGTGTG
9076029 C
1 C
9076030 ATAGTTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.34, G:0.23, T:0.34
Consensus pattern (17 bp):
CTCCCCCTAAGTGTGTG
Found at i:9077093 original size:27 final size:28
Alignment explanation
Indices: 9077063--9077119 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 28
9077053 TTTCGAGGAT
* *
9077063 AAGGGCAAAATAGTCATTTTGC-CACCC
1 AAGGGCAAAATAGTAATTTTACACACCC
*
9077090 AAGGGCAAAATTGTAATTTTACACACCC
1 AAGGGCAAAATAGTAATTTTACACACCC
9077118 AA
1 AA
9077120 CACTTGTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 19 0.73
28 7 0.27
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.23
Consensus pattern (28 bp):
AAGGGCAAAATAGTAATTTTACACACCC
Found at i:9077411 original size:22 final size:21
Alignment explanation
Indices: 9077372--9077412 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9077362 CCTAGGTGGA
* *
9077372 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAAGAAAAAGTGTG
9077393 AAAATTCAAAGAAACAAGTG
1 AAAATTCAAAGAAA-AAGTG
9077413 AAAAAATGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.54, C:0.07, G:0.22, T:0.17
Consensus pattern (21 bp):
AAAATTCAAAGAAAAAGTGTG
Found at i:9077418 original size:22 final size:21
Alignment explanation
Indices: 9077371--9077419 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
9077361 CCCTAGGTGG
* * *
9077371 AAAAATTCAAGGGAAAAGTGT
1 AAAAATTCAAAGAAAAAGTGA
*
9077392 GAAAATTCAAAGAAACAAGTGA
1 AAAAATTCAAAGAAA-AAGTGA
9077414 AAAAAT
1 AAAAAT
9077420 GTAAGATTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.59, C:0.06, G:0.18, T:0.16
Consensus pattern (21 bp):
AAAAATTCAAAGAAAAAGTGA
Found at i:9085579 original size:20 final size:19
Alignment explanation
Indices: 9085522--9085584 Score: 90
Period size: 20 Copynumber: 3.2 Consensus size: 19
9085512 TATATACCCA
*
9085522 TCATCATCATCTCACCAAC
1 TCATCATCATCTCACCAGC
*
9085541 CCATCATCATCGTCACCAGC
1 TCATCATCATC-TCACCAGC
9085561 TCATCATCATCATCACCAGC
1 TCATCATCATC-TCACCAGC
9085581 TCAT
1 TCAT
9085585 GCGCACTCCC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 10 0.26
20 29 0.74
ACGTcount: A:0.29, C:0.41, G:0.05, T:0.25
Consensus pattern (19 bp):
TCATCATCATCTCACCAGC
Found at i:9085631 original size:43 final size:43
Alignment explanation
Indices: 9085583--9085701 Score: 168
Period size: 43 Copynumber: 2.8 Consensus size: 43
9085573 TCACCAGCTC
** * *
9085583 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATC-CTCGGCTT
9085626 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
* *
9085669 ATGCGCACTCCCTACTCGCACATAGCCGAGTCA
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCA
9085702 ACATAATTAC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 68 0.99
ACGTcount: A:0.19, C:0.38, G:0.21, T:0.22
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
Found at i:9089266 original size:11 final size:11
Alignment explanation
Indices: 9089250--9089287 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
9089240 ATGAAATTCA
9089250 CAAGCTTTTAC
1 CAAGCTTTTAC
9089261 CAAGCTTTTA-
1 CAAGCTTTTAC
9089271 CAATGGCTTTTAC
1 CAA--GCTTTTAC
9089284 CAAG
1 CAAG
9089288 TTTAGCCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
10 3 0.12
11 11 0.46
12 7 0.29
13 3 0.12
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (11 bp):
CAAGCTTTTAC
Found at i:9089415 original size:67 final size:67
Alignment explanation
Indices: 9089301--9089467 Score: 187
Period size: 67 Copynumber: 2.5 Consensus size: 67
9089291 AGCCAAAACT
* * * *
9089301 TTTCACAATAATTTTT-ACCGGGATCAACTAAAACTCAAAGTGATTTTTTAAAGGCTCAACCACA
1 TTTCACAATAGTTTTTCA-CGGGATCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAACCACA
9089365 ACC
65 ACC
* * * *
9089368 TTTCACAATAGTTTTTCACGGGCTTAACCAAAACCCAAAGT-AGTTTTTCAAAGGTTCAACCATA
1 TTTCACAATAGTTTTTCACGGGATCAACCAAAACCCAAAGTGA-TTTTTCAAAGGCTCAACCACA
9089432 ACC
65 ACC
* * *
9089435 -TACAATAATGGTTTTTCACGGGATCAACCAAAA
1 TTTC-ACAATAGTTTTTCACGGGATCAACCAAAA
9089468 TCAACAACTA
Statistics
Matches: 84, Mismatches: 13, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
66 3 0.04
67 80 0.95
68 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (67 bp):
TTTCACAATAGTTTTTCACGGGATCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAACCACAA
CC
Found at i:9089429 original size:32 final size:32
Alignment explanation
Indices: 9089324--9089434 Score: 75
Period size: 32 Copynumber: 3.4 Consensus size: 32
9089314 TTTACCGGGA
* * * *
9089324 TCAACTAAAACTCAAAGT-GATTTTTTAAAGGC
1 TCAACCAAAACCCAAAGTAG-TTTTTCAAAGGT
* **
9089356 TCAACCACAACCTTTCACAA-TAGTTTTTCACGGGCT
1 TCAACCAAAACC---CA-AAGTAGTTTTTCAAAGG-T
9089392 T-AACCAAAACCCAAAGTAGTTTTTCAAAGGT
1 TCAACCAAAACCCAAAGTAGTTTTTCAAAGGT
*
9089423 TCAACCATAACC
1 TCAACCAAAACC
9089435 TACAATAATG
Statistics
Matches: 60, Mismatches: 11, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
31 4 0.07
32 32 0.53
35 20 0.33
36 4 0.07
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.28
Consensus pattern (32 bp):
TCAACCAAAACCCAAAGTAGTTTTTCAAAGGT
Found at i:9094667 original size:86 final size:86
Alignment explanation
Indices: 9094522--9094687 Score: 235
Period size: 86 Copynumber: 1.9 Consensus size: 86
9094512 TTGACTCGGC
* **
9094522 TATGTGCGAGTAGGGAGTGCGCATAAGCCAAGGATGACCCGGTTATGTGCCAGTAGGGAGTGCAC
1 TATGTGCGAGTAGGGAGTGCGCATAAGCCAAGGATGACCCAGCCATGTGCCAGTAGGGAGTGCAC
9094587 ATGACCTGGTGATGACCCTGT
66 ATGACCTGGTGATGACCCTGT
* ** * *
9094608 TATGTGCTAGTAGGGAGTGCGCATAA-CCCGGTGATGACCCAGCCATGTGCGAGTAGGGAGTGCG
1 TATGTGCGAGTAGGGAGTGCGCATAAGCCAAG-GATGACCCAGCCATGTGCCAGTAGGGAGTGCA
*
9094672 CATGAGCTGGTGATGA
65 CATGACCTGGTGATGA
9094688 TGATGATGAG
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
85 3 0.04
86 67 0.96
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.22
Consensus pattern (86 bp):
TATGTGCGAGTAGGGAGTGCGCATAAGCCAAGGATGACCCAGCCATGTGCCAGTAGGGAGTGCAC
ATGACCTGGTGATGACCCTGT
Found at i:9094684 original size:43 final size:43
Alignment explanation
Indices: 9094522--9094687 Score: 199
Period size: 43 Copynumber: 3.9 Consensus size: 43
9094512 TTGACTCGGC
** *
9094522 TATGTGCGAGTAGGGAGTGCGCATAAGCCAAG-GATGACCCGGT
1 TATGTGCGAGTAGGGAGTGCGCATAA-CCTGGTGATGACCCAGT
* * * *
9094565 TATGTGCCAGTAGGGAGTGCACATGACCTGGTGATGACCCTGT
1 TATGTGCGAGTAGGGAGTGCGCATAACCTGGTGATGACCCAGT
* * *
9094608 TATGTGCTAGTAGGGAGTGCGCATAACCCGGTGATGACCCAGC
1 TATGTGCGAGTAGGGAGTGCGCATAACCTGGTGATGACCCAGT
* * *
9094651 CATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 TATGTGCGAGTAGGGAGTGCGCATAACCTGGTGATGA
9094688 TGATGATGAG
Statistics
Matches: 105, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
42 3 0.03
43 102 0.97
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.22
Consensus pattern (43 bp):
TATGTGCGAGTAGGGAGTGCGCATAACCTGGTGATGACCCAGT
Found at i:9094702 original size:20 final size:20
Alignment explanation
Indices: 9094673--9094715 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
9094663 GGGAGTGCGC
9094673 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
*
9094693 ATGAGTTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
9094713 ATG
1 ATG
9094716 GGTATATACG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.02, G:0.40, T:0.33
Consensus pattern (20 bp):
ATGAGCTGGTGATGATGATG
Found at i:9097150 original size:86 final size:86
Alignment explanation
Indices: 9097060--9097246 Score: 265
Period size: 86 Copynumber: 2.2 Consensus size: 86
9097050 GATACTTGGC
* *
9097060 GTGACACGCTGAGTGCATGCAGATTTCTGTG-GTGACATGTTGACTTCTTGCAGTATTGT-GGAG
1 GTGACACGCTGAGTGCATGCAGATTTCTG-GCGTGACATGCTGACTTCTTGCAATATTGTAGG-G
* *
9097123 TGACA-TG-ACATGCCCCAGTTGTG
64 TGACACAGCACA--CCCCAATTGTG
*
9097146 GTGACATGCTGAGTGCATGCAGATTTCTGGCGTGACATGCTGACTTCTTGCAATATTGTAGGGTG
1 GTGACACGCTGAGTGCATGCAGATTTCTGGCGTGACATGCTGACTTCTTGCAATATTGTAGGGTG
9097211 ACACAGCACACCCCAATTGTG
66 ACACAGCACACCCCAATTGTG
9097232 GTGACACGCTGAGTG
1 GTGACACGCTGAGTG
9097247 GAAGCTGATA
Statistics
Matches: 91, Mismatches: 6, Indels: 8
0.87 0.06 0.08
Matches are distributed among these distances:
85 1 0.01
86 84 0.92
87 3 0.03
88 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (86 bp):
GTGACACGCTGAGTGCATGCAGATTTCTGGCGTGACATGCTGACTTCTTGCAATATTGTAGGGTG
ACACAGCACACCCCAATTGTG
Found at i:9097213 original size:117 final size:117
Alignment explanation
Indices: 9096907--9097190 Score: 394
Period size: 117 Copynumber: 2.4 Consensus size: 117
9096897 CAATGAAATC
*
9096907 TTGTGGTGACACACTGAGTGGAAGCAGATACTTGGCGTGACATGTTGACTGCATGCAGATTTCTG
1 TTGTGGTGACACACTGAGTGGAAGCAGATACTTGGCGTGACATGCTGACTGCATGCAGATTTCTG
*
9096972 TGGTGACACGCTGACTTCTTGCAGTATTGTGGGGTGACACTGCACTCCCCAA
66 TGGTGACACGCTGACTTCTTGCAGTATTGTGGAGTGACACTGCACTCCCCAA
* * * *
9097024 TTGTGGTGACACACTAAGTGGAAGCGGATACTTGGCGTGACACGCTGAGTGCATGCAGATTTCTG
1 TTGTGGTGACACACTGAGTGGAAGCAGATACTTGGCGTGACATGCTGACTGCATGCAGATTTCTG
* * *
9097089 TGGTGACATGTTGACTTCTTGCAGTATTGTGGAGTGACA-TG-ACATGCCCCAG
66 TGGTGACACGCTGACTTCTTGCAGTATTGTGGAGTGACACTGCAC-T-CCCCAA
** * * *
9097141 TTGTGGTGACATGCTGAGTGCATGCAGAT-TTCTGGCGTGACATGCTGACT
1 TTGTGGTGACACACTGAGTGGAAGCAGATACT-TGGCGTGACATGCTGACT
9097191 TCTTGCAATA
Statistics
Matches: 146, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
115 2 0.01
116 4 0.03
117 140 0.96
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (117 bp):
TTGTGGTGACACACTGAGTGGAAGCAGATACTTGGCGTGACATGCTGACTGCATGCAGATTTCTG
TGGTGACACGCTGACTTCTTGCAGTATTGTGGAGTGACACTGCACTCCCCAA
Found at i:9097265 original size:86 final size:84
Alignment explanation
Indices: 9097060--9097277 Score: 237
Period size: 86 Copynumber: 2.5 Consensus size: 84
9097050 GATACTTGGC
* * *
9097060 GTGACACGCTGAGTGCATGCAGAT-TTCTGTGGTGACATGTTGACTTCTTGCAGTATTGTGGAGT
1 GTGACACGCTGAGTGCATGCAGATCTT-TG-CGTGACATGCTGACTTCTTGCAATATTGTGGAGT
* *
9097124 GACATGACATGCCCCAGTTGTG
64 GACAAGACA-GCCCCAATTGTG
*
9097146 GTGACATGCTGAGTGCATGCAGAT-TTCTGGCGTGACATGCTGACTTCTTGCAATATTGTAGG-G
1 GTGACACGCTGAGTGCATGCAGATCTT-T-GCGTGACATGCTGACTTCTTGCAATATTGT-GGAG
9097209 TGACACAGCACA-CCCCAATTGTG
63 TGACA-AG-ACAGCCCCAATTGTG
* * * *
9097232 GTGACACGCTGAGTGGAAGCTGATACTTTGCGTGACATGCTAACTT
1 GTGACACGCTGAGTGCATGCAGAT-CTTTGCGTGACATGCTGACTT
9097278 GTTCCAGTAT
Statistics
Matches: 115, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
86 105 0.91
87 5 0.04
88 5 0.04
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (84 bp):
GTGACACGCTGAGTGCATGCAGATCTTTGCGTGACATGCTGACTTCTTGCAATATTGTGGAGTGA
CAAGACAGCCCCAATTGTG
Found at i:9097316 original size:203 final size:203
Alignment explanation
Indices: 9096943--9097319 Score: 483
Period size: 203 Copynumber: 1.9 Consensus size: 203
9096933 GATACTTGGC
* * *
9096943 GTGACATGTTGACTGCATGCAGATTTCTGTGGTGACACGCTGACTTCTTGCAGTATTGTGGGGTG
1 GTGACATGCTGACTGCATGCAGATTTCTGTGGTGACACGCTGACTTCTTGCAATATTGTAGGGTG
* * *
9097008 ACACTGCACTCCCCAATTGTGGTGACACACTAAGTGGAAGCGGATACTTGGCGTGACACGCTGAG
66 ACACAGCACACCCCAATTGTGGTGACACACTAAGTGGAAGCGGATACTTGGCGTGACACGCTAAG
* * * * ** *
9097073 TGCATGCAGATTTCTGTGGTGACATGTTGACTTCTTGCAGTATTGTGGAGTGACATGACATGCCC
131 TGCATCCAGATTTCAGGGGTGACACGTCCACTGCTTGCAGTATTGTGGAGTGACATGACATGCCC
9097138 CAGTTGTG
196 CAGTTGTG
* *
9097146 GTGACATGCTGAGTGCATGCAGATTTCTG-GCGTGACATGCTGACTTCTTGCAATATTGTAGGGT
1 GTGACATGCTGACTGCATGCAGATTTCTGTG-GTGACACGCTGACTTCTTGCAATATTGTAGGGT
* * * * *
9097210 GACACAGCACACCCCAATTGTGGTGACACGCTGAGTGGAAGCTGATACTTTGCGTGACATGCTAA
65 GACACAGCACACCCCAATTGTGGTGACACACTAAGTGGAAGCGGATACTTGGCGTGACACGCTAA
* * *
9097275 CTTG-TTCCAG-TATTCAGGGGTGACACG-CCACATGGTTGCAGTATT
130 -GTGCATCCAGAT-TTCAGGGGTGACACGTCCAC-TGCTTGCAGTATT
9097320 AATTTAAAGG
Statistics
Matches: 147, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
202 4 0.03
203 141 0.96
204 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (203 bp):
GTGACATGCTGACTGCATGCAGATTTCTGTGGTGACACGCTGACTTCTTGCAATATTGTAGGGTG
ACACAGCACACCCCAATTGTGGTGACACACTAAGTGGAAGCGGATACTTGGCGTGACACGCTAAG
TGCATCCAGATTTCAGGGGTGACACGTCCACTGCTTGCAGTATTGTGGAGTGACATGACATGCCC
CAGTTGTG
Found at i:9100977 original size:31 final size:31
Alignment explanation
Indices: 9100936--9101025 Score: 90
Period size: 31 Copynumber: 2.9 Consensus size: 31
9100926 AGAAAGAAAT
*
9100936 AAATATTGTTACACGCCATGCATATCAAGTA
1 AAATGTTGTTACACGCCATGCATATCAAGTA
* ** *
9100967 AAATGTTGTTACATGATATGCATATCAAGTC
1 AAATGTTGTTACACGCCATGCATATCAAGTA
*** * *
9100998 AAATGACATGACACACCATGCATATCAA
1 AAATGTTGTTACACGCCATGCATATCAA
9101026 TGTCGTGACA
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (31 bp):
AAATGTTGTTACACGCCATGCATATCAAGTA
Found at i:9101060 original size:24 final size:24
Alignment explanation
Indices: 9101028--9101089 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
9101018 CATATCAATG
9101028 TCGTGACACACCAACCATGGCATC
1 TCGTGACACACCAACCATGGCATC
*
9101052 TCGTGACACACCAACCATGGCGTC
1 TCGTGACACACCAACCATGGCATC
* *
9101076 TCATGACACGCCAA
1 TCGTGACACACCAA
9101090 TCACTATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.29, C:0.37, G:0.18, T:0.16
Consensus pattern (24 bp):
TCGTGACACACCAACCATGGCATC
Found at i:9101387 original size:55 final size:55
Alignment explanation
Indices: 9101122--9101395 Score: 302
Period size: 55 Copynumber: 5.0 Consensus size: 55
9101112 ACACGAACAA
* * * *
9101122 CCGTGACATGCTAAAAAGCCAAAAAA-TCAGTTAACCCACAATACCCCATATGCAG
1 CCGTGACACGCTAAAAACCCAAAAAACT-AGTTAACCCACAACACGCCATATGCAG
* * * * ** *
9101177 TCGTGACACGCTAAAAACCTAAAAAACCAGTTAACCCACAACACGCCACAAACAA
1 CCGTGACACGCTAAAAACCCAAAAAACTAGTTAACCCACAACACGCCATATGCAG
* ** *
9101232 CCGTGACACGTTAAAAACCCAAAAAACCCGTTAACCCACAACACGCCACGAAT--AG
1 CCGTGACACGCTAAAAACCCAAAAAACTAGTTAACCCACAACACGCCA--TATGCAG
* * *
9101287 CCGTGACACGCTAAAAACCCAAAAAACTAGTTAACCCACAGCATGCCATATGTAG
1 CCGTGACACGCTAAAAACCCAAAAAACTAGTTAACCCACAACACGCCATATGCAG
* * * *
9101342 CCGTGATACACTAAAAACCCAAAAAACTAGTAAACCCACAACATGCCATATGCA
1 CCGTGACACGCTAAAAACCCAAAAAACTAGTTAACCCACAACACGCCATATGCA
9101396 AATGTGGACC
Statistics
Matches: 185, Mismatches: 29, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
53 2 0.01
55 182 0.98
57 1 0.01
ACGTcount: A:0.43, C:0.31, G:0.12, T:0.14
Consensus pattern (55 bp):
CCGTGACACGCTAAAAACCCAAAAAACTAGTTAACCCACAACACGCCATATGCAG
Found at i:9101812 original size:23 final size:23
Alignment explanation
Indices: 9101786--9101846 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
9101776 TTCTTTCAGA
*
9101786 CCATGGCATGTCACATATTCAAC
1 CCATGGCGTGTCACATATTCAAC
* * *
9101809 CCATGGTGTGTCACATGTTCAAG
1 CCATGGCGTGTCACATATTCAAC
*
9101832 CCATGCCGTGTCACA
1 CCATGGCGTGTCACA
9101847 CGTTCTGACC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.26
Consensus pattern (23 bp):
CCATGGCGTGTCACATATTCAAC
Found at i:9101858 original size:23 final size:24
Alignment explanation
Indices: 9101832--9101894 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 24
9101822 CATGTTCAAG
** *
9101832 CCATGCCGTGTCACACGTTCT-GA
1 CCATGCCGTGTCACACACTCTAAA
*
9101855 CCATGGCC-TATCACACACTCTAAA
1 CCAT-GCCGTGTCACACACTCTAAA
*
9101879 CCCTGCCGTGTCACAC
1 CCATGCCGTGTCACAC
9101895 CCGTGACACA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
23 17 0.55
24 14 0.45
ACGTcount: A:0.22, C:0.40, G:0.16, T:0.22
Consensus pattern (24 bp):
CCATGCCGTGTCACACACTCTAAA
Found at i:9102032 original size:23 final size:23
Alignment explanation
Indices: 9102006--9102054 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
9101996 CAGTTGTGTT
*
9102006 ACATATTCTCACCATGACATGTC
1 ACATATTCCCACCATGACATGTC
* *
9102029 ACATATTCCCACCATGTCGTGTC
1 ACATATTCCCACCATGACATGTC
9102052 ACA
1 ACA
9102055 AACTCTATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.29, C:0.33, G:0.10, T:0.29
Consensus pattern (23 bp):
ACATATTCCCACCATGACATGTC
Found at i:9102117 original size:23 final size:24
Alignment explanation
Indices: 9102085--9102148 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 24
9102075 TATAGCCGTA
*
9102085 TCACATATTCTCACT-ATGACATG
1 TCACACATTCTCACTCATGACATG
*
9102108 TCACACATTC-CTA-TCATGTCATG
1 TCACACATTCTC-ACTCATGACATG
*
9102131 TCACACATTTTCAC-CATG
1 TCACACATTCTCACTCATG
9102149 CCGTTTCACA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
22 2 0.06
23 31 0.91
24 1 0.03
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (24 bp):
TCACACATTCTCACTCATGACATG
Found at i:9113174 original size:27 final size:27
Alignment explanation
Indices: 9113090--9113207 Score: 78
Period size: 27 Copynumber: 4.3 Consensus size: 27
9113080 CTTAGTTCTT
* *
9113090 TAAAAATATTCATCCAC-TCTTGGTGGG
1 TAAAATTATACATCCACTTC-TGGTGGG
* * * * * *
9113117 TTAAAAGTATTCATGCACTTATAGTGAG
1 -TAAAATTATACATCCACTTCTGGTGGG
*
9113145 TAAAATTATACATCTACTTCTGGTGGG
1 TAAAATTATACATCCACTTCTGGTGGG
** *
9113172 T-AAATGTATATGTCCACTTTTGGTGGG
1 TAAAAT-TATACATCCACTTCTGGTGGG
*
9113199 TAAAGTTAT
1 TAAAATTAT
9113208 TCTTAGAATT
Statistics
Matches: 70, Mismatches: 17, Indels: 7
0.74 0.18 0.07
Matches are distributed among these distances:
26 4 0.06
27 42 0.60
28 23 0.33
29 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (27 bp):
TAAAATTATACATCCACTTCTGGTGGG
Found at i:9115669 original size:13 final size:13
Alignment explanation
Indices: 9115651--9115675 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9115641 GGAAAATGGG
9115651 ATTTTATAAAATA
1 ATTTTATAAAATA
9115664 ATTTTATAAAAT
1 ATTTTATAAAAT
9115676 TTTTGAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTATAAAATA
Found at i:9118438 original size:19 final size:19
Alignment explanation
Indices: 9118411--9118452 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
9118401 CCATTTGACT
9118411 TATTAGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
*
9118430 TATTGGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
9118449 -ATTA
1 TATTA
9118453 AGAAGTGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.31, C:0.00, G:0.26, T:0.43
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:9124154 original size:20 final size:20
Alignment explanation
Indices: 9124129--9124174 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
9124119 TTTTGGCCTC
9124129 ATTTGACTTATTAGAGTATA
1 ATTTGACTTATTAGAGTATA
* *
9124149 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTAGAGTATA
9124169 ATTTGA
1 ATTTGA
9124175 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.04, G:0.20, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTAGAGTATA
Found at i:9132196 original size:20 final size:20
Alignment explanation
Indices: 9132171--9132216 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
9132161 TTTTGACCCC
9132171 ATTTGACTTATT-AGAGTATA
1 ATTTGACTTATTGA-AGTATA
*
9132191 ATTTGACTTATTGAAGTATG
1 ATTTGACTTATTGAAGTATA
9132211 ATTTGA
1 ATTTGA
9132217 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGAAGTATA
Found at i:9132292 original size:28 final size:27
Alignment explanation
Indices: 9132261--9132313 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
9132251 TTTGGAGTAT
*
9132261 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTT-CCACCTC
*
9132289 AGGGGCAAAATTGTAATTTTCCACC
1 AGGGGCAAAATGGTAATTTTCCACC
9132314 ACCAGGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (27 bp):
AGGGGCAAAATGGTAATTTTCCACCTC
Found at i:9132319 original size:28 final size:28
Alignment explanation
Indices: 9132261--9132319 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
9132251 TTTGGAGTAT
* *
9132261 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTTGCCACCCC
*
9132289 AGGGGCAAAATTGTAATTTT-CCACCACC
1 AGGGGCAAAATGGTAATTTTGCCACC-CC
9132317 AGG
1 AGG
9132320 ATATTTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (28 bp):
AGGGGCAAAATGGTAATTTTGCCACCCC
Found at i:9135835 original size:21 final size:19
Alignment explanation
Indices: 9135800--9135844 Score: 65
Period size: 21 Copynumber: 2.3 Consensus size: 19
9135790 TTTTATGAAT
9135800 TGAATTCATATGCTTTTGA
1 TGAATTCATATGCTTTTGA
9135819 TGAATTGCATGATGCTTTTGA
1 TGAATT-CAT-ATGCTTTTGA
9135840 -GAATT
1 TGAATT
9135845 TAGCATTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.25
20 8 0.33
21 10 0.42
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.44
Consensus pattern (19 bp):
TGAATTCATATGCTTTTGA
Found at i:9137510 original size:20 final size:20
Alignment explanation
Indices: 9137487--9137529 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
9137477 AGAGGAAAGG
9137487 AAGAAAAAAAAGAAAAATCA
1 AAGAAAAAAAAGAAAAATCA
* * *
9137507 AAGAGAAACAAGAAAATTCA
1 AAGAAAAAAAAGAAAAATCA
9137527 AAG
1 AAG
9137530 GGCAATTCGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.72, C:0.07, G:0.14, T:0.07
Consensus pattern (20 bp):
AAGAAAAAAAAGAAAAATCA
Found at i:9148421 original size:10 final size:10
Alignment explanation
Indices: 9148406--9148434 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
9148396 ACGGGTTACA
9148406 AAGAAGAGGG
1 AAGAAGAGGG
9148416 AAGAAGAGGG
1 AAGAAGAGGG
9148426 AAGAAGAGG
1 AAGAAGAGG
9148435 TTAGCAGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (10 bp):
AAGAAGAGGG
Found at i:9154532 original size:31 final size:32
Alignment explanation
Indices: 9154496--9154587 Score: 80
Period size: 34 Copynumber: 2.8 Consensus size: 32
9154486 TTGCCTAAGT
*
9154496 AAAAGG-TAGTG-AGGTTGTGCTTGATCCTTGG
1 AAAAGGATAGTGAAGGTTATGCTTGAT-CTTGG
* *
9154527 AAAAGGCATTGTGAAGGTTATGCTTGATCTTGTA
1 AAAAGG-ATAGTGAAGGTTATGCTTGATCTTG-G
* * *
9154561 AAAAGACATTGTAAAGGTTATGCTTGA
1 AAAAG-GATAGTGAAGGTTATGCTTGA
9154588 GCCTTGACAA
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
31 6 0.12
33 8 0.16
34 37 0.73
ACGTcount: A:0.30, C:0.09, G:0.28, T:0.33
Consensus pattern (32 bp):
AAAAGGATAGTGAAGGTTATGCTTGATCTTGG
Found at i:9154551 original size:34 final size:35
Alignment explanation
Indices: 9154507--9154593 Score: 115
Period size: 34 Copynumber: 2.5 Consensus size: 35
9154497 AAAGGTAGTG
* * * *
9154507 AGGTTGTGCTTGATCCTTG-GAAAAGGCATTGTGA
1 AGGTTATGCTTGATCCTTGTAAAAAGACATTGTAA
9154541 AGGTTATGCTTGAT-CTTGTAAAAAGACATTGTAA
1 AGGTTATGCTTGATCCTTGTAAAAAGACATTGTAA
*
9154575 AGGTTATGCTTGAGCCTTG
1 AGGTTATGCTTGATCCTTG
9154594 ACAATGTATT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
33 4 0.09
34 38 0.83
35 4 0.09
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.34
Consensus pattern (35 bp):
AGGTTATGCTTGATCCTTGTAAAAAGACATTGTAA
Found at i:9163798 original size:56 final size:56
Alignment explanation
Indices: 9163719--9163892 Score: 258
Period size: 56 Copynumber: 3.1 Consensus size: 56
9163709 GTTGGCAAAA
* *
9163719 TGGCCAAGTGAAAATAAAAGAAAATTGGTGCATGTGTTGTGATTGGCTCCAAAGGG
1 TGGCCAAATGAAAATAAAAGAAAATTTGTGCATGTGTTGTGATTGGCTCCAAAGGG
* * * *
9163775 TAGCCAAATGAAAATAAAGGAAAATTTGAGCATGTGTTGTGATTGGCTTCAAAGGG
1 TGGCCAAATGAAAATAAAAGAAAATTTGTGCATGTGTTGTGATTGGCTCCAAAGGG
* * * *
9163831 TGGCCAAATGAAAATAAACGAAAATTTGTGCATGTGTTGTGGTTGGTTCCAATGGG
1 TGGCCAAATGAAAATAAAAGAAAATTTGTGCATGTGTTGTGATTGGCTCCAAAGGG
9163887 TGGCCA
1 TGGCCA
9163893 TATAAATACT
Statistics
Matches: 105, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 105 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (56 bp):
TGGCCAAATGAAAATAAAAGAAAATTTGTGCATGTGTTGTGATTGGCTCCAAAGGG
Found at i:9168148 original size:41 final size:41
Alignment explanation
Indices: 9168103--9168202 Score: 146
Period size: 41 Copynumber: 2.4 Consensus size: 41
9168093 TTAACTTATA
* * *
9168103 AATAAAATACTAATATTTTCAAATATTAATTATTAAAATAT
1 AATAAAATATTAATATTTTCAAATATTAATAATCAAAATAT
* * *
9168144 AATAAAATATTAATATTTTTAACTATTAATAATCAAATTAT
1 AATAAAATATTAATATTTTCAAATATTAATAATCAAAATAT
9168185 AATAAAATATTAATATTT
1 AATAAAATATTAATATTT
9168203 AAATTATCAA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (41 bp):
AATAAAATATTAATATTTTCAAATATTAATAATCAAAATAT
Found at i:9168225 original size:49 final size:49
Alignment explanation
Indices: 9168172--9168446 Score: 139
Period size: 49 Copynumber: 5.6 Consensus size: 49
9168162 TTAACTATTA
* *
9168172 ATAATCAAATTATAATAAAATATTAATATTTAAATTATCAATTATTTAT
1 ATAATTAAATTATAATAAAATATTAATATTTAAATAATCAATTATTTAT
* * * *
9168221 ATAATGATTAAA-T-T-ATAAATTATTAATATTTAAA-AATAAATAATCTTACCA
1 AT-A--ATTAAATTATAATAAAATATTAATATTTAAATAATCAATTAT-TTA--T
* * *
9168272 ATATTTAAATTATAAATAAAATATTAAT-GTT---TCAT-AA-TA-TTA-
1 ATAATTAAATTAT-AATAAAATATTAATATTTAAATAATCAATTATTTAT
* * *
9168314 ATGATTAAATTATAAATAAAATATTAATATTTAAATGATCAATTATTAAT
1 ATAATTAAATTAT-AATAAAATATTAATATTTAAATAATCAATTATTTAT
* * * * * * *
9168364 AT-TTTAAATAAATTATAAATTATTAATATTTAAA-AATTAA-TAATCAT
1 ATAATTAAAT-TATAATAAAATATTAATATTTAAATAATCAATTATTTAT
*
9168411 AATAACATTTAACTTATAAATAAAATATTAATATTT
1 -AT-A-A-TTAAATTAT-AATAAAATATTAATATTT
9168447 TTAAATATTG
Statistics
Matches: 171, Mismatches: 29, Indels: 49
0.69 0.12 0.20
Matches are distributed among these distances:
42 26 0.15
43 2 0.01
45 3 0.02
46 3 0.02
47 8 0.05
48 22 0.13
49 54 0.32
50 8 0.05
51 7 0.04
52 38 0.22
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (49 bp):
ATAATTAAATTATAATAAAATATTAATATTTAAATAATCAATTATTTAT
Found at i:9168289 original size:183 final size:191
Alignment explanation
Indices: 9167973--9168345 Score: 514
Period size: 183 Copynumber: 2.0 Consensus size: 191
9167963 TACAACCCTC
* * * *
9167973 AACTATTAATGATTAAATTATAAATAAAATATTAATACTTAAATTATCCATTATTAATATTTTAA
1 AACTATTAATAATCAAATTATAAATAAAATATTAATACTTAAATTATCAATTATT-ATATTATAA
* *
9168038 ATAAATTATAAATTATAAATTATTAATATTTAAAAATTAATAATCATAAAAACTTTTAACTTATA
65 ATAAATTATAAATTATAAATTATTAATATTTAAAAATAAATAATCATAAAAACTTTTAAATTATA
* *
9168103 AATAAAATACTAATATTTTCA-AATATTAATTATTAAAATAT-AATAAAATATTAATATTTTT
130 AATAAAATACTAAT-GTTTCATAATATTAATGATTAAAATATAAATAAAATATTAATATTTTT
*
9168164 AACTATTAATAATCAAATTAT-AATAAAATATTAATATTTAAATTATCAATTATT-TA-TAT-AA
1 AACTATTAATAATCAAATTATAAATAAAATATTAATACTTAAATTATCAATTATTATATTATAAA
* * **
9168225 T-GA-T-TAAATTATAAATTATTAATATTTAAAAATAAATAATCTTACCAA-TATTTAAATTATA
66 TAAATTATAAATTATAAATTATTAATATTTAAAAATAAATAATCATAAAAACT-TTTAAATTATA
* *
9168286 AATAAAATATTAATGTTTCATAATATTAATGATTAAATTATAAATAAAATATTAATATTT
130 AATAAAATACTAATGTTTCATAATATTAATGATTAAAATATAAATAAAATATTAATATTT
9168346 AAATGATCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
182 6 0.04
183 81 0.49
184 19 0.12
185 1 0.01
186 3 0.02
187 2 0.01
188 2 0.01
190 31 0.19
191 19 0.12
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (191 bp):
AACTATTAATAATCAAATTATAAATAAAATATTAATACTTAAATTATCAATTATTATATTATAAA
TAAATTATAAATTATAAATTATTAATATTTAAAAATAAATAATCATAAAAACTTTTAAATTATAA
ATAAAATACTAATGTTTCATAATATTAATGATTAAAATATAAATAAAATATTAATATTTTT
Found at i:9168325 original size:42 final size:41
Alignment explanation
Indices: 9168276--9168375 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 41
9168266 TTACCAATAT
* *
9168276 TTAAATTATAAATAAAATATTAATGTTTCATAAT-ATTAATGA
1 TTAAATTATAAATAAAATATTAATATTT-A-AATGATCAATGA
*
9168318 TTAAATTATAAATAAAATATTAATATTTAAATGATCAATTA
1 TTAAATTATAAATAAAATATTAATATTTAAATGATCAATGA
*
9168359 TTAATATTTTAAATAAA
1 TTAA-ATTATAAATAAA
9168376 TTATAAATTA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
40 3 0.06
41 11 0.21
42 38 0.73
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (41 bp):
TTAAATTATAAATAAAATATTAATATTTAAATGATCAATGA
Found at i:9168358 original size:143 final size:141
Alignment explanation
Indices: 9168135--9168493 Score: 477
Period size: 143 Copynumber: 2.5 Consensus size: 141
9168125 ATATTAATTA
* * *
9168135 TTAAAATAT-AATAAAATATTAATATTTTTAACTATTAATAATCAAATTATAATAAAATATTAAT
1 TTAAATTATAAATAAAATATTAATATTTTTAA-TATTAATGATTAAATTATAATAAAATATTAAT
* * * *
9168199 ATTTAAATTATCAATTATTTATATAATGATTAAATTATAAATTATTAATATTTAAAAATAAATAA
65 ATTTAAATGATCAATTATTAATATAATAAATAAATTATAAATTATTAATATTTAAAAATAAATAA
* * *
9168264 TCTTACCAATAT
130 TCATAACAACAT
* *
9168276 TTAAATTATAAATAAAATATTAATGTTTCATAATATTAATGATTAAATTATAAATAAAATATTAA
1 TTAAATTATAAATAAAATATTAATATTT-TTAATATTAATGATTAAATTAT-AATAAAATATTAA
** *
9168341 TATTTAAATGATCAATTATTAATATTTTAAATAAATTATAAATTATTAATATTTAAAAATTAATA
64 TATTTAAATGATCAATTATTAATATAATAAATAAATTATAAATTATTAATATTTAAAAATAAATA
*
9168406 ATCATAATAACAT
129 ATCATAACAACAT
* * * *
9168419 TTAACTTATAAATAAAATATTAATATTTTTAAATATTGATGATTAAAATATAATAAAATATAAAT
1 TTAAATTATAAATAAAATATTAATATTTTT-AATATTAATGATTAAATTATAATAAAATATTAAT
9168484 ACTTTTAAAT
65 A--TTTAAAT
9168494 ATTAATGATT
Statistics
Matches: 190, Mismatches: 22, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
141 8 0.04
142 48 0.25
143 127 0.67
144 7 0.04
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (141 bp):
TTAAATTATAAATAAAATATTAATATTTTTAATATTAATGATTAAATTATAATAAAATATTAATA
TTTAAATGATCAATTATTAATATAATAAATAAATTATAAATTATTAATATTTAAAAATAAATAAT
CATAACAACAT
Found at i:9168446 original size:26 final size:23
Alignment explanation
Indices: 9168307--9168446 Score: 86
Period size: 26 Copynumber: 5.6 Consensus size: 23
9168297 AATGTTTCAT
*
9168307 AATATTAATGATTAAATTATAAATAA
1 AATATTAAT-ATTTAA--ATAAATAA
* *
9168333 AATATTAATATTTAAAT-GATCA
1 AATATTAATATTTAAATAAATAA
*
9168355 ATTATTAATATTTTAAATAAATTATA
1 AATATTAATA-TTTAAATAAA-TA-A
*
9168381 AATTATTAATATTTAAA-AATTAA
1 AA-TATTAATATTTAAATAAATAA
*
9168404 TAATCATAATAACATTTAACTTATAAATAA
1 -AAT-AT--TAATATTTAA---ATAAATAA
9168434 AATATTAATATTT
1 AATATTAATATTT
9168447 TTAAATATTG
Statistics
Matches: 90, Mismatches: 11, Indels: 26
0.71 0.09 0.20
Matches are distributed among these distances:
22 12 0.13
23 11 0.12
24 7 0.08
25 8 0.09
26 33 0.37
27 8 0.09
28 2 0.02
29 4 0.04
30 5 0.06
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (23 bp):
AATATTAATATTTAAATAAATAA
Found at i:9168476 original size:41 final size:41
Alignment explanation
Indices: 9168429--9168528 Score: 155
Period size: 41 Copynumber: 2.4 Consensus size: 41
9168419 TTAACTTATA
*
9168429 AATAAAATATTAATATTTTTAAATATTGATGATTAAAATAT
1 AATAAAATATTAATATTTTTAAATATTAATGATTAAAATAT
* * *
9168470 AATAAAATATAAATACTTTTAAATATTAATGATTAAATTAT
1 AATAAAATATTAATATTTTTAAATATTAATGATTAAAATAT
*
9168511 AACAAAATATTAATATTT
1 AATAAAATATTAATATTT
9168529 AAATTATCAA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (41 bp):
AATAAAATATTAATATTTTTAAATATTAATGATTAAAATAT
Found at i:9168520 original size:25 final size:27
Alignment explanation
Indices: 9168489--9168564 Score: 88
Period size: 25 Copynumber: 2.9 Consensus size: 27
9168479 TAAATACTTT
9168489 TAAATATTAATGATTAAATTATAA-CA
1 TAAATATTAATGATTAAATTATAATCA
*
9168515 -AAATATTAAT-ATTTAAATTATCAATTA
1 TAAATATTAATGA-TTAAATTAT-AATCA
*
9168542 TTAATA-TAATGATTAAATTATAA
1 TAAATATTAATGATTAAATTATAA
9168565 ATTATTAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
24 1 0.02
25 19 0.44
26 4 0.09
27 14 0.33
28 5 0.12
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (27 bp):
TAAATATTAATGATTAAATTATAATCA
Found at i:9168546 original size:22 final size:22
Alignment explanation
Indices: 9168518--9168698 Score: 77
Period size: 23 Copynumber: 7.7 Consensus size: 22
9168508 TATAACAAAA
*
9168518 TATTAATATTTAAATTATCAAT
1 TATTAATATTTAAATTATAAAT
9168540 TATTAATATAATGATTAAATTATAAAT
1 TATT-A-AT-AT--TTAAATTATAAAT
* *
9168567 TATTAATATTTAAAACTAAATAAT
1 TATTAATATTT-AAATTATA-AAT
** *
9168591 CATAAGAAGATTTAAATTATAAAT
1 --TATTAATATTTAAATTATAAAT
9168615 AAAATATTAATATTTCATAATGT-T-AAT
1 ----TATTAATATTT-A-AAT-TATAAAT
*
9168642 GATTAA-ATTATAAA-TA-AAA-
1 TATTAATATT-TAAATTATAAAT
*
9168661 TATTAATATTTAAATTATCAAT
1 TATTAATATTTAAATTATAAAT
*
9168683 TAGTAATATTTTAAAT
1 TATTAATA-TTTAAAT
9168699 GAATTATAAC
Statistics
Matches: 121, Mismatches: 16, Indels: 43
0.67 0.09 0.24
Matches are distributed among these distances:
19 10 0.08
20 7 0.06
21 4 0.03
22 17 0.14
23 20 0.17
24 10 0.08
25 10 0.08
26 18 0.15
27 20 0.17
28 4 0.03
29 1 0.01
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (22 bp):
TATTAATATTTAAATTATAAAT
Found at i:9168546 original size:183 final size:184
Alignment explanation
Indices: 9168276--9168675 Score: 583
Period size: 183 Copynumber: 2.2 Consensus size: 184
9168266 TTACCAATAT
* * *
9168276 TTAAATTATAAATAAAATATTAATGTTTCATAATATTAATGATTAAATTATAAATAAAATATTAA
1 TTAAATTATAAATAAAATATTAATATTTTA-AATATTAATGATTAAATTATAAACAAAATATTAA
** *
9168341 TATTTAAATGATCAATTATTAATATTTTAAATAAATTATAAATTATTAATATTTAAAAATTAATA
65 TATTTAAATGATCAATTATTAATATAATAAATAAATTATAAATTATTAATATTTAAAAATAAATA
* * * *
9168406 ATCATAATAACATTTAACTTATAAATAAAATATTAATATTT-TTAAATATTGATGA
130 ATCATAAGAACATTTAAATTATAAATAAAATATTAATATTTCAT-AATATTAATGA
* *
9168461 TTAAAATAT-AATAAAATATAAATACTTTTAAATATTAATGATTAAATTAT-AACAAAATATTAA
1 TTAAATTATAAATAAAATATTAATA-TTTTAAATATTAATGATTAAATTATAAACAAAATATTAA
* * * *
9168524 TATTTAAATTATCAATTATTAATATAATGATTAAATTATAAATTATTAATATTTAAAACTAAATA
65 TATTTAAATGATCAATTATTAATATAATAAATAAATTATAAATTATTAATATTTAAAAATAAATA
* *
9168589 ATCATAAGAAGATTTAAATTATAAATAAAATATTAATATTTCATAATGTTAATGA
130 ATCATAAGAACATTTAAATTATAAATAAAATATTAATATTTCATAATATTAATGA
9168644 TTAAATTATAAATAAAATATTAATA-TTTAAAT
1 TTAAATTATAAATAAAATATTAATATTTTAAAT
9168676 TATCAATTAG
Statistics
Matches: 192, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
182 7 0.04
183 125 0.65
184 48 0.25
185 12 0.06
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (184 bp):
TTAAATTATAAATAAAATATTAATATTTTAAATATTAATGATTAAATTATAAACAAAATATTAAT
ATTTAAATGATCAATTATTAATATAATAAATAAATTATAAATTATTAATATTTAAAAATAAATAA
TCATAAGAACATTTAAATTATAAATAAAATATTAATATTTCATAATATTAATGA
Found at i:9168576 original size:326 final size:326
Alignment explanation
Indices: 9167976--9168726 Score: 1180
Period size: 326 Copynumber: 2.3 Consensus size: 326
9167966 AACCCTCAAC
* *
9167976 TATTAATGATTAAATTATAAATAAAATATTAATACTTAAATTATCCATTATTAATATTTTAAATA
1 TATTAATGATTAAATTATAAATAAAATATTAATATTTAAATTATCAATTATTAATA-TTT---T-
*
9168041 AATTATAAATTATAAATTATTAATATTTAAAAATTAATAATCATAAAAACTTTTAACTTATAAAT
61 AA--ATAAATTATAAATTATTAATATTTAAAAATTAATAATCATAAAAACATTTAACTTATAAAT
* * * *
9168106 AAAATACTAATATTTTCAAATATTAATTATTAAAATATAATAAAATATTAATATTTTTAACTATT
124 AAAATACTAATATTTTCAAATATTAATGATTAAAATATAATAAAATATAAATACTTTTAAATATT
* *
9168171 AATAATCAAATTATAATAAAATATTAATATTTAAATTATCAATTATTTATATAATGATTAAATTA
189 AATAATCAAATTATAACAAAATATTAATATTTAAATTATCAATTATTAATATAATGATTAAATTA
* * * *
9168236 TAAATTATTAATATTTAAAAATAAATAATCTTACCAATATTTAAATTATAAATAAAATATTAATG
254 TAAATTATTAATATTTAAAAATAAATAATCATAACAAGATTTAAATTATAAATAAAATATTAATA
9168301 TTTCATAA
319 TTTCATAA
*
9168309 TATTAATGATTAAATTATAAATAAAATATTAATATTTAAATGATCAATTATTAATATTTTAAATA
1 TATTAATGATTAAATTATAAATAAAATATTAATATTTAAATTATCAATTATTAATATTTTAAATA
* *
9168374 AATTATAAATTATTAATATTTAAAAATTAATAATCATAATAACATTTAACTTATAAATAAAATAT
66 AATTATAAATTATTAATATTTAAAAATTAATAATCATAAAAACATTTAACTTATAAATAAAATAC
* * * *
9168439 TAATATTTTTAAATATTGATGATTAAAATATAATAAAATATAAATACTTTTAAATATTAATGATT
131 TAATATTTTCAAATATTAATGATTAAAATATAATAAAATATAAATACTTTTAAATATTAATAATC
9168504 AAATTATAACAAAATATTAATATTTAAATTATCAATTATTAATATAATGATTAAATTATAAATTA
196 AAATTATAACAAAATATTAATATTTAAATTATCAATTATTAATATAATGATTAAATTATAAATTA
* *
9168569 TTAATATTTAAAACTAAATAATCATAAGAAGATTTAAATTATAAATAAAATATTAATATTTCATA
261 TTAATATTTAAAAATAAATAATCATAACAAGATTTAAATTATAAATAAAATATTAATATTTCATA
9168634 A
326 A
* * *
9168635 TGTTAATGATTAAATTATAAATAAAATATTAATATTTAAATTATCAATTAGTAATATTTTAAATG
1 TATTAATGATTAAATTATAAATAAAATATTAATATTTAAATTATCAATTATTAATATTTTAAATA
* *
9168700 AATTATAACTTA-CATATATTTAAAAAT
66 AATTATAAATTATTA-ATATTTAAAAAT
9168727 AAAATAAAAT
Statistics
Matches: 389, Mismatches: 28, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
325 1 0.00
326 329 0.85
328 2 0.01
329 1 0.00
332 3 0.01
333 53 0.14
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (326 bp):
TATTAATGATTAAATTATAAATAAAATATTAATATTTAAATTATCAATTATTAATATTTTAAATA
AATTATAAATTATTAATATTTAAAAATTAATAATCATAAAAACATTTAACTTATAAATAAAATAC
TAATATTTTCAAATATTAATGATTAAAATATAATAAAATATAAATACTTTTAAATATTAATAATC
AAATTATAACAAAATATTAATATTTAAATTATCAATTATTAATATAATGATTAAATTATAAATTA
TTAATATTTAAAAATAAATAATCATAACAAGATTTAAATTATAAATAAAATATTAATATTTCATA
A
Found at i:9168704 original size:143 final size:141
Alignment explanation
Indices: 9168461--9168729 Score: 362
Period size: 143 Copynumber: 1.9 Consensus size: 141
9168451 ATATTGATGA
*
9168461 TTAAAATATAATAAAATATAAATACTTTTAAATATTAATGATTAAATTATAACAAAATATTAATA
1 TTAAAATATAATAAAATATAAATACTTTCAAATATTAATGATTAAATTATAACAAAATATTAATA
* * * * *
9168526 TTTAAATTATCAATTATTAATATAATGATTAAATTATAAATTA-TTAATATTTAAAACTAAATAA
66 TTTAAATTATCAATTAGTAATATAATAAATAAATTATAAATTACAT-ATATTTAAAAATAAATAA
9168590 TCATAAGAAGAT
130 TCATAAGAAGAT
* * * *
9168602 TTAAATTATAAATAAAATATTAATA-TTTCATAATGTTAATGATTAAATTATAAATAAAATATTA
1 TTAAAATAT-AATAAAATATAAATACTTTCA-AATATTAATGATTAAATTAT-AACAAAATATTA
** * *
9168666 ATATTTAAATTATCAATTAGTAATATTTTAAATGAATTATAACTTACATATATTTAAAAATAAA
63 ATATTTAAATTATCAATTAGTAATATAATAAATAAATTATAAATTACATATATTTAAAAATAAA
9168730 ATAAAATAAA
Statistics
Matches: 110, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
141 12 0.11
142 33 0.30
143 64 0.58
144 1 0.01
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (141 bp):
TTAAAATATAATAAAATATAAATACTTTCAAATATTAATGATTAAATTATAACAAAATATTAATA
TTTAAATTATCAATTAGTAATATAATAAATAAATTATAAATTACATATATTTAAAAATAAATAAT
CATAAGAAGAT
Found at i:9169018 original size:160 final size:156
Alignment explanation
Indices: 9168274--9169046 Score: 610
Period size: 160 Copynumber: 4.8 Consensus size: 156
9168264 TCTTACCAAT
* *
9168274 ATTTAAATTATAAATAAAATATTAATGTTTCATAATATTAATGATTAAATTATAAATAAAATATT
1 ATTTAAATTAT-AAT-AAATATTAATATTT-ATAATGTTAATGATTAAATTATAAATAAAATATT
* * *
9168339 AATATTTAAATGATCAATTATTAATATTTTAAATAAATTATAAATTATTAATATTTAAAAAT-TA
63 AATATTTAAATTATCAATTATTAATATTTTAAATAAATTATAAATTATTAATATTAAAAAATAAA
* * * * * *
9168403 ATAATCATAATAACATTTAACTTATAAATAAA
128 ATAA-AATAAAAAAAATTAA-TCAT-AATAAC
* * * *
9168435 ATATTAATATT-T-TTAAATATTGATGA-TTAAAAT-ATAAT-A--AAA-TATAAATACTTTTAA
1 AT-TTAA-ATTATAATAAATATTAAT-ATTTATAATGTTAATGATTAAATTATAAATA-----AA
* * * ** *
9168492 ATATTAATGA-TTAAATTAT-AA-CA-AAATATTAATATTTAAATTATCAATTATTAATA-TAAT
58 ATATTAAT-ATTTAAATTATCAATTATTAATATT-TTAAATAAATTATAAATTATTAATATTAA-
* * *
9168552 GATTAAATTATAAATTATTAATATTTAAAACTAAA-TAATCATAAGAAG
120 -A--AAA-TA-AAA-TA--AA-A--TAAAA-AAAATTAATCATAATAAC
9168600 ATTTAAATTATAAATAAAATATTAATATTTCATAATGTTAATGATTAAATTATAAATAAAATATT
1 ATTTAAATTAT-AAT-AAATATTAATATTT-ATAATGTTAATGATTAAATTATAAATAAAATATT
* * * * *
9168665 AATATTTAAATTATCAATTAGTAATATTTTAAATGAATTATAACTTA-CATATATTTAAAAATAA
63 AATATTTAAATTATCAATTATTAATATTTTAAATAAATTATAAATTATTA-ATATTAAAAAATAA
*
9168729 AATAAAATAAAAATAATTAATCATAATAAC
127 AATAAAATAAAAAAAATTAATCATAATAAC
* * *
9168759 ATTTAAATTATAATAAACTATTAATATTTTATAATGTTAGT-ATTGAATTATAAATGAAATGA-T
1 ATTTAAATTATAATAAA-TATTAATA-TTTATAATGTTAATGATTAAATTATAAATAAAAT-ATT
* *
9168822 ATTATTTAAATTATCAATTATTAATATTTGAAATAAATTATAAATTATTAATATTCAAAAAATAA
63 AATATTTAAATTATCAATTATTAATATTTTAAATAAATTATAAATTATTAATATT-AAAAAATAA
*
9168887 AATAAAATAAAATAAAAATTAATCATAATAAT
127 AATAAAAT-AAA-AAAAATTAATCATAATAAC
* * * * * *
9168919 ATTTAAGTTCTAATAAATATTAATCTTATATAATGCTAATGATTAAATTATATATAAAATTTTAA
1 ATTTAAATTATAATAAATATTAATATT-TATAATGTTAATGATTAAATTATAAATAAAATATTAA
* * * * * * * *
9168984 CACTTAAATTATCAGTTATTATTTTTTTAAATAAATTATAAATTTTTAAAAATAAAAAATAAA
65 TATTTAAATTATCAATTATTAATATTTTAAATAAATTATAAATTATTAATATTAAAAAATAAA
9169047 TAATCATATA
Statistics
Matches: 489, Mismatches: 71, Indels: 106
0.73 0.11 0.16
Matches are distributed among these distances:
153 8 0.02
154 3 0.01
155 8 0.02
156 23 0.05
157 75 0.15
158 65 0.13
159 75 0.15
160 96 0.20
161 3 0.01
162 9 0.02
163 8 0.02
164 7 0.01
165 11 0.02
166 7 0.01
167 22 0.04
168 24 0.05
169 8 0.02
170 18 0.04
171 8 0.02
172 3 0.01
173 8 0.02
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.41
Consensus pattern (156 bp):
ATTTAAATTATAATAAATATTAATATTTATAATGTTAATGATTAAATTATAAATAAAATATTAAT
ATTTAAATTATCAATTATTAATATTTTAAATAAATTATAAATTATTAATATTAAAAAATAAAATA
AAATAAAAAAAATTAATCATAATAAC
Done.