Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 123 of 318
Found at i:38579899 original size:18 final size:18
Alignment explanation
Indices: 38579876--38579913 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
38579866 AATTATAGTT
38579876 TTTAGGATTTTAAATAAA
1 TTTAGGATTTTAAATAAA
38579894 TTTAGGATTTTAAATAAA
1 TTTAGGATTTTAAATAAA
38579912 TT
1 TT
38579914 AGGGCTTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (18 bp):
TTTAGGATTTTAAATAAA
Found at i:38582780 original size:86 final size:86
Alignment explanation
Indices: 38582690--38582870 Score: 355
Period size: 86 Copynumber: 2.1 Consensus size: 86
38582680 AATATAATTG
38582690 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
1 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
38582755 TGTTAAGTATTAATGTTGATA
66 TGTTAAGTATTAATGTTGATA
38582776 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
1 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
38582841 TGTTAAGTATTAATGTTGATA
66 TGTTAAGTATTAATGTTGATA
38582862 TAATT-TTAT
1 TAATTATTAT
38582871 GTGGAGAGAA
Statistics
Matches: 95, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 4 0.04
86 91 0.96
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (86 bp):
TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
TGTTAAGTATTAATGTTGATA
Found at i:38582910 original size:23 final size:23
Alignment explanation
Indices: 38582881--38582925 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
38582871 GTGGAGAGAA
38582881 TTATATTTTTATATTAATTAATT
1 TTATATTTTTATATTAATTAATT
38582904 TTATATTTTTATATTAATTAAT
1 TTATATTTTTATATTAATTAAT
38582926 AAAAATTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
TTATATTTTTATATTAATTAATT
Found at i:38583035 original size:51 final size:51
Alignment explanation
Indices: 38582960--38583289 Score: 414
Period size: 51 Copynumber: 6.0 Consensus size: 51
38582950 TATACGTAAA
38582960 AATTAT-CATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
38583010 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGG----TAA-A-T-----AAC-ATTAAACCAAC
38583073 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
38583124 AATTATACATACACCAACAATG-TTTTTAGGGTAAATAACATTAAACCAACAATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGG----TAA-A-T-----AAC-ATTAAACCAAC
38583186 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
38583237 AATTATACATACACCAACAATGTTTTTTAGGG-ACAATAACATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTA-AATAACATTAAACCAAC
38583288 AA
1 AA
38583290 GTAATTTTAG
Statistics
Matches: 253, Mismatches: 0, Indels: 53
0.83 0.00 0.17
Matches are distributed among these distances:
50 16 0.06
51 120 0.47
52 6 0.02
54 3 0.01
55 4 0.02
56 2 0.01
57 3 0.01
58 2 0.01
59 6 0.02
61 3 0.01
62 36 0.14
63 52 0.21
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.28
Consensus pattern (51 bp):
AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
Found at i:38583067 original size:12 final size:12
Alignment explanation
Indices: 38583050--38583077 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
38583040 GGTAAATAAC
38583050 ATTAAACCAACA
1 ATTAAACCAACA
38583062 ATTAAACCAACA
1 ATTAAACCAACA
38583074 ATTA
1 ATTA
38583078 TACATACACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.21, G:0.00, T:0.21
Consensus pattern (12 bp):
ATTAAACCAACA
Found at i:38583077 original size:63 final size:63
Alignment explanation
Indices: 38582999--38583128 Score: 260
Period size: 63 Copynumber: 2.1 Consensus size: 63
38582989 GGTAAATAAC
38582999 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
38583062 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
38583125 ATTA
1 ATTA
38583129 TACATACACC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.48, C:0.18, G:0.06, T:0.28
Consensus pattern (63 bp):
ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
Found at i:38583179 original size:113 final size:114
Alignment explanation
Indices: 38582960--38583289 Score: 630
Period size: 113 Copynumber: 2.9 Consensus size: 114
38582950 TATACGTAAA
38582960 AATTAT-CATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACAC
38583024 CAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTAAACCAAC
66 CAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTAAACCAAC
38583073 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACAC
38583138 CAACAATG-TTTTTAGGGTAAATAACATTAAACCAACAATTAAACCAAC
66 CAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTAAACCAAC
38583186 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACAC
38583251 CAACAATGTTTTTTAGGG-ACAATAACATTAAACCAACAA
66 CAACAATGTTTTTTAGGGTA-AATAACATTAAACCAACAA
38583290 GTAATTTTAG
Statistics
Matches: 214, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
113 120 0.56
114 94 0.44
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.28
Consensus pattern (114 bp):
AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACAC
CAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTAAACCAAC
Found at i:38583180 original size:12 final size:12
Alignment explanation
Indices: 38583163--38583190 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
38583153 GGTAAATAAC
38583163 ATTAAACCAACA
1 ATTAAACCAACA
38583175 ATTAAACCAACA
1 ATTAAACCAACA
38583187 ATTA
1 ATTA
38583191 TACATACACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.21, G:0.00, T:0.21
Consensus pattern (12 bp):
ATTAAACCAACA
Found at i:38583298 original size:33 final size:34
Alignment explanation
Indices: 38583235--38583345 Score: 115
Period size: 33 Copynumber: 3.4 Consensus size: 34
38583225 CATTAAACCA
* *
38583235 ACAATTATACATACACCAACAATGT-TTTTTAGGG
1 ACAATTATACATAAACCAACAA-GTAATTTTAGGG
38583269 ACAA-TA-ACATTAAACCAACAAGTAATTTTA-GG
1 ACAATTATACA-TAAACCAACAAGTAATTTTAGGG
* * *
38583301 TCAATTATACATACACCAACAATTAATTTTA-GG
1 ACAATTATACATAAACCAACAAGTAATTTTAGGG
*
38583334 TCAATTATACAT
1 ACAATTATACAT
38583346 GCTTTATAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
32 10 0.15
33 51 0.75
34 7 0.10
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (34 bp):
ACAATTATACATAAACCAACAAGTAATTTTAGGG
Found at i:38586906 original size:38 final size:39
Alignment explanation
Indices: 38586855--38587273 Score: 120
Period size: 39 Copynumber: 10.5 Consensus size: 39
38586845 ATATATTATG
*
38586855 ATTTCAGTAAATTA-ATATAAGAATATTATCCATTAAGA
1 ATTTCATTAAATTATATATAAGAATATTATCCATTAAGA
* * ** * *
38586893 ATTTCATTAAATTATATATTTAATTAAAATATATTTAATAATA
1 ATTTCATTAAATTATATA--TAA-GAATAT-TATCCATTAAGA
* * * * * * * ** *
38586936 ATTAT-GTTAATTTATATTTTACAGTATCATATATTATG-
1 ATT-TCATTAAATTATATATAAGAATATTATCCATTAAGA
*
38586974 ATTTCAGTAAATTA-ATATAAGAATATTATCCAATTAAGA
1 ATTTCATTAAATTATATATAAGAATATTATCC-ATTAAGA
* * ** * *
38587013 ATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAATA
1 ATTTCATTAAATTATATA---TAA-GAATAT-TATCCATTAAGA
* * * * * * * ** *
38587057 ATTAT-GTTAATTTATATTTTACAGTATCATATATTATG-
1 ATT-TCATTAAATTATATATAAGAATATTATCCATTAAGA
*
38587095 ATTTCAGTAAATTA-ATATAAGAATATTATCCAATTAAGA
1 ATTTCATTAAATTATATATAAGAATATTATCC-ATTAAGA
* * ** * *
38587134 ATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAATA
1 ATTTCATTAAATTATATA---TAA-GAATAT-TATCCATTAAGA
* * * * * * * ** *
38587178 ATTAT-GTTAATTTATATTTTACAGTATCATATATTATG-
1 ATT-TCATTAAATTATATATAAGAATATTATCCATTAAGA
*
38587216 ATTTCAGTAAATTA-ATATAAGAATATTATCCAATTAAGA
1 ATTTCATTAAATTATATATAAGAATATTATCC-ATTAAGA
38587255 ATTTCATTAAATTATATAT
1 ATTTCATTAAATTATATAT
38587274 TTTAATTAAA
Statistics
Matches: 260, Mismatches: 91, Indels: 58
0.64 0.22 0.14
Matches are distributed among these distances:
37 33 0.13
38 55 0.21
39 60 0.23
40 19 0.07
41 9 0.03
42 4 0.02
43 27 0.10
44 45 0.17
45 8 0.03
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (39 bp):
ATTTCATTAAATTATATATAAGAATATTATCCATTAAGA
Found at i:38586913 original size:17 final size:17
Alignment explanation
Indices: 38586893--38586926 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
38586883 TCCATTAAGA
* *
38586893 ATTTCATTAAATTATAT
1 ATTTAATTAAAATATAT
38586910 ATTTAATTAAAATATAT
1 ATTTAATTAAAATATAT
38586927 TTAATAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAAATATAT
Found at i:38587124 original size:121 final size:120
Alignment explanation
Indices: 38586336--38587426 Score: 1906
Period size: 120 Copynumber: 9.1 Consensus size: 120
38586326 TAGTATAAGT
*
38586336 TAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATA
1 TAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATA
**
38586401 TTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAAATATATTTAATAA
66 TTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAAATATATTTAATAA
*
38586456 TAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATA
1 TAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATA
**
38586521 TTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAAATATATTTAATAA
66 TTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAAATATATTTAATAA
*
38586576 TAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATA
1 TAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATA
**
38586641 TTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAAATATATTTAATAA
66 TTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAAATATATTTAATAA
*
38586696 TAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATA
1 TAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATA
38586761 TTAATTATTAAGAATTT-ATTAAATTATATAGTTTAATTAAAATATATTTAATAA
66 TTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAAATATATTTAATAA
38586815 TAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATA
1 TAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATA
*
38586880 TT-ATCCATTAAGAATTTCATTAAATTATATA-TTTAATTAAAATATATTTAATAA
66 TTAAT-TATTAAGAATTTCATTAAATTATATAGTTTAATTAAAATATATTTAATAA
38586934 TAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATA
1 TAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATA
* *
38586999 TT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAA
66 TTAAT--TATTAAGAATTTCATTAAATTATATAGTTTAATTAAAATATATTTAATAA
38587055 TAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATA
1 TAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATA
* *
38587120 TT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAA
66 TTAAT--TATTAAGAATTTCATTAAATTATATAGTTTAATTAAAATATATTTAATAA
38587176 TAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATA
1 TAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATA
* *
38587241 TT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAA
66 TTAAT--TATTAAGAATTTCATTAAATTATATAGTTTAATTAAAATATATTTAATAA
38587297 TAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATA
1 TAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATA
* *
38587362 TTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAA
66 TTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAAATATATTTAATAA
38587417 TAATTATGTT
1 TAATTATGTT
38587427 TAAATATGAA
Statistics
Matches: 960, Mismatches: 6, Indels: 10
0.98 0.01 0.01
Matches are distributed among these distances:
118 2 0.00
119 205 0.21
120 419 0.44
121 332 0.35
122 2 0.00
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (120 bp):
TAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATA
TTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAAATATATTTAATAA
Found at i:38587403 original size:18 final size:17
Alignment explanation
Indices: 38587375--38587409 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
38587365 ATTATTAAGA
*
38587375 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
38587392 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
38587410 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:38587623 original size:44 final size:45
Alignment explanation
Indices: 38587574--38587664 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
38587564 ACCTCTATTC
* * *
38587574 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
38587618 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
38587663 CA
1 CA
38587665 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:38587666 original size:16 final size:16
Alignment explanation
Indices: 38587645--38587713 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
38587635 GATTAGCTAT
38587645 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
38587661 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
38587678 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
38587694 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
38587710 TACA
1 TACA
38587714 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:38587687 original size:33 final size:32
Alignment explanation
Indices: 38587645--38587713 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
38587635 GATTAGCTAT
38587645 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
38587678 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
38587710 TACA
1 TACA
38587714 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:38587819 original size:34 final size:34
Alignment explanation
Indices: 38587780--38587848 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
38587770 TTGGGTTTAT
* * *
38587780 TAAATTAAGGTT-TGGGTTTTTTAAATAGATTAAG
1 TAAATTAAGGTTCTAGG-ATTTTAAATAAATTAAG
*
38587814 TAAATTAGGGTTCTAGGATTTTAAATAAATTAAG
1 TAAATTAAGGTTCTAGGATTTTAAATAAATTAAG
38587848 T
1 T
38587849 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:38587861 original size:22 final size:22
Alignment explanation
Indices: 38587827--38587878 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
38587817 ATTAGGGTTC
* * *
38587827 TAGGATTTTAAATAAATTAAGT
1 TAGGGTTTAAAATAAATTAAAT
38587849 TAGGGTTTAAAATAAATTAAAT
1 TAGGGTTTAAAATAAATTAAAT
38587871 TAGGGTTT
1 TAGGGTTT
38587879 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:38587911 original size:21 final size:22
Alignment explanation
Indices: 38587864--38587913 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
38587854 TTTAAAATAA
* *
38587864 ATTAAATTAGGGTTTTTGGTTT
1 ATTAAATTAAGGTTTGTGGTTT
38587886 ATTAAATTAAGGTTTGT-GTTT
1 ATTAAATTAAGGTTTGTGGTTT
*
38587907 TTTAAAT
1 ATTAAAT
38587914 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:38587926 original size:34 final size:34
Alignment explanation
Indices: 38587888--38587956 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
38587878 TTTGGTTTAT
** *
38587888 TAAATTAAGGTTTGT-GTTTTTTAAATAGATTAAG
1 TAAATTAAGGTTT-TAGGGTTTTAAATAAATTAAG
38587922 TAAATTAAGGTTTTAGGGTTTTAAATAAATTAAG
1 TAAATTAAGGTTTTAGGGTTTTAAATAAATTAAG
38587956 T
1 T
38587957 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:38587962 original size:21 final size:22
Alignment explanation
Indices: 38587938--38587986 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
38587928 AAGGTTTTAG
*
38587938 GGTTTTAAATAAATTAAGTT-A
1 GGTTTTAAATAAATTAAATTAA
*
38587959 GGTTTAAAATAAATTAAATTAA
1 GGTTTTAAATAAATTAAATTAA
38587981 GGTTTT
1 GGTTTT
38587987 GGGTTTATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (22 bp):
GGTTTTAAATAAATTAAATTAA
Found at i:38587997 original size:107 final size:108
Alignment explanation
Indices: 38587731--38588071 Score: 531
Period size: 107 Copynumber: 3.1 Consensus size: 108
38587721 AAACGTGCCC
*
38587731 TAAGTTAGGGTTTAAAATAAATTAAATTAGGGTTTGGGTTTGGGTTTATTAAATTAAGGTTTGGG
1 TAAGTTAGGGTTTAAAATAAATTAAATTAGGG--T---TTTGGGTTTATTAAATTAAGGTTTGTG
* *
38587796 TTTTTTAAATAGATTAAGTAAATTAGGGTTCTAGGATTTTAAATAAAT
61 TTTTTTAAATAGATTAAGTAAATTAGGGTTTTAGGGTTTTAAATAAAT
*
38587844 TAAGTTAGGGTTTAAAATAAATTAAATTAGGGTTTTTGGTTTATTAAATTAAGGTTTGTGTTTTT
1 TAAGTTAGGGTTTAAAATAAATTAAATTAGGGTTTTGGGTTTATTAAATTAAGGTTTGTGTTTTT
*
38587909 TAAATAGATTAAGTAAATTAAGGTTTTAGGGTTTTAAATAAAT
66 TAAATAGATTAAGTAAATTAGGGTTTTAGGGTTTTAAATAAAT
* * *
38587952 TAAGTTA-GGTTTAAAATAAATTAAATTAAGGTTTTGGGTTTATTAAATTAGGGTTTATGTTTTT
1 TAAGTTAGGGTTTAAAATAAATTAAATTAGGGTTTTGGGTTTATTAAATTAAGGTTTGTGTTTTT
*
38588016 TAAATTGATTAAGTAAATTAGGGTTTTAGGGTTTTAAATAAAT
66 TAAATAGATTAAGTAAATTAGGGTTTTAGGGTTTTAAATAAAT
* *
38588059 TAAATTAAGGTTT
1 TAAGTTAGGGTTT
38588072 TGGGTTTATT
Statistics
Matches: 215, Mismatches: 12, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
107 100 0.47
108 82 0.38
111 1 0.00
113 32 0.15
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (108 bp):
TAAGTTAGGGTTTAAAATAAATTAAATTAGGGTTTTGGGTTTATTAAATTAAGGTTTGTGTTTTT
TAAATAGATTAAGTAAATTAGGGTTTTAGGGTTTTAAATAAAT
Found at i:38588018 original size:21 final size:21
Alignment explanation
Indices: 38587971--38588021 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
38587961 TTTAAAATAA
38587971 ATTAAATTAAGGTTTTGGGTTT
1 ATTAAATTAAGGTTTT-GGTTT
*
38587993 ATTAAATTAGGGTTTAT-GTTT
1 ATTAAATTAAGGTTT-TGGTTT
*
38588014 TTTAAATT
1 ATTAAATT
38588022 GATTAAGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 11 0.42
22 14 0.54
23 1 0.04
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (21 bp):
ATTAAATTAAGGTTTTGGTTT
Found at i:38588061 original size:34 final size:34
Alignment explanation
Indices: 38587995--38588061 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
38587985 TTGGGTTTAT
** **
38587995 TAAATTAGGGTTTATGTTTTTTAAATTGATTAAG
1 TAAATTAGGGTTTATGGGTTTTAAATAAATTAAG
38588029 TAAATTAGGGTTT-TAGGGTTTTAAATAAATTAA
1 TAAATTAGGGTTTAT-GGGTTTTAAATAAATTAA
38588062 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:38588082 original size:22 final size:24
Alignment explanation
Indices: 38588056--38588112 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 24
38588046 GTTTTAAATA
38588056 AATTAAATTAAGGTTT-TGGGTTT
1 AATTAAATTAAGGTTTATGGGTTT
* *
38588079 -ATTAAATTAGGGTTTATGGTTTT
1 AATTAAATTAAGGTTTATGGGTTT
*
38588102 AAATAAATTAA
1 AATTAAATTAA
38588113 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:38588130 original size:29 final size:29
Alignment explanation
Indices: 38588079--38588138 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
38588069 TTTTGGGTTT
38588079 ATTAAATTAGGGTTT--ATGGTTTTAAATAA
1 ATTAAATTAGGGTTTAAAT-GTTTTAAA-AA
*
38588108 ATTAAATTAGGGTTTAAATTTTTTAAAAA
1 ATTAAATTAGGGTTTAAATGTTTTAAAAA
38588137 AT
1 AT
38588139 AACATTGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 19 0.68
30 7 0.25
31 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (29 bp):
ATTAAATTAGGGTTTAAATGTTTTAAAAA
Found at i:38588479 original size:126 final size:124
Alignment explanation
Indices: 38588180--38588553 Score: 500
Period size: 126 Copynumber: 3.0 Consensus size: 124
38588170 TTTTACCCTG
* * * * *
38588180 AAAAAATAATTTTGACAAGACATTTTTAAACAAATAGTGTCAAAAACGCTTCAAGTAGGATGCAC
1 AAAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTCAAAAACACTTCAAGCAGGATGCAC
* * * * *
38588245 TGTCAGTAAAAATACAAAAAAAAAGCTACCACGTGGA-CTTTTTTCGCTATAGTAGTTCCT
66 TGTCAGCAAAAATAC-AGAAAAAAGCTCCCACGTGGAGCTCTTTT-GCTACAGTAGTTCCT
*
38588305 GAAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTCAAAAACACTTCAAGCAGGATGCAC
1 AAAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTCAAAAACACTTCAAGCAGGATGCAC
38588370 TGTCAGCAAAAATACAGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCT
66 TGTCAGCAAAAATACAGAAAAAAGCTCCCACGTGGA-GCTCTTTTGCTACAGTAGTTCCT
** * *
38588430 AAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACACTTTAAGCAGGATCCA
1 -AAAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTCAAAAACACTTCAAGCAGGATGCA
* * * * *
38588495 CTGTCAACAAAATTTCTGAAAAAAGCTCTCACGTGGATGCTCTCTTT-CTACAGTAGTTC
65 CTGTCAGCAAAAATACAGAAAAAAGCTCCCACGTGGA-GCTCT-TTTGCTACAGTAGTTC
38588554 ATGCTTGGCC
Statistics
Matches: 223, Mismatches: 22, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
124 19 0.09
125 87 0.39
126 114 0.51
127 3 0.01
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (124 bp):
AAAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTCAAAAACACTTCAAGCAGGATGCAC
TGTCAGCAAAAATACAGAAAAAAGCTCCCACGTGGAGCTCTTTTGCTACAGTAGTTCCT
Found at i:38593566 original size:20 final size:22
Alignment explanation
Indices: 38593537--38593581 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
38593527 CTTTTAACAT
*
38593537 TATTATTATAT-TATTATTA-A
1 TATTAGTATATGTATTATTATA
*
38593557 TATTAGTATATGTTTTATTATA
1 TATTAGTATATGTATTATTATA
38593579 TAT
1 TAT
38593582 GCATATATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 7 0.33
22 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (22 bp):
TATTAGTATATGTATTATTATA
Found at i:38593594 original size:21 final size:21
Alignment explanation
Indices: 38593570--38593609 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
38593560 TAGTATATGT
*
38593570 TTTATTATATATGCATATATC
1 TTTAATATATATGCATATATC
*
38593591 TTTAATATATATGTATATA
1 TTTAATATATATGCATATA
38593610 ATTGTGTAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.53
Consensus pattern (21 bp):
TTTAATATATATGCATATATC
Found at i:38593724 original size:26 final size:25
Alignment explanation
Indices: 38593653--38593736 Score: 93
Period size: 24 Copynumber: 3.3 Consensus size: 25
38593643 TTCTAATATG
*
38593653 TATATATTATGTAA-ATA-TTTTAA
1 TATATATTATGTAATATATTTTTTA
38593676 TAGTATATTATGT-ATATATTTTTTA
1 TA-TATATTATGTAATATATTTTTTA
*
38593701 TATATGTTATGTACATATATTTTTTAA
1 TATATATTATGTA-ATATATTTTTT-A
38593728 TATTATATT
1 TA-TATATT
38593737 TTTATATATT
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
23 3 0.06
24 22 0.43
25 7 0.14
26 11 0.22
27 3 0.06
28 5 0.10
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.57
Consensus pattern (25 bp):
TATATATTATGTAATATATTTTTTA
Found at i:38593743 original size:13 final size:15
Alignment explanation
Indices: 38593716--38593748 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
38593706 GTTATGTACA
38593716 TATATTTTTTAATAT
1 TATATTTTTTAATAT
38593731 TATA-TTTTTATATAT
1 TATATTTTTTA-ATAT
38593746 TAT
1 TAT
38593749 TATGTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TATATTTTTTAATAT
Found at i:38593808 original size:25 final size:23
Alignment explanation
Indices: 38593653--38593808 Score: 91
Period size: 24 Copynumber: 6.9 Consensus size: 23
38593643 TTCTAATATG
* * *
38593653 TATATATTATGTAAATATTTTAA
1 TATATTTTATGTATATATTTTTA
*
38593676 TAGTATATTATGTATATATTTTTTA
1 TA-TATTTTATGTATATA-TTTTTA
*
38593701 TATATGTTATGTACATATATTTTT-
1 TATATTTTATGT--ATATATTTTTA
38593725 TA-A---TAT-TATAT-TTTTATA
1 TATATTTTATGTATATATTTT-TA
*
38593743 TAT-TATTATGTATATATT-TTA
1 TATATTTTATGTATATATTTTTA
*
38593764 -ATATCATTA-GTTATATATTTTTTA
1 TATAT-TTTATG-TATATA-TTTTTA
38593788 TACTATTTTATGTATATATTT
1 TA-TATTTTATGTATATATTT
38593809 CTAATACTAT
Statistics
Matches: 109, Mismatches: 4, Indels: 39
0.72 0.03 0.26
Matches are distributed among these distances:
16 4 0.04
17 5 0.05
18 2 0.02
19 1 0.01
20 5 0.05
21 7 0.06
22 16 0.15
23 7 0.06
24 31 0.28
25 22 0.20
26 9 0.08
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (23 bp):
TATATTTTATGTATATATTTTTA
Found at i:38594007 original size:25 final size:24
Alignment explanation
Indices: 38593933--38594007 Score: 62
Period size: 25 Copynumber: 2.9 Consensus size: 24
38593923 ATATATCATG
38593933 TATATATGATTTTTTTTACATATAT
1 TATATAT-ATTTTTTTTACATATAT
* **
38593958 TATGTATATATCTTTAATACTATATAAT
1 TA--TATATATTTTTTTTAC-ATAT-AT
38593986 T-TATATATTTTTTCTTACATAT
1 TATATATATTTTTT-TTACATAT
38594008 TATCTTACGT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
25 16 0.41
26 11 0.28
27 9 0.23
28 3 0.08
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (24 bp):
TATATATATTTTTTTTACATATAT
Found at i:38594156 original size:27 final size:26
Alignment explanation
Indices: 38594126--38594186 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
38594116 TAATATATAA
* *
38594126 ATTATGTATACATTTTTTAAATACTAT
1 ATTATGTATACATATTTT-AATACCAT
* *
38594153 ATTATATATATATATTTTAATACCAT
1 ATTATGTATACATATTTTAATACCAT
38594179 ATTATGTA
1 ATTATGTA
38594187 CATATTATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 14 0.48
27 15 0.52
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (26 bp):
ATTATGTATACATATTTTAATACCAT
Found at i:38594195 original size:27 final size:28
Alignment explanation
Indices: 38594126--38594195 Score: 83
Period size: 26 Copynumber: 2.6 Consensus size: 28
38594116 TAATATATAA
* *
38594126 ATTATGTATACATT-TTTTAAATACTAT
1 ATTATGTATATATTATTTTAAATACCAT
*
38594153 ATTATATATATA-TATTTT-AATACCAT
1 ATTATGTATATATTATTTTAAATACCAT
*
38594179 ATTATGTACATATTATT
1 ATTATGTATATATTATT
38594196 ATATCTATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 18 0.50
27 18 0.50
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (28 bp):
ATTATGTATATATTATTTTAAATACCAT
Found at i:38594279 original size:16 final size:16
Alignment explanation
Indices: 38594258--38594323 Score: 57
Period size: 16 Copynumber: 4.1 Consensus size: 16
38594248 ATTATACGTG
38594258 TATATATATACTTTTA
1 TATATATATACTTTTA
*
38594274 TATATAGTATTATTTTTA
1 TATATA-TA-TACTTTTA
*
38594292 TATATCAT-TATTTTTA
1 TATAT-ATATACTTTTA
38594308 T-TAT-TATACTTATTA
1 TATATATATACTT-TTA
38594323 T
1 T
38594324 TTTCACTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
13 1 0.02
14 4 0.09
15 7 0.16
16 15 0.35
17 2 0.05
18 13 0.30
19 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (16 bp):
TATATATATACTTTTA
Found at i:38594313 original size:3 final size:3
Alignment explanation
Indices: 38594281--38594364 Score: 50
Period size: 3 Copynumber: 28.0 Consensus size: 3
38594271 TTATATATAG
* * *
38594281 TAT TAT TTT TAT ATAT CAT TAT TTT TAT TAT TA- TACT TAT TAT T-T
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
* * *
38594326 TCAC TAT TGT TACT TAT TAT T-T TAT T-T TAA TAT TAT TAT
1 T-AT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
38594365 GCATTATTTG
Statistics
Matches: 61, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
2 8 0.13
3 44 0.72
4 9 0.15
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:38595932 original size:26 final size:26
Alignment explanation
Indices: 38595903--38595987 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 26
38595893 AAAAAAAATT
38595903 ATAAAATAAAAATTAATTAAAATTAC
1 ATAAAATAAAAATTAATTAAAATTAC
* * *
38595929 ATAAATGAAAAAAATATTAAATAATATT-C
1 AT-AA--AATAAAA-ATTAATTAAAATTAC
*
38595958 A-AAAATTAAAATTAATTAAAATTAC
1 ATAAAATAAAAATTAATTAAAATTAC
38595983 ATAAA
1 ATAAA
38595988 TGAAAAAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
24 11 0.24
25 7 0.15
26 5 0.11
27 4 0.09
29 8 0.17
30 11 0.24
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.31
Consensus pattern (26 bp):
ATAAAATAAAAATTAATTAAAATTAC
Found at i:38595973 original size:54 final size:54
Alignment explanation
Indices: 38595905--38596023 Score: 211
Period size: 54 Copynumber: 2.2 Consensus size: 54
38595895 AAAAAATTAT
*
38595905 AAAATAAAAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCA
1 AAAATTAAAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCA
38595959 AAAATTAAAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCA
1 AAAATTAAAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCA
**
38596013 AATTTTAAAAT
1 AAAATTAAAAT
38596024 AAACCGTTAC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (54 bp):
AAAATTAAAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCA
Found at i:38596015 original size:18 final size:19
Alignment explanation
Indices: 38595940--38596021 Score: 50
Period size: 18 Copynumber: 4.5 Consensus size: 19
38595930 TAAATGAAAA
38595940 AAATATTAAATAAT-ATTC
1 AAATATTAAATAATAATTC
* *
38595958 AAAAATTAAA-ATTAATT-
1 AAATATTAAATAATAATTC
* **
38595975 AAA-ATTACATAAATGAA-AA
1 AAATATTAAAT-AAT-AATTC
38595994 AAATATTAAATAAT-ATTC
1 AAATATTAAATAATAATTC
*
38596012 AAATTTTAAA
1 AAATATTAAA
38596022 ATAAACCGTT
Statistics
Matches: 48, Mismatches: 9, Indels: 14
0.68 0.13 0.20
Matches are distributed among these distances:
16 5 0.10
17 6 0.12
18 23 0.48
19 8 0.17
20 6 0.12
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (19 bp):
AAATATTAAATAATAATTC
Found at i:38597897 original size:21 final size:21
Alignment explanation
Indices: 38597867--38597911 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
38597857 ACAATACATA
38597867 AAACAATATAAACTTATGCAC
1 AAACAATATAAACTTATGCAC
*
38597888 AAACATTATAAACTTATGCAC
1 AAACAATATAAACTTATGCAC
38597909 AAA
1 AAA
38597912 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:38599211 original size:30 final size:30
Alignment explanation
Indices: 38599175--38599236 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
38599165 ACTTATTTTA
38599175 TTGTTAATTTTATTATTATTTTAAAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
* *
38599205 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
38599235 TT
1 TT
38599237 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:0.29, C:0.03, G:0.10, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:38601104 original size:34 final size:33
Alignment explanation
Indices: 38601044--38601109 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
38601034 CTACATACTT
* * **
38601044 CATTTCTTTTAACGTAGTTTTTTTTATGTTTTC
1 CATTTATTTTAACATAACTTTTTTTATGTTTTC
38601077 CATTTATTTTAACATAACTTTTTTTTATGTTTT
1 CATTTATTTTAACATAAC-TTTTTTTATGTTTT
38601110 TGAAACAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 14 0.50
34 14 0.50
ACGTcount: A:0.20, C:0.11, G:0.06, T:0.64
Consensus pattern (33 bp):
CATTTATTTTAACATAACTTTTTTTATGTTTTC
Found at i:38606820 original size:69 final size:69
Alignment explanation
Indices: 38606724--38606917 Score: 307
Period size: 69 Copynumber: 2.8 Consensus size: 69
38606714 TCTCGAATGC
* * * * *
38606724 ACAAATGAGAAAGAGAGGGAGGGAGCATGTTTGGCGGCAAGGATTGGAGCTTGGGACAATTACAG
1 ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGGGGCATGGATTGGAGCTTGGGACAATTACAG
38606789 ATAG
66 ATAG
* *
38606793 ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGGGGCATGGATTGGAGCTCGGGACAATTCCAG
1 ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGGGGCATGGATTGGAGCTTGGGACAATTACAG
38606858 ATAG
66 ATAG
* *
38606862 ACAAATAAGAAAGAGAGTGTGGAAGCATGTTTGGGGGCATGGATTGGAGGTTGGGA
1 ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGGGGCATGGATTGGAGCTTGGGA
38606918 TAGTCAAGGA
Statistics
Matches: 115, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 115 1.00
ACGTcount: A:0.34, C:0.09, G:0.38, T:0.19
Consensus pattern (69 bp):
ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGGGGCATGGATTGGAGCTTGGGACAATTACAG
ATAG
Found at i:38608340 original size:30 final size:30
Alignment explanation
Indices: 38608301--38608360 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
38608291 CCCTATCATG
38608301 CCTTCAATCACCATCAATATCATCATCTTT
1 CCTTCAATCACCATCAATATCATCATCTTT
*
38608331 CCTTGAATCACCATCAATATCATCATCTTT
1 CCTTCAATCACCATCAATATCATCATCTTT
38608361 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:0.02, T:0.37
Consensus pattern (30 bp):
CCTTCAATCACCATCAATATCATCATCTTT
Found at i:38610849 original size:21 final size:21
Alignment explanation
Indices: 38610825--38610864 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
38610815 CTTCATCATT
38610825 GCTAACGGGACTTGTAAAACA
1 GCTAACGGGACTTGTAAAACA
38610846 GCTAACGGGACTTGTAAAA
1 GCTAACGGGACTTGTAAAA
38610865 TCTGTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (21 bp):
GCTAACGGGACTTGTAAAACA
Found at i:38611111 original size:17 final size:17
Alignment explanation
Indices: 38611078--38611116 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
38611068 TAAGCTTTTG
38611078 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
38611095 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
38611112 ATTTT
1 ATTTT
38611117 CCACAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:38611882 original size:15 final size:15
Alignment explanation
Indices: 38611858--38611887 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
38611848 TGGAGATCGA
*
38611858 GGAAATGGTCGTGGT
1 GGAAAAGGTCGTGGT
38611873 GGAAAAGGTCGTGGT
1 GGAAAAGGTCGTGGT
38611888 CAAGAAGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.47, T:0.23
Consensus pattern (15 bp):
GGAAAAGGTCGTGGT
Found at i:38615273 original size:15 final size:15
Alignment explanation
Indices: 38615249--38615279 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
38615239 GTCATGTAAG
38615249 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
*
38615264 TGAAATGTCAAGAGT
1 TGAAAGGTCAAGAGT
38615279 T
1 T
38615280 ATATTGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.29, T:0.26
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:38615469 original size:17 final size:17
Alignment explanation
Indices: 38615436--38615474 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
38615426 TAAGCTTTTG
38615436 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
38615453 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
38615470 ATTTT
1 ATTTT
38615475 CCACAAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:38618403 original size:20 final size:20
Alignment explanation
Indices: 38618349--38618409 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
38618339 AATTATAAAA
*
38618349 AATAAAAATAGATAAAATTT
1 AATAAAAATATATAAAATTT
* *
38618369 AGAT-AAATTAT-TAAATTTT
1 A-ATAAAAATATATAAAATTT
38618388 AATAAAAATATATAAAATTT
1 AATAAAAATATATAAAATTT
38618408 AA
1 AA
38618410 AATTATTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
18 2 0.06
19 14 0.42
20 15 0.45
21 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (20 bp):
AATAAAAATATATAAAATTT
Found at i:38619193 original size:11 final size:12
Alignment explanation
Indices: 38619177--38619205 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
38619167 TACAACGCAA
38619177 AAAAAATAT-AT
1 AAAAAATATAAT
38619188 AAAAAATATAAT
1 AAAAAATATAAT
38619200 AAAAAA
1 AAAAAA
38619206 GAAAAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAAAATATAAT
Found at i:38619809 original size:20 final size:21
Alignment explanation
Indices: 38619786--38619827 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
38619776 GTTATATACG
*
38619786 TATATAGTATGTGTATT-TTA
1 TATATAGTATGTATATTATTA
*
38619806 TATATATTATGTATATTATTA
1 TATATAGTATGTATATTATTA
38619827 T
1 T
38619828 TTTTACTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (21 bp):
TATATAGTATGTATATTATTA
Found at i:38619901 original size:21 final size:21
Alignment explanation
Indices: 38619877--38619916 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
38619867 ATTCATGTAT
*
38619877 TTTATTATATATGTATATATC
1 TTTAATATATATGTATATATC
*
38619898 TTTAATATATATTTATATA
1 TTTAATATATATGTATATA
38619917 AGTATATCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTAATATATATGTATATATC
Found at i:38620016 original size:24 final size:25
Alignment explanation
Indices: 38619989--38620039 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
38619979 ATGTGTTTAC
38619989 ATATTATGTAAATGTTTTA-ATATT
1 ATATTATGTAAATGTTTTATATATT
**
38620013 ATATTATGTGTATGTTTTATATATT
1 ATATTATGTAAATGTTTTATATATT
38620038 AT
1 AT
38620040 GAACATGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (25 bp):
ATATTATGTAAATGTTTTATATATT
Found at i:38621118 original size:10 final size:10
Alignment explanation
Indices: 38621103--38621253 Score: 81
Period size: 10 Copynumber: 15.7 Consensus size: 10
38621093 TTGGTACGAT
38621103 AATTTTTATA
1 AATTTTTATA
38621113 AATTTTTTATGA
1 AA-TTTTTAT-A
38621125 AA--TTTAT-
1 AATTTTTATA
38621132 -ATTTCTT-TA
1 AATTT-TTATA
*
38621141 CATTTTGTATA
1 AATTTT-TATA
* *
38621152 ATTTTCTTATG
1 AATTT-TTATA
* *
38621163 ACTTTATA-A
1 AATTTTTATA
38621172 AA-TTTTATA
1 AATTTTTATA
*
38621181 TATTTTTAT-
1 AATTTTTATA
38621190 -ATTTTTATA
1 AATTTTTATA
*
38621199 TA-TTTTAT-
1 AATTTTTATA
38621207 AATTTTTATA
1 AATTTTTATA
38621217 AATTTTTATA
1 AATTTTTATA
* *
38621227 AAATTTTACA
1 AATTTTTATA
*
38621237 ATTTTTTATA
1 AATTTTTATA
*
38621247 TATTTTT
1 AATTTTT
38621254 TTTACGATTT
Statistics
Matches: 108, Mismatches: 17, Indels: 32
0.69 0.11 0.20
Matches are distributed among these distances:
6 1 0.01
8 15 0.14
9 23 0.21
10 46 0.43
11 19 0.18
12 4 0.04
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (10 bp):
AATTTTTATA
Found at i:38621241 original size:18 final size:19
Alignment explanation
Indices: 38621165--38621234 Score: 81
Period size: 18 Copynumber: 3.7 Consensus size: 19
38621155 TTCTTATGAC
38621165 TTTATAAAATTTTATATAT
1 TTTATAAAATTTTATATAT
* *
38621184 TTT-TATATTTTTATATAT
1 TTTATAAAATTTTATATAT
* *
38621202 TTTAT-AATTTTTATAAATT
1 TTTATAAAATTTTATATA-T
38621221 TTTATAAAATTTTA
1 TTTATAAAATTTTA
38621235 CAATTTTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
18 26 0.60
19 10 0.23
20 7 0.16
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTATAAAATTTTATATAT
Found at i:38621252 original size:9 final size:9
Alignment explanation
Indices: 38621173--38621252 Score: 65
Period size: 9 Copynumber: 8.6 Consensus size: 9
38621163 ACTTTATAAA
38621173 ATTTTATAT
1 ATTTTATAT
38621182 ATTTT-TAT
1 ATTTTATAT
38621190 ATTTTTATAT
1 A-TTTTATAT
38621200 ATTTTATA-
1 ATTTTATAT
*
38621208 ATTTTTATAA
1 A-TTTTATAT
*
38621218 ATTTTTATAAA
1 A-TTTTAT-AT
*
38621229 ATTTTACAAT
1 ATTTTA-TAT
*
38621239 TTTTTATAT
1 ATTTTATAT
38621248 ATTTT
1 ATTTT
38621253 TTTTACGATT
Statistics
Matches: 60, Mismatches: 5, Indels: 12
0.78 0.06 0.16
Matches are distributed among these distances:
8 5 0.08
9 29 0.48
10 23 0.38
11 3 0.05
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (9 bp):
ATTTTATAT
Found at i:38621255 original size:22 final size:21
Alignment explanation
Indices: 38621230--38621274 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
38621220 TTTTATAAAA
38621230 TTTTACAATTTTTTATATATTTT
1 TTTTACAA-TTTTTATAT-TTTT
*
38621253 TTTTACGATTTTTATATTTTT
1 TTTTACAATTTTTATATTTTT
38621274 T
1 T
38621275 CTAATATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 9 0.43
23 7 0.33
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTTACAATTTTTATATTTTT
Found at i:38621283 original size:20 final size:20
Alignment explanation
Indices: 38621174--38621283 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
38621164 CTTTATAAAA
38621174 TTTTAT-ATATTTTTAT-AT
1 TTTTATAATATTTTTATAAT
38621192 TTTTAT-ATA-TTTTATAAT
1 TTTTATAATATTTTTATAAT
*
38621210 TTTTATAA-ATTTTTATAAAA
1 TTTTATAATATTTTTAT-AAT
*
38621230 TTTTACAAT-TTTTTATATATT
1 TTTTATAATATTTTTATA-A-T
* ** *
38621251 TTTTTTACGATTTTTATATT
1 TTTTATAATATTTTTATAAT
*
38621271 TTTTCTAATATTT
1 TTTTATAATATTT
38621284 AATAAATTTT
Statistics
Matches: 73, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
17 6 0.08
18 18 0.25
19 8 0.11
20 28 0.38
21 5 0.07
22 8 0.11
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (20 bp):
TTTTATAATATTTTTATAAT
Found at i:38623353 original size:9 final size:9
Alignment explanation
Indices: 38623325--38623409 Score: 52
Period size: 9 Copynumber: 9.2 Consensus size: 9
38623315 TATTTTTTTT
38623325 AAATT-TAA
1 AAATTATAA
*
38623333 AAATTCAAAA
1 AAATT-ATAA
38623343 AAATTATAA
1 AAATTATAA
38623352 AAATTATTTTTAA
1 AAATTA----TAA
38623365 AAA-TA-AA
1 AAATTATAA
* *
38623372 AAATCATTA
1 AAATTATAA
*
38623381 AAATGATTAA
1 AAATTA-TAA
38623391 AAATTATAA
1 AAATTATAA
38623400 AAA-TATAA
1 AAATTATAA
38623408 AA
1 AA
38623410 GAAATATAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
7 5 0.08
8 13 0.21
9 21 0.34
10 14 0.23
12 2 0.03
13 6 0.10
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (9 bp):
AAATTATAA
Found at i:38623365 original size:38 final size:39
Alignment explanation
Indices: 38623320--38623397 Score: 95
Period size: 38 Copynumber: 2.0 Consensus size: 39
38623310 ACATTTATTT
** * *
38623320 TTTTTAAATTTAAAAATTCAAAAAAATTA-TAAAAATTA
1 TTTTTAAAAATAAAAAATCAAAAAAATGATTAAAAATTA
**
38623358 TTTTTAAAAATAAAAAATCATTAAAATGATTAAAAATTA
1 TTTTTAAAAATAAAAAATCAAAAAAATGATTAAAAATTA
38623397 T
1 T
38623398 AAAAATATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
38 23 0.70
39 10 0.30
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (39 bp):
TTTTTAAAAATAAAAAATCAAAAAAATGATTAAAAATTA
Found at i:38623402 original size:19 final size:18
Alignment explanation
Indices: 38623331--38623422 Score: 60
Period size: 19 Copynumber: 4.8 Consensus size: 18
38623321 TTTTAAATTT
*
38623331 AAAAATTCAAAAAAATTATA
1 AAAAATT-ATAAAAA-TATA
* *
38623351 AAAATTATTTTTAAAA-ATA
1 AAAA--ATTATAAAAATATA
* * *
38623370 AAAAATCATTAAAATGATT
1 AAAAATTATAAAAAT-ATA
38623389 AAAAATTATAAAAATATA
1 AAAAATTATAAAAATATA
*
38623407 AAAGAAATATAAAAAT
1 AAA-AATTATAAAAAT
38623423 CCAATATGGC
Statistics
Matches: 57, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
17 8 0.14
18 5 0.09
19 33 0.58
20 4 0.07
21 4 0.07
22 3 0.05
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (18 bp):
AAAAATTATAAAAATATA
Found at i:38635589 original size:19 final size:16
Alignment explanation
Indices: 38635559--38635606 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 16
38635549 ACAAGTAGGC
*
38635559 AAGAAAAATAAATAGAT
1 AAGAAAACTAAATA-AT
38635576 AAATGAAAACTAAATAAT
1 -AA-GAAAACTAAATAAT
38635594 AAGAAAAC-AAATA
1 AAGAAAACTAAATA
38635607 TAGGTGAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 5 0.18
16 6 0.21
17 2 0.07
18 4 0.14
19 11 0.39
ACGTcount: A:0.71, C:0.04, G:0.08, T:0.17
Consensus pattern (16 bp):
AAGAAAACTAAATAAT
Found at i:38635626 original size:3 final size:3
Alignment explanation
Indices: 38635618--38635965 Score: 96
Period size: 3 Copynumber: 115.3 Consensus size: 3
38635608 AGGTGAAAGT
* * * * * ** *
38635618 ATA ATA ATA GTA ATA AT- ACA ATA GTA ATA ACA ATA ATA AAA AGG GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
38635665 ATA ATA AT- ATA TTAA ATA GTA A-A ATAA ATA ATA GTA ACA GTA ATTA
1 ATA ATA ATA ATA AT-A ATA ATA ATA AT-A ATA ATA ATA ATA ATA A-TA
* * *
38635711 A-A A-A ATG ATA ATA ATA ATA ATA ATA ACA ATA ATA GA-A ATTA AGGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA A-TA A-TA
** * * * *
38635756 ATA ATA ATA AT- ATCA ACC AT- ATT ATAA ATA ATAA ATA AAA ACA AAA
1 ATA ATA ATA ATA AT-A ATA ATA ATA AT-A ATA AT-A ATA ATA ATA ATA
* * * * *
38635802 ATC ATA ATA ATA A-A AT- ATA AGTA ATA GTA ATG ATA ATG GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA
** * * *
38635846 ACG ATA ATAA ATA ATA GTA GTA GATA ATGA A-A ATA ATA ATA GTA ATA
1 ATA ATA AT-A ATA ATA ATA ATA -ATA AT-A ATA ATA ATA ATA ATA ATA
** * *
38635893 ATA ATA ATGA A-A ATA GGGA A-A ATA ATA ATA GTA ATG ATA ATA A-A
1 ATA ATA AT-A ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
38635937 TATA AGTA ATA GTA A-A ATA ATA TTA ATA A
1 -ATA A-TA ATA ATA ATA ATA ATA ATA ATA A
38635966 ATAAATTAAT
Statistics
Matches: 246, Mismatches: 69, Indels: 60
0.66 0.18 0.16
Matches are distributed among these distances:
2 27 0.11
3 183 0.74
4 36 0.15
ACGTcount: A:0.60, C:0.03, G:0.09, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:38635879 original size:22 final size:21
Alignment explanation
Indices: 38635854--38635894 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
38635844 TAACGATAAT
*
38635854 AAATAATAGTAGTAGATAATGA
1 AAATAATAATAGTA-ATAATGA
38635876 AAATAATAATAGTAATAAT
1 AAATAATAATAGTAATAAT
38635895 AATAATGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (21 bp):
AAATAATAATAGTAATAATGA
Found at i:38637041 original size:11 final size:11
Alignment explanation
Indices: 38637014--38637060 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
38637004 GGGCTGATAG
*
38637014 TTGGGTTTAGGT
1 TTGGGTTT-GTT
*
38637026 TTGGGTTGGTT
1 TTGGGTTTGTT
*
38637037 TTGGGTTTGTA
1 TTGGGTTTGTT
38637048 TTGGGTTTGTT
1 TTGGGTTTGTT
38637059 TT
1 TT
38637061 AGCCCGGGCC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 23 0.77
12 7 0.23
ACGTcount: A:0.04, C:0.00, G:0.38, T:0.57
Consensus pattern (11 bp):
TTGGGTTTGTT
Found at i:38637056 original size:17 final size:17
Alignment explanation
Indices: 38637014--38637056 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
38637004 GGGCTGATAG
* *
38637014 TTGGGTTTAGGTTTGGG
1 TTGGGTTTGGGTTTGGA
* *
38637031 TTGGTTTTGGGTTTGTA
1 TTGGGTTTGGGTTTGGA
38637048 TTGGGTTTG
1 TTGGGTTTG
38637057 TTTTAGCCCG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.05, C:0.00, G:0.42, T:0.53
Consensus pattern (17 bp):
TTGGGTTTGGGTTTGGA
Found at i:38637599 original size:41 final size:42
Alignment explanation
Indices: 38637280--38637889 Score: 329
Period size: 45 Copynumber: 13.8 Consensus size: 42
38637270 TGTTGCTTTA
* *
38637280 ATCTGCTCCACTGCAACTTCAGGAAAATAAGATTTGCTATCTTT-
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG--AT-TTTG
* * * * **
38637324 AGTCTGCTACACTGCAACTTTAGGGAGATAAGACTAGTGACTTCA
1 A-TCTGCTCCACTGCAACTTCAGGGAGATAAGA-T-TTGATTTTG
* * * * *
38637369 ACCTACTCCACTGCAACTTAATGGAGATAAGGTTTG-TTTTG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGATTTTG
* * * **
38637410 ATATGCTCTACTGCAACTTCA--GAGA-GAGATTT-ATAGCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGAT---TTTG
* * * ** *
38637451 ATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTACCTTC
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG--ATTTTG
* **
38637495 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGTGATTTCA
1 A-TCTGCTCCACTGCAACTTCAGGGAGATAAGA-T-TTGATTTTG
* *
38637540 ACCTGCTCCACTGCAACTTCAGGGAGATAAAATTTG-TTTTG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGATTTTG
* * * *
38637581 ATCTGCTCTACTGCAACTTCAGAGACATAAGATCCGTGATTTATAG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT--TTGATTT-T-G
* * * * *
38637627 CTTCAATCTGTTTCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTC
1 -----ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG--ATTTTG
* **
38637676 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGTGATTTCA
1 A-TCTGCTCCACTGCAACTTCAGGGAGATAAGA-T-TTGATTTTG
* * *
38637721 ACCTCCTCCACTGCAACTTCAGGGAGATAAGGTTTG-TTTTG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGATTTTG
* * *
38637762 ATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTATGATTTATAG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-T-TGATTT-T-G
* * *
38637808 CTTCAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTTGCTATCTTT-
1 -----ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG--AT-TTTG
*
38637857 AGTCTGCTCCACTACAACTTCAGGGAGATAAGA
1 A-TCTGCTCCACTGCAACTTCAGGGAGATAAGA
38637890 CTCATAATTT
Statistics
Matches: 428, Mismatches: 92, Indels: 91
0.70 0.15 0.15
Matches are distributed among these distances:
38 6 0.01
39 4 0.01
41 98 0.23
42 7 0.02
43 10 0.02
44 101 0.24
45 121 0.28
46 5 0.01
47 7 0.02
49 4 0.01
50 2 0.00
51 61 0.14
52 2 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (42 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGATTTTG
Found at i:38637933 original size:181 final size:181
Alignment explanation
Indices: 38637274--38637914 Score: 953
Period size: 181 Copynumber: 3.6 Consensus size: 181
38637264 AGGACTTGTT
* * * * *
38637274 GCTTTAATCTGCTCCACTGCAACTTCAGGAAAATAAGATTTGCTATCTTTAGTCTGCTACACTGC
1 GCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGC
* * * *
38637339 AACTTTAGGGAGATAAGACTAGTGACTTCAACCTACTCCACTGCAACTTAATGGAGATAAGGTTT
66 AACTTCAGGGAGATAAGACTAGTGATTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTT
*
38637404 GTTTTGATATGCTCTACTGCAACTTCAGAG-----AG----A-GATTTATA
131 GTTTTGATCTGCTCTACTGCAACTTCAGAGACATAAGATCCATGATTTATA
* *
38637445 GCTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTACCTTCAGTCTGCTCCACTGC
1 GCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGC
* **
38637510 AACTTCAGGGAGATAAGACTAGTGATTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAAATTT
66 AACTTCAGGGAGATAAGACTAGTGATTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTT
*
38637575 GTTTTGATCTGCTCTACTGCAACTTCAGAGACATAAGATCCGTGATTTATA
131 GTTTTGATCTGCTCTACTGCAACTTCAGAGACATAAGATCCATGATTTATA
*
38637626 GCTTCAATCTGTTTCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGC
1 GCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGC
*
38637691 AACTTCAGGGAGATAAGACTAGTGATTTCAACCTCCTCCACTGCAACTTCAGGGAGATAAGGTTT
66 AACTTCAGGGAGATAAGACTAGTGATTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTT
* * *
38637756 GTTTTGATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTATGATTTATA
131 GTTTTGATCTGCTCTACTGCAACTTCAGAGACATAAGATCCATGATTTATA
* * *
38637807 GCTTCAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTTGCTATCTTTAGTCTGCTCCACTAC
1 GCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGC
* *
38637872 AACTTCAGGGAGATAAGACTCA-TAATTTTCAGCCTACTCCACT
66 AACTTCAGGGAGATAAGACT-AGTGA-TTTCAACCTACTCCACT
38637915 ATTGCTTAGG
Statistics
Matches: 425, Mismatches: 33, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
171 145 0.34
176 2 0.00
181 262 0.62
182 16 0.04
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (181 bp):
GCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGC
AACTTCAGGGAGATAAGACTAGTGATTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTT
GTTTTGATCTGCTCTACTGCAACTTCAGAGACATAAGATCCATGATTTATA
Found at i:38637987 original size:88 final size:88
Alignment explanation
Indices: 38637859--38638307 Score: 566
Period size: 88 Copynumber: 5.1 Consensus size: 88
38637849 CTATCTTTAG
** * * ** *
38637859 TCTGCTCCACTACAACTTCAGGGAGATAAGA-CTCATAATTTTCAGCCTACT-CCACTATTGCTT
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGATCT-GTAATCTTCAGCCTGTTACC-CTACTGCTT
* * * *
38637922 AGGGAGATAAGGCTTACCGTCTGCGA
63 AGGGGGTTAAGGCTTACTGTCTTCGA
* * * * * * *
38637948 TCTGCTCCACTATTGTTTAGGGAGATAAAATCTATAATTTTTAGTCTGTTACCCTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGTTACCCTACTGCTTAGG
* *
38638013 GGGTTAAGGCTCACCGTCTTCGA
66 GGGTTAAGGCTTACTGTCTTCGA
* * *
38638036 TTTGCTCCACTACTGCTTAAGGAGATAAGAACTGTAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGTTACCCTACTGCTTAGG
38638101 GGGTTAAGGCTCT-CTGTCTTCGA
66 GGGTTAAGGCT-TACTGTCTTCGA
*
38638124 TCCGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGTTACCCTACTGCTTAGG
*
38638189 GGGTTAAAGCTCT-CTGTCTTCGA
66 GGGTTAAGGCT-TACTGTCTTCGA
*
38638212 TCT-CTCCGCTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGTTACCCTACTGCTTAGG
* *
38638276 GAGTTAAGGCTCACTGTCTTCGA
66 GGGTTAAGGCTTACTGTCTTCGA
38638299 TCTGCTCCA
1 TCTGCTCCA
38638308 TTGCTATCTC
Statistics
Matches: 318, Mismatches: 37, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
87 82 0.26
88 218 0.69
89 18 0.06
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (88 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGTTACCCTACTGCTTAGG
GGGTTAAGGCTTACTGTCTTCGA
Found at i:38638050 original size:44 final size:43
Alignment explanation
Indices: 38638001--38638307 Score: 139
Period size: 44 Copynumber: 7.0 Consensus size: 43
38637991 GTCTGTTACC
*
38638001 CTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATTTGCTCCA
1 CTACTGCTTAGGGGGTTAAGGCTCA-CGTCTTCGATCTGCTCCA
* * * * * * * *
38638045 CTACTGCTTAAGGAGATAAGAACTGTA-ATCTTC-AGCCTGTTACC-
1 CTACTGCTTAGGGGGTTAAG-GCT-CACGTCTTCGA-TCTGCT-CCA
* *
38638089 CTACTGCTTAGGGGGTTAAGGCTCTCTGTCTTCGATCCGCTCCA
1 CTACTGCTTAGGGGGTTAAGGCTCAC-GTCTTCGATCTGCTCCA
* * * * * * *
38638133 CTACTGCTTAGGGAGATAAGATCTGTA-ATCTTC-AGCCTGTTACC-
1 CTACTGCTTAGGGGGTTAAG-GCT-CACGTCTTCGA-TCTGCT-CCA
* * *
38638177 CTACTGCTTAGGGGGTTAAAGCTCTCTGTCTTCGATCT-CTCCG
1 CTACTGCTTAGGGGGTTAAGGCTCAC-GTCTTCGATCTGCTCCA
* * * * * * *
38638220 CTACTGCTTAGGGAGATAAGATCTGTA-ATCTTC-AGCCTGTTACC-
1 CTACTGCTTAGGGGGTTAAG-GCT-CACGTCTTCGA-TCTGCT-CCA
*
38638264 CTACTGCTTAGGGAGTTAAGGCTCACTGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGGGTTAAGGCTCAC-GTCTTCGATCTGCTCCA
38638308 TTGCTATCTC
Statistics
Matches: 186, Mismatches: 52, Indels: 50
0.65 0.18 0.17
Matches are distributed among these distances:
42 4 0.02
43 37 0.20
44 131 0.70
45 13 0.07
46 1 0.01
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (43 bp):
CTACTGCTTAGGGGGTTAAGGCTCACGTCTTCGATCTGCTCCA
Found at i:38640129 original size:20 final size:20
Alignment explanation
Indices: 38640106--38640151 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
38640096 TTTTGTTGTC
38640106 TTTTT-TACTTTTTTCTTCT
1 TTTTTGTACTTTTTTCTTCT
*
38640125 TTTTTGTATTTTTTTCTTCT
1 TTTTTGTACTTTTTTCTTCT
38640145 TTTTTGT
1 TTTTTGT
38640152 GTGTGTGTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.04, C:0.11, G:0.04, T:0.80
Consensus pattern (20 bp):
TTTTTGTACTTTTTTCTTCT
Found at i:38640131 original size:27 final size:28
Alignment explanation
Indices: 38640092--38640147 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
38640082 TCTTTCACGA
*
38640092 TCTTTTTTGTTGTCTTTTTTACTT-TTT
1 TCTTTTTTGTTGTATTTTTTACTTCTTT
*
38640119 TCTTCTTTT-TTGTATTTTTTTCTTCTTT
1 TCTT-TTTTGTTGTATTTTTTACTTCTTT
38640147 T
1 T
38640148 TTGTGTGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 17 0.68
28 8 0.32
ACGTcount: A:0.04, C:0.12, G:0.05, T:0.79
Consensus pattern (28 bp):
TCTTTTTTGTTGTATTTTTTACTTCTTT
Found at i:38640907 original size:16 final size:16
Alignment explanation
Indices: 38640886--38640916 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38640876 ATGGTATGAT
38640886 CATGAAAAAAAGAATA
1 CATGAAAAAAAGAATA
*
38640902 CATGAAAAAGAGAAT
1 CATGAAAAAAAGAAT
38640917 CTAAGAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.06, G:0.16, T:0.13
Consensus pattern (16 bp):
CATGAAAAAAAGAATA
Found at i:38642301 original size:29 final size:29
Alignment explanation
Indices: 38642254--38642322 Score: 111
Period size: 29 Copynumber: 2.4 Consensus size: 29
38642244 ACAAGGACAA
*
38642254 ATGAAAATGCAACGAAAGGATCTCTTATT
1 ATGAAAATGCAACGAAAGGATCTCTTATG
* *
38642283 ATGAAAATGCAATGTAAGGATCTCTTATG
1 ATGAAAATGCAACGAAAGGATCTCTTATG
38642312 ATGAAAATGCA
1 ATGAAAATGCA
38642323 GTGTGATTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.28
Consensus pattern (29 bp):
ATGAAAATGCAACGAAAGGATCTCTTATG
Found at i:38644111 original size:19 final size:16
Alignment explanation
Indices: 38644081--38644128 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 16
38644071 ACAAGTAGGC
*
38644081 AAGAAAAATAAATAGAT
1 AAGAAAACTAAATA-AT
38644098 AAATGAAAACTAAATAAT
1 -AA-GAAAACTAAATAAT
38644116 AAGAAAAC-AAATA
1 AAGAAAACTAAATA
38644129 TAGGTGAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 5 0.18
16 6 0.21
17 2 0.07
18 4 0.14
19 11 0.39
ACGTcount: A:0.71, C:0.04, G:0.08, T:0.17
Consensus pattern (16 bp):
AAGAAAACTAAATAAT
Found at i:38644148 original size:3 final size:3
Alignment explanation
Indices: 38644140--38644477 Score: 99
Period size: 3 Copynumber: 111.3 Consensus size: 3
38644130 AGGTGAAAGT
* * * * * ** *
38644140 ATA ATA ATA GTA ATA AT- ACA ATA GTA ATA ACA ATA ATA AAA AGG GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
38644187 ATA ATA AT- ATA TTAA ATA ATA A-A ATAA ATA ATA GTA ACA GTA ATTA
1 ATA ATA ATA ATA AT-A ATA ATA ATA AT-A ATA ATA ATA ATA ATA A-TA
* *
38644233 AAA ATA ATA ATA ATA ATA ATA ATA GA-A ATTA AGGA ATA ATA ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA A-TA A-TA ATA ATA ATA ATA
** * * * * *
38644279 ATCA ACC AT- ATT ATAA ATA ATAA ATA AAA ACA AAA ATC ATA ATA ATA
1 AT-A ATA ATA ATA AT-A ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
* * * * **
38644326 A-A AT- ATA AGTA ATA GTA ATG ATA ATG GTA ATA ACG ATA ATAA ATA
1 ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
* * * *
38644371 ATA GTA GTA GATA ATGA A-A ATA ATA ATA GTC ATA ATA ATA ATGA A-A
1 ATA ATA ATA -ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
** * * *
38644417 ATA GGGA A-A ATA ATA ATA GTA ATG ATA ATA A-A TATA AGTA ATA GTA
1 ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA A-TA ATA ATA
*
38644463 A-A ATA ATA TTA ATA A
1 ATA ATA ATA ATA ATA A
38644478 ATTAATTAAT
Statistics
Matches: 239, Mismatches: 67, Indels: 58
0.66 0.18 0.16
Matches are distributed among these distances:
2 23 0.10
3 180 0.75
4 36 0.15
ACGTcount: A:0.60, C:0.03, G:0.09, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:38645570 original size:11 final size:11
Alignment explanation
Indices: 38645543--38645589 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
38645533 GGGTTGATAA
*
38645543 TTGGGTTTAGGT
1 TTGGGTTT-GTT
*
38645555 TTGGGTTGGTT
1 TTGGGTTTGTT
*
38645566 TTGGGTTTGTA
1 TTGGGTTTGTT
38645577 TTGGGTTTGTT
1 TTGGGTTTGTT
38645588 TT
1 TT
38645590 AGCTCGGGCC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 23 0.77
12 7 0.23
ACGTcount: A:0.04, C:0.00, G:0.38, T:0.57
Consensus pattern (11 bp):
TTGGGTTTGTT
Found at i:38646910 original size:15 final size:15
Alignment explanation
Indices: 38646890--38646919 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
38646880 AATTTTATTT
*
38646890 ATATTAGGATAATTA
1 ATATTAAGATAATTA
38646905 ATATTAAGATAATTA
1 ATATTAAGATAATTA
38646920 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:38646947 original size:27 final size:26
Alignment explanation
Indices: 38646886--38646948 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
38646876 ACTCAATTTT
38646886 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
38646913 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
38646941 ATTTTATT
1 ATTTTATT
38646949 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:38646963 original size:10 final size:10
Alignment explanation
Indices: 38646944--38646975 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
38646934 TTTTAGGATT
38646944 TTAT-TTTAA
1 TTATCTTTAA
38646953 TTATCTTTAA
1 TTATCTTTAA
38646963 TTATCTTTAA
1 TTATCTTTAA
38646973 TTA
1 TTA
38646976 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:38648418 original size:21 final size:22
Alignment explanation
Indices: 38648392--38648445 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 22
38648382 GGTGATGATA
38648392 TTTCTTTAAA-CTCAATTTTCC
1 TTTCTTTAAATCTCAATTTTCC
38648413 TTTCTTTGTAAATTGCTCAATTTTCC
1 TTTC-TT-TAAA-T-CTCAATTTTCC
38648439 TTTCTTT
1 TTTCTTT
38648446 GTAAAATTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
21 4 0.14
22 2 0.07
23 4 0.14
24 1 0.04
25 2 0.07
26 15 0.54
ACGTcount: A:0.19, C:0.20, G:0.04, T:0.57
Consensus pattern (22 bp):
TTTCTTTAAATCTCAATTTTCC
Found at i:38648432 original size:26 final size:27
Alignment explanation
Indices: 38648402--38648455 Score: 101
Period size: 26 Copynumber: 2.0 Consensus size: 27
38648392 TTTCTTTAAA
38648402 CTCAATTTTCCTTTCTTTGT-AAATTG
1 CTCAATTTTCCTTTCTTTGTAAAATTG
38648428 CTCAATTTTCCTTTCTTTGTAAAATTG
1 CTCAATTTTCCTTTCTTTGTAAAATTG
38648455 C
1 C
38648456 ATGATTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 20 0.74
27 7 0.26
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.52
Consensus pattern (27 bp):
CTCAATTTTCCTTTCTTTGTAAAATTG
Found at i:38649913 original size:63 final size:63
Alignment explanation
Indices: 38649814--38649946 Score: 212
Period size: 63 Copynumber: 2.1 Consensus size: 63
38649804 GGATATTTCG
* * *
38649814 AACATGGTATCTGTTAAGAGTGTGTTAAAAAACATTTAAGAGAAATGACATAAGGTGCGAGTA
1 AACATGGTATCTGTAAAGAGCGTGTTAAAAAACATTTAAGAGAAATAACATAAGGTGCGAGTA
* * *
38649877 AACATGGTATCTGTAAAGAGCGTGTTCAAAAACATTTAAGAGAAATAATATAAGGTGTGAGTA
1 AACATGGTATCTGTAAAGAGCGTGTTAAAAAACATTTAAGAGAAATAACATAAGGTGCGAGTA
38649940 AACATGG
1 AACATGG
38649947 GCAGTAGTTG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.26
Consensus pattern (63 bp):
AACATGGTATCTGTAAAGAGCGTGTTAAAAAACATTTAAGAGAAATAACATAAGGTGCGAGTA
Found at i:38654153 original size:17 final size:17
Alignment explanation
Indices: 38654133--38654167 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
38654123 TTATTGATTG
38654133 TATTATTTTAT-TAAAAT
1 TATTA-TTTATGTAAAAT
38654150 TATTATTTATGTAAAAT
1 TATTATTTATGTAAAAT
38654167 T
1 T
38654168 GTTTTATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TATTATTTATGTAAAAT
Found at i:38654686 original size:15 final size:15
Alignment explanation
Indices: 38654666--38654695 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
38654656 TTTTTAATAC
*
38654666 TTTTGAGTATTTTAT
1 TTTTGAATATTTTAT
38654681 TTTTGAATATTTTAT
1 TTTTGAATATTTTAT
38654696 AATTATTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (15 bp):
TTTTGAATATTTTAT
Found at i:38656551 original size:42 final size:43
Alignment explanation
Indices: 38656471--38656558 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 43
38656461 AGAAGTGGAA
38656471 AAATTGGAAAAAGAATATCTTTTTTACTTACAAAAAAAAAAGG
1 AAATTGGAAAAAGAATATCTTTTTTACTTACAAAAAAAAAAGG
* ** *
38656514 AAATTGGAAAATGAATATCTTTTTTACTTATGAAAAAAAAGGG
1 AAATTGGAAAAAGAATATCTTTTTTACTTACAAAAAAAAAAGG
38656557 AA
1 AA
38656559 TTTTGGTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.30
Consensus pattern (43 bp):
AAATTGGAAAAAGAATATCTTTTTTACTTACAAAAAAAAAAGG
Found at i:38663385 original size:51 final size:48
Alignment explanation
Indices: 38663278--38663435 Score: 139
Period size: 51 Copynumber: 3.2 Consensus size: 48
38663268 ACATAAATAC
** *
38663278 ACAT-ATATATGTTAAAAATATATACATAATA-AGGATATTAAAAGCATGT
1 ACATAATATATGTT-AAAA-ATATACATAATATA-GATATTAAAAATATAT
* *
38663327 ACGTAATATAGTGTTAAAAATGCATACATAATATAGTTATTAAAAATATAT
1 ACATAATATA-TGTTAAAAAT--ATACATAATATAGATATTAAAAATATAT
*
38663378 ACATAATATA--ATAAAATATATGA-ATAATAT-GATATTAAAAAATATAT
1 ACATAATATATGTTAAAA-ATAT-ACATAATATAGATATT-AAAAATATAT
38663425 ACATAATATAT
1 ACATAATATAT
38663436 AAAAATATAA
Statistics
Matches: 92, Mismatches: 8, Indels: 19
0.77 0.07 0.16
Matches are distributed among these distances:
46 5 0.05
47 29 0.32
48 6 0.07
49 7 0.08
50 9 0.10
51 35 0.38
52 1 0.01
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (48 bp):
ACATAATATATGTTAAAAATATACATAATATAGATATTAAAAATATAT
Found at i:38663419 original size:47 final size:44
Alignment explanation
Indices: 38663354--38663473 Score: 137
Period size: 47 Copynumber: 2.8 Consensus size: 44
38663344 AAATGCATAC
38663354 ATAATATAGTTATT-AAAAATATATACATAATATAATAAAATATATGA
1 ATAATAT-G-TATTAAAAAATATATACATAATATAATAAAA-ATAT-A
38663401 ATAATATGATATTAAAAAATATATACATAATAT-ATAAAAATATA
1 ATAATATG-TATTAAAAAATATATACATAATATAATAAAAATATA
38663445 AT-AT-T-TA--AAAAAATAATATACATAATATA
1 ATAATATGTATTAAAAAAT-ATATACATAATATA
38663474 TGTAGACACT
Statistics
Matches: 69, Mismatches: 1, Indels: 13
0.83 0.01 0.16
Matches are distributed among these distances:
38 7 0.10
39 13 0.19
40 2 0.03
42 1 0.01
43 2 0.03
44 3 0.04
45 4 0.06
46 11 0.16
47 26 0.38
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (44 bp):
ATAATATGTATTAAAAAATATATACATAATATAATAAAAATATA
Found at i:38663422 original size:36 final size:38
Alignment explanation
Indices: 38663382--38663474 Score: 106
Period size: 36 Copynumber: 2.5 Consensus size: 38
38663372 ATATATACAT
* *
38663382 AATATAATA-A-AATATATGAATAATATGATA-TTAAAA
1 AATATAATACATAATATAT-AAAAATATAATATTTAAAA
38663418 AATAT-ATACATAATATATAAAAATATAATATTTAAAA
1 AATATAATACATAATATATAAAAATATAATATTTAAAA
38663455 AA-ATAATATACATAATATAT
1 AATAT-A-ATACATAATATAT
38663475 GTAGACACTC
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
35 3 0.06
36 18 0.37
37 15 0.31
39 13 0.27
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (38 bp):
AATATAATACATAATATATAAAAATATAATATTTAAAA
Found at i:38663433 original size:26 final size:25
Alignment explanation
Indices: 38663289--38663433 Score: 122
Period size: 26 Copynumber: 5.8 Consensus size: 25
38663279 CATATATATG
*
38663289 TTAAAAATATATACATAATAAGGATA
1 TTAAAAATATATACATAAT-ATGATA
** * * *
38663315 TTAAAAGCATGTACGTAATAT-AGTG
1 TTAAAAATATATACATAATATGA-TA
** *
38663340 TTAAAAATGCATACATAATATAGTTA
1 TTAAAAATATATACATAATAT-GATA
38663366 TTAAAAATATATACATAATAT-A-A
1 TTAAAAATATATACATAATATGATA
38663389 -T-AAAATATATGA-ATAATATGATA
1 TTAAAAATATAT-ACATAATATGATA
38663412 TTAAAAAATATATACATAATAT
1 TT-AAAAATATATACATAATAT
38663434 ATAAAAATAT
Statistics
Matches: 92, Mismatches: 17, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
21 16 0.17
22 3 0.03
23 2 0.02
24 2 0.02
25 18 0.20
26 51 0.55
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.34
Consensus pattern (25 bp):
TTAAAAATATATACATAATATGATA
Found at i:38663447 original size:15 final size:15
Alignment explanation
Indices: 38663427--38663464 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
38663417 AAATATATAC
*
38663427 ATAATATATAAAAAT
1 ATAATATATAAAAAA
*
38663442 ATAATATTTAAAAAA
1 ATAATATATAAAAAA
38663457 ATAATATA
1 ATAATATA
38663465 CATAATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAATATATAAAAAA
Found at i:38663681 original size:16 final size:17
Alignment explanation
Indices: 38663631--38663681 Score: 50
Period size: 19 Copynumber: 2.9 Consensus size: 17
38663621 ATGGAAATAT
* *
38663631 AATCTTTAAGGATATAC
1 AATCTTGAAGGATATGC
*
38663648 AATCTTAGATATGATATGC
1 AATCTT-GA-AGGATATGC
38663667 AATCTTGAA-GATATG
1 AATCTTGAAGGATATG
38663682 ATCTTGTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 6 0.21
17 7 0.24
18 3 0.10
19 13 0.45
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (17 bp):
AATCTTGAAGGATATGC
Found at i:38663700 original size:22 final size:21
Alignment explanation
Indices: 38663641--38663683 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
38663631 AATCTTTAAG
*
38663641 GATATACAATCTT--AGATAT
1 GATATGCAATCTTGAAGATAT
38663660 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTTGAAGATAT
38663681 GAT
1 GAT
38663684 CTTGTAATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.57
21 9 0.43
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.35
Consensus pattern (21 bp):
GATATGCAATCTTGAAGATAT
Found at i:38670467 original size:8 final size:8
Alignment explanation
Indices: 38670453--38670523 Score: 60
Period size: 9 Copynumber: 8.8 Consensus size: 8
38670443 CTATTTCAAA
38670453 AAAAAAAGG
1 AAAAAAA-G
38670462 AAAAAAAG
1 AAAAAAAG
38670470 AAAAGAAA-
1 AAAA-AAAG
38670478 AAGAGAAAA-
1 AA-A-AAAAG
*
38670487 AAAATAA-
1 AAAAAAAG
38670494 AAAAAAAG
1 AAAAAAAG
38670502 AGAAAAAAG
1 A-AAAAAAG
38670511 -AAAAAAG
1 AAAAAAAG
38670518 AAAAAA
1 AAAAAA
38670524 TGGAGAGGCC
Statistics
Matches: 54, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
7 16 0.30
8 14 0.26
9 23 0.43
10 1 0.02
ACGTcount: A:0.85, C:0.00, G:0.14, T:0.01
Consensus pattern (8 bp):
AAAAAAAG
Found at i:38670485 original size:21 final size:20
Alignment explanation
Indices: 38670450--38670522 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 20
38670440 CTTCTATTTC
38670450 AAAAAAAAAAG-GAAAAAAA
1 AAAAAAAAAAGAGAAAAAAA
*
38670469 GAAAAGAAAAAGAGAAAAAAA
1 -AAAAAAAAAAGAGAAAAAAA
38670490 ATAAAAAAAAAGAGAAAAAAGA
1 A-AAAAAAAAAGAGAAAAAA-A
38670512 AAAAAGAAAAA
1 AAAAA-AAAAA
38670523 ATGGAGAGGC
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
20 11 0.23
21 29 0.62
22 7 0.15
ACGTcount: A:0.85, C:0.00, G:0.14, T:0.01
Consensus pattern (20 bp):
AAAAAAAAAAGAGAAAAAAA
Found at i:38671668 original size:84 final size:84
Alignment explanation
Indices: 38671471--38672172 Score: 943
Period size: 84 Copynumber: 8.4 Consensus size: 84
38671461 AAAATCCAGT
* *
38671471 GCCTTAATCCCCTAAGCGGTAGGGTAACAGG-----TTCGCAGATCTTATCTCCCTAAGCAGTAG
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
* *
38671531 CGGAGCATATCGACGATGACTC
66 TGGAGCAGATCGA--A-GACTC
38671553 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
38671618 TGGAGCAGATCGAAGACTC
66 TGGAGCAGATCGAAGACTC
38671637 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
*
38671702 TGGAACAGATCGAAGACTC
66 TGGAGCAGATCGAAGACTC
* *
38671721 GCCTTAATCCCCTGAGCAGTAGGGTAACAGGTT-CA----CAGATCTTATCTCCCTAAGCAGTAG
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
*
38671781 CGGAGCAGATCGATGATGACTC
66 TGGAGCAGATCGA--A-GACTC
*
38671803 GCCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
38671868 TGGAGCAGATCGAAGACAT-
66 TGGAGCAGATCGAAGAC-TC
* * *
38671887 GCCTTAATCCTCTAAGCGGTAGGGTAACAAGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
* *
38671952 TGGAGCATATTGAAGACTC
66 TGGAGCAGATCGAAGACTC
* * *
38671971 GTCTTAATCCCCTAAGCAGTAGGGTAACAGG-----TTCGCAGATCTTATCTCCTTAAGCAGTAG
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
* *
38672031 AGGAGCAGATCGATGGCGACTC
66 TGGAGCAGATCGA---AGACTC
* * *
38672053 ACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGTAGATCTTATCTCCCTAAGTAGTAG
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
* *
38672118 TGGAGTAGATTGAAGA-TGC
66 TGGAGCAGATCGAAGACT-C
* * *
38672137 GCCTTAACCCCCTAAGTAGTAGGGTAATAGGTTAAA
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAA
38672173 GTATAGCAGA
Statistics
Matches: 553, Mismatches: 43, Indels: 46
0.86 0.07 0.07
Matches are distributed among these distances:
79 73 0.13
81 1 0.00
82 100 0.18
83 4 0.01
84 261 0.47
85 3 0.01
87 111 0.20
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (84 bp):
GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
TGGAGCAGATCGAAGACTC
Found at i:38671804 original size:166 final size:169
Alignment explanation
Indices: 38671471--38672172 Score: 858
Period size: 166 Copynumber: 4.2 Consensus size: 169
38671461 AAAATCCAGT
*
38671471 GCCTTAATCCCCTAAGCGGTAGGGTAACAGG-----TTCGCAGATCTTATCTCCCTAAGCAGTAG
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTCGCAGATCTTATCTCCCTAAGCAGTAG
* *
38671531 CGGAGCATATCGACGATGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAG
66 TGGAGCAGATCGA-GA-GACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAA--T-CAG
38671596 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA--A-GACTC
126 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGATGATGACTC
*
38671637 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTCGCAGATCTTATCTCCCTAAGCAGTAG
* * *
38671702 TGGAACAGATCGA-AGACTCGCCTTAATCCCCTGAGCAGTAGGGTAACAGGTT-CA-CAGATCTT
66 TGGAGCAGATCGAGAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATCAGATCTT
*
38671764 ATCTCCCTAAGCAGTAGCGGAGCAGATCGATGATGACTC
131 ATCTCCCTAAGCAGTAGTGGAGCAGATCGATGATGACTC
* *
38671803 GCCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTCGCAGATCTTATCTCCCTAAGCAGTAG
* * *
38671868 TGGAGCAGATCGA-AGACAT-GCCTTAATCCTCTAAGCGGTAGGGTAACAAGTTAAATTTGCAGA
66 TGGAGCAGATCGAGAGAC-TCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAA--T-CAGA
* *
38671931 TCTTATCTCCCTAAGCAGTAGTGGAGCATAT---TGAAGACTC
127 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGATGATGACTC
* *
38671971 GTCTTAATCCCCTAAGCAGTAGGGTAACAGG-----TTCGCAGATCTTATCTCCTTAAGCAGTAG
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTCGCAGATCTTATCTCCCTAAGCAGTAG
* * * *
38672031 AGGAGCAGATCGATGGCGACTCACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGTAG
66 TGGAGCAGATCGA--GAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAA--T-CAG
* * * *
38672096 ATCTTATCTCCCTAAGTAGTAGTGGAGTAGATTGAAGATG---C
126 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGATGATGACTC
* * *
38672137 GCCTTAACCCCCTAAGTAGTAGGGTAATAGGTTAAA
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAA
38672173 GTATAGCAGA
Statistics
Matches: 472, Mismatches: 38, Indels: 47
0.85 0.07 0.08
Matches are distributed among these distances:
163 76 0.16
165 2 0.00
166 242 0.51
167 3 0.01
168 74 0.16
169 4 0.01
171 71 0.15
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (169 bp):
GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTCGCAGATCTTATCTCCCTAAGCAGTAG
TGGAGCAGATCGAGAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATCAGATCTT
ATCTCCCTAAGCAGTAGTGGAGCAGATCGATGATGACTC
Found at i:38671912 original size:250 final size:249
Alignment explanation
Indices: 38671471--38672172 Score: 1136
Period size: 250 Copynumber: 2.8 Consensus size: 249
38671461 AAAATCCAGT
*
38671471 GCCTTAATCCCCTAAGCGGTAGGGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGAG
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGAG
* *
38671536 CATATCGACGATGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTT
66 CAGATCGATGATGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTT
38671601 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACA
131 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACT-GCCTTAATCCCCTAAGCAGTAGGGTAACA
38671666 GGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACTC
195 GGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACTC
* *
38671721 GCCTTAATCCCCTGAGCAGTAGGGTAACAGGTTCACAGATCTTATCTCCCTAAGCAGTAGCGGAG
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGAG
*
38671786 CAGATCGATGATGACTCGCCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTT
66 CAGATCGATGATGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTT
* *
38671851 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACATGCCTTAATCCTCTAAGCGGTAGGGTAACA
131 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC-TGCCTTAATCCCCTAAGCAGTAGGGTAACA
* * * *
38671916 AGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCATATTGAAGACTC
195 GGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACTC
* * *
38671971 GTCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCTCCTTAAGCAGTAGAGGAG
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGAG
** * *
38672036 CAGATCGATGGCGACTCACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGTAGATCTT
66 CAGATCGATGATGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTT
* * * * * *
38672101 ATCTCCCTAAGTAGTAGTGGAGTAGATTGAAGA-TGCGCCTTAACCCCCTAAGTAGTAGGGTAAT
131 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACT--GCCTTAATCCCCTAAGCAGTAGGGTAAC
38672165 AGGTTAAA
194 AGGTTAAA
38672173 GTATAGCAGA
Statistics
Matches: 418, Mismatches: 31, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
248 1 0.00
250 416 1.00
251 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (249 bp):
GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGAG
CAGATCGATGATGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTT
ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTGCCTTAATCCCCTAAGCAGTAGGGTAACAG
GTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACTC
Found at i:38672517 original size:87 final size:87
Alignment explanation
Indices: 38672342--38672528 Score: 205
Period size: 87 Copynumber: 2.1 Consensus size: 87
38672332 TCACTTTGAT
* * * * * *
38672342 GCAGATCCAAGATGATTTAGCATCATTGTGTTTACAAGGAGCAAATCGAAGACATAGTAGATCTG
1 GCAGATCCAAGATAATTTAGCATCACTGTATTTACAAGGAACAAATCGAAGACATAGCAGATCTA
* * *
38672407 ACCTTCAGGTGTTTACGCTGAA
66 ACATTCAGATGCTTACGCTGAA
* * * * *
38672429 GCAGATCCAAGATAATTTGGCATCCCTGTATTTACAGGGAACAGATCGAAGACGTAGCAGATCTA
1 GCAGATCCAAGATAATTTAGCATCACTGTATTTACAAGGAACAAATCGAAGACATAGCAGATCTA
**
38672494 ACATTCCTATGCTTACAGC-GAA
66 ACATTCAGATGCTTAC-GCTGAA
*
38672516 GCAGATCGAAGAT
1 GCAGATCCAAGAT
38672529 TTCAGCATGA
Statistics
Matches: 82, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
87 80 0.98
88 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.25
Consensus pattern (87 bp):
GCAGATCCAAGATAATTTAGCATCACTGTATTTACAAGGAACAAATCGAAGACATAGCAGATCTA
ACATTCAGATGCTTACGCTGAA
Found at i:38672588 original size:44 final size:44
Alignment explanation
Indices: 38672536--38672756 Score: 205
Period size: 44 Copynumber: 5.0 Consensus size: 44
38672526 GATTTCAGCA
38672536 TGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATT
1 TGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATT
* * *
38672580 TGGCATCCCTGTGTTTATAGGGAAC-AGATCGAAGATAGCAGATC
1 TGACATCCCTGTGTTTATAGGGAACAAG-TTGAAGATAGCAGATT
* * * * ** *** **
38672624 TGACATTCCTGTGCTTACAGTGAA-ACAGATCAAAGATTTTA-ACA
1 TGACATCCCTGTGTTTATAGGGAACA-AG-TTGAAGATAGCAGATT
* *
38672668 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGGTT
1 TGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATT
* * *
38672712 TGACATCCCTATGTTTACAGGGAACAAATTGAAGACATAGCAGAT
1 TGACATCCCTGTGTTTATAGGGAACAAGTTGAAG--ATAGCAGAT
38672757 CTGATTTTTG
Statistics
Matches: 138, Mismatches: 32, Indels: 12
0.76 0.18 0.07
Matches are distributed among these distances:
43 9 0.07
44 109 0.79
45 12 0.09
46 8 0.06
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.28
Consensus pattern (44 bp):
TGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATT
Found at i:38672682 original size:132 final size:132
Alignment explanation
Indices: 38672443--38672760 Score: 465
Period size: 132 Copynumber: 2.4 Consensus size: 132
38672433 ATCCAAGATA
* *
38672443 ATTTGGCATCCCTGTATTTACAGGGAACAGATCGAAGACGTAGCAGATCTAACATTCCTATGCTT
1 ATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAGA--TAGCAGATCTGACATTCCTATGCTT
* * *
38672508 ACAGCGAAGCAGATCGAAGATTTCAGCATGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
64 ACAGCGAAACAGATCAAAGATTTCAACATGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
38672573 GCAG
129 GCAG
* *
38672577 ATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTAC
1 ATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTATGCTTAC
* * *
38672642 AGTGAAACAGATCAAAGATTTTAACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
66 AGCGAAACAGATCAAAGATTTCAACATGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
38672707 AG
131 AG
* * * * *
38672709 GTTTGACATCCCTATGTTTACAGGGAACAAATTGAAGACATAGCAGATCTGA
1 ATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAG--ATAGCAGATCTGA
38672761 TTTTTGGATG
Statistics
Matches: 166, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
132 117 0.70
134 49 0.30
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (132 bp):
ATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTATGCTTAC
AGCGAAACAGATCAAAGATTTCAACATGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
AG
Found at i:38672913 original size:174 final size:175
Alignment explanation
Indices: 38672723--38673114 Score: 597
Period size: 174 Copynumber: 2.2 Consensus size: 175
38672713 GACATCCCTA
* * * * * *
38672723 TGTTTACAGGGAACAAATTGAAGACATAGCAGATCTGATTTTTGGATGTTCTCACACCAAAGCAG
1 TGTTTACAAGGAACAAATCGAAGACATAGCAGATCTGACTTTCGGATGTTATCACACCAAAGCAA
* * *
38672788 ATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCTAACCTT
66 ATCCAAGATAACAGATCTAGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTT
* * * *
38672853 CAGAT-GTTATACTGAAGTAGATCCAAGATGATTTGGCATTCTTG
131 CAGATAATTATACTGAAGCAGATCCAAAATGATTTGGCATCCTTG
* *
38672897 TGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTATTACACCAAAGCAA
1 TGTTTACAAGGAACAAATCGAAGACATAGCAGATCTGACTTTCGGATGTTATCACACCAAAGCAA
38672962 ATCCAAGATAACAGATCTAGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTT
66 ATCCAAGATAACAGATCTAGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTT
* *
38673027 CAGATAATTTTATTGAAGCAGATCCAAAATGATTTGGCATCCTTG
131 CAGATAATTATACTGAAGCAGATCCAAAATGATTTGGCATCCTTG
* * *
38673072 TGTTCACAAGGAGCAAATCGAAGACATAGCAGATTTGACTTTC
1 TGTTTACAAGGAACAAATCGAAGACATAGCAGATCTGACTTTC
38673115 ACGTGTTTAC
Statistics
Matches: 198, Mismatches: 19, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
174 124 0.63
175 74 0.37
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (175 bp):
TGTTTACAAGGAACAAATCGAAGACATAGCAGATCTGACTTTCGGATGTTATCACACCAAAGCAA
ATCCAAGATAACAGATCTAGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTT
CAGATAATTATACTGAAGCAGATCCAAAATGATTTGGCATCCTTG
Found at i:38674149 original size:23 final size:24
Alignment explanation
Indices: 38674114--38674165 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
38674104 TTTGTGCATA
*
38674114 GTTTCATT-TTTTTTATATGCTAT
1 GTTTAATTATTTTTTATATGCTAT
38674137 GTTTAATTATTTTTTTATATGCTAT
1 GTTTAATTA-TTTTTTATATGCTAT
38674162 -TTTA
1 GTTTA
38674166 TGATATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 7 0.27
24 4 0.15
25 15 0.58
ACGTcount: A:0.21, C:0.06, G:0.08, T:0.65
Consensus pattern (24 bp):
GTTTAATTATTTTTTATATGCTAT
Found at i:38675203 original size:15 final size:15
Alignment explanation
Indices: 38675183--38675211 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
38675173 CTAATAATAT
38675183 TAATAATAAATATAA
1 TAATAATAAATATAA
38675198 TAATAATAAATATA
1 TAATAATAAATATA
38675212 TGTACATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TAATAATAAATATAA
Found at i:38675298 original size:26 final size:25
Alignment explanation
Indices: 38675258--38675310 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
38675248 AAAATATAAC
* * *
38675258 TAAATATAATATGATGATAATAATA
1 TAAAAATAATATGATAACAATAATA
38675283 TAAAAATAATAGTGATAACAATAATA
1 TAAAAATAATA-TGATAACAATAATA
38675309 TA
1 TA
38675311 TATAACATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (25 bp):
TAAAAATAATATGATAACAATAATA
Found at i:38675946 original size:2 final size:2
Alignment explanation
Indices: 38675941--38676019 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
38675931 TATATATATA
38675941 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
38675983 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
38676020 AGATTAGGAT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:38677840 original size:30 final size:29
Alignment explanation
Indices: 38677771--38677841 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 29
38677761 TTTTTATAGT
* *
38677771 TATATTTTTATAATTTTTAAAGGATTAAA
1 TATAATTTTATAATTTTTAAAGGATAAAA
38677800 TCA-AATTTTTATAA-TTTTAAAGGGACTAAAA
1 T-ATAA-TTTTATAATTTTTAAA-GGA-TAAAA
38677831 TATAATTTTAT
1 TATAATTTTAT
38677842 TTTTACTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
29 9 0.26
30 19 0.54
31 7 0.20
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (29 bp):
TATAATTTTATAATTTTTAAAGGATAAAA
Found at i:38679039 original size:20 final size:20
Alignment explanation
Indices: 38679014--38679052 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
38679004 CCACTACACC
*
38679014 CCACCCGTACCAGTCATACT
1 CCACCCGTACCAGCCATACT
38679034 CCACCCGTACCAGCCATAC
1 CCACCCGTACCAGCCATAC
38679053 ACTCCATGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.49, G:0.10, T:0.15
Consensus pattern (20 bp):
CCACCCGTACCAGCCATACT
Found at i:38685786 original size:23 final size:23
Alignment explanation
Indices: 38685756--38685802 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
38685746 TACTTTGATA
38685756 TTTTTTTCAATAAGAAAATTTAT
1 TTTTTTTCAATAAGAAAATTTAT
38685779 TTTTTTTCAATAAGAAAATTTAT
1 TTTTTTTCAATAAGAAAATTTAT
38685802 T
1 T
38685803 CACACACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (23 bp):
TTTTTTTCAATAAGAAAATTTAT
Found at i:38686763 original size:26 final size:27
Alignment explanation
Indices: 38686726--38686795 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 27
38686716 ATACATATTT
38686726 AATTATCT-ATATTTAATCA-TATAATA
1 AATTAT-TAATATTTAATCATTATAATA
* *
38686752 AATTATTAATATAGTTGATCATTTTAATA
1 AATTATTAATAT--TTAATCATTATAATA
38686781 AATTACTTAATATTT
1 AATTA-TTAATATTT
38686796 TAATTTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
25 1 0.03
26 10 0.27
28 8 0.22
29 11 0.30
30 7 0.19
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.49
Consensus pattern (27 bp):
AATTATTAATATTTAATCATTATAATA
Found at i:38686878 original size:15 final size:15
Alignment explanation
Indices: 38686860--38686916 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
38686850 ATTCAATATT
38686860 AATATTTTAATAATA
1 AATATTTTAATAATA
*
38686875 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
38686894 AATATATTAATAATA
1 AATATTTTAATAATA
38686909 AATATTTT
1 AATATTTT
38686917 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:38687783 original size:93 final size:93
Alignment explanation
Indices: 38687671--38687864 Score: 327
Period size: 93 Copynumber: 2.1 Consensus size: 93
38687661 TATGATTCTC
* *
38687671 TAAT-AAAATATCAAGAAAAAATTTATCATTATTTACTAATTTATGAGTAAATTTTTATTAAATC
1 TAATAAAAATATCAAGAAAAAATTTATCATTATTCACTAATTTATGAATAAATTTTTATTAAATC
*
38687735 ACTTGACTTCTTTTTACAAGTTAATTAA
66 ACTTGACTTCTTTTGACAAGTTAATTAA
* * *
38687763 TAATAAAAATATCGAGAAAAAATTTATCATTATTCACTAATTTATGAATAATTTTTTGTTAAATC
1 TAATAAAAATATCAAGAAAAAATTTATCATTATTCACTAATTTATGAATAAATTTTTATTAAATC
38687828 ACTTGACTTCTTTTGACAAGTTAATTAA
66 ACTTGACTTCTTTTGACAAGTTAATTAA
38687856 TAATAAAAA
1 TAATAAAAA
38687865 AAGGGGCCGG
Statistics
Matches: 95, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
92 4 0.04
93 91 0.96
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.42
Consensus pattern (93 bp):
TAATAAAAATATCAAGAAAAAATTTATCATTATTCACTAATTTATGAATAAATTTTTATTAAATC
ACTTGACTTCTTTTGACAAGTTAATTAA
Found at i:38692006 original size:18 final size:19
Alignment explanation
Indices: 38691971--38692007 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
38691961 TGAATAAAAG
*
38691971 TGAAAATAGTGTAAATTGA
1 TGAAAATAGTGAAAATTGA
38691990 TGAAAAT-GTGAAAATTGA
1 TGAAAATAGTGAAAATTGA
38692008 ATTGGATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.30
Consensus pattern (19 bp):
TGAAAATAGTGAAAATTGA
Found at i:38692091 original size:33 final size:33
Alignment explanation
Indices: 38692035--38692099 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
38692025 TCATTCTATT
38692035 ATATGAATGAAATTGTAATTTGATTGATTAATTGA
1 ATATGAATGAAATTGTAATTTGATT-A-TAATTGA
38692070 ATATG-AT-AAATTGTGAA-TTGATTATAATTG
1 ATATGAATGAAATTGT-AATTTGATTATAATTG
38692100 TAAATTGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
31 6 0.21
32 1 0.03
33 13 0.45
34 4 0.14
35 5 0.17
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (33 bp):
ATATGAATGAAATTGTAATTTGATTATAATTGA
Found at i:38694116 original size:17 final size:17
Alignment explanation
Indices: 38694094--38694126 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
38694084 ATTCGTAAAT
38694094 ATTTATTTATTTACTTG
1 ATTTATTTATTTACTTG
38694111 ATTTATTTATTTACTT
1 ATTTATTTATTTACTT
38694127 TTTACTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.67
Consensus pattern (17 bp):
ATTTATTTATTTACTTG
Found at i:38710042 original size:14 final size:15
Alignment explanation
Indices: 38710015--38710043 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
38710005 ATGTTAAGTT
38710015 CTTAGGTGTAATAAA
1 CTTAGGTGTAATAAA
38710030 CTTAGGT-TAATAAA
1 CTTAGGTGTAATAAA
38710044 AATATATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.34
Consensus pattern (15 bp):
CTTAGGTGTAATAAA
Found at i:38710468 original size:4 final size:4
Alignment explanation
Indices: 38710459--38710488 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
38710449 CCATCAACAT
38710459 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
38710489 CTTCTCATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:38713686 original size:19 final size:21
Alignment explanation
Indices: 38713658--38713699 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
38713648 TGATTGTGTG
*
38713658 TACATGTGTA-AAAATAA-AA
1 TACATATGTATAAAATAATAA
38713677 TACATATGTATAAAATAATAA
1 TACATATGTATAAAATAATAA
38713698 TA
1 TA
38713700 TATGAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 7 0.35
21 4 0.20
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.31
Consensus pattern (21 bp):
TACATATGTATAAAATAATAA
Done.