Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 275 of 276
Found at i:90971768 original size:21 final size:21
Alignment explanation
Indices: 90971742--90971781 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
90971732 TGTCTGAACC
90971742 CAGCAACAGGCTACCCCAAGT
1 CAGCAACAGGCTACCCCAAGT
* *
90971763 CAGCAAGAGGGTACCCCAA
1 CAGCAACAGGCTACCCCAA
90971782 CTCAACAAGG
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:0.35, C:0.35, G:0.23, T:0.07
Consensus pattern (21 bp):
CAGCAACAGGCTACCCCAAGT
Found at i:90972315 original size:59 final size:59
Alignment explanation
Indices: 90972221--90972357 Score: 202
Period size: 59 Copynumber: 2.3 Consensus size: 59
90972211 TATTTATTAT
* * *
90972221 CCAACTGTTAAGCAATTTGTATACCAACTGTTATCTTTTCTAACTAGCAGCCATGTATA
1 CCAACTGTTAAGCAATTTGCATACCAACTGTTATCTCTTCTAACCAGCAGCCATGTATA
* * * *
90972280 CTAACTGTTAAGCAATTTGCATATCAATTGTTATCTCTTCTAACCAGTAGCCATGTATA
1 CCAACTGTTAAGCAATTTGCATACCAACTGTTATCTCTTCTAACCAGCAGCCATGTATA
*
90972339 CCAAGTGTTAAGCAATTTG
1 CCAACTGTTAAGCAATTTG
90972358 TAAACAACAT
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 69 1.00
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (59 bp):
CCAACTGTTAAGCAATTTGCATACCAACTGTTATCTCTTCTAACCAGCAGCCATGTATA
Found at i:90972435 original size:28 final size:30
Alignment explanation
Indices: 90972403--90972461 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
90972393 AGCCATTTTT
90972403 AACAC-ATGT-TAAGCAACAAAAATATTCC
1 AACACAATGTGTAAGCAACAAAAATATTCC
* * *
90972431 AACACAATTTGTAATCAACAAAAATTTTCC
1 AACACAATGTGTAAGCAACAAAAATATTCC
90972461 A
1 A
90972462 TTTCATTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 5 0.19
29 3 0.12
30 18 0.69
ACGTcount: A:0.49, C:0.20, G:0.05, T:0.25
Consensus pattern (30 bp):
AACACAATGTGTAAGCAACAAAAATATTCC
Found at i:90972940 original size:20 final size:20
Alignment explanation
Indices: 90972904--90972945 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
90972894 TCCATTTTTC
* *
90972904 CTCTTCTCCTTCTTCTTCTT
1 CTCTTCTCCTTCCTCTTATT
90972924 CTCTTCCTCC-TCCTCTTATT
1 CTCTT-CTCCTTCCTCTTATT
90972944 CT
1 CT
90972946 TTTTCTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.02, C:0.43, G:0.00, T:0.55
Consensus pattern (20 bp):
CTCTTCTCCTTCCTCTTATT
Found at i:90975428 original size:18 final size:19
Alignment explanation
Indices: 90975389--90975429 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
90975379 TTGACATAAA
*
90975389 ATAA-TAATTCATTAATAT
1 ATAATTAATTCATTAATAG
*
90975407 ATAATTAATT-ATTATTAG
1 ATAATTAATTCATTAATAG
90975425 ATAAT
1 ATAAT
90975430 AACAAAAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (19 bp):
ATAATTAATTCATTAATAG
Found at i:90978180 original size:37 final size:37
Alignment explanation
Indices: 90978127--90978218 Score: 100
Period size: 37 Copynumber: 2.5 Consensus size: 37
90978117 ATTCCAAAAA
*
90978127 TAATA-TTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTTATCTTAATAGTATT-ATATT-AATTTAATAT
*
90978163 TAATATTTATCTTAATAGTATTTTATTAATTTAATAT
1 TAATATTTATCTTAATAGTATTATATTAATTTAATAT
*
90978200 TAAAATGATTATCTTAATA
1 TAATAT--TTATCTTAATA
90978219 TTAAATTTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.27
37 22 0.46
38 2 0.04
39 11 0.23
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.53
Consensus pattern (37 bp):
TAATATTTATCTTAATAGTATTATATTAATTTAATAT
Found at i:90978202 original size:11 final size:11
Alignment explanation
Indices: 90978127--90978202 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
90978117 ATTCCAAAAA
*
90978127 TAATATTATTT
1 TAATATTAATT
90978138 TAATAGTTTAATAT
1 TAATA--TTAAT-T
90978152 TAA-ATTTAATT
1 TAATA-TTAATT
*
90978163 TAATATTTATCT
1 TAATATTAAT-T
*
90978175 TAATAGT-ATT
1 TAATATTAATT
90978185 T--TATTAATT
1 TAATATTAATT
90978194 TAATATTAA
1 TAATATTAA
90978203 AATGATTATC
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 21 0.40
12 14 0.26
13 5 0.09
14 4 0.08
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (11 bp):
TAATATTAATT
Found at i:90981564 original size:33 final size:32
Alignment explanation
Indices: 90981519--90981580 Score: 97
Period size: 33 Copynumber: 1.9 Consensus size: 32
90981509 AATATGTAGA
*
90981519 TTGAATAAAATCAAAGTTTCATATATATACAT
1 TTGAACAAAATCAAAGTTTCATATATATACAT
*
90981551 TTGAACAACAATCAAAGTTTCATGTATATA
1 TTGAACAA-AATCAAAGTTTCATATATATA
90981581 ATTGTACCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 7 0.26
33 20 0.74
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.35
Consensus pattern (32 bp):
TTGAACAAAATCAAAGTTTCATATATATACAT
Found at i:90984924 original size:48 final size:52
Alignment explanation
Indices: 90984854--90984952 Score: 118
Period size: 52 Copynumber: 2.0 Consensus size: 52
90984844 AATAATTATT
90984854 ATTTTAAATTATACAAATTCATA-AACT-A-T-AATCATATTAGTTATAATA
1 ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
* * **
90984902 ATTTTAAATTTTATTAAA-TCATATATTTAATTAAATCATATTAGTTATAAT
1 ATTTTAAATTATA-CAAATTCATATAACTAATTAAATCATATTAGTTATAAT
90984953 CATATATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
48 17 0.40
49 5 0.12
50 1 0.02
51 1 0.02
52 18 0.43
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (52 bp):
ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
Found at i:90984934 original size:17 final size:17
Alignment explanation
Indices: 90984909--90984942 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
90984899 ATAATTTTAA
*
90984909 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
90984926 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
90984943 TAGTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:90984959 original size:17 final size:16
Alignment explanation
Indices: 90984914--90984961 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
90984904 TTTAAATTTT
90984914 ATTAAATCATATATTTA
1 ATTAAATCATATA-TTA
90984931 ATTAAATC--ATATTA
1 ATTAAATCATATATTA
*
90984945 GTTATAATCATATATTA
1 ATTA-AATCATATATTA
90984962 TGATTTGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
17 14 0.52
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTAAATCATATATTA
Found at i:90985016 original size:54 final size:54
Alignment explanation
Indices: 90984958--90985136 Score: 137
Period size: 54 Copynumber: 3.1 Consensus size: 54
90984948 ATAATCATAT
90984958 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
* * * * * * * *
90985012 ATTATATATTTTAATTATATT-ATATTTAATAATAATTATGTTATTTTA-TATTTTACAGTATCA
1 ATTAT-GA-TTTGAGTAAATTCATA--TAAGAAT-ATTA-ATTA-TTAAGAATTTT--A-T-T-A
90985075 TA
54 -A
*
90985077 TATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
1 -ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
90985132 ATTAT
1 ATTAT
90985137 ATATTTTAAT
Statistics
Matches: 92, Mismatches: 17, Indels: 32
0.65 0.12 0.23
Matches are distributed among these distances:
54 10 0.11
55 5 0.05
56 10 0.11
57 7 0.08
58 5 0.05
59 9 0.10
60 6 0.07
61 9 0.10
62 5 0.05
63 7 0.08
64 10 0.11
65 4 0.04
66 5 0.05
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (54 bp):
ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
Found at i:90985019 original size:61 final size:61
Alignment explanation
Indices: 90984954--90985141 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
90984944 AGTTATAATC
90984954 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * * * * *
90985015 ATATATTTTAATTAT-ATTATATTTA-ATAATAATTATGTTATT-TT-A-TATTTTA-CAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAA-TAT-TAATTATTAAGAATTTTATTA-AATT
*
90985074 ATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
90985135 ATATATT
1 ATATATT
90985142 TTAATTAAAA
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
58 6 0.06
59 30 0.32
60 14 0.15
61 38 0.40
62 6 0.06
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:90985033 original size:18 final size:17
Alignment explanation
Indices: 90985002--90985036 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
90984992 ATTATTAAGA
90985002 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
90985019 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
90985037 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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:90985075 original size:120 final size:120
Alignment explanation
Indices: 90984951--90985173 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
90984941 ATTAGTTATA
90984951 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
* *
90985016 TATATTTTAATTATATTATATTTAATAATAATTATGTTATTTTATATTTTACAGT
66 TATATTTTAATTAAAATATATTTAATAATAATTATGTTATTTTATATTTTACAGT
*
90985071 ATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
90985136 TATATTTTAATTAAAATATATTTAATAATAATTATGTT
66 TATATTTTAATTAAAATATATTTAATAATAATTATGTT
90985174 TAAATATGAT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (120 bp):
ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
TATATTTTAATTAAAATATATTTAATAATAATTATGTTATTTTATATTTTACAGT
Found at i:90985150 original size:18 final size:17
Alignment explanation
Indices: 90985122--90985156 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
90985112 ATTATTAAGA
*
90985122 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
90985139 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
90985157 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:90985168 original size:54 final size:54
Alignment explanation
Indices: 90984985--90985170 Score: 142
Period size: 54 Copynumber: 3.2 Consensus size: 54
90984975 TTCATATAAG
* *
90984985 AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATATTATATTT
1 AATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAATTATATTT
* * * *
90985039 AATAATAATTATGT--TATTTTATATTTTACAGTATCATATATTATGGTTTGAGTAAATTCATAT
1 AATAATAATTAT-TAAGAATTT-TA--TTA-A--AT--TATA-TAT--TTTAATTAAATT-ATAT
**
90985102 AAG
53 -TT
* *
90985105 AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTT
1 AATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAATTATATTT
90985159 AATAATAATTAT
1 AATAATAATTAT
90985171 GTTTAAATAT
Statistics
Matches: 99, Mismatches: 17, Indels: 32
0.67 0.11 0.22
Matches are distributed among these distances:
53 4 0.04
54 24 0.24
55 5 0.05
56 12 0.12
57 1 0.01
58 3 0.03
59 6 0.06
61 6 0.06
62 3 0.03
63 1 0.01
64 12 0.12
65 5 0.05
66 13 0.13
67 4 0.04
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (54 bp):
AATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAATTATATTT
Found at i:90985270 original size:147 final size:149
Alignment explanation
Indices: 90985110--90985384 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
90985100 ATAAGAATAT
*
90985110 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
90985175 AAATATGATTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
90985238 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
90985257 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
90985322 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
90985385 CAATAATCAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 91 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:90985297 original size:18 final size:17
Alignment explanation
Indices: 90985269--90985303 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
90985259 ATTATTAAGA
*
90985269 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
90985286 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
90985304 TAAATAATAA
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:90985514 original size:44 final size:45
Alignment explanation
Indices: 90985465--90985559 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
90985455 TTACACCTCT
* *
90985465 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
90985509 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
90985554 ATTACA
1 ATTACA
90985560 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:90985559 original size:16 final size:16
Alignment explanation
Indices: 90985540--90985607 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
90985530 GATTTGCTAT
* *
90985540 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
90985556 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
90985572 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
90985588 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
90985604 TACA
1 TACA
90985608 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:90992026 original size:53 final size:53
Alignment explanation
Indices: 90991945--90992095 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
90991935 CTTACACGGT
* *
90991945 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
90992000 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
90992053 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
90992096 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:90996155 original size:19 final size:19
Alignment explanation
Indices: 90996096--90996155 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
90996086 ATTAAATTCT
* *
90996096 AAAAAGTTAAAATAATATAT
1 AAAAAGTTAAAAT-TTATAA
*
90996116 AAAAATTTGAAAATTT-TAA
1 AAAAAGTT-AAAATTTATAA
*
90996135 AAAAAGTTAAAATTTAGAA
1 AAAAAGTTAAAATTTATAA
90996154 AA
1 AA
90996156 TTACAAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
18 7 0.21
19 13 0.39
20 8 0.24
21 5 0.15
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (19 bp):
AAAAAGTTAAAATTTATAA
Found at i:90998041 original size:17 final size:17
Alignment explanation
Indices: 90998009--90998042 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
90997999 CCAAAATCTC
90998009 ATTTATTTTTTATATCA
1 ATTTATTTTTTATATCA
90998026 ATTT-TTTTTTACTATCA
1 ATTTATTTTTTA-TATCA
90998043 TTGTAGGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTATTTTTTATATCA
Found at i:91003978 original size:30 final size:30
Alignment explanation
Indices: 91003892--91003989 Score: 97
Period size: 30 Copynumber: 3.3 Consensus size: 30
91003882 TTAAACTAAA
* *
91003892 ATGAGCTAAGCTTTAGCTCGTGAGCTAAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * * * * *
91003922 TTGAGCTGAGATTAAACTCCTAAGCTGAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * *
91003952 CTGAGCTAAGGTTTAGCTCGTGAGCTGAAT
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
91003982 ATGAGCTA
1 ATGAGCTA
91003990 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
Found at i:91007513 original size:14 final size:14
Alignment explanation
Indices: 91007479--91007513 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
91007469 GTACGAATGG
*
91007479 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
91007493 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
91007507 AATGGTA
1 AATGGTA
91007514 TAAACAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.46, C:0.06, G:0.34, T:0.14
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:91008568 original size:30 final size:30
Alignment explanation
Indices: 91008534--91008630 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
91008524 TAAACTAAAA
*
91008534 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
* * * * * *
91008564 TGAGCTGAGATTAAACTCCTAAGCTAAAGC
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
*
91008594 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
91008623 ATGAGCTA
1 -TGAGCTA
91008631 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
Found at i:91014707 original size:21 final size:21
Alignment explanation
Indices: 91014681--91014732 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
91014671 CATCTAATAG
*
91014681 TGTTCACACACACCATAAACA
1 TGTTCACACACAACATAAACA
** *
91014702 TGTTCACACTTAACATAAAGA
1 TGTTCACACACAACATAAACA
91014723 TGTTCACACA
1 TGTTCACACA
91014733 TAGGTCATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (21 bp):
TGTTCACACACAACATAAACA
Found at i:91016161 original size:18 final size:18
Alignment explanation
Indices: 91016110--91016161 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
91016100 TAGTTGCTCT
*
91016110 ATAACAGTCAATTATACA
1 ATAACAGTCAATTATTCA
*
91016128 ATAACAGTCATTTATTCA
1 ATAACAGTCAATTATTCA
*
91016146 ATAACAGTTAATTATT
1 ATAACAGTCAATTATT
91016162 TCGTAGCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.37
Consensus pattern (18 bp):
ATAACAGTCAATTATTCA
Found at i:91017442 original size:22 final size:22
Alignment explanation
Indices: 91017395--91017442 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
91017385 TTCTTTTTTT
* * *
91017395 CTTTTTTTTCTTCATTTCATTT
1 CTTTTATTTCTTAATTTCATTA
91017417 CTTTTATTTCTTAATTAT-ATTA
1 CTTTTATTTCTTAATT-TCATTA
91017439 CTTT
1 CTTT
91017443 ATAATATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.69
Consensus pattern (22 bp):
CTTTTATTTCTTAATTTCATTA
Found at i:91017473 original size:13 final size:13
Alignment explanation
Indices: 91017442--91017466 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91017432 TATATTACTT
91017442 TATAATATAATAA
1 TATAATATAATAA
91017455 TATAATATAATA
1 TATAATATAATA
91017467 CTTTAATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TATAATATAATAA
Found at i:91020681 original size:17 final size:17
Alignment explanation
Indices: 91020657--91020701 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
91020647 CGGGCCATAC
91020657 AAAAACCAAAA-AACAAA
1 AAAAACCAAAACAA-AAA
*
91020674 ATAAACCAAAACAAAAA
1 AAAAACCAAAACAAAAA
91020691 AAAAACCAAAA
1 AAAAACCAAAA
91020702 TTAAAGTCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 23 0.92
18 2 0.08
ACGTcount: A:0.80, C:0.18, G:0.00, T:0.02
Consensus pattern (17 bp):
AAAAACCAAAACAAAAA
Found at i:91029503 original size:18 final size:18
Alignment explanation
Indices: 91029480--91029531 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
91029470 AATTTATATG
91029480 AAAATCCCTAAAGGATTT
1 AAAATCCCTAAAGGATTT
91029498 AAAATCCCTAAAGGATTT
1 AAAATCCCTAAAGGATTT
* *
91029516 AAAATTCCGAAAGGAT
1 AAAATCCCTAAAGGAT
91029532 ATACAGTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.25
Consensus pattern (18 bp):
AAAATCCCTAAAGGATTT
Found at i:91031176 original size:19 final size:19
Alignment explanation
Indices: 91031154--91031194 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
91031144 TCTCAATCTC
91031154 TTTTTATTTTATAACATTA
1 TTTTTATTTTATAACATTA
91031173 TTTTTATTTTATAACATTA
1 TTTTTATTTTATAACATTA
91031192 TTT
1 TTT
91031195 ACATGTGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTTATTTTATAACATTA
Found at i:91031657 original size:7 final size:7
Alignment explanation
Indices: 91031645--91031683 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
91031635 AAGTAATCCT
91031645 TACAGGA
1 TACAGGA
91031652 TACAGGA
1 TACAGGA
91031659 TACAGGA
1 TACAGGA
*
91031666 TACATGA
1 TACAGGA
91031673 TACAGGA
1 TACAGGA
91031680 TACA
1 TACA
91031684 AGAGCCTGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.18
Consensus pattern (7 bp):
TACAGGA
Found at i:91044760 original size:17 final size:17
Alignment explanation
Indices: 91044738--91044771 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
91044728 TGATCAAATG
91044738 ATAATTAAAAAAATTAT
1 ATAATTAAAAAAATTAT
**
91044755 ATAATTAGTAAAATTAT
1 ATAATTAAAAAAATTAT
91044772 GTCAATTTAT
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:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
ATAATTAAAAAAATTAT
Found at i:91045755 original size:17 final size:17
Alignment explanation
Indices: 91045735--91045768 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
91045725 AGGTTTAGGT
91045735 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
**
91045752 TTAAATTTTTTAATTAA
1 TTAAAAATTTTAATTAA
91045769 GAATCTATTT
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:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:91054782 original size:19 final size:20
Alignment explanation
Indices: 91054741--91054782 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
91054731 GATAGAGTTT
91054741 TTTTGAAAGGATAATATGAG
1 TTTTGAAAGGATAATATGAG
* *
91054761 TTTTGAGAGGATGATA-GAG
1 TTTTGAAAGGATAATATGAG
91054780 TTT
1 TTT
91054783 ACATCACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.33, C:0.00, G:0.29, T:0.38
Consensus pattern (20 bp):
TTTTGAAAGGATAATATGAG
Found at i:91055761 original size:9 final size:9
Alignment explanation
Indices: 91055747--91055772 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
91055737 ATAAATTAAG
91055747 GAGTTGATT
1 GAGTTGATT
91055756 GAGTTGATT
1 GAGTTGATT
91055765 GAGTTGAT
1 GAGTTGAT
91055773 GTAACCTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (9 bp):
GAGTTGATT
Found at i:91059122 original size:43 final size:43
Alignment explanation
Indices: 91059067--91059152 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
91059057 ATCAAAAAAG
91059067 AATGAGCACTAATGATATAAATGCTAGTTTTAATCCTATCAAC
1 AATGAGCACTAATGATATAAATGCTAGTTTTAATCCTATCAAC
91059110 AATGAGCACTAATGATATAAATGCTAGTTTTAATCCTATCAAC
1 AATGAGCACTAATGATATAAATGCTAGTTTTAATCCTATCAAC
91059153 CTTATCATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.33
Consensus pattern (43 bp):
AATGAGCACTAATGATATAAATGCTAGTTTTAATCCTATCAAC
Found at i:91064731 original size:12 final size:12
Alignment explanation
Indices: 91064714--91064739 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
91064704 AAGCTACTTA
91064714 TATAGTCAATGT
1 TATAGTCAATGT
91064726 TATAGTCAATGT
1 TATAGTCAATGT
91064738 TA
1 TA
91064740 ACAGCAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (12 bp):
TATAGTCAATGT
Found at i:91068572 original size:17 final size:17
Alignment explanation
Indices: 91068550--91068583 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
91068540 GAGTTTACTT
91068550 ACTATTTCTCTTTCTTC
1 ACTATTTCTCTTTCTTC
91068567 ACTATTTCTCTTTCTTC
1 ACTATTTCTCTTTCTTC
91068584 TTTGTAGGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.29, G:0.00, T:0.59
Consensus pattern (17 bp):
ACTATTTCTCTTTCTTC
Found at i:91078147 original size:15 final size:17
Alignment explanation
Indices: 91078127--91078158 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
91078117 CTATGCTTTC
91078127 GTCA-TTGGA-AGCTAT
1 GTCATTTGGACAGCTAT
91078142 GTCATTTGGACAGCTAT
1 GTCATTTGGACAGCTAT
91078159 TGCTGGGGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 5 0.33
17 6 0.40
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (17 bp):
GTCATTTGGACAGCTAT
Found at i:91090210 original size:15 final size:15
Alignment explanation
Indices: 91090190--91090219 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
91090180 CATTTTATTT
*
91090190 ATATTAGGATAATTA
1 ATATTAAGATAATTA
91090205 ATATTAAGATAATTA
1 ATATTAAGATAATTA
91090220 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:91090247 original size:27 final size:26
Alignment explanation
Indices: 91090186--91090248 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
91090176 ACTCCATTTT
91090186 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
91090213 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
91090241 ATTTTATT
1 ATTTTATT
91090249 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:91090263 original size:10 final size:10
Alignment explanation
Indices: 91090244--91090275 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
91090234 TTTTAGGATT
91090244 TTAT-TTTAA
1 TTATCTTTAA
91090253 TTATCTTTAA
1 TTATCTTTAA
91090263 TTATCTTTAA
1 TTATCTTTAA
91090273 TTA
1 TTA
91090276 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:91094063 original size:17 final size:17
Alignment explanation
Indices: 91094009--91094066 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
91093999 AAATGGAAAT
*
91094009 AAATATATAAAATATTCA
1 AAATATATAAAATA-TAA
*
91094027 AAATATTCATAAAATCTAA
1 AAATA-T-ATAAAATATAA
*
91094046 AAATATATAAATTATAA
1 AAATATATAAAATATAA
91094063 AAAT
1 AAAT
91094067 TTTATAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
17 13 0.38
18 6 0.18
19 8 0.24
20 7 0.21
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATATATAAAATATAA
Found at i:91094065 original size:18 final size:18
Alignment explanation
Indices: 91093987--91094075 Score: 65
Period size: 18 Copynumber: 4.9 Consensus size: 18
91093977 ATATACACAT
*
91093987 TAAAAAATATA-AAAATG
1 TAAAAAATATATAAAATA
*
91094004 GAAATAAATATATAAAATA
1 TAAA-AAATATATAAAATA
** *
91094023 TTCAAAATATTCATAAAATC
1 TAAAAAATA-T-ATAAAATA
*
91094043 T-AAAAATATATAAATTA
1 TAAAAAATATATAAAATA
* *
91094060 TAAAAATTTTATAAAA
1 TAAAAAATATATAAAA
91094076 AAATTACAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
17 10 0.18
18 24 0.44
19 13 0.24
20 8 0.15
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.31
Consensus pattern (18 bp):
TAAAAAATATATAAAATA
Found at i:91096400 original size:20 final size:20
Alignment explanation
Indices: 91096362--91096400 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
91096352 GAATCGAGTT
*
91096362 ACAGAATATTATAGTACAAA
1 ACAGAATATTATAGAACAAA
91096382 ACAGAATATTTATA-AACAA
1 ACAGAATA-TTATAGAACAA
91096401 TTTAACAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.56, C:0.10, G:0.08, T:0.26
Consensus pattern (20 bp):
ACAGAATATTATAGAACAAA
Found at i:91100629 original size:41 final size:41
Alignment explanation
Indices: 91100574--91100703 Score: 181
Period size: 41 Copynumber: 3.2 Consensus size: 41
91100564 ACGGTCATTT
* * *
91100574 CACATGCCCGTGGGCTTACCGTGTGTTACACAAGTCCTAGA
1 CACACGCCCGTGGGCTTACCGTGTGTCACACAAGGCCTAGA
* *
91100615 CACACGCCCATGGGCTTACCGTGTGTCAGA-AACGGCCTAGA
1 CACACGCCCGTGGGCTTACCGTGTGTCACACAA-GGCCTAGA
* *
91100656 CACACGCCCGTGGGCTTACCGTGTGTCATACACGGCCTAGA
1 CACACGCCCGTGGGCTTACCGTGTGTCACACAAGGCCTAGA
91100697 CACACGC
1 CACACGC
91100704 TCATATGTCT
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
40 2 0.03
41 76 0.96
42 1 0.01
ACGTcount: A:0.22, C:0.33, G:0.25, T:0.19
Consensus pattern (41 bp):
CACACGCCCGTGGGCTTACCGTGTGTCACACAAGGCCTAGA
Found at i:91102122 original size:51 final size:49
Alignment explanation
Indices: 91101994--91102177 Score: 187
Period size: 51 Copynumber: 3.7 Consensus size: 49
91101984 TGTGAGTACA
* *
91101994 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-AT-ACTGTTAAGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAATGAC--TTGA-TCG
* *
91102044 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTAC-CAATGACTT-GATCG
* * * *
91102095 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTG--TTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACC--AATGACTTGATCG
* *
91102144 CATGTGTAGTGCTAAGTGCAGGCTACTATGCGTA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTA
91102178 TCAGATAGCT
Statistics
Matches: 114, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
49 33 0.29
50 36 0.32
51 37 0.32
52 6 0.05
53 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.30
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAATGACTTGATCG
Found at i:91102190 original size:100 final size:101
Alignment explanation
Indices: 91101996--91102177 Score: 312
Period size: 101 Copynumber: 1.8 Consensus size: 101
91101986 TGAGTACACA
*
91101996 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCGCATGTGTAGTACTAAGT
91102061 GCAGGCTACTATGCGTACTCAATGACTTCGATCACG
66 GCAGGCTACTATGCGTACTCAATGACTTCGATCACG
* * * *
91102097 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGTT-GGTCGCATGTGTAGTGCTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCGCATGTGTAGTACTAAGT
91102161 GCAGGCTACTATGCGTA
66 GCAGGCTACTATGCGTA
91102178 TCAGATAGCT
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
100 37 0.49
101 39 0.51
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (101 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCGCATGTGTAGTACTAAGT
GCAGGCTACTATGCGTACTCAATGACTTCGATCACG
Found at i:91102301 original size:27 final size:26
Alignment explanation
Indices: 91102271--91102322 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
91102261 AGAAAAATCG
91102271 ATAAAGTGGTAATATGTG-AAAGTTATT
1 ATAAAGTGG--ATATGTGCAAAGTTATT
*
91102298 ATAAAGTGGATATGTGCAAATTTAT
1 ATAAAGTGGATATGTGCAAAGTTAT
91102323 GTTTATGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 7 0.30
26 7 0.30
27 9 0.39
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.37
Consensus pattern (26 bp):
ATAAAGTGGATATGTGCAAAGTTATT
Found at i:91104830 original size:117 final size:117
Alignment explanation
Indices: 91104624--91104858 Score: 434
Period size: 117 Copynumber: 2.0 Consensus size: 117
91104614 TGTGGTTCCC
*
91104624 GAGAACATTATATTAAGGATTGCCCAAAAAAGGTTGAAGAAGAAAAATTTCAGAGTGCTAGACAG
1 GAGAACATTATATTAAGGATTGCCCAAAAAAGGTTGAAGAAGAAAAATTTCAGAGTGCCAGACAG
91104689 ACTAGTGCTACTAATAGAGGTAGACCTCCGAGAAATACTGGAAGTAGAGCTA
66 ACTAGTGCTACTAATAGAGGTAGACCTCCGAGAAATACTGGAAGTAGAGCTA
*
91104741 GAGAACATTATATTAAGGATTGCCCAAAAAGGGTTGAAGAAGAAAAATTTCAGAGTGCCAGACAG
1 GAGAACATTATATTAAGGATTGCCCAAAAAAGGTTGAAGAAGAAAAATTTCAGAGTGCCAGACAG
* *
91104806 ACTAGTGCTGCTAATAGAGGTAGACCTCCGAGAAATACTGGAAGTGGAGCTA
66 ACTAGTGCTACTAATAGAGGTAGACCTCCGAGAAATACTGGAAGTAGAGCTA
91104858 G
1 G
91104859 CAGTCGAAGT
Statistics
Matches: 114, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
117 114 1.00
ACGTcount: A:0.40, C:0.14, G:0.26, T:0.21
Consensus pattern (117 bp):
GAGAACATTATATTAAGGATTGCCCAAAAAAGGTTGAAGAAGAAAAATTTCAGAGTGCCAGACAG
ACTAGTGCTACTAATAGAGGTAGACCTCCGAGAAATACTGGAAGTAGAGCTA
Found at i:91108394 original size:32 final size:33
Alignment explanation
Indices: 91108306--91108419 Score: 106
Period size: 33 Copynumber: 3.5 Consensus size: 33
91108296 GATGTACATT
* **
91108306 CCTTTCCAAGTAGTACACACAAAATATACCTTT
1 CCTTTCCAAGTAGTACACACAAAGTATACCTAA
* * * *
91108339 TCTTTTCATA-TGGTATACACAAAGTATACCTAA
1 CCTTTCCA-AGTAGTACACACAAAGTATACCTAA
* *
91108372 CCTTTCCAAGT-GTACACACAAAGTGTACATAA
1 CCTTTCCAAGTAGTACACACAAAGTATACCTAA
* *
91108404 CCTTTTCAAGTTGTAC
1 CCTTTCCAAGTAGTAC
91108420 TATTTGGGTA
Statistics
Matches: 65, Mismatches: 13, Indels: 6
0.77 0.15 0.07
Matches are distributed among these distances:
32 29 0.45
33 35 0.54
34 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.32
Consensus pattern (33 bp):
CCTTTCCAAGTAGTACACACAAAGTATACCTAA
Found at i:91115893 original size:17 final size:18
Alignment explanation
Indices: 91115871--91115904 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
91115861 ATAAAATAAG
*
91115871 TTTTATTCTAT-TTAATA
1 TTTTATTATATATTAATA
91115888 TTTTATTATATATTAAT
1 TTTTATTATATATTAAT
91115905 CTATTCACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTATTATATATTAATA
Found at i:91119685 original size:22 final size:22
Alignment explanation
Indices: 91119660--91119707 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
91119650 AAATCCATAA
91119660 AATTAAAAAAGAA-AAACGAATC
1 AATTAAAAAAGAATAAA-GAATC
* **
91119682 AATTCAAAATTAATAAAGAATC
1 AATTAAAAAAGAATAAAGAATC
91119704 AATT
1 AATT
91119708 CATTCTTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.62, C:0.08, G:0.06, T:0.23
Consensus pattern (22 bp):
AATTAAAAAAGAATAAAGAATC
Found at i:91119773 original size:14 final size:14
Alignment explanation
Indices: 91119754--91119782 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
91119744 CACTTGTTAA
91119754 ATTCTTAATTATTC
1 ATTCTTAATTATTC
91119768 ATTCTTAATTATTC
1 ATTCTTAATTATTC
91119782 A
1 A
91119783 CATTGTTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTCTTAATTATTC
Found at i:91120888 original size:21 final size:21
Alignment explanation
Indices: 91120862--91120906 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
91120852 AGTCTTAATA
91120862 AAAGAACAAAACTTTCCTTAC
1 AAAGAACAAAACTTTCCTTAC
*
91120883 AAAGAACAAAACTTTCCTTGC
1 AAAGAACAAAACTTTCCTTAC
91120904 AAA
1 AAA
91120907 TTGTCAATCA
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:0.49, C:0.22, G:0.07, T:0.22
Consensus pattern (21 bp):
AAAGAACAAAACTTTCCTTAC
Found at i:91125345 original size:3 final size:3
Alignment explanation
Indices: 91125337--91125386 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
91125327 ATTACATCCA
*
91125337 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
91125385 AA
1 AA
91125387 AACATGTGAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:91129190 original size:72 final size:72
Alignment explanation
Indices: 91129100--91129355 Score: 503
Period size: 72 Copynumber: 3.6 Consensus size: 72
91129090 ACAACTTGAC
*
91129100 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
91129165 ACTAACA
66 ACTAACA
91129172 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
91129237 ACTAACA
66 ACTAACA
91129244 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
91129309 ACTAACA
66 ACTAACA
91129316 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
91129356 AATAATAATA
Statistics
Matches: 183, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 183 1.00
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.27
Consensus pattern (72 bp):
AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
ACTAACA
Found at i:91129364 original size:3 final size:3
Alignment explanation
Indices: 91129356--91129393 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
91129346 ATTACATCCA
91129356 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
91129394 AACATGTGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:91136681 original size:18 final size:18
Alignment explanation
Indices: 91136666--91136712 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
91136656 GTCATCCATG
91136666 TATCCTCCACCATCCACA
1 TATCCTCCACCATCCACA
*
91136684 TATCCTCCACC-TCCTGCA
1 TATCCTCCACCATCC-ACA
*
91136702 TACCCTCCACC
1 TATCCTCCACC
91136713 TCCCTTGCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 3 0.12
18 23 0.88
ACGTcount: A:0.21, C:0.53, G:0.02, T:0.23
Consensus pattern (18 bp):
TATCCTCCACCATCCACA
Found at i:91139631 original size:19 final size:17
Alignment explanation
Indices: 91139597--91139632 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
91139587 CTAAAATAGT
91139597 AATAAAATTAACAATAA
1 AATAAAATTAACAATAA
91139614 AATAAGAATTATACAATAA
1 AATAA-AATTA-ACAATAA
91139633 CAACAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 5 0.29
19 7 0.41
ACGTcount: A:0.67, C:0.06, G:0.03, T:0.25
Consensus pattern (17 bp):
AATAAAATTAACAATAA
Found at i:91141581 original size:21 final size:24
Alignment explanation
Indices: 91141555--91141598 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
91141545 TATCTCTCTC
91141555 TTTAT-AT-ATATA-TAATTTATT
1 TTTATAATAATATAGTAATTTATT
91141576 TTTATAATAATATAGTAATTTAT
1 TTTATAATAATATAGTAATTTAT
91141599 AGTAAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 5 0.25
22 2 0.10
23 5 0.25
24 8 0.40
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (24 bp):
TTTATAATAATATAGTAATTTATT
Found at i:91142053 original size:13 final size:13
Alignment explanation
Indices: 91142035--91142059 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91142025 GGCACCAAAT
91142035 TTTTTATTTTTTA
1 TTTTTATTTTTTA
91142048 TTTTTATTTTTT
1 TTTTTATTTTTT
91142060 TGGTGCCACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:91145724 original size:16 final size:16
Alignment explanation
Indices: 91145700--91145738 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
91145690 GATTTTTTTG
*
91145700 TATTTTTTATGTTTAAT
1 TATTTTTAAT-TTTAAT
*
91145717 TATTTTTAATTTTATT
1 TATTTTTAATTTTAAT
91145733 TATTTT
1 TATTTT
91145739 ATTAATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (16 bp):
TATTTTTAATTTTAAT
Found at i:91145948 original size:29 final size:27
Alignment explanation
Indices: 91145916--91145977 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 27
91145906 TAAATTTAGG
91145916 TATTAAATTAAACCTAAAAAAAT-TTTAAA
1 TATTAAATT-AA--TAAAAAAATATTTAAA
91145945 TATTAAATTAATAAAAAAATATTTAAA
1 TATTAAATTAATAAAAAAATATTTAAA
91145972 T-TTAAA
1 TATTAAA
91145978 AAATATCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
26 14 0.44
27 7 0.22
28 2 0.06
29 9 0.28
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (27 bp):
TATTAAATTAATAAAAAAATATTTAAA
Found at i:91145980 original size:20 final size:19
Alignment explanation
Indices: 91145942--91145989 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 19
91145932 AAAAAATTTT
91145942 AAATATTAAATTAATAAAA
1 AAATATTAAATTAATAAAA
91145961 AAATATTTAAATT--T-AAA
1 AAATA-TTAAATTAATAAAA
*
91145978 AAATATCAAATT
1 AAATATTAAATT
91145990 TAAGTATCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 6 0.22
17 8 0.30
18 1 0.04
19 5 0.19
20 7 0.26
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATATTAAATTAATAAAA
Found at i:91145988 original size:16 final size:17
Alignment explanation
Indices: 91145958--91145992 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
91145948 TAAATTAATA
*
91145958 AAAAAATATTTAAATTT
1 AAAAAATATTCAAATTT
91145975 AAAAAATA-TCAAATTT
1 AAAAAATATTCAAATTT
91145991 AA
1 AA
91145993 GTATCAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAAAATATTCAAATTT
Found at i:91153580 original size:81 final size:81
Alignment explanation
Indices: 91153445--91153607 Score: 317
Period size: 81 Copynumber: 2.0 Consensus size: 81
91153435 CAAGTCCCTT
91153445 GCTTAAAATATTATCCACTATCTACTTTACAAATCTTACTTTCCACTATTAGATTTTACAATGAC
1 GCTTAAAATATTATCCACTATCTACTTTACAAATCTTACTTTCCACTATTAGATTTTACAATGAC
91153510 AAACCCTTGTAATTTG
66 AAACCCTTGTAATTTG
*
91153526 GCTTAAAATATTATTCACTATCTACTTTACAAATCTTACTTTCCACTATTAGATTTTACAATGAC
1 GCTTAAAATATTATCCACTATCTACTTTACAAATCTTACTTTCCACTATTAGATTTTACAATGAC
91153591 AAACCCTTGTAATTTG
66 AAACCCTTGTAATTTG
91153607 G
1 G
91153608 ACCGGAGCCA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (81 bp):
GCTTAAAATATTATCCACTATCTACTTTACAAATCTTACTTTCCACTATTAGATTTTACAATGAC
AAACCCTTGTAATTTG
Found at i:91164111 original size:18 final size:17
Alignment explanation
Indices: 91164090--91164140 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
91164080 AGAGTTTTAA
91164090 AAATATTTATAAAATTT
1 AAATATTTATAAAATTT
*
91164107 GAAATTTTTATAAATATATT
1 -AAATATTTATAAA-AT-TT
91164127 AAA-ATTTA-AAAATT
1 AAATATTTATAAAATT
91164141 ATTTTGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
15 1 0.03
16 2 0.07
17 3 0.10
18 16 0.55
19 5 0.17
20 2 0.07
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
AAATATTTATAAAATTT
Found at i:91164140 original size:28 final size:28
Alignment explanation
Indices: 91164084--91164137 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
91164074 ATTTTTAGAG
* *
91164084 TTTTAAAAATATTTATAAAATTTGAAAT
1 TTTTAAAAATATATATAAAATTTAAAAT
*
91164112 TTTTATAAATATAT-TAAAATTTAAAA
1 TTTTAAAAATATATATAAAATTTAAAA
91164138 ATTATTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (28 bp):
TTTTAAAAATATATATAAAATTTAAAAT
Found at i:91164576 original size:3 final size:3
Alignment explanation
Indices: 91164568--91164598 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
91164558 TCTGATTTTT
91164568 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
91164599 ATAAATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:91170685 original size:54 final size:54
Alignment explanation
Indices: 91170613--91170915 Score: 154
Period size: 54 Copynumber: 5.6 Consensus size: 54
91170603 TACGATGGCG
* * * *
91170613 ACCTCCTATTTACGAGATTTTAAGAATTTTATAGTTCACTAATTTACAATTTTC
1 ACCTTCTACTTACAAGATTTTAAGAATTTTATAGTTCACTAATTTACAATTCTC
* ** ** * * *
91170667 ACCTTCTACTTACAAGATTTTAAGAATATT-GCGATTCACCCATTTACGATTGTG
1 ACCTTCTACTTACAAGATTTTAAGAATTTTATAG-TTCACTAATTTACAATTCTC
* * * * *
91170721 ACCTTTTACTTACAAGATTTCAAG-ATTCTTATGGTTCACTGATTTACAA-TCAC
1 ACCTTCTACTTACAAGATTTTAAGAATT-TTATAGTTCACTAATTTACAATTCTC
* * ** *** * * *
91170774 AACCTTCTATTTACAAGATTTCAA-AGATTTTACGGTTGGTTGATTTACGA-TCGTG
1 -ACCTTCTACTTACAAGATTTTAAGA-ATTTTATAGTTCACTAATTTACAATTC-TC
* * * * * *
91170829 ACCTTCTACTTATAAGATTCTAAGAATCTTAT-GATTCA-TCGATTTACGA-TCGC
1 ACCTTCTACTTACAAGATTTTAAGAATTTTATAG-TTCACT-AATTTACAATTCTC
* * *
91170882 AACCATCTACTTACAAGATTTTCAGAATCTTATA
1 -ACCTTCTACTTACAAGATTTTAAGAATTTTATA
91170916 ATTCTTCGAT
Statistics
Matches: 192, Mismatches: 45, Indels: 23
0.74 0.17 0.09
Matches are distributed among these distances:
53 6 0.03
54 181 0.94
55 5 0.03
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (54 bp):
ACCTTCTACTTACAAGATTTTAAGAATTTTATAGTTCACTAATTTACAATTCTC
Found at i:91170927 original size:108 final size:108
Alignment explanation
Indices: 91170539--91170962 Score: 310
Period size: 108 Copynumber: 3.9 Consensus size: 108
91170529 CATCCTGCGG
** * * * * * *
91170539 TTCACTGATTTACAATCGTAACC-TCTCACTTACTACATTTTTAGAATCTTACGGGTTGTT-GAT
1 TTCACTGATTTACAATCACAACCATCT-ACTTACAAGATTTTCAGAATATTAC-GATTCTTCGAT
* * * * ** * *
91170602 TTACGATGGCGACCTCCTATTTACGAGATTTTAAGAATTTTAT-A
64 TTACGATCGTGACCTTCTACTTATAAGATTCTAAGAATCTTATGA
* ** * * * ** *
91170646 GTTCACTAATTTACAATTTTC-ACCTTCTACTTACAAGATTTTAAGAATATTGCGATTCACCCAT
1 -TTCACTGATTTACAA-TCACAACCATCTACTTACAAGATTTTCAGAATATTACGATTCTTCGAT
* * * * *
91170710 TTACGATTGTGACCTTTTACTTACAAGATT-TCAAGATTCTTATGG
64 TTACGATCGTGACCTTCTACTTATAAGATTCT-AAGAATCTTATGA
* * * * * *
91170755 TTCACTGATTTACAATCACAACCTTCTATTTACAAGA-TTTCAAAGATTTTACGGTTGGTT-GAT
1 TTCACTGATTTACAATCACAACCATCTACTTACAAGATTTTCAGA-ATATTACGATT-CTTCGAT
91170818 TTACGATCGTGACCTTCTACTTATAAGATTCTAAGAATCTTATGA
64 TTACGATCGTGACCTTCTACTTATAAGATTCTAAGAATCTTATGA
* * * **
91170863 TTCA-TCGATTTACGATCGCAACCATCTACTTACAAGATTTTCAGAATCTTATAATTCTTCGATT
1 TTCACT-GATTTACAATCACAACCATCTACTTACAAGATTTTCAGAATATTACGATTCTTCGATT
* *
91170927 TACGATCGCGA-CTTCCTACTTATAAGA-TCTTAGAAT
65 TACGATCGTGACCTT-CTACTTATAAGATTCTAAGAAT
91170963 TTCGCAGTTC
Statistics
Matches: 250, Mismatches: 53, Indels: 27
0.76 0.16 0.08
Matches are distributed among these distances:
107 25 0.10
108 214 0.86
109 11 0.04
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.39
Consensus pattern (108 bp):
TTCACTGATTTACAATCACAACCATCTACTTACAAGATTTTCAGAATATTACGATTCTTCGATTT
ACGATCGTGACCTTCTACTTATAAGATTCTAAGAATCTTATGA
Found at i:91170946 original size:54 final size:53
Alignment explanation
Indices: 91170815--91170962 Score: 190
Period size: 54 Copynumber: 2.8 Consensus size: 53
91170805 ACGGTTGGTT
* * *
91170815 GATTTACGATCGTGACCTTCTACTTATAAGATTCTAAGAATCTTATGATTCATC
1 GATTTACGATCGCGACCTTCTACTTATAAGATT-TTAGAATCTTATAATTCATC
* * * *
91170869 GATTTACGATCGCAACCATCTACTTACAAGATTTTCAGAATCTTATAATTCTTC
1 GATTTACGATCGCGACCTTCTACTTATAAGATTTT-AGAATCTTATAATTCATC
*
91170923 GATTTACGATCGCGA-CTTCCTACTTATAAGATCTTAGAAT
1 GATTTACGATCGCGACCTT-CTACTTATAAGATTTTAGAAT
91170963 TTCGCAGTTC
Statistics
Matches: 81, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
53 8 0.10
54 73 0.90
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.37
Consensus pattern (53 bp):
GATTTACGATCGCGACCTTCTACTTATAAGATTTTAGAATCTTATAATTCATC
Found at i:91171010 original size:107 final size:108
Alignment explanation
Indices: 91170815--91171010 Score: 249
Period size: 107 Copynumber: 1.8 Consensus size: 108
91170805 ACGGTTGGTT
* *
91170815 GATTTACGATCGTGACCTTCTACTTATAAGATTCTAAGAATCTTATGATTCATCGATTTACGATC
1 GATTTACGATCGCGACCTTCTACTTATAAGATTCTAAGAATCTTACGATTCATCGATTTACGATC
91170880 GCAACCATCTACTTACAAGATTTTCAGAATCTTATAATTCTTC
66 GCAACCATCTACTTACAAGATTTTCAGAATCTTATAATTCTTC
* *
91170923 GATTTACGATCGCGA-CTTCCTACTTATAAGA-TCTTAGAAT-TT-CGCAGTTCATTGATTT-CA
1 GATTTACGATCGCGACCTT-CTACTTATAAGATTCTAAGAATCTTACG-A-TTCATCGATTTAC-
* * * *
91170983 GATTGCAACCTTTTACTTACAATATTTT
62 GATCGCAACCATCTACTTACAAGATTTT
91171011 AAAAATCTCG
Statistics
Matches: 76, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
105 1 0.01
106 4 0.05
107 45 0.59
108 26 0.34
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (108 bp):
GATTTACGATCGCGACCTTCTACTTATAAGATTCTAAGAATCTTACGATTCATCGATTTACGATC
GCAACCATCTACTTACAAGATTTTCAGAATCTTATAATTCTTC
Found at i:91171018 original size:107 final size:108
Alignment explanation
Indices: 91170671--91171018 Score: 253
Period size: 108 Copynumber: 3.2 Consensus size: 108
91170661 ATTTTCACCT
* * *** ** * * * * *
91170671 TCTACTTACAAGATTTTAAGAATATTGCGATTCACCCATTTACGATTGTGACCTTTTACTTACAA
1 TCTACTTACAAGATTTTAAAAATCTTATAATTCTTCGATTTACGATCGCGACCTTCTACTTATAA
* * * * * *
91170736 GATT-TCAAGATTCTTATGGTTCA-CTGATTTACAATCACAACCT
66 GATTCT-AAGAATCTTACGATTCATC-GATTTACGATCGCAACCA
* * * * *** * *
91170779 TCTATTTACAAGATTTCAAAGATTTTACGGTTGGTT-GATTTACGATCGTGACCTTCTACTTATA
1 TCTACTTACAAGATTTTAAAAATCTTATAATT-CTTCGATTTACGATCGCGACCTTCTACTTATA
*
91170843 AGATTCTAAGAATCTTATGATTCATCGATTTACGATCGCAACCA
65 AGATTCTAAGAATCTTACGATTCATCGATTTACGATCGCAACCA
* *
91170887 TCTACTTACAAGATTTTCAGAATCTTATAATTCTTCGATTTACGATCGCGA-CTTCCTACTTATA
1 TCTACTTACAAGATTTTAAAAATCTTATAATTCTTCGATTTACGATCGCGACCTT-CTACTTATA
* * * *
91170951 AGA-TCTTAGAAT-TT-CGCAGTTCATTGATTT-CAGATTGCAACCT
65 AGATTCTAAGAATCTTACG-A-TTCATCGATTTAC-GATCGCAACCA
* *
91170994 TTTACTTACAATATTTTAAAAATCT
1 TCTACTTACAAGATTTTAAAAATCT
91171019 CGCAGTTTGT
Statistics
Matches: 193, Mismatches: 39, Indels: 17
0.78 0.16 0.07
Matches are distributed among these distances:
105 1 0.01
106 4 0.02
107 53 0.27
108 133 0.69
109 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (108 bp):
TCTACTTACAAGATTTTAAAAATCTTATAATTCTTCGATTTACGATCGCGACCTTCTACTTATAA
GATTCTAAGAATCTTACGATTCATCGATTTACGATCGCAACCA
Found at i:91171391 original size:54 final size:55
Alignment explanation
Indices: 91170977--91171396 Score: 198
Period size: 55 Copynumber: 7.7 Consensus size: 55
91170967 CAGTTCATTG
* * * * * *
91170977 ATTTCAGATTGCAACCTTTT-ACTTACAATATTTTAAAAATCTCGCAGTTTGTCG
1 ATTTCAGATCGCAACATTTTAACTTACAAGATTTTCAAAATCTCGCAGTTCGTCA
* * * * * * * * * * * *
91171031 ATTTGAAATTGCGACCTTTTAACTTACAATATTTT-TAGAGC-C-CAATTTGAT-G
1 ATTTCAGATCGCAACATTTTAACTTACAAGATTTTCAAAATCTCGCAGTTCG-TCA
* * ** * * *
91171083 ATTTCATATCGTAATTTTTTAACTTACAAGA-TTTCAGAGTCTTGCAGTTCGTCA
1 ATTTCAGATCGCAACATTTTAACTTACAAGATTTTCAAAATCTCGCAGTTCGTCA
* * * ** ** *
91171137 ATTTCAGATCACAACTTTTTAA-TTGACAAGATCCTT-AAAATCTCATAGTTCACCG
1 ATTTCAGATCGCAACATTTTAACTT-ACAAGAT-TTTCAAAATCTCGCAGTTCGTCA
* * * * * * *
91171192 ATTTTATATCACAACATTTTAAATTACAATATTTTCATAATCTCACAGTTCG-CTA
1 ATTTCAGATCGCAACATTTTAACTTACAAGATTTTCAAAATCTCGCAGTTCGTC-A
* * * * * ** *
91171247 ATTTTAGATCGCGACATTTTAACTTACAATATTTTCAGAATCTCGCAATTCACCG
1 ATTTCAGATCGCAACATTTTAACTTACAAGATTTTCAAAATCTCGCAGTTCGTCA
* * * * * **
91171302 ATTTTAGATTGTAA-ACTTTTAACTTACCAAG-TTTTCATAATCTTGTGGTTCGTCA
1 ATTTCAGATCGCAACA-TTTTAACTTA-CAAGATTTTCAAAATCTCGCAGTTCGTCA
*
91171357 ATTTCATATCGCAAC-TTTTAACTTACAAGATTTTCAAAAT
1 ATTTCAGATCGCAACATTTTAACTTACAAGATTTTCAAAAT
91171397 TTTGGGGTTA
Statistics
Matches: 277, Mismatches: 72, Indels: 34
0.72 0.19 0.09
Matches are distributed among these distances:
51 3 0.01
52 31 0.11
53 9 0.03
54 72 0.26
55 154 0.56
56 8 0.03
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (55 bp):
ATTTCAGATCGCAACATTTTAACTTACAAGATTTTCAAAATCTCGCAGTTCGTCA
Found at i:91171415 original size:54 final size:54
Alignment explanation
Indices: 91171315--91171447 Score: 142
Period size: 54 Copynumber: 2.4 Consensus size: 54
91171305 TTAGATTGTA
* * * *
91171315 AACTTTTAACTTACCAAG-TTTTCATAATCTTGTGGTTCGTCAATTTCATATCGC
1 AACTTTTAACTTA-CAAGATTTTCAAAATCTTGGGGTTAGTCAATTTCAAATCGC
* ** *
91171369 AACTTTTAACTTACAAGATTTTCAAAATTTTGGGGTTAGTTGATTTCAAATCTC
1 AACTTTTAACTTACAAGATTTTCAAAATCTTGGGGTTAGTCAATTTCAAATCGC
* * *
91171423 AACTTTTTAATTTATAATATTTTCA
1 AAC-TTTTAACTTACAAGATTTTCA
91171448 GGGTCTTGCA
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
53 4 0.06
54 44 0.67
55 18 0.27
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (54 bp):
AACTTTTAACTTACAAGATTTTCAAAATCTTGGGGTTAGTCAATTTCAAATCGC
Found at i:91172816 original size:7 final size:7
Alignment explanation
Indices: 91172804--91172828 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
91172794 AAAATAGTTG
91172804 AATATAA
1 AATATAA
91172811 AATATAA
1 AATATAA
91172818 AATATAA
1 AATATAA
91172825 AATA
1 AATA
91172829 ATTAGTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AATATAA
Found at i:91175955 original size:24 final size:26
Alignment explanation
Indices: 91175907--91175955 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
91175897 AGTTTTAATT
* *
91175907 TTTTAATTTTTTATAAAATTTATTAA
1 TTTTAATTTTATATAAAATTAATTAA
91175933 TTTTAATTTTAT-TAAAA-TAATTA
1 TTTTAATTTTATATAAAATTAATTA
91175956 GTTAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 5 0.24
26 11 0.52
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (26 bp):
TTTTAATTTTATATAAAATTAATTAA
Found at i:91177911 original size:56 final size:54
Alignment explanation
Indices: 91177760--91177911 Score: 189
Period size: 56 Copynumber: 2.8 Consensus size: 54
91177750 ATAAATTAGG
** * *
91177760 TGCACCTACCTTATTGGCAAACTGTGTTGGTGGCTAGGTAAACAAATATATATA
1 TGCACCTACCTTGCTGGCGAACTGTGTTGGTGGATAGGTAAACAAATATATATA
* * * * *
91177814 TGCACATACCTTGCTAGTGAACTGTGTT-GTCGACTAAGTAAACAAATATATATATA
1 TGCACCTACCTTGCTGGCGAACTGTGTTGGTGGA-TAGGTAAAC-AA-ATATATATA
91177870 TGCACCTACCTTGCTGGCGAACTGTGTTGGTGGATAGGTAAA
1 TGCACCTACCTTGCTGGCGAACTGTGTTGGTGGATAGGTAAA
91177912 ATTTATTTGC
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
53 3 0.04
54 30 0.38
55 2 0.03
56 41 0.51
57 4 0.05
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (54 bp):
TGCACCTACCTTGCTGGCGAACTGTGTTGGTGGATAGGTAAACAAATATATATA
Found at i:91180698 original size:19 final size:22
Alignment explanation
Indices: 91180674--91180718 Score: 69
Period size: 19 Copynumber: 2.2 Consensus size: 22
91180664 TTTATATTTT
91180674 ATTATTTT-TAAAT-AAAA-AA
1 ATTATTTTATAAATCAAAATAA
91180693 ATTATTTTATAAATCAAAATAA
1 ATTATTTTATAAATCAAAATAA
91180715 ATTA
1 ATTA
91180719 AACCCGATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.35
20 5 0.22
21 4 0.17
22 6 0.26
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
ATTATTTTATAAATCAAAATAA
Found at i:91183815 original size:22 final size:22
Alignment explanation
Indices: 91183790--91183839 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
91183780 ATTGTTTTTC
*
91183790 ATTATTTTGCTATCATTTCATT
1 ATTATTTTACTATCATTTCATT
* * *
91183812 ATTATATTACTATTATTTTATT
1 ATTATTTTACTATCATTTCATT
91183834 ATTATT
1 ATTATT
91183840 ATTATTTGGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.28, C:0.08, G:0.02, T:0.62
Consensus pattern (22 bp):
ATTATTTTACTATCATTTCATT
Found at i:91183828 original size:3 final size:3
Alignment explanation
Indices: 91183809--91183845 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
91183799 CTATCATTTC
*
91183809 ATT ATT A-T ATT ACT ATT ATT -TT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
91183846 TGGATATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
2 4 0.13
3 26 0.87
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:91183828 original size:14 final size:14
Alignment explanation
Indices: 91183809--91183844 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
91183799 CTATCATTTC
91183809 ATTATTATATTACT
1 ATTATTATATTACT
* *
91183823 ATTATTTTATTATT
1 ATTATTATATTACT
91183837 ATTATTAT
1 ATTATTAT
91183845 TTGGATATTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTATTATATTACT
Found at i:91187644 original size:15 final size:15
Alignment explanation
Indices: 91187622--91187663 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
91187612 TACTCATCAT
91187622 CTATTATGTAATGCCA
1 CTATTATG-AATGCCA
*
91187638 C-ATTATGAATTCCA
1 CTATTATGAATGCCA
*
91187652 CTATTACGAATG
1 CTATTATGAATG
91187664 ATCCTACATA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 7 0.32
15 14 0.64
16 1 0.05
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (15 bp):
CTATTATGAATGCCA
Found at i:91192507 original size:22 final size:24
Alignment explanation
Indices: 91192456--91192516 Score: 74
Period size: 22 Copynumber: 2.7 Consensus size: 24
91192446 AAGTATTTAA
*
91192456 ATTAAAATATAATTTTTAGAATAG
1 ATTAAATTATAATTTTTAGAATAG
*
91192480 -TAAAATTATAATTTTTA-AA-AG
1 ATTAAATTATAATTTTTAGAATAG
*
91192501 ATTAAATTAAAATTTT
1 ATTAAATTATAATTTT
91192517 ATCATTTTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 2 0.06
22 15 0.47
23 15 0.47
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (24 bp):
ATTAAATTATAATTTTTAGAATAG
Found at i:91197354 original size:7 final size:7
Alignment explanation
Indices: 91197342--91197372 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
91197332 CTTTTAAATC
91197342 ATATATT
1 ATATATT
91197349 ATATATT
1 ATATATT
91197356 ATATATT
1 ATATATT
91197363 ATATATT
1 ATATATT
91197370 ATA
1 ATA
91197373 CATTTATAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
ATATATT
Found at i:91202320 original size:22 final size:24
Alignment explanation
Indices: 91202294--91202346 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 24
91202284 ACTTTACAAT
*
91202294 TATTTTTAT-TTAATTTAATTATA
1 TATTTTTATAATAATTTAATTATA
*
91202317 -ATTTTTATAATATTTTAATTATA
1 TATTTTTATAATAATTTAATTATA
91202340 TATTTTT
1 TATTTTT
91202347 TTATAAGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 8 0.31
23 12 0.46
24 6 0.23
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (24 bp):
TATTTTTATAATAATTTAATTATA
Found at i:91202341 original size:25 final size:26
Alignment explanation
Indices: 91202313--91202397 Score: 84
Period size: 26 Copynumber: 3.2 Consensus size: 26
91202303 TTAATTTAAT
*
91202313 TATA-ATTTTTATAATATTTTAATTA
1 TATATATTTTTATAACATTTTAATTA
* * *
91202338 TATATTTTTTTATAAGATTTT-ATAA
1 TATATATTTTTATAACATTTTAATTA
*
91202363 TATATATTTCATATAACATTTTGAAGTTA
1 TATATATTT-TTATAACATTTT-AA-TTA
91202392 TATATA
1 TATATA
91202398 ATTTAAAAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
25 15 0.31
26 24 0.50
28 1 0.02
29 8 0.17
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (26 bp):
TATATATTTTTATAACATTTTAATTA
Found at i:91204043 original size:31 final size:32
Alignment explanation
Indices: 91203985--91204049 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 32
91203975 AATTTATATT
**
91203985 TTATGTATTATTATATTAAGTTATTT-AAATA
1 TTATGTATTATTATATTAAAATATTTAAAATA
*
91204016 TTATTTATTATTATATTTAAAAT-TTTAAAATA
1 TTATGTATTATTATA-TTAAAATATTTAAAATA
91204048 TT
1 TT
91204050 TCATGTGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 17 0.59
32 12 0.41
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (32 bp):
TTATGTATTATTATATTAAAATATTTAAAATA
Found at i:91204159 original size:61 final size:63
Alignment explanation
Indices: 91203979--91204159 Score: 156
Period size: 61 Copynumber: 2.9 Consensus size: 63
91203969 TAGATTAATT
* * * * * *
91203979 TATATTTTATGTATTATTATA-TTAAGTTATTTAAATATTATTTATTATTATATTTAAAATTTTA
1 TATATTTTATGTGTAATTATATTTAAATTAATTAAATATTATTTA-AATTA-ATTTAAAA-TATA
91204043 A
63 A
* * * * * * * *
91204044 AATATTTCATGTGTAATTAAATTTATAAATAATTTATTAATT-TTAAAAGT-ATTTAAAA-AT-A
1 TATATTTTATGTGTAATTATATTTA-AATTAATTAAAT-ATTATTTAAATTAATTTAAAATATAA
91204105 TATATTTTATGTGTAATTATATTTAAATTAATTAAATATTATTTAAATTAATTTA
1 TATATTTTATGTGTAATTATATTTAAATTAATTAAATATTATTTAAATTAATTTA
91204160 TTTTTAATTT
Statistics
Matches: 89, Mismatches: 22, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
59 3 0.03
60 15 0.17
61 28 0.31
62 1 0.01
64 8 0.09
65 16 0.18
66 5 0.06
67 10 0.11
68 3 0.03
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.53
Consensus pattern (63 bp):
TATATTTTATGTGTAATTATATTTAAATTAATTAAATATTATTTAAATTAATTTAAAATATAA
Found at i:91205773 original size:61 final size:61
Alignment explanation
Indices: 91205702--91205830 Score: 152
Period size: 61 Copynumber: 2.1 Consensus size: 61
91205692 ACCCAAAATA
* * ** * *
91205702 TAAAATATTCAACAAATTTAATCTTCAATGTTTATAAAAATTATCT-ATTTAGTTTTAATTTT
1 TAAAA-ATTCAACAAATTTAACCATCAAAATTTACAAAAATTAT-TGATTTAGTTCTAATTTT
* * *
91205764 TAAAAATTCAATAAATTTAGCCATCAAAATTTACAAAATTTATTGATTTAGTTCTAATTTT
1 TAAAAATTCAACAAATTTAACCATCAAAATTTACAAAAATTATTGATTTAGTTCTAATTTT
91205825 TAAAAA
1 TAAAAA
91205831 ATTAATACTT
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
60 1 0.02
61 51 0.89
62 5 0.09
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (61 bp):
TAAAAATTCAACAAATTTAACCATCAAAATTTACAAAAATTATTGATTTAGTTCTAATTTT
Found at i:91209500 original size:24 final size:24
Alignment explanation
Indices: 91209468--91209514 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
91209458 AACCTAGAGT
91209468 TAGTTGTTCTTACTCTCGAAAGAA
1 TAGTTGTTCTTACTCTCGAAAGAA
91209492 TAGTTGTTCTTACTCTCGAAAGA
1 TAGTTGTTCTTACTCTCGAAAGA
91209515 GATATTAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (24 bp):
TAGTTGTTCTTACTCTCGAAAGAA
Found at i:91223482 original size:17 final size:17
Alignment explanation
Indices: 91223457--91223490 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
91223447 CACATACATC
*
91223457 ATCTTCATGCAAATTAA
1 ATCTCCATGCAAATTAA
91223474 ATCTCCATGCAAATTAA
1 ATCTCCATGCAAATTAA
91223491 CATACTTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.32
Consensus pattern (17 bp):
ATCTCCATGCAAATTAA
Found at i:91227963 original size:21 final size:24
Alignment explanation
Indices: 91227937--91227991 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 24
91227927 CTCTTCTAGG
91227937 AAGAAAGA-AA-ATG-ATAATTGA
1 AAGAAAGAGAACATGAATAATTGA
*
91227958 AAGAAAGAGGAACCTGAATAATTGA
1 AAGAAAGA-GAACATGAATAATTGA
91227983 AAGAAAGAG
1 AAGAAAGAG
91227992 GAGCCTGACC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 8 0.28
23 2 0.07
24 3 0.10
25 16 0.55
ACGTcount: A:0.58, C:0.04, G:0.24, T:0.15
Consensus pattern (24 bp):
AAGAAAGAGAACATGAATAATTGA
Found at i:91227978 original size:25 final size:25
Alignment explanation
Indices: 91227950--91227999 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
91227940 AAAGAAAATG
91227950 ATAATTGAAAGAAAGAGGAACCTGA
1 ATAATTGAAAGAAAGAGGAACCTGA
*
91227975 ATAATTGAAAGAAAGAGGAGCCTGA
1 ATAATTGAAAGAAAGAGGAACCTGA
91228000 CCCATGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.26, T:0.16
Consensus pattern (25 bp):
ATAATTGAAAGAAAGAGGAACCTGA
Found at i:91233934 original size:13 final size:14
Alignment explanation
Indices: 91233916--91233944 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
91233906 CTTTTTTATC
91233916 TAAATTTAT-TTTT
1 TAAATTTATATTTT
91233929 TAAATTTATATTTT
1 TAAATTTATATTTT
91233943 TA
1 TA
91233945 TCTAAATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TAAATTTATATTTT
Found at i:91234952 original size:25 final size:25
Alignment explanation
Indices: 91234924--91234976 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
91234914 GGCATGTGAC
*
91234924 AAACATAAATTA-ATAAAATTAATAA
1 AAACATAAAATATAT-AAATTAATAA
*
91234949 AAACTTAAAATATATAAATTAATAA
1 AAACATAAAATATATAAATTAATAA
91234974 AAA
1 AAA
91234977 ATATACTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 23 0.92
26 2 0.08
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (25 bp):
AAACATAAAATATATAAATTAATAA
Found at i:91234974 original size:17 final size:17
Alignment explanation
Indices: 91234928--91234981 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
91234918 TGTGACAAAC
91234928 ATAAATTAATAAAAT-T
1 ATAAATTAATAAAATAT
91234944 AATAAA--AACTTAAAATAT
1 -ATAAATTAA--TAAAATAT
*
91234962 ATAAATTAATAAAAAAT
1 ATAAATTAATAAAATAT
91234979 ATA
1 ATA
91234982 CTTTTTTTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
15 2 0.06
17 26 0.84
18 1 0.03
19 2 0.06
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAAATTAATAAAATAT
Found at i:91247633 original size:3 final size:3
Alignment explanation
Indices: 91247627--91247661 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
91247617 TGCCATCATC
91247627 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
91247662 CCTAATGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:91247907 original size:35 final size:35
Alignment explanation
Indices: 91247851--91247919 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
91247841 TTTTCCCATA
* * * *
91247851 AAAATAATAAAAAATTATAAATATCAGAAAATATC
1 AAAACAATAAAAAATGATAAATATAAAAAAATATC
91247886 AAAACAAT-AAAAATGATTAAATATAAAAAAATAT
1 AAAACAATAAAAAATGA-TAAATATAAAAAAATAT
91247920 GAATATTGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 7 0.24
35 22 0.76
ACGTcount: A:0.68, C:0.04, G:0.03, T:0.25
Consensus pattern (35 bp):
AAAACAATAAAAAATGATAAATATAAAAAAATATC
Found at i:91247977 original size:19 final size:20
Alignment explanation
Indices: 91247954--91248028 Score: 68
Period size: 19 Copynumber: 3.8 Consensus size: 20
91247944 ATTATAAAAA
91247954 TAAAATTCTAATAAAAATA-
1 TAAAATTCTAATAAAAATAT
91247973 TAAAA-T-TAATAAAATATATT
1 TAAAATTCTAATAAAA-ATA-T
* *
91247993 TAAAATTTTATAAAAAAATAT
1 TAAAATTCTA-ATAAAAATAT
*
91248014 TAATATTCT-ATAAAA
1 TAAAATTCTAATAAAA
91248029 TCATAAAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
17 8 0.17
18 4 0.09
19 10 0.22
20 5 0.11
21 9 0.20
22 5 0.11
23 5 0.11
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAATTCTAATAAAAATAT
Found at i:91247999 original size:20 final size:17
Alignment explanation
Indices: 91247937--91247990 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
91247927 GATTTAAAGT
91247937 TATAAATATT-ATAAAAA
1 TATAAA-ATTAATAAAAA
*
91247954 TA-AAATTCTAATAAAAA
1 TATAAAAT-TAATAAAAA
91247971 TATAAAATTAAT-AAAA
1 TATAAAATTAATAAAAA
91247987 TATA
1 TATA
91247991 TTTAAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
15 1 0.03
16 12 0.38
17 15 0.47
18 4 0.12
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
TATAAAATTAATAAAAA
Found at i:91248007 original size:21 final size:22
Alignment explanation
Indices: 91247968--91248029 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 22
91247958 ATTCTAATAA
*
91247968 AAATA-TAAAA-TTAATAAAAT
1 AAATATTAAAATTTTATAAAAT
*
91247988 ATAT-TTAAAATTTTATAAAA-
1 AAATATTAAAATTTTATAAAAT
* *
91248008 AAATATTAATATTCTATAAAAT
1 AAATATTAAAATTTTATAAAAT
91248030 CATAAAAAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
20 11 0.33
21 22 0.67
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
AAATATTAAAATTTTATAAAAT
Found at i:91248054 original size:26 final size:29
Alignment explanation
Indices: 91248002--91248065 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
91247992 TTAAAATTTT
*
91248002 ATAAAAAAATATTAATATTCTATAAAATC
1 ATAAAAAAATATTAATATTATATAAAATC
* *
91248031 ATAAAAAAGTATTAA-A-TATA-AAAATT
1 ATAAAAAAATATTAATATTATATAAAATC
91248057 ATAAAAAAA
1 ATAAAAAAA
91248066 ATCATAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 13 0.42
27 3 0.10
28 1 0.03
29 14 0.45
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.30
Consensus pattern (29 bp):
ATAAAAAAATATTAATATTATATAAAATC
Found at i:91248613 original size:12 final size:12
Alignment explanation
Indices: 91248596--91248628 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
91248586 CTGCCTGCCC
91248596 ATATTAATTTTT
1 ATATTAATTTTT
91248608 ATATT-ATTTTT
1 ATATTAATTTTT
91248619 ATA-TAATTTT
1 ATATTAATTTT
91248629 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:91249928 original size:12 final size:12
Alignment explanation
Indices: 91249908--91249937 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
91249898 AAACAACAAT
*
91249908 TAGATAACATTA
1 TAGAGAACATTA
91249920 TAGAGAACATTA
1 TAGAGAACATTA
91249932 TAGAGA
1 TAGAGA
91249938 CGGTGGACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.50, C:0.07, G:0.17, T:0.27
Consensus pattern (12 bp):
TAGAGAACATTA
Found at i:91250489 original size:16 final size:15
Alignment explanation
Indices: 91250446--91250489 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
91250436 TAATAATGGT
*
91250446 AAATTTTAATTTTTA
1 AAATTTTAATATTTA
*
91250461 AAATTTTATTATTTA
1 AAATTTTAATATTTA
*
91250476 ATAATTTGAATATT
1 A-AATTTTAATATT
91250490 ATTAATATGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (15 bp):
AAATTTTAATATTTA
Found at i:91257568 original size:69 final size:69
Alignment explanation
Indices: 91257457--91257595 Score: 269
Period size: 69 Copynumber: 2.0 Consensus size: 69
91257447 GATAGGAAAA
*
91257457 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTTGTGGTAGG
1 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
91257522 GCTG
66 GCTG
91257526 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
1 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
91257591 GCTG
66 GCTG
91257595 A
1 A
91257596 TAGAGTCTTG
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.27, C:0.13, G:0.32, T:0.28
Consensus pattern (69 bp):
ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
GCTG
Found at i:91263970 original size:3 final size:3
Alignment explanation
Indices: 91263962--91263996 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
91263952 TATCAAAATG
91263962 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
91263997 AAAATTAGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:91269552 original size:11 final size:11
Alignment explanation
Indices: 91269536--91269561 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
91269526 TACCCAAATG
91269536 AAAAAATAAAA
1 AAAAAATAAAA
91269547 AAAAAATAAAA
1 AAAAAATAAAA
91269558 AAAA
1 AAAA
91269562 TATTAATCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAAATAAAA
Found at i:91271127 original size:10 final size:12
Alignment explanation
Indices: 91271107--91271149 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 12
91271097 ACAAAGCGAA
91271107 GAAAAAGAAA-T
1 GAAAAAGAAATT
91271118 GAAAAA-AAATT
1 GAAAAAGAAATT
*
91271129 GAAAAAGAACTT
1 GAAAAAGAAATT
*
91271141 GAAGAAGAA
1 GAAAAAGAA
91271150 GAACCAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 3 0.11
11 13 0.46
12 12 0.43
ACGTcount: A:0.67, C:0.02, G:0.19, T:0.12
Consensus pattern (12 bp):
GAAAAAGAAATT
Found at i:91274069 original size:3 final size:3
Alignment explanation
Indices: 91274063--91274093 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
91274053 GAATAATATG
*
91274063 TCT TCT TCT TCT TTT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
91274094 GTCTTTCAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TCT
Found at i:91275223 original size:13 final size:12
Alignment explanation
Indices: 91275199--91275232 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
91275189 TGTTTAATTA
91275199 TATTAAGATAAT
1 TATTAAGATAAT
91275211 TATTAAGGATAAT
1 TATTAA-GATAAT
*
91275224 TATTTAGAT
1 TATTAAGAT
91275233 TTAAATTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (12 bp):
TATTAAGATAAT
Found at i:91275259 original size:10 final size:10
Alignment explanation
Indices: 91275244--91275295 Score: 68
Period size: 10 Copynumber: 5.1 Consensus size: 10
91275234 TAAATTTAGG
91275244 ATTTATTTTT
1 ATTTATTTTT
*
91275254 ATTTATCTTT
1 ATTTATTTTT
*
91275264 ATTTATCTTT
1 ATTTATTTTT
*
91275274 ATTTATTTGT
1 ATTTATTTTT
91275284 ATTTATCTTTT
1 ATTTAT-TTTT
91275295 A
1 A
91275296 GAATTTAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
10 33 0.89
11 4 0.11
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.71
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:91284368 original size:5 final size:5
Alignment explanation
Indices: 91284358--91284435 Score: 54
Period size: 5 Copynumber: 15.4 Consensus size: 5
91284348 GCAACCCAAT
* * *
91284358 TTTTA TTTTA TTTT- TATTTA TTTTA TTTATTA TTTTC TTTTG TTTTC
1 TTTTA TTTTA TTTTA T-TTTA TTTTA -TT-TTA TTTTA TTTTA TTTTA
* *
91284405 TTTT- TTATT- TATTA CTTTA TTTTA TTTTA TT
1 TTTTA TT-TTA TTTTA TTTTA TTTTA TTTTA TT
91284436 ATTTATTAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
4 5 0.08
5 47 0.78
6 5 0.08
7 3 0.05
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.78
Consensus pattern (5 bp):
TTTTA
Done.