Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold82
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: 2626005
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.31
Warning! 196346 characters in sequence are not A, C, G, or T
File 14 of 17
Found at i:1871647 original size:13 final size:13
Alignment explanation
Indices: 1871629--1871653 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1871619 TATATGGCAC
1871629 AATGTATCGATAT
1 AATGTATCGATAT
1871642 AATGTATCGATA
1 AATGTATCGATA
1871654 CATTGTCTTA
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:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
AATGTATCGATAT
Found at i:1872580 original size:77 final size:78
Alignment explanation
Indices: 1872490--1872645 Score: 260
Period size: 77 Copynumber: 2.0 Consensus size: 78
1872480 ATACTCCATA
* * * *
1872490 ATCTTTTGCAACATTTAAAAGGAAAAAAAAGAATAAGAAAAGAGGTTACACCA-TTTTAAGCTTA
1 ATCTTTTGCAACATTTAAAAGGAAAAAAAAGAAAAAGAAAAGAGATTACACCATTTTTAACCATA
1872554 TTTCCTGATAAGT
66 TTTCCTGATAAGT
*
1872567 ATCTTTTGTAACATTTAAAAGGAAAAAAAAGAAAAAGAAAAGAGATTACACCATTTTTAACCATA
1 ATCTTTTGCAACATTTAAAAGGAAAAAAAAGAAAAAGAAAAGAGATTACACCATTTTTAACCATA
1872632 TTTCCTGATAAGT
66 TTTCCTGATAAGT
1872645 A
1 A
1872646 AGACAATACT
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
77 50 0.68
78 23 0.32
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (78 bp):
ATCTTTTGCAACATTTAAAAGGAAAAAAAAGAAAAAGAAAAGAGATTACACCATTTTTAACCATA
TTTCCTGATAAGT
Found at i:1878022 original size:110 final size:110
Alignment explanation
Indices: 1877908--1878119 Score: 372
Period size: 110 Copynumber: 1.9 Consensus size: 110
1877898 TCAATCAAAT
* * *
1877908 TCATAAAGCTAGAACATGCACACTTAAATAATCAAATATTAAAAAACAAACCAAACCCAAAAAT-
1 TCATAAAACTAGAACATGCACACATAAATAATCAAACATTAAAAAACAAACCAAACCCAAAAATC
*
1877972 TCTAGATGCCAAAAATAAAAGAAAAGTAAATATTAGAATAATCAGA
66 T-TAGATGCCAAAAATAAAACAAAAGTAAATATTAGAATAATCAGA
1878018 TCATAAAACTAGAACATGCACACATAAATAATCAAACATTAAAAAACAAACCAAACCCAAAAATC
1 TCATAAAACTAGAACATGCACACATAAATAATCAAACATTAAAAAACAAACCAAACCCAAAAATC
1878083 TTAGATGCCAAAAATAAAACAAAAGTAAATATTAGAA
66 TTAGATGCCAAAAATAAAACAAAAGTAAATATTAGAA
1878120 GGCTAACCTT
Statistics
Matches: 97, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
110 96 0.99
111 1 0.01
ACGTcount: A:0.58, C:0.17, G:0.07, T:0.19
Consensus pattern (110 bp):
TCATAAAACTAGAACATGCACACATAAATAATCAAACATTAAAAAACAAACCAAACCCAAAAATC
TTAGATGCCAAAAATAAAACAAAAGTAAATATTAGAATAATCAGA
Found at i:1878281 original size:3 final size:3
Alignment explanation
Indices: 1878273--1878305 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
1878263 AATTATTGTC
1878273 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1878306 GGTTCCCTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1878696 original size:19 final size:20
Alignment explanation
Indices: 1878672--1878727 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
1878662 TGTATCGATA
* *
1878672 CATTGTATAGATACAT-GTT
1 CATTGTATCGATACATACTT
1878691 CATTGTATCGATACATACTT
1 CATTGTATCGATACATACTT
*
1878711 AATTGTATCGATACATA
1 CATTGTATCGATACATA
1878728 AAAGTGACAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.39
Consensus pattern (20 bp):
CATTGTATCGATACATACTT
Found at i:1879785 original size:24 final size:24
Alignment explanation
Indices: 1879744--1879806 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
1879734 TACAATAGTG
1879744 TTTTAA-ATAATTATATAATTATAAA
1 TTTTAATAT-ATTATATAATT-TAAA
*
1879769 TTTTAATATATTA-ATAATTTATA
1 TTTTAATATATTATATAATTTAAA
*
1879792 TATTATATATATTAT
1 TTTTA-ATATATTAT
1879807 TATATTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 7 0.21
24 14 0.42
25 10 0.30
26 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TTTTAATATATTATATAATTTAAA
Found at i:1879785 original size:32 final size:32
Alignment explanation
Indices: 1879749--1879812 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
1879739 TAGTGTTTTA
*
1879749 AATAA-TTATATAATTATAAATTTTAATATATT
1 AATAATTTATAT-ATTATAAATATTAATATATT
* *
1879781 AATAATTTATATATTATATATATTATTATATT
1 AATAATTTATATATTATAAATATTAATATATT
1879813 TTTATATAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 22 0.79
33 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (32 bp):
AATAATTTATATATTATAAATATTAATATATT
Found at i:1879832 original size:13 final size:13
Alignment explanation
Indices: 1879814--1879857 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
1879804 TATTATATTT
*
1879814 TTATATAGTTGTA
1 TTATATAATTGTA
*
1879827 TTATATAATAT-TT
1 TTATATAAT-TGTA
1879840 TTATATAATTGTA
1 TTATATAATTGTA
1879853 TTATA
1 TTATA
1879858 GAATATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 1 0.04
13 24 0.92
14 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (13 bp):
TTATATAATTGTA
Found at i:1879844 original size:26 final size:25
Alignment explanation
Indices: 1879786--1879867 Score: 101
Period size: 26 Copynumber: 3.1 Consensus size: 25
1879776 ATATTAATAA
* *
1879786 TTTATATATTATATATATTATTATATT
1 TTTATATATTGTAT-TA-TATAATATT
1879813 TTTATATAGTTGTATTATATAATATT
1 TTTATATA-TTGTATTATATAATATT
*
1879839 TTTATATAATTGTATTATAGAATATT
1 TTTATAT-ATTGTATTATATAATATT
1879865 TTT
1 TTT
1879868 CTATTTTTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 34 0.68
27 11 0.22
28 5 0.10
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (25 bp):
TTTATATATTGTATTATATAATATT
Found at i:1880192 original size:37 final size:37
Alignment explanation
Indices: 1880142--1880235 Score: 152
Period size: 37 Copynumber: 2.5 Consensus size: 37
1880132 TTTGAGTTTT
*
1880142 GGTCAATCAAGTTTAACACTCAAGTTGATCGAATTTA
1 GGTCAATTAAGTTTAACACTCAAGTTGATCGAATTTA
* *
1880179 GGTCAATTAAGTTTAACACTCAATTTGATCGAGTTTA
1 GGTCAATTAAGTTTAACACTCAAGTTGATCGAATTTA
*
1880216 GATCAATTAAGTTTAACACT
1 GGTCAATTAAGTTTAACACT
1880236 TGAGTTTATC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (37 bp):
GGTCAATTAAGTTTAACACTCAAGTTGATCGAATTTA
Found at i:1880952 original size:18 final size:19
Alignment explanation
Indices: 1880931--1880969 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
1880921 GAATATTATT
1880931 AATAATATAA-AAATAAAA
1 AATAATATAATAAATAAAA
*
1880949 AATATTATAATTAAATAAAA
1 AATAATATAA-TAAATAAAA
1880969 A
1 A
1880970 GATTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
20 9 0.50
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (19 bp):
AATAATATAATAAATAAAA
Found at i:1882646 original size:13 final size:13
Alignment explanation
Indices: 1882628--1882654 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1882618 TTTTTTATTA
1882628 TTTATATAAAAGG
1 TTTATATAAAAGG
1882641 TTTATATAAAAGG
1 TTTATATAAAAGG
1882654 T
1 T
1882655 AAAAGTCGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (13 bp):
TTTATATAAAAGG
Found at i:1882829 original size:4 final size:4
Alignment explanation
Indices: 1882820--1882845 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
1882810 TTGTTGATTA
1882820 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
1882846 TTTTCATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:1884041 original size:20 final size:20
Alignment explanation
Indices: 1883993--1884060 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
1883983 CTAGTAAAGT
* *
1883993 TAATAAACTATTAT-ATAACA
1 TAATAAAATAATATAATAA-A
* *
1884013 TATTAAAATATATTTAA-AAA
1 TAATAAAATA-ATATAATAAA
1884033 TAATAAAATAATATAATAAA
1 TAATAAAATAATATAATAAA
1884053 TAATAAAA
1 TAATAAAA
1884061 CATGCCATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 5 0.13
20 29 0.74
21 4 0.10
22 1 0.03
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (20 bp):
TAATAAAATAATATAATAAA
Found at i:1885248 original size:22 final size:22
Alignment explanation
Indices: 1885207--1885248 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
1885197 TACTTTTTTC
*
1885207 TTTTATTTATTTTTTCTCATAT
1 TTTTATTTATTTCTTCTCATAT
1885229 TTTTATTTTATTTCTT-TCAT
1 TTTTA-TTTATTTCTTCTCAT
1885249 TCACAAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTTATTTATTTCTTCTCATAT
Found at i:1885858 original size:3 final size:3
Alignment explanation
Indices: 1885850--1885883 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
1885840 GTACTTCAAC
1885850 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1885884 CTAACTTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1886386 original size:18 final size:17
Alignment explanation
Indices: 1886363--1886396 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
1886353 TTGAACATAA
1886363 TTTTTCTTTTTATTTAAT
1 TTTTTC-TTTTATTTAAT
1886381 TTTTTCTTTTATTTAA
1 TTTTTCTTTTATTTAA
1886397 ACGAGGTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTCTTTTATTTAAT
Found at i:1887695 original size:17 final size:18
Alignment explanation
Indices: 1887654--1887697 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
1887644 TAAATTATAT
*
1887654 AATACAAATATTTTTAAA
1 AATATAAATATTTTTAAA
*
1887672 AGT-TAAAT-TTTTTAAA
1 AATATAAATATTTTTAAA
1887688 AATATAAATA
1 AATATAAATA
1887698 AAAAGTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
16 10 0.48
17 9 0.43
18 2 0.10
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (18 bp):
AATATAAATATTTTTAAA
Found at i:1887802 original size:32 final size:31
Alignment explanation
Indices: 1887761--1887826 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 31
1887751 TATTTAATGA
*
1887761 AAAATAATTATTAATTTATCAAAATTTATAT
1 AAAATAATTATTAATATATCAAAATTTATAT
* *
1887792 AAAATAAATTATTAATATATTAAAATTTATTT
1 AAAAT-AATTATTAATATATCAAAATTTATAT
1887824 AAA
1 AAA
1887827 TTTATAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
31 5 0.16
32 26 0.84
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (31 bp):
AAAATAATTATTAATATATCAAAATTTATAT
Found at i:1888494 original size:16 final size:17
Alignment explanation
Indices: 1888453--1888496 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
1888443 GCAGTTTAAT
1888453 TATAATACTATATAAAGA
1 TATAATA-TATATAAAGA
*
1888471 TATGAATATATA-AAATA
1 TAT-AATATATATAAAGA
1888488 TATAATATA
1 TATAATATA
1888497 AATTATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 6 0.25
17 7 0.29
18 7 0.29
19 4 0.17
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (17 bp):
TATAATATATATAAAGA
Found at i:1888952 original size:35 final size:36
Alignment explanation
Indices: 1888910--1888995 Score: 106
Period size: 35 Copynumber: 2.4 Consensus size: 36
1888900 AATTAATACC
*
1888910 TATATAATTATATTTAAAATATAAATTTTAATAT-AT
1 TATATAATTATATTTAAAA-ATAAATTTTAACATAAT
*
1888946 TA-ATAATTCATA-TTATAAATAAATTTTAACATAAT
1 TATATAATT-ATATTTAAAAATAAATTTTAACATAAT
*
1888981 TATATATTTATATTT
1 TATATAATTATATTT
1888996 TATTTAAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
34 13 0.30
35 18 0.42
36 12 0.28
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (36 bp):
TATATAATTATATTTAAAAATAAATTTTAACATAAT
Found at i:1889005 original size:35 final size:34
Alignment explanation
Indices: 1888913--1888978 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
1888903 TAATACCTAT
* *
1888913 ATAATT-ATATTTAAAATATAAATTTTAATATATTA
1 ATAATTCATA-TTATAA-ATAAATTTTAACATATTA
1888948 ATAATTCATATTATAAATAAATTTTAACATA
1 ATAATTCATATTATAAATAAATTTTAACATA
1888979 ATTATATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 14 0.50
35 11 0.39
36 3 0.11
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (34 bp):
ATAATTCATATTATAAATAAATTTTAACATATTA
Found at i:1889330 original size:8 final size:8
Alignment explanation
Indices: 1889313--1889533 Score: 138
Period size: 8 Copynumber: 27.4 Consensus size: 8
1889303 TATGTTATCG
*
1889313 TTATCTTA
1 TTATATTA
*
1889321 TTATACTA
1 TTATATTA
1889329 TTATATTA
1 TTATATTA
1889337 TTATATTA
1 TTATATTA
1889345 TTATCATTA
1 TTAT-ATTA
1889354 -T-T-TTA
1 TTATATTA
1889359 TTATATTA
1 TTATATTA
*
1889367 TTACATTA
1 TTATATTA
*
1889375 CTTTTATT-
1 -TTATATTA
1889383 TT-TATTAA
1 TTATATT-A
1889391 TTATA-TA
1 TTATATTA
1889398 TATATATATA
1 T-TATAT-TA
*
1889408 TTACTCCATTG
1 TTA-T--ATTA
*
1889419 TTATTATCA
1 TTA-TATTA
1889428 TTATATTA
1 TTATATTA
1889436 TTATATTA
1 TTATATTA
*
1889444 TTATCTTA
1 TTATATTA
*
1889452 TTATACTA
1 TTATATTA
*
1889460 TTACATTA
1 TTATATTA
1889468 TTATATTA
1 TTATATTA
*
1889476 -T-TATCA
1 TTATATTA
** *
1889482 TTACGTTG
1 TTATATTA
1889490 TTATATTA
1 TTATATTA
*
1889498 TTATTTTA
1 TTATATTA
1889506 TT-T-TTA
1 TTATATTA
1889512 TTATTATTAA
1 TTA-TATT-A
1889522 TTATATATA
1 TTATAT-TA
1889531 TTA
1 TTA
1889534 CATCATAGTT
Statistics
Matches: 166, Mismatches: 26, Indels: 41
0.71 0.11 0.18
Matches are distributed among these distances:
5 3 0.02
6 14 0.08
7 9 0.05
8 97 0.58
9 27 0.16
10 9 0.05
11 5 0.03
12 2 0.01
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.59
Consensus pattern (8 bp):
TTATATTA
Found at i:1889338 original size:3 final size:3
Alignment explanation
Indices: 1889318--1889525 Score: 97
Period size: 3 Copynumber: 71.3 Consensus size: 3
1889308 TATCGTTATC
* *
1889318 TTA TTA -TA CTA TTA -TA TTA TTA -TA TTA TTA TCA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
1889362 -TA TTA TTA -CA TTA CTT- TTA TTT TTA TTAA TTA -TA TATA TATA TATA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TT-A TTA TTA T-TA T-TA T-TA
* * * *
1889408 TTA CTCCA TTG TTA TTA TCA TTA -TA TTA TTA -TA TTA TTA -TC TTA
1 TTA -T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
1889452 TTA -TA CTA TTA -CA TTA TTA -TA TTA TTA TCA TTA CGTTG TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA --TTA TTA TTA
*
1889495 TTA TTA TT- TTA TTT TTA TTA TTA TTAA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA T
1889526 ATATATTACA
Statistics
Matches: 157, Mismatches: 24, Indels: 48
0.69 0.10 0.21
Matches are distributed among these distances:
2 29 0.18
3 104 0.66
4 21 0.13
5 3 0.02
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:1889632 original size:24 final size:24
Alignment explanation
Indices: 1889604--1889722 Score: 77
Period size: 24 Copynumber: 4.9 Consensus size: 24
1889594 ATGCTAATCA
1889604 TTGTTATTATTATATTATTTATAT
1 TTGTTATTATTATATTATTTATAT
* *
1889628 TTGTTATTATTGTCATTATATTATCT
1 TTGTTATTATTAT-ATTAT-TTATAT
* *
1889654 TTAATGATT-TT-TATTATTT-TAT
1 TT-GTTATTATTATATTATTTATAT
*
1889676 TTGTT-TTATTAAATATGATTTAT-T
1 TTGTTATTATT--ATATTATTTATAT
** *
1889700 TAATTATTATTTATATTTTTTAT
1 TTGTTATTA-TTATATTATTTAT
1889723 TTATTTTTAT
Statistics
Matches: 73, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
20 2 0.03
21 3 0.04
22 4 0.05
23 2 0.03
24 37 0.51
25 10 0.14
26 11 0.15
27 4 0.05
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.66
Consensus pattern (24 bp):
TTGTTATTATTATATTATTTATAT
Found at i:1889711 original size:11 final size:11
Alignment explanation
Indices: 1889694--1889743 Score: 57
Period size: 11 Copynumber: 4.4 Consensus size: 11
1889684 TTAAATATGA
1889694 TTTATTTAATT
1 TTTATTTAATT
*
1889705 ATTATTTATATTT
1 TTTATTTA-A-TT
1889718 TTTATTT-ATT
1 TTTATTTAATT
1889728 TTTATATTAATT
1 TTTAT-TTAATT
1889740 TTTA
1 TTTA
1889744 ATGTCACATG
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
10 7 0.21
11 10 0.30
12 8 0.24
13 8 0.24
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTATTTAATT
Found at i:1889723 original size:24 final size:23
Alignment explanation
Indices: 1889694--1889742 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
1889684 TTAAATATGA
1889694 TTTATTTAATTATTAT-TTATATTT
1 TTTATTT-ATTATTATATTA-ATTT
*
1889718 TTTATTTATTTTTATATTAATTT
1 TTTATTTATTATTATATTAATTT
1889741 TT
1 TT
1889743 AATGTCACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTATTTATTATTATATTAATTT
Found at i:1889733 original size:19 final size:21
Alignment explanation
Indices: 1889693--1889740 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
1889683 ATTAAATATG
1889693 ATTTATTTAATTATTATTTAT
1 ATTTATTTAATTATTATTTAT
*
1889714 ATTT-TTTATTTATT-TTTAT
1 ATTTATTTAATTATTATTTAT
*
1889733 ATTAATTT
1 ATTTATTT
1889741 TTAATGTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 8 0.33
20 12 0.50
21 4 0.17
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (21 bp):
ATTTATTTAATTATTATTTAT
Found at i:1889830 original size:20 final size:20
Alignment explanation
Indices: 1889783--1889833 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
1889773 TATTCAATTT
*
1889783 TTAATTTATAAAATATACAT
1 TTAATTTATAAAATATACAA
* *
1889803 TTACTTTATTAAATA-ACAAA
1 TTAATTTATAAAATATAC-AA
1889823 TTAATTTATAA
1 TTAATTTATAA
1889834 TAAATTAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (20 bp):
TTAATTTATAAAATATACAA
Found at i:1900347 original size:68 final size:67
Alignment explanation
Indices: 1900218--1900504 Score: 236
Period size: 68 Copynumber: 4.2 Consensus size: 67
1900208 CAAACATCTA
* * * * * * * **
1900218 ATCGACATCTCAACGTATCAGTAAGTGACACCAAGTCACTTATACTAGTAAGCAACCTT-AAAGG
1 ATCGACATCTCAGCATATAAGCAAGTGACA-CAAGTCACCTATTCTAATAAATAA-CTTCAAAGG
*
1900282 TTTG
64 TCTG
* * * *
1900286 ATCGACATCTCAGCATATAAACAAGTGATATCGAGTCACCTATTCTAATAAATAACTTTAAAGGT
1 ATCGACATCTCAGCATATAAGCAAGTGACA-CAAGTCACCTATTCTAATAAATAACTTCAAAGGT
1900351 CTG
65 CTG
* * * * * *
1900354 ATAGACATCTTAGTATATAAGCAAGTGACACCCAGTCACCTATTCTAATAAACGAGC-TCAAAGG
1 ATCGACATCTCAGCATATAAGCAAGTGACA-CAAGTCACCTATTCTAATAAA-TAACTTCAAAGG
*
1900418 TTTG
64 TCTG
* * * * * * *
1900422 ATCAACATCTTAACATATAAGCAAGTAACACTAAGTCACTTATGCTAATAAATGACTTCAAAGGT
1 ATCGACATCTCAGCATATAAGCAAGTGACAC-AAGTCACCTATTCTAATAAATAACTTCAAAGGT
1900487 CTG
65 CTG
* *
1900490 ATCGATATTTCAGCA
1 ATCGACATCTCAGCA
1900505 AGTAACGCCA
Statistics
Matches: 173, Mismatches: 42, Indels: 8
0.78 0.19 0.04
Matches are distributed among these distances:
67 5 0.03
68 166 0.96
69 2 0.01
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (67 bp):
ATCGACATCTCAGCATATAAGCAAGTGACACAAGTCACCTATTCTAATAAATAACTTCAAAGGTC
TG
Found at i:1900440 original size:136 final size:136
Alignment explanation
Indices: 1900240--1900491 Score: 317
Period size: 136 Copynumber: 1.9 Consensus size: 136
1900230 ACGTATCAGT
* * * * * *
1900240 AAGTGACACCAAGTCACTTATACTAGTAAGCAACCTTAAAGGTTTGATCGACATCTCAGCATATA
1 AAGTGACACCAAGTCACCTATACTAATAAACAACCTCAAAGGTTTGATCAACATCTCAACATATA
* * * * *
1900305 AACAAGTGATA-TCGAGTCACCTATTCTAATAAATAACTTTAAAGGTCTGATAGACATCTTAGTA
66 AACAAGTAACACT-AAGTCACCTATGCTAATAAATAACTTCAAAGGTCTGATAGACATCTTAGTA
1900369 TATAAGC
130 TATAAGC
* * * * *
1900376 AAGTGACACCCAGTCACCTATTCTAATAAACGAGCTCAAAGGTTTGATCAACATCTTAACATATA
1 AAGTGACACCAAGTCACCTATACTAATAAACAACCTCAAAGGTTTGATCAACATCTCAACATATA
* * *
1900441 AGCAAGTAACACTAAGTCACTTATGCTAATAAATGACTTCAAAGGTCTGAT
66 AACAAGTAACACTAAGTCACCTATGCTAATAAATAACTTCAAAGGTCTGAT
1900492 CGATATTTCA
Statistics
Matches: 96, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
136 95 0.99
137 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.28
Consensus pattern (136 bp):
AAGTGACACCAAGTCACCTATACTAATAAACAACCTCAAAGGTTTGATCAACATCTCAACATATA
AACAAGTAACACTAAGTCACCTATGCTAATAAATAACTTCAAAGGTCTGATAGACATCTTAGTAT
ATAAGC
Found at i:1905533 original size:34 final size:34
Alignment explanation
Indices: 1905471--1905687 Score: 267
Period size: 34 Copynumber: 6.4 Consensus size: 34
1905461 ATAGGAAAAG
* * *
1905471 TGTTGATTAAAT-GGTGATTTAGTAGTTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * * *
1905504 TGTTGATTAAATGGGTGATTTGATGGTTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
*
1905538 TGTTGACTAAATGGGAGATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* *
1905572 TGTTGATTAAAT-GAAAATTTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGA-TTTGGTAGCTTACCAT
* * *
1905606 TGTTGTTTAAATGGGTGATTTGGTGGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * *
1905640 TGTTGACTAAATGGGAGATTTGGTAGGTTGCCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
1905674 TGTTGATTAAATGG
1 TGTTGATTAAATGG
1905688 TGGTTTTTAC
Statistics
Matches: 158, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
33 15 0.09
34 141 0.89
35 2 0.01
ACGTcount: A:0.25, C:0.08, G:0.26, T:0.41
Consensus pattern (34 bp):
TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
Found at i:1905616 original size:102 final size:102
Alignment explanation
Indices: 1905492--1905686 Score: 336
Period size: 102 Copynumber: 1.9 Consensus size: 102
1905482 TGGTGATTTA
* *
1905492 GTAGTTTACCATTGTTGATTAAATGGGTGATTTGATGGTTTACCATTGTTGACTAAATGGGAGAT
1 GTAGCTTACCATTGTTGATTAAATGGGTGATTTGATGGCTTACCATTGTTGACTAAATGGGAGAT
1905557 TTGGTAGCTTACCATTGTTGATTAAATGAAAATTTTG
66 TTGGTAGCTTACCATTGTTGATTAAATGAAAATTTTG
* *
1905594 GTAGCTTACCATTGTTGTTTAAATGGGTGATTTGGTGGCTTACCATTGTTGACTAAATGGGAGAT
1 GTAGCTTACCATTGTTGATTAAATGGGTGATTTGATGGCTTACCATTGTTGACTAAATGGGAGAT
* *
1905659 TTGGTAGGTTGCCATTGTTGATTAAATG
66 TTGGTAGCTTACCATTGTTGATTAAATG
1905687 GTGGTTTTTA
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 87 1.00
ACGTcount: A:0.25, C:0.09, G:0.26, T:0.41
Consensus pattern (102 bp):
GTAGCTTACCATTGTTGATTAAATGGGTGATTTGATGGCTTACCATTGTTGACTAAATGGGAGAT
TTGGTAGCTTACCATTGTTGATTAAATGAAAATTTTG
Found at i:1906019 original size:19 final size:19
Alignment explanation
Indices: 1905995--1906038 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
1905985 TGGTTGTCGA
1905995 GGTACTATTCACA-TATACG
1 GGTACTATTCA-AGTATACG
1906014 GGTACTATTCAAGTATACG
1 GGTACTATTCAAGTATACG
*
1906033 GTTACT
1 GGTACT
1906039 GTACACGTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 1 0.04
19 22 0.96
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (19 bp):
GGTACTATTCAAGTATACG
Found at i:1910169 original size:34 final size:34
Alignment explanation
Indices: 1910105--1910323 Score: 251
Period size: 34 Copynumber: 6.5 Consensus size: 34
1910095 AAGTGGGAGA
* * * *
1910105 ATTGTTGATTAAAT-GGTGATTTAGTAGTTTATC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
1910138 ATTGTTGATTAAATGGGTGATTTGGTGGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
1910172 ATTGTTGACTAAATGGGAGATTTTGTAGCTTATC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
1910206 ATTGTTGATTAAATGGGAAATTAGGTAGCTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
1910240 ATTGTTGATTAAATGAGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * **
1910274 ATTGTTGACTAAATGGGAGATTTGGTAGGTTGTC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
1910308 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
1910324 TGGTTTTTAC
Statistics
Matches: 156, Mismatches: 29, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
33 14 0.09
34 142 0.91
ACGTcount: A:0.26, C:0.06, G:0.26, T:0.42
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:1910260 original size:102 final size:101
Alignment explanation
Indices: 1910105--1910325 Score: 336
Period size: 102 Copynumber: 2.2 Consensus size: 101
1910095 AAGTGGGAGA
* * * * *
1910105 ATTGTTGATTAAATGGTGATTTAGTAGTTTATCATTGTTGATTAAATGGGTGATTTGGTGGTTTA
1 ATTGTTGATTAAATGGTGAATTAGTAGCTTACCATTGTTGATTAAATGAGTGATTTGGTGGCTTA
*
1910170 CCATTGTTGACTAAATGGGAGATTTTGTAGCTTATC
66 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTATC
*
1910206 ATTGTTGATTAAATGG-GAAATTAGGTAGCTTGCCATTGTTGATTAAATGAGTGATTTGGTGGCT
1 ATTGTTGATTAAATGGTG-AATTA-GTAGCTTACCATTGTTGATTAAATGAGTGATTTGGTGGCT
* *
1910270 TACCATTGTTGACTAAATGGGAGATTTGGTAGGTTGTC
64 TACCATTGTTGACTAAATGGGAGATTTGGTAGCTTATC
1910308 ATTGTTGATTAAATGGTG
1 ATTGTTGATTAAATGGTG
1910326 GTTTTTACCA
Statistics
Matches: 108, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
100 1 0.01
101 20 0.19
102 86 0.80
103 1 0.01
ACGTcount: A:0.25, C:0.06, G:0.27, T:0.42
Consensus pattern (101 bp):
ATTGTTGATTAAATGGTGAATTAGTAGCTTACCATTGTTGATTAAATGAGTGATTTGGTGGCTTA
CCATTGTTGACTAAATGGGAGATTTGGTAGCTTATC
Found at i:1916337 original size:38 final size:38
Alignment explanation
Indices: 1916286--1916364 Score: 113
Period size: 38 Copynumber: 2.1 Consensus size: 38
1916276 TTACAAATGA
* * *
1916286 GTTTCAAACCGTACTATTGGTTAAGAATAGTAAGTTTT
1 GTTTCAAACCGTACCACTAGTTAAGAATAGTAAGTTTT
* *
1916324 GTTTCAAACCGTACCACTAGTTTAGAATAGTAATTTTT
1 GTTTCAAACCGTACCACTAGTTAAGAATAGTAAGTTTT
1916362 GTT
1 GTT
1916365 CTGAACGATG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (38 bp):
GTTTCAAACCGTACCACTAGTTAAGAATAGTAAGTTTT
Found at i:1917379 original size:29 final size:29
Alignment explanation
Indices: 1917319--1917385 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
1917309 AAAACTATCT
*
1917319 TTATTTATAAAATTAATTATTAAAATATTA
1 TTATTT-TAAAATTAATTATTAAAATACTA
*
1917349 TTATTTTAAAA-TAATTTATTAAAATGCTA
1 TTATTTTAAAATTAA-TTATTAAAATACTA
*
1917378 TTGTTTTA
1 TTATTTTA
1917386 GACTAAAACG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 3 0.09
29 24 0.73
30 6 0.18
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.52
Consensus pattern (29 bp):
TTATTTTAAAATTAATTATTAAAATACTA
Found at i:2072433 original size:12 final size:12
Alignment explanation
Indices: 2072416--2072458 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
2072406 TTAATAATTG
*
2072416 AATAATTTATCA
1 AATAATTTATTA
2072428 AATAATTATATTA
1 AATAATT-TATTA
* *
2072441 AATTATTCATTA
1 AATAATTTATTA
2072453 AATAAT
1 AATAAT
2072459 ATTTTTTTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (12 bp):
AATAATTTATTA
Found at i:2075231 original size:22 final size:22
Alignment explanation
Indices: 2075195--2075249 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
2075185 GGTCAATTTG
* *
2075195 ATTTATTTAAATTAAAAATT-A
1 ATTTAATTAAATTTAAAATTAA
*
2075216 ATTTAATTAAATTTAATATTAA
1 ATTTAATTAAATTTAAAATTAA
*
2075238 AATTAATTAAAT
1 ATTTAATTAAAT
2075250 AATCGATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATTTAATTAAATTTAAAATTAA
Found at i:2076530 original size:20 final size:20
Alignment explanation
Indices: 2076505--2076550 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
2076495 AAGAATTGAA
*
2076505 GAGGGATACAAGAGAGGGAT
1 GAGGGATACAAGAGAGGGAG
* **
2076525 GAGGGATGCTCGAGAGGGAG
1 GAGGGATACAAGAGAGGGAG
2076545 GAGGGA
1 GAGGGA
2076551 GCCTCTATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.52, T:0.09
Consensus pattern (20 bp):
GAGGGATACAAGAGAGGGAG
Found at i:2076698 original size:24 final size:27
Alignment explanation
Indices: 2076625--2076693 Score: 95
Period size: 27 Copynumber: 2.5 Consensus size: 27
2076615 AAACAAGCCT
* *
2076625 CCATATTTGACAAATACAAAGGA-AACCA
1 CCATTTTTGACAAAGACAAA--ATAACCA
2076653 CCATTTTTGACAAAGACAAAATAACCA
1 CCATTTTTGACAAAGACAAAATAACCA
2076680 CCATTTTTGACAAA
1 CCATTTTTGACAAA
2076694 CAAATGGGTG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 1 0.03
27 19 0.50
28 18 0.47
ACGTcount: A:0.46, C:0.22, G:0.09, T:0.23
Consensus pattern (27 bp):
CCATTTTTGACAAAGACAAAATAACCA
Found at i:2078617 original size:21 final size:22
Alignment explanation
Indices: 2078579--2078624 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
2078569 ATCTGTTGAA
* **
2078579 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGCGGAGTACT
2078600 ACTCCACCTGCTGCGGAGTACT
1 ACTCCACCTGCTGCGGAGTACT
2078622 ACT
1 ACT
2078625 TGTCTGAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTGCGGAGTACT
Found at i:2081238 original size:28 final size:27
Alignment explanation
Indices: 2081203--2081268 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
2081193 AGCCTCCATA
2081203 TTTGACAAATACAAAGGA-AACCACTATT
1 TTTGACAAATACAAA--ATAACCACTATT
* *
2081231 TTTGACAAACACAAAATAATCACTATT
1 TTTGACAAATACAAAATAACCACTATT
*
2081258 TTTAACAAATA
1 TTTGACAAATA
2081269 AATGGGTGGC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.03
27 18 0.55
28 14 0.42
ACGTcount: A:0.48, C:0.17, G:0.06, T:0.29
Consensus pattern (27 bp):
TTTGACAAATACAAAATAACCACTATT
Found at i:2083516 original size:33 final size:33
Alignment explanation
Indices: 2083479--2083543 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
2083469 GAGATTTCAA
*
2083479 AAAAATATTAAACAAAAAAAAAT-AAATTAAAAT
1 AAAAATATTAAA-AAAAAAAAATGAAATAAAAAT
* * *
2083512 AAAAATTTTATAAAAAAATAATGAAATAAAAA
1 AAAAATATTAAAAAAAAAAAATGAAATAAAAA
2083544 GAAGAAATGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 9 0.33
33 18 0.67
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (33 bp):
AAAAATATTAAAAAAAAAAAATGAAATAAAAAT
Found at i:2083686 original size:22 final size:22
Alignment explanation
Indices: 2083658--2083734 Score: 81
Period size: 22 Copynumber: 3.5 Consensus size: 22
2083648 TTTCACGTAA
2083658 CATTTCATGCATGCATAATTTT
1 CATTTCATGCATGCATAATTTT
* *
2083680 CATTTCATGCTTTTCACGTAA----
1 CATTTCATGC-ATGCA--TAATTTT
2083701 CATTTCATGCATGCATAATTTT
1 CATTTCATGCATGCATAATTTT
2083723 CATTTCATGCAT
1 CATTTCATGCAT
2083735 TTCAAAAACA
Statistics
Matches: 44, Mismatches: 4, Indels: 14
0.71 0.06 0.23
Matches are distributed among these distances:
18 3 0.07
20 3 0.07
21 10 0.23
22 22 0.50
23 3 0.07
25 3 0.07
ACGTcount: A:0.26, C:0.21, G:0.09, T:0.44
Consensus pattern (22 bp):
CATTTCATGCATGCATAATTTT
Found at i:2083686 original size:43 final size:43
Alignment explanation
Indices: 2083632--2083755 Score: 196
Period size: 43 Copynumber: 2.9 Consensus size: 43
2083622 CATTGCATGC
*
2083632 ATTTTCATTTCATGTTTTTCACGTAACATTTCATGCATGCATA
1 ATTTTCATTTCATGCTTTTCACGTAACATTTCATGCATGCATA
2083675 ATTTTCATTTCATGCTTTTCACGTAACATTTCATGCATGCATA
1 ATTTTCATTTCATGCTTTTCACGTAACATTTCATGCATGCATA
* **
2083718 ATTTTCATTTCATGCATTTCA-AAAACATTTCATTGCAT
1 ATTTTCATTTCATGCTTTTCACGTAACATTTCA-TGCAT
2083756 TGCACTTCAT
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
42 9 0.12
43 67 0.88
ACGTcount: A:0.27, C:0.19, G:0.08, T:0.45
Consensus pattern (43 bp):
ATTTTCATTTCATGCTTTTCACGTAACATTTCATGCATGCATA
Found at i:2083706 original size:21 final size:21
Alignment explanation
Indices: 2083637--2083710 Score: 64
Period size: 21 Copynumber: 3.5 Consensus size: 21
2083627 CATGCATTTT
*
2083637 CATTTCATGTTTTTCACGTAA
1 CATTTCATGCTTTTCACGTAA
* *
2083658 CATTTCATGC-ATGCA--TAA
1 CATTTCATGCTTTTCACGTAA
2083676 TTTTCATTTCATGCTTTTCACGTAA
1 ----CATTTCATGCTTTTCACGTAA
2083701 CATTTCATGC
1 CATTTCATGC
2083711 ATGCATAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 14
0.68 0.08 0.23
Matches are distributed among these distances:
18 3 0.07
20 3 0.07
21 19 0.46
22 10 0.24
23 3 0.07
25 3 0.07
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.45
Consensus pattern (21 bp):
CATTTCATGCTTTTCACGTAA
Found at i:2083756 original size:5 final size:5
Alignment explanation
Indices: 2083743--2083811 Score: 84
Period size: 5 Copynumber: 13.8 Consensus size: 5
2083733 ATTTCAAAAA
* * * * *
2083743 CATTT CATTG CATTG CACTT CATTG CATTT CATTG CATTT CATTT CATTT
1 CATTT CATTT CATTT CATTT CATTT CATTT CATTT CATTT CATTT CATTT
*
2083793 CATTT CATTT CATTA CATT
1 CATTT CATTT CATTT CATT
2083812 GCTTTCATGC
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 55 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.51
Consensus pattern (5 bp):
CATTT
Found at i:2083781 original size:15 final size:15
Alignment explanation
Indices: 2083743--2083823 Score: 78
Period size: 15 Copynumber: 5.5 Consensus size: 15
2083733 ATTTCAAAAA
* *
2083743 CATTTCATTGCATTG
1 CATTGCATTGCATTT
2083758 CACTT-CATTGCATTT
1 CA-TTGCATTGCATTT
*
2083773 CATTGCATTTCATTT
1 CATTGCATTGCATTT
* *
2083788 CATTTCATTTCATTT
1 CATTGCATTGCATTT
*
2083803 CATTACATTGC-TTT
1 CATTGCATTGCATTT
2083817 CA-TGCAT
1 CATTGCAT
2083824 GAAATGGCCG
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
13 4 0.07
14 7 0.12
15 45 0.78
16 2 0.03
ACGTcount: A:0.21, C:0.22, G:0.07, T:0.49
Consensus pattern (15 bp):
CATTGCATTGCATTT
Found at i:2097359 original size:42 final size:41
Alignment explanation
Indices: 2097304--2098066 Score: 688
Period size: 42 Copynumber: 17.8 Consensus size: 41
2097294 TTTTGTTTTC
2097304 CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTT
1 CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTT
* * *
2097345 CCTTCAGTGTGCCTGTCCGCTTTGACCCTGGAGACTTTTCTT
1 CCTT-AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTT
* *
2097387 CCCTTAGTCTACCTGTTGGCTTTGACCCTGGAGACTTTGGAGACATTCCTAT
1 -CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC--T-------TTCCT-T
* * *
2097439 CCCTTCAGTCTGCCTGTCAGCTTTGACTCTGGAGAC-TACC-T
1 -CCTT-AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTT
* * *
2097480 CATTTAAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCATC
1 C-CTT--AGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTTCCTT
* *
2097525 CCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGATTTTCCTT
1 CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTT
* * * ***
2097566 CCCTTAGTCTGCTTGTCGGCTTTGTCCCTGAAGACTTTTCAAC
1 -CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTTCCTT
* * * *
2097609 CCTCAATCTACCTGTCGGCTTTGACCCTGGAGACTTTTCTTT
1 CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTTCCTT
* * * * * *
2097651 CCCTAAGTCTGCCTATCGGCTTCGTCCCTAGAGACTTTCTTT
1 -CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTT
* * *
2097693 CCCTCAGTCTACCTGTCGGCTTTGACCCTGGAGACTTTTCTTT
1 -CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTTCCTT
* * * *
2097736 CCCTAAGTCTGCCTGTCGGCTTTGGCCCTGGAAACTTTTCTT
1 -CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTT
*
2097778 CCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCTT
1 -CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTT
2097820 CCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTAT
1 CCTT-AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCT-T
* ** *
2097863 CCCTTCAGTCTGCCTGTCAGCTTTGATTCTGGAGAC-TGCC-T
1 -CCTT-AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTT
* *
2097904 CATTTAAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCTT
1 C-CTT--AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTT
* * *
2097948 CCCTTAGTCTGCCTGTCGGCCTTGACCCTGGAGACTTTTCATC
1 -CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTTCCTT
* * *
2097991 CCTTAGTCTGCCTGTCGGTTTTGACCTTGGAGACTTTTCTTT
1 CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTTCCTT
* * * *
2098033 CCCTAAGTCTGCCCGTTGGCTTTGACCCGGGAGA
1 -CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGA
2098067 GTATTTTCTT
Statistics
Matches: 598, Mismatches: 92, Indels: 62
0.80 0.12 0.08
Matches are distributed among these distances:
40 2 0.00
41 19 0.03
42 386 0.65
43 113 0.19
44 40 0.07
45 2 0.00
51 4 0.01
52 6 0.01
53 26 0.04
ACGTcount: A:0.13, C:0.30, G:0.21, T:0.36
Consensus pattern (41 bp):
CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTT
Found at i:2097455 original size:53 final size:51
Alignment explanation
Indices: 2097373--2097475 Score: 134
Period size: 53 Copynumber: 2.0 Consensus size: 51
2097363 GCTTTGACCC
* * **
2097373 TGGAGACTTTTCTTCCCTTAGTCTACCTGTTGGCTTTGACCCTGGAGACTT
1 TGGAGACATTCCTTCCCTTAGTCTACCTGTCAGCTTTGACCCTGGAGACTT
* *
2097424 TGGAGACATTCCTATCCCTTCAGTCTGCCTGTCAGCTTTGACTCTGGAGACT
1 TGGAGACATTCCT-TCCCTT-AGTCTACCTGTCAGCTTTGACCCTGGAGACT
2097476 ACCTCATTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
51 11 0.25
52 6 0.14
53 27 0.61
ACGTcount: A:0.16, C:0.27, G:0.21, T:0.36
Consensus pattern (51 bp):
TGGAGACATTCCTTCCCTTAGTCTACCTGTCAGCTTTGACCCTGGAGACTT
Found at i:2097546 original size:84 final size:82
Alignment explanation
Indices: 2097437--2098066 Score: 647
Period size: 85 Copynumber: 7.4 Consensus size: 82
2097427 AGACATTCCT
* * ** *
2097437 ATCCCTTCAGTCTGCCTGTCAGCTTTGACTCTGGAGACTACCTCATTTAAAGTCTGCCTGTCGGC
1 ATCCCTT-AGTCTGCCTGTCGGCTTTGACCCTGGAGACT-TTTC-TTTTAAGTCTGCCTGTCGGC
2097502 TTTGACCCTGGAGACTTTTC
63 TTTGACCCTGGAGACTTTTC
* *
2097522 ATCCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGA-TTTTCCTTCCCTT-AGTCTGCTTGTCGG
1 ATCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTT-CTT---TTAAGTCTGCCTGTCGG
* *
2097585 CTTTGTCCCTGAAGACTTTTC
62 CTTTGACCCTGGAGACTTTTC
* * * * *
2097606 AACCCTCAATCTACCTGTCGGCTTTGACCCTGGAGACTTTTCTTTCCCTAAGTCTGCCTATCGGC
1 ATCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCTTT---TAAGTCTGCCTGTCGGC
* * *
2097671 TTCGTCCCTAGAGAC-TTTC
63 TTTGACCCTGGAGACTTTTC
* * *
2097690 TTTCCCTCAGTCTACCTGTCGGCTTTGACCCTGGAGACTTTTCTTTCCCTAAGTCTGCCTGTCGG
1 -ATCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCTTT---TAAGTCTGCCTGTCGG
* *
2097755 CTTTGGCCCTGGAAACTTTTC
62 CTTTGACCCTGGAGACTTTTC
* *
2097776 TTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCTTCCTTCAGTCTGCCTGTCGGCT
1 ATCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCTT--TTAAGTCTGCCTGTCGGCT
*
2097841 TTGACCCTGGAGACTTTCC
64 TTGACCCTGGAGACTTTTC
* ** ** *
2097860 TATCCCTTCAGTCTGCCTGTCAGCTTTGATTCTGGAGACTGCCTCATTTAAAGTCTGCCTGTCGG
1 -ATCCCTT-AGTCTGCCTGTCGGCTTTGACCCTGGAGACT-TTTC-TTTTAAGTCTGCCTGTCGG
2097925 CTTTGACCCTGGAGACTTTTC
62 CTTTGACCCTGGAGACTTTTC
* * * *
2097946 TTCCCTTAGTCTGCCTGTCGGCCTTGACCCTGGAGACTTTTCATCCCTT-AGTCTGCCTGTCGGT
1 ATCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC-T--TTTAAGTCTGCCTGTCGGC
*
2098010 TTTGACCTTGGAGACTTTTC
63 TTTGACCCTGGAGACTTTTC
* * * * *
2098030 TTTCCCTAAGTCTGCCCGTTGGCTTTGACCCGGGAGA
1 -ATCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGA
2098067 GTATTTTCTT
Statistics
Matches: 467, Mismatches: 58, Indels: 40
0.83 0.10 0.07
Matches are distributed among these distances:
81 1 0.00
82 3 0.01
83 6 0.01
84 190 0.41
85 195 0.42
86 67 0.14
87 3 0.01
88 2 0.00
ACGTcount: A:0.13, C:0.30, G:0.20, T:0.36
Consensus pattern (82 bp):
ATCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCTTTTAAGTCTGCCTGTCGGCTTT
GACCCTGGAGACTTTTC
Found at i:2097788 original size:212 final size:211
Alignment explanation
Indices: 2097301--2098029 Score: 869
Period size: 212 Copynumber: 3.4 Consensus size: 211
2097291 CTTTTTTGTT
* * *
2097301 TTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTT-CCTTCAGTGTGCCTGTCCGC
1 TTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCTTCCCTT-AGTCTGCCTGTCGGC
** * * *
2097365 TTTGACCCTGGAGACTTTTCTTCCCTTAGTCTACCTGTTGGCTTTGACCCTGGAGACTTTGGAGA
65 TTTGACCCTGGAGACTTTTCAACCCTCAATCTACCTGTCGGCTTTGACCCTGGAGAC--T-----
* * * *
2097430 CATTCCTATCCCTTCAGTCTGCCTGTCAGCTTTGA-CTCTGGAGACTACCTCATTTAAAGTCTGC
123 --TTCCTATCCCTTAAGTCTGCCTATCAGCTTCGATC-CTAGAGACT-CCTCATTTAAAGTCTGC
2097494 CTGTCGGCTTTGACCCTGGAGACTTTTC
184 CTGTCGGCTTTGACCCTGGAGACTTTTC
* * *
2097522 ATCCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGA-TTTTCCTTCCCTTAGTCTGCTTGTCGGC
1 TTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTT-CTTCCCTTAGTCTGCCTGTCGGC
* * * *
2097586 TTTGTCCCTGAAGACTTTTCAACCCTCAATCTACCTGTCGGCTTTGACCCTGGAGACTTTTCTTT
65 TTTGACCCTGGAGACTTTTCAACCCTCAATCTACCTGTCGGCTTTGACCCTGGAGACTTTCCTAT
* * ** *
2097651 CCC-TAAGTCTGCCTATCGGCTTCG-TCCCTAGAGACT-TTC-TTTCCCTCAGTCTACCTGTCGG
130 CCCTTAAGTCTGCCTATCAGCTTCGAT-CCTAGAGACTCCTCATTT---AAAGTCTGCCTGTCGG
2097712 CTTTGACCCTGGAGACTTTTC
191 CTTTGACCCTGGAGACTTTTC
* * *
2097733 TTTCCCTAAGTCTGCCTGTCGGCTTTGGCCCTGGAAACTTTTCTTCCCTTAGTCTGCCTGTCGGC
1 -TTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCTTCCCTTAGTCTGCCTGTCGGC
** * * *
2097798 TTTGACCCTGGAGACTTTTCTTCCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTAT
65 TTTGACCCTGGAGACTTTTCAACCCTCAATCTACCTGTCGGCTTTGACCCTGGAGACTTTCCTAT
* * * * *
2097863 CCCTTCAGTCTGCCTGTCAGCTTTGATTCTGGAGACTGCCTCATTTAAAGTCTGCCTGTCGGCTT
130 CCCTTAAGTCTGCCTATCAGCTTCGATCCTAGAGACT-CCTCATTTAAAGTCTGCCTGTCGGCTT
2097928 TGACCCTGGAGACTTTTC
194 TGACCCTGGAGACTTTTC
* * *
2097946 TTCCCTTAGTCTGCCTGTCGGCCTTGACCCTGGAGACTTTTCATCCCTTAGTCTGCCTGTCGGTT
1 TTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCTTCCCTTAGTCTGCCTGTCGGCT
*
2098011 TTGACCTTGGAGACTTTTC
66 TTGACCCTGGAGACTTTTC
2098030 TTTCCCTAAG
Statistics
Matches: 438, Mismatches: 56, Indels: 37
0.82 0.11 0.07
Matches are distributed among these distances:
208 3 0.01
209 2 0.00
211 59 0.13
212 198 0.45
213 63 0.14
214 1 0.00
215 2 0.00
216 3 0.01
219 1 0.00
220 3 0.01
221 99 0.23
222 4 0.01
ACGTcount: A:0.13, C:0.30, G:0.20, T:0.36
Consensus pattern (211 bp):
TTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCTTCCCTTAGTCTGCCTGTCGGCT
TTGACCCTGGAGACTTTTCAACCCTCAATCTACCTGTCGGCTTTGACCCTGGAGACTTTCCTATC
CCTTAAGTCTGCCTATCAGCTTCGATCCTAGAGACTCCTCATTTAAAGTCTGCCTGTCGGCTTTG
ACCCTGGAGACTTTTC
Found at i:2097806 original size:170 final size:169
Alignment explanation
Indices: 2097301--2098066 Score: 807
Period size: 170 Copynumber: 4.5 Consensus size: 169
2097291 CTTTTTTGTT
* * * *
2097301 TTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCT-TCCTTCAGTGTGCCTGTCCGC
1 TTCCCTAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTT-CTATCCCTCAGTCTGCCTGTCGGC
* * * *
2097365 TTTGACCCTGGAGACTTTTC-TTCCCTTAGTCTACCTGTTGGCTTTGACCCTGGAGACTTTGGAG
65 TTTGACCCTGGAGACTTTTCTTTCCCTAAGTCTGCCTGTCGGCTTTGACCCTGGAAAC-TT----
* * **
2097429 ACATTCCTATCCCTTCAGTCTGCCTGTCAGCTTTGACTCTGGAGACTACCTC
125 ---TT-CT-TCCCTT-AGTCTGCCTGTCGGCTTTGACCCTGGAGACT-TTTC
*
2097481 ATT---TAAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTT-TCATCCCTTAGTCTGCCTGTCG
1 -TTCCCT-AAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCT-ATCCCTCAGTCTGCCTGTCG
* * * * *
2097542 GCTTTGACCCTAGAGA-TTTTCCTTCCCTTAGTCTGCTTGTCGGCTTTGTCCCT-GAAGACTTTT
63 GCTTTGACCCTGGAGACTTTTCTTTCCCTAAGTCTGCCTGTCGGCTTTGACCCTGGAA-ACTTTT
** * * *
2097605 CAACCCTCAATCTACCTGTCGGCTTTGACCCTGGAGACTTTTC
127 CTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC
* * * * * *
2097648 TTTCCCTAAGTCTGCCTATCGGCTTCGTCCCTAGAGACTTTCTTTCCCTCAGTCTACCTGTCGGC
1 -TTCCCTAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCTATCCCTCAGTCTGCCTGTCGGC
*
2097713 TTTGACCCTGGAGACTTTTCTTTCCCTAAGTCTGCCTGTCGGCTTTGGCCCTGGAAACTTTTCTT
65 TTTGACCCTGGAGACTTTTCTTTCCCTAAGTCTGCCTGTCGGCTTTGACCCTGGAAACTTTTCTT
2097778 CCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC
130 CCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC
* * *
2097818 TTCCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTATCCCTTCAGTCTGCCTGTCAG
1 TTCCCTAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTT-CTATCCC-TCAGTCTGCCTGTCGG
** ** * *
2097883 CTTTGATTCTGGAGACTGCCTCATTT---AAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTT
64 CTTTGACCCTGGAGACT-TTTC-TTTCCCTAAGTCTGCCTGTCGGCTTTGACCCTGGAAACTTTT
*
2097945 CTTCCCTTAGTCTGCCTGTCGGCCTTGACCCTGGAGACTTTTC
127 CTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC
* * * * * * * *
2097988 ATCCCTTAGTCTGCCTGTCGGTTTTGACCTTGGAGACTTTTCTTTCCCTAAGTCTGCCCGTTGGC
1 TTCCCTAAGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTTCTATCCCTCAGTCTGCCTGTCGGC
*
2098053 TTTGACCCGGGAGA
65 TTTGACCCTGGAGA
2098067 GTATTTTCTT
Statistics
Matches: 501, Mismatches: 68, Indels: 44
0.82 0.11 0.07
Matches are distributed among these distances:
167 4 0.01
168 27 0.05
169 124 0.25
170 199 0.40
171 37 0.07
172 2 0.00
173 3 0.01
177 1 0.00
178 10 0.02
179 92 0.18
181 2 0.00
ACGTcount: A:0.13, C:0.30, G:0.20, T:0.36
Consensus pattern (169 bp):
TTCCCTAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCTATCCCTCAGTCTGCCTGTCGGCT
TTGACCCTGGAGACTTTTCTTTCCCTAAGTCTGCCTGTCGGCTTTGACCCTGGAAACTTTTCTTC
CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC
Found at i:2098554 original size:22 final size:22
Alignment explanation
Indices: 2098526--2098602 Score: 81
Period size: 22 Copynumber: 3.5 Consensus size: 22
2098516 TTTCACGTAA
2098526 CATTTCATGCATGCATAATTTT
1 CATTTCATGCATGCATAATTTT
* *
2098548 CATTTCATGCTTTTCACGTAA----
1 CATTTCATGC-ATGCA--TAATTTT
2098569 CATTTCATGCATGCATAATTTT
1 CATTTCATGCATGCATAATTTT
2098591 CATTTCATGCAT
1 CATTTCATGCAT
2098603 TTCAAAAACA
Statistics
Matches: 44, Mismatches: 4, Indels: 14
0.71 0.06 0.23
Matches are distributed among these distances:
18 3 0.07
20 3 0.07
21 10 0.23
22 22 0.50
23 3 0.07
25 3 0.07
ACGTcount: A:0.26, C:0.21, G:0.09, T:0.44
Consensus pattern (22 bp):
CATTTCATGCATGCATAATTTT
Found at i:2098554 original size:43 final size:43
Alignment explanation
Indices: 2098500--2098623 Score: 196
Period size: 43 Copynumber: 2.9 Consensus size: 43
2098490 CATTGCATGC
*
2098500 ATTTTCATTTCATGTTTTTCACGTAACATTTCATGCATGCATA
1 ATTTTCATTTCATGCTTTTCACGTAACATTTCATGCATGCATA
2098543 ATTTTCATTTCATGCTTTTCACGTAACATTTCATGCATGCATA
1 ATTTTCATTTCATGCTTTTCACGTAACATTTCATGCATGCATA
* **
2098586 ATTTTCATTTCATGCATTTCA-AAAACATTTCATTGCAT
1 ATTTTCATTTCATGCTTTTCACGTAACATTTCA-TGCAT
2098624 TGCACTTCAT
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
42 9 0.12
43 67 0.88
ACGTcount: A:0.27, C:0.19, G:0.08, T:0.45
Consensus pattern (43 bp):
ATTTTCATTTCATGCTTTTCACGTAACATTTCATGCATGCATA
Found at i:2098574 original size:21 final size:21
Alignment explanation
Indices: 2098505--2098578 Score: 64
Period size: 21 Copynumber: 3.5 Consensus size: 21
2098495 CATGCATTTT
*
2098505 CATTTCATGTTTTTCACGTAA
1 CATTTCATGCTTTTCACGTAA
* *
2098526 CATTTCATGC-ATGCA--TAA
1 CATTTCATGCTTTTCACGTAA
2098544 TTTTCATTTCATGCTTTTCACGTAA
1 ----CATTTCATGCTTTTCACGTAA
2098569 CATTTCATGC
1 CATTTCATGC
2098579 ATGCATAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 14
0.68 0.08 0.23
Matches are distributed among these distances:
18 3 0.07
20 3 0.07
21 19 0.46
22 10 0.24
23 3 0.07
25 3 0.07
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.45
Consensus pattern (21 bp):
CATTTCATGCTTTTCACGTAA
Found at i:2098624 original size:5 final size:5
Alignment explanation
Indices: 2098611--2098709 Score: 117
Period size: 5 Copynumber: 19.8 Consensus size: 5
2098601 ATTTCAAAAA
* * * * * *
2098611 CATTT CATTG CATTG CACTT CATTT CATTT CATTG CATTT CATTG CATTG
1 CATTT CATTT CATTT CATTT CATTT CATTT CATTT CATTT CATTT CATTT
* * *
2098661 CATTT CATTT CATTT CATTT CATTT CATTG CATTG CATTT CATTA CATT
1 CATTT CATTT CATTT CATTT CATTT CATTT CATTT CATTT CATTT CATT
2098710 GCTTTCATGC
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 83 1.00
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.51
Consensus pattern (5 bp):
CATTT
Found at i:2098634 original size:15 final size:15
Alignment explanation
Indices: 2098611--2098721 Score: 111
Period size: 15 Copynumber: 7.5 Consensus size: 15
2098601 ATTTCAAAAA
* *
2098611 CATTTCATTGCATTG
1 CATTGCATTGCATTT
*
2098626 CACTT-CATTTCATTT
1 CA-TTGCATTGCATTT
* *
2098641 CATTGCATTTCATTG
1 CATTGCATTGCATTT
*
2098656 CATTGCATTTCATTT
1 CATTGCATTGCATTT
* *
2098671 CATTTCATTTCATTT
1 CATTGCATTGCATTT
2098686 CATTGCATTGCATTT
1 CATTGCATTGCATTT
*
2098701 CATTACATTGC-TTT
1 CATTGCATTGCATTT
2098715 CA-TGCAT
1 CATTGCAT
2098722 GAAATGGCCG
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
13 4 0.05
14 7 0.08
15 72 0.85
16 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.08, T:0.50
Consensus pattern (15 bp):
CATTGCATTGCATTT
Found at i:2101441 original size:142 final size:142
Alignment explanation
Indices: 2101185--2101453 Score: 475
Period size: 142 Copynumber: 1.9 Consensus size: 142
2101175 TTTTGAAGGC
*
2101185 GACTGAGATACCCAAAGAATCAATCAACCCAACCTTTGGAAGGAAAATAGTCAGAAATACAGAAG
1 GACTGAGATACCCAAAGAATCAATCAACCCAACCTATGGAAGGAAAATAGTCAGAAATACAGAAG
2101250 CTTGTGAACAAGGCTTAAGTTTCATTAAGCATCCCATGGAACCTGCTTCTTTCAAATCTGTCTTC
66 CTTGTGAACAAGGCTTAAGTTTCATTAAGCATCCCATGGAACCTGCTTCTTTCAAATCTGTCTTC
2101315 GTCTTCAAGACA
131 GTCTTCAAGACA
* ** *
2101327 GACTGAGATACCCAAAGAATCTATTGACCCAACCTATGGAAGGAAAATAGTCATAAATACAGAAG
1 GACTGAGATACCCAAAGAATCAATCAACCCAACCTATGGAAGGAAAATAGTCAGAAATACAGAAG
* *
2101392 CTTGTGAACAAGGCTTGAGTTTCATTAAGCATCCCATGGAACCTGCTTCTTTCAACTCTGTC
66 CTTGTGAACAAGGCTTAAGTTTCATTAAGCATCCCATGGAACCTGCTTCTTTCAAATCTGTC
2101454 ATCATCATAC
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
142 120 1.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (142 bp):
GACTGAGATACCCAAAGAATCAATCAACCCAACCTATGGAAGGAAAATAGTCAGAAATACAGAAG
CTTGTGAACAAGGCTTAAGTTTCATTAAGCATCCCATGGAACCTGCTTCTTTCAAATCTGTCTTC
GTCTTCAAGACA
Found at i:2106736 original size:89 final size:90
Alignment explanation
Indices: 2106583--2106981 Score: 314
Period size: 89 Copynumber: 4.5 Consensus size: 90
2106573 AACTTATGGG
* * ** * * * * *
2106583 CTTTGAAAAAAGGTGCC-ATAGACTGGTGGGTTTTGAAAAGGGTGCCACTGACTTGTAAAATTTG
1 CTTTGAAAAAAGATGCCAAT-GACTTGTGGACTTTGAAAAAGGTGCCACTAACTTATAGACTTTG
* * *
2106647 AAATGCTTGCCACCGATTTATGTGGA
65 AAAAGGTTGCCACCGATTTGTGTGGA
* * * * * * *
2106673 CTTT-AAAAATGATGTCATTAACTTGTGCACTTTGAAAAGGGTGCCACTAACTTATGGACTTTGA
1 CTTTGAAAAAAGATGCCAATGACTTGTGGACTTTGAAAAAGGTGCCACTAACTTATAGACTTTGA
* * *
2106737 AAAGGTTGCCACTGACTCGTGTGGA
66 AAAGGTTGCCACCGATTTGTGTGGA
* * * * *
2106762 CTTTG--AAAGGATACCACTGACTCGTGTGGACTTTGAAAAAGGTTCCACTGACTTATATAGACT
1 CTTTGAAAAAAGATGCCAATGACT--TGTGGACTTTGAAAAAGGTGCCACTAAC-T-TATAGACT
* ** *
2106825 TTGTAAAAGG-TGCCA-CTAACT-TGTAGA
62 TTG-AAAAGGTTGCCACCGATTTGTGTGGA
* * * *
2106852 CTTTGAAAAAAG-TGCCAATGACTTATGGATTTTGAAAAAGGTGCCACTAACTTATGGACTTTAA
1 CTTTGAAAAAAGATGCCAATGACTTGTGGACTTTGAAAAAGGTGCCACTAACTTATAGACTTTGA
2106916 AAAGGTTGCCACCGATTTGTGTGGA
66 AAAGGTTGCCACCGATTTGTGTGGA
* * * * *
2106941 CTTTG-AAAAAGGTACCACTGACTTGTGG-GTTTTAAAAAGGT
1 CTTTGAAAAAAGATGCCAATGACTTGTGGACTTTGAAAAAGGT
2106982 TACCACCGAC
Statistics
Matches: 242, Mismatches: 54, Indels: 28
0.75 0.17 0.09
Matches are distributed among these distances:
86 6 0.02
87 14 0.06
88 33 0.14
89 114 0.47
90 39 0.16
91 11 0.05
92 19 0.08
93 6 0.02
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (90 bp):
CTTTGAAAAAAGATGCCAATGACTTGTGGACTTTGAAAAAGGTGCCACTAACTTATAGACTTTGA
AAAGGTTGCCACCGATTTGTGTGGA
Found at i:2106765 original size:31 final size:31
Alignment explanation
Indices: 2106696--2107734 Score: 428
Period size: 31 Copynumber: 34.3 Consensus size: 31
2106686 GTCATTAACT
* *
2106696 TGTGCACTTTGAAAAGGGTGCCACTAACT--
1 TGTGGACTTTGAAAAGGTTGCCACTAACTCG
* *
2106725 TATGGACTTTGAAAAGGTTGCCACTGACTCG
1 TGTGGACTTTGAAAAGGTTGCCACTAACTCG
* * *
2106756 TGTGGACTTTG-AAAGGATACCACTGACTCG
1 TGTGGACTTTGAAAAGGTTGCCACTAACTCG
* **
2106786 TGTGGACTTTGAAAAAGGTT-CCACTGACTTA
1 TGTGGACTTTG-AAAAGGTTGCCACTAACTCG
* *
2106817 TATAGACTTTGTAAAAGG-TGCCACTAACT--
1 TGTGGACTTTG-AAAAGGTTGCCACTAACTCG
* * * *
2106846 TGTAGACTTTGAAAAAAG-TGCCAATGACT--
1 TGTGGACTTTG-AAAAGGTTGCCACTAACTCG
* *
2106875 TATGGATTTTGAAAAAGG-TGCCACTAACT--
1 TGTGGACTTTG-AAAAGGTTGCCACTAACTCG
* * ** * *
2106904 TATGGACTTTAAAAAGGTTGCCACCGATTTG
1 TGTGGACTTTGAAAAGGTTGCCACTAACTCG
* *
2106935 TGTGGACTTTGAAAAAGG-TACCACTGACT--
1 TGTGGACTTTG-AAAAGGTTGCCACTAACTCG
** * * ** *
2106964 TGTGGGTTTTAAAAAGGTTACCACCGACTCT
1 TGTGGACTTTGAAAAGGTTGCCACTAACTCG
* * * *
2106995 TGTGAACTTTGAAAAGGGTGCCATTGACT--
1 TGTGGACTTTGAAAAGGTTGCCACTAACTCG
* * *
2107024 TGTGAACTTTAGAAAAAGG-TGCCACTGA-T-T
1 TGTGGACTTT-G-AAAAGGTTGCCACTAACTCG
* * * *
2107054 TGTGGACTTTGAAAAAGTTACCACTGACCCG
1 TGTGGACTTTGAAAAGGTTGCCACTAACTCG
* * *
2107085 TGTGGACTTT-AACTATGG-TGCCACCAACTTG
1 TGTGGACTTTGAA--AAGGTTGCCACTAACTCG
* ** *
2107116 TGTAGACTTAAAAAAGGTTGCCACCAACTCG
1 TGTGGACTTTGAAAAGGTTGCCACTAACTCG
* * *
2107147 TGTGGACTTT-AACTATGG-TGCCACCAACTTG
1 TGTGGACTTTGAA--AAGGTTGCCACTAACTCG
* **** * *
2107178 TGTGGGCTTT-TTGGGTGTTG-C-C-AGCTCA
1 TGTGGACTTTGAAAAG-GTTGCCACTAACTCG
* * * * *
2107206 TGCGGACTTTAAGAAAGGATGCCACCAGCTCG
1 TGTGGACTTTGA-AAAGGTTGCCACTAACTCG
* * * *
2107238 GGTGGACTTTGGAAAGGGTGCCACTGACT--
1 TGTGGACTTTGAAAAGGTTGCCACTAACTCG
* *
2107267 TGT-GAGCTTTGGAAAGGTTGCCACTAACTTG
1 TGTGGA-CTTTGAAAAGGTTGCCACTAACTCG
** * *
2107298 TGTGGACTTTGACTAGGGTGCCACCAACTCG
1 TGTGGACTTTGAAAAGGTTGCCACTAACTCG
** * * * *
2107329 TGTGGACTTTGACTAGGGTACCACCAACTTG
1 TGTGGACTTTGAAAAGGTTGCCACTAACTCG
** * * * *
2107360 TGTGGACTTTGACTAGGGTACCACCAACTCA
1 TGTGGACTTTGAAAAGGTTGCCACTAACTCG
*
2107391 TGTGGACTTT-AAAAGGTTGCCACTAACTCA
1 TGTGGACTTTGAAAAGGTTGCCACTAACTCG
* *
2107421 TATGGACTTTAAAAAAGG-TGCCACTAACT--
1 TGTGGACTTT-GAAAAGGTTGCCACTAACTCG
* * * * * *
2107450 TTTGGGCTTT-AGAAAGGTTACCTCCAACTTG
1 TGTGGACTTTGA-AAAGGTTGCCACTAACTCG
** * *
2107481 TGTGGACTTTGACTAGGGTGCCA-TCAACTCA
1 TGTGGACTTTGAAAAGGTTGCCACT-AACTCG
* *
2107512 TGTGGACCTTGAAAAGGTT-CTCACCAACTCG
1 TGTGGACTTTGAAAAGGTTGC-CACTAACTCG
* * * * *
2107543 TGTGGACTTTGAAAAAGG-TACTATTGA-T-T
1 TGTGGACTTTG-AAAAGGTTGCCACTAACTCG
* * *
2107572 TGTGGACTTTGAAAAGGGTGCTACTGACT--
1 TGTGGACTTTGAAAAGGTTGCCACTAACTCG
* * *
2107601 TATGGACTTTAAAAAGGTTGCCACCAACTCG
1 TGTGGACTTTGAAAAGGTTGCCACTAACTCG
* * * *
2107632 TGTAGACTTT-AACTATGG-TGCCACAAACTCA
1 TGTGGACTTTGAA--AAGGTTGCCACTAACTCG
* * * *
2107663 TGTGGACTTTAAAAAGGTTACCACCAACTTG
1 TGTGGACTTTGAAAAGGTTGCCACTAACTCG
2107694 TGTGGACTTT-AACAATGG-TGCCACTAACTCG
1 TGTGGACTTTGAA-AA-GGTTGCCACTAACTCG
*
2107725 TGTGGGCTTT
1 TGTGGACTTT
2107735 TTAGGTGCCA
Statistics
Matches: 792, Mismatches: 161, Indels: 112
0.74 0.15 0.11
Matches are distributed among these distances:
27 1 0.00
28 41 0.05
29 212 0.27
30 92 0.12
31 391 0.49
32 55 0.07
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (31 bp):
TGTGGACTTTGAAAAGGTTGCCACTAACTCG
Found at i:2106765 original size:60 final size:60
Alignment explanation
Indices: 2106696--2107588 Score: 482
Period size: 60 Copynumber: 14.8 Consensus size: 60
2106686 GTCATTAACT
* * ** *
2106696 TGTGCACTTTGAAAAGGGTGCCACTAACTTATGGACTTTGAAAAGGTTGCCACTGACTCG
1 TGTGGACTTTGAAAAGGGTGCCACTAACTTGTGGACTTTGAAAAGGTTGCCACCAACTTG
* * * ** *
2106756 TGTGGACTTTG-AAAGGATACCACTGACTCGTGTGGACTTTGAAAAAGGTT-CCACTGACTTA
1 TGTGGACTTTGAAAAGGGTGCCACTAACT--TGTGGACTTTG-AAAAGGTTGCCACCAACTTG
* * * * ***
2106817 TATAGACTTTGTAAAA-GGTGCCACTAACTTGTAGACTTTGAAAAAAG-TGCCAATGAC-T-
1 TGTGGACTTTG-AAAAGGGTGCCACTAACTTGTGGACTTTG-AAAAGGTTGCCACCAACTTG
* * * * * * *
2106875 TATGGATTTTGAAAAAGGTGCCACTAACTTATGGACTTTAAAAAGGTTGCCACCGATTTG
1 TGTGGACTTTGAAAAGGGTGCCACTAACTTGTGGACTTTGAAAAGGTTGCCACCAACTTG
* * * ** * * *
2106935 TGTGGACTTTGAAAAAGGTACCACTGACTTGTGGGTTTTAAAAAGGTTACCACCGACTCT-
1 TGTGGACTTTGAAAAGGGTGCCACTAACTTGTGGACTTTGAAAAGGTTGCCACCAACT-TG
* * * * **
2106995 TGTGAACTTTGAAAAGGGTGCCATTGACTTGTGAACTTTAGAAAAAGG-TGCCACTGA-TT-
1 TGTGGACTTTGAAAAGGGTGCCACTAACTTGTGGACTTT-G-AAAAGGTTGCCACCAACTTG
* * * * * *
2107054 TGTGGACTTTGAAAAAGTTACCACTGACCCGTGTGGACTTT-AACTATGG-TGCCACCAACTTG
1 TGTGGACTTTGAAAAGGGTGCCACT-A-ACTTGTGGACTTTGAA--AAGGTTGCCACCAACTTG
* ** * * *
2107116 TGTAGACTTAAAAAAGGTTGCCACCAACTCGTGTGGACTTT-AACTATGG-TGCCACCAACTTG
1 TGTGGACTTTGAAAAGGGTGCCACTAACT--TGTGGACTTTGAA--AAGGTTGCCACCAACTTG
* *** * * * * * *
2107178 TGTGGGCTTT--TTGGGTGTTGCCAGCT--CATGCGGACTTTAAGAAAGGATGCCACCAGCTCG
1 TGTGGACTTTGAAAAGG-G-TGCCA-CTAACTTGTGGACTTTGA-AAAGGTTGCCACCAACTTG
* * * * *
2107238 GGTGGACTTTGGAAAGGGTGCCACTGACTTGT-GAGCTTTGGAAAGGTTGCCACTAACTTG
1 TGTGGACTTTGAAAAGGGTGCCACTAACTTGTGGA-CTTTGAAAAGGTTGCCACCAACTTG
** * ** * *
2107298 TGTGGACTTTGACTAGGGTGCCACCAACTCGTGTGGACTTTGACTAGGGTACCACCAACTTG
1 TGTGGACTTTGAAAAGGGTGCCACTAACT--TGTGGACTTTGAAAAGGTTGCCACCAACTTG
** * * * **
2107360 TGTGGACTTTGACTAGGGTACCACCAACTCATGTGGACTTT-AAAAGGTTGCCACTAACTCA
1 TGTGGACTTTGAAAAGGGTGCCACTAACT--TGTGGACTTTGAAAAGGTTGCCACCAACTTG
* * * * * * *
2107421 TATGGACTTTAAAAAAGGTGCCACTAACTTTTGGGCTTT-AGAAAGGTTACCTCCAACTTG
1 TGTGGACTTTGAAAAGGGTGCCACTAACTTGTGGACTTTGA-AAAGGTTGCCACCAACTTG
** * *
2107481 TGTGGACTTTGACTAGGGTGCCA-TCAACTCATGTGGACCTTGAAAAGGTT-CTCACCAACTCG
1 TGTGGACTTTGAAAAGGGTGCCACT-AACT--TGTGGACTTTGAAAAGGTTGC-CACCAACTTG
* * * * * *
2107543 TGTGGACTTTGAAAAAGGTACTATTGATTTGTGGACTTTGAAAAGG
1 TGTGGACTTTGAAAAGGGTGCCACTAACTTGTGGACTTTGAAAAGG
2107589 GTGCTACTGA
Statistics
Matches: 649, Mismatches: 142, Indels: 84
0.74 0.16 0.10
Matches are distributed among these distances:
57 9 0.01
58 39 0.06
59 62 0.10
60 245 0.38
61 95 0.15
62 191 0.29
63 8 0.01
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (60 bp):
TGTGGACTTTGAAAAGGGTGCCACTAACTTGTGGACTTTGAAAAGGTTGCCACCAACTTG
Found at i:2106854 original size:90 final size:89
Alignment explanation
Indices: 2106696--2106927 Score: 247
Period size: 90 Copynumber: 2.6 Consensus size: 89
2106686 GTCATTAACT
* * * *
2106696 TGTGCACTTTGAAAAGGGTGCCACTAACTTATGGACTTTGAAAAGGTTGCCACTGACTCGTGTGG
1 TGTGCACTTTGAAAAAGGTGCCACTAACTTATAGACTTTGAAAAGGTTGCCACTAACTC-TGTAG
2106761 ACTTTGAAAGGATACCACTGACTCG
65 ACTTTGAAAGGATACCACTGACTCG
* * *
2106786 TGTGGACTTTGAAAAAGGTTCCACTGACTTATATAGACTTTGTAAAAGG-TGCCACTAACT-TGT
1 TGTGCACTTTGAAAAAGGTGCCACTAAC-T-TATAGACTTTG-AAAAGGTTGCCACTAACTCTGT
** * *
2106849 AGACTTTGAAAAAAGTGCCAATGACT--
63 AGACTTTGAAAGGA-TACCACTGACTCG
* * * * *
2106875 TATGGATTTTGAAAAAGGTGCCACTAACTTATGGACTTTAAAAAGGTTGCCAC
1 TGTGCACTTTGAAAAAGGTGCCACTAACTTATAGACTTTGAAAAGGTTGCCAC
2106928 CGATTTGTGT
Statistics
Matches: 120, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
86 6 0.05
87 15 0.12
88 1 0.01
89 24 0.20
90 38 0.32
91 10 0.08
92 20 0.17
93 6 0.05
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (89 bp):
TGTGCACTTTGAAAAAGGTGCCACTAACTTATAGACTTTGAAAAGGTTGCCACTAACTCTGTAGA
CTTTGAAAGGATACCACTGACTCG
Found at i:2106888 original size:179 final size:178
Alignment explanation
Indices: 2106701--2107070 Score: 466
Period size: 179 Copynumber: 2.1 Consensus size: 178
2106691 TAACTTGTGC
* * *
2106701 ACTTTGAAAAGGGTGCCACTAACTTATGGACTTTGAAAAGGTTGCCACTGACTCGTGTGGACTTT
1 ACTTTGAAAAAGGTGCCACTAACTTATGGACTTTAAAAAGGTTGCCACCGACTCGTGTGGACTTT
*
2106766 G-AAAGGATACCACTGACTCGTGTGGACTTTGAAAAAGGTT-CCACTGACT-TATAT-AGACTTT
66 GAAAAGG-TACCACTGACT--TGTGG-CTTTGAAAAAGGTTACCACCGACTCT-TATGA-ACTTT
2106827 GTAAAA-GGTGCCACTAACTTGT-AGACTTT-GAAAAAAGTGCCAATGACTTATGG
125 G-AAAAGGGTGCCACTAACTTGTGA-ACTTTAGAAAAAAGTGCCAATGACTTATGG
* * *
2106880 ATTTTGAAAAAGGTGCCACTAACTTATGGACTTTAAAAAGGTTGCCACCGATTTGTGTGGACTTT
1 ACTTTGAAAAAGGTGCCACTAACTTATGGACTTTAAAAAGGTTGCCACCGACTCGTGTGGACTTT
* * *
2106945 GAAAAAGGTACCACTGACTTGTGGGTTTTAAAAAGGTTACCACCGACTCTTGTGAACTTTGAAAA
66 G-AAAAGGTACCACTGACTTGTGGCTTTGAAAAAGGTTACCACCGACTCTTATGAACTTTGAAAA
* * * * * *
2107010 GGGTGCCATTGACTTGTGAACTTTAGAAAAAGGTGCCACTGATTTGTGG
130 GGGTGCCACTAACTTGTGAACTTTAGAAAAAAGTGCCAATGACTTATGG
2107059 ACTTTGAAAAAG
1 ACTTTGAAAAAG
2107071 TTACCACTGA
Statistics
Matches: 166, Mismatches: 17, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
177 16 0.10
178 40 0.24
179 94 0.57
180 11 0.07
181 5 0.03
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (178 bp):
ACTTTGAAAAAGGTGCCACTAACTTATGGACTTTAAAAAGGTTGCCACCGACTCGTGTGGACTTT
GAAAAGGTACCACTGACTTGTGGCTTTGAAAAAGGTTACCACCGACTCTTATGAACTTTGAAAAG
GGTGCCACTAACTTGTGAACTTTAGAAAAAAGTGCCAATGACTTATGG
Found at i:2107077 original size:29 final size:29
Alignment explanation
Indices: 2106484--2107081 Score: 406
Period size: 29 Copynumber: 20.2 Consensus size: 29
2106474 ACAGGATGCT
* * *
2106484 ACTGACTTGTGGGCTTTGAAAAAGGAGTC
1 ACTGACTTGTGGACTTTGAAAAAGGTGCC
* * * * *
2106513 A-TTACTTATGGGCTTTGAAAAGGGGGCC
1 ACTGACTTGTGGACTTTGAAAAAGGTGCC
*
2106541 ACTGACTTGTGGGCTTT-AAAAATGGTGCC
1 ACTGACTTGTGGACTTTGAAAAA-GGTGCC
* * *
2106570 ACTAACTTATGGGCTTTGAAAAAAGGTGCC
1 ACTGACTTGTGGACTTTG-AAAAAGGTGCC
* ** *
2106600 A-TAGACTGGTGGGTTTTGAAAAGGGTGCC
1 ACT-GACTTGTGGACTTTGAAAAAGGTGCC
** * * *
2106629 ACTGACTTGTAAAATTTG-AAATGCTTGCC
1 ACTGACTTGTGGACTTTGAAAAAG-GTGCC
* * * *
2106658 ACCGATTTATGTGGACTTT-AAAAATGATGTC
1 ACTGA-CT-TGTGGACTTTGAAAAA-GGTGCC
* * * *
2106689 ATTAACTTGTGCACTTTGAAAAGGGTGCC
1 ACTGACTTGTGGACTTTGAAAAAGGTGCC
* *
2106718 ACTAACTTATGGACTTTG-AAAAGGTTGCC
1 ACTGACTTGTGGACTTTGAAAAAGG-TGCC
*
2106747 ACTGACTCGTGTGGACTTTG--AAAGGATACC
1 ACTGACT--TGTGGACTTTGAAAAAGG-TGCC
*
2106777 ACTGACTCGTGTGGACTTTGAAAAAGGTTCC
1 ACTGACT--TGTGGACTTTGAAAAAGGTGCC
* * *
2106808 ACTGACTTATATAGACTTTGTAAAAGGTGCC
1 ACTGAC-T-TGTGGACTTTGAAAAAGGTGCC
* * *
2106839 ACTAACTTGTAGACTTTGAAAAAAGTGCC
1 ACTGACTTGTGGACTTTGAAAAAGGTGCC
* * *
2106868 AATGACTTATGGATTTTGAAAAAGGTGCC
1 ACTGACTTGTGGACTTTGAAAAAGGTGCC
* *
2106897 ACTAACTTATGGACTTT-AAAAAGGTTGCC
1 ACTGACTTGTGGACTTTGAAAAAGG-TGCC
* * *
2106926 ACCGATTTGTGTGGACTTTGAAAAAGGTACC
1 ACTGA-CT-TGTGGACTTTGAAAAAGGTGCC
* * *
2106957 ACTGACTTGTGG-GTTTTAAAAAGGTTACC
1 ACTGACTTGTGGACTTTGAAAAAGG-TGCC
* * *
2106986 ACCGACTCTTGTGAACTTTGAAAAGGGTGCC
1 ACTGA--CTTGTGGACTTTGAAAAAGGTGCC
* *
2107017 ATTGACTTGTGAACTTTAGAAAAAGGTGCC
1 ACTGACTTGTGGACTTT-GAAAAAGGTGCC
* * *
2107047 ACTGATTTGTGGACTTTGAAAAAGTTACC
1 ACTGACTTGTGGACTTTGAAAAAGGTGCC
2107076 ACTGAC
1 ACTGAC
2107082 CCGTGTGGAC
Statistics
Matches: 452, Mismatches: 90, Indels: 54
0.76 0.15 0.09
Matches are distributed among these distances:
28 53 0.12
29 205 0.45
30 81 0.18
31 90 0.20
32 23 0.05
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (29 bp):
ACTGACTTGTGGACTTTGAAAAAGGTGCC
Found at i:2107107 original size:90 final size:89
Alignment explanation
Indices: 2106730--2107094 Score: 219
Period size: 89 Copynumber: 4.1 Consensus size: 89
2106720 TAACTTATGG
* * *
2106730 ACTTTGAAAAGGTTGCCACTGACTCGTGTGGACTTTG--AAAGGATACCACTGACTCGTGTGGAC
1 ACTTTGAAAAGGGTGCCATTGACT--TGTGAACTTTGAAAAAGG-TACCACTGACT--TGTGG-C
* *** *
2106793 TTTGAAAAAGGTT-CCACTGACTTATAT-A
60 TTTGAAAAAGGTTACCACCGACCCGTGTGA
* * * * * * *
2106821 GACTTTGTAAAA-GGTGCCACTAACTTGT-AGACTTTGAAAAAAGTGCCAATGACTTATGGATTT
1 -ACTTTG-AAAAGGGTGCCATTGACTTGTGA-ACTTTGAAAAAGGTACCACTGACTTGTGG-CTT
* * * * * *
2106884 TGAAAAAGG-TGCCA-CTA-ACTTATGG
62 TGAAAAAGGTTACCACCGACCCGTGTGA
* * ** * * * *
2106909 ACTTTAAAAAGGTTGCCACCGATTTGTGTGGACTTTGAAAAAGGTACCACTGACTTGTGGGTTTT
1 ACTTTGAAAAGGGTGCCATTGA-CT-TGTGAACTTTGAAAAAGGTACCACTGACTTGTGGCTTTG
* *
2106974 AAAAAGGTTACCACCGACTCTTGTGA
64 AAAAAGGTTACCACCGACCCGTGTGA
* *
2107000 ACTTTGAAAAGGGTGCCATTGACTTGTGAACTTTAGAAAAAGGTGCCACTGATTTGTGGACTTTG
1 ACTTTGAAAAGGGTGCCATTGACTTGTGAACTTT-GAAAAAGGTACCACTGACTTGTGG-CTTTG
* *
2107065 AAAAA-GTTACCACTGACCCGTGTGG
64 AAAAAGGTTACCACCGACCCGTGTGA
2107090 ACTTT
1 ACTTT
2107095 AACTATGGTG
Statistics
Matches: 213, Mismatches: 45, Indels: 32
0.73 0.16 0.11
Matches are distributed among these distances:
86 4 0.02
87 16 0.08
88 13 0.06
89 60 0.28
90 55 0.26
91 40 0.19
92 21 0.10
93 4 0.02
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (89 bp):
ACTTTGAAAAGGGTGCCATTGACTTGTGAACTTTGAAAAAGGTACCACTGACTTGTGGCTTTGAA
AAAGGTTACCACCGACCCGTGTGA
Found at i:2107115 original size:90 final size:90
Alignment explanation
Indices: 2106822--2107139 Score: 208
Period size: 90 Copynumber: 3.5 Consensus size: 90
2106812 ACTTATATAG
* * * * *
2106822 ACTTTGTAAAA-GGTGCCACTAACTTGT-AGACTTT-GAAAAAAGTGCCAATGACTTATGGATTT
1 ACTTTG-AAAAGGGTGCCACCAACTTGTGA-ACTTTAGAAAAAGGTGCCACTGACTTGTGG-CTT
* * * * * *
2106884 TGAAAAAGG-TGCCA-CTA-ACTTATGG
63 TGAAAAAGGTTACCACCGACCCGTGTGA
* * ** * * *
2106909 ACTTTAAAAAGGTTGCCACCGATTTGTGTGGACTTT-GAAAAAGGTACCACTGACTTGTGGGTTT
1 ACTTTGAAAAGGGTGCCACC-AACT-TGTGAACTTTAGAAAAAGGTGCCACTGACTTGTGGCTTT
* * *
2106973 TAAAAAGGTTACCACCGACTCTTGTGA
64 GAAAAAGGTTACCACCGACCCGTGTGA
*** *
2107000 ACTTTGAAAAGGGTGCCATTGACTTGTGAACTTTAGAAAAAGGTGCCACTGATTTGTGGACTTTG
1 ACTTTGAAAAGGGTGCCACCAACTTGTGAACTTTAGAAAAAGGTGCCACTGACTTGTGG-CTTTG
* *
2107065 AAAAA-GTTACCACTGACCCGTGTGG
65 AAAAAGGTTACCACCGACCCGTGTGA
* *
2107090 ACTTT-AACTATGGTGCCACCAACTTGTGTAGAC-TTA-AAAAAGGTTGCCAC
1 ACTTTGAA-AAGGGTGCCACCAACTTGTG-A-ACTTTAGAAAAAGG-TGCCAC
2107140 CAACTCGTGT
Statistics
Matches: 180, Mismatches: 38, Indels: 22
0.75 0.16 0.09
Matches are distributed among these distances:
86 4 0.02
87 12 0.07
88 12 0.07
89 43 0.24
90 68 0.38
91 39 0.22
92 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (90 bp):
ACTTTGAAAAGGGTGCCACCAACTTGTGAACTTTAGAAAAAGGTGCCACTGACTTGTGGCTTTGA
AAAAGGTTACCACCGACCCGTGTGA
Found at i:2107288 original size:29 final size:29
Alignment explanation
Indices: 2107244--2107299 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
2107234 CTCGGGTGGA
*
2107244 CTTTGGAAAGGGTGCCACTGACTTGTGAG
1 CTTTGGAAAGGGTGCCACTAACTTGTGAG
*
2107273 CTTTGGAAAGGTTGCCACTAACTTGTG
1 CTTTGGAAAGGGTGCCACTAACTTGTG
2107300 TGGACTTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.30
Consensus pattern (29 bp):
CTTTGGAAAGGGTGCCACTAACTTGTGAG
Found at i:2107488 original size:183 final size:184
Alignment explanation
Indices: 2107105--2107554 Score: 487
Period size: 183 Copynumber: 2.5 Consensus size: 184
2107095 AACTATGGTG
* ** ** * * * *
2107105 CCACCAACTTGTGTAGACTTAAAAAAGGTTGCCACCAACTCGTGTGGACTTTAACTATGGTGCCA
1 CCACCAACTTGTGTGGACTTTGACTAGGGTGCCACCAACTCGTGTGGACTTTGACTAAGGTACCA
* * **** *
2107170 CCAACTTGTGTGGGCTTT--TTGGGTGTTGCCAGCTCATGCGGACTTTAAGAAAGGATGCCACCA
66 CCAACTTGTGTGGACTTTGATAGGGTACCACCAACTCATGCGGACTTTAAGAAAGGATGCCACCA
* * * ** * * * *
2107233 GCTCGGGTGGACTTTGGAAAGGGTGCCACTGACTTGTGAGCTTTGGAAAGGTTG
131 ACTCAGATGGACTTTAAAAAAGGTGCCACTAACTTGTGAGCTTTAGAAAGGTTA
* *
2107287 CCACTAACTTGTGTGGACTTTGACTAGGGTGCCACCAACTCGTGTGGACTTTGACTAGGGTACCA
1 CCACCAACTTGTGTGGACTTTGACTAGGGTGCCACCAACTCGTGTGGACTTTGACTAAGGTACCA
* * *
2107352 CCAACTTGTGTGGACTTTGACTAGGGTACCACCAACTCATGTGGACTTT-A-AAAGGTTGCCACT
66 CCAACTTGTGTGGACTTTGA-TAGGGTACCACCAACTCATGCGGACTTTAAGAAAGGATGCCACC
* * *
2107415 AACTCATATGGACTTTAAAAAAGGTGCCACTAACTTTTGGGCTTTAGAAAGGTTA
130 AACTCAGATGGACTTTAAAAAAGGTGCCACTAACTTGTGAGCTTTAGAAAGGTTA
* * * * * *
2107470 CCTCCAACTTGTGTGGACTTTGACTAGGGTGCCATCAACTCATGTGGACCTTGA-AAAGGTTCTC
1 CCACCAACTTGTGTGGACTTTGACTAGGGTGCCACCAACTCGTGTGGACTTTGACTAAGGTAC-C
*
2107534 ACCAACTCGTGTGGACTTTGA
65 ACCAACTTGTGTGGACTTTGA
2107555 AAAAGGTACT
Statistics
Matches: 223, Mismatches: 41, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
182 77 0.35
183 124 0.56
184 1 0.00
185 21 0.09
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.28
Consensus pattern (184 bp):
CCACCAACTTGTGTGGACTTTGACTAGGGTGCCACCAACTCGTGTGGACTTTGACTAAGGTACCA
CCAACTTGTGTGGACTTTGATAGGGTACCACCAACTCATGCGGACTTTAAGAAAGGATGCCACCA
ACTCAGATGGACTTTAAAAAAGGTGCCACTAACTTGTGAGCTTTAGAAAGGTTA
Found at i:2107578 original size:29 final size:29
Alignment explanation
Indices: 2107543--2107618 Score: 100
Period size: 29 Copynumber: 2.7 Consensus size: 29
2107533 CACCAACTCG
* *
2107543 TGTGGACTTTGAAAAAGGTACTATTGATT
1 TGTGGACTTTGAAAAAGGTACTACTGACT
* *
2107572 TGTGGACTTTGAAAAGGGTGCTACTGACT
1 TGTGGACTTTGAAAAAGGTACTACTGACT
*
2107601 TATGGACTTT-AAAAAGGT
1 TGTGGACTTTGAAAAAGGT
2107619 TGCCACCAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
28 7 0.17
29 34 0.83
ACGTcount: A:0.30, C:0.09, G:0.26, T:0.34
Consensus pattern (29 bp):
TGTGGACTTTGAAAAAGGTACTACTGACT
Found at i:2107652 original size:151 final size:151
Alignment explanation
Indices: 2107318--2107703 Score: 393
Period size: 151 Copynumber: 2.5 Consensus size: 151
2107308 GACTAGGGTG
* * * * ** * * ** *
2107318 CCACCAACTCGTGTGGACTTTGACTAGGGTACCACCAACTTGTGTGGACTTTGACTAGGGTACCA
1 CCACCAACTCGTGTAGACTTTAACTAGGGTGCCACAAACTCATGTGGACCTTAAAAAGGTTACCA
* * * * * * *
2107383 CCAACTCATGTGGACTTT--AAAAGGTTGCCACTAACTCATATGGACTTTAAAAAAGGTGCCACT
66 CCAACTCGTGTGGACTTTGAAAAAGG-TACTATTGA-T-TTGTGGACTTTAAAAAAGGTGCCACT
* * *
2107446 AACTTTTGGGCTTTAGAAAGGTTA
128 AACTTATGGACTTTAAAAAGGTTA
* * * * *
2107470 CCTCCAACTTGTGTGGACTTTGACTAGGGTGCCATC-AACTCATGTGGACCTTGAAAAGGTT-CT
1 CCACCAACTCGTGTAGACTTTAACTAGGGTGCCA-CAAACTCATGTGGACCTTAAAAAGGTTAC-
* * * *
2107533 CACCAACTCGTGTGGACTTTGAAAAAGGTACTATTGATTTGTGGACTTTGAAAAGGGTGCTACTG
64 CACCAACTCGTGTGGACTTTGAAAAAGGTACTATTGATTTGTGGACTTTAAAAAAGGTGCCACTA
*
2107598 ACTTATGGACTTTAAAAAGGTTG
129 ACTTATGGACTTTAAAAAGGTTA
* *
2107621 CCACCAACTCGTGTAGACTTTAACTATGGTGCCACAAACTCATGTGGACTTTAAAAAGGTTACCA
1 CCACCAACTCGTGTAGACTTTAACTAGGGTGCCACAAACTCATGTGGACCTTAAAAAGGTTACCA
*
2107686 CCAACTTGTGTGGACTTT
66 CCAACTCGTGTGGACTTT
2107704 AACAATGGTG
Statistics
Matches: 196, Mismatches: 32, Indels: 13
0.81 0.13 0.05
Matches are distributed among these distances:
150 1 0.01
151 112 0.57
152 71 0.36
153 6 0.03
154 6 0.03
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.30
Consensus pattern (151 bp):
CCACCAACTCGTGTAGACTTTAACTAGGGTGCCACAAACTCATGTGGACCTTAAAAAGGTTACCA
CCAACTCGTGTGGACTTTGAAAAAGGTACTATTGATTTGTGGACTTTAAAAAAGGTGCCACTAAC
TTATGGACTTTAAAAAGGTTA
Found at i:2117403 original size:3 final size:3
Alignment explanation
Indices: 2117397--2117436 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
2117387 TTATTTATAT
*
2117397 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
2117437 AATCTATCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2117934 original size:19 final size:19
Alignment explanation
Indices: 2117907--2117945 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
2117897 GTTTATTTAT
*
2117907 TAAAAAAATTAATAAATTA
1 TAAAAAAATAAATAAATTA
* *
2117926 TAAATAAATAAATACATTA
1 TAAAAAAATAAATAAATTA
2117945 T
1 T
2117946 TAGCTAAACC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAAAAATAAATAAATTA
Found at i:2119421 original size:20 final size:21
Alignment explanation
Indices: 2119387--2119426 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
2119377 ATTATATTTA
2119387 AAATATTATATATATTAATAT
1 AAATATTATATATATTAATAT
2119408 AAATATTA-ATATATTAATA
1 AAATATTATATATATTAATA
2119427 ATTCGTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AAATATTATATATATTAATAT
Found at i:2119483 original size:16 final size:14
Alignment explanation
Indices: 2119464--2119517 Score: 65
Period size: 16 Copynumber: 3.7 Consensus size: 14
2119454 GTTAATATAT
2119464 TTATATTTTGTTTAA
1 TTATATTTT-TTTAA
*
2119479 AT-TATTTTTTTAA
1 TTATATTTTTTTAA
2119492 TTATATTATATTTTAA
1 TTATATT-T-TTTTAA
2119508 TTATATTTTT
1 TTATATTTTT
2119518 ATTTTAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
13 6 0.18
14 12 0.35
15 3 0.09
16 13 0.38
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (14 bp):
TTATATTTTTTTAA
Found at i:2119495 original size:28 final size:28
Alignment explanation
Indices: 2119464--2119518 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
2119454 GTTAATATAT
* * *
2119464 TTATATTTTGTTTAAATTATTTTTTTAA
1 TTATATTATATTTAAATTATATTTTTAA
*
2119492 TTATATTATATTTTAATTATATTTTTA
1 TTATATTATATTTAAATTATATTTTTA
2119519 TTTTAAATAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (28 bp):
TTATATTATATTTAAATTATATTTTTAA
Found at i:2119499 original size:17 final size:17
Alignment explanation
Indices: 2119479--2119524 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
2119469 TTTTGTTTAA
2119479 ATTATTTTTTTAATTAT
1 ATTATTTTTTTAATTAT
*
2119496 ATTA-TATTTTAATTAT
1 ATTATTTTTTTAATTAT
2119512 ATT-TTTATTTTAA
1 ATTATTT-TTTTAA
2119525 ATACGTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTATTTTTTTAATTAT
Found at i:2119523 original size:33 final size:33
Alignment explanation
Indices: 2119455--2119524 Score: 81
Period size: 33 Copynumber: 2.1 Consensus size: 33
2119445 TTTTAATATG
**
2119455 TTAATATATTTATATTTTGTTTAAATTATTTTT
1 TTAATATATTTATATTTTAATTAAATTATTTTT
*
2119488 TTAAT-TATATTATATTTTAATTATATT-TTTATT
1 TTAATATAT-TTATATTTTAATTAAATTATTT-TT
2119521 TTAA
1 TTAA
2119525 ATACGTTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 6 0.19
33 26 0.81
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (33 bp):
TTAATATATTTATATTTTAATTAAATTATTTTT
Found at i:2120060 original size:19 final size:17
Alignment explanation
Indices: 2120036--2120095 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 17
2120026 GTTATTATTA
2120036 TATTATTTATATTTGTTAT
1 TATTATTT-TATTTGTT-T
*
2120055 TATTATCTTTA-ATGATTTT
1 TATTAT-TTTATTTG--TTT
2120074 TATTATTTTATTTGTTT
1 TATTATTTTATTTGTTT
2120091 TATTA
1 TATTA
2120096 AATATAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
17 8 0.23
18 6 0.17
19 17 0.49
20 4 0.11
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (17 bp):
TATTATTTTATTTGTTT
Found at i:2124489 original size:42 final size:42
Alignment explanation
Indices: 2124407--2124490 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
2124397 GAAATAACAT
*
2124407 ATAAGGATAGGTTTTCTTTGACACTAGTCGACTTGCTTATAG
1 ATAAGGATAGGTTTTCTTTGACACTAGTCGACTTACTTATAG
* *
2124449 ATAAGGATAGGTTTTCTTTGACACTAGTTGACTTATTTATAG
1 ATAAGGATAGGTTTTCTTTGACACTAGTCGACTTACTTATAG
2124491 TTTCAAGATA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.40
Consensus pattern (42 bp):
ATAAGGATAGGTTTTCTTTGACACTAGTCGACTTACTTATAG
Found at i:2129143 original size:40 final size:40
Alignment explanation
Indices: 2129099--2129215 Score: 101
Period size: 36 Copynumber: 3.1 Consensus size: 40
2129089 CTACAAGACA
2129099 CAAGTTGCTAAGCTTTATAAATGCCTTCTCAGGTTATAAT
1 CAAGTTGCTAAGCTTTATAAATGCCTTCTCAGGTTATAAT
** * * *
2129139 CAAG-T--TAA-AATGA-AAATG-CTTCTACAAG--A-CA-
1 CAAGTTGCTAAGCTTTATAAATGCCTTCT-CAGGTTATAAT
*
2129170 CAAGTTGCTAAGCTTTGTAAATGCCTTCTCAGGTTATAAT
1 CAAGTTGCTAAGCTTTATAAATGCCTTCTCAGGTTATAAT
2129210 CAAGTT
1 CAAGTT
2129216 AAAATGAACC
Statistics
Matches: 55, Mismatches: 11, Indels: 22
0.62 0.12 0.25
Matches are distributed among these distances:
31 4 0.07
32 2 0.04
33 1 0.02
34 8 0.15
35 9 0.16
36 10 0.18
37 8 0.15
38 1 0.02
39 2 0.04
40 10 0.18
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.33
Consensus pattern (40 bp):
CAAGTTGCTAAGCTTTATAAATGCCTTCTCAGGTTATAAT
Found at i:2129198 original size:71 final size:71
Alignment explanation
Indices: 2129082--2129223 Score: 275
Period size: 71 Copynumber: 2.0 Consensus size: 71
2129072 CTGCTTAGTT
2129082 AATGCTTCTACAAGACACAAGTTGCTAAGCTTTATAAATGCCTTCTCAGGTTATAATCAAGTTAA
1 AATGCTTCTACAAGACACAAGTTGCTAAGCTTTATAAATGCCTTCTCAGGTTATAATCAAGTTAA
2129147 AATGAA
66 AATGAA
*
2129153 AATGCTTCTACAAGACACAAGTTGCTAAGCTTTGTAAATGCCTTCTCAGGTTATAATCAAGTTAA
1 AATGCTTCTACAAGACACAAGTTGCTAAGCTTTATAAATGCCTTCTCAGGTTATAATCAAGTTAA
2129218 AATGAA
66 AATGAA
2129224 CCCGCAGACC
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (71 bp):
AATGCTTCTACAAGACACAAGTTGCTAAGCTTTATAAATGCCTTCTCAGGTTATAATCAAGTTAA
AATGAA
Found at i:2130679 original size:18 final size:18
Alignment explanation
Indices: 2130646--2130680 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2130636 TCTAAGATGG
*
2130646 CATGCAAAATAGAAATCA
1 CATGCAAAAAAGAAATCA
*
2130664 CATGCAAAAAATAAATC
1 CATGCAAAAAAGAAATC
2130681 TTACTTAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.17, G:0.09, T:0.17
Consensus pattern (18 bp):
CATGCAAAAAAGAAATCA
Found at i:2132184 original size:68 final size:68
Alignment explanation
Indices: 2132099--2132429 Score: 310
Period size: 68 Copynumber: 4.9 Consensus size: 68
2132089 ATAACTACCA
* * * *
2132099 TCAAAGGTCTGACCAACATCTCAATATATAGGTAAGTGACACCAAGTCACTTATGCTAATAAACA
1 TCAAAGGTTTGATCAACATCTCAATATATAAGCAAGTGACACCAAGTCACTTATGCTAATAAACA
2132164 ATC
66 ATC
* * * ** * *
2132167 TCAAAGGTTTAATCAACATTTTAGCATATAAGCAAGTGACACCAAGTTACCTAT--T-ATGAAAC
1 TCAAAGGTTTGATCAACATCTCAATATATAAGCAAGTGACACCAAGTCACTTATGCTAAT-AAAC
2132229 AATC
65 AATC
* * * * * * *
2132233 TCAAAGGTTTGATCTATATTTCAATATATAAGCAAGTGACACCAAGTCACCTATTCAAATAAACG
1 TCAAAGGTTTGATCAACATCTCAATATATAAGCAAGTGACACCAAGTCACTTATGCTAATAAACA
*
2132298 ACC
66 ATC
* * * * **
2132301 TCAAAGGTTTGATCGACATCTCAACATCTAAGAAAGTGACATTAAGTCACTTATGCTAATAAACA
1 TCAAAGGTTTGATCAACATCTCAATATATAAGCAAGTGACACCAAGTCACTTATGCTAATAAACA
2132366 A-C
66 ATC
* * * ** * * * *
2132368 TTTAAAGGTCTGATCGACATCTCAGCATCTAAGGAAGTGACGCTAAGTCACTTATGCTAATA
1 -TCAAAGGTTTGATCAACATCTCAATATATAAGCAAGTGACACCAAGTCACTTATGCTAATA
2132430 CACGACCTCA
Statistics
Matches: 219, Mismatches: 39, Indels: 10
0.82 0.15 0.04
Matches are distributed among these distances:
65 2 0.01
66 56 0.26
67 1 0.00
68 158 0.72
69 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (68 bp):
TCAAAGGTTTGATCAACATCTCAATATATAAGCAAGTGACACCAAGTCACTTATGCTAATAAACA
ATC
Found at i:2132262 original size:66 final size:66
Alignment explanation
Indices: 2132099--2132487 Score: 271
Period size: 68 Copynumber: 5.8 Consensus size: 66
2132089 ATAACTACCA
* * * * * * *
2132099 TCAAAGGTCTGACCAACATCTCAATATATAGGTAAGTGACACCAAGTCACTTATGCTAATAAACA
1 TCAAAGGTTTGATCAACATTTCAACATATAAGCAAGTGACACCAAGTCACCTAT--TAATAAACA
2132164 ATC
64 ATC
* * * *
2132167 TCAAAGGTTTAATCAACATTTTAGCATATAAGCAAGTGACACCAAGTTACCTATT-ATGAAACAA
1 TCAAAGGTTTGATCAACATTTCAACATATAAGCAAGTGACACCAAGTCACCTATTAAT-AAACAA
2132231 TC
65 TC
* * * *
2132233 TCAAAGGTTTGATCTATATTTCAATATATAAGCAAGTGACACCAAGTCACCTATTCAAATAAACG
1 TCAAAGGTTTGATCAACATTTCAACATATAAGCAAGTGACACCAAGTCACCTATT--AATAAACA
*
2132298 ACC
64 ATC
* * * * ** *
2132301 TCAAAGGTTTGATCGACATCTCAACATCTAAGAAAGTGACATTAAGTCACTTATGCTAATAAACA
1 TCAAAGGTTTGATCAACATTTCAACATATAAGCAAGTGACACCAAGTCACCTAT--TAATAAACA
2132366 A-C
64 ATC
* * * * * * * * * * *
2132368 TTTAAAGGTCTGATCGACATCTCAGCATCTAAGGAAGTGACGCTAAGTCACTTATGCTAATACAC
1 -TCAAAGGTTTGATCAACATTTCAACATATAAGCAAGTGACACCAAGTCACCTAT--TAATAAAC
* *
2132433 GACC
63 AATC
* * * * ** *
2132437 TCATAGGTCT-ACTCGATATTTTGACATATAAACAAGTGACACCAAGTCACC
1 TCAAAGGTTTGA-TCAACATTTCAACATATAAGCAAGTGACACCAAGTCACC
2132488 ACGTACACAT
Statistics
Matches: 261, Mismatches: 51, Indels: 18
0.79 0.15 0.05
Matches are distributed among these distances:
65 2 0.01
66 57 0.22
67 2 0.01
68 196 0.75
69 3 0.01
70 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (66 bp):
TCAAAGGTTTGATCAACATTTCAACATATAAGCAAGTGACACCAAGTCACCTATTAATAAACAAT
C
Found at i:2132683 original size:149 final size:149
Alignment explanation
Indices: 2132407--2132706 Score: 384
Period size: 149 Copynumber: 2.0 Consensus size: 149
2132397 TAAGGAAGTG
* *
2132407 ACGCTAAGTCACTTATGCTAATACACGACCTCATAGGTCTACTCGATATTTTGACATATAAACAA
1 ACGCTAAGTCACTTATGCTAATACACAACCTCATAGGTCTACTCGACATTTTGACATATAAACAA
* * * * **
2132472 GTGACACCAAGTCACCACGTACACATGCTAAAATCAATCTTAGAAGTATATATGAAACTGACTTT
66 GTGACACCAAGTCACCACATACACATGCTAAAAACAATCTCAGAAGTATATATAAAACTGACTCC
*
2132537 AAGTAAAAAAATTTTATAC
131 AAATAAAAAAATTTTATAC
* * * * * **
2132556 ACGCTATGTCACTTATGGTAATACACAATCTCATAGGTTTACTTGACATTTTGACATATAAATGA
1 ACGCTAAGTCACTTATGCTAATACACAACCTCATAGGTCTACTCGACATTTTGACATATAAACAA
* ** * * * *
2132621 GTGATATTAAGTCACCATATATACATGCTAAAAACAATCTCAGTAGTATATATAAAATTGACTCC
66 GTGACACCAAGTCACCACATACACATGCTAAAAACAATCTCAGAAGTATATATAAAACTGACTCC
*
2132686 AAATAAAAAACTTTTATAC
131 AAATAAAAAAATTTTATAC
2132705 AC
1 AC
2132707 CATTAAAAGG
Statistics
Matches: 127, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
149 127 1.00
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.30
Consensus pattern (149 bp):
ACGCTAAGTCACTTATGCTAATACACAACCTCATAGGTCTACTCGACATTTTGACATATAAACAA
GTGACACCAAGTCACCACATACACATGCTAAAAACAATCTCAGAAGTATATATAAAACTGACTCC
AAATAAAAAAATTTTATAC
Found at i:2134595 original size:151 final size:153
Alignment explanation
Indices: 2134306--2134595 Score: 431
Period size: 151 Copynumber: 1.9 Consensus size: 153
2134296 CATGCTTTCA
* **
2134306 ATTAGAAAAAGACCCATCATCGTCTAAAGAGCCCTGACCCAACTTGACATTTTCTACACTAAAAG
1 ATTAGAAAAAGACCCATCATCGTCTAAAGAACCCTGACCCAACTCAACATTTTCTACACTAAAAG
* * * ** *
2134371 ACTTTGGAAGCCTGCCAAGATTCTTTAACATATTGCCTAAGTTCTGTACATCATCTGGTGCCCTA
66 ACTTCGAAAGCCTACCAAGATTCTCCAACACATTGCCTAAGTTCTGTACATCATCTGGTGCCCTA
*
2134436 CTAGTGGAATAGACGTGCTCTTG
131 CCAGTGGAATAGACGTGCTCTTG
* * * *
2134459 ATTAGAAAAAGACCCATCATTGTCTAAAGAACCCTGACCCAACTCAATATTTT-TTCACTGAAAG
1 ATTAGAAAAAGACCCATCATCGTCTAAAGAACCCTGACCCAACTCAACATTTTCTACACTAAAAG
*
2134523 AC-TCGAAAGGCTACCAAGATTCTCCAACACATTGCCTAAGTTCTGTACATCATCTGGTGCCCTA
66 ACTTCGAAAGCCTACCAAGATTCTCCAACACATTGCCTAAGTTCTGTACATCATCTGGTGCCCTA
2134587 CCAGTGGAA
131 CCAGTGGAA
2134596 CTTGACTCAG
Statistics
Matches: 122, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
151 63 0.52
152 11 0.09
153 48 0.39
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (153 bp):
ATTAGAAAAAGACCCATCATCGTCTAAAGAACCCTGACCCAACTCAACATTTTCTACACTAAAAG
ACTTCGAAAGCCTACCAAGATTCTCCAACACATTGCCTAAGTTCTGTACATCATCTGGTGCCCTA
CCAGTGGAATAGACGTGCTCTTG
Found at i:2138601 original size:36 final size:32
Alignment explanation
Indices: 2138518--2138612 Score: 97
Period size: 36 Copynumber: 2.9 Consensus size: 32
2138508 CCTTACAATA
2138518 CTATC-TTTC-AAGGCTAAGATAGAAACC-TCC
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTTCC
**
2138548 CTATCTTTTCACGGGCTAAGATAGAACCTTTCTC
1 CTATCTTTTCAAAGGCTAAGATAGAACC-TTC-C
*
2138582 CTTATCTTTTTCAAAGGCTAAGATGGAACCT
1 C-TATC-TTTTCAAAGGCTAAGATAGAACCT
2138613 CTCAATCACT
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
30 5 0.09
31 8 0.15
32 11 0.21
33 2 0.04
34 2 0.04
35 5 0.09
36 20 0.38
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (32 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTTCC
Found at i:2139089 original size:22 final size:22
Alignment explanation
Indices: 2139064--2139136 Score: 101
Period size: 22 Copynumber: 3.3 Consensus size: 22
2139054 TACTATTCAC
*
2139064 ATGTAACGATACATCAACAGTG
1 ATGTATCGATACATCAACAGTG
*
2139086 ATGTGTCGATACATCAACAGTG
1 ATGTATCGATACATCAACAGTG
* * *
2139108 ATGTATTGATACATCAATAGTA
1 ATGTATCGATACATCAACAGTG
2139130 ATGTATC
1 ATGTATC
2139137 AATTAAAAGT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (22 bp):
ATGTATCGATACATCAACAGTG
Found at i:2139214 original size:20 final size:19
Alignment explanation
Indices: 2139170--2139221 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
2139160 TGCAAGTTTT
*
2139170 ATGTATCGATACAATGAAC
1 ATGTATCGATACAATGAAA
2139189 ATGTATCGATACTAA-GCAAA
1 ATGTATCGATAC-AATG-AAA
2139209 ATGTATCGATACA
1 ATGTATCGATACA
2139222 TCTGGGTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (19 bp):
ATGTATCGATACAATGAAA
Found at i:2139688 original size:19 final size:20
Alignment explanation
Indices: 2139664--2139701 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
2139654 AATGCAAATG
2139664 ATTTATAAAT-AGATAAAAC
1 ATTTATAAATAAGATAAAAC
*
2139683 ATTTATATATAAGATAAAA
1 ATTTATAAATAAGATAAAA
2139702 AGATAAAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (20 bp):
ATTTATAAATAAGATAAAAC
Found at i:2146222 original size:18 final size:18
Alignment explanation
Indices: 2146199--2146233 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2146189 ACCATTCTTT
*
2146199 ATGAAAAGATATATTTGG
1 ATGAAAAGATACATTTGG
*
2146217 ATGAAATGATACATTTG
1 ATGAAAAGATACATTTG
2146234 TTGATAAAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.03, G:0.20, T:0.34
Consensus pattern (18 bp):
ATGAAAAGATACATTTGG
Found at i:2147147 original size:160 final size:160
Alignment explanation
Indices: 2146883--2147202 Score: 604
Period size: 160 Copynumber: 2.0 Consensus size: 160
2146873 GTTGGACTGA
2146883 TATCTTTTGAAAATAATTATAGTTAGGATTCCATTACAAATGTCTGTAATTTGACTCTAATTTCA
1 TATCTTTTGAAAATAATTATAGTTAGGATTCCATTACAAATGTCTGTAATTTGACTCTAATTTCA
*
2146948 GAGTCTGGTTCTTTTCGACGTCCATATTTATTCCAATTGAATGTGACAGTATTCATTACATCTAA
66 GAGTCTGGTTCTTTTCGACGTCCATATTTATTACAATTGAATGTGACAGTATTCATTACATCTAA
*
2147013 CAAAGTCAAAAACTTTTTTTGACCATATGT
131 CAAAGTCAAAAACTTTTCTTGACCATATGT
*
2147043 TATCTTTTGAAAATAATTATAGTTAGGATTCCATTACAAATGTTTGTAATTTGACTCTAATTTCA
1 TATCTTTTGAAAATAATTATAGTTAGGATTCCATTACAAATGTCTGTAATTTGACTCTAATTTCA
*
2147108 GAGTCTGGTTCTTTTCGCCGTCCATATTTATTACAATTGAATGTGACAGTATTCATTACATCTAA
66 GAGTCTGGTTCTTTTCGACGTCCATATTTATTACAATTGAATGTGACAGTATTCATTACATCTAA
2147173 CAAAGTCAAAAACTTTTCTTGACCATATGT
131 CAAAGTCAAAAACTTTTCTTGACCATATGT
2147203 GCTTATTAGT
Statistics
Matches: 156, Mismatches: 4, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
160 156 1.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (160 bp):
TATCTTTTGAAAATAATTATAGTTAGGATTCCATTACAAATGTCTGTAATTTGACTCTAATTTCA
GAGTCTGGTTCTTTTCGACGTCCATATTTATTACAATTGAATGTGACAGTATTCATTACATCTAA
CAAAGTCAAAAACTTTTCTTGACCATATGT
Found at i:2151077 original size:2 final size:2
Alignment explanation
Indices: 2151070--2151111 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
2151060 TATGAGGTGT
2151070 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2151112 GTGTGAAGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2152381 original size:32 final size:34
Alignment explanation
Indices: 2152335--2152398 Score: 87
Period size: 32 Copynumber: 1.9 Consensus size: 34
2152325 TAAAAAATAT
* *
2152335 TTATAAAGAGATTTAATA-ATT-TATATATTTTA
1 TTATAAAGAAATTTAAAACATTATATATATTTTA
*
2152367 TTATAAATAAATTTAAAACATTATATATATTT
1 TTATAAAGAAATTTAAAACATTATATATATTT
2152399 ATATATTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 15 0.56
33 3 0.11
34 9 0.33
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (34 bp):
TTATAAAGAAATTTAAAACATTATATATATTTTA
Found at i:2153020 original size:9 final size:9
Alignment explanation
Indices: 2153008--2153093 Score: 53
Period size: 9 Copynumber: 9.9 Consensus size: 9
2152998 GTTATTATTG
2153008 TATTATTTA
1 TATTATTTA
2153017 TATT-TATTA
1 TATTAT-TTA
2153026 TTATTA-TTA
1 -TATTATTTA
2153035 T-TTATCTT-
1 TATTAT-TTA
* *
2153043 TAATGATTTT
1 T-ATTATTTA
2153053 TATTATTT-
1 TATTATTTA
2153061 TATTTATTT-
1 TA-TTATTTA
2153070 TATTATTTA
1 TATTATTTA
2153079 T-TTATTTA
1 TATTATTTA
2153087 T-TTATTT
1 TATTATTT
2153094 GTCTATATTT
Statistics
Matches: 65, Mismatches: 2, Indels: 21
0.74 0.02 0.24
Matches are distributed among these distances:
7 3 0.05
8 25 0.38
9 29 0.45
10 8 0.12
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.71
Consensus pattern (9 bp):
TATTATTTA
Found at i:2153029 original size:12 final size:12
Alignment explanation
Indices: 2152999--2153092 Score: 51
Period size: 12 Copynumber: 8.2 Consensus size: 12
2152989 TTAATCATTG
*
2152999 TTATTAT-TGTA
1 TTATTATATTTA
2153010 TTATTTATATTTA
1 TTA-TTATATTTA
2153023 TTA-T-TA-TTA
1 TTATTATATTTA
2153032 TTATT-TATCTT-
1 TTATTATAT-TTA
* * *
2153043 TAATGATTTTTA
1 TTATTATATTTA
*
2153055 TTATTTTATTTA
1 TTATTATATTTA
2153067 TT-TTATTATTTA
1 TTATTA-TATTTA
2153079 TTTATT-TATTTA
1 -TTATTATATTTA
2153091 TT
1 TT
2153093 TGTCTATATT
Statistics
Matches: 64, Mismatches: 9, Indels: 20
0.69 0.10 0.22
Matches are distributed among these distances:
9 6 0.09
10 5 0.08
11 13 0.20
12 30 0.47
13 8 0.12
14 2 0.03
ACGTcount: A:0.27, C:0.01, G:0.02, T:0.70
Consensus pattern (12 bp):
TTATTATATTTA
Found at i:2153029 original size:16 final size:16
Alignment explanation
Indices: 2153008--2153083 Score: 59
Period size: 16 Copynumber: 4.6 Consensus size: 16
2152998 GTTATTATTG
2153008 TATTATTTATATTTAT
1 TATTATTTATATTTAT
2153024 TATTA-TTATTATTTAT
1 TATTATTTA-TATTTAT
* * *
2153040 CT-TTAATGATTTTTAT
1 -TATTATTTATATTTAT
2153056 TATTTTATTTAT-TTTAT
1 TA--TTATTTATATTTAT
2153073 TATTTATTTAT
1 TA-TTATTTAT
2153084 TTATTTATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
15 4 0.08
16 30 0.60
17 10 0.20
18 6 0.12
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.70
Consensus pattern (16 bp):
TATTATTTATATTTAT
Found at i:2153068 original size:4 final size:4
Alignment explanation
Indices: 2153059--2153093 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
2153049 TTTTTATTAT
2153059 TTTA TTTA TTT- TATTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTT
2153094 GTCTATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 1 0.03
4 27 0.93
5 1 0.03
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:2153093 original size:12 final size:11
Alignment explanation
Indices: 2153051--2153129 Score: 70
Period size: 12 Copynumber: 6.7 Consensus size: 11
2153041 TTTAATGATT
2153051 TTTATTATTTTA
1 TTTATT-TTTTA
2153063 TTTATTTTATTA
1 TTTATTTT-TTA
2153075 TTTATTTATTTA
1 TTTATTT-TTTA
*
2153087 TTTATTTGTCTA
1 TTTATTT-TTTA
*
2153099 TATT-TTTTTTG
1 T-TTATTTTTTA
2153110 TTTATTTTTATA
1 TTTATTTTT-TA
*
2153122 TTAATTTT
1 TTTATTTT
2153130 AATATCTCAT
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
10 2 0.04
11 10 0.18
12 41 0.73
13 3 0.05
ACGTcount: A:0.22, C:0.01, G:0.03, T:0.75
Consensus pattern (11 bp):
TTTATTTTTTA
Found at i:2157485 original size:28 final size:28
Alignment explanation
Indices: 2157453--2157510 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
2157443 ATTAGCTATA
*
2157453 AGTGTTTACCTTTCTTTAAGTTGCTTAG
1 AGTGTTTACCTTTCTTTAAGTTACTTAG
2157481 AGTGTTTACCTTTCTTTAAGTTACTTAG
1 AGTGTTTACCTTTCTTTAAGTTACTTAG
2157509 AG
1 AG
2157511 GGGCTACTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.21, C:0.14, G:0.17, T:0.48
Consensus pattern (28 bp):
AGTGTTTACCTTTCTTTAAGTTACTTAG
Found at i:2160106 original size:68 final size:68
Alignment explanation
Indices: 2159932--2160106 Score: 208
Period size: 68 Copynumber: 2.6 Consensus size: 68
2159922 TCAATATTTC
* * ** *
2159932 AGCATATAAACAAGTAACACCAAGTCACCTATGCTAATAAATGACCTTAGTGGTCTTATAAACAT
1 AGCATATAAGCAAGTGACACCAAGTCACCTATGCTAATAAATGACCTTAAAGGTCTGATAAACAT
2159997 CTT
66 CTT
* * * ** ** *
2160000 AGTATGTAAGCAAGTGACAGCAAGTCACAC-ATTTTAATAAATGACCTTAAAGGTCTGATTGAGA
1 AGCATATAAGCAAGTGACACCAAGTCAC-CTATGCTAATAAATGACCTTAAAGGTCTGATAAACA
2160064 TCTT
65 TCTT
*
2160068 AGCATATAAGCAAGTGACACCAAGTTACCTATGCTAATA
1 AGCATATAAGCAAGTGACACCAAGTCACCTATGCTAATA
2160107 CATAACTCCA
Statistics
Matches: 86, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
67 1 0.01
68 84 0.98
69 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.27
Consensus pattern (68 bp):
AGCATATAAGCAAGTGACACCAAGTCACCTATGCTAATAAATGACCTTAAAGGTCTGATAAACAT
CTT
Found at i:2165532 original size:14 final size:14
Alignment explanation
Indices: 2165513--2165543 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
2165503 TTATTTTATT
2165513 TATATGTATATATA
1 TATATGTATATATA
2165527 TATATGTATATATA
1 TATATGTATATATA
2165541 TAT
1 TAT
2165544 TCTGAAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
TATATGTATATATA
Found at i:2172989 original size:27 final size:27
Alignment explanation
Indices: 2172946--2173601 Score: 997
Period size: 27 Copynumber: 24.0 Consensus size: 27
2172936 GTGGCATTTT
* *
2172946 CTTTTAAAGTCCACAACTCTGTGGCATC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
2172974 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2173001 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
2173029 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
2173057 CTTTTTAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2173084 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2173111 CTTTTAAGTTCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2173138 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2173165 CTTTTAAAGACCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
2173193 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
2173220 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
**
2173248 CTTTTAAGTCCACAACTCTATGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
2173275 CTTTTAAAGTCAACAACTTCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
2173303 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2173330 CTCTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
**
2173357 CTTTTAAGAACACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2173384 CTTTTAAGTCCATAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
2173411 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
2173439 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
2173466 CTTTTTAGTCCACAATTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2173493 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2173520 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * **
2173547 CTTTTAAGTCCATAACTCTGTGGCGTC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
2173574 CTTTTAAATCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2173601 C
1 C
2173602 ATTTCAAAGC
Statistics
Matches: 577, Mismatches: 46, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
27 421 0.73
28 156 0.27
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:2173197 original size:136 final size:136
Alignment explanation
Indices: 2172946--2173601 Score: 1003
Period size: 136 Copynumber: 4.8 Consensus size: 136
2172936 GTGGCATTTT
* * *
2172946 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGT
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
*
2173011 CCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCC
64 CCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCC
2173076 GTGGCACC
129 GTGGCACC
*
2173084 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTTCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
2173149 ACAACTCCGTGGCACCCTTTTAAAGACCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
66 ACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
2173214 GGCACC
131 GGCACC
* * **
2173220 CTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTCCACAACTCTATGGCACCCTTTTAAAGT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
* * * * *
2173285 CAACAACTTCGTGGCACCCTTTT-TAGTCCACAACTCTGTGGCACCCTCTTAAGTCCACAACTCC
64 CCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCC
2173349 GTGGCACC
129 GTGGCACC
** *
2173357 CTTTTAAGAACACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* * * *
2173422 ATAACTCCGTGGCATCTCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAATTCCG
66 ACAACTCCGTGGCA-CCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCG
2173486 TGGCACC
130 TGGCACC
2173493 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* * ** *
2173558 ATAACTCTGTGGCGTCCTTTTAAA-TCCACAACTCTGTGGCACCC
66 ACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCC
2173602 ATTTCAAAGC
Statistics
Matches: 473, Mismatches: 41, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
135 41 0.09
136 255 0.54
137 147 0.31
138 30 0.06
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (136 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
GGCACC
Found at i:2173639 original size:32 final size:32
Alignment explanation
Indices: 2173584--2174089 Score: 861
Period size: 32 Copynumber: 15.8 Consensus size: 32
2173574 CTTTTAAATC
* *
2173584 CACAACTCTGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2173615 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2173647 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2173679 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2173711 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2173743 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2173775 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2173807 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2173839 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2173871 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2173903 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2173935 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2173967 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
2173999 CACAAGTCGGTGGCGACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
2174031 CACAAGTCGGTGGTAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** * * *
2174063 TGCAAGTCAGTGGCACCCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
2174090 TCACCATTTT
Statistics
Matches: 455, Mismatches: 19, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
31 12 0.03
32 443 0.97
ACGTcount: A:0.31, C:0.35, G:0.19, T:0.16
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:2175746 original size:14 final size:14
Alignment explanation
Indices: 2175727--2175759 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
2175717 TTATTTTATT
2175727 TATATGTATATATA
1 TATATGTATATATA
2175741 TATATGTATATATA
1 TATATGTATATATA
2175755 TATAT
1 TATAT
2175760 TCTGAAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
TATATGTATATATA
Found at i:2176902 original size:2 final size:2
Alignment explanation
Indices: 2176889--2176927 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
2176879 TTATTTTATT
* *
2176889 TA TA TG TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2176928 TCTGAAAATC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2178069 original size:2 final size:2
Alignment explanation
Indices: 2178056--2178092 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
2178046 TTATTTTATT
* *
2178056 TA TA TG TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2178093 TCTGAAAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2180578 original size:18 final size:20
Alignment explanation
Indices: 2180555--2180600 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
2180545 ATTATCTTAT
*
2180555 TATATTATTAC-A-TTATTA
1 TATATTATCACTAGTTATTA
2180573 TATATTATCACTAGTTATTA
1 TATATTATCACTAGTTATTA
2180593 TATTATTA
1 TA-TATTA
2180601 CGTTACTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 10 0.42
19 1 0.04
20 8 0.33
21 5 0.21
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (20 bp):
TATATTATCACTAGTTATTA
Found at i:2183265 original size:20 final size:20
Alignment explanation
Indices: 2183228--2183279 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
2183218 ATAAGGTCTA
*
2183228 GTATCGATACATTCACTTAT
1 GTATCGATACATTAACTTAT
* * *
2183248 GTATTGATATATTAACTTGTT
1 GTATCGATACATTAACTT-AT
*
2183269 ATATCGATACA
1 GTATCGATACA
2183280 AATTGTAGAA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (20 bp):
GTATCGATACATTAACTTAT
Found at i:2187665 original size:25 final size:24
Alignment explanation
Indices: 2187631--2187689 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 24
2187621 ACTTAATAAG
*
2187631 ATTTATTTAAATAATATC-AATTT
1 ATTTAATTAAATAATATCTAATTT
2187654 AATTATAATTAAATAATATCTTAATTT
1 -ATT-TAATTAAATAATATC-TAATTT
2187681 ATTTAATTA
1 ATTTAATTA
2187690 TCATGTGAGC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
24 3 0.10
25 20 0.65
26 3 0.10
27 5 0.16
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (24 bp):
ATTTAATTAAATAATATCTAATTT
Found at i:2188386 original size:74 final size:74
Alignment explanation
Indices: 2188238--2188386 Score: 165
Period size: 74 Copynumber: 2.0 Consensus size: 74
2188228 TTTATTTATA
* * ** **
2188238 ATCAAATAAATTCTTTTAACCAAAATCTTTCAATAGAATTTTACTTTTTATATACAAATGTCATA
1 ATCAAATAAATTCATTTAACCAAAATCTTTCAAAAGAATTAAAAATTTTATATACAAATGTCATA
*
2188303 AATTTTATT
66 AATTATATT
* * * * **
2188312 ATCAAATATATTCATTTAACTAAAGTCTTTCAAAAGAATTAAAAATTTTATTTATTAATG-CAAT
1 ATCAAATAAATTCATTTAACCAAAATCTTTCAAAAGAATTAAAAATTTTATATACAAATGTC-AT
2188376 AAATTATATT
65 AAATTATATT
2188386 A
1 A
2188387 ATAATAAAAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
73 1 0.02
74 60 0.98
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.43
Consensus pattern (74 bp):
ATCAAATAAATTCATTTAACCAAAATCTTTCAAAAGAATTAAAAATTTTATATACAAATGTCATA
AATTATATT
Found at i:2188569 original size:22 final size:24
Alignment explanation
Indices: 2188529--2188574 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
2188519 ATTGTCATTG
2188529 TTTAATATATTTTTATTTATTTTT
1 TTTAATATATTTTTATTTATTTTT
*
2188553 TTTAAT-T-TTTTTGTTTATTTTT
1 TTTAATATATTTTTATTTATTTTT
2188575 GGATTAAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.67
23 1 0.05
24 6 0.29
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (24 bp):
TTTAATATATTTTTATTTATTTTT
Found at i:2188760 original size:23 final size:23
Alignment explanation
Indices: 2188734--2188779 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
2188724 AAAATATAAA
2188734 TATT-ATAATTTTTATAATAAATT
1 TATTAATAATTTTT-TAATAAATT
*
2188757 TATTAATAATTTTTTAATTAATT
1 TATTAATAATTTTTTAATAAATT
2188780 AATTTGGTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TATTAATAATTTTTTAATAAATT
Found at i:2189129 original size:3 final size:3
Alignment explanation
Indices: 2189121--2189163 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
2189111 ATCAACTGTT
2189121 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2189164 GATGTTATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2191274 original size:21 final size:21
Alignment explanation
Indices: 2191250--2191294 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 21
2191240 AAGTTCATTC
*
2191250 TTTCATCCAACTAATACATCA
1 TTTCATCCAACCAATACATCA
2191271 -TT--T-CAACCAATACATCA
1 TTTCATCCAACCAATACATCA
2191288 TTTCATC
1 TTTCATC
2191295 GAAATACACC
Statistics
Matches: 19, Mismatches: 1, Indels: 8
0.68 0.04 0.29
Matches are distributed among these distances:
17 13 0.68
18 3 0.16
20 3 0.16
ACGTcount: A:0.36, C:0.29, G:0.00, T:0.36
Consensus pattern (21 bp):
TTTCATCCAACCAATACATCA
Found at i:2191282 original size:17 final size:17
Alignment explanation
Indices: 2191257--2191292 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
2191247 TTCTTTCATC
*
2191257 CAACTAATACATCATTT
1 CAACCAATACATCATTT
2191274 CAACCAATACATCATTT
1 CAACCAATACATCATTT
2191291 CA
1 CA
2191293 TCGAAATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.31
Consensus pattern (17 bp):
CAACCAATACATCATTT
Done.