Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 6 of 425
Found at i:1627415 original size:9 final size:9
Alignment explanation
Indices: 1627359--1627425 Score: 66
Period size: 9 Copynumber: 7.3 Consensus size: 9
1627349 TTTTGTTTCT
1627359 TTATTAAATA
1 TTATT-AATA
*
1627369 TTATTATTA
1 TTATTAATA
1627378 TT-TCTAATA
1 TTAT-TAATA
1627387 TTATTAATA
1 TTATTAATA
*
1627396 TTATCAATA
1 TTATTAATA
*
1627405 TTATTATTA
1 TTATTAATA
1627414 TT-TTATATA
1 TTATTA-ATA
1627423 TTA
1 TTA
1627426 ATGTATATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
8 4 0.09
9 37 0.79
10 6 0.13
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (9 bp):
TTATTAATA
Found at i:1627501 original size:12 final size:11
Alignment explanation
Indices: 1627481--1627638 Score: 56
Period size: 12 Copynumber: 13.9 Consensus size: 11
1627471 TTTAATTTCA
1627481 TATTATTATTAT
1 TATTATTA-TAT
* *
1627493 TAGTATTATAA
1 TATTATTATAT
1627504 TATTA-TAT-T
1 TATTATTATAT
1627513 TATTATTAATAT
1 TATTATT-ATAT
*
1627525 TAGTATATATAT
1 TATTAT-TATAT
*
1627537 T-TTATTAT-G
1 TATTATTATAT
1627546 TATGTATATATAT
1 TAT-TAT-TATAT
* *
1627559 AATTTTTATAT
1 TATTATTATAT
** *
1627570 AGTATTATCGTTT
1 --TATTATTATAT
1627583 CTATTATTATATT
1 -TATTATTATA-T
* *
1627596 TATTATTTTCAC
1 TATTATTAT-AT
*
1627608 TATTATT-TTT
1 TATTATTATAT
* *
1627618 TATTTTTTTAT
1 TATTATTATAT
*
1627629 CATTATTATA
1 TATTATTATA
1627639 CGTATATACA
Statistics
Matches: 105, Mismatches: 28, Indels: 27
0.66 0.17 0.17
Matches are distributed among these distances:
9 6 0.06
10 14 0.13
11 29 0.28
12 45 0.43
13 11 0.10
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (11 bp):
TATTATTATAT
Found at i:1627506 original size:23 final size:24
Alignment explanation
Indices: 1627480--1627577 Score: 87
Period size: 26 Copynumber: 4.0 Consensus size: 24
1627470 CTTTAATTTC
1627480 ATAT-TATTATTATTAGTATTATA
1 ATATATATTATTATTAGTATTATA
*
1627503 ATATTATATTTATTATTAATATTAGT-
1 ATA-TATA-TTATTATTAGTATTA-TA
1627529 ATATATATT-TTATTATGTATGTAT-
1 ATATATATTATTATTA-GTAT-TATA
*
1627553 ATATATAATTTTTATATAGTATTAT
1 ATATAT-ATTATTAT-TAGTATTAT
1627578 CGTTTCTATT
Statistics
Matches: 64, Mismatches: 2, Indels: 16
0.78 0.02 0.20
Matches are distributed among these distances:
23 9 0.14
24 13 0.20
25 14 0.22
26 25 0.39
27 3 0.05
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (24 bp):
ATATATATTATTATTAGTATTATA
Found at i:1627625 original size:21 final size:24
Alignment explanation
Indices: 1627583--1627638 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 24
1627573 ATTATCGTTT
1627583 CTATTATTATATTTATTATTTTCA
1 CTATTATTATATTTATTATTTTCA
*
1627607 CTATTATT-T-TTTATT-TTTTTA
1 CTATTATTATATTTATTATTTTCA
1627628 -TCATTATTATA
1 CT-ATTATTATA
1627639 CGTATATACA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 1 0.04
21 11 0.39
22 7 0.25
23 1 0.04
24 8 0.29
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (24 bp):
CTATTATTATATTTATTATTTTCA
Found at i:1627811 original size:39 final size:41
Alignment explanation
Indices: 1627760--1627843 Score: 111
Period size: 38 Copynumber: 2.1 Consensus size: 41
1627750 TTAATACTCT
* * *
1627760 TATATTATGTATATTATTTTTTTTAAGAT-T-ATATT-TTTA
1 TATATTACGTATA-TATATTTTTTAAAATATCATATTATTTA
1627799 TATATTACGTATATATATTTTTTAAAATATCATATTATTTA
1 TATATTACGTATATATATTTTTTAAAATATCATATTATTTA
1627840 TATA
1 TATA
1627844 CTTTATTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
38 13 0.33
39 13 0.33
40 5 0.13
41 8 0.21
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (41 bp):
TATATTACGTATATATATTTTTTAAAATATCATATTATTTA
Found at i:1627854 original size:38 final size:35
Alignment explanation
Indices: 1627759--1627854 Score: 86
Period size: 38 Copynumber: 2.5 Consensus size: 35
1627749 TTTAATACTC
* *
1627759 TTATATTATGTATATTATTTTTTTTAAGATTATATTT
1 TTATA-TAT-TATATTATATTTTTTAAAATTATATTT
1627796 TTATATATTACGTATATATATTTTTTAAAATATCATATTAT
1 TTATATATTA--TAT-TATATTTTTTAAAAT-T-ATATT-T
1627837 TTATATACTT-TATTATAT
1 TTATATA-TTATATTATAT
1627855 AGGTGTATAT
Statistics
Matches: 50, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
35 2 0.04
36 3 0.06
37 8 0.16
38 18 0.36
39 4 0.08
40 5 0.10
41 8 0.16
42 2 0.04
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (35 bp):
TTATATATTATATTATATTTTTTAAAATTATATTT
Found at i:1642733 original size:3 final size:3
Alignment explanation
Indices: 1642725--1642791 Score: 82
Period size: 3 Copynumber: 21.7 Consensus size: 3
1642715 TTGAGTTGTA
* *
1642725 TAT TAT TAT TACT T-T TAG AAT TTAT TAT TAT TAT TAT TAGT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT -TAT TAT TAT TAT TAT TA-T TAT TAT
1642772 TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
1642792 CCATCTATTT
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 2 0.04
3 47 0.84
4 7 0.12
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:1642753 original size:22 final size:22
Alignment explanation
Indices: 1642725--1642785 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
1642715 TTGAGTTGTA
1642725 TATTATTATTACTT-TTAGA-ATT
1 TATTATTATTA-TTATTAGATA-T
*
1642747 TATTATTATTATTATTAGTTAT
1 TATTATTATTATTATTAGATAT
1642769 TATTATTATTATTATTA
1 TATTATTATTATTATTA
1642786 TTATTACCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
21 2 0.06
22 33 0.92
23 1 0.03
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (22 bp):
TATTATTATTATTATTAGATAT
Found at i:1643236 original size:19 final size:18
Alignment explanation
Indices: 1643203--1643239 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
1643193 TGTCCACATA
1643203 ATAAAAATTAAAATTAAT
1 ATAAAAATTAAAATTAAT
*
1643221 ATAAAAACTTAGAATTAAT
1 ATAAAAA-TTAAAATTAAT
1643240 TATATATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (18 bp):
ATAAAAATTAAAATTAAT
Found at i:1651753 original size:23 final size:23
Alignment explanation
Indices: 1651722--1651768 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
1651712 CTCCTATATA
1651722 TGCTCACTGAGTTCCTAATAATT
1 TGCTCACTGAGTTCCTAATAATT
* * * *
1651745 TGCTTACTGATTTCGTGATAATT
1 TGCTCACTGAGTTCCTAATAATT
1651768 T
1 T
1651769 ACATGCTCTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.17, G:0.15, T:0.45
Consensus pattern (23 bp):
TGCTCACTGAGTTCCTAATAATT
Found at i:1653802 original size:25 final size:25
Alignment explanation
Indices: 1653761--1653811 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
1653751 TAACTCTTTA
* *
1653761 TAAAAAAAATAGTATTAATTTGAAT
1 TAAAAAAAATAGAATTAATTTAAAT
*
1653786 TAAAAAAAATTA-AATTATTTTAAAT
1 TAAAAAAAA-TAGAATTAATTTAAAT
1653811 T
1 T
1653812 GAGATTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (25 bp):
TAAAAAAAATAGAATTAATTTAAAT
Found at i:1654678 original size:16 final size:15
Alignment explanation
Indices: 1654649--1654680 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1654639 GCTTTGGACT
1654649 TAAATATAATAGATA
1 TAAATATAATAGATA
1654664 TAAATATAGATAGATA
1 TAAATATA-ATAGATA
1654680 T
1 T
1654681 TTGTCATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.34
Consensus pattern (15 bp):
TAAATATAATAGATA
Found at i:1665892 original size:21 final size:21
Alignment explanation
Indices: 1665866--1665918 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
1665856 AAATATGTAA
1665866 TTATATAATAAAAAATAATTT
1 TTATATAATAAAAAATAATTT
* **
1665887 TTATATATTTTAAAATAATTT
1 TTATATAATAAAAAATAATTT
*
1665908 TAAT-TAATAAA
1 TTATATAATAAA
1665919 TTTTTTATTT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTATATAATAAAAAATAATTT
Found at i:1665925 original size:89 final size:89
Alignment explanation
Indices: 1665816--1665985 Score: 245
Period size: 89 Copynumber: 1.9 Consensus size: 89
1665806 TAATTCATCT
*
1665816 TTTTAATTAATAACTCTTTTATTTATATAAATAAAATAATAAATATGTAATTATATAAT-AAAAA
1 TTTTAATTAATAAATCTTTTATTTATATAAA-AAAATAATAAATATGTAATTATATAATGAAAAA
1665880 ATA-ATTTTTATATATTTTAAAATAA
65 ATATATTTTTA-ATATTTTAAAATAA
* * * * **
1665905 TTTTAATTAATAAATTTTTTATTTATATATAAAAATAATAATTATGTAATTATGTAATGAAATTA
1 TTTTAATTAATAAATCTTTTATTTATATAAAAAAATAATAAATATGTAATTATATAATGAAAAAA
1665970 TATATTTTTAATATTT
66 TATATTTTTAATATTT
1665986 ATAATTATGT
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
88 25 0.35
89 40 0.56
90 7 0.10
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.49
Consensus pattern (89 bp):
TTTTAATTAATAAATCTTTTATTTATATAAAAAAATAATAAATATGTAATTATATAATGAAAAAA
TATATTTTTAATATTTTAAAATAA
Found at i:1667255 original size:3 final size:3
Alignment explanation
Indices: 1667243--1667273 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
1667233 GGTAATGTTT
1667243 AAG AAG -AG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1667274 CGATGAGAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1670792 original size:2 final size:2
Alignment explanation
Indices: 1670785--1670810 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1670775 CCTTTCAGAG
1670785 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1670811 TGCAAAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1671870 original size:12 final size:12
Alignment explanation
Indices: 1671853--1671885 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
1671843 CTGCCCGTCC
1671853 ATATTAATTTTT
1 ATATTAATTTTT
1671865 ATATT-ATTTTT
1 ATATTAATTTTT
1671876 ATA-TAATTTT
1 ATATTAATTTT
1671886 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:1672114 original size:11 final size:11
Alignment explanation
Indices: 1672100--1672147 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
1672090 ATATCCAAAT
*
1672100 AATAATAACAA
1 AATAATAGCAA
*
1672111 AATAGTAGCAA
1 AATAATAGCAA
* *
1672122 CATAATAGTAA
1 AATAATAGCAA
*
1672133 AATAGTAGCAA
1 AATAATAGCAA
1672144 AATA
1 AATA
1672148 GGAAGAAAAT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.60, C:0.08, G:0.10, T:0.21
Consensus pattern (11 bp):
AATAATAGCAA
Found at i:1672148 original size:11 final size:11
Alignment explanation
Indices: 1672108--1672148 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
1672098 ATAATAATAA
1672108 CAAAATAGTAG
1 CAAAATAGTAG
* *
1672119 CAACATAATAG
1 CAAAATAGTAG
*
1672130 TAAAATAGTAG
1 CAAAATAGTAG
1672141 CAAAATAG
1 CAAAATAG
1672149 GAAGAAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:1672158 original size:22 final size:22
Alignment explanation
Indices: 1672100--1672147 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
1672090 ATATCCAAAT
**
1672100 AATAATAACAAAATAGTAGCAA
1 AATAATAGTAAAATAGTAGCAA
*
1672122 CATAATAGTAAAATAGTAGCAA
1 AATAATAGTAAAATAGTAGCAA
1672144 AATA
1 AATA
1672148 GGAAGAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.60, C:0.08, G:0.10, T:0.21
Consensus pattern (22 bp):
AATAATAGTAAAATAGTAGCAA
Found at i:1672245 original size:38 final size:38
Alignment explanation
Indices: 1672202--1672396 Score: 318
Period size: 38 Copynumber: 5.1 Consensus size: 38
1672192 GAAGGCCCGA
* * * *
1672202 ATATAATACCAGCACTAGGCCTGCGGGATTTATCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
*
1672240 ATATAATACCAGCACGAAGTCTGCGGGATTTAACCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
*
1672278 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
1672316 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
* *
1672354 ATATAATACCAGCACGAAGCCTGCAGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
1672392 ATATA
1 ATATA
1672397 CATCGAATAT
Statistics
Matches: 147, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 147 1.00
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
Found at i:1674149 original size:2 final size:2
Alignment explanation
Indices: 1674144--1674172 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1674134 TTACATTCAA
1674144 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1674173 CTCGTGAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1675579 original size:23 final size:22
Alignment explanation
Indices: 1675553--1675606 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
1675543 TTAATTTATG
*
1675553 TTATAATATATAC-ATATTATTA
1 TTATAATATA-ACTATAATATTA
* *
1675575 CTTATATTATAACTTTAATATTA
1 -TTATAATATAACTATAATATTA
1675598 TTATAATAT
1 TTATAATAT
1675607 TATTTCCACC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATAATATAACTATAATATTA
Found at i:1678505 original size:28 final size:29
Alignment explanation
Indices: 1678464--1678539 Score: 93
Period size: 28 Copynumber: 2.7 Consensus size: 29
1678454 ATTTTTTATT
1678464 CTGAATCTCAAACTCCGAACTCT-GAACC
1 CTGAATCTCAAACTCCGAACTCTGGAACC
* * *
1678492 TTGAATCTCAAACTTCGAA-TTTGGAACC
1 CTGAATCTCAAACTCCGAACTCTGGAACC
* *
1678520 CTAAATATCAAACTCCGAAC
1 CTGAATCTCAAACTCCGAAC
1678540 AAAAAATTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
27 2 0.05
28 37 0.95
ACGTcount: A:0.36, C:0.29, G:0.11, T:0.25
Consensus pattern (29 bp):
CTGAATCTCAAACTCCGAACTCTGGAACC
Found at i:1683982 original size:33 final size:33
Alignment explanation
Indices: 1683940--1684005 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
1683930 ACACGTGTAA
1683940 AGAATTCTAGAACAACTACATAAATTAGATAAT
1 AGAATTCTAGAACAACTACATAAATTAGATAAT
1683973 AGAATTCTAGAACAACTACATAAATTAGATAAT
1 AGAATTCTAGAACAACTACATAAATTAGATAAT
1684006 CAACTTCACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.52, C:0.12, G:0.09, T:0.27
Consensus pattern (33 bp):
AGAATTCTAGAACAACTACATAAATTAGATAAT
Found at i:1689835 original size:19 final size:19
Alignment explanation
Indices: 1689795--1689855 Score: 63
Period size: 19 Copynumber: 3.1 Consensus size: 19
1689785 AATTTTGCTG
*
1689795 TAATAATAAATTTTAA-TAT
1 TAATAAT-AATTTTAATTTT
1689814 TAATAATAATTTTAATTTT
1 TAATAATAATTTTAATTTT
1689833 TAATTAAT-ATTTCTAATATTT
1 TAA-TAATAATTT-TAAT-TTT
1689854 TA
1 TA
1689856 TTAAAAATGG
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
18 8 0.22
19 16 0.43
20 8 0.22
21 5 0.14
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
TAATAATAATTTTAATTTT
Found at i:1689849 original size:20 final size:21
Alignment explanation
Indices: 1689798--1689859 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 21
1689788 TTTGCTGTAA
1689798 TAATAAATTTTAATA--TTAA-
1 TAAT-AATTTTAATATTTTAAT
1689817 TAATAATTTTAAT-TTTTAAT
1 TAATAATTTTAATATTTTAAT
1689837 TAAT-ATTTCTAATATTTT-AT
1 TAATAATTT-TAATATTTTAAT
1689857 TAA
1 TAA
1689860 AAATGGCTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
18 9 0.24
19 12 0.32
20 13 0.34
21 4 0.11
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
TAATAATTTTAATATTTTAAT
Found at i:1690945 original size:15 final size:15
Alignment explanation
Indices: 1690919--1690957 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
1690909 AATTTATTTT
*
1690919 TTAAAAATAATTTA-
1 TTAAAAAAAATTTAG
1690933 TTCAAAAAAAATTTAG
1 TT-AAAAAAAATTTAG
1690949 TTAAAAAAA
1 TTAAAAAAA
1690958 GCACAACCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 2 0.09
15 18 0.82
16 2 0.09
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (15 bp):
TTAAAAAAAATTTAG
Found at i:1696987 original size:12 final size:12
Alignment explanation
Indices: 1696970--1696996 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1696960 TGACTATTAA
1696970 AGATGTCATATT
1 AGATGTCATATT
1696982 AGATGTCATATT
1 AGATGTCATATT
1696994 AGA
1 AGA
1696997 ATTGATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (12 bp):
AGATGTCATATT
Found at i:1697131 original size:22 final size:22
Alignment explanation
Indices: 1697061--1697144 Score: 55
Period size: 22 Copynumber: 3.7 Consensus size: 22
1697051 ATATGTGAAT
* *
1697061 TTATAAATTTATTTAATAAAATA
1 TTATAAATAT-TTTAATAAATTA
**
1697084 TTA-AAATGTATTTTTTAATATTTTA
1 TTATAAA--TA--TTTTAATAAATTA
1697109 TTATAAATATTTTAATAAATTA
1 TTATAAATATTTTAATAAATTA
* *
1697131 -TATAATTAATTTAA
1 TTATAAATATTTTAA
1697145 ATTATTTATT
Statistics
Matches: 48, Mismatches: 8, Indels: 12
0.71 0.12 0.18
Matches are distributed among these distances:
21 12 0.25
22 14 0.29
23 3 0.06
24 3 0.06
25 12 0.25
26 4 0.08
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (22 bp):
TTATAAATATTTTAATAAATTA
Found at i:1697850 original size:29 final size:27
Alignment explanation
Indices: 1697795--1697853 Score: 91
Period size: 29 Copynumber: 2.1 Consensus size: 27
1697785 ATTTAACAAG
*
1697795 TAAATATTTTTAAAATAATAAAATTAA
1 TAAATATTTTTAAAATAACAAAATTAA
1697822 TAAATATTTTTAAATAATAACAAAATTAA
1 TAAATATTTTT-AA-AATAACAAAATTAA
1697851 TAA
1 TAA
1697854 TAAAATAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 11 0.38
28 2 0.07
29 16 0.55
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (27 bp):
TAAATATTTTTAAAATAACAAAATTAA
Found at i:1701807 original size:46 final size:46
Alignment explanation
Indices: 1701747--1702202 Score: 648
Period size: 46 Copynumber: 9.9 Consensus size: 46
1701737 TTTGACATGA
* * * * *
1701747 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGT
* * * *
1701793 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCTTGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
1701839 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* * *
1701885 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
1701931 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* * *
1701977 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
1702023 TG-CAGTGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCA-TGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* * *
1702069 TGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
1702115 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCA-ATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
1702160 TGCCATGGTATCTTTCAATCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
1702203 GAGAGCACAC
Statistics
Matches: 371, Mismatches: 35, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
45 48 0.13
46 321 0.87
47 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
Found at i:1701904 original size:92 final size:92
Alignment explanation
Indices: 1701747--1702203 Score: 722
Period size: 92 Copynumber: 5.0 Consensus size: 92
1701737 TTTGACATGA
* * * * * *
1701747 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATATCACGTTGCCATGGTATCTTTCAA
** * * * *
1701811 CCATGGTCTTATTCTTTTCTTGTCACGT
65 CCATGGTCTTACACATTTCATATCAGGT
1701839 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAAC
*
1701904 CATGGTCTTACACATTTTATATCAGGT
66 CATGGTCTTACACATTTCATATCAGGT
*
1701931 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATAGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAAC
1701996 CATGGTCTTACACATTTCATATCAGGT
66 CATGGTCTTACACATTTCATATCAGGT
1702023 TG-CAGTGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAA
1 TGCCA-TGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAA
*
1702087 CTATGGTCTTACACATTTCATATCAGGT
65 CCATGGTCTTACACATTTCATATCAGGT
* *
1702115 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCA-ATCAGGTTGCCATGGTATCTTTCAAT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAAC
1702179 CATGGTCTTACACATTTCATATCAG
66 CATGGTCTTACACATTTCATATCAG
1702204 AGAGCACACT
Statistics
Matches: 342, Mismatches: 20, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
91 54 0.16
92 286 0.84
93 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCAGGT
Found at i:1704266 original size:23 final size:23
Alignment explanation
Indices: 1704238--1704285 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
1704228 AAGGACCAAA
1704238 TTGTAAAGAAAGTAAAATTTTCT
1 TTGTAAAGAAAGTAAAATTTTCT
1704261 TTGTAAAGAAAGTAAAATTTTCT
1 TTGTAAAGAAAGTAAAATTTTCT
1704284 TT
1 TT
1704286 CTTTCTCTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.42
Consensus pattern (23 bp):
TTGTAAAGAAAGTAAAATTTTCT
Found at i:1704430 original size:31 final size:30
Alignment explanation
Indices: 1704384--1704444 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
1704374 ATATATATAT
*
1704384 ATATATATCTTATTAAA-ATATTAATAAAATA
1 ATATATATCTAATTAAATA-ATT-ATAAAATA
*
1704415 ATATTTATCTAATTAAATAATTATAAAATA
1 ATATATATCTAATTAAATAATTATAAAATA
1704445 TCAAAATATC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 8 0.30
31 18 0.67
32 1 0.04
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (30 bp):
ATATATATCTAATTAAATAATTATAAAATA
Found at i:1705008 original size:24 final size:26
Alignment explanation
Indices: 1704981--1705029 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
1704971 CTTTTTTGAA
* *
1704981 TATTTG-TTT-TTATGTTTTTAAATG
1 TATTTGATTTATTATATTTTAAAATG
1705005 TATTTGATTTATTATATTTTAAAAT
1 TATTTGATTTATTATATTTTAAAAT
1705030 TTTTTATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 3 0.14
26 12 0.57
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (26 bp):
TATTTGATTTATTATATTTTAAAATG
Found at i:1729820 original size:16 final size:17
Alignment explanation
Indices: 1729799--1729832 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1729789 TAAATTTTAA
*
1729799 TTTAATATATAA-TAGG
1 TTTAATACATAATTAGG
1729815 TTTAATACATAATTAGG
1 TTTAATACATAATTAGG
1729832 T
1 T
1729833 ACCTAAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (17 bp):
TTTAATACATAATTAGG
Found at i:1737803 original size:86 final size:86
Alignment explanation
Indices: 1737704--1737886 Score: 244
Period size: 86 Copynumber: 2.1 Consensus size: 86
1737694 CTGTTGTAAA
* *
1737704 AAAGTGGT-TAAAAAACATATAAGAGGTACATAAATTATTGTTTTTATGCAA-ATTTTTATTTTA
1 AAAGT-GTATAAAAAACATATAAAAGGTACATAAATTATTGCTTTTATGCAATA-TTTTATTTTA
* * *
1737767 CATTCTTCTACATGATTAATTAT
64 AATTCTTCCACACGATTAATTAT
* * * *
1737790 AAAGTGTATAAAAATCGTATAAAAGGTACGTGAATTATTGCTTTTATGCAATATTTTATTTTAAA
1 AAAGTGTATAAAAAACATATAAAAGGTACATAAATTATTGCTTTTATGCAATATTTTATTTTAAA
1737855 TTCTTCCACACGATTAATTAT
66 TTCTTCCACACGATTAATTAT
*
1737876 AAAGTTTATAA
1 AAAGTGTATAA
1737887 GTTTATGATG
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
85 2 0.02
86 82 0.96
87 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.42
Consensus pattern (86 bp):
AAAGTGTATAAAAAACATATAAAAGGTACATAAATTATTGCTTTTATGCAATATTTTATTTTAAA
TTCTTCCACACGATTAATTAT
Found at i:1738763 original size:20 final size:20
Alignment explanation
Indices: 1738738--1738781 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
1738728 AATTTAGAAT
* *
1738738 TTTAATATT-ATTTATTTTAA
1 TTTAAT-TTAATTAATTTCAA
1738758 TTTAATTTAATTAATTTCAA
1 TTTAATTTAATTAATTTCAA
1738778 TTTA
1 TTTA
1738782 TCAGTTTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTAATTTAATTAATTTCAA
Found at i:1738765 original size:15 final size:15
Alignment explanation
Indices: 1738736--1738782 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
1738726 CAAATTTAGA
1738736 ATTTTAATATT-ATTT
1 ATTTTAAT-TTAATTT
1738751 ATTTTAATTTAATTT
1 ATTTTAATTTAATTT
*
1738766 A-ATTAATTTCAATTT
1 ATTTTAATTT-AATTT
1738781 AT
1 AT
1738783 CAGTTTACAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 9 0.32
15 19 0.68
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTTTAATTTAATTT
Found at i:1739257 original size:37 final size:37
Alignment explanation
Indices: 1739216--1739289 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
1739206 ATTTACCTAA
1739216 GCCCAAAGGTTAACATGATATTTTAAAAGATTTGTAC
1 GCCCAAAGGTTAACATGATATTTTAAAAGATTTGTAC
*
1739253 GCCCAAAGTTTAACATGATATTTTAAAAGATTTGTAC
1 GCCCAAAGGTTAACATGATATTTTAAAAGATTTGTAC
1739290 AAAAATTAGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.34
Consensus pattern (37 bp):
GCCCAAAGGTTAACATGATATTTTAAAAGATTTGTAC
Found at i:1739550 original size:21 final size:21
Alignment explanation
Indices: 1739524--1739570 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
1739514 GAAAGTTGGA
* *
1739524 TTTTTTTACTGTTTTCTTGCT
1 TTTTTTTAATGTTTTATTGCT
*
1739545 TTTTTTTAATTTTTTATTGCT
1 TTTTTTTAATGTTTTATTGCT
*
1739566 ATTTT
1 TTTTT
1739571 CTTGTTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.11, C:0.09, G:0.06, T:0.74
Consensus pattern (21 bp):
TTTTTTTAATGTTTTATTGCT
Found at i:1739827 original size:14 final size:14
Alignment explanation
Indices: 1739801--1739840 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
1739791 ATATATGTTT
1739801 AAAAATT-ATATAA
1 AAAAATTAATATAA
*
1739814 AAATATTAATATAA
1 AAAAATTAATATAA
1739828 AAAAATTAATATA
1 AAAAATTAATATA
1739841 GGCAGGTCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 6 0.25
14 18 0.75
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AAAAATTAATATAA
Found at i:1748120 original size:78 final size:78
Alignment explanation
Indices: 1747987--1748144 Score: 298
Period size: 78 Copynumber: 2.0 Consensus size: 78
1747977 GATAAAAAGG
* *
1747987 TAATTTATATTTATTTATTTGATTTTGTTATTATAATTTATACAACAAATGTTTACATTATTATT
1 TAATTTATATTTATTTATTTGATTTTGTTATTATAAATTATACAACAAATATTTACATTATTATT
1748052 ATTTATTTATTTT
66 ATTTATTTATTTT
1748065 TAATTTATATTTATTTATTTGATTTTGTTATTATAAATTATACAACAAATATTTACATTATTATT
1 TAATTTATATTTATTTATTTGATTTTGTTATTATAAATTATACAACAAATATTTACATTATTATT
1748130 ATTTATTTATTTT
66 ATTTATTTATTTT
1748143 TA
1 TA
1748145 GAATTTTCTA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (78 bp):
TAATTTATATTTATTTATTTGATTTTGTTATTATAAATTATACAACAAATATTTACATTATTATT
ATTTATTTATTTT
Found at i:1748654 original size:2 final size:2
Alignment explanation
Indices: 1748647--1748705 Score: 104
Period size: 2 Copynumber: 30.5 Consensus size: 2
1748637 TACCATAGAG
1748647 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
1748689 TA TA -A TA -A TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
1748706 GCTAAGTATC
Statistics
Matches: 55, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 53 0.96
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1752251 original size:22 final size:22
Alignment explanation
Indices: 1752227--1752268 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
1752217 ATAAATAAAA
* *
1752227 AAAATTAAATTAT-TAAATATT
1 AAAATAAAATAATATAAATATT
1752248 AAAATAAAATAATATAAATAT
1 AAAATAAAATAATATAAATAT
1752269 ATTTTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAATAAAATAATATAAATATT
Found at i:1752509 original size:2 final size:2
Alignment explanation
Indices: 1752502--1752540 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1752492 ACGTCCCTTT
1752502 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1752541 TTCTAAAGAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1753857 original size:5 final size:5
Alignment explanation
Indices: 1753847--1753891 Score: 81
Period size: 5 Copynumber: 9.0 Consensus size: 5
1753837 GTCATTTTCA
*
1753847 ATAAT ATAAT ATGAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1753892 GATTCCTTCG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:1757314 original size:2 final size:2
Alignment explanation
Indices: 1757290--1757345 Score: 55
Period size: 2 Copynumber: 29.5 Consensus size: 2
1757280 TTACACCATG
* * * *
1757290 TA TA TA TT TT TA TA AA TA T- TA TA TA TA TA TA TA TA TA TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1757331 TA -A TA TA T- TA TA TA T
1 TA TA TA TA TA TA TA TA T
1757346 CTTGTGTACA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
1 3 0.07
2 42 0.93
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:1757316 original size:21 final size:20
Alignment explanation
Indices: 1757290--1757344 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
1757280 TTACACCATG
*
1757290 TATATATTTTTATAAATATT
1 TATATATTTATATAAATATT
* *
1757310 ATATATATATATATATATATT
1 -TATATATTTATATAAATATT
1757331 TA-ATATATTATATA
1 TATATAT-TTATATA
1757345 TCTTGTGTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 4 0.14
20 8 0.28
21 17 0.59
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATATATTTATATAAATATT
Found at i:1757522 original size:20 final size:20
Alignment explanation
Indices: 1757499--1757563 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
1757489 AAATATAGCA
*
1757499 TTTTTATTATGTATATATTT
1 TTTTTATTATGTATACATTT
* *
1757519 TTTTTGA-TACGGATACATTT
1 TTTTT-ATTATGTATACATTT
*
1757539 TTTATATTACGTGTATACATTT
1 TTTTTATTA--TGTATACATTT
1757561 TTT
1 TTT
1757564 AATATTATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
19 1 0.03
20 21 0.60
21 1 0.03
22 12 0.34
ACGTcount: A:0.25, C:0.06, G:0.09, T:0.60
Consensus pattern (20 bp):
TTTTTATTATGTATACATTT
Found at i:1757824 original size:3 final size:3
Alignment explanation
Indices: 1757811--1758116 Score: 121
Period size: 3 Copynumber: 99.7 Consensus size: 3
1757801 TGCTATTACC
*
1757811 ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * * *
1757859 ATT ATTT ATC GTT ATT ATA AAT A-T ATT TTT TTT ATT CTT ATT AAT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
1757904 A-T ATT CTT ATT ATT ATT ATT -TT CCACCTT ATT ATT ATT ACT AGT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT --A--TT ATT ATT ATT ATT ATT ATT
* * * *
1757951 ATC A-T CTT GTT ATT AGGTT AATT AATT -TT ATAT AGGT ATT ATT A-T
1 ATT ATT ATT ATT ATT A--TT -ATT -ATT ATT AT-T A-TT ATT ATT ATT
* * * *
1757996 GTT ATT A-T ACAT ATT CTCT CTGT ATTT ACTT A-T ATT ATT ACTT A-T
1 ATT ATT ATT A-TT ATT AT-T AT-T A-TT A-TT ATT ATT ATT A-TT ATT
* * * * * * *
1758041 ATT ATC ATC ACT ATT ATC ATT ATG ATTT ATT ACT -TT ATT ATT ATC
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
*
1758086 ATT ATT ATT ACT ATT A-T ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1758117 ATTTTTACCC
Statistics
Matches: 230, Mismatches: 47, Indels: 52
0.70 0.14 0.16
Matches are distributed among these distances:
2 18 0.08
3 176 0.77
4 29 0.13
5 4 0.02
6 1 0.00
7 2 0.01
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:1757904 original size:23 final size:23
Alignment explanation
Indices: 1757818--1757923 Score: 99
Period size: 23 Copynumber: 4.6 Consensus size: 23
1757808 ACCATTACTA
*
1757818 TTATTATTATTATT-AT-TATTA
1 TTATTATTATTATTAATATATTC
* *
1757839 TTATTATTATTATTATTATTATTAT
1 TTATTATTATTATTAATA-TATT-C
** * *
1757864 TTATCGTTATTATAAATATATTT
1 TTATTATTATTATTAATATATTC
* *
1757887 TTTTTATTCTTATTAATATATTC
1 TTATTATTATTATTAATATATTC
1757910 TTATTATTATTATT
1 TTATTATTATTATT
1757924 TTCCACCTTA
Statistics
Matches: 67, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
21 14 0.21
22 1 0.01
23 30 0.45
24 8 0.12
25 14 0.21
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (23 bp):
TTATTATTATTATTAATATATTC
Found at i:1758095 original size:23 final size:23
Alignment explanation
Indices: 1758028--1758116 Score: 69
Period size: 23 Copynumber: 3.9 Consensus size: 23
1758018 TATTTACTTA
* *
1758028 TATTATTACTTAT-ATTATCATCAC
1 TATTA-TA-TTATCATTATTATTAC
*
1758052 TATTATCATTATGA-T-TTATTAC
1 TATTAT-ATTATCATTATTATTAC
*
1758074 TTTAT-TATTATCATTATTATTAC
1 TAT-TATATTATCATTATTATTAC
*
1758097 TATTATATTATTATTATTAT
1 TATTATATTATCATTATTAT
1758117 ATTTTTACCC
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
21 6 0.11
22 10 0.19
23 30 0.57
24 7 0.13
ACGTcount: A:0.33, C:0.09, G:0.01, T:0.57
Consensus pattern (23 bp):
TATTATATTATCATTATTATTAC
Found at i:1760856 original size:6 final size:6
Alignment explanation
Indices: 1760845--1760999 Score: 56
Period size: 6 Copynumber: 26.0 Consensus size: 6
1760835 AAGAAAAGCT
* *
1760845 ATAATA ATAATA GTAATT ATAATA A-AAGTA ATAATA ATAA-A TATAATA
1 ATAATA ATAATA ATAATA ATAATA ATAA-TA ATAATA ATAATA -ATAATA
* * * * *
1760893 ATAGTA ATATTA GTGATA A-AA-A ATAATA GAT-ATA AAAATA A-ACATA
1 ATAATA ATAATA ATAATA ATAATA ATAATA -ATAATA ATAATA ATA-ATA
* ** * * * *
1760939 AAAACC ATGACA ATAAAGA ATAATA GTAATA ATAATGA A-AATA A-AAGTA
1 ATAATA ATAATA AT-AATA ATAATA ATAATA ATAAT-A ATAATA ATAA-TA
*
1760988 ATATTA ATAATA
1 ATAATA ATAATA
1761000 CATTATATTA
Statistics
Matches: 111, Mismatches: 24, Indels: 28
0.68 0.15 0.17
Matches are distributed among these distances:
4 2 0.02
5 12 0.11
6 84 0.76
7 13 0.12
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (6 bp):
ATAATA
Found at i:1760868 original size:15 final size:15
Alignment explanation
Indices: 1760845--1760895 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
1760835 AAGAAAAGCT
*
1760845 ATAATAATAATAGTA
1 ATAATAATAAAAGTA
*
1760860 ATTATAATAAAAGTA
1 ATAATAATAAAAGTA
1760875 ATAATAATAAATA-TA
1 ATAATAATAAA-AGTA
1760890 ATAATA
1 ATAATA
1760896 GTAATATTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
15 31 0.97
16 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (15 bp):
ATAATAATAAAAGTA
Found at i:1760876 original size:24 final size:24
Alignment explanation
Indices: 1760849--1760906 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
1760839 AAAGCTATAA
*
1760849 TAATAATAGTAATTATAATAAAAG
1 TAATAATAGTAAATATAATAAAAG
* *
1760873 TAATAATAATAAATATAATAATAG
1 TAATAATAGTAAATATAATAAAAG
*
1760897 TAATATTAGT
1 TAATAATAGT
1760907 GATAAAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (24 bp):
TAATAATAGTAAATATAATAAAAG
Found at i:1761205 original size:3 final size:3
Alignment explanation
Indices: 1761182--1761676 Score: 196
Period size: 3 Copynumber: 161.3 Consensus size: 3
1761172 ATATGCATAT
* *
1761182 ATA ATA AAA ATA TATA CTA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
1761228 ATA ATA ATA ATA TTA A-A ATA CA-A AAA AGTA A-A TATA A-C ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA A-TA ATA -ATA ATA ATA ATA
* * *
1761272 ATA ATA TTA A-A ATA A-A ATA ATTA A-A A-A ACA ATA CT- ATA TATA
1 ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA -ATA
1761314 ATA TATA TATA CATA TATA ATA A-A ACCTA CACTA ATA ATA ATA ATA ATA
1 ATA -ATA -ATA -ATA -ATA ATA ATA A--TA -A-TA ATA ATA ATA ATA ATA
*
1761363 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA CTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
1761411 GA-A ATA AT- ATCA A-A ATA CAAA AAA AGTA A-A TATA A-C ATA ATA
1 -ATA ATA ATA AT-A ATA ATA -ATA ATA A-TA ATA -ATA ATA ATA ATA
* * *
1761453 ATA ATA TTA A-A ATA A-A ATA ATTA AAA ATA ATA CTA TATA A-A TATA
1 ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA -ATA ATA -ATA
* * * * *
1761498 TATA TATA CATA TATA ATA AAA ACA TTCA CTA ATA TTA ATA ATA ATA
1 -ATA -ATA -ATA -ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA
* * * * *
1761545 ATG ATA ATA GGA-A ATA ATA ATA ACA ATA TATA CTA ATA ACA GTA ATA
1 ATA ATA ATA --ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
* * * *
1761592 AT- ATGA AAA ATA AGAA ATA ACA ATA GT- ATA A-A ATA ATA ATA TATA
1 ATA AT-A ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
*
1761637 CATGA A-A A-A ATA ATA AT- ATAA ATA ATA GA-A AAA ATA ATA A
1 -AT-A ATA ATA ATA ATA ATA AT-A ATA ATA -ATA ATA ATA ATA A
1761677 AATTAAATAA
Statistics
Matches: 381, Mismatches: 59, Indels: 104
0.70 0.11 0.19
Matches are distributed among these distances:
2 41 0.11
3 262 0.69
4 71 0.19
5 6 0.02
6 1 0.00
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:1761632 original size:22 final size:21
Alignment explanation
Indices: 1761556--1761632 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 21
1761546 TGATAATAGG
1761556 AAATAATAATAACAATATATA
1 AAATAATAATAACAATATATA
* * * *
1761577 CTAATAACAGTAATAATATGA-A
1 -AAATAATAATAACAATAT-ATA
*
1761599 AAATAAGAAATAACAATAGTATA
1 AAATAA-TAATAACAATA-TATA
1761622 AAATAATAATA
1 AAATAATAATA
1761633 TATACATGAA
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
21 5 0.12
22 28 0.67
23 9 0.21
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (21 bp):
AAATAATAATAACAATATATA
Found at i:1761685 original size:22 final size:23
Alignment explanation
Indices: 1761621--1761685 Score: 80
Period size: 22 Copynumber: 2.9 Consensus size: 23
1761611 ACAATAGTAT
*
1761621 AAAATAATAATATATACAT-GAA
1 AAAATAATAATATATAAATAGAA
*
1761643 AAAATAATAATATAAATAATAGAA
1 AAAATAATAATATATA-AATAGAA
*
1761667 AAAATAATAAAAT-TAAATA
1 AAAATAATAATATATAAATA
1761686 ATTTAACAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
22 19 0.51
23 3 0.08
24 15 0.41
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (23 bp):
AAAATAATAATATATAAATAGAA
Found at i:1762832 original size:26 final size:26
Alignment explanation
Indices: 1762796--1762957 Score: 256
Period size: 26 Copynumber: 6.2 Consensus size: 26
1762786 TGATACAAAT
1762796 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
1762822 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
1762848 TGATAATGGGTTAGGTAAATGCTT-CA
1 TGATAATAGGTTAGGTAAATG-TTCCA
1762874 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
1762900 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
1762926 TGATAAT-GAGTTAGGTAAATGTTTCA
1 TGATAATAG-GTTAGGTAAATGTTCCA
1762952 TGATAA
1 TGATAA
1762958 GAATTTCATG
Statistics
Matches: 129, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
25 3 0.02
26 124 0.96
27 2 0.02
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:1762886 original size:78 final size:78
Alignment explanation
Indices: 1762796--1762957 Score: 288
Period size: 78 Copynumber: 2.1 Consensus size: 78
1762786 TGATACAAAT
*
1762796 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGAGTTA
1762861 GGTAAATGCTTCA
66 GGTAAATGCTTCA
* *
1762874 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCATGATAATGAGTTA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGAGTTA
*
1762939 GGTAAATGTTTCA
66 GGTAAATGCTTCA
1762952 TGATAA
1 TGATAA
1762958 GAATTTCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 80 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (78 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGAGTTA
GGTAAATGCTTCA
Found at i:1764990 original size:137 final size:137
Alignment explanation
Indices: 1764744--1765019 Score: 552
Period size: 137 Copynumber: 2.0 Consensus size: 137
1764734 GAGTAGTCTC
1764744 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1764809 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
1764874 ACTGTTA
131 ACTGTTA
1764881 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1764946 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
1765011 ACTGTTA
131 ACTGTTA
1765018 CC
1 CC
1765020 TGAATAGGCT
Statistics
Matches: 139, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
137 139 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:1769006 original size:33 final size:30
Alignment explanation
Indices: 1768962--1769031 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 30
1768952 AAATATATAT
*
1768962 ATATATATATATATAAATAATAGTATTAGAA
1 ATATATATATATATAAATAATAATATTA-AA
* *
1768993 ATCATATAGTATATATAACTGATAATATTAAA
1 AT-ATATA-TATATATAAATAATAATATTAAA
1769025 ATATATA
1 ATATATA
1769032 CATAATATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 7 0.21
32 9 0.26
33 18 0.53
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.39
Consensus pattern (30 bp):
ATATATATATATATAAATAATAATATTAAA
Found at i:1769254 original size:3 final size:3
Alignment explanation
Indices: 1769246--1769299 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
1769236 ACAAGGATAT
1769246 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1769294 ATA ATA
1 ATA ATA
1769300 TTGAAACACA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1769407 original size:3 final size:3
Alignment explanation
Indices: 1769399--1769432 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
1769389 AATGTATTTC
1769399 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1769433 TTGAAATGCA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1770058 original size:23 final size:22
Alignment explanation
Indices: 1770019--1770074 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 22
1770009 AAAAAAAAAA
1770019 TTTGTATATTTTTTGTATATTT
1 TTTGTATATTTTTTGTATATTT
1770041 TTTGTATATCTTTTTGTATATTT
1 TTTGTATAT-TTTTTGTATATTT
*
1770064 TTT-TATGTTTT
1 TTTGTATATTTT
1770075 AATATATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 3 0.09
22 13 0.41
23 16 0.50
ACGTcount: A:0.16, C:0.02, G:0.09, T:0.73
Consensus pattern (22 bp):
TTTGTATATTTTTTGTATATTT
Found at i:1770067 original size:12 final size:11
Alignment explanation
Indices: 1770019--1770066 Score: 87
Period size: 11 Copynumber: 4.3 Consensus size: 11
1770009 AAAAAAAAAA
1770019 TTTGTATATTT
1 TTTGTATATTT
1770030 TTTGTATATTT
1 TTTGTATATTT
1770041 TTTGTATATCTT
1 TTTGTATAT-TT
1770053 TTTGTATATTT
1 TTTGTATATTT
1770064 TTT
1 TTT
1770067 TATGTTTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
11 25 0.69
12 11 0.31
ACGTcount: A:0.17, C:0.02, G:0.08, T:0.73
Consensus pattern (11 bp):
TTTGTATATTT
Found at i:1770083 original size:34 final size:34
Alignment explanation
Indices: 1770019--1770083 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
1770009 AAAAAAAAAA
* *
1770019 TTTGTATATTTTTTGTATATTTTTTGTATATCTT
1 TTTGTATATTTTTTGTATATTTTATATATATCTT
*
1770053 TTTGTATATTTTTT-TATGTTTTAATATATAT
1 TTTGTATATTTTTTGTATATTTT-ATATATAT
1770084 ATAGGTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 7 0.26
34 20 0.74
ACGTcount: A:0.22, C:0.02, G:0.08, T:0.69
Consensus pattern (34 bp):
TTTGTATATTTTTTGTATATTTTATATATATCTT
Found at i:1770489 original size:35 final size:35
Alignment explanation
Indices: 1770449--1770519 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
1770439 GGAGTGTGTG
*
1770449 ATGGTGTTGGTGGCAGACAGCATGGGAGAATGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAATGGGA
*
1770484 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAATGGGA
1770519 A
1 A
1770520 GAGGCAAGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.25, C:0.10, G:0.46, T:0.18
Consensus pattern (35 bp):
ATGGTGCTGGTGGCAGACAGCATGGGAGAATGGGA
Found at i:1770894 original size:44 final size:44
Alignment explanation
Indices: 1770831--1770929 Score: 101
Period size: 44 Copynumber: 2.2 Consensus size: 44
1770821 TGCATCTTCT
* * *
1770831 GATATATGCTTTGTGGCTTCAATCCACTTTAATGTAACTTCA-A
1 GATATAAGATTTGTAGCTTCAATCCACTTTAATGTAACTTCAGA
* ** * *
1770874 GGATATAAGATTTGTAGCTTCGATCTGCTTTACTGTGACTTCAGA
1 -GATATAAGATTTGTAGCTTCAATCCACTTTAATGTAACTTCAGA
*
1770919 AATATAAGATT
1 GATATAAGATT
1770930 AACAGCTTCA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
44 44 0.98
45 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (44 bp):
GATATAAGATTTGTAGCTTCAATCCACTTTAATGTAACTTCAGA
Found at i:1771460 original size:72 final size:72
Alignment explanation
Indices: 1771323--1772305 Score: 608
Period size: 72 Copynumber: 12.8 Consensus size: 72
1771313 CATGTGAACC
* * *
1771323 GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCAA
1771388 CGTGTCTT
65 CGTGTCTT
**
1771396 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
1771461 GTGTCTT
66 GTGTCTT
*
1771468 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
1771533 GTGTCTT
66 GTGTCTT
* *
1771540 GAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTGACGAACAGAAATTGAAA-AACAGAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTGAAATTAC-----
* * *
1771603 TTGAAAATACCTCAG-CGTGT
60 CT---CA-ACGT--GTC-T-T
* * * *
1771623 GA-GCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATGAACAGAAATTAAAAT
1 GAGGCTCA-ACT-----CACCTCTCGCAATATGAGTTGA--ATTTTGA-AAACAGAAATTGAAAT
*
1771687 TACCTCAACGTGTCCT
57 TACCTCAACGTGTCTT
* * * **
1771703 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGATGAACAGAAATTGAAA--AACAGA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-ATTTTGA-AAACAGAAATTGAAATTACCTCA
** *
1771766 AATTGAAAATACCT
64 ACGTG----T-CTT
* * * * * * * * * * * * *******
1771780 CAGCGCGTGAGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAA
1 GAG-GC-TCAACTCA-CCTC-TCGCA-ATAT-G-AGT-TGAATT-TTGAAAACAGAAA-------
* * *
1771845 ATTGAGAA-TACCTCAGCATGTGAAC-C
50 -TTGA-AATTACCTCA--ACGTG-TCTT
* * *
1771871 GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCTCA
1771936 ACGTGTCTT
64 ACGTGTCTT
**
1771945 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
1772010 GTGTCTT
66 GTGTCTT
1772017 GAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTGAAAACAGAAATTGAAATTACCTCAAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
1772081 GTGTCTT
66 GTGTCTT
* *
1772088 GAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTGACGAACAGAAATTGAAA-AACAGAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTGAAATTAC-----
* * *
1772151 TTGAAAATACCTCAG-CGTGT
60 CT---CA-ACGT--GTC-T-T
* * * *
1772171 GA-GCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATGAACAGAAATTAAAAT
1 GAGGCTCA-ACT-----CACCTCTCGCAATATGAGTTGA--ATTTTGA-AAACAGAAATTGAAAT
*
1772235 TACCTCAACGTGTCCT
57 TACCTCAACGTGTCTT
*
1772251 GAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTGACGAACAGAAATTGAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTGAAA
1772306 AACAGAAATT
Statistics
Matches: 724, Mismatches: 104, Indels: 165
0.73 0.10 0.17
Matches are distributed among these distances:
71 88 0.12
72 259 0.36
73 31 0.04
74 57 0.08
75 45 0.06
76 14 0.02
77 5 0.01
78 2 0.00
79 7 0.01
80 21 0.03
81 15 0.02
82 16 0.02
83 22 0.03
84 17 0.02
85 6 0.01
86 2 0.00
87 5 0.01
88 45 0.06
89 5 0.01
90 2 0.00
91 42 0.06
92 9 0.01
93 3 0.00
94 3 0.00
96 3 0.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (72 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
GTGTCTT
Found at i:1771598 original size:14 final size:14
Alignment explanation
Indices: 1771581--1771609 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1771571 GATTTTGACG
1771581 AACAGAAATTGAAA
1 AACAGAAATTGAAA
1771595 AACAGAAATTGAAA
1 AACAGAAATTGAAA
1771609 A
1 A
1771610 TACCTCAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:1771763 original size:14 final size:14
Alignment explanation
Indices: 1771746--1771774 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1771736 TTTTTTGATG
1771746 AACAGAAATTGAAA
1 AACAGAAATTGAAA
1771760 AACAGAAATTGAAA
1 AACAGAAATTGAAA
1771774 A
1 A
1771775 TACCTCAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:1771812 original size:165 final size:158
Alignment explanation
Indices: 1771435--1772306 Score: 817
Period size: 163 Copynumber: 5.6 Consensus size: 158
1771425 TTGAATTTTG
* *
1771435 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGGCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* *
1771500 ATTTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
66 ATTTTTGAAAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
*
1771565 TGAGTTGATTTTGACGAACAGAAATTGA
131 TGAGTTGATTTTGATGAACAGAAATTGA
* *
1771593 AAAACAGAAATTGAAAATACCTCAGCGTGTGAGC-TGAGACTCAACTCACCTCTCGCAATATGAG
1 AAAACAGAAATTGAAAATACCTCAAC--GTG-GCTTGAGGCTCAACTCACCTCTCGCAATATGAG
*
1771657 TTGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTC
63 TTGA--TTTTTGA-AAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTC
1771722 GCAATATGAGTTGATTTTTTGATGAACAGAAATTGA
125 GCAATATGAGTTGA--TTTTGATGAACAGAAATTGA
*
1771758 AAAACAGAAATTGAAAATACCTCAGCGCGTGAGC-TGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAACAGAAATTGAAAATACCTCA--ACGTG-GCTTGAGGCTCAACTCACCTCTCGCAATATGAG
* * *
1771822 TTGATTTTTTTTGAAAGACAGAAATTGAGAA-TACCTCAGCATGTGAACC-GAGGCTCAACTCAC
63 TTGA---TTTTTGAAA-ACAGAAATT-AAAATTACCTCA--ACGTG-TCCTGAGGCTCAACTCAC
*
1771885 CTCTCGCAATATAAGTTGATTTT--T---------TTG-
120 CTCTCGCAATATGAGTTGATTTTGATGAACAGAAATTGA
* **
1771912 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGGCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * *
1771977 AATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
66 ATTTTTGAAAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
1772042 TGAGTTGA---T--T---------TTG-
131 TGAGTTGATTTTGATGAACAGAAATTGA
* *
1772055 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGGCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * *
1772120 ATTTTGACGAACAGAAATTGAAAAACAGAAATTGAAAA-TACCTCAGCGTGTGAGCTGAGACTCA
66 A-TTT------------TTG-AAAACAGAAATT-AAAATTACCTCAACGTGT--CCTGAGGCTCA
1772184 ACTCACCTCTCGCAATATGAGTTGATTTT--T---------TTGA
114 ACTCACCTCTCGCAATATGAGTTGATTTTGATGAACAGAAATTGA
** * *
1772218 TGAACAGAAATT-AAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAACAGAAATTGAAAA-TACCTCAACGTGGCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
1772282 GA-TTTTGACGAACAGAAATTGAAAA
65 GATTTTTGA-AAACAGAAATT-AAAA
1772307 ACAGAAATTG
Statistics
Matches: 633, Mismatches: 39, Indels: 93
0.83 0.05 0.12
Matches are distributed among these distances:
143 68 0.11
144 2 0.00
145 1 0.00
146 36 0.06
147 2 0.00
148 17 0.03
149 26 0.04
151 1 0.00
152 36 0.06
154 24 0.04
155 3 0.00
156 3 0.00
157 24 0.04
158 27 0.04
159 33 0.05
160 36 0.06
161 3 0.00
162 15 0.02
163 120 0.19
164 1 0.00
165 83 0.13
166 29 0.05
167 5 0.01
168 36 0.06
169 2 0.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (158 bp):
AAAACAGAAATTGAAAATACCTCAACGTGGCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTGAAAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTGATGAACAGAAATTGA
Found at i:1771883 original size:78 final size:73
Alignment explanation
Indices: 1771758--1772472 Score: 526
Period size: 72 Copynumber: 9.2 Consensus size: 73
1771748 CAGAAATTGA
* *
1771758 AAAACAGAAATTGAAAATACCTCAGCGCGTGAGC-TGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAACAGAAATTG-AAATACCTCA--ACGTG-TCTTGAGGCTCAACTCACCTCTCGCAATATGAG
1771822 TTGATTTTTTTTG
62 TTGA-TTTTTTTG
* * * *
1771835 AAAGACAGAAATTGAGAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATAA
1 AAA-ACAGAAATTGA-AATACCTCA--ACGTG-TCTTGAGGCTCAACTCACCTCTCGCAATATGA
1771899 GTTGATTTTTTTG
61 GTTGATTTTTTTG
**
1771912 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
1771977 A--ATTTTG
65 ATTTTTTTG
1771984 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1772049 A---TTTTG
65 ATTTTTTTG
1772055 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1772120 A---TTTTG
65 ATTTTTTTG
* * * * * *
1772126 ACGAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAG-CGTGTGA-GCTGAGACTCAACTCA
1 A-AAACAGAAATTGAAATAC-----CT---CA-ACGT--GTC-T-TGAGGCT-C-----AACTCA
1772189 CCTCTCGCAATATGAGTTGATTTTTTTG
46 CCTCTCGCAATATGAGTTGATTTTTTTG
* * *
1772217 ATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 A-AAACAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1772282 GA---TTTTG
64 GATTTTTTTG
* * * * * * * *
1772289 ACGAACAGAAATTGAAAAACAGAAATTGGAAATACCTCAGCGCGTGA-GCTGAGACTCAACTCAC
1 A-AAACAGAAATTGAAATAC-----CT---CA-ACGT--G-TCTTGAGGCT-C-----AACTCAC
1772353 CTCTCGCAATATGAGTTGATTTTTTTG
47 CTCTCGCAATATGAGTTGATTTTTTTG
* * *
1772380 ATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 A-AAACAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1772445 GATTTTTTTTG
64 GA-TTTTTTTG
*
1772456 ATGAACAGAAATTGAAA
1 A-AAACAGAAATTGAAA
1772473 AACAGAAATT
Statistics
Matches: 536, Mismatches: 47, Indels: 111
0.77 0.07 0.16
Matches are distributed among these distances:
71 84 0.16
72 99 0.18
73 1 0.00
74 34 0.06
75 52 0.10
76 45 0.08
77 16 0.03
78 58 0.11
79 2 0.00
80 13 0.02
81 9 0.02
82 10 0.02
83 13 0.02
84 2 0.00
87 2 0.00
88 52 0.10
91 40 0.07
92 4 0.01
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (73 bp):
AAAACAGAAATTGAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTTTG
Found at i:1772146 original size:14 final size:14
Alignment explanation
Indices: 1772129--1772157 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1772119 GATTTTGACG
1772129 AACAGAAATTGAAA
1 AACAGAAATTGAAA
1772143 AACAGAAATTGAAA
1 AACAGAAATTGAAA
1772157 A
1 A
1772158 TACCTCAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:1772256 original size:163 final size:163
Alignment explanation
Indices: 1771984--1772546 Score: 933
Period size: 163 Copynumber: 3.5 Consensus size: 163
1771974 TTGAATTTTG
* * * *
1771984 AAAACAGAAATTGAAATTACCTCA--ACGTG-TCTTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAACAGAAATTGAAAATACCTCAGCGCGTGAGC-TGAGACTCAACTCACCTCTCGCAATATGAG
* * *
1772046 TTGA---TTTTGA-AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
65 TTGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTC
1772107 GCAATATGAGTTGATTTTGACGAACAGAAATTGA
130 GCAATATGAGTTGATTTTGACGAACAGAAATTGA
*
1772141 AAAACAGAAATTGAAAATACCTCAGCGTGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGT
1772206 TGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
66 TGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
1772271 CAATATGAGTTGATTTTGACGAACAGAAATTGA
131 CAATATGAGTTGATTTTGACGAACAGAAATTGA
*
1772304 AAAACAGAAATTGGAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGT
1772369 TGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
66 TGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
*
1772434 CAATATGAGTTGATTTTTTTTGATGAACAGAAATTGA
131 CAATATGAGTTGA----TTTTGACGAACAGAAATTGA
*
1772471 AAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGT
1772536 TGATTTTTTTG
66 TGATTTTTTTG
1772547 GTAGAATTTG
Statistics
Matches: 382, Mismatches: 13, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
157 23 0.06
159 36 0.09
160 1 0.00
162 6 0.02
163 223 0.58
167 93 0.24
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (163 bp):
AAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
CAATATGAGTTGATTTTGACGAACAGAAATTGA
Found at i:1772476 original size:14 final size:14
Alignment explanation
Indices: 1772459--1772487 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1772449 TTTTTTGATG
1772459 AACAGAAATTGAAA
1 AACAGAAATTGAAA
1772473 AACAGAAATTGAAA
1 AACAGAAATTGAAA
1772487 A
1 A
1772488 TACCTCAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:1772564 original size:548 final size:540
Alignment explanation
Indices: 1771219--1772473 Score: 1988
Period size: 548 Copynumber: 2.3 Consensus size: 540
1771209 GTAAATTGAA
* * * * *
1771219 AAAATACCACAGTGTGTGATCTGA-AGCTCAATTCACCTCTCGCAATATGAGTTGATTTTTTTTT
1 AAAATACCTCAGCGCGTGAGCTGAGA-CTCAACTCACCTCTCGCAATATGAGTTGA----TTTTT
* *
1771283 TTTGAAAGACAGAAATTGAGAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATA
61 TTTGAAAGACAGAAATTGAAAATACCTCA-CACGTGAACCGAGGCTCAACTCACCTCTCGCAATA
* **
1771348 TAAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTT
125 TAAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGGCTTGAGGCTCAACTCACCT
*
1771412 CTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAA
190 CTCGCAATATGAGTTGAATTTT---AACAG-AATAGAAATT--CT-AACGTGTCTTGAGGCTCAA
1771477 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGA
248 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGA
1771542 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAACAGAAATTGAAAAACAGAAATTGA
313 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAACAGAAATTGAAAAACAGAAATTGA
1771607 AAATACCTCAGCGTGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATG
378 AAATACCTCAGCGTGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATG
1771672 AACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
443 AACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
*
1771737 TTTTTGATGAACAGAAATTGAAAAACAGAAATTG
507 TTTTTGACGAACAGAAATTGAAAAACAGAAATTG
*
1771771 AAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGA
1 AAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGA
* *
1771836 AAGACAGAAATTGAGAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGT
66 AAGACAGAAATTGAAAATACCTCA-CACGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGT
* **
1771901 TGATTTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
130 TGATTTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGGCTTGAGGCTCAACTCACCTCTCGC
*
1771966 AATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCAC
195 AATATGAGTTGAATTTT---AACAG-AATAGAAATT--CT-AACGTGTCTTGAGGCTCAACTCAC
1772031 CTCTCGCAATATGAGTTGA-TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTC
253 CTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTC
1772095 AACTCACCTCTCGCAATATGAGTTGATTTTGACGAACAGAAATTGAAAAACAGAAATTGAAAATA
318 AACTCACCTCTCGCAATATGAGTTGATTTTGACGAACAGAAATTGAAAAACAGAAATTGAAAATA
1772160 CCTCAGCGTGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATGAACAG
383 CCTCAGCGTGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATGAACAG
1772225 AAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTG
448 AAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1772289 ACGAACAGAAATTGAAAAACAGAAATTG
513 ACGAACAGAAATTGAAAAACAGAAATTG
*
1772317 GAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTG-
1 AAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGA
* * *
1772380 ATGAACAGAAATT-AAAATTACCTCA-ACGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGA
66 AAG-ACAGAAATTGAAAA-TACCTCACACGTGAACC-GAGGCTCAACTCACCTCTCGCAATATAA
*
1772442 GTTGATTTTTTTTGATGAACAGAAATTGAAAA
128 GTTGA-TTTTTTTGA-AAACAGAAATTGAAAA
1772474 ACAGAAATTG
Statistics
Matches: 681, Mismatches: 15, Indels: 21
0.95 0.02 0.03
Matches are distributed among these distances:
542 2 0.00
543 36 0.05
544 14 0.02
545 39 0.06
546 85 0.12
548 312 0.46
549 145 0.21
552 48 0.07
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (540 bp):
AAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGA
AAGACAGAAATTGAAAATACCTCACACGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTT
GATTTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGGCTTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGAATTTTAACAGAATAGAAATTCTAACGTGTCTTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACC
TCTCGCAATATGAGTTGATTTTGACGAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCG
TGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATGAACAGAAATTAAA
ATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACGAACAG
AAATTGAAAAACAGAAATTG
Found at i:1787330 original size:16 final size:16
Alignment explanation
Indices: 1787288--1787340 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 16
1787278 TAAACCGGTG
1787288 TATTAAAA-ACAAAGGA
1 TATTAAAATA-AAAGGA
* *
1787304 TA-TATAATAAAATGA
1 TATTAAAATAAAAGGA
1787319 TATTAAAAT-AAAGG-
1 TATTAAAATAAAAGGA
1787333 TATTAAAA
1 TATTAAAA
1787341 ACAGTAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
14 8 0.26
15 15 0.48
16 8 0.26
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.28
Consensus pattern (16 bp):
TATTAAAATAAAAGGA
Found at i:1787386 original size:3 final size:3
Alignment explanation
Indices: 1787378--1787440 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
1787368 ACAAGGATAT
1787378 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1787426 ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA
1787441 TTGAAACACA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1787550 original size:3 final size:3
Alignment explanation
Indices: 1787542--1787581 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
1787532 AATGTATTTC
*
1787542 AAT AAT AAT AAT AAT AAT AAG AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1787582 TTGAAATGCA
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:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:1788074 original size:11 final size:11
Alignment explanation
Indices: 1788058--1788092 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
1788048 GAAAAAAAAA
1788058 GAAGAGAGAGG
1 GAAGAGAGAGG
1788069 GAAGAGAGAGG
1 GAAGAGAGAGG
1788080 G-AGAGAGAAGG
1 GAAGAGAG-AGG
1788091 GA
1 GA
1788093 GGGGAATCCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.27
11 16 0.73
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAGG
Found at i:1788220 original size:24 final size:23
Alignment explanation
Indices: 1788188--1788245 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 23
1788178 AAAAAAAAAA
1788188 TTTGTATATTTTTTTGTATATCTT
1 TTTGTATATTTTTTTGTATAT-TT
*
1788212 TTTGTATATCTTTTTGTATATTT
1 TTTGTATATTTTTTTGTATATTT
*
1788235 TTT-TATGTTTT
1 TTTGTATATTTT
1788246 AATATATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 6 0.19
23 5 0.16
24 20 0.65
ACGTcount: A:0.16, C:0.03, G:0.09, T:0.72
Consensus pattern (23 bp):
TTTGTATATTTTTTTGTATATTT
Found at i:1788238 original size:12 final size:12
Alignment explanation
Indices: 1788188--1788237 Score: 84
Period size: 12 Copynumber: 4.2 Consensus size: 12
1788178 AAAAAAAAAA
*
1788188 TTTGTATATTTT
1 TTTGTATATCTT
1788200 TTTGTATATCTT
1 TTTGTATATCTT
1788212 TTTGTATATCTT
1 TTTGTATATCTT
1788224 TTTGTATAT-TT
1 TTTGTATATCTT
1788235 TTT
1 TTT
1788238 TATGTTTTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
11 5 0.14
12 32 0.86
ACGTcount: A:0.16, C:0.04, G:0.08, T:0.72
Consensus pattern (12 bp):
TTTGTATATCTT
Found at i:1788665 original size:35 final size:35
Alignment explanation
Indices: 1788625--1788695 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
1788615 GGAGTGTGTG
*
1788625 ATGGTGTTGGTGGCAGACAGCATGGGAGAATGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAATGGGA
*
1788660 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAATGGGA
1788695 A
1 A
1788696 GAGGCAAGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.25, C:0.10, G:0.46, T:0.18
Consensus pattern (35 bp):
ATGGTGCTGGTGGCAGACAGCATGGGAGAATGGGA
Found at i:1789747 original size:19 final size:22
Alignment explanation
Indices: 1789708--1789747 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
1789698 AGAAACCCAA
1789708 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
1789730 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
1789748 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:1789845 original size:27 final size:28
Alignment explanation
Indices: 1789808--1789947 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
1789798 AGCATGGCTG
* *
1789808 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
1789834 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
1789862 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
1789889 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
1789916 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
1789943 CCAGA
1 CCAGA
1789948 ACGCTTCCTC
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:1790079 original size:26 final size:27
Alignment explanation
Indices: 1790050--1790125 Score: 100
Period size: 26 Copynumber: 2.8 Consensus size: 27
1790040 TAAAATTAAC
*
1790050 CCTAGGGGTATAACAGTAATTTTGC-A
1 CCTAGGGGTATAACAGTAATTTTCCAA
1790076 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATAACAGTAATTTTCCA-A
* * *
1790104 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAACAGTAATTT
1790126 AGCTACTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 24 0.55
28 20 0.45
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (27 bp):
CCTAGGGGTATAACAGTAATTTTCCAA
Found at i:1791604 original size:26 final size:26
Alignment explanation
Indices: 1791566--1791649 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
1791556 CATGAAATTC
* *
1791566 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
1791592 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
1791618 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
1791644 TTATCA
1 TTATCA
1791650 ATTTGTACCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:1794637 original size:27 final size:27
Alignment explanation
Indices: 1794599--1794653 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
1794589 AGTTGCTTGC
1794599 TTATAAAAAAGAAAACCTTATCTTTCA
1 TTATAAAAAAGAAAACCTTATCTTTCA
1794626 TTATAAAAAAGAAAACCTTATCTTTCA
1 TTATAAAAAAGAAAACCTTATCTTTCA
1794653 T
1 T
1794654 AAAGATGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.47, C:0.15, G:0.04, T:0.35
Consensus pattern (27 bp):
TTATAAAAAAGAAAACCTTATCTTTCA
Found at i:1802591 original size:49 final size:49
Alignment explanation
Indices: 1802530--1802628 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
1802520 TAATGCAAGC
*
1802530 AATGTAAATAGAGAAGATCATATACAACAATAATTTTAACAGGTTAGTG
1 AATGCAAATAGAGAAGATCATATACAACAATAATTTTAACAGGTTAGTG
1802579 AATGCAAATAGAGAAGATCATATACAACAATAATTTTAACAGGTTAGTG
1 AATGCAAATAGAGAAGATCATATACAACAATAATTTTAACAGGTTAGTG
1802628 A
1 A
1802629 CTTGAATGAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.27
Consensus pattern (49 bp):
AATGCAAATAGAGAAGATCATATACAACAATAATTTTAACAGGTTAGTG
Found at i:1805814 original size:109 final size:109
Alignment explanation
Indices: 1805691--1806136 Score: 734
Period size: 109 Copynumber: 4.1 Consensus size: 109
1805681 TGGTGAGTTG
1805691 AATGTGTATGTGGACCAAATTTATATAATTTGTAAATGAGGAGGGTTAATTTTATTAAATTGTTA
1 AATGTGTATGTGGACCAAATTTATATAATTTGTAAATGAGGAGGGTTAATTTTATTAAATTGTTA
*
1805756 AGAACTAGGATCAAAATGATAAAATGTGTAATTGTCGATGACTA
66 AGAACTAGGATCAAAATGATAAAATGTGTAACTGTCGATGACTA
* *
1805800 AATGTGTATGTGGACCAAATTTATATAATTTCTAAATAAGGAGGGTTAATTTTATTAAATTGTTA
1 AATGTGTATGTGGACCAAATTTATATAATTTGTAAATGAGGAGGGTTAATTTTATTAAATTGTTA
1805865 AGAACTAGGATCAAAATGATAAAATGTGTAACTGTCGATGACTA
66 AGAACTAGGATCAAAATGATAAAATGTGTAACTGTCGATGACTA
*
1805909 AATGTGTATGTGGACCAAATTTAAATAATTTGTAAATGAGGAGGGTTAATTTTATTATTAAATTG
1 AATGTGTATGTGGACCAAATTTATATAATTTGTAAATGAGGAGGGTTAA--TT-TTATTAAATTG
*
1805974 TTAAGAACTAGGACCAAAATGATAAAATGTGTAACTGTCGATGACTA
63 TTAAGAACTAGGATCAAAATGATAAAATGTGTAACTGTCGATGACTA
* * *
1806021 AATGTGTATGTGGACCAAATTTATATAATTAGTAAATGTGGAGGGTTAATTTTATTAAATTATTA
1 AATGTGTATGTGGACCAAATTTATATAATTTGTAAATGAGGAGGGTTAATTTTATTAAATTGTTA
* * *
1806086 AGAATTTA-GA-CTAAAATGATAAAATGTGTAAGTGTTGATGACTA
66 AGAA-CTAGGATC-AAAATGATAAAATGTGTAACTGTCGATGACTA
1806130 AATGTGT
1 AATGTGT
1806137 TAATATATCA
Statistics
Matches: 318, Mismatches: 14, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
108 1 0.00
109 208 0.65
110 4 0.01
111 2 0.01
112 103 0.32
ACGTcount: A:0.39, C:0.06, G:0.20, T:0.36
Consensus pattern (109 bp):
AATGTGTATGTGGACCAAATTTATATAATTTGTAAATGAGGAGGGTTAATTTTATTAAATTGTTA
AGAACTAGGATCAAAATGATAAAATGTGTAACTGTCGATGACTA
Found at i:1806071 original size:221 final size:218
Alignment explanation
Indices: 1805691--1806136 Score: 734
Period size: 221 Copynumber: 2.0 Consensus size: 218
1805681 TGGTGAGTTG
*
1805691 AATGTGTATGTGGACCAAATTTATATAATTTGTAAATGAGGAGGGTTAATTTTATTAAATTGTTA
1 AATGTGTATGTGGACCAAATTTAAATAATTTGTAAATGAGGAGGGTTAATTTTATTAAATTGTTA
* *
1805756 AGAACTAGGATCAAAATGATAAAATGTGTAATTGTCGATGACTAAATGTGTATGTGGACCAAATT
66 AGAACTAGGACCAAAATGATAAAATGTGTAACTGTCGATGACTAAATGTGTATGTGGACCAAATT
* *
1805821 TATATAATTTCTAAATAAGGAGGGTTAATTTTATTAAATTGTTAAGAA-CTAGGA-TCAAAATGA
131 TATATAATTACTAAATAAGGAGGGTTAATTTTATTAAATTATTAAGAATCTA-GACT-AAAATGA
1805884 TAAAATGTGTAACTGTCGATGACTA
194 TAAAATGTGTAACTGTCGATGACTA
1805909 AATGTGTATGTGGACCAAATTTAAATAATTTGTAAATGAGGAGGGTTAATTTTATTATTAAATTG
1 AATGTGTATGTGGACCAAATTTAAATAATTTGTAAATGAGGAGGGTTAA--TT-TTATTAAATTG
1805974 TTAAGAACTAGGACCAAAATGATAAAATGTGTAACTGTCGATGACTAAATGTGTATGTGGACCAA
63 TTAAGAACTAGGACCAAAATGATAAAATGTGTAACTGTCGATGACTAAATGTGTATGTGGACCAA
* ** *
1806039 ATTTATATAATTAGTAAATGTGGAGGGTTAATTTTATTAAATTATTAAGAATTTAGACTAAAATG
128 ATTTATATAATTACTAAATAAGGAGGGTTAATTTTATTAAATTATTAAGAATCTAGACTAAAATG
* *
1806104 ATAAAATGTGTAAGTGTTGATGACTA
193 ATAAAATGTGTAACTGTCGATGACTA
1806130 AATGTGT
1 AATGTGT
1806137 TAATATATCA
Statistics
Matches: 212, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
218 48 0.23
220 2 0.01
221 159 0.75
222 3 0.01
ACGTcount: A:0.39, C:0.06, G:0.20, T:0.36
Consensus pattern (218 bp):
AATGTGTATGTGGACCAAATTTAAATAATTTGTAAATGAGGAGGGTTAATTTTATTAAATTGTTA
AGAACTAGGACCAAAATGATAAAATGTGTAACTGTCGATGACTAAATGTGTATGTGGACCAAATT
TATATAATTACTAAATAAGGAGGGTTAATTTTATTAAATTATTAAGAATCTAGACTAAAATGATA
AAATGTGTAACTGTCGATGACTA
Found at i:1811984 original size:26 final size:26
Alignment explanation
Indices: 1811945--1812054 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
1811935 TGATACAAAT
1811945 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
* *
1811971 TGATAATAGATTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
1811997 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
1812023 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
1812049 TGATAA
1 TGATAA
1812055 GAATTTCATG
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:1813715 original size:27 final size:27
Alignment explanation
Indices: 1813672--1813813 Score: 178
Period size: 27 Copynumber: 5.3 Consensus size: 27
1813662 TGGAGGAAGC
*
1813672 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
* *
1813699 GATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
* *
1813726 GTTCTGGTGGCTCTACCACATATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
* *
1813753 GTTCTGGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
* * *
1813780 GTATCTGGTGACTCTGTCAC-ATTATCT
1 GT-TCTGGTGGCTCTGCCACAAATATCT
1813807 GTTCTGG
1 GTTCTGG
1813814 CAGCCATGCT
Statistics
Matches: 103, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
26 5 0.05
27 83 0.81
28 15 0.15
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.37
Consensus pattern (27 bp):
GTTCTGGTGGCTCTGCCACAAATATCT
Found at i:1813759 original size:54 final size:54
Alignment explanation
Indices: 1813672--1813813 Score: 198
Period size: 54 Copynumber: 2.6 Consensus size: 54
1813662 TGGAGGAAGC
* * *
1813672 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCAC-ATATATCT
1 GTTCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGAT-TATCT
*
1813726 GTTCTGGTGGCTCTACCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCT
* *
1813780 GTATCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 GT-TCTGGTGGCTCTGCCACATATATCTGTTCTGG
1813814 CAGCCATGCT
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
54 61 0.77
55 18 0.23
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCT
Found at i:1819185 original size:26 final size:26
Alignment explanation
Indices: 1819149--1819284 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
1819139 TGATACAAAT
* *
1819149 TGATAATAGGTTAGGTAAACGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
1819175 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
1819201 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
1819227 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
1819253 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
1819279 TGATAA
1 TGATAA
1819285 GAATATCATG
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 105 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:1821321 original size:136 final size:137
Alignment explanation
Indices: 1821072--1821357 Score: 493
Period size: 136 Copynumber: 2.1 Consensus size: 137
1821062 GAGTAGTCTC
*
1821072 CCCAAATGGGCTTGTATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* * * *
1821137 TGTTATTTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGGAAAGGGCTTTGGCCCAGTATC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
1821202 ACTGTTA
131 ACTGTTA
*
1821209 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1821273 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
1821338 ACTGTTA
131 ACTGTTA
**
1821345 CCTGAATGGGCTT
1 CCCAAATGGGCTT
1821358 AGGCCCAATA
Statistics
Matches: 141, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
136 122 0.87
137 19 0.13
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:1826979 original size:46 final size:45
Alignment explanation
Indices: 1826926--1827182 Score: 250
Period size: 46 Copynumber: 5.6 Consensus size: 45
1826916 TTTGTGTGCC
*
1826926 AGTGTAAGACATGTCTGGGATATGCATCGGCCACATTATGATAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGATAGCT
* * * **
1826972 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGAGACGAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA--CATATGATAGCT
* * *
1827020 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGATAGCT
* * * ** *
1827066 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATTTTAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATATGATAGCT
* * * *
1827112 AGTGTCAGACATGTCTGGGACATGCGTCGGCTACGAGATG-T-GCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATATGATAGCT
1827156 AGTGTAAGACATGTCTGGGACATGCAT
1 AGTGTAAGACATGTCTGGGACATGCAT
1827183 TGGCACGGTT
Statistics
Matches: 176, Mismatches: 28, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
44 27 0.15
45 2 0.01
46 92 0.52
47 32 0.18
48 22 0.12
49 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATATGATAGCT
Found at i:1827045 original size:94 final size:91
Alignment explanation
Indices: 1826923--1827187 Score: 309
Period size: 94 Copynumber: 2.9 Consensus size: 91
1826913 ATTTTTGTGT
*
1826923 GCCAGTGTAAGACATGTCTGGGATATGCATCGGCCACATTATGATAGCTAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGATAGCTAGTGTAAGA-CATGTC
* *
1826988 TGGGACATGGCATCGGCATTGAGACGAGG
64 TGGGACAT-GCATCGGCATCGAGACGAGA
* * * *
1827017 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCCAGTGTAAGACATGTCT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGATAGCTAGTGTAAGACATGTCT
* * ****
1827082 AGGACATGCATCGGCCTCGAGATTTTA
65 GGGACATGCATCGGCATCGAGACGAGA
* * * *
1827109 GCCAGTGTCAGACATGTCTGGGACATGCGTCGGCTACGAGATG-T-GCTAGTGTAAGACATGTCT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATATGATAGCTAGTGTAAGACATGTCT
*
1827172 GGGACATGCATTGGCA
65 GGGACATGCATCGGCA
1827188 CGGTTACATG
Statistics
Matches: 145, Mismatches: 25, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
90 31 0.21
92 48 0.33
93 14 0.10
94 52 0.36
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (91 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATATGATAGCTAGTGTAAGACATGTCTG
GGACATGCATCGGCATCGAGACGAGA
Found at i:1827211 original size:136 final size:139
Alignment explanation
Indices: 1826923--1827182 Score: 343
Period size: 140 Copynumber: 1.9 Consensus size: 139
1826913 ATTTTTGTGT
* * *
1826923 GCCAGTGTAAGACATGTCTGGGATATGCATCGGCCACATTATGATAGCTAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGATAGCCAGTGTAAGACCATGTC
1826988 TGGGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCA
66 TGGGACATGGCATCGGCA-TGAGACGAGGGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCA
*
1827053 CAGTATGAGA
130 CAGTATCAGA
* * ** *
1827063 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGA-GATTTTAGCCAGTGTCAGA-CATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGATAGCCAGTGTAAGACCATGT
* *
1827126 CTGGGACAT-GCGTCGGC-T-ACGA-GATGTGCTAGTGTAAGACATGTCTGGGACATGCAT
65 CTGGGACATGGCATCGGCATGA-GACGA-GGGCTAGTGTAAGACATGTCTGGGACATGCAT
1827183 TGGCACGGTT
Statistics
Matches: 107, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
135 3 0.03
136 34 0.32
138 7 0.07
139 14 0.13
140 48 0.45
141 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (139 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGATAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGGCATGAGACGAGGGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC
AGTATCAGA
Found at i:1840149 original size:2 final size:2
Alignment explanation
Indices: 1840136--1840176 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
1840126 ATGACATCAT
*
1840136 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1840177 TGAATTCAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:1842422 original size:21 final size:20
Alignment explanation
Indices: 1842398--1842438 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1842388 AATTCTTCTC
*
1842398 TTTTGCTTCTCTTTCCATCTA
1 TTTTGCTTCAC-TTCCATCTA
*
1842419 TTTTTCTTCACTTCCATCTA
1 TTTTGCTTCACTTCCATCTA
1842439 CTAGTTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.12, C:0.29, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTTGCTTCACTTCCATCTA
Found at i:1842498 original size:29 final size:29
Alignment explanation
Indices: 1842456--1842514 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
1842446 CTTGCTTCTA
1842456 AATTGATGAACATACTCTCTAAAATCTTT
1 AATTGATGAACATACTCTCTAAAATCTTT
*
1842485 AATTGATGAACATACTCTCTAAGATCTTT
1 AATTGATGAACATACTCTCTAAAATCTTT
1842514 A
1 A
1842515 CTTTCATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.37
Consensus pattern (29 bp):
AATTGATGAACATACTCTCTAAAATCTTT
Found at i:1843928 original size:34 final size:34
Alignment explanation
Indices: 1843890--1843972 Score: 107
Period size: 34 Copynumber: 2.5 Consensus size: 34
1843880 AGAAAGAATC
1843890 TTACCTTAAAAAACATTATTTTTCACGCCATGCT
1 TTACCTTAAAAAACATTATTTTTCACGCCATGCT
* * * *
1843924 TTACCTTTAAAAGCATTGTTTTTCACGCTATGCT
1 TTACCTTAAAAAACATTATTTTTCACGCCATGCT
*
1843958 TT-TC-TAAAAAACATT
1 TTACCTTAAAAAACATT
1843973 TTCTTCTTTG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
32 9 0.21
33 1 0.02
34 32 0.76
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.41
Consensus pattern (34 bp):
TTACCTTAAAAAACATTATTTTTCACGCCATGCT
Found at i:1846621 original size:2 final size:2
Alignment explanation
Indices: 1846614--1846638 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1846604 GTATCGTAGC
1846614 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1846639 ATTATAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1847127 original size:114 final size:114
Alignment explanation
Indices: 1846984--1847250 Score: 444
Period size: 114 Copynumber: 2.3 Consensus size: 114
1846974 GGTTGTAATG
* **
1846984 AATTCCAATTAATGGAAGAATTGGTTTGGTTTGATTTGATAATATATTATTGGTTTTTATGTTAT
1 AATTTCAATTAATGGAAGAATTGGTTTGGTTTGATTTGATAATATATTATTACTTTTTATGTTAT
* * **
1847049 TAGGTAATGTTTTTAGAACCGGATCAATAGTCGAACCAGTCATGTCATC
66 TAGGTAATGTCTTCAGAACCAAATCAATAGTCGAACCAGTCATGTCATC
*
1847098 AATTTCAATTAATGGAAGAATTGGTTTGGTTTGATTTGATAATATTTTATTACTTTTTATGTTAT
1 AATTTCAATTAATGGAAGAATTGGTTTGGTTTGATTTGATAATATATTATTACTTTTTATGTTAT
* *
1847163 TAGGTAATGTCTTCAGAACCAAATTAATAGTTGAACCAGTCATGTCATC
66 TAGGTAATGTCTTCAGAACCAAATCAATAGTCGAACCAGTCATGTCATC
1847212 AATTTCAATTAATGGAAGAATTGGTTTGGTTTGATTTGA
1 AATTTCAATTAATGGAAGAATTGGTTTGGTTTGATTTGA
1847251 ATCAAAGTTT
Statistics
Matches: 143, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 143 1.00
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (114 bp):
AATTTCAATTAATGGAAGAATTGGTTTGGTTTGATTTGATAATATATTATTACTTTTTATGTTAT
TAGGTAATGTCTTCAGAACCAAATCAATAGTCGAACCAGTCATGTCATC
Found at i:1847438 original size:24 final size:24
Alignment explanation
Indices: 1847411--1847458 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
1847401 TTATCTTTTT
*
1847411 ATATGTAGTATGTACATA-TTTTCA
1 ATAT-TAGTATGTAAATACTTTTCA
*
1847435 ATATTATTATGTAAATACTTTTCA
1 ATATTAGTATGTAAATACTTTTCA
1847459 TTCCTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.48
Consensus pattern (24 bp):
ATATTAGTATGTAAATACTTTTCA
Found at i:1856976 original size:21 final size:21
Alignment explanation
Indices: 1856952--1856995 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1856942 GAATCTTTAG
*
1856952 TATTTATTGTATCATTT-TATT
1 TATTTAAT-TATCATTTCTATT
*
1856973 TATTTAATTATCCTTTCTATT
1 TATTTAATTATCATTTCTATT
1856994 TA
1 TA
1856996 ATTAGGTCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTTAATTATCATTTCTATT
Found at i:1862668 original size:26 final size:26
Alignment explanation
Indices: 1862631--1862714 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
1862621 TGATACAAAT
*
1862631 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
1862657 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
1862683 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
1862709 TGATAA
1 TGATAA
1862715 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:1864174 original size:26 final size:26
Alignment explanation
Indices: 1864098--1864229 Score: 209
Period size: 26 Copynumber: 5.2 Consensus size: 26
1864088 TGATACAAAT
1864098 TGATAATAGGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
1864123 T-ATAATAGGTTAGGT-AATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
1864147 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
1864173 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
1864198 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
1864224 TGATAA
1 TGATAA
1864230 GAATTTCATG
Statistics
Matches: 102, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
23 6 0.06
24 17 0.17
25 39 0.38
26 40 0.39
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:1864200 original size:51 final size:50
Alignment explanation
Indices: 1864098--1864229 Score: 205
Period size: 51 Copynumber: 2.6 Consensus size: 50
1864088 TGATACAAAT
1864098 TGATAATAGGTTAGGTAAATGTTCAT-ATAATAGGTTAGGTAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCATGATAATAGGTTAGGTAATGTTCCA
*
1864147 TGATAATAGGTTAGGTAAATGTTCCATGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTT-CATGATAATAGGTTAGGT-AATGTTCCA
*
1864198 TGATAATGGGTTAGGTAAATGTTTCATGATAA
1 TGATAATAGGTTAGGTAAATG-TTCATGATAA
1864230 GAATTTCATG
Statistics
Matches: 77, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
49 23 0.30
50 11 0.14
51 41 0.53
52 2 0.03
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.37
Consensus pattern (50 bp):
TGATAATAGGTTAGGTAAATGTTCATGATAATAGGTTAGGTAATGTTCCA
Found at i:1869962 original size:20 final size:22
Alignment explanation
Indices: 1869939--1870010 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 22
1869929 GATAATAGGT
1869939 TAGGTA-AATGTT-CATGATAA
1 TAGGTAGAATGTTCCATGATAA
1869959 TAGGTTAGGTAATGTTCCATGATAA
1 TAGG-TA-G-AATGTTCCATGATAA
1869984 TAGGTTAGGTAAATGTTCCATGATAA
1 TAGG-TA-G--AATGTTCCATGATAA
1870010 T
1 T
1870011 GGGTTAGGTA
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
20 4 0.09
21 2 0.04
24 6 0.13
25 17 0.38
26 16 0.36
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.36
Consensus pattern (22 bp):
TAGGTAGAATGTTCCATGATAA
Found at i:1870005 original size:26 final size:26
Alignment explanation
Indices: 1869928--1870061 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
1869918 TGATACAAAT
1869928 TGATAATAGGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
1869953 TGATAATAGGTTAGGT-AATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
1869978 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
1870004 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
1870030 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
1870056 TGATAA
1 TGATAA
1870062 GAATTTCATG
Statistics
Matches: 105, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
24 6 0.06
25 34 0.32
26 65 0.62
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:1873687 original size:136 final size:137
Alignment explanation
Indices: 1873442--1873723 Score: 496
Period size: 136 Copynumber: 2.1 Consensus size: 137
1873432 AGTCTCCCCA
*
1873442 AATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGTT
1 AATGGGCTTGCATATGTTTACTGATGTTGCATGCATTTTGAAATGGGCCTATGGGCCATACTGTT
* *
1873507 ATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCATTG
66 ATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTGGCCCAGTACCACTG
1873572 TTACCCT-
131 TTA-CCTG
*
1873579 AATGGGCTTGCATATGTTTACTGATGTTGCATGCA-TTTGGAATGGGCCTATGGGCCATACTGTT
1 AATGGGCTTGCATATGTTTACTGATGTTGCATGCATTTTGAAATGGGCCTATGGGCCATACTGTT
1873643 ATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTGGCCCAGTACCACTG
66 ATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTGGCCCAGTACCACTG
*
1873708 TTATCTG
131 TTACCTG
1873715 AATGGGCTT
1 AATGGGCTT
1873724 AGGCCCAATA
Statistics
Matches: 139, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
135 2 0.01
136 103 0.74
137 34 0.24
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (137 bp):
AATGGGCTTGCATATGTTTACTGATGTTGCATGCATTTTGAAATGGGCCTATGGGCCATACTGTT
ATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTGGCCCAGTACCACTG
TTACCTG
Found at i:1878375 original size:76 final size:74
Alignment explanation
Indices: 1878275--1878508 Score: 366
Period size: 73 Copynumber: 3.2 Consensus size: 74
1878265 TGATGTTTTT
* *
1878275 ATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGG
1 ATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1878340 TAATTTTCA
66 TAATTTTCA
*
1878349 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGATACGCTGA
1 ATTTCTGT-TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
1878414 GGTAA-TTTCA
64 GGTAATTTTCA
* *
1878424 ATTTCTGTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGGCACGCTGAG
1 ATTTCTGTTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1878488 GT-ATTTTCA
65 GTAATTTTCA
*
1878497 ATTTCTGCTTTC
1 ATTTCTGTTTTC
1878509 CAATTTCTGC
Statistics
Matches: 149, Mismatches: 7, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
72 3 0.02
73 64 0.43
74 10 0.07
75 19 0.13
76 53 0.36
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.33
Consensus pattern (74 bp):
ATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
TAATTTTCA
Found at i:1878514 original size:14 final size:14
Alignment explanation
Indices: 1878495--1878521 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1878485 GAGGTATTTT
1878495 CAATTTCTGCTTTC
1 CAATTTCTGCTTTC
1878509 CAATTTCTGCTTT
1 CAATTTCTGCTTT
1878522 TCAAAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.26, G:0.07, T:0.52
Consensus pattern (14 bp):
CAATTTCTGCTTTC
Found at i:1878573 original size:89 final size:87
Alignment explanation
Indices: 1878422--1878677 Score: 345
Period size: 89 Copynumber: 2.9 Consensus size: 87
1878412 GAGGTAATTT
* *
1878422 CAATTTCTG-TTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGGCACGCTG
1 CAATTTCTGCTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
1878486 AGGTATTTTCAATTTCTGCTTTC
65 AGGTATTTTCAATTTCTGCTTTC
*
1878509 CAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAAACGCT
1 CAATTTCTGCTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
* * *
1878574 GAGGTATTTTTAATTTCTGTTTTT
64 GAGGTATTTTCAATTTCTGCTTTC
* * * * * *
1878598 CAA-TTATGCTTTTCAAAAATCAATTCATATTGCTAGAGGTGAGTTGAGCCTCGGGTCACATGCC
1 CAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCT
1878662 GAGGTATTTTCAATTT
64 GAGGTATTTTCAATTT
1878678 ATGTTTCAAG
Statistics
Matches: 150, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
86 38 0.25
87 11 0.07
88 32 0.21
89 69 0.46
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (87 bp):
CAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
GGTATTTTCAATTTCTGCTTTC
Done.