Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008229.1 Hibiscus syriacus cultivar Beakdansim tig00110865_pilon, whole genome shotgun sequence
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: 3634043
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 17
Found at i:1814802 original size:56 final size:56
Alignment explanation
Indices: 1814712--1814840 Score: 213
Period size: 56 Copynumber: 2.3 Consensus size: 56
1814702 TTTTACAGGT
*
1814712 TGTTCCTTGTTTGACCGTTTCATGCTCTCATGCACTACACTGACCATTTCACTGGC
1 TGTTCCTTGTTTGACCGTTTCATACTCTCATGCACTACACTGACCATTTCACTGGC
* * * *
1814768 TGTTCCTTGTTTGATCGTTTCATACTCTCGTGCACTACGCTGACCATTTCACTGGT
1 TGTTCCTTGTTTGACCGTTTCATACTCTCATGCACTACACTGACCATTTCACTGGC
1814824 TGTTCCTTGTTTGACCG
1 TGTTCCTTGTTTGACCG
1814841 GTGTGACTTG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 67 1.00
ACGTcount: A:0.14, C:0.28, G:0.18, T:0.40
Consensus pattern (56 bp):
TGTTCCTTGTTTGACCGTTTCATACTCTCATGCACTACACTGACCATTTCACTGGC
Found at i:1815424 original size:60 final size:60
Alignment explanation
Indices: 1815357--1815526 Score: 232
Period size: 60 Copynumber: 2.8 Consensus size: 60
1815347 GCGAATATGA
* *
1815357 AAATCGCAACGCGAACACATAAATCGCAATGCGTATCCGTAAATCGCAATGTGTATCCGT
1 AAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGTAAATCGCAATGCGTATCCGT
* *** * *
1815417 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTATATCGCAATGCGTATCGGT
1 AAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGTAAATCGCAATGCGTATCCGT
** *
1815477 AAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTAAATCGCAA
1 AAATCGCAACGCGAATACAT-AAATCGCAATGCGTATCCGTAAATCGCAA
1815527 CGCGATATTT
Statistics
Matches: 93, Mismatches: 16, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
60 66 0.71
61 27 0.29
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (60 bp):
AAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGTAAATCGCAATGCGTATCCGT
Found at i:1815527 original size:20 final size:20
Alignment explanation
Indices: 1815337--1815530 Score: 185
Period size: 20 Copynumber: 9.7 Consensus size: 20
1815327 GATTTTCCAA
* ** *
1815337 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
1815357 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
*
1815377 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* *
1815397 AAATCGCAATGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
1815417 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
1815437 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
1815457 ATATCGCAATGCGTATCGGT
1 AAATCGCAACGCGTATCCGT
* * *
1815477 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
1815497 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
1815518 AAATCGCAACGCG
1 AAATCGCAACGCG
1815531 ATATTTAAAG
Statistics
Matches: 142, Mismatches: 27, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
19 2 0.01
20 122 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.21
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:1815952 original size:33 final size:33
Alignment explanation
Indices: 1815913--1815983 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
1815903 TTCACTTAGA
1815913 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
1815946 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1815979 TTTCA
1 TTTCA
1815984 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:1816120 original size:19 final size:20
Alignment explanation
Indices: 1816063--1816137 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
1816053 TGCAGAAGAG
* *
1816063 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGACAA
**
1816084 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGACAA
*
1816104 TCGCAACGCGA-AATGACAA
1 TCGCAACGAGAGAATGACAA
1816123 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
1816138 CGCAACGCGA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
19 16 0.36
20 18 0.40
21 11 0.24
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.13
Consensus pattern (20 bp):
TCGCAACGAGAGAATGACAA
Found at i:1816140 original size:14 final size:14
Alignment explanation
Indices: 1816121--1816177 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1816111 GCGAAATGAC
1816121 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1816135 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
1816154 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1816168 AATCGCAACG
1 AATCGCAACG
1816178 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1816146 original size:33 final size:33
Alignment explanation
Indices: 1816075--1816193 Score: 157
Period size: 33 Copynumber: 3.4 Consensus size: 33
1816065 GCAACGAGAT
1816075 AAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGCG
1 AAATGAAAATCGCAACGAGAG-A--A---TCGCAACGCG
*
1816114 AAATGACAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1816147 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
**
1816180 AAACCAAAATCGCA
1 AAATGAAAATCGCA
1816194 TTGCGATTTT
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
33 54 0.71
36 1 0.01
38 1 0.01
39 20 0.26
ACGTcount: A:0.45, C:0.23, G:0.23, T:0.10
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:1816159 original size:19 final size:19
Alignment explanation
Indices: 1816075--1816163 Score: 80
Period size: 19 Copynumber: 4.9 Consensus size: 19
1816065 GCAACGAGAT
*
1816075 AAATGAAAATCGCAACGAG
1 AAATGAAAATCGCAACGCG
***
1816094 AGAATGACTGTCGCAACGCG
1 A-AATGAAAATCGCAACGCG
*
1816114 AAATGACAATCGCAA--CG
1 AAATGAAAATCGCAACGCG
*
1816131 --A-GAGAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
1816147 AAATGAAAATCGCAACG
1 AAATGAAAATCGCAACG
1816164 AGAGAATCGC
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 25 0.45
20 15 0.27
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.11
Consensus pattern (19 bp):
AAATGAAAATCGCAACGCG
Found at i:1816233 original size:14 final size:14
Alignment explanation
Indices: 1816211--1816300 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
1816201 TTTTATTTCG
*
1816211 CGTTACGATTCTCT
1 CGTTGCGATTCTCT
*
1816225 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1816244 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1816258 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
1816277 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1816291 CGTTGCGATT
1 CGTTGCGATT
1816301 TTCATTTCAA
Statistics
Matches: 61, Mismatches: 5, Indels: 20
0.71 0.06 0.23
Matches are distributed among these distances:
14 29 0.48
15 1 0.02
16 5 0.08
17 5 0.08
18 1 0.02
19 20 0.33
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1816236 original size:33 final size:33
Alignment explanation
Indices: 1816194--1816308 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
1816184 CAAAATCGCA
* *
1816194 TTGCGATTTTTATTTCGCGTTACGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1816227 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
1816260 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1816293 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
1816309 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.23, G:0.20, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:1816249 original size:19 final size:19
Alignment explanation
Indices: 1816189--1816286 Score: 72
Period size: 19 Copynumber: 5.7 Consensus size: 19
1816179 GAAACCAAAA
* *
1816189 TCGCATTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
*
1816208 TCGCGTTACGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
1816222 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1816241 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
1816255 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
1816274 TCGCGTTGCGATT
1 TCGCGTTGCGATT
1816287 CTCTCGTTGC
Statistics
Matches: 60, Mismatches: 9, Indels: 20
0.67 0.10 0.22
Matches are distributed among these distances:
14 19 0.32
16 5 0.08
17 5 0.08
19 31 0.52
ACGTcount: A:0.11, C:0.22, G:0.21, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1818165 original size:93 final size:93
Alignment explanation
Indices: 1818006--1818474 Score: 913
Period size: 93 Copynumber: 5.1 Consensus size: 93
1817996 TAGATTGCTT
*
1818006 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1818071 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1818099 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1818164 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1818192 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1818257 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1818285 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1818350 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
1818378 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTTTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1818443 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1818470 AGTAA
1 AGTAA
1818475 TGCAATCCAT
Statistics
Matches: 374, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 6 0.02
93 368 0.98
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:1818562 original size:19 final size:19
Alignment explanation
Indices: 1818538--1818650 Score: 120
Period size: 19 Copynumber: 6.5 Consensus size: 19
1818528 CACGAAAGTT
1818538 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACC
**
1818557 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAACC
1818576 AAAATCGCAA--CG--A-C
1 AAAATCGCAACGCGAAACC
*
1818590 AGAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACC
1818609 AAAATCGCAA--CG--A-C
1 AAAATCGCAACGCGAAACC
*
1818623 AAGATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACC
1818642 AAAATCGCA
1 AAAATCGCA
1818651 TTGCGATTTT
Statistics
Matches: 77, Mismatches: 7, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
14 19 0.25
15 2 0.03
16 4 0.05
17 4 0.05
18 2 0.03
19 46 0.60
ACGTcount: A:0.47, C:0.28, G:0.18, T:0.07
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACC
Found at i:1818601 original size:33 final size:32
Alignment explanation
Indices: 1818558--1818650 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
1818548 CGCGAAACCA
**
1818558 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
1818590 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
1818623 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
1818651 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:1818648 original size:52 final size:51
Alignment explanation
Indices: 1818538--1818650 Score: 131
Period size: 52 Copynumber: 2.2 Consensus size: 51
1818528 CACGAAAGTT
* *
1818538 AAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAAGCGAAAC-AC
* * *
1818590 AGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGATCGCAACGCGAAAC-C
1 AAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-AT-GAAAAGCGAAACAC
1818642 AAAATCGCA
1 AAAATCGCA
1818651 TTGCGATTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
52 41 0.79
53 3 0.06
54 8 0.15
ACGTcount: A:0.47, C:0.28, G:0.18, T:0.07
Consensus pattern (51 bp):
AAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAAGCGAAACAC
Found at i:1818668 original size:19 final size:19
Alignment explanation
Indices: 1818646--1818780 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
1818636 GAAACCAAAA
*
1818646 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1818665 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
1818681 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
1818698 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
1818714 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
1818731 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
1818750 TCGCGTTGCGATTTTAACTT
1 TCGCGTTGCGATTTTCA-TT
*
1818770 TCGTGTTGCGA
1 TCGCGTTGCGA
1818781 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1818687 original size:14 final size:14
Alignment explanation
Indices: 1818668--1818724 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1818658 TTTCATTTCG
1818668 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
1818682 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
1818699 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
1818715 CGTTGCGATT
1 CGTTGCGATT
1818725 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:1818693 original size:33 final size:33
Alignment explanation
Indices: 1818651--1818743 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
1818641 CAAAATCGCA
*
1818651 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
1818684 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
1818717 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
1818744 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:1820723 original size:14 final size:14
Alignment explanation
Indices: 1820704--1820739 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1820694 ATTGTTTAAT
1820704 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
1820718 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
1820732 TGATTTGT
1 TGATTTGT
1820740 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1820862 original size:19 final size:19
Alignment explanation
Indices: 1820846--1820946 Score: 158
Period size: 19 Copynumber: 5.6 Consensus size: 19
1820836 AAAAATGACT
1820846 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1820865 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1820884 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1820898 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1820917 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1820936 ATCGCAATGCG
1 ATCGCAATGCG
1820947 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 10
0.86 0.02 0.11
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 59 0.79
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1820980 original size:14 final size:14
Alignment explanation
Indices: 1820961--1821015 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
1820951 TAATTTCGCA
*
1820961 TTGCGATTCTCTCG
1 TTGCGATTCTTTCG
1820975 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TTTCG
1820992 CATTGCGATTCTTTCG
1 --TTGCGATTCTTTCG
1821008 TTGCGATT
1 TTGCGATT
1821016 TTCATTTCGC
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 14 0.40
16 8 0.23
17 7 0.20
19 6 0.17
ACGTcount: A:0.11, C:0.22, G:0.20, T:0.47
Consensus pattern (14 bp):
TTGCGATTCTTTCG
Found at i:1820999 original size:19 final size:19
Alignment explanation
Indices: 1820975--1821214 Score: 332
Period size: 19 Copynumber: 13.4 Consensus size: 19
1820965 GATTCTCTCG
1820975 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1820994 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
1821008 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1821027 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1821046 TTGCGATTTTCA-TTCGCA
1 TTGCGATTTTCATTTCGCA
1821064 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1821083 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1821102 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1821121 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1821140 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
1821154 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
1821174 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
1821188 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
1821207 TTGCGATT
1 TTGCGATT
1821215 GTAATTTCCG
Statistics
Matches: 200, Mismatches: 4, Indels: 34
0.84 0.02 0.14
Matches are distributed among these distances:
14 23 0.12
16 17 0.09
17 14 0.07
18 21 0.10
19 113 0.56
20 12 0.06
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:1821052 original size:38 final size:36
Alignment explanation
Indices: 1820953--1821214 Score: 334
Period size: 33 Copynumber: 7.4 Consensus size: 36
1820943 TGCGTTTATA
*
1820953 ATTTCGCATTGCGA--TTC-TCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTTTCATTTCGTTGCGATTTTC
1820986 ATTTCGCATTGCGA--TTC-TTTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTTTCATTTCGTTGCGATTTTC
1821019 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTTTCATTTCG--TTGCGATTTTC
1821057 A-TTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTTTCATTTCG--TTGCGATTTTC
1821094 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTTTCATTTCG--TTGCGATTTTC
*
1821132 ATTTCGCATTGCGA--TTC-TCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTTTCATTTCGTTGCGATTTTC
*
1821165 ATTTCCGCATTGCGATTTTCA--T-GTTGGGATTTTC
1 ATTT-CGCATTGCGATTTTCATTTCGTTGCGATTTTC
*
1821199 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
1821215 GTAATTTCCG
Statistics
Matches: 215, Mismatches: 4, Indels: 20
0.90 0.02 0.08
Matches are distributed among these distances:
33 72 0.33
34 25 0.12
35 8 0.04
36 11 0.05
37 37 0.17
38 62 0.29
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (36 bp):
ATTTCGCATTGCGATTTTCATTTCGTTGCGATTTTC
Found at i:1823731 original size:24 final size:24
Alignment explanation
Indices: 1823697--1823743 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1823687 CTGAAACATC
1823697 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
1823721 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
1823744 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:1824454 original size:20 final size:20
Alignment explanation
Indices: 1824426--1824635 Score: 208
Period size: 20 Copynumber: 10.5 Consensus size: 20
1824416 AAATTTCAGT
* * *
1824426 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
1824446 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
1824466 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
1824486 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
1824506 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
1824526 GTTGCGATATACGGAAAT-GC
1 GTTGCGATTTACGG-ATTCGC
* *
1824546 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
1824566 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
1824586 ATTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
1824606 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
1824626 GTTGCGATTT
1 GTTGCGATTT
1824636 TGGAAAATCG
Statistics
Matches: 160, Mismatches: 26, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
19 1 0.01
20 157 0.98
21 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:1824652 original size:21 final size:20
Alignment explanation
Indices: 1824602--1824699 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
1824592 ATTTATGTGT
* * * *
1824602 TCGCGTTGCGATTTTCATAT
1 TCGCATTGCGATTTTGAAAA
*
1824622 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTT-GAAAA
* * **
1824643 TCGCAATGCGAATTTGACTA
1 TCGCATTGCGATTTTGAAAA
*
1824663 TCGCATTGCGATTTTCAAGAA
1 TCGCATTGCGATTTTGAA-AA
*
1824684 TCGCGTTGCGATTTTG
1 TCGCATTGCGATTTTG
1824700 GACACTGATT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 32 0.52
21 29 0.48
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTTGAAAA
Found at i:1824694 original size:41 final size:41
Alignment explanation
Indices: 1824602--1824758 Score: 110
Period size: 41 Copynumber: 3.9 Consensus size: 41
1824592 ATTTATGTGT
* * *
1824602 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
** *
1824643 TCGCAATGCGAATTTGACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGATTTTGA-TATTCGCATTGCGATTTTGCAA-AA
* * * ***
1824684 TCGCGTTGCGATTTTGGACACT-G-ATTTGCGATTCTG-GGGA
1 TCGCGTTGCGATTTT-GATATTCGCA-TTGCGATTTTGCAAAA
* *
1824724 TCGCGTTGCGATTTTTAT-TTCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTG
1824759 TTGGTCATTT
Statistics
Matches: 89, Mismatches: 19, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
38 1 0.01
39 12 0.13
40 19 0.21
41 52 0.58
42 5 0.06
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
Found at i:1824964 original size:72 final size:71
Alignment explanation
Indices: 1824840--1825074 Score: 262
Period size: 72 Copynumber: 3.2 Consensus size: 71
1824830 CGATTTTCTC
* *
1824840 TTTTT-AAAACTATATATTATATATGCTTTCAAAAAGTGTTTTCGAAACTATATAATATGCATGT
1 TTTTTCAAAACTATATA-TATATAT--TTTCAAAAATTGTTTTCAAAACTATATAATAT--ATGT
1824904 TTTCAAATATTA
61 TTTCAAA-ATTA
* ** *
1824916 TTTTTCAAAACTATATA-ATATA-TTTCAAAAATTGTTTAT-AAAATTATATGTTATACGTTTTC
1 TTTTTCAAAACTATATATATATATTTTCAAAAATTGTTT-TCAAAACTATATAATATATGTTTTC
*
1824978 AAAAATA
65 AAAATTA
* *
1824985 ATTTTCAAAACTATATATTATACATTTTCAAAAATTGTTTTCAAAACTATATAATATATGTTTTC
1 TTTTTCAAAACTATATA-TATATATTTTCAAAAATTGTTTTCAAAACTATATAATATATGTTTTC
*
1825050 AAAAATTG
65 -AAAATTA
*
1825058 TTTTTCAAAATTATATA
1 TTTTTCAAAACTATATA
1825075 ATACATATGT
Statistics
Matches: 135, Mismatches: 17, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
69 19 0.14
70 10 0.07
71 5 0.04
72 59 0.44
73 21 0.16
75 5 0.04
76 5 0.04
77 11 0.08
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (71 bp):
TTTTTCAAAACTATATATATATATTTTCAAAAATTGTTTTCAAAACTATATAATATATGTTTTCA
AAATTA
Found at i:1824978 original size:36 final size:36
Alignment explanation
Indices: 1824840--1825074 Score: 217
Period size: 36 Copynumber: 6.4 Consensus size: 36
1824830 CGATTTTCTC
* * * *
1824840 TTTTTAAAACTATATATTATATATGCTTTCAAAAAGTG
1 TTTTCAAAACTATATA-T-TATACGTTTTCAAAAATTG
* * * * *
1824878 TTTTCGAAACTATATAATATGCATGTTTTCAAATATTAT
1 TTTTCAAAACTATATATTAT--ACGTTTTCAAAAATT-G
*
1824917 TTTTCAAAACTATATAATATA---TTTCAAAAATTG
1 TTTTCAAAACTATATATTATACGTTTTCAAAAATTG
* * **
1824950 TTTAT-AAAATTATATGTTATACGTTTTCAAAAATAA
1 TTT-TCAAAACTATATATTATACGTTTTCAAAAATTG
*
1824986 TTTTCAAAACTATATATTATACATTTTCAAAAATTG
1 TTTTCAAAACTATATATTATACGTTTTCAAAAATTG
* *
1825022 TTTTCAAAACTATATAATATATGTTTTCAAAAATTG
1 TTTTCAAAACTATATATTATACGTTTTCAAAAATTG
*
1825058 TTTTTCAAAATTATATA
1 -TTTTCAAAACTATATA
1825075 ATACATATGT
Statistics
Matches: 164, Mismatches: 24, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
33 16 0.10
34 11 0.07
35 1 0.01
36 75 0.46
37 16 0.10
38 26 0.16
39 19 0.12
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (36 bp):
TTTTCAAAACTATATATTATACGTTTTCAAAAATTG
Found at i:1824997 original size:108 final size:107
Alignment explanation
Indices: 1824878--1825073 Score: 279
Period size: 108 Copynumber: 1.8 Consensus size: 107
1824868 TCAAAAAGTG
* * * *
1824878 TTTTCGAAACTATATAATATGCATGTTTTCAAATATTATTTTTCAAAACTATATAATATA-TTTC
1 TTTTCAAAACTATATAATATACA--TTTTCAAAAATT-GTTTTCAAAACTATATAATATATTTTC
1824942 AAAAATTGTTTAT-AAAATTATATGTTATACGTTTTCAAAAATAA
63 AAAAATTGTTTATCAAAATTATATGTTATACGTTTTCAAAAATAA
*
1824986 TTTTCAAAACTATATATTATACATTTTCAAAAATTGTTTTCAAAACTATATAATATATGTTTTCA
1 TTTTCAAAACTATATAATATACATTTTCAAAAATTGTTTTCAAAACTATATAATATA--TTTTCA
*
1825051 AAAATTGTTTTTCAAAATTATAT
64 AAAATTGTTTATCAAAATTATAT
1825074 AATACATATG
Statistics
Matches: 78, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
105 21 0.27
106 11 0.14
108 36 0.46
109 10 0.13
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (107 bp):
TTTTCAAAACTATATAATATACATTTTCAAAAATTGTTTTCAAAACTATATAATATATTTTCAAA
AATTGTTTATCAAAATTATATGTTATACGTTTTCAAAAATAA
Found at i:1836482 original size:28 final size:28
Alignment explanation
Indices: 1836441--1836513 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 28
1836431 TCCTTAAGGA
* *
1836441 GTGGTCCTTCGGGATATATATGTTATAT
1 GTGGTCCTTTGGGACATATATGTTATAT
1836469 GTGGTCCTTTGGGACATATATGTTATAT
1 GTGGTCCTTTGGGACATATATGTTATAT
**
1836497 GTAATCCTTTGGGACAT
1 GTGGTCCTTTGGGACAT
1836514 TTCTACGTGG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.22, C:0.12, G:0.25, T:0.41
Consensus pattern (28 bp):
GTGGTCCTTTGGGACATATATGTTATAT
Found at i:1839081 original size:23 final size:23
Alignment explanation
Indices: 1839046--1839105 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
1839036 AATCTTATAT
*
1839046 GGCACTACGGTGCAATTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
* ** *
1839069 GGCACTTCAGTGCAATTCTGTGT
1 GGCACTTCGGTGCAATTCTACGC
1839092 GGCACTTCGGTGCA
1 GGCACTTCGGTGCA
1839106 TTTATACGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.18, C:0.27, G:0.28, T:0.27
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGC
Found at i:1846048 original size:23 final size:23
Alignment explanation
Indices: 1845995--1846055 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
1845985 CAATCTTATA
* *
1845995 TGGCACTACAGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
*
1846018 GGGCACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
1846041 TGGCACTTCGGTGCA
1 TGGCACTTCGGTGCA
1846056 TTTATATGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.20, C:0.26, G:0.28, T:0.26
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:1850156 original size:28 final size:28
Alignment explanation
Indices: 1850117--1850179 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
1850107 AAAGTATATA
* *
1850117 ATATATTTCAAAATTTGTTTTTAAAATT
1 ATATATTTCAAAAATTGTTTTTAAAACT
1850145 ATATATTTCAAAAATTGTTTTTAAAACT
1 ATATATTTCAAAAATTGTTTTTAAAACT
1850173 ATATATT
1 ATATATT
1850180 ATACATTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (28 bp):
ATATATTTCAAAAATTGTTTTTAAAACT
Found at i:1850191 original size:36 final size:36
Alignment explanation
Indices: 1850144--1850267 Score: 169
Period size: 36 Copynumber: 3.4 Consensus size: 36
1850134 TTTTTAAAAT
*
1850144 TATATA-TTTCAAAAATTGTTTTTAAAACTATATAT
1 TATATATTTTCAAAAATTGTTTTTAAAACTATATAA
* * *
1850179 TATACATTTTCAAAAATTATTTTCAAAACTATATAA
1 TATATATTTTCAAAAATTGTTTTTAAAACTATATAA
*
1850215 TATATGTTTTCAAAAATTGTTTTTCAAAACTATATAA
1 TATATATTTTCAAAAATTGTTTTT-AAAACTATATAA
1850252 TATATATGTTTTCAAA
1 TATATA--TTTTCAAA
1850268 CCAATTTTTA
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
35 5 0.07
36 46 0.61
37 17 0.22
39 8 0.11
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (36 bp):
TATATATTTTCAAAAATTGTTTTTAAAACTATATAA
Found at i:1850286 original size:37 final size:35
Alignment explanation
Indices: 1850162--1850312 Score: 127
Period size: 36 Copynumber: 4.3 Consensus size: 35
1850152 TCAAAAATTG
**
1850162 TTTTTAAAACTATAT-AT-TATACATTTTCAAAAA
1 TTTTTAAAACTATATAATATATATGTTTTCAAAAA
1850195 TTATTTTCAAAACTATAT-A-ATATATGTTTTCAAAAA
1 -T-TTTT-AAAACTATATAATATATATGTTTTCAAAAA
1850231 TTGTTTTTCAAAACTATATAATATATATGTTTTCAAACCAA
1 ---TTTTT-AAAACTATATAATATATATGTTTTCAAA--AA
* *
1850272 TTTTTAAAATTATAT-AT-TATATGCTTT-AAAAA
1 TTTTTAAAACTATATAATATATATGTTTTCAAAAA
*
1850304 TTTTCAAAA
1 TTTTTAAAA
1850313 GCTACATTAT
Statistics
Matches: 102, Mismatches: 6, Indels: 20
0.80 0.05 0.16
Matches are distributed among these distances:
32 10 0.10
34 4 0.04
35 13 0.13
36 27 0.26
37 24 0.24
38 7 0.07
39 15 0.15
41 2 0.02
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.46
Consensus pattern (35 bp):
TTTTTAAAACTATATAATATATATGTTTTCAAAAA
Found at i:1856540 original size:20 final size:20
Alignment explanation
Indices: 1856515--1856555 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
1856505 ACAAAGGATT
1856515 TAGAAGTATATTTGCGACGA
1 TAGAAGTATATTTGCGACGA
*
1856535 TAGAAGTATATTTTCGACGA
1 TAGAAGTATATTTGCGACGA
1856555 T
1 T
1856556 CACGTCATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (20 bp):
TAGAAGTATATTTGCGACGA
Found at i:1857796 original size:8 final size:8
Alignment explanation
Indices: 1857783--1857811 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
1857773 AGAGCACCTT
1857783 AAAAAGGG
1 AAAAAGGG
1857791 AAAAAGGG
1 AAAAAGGG
1857799 AAAAAGGG
1 AAAAAGGG
1857807 AAAAA
1 AAAAA
1857812 TGAAGAGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (8 bp):
AAAAAGGG
Found at i:1860638 original size:24 final size:24
Alignment explanation
Indices: 1860574--1860640 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 24
1860564 GCCAAAATTA
1860574 ACATAAGGGGTATCGGTA-CCTTTG
1 ACAT-AGGGGTATCGGTACCCTTTG
* **
1860598 AGATA--GGTATCAATACCTCTTTG
1 ACATAGGGGTATCGGTACC-CTTTG
1860621 -CATAGGGGTATCGGTACCCT
1 ACATAGGGGTATCGGTACCCT
1860641 ATGGGGTATC
Statistics
Matches: 33, Mismatches: 6, Indels: 9
0.69 0.12 0.19
Matches are distributed among these distances:
21 8 0.24
22 4 0.12
23 8 0.24
24 13 0.39
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (24 bp):
ACATAGGGGTATCGGTACCCTTTG
Found at i:1868382 original size:6 final size:6
Alignment explanation
Indices: 1868367--1868486 Score: 92
Period size: 6 Copynumber: 19.3 Consensus size: 6
1868357 CTTGAAGAAA
1868367 AAAAATG AAAAAG AAAAAATG AAATGAA- AAAAAG AACAAAG AAAAAAG
1 AAAAA-G AAAAAG -AAAAA-G AAA--AAG AAAAAG AA-AAAG -AAAAAG
1868415 AAAAATG AAATAAG ---AAG AAAAAG AAAAATG AAATAAG ---AAG AAAAAG
1 AAAAA-G AAA-AAG AAAAAG AAAAAG AAAAA-G AAA-AAG AAAAAG AAAAAG
1868461 AAAAAG AAAAAG AAAAAG AAAAAG AA
1 AAAAAG AAAAAG AAAAAG AAAAAG AA
1868487 TATATATAAA
Statistics
Matches: 96, Mismatches: 0, Indels: 35
0.73 0.00 0.27
Matches are distributed among these distances:
3 6 0.06
5 2 0.02
6 45 0.47
7 34 0.35
8 7 0.07
9 2 0.02
ACGTcount: A:0.78, C:0.01, G:0.16, T:0.06
Consensus pattern (6 bp):
AAAAAG
Found at i:1868384 original size:7 final size:7
Alignment explanation
Indices: 1868374--1868483 Score: 84
Period size: 7 Copynumber: 15.6 Consensus size: 7
1868364 AAAAAAAATG
1868374 AAAAAGA
1 AAAAAGA
1868381 AAAAATGA
1 AAAAA-GA
**
1868389 AATGA-A
1 AAAAAGA
1868395 AAAAAGA
1 AAAAAGA
*
1868402 ACAAAGA
1 AAAAAGA
1868409 AAAAAGA
1 AAAAAGA
*
1868416 AAAATGA
1 AAAAAGA
*
1868423 AATAAGAA
1 AAAAAG-A
1868431 GAAAAAGA
1 -AAAAAGA
*
1868439 AAAATGA
1 AAAAAGA
*
1868446 AATAAGA
1 AAAAAGA
1868453 AGAAAA-A
1 A-AAAAGA
1868460 GAAAAAG-
1 -AAAAAGA
1868467 AAAAAG-
1 AAAAAGA
1868473 AAAAAGA
1 AAAAAGA
1868480 AAAA
1 AAAA
1868484 GAATATATAT
Statistics
Matches: 81, Mismatches: 14, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
6 16 0.20
7 49 0.60
8 11 0.14
9 5 0.06
ACGTcount: A:0.78, C:0.01, G:0.15, T:0.05
Consensus pattern (7 bp):
AAAAAGA
Found at i:1868412 original size:29 final size:28
Alignment explanation
Indices: 1868365--1868471 Score: 105
Period size: 29 Copynumber: 3.7 Consensus size: 28
1868355 TGCTTGAAGA
1868365 AAAAAAATGAAAAAG-AAAAAATGAAATG
1 AAAAAAA-GAAAAAGAAAAAAATGAAATG
*
1868393 AAAAAAAGAACAAAGAAAAAAGA-AAAATG
1 AAAAAAAGAA-AAAGAAAAAA-ATGAAATG
1868422 AAATAAGAAGAAAAAG--AAAAATGAAATAAG
1 AAA-AA-AAGAAAAAGAAAAAAATGAAAT--G
1868452 AAGAAAAAGAAAAAGAAAAA
1 AA-AAAAAGAAAAAGAAAAA
1868472 GAAAAAGAAA
Statistics
Matches: 66, Mismatches: 2, Indels: 19
0.76 0.02 0.22
Matches are distributed among these distances:
27 4 0.06
28 19 0.29
29 22 0.33
30 12 0.18
31 9 0.14
ACGTcount: A:0.78, C:0.01, G:0.15, T:0.07
Consensus pattern (28 bp):
AAAAAAAGAAAAAGAAAAAAATGAAATG
Found at i:1868435 original size:23 final size:23
Alignment explanation
Indices: 1868409--1868474 Score: 118
Period size: 23 Copynumber: 3.0 Consensus size: 23
1868399 AGAACAAAGA
1868409 AAAAAGAAAAATGAAATAAGAAG
1 AAAAAGAAAAATGAAATAAGAAG
1868432 AAAAAGAAAAATGAAATAAGAAG
1 AAAAAGAAAAATGAAATAAGAAG
1868455 AAAAAGAAAAA-GAAA-AAGAA
1 AAAAAGAAAAATGAAATAAGAA
1868475 AAAGAAAAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
21 5 0.12
22 4 0.09
23 34 0.79
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (23 bp):
AAAAAGAAAAATGAAATAAGAAG
Found at i:1868482 original size:23 final size:24
Alignment explanation
Indices: 1868404--1868486 Score: 111
Period size: 23 Copynumber: 3.5 Consensus size: 24
1868394 AAAAAAGAAC
1868404 AAAGAAAAAAGAAAAATGAAATAAG
1 AAAG-AAAAAGAAAAATGAAATAAG
1868429 -AAGAAAAAGAAAAATGAAATAAG
1 AAAGAAAAAGAAAAATGAAATAAG
1868452 -AAGAAAAAGAAAAA-GAAA-AAG
1 AAAGAAAAAGAAAAATGAAATAAG
1868473 AAAAAGAAAAAGAA
1 --AAAGAAAAAGAA
1868487 TATATATAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 7
0.89 0.00 0.11
Matches are distributed among these distances:
21 3 0.05
22 4 0.07
23 34 0.62
24 14 0.25
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (24 bp):
AAAGAAAAAGAAAAATGAAATAAG
Found at i:1870230 original size:113 final size:113
Alignment explanation
Indices: 1870049--1870316 Score: 335
Period size: 113 Copynumber: 2.4 Consensus size: 113
1870039 CCATCACTCA
* *
1870049 ATGGATCAACATTTCCGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
1 ATGGATCAACATTTCCGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAACAAATT
* *
1870114 CATAATGAGAAGAACTTGTT-TAACCTTTTTCTCGAATTTATCACTTG
66 CATAATGAAAAGAACTTGTTCAAACCTTTTTCTCGAATTTATCACTTG
* * * *
1870161 ATGGATCAGCATTTCCAGGTAGGGTTTATAATGAGAAGAACTCATCTGAAGAAGGAAGAACAAAT
1 ATGGATCAACATTTCC-GGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAACAAAT
* * * **
1870226 TCATAATGAAAAGAATTTGTTCAAACCTTTTGT-TTGAATTCATCACCCG
65 TCATAATGAAAAGAACTTGTTCAAACCTTTT-TCTCGAATTTATCACTTG
* * *
1870275 ATGGATTAACTTTTCCAGAGAA-AGTTCCTAATGAGAAGAACT
1 ATGGATCAACATTTCC-G-GAAGAGTTCATAATGAGAAGAACT
1870317 TATTTGAATC
Statistics
Matches: 132, Mismatches: 20, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
112 15 0.11
113 62 0.47
114 52 0.39
115 3 0.02
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (113 bp):
ATGGATCAACATTTCCGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAACAAATT
CATAATGAAAAGAACTTGTTCAAACCTTTTTCTCGAATTTATCACTTG
Found at i:1870585 original size:118 final size:122
Alignment explanation
Indices: 1870325--1870565 Score: 334
Period size: 122 Copynumber: 2.0 Consensus size: 122
1870315 CTTATTTGAA
*
1870325 TCATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATAACAGAAGGAGATAGATCAGGAT
1 TCATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATAACAGAAGGAGATAGATCAGCAT
*
1870390 CAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGT
66 CAAC-TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGT
* ** * *
1870448 TCATAATGAGAAGAGCTTGTTCAACC-TTTGTTTGATTCTATCACAGAAGGAGATAGATCAGCAT
1 TCATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATAACAGAAGGAGATAGATCAGCAT
** *
1870512 C-A-TTTCCAGA-AGTGTTCATAATGAGAAGAACTCATCTGACGA-G-AG-AGAAGT
66 CAACTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGT
1870563 TCA
1 TCA
1870566 AGAGAGCTTG
Statistics
Matches: 108, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
115 9 0.08
116 2 0.02
117 1 0.01
118 28 0.26
119 8 0.07
121 1 0.01
122 34 0.31
123 25 0.23
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (122 bp):
TCATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATAACAGAAGGAGATAGATCAGCAT
CAACTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGT
Found at i:1870779 original size:3 final size:3
Alignment explanation
Indices: 1870773--1870858 Score: 92
Period size: 3 Copynumber: 29.7 Consensus size: 3
1870763 TTGTTTTTTT
* *
1870773 TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TT- TTA TCA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
1870819 CT- TTA TT- TTA TATA TTA TTA TTA TT- TTA TTA TATA TTA TT
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA T-TA TTA TT
1870859 TACATTACAT
Statistics
Matches: 71, Mismatches: 5, Indels: 14
0.79 0.06 0.16
Matches are distributed among these distances:
2 8 0.11
3 57 0.80
4 6 0.08
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1876554 original size:26 final size:26
Alignment explanation
Indices: 1876515--1876602 Score: 158
Period size: 26 Copynumber: 3.4 Consensus size: 26
1876505 TTTGACTTGT
**
1876515 CATTAGAAGCATTAAGAAGTTTAAAG
1 CATTAGAAATATTAAGAAGTTTAAAG
1876541 CATTAGAAATATTAAGAAGTTTAAAG
1 CATTAGAAATATTAAGAAGTTTAAAG
1876567 CATTAGAAATATTAAGAAGTTTAAAG
1 CATTAGAAATATTAAGAAGTTTAAAG
1876593 CATTAGAAAT
1 CATTAGAAAT
1876603 GAAATTAGAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 60 1.00
ACGTcount: A:0.49, C:0.06, G:0.16, T:0.30
Consensus pattern (26 bp):
CATTAGAAATATTAAGAAGTTTAAAG
Found at i:1877682 original size:8 final size:8
Alignment explanation
Indices: 1877669--1877705 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
1877659 AAGTGAACTG
1877669 TGTGAATA
1 TGTGAATA
*
1877677 TGTGAATG
1 TGTGAATA
1877685 TGTGAATA
1 TGTGAATA
*
1877693 TGTGAATG
1 TGTGAATA
1877701 TGTGA
1 TGTGA
1877706 TAAATATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.30, C:0.00, G:0.32, T:0.38
Consensus pattern (8 bp):
TGTGAATA
Found at i:1877688 original size:16 final size:16
Alignment explanation
Indices: 1877661--1877705 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
1877651 CTACGTGTAA
1877661 GTGAACTGTGTGAATAT
1 GTGAA-TGTGTGAATAT
1877678 GTGAATGTGTGAATAT
1 GTGAATGTGTGAATAT
1877694 GTGAATGTGTGA
1 GTGAATGTGTGA
1877706 TAAATATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 23 0.82
17 5 0.18
ACGTcount: A:0.29, C:0.02, G:0.33, T:0.36
Consensus pattern (16 bp):
GTGAATGTGTGAATAT
Found at i:1888767 original size:21 final size:21
Alignment explanation
Indices: 1888721--1888775 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
1888711 TTTTGTGCAC
1888721 CAGGTATCGATA-CCCCTTAAA
1 CAGGTATCGATACCCCCTT-AA
*
1888742 CAGGTATCGATACCCCCTT-G
1 CAGGTATCGATACCCCCTTAA
1888762 CTAGGTATCGATAC
1 C-AGGTATCGATAC
1888776 TGCTTCAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 1 0.03
21 24 0.77
22 6 0.19
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.25
Consensus pattern (21 bp):
CAGGTATCGATACCCCCTTAA
Found at i:1888790 original size:21 final size:22
Alignment explanation
Indices: 1888766--1888818 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
1888756 CCCTTGCTAG
1888766 GTATCGATA-CTGCTTCA-ATGT
1 GTATCGATACCT-CTTCATATGT
*
1888787 GTATCGATACCCTCTTTATATGT
1 GTATCGATA-CCTCTTCATATGT
1888810 GTATCGATA
1 GTATCGATA
1888819 ACCCTAGATG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 9 0.32
22 4 0.14
23 15 0.54
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.40
Consensus pattern (22 bp):
GTATCGATACCTCTTCATATGT
Found at i:1891342 original size:12 final size:12
Alignment explanation
Indices: 1891325--1891349 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1891315 ATACCATACT
1891325 ATTTCTTTCTTC
1 ATTTCTTTCTTC
1891337 ATTTCTTTCTTC
1 ATTTCTTTCTTC
1891349 A
1 A
1891350 AAGAAGTCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.64
Consensus pattern (12 bp):
ATTTCTTTCTTC
Found at i:1894256 original size:26 final size:25
Alignment explanation
Indices: 1894192--1894270 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 25
1894182 ATTTAATACT
1894192 TGAAAATAA-AATA-A-AAATATTA
1 TGAAAATAATAATATATAAATATTA
* *
1894214 -AAAAATAATATACATATAAATATTA
1 TGAAAATAATA-ATATATAAATATTA
* *
1894239 TGAAAATAATAAGTATATAAAAATTT
1 TGAAAATAATAA-TATATAAATATTA
1894265 TGAAAA
1 TGAAAA
1894271 GAAAGAATTA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
21 7 0.16
22 1 0.02
23 2 0.04
24 1 0.02
25 9 0.20
26 25 0.56
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.30
Consensus pattern (25 bp):
TGAAAATAATAATATATAAATATTA
Found at i:1895164 original size:29 final size:27
Alignment explanation
Indices: 1895130--1895206 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 27
1895120 ATATTAACAT
* *
1895130 ATAAATTTAAAATATAAATAAACAA-TA
1 ATAAAATTAAAAT-TAAATAAAAAAGTA
1895157 ATTAAAATTAAAATTAAATATAAAAAGTA
1 A-TAAAATTAAAATTAAATA-AAAAAGTA
*
1895186 ATAAAACTTATAATTAAATAA
1 ATAAAA-TTAAAATTAAATAA
1895207 TTGTATTAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 7 0.16
28 21 0.49
29 15 0.35
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.31
Consensus pattern (27 bp):
ATAAAATTAAAATTAAATAAAAAAGTA
Found at i:1896473 original size:3 final size:3
Alignment explanation
Indices: 1896465--1896557 Score: 104
Period size: 3 Copynumber: 31.7 Consensus size: 3
1896455 CTGTAATGTA
* *
1896465 AAT AAT AAT AAT ATT AAT -AT AAAT AAT AAT AAT -AT AAT TAT AA-
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
* *
1896508 AAT AAT AAT AGT AAT GAAT AA- AAT AAT AAT AAC AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1896553 AAT AA
1 AAT AA
1896558 AAACAAATGG
Statistics
Matches: 76, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
2 8 0.11
3 63 0.83
4 5 0.07
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1903708 original size:22 final size:24
Alignment explanation
Indices: 1903657--1903715 Score: 95
Period size: 25 Copynumber: 2.5 Consensus size: 24
1903647 ATATTTTTAA
1903657 ATTAAGTTAATAGTAAAATATATTT
1 ATTAAGTTAATAG-AAAATATATTT
1903682 ATTAAGTTAATA-AAAATATATTT
1 ATTAAGTTAATAGAAAATATATTT
1903705 -TTAAGTTAATA
1 ATTAAGTTAATA
1903716 TATATGGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
22 11 0.32
23 11 0.32
25 12 0.35
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (24 bp):
ATTAAGTTAATAGAAAATATATTT
Found at i:1905882 original size:3 final size:3
Alignment explanation
Indices: 1905872--1905928 Score: 57
Period size: 3 Copynumber: 19.0 Consensus size: 3
1905862 AAAAAGATAT
1905872 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA -AA TAAA TAA -AA TAGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TA-A
*
1905916 TAAA TAA AAA TAA
1 T-AA TAA TAA TAA
1905929 ATAAAATTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
2 6 0.13
3 32 0.70
4 7 0.15
5 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:1906202 original size:30 final size:30
Alignment explanation
Indices: 1906132--1906203 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
1906122 GTTAATGGGA
* *
1906132 CGATGACATGACAATTTTATTCTGTGACGG
1 CGATGACATGGCAATTTTATTCCGTGACGG
*
1906162 TGATGACATGGCAATTTTATTCCGTGACGG
1 CGATGACATGGCAATTTTATTCCGTGACGG
1906192 CGATGACATGGC
1 CGATGACATGGC
1906204 TCCCTCATCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (30 bp):
CGATGACATGGCAATTTTATTCCGTGACGG
Found at i:1908003 original size:7 final size:7
Alignment explanation
Indices: 1907993--1908028 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
1907983 TCATGCCTCT
1907993 CATTTTC
1 CATTTTC
1908000 CATTTTC
1 CATTTTC
1908007 CATTTTC
1 CATTTTC
1908014 CATTTTC
1 CATTTTC
1908021 CATTTTC
1 CATTTTC
1908028 C
1 C
1908029 CTTCTCTCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.14, C:0.31, G:0.00, T:0.56
Consensus pattern (7 bp):
CATTTTC
Found at i:1908729 original size:7 final size:7
Alignment explanation
Indices: 1908717--1908780 Score: 128
Period size: 7 Copynumber: 9.1 Consensus size: 7
1908707 GAGAGAGAAG
1908717 GGAAAAT
1 GGAAAAT
1908724 GGAAAAT
1 GGAAAAT
1908731 GGAAAAT
1 GGAAAAT
1908738 GGAAAAT
1 GGAAAAT
1908745 GGAAAAT
1 GGAAAAT
1908752 GGAAAAT
1 GGAAAAT
1908759 GGAAAAT
1 GGAAAAT
1908766 GGAAAAT
1 GGAAAAT
1908773 GGAAAAT
1 GGAAAAT
1908780 G
1 G
1908781 AGAGACATGG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 57 1.00
ACGTcount: A:0.56, C:0.00, G:0.30, T:0.14
Consensus pattern (7 bp):
GGAAAAT
Found at i:1909062 original size:22 final size:22
Alignment explanation
Indices: 1909032--1909077 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
1909022 TTTATGTATG
1909032 TTTTAATTTAGTCC-CTATTATT
1 TTTTAATTTAG-CCACTATTATT
* *
1909054 TTTTTATTTAGCCACTGTTATT
1 TTTTAATTTAGCCACTATTATT
1909076 TT
1 TT
1909078 AATTTTTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 19 0.90
ACGTcount: A:0.20, C:0.13, G:0.07, T:0.61
Consensus pattern (22 bp):
TTTTAATTTAGCCACTATTATT
Found at i:1910081 original size:13 final size:13
Alignment explanation
Indices: 1910063--1910087 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1910053 TTTTGAGCAA
1910063 AAATTTCAATTTT
1 AAATTTCAATTTT
1910076 AAATTTCAATTT
1 AAATTTCAATTT
1910088 ATTTATTCGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (13 bp):
AAATTTCAATTTT
Found at i:1913667 original size:86 final size:86
Alignment explanation
Indices: 1913523--1913720 Score: 247
Period size: 86 Copynumber: 2.3 Consensus size: 86
1913513 TTTCATGACC
* * * * *
1913523 TTCCCGTGAAGGGG-GTCATCCAAAGATTATCTCACCTGGTTCAGACCTGCTAAGGGGAACCGCC
1 TTCCCATGAAGGGGAGTCATCTAAAGATCATCTCACCTGGTTCAGACCTGCTAAGGGGAACCACA
* * *
1913587 TGAGGAATATACTACATGGCT
66 TGAAGAATATACAACATAGCT
*
1913608 TTCCCATGAAGGGGAGTCATCTAAAGATCATCTCACCTGGTTTAGACCTGCGT-AGGGGAACCAC
1 TTCCCATGAAGGGGAGTCATCTAAAGATCATCTCACCTGGTTCAGACCTGC-TAAGGGGAACCAC
**
1913672 ATGAAGAATATACAATTTAGCT
65 ATGAAGAATATACAACATAGCT
** *
1913694 TTCCCATGAAGGAAAGTCATTTAAAGA
1 TTCCCATGAAGGGGAGTCATCTAAAGA
1913721 ATTATGAACG
Statistics
Matches: 97, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
85 13 0.13
86 83 0.86
87 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (86 bp):
TTCCCATGAAGGGGAGTCATCTAAAGATCATCTCACCTGGTTCAGACCTGCTAAGGGGAACCACA
TGAAGAATATACAACATAGCT
Found at i:1913942 original size:85 final size:85
Alignment explanation
Indices: 1913782--1914439 Score: 799
Period size: 85 Copynumber: 7.8 Consensus size: 85
1913772 ACCATGTGCT
* * **** * * *
1913782 GCATAACTCTAGGCGAGAAGGGCTATCAACCAACAAAGACATTCAAGATCGATTACATTCAGCTC
1 GCATAGCTCAAGGCGAGAAGGGCTATCTGTTAACAAAGACCTTCGAGTTCGATTACATTCAGCTC
* * *
1913847 AAGGGTATATCAAAATTACAA
66 AAAGGCATATCAAATTTAC-A
* * *
1913868 G-ATAGCTCAAGGCGAGAAGGGATATCTGTTAGCAAAGACCTTCGAGTTCGATTACATTTAGCTC
1 GCATAGCTCAAGGCGAGAAGGGCTATCTGTTAACAAAGACCTTCGAGTTCGATTACATTCAGCTC
1913932 AAAGGCATATCAAATTTACA
66 AAAGGCATATCAAATTTACA
* *
1913952 GCATAGCTCAAGGCGAGAAGGGATATCTGTCAATC-AAGACCTTCGAGTTCGATTACATTCAGCT
1 GCATAGCTCAAGGCGAGAAGGGCTATCTGTTAA-CAAAGACCTTCGAGTTCGATTACATTCAGCT
* *
1914016 CAAATGCACATCAAATTTACA
65 CAAAGGCATATCAAATTTACA
* * * * *
1914037 ACATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCTAGTTTGATTACATTCAGCTT
1 GCATAGCTCAAGGCGAGAAGGGCTATCTGTTAACAAAGACCTTCGAGTTCGATTACATTCAGCTC
1914102 AAAGGCATATCAAATTT-CTA
66 AAAGGCATATCAAATTTAC-A
* * * *
1914122 ACATAACTCAAGGCGAGAAGGGTTATCTGTCATAA-AAAAACCTTCGAGTTCGATTACATTCAGC
1 GCATAGCTCAAGGCGAGAAGGGCTATCTGT--TAACAAAGACCTTCGAGTTCGATTACATTCAGC
1914186 TCAAAGGCATATCAAATTTACA
64 TCAAAGGCATATCAAATTTACA
*
1914208 GCATAGCTCAAGGCGAGAAGGGCTATCTGTTAACAAAAACCTTCGAGTTCGATTACATTCAGCTC
1 GCATAGCTCAAGGCGAGAAGGGCTATCTGTTAACAAAGACCTTCGAGTTCGATTACATTCAGCTC
* *
1914273 AAATGCATACCAAATTTACA
66 AAAGGCATATCAAATTTACA
* * * * * *
1914293 GCATAACTCAAGGCAAGAAGGGTTATCTGTCAAC-AA-ACCCTCAAGTTCGATTACATTCAGCTC
1 GCATAGCTCAAGGCGAGAAGGGCTATCTGTTAACAAAGACCTTCGAGTTCGATTACATTCAGCTC
* * *
1914356 AAGGGCATGTCAAATTTACG
66 AAAGGCATATCAAATTTACA
* * *** **
1914376 GCATAACTCAAGGCGAGAAGGGCTATCTGTTAATAAA-AAAATCGAGTTCGATTTTATTCAGCTC
1 GCATAGCTCAAGGCGAGAAGGGCTATCTGTTAACAAAGACCTTCGAGTTCGATTACATTCAGCTC
1914440 GATGACCTAT
Statistics
Matches: 503, Mismatches: 60, Indels: 20
0.86 0.10 0.03
Matches are distributed among these distances:
83 70 0.14
84 32 0.06
85 324 0.64
86 74 0.15
87 3 0.01
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.25
Consensus pattern (85 bp):
GCATAGCTCAAGGCGAGAAGGGCTATCTGTTAACAAAGACCTTCGAGTTCGATTACATTCAGCTC
AAAGGCATATCAAATTTACA
Found at i:1914252 original size:256 final size:254
Alignment explanation
Indices: 1913783--1914439 Score: 887
Period size: 256 Copynumber: 2.6 Consensus size: 254
1913773 CCATGTGCTG
* *** * *
1913783 CATAACTCTAGGCGAGAAGGGCTATCAACCAACAAAGACATTCAAGATCGATTACATTCAGCTCA
1 CATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCAAGTTCGATTACATTCAGCTCA
* * * * * *
1913848 AGGGTATATCAAAATTACAAGATAGCTCAAGGCGAGAAGGGATATCTGT-TAGCAAAGACCTTCG
66 AGGGCATATC-AAATTTCAACATAACTCAAGGCGAGAAGGGATATCTGTATA-AAAAAACCTTCG
*
1913912 AGTTCGATTACATTTAGCTCAAAGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGATA
129 AGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGATA
* *
1913977 TCTGTCAATCAAGACCTTCGAGTTCGATTACATTCAGCTCAAATGCACATCAAATTTACAA
194 TCTGTCAATCAAAACCTTCGAGTTCGATTACATTCAGCTCAAATGCACACCAAATTTACAA
* * * *
1914038 CATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCTAGTTTGATTACATTCAGCTTA
1 CATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCAAGTTCGATTACATTCAGCTCA
* *
1914103 AAGGCATATCAAATTTCTAACATAACTCAAGGCGAGAAGGGTTATCTGTCATAAAAAAACCTTCG
66 AGGGCATATCAAATTTC-AACATAACTCAAGGCGAGAAGGGATATCTGT-ATAAAAAAACCTTCG
*
1914168 AGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTA
129 AGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGATA
* * *
1914233 TCTGTTAA-CAAAAACCTTCGAGTTCGATTACATTCAGCTCAAATGCATACCAAATTTACAG
194 TCTGTCAATC-AAAACCTTCGAGTTCGATTACATTCAGCTCAAATGCACACCAAATTTACAA
* * *
1914294 CATAACTCAAGGCAAGAAGGGTTATCTGTCAAC-AA-ACCCTCAAGTTCGATTACATTCAGCTCA
1 CATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCAAGTTCGATTACATTCAGCTCA
* ** *
1914357 AGGGCATGTCAAATTTACGGCATAACTCAAGGCGAGAAGGGCTATCTGTTAATAAAAAAA---TC
66 AGGGCATATCAAATTT-CAACATAACTCAAGGCGAGAAGGGATATCTG-T-ATAAAAAAACCTTC
**
1914419 GAGTTCGATTTTATTCAGCTC
128 GAGTTCGATTACATTCAGCTC
1914440 GATGACCTAT
Statistics
Matches: 356, Mismatches: 40, Indels: 15
0.87 0.10 0.04
Matches are distributed among these distances:
252 21 0.06
254 71 0.20
255 105 0.29
256 157 0.44
257 2 0.01
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (254 bp):
CATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCAAGTTCGATTACATTCAGCTCA
AGGGCATATCAAATTTCAACATAACTCAAGGCGAGAAGGGATATCTGTATAAAAAAACCTTCGAG
TTCGATTACATTCAGCTCAAAGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGATATC
TGTCAATCAAAACCTTCGAGTTCGATTACATTCAGCTCAAATGCACACCAAATTTACAA
Found at i:1914903 original size:36 final size:39
Alignment explanation
Indices: 1914861--1914949 Score: 103
Period size: 37 Copynumber: 2.3 Consensus size: 39
1914851 TTATATATTT
***
1914861 ATATATATATTATAATTGTT-GAAAATGTTTTTTGAA-AA
1 ATATATATA-TATAATTGTTAGAAAACAATTTTTGAATAA
* *
1914899 ATATA-ATATATAATTTTTAGAAAACAATTTTTGAATAT
1 ATATATATATATAATTGTTAGAAAACAATTTTTGAATAA
1914937 ATATATATATATA
1 ATATATATATATA
1914950 TATATATATA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
36 9 0.21
37 16 0.37
38 11 0.26
39 7 0.16
ACGTcount: A:0.46, C:0.01, G:0.07, T:0.46
Consensus pattern (39 bp):
ATATATATATATAATTGTTAGAAAACAATTTTTGAATAA
Found at i:1914940 original size:2 final size:2
Alignment explanation
Indices: 1914933--1914961 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1914923 CAATTTTTGA
1914933 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
1914962 GTTTTGAAAA
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:1915001 original size:36 final size:36
Alignment explanation
Indices: 1914947--1915047 Score: 121
Period size: 36 Copynumber: 2.8 Consensus size: 36
1914937 ATATATATAT
*
1914947 ATATATATATATATAGTTTTGAAAACATTTCGAAAAC
1 ATATATAT-TATAAAGTTTTGAAAACATTTCGAAAAC
* ** *
1914984 ATATGTATTATAAAGTTTTGAAAACATTTTTAAAAG
1 ATATATATTATAAAGTTTTGAAAACATTTCGAAAAC
* *
1915020 ATATATAATATATAATTTTTGAAAACAT
1 ATATATATTATA-AAGTTTTGAAAACAT
1915048 ATATATTATA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
36 34 0.62
37 21 0.38
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.41
Consensus pattern (36 bp):
ATATATATTATAAAGTTTTGAAAACATTTCGAAAAC
Found at i:1915038 original size:24 final size:26
Alignment explanation
Indices: 1915009--1915062 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
1914999 TTTTGAAAAC
*
1915009 ATTTTT-AAAAGATATATAATATATA
1 ATTTTTGAAAACATATATAATATATA
*
1915034 ATTTTTGAAAACATATATATTATATA
1 ATTTTTGAAAACATATATAATATATA
1915060 ATT
1 ATT
1915063 AAAAAAGCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (26 bp):
ATTTTTGAAAACATATATAATATATA
Found at i:1915055 original size:62 final size:62
Alignment explanation
Indices: 1914978--1915108 Score: 162
Period size: 62 Copynumber: 2.1 Consensus size: 62
1914968 AAAACATTTC
* **
1914978 GAAAACATATGTATTATA-AAGTTTTGAAAA-CATTTTTAAAAGATATATAATATATA-ATTTTT
1 GAAAACATATATATTATATAA--TTAAAAAAGCATTTTTAAAA-ATATATAATATATAGATTTTT
* *
1915040 GAAAACATATATATTATATAATTAAAAAAGCATTTTTGAAAATATATATTATATAGATTTTT
1 GAAAACATATATATTATATAATTAAAAAAGCATTTTTAAAAATATATAATATATAGATTTTT
1915102 -AAAACAT
1 GAAAACAT
1915109 TTTTGGAATA
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
61 26 0.43
62 33 0.54
63 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (62 bp):
GAAAACATATATATTATATAATTAAAAAAGCATTTTTAAAAATATATAATATATAGATTTTT
Found at i:1915085 original size:35 final size:36
Alignment explanation
Indices: 1915034--1915132 Score: 112
Period size: 37 Copynumber: 2.7 Consensus size: 36
1915024 ATAATATATA
1915034 ATTTTTGAAAACATATATATTATATA-A-TTAAAAAAGC
1 ATTTTTG-AAA-ATATATATTATATAGATTTAAAAAA-C
**
1915071 ATTTTTGAAAATATATATTATATAGATTTTTAAAAC
1 ATTTTTGAAAATATATATTATATAGATTTAAAAAAC
*
1915107 ATTTTTGGAATATATATATATATATA
1 ATTTTT-GAAAATATATAT-TATATA
1915133 TTATATAGTT
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
35 14 0.25
36 11 0.20
37 24 0.44
38 6 0.11
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.44
Consensus pattern (36 bp):
ATTTTTGAAAATATATATTATATAGATTTAAAAAAC
Found at i:1915169 original size:38 final size:38
Alignment explanation
Indices: 1915082--1915271 Score: 245
Period size: 38 Copynumber: 4.8 Consensus size: 38
1915072 TTTTTGAAAA
*
1915082 TATATATTATATAGATTTTTAAAACATTTTTGGAATATATATAT
1 TATATATTATATAG-TTTTTAAAACA-TTTT-GAA-A-ACAT-T
1915126 ATATATATTATATAGTTTTTAAAACATTTTGAAAACATT
1 -TATATATTATATAGTTTTTAAAACATTTTGAAAACATT
1915165 TATATATATATATAGTTTTTAAAACATTTTGAAAACATT
1 TATATAT-TATATAGTTTTTAAAACATTTTGAAAACATT
* * *
1915204 TATTTATTATATATTTTTTAAAACATTTTGAAAACATA
1 TATATATTATATAGTTTTTAAAACATTTTGAAAACATT
* *
1915242 TATATAATATATAGTTTTTGAAAATATTTT
1 TATATATTATATAGTTTTT-AAAACATTTT
1915272 AAATATATAA
Statistics
Matches: 135, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
38 52 0.39
39 47 0.35
40 3 0.02
41 1 0.01
42 3 0.02
43 4 0.03
44 11 0.08
45 14 0.10
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (38 bp):
TATATATTATATAGTTTTTAAAACATTTTGAAAACATT
Found at i:1915285 original size:38 final size:37
Alignment explanation
Indices: 1915036--1915291 Score: 199
Period size: 39 Copynumber: 6.8 Consensus size: 37
1915026 AATATATAAT
* * **
1915036 TTTTGAAAACAT-ATATATTATATA-ATTAAAAAAGCA
1 TTTTGAAAACATAATATAATATATAGTTTTTAAAA-CA
*
1915072 TTTTTG-AAA-AT-ATATATTATATAGATTTTTAAAACA
1 -TTTTGAAAACATAATATAATATATAG-TTTTTAAAACA
*
1915108 TTTTTGGAATATATATATATATATATTATATAGTTTTTAAAACA
1 -TTTT-GAA-A-ACATA-ATATA-A-TATATAGTTTTTAAAACA
*
1915152 TTTTGAAAACATTTATATATATATATAGTTTTTAAAACA
1 TTTTGAAAACA-TAATATA-ATATATAGTTTTTAAAACA
* * * *
1915191 TTTTGAAAACATTTATTTATTATATATTTTTTAAAACA
1 TTTTGAAAACA-TAATATAATATATAGTTTTTAAAACA
*
1915229 TTTTGAAAACATATATATAATATATAGTTTTTGAAAATA
1 TTTTGAAAACATA-ATATAATATATAGTTTTT-AAAACA
1915268 TTTT---AA-AT-ATATAATATATAGTTT
1 TTTTGAAAACATAATATAATATATAGTTT
1915292 CAAATATACT
Statistics
Matches: 191, Mismatches: 14, Indels: 32
0.81 0.06 0.14
Matches are distributed among these distances:
33 16 0.08
35 16 0.08
36 12 0.06
37 13 0.07
38 44 0.23
39 46 0.24
40 10 0.05
41 4 0.02
42 3 0.02
43 9 0.05
44 11 0.06
45 7 0.04
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (37 bp):
TTTTGAAAACATAATATAATATATAGTTTTTAAAACA
Found at i:1915384 original size:34 final size:37
Alignment explanation
Indices: 1915346--1915421 Score: 104
Period size: 36 Copynumber: 2.1 Consensus size: 37
1915336 AAAAATAAAT
*
1915346 TTTTTATT-TTATATGTATATATATAT-TATTAT-TC
1 TTTTTATTATTATATATATATATATATATATTATCTC
*
1915380 TTTTTATTCATTATATATATATATATATATATTCTCTC
1 TTTTTATT-ATTATATATATATATATATATATTATCTC
1915418 TTTT
1 TTTT
1915422 CTTTCAGGGT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
34 8 0.22
36 17 0.47
37 5 0.14
38 6 0.17
ACGTcount: A:0.29, C:0.07, G:0.01, T:0.63
Consensus pattern (37 bp):
TTTTTATTATTATATATATATATATATATATTATCTC
Found at i:1916158 original size:7 final size:7
Alignment explanation
Indices: 1916146--1916230 Score: 170
Period size: 7 Copynumber: 12.1 Consensus size: 7
1916136 GAAAGAGAAG
1916146 GGAAAAT
1 GGAAAAT
1916153 GGAAAAT
1 GGAAAAT
1916160 GGAAAAT
1 GGAAAAT
1916167 GGAAAAT
1 GGAAAAT
1916174 GGAAAAT
1 GGAAAAT
1916181 GGAAAAT
1 GGAAAAT
1916188 GGAAAAT
1 GGAAAAT
1916195 GGAAAAT
1 GGAAAAT
1916202 GGAAAAT
1 GGAAAAT
1916209 GGAAAAT
1 GGAAAAT
1916216 GGAAAAT
1 GGAAAAT
1916223 GGAAAAT
1 GGAAAAT
1916230 G
1 G
1916231 AGAGGCATAA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 78 1.00
ACGTcount: A:0.56, C:0.00, G:0.29, T:0.14
Consensus pattern (7 bp):
GGAAAAT
Found at i:1916620 original size:7 final size:8
Alignment explanation
Indices: 1916606--1916717 Score: 61
Period size: 8 Copynumber: 13.2 Consensus size: 8
1916596 TTTTCTTAAC
*
1916606 ATTTTTTT
1 ATTTTATT
1916614 ATTTT-TT
1 ATTTTATT
1916621 ATTTTATT
1 ATTTTATT
1916629 ATTTTATT
1 ATTTTATT
*
1916637 ATTTCATTTT
1 ATTT--TATT
1916647 ATTATTATT
1 ATT-TTATT
* *
1916656 CTTTTTACTAA
1 -ATTTTA-T-T
1916667 ATTTTATT
1 ATTTTATT
1916675 -TATTT-TT
1 AT-TTTATT
*
1916682 ATTTGT-CT
1 ATTT-TATT
1916690 ATTTTATTT
1 ATTTTA-TT
1916699 ATTTTATT
1 ATTTTATT
1916707 ATTATTATT
1 ATT-TTATT
1916716 AT
1 AT
1916718 ATTAATATCT
Statistics
Matches: 83, Mismatches: 8, Indels: 25
0.72 0.07 0.22
Matches are distributed among these distances:
7 13 0.16
8 34 0.41
9 21 0.25
10 14 0.17
11 1 0.01
ACGTcount: A:0.23, C:0.04, G:0.01, T:0.72
Consensus pattern (8 bp):
ATTTTATT
Found at i:1916632 original size:23 final size:23
Alignment explanation
Indices: 1916606--1916732 Score: 64
Period size: 23 Copynumber: 5.3 Consensus size: 23
1916596 TTTTCTTAAC
1916606 ATTTTTTTATTTTTTATTTTATT
1 ATTTTTTTATTTTTTATTTTATT
* *
1916629 ATTTTATTA--TTTCATTTTATT
1 ATTTTTTTATTTTTTATTTTATT
* **
1916650 ATTATTCTTT-TTACTAAATTTTATT
1 ATT-TT-TTTATT-TTTTATTTTATT
* *
1916675 -TATTTTTATTTGTCTATTTTATTT
1 ATTTTTTTATTT-TTTATTTTA-TT
* * *
1916699 ATTTTATTATTATTATTATATTAAT
1 ATTTTTTTATT-TT-TTATTTTATT
1916724 ATCTTTTTT
1 AT-TTTTTT
1916733 TTCTTTTTTT
Statistics
Matches: 76, Mismatches: 16, Indels: 21
0.67 0.14 0.19
Matches are distributed among these distances:
21 14 0.18
22 5 0.07
23 21 0.28
24 3 0.04
25 21 0.28
26 12 0.16
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.72
Consensus pattern (23 bp):
ATTTTTTTATTTTTTATTTTATT
Found at i:1917729 original size:85 final size:85
Alignment explanation
Indices: 1917579--1918077 Score: 646
Period size: 85 Copynumber: 5.9 Consensus size: 85
1917569 ATATACACGT
* * *
1917579 TCAAATTTACAGCATAGCTCAAGGCGAGAAGGGATATCTGTCAACCAAGACCTTCGAGTTCGATT
1 TCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATT
* *
1917644 ACATTCAGCTCAAATGCACA
66 ACATTCAGCTCAAAGGCATA
* * * *
1917664 TCAAATTTACAACATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCTAGTTTGATT
1 TCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATT
*
1917729 ACATTCAGCTTAAAGGCATA
66 ACATTCAGCTCAAAGGCATA
* * * *
1917749 TCAAATTT-CTAACATAACTCAAGGCGAGAAGGGTTATCTGTCATAAAAAAACCTTCGAGTTCGA
1 TCAAATTTAC-AGCATAGCTCAAGGCGAGAAGGGCTATCTGTCA-ACAAAAACCTTCGAGTTCGA
1917813 TTACATTCAGCTCAAAGGCATA
64 TTACATTCAGCTCAAAGGCATA
*
1917835 TCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTTAACAAAAACCTTCGAGTTCGATT
1 TCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATT
1917900 ACATTCAGCTCAAAGGCATA
66 ACATTCAGCTCAAAGGCATA
* * * * * * *
1917920 CCAAATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGTCAAC--AAACCCTCAAGTTCAATT
1 TCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATT
* * *
1917983 ACATTCAGCTCAAGGGCTTG
66 ACATTCAGCTCAAAGGCATA
** * * * **
1918003 TCAAATTTATGGCATAGCTCAAGGAGAGAAGGGCTATCTGTTAATAAAAA-AATCGAGTTCGATT
1 TCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATT
**
1918067 TTATTCAGCTC
66 ACATTCAGCTC
1918078 GATGACCTAT
Statistics
Matches: 363, Mismatches: 46, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
83 68 0.19
84 20 0.06
85 200 0.55
86 74 0.20
87 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (85 bp):
TCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATT
ACATTCAGCTCAAAGGCATA
Found at i:1917863 original size:171 final size:170
Alignment explanation
Indices: 1917580--1918077 Score: 653
Period size: 171 Copynumber: 2.9 Consensus size: 170
1917570 TATACACGTT
* * * ** *
1917580 CAAATTTACAGCATAGCTCAAGGCGAGAAGGGATATCTGTCAACCAAGACCTTCGAGTTCGATTA
1 CAAATTTACAACATAACTCAAGGCGAGAAGGGTTATCTGTCAAAAAAAACCTTCGAGTTCGATTA
* * *
1917645 CATTCAGCTCAAATGCACATCAAATTTACAACATAGCTCAAGGCGAGAAGGGCTATCTGTCAACA
66 CATTCAGCTCAAAGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACA
* * * * *
1917710 AAGACCTTCTAGTTTGATTACATTCAGCTTAAAGGCATAT
131 AAAACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATAC
1917750 CAAATTT-CTAACATAACTCAAGGCGAGAAGGGTTATCTGTCATAAAAAAACCTTCGAGTTCGAT
1 CAAATTTAC-AACATAACTCAAGGCGAGAAGGGTTATCTGTCA-AAAAAAACCTTCGAGTTCGAT
*
1917814 TACATTCAGCTCAAAGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTTAA
64 TACATTCAGCTCAAAGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAA
1917879 CAAAAACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATAC
129 CAAAAACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATAC
* * * * * *
1917921 CAAATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGTC--AACAAACCCTCAAGTTCAATTA
1 CAAATTTACAACATAACTCAAGGCGAGAAGGGTTATCTGTCAAAAAAAACCTTCGAGTTCGATTA
* * * ** * * *
1917984 CATTCAGCTCAAGGGCTTGTCAAATTTATGGCATAGCTCAAGGAGAGAAGGGCTATCTGTTAATA
66 CATTCAGCTCAAAGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACA
** **
1918049 AAAA-AATCGAGTTCGATTTTATTCAGCTC
131 AAAACCTTCGAGTTCGATTACATTCAGCTC
1918078 GATGACCTAT
Statistics
Matches: 293, Mismatches: 32, Indels: 9
0.88 0.10 0.03
Matches are distributed among these distances:
167 21 0.07
168 80 0.27
169 1 0.00
170 37 0.13
171 153 0.52
172 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (170 bp):
CAAATTTACAACATAACTCAAGGCGAGAAGGGTTATCTGTCAAAAAAAACCTTCGAGTTCGATTA
CATTCAGCTCAAAGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACA
AAAACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATAC
Found at i:1918573 original size:2 final size:2
Alignment explanation
Indices: 1918566--1918684 Score: 197
Period size: 2 Copynumber: 60.5 Consensus size: 2
1918556 CAATTTTTGA
* *
1918566 AT AT AT AT AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1918608 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
1918649 AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1918685 GTTTTGAAAC
Statistics
Matches: 109, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
1 2 0.02
2 107 0.98
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1918760 original size:24 final size:26
Alignment explanation
Indices: 1918731--1918784 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
1918721 TTTTGAAAAC
*
1918731 ATTTTT-AAAAGATATATAATATATA
1 ATTTTTGAAAACATATATAATATATA
*
1918756 ATTTTTGAAAACATATATATTATATA
1 ATTTTTGAAAACATATATAATATATA
1918782 ATT
1 ATT
1918785 AAAAAAACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (26 bp):
ATTTTTGAAAACATATATAATATATA
Found at i:1918765 original size:37 final size:37
Alignment explanation
Indices: 1918667--1918769 Score: 111
Period size: 36 Copynumber: 2.8 Consensus size: 37
1918657 ATATGTATAT
1918667 ATATATATATATATTATAGTTTTG-AAACATTTCGAAAAC
1 ATATATA-ATATA-TA-AGTTTTGAAAACATTTCGAAAAC
* * ** *
1918706 ATATGTATTATA-AAGTTTTGAAAACATTTTTAAAAG
1 ATATATAATATATAAGTTTTGAAAACATTTCGAAAAC
*
1918742 ATATATAATATATAATTTTTGAAAACAT
1 ATATATAATATATAAGTTTTGAAAACAT
1918770 ATATATTATA
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
35 7 0.13
36 23 0.43
37 14 0.26
38 4 0.07
39 6 0.11
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.42
Consensus pattern (37 bp):
ATATATAATATATAAGTTTTGAAAACATTTCGAAAAC
Found at i:1918777 original size:62 final size:62
Alignment explanation
Indices: 1918700--1918830 Score: 169
Period size: 62 Copynumber: 2.1 Consensus size: 62
1918690 GAAACATTTC
* ***
1918700 GAAAACATATGTATTATA-AAGTTTTGAAAACATTTTTAAAAGATATATAATATATA-ATTTTT
1 GAAAACATATATATTATATAA-TTAAAAAAACATTTTTAAAA-ATATATAATATATAGATTTTT
* *
1918762 GAAAACATATATATTATATAATTAAAAAAACATTTTTGAAAATATATATTATATAGATTTTT
1 GAAAACATATATATTATATAATTAAAAAAACATTTTTAAAAATATATAATATATAGATTTTT
1918824 -AAAACAT
1 GAAAACAT
1918831 TTTTGGAATA
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
61 20 0.33
62 39 0.64
63 2 0.03
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (62 bp):
GAAAACATATATATTATATAATTAAAAAAACATTTTTAAAAATATATAATATATAGATTTTT
Found at i:1918797 original size:37 final size:36
Alignment explanation
Indices: 1918758--1918994 Score: 199
Period size: 38 Copynumber: 6.1 Consensus size: 36
1918748 AATATATAAT
***
1918758 TTTTGAAAACATATATATTATATAATTAAAAAAACA
1 TTTTGAAAACATATATATTATATAATTTTTAAAACA
1918794 TTTTTG-AAA-ATATATATTATATAGATTTTTAAAACA
1 -TTTTGAAAACATATATATTATATA-ATTTTTAAAACA
*
1918830 TTTTTGGAATATATATATATATATATATATATATAGTTTTTAAAACA
1 -TTTT-G---A-A-A-ACATATATAT-TATATA-A-TTTTTAAAACA
* *
1918877 TTTTGAAAACATTTATATATATATAGTTTTTAAAACA
1 TTTTGAAAACATATATAT-TATATAATTTTTAAAACA
* *
1918914 TTTTGAAAACATTTATTTATTATATATTTTTTAAAACA
1 TTTTGAAAACA--TATATATTATATAATTTTTAAAACA
* *
1918952 TTTTGAAAACATATATATAATATATAGTTTTTGAAAATA
1 TTTTGAAAACATATATAT--TATATAATTTTT-AAAACA
1918991 TTTT
1 TTTT
1918995 AAATATATAA
Statistics
Matches: 170, Mismatches: 13, Indels: 32
0.79 0.06 0.15
Matches are distributed among these distances:
35 14 0.08
36 23 0.14
37 28 0.16
38 39 0.23
39 29 0.17
40 1 0.01
41 1 0.01
42 2 0.01
43 1 0.01
44 1 0.01
45 9 0.05
46 11 0.06
47 11 0.06
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (36 bp):
TTTTGAAAACATATATATTATATAATTTTTAAAACA
Found at i:1918807 original size:35 final size:36
Alignment explanation
Indices: 1918756--1918854 Score: 119
Period size: 37 Copynumber: 2.7 Consensus size: 36
1918746 ATAATATATA
1918756 ATTTTTGAAAACATATATATTATATA-ATTAAAAAAAC
1 ATTTTTG-AAA-ATATATATTATATAGATTAAAAAAAC
***
1918793 ATTTTTGAAAATATATATTATATAGATTTTTAAAAC
1 ATTTTTGAAAATATATATTATATAGATTAAAAAAAC
*
1918829 ATTTTTGGAATATATATATATATATA
1 ATTTTT-GAAAATATATAT-TATATA
1918855 TATATATATA
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
35 14 0.25
36 17 0.31
37 18 0.33
38 6 0.11
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.44
Consensus pattern (36 bp):
ATTTTTGAAAATATATATTATATAGATTAAAAAAAC
Found at i:1918845 original size:2 final size:2
Alignment explanation
Indices: 1918838--1918864 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1918828 CATTTTTGGA
1918838 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 A
1918865 GTTTTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1918857 original size:47 final size:45
Alignment explanation
Indices: 1918803--1918977 Score: 186
Period size: 37 Copynumber: 4.2 Consensus size: 45
1918793 ATTTTTGAAA
* *
1918803 ATATATAT-TATATAGATTTTTAAAACATTTTTGGAATATATATATAT
1 ATATATATATATATAG-TTTTTAAAACA-TTTT-GAAAACATATATAT
1918850 ATATATATATATATAGTTTTTAAAACATTTTGAAAAC------AT
1 ATATATATATATATAGTTTTTAAAACATTTTGAAAACATATATAT
1918889 -T-TATATATATATAGTTTTTAAAACATTTTGAAAACAT-T-TAT
1 ATATATATATATATAGTTTTTAAAACATTTTGAAAACATATATAT
1918930 -T-TAT-TATATAT--TTTTTAAAACATTTTGAAAACATATATAT
1 ATATATATATATATAGTTTTTAAAACATTTTGAAAACATATATAT
1918970 A-ATATATA
1 ATATATATA
1918978 GTTTTTGAAA
Statistics
Matches: 116, Mismatches: 2, Indels: 25
0.81 0.01 0.17
Matches are distributed among these distances:
37 34 0.29
38 24 0.21
39 3 0.03
40 10 0.09
41 9 0.08
42 2 0.02
45 4 0.03
46 4 0.03
47 19 0.16
48 7 0.06
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (45 bp):
ATATATATATATATAGTTTTTAAAACATTTTGAAAACATATATAT
Found at i:1918945 original size:38 final size:37
Alignment explanation
Indices: 1918853--1918994 Score: 221
Period size: 38 Copynumber: 3.8 Consensus size: 37
1918843 TATATATATA
1918853 TATATATATATAGTTTTTAAAACATTTTGAAAACATT
1 TATATATATATAGTTTTTAAAACATTTTGAAAACATT
1918890 TATATATATATAGTTTTTAAAACATTTTGAAAACATT
1 TATATATATATAGTTTTTAAAACATTTTGAAAACATT
* * *
1918927 TATTTATTATATATTTTTTAAAACATTTTGAAAACATA
1 TATATA-TATATAGTTTTTAAAACATTTTGAAAACATT
*
1918965 TATATAATATATAGTTTTTGAAAATATTTT
1 TATAT-ATATATAGTTTTT-AAAACATTTT
1918995 AAATATATAA
Statistics
Matches: 96, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
37 42 0.44
38 44 0.46
39 10 0.10
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (37 bp):
TATATATATATAGTTTTTAAAACATTTTGAAAACATT
Found at i:1919008 original size:38 final size:38
Alignment explanation
Indices: 1918852--1919010 Score: 200
Period size: 38 Copynumber: 4.2 Consensus size: 38
1918842 ATATATATAT
1918852 ATATATATATATAGTTTTTAAAACATTTTGAAAACAT-
1 ATATATATATATAGTTTTTAAAACATTTTGAAAACATA
*
1918889 TTATATATATATAGTTTTTAAAACATTTTGAAAACAT-
1 ATATATATATATAGTTTTTAAAACATTTTGAAAACATA
* * *
1918926 TTATTTATTATATATTTTTTAAAACATTTTGAAAACAT-
1 ATATATA-TATATAGTTTTTAAAACATTTTGAAAACATA
* *
1918964 ATATATAATATATAGTTTTTGAAAATATTTT-AAATATATA
1 ATATAT-ATATATAGTTTTT-AAAACATTTTGAAA-ACATA
1919004 ATATATA
1 ATATATA
1919011 GTTTCAAATA
Statistics
Matches: 109, Mismatches: 8, Indels: 8
0.87 0.06 0.06
Matches are distributed among these distances:
37 42 0.39
38 47 0.43
39 14 0.13
40 6 0.06
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (38 bp):
ATATATATATATAGTTTTTAAAACATTTTGAAAACATA
Found at i:1919875 original size:7 final size:7
Alignment explanation
Indices: 1919863--1919933 Score: 133
Period size: 7 Copynumber: 10.1 Consensus size: 7
1919853 GAAAGAGAAG
1919863 GGAAAAT
1 GGAAAAT
1919870 GGAAAAT
1 GGAAAAT
1919877 GGAAAAT
1 GGAAAAT
1919884 GGAAAAT
1 GGAAAAT
1919891 GGAAAAT
1 GGAAAAT
1919898 GGAAAAT
1 GGAAAAT
1919905 GGAAAAT
1 GGAAAAT
1919912 GGAAAAT
1 GGAAAAT
*
1919919 GAAAAAT
1 GGAAAAT
1919926 GGAAAAT
1 GGAAAAT
1919933 G
1 G
1919934 AGAGGCATAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 62 1.00
ACGTcount: A:0.58, C:0.00, G:0.28, T:0.14
Consensus pattern (7 bp):
GGAAAAT
Found at i:1920350 original size:63 final size:63
Alignment explanation
Indices: 1920290--1920407 Score: 143
Period size: 63 Copynumber: 1.9 Consensus size: 63
1920280 GGTTTTTTGG
*
1920290 CTAAAATTTATTT-TCTTAACATTTT-TTTAT-TTTTTTATTTCATTTTATTATTATTCTTTTTA
1 CTAAAATTTATTTATCTTAA-ATTTTATTTATCTATTTTATTT-ATTTTATTATTATTCTTTTTA
* * * * *
1920352 CTAAATTTTATTTATTTTTATTTTTATTTGTCTATTTTATTTATTTTATTATTATT
1 CTAAAATTTATTTATCTTAAATTTTATTTATCTATTTTATTTATTTTATTATTATT
1920408 ATTATATTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
62 16 0.34
63 22 0.47
64 9 0.19
ACGTcount: A:0.24, C:0.06, G:0.01, T:0.69
Consensus pattern (63 bp):
CTAAAATTTATTTATCTTAAATTTTATTTATCTATTTTATTTATTTTATTATTATTCTTTTTA
Found at i:1920372 original size:29 final size:29
Alignment explanation
Indices: 1920333--1920407 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 29
1920323 TTTATTTCAT
*
1920333 TTTATTATTATTCTT-TTT-ACTAAATTTTA
1 TTTATTTTTATTCTTATTTGACT--ATTTTA
* *
1920362 TTTATTTTTATTTTTATTTGTCTATTTTA
1 TTTATTTTTATTCTTATTTGACTATTTTA
*
1920391 TTTA-TTTTATTATTATT
1 TTTATTTTTATTCTTATT
1920408 ATTATATTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 12 0.30
29 23 0.57
30 3 0.08
31 2 0.05
ACGTcount: A:0.23, C:0.04, G:0.01, T:0.72
Consensus pattern (29 bp):
TTTATTTTTATTCTTATTTGACTATTTTA
Found at i:1920461 original size:18 final size:19
Alignment explanation
Indices: 1920425--1920462 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
1920415 TAATATCTTT
*
1920425 TTTTTCTTTTTTCATATTTA
1 TTTTTCTTTTATCA-ATTTA
1920445 TTTTTCTTTTATC-ATTTA
1 TTTTTCTTTTATCAATTTA
1920463 ACATTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
20 12 0.71
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTCTTTTATCAATTTA
Found at i:1921421 original size:45 final size:45
Alignment explanation
Indices: 1921370--1921463 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 45
1921360 ATTTAAATTT
*
1921370 CAAAATCAGTTCGACATTAAAATCATGAAACGCCGGTAGAGTTTC
1 CAAAATCAGTTCGACATTAAAATCATGAAACGCCAGTAGAGTTTC
* * *
1921415 CAAAATCAGTTCGACATTAAAGTCATGAAATGCTAGTAGAGTTTC
1 CAAAATCAGTTCGACATTAAAATCATGAAACGCCAGTAGAGTTTC
1921460 CAAA
1 CAAA
1921464 TTATGAAAAC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (45 bp):
CAAAATCAGTTCGACATTAAAATCATGAAACGCCAGTAGAGTTTC
Found at i:1922662 original size:18 final size:18
Alignment explanation
Indices: 1922600--1922687 Score: 95
Period size: 18 Copynumber: 4.8 Consensus size: 18
1922590 TAACTTTTAG
1922600 GGTCAAAGTCAACGGTCAA
1 GGTCAAAGTCAACGGTC-A
* *
1922619 CGTCAAAGTCAACGGCCA
1 GGTCAAAGTCAACGGTCA
*
1922637 TGTCAAAGTCAACGGTCA
1 GGTCAAAGTCAACGGTCA
* * *
1922655 GGTTAAAGTGAATGGTTCA
1 GGTCAAAGTCAACGG-TCA
*
1922674 GGTCAAGGTCAACG
1 GGTCAAAGTCAACG
1922688 CCCTTAGAAA
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
18 28 0.50
19 28 0.50
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.19
Consensus pattern (18 bp):
GGTCAAAGTCAACGGTCA
Found at i:1927415 original size:81 final size:80
Alignment explanation
Indices: 1927337--1927729 Score: 486
Period size: 81 Copynumber: 4.9 Consensus size: 80
1927327 ATCCAAAGAC
* * * *
1927337 ATTTAGCCTTTCATCTAACTTGCATTATTGACACATTTCTGCCAAATGCACAGCTAGGCATTTAA
1 ATTTAACCTTTCATCTAAC-TGCATAATTGACACATTTCTGTCAAATGCACAGCTAGGCAATTAA
* *
1927402 TCTTTAACTCAAAGGC
65 TCTTTTACTCAAAGGT
* * * **
1927418 AATTAACCTTTCATCTAACTGACATAATTGATACATTTCTGTCAAATGCATAGCTAGATAATTAA
1 ATTTAACCTTTCATCTAACTG-CATAATTGACACATTTCTGTCAAATGCACAGCTAGGCAATTAA
1927483 TCTTTTACTCAAAGGT
65 TCTTTTACTCAAAGGT
* * * * * *
1927499 ATTTTACCTTTCATCTAACTG--GAATTGATACCTTTTTGTCAAATGCATAGCTAGGCAATTAAT
1 ATTTAACCTTTCATCTAACTGCATAATTGACACATTTCTGTCAAATGCACAGCTAGGCAATTAAT
*
1927562 CTTTTACTCAAATGT
66 CTTTTACTCAAAGGT
* * * *
1927577 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTATGTTAAATGCACATCTAGGCAATTAA
1 ATTTAACCTTTCATCTAACT-GCATAATTGACACATTTCTGTCAAATGCACAGCTAGGCAATTAA
1927642 TCTTTTACTCAAAGGT
65 TCTTTTACTCAAAGGT
* * * *
1927658 ATTTAACCTTTCATCTAACTGTCATAATTGACA-ACTTTCTGTCAAATACAAAACTAGTCAATTA
1 ATTTAACCTTTCATCTAACTG-CATAATTGACACA-TTTCTGTCAAATGCACAGCTAGGCAATTA
1927722 ATCTTTTA
64 ATCTTTTA
1927730 TTTAAAACAG
Statistics
Matches: 272, Mismatches: 34, Indels: 12
0.86 0.11 0.04
Matches are distributed among these distances:
78 70 0.26
79 1 0.00
80 3 0.01
81 198 0.73
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.38
Consensus pattern (80 bp):
ATTTAACCTTTCATCTAACTGCATAATTGACACATTTCTGTCAAATGCACAGCTAGGCAATTAAT
CTTTTACTCAAAGGT
Found at i:1927652 original size:159 final size:159
Alignment explanation
Indices: 1927338--1927729 Score: 487
Period size: 159 Copynumber: 2.4 Consensus size: 159
1927328 TCCAAAGACA
* * * *
1927338 TTTAGCCTTTCATCTAACTTGCATTATTGACACATTTCTGCCAAATGCACAGCTAGGCATTTAAT
1 TTTA-CCTTTCATCTAAC-TGCA--ATTGACACCTTTCTGTCAAATGCAAAGCTAGGCAATTAAT
* * *
1927403 CTTTAACTCAAAGGCAATTAACCTTTCATCTAACTGACATAATTGATACATTTCTGTCAAATGCA
62 CTTTTACTCAAAGGCAATTAACCTTTCATCTAACTGACATAATTGACACATTTATGTCAAATGCA
* *
1927468 TAGCTAGATAATTAATCTTTTACTCAAAGGTAT
127 CAGCTAGACAATTAATCTTTTACTCAAAGGTAT
* * * *
1927501 TTTACCTTTCATCTAACTGGAATTGATACCTTTTTGTCAAATGCATAGCTAGGCAATTAATCTTT
1 TTTACCTTTCATCTAACTGCAATTGACACCTTTCTGTCAAATGCAAAGCTAGGCAATTAATCTTT
* * * * * * *
1927566 TACTCAAATGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTATGTTAAATGCACATC
66 TACTCAAAGGCAATTAACCTTTCATCTAACTGACATAATTGACACATTTATGTCAAATGCACAGC
*
1927631 TAGGCAATTAATCTTTTACTCAAAGGTAT
131 TAGACAATTAATCTTTTACTCAAAGGTAT
* * * * *
1927660 TTAACCTTTCATCTAACTGTCATAATTGACAACTTTCTGTCAAATACAAAACTAGTCAATTAATC
1 TTTACCTTTCATCTAACTG-C--AATTGACACCTTTCTGTCAAATGCAAAGCTAGGCAATTAATC
1927725 TTTTA
63 TTTTA
1927730 TTTAAAACAG
Statistics
Matches: 197, Mismatches: 29, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
159 137 0.70
161 3 0.02
162 53 0.27
163 4 0.02
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.38
Consensus pattern (159 bp):
TTTACCTTTCATCTAACTGCAATTGACACCTTTCTGTCAAATGCAAAGCTAGGCAATTAATCTTT
TACTCAAAGGCAATTAACCTTTCATCTAACTGACATAATTGACACATTTATGTCAAATGCACAGC
TAGACAATTAATCTTTTACTCAAAGGTAT
Found at i:1932727 original size:13 final size:12
Alignment explanation
Indices: 1932709--1932781 Score: 53
Period size: 13 Copynumber: 5.8 Consensus size: 12
1932699 TATAGGCGTG
1932709 ATATGGTGATGGA
1 ATATGGTGAT-GA
1932722 ATATGGTGATG-
1 ATATGGTGATGA
*
1932733 ATATAGGCG-TG-
1 ATAT-GGTGATGA
1932744 ATAATGGTGATGGA
1 AT-ATGGTGAT-GA
*
1932758 CTATGGTGATGA
1 ATATGGTGATGA
1932770 TATATGCGTGAT
1 -ATATG-GTGAT
1932782 AATGGTGATG
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
11 11 0.22
12 9 0.18
13 23 0.47
14 6 0.12
ACGTcount: A:0.29, C:0.04, G:0.34, T:0.33
Consensus pattern (12 bp):
ATATGGTGATGA
Found at i:1932763 original size:36 final size:36
Alignment explanation
Indices: 1932690--1932794 Score: 176
Period size: 36 Copynumber: 2.9 Consensus size: 36
1932680 ATTTATAAGT
* *
1932690 TGGTGATAATATAGGCGTGAT-ATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1932725 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
*
1932761 TGGTGATGATATATGCGTGATAATGGTGATGGAC
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
1932795 AGATTGTATC
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 20 0.30
36 46 0.70
ACGTcount: A:0.29, C:0.05, G:0.35, T:0.31
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
Found at i:1933282 original size:13 final size:11
Alignment explanation
Indices: 1933241--1933325 Score: 66
Period size: 11 Copynumber: 7.2 Consensus size: 11
1933231 ACAATCTGTC
1933241 CATCACCATTAT
1 CATCACCA-TAT
*
1933253 CA-CGCCTATAT
1 CATCACC-ATAT
1933264 CATCACCATAGT
1 CATCACCATA-T
1933276 CCATCACCATTAT
1 -CATCACCA-TAT
*
1933289 CA-CGCCTATAT
1 CATCACC-ATAT
1933300 CATCACCATATT
1 CATCACCATA-T
1933312 CCATCACCATAT
1 -CATCACCATAT
1933324 CA
1 CA
1933326 CGCCTATATT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 24 0.40
12 15 0.25
13 19 0.32
14 2 0.03
ACGTcount: A:0.32, C:0.36, G:0.04, T:0.28
Consensus pattern (11 bp):
CATCACCATAT
Found at i:1933285 original size:36 final size:36
Alignment explanation
Indices: 1933238--1933342 Score: 185
Period size: 36 Copynumber: 2.9 Consensus size: 36
1933228 GATACAATCT
1933238 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
1933274 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* *
1933310 TTCCATCACCA-TATCACGCCTATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
1933343 ACTTATAAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
35 21 0.31
36 46 0.69
ACGTcount: A:0.30, C:0.36, G:0.05, T:0.29
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:1937225 original size:2 final size:2
Alignment explanation
Indices: 1937218--1937308 Score: 166
Period size: 2 Copynumber: 45.5 Consensus size: 2
1937208 ATGGATTGCT
1937218 TA TA TA TA -A TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1937260 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
1937302 TA TA TA T
1 TA TA TA T
1937309 TTAGTATTAG
Statistics
Matches: 87, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.01
2 84 0.97
3 2 0.02
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1937561 original size:13 final size:13
Alignment explanation
Indices: 1937543--1937591 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
1937533 GCTCAATGAA
*
1937543 CGTCATAAAAGCG
1 CGTCATAAATGCG
*
1937556 CGTCATAAATGTG
1 CGTCATAAATGCG
* *
1937569 TGTCATAAATGCA
1 CGTCATAAATGCG
1937582 CGTCATAAAT
1 CGTCATAAAT
1937592 TTATGACGCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (13 bp):
CGTCATAAATGCG
Found at i:1939442 original size:23 final size:23
Alignment explanation
Indices: 1939416--1939512 Score: 95
Period size: 23 Copynumber: 4.2 Consensus size: 23
1939406 AAGTTCCATG
*
1939416 TAGAAATGTCCCGAAGGACCTCA
1 TAGAAATGTCCCGAAGGACCGCA
* * * * *
1939439 TAGATATGTCCTGAATGACCACG
1 TAGAAATGTCCCGAAGGACCGCA
* * *
1939462 TAGAAATGTCTCAAAGGACCGCG
1 TAGAAATGTCCCGAAGGACCGCA
* *
1939485 CAGAATTGTCCCGAAGGACCGCA
1 TAGAAATGTCCCGAAGGACCGCA
1939508 TAGAA
1 TAGAA
1939513 CCCTCGACTC
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.19
Consensus pattern (23 bp):
TAGAAATGTCCCGAAGGACCGCA
Found at i:1941572 original size:13 final size:13
Alignment explanation
Indices: 1941554--1941579 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1941544 ATGCTGAAAA
1941554 CACATATATAATC
1 CACATATATAATC
1941567 CACATATATAATC
1 CACATATATAATC
1941580 TTAGTAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (13 bp):
CACATATATAATC
Found at i:1951252 original size:24 final size:23
Alignment explanation
Indices: 1951225--1951281 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
1951215 CACCACAGCT
* *
1951225 CGTATAAATTGCACCGAAGTGCCG
1 CGTAGAAATT-CACCGAAGTGCCA
*
1951249 CGTAGAATATTCATCGAAGTGCCA
1 CGTAGAA-ATTCACCGAAGTGCCA
1951273 CGTAGAAAT
1 CGTAGAAAT
1951282 GTCTCGAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 2 0.07
24 24 0.83
25 3 0.10
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (23 bp):
CGTAGAAATTCACCGAAGTGCCA
Found at i:1951299 original size:23 final size:23
Alignment explanation
Indices: 1951246--1951348 Score: 86
Period size: 23 Copynumber: 4.4 Consensus size: 23
1951236 CACCGAAGTG
1951246 CCGCGTAGAATAT-TCATCGAAGTG-
1 CCGCGTAGAA-ATGTC-TCGAAG-GA
*
1951270 CCACGTAGAAATGTCTCGAAGGA
1 CCGCGTAGAAATGTCTCGAAGGA
1951293 CCGCGTAGAAATGTC-CTGAAGGA
1 CCGCGTAGAAATGTCTC-GAAGGA
* * * * *
1951316 CCACGTAGAATTATCCCGAATGA
1 CCGCGTAGAAATGTCTCGAAGGA
*
1951339 CGGCGTAGAA
1 CCGCGTAGAA
1951349 CCCTCAACTT
Statistics
Matches: 67, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
22 2 0.03
23 53 0.79
24 12 0.18
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.19
Consensus pattern (23 bp):
CCGCGTAGAAATGTCTCGAAGGA
Found at i:1951485 original size:14 final size:14
Alignment explanation
Indices: 1951424--1951487 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
1951414 TTTACATATT
*
1951424 TCACATTGCTTATA
1 TCACATAGCTTATA
**
1951438 TCACATAGACAAATAA
1 TCACATAG-CTTAT-A
* * *
1951454 TCACATAGATCATG
1 TCACATAGCTTATA
1951468 TCACATAGCTTATA
1 TCACATAGCTTATA
1951482 TCACAT
1 TCACAT
1951488 TTTCATATAA
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
14 24 0.63
15 5 0.13
16 9 0.24
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (14 bp):
TCACATAGCTTATA
Found at i:1951498 original size:44 final size:44
Alignment explanation
Indices: 1951424--1951551 Score: 139
Period size: 45 Copynumber: 2.9 Consensus size: 44
1951414 TTTACATATT
* *** * * * *
1951424 TCACATTGCTTATATCACATAGACAAATAATCACATAGATCATG
1 TCACATAGCTTATATCACATTTTCATATAATCACGTAGATAATA
*
1951468 TCACATAGCTTATATCACATTTTCATATAATCACGTAGTTTAATA
1 TCACATAGCTTATATCACATTTTCATATAATCACGTAG-ATAATA
* * *
1951513 TCAAATAACTTATATCTCATTTTCATATAATCACGTAGA
1 TCACATAGCTTATATCACATTTTCATATAATCACGTAGA
1951552 CTGTATCATA
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
44 32 0.46
45 38 0.54
ACGTcount: A:0.38, C:0.19, G:0.07, T:0.36
Consensus pattern (44 bp):
TCACATAGCTTATATCACATTTTCATATAATCACGTAGATAATA
Found at i:1953036 original size:28 final size:28
Alignment explanation
Indices: 1953005--1953070 Score: 123
Period size: 28 Copynumber: 2.4 Consensus size: 28
1952995 TTCACTTTCA
*
1953005 AGGGCATTCTTGGCCTTTTTGTAGTGCG
1 AGGGCATTCTTGGCCTTTTTGCAGTGCG
1953033 AGGGCATTCTTGGCCTTTTTGCAGTGCG
1 AGGGCATTCTTGGCCTTTTTGCAGTGCG
1953061 AGGGCATTCT
1 AGGGCATTCT
1953071 CGTAATTTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.12, C:0.20, G:0.32, T:0.36
Consensus pattern (28 bp):
AGGGCATTCTTGGCCTTTTTGCAGTGCG
Found at i:1953079 original size:28 final size:28
Alignment explanation
Indices: 1953005--1953079 Score: 78
Period size: 28 Copynumber: 2.7 Consensus size: 28
1952995 TTCACTTTCA
* ** *
1953005 AGGGCATTCTTGGCCTTTTTGTAGTGCG
1 AGGGCATTCTCGGAATTTTTGCAGTGCG
* **
1953033 AGGGCATTCTTGGCCTTTTTGCAGTGCG
1 AGGGCATTCTCGGAATTTTTGCAGTGCG
*
1953061 AGGGCATTCTCGTAATTTT
1 AGGGCATTCTCGGAATTTT
1953080 ACTTCATAGG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.13, C:0.19, G:0.29, T:0.39
Consensus pattern (28 bp):
AGGGCATTCTCGGAATTTTTGCAGTGCG
Found at i:1954936 original size:26 final size:28
Alignment explanation
Indices: 1954883--1954936 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
1954873 ACCAAAAATA
*
1954883 TATATTTATATATGATTTAGTTATTGTT
1 TATATTTACATATGATTTAGTTATTGTT
*
1954911 TATATTTACATCTG-TTTA-TTATTGTT
1 TATATTTACATATGATTTAGTTATTGTT
1954937 ATTCTTCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.33
27 4 0.17
28 12 0.50
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.61
Consensus pattern (28 bp):
TATATTTACATATGATTTAGTTATTGTT
Found at i:1958193 original size:34 final size:34
Alignment explanation
Indices: 1958155--1958230 Score: 116
Period size: 34 Copynumber: 2.2 Consensus size: 34
1958145 AACTATATAT
* **
1958155 CTTTTAATATTCAACTTTAAATGAATAATAATAA
1 CTTTTAATAATCAACTTTAAACAAATAATAATAA
*
1958189 CTTTTAATAATCAACTTTAAACAAATAATAATAT
1 CTTTTAATAATCAACTTTAAACAAATAATAATAA
1958223 CTTTTAAT
1 CTTTTAAT
1958231 TTGAAATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.46, C:0.11, G:0.01, T:0.42
Consensus pattern (34 bp):
CTTTTAATAATCAACTTTAAACAAATAATAATAA
Found at i:1969627 original size:21 final size:22
Alignment explanation
Indices: 1969601--1969659 Score: 86
Period size: 21 Copynumber: 2.8 Consensus size: 22
1969591 ATTTACCATG
1969601 ATTGCGGCCGTCGCGGGA-GCT
1 ATTGCGGCCGTCGCGGGACGCT
**
1969622 ATTGCGATCGTCGC-GGACGCT
1 ATTGCGGCCGTCGCGGGACGCT
1969643 ATTGCGGCCGTCGCGGG
1 ATTGCGGCCGTCGCGGG
1969660 TAACTCGGAC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 3 0.09
21 27 0.84
22 2 0.06
ACGTcount: A:0.10, C:0.29, G:0.41, T:0.20
Consensus pattern (22 bp):
ATTGCGGCCGTCGCGGGACGCT
Found at i:1974329 original size:7 final size:7
Alignment explanation
Indices: 1974317--1974347 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
1974307 GTCAAAGAAA
1974317 GTCAACG
1 GTCAACG
1974324 GTCAACG
1 GTCAACG
1974331 GTCAACG
1 GTCAACG
1974338 GTCAACG
1 GTCAACG
1974345 GTC
1 GTC
1974348 GGGTCGGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:1974365 original size:22 final size:22
Alignment explanation
Indices: 1974337--1974379 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1974327 AACGGTCAAC
1974337 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
1974359 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
1974380 AGACCGGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.09, C:0.23, G:0.49, T:0.19
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:1974394 original size:9 final size:9
Alignment explanation
Indices: 1974376--1974425 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
1974366 GGTCGGGTCG
*
1974376 GGTCAGACC
1 GGTCAAACC
1974385 GGTCAAACC
1 GGTCAAACC
*
1974394 GGTTCAGACC
1 GG-TCAAACC
1974404 GGTCAAACC
1 GGTCAAACC
*
1974413 GGTTCGAACC
1 GG-TCAAACC
1974423 GGT
1 GGT
1974426 TACCGGTTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
9 19 0.54
10 16 0.46
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:1974406 original size:10 final size:10
Alignment explanation
Indices: 1974378--1974426 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
1974368 TCGGGTCGGG
1974378 TCAGACCGG-
1 TCAGACCGGT
*
1974387 TCAAACCGGT
1 TCAGACCGGT
1974397 TCAGACCGG-
1 TCAGACCGGT
*
1974406 TCAAACCGGT
1 TCAGACCGGT
1974416 TC-GAACCGGT
1 TCAG-ACCGGT
1974426 T
1 T
1974427 ACCGGTTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
9 16 0.48
10 17 0.52
ACGTcount: A:0.24, C:0.31, G:0.27, T:0.18
Consensus pattern (10 bp):
TCAGACCGGT
Found at i:1974425 original size:19 final size:19
Alignment explanation
Indices: 1974378--1974417 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
1974368 TCGGGTCGGG
1974378 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
1974397 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
1974416 TC
1 TC
1974418 GAACCGGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.33, G:0.25, T:0.17
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Done.