Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008302.1 Hibiscus syriacus cultivar Beakdansim tig00110988_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: 3402722
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 17
Found at i:2059978 original size:32 final size:33
Alignment explanation
Indices: 2059922--2060001 Score: 108
Period size: 32 Copynumber: 2.4 Consensus size: 33
2059912 AGCACGGACA
*
2059922 GAAAACATACAACACCAACCAACTCAATTCAACAT
1 GAAAACACACAA-ACC-ACCAACTCAATTCAACAT
**
2059957 GAAAACACACAAACC-CCAACTCAATTCAGTAT
1 GAAAACACACAAACCACCAACTCAATTCAACAT
2059989 GAAAACACACAAA
1 GAAAACACACAAA
2060002 ACCAGCATCC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
32 28 0.67
34 3 0.07
35 11 0.26
ACGTcount: A:0.53, C:0.30, G:0.05, T:0.12
Consensus pattern (33 bp):
GAAAACACACAAACCACCAACTCAATTCAACAT
Found at i:2060263 original size:23 final size:21
Alignment explanation
Indices: 2060235--2060276 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
2060225 CCTTTAGCTT
2060235 CTTTGAAACAATATATTTTTAGC
1 CTTTG-AACAATAT-TTTTTAGC
*
2060258 CTTTGATCAATATTTTTTA
1 CTTTGAACAATATTTTTTA
2060277 TATTAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 7 0.39
23 5 0.28
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.50
Consensus pattern (21 bp):
CTTTGAACAATATTTTTTAGC
Found at i:2060286 original size:15 final size:15
Alignment explanation
Indices: 2060266--2060295 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2060256 GCCTTTGATC
2060266 AATATTTTTTATATT
1 AATATTTTTTATATT
2060281 AATATTTTTTATATT
1 AATATTTTTTATATT
2060296 TTTTGTGCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
AATATTTTTTATATT
Found at i:2062977 original size:21 final size:20
Alignment explanation
Indices: 2062950--2063048 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
2062940 AATCAGTTTC
2062950 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
2062971 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
2062992 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* * *
2063012 CCAGAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
2063033 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
2063049 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 15 0.25
21 44 0.75
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:2063110 original size:20 final size:20
Alignment explanation
Indices: 2063016--2063208 Score: 237
Period size: 20 Copynumber: 9.6 Consensus size: 20
2063006 GATTTTCCAG
* ** *
2063016 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
2063036 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
2063056 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2063076 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2063096 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
2063116 AAGCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2063136 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
2063156 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGTATCCGT-A
2063177 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2063197 AATCGCAACGCG
1 AATCGCAACGCG
2063209 ATTTTTAAAG
Statistics
Matches: 149, Mismatches: 19, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
19 1 0.01
20 129 0.87
21 19 0.13
ACGTcount: A:0.35, C:0.27, G:0.20, T:0.18
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:2063627 original size:33 final size:33
Alignment explanation
Indices: 2063588--2063658 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
2063578 TTCACTTAGA
2063588 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
2063621 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
2063654 TTTCA
1 TTTCA
2063659 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:2063764 original size:21 final size:21
Alignment explanation
Indices: 2063738--2063833 Score: 108
Period size: 21 Copynumber: 4.7 Consensus size: 21
2063728 TGCAGAAGAG
2063738 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
* **
2063759 TCGCAACGTGA-AAATGACTA
1 TCGCAACGAGAGAAATGAAAA
*
2063779 TCTGCAACGAGAAAAATGAAAA
1 TC-GCAACGAGAGAAATGAAAA
*
2063801 TCGCAAC--GCGAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
*
2063820 TTGCAACGAGAGAA
1 TCGCAACGAGAGAA
2063834 TCGCAACGCG
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
19 16 0.26
20 9 0.15
21 27 0.44
22 9 0.15
ACGTcount: A:0.48, C:0.17, G:0.22, T:0.14
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGAAAA
Found at i:2063799 original size:42 final size:40
Alignment explanation
Indices: 2063740--2063830 Score: 128
Period size: 42 Copynumber: 2.2 Consensus size: 40
2063730 CAGAAGAGTC
* * **
2063740 GCAACGAGAGAAATGAAAATCGCAACGTGAAAATGACTATCT
1 GCAACGAGAAAAATGAAAATCGCAACGCG-AAATGAAAAT-T
2063782 GCAACGAGAAAAATGAAAATCGCAACGCGAAATGAAAATT
1 GCAACGAGAAAAATGAAAATCGCAACGCGAAATGAAAATT
2063822 GCAACGAGA
1 GCAACGAGA
2063831 GAATCGCAAC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 10 0.22
41 8 0.18
42 27 0.60
ACGTcount: A:0.48, C:0.16, G:0.22, T:0.13
Consensus pattern (40 bp):
GCAACGAGAAAAATGAAAATCGCAACGCGAAATGAAAATT
Found at i:2063875 original size:19 final size:19
Alignment explanation
Indices: 2063853--2063892 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
2063843 GAAACCAAAA
2063853 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
2063872 TCGCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2063891 TC
1 TC
2063893 ACGTTGTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.12, C:0.23, G:0.17, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:2063897 original size:19 final size:19
Alignment explanation
Indices: 2063858--2063966 Score: 102
Period size: 19 Copynumber: 5.8 Consensus size: 19
2063848 CAAAATCGCA
*
2063858 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCTCG
*
2063877 TTGCGATTTTCATTTCACG
1 TTGCGATTTTCATTTCTCG
*
2063896 TTGTGA--TTC---TCTCG
1 TTGCGATTTTCATTTCTCG
2063910 TTGCGATTTTCATTTCTCTCG
1 TTGCGATTTTCA-TT-TCTCG
***
2063931 TTGCGACAGTCATTCTCTCG
1 TTGCGATTTTCATT-TCTCG
2063951 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
2063967 AACCAAAAGA
Statistics
Matches: 73, Mismatches: 10, Indels: 14
0.75 0.10 0.14
Matches are distributed among these distances:
14 9 0.12
16 3 0.04
17 3 0.04
19 25 0.34
20 19 0.26
21 14 0.19
ACGTcount: A:0.12, C:0.23, G:0.17, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCTCG
Found at i:2063928 original size:21 final size:21
Alignment explanation
Indices: 2063902--2063966 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
2063892 CACGTTGTGA
2063902 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
2063923 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
2063943 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
2063964 TTC
1 TTC
2063967 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:2065810 original size:93 final size:93
Alignment explanation
Indices: 2065651--2065873 Score: 437
Period size: 93 Copynumber: 2.4 Consensus size: 93
2065641 TAGATTGCTT
*
2065651 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2065716 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2065744 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2065809 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2065837 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
2065874 AATACCCTGA
Statistics
Matches: 129, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 129 1.00
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:2066035 original size:33 final size:33
Alignment explanation
Indices: 2065987--2066080 Score: 143
Period size: 33 Copynumber: 2.8 Consensus size: 33
2065977 CACGAAACTT
**
2065987 AAAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAAATCGCAACGCGAAACCAAAATCGCAACGAC
* * *
2066020 AGAATCGCAATGCGAAACCAAAATCACAACGAC
1 AAAATCGCAACGCGAAACCAAAATCGCAACGAC
2066053 AAAATCGCAACGCGAAACCAAAATCGCA
1 AAAATCGCAACGCGAAACCAAAATCGCA
2066081 TTGCGATTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.49, C:0.27, G:0.16, T:0.09
Consensus pattern (33 bp):
AAAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:2066076 original size:19 final size:19
Alignment explanation
Indices: 2065971--2066080 Score: 78
Period size: 19 Copynumber: 6.3 Consensus size: 19
2065961 TAGTTTACTT
* *
2065971 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
**
2065991 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
2066010 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
*
2066024 TCGCAATGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
2066043 TCACAA--CG--A-CAAAA
1 TCGCAACGCGAAACCAAAA
2066057 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
2066076 TCGCA
1 TCGCA
2066081 TTGCGATTTT
Statistics
Matches: 72, Mismatches: 8, Indels: 21
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.26
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 29 0.40
20 12 0.17
ACGTcount: A:0.47, C:0.27, G:0.15, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:2066098 original size:19 final size:19
Alignment explanation
Indices: 2066076--2066248 Score: 159
Period size: 19 Copynumber: 9.6 Consensus size: 19
2066066 GAAACCAAAA
*
2066076 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2066095 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
2066109 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
2066128 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
2066144 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
2066161 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
2066180 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
2066199 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
2066218 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
2066238 TCGTGTTGCGA
1 TCGCGTTGCGA
2066249 AAGTAAACTA
Statistics
Matches: 126, Mismatches: 17, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
14 17 0.13
16 8 0.06
17 8 0.06
19 81 0.64
20 12 0.10
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2066117 original size:14 final size:14
Alignment explanation
Indices: 2066098--2066154 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
2066088 TTTCATTTCG
2066098 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2066112 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
*
2066129 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTCT
2066145 CGTTGCGATT
1 CGTTGCGATT
2066155 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
16 7 0.19
17 7 0.19
19 6 0.17
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2066206 original size:38 final size:38
Alignment explanation
Indices: 2066076--2066248 Score: 168
Period size: 33 Copynumber: 4.8 Consensus size: 38
2066066 GAAACCAAAA
*
2066076 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTC---
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
2066111 T--CGTTGCGATTTTCATTTCGCATTGCGA-T-TC-TG
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* **
2066144 T--CGTTGCGATTTTCATTTCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
** *
2066180 TCGCGTTGCGATTTTGGTTTCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
2066218 TCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TCGCGTTGCGATTTTCA-TTTCGCGTTGCGA
2066249 AAGTAAACTA
Statistics
Matches: 115, Mismatches: 15, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
31 2 0.02
32 1 0.01
33 52 0.45
34 1 0.01
35 2 0.02
36 2 0.02
38 44 0.38
39 11 0.10
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
Found at i:2068188 original size:14 final size:14
Alignment explanation
Indices: 2068169--2068204 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
2068159 ATTGTTTAAT
2068169 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
2068183 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
2068197 TGATTTGT
1 TGATTTGT
2068205 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:2068379 original size:20 final size:19
Alignment explanation
Indices: 2068311--2068389 Score: 96
Period size: 19 Copynumber: 4.4 Consensus size: 19
2068301 AAAAATGACT
2068311 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
2068330 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
*
2068344 ATAGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2068363 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
2068383 ATCGCAA
1 ATCGCAA
2068390 CGAGAGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
14 9 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 19 0.38
20 16 0.32
ACGTcount: A:0.47, C:0.16, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:2068490 original size:72 final size:69
Alignment explanation
Indices: 2068404--2068693 Score: 292
Period size: 72 Copynumber: 4.1 Consensus size: 69
2068394 AGAATCGCAA
*
2068404 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCCATTTTCATTTCTGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCG--TTGCGATTTTCATTTC-GCATTGCGATT
2068469 CTCTCGT
63 CTCTCGT
* * *
2068476 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTACG-ATTTTC-
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CG--TTGCGATT-T-TCATTTCGCA-TTGCG
* *
2068539 ATT-TCGCAT
60 ATTCTCTCGT
*
2068548 TGCGATTTTCATTTCCGCATTGCGA--TTC-TCTCGTTGCGATTTTCATTTCGCATTGCGATTTT
1 TGCGATTTTCATTT-CGCATTGCGATTTTCATTTCGTTGCGATTTTCATTTCGCATTGCGA--TT
*
2068610 CATTTCGCAT
63 C-TCTCG--T
*
2068620 TGCGATTTTCATTTCTGCATTGCGATTTTCA--T-GTTGGGATTTTCATTTCGCATTGCGATTCT
1 TGCGATTTTCATTTC-GCATTGCGATTTTCATTTCGTTGCGATTTTCATTTCGCATTGCGATTCT
2068682 CTCGT
65 CTCGT
2068687 TGCGATT
1 TGCGATT
2068694 GTAATTTTCA
Statistics
Matches: 186, Mismatches: 15, Indels: 39
0.77 0.06 0.16
Matches are distributed among these distances:
65 9 0.05
66 3 0.02
67 16 0.09
68 2 0.01
69 6 0.03
70 7 0.04
71 4 0.02
72 100 0.54
73 26 0.14
74 8 0.04
75 5 0.03
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (69 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTTGCGATTTTCATTTCGCATTGCGATTCTC
TCGT
Found at i:2068632 original size:125 final size:125
Alignment explanation
Indices: 2068406--2068679 Score: 378
Period size: 125 Copynumber: 2.2 Consensus size: 125
2068396 AATCGCAATG
*
2068406 CGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCCATTTTCATTTCTGCATTGCGATTCT
1 CGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCCATTTTCATTGCTGCATTGCGATTCT
* *
2068471 CTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTC-TCGTTA
66 CGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCAT-GTTA
* * *
2068531 CGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGC-G-ATTTTC-A
1 CGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCCATT-T-TCATTGCTGCA-TTGCGA
* * *
2068593 TT-TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCTGCATTGCGATTTTCATGTTG
62 TTCTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCATGTTA
*
2068656 GGATTTTCATTTCGCATTGCGATT
1 CGATTTTCATTTCGCATTGCGATT
2068680 CTCTCGTTGC
Statistics
Matches: 134, Mismatches: 10, Indels: 10
0.87 0.06 0.06
Matches are distributed among these distances:
125 108 0.81
126 16 0.12
127 5 0.04
128 5 0.04
ACGTcount: A:0.15, C:0.22, G:0.16, T:0.47
Consensus pattern (125 bp):
CGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCCATTTTCATTGCTGCATTGCGATTCT
CGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCATGTTA
Found at i:2068708 original size:53 final size:52
Alignment explanation
Indices: 2068422--2068693 Score: 392
Period size: 53 Copynumber: 5.2 Consensus size: 52
2068412 TCATTTCGCA
*
2068422 TTGCGATTTTCATTTCGCATTGCCATTTTCATTTCTGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTC-GCATTGCGATTCTCTCG
2068475 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCG
*
2068528 TTACGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCG
*
2068581 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCTGCA
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC---TCT-CG
*
2068639 TTGCGATTTTCA--T-G--TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCG
2068686 TTGCGATT
1 TTGCGATT
2068694 GTAATTTTCA
Statistics
Matches: 206, Mismatches: 6, Indels: 20
0.89 0.03 0.09
Matches are distributed among these distances:
47 9 0.04
48 3 0.01
51 3 0.01
52 10 0.05
53 159 0.77
54 4 0.02
55 1 0.00
56 1 0.00
57 3 0.01
58 13 0.06
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:2070994 original size:12 final size:12
Alignment explanation
Indices: 2070977--2071001 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2070967 TCTTCGGGGA
2070977 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2070989 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2071001 C
1 C
2071002 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:2071943 original size:20 final size:20
Alignment explanation
Indices: 2071915--2072105 Score: 224
Period size: 20 Copynumber: 9.6 Consensus size: 20
2071905 AAATTTCAGT
* * * *
2071915 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
2071935 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
2071955 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
2071975 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
2071995 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2072015 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2072035 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
2072055 GTTGCTATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
2072075 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
2072095 GTTGCGATTTA
1 GTTGCGATTTA
2072106 TGTGTTCGTG
Statistics
Matches: 149, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
19 3 0.02
20 144 0.97
21 2 0.01
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:2072138 original size:60 final size:60
Alignment explanation
Indices: 2071920--2072142 Score: 182
Period size: 60 Copynumber: 3.7 Consensus size: 60
2071910 TCAGTGTTGT
* * * * * * * * * *
2071920 GATTTACAGATTCTCGTTGCGATTTACGGATTA-TCGTTGCGATTTACAGATTCTCGTTGC
1 GATTTACGGATACGCGTTGCGATTTACAGA-TACGCGTTGCGATATACGGATACGCATTGC
* *
2071980 GATTTACGGATTA-TCGTTGCGATTTACGGATACGCGTTGCGATATACGGATACGCATTGC
1 GATTTACGGA-TACGCGTTGCGATTTACAGATACGCGTTGCGATATACGGATACGCATTGC
* * * * * *
2072040 GATTTACGGATACGCGTTGCTATTTACGGATACACGTTGCGGTTTACGGATACGCGTTGC
1 GATTTACGGATACGCGTTGCGATTTACAGATACGCGTTGCGATATACGGATACGCATTGC
* * * * * *
2072100 GATTTATGTG-TTCGTGTTGCGATTTTCATATTCGCGTTGCGAT
1 GATTTACG-GATACGCGTTGCGATTTACAGATACGCGTTGCGAT
2072143 TCTGGAAAAT
Statistics
Matches: 135, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
59 4 0.03
60 129 0.96
61 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.37
Consensus pattern (60 bp):
GATTTACGGATACGCGTTGCGATTTACAGATACGCGTTGCGATATACGGATACGCATTGC
Found at i:2076227 original size:2 final size:2
Alignment explanation
Indices: 2076220--2076263 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
2076210 AAAGAGAAAT
* *
2076220 AG AG AG AG AA AG AG AG AG AG AA AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2076262 AG
1 AG
2076264 GTATAAACGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2076227 original size:12 final size:12
Alignment explanation
Indices: 2076212--2076263 Score: 86
Period size: 12 Copynumber: 4.3 Consensus size: 12
2076202 TAACAAAGAA
*
2076212 AGAGAAATAGAG
1 AGAGAAAGAGAG
2076224 AGAGAAAGAGAG
1 AGAGAAAGAGAG
2076236 AGAGAAAGAGAG
1 AGAGAAAGAGAG
*
2076248 AGAGAGAGAGAG
1 AGAGAAAGAGAG
2076260 AGAG
1 AGAG
2076264 GTATAAACGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.56, C:0.00, G:0.42, T:0.02
Consensus pattern (12 bp):
AGAGAAAGAGAG
Found at i:2078754 original size:25 final size:25
Alignment explanation
Indices: 2078691--2078754 Score: 60
Period size: 27 Copynumber: 2.5 Consensus size: 25
2078681 AACCAATATT
* *
2078691 TTTTTCATGTTGTTAATATATTTTCA
1 TTTTTCATATT-TTAATATATTATCA
2078717 TTTTT-ATACATTTCTAATATATTAT-A
1 TTTTTCAT--ATTT-TAATATATTATCA
2078743 TTTTTCATATTT
1 TTTTTCATATTT
2078755 AATGTGAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
25 6 0.19
26 12 0.38
27 14 0.44
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.62
Consensus pattern (25 bp):
TTTTTCATATTTTAATATATTATCA
Found at i:2085647 original size:48 final size:48
Alignment explanation
Indices: 2085567--2085661 Score: 113
Period size: 48 Copynumber: 2.0 Consensus size: 48
2085557 GCATGAAGAA
* * * * *
2085567 GTTGATGATGCATGAGTCTTCCATGGAGTCGAGGTGGTCGA-TAATGAG
1 GTTGATGATGCAGGAGTCCTCCATGAAATCGAGATGGTC-ACTAATGAG
2085615 GTTGATGATGCAGGAGTCC-CTCATGAAATCGAGATGGTCACTAATGA
1 GTTGATGATGCAGGAGTCCTC-CATGAAATCGAGATGGTCACTAATGA
2085662 AGTTTAGCAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
47 2 0.05
48 38 0.95
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (48 bp):
GTTGATGATGCAGGAGTCCTCCATGAAATCGAGATGGTCACTAATGAG
Found at i:2091757 original size:28 final size:28
Alignment explanation
Indices: 2091716--2091769 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
2091706 GCTGTTATGA
*
2091716 AGCATCTATCGAGTCTTTTTCTAAGTTG
1 AGCATATATCGAGTCTTTTTCTAAGTTG
* *
2091744 AGCATATATTGAGTCTTTTTGTAAGT
1 AGCATATATCGAGTCTTTTTCTAAGT
2091770 ATTCTCAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.44
Consensus pattern (28 bp):
AGCATATATCGAGTCTTTTTCTAAGTTG
Found at i:2092688 original size:16 final size:16
Alignment explanation
Indices: 2092663--2092699 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
2092653 TGAAAAAATA
*
2092663 GCAAAGTTGAAAGTTG
1 GCAAAATTGAAAGTTG
2092679 GCAAAATTGAAAGTTG
1 GCAAAATTGAAAGTTG
2092695 GCAAA
1 GCAAA
2092700 GTTGCATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.43, C:0.08, G:0.27, T:0.22
Consensus pattern (16 bp):
GCAAAATTGAAAGTTG
Found at i:2096627 original size:16 final size:16
Alignment explanation
Indices: 2096606--2096641 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
2096596 ATTAGTAAAG
2096606 TTGAAAGTTGGCAAAA
1 TTGAAAGTTGGCAAAA
*
2096622 TTGAAAGTTGGCAAAG
1 TTGAAAGTTGGCAAAA
2096638 TTGA
1 TTGA
2096642 CATCTTTGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.06, G:0.28, T:0.28
Consensus pattern (16 bp):
TTGAAAGTTGGCAAAA
Found at i:2096637 original size:25 final size:25
Alignment explanation
Indices: 2096593--2096640 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
2096583 TTTGGCTTGA
2096593 AAAATTAGTAAAGTTGAAAGTTGGC
1 AAAATTAGTAAAGTTGAAAGTTGGC
2096618 AAAATT-G-AAAGTTGGCAAAGTTG
1 AAAATTAGTAAAGTT-G-AAAGTTG
2096641 ACATCTTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 6 0.29
24 2 0.10
25 13 0.62
ACGTcount: A:0.44, C:0.04, G:0.25, T:0.27
Consensus pattern (25 bp):
AAAATTAGTAAAGTTGAAAGTTGGC
Found at i:2100435 original size:25 final size:23
Alignment explanation
Indices: 2100386--2100439 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
2100376 AGTATTTTCA
*
2100386 TTAGGAATTATTATCTCTTTATT
1 TTAGGAATTATTATCTCCTTATT
* *
2100409 TTAGGAATTATATTTTTCCTTATTT
1 TTAGGAATTAT-TATCTCCTTA-TT
2100434 TTAGGA
1 TTAGGA
2100440 TTTTAAATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 11 0.42
24 7 0.27
25 8 0.31
ACGTcount: A:0.26, C:0.07, G:0.11, T:0.56
Consensus pattern (23 bp):
TTAGGAATTATTATCTCCTTATT
Found at i:2101194 original size:21 final size:22
Alignment explanation
Indices: 2101144--2101191 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
2101134 TCTCTTTAAA
*
2101144 TTATTTAATTATTTATTTTCTT
1 TTATTTAATTACTTATTTTCTT
2101166 TTATTTAATT-CTTATTTT-TT
1 TTATTTAATTACTTATTTTCTT
2101186 TTATTT
1 TTATTT
2101192 TAAAAAACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 8 0.32
21 7 0.28
22 10 0.40
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (22 bp):
TTATTTAATTACTTATTTTCTT
Found at i:2106665 original size:23 final size:23
Alignment explanation
Indices: 2106635--2106708 Score: 139
Period size: 23 Copynumber: 3.2 Consensus size: 23
2106625 TTTCAAAGAT
2106635 GCTAAGTATGATTGCAATACTTA
1 GCTAAGTATGATTGCAATACTTA
2106658 GCTAAGTATGATTGCAATACTTA
1 GCTAAGTATGATTGCAATACTTA
*
2106681 GCTAAGTATGATTGCGATACTTA
1 GCTAAGTATGATTGCAATACTTA
2106704 GCTAA
1 GCTAA
2106709 TTTTTCCATA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.34
Consensus pattern (23 bp):
GCTAAGTATGATTGCAATACTTA
Found at i:2107320 original size:20 final size:20
Alignment explanation
Indices: 2107272--2107317 Score: 67
Period size: 19 Copynumber: 2.3 Consensus size: 20
2107262 TATCTTTAAA
*
2107272 TTATTTAATCAATTATTATTT
1 TTATTTAAT-TATTATTATTT
2107293 TTATTTAATTATTATT-TTT
1 TTATTTAATTATTATTATTT
2107312 TTATTT
1 TTATTT
2107318 TAAAACCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 9 0.38
20 6 0.25
21 9 0.38
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (20 bp):
TTATTTAATTATTATTATTT
Found at i:2110622 original size:23 final size:23
Alignment explanation
Indices: 2110596--2110642 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
2110586 GGCGATGTCC
*
2110596 ATGGCTTTAGGAACATACTCATG
1 ATGGCTTTAGGAACATACCCATG
2110619 ATGGCTTTAGGAACATACCCATG
1 ATGGCTTTAGGAACATACCCATG
2110642 A
1 A
2110643 GAGCTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (23 bp):
ATGGCTTTAGGAACATACCCATG
Found at i:2111055 original size:82 final size:83
Alignment explanation
Indices: 2110945--2111192 Score: 367
Period size: 84 Copynumber: 3.0 Consensus size: 83
2110935 GAATAAATAT
* * * *
2110945 ATGTTTAATATT-TAAATTTAAACA-ATATTATTATTTATTTAAATTTATATATTAAAA-ATTTT
1 ATGTTTAATATTATAAATTTAAA-AGATATTATAATTTGTTTAAATTTAGATATTAAAAGAGTTT
2111007 TGGTTGGAGTAAAACTCTC
65 TGGTTGGAGTAAAACTCTC
2111026 ATGTTTAATATTATAAATTTAAAAGATATTATAATTTGTTTAAATTTAGATATTAAAAAGAGTTT
1 ATGTTTAATATTATAAATTTAAAAGATATTATAATTTGTTTAAATTTAGATATT-AAAAGAGTTT
2111091 TGGTTGGAGTAAAACTCTC
65 TGGTTGGAGTAAAACTCTC
* * * *
2111110 AAGTTTCATAATATAAATTTAAAAGATATTATAATATGTTTAAATTTAGATATTAAAAGAGTTTT
1 ATGTTTAATATTATAAATTTAAAAGATATTATAATTTGTTTAAATTTAGATATTAAAAGAGTTTT
**
2111175 GGTTATAGTAAAACTCTC
66 GGTTGGAGTAAAACTCTC
2111193 TCGAAATTCT
Statistics
Matches: 153, Mismatches: 10, Indels: 6
0.91 0.06 0.04
Matches are distributed among these distances:
81 13 0.08
82 36 0.24
83 31 0.20
84 73 0.48
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.44
Consensus pattern (83 bp):
ATGTTTAATATTATAAATTTAAAAGATATTATAATTTGTTTAAATTTAGATATTAAAAGAGTTTT
GGTTGGAGTAAAACTCTC
Found at i:2121451 original size:98 final size:98
Alignment explanation
Indices: 2121279--2121471 Score: 314
Period size: 98 Copynumber: 2.0 Consensus size: 98
2121269 ATGAAATCCT
** * *
2121279 CATTCCCCCGATTGGTTGGTCGGTAATCTCATTCCCGGTAATCTTTTATTACCAACAGTGGATTT
1 CATTCCCCCGATTGGTTGACCGGTAATCTCATTCCCGGTAATCTTTTATAACCAACAGTGAATTT
*
2121344 TTTGGGGTATATTACCGGGAATGTGATTACCTC
66 GTTGGGGTATATTACCGGGAATGTGATTACCTC
*
2121377 CATTCCCCCGTTTGGTTGACCGGTAATCTCATTCCCGGTAATCTTTTATAACCAACAGTGAATTT
1 CATTCCCCCGATTGGTTGACCGGTAATCTCATTCCCGGTAATCTTTTATAACCAACAGTGAATTT
* *
2121442 GTTGTGGTATATTATCGGGAATGTGATTAC
66 GTTGGGGTATATTACCGGGAATGTGATTAC
2121472 ATCCCTTCTC
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 87 1.00
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.37
Consensus pattern (98 bp):
CATTCCCCCGATTGGTTGACCGGTAATCTCATTCCCGGTAATCTTTTATAACCAACAGTGAATTT
GTTGGGGTATATTACCGGGAATGTGATTACCTC
Found at i:2122449 original size:19 final size:19
Alignment explanation
Indices: 2122427--2122463 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
2122417 ATTCCTAATA
2122427 AAAATAATAAAATCTAAAC
1 AAAATAATAAAATCTAAAC
2122446 AAAATAATAAAATCTAAA
1 AAAATAATAAAATCTAAA
2122464 GTGTTTGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.70, C:0.08, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAATAATAAAATCTAAAC
Found at i:2129873 original size:19 final size:19
Alignment explanation
Indices: 2129851--2129887 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
2129841 ATTCCTAATA
2129851 AAAATAATAAAATCTAAAC
1 AAAATAATAAAATCTAAAC
2129870 AAAATAATAAAATCTAAA
1 AAAATAATAAAATCTAAA
2129888 GTGTTTGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.70, C:0.08, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAATAATAAAATCTAAAC
Found at i:2142562 original size:2 final size:2
Alignment explanation
Indices: 2142555--2142591 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2142545 AACCTTAATA
2142555 AT AT AT AT 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 AT AT AT AT A
2142592 ATTTTTGACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2143951 original size:21 final size:20
Alignment explanation
Indices: 2143921--2143959 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
2143911 AATCCTTTCA
* *
2143921 TCAAATGGTCTTAACTCTTCG
1 TCAAAAGGTCATAA-TCTTCG
2143942 TCAAAAGGTCATAATCTT
1 TCAAAAGGTCATAATCTT
2143960 TTGATTAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (20 bp):
TCAAAAGGTCATAATCTTCG
Found at i:2146864 original size:21 final size:21
Alignment explanation
Indices: 2146840--2146880 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2146830 CAATTAATCC
*
2146840 CTTCATCAAATGGTCTTAACT
1 CTTCATCAAAAGGTCTTAACT
*
2146861 CTTCGTCAAAAGGTCTTAAC
1 CTTCATCAAAAGGTCTTAAC
2146881 CTTTTGATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (21 bp):
CTTCATCAAAAGGTCTTAACT
Found at i:2147264 original size:13 final size:12
Alignment explanation
Indices: 2147241--2147274 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
2147231 CAAGTAAACA
*
2147241 TATTAATTTCTT
1 TATTTATTTCTT
2147253 TACTTTATTTCTT
1 TA-TTTATTTCTT
2147266 TATTTATTT
1 TATTTATTT
2147275 TGCTTTGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.71
Consensus pattern (12 bp):
TATTTATTTCTT
Found at i:2150017 original size:2 final size:2
Alignment explanation
Indices: 2150010--2150040 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2150000 GCATCGATTT
2150010 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2150041 TTATTTTTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2150869 original size:5 final size:5
Alignment explanation
Indices: 2150859--2150933 Score: 68
Period size: 5 Copynumber: 15.2 Consensus size: 5
2150849 TCTATAAAAA
*
2150859 AATAT AATAT AATAT AATAT AATA- AAT-T AATA- AATAA AATAT CAATA-
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT -AATAT
* *
2150906 ATTAT AATAT ATATAT ATATAT ATTAT A
1 AATAT AATAT A-ATAT A-ATAT AATAT A
2150934 TTTATTCTTA
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
4 13 0.22
5 32 0.53
6 15 0.25
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:2151104 original size:14 final size:14
Alignment explanation
Indices: 2151085--2151114 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2151075 TATTAAACAC
2151085 AATATCTAAGTGAA
1 AATATCTAAGTGAA
2151099 AATATCTAAGTGAA
1 AATATCTAAGTGAA
2151113 AA
1 AA
2151115 GGTTTTAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (14 bp):
AATATCTAAGTGAA
Found at i:2154878 original size:186 final size:187
Alignment explanation
Indices: 2154562--2154952 Score: 587
Period size: 186 Copynumber: 2.1 Consensus size: 187
2154552 ATTAAATTTT
* *
2154562 AAATATTAAATATA-T-TATATATAACATATGAGATCAGTCCAAATCATTTAAAACTCAATTAAT
1 AAATATTAAATATATTATATATATAACATATGAGATCAGTCCAAACCATTTAAAACCCAATTAAT
*
2154625 AATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAAT
66 AATTTAAGATCCAATAACTTTTAAACATAAATCAATATTAATTAATTAAAAAAATTATATAAAAT
*
2154690 TTTTATTGTATAATTATATATTATTTAAATTAACTGTAAA-CTGTTTTTT-AATTAAA
131 TTTTATTGTATAATTATATATTATTTAAATTAACTATAAACCT-TTTTTTGAATTAAA
*
2154746 AAATATTAAATATATTATATATATAACATATGAGCTCAG-CCTAAACCATTTAAAACCCAATTAA
1 AAATATTAAATATATTATATATATAACATATGAGATCAGTCC-AAACCATTTAAAACCCAATTAA
** * *
2154810 TAATTTAAGATCCAATAACTTTTAAACATAAATCAATATTAATTAATTAAAAATTTTATCTGAAA
65 TAATTTAAGATCCAATAACTTTTAAACATAAATCAATATTAATTAATTAAAAAAATTATATAAAA
* * *
2154875 TTTTTATTTTATAATTATATATTATTTAAATTAATTATAAACCTTTTTTTGAATTACA
130 TTTTTATTGTATAATTATATATTATTTAAATTAACTATAAACCTTTTTTTGAATTAAA
* * *
2154933 AAACATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
2154953 AATTAGAAAA
Statistics
Matches: 187, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
184 14 0.07
185 3 0.02
186 153 0.82
187 17 0.09
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.42
Consensus pattern (187 bp):
AAATATTAAATATATTATATATATAACATATGAGATCAGTCCAAACCATTTAAAACCCAATTAAT
AATTTAAGATCCAATAACTTTTAAACATAAATCAATATTAATTAATTAAAAAAATTATATAAAAT
TTTTATTGTATAATTATATATTATTTAAATTAACTATAAACCTTTTTTTGAATTAAA
Found at i:2159916 original size:10 final size:10
Alignment explanation
Indices: 2159876--2159900 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2159866 TACTAACTTA
2159876 TCATACAAAT
1 TCATACAAAT
2159886 TCATACAAAT
1 TCATACAAAT
2159896 TCATA
1 TCATA
2159901 TAACAATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (10 bp):
TCATACAAAT
Found at i:2160288 original size:19 final size:19
Alignment explanation
Indices: 2160260--2160319 Score: 54
Period size: 19 Copynumber: 3.1 Consensus size: 19
2160250 ATGCACCGAA
*
2160260 GTGCCGCGTAGAATGCACC
1 GTGCCACGTAGAATGCACC
2160279 GTGCCACGTAG-A--CACC
1 GTGCCACGTAGAATGCACC
2160295 GAAGTGCCACGTAGAAATGCACC
1 ---GTGCCACGTAG-AATGCACC
2160318 GT
1 GT
2160320 AGTGCCATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 13
0.70 0.02 0.28
Matches are distributed among these distances:
16 4 0.12
18 1 0.03
19 21 0.64
20 2 0.06
21 1 0.03
23 4 0.12
ACGTcount: A:0.27, C:0.30, G:0.28, T:0.15
Consensus pattern (19 bp):
GTGCCACGTAGAATGCACC
Found at i:2161524 original size:17 final size:17
Alignment explanation
Indices: 2161502--2161541 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
2161492 TTTATATCAT
2161502 ATATACTCAAATCAAAC
1 ATATACTCAAATCAAAC
2161519 ATATACTCAAATCAAAC
1 ATATACTCAAATCAAAC
2161536 ATATAC
1 ATATAC
2161542 ATATGATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.25
Consensus pattern (17 bp):
ATATACTCAAATCAAAC
Found at i:2167192 original size:20 final size:19
Alignment explanation
Indices: 2167158--2167196 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
2167148 CAAAAACATA
*
2167158 TAATTTTGACAAAAAAAAT
1 TAATTTTGAAAAAAAAAAT
2167177 TAATTTTGAAATAAAAAAAT
1 TAATTTTGAAA-AAAAAAAT
2167197 GTTTTGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (19 bp):
TAATTTTGAAAAAAAAAAT
Found at i:2168791 original size:19 final size:19
Alignment explanation
Indices: 2168754--2168796 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
2168744 TTATTTATAT
* *
2168754 ATTTGGTTTTGATTGTTTA
1 ATTTGGTTTTGAATATTTA
2168773 AGTTTGG-TTTGAATATTTA
1 A-TTTGGTTTTGAATATTTA
2168792 ATTTG
1 ATTTG
2168797 AGCTTCATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 4 0.19
19 12 0.57
20 5 0.24
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.58
Consensus pattern (19 bp):
ATTTGGTTTTGAATATTTA
Found at i:2179927 original size:23 final size:23
Alignment explanation
Indices: 2179901--2179945 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2179891 CACCACAGCT
*
2179901 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
2179924 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
2179946 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:2180195 original size:149 final size:149
Alignment explanation
Indices: 2179925--2180219 Score: 504
Period size: 149 Copynumber: 2.0 Consensus size: 149
2179915 GAAGTGCCCC
* *
2179925 GTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACGTAGAATTCCTTAAGAATC
1 GTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAATC
* *
2179990 ATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATAC
66 ATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGAATATAC
2180055 ATATGT-CCTAAAGAACTGA
131 ATATGTCCCT-AAGAACTGA
2180074 GTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATT-CTGTAAGAAT
1 GTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCT-TAAGAAT
* *
2180138 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACAGGTTCCAAAGAATATA
65 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGAATATA
2180203 CATATGTCCCTAAGAAC
130 CATATGTCCCTAAGAAC
2180220 CGCGTAGACC
Statistics
Matches: 138, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
148 2 0.01
149 133 0.96
150 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (149 bp):
GTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAATC
ATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGAATATAC
ATATGTCCCTAAGAACTGA
Found at i:2181123 original size:18 final size:18
Alignment explanation
Indices: 2181102--2181136 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2181092 TCCCATCTAG
2181102 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
2181120 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
2181137 ATCTCCTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:2181739 original size:21 final size:20
Alignment explanation
Indices: 2181709--2181752 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
2181699 TCTTGTTCGT
* *
2181709 TTGAAGGGTATCGGTTCCCC
1 TTGAAGGGTACCGATTCCCC
2181729 TTGAATGGGTACCGATTCCCC
1 TTGAA-GGGTACCGATTCCCC
2181750 TTG
1 TTG
2181753 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (20 bp):
TTGAAGGGTACCGATTCCCC
Found at i:2182652 original size:156 final size:154
Alignment explanation
Indices: 2182320--2182630 Score: 568
Period size: 156 Copynumber: 2.0 Consensus size: 154
2182310 AAGTCCTTTA
*
2182320 ATAATTACCAAATAACTTCAATATATATCAAATAATCATTGAATTCTTTCATTCTTATACTTTAG
1 ATAACTACCAAATAACTTCAATATATATCAAATAATCATTGAATTCTTTCATTCTTATACTTTAG
2182385 TCACCAAATTCTGAAACTTTACAATTTGGTCACTAACCCTAGTGCGGATGTTACAATTTTAATGC
66 TCACCAAATTCTGAAACTTTACAATTTGGTCACTAACCCTAGTGCGGATGTTACAATTTTAATGC
2182450 CATAATGGGAAATCCACATCATGT
131 CATAATGGGAAATCCACATCATGT
*
2182474 ATAATTACCAAATAACCTTCAATATATATTCAAATAATCATTGAATTCTTTCATTCTTATACTTT
1 ATAACTACCAAATAA-CTTCAATATATA-TCAAATAATCATTGAATTCTTTCATTCTTATACTTT
2182539 AGTCACCAAATTCTGAAACTTTACAATTTGGTCACTAACCCGGTAGTGCGGATGTTACAATTTTA
64 AGTCACCAAATTCTGAAACTTTACAATTTGGTCACTAACCC--TAGTGCGGATGTTACAATTTTA
2182604 ATGCCATAATGGGAAATCCACATCATG
127 ATGCCATAATGGGAAATCCACATCATG
2182631 GTGCTGGCAC
Statistics
Matches: 153, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
154 15 0.10
155 12 0.08
156 77 0.50
158 49 0.32
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (154 bp):
ATAACTACCAAATAACTTCAATATATATCAAATAATCATTGAATTCTTTCATTCTTATACTTTAG
TCACCAAATTCTGAAACTTTACAATTTGGTCACTAACCCTAGTGCGGATGTTACAATTTTAATGC
CATAATGGGAAATCCACATCATGT
Found at i:2185389 original size:35 final size:34
Alignment explanation
Indices: 2185304--2185390 Score: 88
Period size: 35 Copynumber: 2.5 Consensus size: 34
2185294 AAAATAATTT
*
2185304 TAAATACAACAAACTTACAATAAGTATTAAATGC
1 TAAATACAACAAAATTACAATAAGTATTAAATGC
* * *
2185338 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--G-TATTAAATGC
2185376 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
2185391 ACTGAAATAC
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.55
36 1 0.02
37 4 0.09
38 10 0.23
ACGTcount: A:0.54, C:0.11, G:0.07, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGC
Found at i:2189290 original size:16 final size:16
Alignment explanation
Indices: 2189269--2189319 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
2189259 TTACCCGACT
2189269 TGTTTTTAACCTGACC
1 TGTTTTTAACCTGACC
* *
2189285 TGTTTTCAACCTGACA
1 TGTTTTTAACCTGACC
2189301 TGTTTTTAACCTGACC
1 TGTTTTTAACCTGACC
2189317 TGT
1 TGT
2189320 AAATGATCCG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.43
Consensus pattern (16 bp):
TGTTTTTAACCTGACC
Found at i:2189622 original size:23 final size:24
Alignment explanation
Indices: 2189586--2189635 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
2189576 TAATGCAAAA
2189586 AAATTAATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
* *
2189610 AAATT-ATATAGTTTTATTTTTAT
1 AAATTAATATAGTTTAATTTATAT
2189633 AAA
1 AAA
2189636 AAAATAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (24 bp):
AAATTAATATAGTTTAATTTATAT
Found at i:2192049 original size:18 final size:18
Alignment explanation
Indices: 2192028--2192280 Score: 106
Period size: 18 Copynumber: 14.2 Consensus size: 18
2192018 ATAAATTAAT
2192028 ATATAGTTTATATATACA
1 ATATAGTTTATATATACA
2192046 ATATAGTTTATATATACTA
1 ATATAGTTTATATATAC-A
* * *
2192065 ATGA-ACTATATAATATATA
1 AT-ATAGTTTAT-ATATACA
* * *
2192084 GT-TGGTATATATCATATACT
1 ATATAGT-T-TAT-ATATACA
*
2192104 ATATAGGTTATATATACTA
1 ATATAGTTTATATATAC-A
* *
2192123 ATGA-A--CTATATA-A-T
1 AT-ATAGTTTATATATACA
*
2192137 ATATAGTTTATATATACT
1 ATATAGTTTATATATACA
2192155 ATATAGTTTATATATAC-
1 ATATAGTTTATATATACA
**
2192172 -TA-A-TGCACTATATA-A
1 ATATAGTTTA-TATATACA
2192187 TATATAGTTTATATATACTA
1 -ATATAGTTTATATATAC-A
*
2192207 ATGA-A--CTATATATA-A
1 AT-ATAGTTTATATATACA
* *
2192222 TGTATAGTTTATATATACC
1 -ATATAGTTTATATATACA
* **
2192241 ATATAGTATATATATATT
1 ATATAGTTTATATATACA
2192259 ATATAGTTTATATATACTA
1 ATATAGTTTATATATAC-A
2192278 ATA
1 ATA
2192281 AACTATATAA
Statistics
Matches: 174, Mismatches: 32, Indels: 57
0.66 0.12 0.22
Matches are distributed among these distances:
13 1 0.01
14 5 0.03
15 9 0.05
16 11 0.06
17 17 0.10
18 86 0.49
19 24 0.14
20 19 0.11
21 2 0.01
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (18 bp):
ATATAGTTTATATATACA
Found at i:2192058 original size:51 final size:50
Alignment explanation
Indices: 2192003--2192204 Score: 135
Period size: 51 Copynumber: 3.8 Consensus size: 50
2191993 TCAATTAATA
*
2192003 TATATTTTTATATTAATAAATTAATATATAGTTTATATATACAATATAGTT
1 TATATTTATATATTAATAAATTAATATATAGTTTATATATAC-ATATAGTT
* * * * *
2192054 TATATATACTA-ATGAACTATA-TAATATATAGTTGGTATATAT-CATATACTA
1 TATATTTA-TATATTAA-TAAATTAATATATAGTT--TATATATACATATAGTT
*
2192105 TATAGGTTATATATACTAATGAACTATATAATATATAGTTTATATATACTATATAGTT
1 TATA--TT-TATATATTAAT-AA--AT-TAATATATAGTTTATATATAC-ATATAGTT
* * * *
2192163 TATATATACTA-ATGCACTATA-TAATATATAGTTTATATATAC
1 TATATTTA-TATAT-TAATAAATTAATATATAGTTTATATATAC
2192205 TAATGAACTA
Statistics
Matches: 117, Mismatches: 17, Indels: 34
0.70 0.10 0.20
Matches are distributed among these distances:
51 53 0.45
52 6 0.05
53 12 0.10
54 6 0.05
55 4 0.03
56 13 0.11
57 1 0.01
58 22 0.19
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (50 bp):
TATATTTATATATTAATAAATTAATATATAGTTTATATATACATATAGTT
Found at i:2192083 original size:33 final size:33
Alignment explanation
Indices: 2192038--2192155 Score: 128
Period size: 33 Copynumber: 3.8 Consensus size: 33
2192028 ATATAGTTTA
2192038 TATATACA-ATATAGTTTATATATACTAATGAAC
1 TATATA-ATATATAGTTTATATATACTAATGAAC
**
2192071 TATATAATATATAG-TT-GGTATA-T-AT---C
1 TATATAATATATAGTTTATATATACTAATGAAC
* *
2192097 -ATATACTATATAGGTTATATATACTAATGAAC
1 TATATAATATATAGTTTATATATACTAATGAAC
2192129 TATATAATATATAGTTTATATATACTA
1 TATATAATATATAGTTTATATATACTA
2192156 TATAGTTTAT
Statistics
Matches: 69, Mismatches: 7, Indels: 18
0.73 0.07 0.19
Matches are distributed among these distances:
25 12 0.17
26 3 0.04
27 4 0.06
28 1 0.01
29 4 0.06
30 1 0.01
31 4 0.06
32 4 0.06
33 36 0.52
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (33 bp):
TATATAATATATAGTTTATATATACTAATGAAC
Found at i:2192115 original size:58 final size:56
Alignment explanation
Indices: 2192036--2192299 Score: 256
Period size: 51 Copynumber: 4.9 Consensus size: 56
2192026 ATATATAGTT
*
2192036 TATATATACAATATAGTTTATATATACTAATGAACTATATAATATATAGTTGGTATA
1 TATATATACTATATAGTTTATATATACTAATGAACTATATAATATATAGTT-GTATA
*
2192093 TATCATATACTATATAGGTTATATATACTAATGAACTATATAATATATA---GT-T-
1 TAT-ATATACTATATAGTTTATATATACTAATGAACTATATAATATATAGTTGTATA
*
2192145 TATATATACTATATAGTTTATATATACTAATGCACTATATAATATATAGTT-TATA
1 TATATATACTATATAGTTTATATATACTAATGAACTATATAATATATAGTTGTATA
* * ** **
2192200 TATACTAATGAACTATATA---TA-ATGTA-TAGTTTA-TATATACCATATA---GTATA
1 TATA-T-AT--ACTATATAGTTTATATATACTAATGAACTATATAATATATAGTTGTATA
* *
2192251 TATATAT--TATATAGTTTATATATACTAATAAACTATATAATGTATAGTT
1 TATATATACTATATAGTTTATATATACTAATGAACTATATAATATATAGTT
2192300 TAGGGTTTAT
Statistics
Matches: 170, Mismatches: 17, Indels: 43
0.74 0.07 0.19
Matches are distributed among these distances:
45 6 0.04
48 2 0.01
49 6 0.04
50 5 0.03
51 61 0.36
52 3 0.02
53 13 0.08
54 7 0.04
55 8 0.05
56 3 0.02
57 5 0.03
58 43 0.25
59 8 0.05
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (56 bp):
TATATATACTATATAGTTTATATATACTAATGAACTATATAATATATAGTTGTATA
Found at i:2192184 original size:33 final size:33
Alignment explanation
Indices: 2192147--2192301 Score: 186
Period size: 33 Copynumber: 4.5 Consensus size: 33
2192137 ATATAGTTTA
* *
2192147 TATATACTATATAGTTTATATATACTAATGCAC
1 TATATAATATATAGTTTATATATACTAATGAAC
2192180 TATATAATATATAGTTTATATATACTAATGAAC
1 TATATAATATATAGTTTATATATACTAATGAAC
* *
2192213 TATATATAATGTATAGTTTATATATACCATATAGTATA-
1 --TATATAATATATAGTTTATATATACTA-AT-G-A-AC
* *
2192251 TATATATTATATAGTTTATATATACTAATAAAC
1 TATATAATATATAGTTTATATATACTAATGAAC
*
2192284 TATATAATGTATAGTTTA
1 TATATAATATATAGTTTA
2192302 GGGTTTATAG
Statistics
Matches: 105, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
32 1 0.01
33 48 0.46
35 27 0.26
36 26 0.25
37 1 0.01
38 1 0.01
39 1 0.01
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (33 bp):
TATATAATATATAGTTTATATATACTAATGAAC
Found at i:2192208 original size:84 final size:85
Alignment explanation
Indices: 2192097--2192256 Score: 259
Period size: 86 Copynumber: 1.9 Consensus size: 85
2192087 GGTATATATC
* *
2192097 ATATACTATATAGGTTATATATACTAATGAAC-TATATAATATATAGTTTATATATACTATATAG
1 ATATAATATATAGGTTATATATACTAATGAACATATATAATATATAGTTTATATATACCATATAG
*
2192161 TTTATATATACTAATGCACT
66 TATATATATACTAATGCACT
* *
2192181 ATATAATATATAGTTTATATATACTAATGAACTATATATAATGTATAGTTTATATATACCATATA
1 ATATAATATATAGGTTATATATACTAATGAAC-ATATATAATATATAGTTTATATATACCATATA
2192246 GTATATATATA
65 GTATATATATA
2192257 TTATATAGTT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
84 30 0.43
86 39 0.57
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (85 bp):
ATATAATATATAGGTTATATATACTAATGAACATATATAATATATAGTTTATATATACCATATAG
TATATATATACTAATGCACT
Found at i:2192312 original size:14 final size:14
Alignment explanation
Indices: 2192293--2192323 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
2192283 CTATATAATG
2192293 TATAGTTTAGGGTT
1 TATAGTTTAGGGTT
2192307 TATAGTTTAGGGTT
1 TATAGTTTAGGGTT
2192321 TAT
1 TAT
2192324 GATTTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.52
Consensus pattern (14 bp):
TATAGTTTAGGGTT
Found at i:2192373 original size:34 final size:33
Alignment explanation
Indices: 2192330--2192404 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 33
2192320 TTATGATTTT
* *
2192330 TATATATAGTTCATATGTA-AATTATATTGTATA
1 TATATATAGTTCATATATATAA-TATATAGTATA
*
2192363 GTATATATAGTTTATATATATAATATATAGTATA
1 -TATATATAGTTCATATATATAATATATAGTATA
*
2192397 TAAATATA
1 TATATATA
2192405 AATCCTAAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
33 7 0.19
34 27 0.75
35 2 0.06
ACGTcount: A:0.44, C:0.01, G:0.08, T:0.47
Consensus pattern (33 bp):
TATATATAGTTCATATATATAATATATAGTATA
Found at i:2192388 original size:20 final size:20
Alignment explanation
Indices: 2192365--2192405 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2192355 ATTGTATAGT
* *
2192365 ATATATAGTTTATATATATA
1 ATATATAGTATATAAATATA
2192385 ATATATAGTATATAAATATA
1 ATATATAGTATATAAATATA
2192405 A
1 A
2192406 ATCCTAAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
ATATATAGTATATAAATATA
Found at i:2192454 original size:14 final size:14
Alignment explanation
Indices: 2192397--2192473 Score: 52
Period size: 14 Copynumber: 5.6 Consensus size: 14
2192387 ATATAGTATA
*
2192397 TAAAT-ATAAATCC
1 TAAATCATAAACCC
* *
2192410 TAAACCCTAAA-CC
1 TAAATCATAAACCC
* *
2192423 TAAA-CACTAGACCA
1 TAAATCA-TAAACCC
2192437 TAAATCATAAACCC
1 TAAATCATAAACCC
* *
2192451 TAAATCCTAAACCA
1 TAAATCATAAACCC
*
2192465 TAAACCATA
1 TAAATCATA
2192474 TATGTTCAAT
Statistics
Matches: 49, Mismatches: 11, Indels: 7
0.73 0.16 0.10
Matches are distributed among these distances:
12 1 0.02
13 13 0.27
14 33 0.67
15 2 0.04
ACGTcount: A:0.51, C:0.27, G:0.01, T:0.21
Consensus pattern (14 bp):
TAAATCATAAACCC
Found at i:2192464 original size:28 final size:27
Alignment explanation
Indices: 2192410--2192473 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 27
2192400 ATATAAATCC
* *
2192410 TAAACCCTAAACCTAAACACTAGACCA
1 TAAACCATAAACCTAAACACTAAACCA
*
2192437 TAAATCATAAACCCTAAATC-CTAAACCA
1 TAAACCATAAA-CCTAAA-CACTAAACCA
2192465 TAAACCATA
1 TAAACCATA
2192474 TATGTTCAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 9 0.29
28 21 0.68
29 1 0.03
ACGTcount: A:0.50, C:0.30, G:0.02, T:0.19
Consensus pattern (27 bp):
TAAACCATAAACCTAAACACTAAACCA
Found at i:2192471 original size:7 final size:7
Alignment explanation
Indices: 2192410--2192473 Score: 53
Period size: 7 Copynumber: 9.3 Consensus size: 7
2192400 ATATAAATCC
*
2192410 TAAACCC
1 TAAACCA
2192417 TAAACC-
1 TAAACCA
2192423 TAAA-CA
1 TAAACCA
*
2192429 CTAGACCA
1 -TAAACCA
*
2192437 TAAATCA
1 TAAACCA
*
2192444 TAAACCC
1 TAAACCA
2192451 TAAATCC-
1 TAAA-CCA
2192458 TAAACCA
1 TAAACCA
2192465 TAAACCA
1 TAAACCA
2192472 TA
1 TA
2192474 TATGTTCAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
5 1 0.02
6 6 0.13
7 36 0.77
8 4 0.09
ACGTcount: A:0.50, C:0.30, G:0.02, T:0.19
Consensus pattern (7 bp):
TAAACCA
Found at i:2193361 original size:214 final size:215
Alignment explanation
Indices: 2192476--2193379 Score: 1448
Period size: 209 Copynumber: 4.2 Consensus size: 215
2192466 AAACCATATA
* *
2192476 TGTTCAATTTATTTAAATTTTCTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCAAAATTAT
1 TGTTTAATTTATTTAAATTTT-TATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTAT
* *
2192541 ATTTGCATATGAAATTGACCCATAATTATTACTTATTTATATTTTTAATTGGCCCGTAACTTTTT
65 ATTTGCATATGAAATTGACCCATACTTATTACTTATTTATATTTTTAATTGGCCCATAACTTTTT
* **
2192606 AAATGGATATAATTTAGTAC-TTTTAATATTAATTTAAACCTCACAATTTAAAATTATTTCGATT
130 AAATGGGTATAATTTAGTACATTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTTCGATT
2192670 TGATCCCTCATCAATGTGTGT
195 TGATCCCTCATCAATGTGTGT
* * *
2192691 TGTTTAATTTATTTAAATTTTTATTTTTAATTTCATATTTATTCAATTTAGTCCTTCAAATTATA
1 TGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTATA
* * * *
2192756 TTTGTATCTAAAATTGACCCATACTTATTACTTAGTTATATTTTTTAATTGGCCCATAACTTTTT
66 TTTGCATATGAAATTGACCCATACTTATTACTTATTTATA-TTTTTAATTGGCCCATAACTTTTT
*
2192821 AAATGGGTATCATTTAGTACATTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTTCGATT
130 AAATGGGTATAATTTAGTACATTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTTCGATT
*
2192886 TGAT---TC--C--TTTGTGT
195 TGATCCCTCATCAATGTGTGT
*
2192900 TGTTTAATTTATTTAATTTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTATA
1 TGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTATA
* *
2192965 TTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTT
66 TTTGCATATGAAATTGACCCATACTTATTACTTATTTATATTTTT-AATTGGCCCATAACTTTTT
* * *
2193030 AAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTTCGATT
130 AAATGGGTATAATTTAGTACATTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTTCGATT
2193095 TGATCCCTCATCAATGTGTGT
195 TGATCCCTCATCAATGTGTGT
*
2193116 TGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTA
1 TGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTATA
* *
2193181 TTTGCATATGAAATTGATCCATACTTATTACTTAATTATATTTTTAATTGGCCCATAACTTTTTA
66 TTTGCATATGAAATTGACCCATACTTATTACTTATTTATATTTTTAATTGGCCCATAACTTTTTA
* * *
2193246 AATGAGTATAATTTAGTAC-TTTTTGTATTAATATCAACCTCACAATTTAAAATTATTTCGATTT
131 AATGGGTATAATTTAGTACATTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTTCGATTT
*
2193310 GATCTCTCATCAATGTGTGT
196 GATCCCTCATCAATGTGTGT
*
2193330 TATTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
1 TGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
2193380 ATTCTTAAAT
Statistics
Matches: 639, Mismatches: 40, Indels: 21
0.91 0.06 0.03
Matches are distributed among these distances:
208 5 0.01
209 187 0.29
211 1 0.00
212 2 0.00
213 2 0.00
214 187 0.29
215 99 0.15
216 156 0.24
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.50
Consensus pattern (215 bp):
TGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTATA
TTTGCATATGAAATTGACCCATACTTATTACTTATTTATATTTTTAATTGGCCCATAACTTTTTA
AATGGGTATAATTTAGTACATTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTTCGATTT
GATCCCTCATCAATGTGTGT
Found at i:2196956 original size:20 final size:20
Alignment explanation
Indices: 2196933--2196996 Score: 103
Period size: 20 Copynumber: 3.2 Consensus size: 20
2196923 AAGTTTCGAT
2196933 ACTTTCACAATAGTTTTGAA
1 ACTTTCACAATAGTTTTGAA
*
2196953 ACTTTCACAATAGTTTCGAA
1 ACTTTCACAATAGTTTTGAA
2196973 ACTTTCATCAA-AGTTTTGAA
1 ACTTTCA-CAATAGTTTTGAA
2196993 ACTT
1 ACTT
2196997 CATGTGCATG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
20 38 0.93
21 3 0.07
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.39
Consensus pattern (20 bp):
ACTTTCACAATAGTTTTGAA
Found at i:2201232 original size:16 final size:16
Alignment explanation
Indices: 2201190--2201226 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
2201180 AATTATAAAA
2201190 AATAA-TAAAATAATT
1 AATAATTAAAATAATT
2201205 AATAATTAAAATAA-T
1 AATAATTAAAATAATT
2201220 AATAATT
1 AATAATT
2201227 TTAAATTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AATAATTAAAATAATT
Found at i:2212517 original size:22 final size:18
Alignment explanation
Indices: 2212475--2212544 Score: 77
Period size: 18 Copynumber: 3.7 Consensus size: 18
2212465 TTAAGGAGTA
*
2212475 GTCCTTCGGGACATAGTG
1 GTCCTACGGGACATAGTG
2212493 GTCCTACGGGACATATACAGTG
1 GTCCTACGGGAC--AT--AGTG
* *
2212515 GTCATTCGGGACATAGTG
1 GTCCTACGGGACATAGTG
2212533 GTCCTACGGGAC
1 GTCCTACGGGAC
2212545 GAATACTGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
18 25 0.58
20 4 0.09
22 14 0.33
ACGTcount: A:0.21, C:0.23, G:0.31, T:0.24
Consensus pattern (18 bp):
GTCCTACGGGACATAGTG
Found at i:2228163 original size:2 final size:2
Alignment explanation
Indices: 2228156--2228198 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
2228146 TATAGATAAT
2228156 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
2228198 T
1 T
2228199 TGATACTTAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2228371 original size:32 final size:32
Alignment explanation
Indices: 2228335--2228397 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
2228325 ATTAAATTTC
* *
2228335 CGGTCACGCCATTTCTTAATAATATGTTAATT
1 CGGTCACACCATTTCTTAATAATATATTAATT
* *
2228367 CGGTCACACCGTTTCTTAATAGTATATTAAT
1 CGGTCACACCATTTCTTAATAATATATTAAT
2228398 CAGCCTTTCC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.40
Consensus pattern (32 bp):
CGGTCACACCATTTCTTAATAATATATTAATT
Found at i:2230310 original size:18 final size:18
Alignment explanation
Indices: 2230260--2230294 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
2230250 AATATGGAGG
2230260 CACTTGTTCTTCGTGCTA
1 CACTTGTTCTTCGTGCTA
2230278 CACTTGTTCTTCGTGCT
1 CACTTGTTCTTCGTGCT
2230295 GAGCTTGTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.09, C:0.29, G:0.17, T:0.46
Consensus pattern (18 bp):
CACTTGTTCTTCGTGCTA
Found at i:2231627 original size:19 final size:21
Alignment explanation
Indices: 2231605--2231660 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 21
2231595 AGAACCCCAG
2231605 GGGGGTATCGATTCCCC-T-A
1 GGGGGTATCGATTCCCCTTCA
* *
2231624 GGGGGAATCGGTTCCCCTTCA
1 GGGGGTATCGATTCCCCTTCA
*
2231645 AGGGGTATCGATTCCC
1 GGGGGTATCGATTCCC
2231661 TCTGCCCTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 15 0.50
20 1 0.03
21 14 0.47
ACGTcount: A:0.16, C:0.27, G:0.32, T:0.25
Consensus pattern (21 bp):
GGGGGTATCGATTCCCCTTCA
Found at i:2237536 original size:19 final size:19
Alignment explanation
Indices: 2237500--2237537 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
2237490 AAACCATTCA
2237500 GGGGGAATCGGTACTCCCTT
1 GGGGGAATCGGTA-TCCCTT
2237520 GGGGGTAATCGGT-TCCCT
1 GGGGG-AATCGGTATCCCT
2237538 CTGAGCAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.29
20 5 0.29
21 7 0.41
ACGTcount: A:0.13, C:0.24, G:0.37, T:0.26
Consensus pattern (19 bp):
GGGGGAATCGGTATCCCTT
Found at i:2238668 original size:20 final size:20
Alignment explanation
Indices: 2238640--2238680 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2238630 TGAATTTTCA
* *
2238640 AAATTTATTTTTGAAATTAT
1 AAATATATTTTTAAAATTAT
2238660 AAATATATTTTTAAAATTAT
1 AAATATATTTTTAAAATTAT
2238680 A
1 A
2238681 TTTAAAACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
AAATATATTTTTAAAATTAT
Found at i:2238888 original size:26 final size:27
Alignment explanation
Indices: 2238857--2238918 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
2238847 ATTCATATTT
**
2238857 TTTAAAAAA-TAATTATAATTTTATGAA
1 TTTAAAAAACTAATTATAAAGTTAT-AA
2238884 -TTAAAAAACTAATTATAAAGTTATAA
1 TTTAAAAAACTAATTATAAAGTTATAA
2238910 TTTAAAAAA
1 TTTAAAAAA
2238919 AATACTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.32
27 21 0.68
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (27 bp):
TTTAAAAAACTAATTATAAAGTTATAA
Found at i:2238958 original size:2 final size:2
Alignment explanation
Indices: 2238951--2238981 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2238941 TGAATCATGA
2238951 AT 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 AT A
2238982 ATTTTTTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2240099 original size:60 final size:59
Alignment explanation
Indices: 2240016--2240164 Score: 149
Period size: 60 Copynumber: 2.5 Consensus size: 59
2240006 GTTTAGGGAT
* * * * * * *
2240016 CAATTTAGAATAAGAGTCCTAGTTTAGGGATGAAATTG-GATTTTTCAAAATTTTAAGGAC
1 CAATTTAAAAT-AGAATCATAGTTTAGGGATGAAATTGAAATGTTT-AAAAATTTAAGAAC
* * *
2240076 TAATTTAAAATATGAAT-AGTAGTTTAAGAATGAAATTGAAATGTTTAAAAATTTAAGAAC
1 CAATTTAAAATA-GAATCA-TAGTTTAGGGATGAAATTGAAATGTTTAAAAATTTAAGAAC
*
2240136 CAATTTAAAATAGGATCATAGTTTAGGGA
1 CAATTTAAAATAGAATCATAGTTTAGGGA
2240165 CACATGACGT
Statistics
Matches: 71, Mismatches: 14, Indels: 9
0.76 0.15 0.10
Matches are distributed among these distances:
59 13 0.18
60 53 0.75
61 5 0.07
ACGTcount: A:0.43, C:0.05, G:0.17, T:0.34
Consensus pattern (59 bp):
CAATTTAAAATAGAATCATAGTTTAGGGATGAAATTGAAATGTTTAAAAATTTAAGAAC
Found at i:2246125 original size:3 final size:3
Alignment explanation
Indices: 2246117--2246168 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
2246107 AATTTTTCGT
* * *
2246117 TTA TTA TTA TTA TTA TCA TTA TTTA TTA TTA TTA TTG TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
2246163 TTA TTA
1 TTA TTA
2246169 AATATTACAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:2247576 original size:15 final size:15
Alignment explanation
Indices: 2247556--2247626 Score: 56
Period size: 15 Copynumber: 4.6 Consensus size: 15
2247546 ATCCATTAGT
2247556 TTTTAATATTATTAC
1 TTTTAATATTATTAC
* *
2247571 TTTTAAT-TTCTTTC
1 TTTTAATATTATTAC
2247585 ATTTTAATTATTATTA-
1 -TTTTAA-TATTATTAC
*
2247601 TTTTATTTTATTATTAC
1 TTTTA--ATATTATTAC
*
2247618 GTTTAATAT
1 TTTTAATAT
2247627 ATGTTTAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
14 5 0.12
15 21 0.49
16 9 0.21
17 8 0.19
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (15 bp):
TTTTAATATTATTAC
Found at i:2248089 original size:17 final size:15
Alignment explanation
Indices: 2248059--2248094 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 15
2248049 AAATTATAGT
2248059 AATAAATTTAAATTA
1 AATAAATTTAAATTA
2248074 AATAGAATTATAAATTA
1 AATA-AATT-TAAATTA
2248091 AATA
1 AATA
2248095 TATCTTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.21
16 4 0.21
17 11 0.58
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (15 bp):
AATAAATTTAAATTA
Found at i:2248563 original size:28 final size:29
Alignment explanation
Indices: 2248531--2248586 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
2248521 TAATTCTTTC
*
2248531 TTTTCA-AAT-TTTTTATATATACTTATTA
1 TTTTCATAATATTTATATATATA-TTATTA
*
2248559 TTTTCATAATATTTATATGTATATTATT
1 TTTTCATAATATTTATATATATATTATT
2248587 TTATTAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.25
29 8 0.33
30 10 0.42
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (29 bp):
TTTTCATAATATTTATATATATATTATTA
Found at i:2250726 original size:36 final size:36
Alignment explanation
Indices: 2250681--2250778 Score: 92
Period size: 37 Copynumber: 2.7 Consensus size: 36
2250671 ACATTTTTGT
* *
2250681 ATCTGTGCATTTC-CATTTTGTATTCTTACTTTTTAC
1 ATCTTTGCATTTCACATTTTGCATTCTTA-TTTTTAC
* * *
2250717 ATCTTTGCATTACACAGTTTGCATTCTTATTTTTGC
1 ATCTTTGCATTTCACATTTTGCATTCTTATTTTTAC
* *
2250753 AT-TTATGCATTTTCGCATTTTACATT
1 ATCTT-TGCA-TTTCACATTTTGCATT
2250779 ACATTTTTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
35 2 0.04
36 23 0.46
37 25 0.50
ACGTcount: A:0.19, C:0.18, G:0.09, T:0.53
Consensus pattern (36 bp):
ATCTTTGCATTTCACATTTTGCATTCTTATTTTTAC
Found at i:2255092 original size:114 final size:114
Alignment explanation
Indices: 2254891--2255114 Score: 340
Period size: 114 Copynumber: 2.0 Consensus size: 114
2254881 GTGCCATGTT
* * *
2254891 CTCATAGTAGAAATAAGAAGGCCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTG
* * * *
2254956 GTTTGGTATAAACCCCAAAACCAATCACTGGATTTGAAAGATGAATTTG
66 GTTCGGTAGAAACCCCAAAACCAATCACTGAAATTGAAAGATGAATTTG
*
2255005 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTG
* * * *
2255070 GTTCGGTAGGAATCCCATAACCAATCATTGAAATTGAAAGATGAA
66 GTTCGGTAGAAACCCCAAAACCAATCACTGAAATTGAAAGATGAA
2255115 CTGCATGATC
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
114 98 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.30
Consensus pattern (114 bp):
CTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTG
GTTCGGTAGAAACCCCAAAACCAATCACTGAAATTGAAAGATGAATTTG
Found at i:2257395 original size:54 final size:54
Alignment explanation
Indices: 2257292--2257437 Score: 142
Period size: 54 Copynumber: 2.8 Consensus size: 54
2257282 TAATTGAGAA
* *
2257292 ATCTGAGCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAATACTTTACGAAC
1 ATCTGAGCAGAAGCCACAGAAAAGGAAGAATGTGTTGTCAAAGACTTTACGAAC
* * ** *
2257346 ATCTGAGCAGAAGCTACA-AGAAAGGAAGAATGTGTTTTCAAAGGTTTTAC-ATC
1 ATCTGAGCAGAAGCCACAGA-AAAGGAAGAATGTGTTGTCAAAGACTTTACGAAC
* * *
2257399 -TC-GA-CAGAAACCACAGGAAAA-GATGAATGTATTGTCAAA
1 ATCTGAGCAGAAGCCACA-GAAAAGGAAGAATGTGTTGTCAAA
2257438 TGTTTTACGA
Statistics
Matches: 77, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
50 24 0.31
51 5 0.06
52 3 0.04
53 3 0.04
54 42 0.55
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (54 bp):
ATCTGAGCAGAAGCCACAGAAAAGGAAGAATGTGTTGTCAAAGACTTTACGAAC
Found at i:2257875 original size:22 final size:22
Alignment explanation
Indices: 2257800--2257876 Score: 118
Period size: 22 Copynumber: 3.5 Consensus size: 22
2257790 ATCTACATTC
*
2257800 TTCAAAGATAATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
2257822 TTCAAAGATGAAAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
* *
2257844 TTTAAAGATGATATATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
2257866 TTCAAAGATGA
1 TTCAAAGATGA
2257877 AAGCTTTATG
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:2258766 original size:187 final size:185
Alignment explanation
Indices: 2258427--2258799 Score: 606
Period size: 187 Copynumber: 2.0 Consensus size: 185
2258417 CCAATCAACA
*
2258427 TGTTATTTTGAAAAAATAATGAGAAAACGATTTCCCTAGTTTCTCATTCAATCTTTTCTAAAAAT
1 TGTTATTTTGAAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAAT
*
2258492 GAAATTGTTGAAAAGTAAGAAAACGATTTTCTTAGTTTTTTACTTAGTAAACTATTTCCCACATC
66 GAAATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTACTTAGTAAACTATTTCCCACATC
* * *
2258557 TGTAAGTCTTGCAGTGCATGATGTTTCCAAAAGGCCTTCGGGAGCTTTTTGATGT
131 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
* **
2258612 TGTTATTTTG-AAAAATAATGAGAAAATGATTTCCATAGTTTCTCATTTTATCTTTTCT-AAAAT
1 TGTTATTTTGAAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAAT
* *
2258675 GAAATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTTTTACTTATTAAACTATTTCCTA
66 GAAATTGTTGAAAAGTAAGAAAACGATTTCCTTAG----TTTTTTACTTAGTAAACTATTTCCCA
2258740 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
127 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
2258799 T
1 T
2258800 TTCAAAGCCT
Statistics
Matches: 174, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
183 39 0.22
184 44 0.25
185 10 0.06
187 81 0.47
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (185 bp):
TGTTATTTTGAAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAAT
GAAATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTACTTAGTAAACTATTTCCCACATC
TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
Found at i:2259183 original size:76 final size:76
Alignment explanation
Indices: 2258740--2259149 Score: 784
Period size: 76 Copynumber: 5.4 Consensus size: 76
2258730 CTATTTCCTA
*
2258740 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2258805 AGCCTTAGGGT
66 AGCCTTAGGGT
*
2258816 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2258881 AGCCTTAGGGT
66 AGCCTTAGGGT
*
2258892 CATCTGTAAGTCCTGTAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2258957 AGCCTTAGGGT
66 AGCCTTAGGGT
2258968 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2259033 AGCCTTAGGGT
66 AGCCTTAGGGT
*
2259044 CATCTGTAAGTCCTGCAGTGCATGATATTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2259109 AGCCTTAGGGT
66 AGCCTTAGGGT
2259120 CATCTGTAAGTCCTGCAGTGCATGATGTTT
1 CATCTGTAAGTCCTGCAGTGCATGATGTTT
2259150 TTAAGACCTC
Statistics
Matches: 329, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 329 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:2259302 original size:3 final size:3
Alignment explanation
Indices: 2259294--2259345 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
2259284 AATTTTTCAT
* * *
2259294 TTA TTA TTA TTA TTA TCA TTA TTTA TTA TTA TTA TTG TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
2259340 TTA TTA
1 TTA TTA
2259346 AATATTACAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:2260750 original size:15 final size:15
Alignment explanation
Indices: 2260730--2260800 Score: 56
Period size: 15 Copynumber: 4.6 Consensus size: 15
2260720 ATCCATTAGT
2260730 TTTTAATATTATTAC
1 TTTTAATATTATTAC
* *
2260745 TTTTAAT-TTCTTTC
1 TTTTAATATTATTAC
2260759 ATTTTAATTATTATTA-
1 -TTTTAA-TATTATTAC
*
2260775 TTTTATTTTATTATTAC
1 TTTTA--ATATTATTAC
*
2260792 GTTTAATAT
1 TTTTAATAT
2260801 ATGTTTAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
14 5 0.12
15 21 0.49
16 9 0.21
17 8 0.19
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (15 bp):
TTTTAATATTATTAC
Found at i:2261263 original size:17 final size:15
Alignment explanation
Indices: 2261233--2261268 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 15
2261223 AAATTATAGT
2261233 AATAAATTTAAATTA
1 AATAAATTTAAATTA
2261248 AATAGAATTATAAATTA
1 AATA-AATT-TAAATTA
2261265 AATA
1 AATA
2261269 TATCCTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.21
16 4 0.21
17 11 0.58
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (15 bp):
AATAAATTTAAATTA
Found at i:2262992 original size:18 final size:18
Alignment explanation
Indices: 2262969--2263038 Score: 113
Period size: 18 Copynumber: 3.9 Consensus size: 18
2262959 AATGGTCTAC
2262969 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGGGACATA
* *
2262987 GTGGTCATTCGGGACACA
1 GTGGTCCTTCGGGACATA
2263005 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGGGACATA
*
2263023 GTGGTCCTACGGGACA
1 GTGGTCCTTCGGGACA
2263039 AATTCTACGC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.19, C:0.23, G:0.34, T:0.24
Consensus pattern (18 bp):
GTGGTCCTTCGGGACATA
Found at i:2267375 original size:7 final size:7
Alignment explanation
Indices: 2267339--2267372 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
2267329 GTGTGTTTCC
2267339 TGTGATA
1 TGTGATA
2267346 TGTGATA
1 TGTGATA
2267353 TGTGATA
1 TGTGATA
2267360 TGT-ATA
1 TGTGATA
*
2267366 AGTGATA
1 TGTGATA
2267373 AGTTAGGATC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 5 0.20
7 20 0.80
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.41
Consensus pattern (7 bp):
TGTGATA
Found at i:2268174 original size:66 final size:66
Alignment explanation
Indices: 2268064--2268195 Score: 174
Period size: 66 Copynumber: 2.0 Consensus size: 66
2268054 AGAAACTTTT
* * *
2268064 AGACCTTAATTATATTGGTAAAGTAGATGAACCTATGTTAAAGTTTAATCATGTGTAAATAATGT
1 AGACCTTAATTATATTGGTAAAGTAGACGAACCTATGTCAAAGTTTAATCATATGTAAATAATGT
2268129 G
66 G
*** * * * *
2268130 AGACCTTAATTATATTGGTAAAGTAGACGAGTTTATGTCGAAGTTTCATTATATGTAAATATTGT
1 AGACCTTAATTATATTGGTAAAGTAGACGAACCTATGTCAAAGTTTAATCATATGTAAATAATGT
2268195 G
66 G
2268196 TCATTTTTTT
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 56 1.00
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.38
Consensus pattern (66 bp):
AGACCTTAATTATATTGGTAAAGTAGACGAACCTATGTCAAAGTTTAATCATATGTAAATAATGT
G
Found at i:2271716 original size:8 final size:8
Alignment explanation
Indices: 2271703--2271730 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
2271693 TAAATATATT
2271703 ATTTTAAA
1 ATTTTAAA
2271711 ATTTTAAA
1 ATTTTAAA
2271719 ATTTTAAA
1 ATTTTAAA
2271727 ATTT
1 ATTT
2271731 ATTATCATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
ATTTTAAA
Found at i:2273065 original size:39 final size:39
Alignment explanation
Indices: 2273011--2273104 Score: 161
Period size: 39 Copynumber: 2.4 Consensus size: 39
2273001 TACTAACATA
* *
2273011 TGTGTTAAATGTTGTGTTTGTTTATGATTTTGTCAAGAT
1 TGTGTTAAATATTGTGTTTGTGTATGATTTTGTCAAGAT
2273050 TGTGTTAAATATTGTGTTTGTGTATGATTTTGTCAAGAT
1 TGTGTTAAATATTGTGTTTGTGTATGATTTTGTCAAGAT
*
2273089 TGTGATAAATATTGTG
1 TGTGTTAAATATTGTG
2273105 ATCAAATTGA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.23, C:0.02, G:0.23, T:0.51
Consensus pattern (39 bp):
TGTGTTAAATATTGTGTTTGTGTATGATTTTGTCAAGAT
Found at i:2273103 original size:21 final size:20
Alignment explanation
Indices: 2273040--2273103 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 20
2273030 GTTTATGATT
2273040 TTGTCAAGATTGTGTTAAATA
1 TTGTCAAGATTGTG-TAAATA
* * *
2273061 TTGT---GTTTGTGTATGATT
1 TTGTCAAGATTGTGTA-AATA
2273079 TTGTCAAGATTGTGATAAATA
1 TTGTCAAGATTGTG-TAAATA
2273100 TTGT
1 TTGT
2273104 GATCAAATTG
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
17 2 0.06
18 12 0.38
21 16 0.50
22 2 0.06
ACGTcount: A:0.27, C:0.03, G:0.22, T:0.48
Consensus pattern (20 bp):
TTGTCAAGATTGTGTAAATA
Found at i:2274744 original size:60 final size:60
Alignment explanation
Indices: 2274669--2274785 Score: 155
Period size: 60 Copynumber: 1.9 Consensus size: 60
2274659 TAATTTTGGA
* * * * * *
2274669 ATGTTAAAAATTTTGAGGAGTAATTTAGAATGA-ATGTCATGGTTTGGGGATGAAATTGAG
1 ATGTTAAAAAGTTTGAGGACTAATTTAAAATGATA-GTAATGCTTTAGGGATGAAATTGAG
*
2274729 ATGTTTAAAAGTTTGAGGACTAATTTAAAATGATAGTAATGCTTTAGGGATGAAATT
1 ATGTTAAAAAGTTTGAGGACTAATTTAAAATGATAGTAATGCTTTAGGGATGAAATT
2274786 AAAACATTTA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
60 48 0.98
61 1 0.02
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.36
Consensus pattern (60 bp):
ATGTTAAAAAGTTTGAGGACTAATTTAAAATGATAGTAATGCTTTAGGGATGAAATTGAG
Found at i:2274796 original size:60 final size:60
Alignment explanation
Indices: 2274672--2274821 Score: 151
Period size: 60 Copynumber: 2.5 Consensus size: 60
2274662 TTTTGGAATG
* * * * * * * **
2274672 TTAAAAATTTTGAGGAGTAATTTAGAATGAATGTCATGGTTTGGGGATGAAATTGAGATGT
1 TTAAAAA-TTTGAGGACTAATTTAAAATGAATGTAATGCTTTAGGGATGAAATTAAAACAT
*
2274733 TTAAAAGTTTGAGGACTAATTTAAAATG-ATAGTAATGCTTTAGGGATGAAATTAAAACAT
1 TTAAAAATTTGAGGACTAATTTAAAATGAAT-GTAATGCTTTAGGGATGAAATTAAAACAT
* *
2274793 TTAAAAATAT-AGGAACCAATTTAAAATGA
1 TTAAAAATTTGAGG-ACTAATTTAAAATGA
2274822 CAGTCATACT
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
59 5 0.07
60 62 0.85
61 6 0.08
ACGTcount: A:0.42, C:0.04, G:0.21, T:0.33
Consensus pattern (60 bp):
TTAAAAATTTGAGGACTAATTTAAAATGAATGTAATGCTTTAGGGATGAAATTAAAACAT
Found at i:2275152 original size:16 final size:16
Alignment explanation
Indices: 2275125--2275173 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
2275115 CTACGCTACA
*
2275125 TATTATTATTATTTTT
1 TATTATTTTTATTTTT
* **
2275141 TGTTATTTTTATGATT
1 TATTATTTTTATTTTT
*
2275157 TATGATTTTTATTTTT
1 TATTATTTTTATTTTT
2275173 T
1 T
2275174 TTACTTTCTT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.73
Consensus pattern (16 bp):
TATTATTTTTATTTTT
Found at i:2275227 original size:17 final size:16
Alignment explanation
Indices: 2275187--2275229 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
2275177 CTTTCTTTTG
* *
2275187 TTATTTTCTTTTTCTT
1 TTATTTTCTTTTTATA
2275203 TTACTTTTCTTTGTTATA
1 TTA-TTTTCTTT-TTATA
2275221 TTATTTTCT
1 TTATTTTCT
2275230 CTTATTCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 3 0.13
17 14 0.61
18 6 0.26
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (16 bp):
TTATTTTCTTTTTATA
Found at i:2275227 original size:29 final size:29
Alignment explanation
Indices: 2275168--2275232 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
2275158 ATGATTTTTA
* *
2275168 TTTT-TTTTACTTTCTTTTGTTATTTTCT
1 TTTTCTTTTACTTTCTTTTGTTATATTAT
2275196 TTTTCTTTTACTTT-TCTTTGTTATATTAT
1 TTTTCTTTTACTTTCT-TTTGTTATATTAT
2275225 TTTCTCTT
1 TTT-TCTT
2275233 ATTCTATCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 5 0.16
29 23 0.72
30 4 0.12
ACGTcount: A:0.09, C:0.12, G:0.03, T:0.75
Consensus pattern (29 bp):
TTTTCTTTTACTTTCTTTTGTTATATTAT
Found at i:2275319 original size:15 final size:17
Alignment explanation
Indices: 2275299--2275330 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
2275289 CATAATATAA
2275299 TAAATT-CAAG-TAGAT
1 TAAATTGCAAGATAGAT
2275314 TAAATTGCAAGATAGAT
1 TAAATTGCAAGATAGAT
2275331 AAAAATACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.47, C:0.06, G:0.16, T:0.31
Consensus pattern (17 bp):
TAAATTGCAAGATAGAT
Found at i:2275475 original size:22 final size:21
Alignment explanation
Indices: 2275433--2275488 Score: 87
Period size: 22 Copynumber: 2.7 Consensus size: 21
2275423 TTTCATCTTA
2275433 AGAGTAGAGAT-AGATGCTGT
1 AGAGTAGAGATAAGATGCTGT
*
2275453 AGAGTAGAGATAGAGATGTTGT
1 AGAGTAGAGATA-AGATGCTGT
2275475 AGAGTAGAGATAAG
1 AGAGTAGAGATAAG
2275489 GGCGGGAGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 11 0.33
21 2 0.06
22 20 0.61
ACGTcount: A:0.39, C:0.02, G:0.36, T:0.23
Consensus pattern (21 bp):
AGAGTAGAGATAAGATGCTGT
Found at i:2276635 original size:76 final size:76
Alignment explanation
Indices: 2276474--2276618 Score: 204
Period size: 76 Copynumber: 1.9 Consensus size: 76
2276464 ATTTTAAACA
* * *
2276474 TTATATTTTATCTTAGTTTTAGGTATTTTAGTTTAAATCTGTTTTAGTATTTTAATTAAGTTTTA
1 TTATATTTTATCTTAGTTTTAAGTATTTTAGTTTAAATATGTTTTAGTATTTTAATTAAGATTTA
*
2276539 TGATATTATTT
66 AGATATTATTT
* *
2276550 TTATATTTTATCTTTGTTTTAAGTATTTTAGTTTAAATAT-TTTTAAGTGTTTTAATT-AGAATT
1 TTATATTTTATCTTAGTTTTAAGTATTTTAGTTTAAATATGTTTT-AGTATTTTAATTAAG-ATT
2276613 TAAGAT
64 TAAGAT
2276619 GTTTTAGTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
75 6 0.10
76 55 0.90
ACGTcount: A:0.28, C:0.02, G:0.10, T:0.59
Consensus pattern (76 bp):
TTATATTTTATCTTAGTTTTAAGTATTTTAGTTTAAATATGTTTTAGTATTTTAATTAAGATTTA
AGATATTATTT
Found at i:2277241 original size:17 final size:17
Alignment explanation
Indices: 2277216--2277249 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2277206 CTTTATCCCA
*
2277216 ATTTATTTATTTTATTT
1 ATTTATTTATTTAATTT
*
2277233 ATTTGTTTATTTAATTT
1 ATTTATTTATTTAATTT
2277250 TTATCTCATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTATTTATTTAATTT
Found at i:2277326 original size:7 final size:7
Alignment explanation
Indices: 2277304--2277357 Score: 63
Period size: 7 Copynumber: 7.7 Consensus size: 7
2277294 TTTATTACTA
*
2277304 TTTTTAA
1 TTTTTAT
*
2277311 TTTTAAT
1 TTTTTAT
*
2277318 TTCTTAT
1 TTTTTAT
2277325 TTTTTAT
1 TTTTTAT
2277332 TTTTTAT
1 TTTTTAT
* *
2277339 TTATAAT
1 TTTTTAT
2277346 TTTTTAT
1 TTTTTAT
2277353 TTTTT
1 TTTTT
2277358 TATACATTTT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTTAT
Found at i:2277357 original size:21 final size:21
Alignment explanation
Indices: 2277304--2277357 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
2277294 TTTATTACTA
* * * *
2277304 TTTTTAATTTTAATTTCTTAT
1 TTTTTATTTTTTATTTATAAT
2277325 TTTTTATTTTTTATTTATAAT
1 TTTTTATTTTTTATTTATAAT
2277346 TTTTTATTTTTT
1 TTTTTATTTTTT
2277358 TATACATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTATTTTTTATTTATAAT
Found at i:2277359 original size:18 final size:21
Alignment explanation
Indices: 2277287--2277367 Score: 62
Period size: 21 Copynumber: 3.9 Consensus size: 21
2277277 TAAAAACCCC
*
2277287 TTTTATATTTATTACTATTTTTAA
1 TTTT-TATTTA-TAC-ATTTTTTA
* * *
2277311 TTTTAATTTCT-TATTTTTTA
1 TTTTTATTTATACATTTTTTA
2277331 TTTTTTATTTATA-ATTTTTTA
1 -TTTTTATTTATACATTTTTTA
2277352 -TTTT-TTTATACATTTT
1 TTTTTATTTATACATTTT
2277368 CAATTTTACT
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
18 6 0.12
19 9 0.19
20 7 0.15
21 17 0.35
22 1 0.02
23 4 0.08
24 4 0.08
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTTATTTATACATTTTTTA
Found at i:2277373 original size:19 final size:19
Alignment explanation
Indices: 2277333--2277375 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
2277323 ATTTTTTATT
**
2277333 TTTTATTTATAATTTTTTA
1 TTTTATTTATAATTTTCAA
2277352 TTTT-TTTATACATTTTCAA
1 TTTTATTTATA-ATTTTCAA
2277371 TTTTA
1 TTTTA
2277376 CTTGAGATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTATTTATAATTTTCAA
Done.