Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 37 of 290
Found at i:11868771 original size:28 final size:28
Alignment explanation
Indices: 11868739--11868794 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
11868729 GCAGCACAAA
*
11868739 ATCATTCTATTGTTCTTCGTTTCATTAC
1 ATCATTCTATTGTTCTTCCTTTCATTAC
11868767 ATCATTCTATTGTTCTTCCTTTCATTAC
1 ATCATTCTATTGTTCTTCCTTTCATTAC
11868795 TGGTTTTCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.18, C:0.23, G:0.05, T:0.54
Consensus pattern (28 bp):
ATCATTCTATTGTTCTTCCTTTCATTAC
Found at i:11877926 original size:6 final size:6
Alignment explanation
Indices: 11877912--11877944 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
11877902 TCTTTTTCTT
*
11877912 TTTTG- TTTTAA TTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
11877945 TTTTTACCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.73
Consensus pattern (6 bp):
TTTTGA
Found at i:11878636 original size:19 final size:19
Alignment explanation
Indices: 11878612--11878651 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
11878602 TTTTAAAAAA
* *
11878612 TAAAAATCATTAAAATTATT
1 TAAAAA-CATAAAAAATATT
11878632 TAAAAACATAAAAAATATT
1 TAAAAACATAAAAAATATT
11878651 T
1 T
11878652 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
TAAAAACATAAAAAATATT
Found at i:11883612 original size:10 final size:11
Alignment explanation
Indices: 11883594--11883620 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
11883584 AACAATGTAC
11883594 AGAAAAAAAAA
1 AGAAAAAAAAA
11883605 AGAAAAAAAAA
1 AGAAAAAAAAA
11883616 AGAAA
1 AGAAA
11883621 GTAAAGCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:11889875 original size:17 final size:17
Alignment explanation
Indices: 11889828--11889900 Score: 58
Period size: 17 Copynumber: 4.3 Consensus size: 17
11889818 CCACACATTG
* *
11889828 ACATAGTTCACATATAA
1 ACATAGCTCTCATATAA
* *
11889845 ACACAACT-TGCATATAA
1 ACATAGCTCT-CATATAA
11889862 ACATAGCTCTCATATAA
1 ACATAGCTCTCATATAA
* * **
11889879 ATATAGTTAGCATATAA
1 ACATAGCTCTCATATAA
11889896 ACATA
1 ACATA
11889901 ACTCAGATTG
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
17 42 0.98
18 1 0.02
ACGTcount: A:0.47, C:0.18, G:0.07, T:0.29
Consensus pattern (17 bp):
ACATAGCTCTCATATAA
Found at i:11890003 original size:16 final size:16
Alignment explanation
Indices: 11889982--11890013 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11889972 ACAATGATAG
11889982 TTTGCATATTCAAGTA
1 TTTGCATATTCAAGTA
11889998 TTTGCATATTCAAGTA
1 TTTGCATATTCAAGTA
11890014 ATCACATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (16 bp):
TTTGCATATTCAAGTA
Found at i:11891305 original size:26 final size:26
Alignment explanation
Indices: 11891273--11891324 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
11891263 CGAACAACTG
11891273 AATTGGCATACCAATTGTATCCTATC
1 AATTGGCATACCAATTGTATCCTATC
*
11891299 AATTGGCATACCACTTGTATCCTATC
1 AATTGGCATACCAATTGTATCCTATC
11891325 TTTTCTTACG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.35
Consensus pattern (26 bp):
AATTGGCATACCAATTGTATCCTATC
Found at i:11897556 original size:28 final size:28
Alignment explanation
Indices: 11897484--11897543 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
11897474 TTATCGAGCT
*
11897484 TTGTCTCTACGGAGACCACTGTTACTAA
1 TTGTCTCTACAGAGACCACTGTTACTAA
* * *
11897512 TTTTCTCTACGGAGACCACTGTTACTGA
1 TTGTCTCTACAGAGACCACTGTTACTAA
11897540 TTGT
1 TTGT
11897544 GTTTATAGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (28 bp):
TTGTCTCTACAGAGACCACTGTTACTAA
Found at i:11900583 original size:11 final size:11
Alignment explanation
Indices: 11900569--11900593 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11900559 GAAGAGAGAG
11900569 AAAAGAAAATA
1 AAAAGAAAATA
11900580 AAAAGAAAATA
1 AAAAGAAAATA
11900591 AAA
1 AAA
11900594 TAATTAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAAGAAAATA
Found at i:11905125 original size:156 final size:156
Alignment explanation
Indices: 11904836--11905148 Score: 590
Period size: 156 Copynumber: 2.0 Consensus size: 156
11904826 TGCTCCACGC
11904836 ACTTAACATCCTTGACTCTCAACCAGAACTGTGAACTCTCACTCTTTTTGTAGAGCAATCAATAC
1 ACTTAACATCCTTGACTCTCAACCAGAACTGTGAACTCTCACTCTTTTTGTAGAGCAATCAATAC
11904901 TTTTAGATTATCCCTTAATCCGTCCTCAAATTGGACACACCTCTCATACTCAGTCGCAACCATAC
66 TTTTAGATTATCCCTTAATCCGTCCTCAAATTGGACACACCTCTCATACTCAGTCGCAACCATAC
* *
11904966 CTCGAGTGTAGCGACTTATCCTCAAA
131 CTCGAGTGTAGCGACTCAGCCTCAAA
*
11904992 ACTTAACATCTTTGACTCTCAACCAGAACTGTGAACTCTCACTCTTTTTGTAGAGCAATCAATAC
1 ACTTAACATCCTTGACTCTCAACCAGAACTGTGAACTCTCACTCTTTTTGTAGAGCAATCAATAC
*
11905057 TTTTAGATTATCCCTTAATCCGTCCTCAAATTGGACACACCTCTCATACTCAGTCGCAACCATGC
66 TTTTAGATTATCCCTTAATCCGTCCTCAAATTGGACACACCTCTCATACTCAGTCGCAACCATAC
11905122 CTCGAGTGTAGCGACTCAGCCTCAAA
131 CTCGAGTGTAGCGACTCAGCCTCAAA
11905148 A
1 A
11905149 ACTCGACCTT
Statistics
Matches: 153, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 153 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.30
Consensus pattern (156 bp):
ACTTAACATCCTTGACTCTCAACCAGAACTGTGAACTCTCACTCTTTTTGTAGAGCAATCAATAC
TTTTAGATTATCCCTTAATCCGTCCTCAAATTGGACACACCTCTCATACTCAGTCGCAACCATAC
CTCGAGTGTAGCGACTCAGCCTCAAA
Found at i:11907848 original size:16 final size:16
Alignment explanation
Indices: 11907812--11907854 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
11907802 TGGAAGAGAG
*
11907812 AGAAAATAA-AATAAA
1 AGAAAATAATAAAAAA
*
11907827 ATAAAATAATAAAAAA
1 AGAAAATAATAAAAAA
*
11907843 AGAAAATTATAA
1 AGAAAATAATAA
11907855 TCCAAATCCC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.19
Consensus pattern (16 bp):
AGAAAATAATAAAAAA
Found at i:11910696 original size:26 final size:26
Alignment explanation
Indices: 11910630--11910715 Score: 145
Period size: 26 Copynumber: 3.2 Consensus size: 26
11910620 GATAAAAAGC
11910630 ATATTTGATAAGGTATATTAAAATGA
1 ATATTTGATAAGGTATATTAAAATGA
*
11910656 ATTCATTTGATAAGGTATATCAAAATGA
1 A-T-ATTTGATAAGGTATATTAAAATGA
11910684 ATATTTGATAAGGTATATTAAAATGA
1 ATATTTGATAAGGTATATTAAAATGA
11910710 ATATTT
1 ATATTT
11910716 AAGTTTTAGA
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
26 30 0.54
27 2 0.04
28 24 0.43
ACGTcount: A:0.44, C:0.02, G:0.14, T:0.40
Consensus pattern (26 bp):
ATATTTGATAAGGTATATTAAAATGA
Found at i:11911787 original size:41 final size:41
Alignment explanation
Indices: 11911737--11911815 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
11911727 TACATCTTCA
11911737 ACTGAATTATATGTAGAGAACAACGAATCATCACCCTTTTC
1 ACTGAATTATATGTAGAGAACAACGAATCATCACCCTTTTC
* * *
11911778 ACTGTATTATATGTAGAGAACAATGAATCATCGCCCTT
1 ACTGAATTATATGTAGAGAACAACGAATCATCACCCTT
11911816 GTCATTGGCC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.30
Consensus pattern (41 bp):
ACTGAATTATATGTAGAGAACAACGAATCATCACCCTTTTC
Found at i:11913356 original size:37 final size:37
Alignment explanation
Indices: 11913302--11913396 Score: 120
Period size: 37 Copynumber: 2.6 Consensus size: 37
11913292 CATCAAGTAT
* * *
11913302 AGAGACATGACTATTCAAATACATATGG-ACTAAGTGA
1 AGAGACATGACTTTTCAAATACACACGGAAC-AAGTGA
* *
11913339 AGAGACATGGCTTTTCAACTACACACGGAACAAGTGA
1 AGAGACATGACTTTTCAAATACACACGGAACAAGTGA
*
11913376 AGAGACATGACCTTTCAAATA
1 AGAGACATGACTTTTCAAATA
11913397 TCTTCCATTA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
37 47 0.96
38 2 0.04
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (37 bp):
AGAGACATGACTTTTCAAATACACACGGAACAAGTGA
Found at i:11915858 original size:9 final size:9
Alignment explanation
Indices: 11915844--11915868 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
11915834 AGTATAATGG
11915844 CATGCTTCT
1 CATGCTTCT
11915853 CATGCTTCT
1 CATGCTTCT
11915862 CATGCTT
1 CATGCTT
11915869 TTCAGTAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.32, G:0.12, T:0.44
Consensus pattern (9 bp):
CATGCTTCT
Found at i:11922314 original size:21 final size:22
Alignment explanation
Indices: 11922279--11922319 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
11922269 TTATGTTTGT
11922279 TAAACATCACTTAATTAGTTAG
1 TAAACATCACTTAATTAGTTAG
*
11922301 TAAAC-TCAGTTAATTAGTT
1 TAAACATCACTTAATTAGTT
11922320 TATTTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (22 bp):
TAAACATCACTTAATTAGTTAG
Found at i:11923860 original size:21 final size:22
Alignment explanation
Indices: 11923834--11923874 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11923824 TACTAGCCAC
11923834 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
*
11923855 AGGGGCAACACGCCTGTGTG
1 AGGGGCAACACGCCCGTGTG
11923875 ACCAATTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.27, G:0.44, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:11925222 original size:47 final size:46
Alignment explanation
Indices: 11925128--11925246 Score: 134
Period size: 48 Copynumber: 2.5 Consensus size: 46
11925118 ATGTCTTACA
* *
11925128 TTCCAGACACGTCTTACACTGGCTCTCATCTCAATGCCAATGCCATG
1 TTCCAGACATGTCTTACACTGGCTCTCATAT-AATGCCAATGCCATG
*
11925175 TTCCAGACATGGTCTTACACTGGCTCTCATA-ATATGGCCGATG-CATG
1 TTCCAGACAT-GTCTTACACTGGCTCTCATATA-AT-GCCAATGCCATG
* * *
11925222 TCCCAAACATGTCTTACACTAGCTC
1 TTCCAGACATGTCTTACACTGGCTC
11925247 ACAATAACCC
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
46 15 0.24
47 23 0.37
48 25 0.40
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (46 bp):
TTCCAGACATGTCTTACACTGGCTCTCATATAATGCCAATGCCATG
Found at i:11926586 original size:24 final size:25
Alignment explanation
Indices: 11926550--11926596 Score: 62
Period size: 23 Copynumber: 1.9 Consensus size: 25
11926540 TATTTATGGA
*
11926550 TAGAACGTCCACAATCTTTAATTGGT
1 TAGAACGTCCAC-ACCTTTAATTGGT
11926576 TAGAAC-T-CACACCTTTAATTG
1 TAGAACGTCCACACCTTTAATTG
11926597 CAAATCCGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 10 0.50
24 3 0.15
25 1 0.05
26 6 0.30
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (25 bp):
TAGAACGTCCACACCTTTAATTGGT
Found at i:11938682 original size:17 final size:17
Alignment explanation
Indices: 11938662--11938696 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11938652 CGATAGTAGG
11938662 GAAAACAAAA-TAAAAAT
1 GAAAA-AAAAGTAAAAAT
11938679 GAAAAAAAAGTAAAAAT
1 GAAAAAAAAGTAAAAAT
11938696 G
1 G
11938697 GGGAAAGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.74, C:0.03, G:0.11, T:0.11
Consensus pattern (17 bp):
GAAAAAAAAGTAAAAAT
Found at i:11952558 original size:24 final size:24
Alignment explanation
Indices: 11952526--11952574 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
11952516 TTAGGGTTAG
11952526 CCACCTAGAGCCTTCCCTTTCATT
1 CCACCTAGAGCCTTCCCTTTCATT
11952550 CCACCTAGAGCCTTCCCTTTCATT
1 CCACCTAGAGCCTTCCCTTTCATT
11952574 C
1 C
11952575 TATTCTCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.43, G:0.08, T:0.33
Consensus pattern (24 bp):
CCACCTAGAGCCTTCCCTTTCATT
Found at i:11954311 original size:28 final size:27
Alignment explanation
Indices: 11954220--11954325 Score: 81
Period size: 28 Copynumber: 3.7 Consensus size: 27
11954210 ACTTGTAATA
* *
11954220 GGGCTACGGCCCAGATTGATACTGATAT
1 GGGCTA-GGCCCAGATTAATATTGATAT
* *
11954248 GGGCTAGGCCCAGTATACTCTGATATTG-TAAG
1 GGGCTAGGCCCAG---A-T-TAATATTGAT-AT
11954280 GGGCTATGGCCCAGATTAATATTGATAT
1 GGGCTA-GGCCCAGATTAATATTGATAT
11954308 GGGCTAAGGCCCAG-TTAA
1 GGGCT-AGGCCCAGATTAA
11954326 CTCTGATTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 19
0.74 0.05 0.22
Matches are distributed among these distances:
27 11 0.17
28 26 0.40
29 3 0.05
30 2 0.03
31 2 0.03
32 14 0.22
33 7 0.11
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (27 bp):
GGGCTAGGCCCAGATTAATATTGATAT
Found at i:11957410 original size:20 final size:20
Alignment explanation
Indices: 11957339--11957434 Score: 58
Period size: 20 Copynumber: 4.8 Consensus size: 20
11957329 TTTTTCAAAT
*
11957339 AATTATAAAAAAAATAT-TA
1 AATTATAAAAAAATTATATA
*
11957358 AATATCTAGAAAATAATT-TA-A
1 AAT-TATA-AAAA-AATTATATA
*
11957379 AATT-TATTAAAAATTAT-TGA
1 AATTATA-AAAAAATTATAT-A
*
11957399 AATTATAAAAAAATAATATA
1 AATTATAAAAAAATTATATA
**
11957419 AATTATTTAAAAATTA
1 AATTATAAAAAAATTA
11957435 ATCTTAATTT
Statistics
Matches: 59, Mismatches: 9, Indels: 17
0.69 0.11 0.20
Matches are distributed among these distances:
18 4 0.07
19 9 0.15
20 31 0.53
21 12 0.20
22 3 0.05
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.36
Consensus pattern (20 bp):
AATTATAAAAAAATTATATA
Found at i:11957434 original size:11 final size:10
Alignment explanation
Indices: 11957375--11957434 Score: 50
Period size: 10 Copynumber: 6.0 Consensus size: 10
11957365 AGAAAATAAT
*
11957375 TTAAAATTTA
1 TTAAAAATTA
11957385 TTAAAAATTA
1 TTAAAAATTA
*
11957395 TT-GAAATTA
1 TTAAAAATTA
* *
11957404 TAAAAAAATA
1 TTAAAAATTA
* *
11957414 ATATAAATTA
1 TTAAAAATTA
11957424 TTTAAAAATTA
1 -TTAAAAATTA
11957435 ATCTTAATTT
Statistics
Matches: 37, Mismatches: 11, Indels: 3
0.73 0.22 0.06
Matches are distributed among these distances:
9 7 0.19
10 22 0.59
11 8 0.22
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:11957819 original size:18 final size:20
Alignment explanation
Indices: 11957790--11957827 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
11957780 TGTATAATTA
11957790 ATTTTCAATTTTAA-TATTT
1 ATTTTCAATTTTAACTATTT
11957809 ATTTT-AATTTTAACTATTT
1 ATTTTCAATTTTAACTATTT
11957828 TTAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTTTCAATTTTAACTATTT
Found at i:11960432 original size:20 final size:21
Alignment explanation
Indices: 11960382--11960432 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
11960372 TTTTCAACAT
11960382 TAAACCCTAAACCTAAACTCC
1 TAAACCCTAAACCTAAACTCC
** *
11960403 -AAACTATAAACCTATA-TCC
1 TAAACCCTAAACCTAAACTCC
11960422 TAAACCCTAAA
1 TAAACCCTAAA
11960433 TATATATATT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (21 bp):
TAAACCCTAAACCTAAACTCC
Found at i:11960619 original size:14 final size:14
Alignment explanation
Indices: 11960600--11960638 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
11960590 GTAAAATAAA
*
11960600 AAACCACAAACTCT
1 AAACCAAAAACTCT
*
11960614 AAACCATAAACTCT
1 AAACCAAAAACTCT
11960628 AAACCAAAAAC
1 AAACCAAAAAC
11960639 AATAAACATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.56, C:0.31, G:0.00, T:0.13
Consensus pattern (14 bp):
AAACCAAAAACTCT
Found at i:11960657 original size:35 final size:35
Alignment explanation
Indices: 11960618--11960684 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
11960608 AACTCTAAAC
* *
11960618 CATAAACTCTAAACCAAAAACAATAAACATTATAT
1 CATAAACCCGAAACCAAAAACAATAAACATTATAT
** *
11960653 CATAAACCCGAAACCTTAAACCATAAACATTA
1 CATAAACCCGAAACCAAAAACAATAAACATTA
11960685 AACCTTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.54, C:0.24, G:0.01, T:0.21
Consensus pattern (35 bp):
CATAAACCCGAAACCAAAAACAATAAACATTATAT
Found at i:11960659 original size:21 final size:21
Alignment explanation
Indices: 11960613--11960720 Score: 65
Period size: 21 Copynumber: 5.1 Consensus size: 21
11960603 CCACAAACTC
* *
11960613 TAAACCATAAAC-TCTAAACCA
1 TAAACAATAAACAT-TAAATCA
* *
11960634 AAAACAATAAACATTATATCA
1 TAAACAATAAACATTAAATCA
*** * *
11960655 TAAACCCGAAACCTTAAACCA
1 TAAACAATAAACATTAAATCA
* * **
11960676 TAAACATTAAACCTTAAATGT
1 TAAACAATAAACATTAAATCA
* *
11960697 TAAATAATAAACATTATATCA
1 TAAACAATAAACATTAAATCA
11960718 TAA
1 TAA
11960721 CCCCTCTCCC
Statistics
Matches: 63, Mismatches: 23, Indels: 2
0.72 0.26 0.02
Matches are distributed among these distances:
21 62 0.98
22 1 0.02
ACGTcount: A:0.54, C:0.19, G:0.02, T:0.25
Consensus pattern (21 bp):
TAAACAATAAACATTAAATCA
Found at i:11960693 original size:14 final size:14
Alignment explanation
Indices: 11960600--11960712 Score: 54
Period size: 14 Copynumber: 8.1 Consensus size: 14
11960590 GTAAAATAAA
*
11960600 AAACCACAAAC-TCT
1 AAACCATAAACAT-T
11960614 AAACCATAAAC-TCT
1 AAACCATAAACAT-T
* *
11960628 AAACCAAAAACAAT
1 AAACCATAAACATT
*
11960642 AAA-CATTATATCA-T
1 AAACCA-TA-AACATT
** *
11960656 AAACCCGAAACCTT
1 AAACCATAAACATT
11960670 AAACCATAAACATT
1 AAACCATAAACATT
* **
11960684 AAACCTTAAATGTT
1 AAACCATAAACATT
**
11960698 AAATAATAAACATT
1 AAACCATAAACATT
11960712 A
1 A
11960713 TATCATAACC
Statistics
Matches: 74, Mismatches: 20, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
13 4 0.05
14 66 0.89
15 4 0.05
ACGTcount: A:0.54, C:0.22, G:0.02, T:0.22
Consensus pattern (14 bp):
AAACCATAAACATT
Found at i:11960757 original size:50 final size:50
Alignment explanation
Indices: 11960698--11960794 Score: 194
Period size: 50 Copynumber: 1.9 Consensus size: 50
11960688 CTTAAATGTT
11960698 AAATAATAAACATTATATCATAACCCCTCTCCCCTAAACTCTAAACCCCA
1 AAATAATAAACATTATATCATAACCCCTCTCCCCTAAACTCTAAACCCCA
11960748 AAATAATAAACATTATATCATAACCCCTCTCCCCTAAACTCTAAACC
1 AAATAATAAACATTATATCATAACCCCTCTCCCCTAAACTCTAAACC
11960795 ATAAACCATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.25
Consensus pattern (50 bp):
AAATAATAAACATTATATCATAACCCCTCTCCCCTAAACTCTAAACCCCA
Found at i:11960799 original size:7 final size:7
Alignment explanation
Indices: 11960789--11960822 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
11960779 CCCTAAACTC
11960789 TAAACCA
1 TAAACCA
11960796 TAAACCA
1 TAAACCA
*
11960803 TAAAACA
1 TAAACCA
11960810 TAAACCA
1 TAAACCA
11960817 TAAACC
1 TAAACC
11960823 CTTAACCCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.26, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCA
Found at i:11960823 original size:50 final size:50
Alignment explanation
Indices: 11960698--11960824 Score: 152
Period size: 50 Copynumber: 2.6 Consensus size: 50
11960688 CTTAAATGTT
* * *
11960698 AAATAATAAACATTATATCATAACCCCTCTCCCCTAAACTCTAAACCCCA
1 AAATAATAAACATTAAACCATAACCCCTCTCCCCTAAACTCTAAACCACA
* * *
11960748 AAATAATAAACATTATATCATAACCCCTCTCCCCTAAACTCTAAACCATA
1 AAATAATAAACATTAAACCATAACCCCTCTCCCCTAAACTCTAAACCACA
*
11960798 AACCAT-A-AAACA-TAAACCATAAACCCT
1 AA--ATAATAAACATTAAACCATAACCCCT
11960825 TAACCCCAAC
Statistics
Matches: 70, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
49 12 0.17
50 55 0.79
51 1 0.01
52 2 0.03
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (50 bp):
AAATAATAAACATTAAACCATAACCCCTCTCCCCTAAACTCTAAACCACA
Found at i:11961420 original size:41 final size:41
Alignment explanation
Indices: 11961351--11961541 Score: 274
Period size: 41 Copynumber: 4.6 Consensus size: 41
11961341 TTACTTTTTT
* * * * *
11961351 GCGGCATTTTTCCAAAAGTGCCGTTAAAACCTTGATCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
* *
11961392 GCGGTGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
* *
11961433 GCTGCGTTTTTCCAAAAGCGCCGCTAAAACATCGACCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
11961474 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
* *
11961515 GCGGCGTTTTGACCAAAAACGCCGCTA
1 GCGGCGTTTT-TCCAAAAGCGCCGCTA
11961542 TTGCTCAGTT
Statistics
Matches: 136, Mismatches: 13, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
41 122 0.90
42 14 0.10
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (41 bp):
GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
Found at i:11970954 original size:18 final size:18
Alignment explanation
Indices: 11970931--11970973 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
11970921 CGCATAAAAG
*
11970931 GAAAGAAAATAAATAAAC
1 GAAAGAAAATAAACAAAC
*
11970949 GAAAGAAAATAAACAAAT
1 GAAAGAAAATAAACAAAC
11970967 GAAAGAA
1 GAAAGAA
11970974 GGGGGAAGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.72, C:0.05, G:0.14, T:0.09
Consensus pattern (18 bp):
GAAAGAAAATAAACAAAC
Found at i:11988392 original size:208 final size:209
Alignment explanation
Indices: 11988034--11988451 Score: 802
Period size: 208 Copynumber: 2.0 Consensus size: 209
11988024 TCTTTAAAAC
*
11988034 CTGTCTCGAAAATCACGTATTACCAAACATCTCATGATTCTCCCCTGATCGGGCATAAAAAATGA
1 CTGTCTCAAAAATCACGTATTACCAAACATCTCATGATTCTCCCCTGATCGGGCATAAAAAATGA
*
11988099 TTAAACACAATCAACAATCACTTCCATTACAATGAAAAATAAAATCCCAACTTATTCCTCAACTA
66 TTAAACACAATCAACAATCACTTCCATTACAATGAAAAATAAAATCCCAACTTACTCCTCAACTA
*
11988164 ACAGAAATTAACTAAATAGAGGATTTAATTAAAATTTAGAAAAAACTAGGGGTAT-AATTGCAAA
131 ACAGAAATTAACTAAATAGAGGATTTAATTAAAATTTAAAAAAAACTAGGGGTATAAATTGCAAA
11988228 TAATAAAAAGTAGG
196 TAATAAAAAGTAGG
11988242 CTGTCTCAAAAATCACGTATTACCAAACATCTCATGATTCTCCCCTGATCGGGCATAAAAAATGA
1 CTGTCTCAAAAATCACGTATTACCAAACATCTCATGATTCTCCCCTGATCGGGCATAAAAAATGA
11988307 TTAAACACAATCAACAATCACTTCCATTACAATGAAAAATAAAATCCCAACTTACTCCTCAACTA
66 TTAAACACAATCAACAATCACTTCCATTACAATGAAAAATAAAATCCCAACTTACTCCTCAACTA
11988372 ACAGAAATTAACTAAATAGAGGATTTAATTAAAATTTAAAAAAAACTAGGGGTATAAATTGCAAA
131 ACAGAAATTAACTAAATAGAGGATTTAATTAAAATTTAAAAAAAACTAGGGGTATAAATTGCAAA
11988437 TAATAAAAAGTAGG
196 TAATAAAAAGTAGG
11988451 C
1 C
11988452 CAATAAGGGT
Statistics
Matches: 206, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
208 182 0.88
209 24 0.12
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.26
Consensus pattern (209 bp):
CTGTCTCAAAAATCACGTATTACCAAACATCTCATGATTCTCCCCTGATCGGGCATAAAAAATGA
TTAAACACAATCAACAATCACTTCCATTACAATGAAAAATAAAATCCCAACTTACTCCTCAACTA
ACAGAAATTAACTAAATAGAGGATTTAATTAAAATTTAAAAAAAACTAGGGGTATAAATTGCAAA
TAATAAAAAGTAGG
Found at i:11989666 original size:39 final size:38
Alignment explanation
Indices: 11989583--11989677 Score: 111
Period size: 39 Copynumber: 2.4 Consensus size: 38
11989573 CTTGAAACCA
*
11989583 ATTACCAGCACAAGCCTGTGGGAATTTAAACCCGGTAT
1 ATTACCAGCACAAGCCTGTGGGAATTTAAACCCGGCAT
* * * *
11989621 AATACCAGCTCGAAGCCTGTGGGACTTT-AGCCCGGACAT
1 ATTACCAGCAC-AAGCCTGTGGGAATTTAAACCCGG-CAT
11989660 ATTACCAGCACATAGCCT
1 ATTACCAGCACA-AGCCT
11989678 ACGGACCTTA
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
38 16 0.34
39 31 0.66
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (38 bp):
ATTACCAGCACAAGCCTGTGGGAATTTAAACCCGGCAT
Found at i:11989707 original size:39 final size:39
Alignment explanation
Indices: 11989664--11989814 Score: 239
Period size: 39 Copynumber: 3.9 Consensus size: 39
11989654 GGACATATTA
* * *
11989664 CCAGCACATAGCCTACGGACCTTAAGTCCGGTTATAATT
1 CCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATT
11989703 CCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATT
1 CCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATT
11989742 CCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATT
1 CCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATT
** * *
11989781 TTAGCATATAGCCTGCGGACCCTAAGTCTGGATA
1 CCAGCACATAGCCTGCGGACCCTAAGTCCGGATA
11989815 GACATCACTG
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 105 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (39 bp):
CCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATT
Found at i:11995971 original size:49 final size:50
Alignment explanation
Indices: 11995852--11995977 Score: 155
Period size: 51 Copynumber: 2.5 Consensus size: 50
11995842 AATCTGCTTT
* * * * *
11995852 ACTACAACTTCAGGGAGATAAGATTAATGGCTTGTAGCTTTAGTCTATTCC
1 ACTACAACTTCAGGGAAATAAGATTTATAGCTGGTAGCTTTAATC-ATTCC
* * * *
11995903 ACTGCAACTTCAAGAAAATAAGATTTTTAGCTGGTAGCTTTAATC-TTCC
1 ACTACAACTTCAGGGAAATAAGATTTATAGCTGGTAGCTTTAATCATTCC
11995952 ACTACAACTTCAGGGAAATAAGATTT
1 ACTACAACTTCAGGGAAATAAGATTT
11995978 GTTATCTTCA
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
49 27 0.43
51 36 0.57
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (50 bp):
ACTACAACTTCAGGGAAATAAGATTTATAGCTGGTAGCTTTAATCATTCC
Found at i:11995987 original size:145 final size:145
Alignment explanation
Indices: 11995704--11996019 Score: 325
Period size: 145 Copynumber: 2.2 Consensus size: 145
11995694 TTTAATCTAT
* * * * ** * *
11995704 TCCACTGCAAATTCGAGGAGATGAGATTTGTAGCTTGTAGCTTCAGTCTATTCCACTGCAACTTT
1 TCCACTACAACTTCAAGGAGATAAGATTAATGGCTTGTAGCTTCAGTCTATTCCACTGCAACTTC
* * * * * *
11995769 AGGGAAATAAGACTTGCTATATTAGATTTAATCCAATCCACTGCAACTTCAGAGGTATAGGATTT
66 AAGAAAATAAGACTTGCTATAGTAGATTTAATCCAATCCACTACAACTTCAGAGGAATAAGATTT
*
11995834 GTCGCTTCAATCTGC
131 GTAGCTTCAATCTGC
** * *
11995849 TTTACTACAACTTCAGGGAGATAAGATTAATGGCTTGTAGCTTTAGTCTATTCCACTGCAACTTC
1 TCCACTACAACTTCAAGGAGATAAGATTAATGGCTTGTAGCTTCAGTCTATTCCACTGCAACTTC
** * * *
11995914 AAGAAAATAAGA-TTTTTAGCTGGTAGCTTTAAT-C-TTCCACTACAACTTCAG-GGAAATAAGA
66 AAGAAAATAAGACTTGCTA--TAGTAGATTTAATCCAATCCACTACAACTTCAGAGG-AATAAGA
* *
11995975 TTTGTTATCTTCAGTCTGC
128 TTTG-TAGCTTCAATCTGC
*
11995994 TCCACTACAACTTTAAGGAGATAAGA
1 TCCACTACAACTTCAAGGAGATAAGA
11996020 CTTGTAACTT
Statistics
Matches: 137, Mismatches: 30, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
143 2 0.01
144 28 0.20
145 97 0.71
146 10 0.07
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (145 bp):
TCCACTACAACTTCAAGGAGATAAGATTAATGGCTTGTAGCTTCAGTCTATTCCACTGCAACTTC
AAGAAAATAAGACTTGCTATAGTAGATTTAATCCAATCCACTACAACTTCAGAGGAATAAGATTT
GTAGCTTCAATCTGC
Found at i:11996153 original size:44 final size:44
Alignment explanation
Indices: 11996096--11996361 Score: 280
Period size: 44 Copynumber: 5.9 Consensus size: 44
11996086 ATCTGCTATT
* *
11996096 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTAGTAGC
1 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTAGTAGC
* *
11996140 TTCAATCTACTCCATTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAAC
1 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGA--T-T-A---GTAGC
* ** * * * *
11996191 TTTAATCTGTTCCACTGTAACTTCAGGGAAATAAGATTTGCTATC
1 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTAG-TAGC
* * * * *
11996236 TTCAATCTACTCCACTACAACTTCAGGGAGATGAGATTTGTGGT
1 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTAGTAGC
* *
11996280 TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTAGTGGC
1 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTAGTAGC
* *
11996324 TTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGATT
1 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
11996362 CTTCATAATG
Statistics
Matches: 184, Mismatches: 30, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
44 109 0.59
45 36 0.20
46 1 0.01
47 1 0.01
48 2 0.01
49 1 0.01
51 34 0.18
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (44 bp):
TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTAGTAGC
Found at i:11996249 original size:140 final size:140
Alignment explanation
Indices: 11996050--11996317 Score: 396
Period size: 140 Copynumber: 1.9 Consensus size: 140
11996040 AGGTTTATAG
* * * *
11996050 CTTTAATCTGCTTTACTGTAACTTCAGAAAGATAGGATCTGCTATTTTCAATCTGCTCCACTACA
1 CTTTAATCTGCTTCACTGTAACTTCAGAAAGATAAGATCTGCTATCTTCAATCTACTCCACTACA
*
11996115 ACTTCAGGGAGATAAGATTAGTAGCTTCAATCTACTCCATTGCAACTTCAGGGAGATAAGATTTG
66 ACTTCAGGGAGATAAGATTAGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG
11996180 TAACTTGTAA
131 TAACTTGTAA
* *
11996190 CTTTAATCTG-TTCCACTGTAACTTCAGGGAA-ATAAGATTTGCTATCTTCAATCTACTCCACTA
1 CTTTAATCTGCTT-CACTGTAACTTCA-GAAAGATAAGATCTGCTATCTTCAATCTACTCCACTA
* * * * *
11996253 CAACTTCAGGGAGATGAGATTTGTGGTTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
64 CAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
11996318 AGTGGCTTCA
Statistics
Matches: 114, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
139 2 0.02
140 109 0.96
141 3 0.03
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (140 bp):
CTTTAATCTGCTTCACTGTAACTTCAGAAAGATAAGATCTGCTATCTTCAATCTACTCCACTACA
ACTTCAGGGAGATAAGATTAGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG
TAACTTGTAA
Found at i:12001040 original size:48 final size:48
Alignment explanation
Indices: 12000988--12001408 Score: 644
Period size: 48 Copynumber: 8.8 Consensus size: 48
12000978 TGTTACAACA
* * * *
12000988 TTCACATTAGCCATTTGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
12001036 TTCACATTCGCCATTCGGCTTTACCACATATACATATGACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
12001084 TTCACATTAGGCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
12001132 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
12001180 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
12001228 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
12001276 TTCACATTCGTCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
12001324 TTCACATTAGCCATTCGGCTTTACCACATACACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * * *
12001372 TTCACATTAGACATTCAGCTTCACCACACATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATAT
12001409 ATTTATCTTG
Statistics
Matches: 346, Mismatches: 27, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 346 1.00
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:12016194 original size:46 final size:47
Alignment explanation
Indices: 12016127--12016220 Score: 163
Period size: 46 Copynumber: 2.0 Consensus size: 47
12016117 TTTTTCTGTG
12016127 CATTCTTAGTCTAGATAATTAGTTAATTAAAA-AAAACCCCATTATT
1 CATTCTTAGTCTAGATAATTAGTTAATTAAAACAAAACCCCATTATT
* *
12016173 CATTCTTAGTTTAGATAATTAGTTAATTAAAACAAAACCCTATTATT
1 CATTCTTAGTCTAGATAATTAGTTAATTAAAACAAAACCCCATTATT
12016220 C
1 C
12016221 TTAGGCTATA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 31 0.69
47 14 0.31
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.38
Consensus pattern (47 bp):
CATTCTTAGTCTAGATAATTAGTTAATTAAAACAAAACCCCATTATT
Found at i:12034754 original size:7 final size:8
Alignment explanation
Indices: 12034742--12034775 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
12034732 ATAATAAAAT
12034742 ATAT-AAA
1 ATATCAAA
12034749 ATAT-AAA
1 ATATCAAA
12034756 ATATCAAA
1 ATATCAAA
12034764 ATATCAAA
1 ATATCAAA
12034772 ATAT
1 ATAT
12034776 TAGAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 11 0.42
8 15 0.58
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (8 bp):
ATATCAAA
Found at i:12034758 original size:24 final size:24
Alignment explanation
Indices: 12034731--12034786 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
12034721 TAATGATGCG
*
12034731 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
*
12034755 AAT-ATCAAAATATCAAAATATTAG
1 AATAAT-AAAATATCAAAATATTAA
12034779 AATAATAA
1 AATAATAA
12034787 TAAATAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
23 8 0.30
24 17 0.63
25 2 0.07
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.29
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:12034782 original size:16 final size:15
Alignment explanation
Indices: 12034735--12034782 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
12034725 GATGCGAATA
12034735 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
*
12034751 ATAAAATATCAAAAT
1 ATAAAATATTAAAAT
*
12034766 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
12034782 A
1 A
12034783 ATAATAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 7 0.25
16 21 0.75
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:12034940 original size:23 final size:23
Alignment explanation
Indices: 12034896--12035090 Score: 157
Period size: 23 Copynumber: 8.1 Consensus size: 23
12034886 AATACTACAT
*
12034896 AAATATGTACAT-AT-ATATTAA
1 AAATATATACATAATAATATTAA
*
12034917 AAATAAATACATAATAATATTAA
1 AAATATATACATAATAATATTAA
* * * *
12034940 AAGTATGTACAGAATATAATGTTAA
1 AAATATATACA-TA-ATAATATTAA
*
12034965 AAATACATACATAATATAGTTATTAAAA
1 AAATATATACATAATA-A--TATT--AA
12034993 AAATATATACATAAGATAATA-TAA
1 AAATATATACAT-A-ATAATATTAA
* *
12035017 AAATATATACATGAAATAGTATAAA
1 AAATATATACAT--AATAATATTAA
12035042 AAATATATA-ACTAATAATATTAA
1 AAATATATACA-TAATAATATTAA
12035065 AAATATATACATAAT-ATATATAA
1 AAATATATACATAATAATAT-TAA
12035088 AAA
1 AAA
12035091 CAATTACGAT
Statistics
Matches: 141, Mismatches: 17, Indels: 30
0.75 0.09 0.16
Matches are distributed among these distances:
21 10 0.07
22 6 0.04
23 46 0.33
24 24 0.17
25 31 0.22
26 4 0.03
27 2 0.01
28 13 0.09
29 2 0.01
30 3 0.02
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (23 bp):
AAATATATACATAATAATATTAA
Found at i:12035261 original size:22 final size:18
Alignment explanation
Indices: 12035210--12035248 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
12035200 ACTAGTACTA
*
12035210 ATAATATTAATAATAAAT
1 ATAATAATAATAATAAAT
12035228 ATAATAATAATAATAAAT
1 ATAATAATAATAATAAAT
12035246 ATA
1 ATA
12035249 TATGCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAATAATAATAATAAAT
Found at i:12036076 original size:18 final size:17
Alignment explanation
Indices: 12036038--12036111 Score: 58
Period size: 18 Copynumber: 4.0 Consensus size: 17
12036028 ATATGTATAT
* *
12036038 AAAAAGAGAGAAAAAACA
1 AAAAAGAAAGAAGAAA-A
12036056 AAAAAGAAAGAAAGAAAA
1 AAAAAGAAAG-AAGAAAA
*
12036074 AAAGATTTGAAAGAAGAAAA
1 AAA-A--AGAAAGAAGAAAA
*
12036094 AAAAAAAGAAGAAGAAAA
1 AAAAAGA-AAGAAGAAAA
12036112 GGATGCTAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
17 1 0.02
18 23 0.50
19 7 0.15
20 10 0.22
21 5 0.11
ACGTcount: A:0.77, C:0.01, G:0.18, T:0.04
Consensus pattern (17 bp):
AAAAAGAAAGAAGAAAA
Found at i:12037160 original size:29 final size:29
Alignment explanation
Indices: 12037109--12037164 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
12037099 CAATCTTTAT
* *
12037109 CCTCAGCGTGTGATCCGAGGCTCAACTCA
1 CCTCAGCGTATGATCCGAAGCTCAACTCA
12037138 CCTCAGCGTATGA-CCTGAAGCTCAACT
1 CCTCAGCGTATGATCC-GAAGCTCAACT
12037165 TATCTCTCGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.23, C:0.34, G:0.21, T:0.21
Consensus pattern (29 bp):
CCTCAGCGTATGATCCGAAGCTCAACTCA
Found at i:12037212 original size:14 final size:14
Alignment explanation
Indices: 12037195--12037224 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
12037185 GATTTGTTTG
12037195 AAACATAAATTGAA
1 AAACATAAATTGAA
12037209 AAACATAAATTGAA
1 AAACATAAATTGAA
12037223 AA
1 AA
12037225 TATCTCGGCG
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:0.67, C:0.07, G:0.07, T:0.20
Consensus pattern (14 bp):
AAACATAAATTGAA
Found at i:12037299 original size:89 final size:89
Alignment explanation
Indices: 12037148--12037369 Score: 336
Period size: 89 Copynumber: 2.5 Consensus size: 89
12037138 CCTCAGCGTA
* * * *
12037148 TGACCTGAAGCTCAACTTATCTCTCGCAATTTGAGTTGATTTGTTTGAAACATAAATTGAAAAAC
1 TGACCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGAAAAAC
* *
12037213 ATAAATTGAAAATATCTCGGCGCG
66 AGAAATTGAAAATACCTCGGCGCG
*
12037237 TGACCTGAGGCTCAACTCATCTCTTGCAATATGAGTTGATTTTTTTGAAACATAAATTGAAAAAC
1 TGACCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGAAAAAC
*
12037302 AGAAATTGAAAATACCTCGGCGTG
66 AGAAATTGAAAATACCTCGGCGCG
** * *
12037326 TGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGACTTTT
1 TGACCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTT
12037370 AAAAAAAGAA
Statistics
Matches: 120, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 120 1.00
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (89 bp):
TGACCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGAAAAAC
AGAAATTGAAAATACCTCGGCGCG
Found at i:12037307 original size:14 final size:14
Alignment explanation
Indices: 12037284--12037313 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
12037274 GATTTTTTTG
*
12037284 AAACATAAATTGAA
1 AAACAGAAATTGAA
12037298 AAACAGAAATTGAA
1 AAACAGAAATTGAA
12037312 AA
1 AA
12037314 TACCTCGGCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.10, T:0.17
Consensus pattern (14 bp):
AAACAGAAATTGAA
Found at i:12037428 original size:73 final size:74
Alignment explanation
Indices: 12037296--12037442 Score: 224
Period size: 73 Copynumber: 2.0 Consensus size: 74
12037286 ACATAAATTG
* * *
12037296 AAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAG
1 AAAAAAAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAG
12037361 TTGACTTTT
66 TTGACTTTT
* * *
12037370 AAAAAAAG-AATTGAAAATACCTCAGCGTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAG
1 AAAAAAAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAG
*
12037434 TTGATTTTT
66 TTGACTTTT
12037443 TTGAAACATA
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
73 59 0.89
74 7 0.11
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.27
Consensus pattern (74 bp):
AAAAAAAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAG
TTGACTTTT
Found at i:12037469 original size:14 final size:14
Alignment explanation
Indices: 12037446--12037475 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
12037436 GATTTTTTTG
*
12037446 AAACATAAATTGAA
1 AAACAGAAATTGAA
12037460 AAACAGAAATTGAA
1 AAACAGAAATTGAA
12037474 AA
1 AA
12037476 TACCTCGGCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.10, T:0.17
Consensus pattern (14 bp):
AAACAGAAATTGAA
Found at i:12037483 original size:162 final size:164
Alignment explanation
Indices: 12037207--12037695 Score: 775
Period size: 162 Copynumber: 3.0 Consensus size: 164
12037197 ACATAAATTG
** * * * *
12037207 AAAAACATAAATTGAAAATATCTCGGCGCGTGACCTGAGGCTCAACTCATCTCTTGCAATATGAG
1 AAAAACAGGAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTTGCAATATGAG
12037272 TTGATTTTTTTGAAACATAAATTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGC
66 TTGATTTTTTTGAAACATAAATTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGC
12037337 TCAACTCGCCTCTCGCAATACGAGTTGACTTTTA
131 TCAACTCGCCTCTCGCAATACGAGTTGACTTTTA
*
12037371 AAAAA-A-GAATTGAAAATACCTCAGCGTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGGAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTTGCAATATGAG
*
12037434 TTGATTTTTTTGAAACATAAATTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGTGGC
66 TTGATTTTTTTGAAACATAAATTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGC
* *
12037499 TCAACTCGCCTCTTGCAGTACGAGTTGACTTTTA
131 TCAACTCGCCTCTCGCAATACGAGTTGACTTTTA
*
12037533 AAAAACAGGAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGGAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTTGCAATATGAG
* * * * * * *
12037598 TTGATTTTTTTTAAACAGAAATTGAAAAATAGAAATTGAAAATACCTCGACATGTAACCTGAGCC
66 TTGATTTTTTTGAAACATAAATTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGC
* * *
12037663 TCAACTCACCTCTCGCAATATGAGTTGATTTTT
131 TCAACTCGCCTCTCGCAATACGAGTTGACTTTT
12037696 TTGAAAAATA
Statistics
Matches: 299, Mismatches: 24, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
162 152 0.51
163 2 0.01
164 145 0.48
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (164 bp):
AAAAACAGGAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTTGCAATATGAG
TTGATTTTTTTGAAACATAAATTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGC
TCAACTCGCCTCTCGCAATACGAGTTGACTTTTA
Found at i:12037539 original size:89 final size:88
Alignment explanation
Indices: 12037370--12037550 Score: 236
Period size: 89 Copynumber: 2.0 Consensus size: 88
12037360 GTTGACTTTT
* *
12037370 AAAAAAAGAATTGAAAATACCTCAGCGTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
1 AAAAAAAGAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTTGCAATACGAGT
* *** *
12037435 TGATTTTTTTGAAACATAAATTG
66 TGACTTTTAAAAAACAGAAATTG
* * * * *
12037458 AAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGTGGCTCAACTCGCCTCTTGCAGTACGAG
1 AAAAAAAG-AATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTTGCAATACGAG
*
12037523 TTGACTTTTAAAAAACAGGAATTG
65 TTGACTTTTAAAAAACAGAAATTG
12037547 AAAA
1 AAAA
12037551 TACCTCAGCG
Statistics
Matches: 79, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
88 7 0.09
89 72 0.91
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (88 bp):
AAAAAAAGAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTTGCAATACGAGT
TGACTTTTAAAAAACAGAAATTG
Found at i:12037586 original size:75 final size:75
Alignment explanation
Indices: 12037458--12037625 Score: 237
Period size: 75 Copynumber: 2.2 Consensus size: 75
12037448 ACATAAATTG
* * * * *
12037458 AAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGTGGCTCAACTCGCCTCTTGCAGTACGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAG
12037523 TTGACTTTTA
66 TTGACTTTTA
* *
12037533 AAAAACAGGAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAG
* *
12037598 TTGATTTTTT
66 TTGACTTTTA
**
12037608 TTAAACAGAAATTGAAAA
1 AAAAACAGAAATTGAAAA
12037626 ATAGAAATTG
Statistics
Matches: 81, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
75 81 1.00
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (75 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAG
TTGACTTTTA
Found at i:12037684 original size:89 final size:89
Alignment explanation
Indices: 12037533--12037805 Score: 395
Period size: 89 Copynumber: 3.0 Consensus size: 89
12037523 TTGACTTTTA
* * *
12037533 AAAAACAGGAATTGAAAATACCTC-AGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCGA-CATGTAACCTGAGGCTCAACTCACCTCTCGCAATATGA
*
12037597 GTTGATTTTTTTTAAACAGAAATTG
65 GTTGATTTTTTTAAAACAGAAATTG
* *
12037622 AAAAATAGAAATTGAAAATACCTCGACATGTAACCTGAGCCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCGACATGTAACCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
12037687 TTGATTTTTTTGAAAAATAGAATTTG
66 TTGATTTTTTT--AAAACAGAAATTG
* * *
12037713 AAAAACAGAATTTGAAAATACCTCGACATGTAACTTGAGGCTCAATTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCGACATGTAACCTGAGGCTCAACTCACCTCTCGCAATATGAG
**
12037778 TTGATTTTTGAAAAACAGAAATTG
66 TTGATTTTTTTAAAACAGAAATTG
12037802 AAAA
1 AAAA
12037806 TACTTCAGCA
Statistics
Matches: 164, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
89 84 0.51
90 1 0.01
91 79 0.48
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (89 bp):
AAAAACAGAAATTGAAAATACCTCGACATGTAACCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTTAAAACAGAAATTG
Found at i:12037714 original size:14 final size:14
Alignment explanation
Indices: 12037695--12037730 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
12037685 AGTTGATTTT
*
12037695 TTTGAAAAATAGAA
1 TTTGAAAAACAGAA
12037709 TTTGAAAAACAGAA
1 TTTGAAAAACAGAA
12037723 TTTGAAAA
1 TTTGAAAA
12037731 TACCTCGACA
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:0.56, C:0.03, G:0.14, T:0.28
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:12037832 original size:75 final size:75
Alignment explanation
Indices: 12037709--12037879 Score: 256
Period size: 75 Copynumber: 2.3 Consensus size: 75
12037699 AAAAATAGAA
* ** *
12037709 TTTGAAAAACAGAATTTGAAAATACCTCGACATGTAACTTGAGGCTCAATTCACCTCTCGCAATA
1 TTTGAAAAACAGAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACCTCTCGCAATA
12037774 TGAGTTGATT
66 TGAGTTGATT
* *
12037784 TTTGAAAAACAGAAATTGAAAATACTTC-AGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
1 TTTGAAAAACAGAAATTGAAAATACCTCGA-CATGTAACCCGAGGCTCAACTCACCTCTCGCAAT
12037848 ATGAGTTGATT
65 ATGAGTTGATT
*
12037859 TTTTAAAAACAGAAATT-AAAA
1 TTTGAAAAACAGAAATTGAAAA
12037880 CATCAGAGTA
Statistics
Matches: 88, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
74 5 0.06
75 83 0.94
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (75 bp):
TTTGAAAAACAGAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATT
Found at i:12042287 original size:45 final size:45
Alignment explanation
Indices: 12042221--12042320 Score: 175
Period size: 45 Copynumber: 2.2 Consensus size: 45
12042211 AGTTAATGAG
*
12042221 AATGA-AAAGACCATGAAAAAATGCATCTTCATTAATGTTCATTT
1 AATGATAAAGACCATGAAAAAATGCATCTTCATTAATGTTCATCT
*
12042265 AATGATAAAGACCATGACAAAATGCATCTTCATTAATGTTCATCT
1 AATGATAAAGACCATGAAAAAATGCATCTTCATTAATGTTCATCT
12042310 AATGATAAAGA
1 AATGATAAAGA
12042321 GCAAATCATA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
44 5 0.09
45 48 0.91
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (45 bp):
AATGATAAAGACCATGAAAAAATGCATCTTCATTAATGTTCATCT
Found at i:12049774 original size:16 final size:15
Alignment explanation
Indices: 12049753--12049800 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
12049743 GATGCGAATA
12049753 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
12049769 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
12049784 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
12049800 A
1 A
12049801 ATAATAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:12049776 original size:24 final size:24
Alignment explanation
Indices: 12049749--12049804 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
12049739 TAATGATGCG
*
12049749 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
12049773 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
12049797 AATAATAA
1 AATAATAA
12049805 TAAATAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:12049783 original size:8 final size:8
Alignment explanation
Indices: 12049749--12049800 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
12049739 TAATGATGCG
*
12049749 AATAATAA
1 AATATTAA
12049757 AATATATAA
1 AATAT-TAA
12049766 AATA-TAA
1 AATATTAA
12049773 AATATTAA
1 AATATTAA
*
12049781 AATATCAA
1 AATATTAA
*
12049789 AATATTAG
1 AATATTAA
12049797 AATA
1 AATA
12049801 ATAATAAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:12049957 original size:23 final size:23
Alignment explanation
Indices: 12049913--12050104 Score: 155
Period size: 23 Copynumber: 8.1 Consensus size: 23
12049903 AATACTACAT
*
12049913 AAATATGTACAT-AT-ATATTAA
1 AAATATATACATAATAATATTAA
*
12049934 AAATAAATACATAATAATATTAA
1 AAATATATACATAATAATATTAA
* * *
12049957 AAGTATGTACATAATATAGTGTTAA
1 AAATATATACATAATA-A-TATTAA
*
12049982 AAATACATACATAATATAGTTATTAAA
1 AAATATATACATAATA-A--TATT-AA
12050009 AAATATATACATAAGATAATA-T-A
1 AAATATATACAT-A-ATAATATTAA
*
12050032 AAATATATACATGA-AATAGTATAA
1 AAATATATACATAATAATA-T-TAA
*
12050056 AAAAATATA-ACTAATAATATTAA
1 AAATATATACA-TAATAATATTAA
12050079 AAATATATACATAAT-ATATATAA
1 AAATATATACATAATAATAT-TAA
12050102 AAA
1 AAA
12050105 CAATTACGAT
Statistics
Matches: 139, Mismatches: 16, Indels: 30
0.75 0.09 0.16
Matches are distributed among these distances:
20 4 0.03
21 11 0.08
22 6 0.04
23 56 0.40
24 14 0.10
25 25 0.18
26 5 0.04
27 13 0.09
28 2 0.01
29 3 0.02
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (23 bp):
AAATATATACATAATAATATTAA
Found at i:12050275 original size:22 final size:18
Alignment explanation
Indices: 12050224--12050262 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
12050214 ACTAGTACTA
*
12050224 ATAATATTAATAATAAAT
1 ATAATAATAATAATAAAT
12050242 ATAATAATAATAATAAAT
1 ATAATAATAATAATAAAT
12050260 ATA
1 ATA
12050263 TATGCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAATAATAATAATAAAT
Found at i:12052564 original size:24 final size:24
Alignment explanation
Indices: 12052537--12052585 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
12052527 ATATAACAAA
12052537 AAAATAAAAAAATAAATGA-AATAG
1 AAAATAAAAAAAT-AATGACAATAG
* *
12052561 AAAATGAAATAATAATGACAATAG
1 AAAATAAAAAAATAATGACAATAG
12052585 A
1 A
12052586 GCAAAAATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.69, C:0.02, G:0.10, T:0.18
Consensus pattern (24 bp):
AAAATAAAAAAATAATGACAATAG
Found at i:12056008 original size:12 final size:12
Alignment explanation
Indices: 12055993--12056017 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12055983 TACATCTCTG
12055993 CTATAATCTTCA
1 CTATAATCTTCA
12056005 CTATAATCTTCA
1 CTATAATCTTCA
12056017 C
1 C
12056018 AGCATAAAGA
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:0.32, C:0.28, G:0.00, T:0.40
Consensus pattern (12 bp):
CTATAATCTTCA
Found at i:12060014 original size:28 final size:29
Alignment explanation
Indices: 12059977--12060106 Score: 106
Period size: 28 Copynumber: 4.4 Consensus size: 29
12059967 TAAAATATGC
* *
12059977 TATCAAAATCAAGC-ATATATGTGATCTA
1 TATCACAATCAACCAATATATGTGATCTA
12060005 TATCACAATC-ACCAATATATGTGATCAAAATA
1 TATCACAATCAACCAATATATGTGATC----TA
* * *
12060037 TGCTATCAAAATCAAGC-ATATATGTGATCCA
1 ---TATCACAATCAACCAATATATGTGATCTA
*
12060068 TATCACAATC-ACCAATATATGTGATCAA
1 TATCACAATCAACCAATATATGTGATCTA
*
12060096 AATCACAATCA
1 TATCACAATCA
12060107 CAATCACCAA
Statistics
Matches: 82, Mismatches: 9, Indels: 21
0.73 0.08 0.19
Matches are distributed among these distances:
27 4 0.05
28 52 0.63
31 1 0.01
32 2 0.02
35 21 0.26
36 2 0.02
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.28
Consensus pattern (29 bp):
TATCACAATCAACCAATATATGTGATCTA
Found at i:12060041 original size:63 final size:63
Alignment explanation
Indices: 12059968--12060098 Score: 253
Period size: 63 Copynumber: 2.1 Consensus size: 63
12059958 CATGGGATAT
*
12059968 AAAATATGCTATCAAAATCAAGCATATATGTGATCTATATCACAATCACCAATATATGTGATC
1 AAAATATGCTATCAAAATCAAGCATATATGTGATCCATATCACAATCACCAATATATGTGATC
12060031 AAAATATGCTATCAAAATCAAGCATATATGTGATCCATATCACAATCACCAATATATGTGATC
1 AAAATATGCTATCAAAATCAAGCATATATGTGATCCATATCACAATCACCAATATATGTGATC
12060094 AAAAT
1 AAAAT
12060099 CACAATCACA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (63 bp):
AAAATATGCTATCAAAATCAAGCATATATGTGATCCATATCACAATCACCAATATATGTGATC
Found at i:12072228 original size:4 final size:4
Alignment explanation
Indices: 12072219--12072247 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
12072209 TTAGCTTTCA
12072219 ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
12072248 AATATAAGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:12072953 original size:19 final size:20
Alignment explanation
Indices: 12072931--12072968 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
12072921 ATTATAATTT
12072931 ATTC-TTAAAAATGATAAAA
1 ATTCTTTAAAAATGATAAAA
*
12072950 ATTCTTTAAAAATTATAAA
1 ATTCTTTAAAAATGATAAA
12072969 GATATAGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (20 bp):
ATTCTTTAAAAATGATAAAA
Found at i:12077902 original size:40 final size:40
Alignment explanation
Indices: 12077856--12077938 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
12077846 AAAATGAATT
12077856 TAAAAAATATAATACATCAAATACACTAAAAATATTAAAA
1 TAAAAAATATAATACATCAAATACACTAAAAATATTAAAA
12077896 TAAAAAATATAATACATCAAATACACTAAAAATATTAAAA
1 TAAAAAATATAATACATCAAATACACTAAAAATATTAAAA
12077936 TAA
1 TAA
12077939 TTATTTTCTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.25
Consensus pattern (40 bp):
TAAAAAATATAATACATCAAATACACTAAAAATATTAAAA
Found at i:12078161 original size:22 final size:22
Alignment explanation
Indices: 12078125--12078167 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
12078115 TAAAATGGCA
*
12078125 AAAAATGGCAACAAAACAACAT
1 AAAAATAGCAACAAAACAACAT
*
12078147 AAAAATAGCAGCAAAACAACA
1 AAAAATAGCAACAAAACAACA
12078168 ACGGAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.65, C:0.19, G:0.09, T:0.07
Consensus pattern (22 bp):
AAAAATAGCAACAAAACAACAT
Found at i:12079145 original size:16 final size:16
Alignment explanation
Indices: 12079123--12079160 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
12079113 AATTATATTC
12079123 AATAATTTTATAGATT
1 AATAATTTTATAGATT
* *
12079139 TATAATTTTATTGATT
1 AATAATTTTATAGATT
12079155 AATAAT
1 AATAAT
12079161 ATATTATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (16 bp):
AATAATTTTATAGATT
Found at i:12080702 original size:11 final size:11
Alignment explanation
Indices: 12080688--12080730 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
12080678 AGTTAAAAAT
12080688 TATTTTATTAA
1 TATTTTATTAA
12080699 TATTTTACTT-A
1 TATTTTA-TTAA
*
12080710 TATGTTTATTAT
1 TAT-TTTATTAA
12080722 TATTTTATT
1 TATTTTATT
12080731 TAGGAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:12081828 original size:22 final size:21
Alignment explanation
Indices: 12081793--12081875 Score: 68
Period size: 18 Copynumber: 4.1 Consensus size: 21
12081783 AAAAGGTATC
* *
12081793 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
12081814 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
12081837 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
12081856 TGC-AATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
12081874 TA
1 TA
12081876 TATCATATCT
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
18 15 0.28
19 11 0.20
21 3 0.06
22 15 0.28
23 10 0.19
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.35
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:12081836 original size:23 final size:22
Alignment explanation
Indices: 12081793--12081850 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
12081783 AAAAGGTATC
* *
12081793 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
12081814 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
12081837 TGCATATCATATCT
1 TACAAATCATATCT
12081851 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:12081853 original size:19 final size:19
Alignment explanation
Indices: 12081829--12081919 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
12081819 AATCATATCT
12081829 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
12081848 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
12081866 TCTAAGATT--ATATCATA
1 TCTAAGATTGCATATCATA
*
12081883 TCTATGATTGCATATCATA
1 TCTAAGATTGCATATCATA
12081902 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
12081920 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
16 1 0.01
17 14 0.21
18 15 0.22
19 37 0.55
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:12081902 original size:54 final size:53
Alignment explanation
Indices: 12081829--12081931 Score: 163
Period size: 54 Copynumber: 1.9 Consensus size: 53
12081819 AATCATATCT
*
12081829 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCATATCTAAGATTATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATCAT-T-GAAGATTATATCATA
*
12081883 TCTATGATTGCATATCATATCTAAGATTGCATATCATTGAAGATTATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATATCATTGAAGATTATAT
12081932 TTCCATATGA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
53 10 0.22
54 31 0.67
55 5 0.11
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.39
Consensus pattern (53 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATCATTGAAGATTATATCATA
Found at i:12087357 original size:23 final size:23
Alignment explanation
Indices: 12087327--12087374 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
12087317 TTGCTCTAAT
* *
12087327 AAAAAAATAT-AAATACTTAATTA
1 AAAAAAAT-TCAAAAACTAAATTA
12087350 AAAAAAATTCAAAAACTAAATTA
1 AAAAAAATTCAAAAACTAAATTA
12087373 AA
1 AA
12087375 CATTAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (23 bp):
AAAAAAATTCAAAAACTAAATTA
Found at i:12091943 original size:20 final size:20
Alignment explanation
Indices: 12091920--12091967 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
12091910 TAAATAAATG
*
12091920 AACATAAACATGTATAAACA
1 AACATAAACATGCATAAACA
* ** *
12091940 AACACAAATTTGCATAAATA
1 AACATAAACATGCATAAACA
12091960 AACATAAA
1 AACATAAA
12091968 AACAAAAATT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.60, C:0.15, G:0.04, T:0.21
Consensus pattern (20 bp):
AACATAAACATGCATAAACA
Found at i:12093885 original size:18 final size:18
Alignment explanation
Indices: 12093862--12093896 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
12093852 AAAATTTAAG
12093862 TCCAATGAATCTACTTCT
1 TCCAATGAATCTACTTCT
12093880 TCCAATGAATCTACTTC
1 TCCAATGAATCTACTTC
12093897 CATATACACT
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:0.29, C:0.29, G:0.06, T:0.37
Consensus pattern (18 bp):
TCCAATGAATCTACTTCT
Found at i:12098236 original size:22 final size:22
Alignment explanation
Indices: 12098211--12098256 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
12098201 TGCATAAGAA
12098211 TATATCACATACCTGGCCAACT
1 TATATCACATACCTGGCCAACT
12098233 TATATCACATACCTGGCCAACT
1 TATATCACATACCTGGCCAACT
12098255 TA
1 TA
12098257 ATGCATTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.30, G:0.09, T:0.28
Consensus pattern (22 bp):
TATATCACATACCTGGCCAACT
Found at i:12098556 original size:28 final size:28
Alignment explanation
Indices: 12098525--12098596 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
12098515 TCGATATTTT
*
12098525 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
12098553 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
12098581 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
12098597 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:12103615 original size:57 final size:57
Alignment explanation
Indices: 12103524--12103935 Score: 693
Period size: 57 Copynumber: 7.2 Consensus size: 57
12103514 GATCTCATTT
* * * *
12103524 CACACACTTAGTGCCCCAACAACCGATCTTGCACACACAGTGCTTGGTTACGAAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* * * *
12103583 CACACACAGTGCCTCAACAACCGATCTCGCACACACAATGCTCGGTTACGAAAATCA
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
*
12103640 CACACACAGTGCCTCAACAACTGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
*
12103697 CACACACAGTGCCTCAACAACCGATCTCGGACACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
12103754 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
12103811 -ACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
*
12103867 -ACACACAGTGCCTCAACAACCGATCTCACACACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
12103923 CACACACAGTGCC
1 CACACACAGTGCC
12103936 CGGTTACGGA
Statistics
Matches: 337, Mismatches: 15, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
56 111 0.33
57 219 0.65
59 7 0.02
ACGTcount: A:0.30, C:0.36, G:0.18, T:0.17
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
Found at i:12103971 original size:85 final size:85
Alignment explanation
Indices: 12103524--12104020 Score: 464
Period size: 85 Copynumber: 5.8 Consensus size: 85
12103514 GATCTCATTT
* * * *
12103524 CACACACTTAGTGCCCCAACAACCGATCTTGCACACACAGTGCTTGGTTACGAAACTCGCACACA
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCGCACACA
**** * *
12103589 CAGTGCCTCAACAACCGATCTCG
64 CAGTGCC-CGGTTACGGAACTCG
* **** ** * **** * *
12103612 CACACACAATG-CTCGGTTA-CGAAAATCACACACACAGTGCCTCAACAACTGATCTCGCACACA
1 CACACACAGTGCCTCAACAACCG-ATCTCGCACACACAGTG-CTCGGTTACGGAACTCGCACACA
*
12103675 CAGTGCTCGGTTACGGAACTCG
64 CAGTGCCCGGTTACGGAACTCG
*
12103697 CACACACAGTGCCTCAACAACCGATCTCGGACACACAGTGCTCGGTTACGGAACTCGCACACACA
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCGCACACACA
**** * *
12103762 GTGCCTCAACAACCGATCTCG
66 GTGCC-CGGTTACGGAACTCG
**** * * **** * *
12103783 CACACACAGTG-CTCGGTTACGGAACTCG-ACACACAGTGCCTCAACAACCGATCTCGCACACAC
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTG-CTCGGTTACGGAACTCGCACACAC
*
12103846 AGTGCTCGGTTACGGAACTCG
65 AGTGCCCGGTTACGGAACTCG
*
12103867 -ACACACAGTGCCTCAACAACCGATCTCACACACACAGTGCTCGGTTACGGAACTCGCACACACA
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCGCACACACA
12103931 GTGCCCGGTTACGGAACTCG
66 GTGCCCGGTTACGGAACTCG
* *
12103951 CACACACAGTGCCTCAACAACTGATCTCGCACACACAGTGCTCGGTTACGGAACTCACACACACA
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCGCACACACA
12104016 GTGCC
66 GTGCC
12104021 TATGTTCACT
Statistics
Matches: 317, Mismatches: 83, Indels: 21
0.75 0.20 0.05
Matches are distributed among these distances:
83 10 0.03
84 69 0.22
85 168 0.53
86 61 0.19
87 2 0.01
88 7 0.02
ACGTcount: A:0.29, C:0.36, G:0.19, T:0.16
Consensus pattern (85 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCGCACACACA
GTGCCCGGTTACGGAACTCG
Found at i:12104629 original size:45 final size:45
Alignment explanation
Indices: 12104560--12104654 Score: 172
Period size: 45 Copynumber: 2.1 Consensus size: 45
12104550 TACTTACTCA
*
12104560 ACTTTACAACCCTACACATGCCATAGACTCGAAACACTAAGATTT
1 ACTTAACAACCCTACACATGCCATAGACTCGAAACACTAAGATTT
*
12104605 ACTTAACAACCCTATACATGCCATAGACTCGAAACACTAAGATTT
1 ACTTAACAACCCTACACATGCCATAGACTCGAAACACTAAGATTT
12104650 ACTTA
1 ACTTA
12104655 CGCCGATAGC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.39, C:0.27, G:0.08, T:0.25
Consensus pattern (45 bp):
ACTTAACAACCCTACACATGCCATAGACTCGAAACACTAAGATTT
Found at i:12106008 original size:26 final size:26
Alignment explanation
Indices: 12105979--12106038 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
12105969 TCCCTTTGAA
* * *
12105979 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
12106005 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
12106033 CCATTC
1 TCATTC
12106039 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:12106064 original size:28 final size:28
Alignment explanation
Indices: 12105993--12106064 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 28
12105983 TCGATATTTT
**
12105993 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTACCATTCTCAATATCTC
* *
12106021 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTACCATTCTCAATATCTC
* * *
12106049 GTACGCTGAGTACCAT
1 GCACACTAAGTACCAT
12106065 ATTTGATTGC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTACCATTCTCAATATCTC
Found at i:12109268 original size:40 final size:40
Alignment explanation
Indices: 12109224--12109366 Score: 236
Period size: 39 Copynumber: 3.6 Consensus size: 40
12109214 TAACTTACGA
*
12109224 ACCTTAAGTCTGGATTATAATTCCAGCATATAGCCTGCGG
1 ACCTTAAGTCCGGATTATAATTCCAGCATATAGCCTGCGG
*
12109264 ACCTTAAGTCCGGA-TATATTTCCAGCATATAGCCTGCGG
1 ACCTTAAGTCCGGATTATAATTCCAGCATATAGCCTGCGG
*
12109303 ACCTTAAGTCC-GAATATAATTCCAGCATATAGCCTGCGG
1 ACCTTAAGTCCGGATTATAATTCCAGCATATAGCCTGCGG
*
12109342 ACCTTAAATCCGGATTATAATTCCA
1 ACCTTAAGTCCGGATTATAATTCCA
12109367 AATATCATGC
Statistics
Matches: 96, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
38 2 0.02
39 69 0.72
40 25 0.26
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (40 bp):
ACCTTAAGTCCGGATTATAATTCCAGCATATAGCCTGCGG
Found at i:12117742 original size:17 final size:18
Alignment explanation
Indices: 12117720--12117766 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
12117710 AGGCCAACCT
12117720 GGGCGTGTGGGCC-ACAC
1 GGGCGTGTGGGCCTACAC
*
12117737 GGGCGTATGGGCCTACAC
1 GGGCGTGTGGGCCTACAC
*
12117755 GGACGTGTGGGC
1 GGGCGTGTGGGC
12117767 TCATATATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.13, C:0.26, G:0.47, T:0.15
Consensus pattern (18 bp):
GGGCGTGTGGGCCTACAC
Found at i:12120074 original size:122 final size:121
Alignment explanation
Indices: 12119850--12120095 Score: 395
Period size: 122 Copynumber: 2.0 Consensus size: 121
12119840 ATTATTTGAT
* *
12119850 TCTGACTTTGTTTCTGTAAGGACTTAGGTTCGAATCTGTATCTATTCTACATACGAGAATTTTGT
1 TCTGACTTTGTTTCTGTAAGGACTTACGTTCGAATCTGTATCTATTCTACATACGAGAATTTTAT
* *
12119915 GTTTATTTGTATGACTATCTCTGTTGGGTTACACACTGAGTTTACGAAGACTCACA
66 GTTTATTTGCATGACTATCTCTGTTGGGTTACACACTGAGTTTACGAAAACTCACA
* *
12119971 TCTGACATTTGTTTCTGTAAGGACTTACG-TCTGAATCTGTATCTGTTCTGCATACGAGAATTTT
1 TCTGAC-TTTGTTTCTGTAAGGACTTACGTTC-GAATCTGTATCTATTCTACATACGAGAATTTT
* *
12120035 ATGTTTGTTTGCATGACTATCTCTGTTGGGTTACGCACTGAGTTTACGAAAACTCACA
64 ATGTTTATTTGCATGACTATCTCTGTTGGGTTACACACTGAGTTTACGAAAACTCACA
12120093 TCT
1 TCT
12120096 ATTTGTCTGT
Statistics
Matches: 115, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
121 8 0.07
122 107 0.93
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.40
Consensus pattern (121 bp):
TCTGACTTTGTTTCTGTAAGGACTTACGTTCGAATCTGTATCTATTCTACATACGAGAATTTTAT
GTTTATTTGCATGACTATCTCTGTTGGGTTACACACTGAGTTTACGAAAACTCACA
Found at i:12120854 original size:20 final size:20
Alignment explanation
Indices: 12120813--12120856 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
12120803 AGTTAGAAAC
* *
12120813 TGAAACTTCTAAAATATTTT
1 TGAAAATTCTAAAATATATT
12120833 TGAAAATTCTAATAA-ATATT
1 TGAAAATTCTAA-AATATATT
12120853 TGAA
1 TGAA
12120857 GTATAACACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (20 bp):
TGAAAATTCTAAAATATATT
Found at i:12125574 original size:27 final size:27
Alignment explanation
Indices: 12125522--12125574 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
12125512 AGATAATATC
* *
12125522 TTTAATAAAATTTATAAATTATTTTTA
1 TTTAATAAAATCTATAAATTAGTTTTA
*
12125549 TTTAATAAAATACTATTAA-TAGTTTT
1 TTTAATAAAAT-CTATAAATTAGTTTT
12125575 TTATGTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 17 0.77
28 5 0.23
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (27 bp):
TTTAATAAAATCTATAAATTAGTTTTA
Found at i:12135010 original size:24 final size:24
Alignment explanation
Indices: 12134974--12135021 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
12134964 AATGCAATCC
12134974 AACTCTTAATACTAAGGCTTCCGT
1 AACTCTTAATACTAAGGCTTCCGT
*
12134998 AACTCTTAGTACTAAGGCTTCCGT
1 AACTCTTAATACTAAGGCTTCCGT
12135022 GGTAGTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (24 bp):
AACTCTTAATACTAAGGCTTCCGT
Found at i:12135649 original size:23 final size:23
Alignment explanation
Indices: 12135563--12135650 Score: 59
Period size: 23 Copynumber: 3.6 Consensus size: 23
12135553 CATCTTTTGA
* *
12135563 CCAAAACAACAAAAACCCAGAAA
1 CCAAAACATCAAAAACCCAGAAT
* * *
12135586 CCAAAACATCTAAAGATCAAGAATT
1 CCAAAACATC-AAAAACCCAGAA-T
* * *
12135611 AGACTAAAATACCAAAAACCCAGAAT
1 ---CCAAAACATCAAAAACCCAGAAT
12135637 CCAAAACATCAAAA
1 CCAAAACATCAAAA
12135651 TAAGATAATA
Statistics
Matches: 46, Mismatches: 14, Indels: 10
0.66 0.20 0.14
Matches are distributed among these distances:
23 20 0.43
24 9 0.20
26 1 0.02
27 9 0.20
28 7 0.15
ACGTcount: A:0.59, C:0.25, G:0.06, T:0.10
Consensus pattern (23 bp):
CCAAAACATCAAAAACCCAGAAT
Found at i:12138332 original size:18 final size:17
Alignment explanation
Indices: 12138271--12138332 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 17
12138261 TAAAGAGTGA
12138271 AAAGTAAAAGTTTAGGGG
1 AAAGTAAAAGTTTA-GGG
* *
12138289 TAAAATAAAAAGTTT-TGG
1 -AAAGT-AAAAGTTTAGGG
*
12138307 AGAGTAAAAGTTTGAGGG
1 AAAGTAAAAGTTT-AGGG
12138325 AAAGTAAA
1 AAAGTAAA
12138333 TAGGGAGAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
16 8 0.24
17 3 0.09
18 11 0.32
19 4 0.12
20 8 0.24
ACGTcount: A:0.48, C:0.00, G:0.27, T:0.24
Consensus pattern (17 bp):
AAAGTAAAAGTTTAGGG
Found at i:12138442 original size:30 final size:29
Alignment explanation
Indices: 12138408--12138465 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
12138398 CGGGGTGGGA
* *
12138408 TGGGAAGAAAGTAAAAGTTTTGGGGGAAAG
1 TGGG-AGAAAGTAAAAATTTAGGGGGAAAG
**
12138438 TGGGAGGGAGTAAAAATTTAGGGGGAAA
1 TGGGAGAAAGTAAAAATTTAGGGGGAAA
12138466 ATAAAAAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.41, T:0.19
Consensus pattern (29 bp):
TGGGAGAAAGTAAAAATTTAGGGGGAAAG
Found at i:12139725 original size:13 final size:15
Alignment explanation
Indices: 12139707--12139738 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
12139697 TGCAAAAAAA
12139707 AAATTTA-AATAAT-
1 AAATTTACAATAATC
12139720 AAATTTACAATAATC
1 AAATTTACAATAATC
12139735 AAAT
1 AAAT
12139739 AATATTGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 6 0.35
15 4 0.24
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.34
Consensus pattern (15 bp):
AAATTTACAATAATC
Found at i:12147003 original size:20 final size:18
Alignment explanation
Indices: 12146969--12147009 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
12146959 ATTTGATTAC
*
12146969 TAAAATATTATTTTTTAA
1 TAAAATATTATTTTTAAA
12146987 TAAAATATTAAATTTTTAAA
1 TAAAATATT--ATTTTTAAA
12147007 TAA
1 TAA
12147010 GGTAGTCCGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
20 11 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAAAATATTATTTTTAAA
Found at i:12147004 original size:19 final size:18
Alignment explanation
Indices: 12146969--12147005 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
12146959 ATTTGATTAC
*
12146969 TAAAATATTATTTTTTAA
1 TAAAATATTAATTTTTAA
12146987 TAAAATATTAAATTTTTAA
1 TAAAATATT-AATTTTTAA
12147006 ATAAGGTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAAAATATTAATTTTTAA
Found at i:12154604 original size:18 final size:19
Alignment explanation
Indices: 12154561--12154606 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
12154551 TAGCATATAG
*
12154561 GTAATTATATATAAAAAAT
1 GTAATAATATATAAAAAAT
*
12154580 GTTATAATA-ATAATAAAA-
1 GTAATAATATATAA-AAAAT
12154598 GTAATAATA
1 GTAATAATA
12154607 CAATAGTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.35
Consensus pattern (19 bp):
GTAATAATATATAAAAAAT
Found at i:12154743 original size:11 final size:11
Alignment explanation
Indices: 12154729--12154799 Score: 56
Period size: 11 Copynumber: 6.3 Consensus size: 11
12154719 TATTAAAAGC
*
12154729 ATATGCATAAT
1 ATATACATAAT
12154740 ATATACATAAT
1 ATATACATAAT
* *
12154751 ATACAAAACAAAAT
1 AT---ATACATAAT
*
12154765 ATACACATAAT
1 ATATACATAAT
12154776 ATATTA-A-AAT
1 ATA-TACATAAT
12154786 ATATACATAAT
1 ATATACATAAT
12154797 ATA
1 ATA
12154800 CATAAAAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
9 2 0.04
10 7 0.15
11 29 0.60
12 1 0.02
14 9 0.19
ACGTcount: A:0.58, C:0.10, G:0.01, T:0.31
Consensus pattern (11 bp):
ATATACATAAT
Found at i:12154766 original size:25 final size:23
Alignment explanation
Indices: 12154737--12154814 Score: 88
Period size: 21 Copynumber: 3.3 Consensus size: 23
12154727 GCATATGCAT
12154737 AATATATACATAATATACAAAACAA
1 AATATATACATAATATAC-AAA-AA
* **
12154762 AATATACACATAATAT--ATTAA
1 AATATATACATAATATACAAAAA
12154783 AATATATACATAATATACATAAAA
1 AATATATACATAATATACA-AAAA
12154807 AATATATA
1 AATATATA
12154815 TAATGTTTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
21 17 0.39
22 1 0.02
23 1 0.02
24 10 0.23
25 15 0.34
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (23 bp):
AATATATACATAATATACAAAAA
Found at i:12157633 original size:7 final size:7
Alignment explanation
Indices: 12157617--12157655 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
12157607 TGATAATGCC
*
12157617 TGATAGA
1 TGATAAA
12157624 TGATAAA
1 TGATAAA
12157631 TGATAAA
1 TGATAAA
*
12157638 TGATGAA
1 TGATAAA
*
12157645 TGATGAA
1 TGATAAA
12157652 TGAT
1 TGAT
12157656 GCGAATGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (7 bp):
TGATAAA
Found at i:12158836 original size:16 final size:17
Alignment explanation
Indices: 12158805--12158837 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12158795 TTCATAAGTA
12158805 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
*
12158822 TATATTAAT-ATTTCAT
1 TATATCAATCATTTCAT
12158838 GCTCTATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:12159183 original size:46 final size:46
Alignment explanation
Indices: 12159118--12159525 Score: 491
Period size: 46 Copynumber: 8.9 Consensus size: 46
12159108 TTATCTTTGA
* * * * * * *
12159118 CATGATGCCATAGTGTCTTTCGACTATGGTCTTACTCATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
* *** *
12159164 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCA-TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TAT
* ** ** * **
12159210 TACATTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
*
12159255 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
* *
12159301 CCTGTTGCCATGGTATCTTTTAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TAT
*
12159347 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
* * *
12159393 CCTGTTGCCATGGTGTCTTTCAACCATGGTCTTACATA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TAT
* *
12159439 CATGTTGCCATAGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
*
12159485 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
12159526 CATTTCAGAA
Statistics
Matches: 316, Mismatches: 40, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
45 45 0.14
46 265 0.84
47 6 0.02
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
Found at i:12159379 original size:92 final size:92
Alignment explanation
Indices: 12159123--12159528 Score: 548
Period size: 92 Copynumber: 4.4 Consensus size: 92
12159113 TTTGACATGA
* * * * * * *
12159123 TGCCATAGTGTCTTTCGACTATGGTCTTACTCATTTTC-TGTCAGGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCATGGTATCTTTCAA
*** * * * *
12159187 CCATGGTCTTGTTCATTTCATGTTAC-AT
65 CCATGGTCTTACACATTTTAT-ATCCTGT
** ***
12159215 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
12159279 CATGGTCTTACACATTTTATATCCTGT
66 CATGGTCTTACACATTTTATATCCTGT
*
12159306 TGCCATGGTATCTTTTAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
12159371 CATGGTCTTACACATTTTATATCCTGT
66 CATGGTCTTACACATTTTATATCCTGT
* * *
12159398 TGCCATGGTGTCTTTCAACCATGGTCTTACATATTTCATATCATGTTGCCATAGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
*
12159463 CATGGTCTTACACATTTTATATCATGT
66 CATGGTCTTACACATTTTATATCCTGT
*
12159490 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
12159529 TTCAGAAAGC
Statistics
Matches: 285, Mismatches: 26, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
90 5 0.02
91 72 0.25
92 208 0.73
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTTATATCCTGT
Found at i:12163145 original size:20 final size:20
Alignment explanation
Indices: 12163120--12163159 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
12163110 TGGAAATAGG
12163120 AAAAGAGAGAATAATCCAAT
1 AAAAGAGAGAATAATCCAAT
12163140 AAAAGAGAGAATAATCCAAT
1 AAAAGAGAGAATAATCCAAT
12163160 TCCAAATTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.10, G:0.15, T:0.15
Consensus pattern (20 bp):
AAAAGAGAGAATAATCCAAT
Found at i:12163283 original size:14 final size:14
Alignment explanation
Indices: 12163264--12163297 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
12163254 CTAATTTAAT
12163264 AAAATAAAAACAAA
1 AAAATAAAAACAAA
*
12163278 AAAATAAAAATAAA
1 AAAATAAAAACAAA
*
12163292 ATAATA
1 AAAATA
12163298 TTTTCCTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (14 bp):
AAAATAAAAACAAA
Found at i:12164012 original size:89 final size:89
Alignment explanation
Indices: 12163892--12164217 Score: 298
Period size: 89 Copynumber: 3.6 Consensus size: 89
12163882 GCTTCGCTGG
* * * * * * *
12163892 AACTTCAAGGAGGTAAGAGTTGGTAATTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTT
1 AACTTCAGGGAGATAAGACTTGCT-ACTTCAACCTGCTCCACTACAACTTCAGAGAGATAAGGTT
* *
12163957 TG-TGGTCTTTAGTCTACTCCATTGC
65 TGCT-ATCTTTAGTCTACTCCACTGC
* * *
12163982 AACTTTAGGGAGATAAGACTTGCTACTTCAACCTTCTCTACTACAACTTCAGAGAGATAAGGTTT
1 AACTTCAGGGAGATAAGACTTGCTACTTCAACCTGCTCCACTACAACTTCAGAGAGATAAGGTTT
* * * *
12164047 GCTATC-TTCGATCTATTCCGCTGT
66 GCTATCTTTAG-TCTACTCCACTGC
* * * *** * *
12164071 AACTTCAGAGAGATAGGA-TCTGTTATCTTCAGTTTGCTCCACTACAACTTCAGGGAGATAAGAT
1 AACTTCAGGGAGATAAGACT-TGCTA-CTTCAACCTGCTCCACTACAACTTCAGAGAGATAAGGT
* * *
12164135 CTGCTATCTTCAGTCTGCTCCACTGC
64 TTGCTATCTTTAGTCTACTCCACTGC
* * * **
12164161 AACATCAGGGAGATAAGACATGCTACTTTAACCTGCTTTACTACAACTTCAGAGAGA
1 AACTTCAGGGAGATAAGACTTGCTACTTCAACCTGCTCCACTACAACTTCAGAGAGA
12164218 CTGTCTTCAG
Statistics
Matches: 184, Mismatches: 46, Indels: 13
0.76 0.19 0.05
Matches are distributed among these distances:
88 4 0.02
89 92 0.50
90 86 0.47
91 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (89 bp):
AACTTCAGGGAGATAAGACTTGCTACTTCAACCTGCTCCACTACAACTTCAGAGAGATAAGGTTT
GCTATCTTTAGTCTACTCCACTGC
Found at i:12164077 original size:179 final size:177
Alignment explanation
Indices: 12163681--12164217 Score: 509
Period size: 179 Copynumber: 3.0 Consensus size: 177
12163671 TTTTAGGGAA
* *
12163681 AAGAGATTTGTAGCTTCGATCTACTCTGCTGAAACTTCAAGGAGATAAGAATTGGTAATTTCAAT
1 AAGAGATTTGTAGCTTCGATCTATTCCGCTGAAACTTCAAGGAGATAAG-ATTGGTAATTTCAAT
* * *
12163746 CTGCTCCACTGCAACTTCAGGG-GAATAAGGTTTGTGTATTTTTA-TCCTGCTCTACTACAACTT
65 CTGCTCCACTGCAACTTCAGGGAG-ATAAGGTTTGTG-ATCTTTAGT-CTGCTCCACTGCAACTT
* * * * * * ** *
12163809 TAGAGAGATAAGGATTATGGT--TTCGATCTGCTCTAATGTAATTTCAG-GTAG
127 TAGGGAGATAA-GACT-TGCTACTTCAACCTGCTCTACTACAACTTCAGAG-AG
* * * * *
12163860 AAGAGATTTGTAGCTTTGATATGCTT-CGCTGGAACTTCAAGGAGGTAAGAGTTGGTAATTTCAA
1 AAGAGATTTGTAGCTTCGATCT-ATTCCGCTGAAACTTCAAGGAGATAAGA-TTGGTAATTTCAA
* * * *
12163924 CCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGTCTTTAGTCTACTCCATTGCAACTTTA
64 TCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGATCTTTAGTCTGCTCCACTGCAACTTTA
*
12163989 GGGAGATAAGACTTGCTACTTCAACCTTCTCTACTACAACTTCAGAGAG
129 GGGAGATAAGACTTGCTACTTCAACCTGCTCTACTACAACTTCAGAGAG
* * * * *
12164038 ATA-AGGTTTGCTATCTTCGATCTATTCCGCTGTAACTTC-AGAGAGATAGGATCT-GTTATCTT
1 A-AGAGATTTG-TAGCTTCGATCTATTCCGCTGAAACTTCAAG-GAGATAAGAT-TGGTAAT-TT
* * * * * *
12164100 CAGTTTGCTCCACTACAACTTCAGGGAGATAAGATCTGCT-ATCTTCAGTCTGCTCCACTGCAAC
61 CAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG-TGATCTTTAGTCTGCTCCACTGCAAC
* * * * *
12164164 ATCAGGGAGATAAGACATGCTACTTTAACCTGCTTTACTACAACTTCAGAGAG
125 TTTAGGGAGATAAGACTTGCTACTTCAACCTGCTCTACTACAACTTCAGAGAG
12164217 A
1 A
12164218 CTGTCTTCAG
Statistics
Matches: 295, Mismatches: 49, Indels: 28
0.79 0.13 0.08
Matches are distributed among these distances:
176 3 0.01
177 3 0.01
178 66 0.22
179 220 0.75
180 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (177 bp):
AAGAGATTTGTAGCTTCGATCTATTCCGCTGAAACTTCAAGGAGATAAGATTGGTAATTTCAATC
TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGATCTTTAGTCTGCTCCACTGCAACTTTAGG
GAGATAAGACTTGCTACTTCAACCTGCTCTACTACAACTTCAGAGAG
Found at i:12164178 original size:45 final size:45
Alignment explanation
Indices: 12163925--12164178 Score: 228
Period size: 45 Copynumber: 5.7 Consensus size: 45
12163915 TAATTTCAAC
* * * *
12163925 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG-TGGTCTTTAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCT-ATCTTCAGT
* * * **
12163970 CTACTCCATTGCAACTTTAGGGAGATAAGA-CTTGCTA-CTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATC-TGCTATCTTCAGT
* * * * * *
12164014 CTTCTCTACTACAACTTCAGAGAGATAAGGTTTGCTATCTTC-GAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTATCTTCAG-T
** * * * * *
12164059 CTATTCCGCTGTAACTTCAGAGAGATAGGATCTGTTATCTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTATCTTCAGT
* *
12164104 TTGCTCCACTACAACTTCAGGGAGATAAGATCTGCTATCTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTATCTTCAGT
*
12164149 CTGCTCCACTGCAACATCAGGGAGATAAGA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGA
12164179 CATGCTACTT
Statistics
Matches: 162, Mismatches: 41, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
44 32 0.20
45 128 0.79
46 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (45 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTATCTTCAGT
Found at i:12164394 original size:5 final size:5
Alignment explanation
Indices: 12164384--12164428 Score: 65
Period size: 5 Copynumber: 8.8 Consensus size: 5
12164374 CTAATTTTAA
12164384 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA- ATAAAT AAAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A-AAAT -AAAAT AAAA
12164429 ACAAAATAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
4 1 0.03
5 31 0.84
6 4 0.11
7 1 0.03
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:12164413 original size:21 final size:23
Alignment explanation
Indices: 12164384--12164436 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 23
12164374 CTAATTTTAA
12164384 AAAATAAAATA-AAATA-AAATA
1 AAAATAAAATATAAATAAAAATA
12164405 AAA-TAAAA-ATAAATAAAAATA
1 AAAATAAAATATAAATAAAAATA
*
12164426 AAAACAAAATA
1 AAAATAAAATA
12164437 GTATCTTCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 1 0.04
20 10 0.37
21 11 0.41
22 4 0.15
23 1 0.04
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (23 bp):
AAAATAAAATATAAATAAAAATA
Found at i:12166307 original size:26 final size:26
Alignment explanation
Indices: 12166271--12166320 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
12166261 TGGATGACTC
*
12166271 TCTACCTTGTATCGCCCAACTGGTTT
1 TCTACCTTGTATCACCCAACTGGTTT
12166297 TCTACCTTGTATCACCCAACTGGT
1 TCTACCTTGTATCACCCAACTGGT
12166321 AGCATCTGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.18, C:0.32, G:0.14, T:0.36
Consensus pattern (26 bp):
TCTACCTTGTATCACCCAACTGGTTT
Found at i:12170818 original size:29 final size:29
Alignment explanation
Indices: 12170774--12170847 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
12170764 GAAGAGGTAG
** *
12170774 AGAACTTGTTTGTTGAGTA-TTCGCGATGA
1 AGAACTTGTTCATTGAG-AGTTCACGATGA
12170803 AGAACTTGTTCATTGAGAGTTCACGATGA
1 AGAACTTGTTCATTGAGAGTTCACGATGA
12170832 AGAACTTGTTCATTGA
1 AGAACTTGTTCATTGA
12170848 TAATTCGTGT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 1 0.02
29 40 0.98
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.35
Consensus pattern (29 bp):
AGAACTTGTTCATTGAGAGTTCACGATGA
Done.