Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 190 of 190
Found at i:57071116 original size:44 final size:39
Alignment explanation
Indices: 57070886--57071116 Score: 121
Period size: 44 Copynumber: 5.6 Consensus size: 39
57070876 TTTATCTAGT
* * *
57070886 TTTATATTAAGAATTTTATTCAATTATATATTTTTATTAA
1 TTTATATTAATAATATTATTAAATTATATATTTTTATT-A
* * *
57070926 ATTATATTTAATAATAATTATTTTAAATTATAT-TTTATAGTA
1 TTTATA-TTAATAAT-ATTA--TTAAATTATATATTTTTATTA
* * * ** *
57070968 TTATATATT-ATGATTTTAGTAAATTCATATA---AGAATA
1 TT-TATATTAATAATATTATTAAATT-ATATATTTTTATTA
* *
57071005 TTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAA
1 TTT-ATATTAATAATATTATTAAATTATATATTTTTATT-A
*
57071046 ATTATATTTAATAATAATTATTTTAAATTATGATTAAATTATTTATTA
1 TTTATA-TTAATAAT-ATTA--TTAAATTAT-A-T--ATT-TTTATTA
*
57071094 TTTATATTAATAATCTTATTAAA
1 TTTATATTAATAATATTATTAAA
57071117 ATTTAATAAC
Statistics
Matches: 146, Mismatches: 23, Indels: 40
0.70 0.11 0.19
Matches are distributed among these distances:
36 1 0.01
37 16 0.11
38 19 0.13
39 4 0.03
40 13 0.09
41 21 0.14
42 10 0.07
43 10 0.07
44 24 0.16
45 1 0.01
46 4 0.03
47 8 0.05
48 9 0.06
49 6 0.04
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (39 bp):
TTTATATTAATAATATTATTAAATTATATATTTTTATTA
Found at i:57071301 original size:46 final size:44
Alignment explanation
Indices: 57071216--57071304 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 44
57071206 ACCTCTATTA
*
57071216 CATTCAACCAAACACAAGAATACCACTACGCCTCTATTCCATTC
1 CATTCAACCAAACAAAAGAATACCACTACGCCTCTATTCCATTC
* *
57071260 CATTCAACCAAACAAAAGATTTACCTATTACGCCTCTATTCCATT
1 CATTCAACCAAACAAAAGA-ATACC-ACTACGCCTCTATTCCATT
57071305 ACGCATCTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 18 0.45
45 4 0.10
46 18 0.45
ACGTcount: A:0.36, C:0.33, G:0.04, T:0.27
Consensus pattern (44 bp):
CATTCAACCAAACAAAAGAATACCACTACGCCTCTATTCCATTC
Found at i:57071307 original size:16 final size:16
Alignment explanation
Indices: 57071286--57071338 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
57071276 AGATTTACCT
*
57071286 ATTACGCCTCTATTCC
1 ATTACGCATCTATTCC
57071302 ATTACGCATCTATTCC
1 ATTACGCATCTATTCC
* *
57071318 ATTACACTTCTATTCC
1 ATTACGCATCTATTCC
57071334 ATTAC
1 ATTAC
57071339 AGCGAACCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.25, C:0.32, G:0.04, T:0.40
Consensus pattern (16 bp):
ATTACGCATCTATTCC
Found at i:57078733 original size:27 final size:27
Alignment explanation
Indices: 57078703--57078758 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
57078693 ATAATGTAAT
57078703 TTTTAAAAATTATTAATACAATTAAAA
1 TTTTAAAAATTATTAATACAATTAAAA
* *
57078730 TTTTAAAATTTTTTAATACAATTAAAA
1 TTTTAAAAATTATTAATACAATTAAAA
57078757 TT
1 TT
57078759 ATCTATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (27 bp):
TTTTAAAAATTATTAATACAATTAAAA
Found at i:57079200 original size:19 final size:19
Alignment explanation
Indices: 57079176--57079233 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
57079166 ACAATGATAT
57079176 AAACTTAAAAAAATTATAA
1 AAACTTAAAAAAATTATAA
* *
57079195 AAACTTATAAATATTATAA
1 AAACTTAAAAAAATTATAA
*
57079214 AAA-TCT-AATAAATTATAA
1 AAACT-TAAAAAAATTATAA
57079232 AA
1 AA
57079234 TTAACAAACC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
18 12 0.36
19 21 0.64
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (19 bp):
AAACTTAAAAAAATTATAA
Found at i:57079202 original size:10 final size:10
Alignment explanation
Indices: 57079176--57079216 Score: 50
Period size: 9 Copynumber: 4.3 Consensus size: 10
57079166 ACAATGATAT
57079176 AAACTTA-AA
1 AAACTTATAA
*
57079185 AAAATTATAA
1 AAACTTATAA
57079195 AAACTTATAA
1 AAACTTATAA
*
57079205 ATA-TTATAA
1 AAACTTATAA
57079214 AAA
1 AAA
57079217 TCTAATAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 14 0.52
10 13 0.48
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (10 bp):
AAACTTATAA
Found at i:57079211 original size:9 final size:9
Alignment explanation
Indices: 57079184--57079233 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
57079174 ATAAACTTAA
57079184 AAAAATTAT
1 AAAAATTAT
57079193 AAAAACTTAT
1 AAAAA-TTAT
*
57079203 AAATATTAT
1 AAAAATTAT
57079212 AAAAATCTA-
1 AAAAAT-TAT
*
57079221 ATAAATTAT
1 AAAAATTAT
57079230 AAAA
1 AAAA
57079234 TTAACAAACC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 2 0.06
9 22 0.65
10 10 0.29
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:57084540 original size:16 final size:16
Alignment explanation
Indices: 57084508--57084540 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
57084498 AAGTTATAAG
57084508 TAAAAATATTTACAAT
1 TAAAAATATTTACAAT
57084524 TAAATAATATTTA-AAT
1 TAAA-AATATTTACAAT
57084540 T
1 T
57084541 GGTAATGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAAAATATTTACAAT
Found at i:57088331 original size:20 final size:21
Alignment explanation
Indices: 57088306--57088355 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
57088296 ATATCCTATC
* * *
57088306 CCGGTTCAGTATCTTT-GTGT
1 CCGGTTCAGCAGCTTTGGTGG
57088326 CCGGTTCAGCAGCTTTGGTGG
1 CCGGTTCAGCAGCTTTGGTGG
57088347 CCGGTTCAG
1 CCGGTTCAG
57088356 ATTTTTAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.10, C:0.24, G:0.32, T:0.34
Consensus pattern (21 bp):
CCGGTTCAGCAGCTTTGGTGG
Found at i:57088462 original size:31 final size:31
Alignment explanation
Indices: 57088403--57088467 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
57088393 ATTCCAGATA
* * *
57088403 GGGATATCCCATCCCAGGGATATACCGGCTT
1 GGGATATCCCATCCAAGAGATACACCGGCTT
* *
57088434 GGGATATCCCATTCAAGAGATACCCCGGCTT
1 GGGATATCCCATCCAAGAGATACACCGGCTT
57088465 GGG
1 GGG
57088468 GTCTAGGGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.23, C:0.28, G:0.28, T:0.22
Consensus pattern (31 bp):
GGGATATCCCATCCAAGAGATACACCGGCTT
Found at i:57103644 original size:97 final size:97
Alignment explanation
Indices: 57103478--57103671 Score: 379
Period size: 97 Copynumber: 2.0 Consensus size: 97
57103468 ATTAAATTAA
*
57103478 TTTGAATATAGGGAATTTCCAAAACTCAATTTTGATACTGAAGCTGTTAGCTTTATGTAAGTTCT
1 TTTGAATATAGGGAATTTCCAAAACTCAATTTTGATACCGAAGCTGTTAGCTTTATGTAAGTTCT
57103543 CCGATTTCTTTTTTACTTCTCTCTGTTAATTT
66 CCGATTTCTTTTTTACTTCTCTCTGTTAATTT
57103575 TTTGAATATAGGGAATTTCCAAAACTCAATTTTGATACCGAAGCTGTTAGCTTTATGTAAGTTCT
1 TTTGAATATAGGGAATTTCCAAAACTCAATTTTGATACCGAAGCTGTTAGCTTTATGTAAGTTCT
57103640 CCGATTTCTTTTTTACTTCTCTCTGTTAATTT
66 CCGATTTCTTTTTTACTTCTCTCTGTTAATTT
57103672 CCCCAAAACA
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 96 1.00
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.46
Consensus pattern (97 bp):
TTTGAATATAGGGAATTTCCAAAACTCAATTTTGATACCGAAGCTGTTAGCTTTATGTAAGTTCT
CCGATTTCTTTTTTACTTCTCTCTGTTAATTT
Found at i:57105412 original size:15 final size:15
Alignment explanation
Indices: 57105392--57105420 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
57105382 TATGTTCTTG
57105392 ATCATTAAAATTTTA
1 ATCATTAAAATTTTA
57105407 ATCATTAAAATTTT
1 ATCATTAAAATTTT
57105421 CTCACCTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (15 bp):
ATCATTAAAATTTTA
Found at i:57107060 original size:22 final size:24
Alignment explanation
Indices: 57107032--57107075 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
57107022 AAAATGCAAC
*
57107032 AAATG-AAACTTA-TTTATATAAT
1 AAATGAAAACATATTTTATATAAT
57107054 AAATGAAAACATATTTTATATA
1 AAATGAAAACATATTTTATATA
57107076 TATATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 6 0.32
24 8 0.42
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.39
Consensus pattern (24 bp):
AAATGAAAACATATTTTATATAAT
Found at i:57112633 original size:41 final size:41
Alignment explanation
Indices: 57112571--57112751 Score: 247
Period size: 41 Copynumber: 4.4 Consensus size: 41
57112561 GGTTTTAAAA
*
57112571 CCTAGCAGGCTAAGTGTCGGTGAACTGAAACAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAAACAGGCTATAAG
* *
57112612 CCTAGCAGGCTAAGTGCCGGTGAATTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAAACAGGCTATAAG
* * *
57112653 CCTAGTAGGCTAAGTGCCGGTGATCT-AAATCAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAAA-CAGGCTATAAG
* * * *
57112694 CCTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGCTTTAAG
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAAACAGGCTATAAG
*
57112735 CCTAACAGGCTAAGTGC
1 CCTAGCAGGCTAAGTGC
57112752 TAGTGAATCT
Statistics
Matches: 123, Mismatches: 15, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
40 2 0.02
41 119 0.97
42 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGAACTGAAACAGGCTATAAG
Found at i:57113055 original size:36 final size:35
Alignment explanation
Indices: 57112970--57113061 Score: 96
Period size: 36 Copynumber: 2.6 Consensus size: 35
57112960 GATTCTAGTA
* *
57112970 AATATATATATGTGCATTCGGCACATGTGGTTGAT
1 AATATATATATATGCATTCGGCACATGTAGTTGAT
* * * *
57113005 AAGTATA-AGTATATGCTTTTGGCATATGTATTTGAAT
1 AA-TATATA-TATATGCATTCGGCACATGTAGTTG-AT
57113042 AATATATATATATGCATTCG
1 AATATATATATATGCATTCG
57113062 ATGAAGTGCA
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
35 3 0.07
36 37 0.82
37 5 0.11
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (35 bp):
AATATATATATATGCATTCGGCACATGTAGTTGAT
Found at i:57121127 original size:19 final size:20
Alignment explanation
Indices: 57121103--57121142 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
57121093 CAATTGTTTT
57121103 AAAA-TTAA-ATAAGTTTAAA
1 AAAATTTAATATAA-TTTAAA
57121122 AAAATTTAATATAATTTAAA
1 AAAATTTAATATAATTTAAA
57121142 A
1 A
57121143 TTTTAAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 11 0.58
21 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (20 bp):
AAAATTTAATATAATTTAAA
Found at i:57125952 original size:21 final size:21
Alignment explanation
Indices: 57125895--57125945 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
57125885 ATATCCCGTC
57125895 CCGGTTCAGCTGTTTTAGTGT
1 CCGGTTCAGCTGTTTTAGTGT
57125916 CCGGTTCAGCTGTTTTAGTGT
1 CCGGTTCAGCTGTTTTAGTGT
57125937 CCGGTTCAG
1 CCGGTTCAG
57125946 ATTTTTTGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.10, C:0.22, G:0.29, T:0.39
Consensus pattern (21 bp):
CCGGTTCAGCTGTTTTAGTGT
Found at i:57128593 original size:7 final size:7
Alignment explanation
Indices: 57128577--57128757 Score: 51
Period size: 7 Copynumber: 25.7 Consensus size: 7
57128567 TCTTTTTCTT
*
57128577 GGGTTAG
1 GGGTTTG
57128584 GGGTTTGG
1 GGGTTT-G
57128592 GGGTTT-
1 GGGTTTG
57128598 GGG-TTG
1 GGGTTTG
*
57128604 GGGGTT-
1 GGGTTTG
57128610 GGG-TT-
1 GGGTTTG
57128615 GGG-TTG
1 GGGTTTG
*
57128621 GGGGTT-
1 GGGTTTG
*
57128627 GTGTTTG
1 GGGTTTG
*
57128634 GGGTTTTAA
1 GGG-TTT-G
*
57128643 GGTTTTG
1 GGGTTTG
*
57128650 GTGTTTG
1 GGGTTTG
57128657 GGGTTTAAG
1 GGGTTT--G
57128666 GGG--TG
1 GGGTTTG
57128671 GGAGTTTAG
1 GG-GTTT-G
57128680 GGG-TTG
1 GGGTTTG
* *
57128686 GGGGTGG
1 GGGTTTG
57128693 GGGTTTTG
1 GGG-TTTG
*
57128701 GGG-TTC
1 GGGTTTG
57128707 GGGTTTG
1 GGGTTTG
* *
57128714 GGGGTTC
1 GGGTTTG
*
57128721 GGGTTCG
1 GGGTTTG
57128728 AGGGTTTGG
1 -GGGTTT-G
57128737 GGGTTTTAG
1 GGG-TTT-G
*
57128746 TGGTTTG
1 GGGTTTG
57128753 GGGTT
1 GGGTT
57128758 AGGGCTTAGG
Statistics
Matches: 130, Mismatches: 24, Indels: 40
0.67 0.12 0.21
Matches are distributed among these distances:
5 12 0.09
6 26 0.20
7 45 0.35
8 31 0.24
9 16 0.12
ACGTcount: A:0.05, C:0.02, G:0.55, T:0.39
Consensus pattern (7 bp):
GGGTTTG
Found at i:57128627 original size:12 final size:13
Alignment explanation
Indices: 57128588--57128617 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
57128578 GGTTAGGGGT
57128588 TTGGGGGTTTGGG
1 TTGGGGGTTTGGG
57128601 TTGGGGG-TTGGG
1 TTGGGGGTTTGGG
57128613 TTGGG
1 TTGGG
57128618 TTGGGGGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.00, C:0.00, G:0.63, T:0.37
Consensus pattern (13 bp):
TTGGGGGTTTGGG
Found at i:57128677 original size:22 final size:22
Alignment explanation
Indices: 57128629--57128705 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 22
57128619 TGGGGGTTGT
** * *
57128629 GTTTGGGGTTTTAAGGTTTTGGT
1 GTTTGGGG-TTTAAGGGGTGGGA
57128652 GTTTGGGGTTTAAGGGGTGGGA
1 GTTTGGGGTTTAAGGGGTGGGA
* *
57128674 GTTTAGGGG-TT-GGGGGTGGGG
1 GTTT-GGGGTTTAAGGGGTGGGA
57128695 GTTTTGGGGTT
1 G-TTTGGGGTT
57128706 CGGGTTTGGG
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
21 13 0.29
22 20 0.44
23 12 0.27
ACGTcount: A:0.08, C:0.00, G:0.52, T:0.40
Consensus pattern (22 bp):
GTTTGGGGTTTAAGGGGTGGGA
Found at i:57128691 original size:21 final size:21
Alignment explanation
Indices: 57128665--57128705 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
57128655 TGGGGTTTAA
57128665 GGGGTGGGAGTTTAGGGGTTG
1 GGGGTGGGAGTTTAGGGGTTG
* *
57128686 GGGGTGGGGGTTTTGGGGTT
1 GGGGTGGGAGTTTAGGGGTT
57128706 CGGGTTTGGG
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:0.05, C:0.00, G:0.63, T:0.32
Consensus pattern (21 bp):
GGGGTGGGAGTTTAGGGGTTG
Found at i:57128713 original size:13 final size:14
Alignment explanation
Indices: 57128683--57128725 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
57128673 AGTTTAGGGG
**
57128683 TTGGGGGTGGGGGT
1 TTGGGGGTTCGGGT
*
57128697 TTTGGGGTTCGGGT
1 TTGGGGGTTCGGGT
57128711 TTGGGGGTTCGGGT
1 TTGGGGGTTCGGGT
57128725 T
1 T
57128726 CGAGGGTTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.00, C:0.05, G:0.58, T:0.37
Consensus pattern (14 bp):
TTGGGGGTTCGGGT
Found at i:57128718 original size:22 final size:23
Alignment explanation
Indices: 57128690--57128743 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
57128680 GGGTTGGGGG
*
57128690 TGGGGGTTTTGGGGTTC-GGGTT
1 TGGGGGTTTTCGGGTTCAGGGTT
57128712 TGGGGG--TTCGGGTTCGAGGGTT
1 TGGGGGTTTTCGGGTTC-AGGGTT
57128734 TGGGGGTTTT
1 TGGGGGTTTT
57128744 AGTGGTTTGG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 8 0.30
22 17 0.63
24 2 0.07
ACGTcount: A:0.02, C:0.06, G:0.54, T:0.39
Consensus pattern (23 bp):
TGGGGGTTTTCGGGTTCAGGGTT
Found at i:57128792 original size:13 final size:13
Alignment explanation
Indices: 57128752--57128811 Score: 66
Period size: 13 Copynumber: 4.5 Consensus size: 13
57128742 TTAGTGGTTT
57128752 GGGGTTAGGGCTTA
1 GGGGTTAGGGC-TA
* * *
57128766 GGGCTTTGGCCTA
1 GGGGTTAGGGCTA
57128779 GGGGTTAGGGCTA
1 GGGGTTAGGGCTA
*
57128792 GGGGTTAGGGTTA
1 GGGGTTAGGGCTA
57128805 GAGGGTT
1 G-GGGTT
57128812 TGGGGTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
13 25 0.66
14 13 0.34
ACGTcount: A:0.13, C:0.08, G:0.50, T:0.28
Consensus pattern (13 bp):
GGGGTTAGGGCTA
Found at i:57128800 original size:20 final size:20
Alignment explanation
Indices: 57128752--57128805 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
57128742 TTAGTGGTTT
* *
57128752 GGGGTTAGGGCTTAGGGCTT
1 GGGGTTAGGGGTTAGGGCTA
* **
57128772 TGGCCTAGGGGTTAGGGCTA
1 GGGGTTAGGGGTTAGGGCTA
57128792 GGGGTTA-GGGTTAG
1 GGGGTTAGGGGTTAG
57128806 AGGGTTTGGG
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.13, C:0.09, G:0.50, T:0.28
Consensus pattern (20 bp):
GGGGTTAGGGGTTAGGGCTA
Done.