Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 68 of 91
Found at i:11292713 original size:27 final size:26
Alignment explanation
Indices: 11292673--11292756 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
11292663 GAGCTTTGGT
11292673 AAAAAAAAAAAAAAACAAAAAAACAA
1 AAAAAAAAAAAAAAACAAAAAAACAA
*
11292699 AAAAAAAAAACAAAAAAAAAAAAACAA
1 AAAAAAAAAA-AAAAACAAAAAAACAA
* *
11292726 AAAAAACAAAAAAAACAAAAAAACCA
1 AAAAAAAAAAAAAAACAAAAAAACAA
11292752 AAAAA
1 AAAAA
11292757 TGTTGAGTTG
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
26 29 0.55
27 24 0.45
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (26 bp):
AAAAAAAAAAAAAAACAAAAAAACAA
Found at i:11292753 original size:9 final size:9
Alignment explanation
Indices: 11292673--11292756 Score: 120
Period size: 9 Copynumber: 9.6 Consensus size: 9
11292663 GAGCTTTGGT
11292673 AAAAAAA-A
1 AAAAAAACA
11292681 AAAAAAAC-
1 AAAAAAACA
11292689 AAAAAAACA
1 AAAAAAACA
11292698 AAAAAAA-A
1 AAAAAAACA
*
11292706 AAACAAAAAA
1 AAA-AAAACA
11292716 AAAAAAACA
1 AAAAAAACA
11292725 AAAAAAACA
1 AAAAAAACA
11292734 AAAAAAACA
1 AAAAAAACA
*
11292743 AAAAAACCA
1 AAAAAAACA
11292752 AAAAA
1 AAAAA
11292757 TGTTGAGTTG
Statistics
Matches: 70, Mismatches: 2, Indels: 7
0.89 0.03 0.09
Matches are distributed among these distances:
8 19 0.27
9 47 0.67
10 4 0.06
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAACA
Found at i:11292756 original size:1 final size:1
Alignment explanation
Indices: 11292673--11292748 Score: 98
Period size: 1 Copynumber: 76.0 Consensus size: 1
11292663 GAGCTTTGGT
* * * * *
11292673 AAAAAAAAAAAAAAACAAAAAAACAAAAAAAAAAAACAAAAAAAAAAAAACAAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
11292738 AAACAAAAAAA
1 AAAAAAAAAAA
11292749 CCAAAAAATG
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:11293057 original size:18 final size:18
Alignment explanation
Indices: 11293016--11293058 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
11293006 TTTTTGTTAA
* *
11293016 TATTTATGTGTATTTTAT
1 TATTTATGTATATTATAT
11293034 TATTTATGTATATATATAT
1 TATTTATGTATAT-TATAT
11293053 T-TTTAT
1 TATTTAT
11293059 CTTTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (18 bp):
TATTTATGTATATTATAT
Found at i:11296867 original size:6 final size:6
Alignment explanation
Indices: 11296856--11296889 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
11296846 AACAAATGAA
*
11296856 TATATT TATATT TATATT TATATT TATATA TATA
1 TATATT TATATT TATATT TATATT TATATT TATA
11296890 CTCATTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
TATATT
Found at i:11298071 original size:5 final size:5
Alignment explanation
Indices: 11298063--11298095 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
11298053 GTTTTTTTCT
11298063 TTTTA TTTTA TTTTA -TTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
11298096 TTGTTTCTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:11298081 original size:14 final size:14
Alignment explanation
Indices: 11298064--11298094 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
11298054 TTTTTTTCTT
11298064 TTTATTTTATTTTA
1 TTTATTTTATTTTA
11298078 TTTATTTTATTTTA
1 TTTATTTTATTTTA
11298092 TTT
1 TTT
11298095 TTTGTTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:11298136 original size:29 final size:27
Alignment explanation
Indices: 11298054--11298140 Score: 81
Period size: 29 Copynumber: 3.1 Consensus size: 27
11298044 CGATCGTAAG
11298054 TTTTTTT-CTTTTTATTTTATTT--TAT
1 TTTTTTTACTTTTT-TTTTATTTCCTAT
* * *
11298079 TTATTTTATTTTATTTTTTGTTTCTCTAT
1 TTTTTTTACTTT-TTTTTTATTTC-CTAT
11298108 TTTTTTTACTTTGTTTTTTATTCTCCTAT
1 TTTTTTTACTTT-TTTTTTATT-TCCTAT
11298137 TTTT
1 TTTT
11298141 CGTATTTAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
25 6 0.12
26 10 0.20
27 2 0.04
29 29 0.59
30 2 0.04
ACGTcount: A:0.11, C:0.08, G:0.02, T:0.78
Consensus pattern (27 bp):
TTTTTTTACTTTTTTTTTATTTCCTAT
Found at i:11298342 original size:21 final size:22
Alignment explanation
Indices: 11298316--11298365 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
11298306 TATTAATTAA
11298316 ATGATATCATATTATTA-TTGC
1 ATGATATCATATTATTATTTGC
*
11298337 ATGATATTATATTATTATTTGC
1 ATGATATCATATTATTATTTGC
*
11298359 ATAATAT
1 ATGATAT
11298366 TATTGTACAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 16 0.62
22 10 0.38
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.50
Consensus pattern (22 bp):
ATGATATCATATTATTATTTGC
Found at i:11299448 original size:19 final size:20
Alignment explanation
Indices: 11299426--11299470 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
11299416 AAAAGATTCA
*
11299426 AAAAATATGAAAATTTT-TT
1 AAAAATATGAAAATTTTAAT
*
11299445 AAAAA-ATGAAAGTTTTAAT
1 AAAAATATGAAAATTTTAAT
11299464 AAAAATA
1 AAAAATA
11299471 AAACTTCTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 10 0.45
19 11 0.50
20 1 0.05
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (20 bp):
AAAAATATGAAAATTTTAAT
Found at i:11299530 original size:24 final size:24
Alignment explanation
Indices: 11299503--11299568 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
11299493 AAAGATTCAC
11299503 AAAAACT-TAAAAAATTTCAAAATA
1 AAAAACTATAAAAAATTTCAAAA-A
* * * *
11299527 AAAAAATCT-AAAAGTTTGAAAAA
1 AAAAACTATAAAAAATTTCAAAAA
11299550 AAAAACTATGAAAAAATTT
1 AAAAACTAT-AAAAAATTT
11299569 TTAAAATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
23 8 0.24
24 17 0.52
25 8 0.24
ACGTcount: A:0.65, C:0.06, G:0.05, T:0.24
Consensus pattern (24 bp):
AAAAACTATAAAAAATTTCAAAAA
Found at i:11299797 original size:21 final size:19
Alignment explanation
Indices: 11299772--11299837 Score: 53
Period size: 21 Copynumber: 3.3 Consensus size: 19
11299762 TTTCAAAAAA
11299772 TTTAAAGATTTTCAGAATTTT
1 TTTAAA-ATTTT-AGAATTTT
*
11299793 TTTAAAACTTTA-AGATTTT
1 TTTAAAATTTTAGA-ATTTT
* *
11299812 TTCAAAAAATTTTAGATTTTT
1 TT--TAAAATTTTAGAATTTT
11299833 TTTAA
1 TTTAA
11299838 TTTTTTAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
18 1 0.03
19 10 0.28
20 4 0.11
21 20 0.56
22 1 0.03
ACGTcount: A:0.36, C:0.05, G:0.06, T:0.53
Consensus pattern (19 bp):
TTTAAAATTTTAGAATTTT
Found at i:11299819 original size:20 final size:20
Alignment explanation
Indices: 11299796--11299833 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11299786 GAATTTTTTT
*
11299796 AAAACTTTAAGATTTTTTCA
1 AAAAATTTAAGATTTTTTCA
*
11299816 AAAAATTTTAGATTTTTT
1 AAAAATTTAAGATTTTTT
11299834 TTAATTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.50
Consensus pattern (20 bp):
AAAAATTTAAGATTTTTTCA
Found at i:11300012 original size:26 final size:25
Alignment explanation
Indices: 11299983--11300074 Score: 87
Period size: 27 Copynumber: 3.5 Consensus size: 25
11299973 TGAGTTTTTT
**
11299983 TTTTTTAATTTTAATAACTATTTTAA
1 TTTTTTAATTTTAA-AAAAATTTTAA
* *
11300009 TTTTAATAATTTTTAAAAAAATTTGGAA
1 TTTT-TTAA-TTTTAAAAAAATTT-TAA
11300037 -TTTTTAATTTTAAAAAAATTTTGAAA
1 TTTTTTAATTTTAAAAAAATTTT--AA
11300063 TTTTTTAATTTT
1 TTTTTTAATTTT
11300075 TTAGAAAATT
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
25 14 0.26
26 9 0.17
27 23 0.43
28 8 0.15
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (25 bp):
TTTTTTAATTTTAAAAAAATTTTAA
Found at i:11300032 original size:27 final size:25
Alignment explanation
Indices: 11299984--11300086 Score: 84
Period size: 28 Copynumber: 3.9 Consensus size: 25
11299974 GAGTTTTTTT
**
11299984 TTTTTAA-TTTTAATAACTATTTTAA
1 TTTTTAATTTTTAA-AAAAATTTTAA
*
11300009 TTTTAATAATTTTTAAAAAAATTTGGAA
1 TTTT--TAATTTTTAAAAAAATTT-TAA
11300037 TTTTTAA-TTTTAAAAAAATTTTGAAA
1 TTTTTAATTTTTAAAAAAATTTT--AA
* *
11300063 TTTTTTAATTTTTTAGAAAATTTT
1 -TTTTTAATTTTTAAAAAAATTTT
11300087 TTCTAATACT
Statistics
Matches: 64, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
25 18 0.28
26 5 0.08
27 16 0.25
28 25 0.39
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (25 bp):
TTTTTAATTTTTAAAAAAATTTTAA
Found at i:11300072 original size:53 final size:53
Alignment explanation
Indices: 11299984--11300085 Score: 127
Period size: 53 Copynumber: 1.9 Consensus size: 53
11299974 GAGTTTTTTT
**
11299984 TTTTTAATTTTAATAACTATTTTAATTTTAATAATTTTTAAAAAAATTTGGAA
1 TTTTTAATTTTAATAAAAATTTTAATTTTAATAATTTTTAAAAAAATTTGGAA
* * *
11300037 TTTTTAATTTTAA-AAAAATTTTGAAATTTT-TTAATTTTTTAGAAAATTT
1 TTTTTAATTTTAATAAAAATTTT--AATTTTAATAATTTTTAAAAAAATTT
11300086 TTTCTAATAC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
52 7 0.17
53 29 0.69
54 6 0.14
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (53 bp):
TTTTTAATTTTAATAAAAATTTTAATTTTAATAATTTTTAAAAAAATTTGGAA
Found at i:11302930 original size:2 final size:2
Alignment explanation
Indices: 11302923--11302952 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
11302913 TAAATTAGAG
11302923 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11302953 GTTATATCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11306027 original size:61 final size:61
Alignment explanation
Indices: 11305902--11306032 Score: 158
Period size: 61 Copynumber: 2.1 Consensus size: 61
11305892 ATTTTAGAAA
* * *
11305902 TTTTATTTTTAAGAAAAATTAATACTTTCAACTTTTCCCTAAAAATATATTTTTTAAGCCT
1 TTTTATTTTCAAGAAAAATTAATACTTTCAACTTTTCCCTAAAAATATATTTTTGAAACCT
* * * **
11305963 TTTTATTTTCAAGAGAAATTGATACTTTCAACTTTCTCCCCT-AAAA-ATGTTTTTGAAATTT
1 TTTTATTTTCAAGAAAAATTAATACTTTCAACTTT-T-CCCTAAAAATATATTTTTGAAACCT
11306024 TTTTATTTT
1 TTTTATTTT
11306033 AGAAACTTTA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
61 51 0.85
62 5 0.08
63 4 0.07
ACGTcount: A:0.32, C:0.13, G:0.05, T:0.50
Consensus pattern (61 bp):
TTTTATTTTCAAGAAAAATTAATACTTTCAACTTTTCCCTAAAAATATATTTTTGAAACCT
Found at i:11306027 original size:136 final size:132
Alignment explanation
Indices: 11305782--11306092 Score: 371
Period size: 136 Copynumber: 2.3 Consensus size: 132
11305772 TTTGTACGAA
*
11305782 AAAAATTGATACTTTCAACTTTTCCTTAAAATATTTTTTTTGAAATTTTAAGCTCAAGGAAAATT
1 AAAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTTTTGAAATTTTAAGCTCAAGGAAAATT
** * *
11305847 GATACTTTCAACTTTTTTCTTAAAATGCTTTTCTTGATAATTTTTATTTTAGAAATTTTATTTTT
66 GATACTTTCAACTTTTCCCTAAAAATGC-TTTCTTGATAATTTTTATTTTAGAAACTTTATTTTT
11305912 AAG
130 AAG
* * * ***
11305915 AAAAATTAATACTTTCAACTTTTCCCTAAAAATATATTTTTT-AAGCCTTTTTATTTTCAA-GAG
1 AAAAATTGATACTTTCAACTTTT-CCTAAAAATATTTTTTTTGAA---ATTTTAAGCTCAAGGA-
11305978 AAATTGATACTTTCAACTTTCTCCCCTAAAAATG-TTT-TTGA-AATTTTTTTATTTTAGAAACT
61 AAATTGATACTTTCAACTTT-T-CCCTAAAAATGCTTTCTTGATAA--TTTTTATTTTAGAAACT
11306040 TTATTTTTAAG
122 TTATTTTTAAG
* *
11306051 GAAAATTGATACTTTCAATTTTTTCCTAAAAATATTTTTTTT
1 AAAAATTGATACTTTCAA-CTTTTCCTAAAAATATTTTTTTT
11306093 TTGGAATTTT
Statistics
Matches: 153, Mismatches: 15, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
133 24 0.16
134 18 0.12
135 6 0.04
136 92 0.60
137 5 0.03
138 8 0.05
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.49
Consensus pattern (132 bp):
AAAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTTTTGAAATTTTAAGCTCAAGGAAAATT
GATACTTTCAACTTTTCCCTAAAAATGCTTTCTTGATAATTTTTATTTTAGAAACTTTATTTTTA
AG
Found at i:11306160 original size:15 final size:15
Alignment explanation
Indices: 11306126--11306164 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
11306116 CAACAAAAAG
11306126 AAAAA-TAAAATAAA
1 AAAAATTAAAATAAA
*
11306140 ACAAAATTAAAATTAA
1 A-AAAATTAAAATAAA
11306156 AAAAATTAA
1 AAAAATTAA
11306165 GGAATACCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 1 0.05
15 12 0.55
16 9 0.41
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAAATTAAAATAAA
Found at i:11306197 original size:3 final size:3
Alignment explanation
Indices: 11306191--11306231 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
11306181 CTAATTTAGA
11306191 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11306232 ATAACTAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11306242 original size:8 final size:7
Alignment explanation
Indices: 11306194--11306248 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 7
11306184 ATTTAGAAAT
11306194 AATAAT-
1 AATAATA
11306200 AATAAT-
1 AATAATA
11306206 AATAAT-
1 AATAATA
11306212 AATAAT-
1 AATAATA
11306218 AATAAT-
1 AATAATA
11306224 AATAATA
1 AATAATA
11306231 AATAACTA
1 AATAA-TA
11306239 AATAAATA
1 AAT-AATA
11306247 AA
1 AA
11306249 AACAAAAAAC
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
6 30 0.65
7 5 0.11
8 9 0.20
9 2 0.04
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (7 bp):
AATAATA
Found at i:11307077 original size:17 final size:17
Alignment explanation
Indices: 11307048--11307131 Score: 63
Period size: 17 Copynumber: 5.2 Consensus size: 17
11307038 AGATAAACCA
11307048 AAAAATA-AT-AATAAT
1 AAAAATAGATAAATAAT
11307063 AAAAATAGATAAAT-AT
1 AAAAATAGATAAATAAT
* *
11307079 AAAAAATACATTAATAGAT
1 -AAAAATAGATAAATA-AT
*
11307098 --AAATAG-TAAAAAAT
1 AAAAATAGATAAATAAT
**
11307112 ATTAATAGATAAATAAT
1 AAAAATAGATAAATAAT
11307129 AAA
1 AAA
11307132 TATATTTTAA
Statistics
Matches: 52, Mismatches: 9, Indels: 14
0.69 0.12 0.19
Matches are distributed among these distances:
14 2 0.04
15 11 0.21
16 14 0.27
17 23 0.44
19 2 0.04
ACGTcount: A:0.68, C:0.01, G:0.05, T:0.26
Consensus pattern (17 bp):
AAAAATAGATAAATAAT
Found at i:11307115 original size:24 final size:23
Alignment explanation
Indices: 11307066--11307149 Score: 105
Period size: 25 Copynumber: 3.4 Consensus size: 23
11307056 TAATAATAAA
11307066 AATAGATAAATATAAAAAATACATT
1 AATAGATAAATATAAAAAAT--ATT
11307091 AATAGATAAATAGTAAAAAATATT
1 AATAGATAAATA-TAAAAAATATT
* *
11307115 AATAGATAAATAATAAATATATTTT
1 AATAGATAAAT-ATAAA-AAATATT
11307140 AATAGATAAA
1 AATAGATAAA
11307150 AATACATATA
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
24 18 0.33
25 28 0.52
26 8 0.15
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (23 bp):
AATAGATAAATATAAAAAATATT
Found at i:11307153 original size:24 final size:25
Alignment explanation
Indices: 11307050--11307159 Score: 104
Period size: 24 Copynumber: 4.6 Consensus size: 25
11307040 ATAAACCAAA
**
11307050 AAATAAT-AATA-ATAAAAATAGAT
1 AAATAATAAATATATATTAATAGAT
* *
11307073 AAATA-TAAAAAATACATTAATAGAT
1 AAATAAT-AAATATATATTAATAGAT
* *
11307098 AAATAGTAAA-AAATATTAATAGAT
1 AAATAATAAATATATATTAATAGAT
*
11307122 AAATAATAAATATATTTTAATAGAT
1 AAATAATAAATATATATTAATAGAT
*
11307147 AAA-AATACATATA
1 AAATAATAAATATA
11307160 AATCTTCTCT
Statistics
Matches: 72, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
22 1 0.01
23 5 0.07
24 33 0.46
25 32 0.44
26 1 0.01
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (25 bp):
AAATAATAAATATATATTAATAGAT
Found at i:11307812 original size:15 final size:15
Alignment explanation
Indices: 11307794--11307828 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
11307784 ATGAAATTCA
*
11307794 ATGCTATGCAAATGC
1 ATGCTACGCAAATGC
11307809 ATGCTACGCAAATGC
1 ATGCTACGCAAATGC
*
11307824 TTGCT
1 ATGCT
11307829 GATTAATTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (15 bp):
ATGCTACGCAAATGC
Found at i:11314328 original size:27 final size:27
Alignment explanation
Indices: 11314298--11314355 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
11314288 CTTTGAAAAG
*
11314298 TAAAATTAT-TTTTTATTCATATA-ATTT
1 TAAAATTATATTATT-TT-ATATATATTT
*
11314325 TAAATTTATATTATTTTATATATATTT
1 TAAAATTATATTATTTTATATATATTT
11314352 TAAA
1 TAAA
11314356 CATTTCAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 5 0.19
27 18 0.67
28 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (27 bp):
TAAAATTATATTATTTTATATATATTT
Found at i:11314674 original size:19 final size:20
Alignment explanation
Indices: 11314638--11314680 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
11314628 TATTTATATA
*
11314638 TATTTAATAAATATAATT-T
1 TATTAAATAAATATAATTAT
11314657 TATTAAAT-AATATAAATTAT
1 TATTAAATAAATAT-AATTAT
11314677 TATT
1 TATT
11314681 TAGATTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 11 0.52
20 5 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTAAATAAATATAATTAT
Found at i:11315032 original size:34 final size:36
Alignment explanation
Indices: 11314985--11315063 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
11314975 CATCCCTACT
* *
11314985 CATAGATATGTTGTTT-TCTTT-TTGATGCTGATCG
1 CATAGATACGTTGTTTGTCTTTCTTGATGCTGATCA
* * *
11315019 TATAGATACGTTGTTTGTTTTTCTTTATGCTGATCA
1 CATAGATACGTTGTTTGTCTTTCTTGATGCTGATCA
11315055 CATAGATAC
1 CATAGATAC
11315064 ATATGCCCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
34 14 0.38
35 4 0.11
36 19 0.51
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.48
Consensus pattern (36 bp):
CATAGATACGTTGTTTGTCTTTCTTGATGCTGATCA
Found at i:11316303 original size:100 final size:100
Alignment explanation
Indices: 11316153--11316341 Score: 297
Period size: 100 Copynumber: 1.9 Consensus size: 100
11316143 ATAATTCCAA
* * *
11316153 GGGTCACACTAATTTATCACCAGTGGTCAAAATATTTAGATTTACTCAAGATACTAGTTGATGTA
1 GGGTCACACTAATTTATCACCAATGGTCAAAATATTTAGATTTACCCAAGATACTAATTGATGTA
* *
11316218 TCAGAATCTATTTTAGATTTAGAATTCCAATATTT
66 CCAGAATCTATTTTAGATTAAGAATTCCAATATTT
* * *
11316253 GGGTCACTCTAATTTATCCCCAATGGTCAAAATATTTAGATTTACCCAAGATCCTAATTGATGTA
1 GGGTCACACTAATTTATCACCAATGGTCAAAATATTTAGATTTACCCAAGATACTAATTGATGTA
*
11316318 CCAGAATCTGTTTTAGATTAAGAA
66 CCAGAATCTATTTTAGATTAAGAA
11316342 ATTTTTTTAT
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
100 80 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (100 bp):
GGGTCACACTAATTTATCACCAATGGTCAAAATATTTAGATTTACCCAAGATACTAATTGATGTA
CCAGAATCTATTTTAGATTAAGAATTCCAATATTT
Found at i:11319200 original size:18 final size:18
Alignment explanation
Indices: 11319148--11319214 Score: 68
Period size: 18 Copynumber: 3.7 Consensus size: 18
11319138 CCAAAATAAA
11319148 TTAAAAAATCTAAAAATTTC
1 TTAAAAAAT-T-AAAATTTC
* *
11319168 --AAAATATTGAAATTT-
1 TTAAAAAATTAAAATTTC
11319183 TTAATAAAATTAAAATTTC
1 TTAA-AAAATTAAAATTTC
11319202 TTAAAAAATTAAA
1 TTAAAAAATTAAA
11319215 TAAAAAAAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
16 6 0.15
17 3 0.08
18 26 0.67
19 4 0.10
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.37
Consensus pattern (18 bp):
TTAAAAAATTAAAATTTC
Found at i:11319288 original size:18 final size:18
Alignment explanation
Indices: 11319253--11319291 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
11319243 TTTTAAAATA
**
11319253 AAAAAATCTAAATTTTTG
1 AAAAAATCTAAAAATTTG
11319271 AAAAAATCTAAAAATTTG
1 AAAAAATCTAAAAATTTG
11319289 AAA
1 AAA
11319292 GAGTTGTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (18 bp):
AAAAAATCTAAAAATTTG
Found at i:11319478 original size:29 final size:29
Alignment explanation
Indices: 11319438--11319548 Score: 100
Period size: 29 Copynumber: 3.8 Consensus size: 29
11319428 TTTACTTTTT
* * *
11319438 ATTTTGTAGAATTTTTTAAATTTTTTATA
1 ATTTTTTAGAATTTTCTAAATTTTTTAAA
* * *
11319467 ATTTTTTAGAATGTTCTAGATTTTTGAAA
1 ATTTTTTAGAATTTTCTAAATTTTTTAAA
*
11319496 ATTTTTTAG--TTTTCAAAATTTTTTTAAA
1 ATTTTTTAGAATTTTCTAAA-TTTTTTAAA
* * *
11319524 AATTTTCAGAATTTTTTTAAATTTT
1 ATTTTTTAGAA-TTTTCTAAATTTT
11319549 GGGTTTTTTC
Statistics
Matches: 64, Mismatches: 14, Indels: 7
0.75 0.16 0.08
Matches are distributed among these distances:
27 6 0.09
28 15 0.23
29 32 0.50
30 4 0.06
31 7 0.11
ACGTcount: A:0.32, C:0.03, G:0.07, T:0.59
Consensus pattern (29 bp):
ATTTTTTAGAATTTTCTAAATTTTTTAAA
Found at i:11319531 original size:21 final size:21
Alignment explanation
Indices: 11319505--11319544 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
11319495 AATTTTTTAG
11319505 TTTTCAAAATTTTTTTAAAAA
1 TTTTCAAAATTTTTTTAAAAA
*
11319526 TTTTCAGAATTTTTTTAAA
1 TTTTCAAAATTTTTTTAAA
11319545 TTTTGGGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (21 bp):
TTTTCAAAATTTTTTTAAAAA
Found at i:11319747 original size:40 final size:37
Alignment explanation
Indices: 11319668--11319748 Score: 99
Period size: 40 Copynumber: 2.1 Consensus size: 37
11319658 AAAAATTTAT
*
11319668 TTTTATTAAAATTTTCATTTTTTAATTTTTTTTGGAA
1 TTTTATTAAAATTTTCATTTTTTAATTTTTTTTGAAA
* * *
11319705 TTTTATTAAAATTTTTTAGATTTTTTTATTTTTTTTTAAA
1 TTTTATTAAAA--TTTT-CATTTTTTAATTTTTTTTGAAA
11319745 TTTT
1 TTTT
11319749 CATAATTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
37 11 0.30
39 4 0.11
40 22 0.59
ACGTcount: A:0.26, C:0.01, G:0.04, T:0.69
Consensus pattern (37 bp):
TTTTATTAAAATTTTCATTTTTTAATTTTTTTTGAAA
Found at i:11325420 original size:21 final size:23
Alignment explanation
Indices: 11325396--11325437 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
11325386 TTATTTGAGA
*
11325396 TTATGA-AAAA-TGATATAAATT
1 TTATGATAAAATTAATATAAATT
11325417 TTATGATAAAATTAATATAAA
1 TTATGATAAAATTAATATAAA
11325438 ATTATTCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 4 0.22
23 8 0.44
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (23 bp):
TTATGATAAAATTAATATAAATT
Found at i:11325947 original size:5 final size:5
Alignment explanation
Indices: 11325933--11325984 Score: 77
Period size: 5 Copynumber: 10.4 Consensus size: 5
11325923 TACCATAAAA
* * *
11325933 ATAAT ATAAT GTAAT GTAAT GTAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
11325983 AT
1 AT
11325985 TTATATTTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 45 1.00
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:11327226 original size:21 final size:22
Alignment explanation
Indices: 11327188--11327235 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
11327178 AATTCAATCT
*
11327188 TGTATTTTTTTTTGTATT-TTA
1 TGTATTTTTTATTGTATTATTA
11327209 TGTATTTTTATATT-TATTATTA
1 TGTATTTTT-TATTGTATTATTA
11327231 T-TATT
1 TGTATT
11327236 ATGTATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (22 bp):
TGTATTTTTTATTGTATTATTA
Found at i:11327307 original size:23 final size:22
Alignment explanation
Indices: 11327281--11327323 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
11327271 TAGAATAGAT
*
11327281 TTATATGTATATTATTTATATAG
1 TTATATATATATTA-TTATATAG
*
11327304 TTATATATTTATTATTATAT
1 TTATATATATATTATTATAT
11327324 TATTATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (22 bp):
TTATATATATATTATTATATAG
Found at i:11327324 original size:8 final size:8
Alignment explanation
Indices: 11327288--11327349 Score: 53
Period size: 8 Copynumber: 8.1 Consensus size: 8
11327278 GATTTATATG
11327288 TATATTAT
1 TATATTAT
11327296 T-TATATAGT
1 TATAT-TA-T
11327305 TATA-TAT
1 TATATTAT
11327312 T-TATTAT
1 TATATTAT
11327319 TATATTAT
1 TATATTAT
* *
11327327 TATTTTTT
1 TATATTAT
11327335 TATATT-T
1 TATATTAT
11327342 TAT-TTAT
1 TATATTAT
11327349 T
1 T
11327350 TTTATATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
6 4 0.09
7 15 0.33
8 22 0.49
9 2 0.04
10 2 0.04
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (8 bp):
TATATTAT
Found at i:11327349 original size:30 final size:29
Alignment explanation
Indices: 11327311--11327464 Score: 90
Period size: 29 Copynumber: 5.2 Consensus size: 29
11327301 TAGTTATATA
11327311 TTTA-TTATTATATTATTATTTTTTTATAT
1 TTTATTTATTATATTATTATTTTTTT-TAT
11327340 TTTATTTATT-T-TTA-TATTTTTATTTA-
1 TTTATTTATTATATTATTATTTTT-TTTAT
* * *
11327366 TCTAATTA-TATATCTGTTATTTTTTTTA-
1 TTTATTTATTATAT-TATTATTTTTTTTAT
* *
11327394 TTTATCCTATAATA-TATCTATTTTTTTTAT
1 TTTAT-TTATTATATTAT-TATTTTTTTTAT
* * *
11327424 TTATCTGTTCTAATTATCTATTATTTTTTTTATT
1 TT-TAT-TTATTA-TAT-TATTATTTTTTTTA-T
11327458 TTTATTT
1 TTTATTT
11327465 GATTTTTATT
Statistics
Matches: 97, Mismatches: 13, Indels: 27
0.71 0.09 0.20
Matches are distributed among these distances:
25 1 0.01
26 7 0.07
27 10 0.10
28 15 0.15
29 25 0.26
30 10 0.10
31 6 0.06
32 4 0.04
33 13 0.13
34 6 0.06
ACGTcount: A:0.24, C:0.05, G:0.01, T:0.69
Consensus pattern (29 bp):
TTTATTTATTATATTATTATTTTTTTTAT
Found at i:11327357 original size:8 final size:8
Alignment explanation
Indices: 11327313--11327362 Score: 55
Period size: 8 Copynumber: 6.1 Consensus size: 8
11327303 GTTATATATT
*
11327313 TATTATTA
1 TATTTTTA
*
11327321 TATTATTA
1 TATTTTTA
*
11327329 TTTTTTTA
1 TATTTTTA
*
11327337 TATTTTATT
1 TATTTT-TA
11327346 TATTTTTA
1 TATTTTTA
11327354 TATTTTTA
1 TATTTTTA
11327362 T
1 T
11327363 TTATCTAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
8 29 0.81
9 7 0.19
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TATTTTTA
Found at i:11327360 original size:18 final size:18
Alignment explanation
Indices: 11327309--11327366 Score: 77
Period size: 18 Copynumber: 3.4 Consensus size: 18
11327299 TATAGTTATA
* *
11327309 TATTTATTATTATATTAT
1 TATTTATTTTTATATTTT
11327327 TA-TT-TTTTTATA-TTT
1 TATTTATTTTTATATTTT
11327342 TATTTATTTTTATATTTT
1 TATTTATTTTTATATTTT
11327360 TATTTAT
1 TATTTAT
11327367 CTAATTATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
15 4 0.11
16 9 0.26
17 10 0.29
18 12 0.34
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TATTTATTTTTATATTTT
Found at i:11327396 original size:32 final size:30
Alignment explanation
Indices: 11327356--11327458 Score: 111
Period size: 32 Copynumber: 3.3 Consensus size: 30
11327346 TATTTTTATA
11327356 TTTTTATTTATCTAATTATATATCTGTTATTT
1 TTTTTATTTATCT-ATTATATATCT-TTATTT
*
11327388 TTTTTATTTATCCTATAATATATC--TATTT
1 TTTTTATTTAT-CTATTATATATCTTTATTT
* *
11327417 TTTTTATTTATCTGTTCTAATTATCTATTATTT
1 TTTTTATTTATCTATTAT-A-TATCT-TTATTT
11327450 TTTTTATTT
1 TTTTTATTT
11327459 TTATTTGATT
Statistics
Matches: 61, Mismatches: 4, Indels: 11
0.80 0.05 0.14
Matches are distributed among these distances:
28 4 0.07
29 17 0.28
30 4 0.07
32 20 0.33
33 16 0.26
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (30 bp):
TTTTTATTTATCTATTATATATCTTTATTT
Found at i:11327759 original size:25 final size:25
Alignment explanation
Indices: 11327729--11327782 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
11327719 CCGGAAGTGA
*
11327729 GAAAAAATTTT-TAGAAATTTTTGG
1 GAAAAAATTTTCTAGAAATTTCTGG
11327753 CGAAAAAATTTTCTAGAAATTTCTGG
1 -GAAAAAATTTTCTAGAAATTTCTGG
11327779 GAAA
1 GAAA
11327783 TTTCCAGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 15 0.56
26 12 0.44
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.35
Consensus pattern (25 bp):
GAAAAAATTTTCTAGAAATTTCTGG
Found at i:11328368 original size:11 final size:11
Alignment explanation
Indices: 11328352--11328413 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 11
11328342 TTAATATTCT
*
11328352 TTTTATCTTTA
1 TTTTATTTTTA
11328363 TTTTATTTTTA
1 TTTTATTTTTA
11328374 TTTT-TGTTTTA
1 TTTTAT-TTTTA
* *
11328385 CTTT-TCTTTA
1 TTTTATTTTTA
11328395 -TTTATTTTTA
1 TTTTATTTTTA
11328405 -TTTATTTTT
1 TTTTATTTTT
11328414 TTATTATTCT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
9 3 0.07
10 19 0.42
11 23 0.51
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.79
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:11328372 original size:6 final size:6
Alignment explanation
Indices: 11328351--11328428 Score: 56
Period size: 6 Copynumber: 12.7 Consensus size: 6
11328341 TTTAATATTC
* *
11328351 TTTTTA TCTTTA -TTTTA TTTTTA TTTTT- GTTTTA CTTTTCT- TTATTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TT-TTTA
11328399 TTTTTA TTTATT- TTTTTA TTATTCTA TTTT
1 TTTTTA TTT-TTA TTTTTA TT-TT-TA TTTT
11328429 CTTTAAATAA
Statistics
Matches: 58, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
5 10 0.17
6 30 0.52
7 13 0.22
8 5 0.09
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:11328373 original size:17 final size:17
Alignment explanation
Indices: 11328351--11328405 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
11328341 TTTAATATTC
11328351 TTTTTATCTTTATTTTA
1 TTTTTATCTTTATTTTA
* *
11328368 TTTTTATTTTTGTTTTA
1 TTTTTATCTTTATTTTA
*
11328385 -CTTT-TCTTTA-TTTA
1 TTTTTATCTTTATTTTA
11328399 TTTTTAT
1 TTTTTAT
11328406 TTATTTTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
14 4 0.13
15 7 0.23
16 4 0.13
17 15 0.50
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTTTATCTTTATTTTA
Found at i:11328404 original size:10 final size:10
Alignment explanation
Indices: 11328353--11328413 Score: 61
Period size: 10 Copynumber: 5.9 Consensus size: 10
11328343 TAATATTCTT
*
11328353 TTTATCTTTA
1 TTTATTTTTA
11328363 TTTTATTTTTA
1 -TTTATTTTTA
*
11328374 TTTTTGTTTTA
1 TTTAT-TTTTA
*
11328385 CTTT-TCTTTA
1 -TTTATTTTTA
11328395 TTTATTTTTA
1 TTTATTTTTA
11328405 TTTATTTTT
1 TTTATTTTT
11328414 TTATTATTCT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
9 3 0.07
10 22 0.51
11 15 0.35
12 3 0.07
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.79
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:11328711 original size:59 final size:57
Alignment explanation
Indices: 11328454--11328730 Score: 328
Period size: 62 Copynumber: 4.7 Consensus size: 57
11328444 AAAAATTCCA
*
11328454 AAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAA-TTTC
1 AAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAA-AATAAATTTTC
** * *
11328511 -AAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAGATCAAAATTTCC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAA-AT--AAATTTTC
*
11328570 AAAAAAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAAAAATAAATTTTC
1 AAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTT-----AAAATAAATTTTC
* *
11328632 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAAATTTCCTTAGAAATAAATTTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTA-AAATAAATTTTC
*
11328690 AAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
1 -AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
11328731 TCCTACACAA
Statistics
Matches: 189, Mismatches: 16, Indels: 28
0.81 0.07 0.12
Matches are distributed among these distances:
55 1 0.01
56 41 0.22
57 2 0.01
58 15 0.08
59 43 0.23
60 35 0.19
62 45 0.24
63 2 0.01
64 2 0.01
65 3 0.02
ACGTcount: A:0.47, C:0.06, G:0.13, T:0.35
Consensus pattern (57 bp):
AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAATTTTC
Found at i:11328743 original size:121 final size:119
Alignment explanation
Indices: 11328436--11328744 Score: 378
Period size: 121 Copynumber: 2.6 Consensus size: 119
11328426 TTTCTTTAAA
* * *
11328436 TAAAAATCAAAAATTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTT-CT--T
1 TAAAGATC-AAAATTTCAAAAAAAATATTTTTA-GGAAAAGTTGAAAGTATCAATTTTTCCTAAA
* * * *
11328498 AAGAATAAA-TTTCAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTT
64 AAAAATAAATTTTCAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAAATTTCCT
* *
11328553 TAAAGATCAAAATTTCCAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAA
1 TAAAGATCAAAATTTCAAAAAAAATATTTTTAGG-AAAAGTTGAAAGTATCAATTTTTCCT-AAA
* *
11328618 AAAAATAAATTTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAAATTTCCT
64 AAAAATAAATTTTC-AAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAAATTTCCT
* *
11328675 TAGAA-AT-AAATTTTCAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCCTACA
1 TA-AAGATCAAAATTTCAAAAAAAATATTTTT-AGGAAAAGTTGAAAGTATCAATTTTTCCTA-A
11328738 CAAAAAA
63 -AAAAAA
11328745 AATCATTCTT
Statistics
Matches: 166, Mismatches: 15, Indels: 17
0.84 0.08 0.09
Matches are distributed among these distances:
115 2 0.01
116 45 0.27
117 8 0.05
120 9 0.05
121 50 0.30
122 50 0.30
123 2 0.01
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.33
Consensus pattern (119 bp):
TAAAGATCAAAATTTCAAAAAAAATATTTTTAGGAAAAGTTGAAAGTATCAATTTTTCCTAAAAA
AAATAAATTTTCAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAAATTTCCT
Found at i:11328782 original size:13 final size:13
Alignment explanation
Indices: 11328766--11328791 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11328756 CATTCCTTTC
11328766 TATTTTGATTTTT
1 TATTTTGATTTTT
11328779 TATTTTGATTTTT
1 TATTTTGATTTTT
11328792 CTTTGACTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (13 bp):
TATTTTGATTTTT
Found at i:11330477 original size:13 final size:13
Alignment explanation
Indices: 11330444--11330470 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11330434 AATTATTATA
11330444 TTTACATAATAAT
1 TTTACATAATAAT
11330457 TTTACATAATAAT
1 TTTACATAATAAT
11330470 T
1 T
11330471 ATTCATATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTACATAATAAT
Found at i:11331314 original size:16 final size:16
Alignment explanation
Indices: 11331293--11331346 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
11331283 AAGTTAAATC
11331293 ATTTTTATTTATTTTT
1 ATTTTTATTTATTTTT
*
11331309 ATTTTTATTTGATTTAT
1 ATTTTTATTT-ATTTTT
*
11331326 -TTTTTATTT-TTTTC
1 ATTTTTATTTATTTTT
11331340 ATTTTTA
1 ATTTTTA
11331347 GGAAAATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
14 3 0.09
15 6 0.18
16 19 0.58
17 5 0.15
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.78
Consensus pattern (16 bp):
ATTTTTATTTATTTTT
Found at i:11331324 original size:25 final size:25
Alignment explanation
Indices: 11331296--11331343 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
11331286 TTAAATCATT
11331296 TTTATTTATTT-TTATTTTT-ATTTGA
1 TTTATTT-TTTATT-TTTTTCATTTGA
11331321 TTTATTTTTTATTTTTTTCATTT
1 TTTATTTTTTATTTTTTTCATTT
11331344 TTAGGAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (25 bp):
TTTATTTTTTATTTTTTTCATTTGA
Found at i:11332380 original size:7 final size:7
Alignment explanation
Indices: 11332353--11332413 Score: 54
Period size: 7 Copynumber: 9.0 Consensus size: 7
11332343 TTTGAAGGTT
11332353 GGTTTAA
1 GGTTTAA
*
11332360 GGTCT-A
1 GGTTTAA
11332366 GG-TTAA
1 GGTTTAA
11332372 GGTTTAA
1 GGTTTAA
11332379 GGTTTAA
1 GGTTTAA
* * *
11332386 AGCTTAG
1 GGTTTAA
* *
11332393 GGTTCAT
1 GGTTTAA
11332400 GGTTTAA
1 GGTTTAA
11332407 GGTTTAA
1 GGTTTAA
11332414 AATTTAGTAT
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
5 1 0.02
6 6 0.15
7 34 0.83
ACGTcount: A:0.26, C:0.05, G:0.30, T:0.39
Consensus pattern (7 bp):
GGTTTAA
Found at i:11333540 original size:20 final size:20
Alignment explanation
Indices: 11333503--11333539 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
11333493 TGTTTCTCTC
11333503 TTTTTTCCTTTTCTTTTTAA
1 TTTTTTCCTTTTCTTTTTAA
*
11333523 TTTTTTTC-TTTCTTTTT
1 TTTTTTCCTTTTCTTTTT
11333540 TTTTTCTGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTTTCCTTTTCTTTTTAA
Found at i:11346146 original size:111 final size:112
Alignment explanation
Indices: 11346011--11346237 Score: 411
Period size: 112 Copynumber: 2.0 Consensus size: 112
11346001 ATCTCGACAA
* *
11346011 AAATATTTCGTATCCATGAT-AAAAAAAAATTCAATAAAAATCCATCACAAAAATCTAAAATCTT
1 AAATATTTCGTATCCATGATAAAAAAAAAATTCAATAAAAATCCATAACAAAAATCCAAAATCTT
11346075 AATTGACACAAAATCTAACTTTGATACCATAACACCTCAAAAGATTC
66 AATTGACACAAAATCTAACTTTGATACCATAACACCTCAAAAGATTC
*
11346122 AAATATTTCGTATCCATGATAAAAAAAAAATTCAATAAAAATCCATAACAAAAATCCGAAATCTT
1 AAATATTTCGTATCCATGATAAAAAAAAAATTCAATAAAAATCCATAACAAAAATCCAAAATCTT
*
11346187 AATTGACACAAAATCTAACTTTGATACCGTAACACCTCAAAAGATTC
66 AATTGACACAAAATCTAACTTTGATACCATAACACCTCAAAAGATTC
11346234 AAAT
1 AAAT
11346238 CATTCTCTAC
Statistics
Matches: 111, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
111 20 0.18
112 91 0.82
ACGTcount: A:0.50, C:0.19, G:0.05, T:0.26
Consensus pattern (112 bp):
AAATATTTCGTATCCATGATAAAAAAAAAATTCAATAAAAATCCATAACAAAAATCCAAAATCTT
AATTGACACAAAATCTAACTTTGATACCATAACACCTCAAAAGATTC
Found at i:11347203 original size:22 final size:20
Alignment explanation
Indices: 11347163--11347204 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
11347153 AATTACTATG
*
11347163 AAAACCTTAAAGTCCAAACC
1 AAAACCTTAAAATCCAAACC
11347183 AAAACCTTAAATTATCCAAACC
1 AAAACCTTAAA--ATCCAAACC
11347205 TTGAAACAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
22 8 0.42
ACGTcount: A:0.50, C:0.29, G:0.02, T:0.19
Consensus pattern (20 bp):
AAAACCTTAAAATCCAAACC
Found at i:11350005 original size:25 final size:25
Alignment explanation
Indices: 11349972--11350029 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
11349962 TTGATATAAT
*
11349972 ATTTTTATTATATTTTATTTGTATA
1 ATTTTTATTATAATTTATTTGTATA
11349997 ATTTTTATTATAATTTATTTGTATA
1 ATTTTTATTATAATTTATTTGTATA
11350022 ATCTTTTA
1 AT-TTTTA
11350030 ACTAAAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 26 0.84
26 5 0.16
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (25 bp):
ATTTTTATTATAATTTATTTGTATA
Found at i:11350023 original size:13 final size:13
Alignment explanation
Indices: 11349980--11350023 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
11349970 ATATTTTTAT
*
11349980 TATATTTTATTTG
1 TATAATTTATTTG
11349993 TATAATTT-TTAT-
1 TATAATTTATT-TG
11350005 TATAATTTATTTG
1 TATAATTTATTTG
11350018 TATAAT
1 TATAAT
11350024 CTTTTAACTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 11 0.41
13 16 0.59
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (13 bp):
TATAATTTATTTG
Found at i:11352698 original size:5 final size:5
Alignment explanation
Indices: 11352681--11352710 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
11352671 ACAATTTTGC
11352681 TTTTA TGTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA T-TTTA TTTTA TTTTA TTTTA TTTT
11352711 TGGGTTGCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:11354685 original size:28 final size:27
Alignment explanation
Indices: 11354622--11354701 Score: 74
Period size: 28 Copynumber: 2.9 Consensus size: 27
11354612 AAAATATATA
* *
11354622 TTTAAAAAATTATAAAAATTATGAAAGTC
1 TTTAAAAAA-TA-AAAAAATATAAAAGTC
*
11354651 TTT-AAAAATAAAAAAATATAAAAGTT
1 TTTAAAAAATAAAAAAATATAAAAGTC
*
11354677 TTATAAAAAATCCAAAAAAT-TAAAA
1 TT-TAAAAAAT-AAAAAAATATAAAA
11354702 AAAATTTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
26 15 0.34
27 3 0.07
28 16 0.36
29 10 0.23
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (27 bp):
TTTAAAAAATAAAAAAATATAAAAGTC
Found at i:11354821 original size:30 final size:30
Alignment explanation
Indices: 11354787--11354852 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
11354777 CTTAAAAAAA
11354787 TTGAAAAATAAAAAATATT-TTTTAAAATTT
1 TTGAAAAATAAAAAA-ATTATTTTAAAATTT
* *
11354817 TTGAAAATTAAAAAAATTATTTTGAAATTT
1 TTGAAAAATAAAAAAATTATTTTAAAATTT
11354847 TTGAAA
1 TTGAAA
11354853 TTTTATATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 3 0.09
30 30 0.91
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (30 bp):
TTGAAAAATAAAAAAATTATTTTAAAATTT
Found at i:11366252 original size:17 final size:17
Alignment explanation
Indices: 11366227--11366262 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
11366217 TTTTTTATTT
11366227 TATGGTCTATTTGTTAA
1 TATGGTCTATTTGTTAA
*
11366244 TATGTTCTATTTGTTAA
1 TATGGTCTATTTGTTAA
11366261 TA
1 TA
11366263 GAGTGCCCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.25, C:0.06, G:0.14, T:0.56
Consensus pattern (17 bp):
TATGGTCTATTTGTTAA
Found at i:11366879 original size:18 final size:20
Alignment explanation
Indices: 11366842--11366879 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
11366832 AAAAATTATT
11366842 TTTTAATAAGTTTTAATAAA
1 TTTTAATAAGTTTTAATAAA
*
11366862 TTTTAA-AA-TTTTATTAAA
1 TTTTAATAAGTTTTAATAAA
11366880 GGGATAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 2 0.12
20 6 0.35
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
TTTTAATAAGTTTTAATAAA
Found at i:11371753 original size:3 final size:3
Alignment explanation
Indices: 11371745--11371793 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
11371735 ATCCATGATA
11371745 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG -AG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
11371792 AA
1 AA
11371794 ACGTCGGACA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:11372762 original size:18 final size:18
Alignment explanation
Indices: 11372724--11372804 Score: 63
Period size: 18 Copynumber: 4.4 Consensus size: 18
11372714 AAATATTTAT
* * *
11372724 AAAATTTAAAACATTACA
1 AAAATTTAAAAAATAAAA
*
11372742 AAAATTTTAAAAATAAAA
1 AAAATTTAAAAAATAAAA
* * *
11372760 AAAATCTCAAAAAGTTAAA
1 AAAAT-TTAAAAAATAAAA
**
11372779 AAAATACAAAAAATAAAA
1 AAAATTTAAAAAATAAAA
*
11372797 ATAATTTA
1 AAAATTTA
11372805 TGAAATATTT
Statistics
Matches: 48, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
18 34 0.71
19 14 0.29
ACGTcount: A:0.68, C:0.06, G:0.01, T:0.25
Consensus pattern (18 bp):
AAAATTTAAAAAATAAAA
Found at i:11372967 original size:9 final size:10
Alignment explanation
Indices: 11372941--11372965 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
11372931 TGAAAAAATA
11372941 AAAAAATTCT
1 AAAAAATTCT
11372951 AAAAAATTCT
1 AAAAAATTCT
11372961 AAAAA
1 AAAAA
11372966 TTTTTAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAAAATTCT
Found at i:11373022 original size:19 final size:18
Alignment explanation
Indices: 11372982--11373027 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
11372972 AAATTTTCTG
11372982 AAAA-ATAAAAAATTTCA
1 AAAATATAAAAAATTTCA
* *
11372999 AAAATCTAAAATATTTCAA
1 AAAATATAAAAAATTTC-A
11373018 AAAATATAAA
1 AAAATATAAA
11373028 TTTCCTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 4 0.17
18 10 0.42
19 10 0.42
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAATATAAAAAATTTCA
Found at i:11373177 original size:200 final size:199
Alignment explanation
Indices: 11372807--11373197 Score: 551
Period size: 200 Copynumber: 1.9 Consensus size: 199
11372797 ATAATTTATG
*
11372807 AAATATTTCAAAAAATGAAAATTTTCTTAAAATTCAAAAAATTCACAAAACTTAAAAACCTGAAA
1 AAATATTTCAAAAAATGAAAATTTCCTTAAAATTCAAAAAATTCACAAAACTTAAAAACCTGAAA
*
11372872 AATAAAAACAATCTAAAGTTTTTTTGAAAAATTTTGAAAATAAAAAAATATATTTTTTTTGAAAA
66 AATAAAAACAATCTAAAATTTTTTTGAAAAATTTTGAAAATAAAAAAATATATTTTTTTTG--AA
* ** * *
11372937 AATAAAAAAATTCTAAAAAATTCTAAAAATTTTTAAAATTTTCT-GAAAAATAAAAAATTTCAAA
129 AATAAAAAAATTCTAAAAAATTCTAAAAATCTAAAAAATTTTATAAAAAAATAAAAAATTTCAAA
11373001 AATCTA
194 AATCTA
11373007 AAATATTTCAAAAAAT-ATAAATTTCCTTAAAATTCAAAAAAATTCACAAAACTTAAAAACCTGA
1 AAATATTTCAAAAAATGA-AAATTTCCTTAAAATTC-AAAAAATTCACAAAACTTAAAAACCTGA
11373071 AAAATAAAAAC-ATCTAAAATTTTTTTGAAAAATTTTGAAAATAAAAAAATATATAAATTTTTTT
64 AAAATAAAAACAATCTAAAATTTTTTTGAAAAATTTTGAAAATAAAAAAATATAT---TTTTTTT
* * * * *
11373135 G-AAA-AAAAAATTTTTCAAAAA-TCTGAAGCAATCTAAAAAATTTTATAAAAAAATTAAAAATT
126 GAAAATAAAAAAATTCTAAAAAATTCT-AA-AAATCTAAAAAATTTTATAAAAAAATAAAAAATT
11373197 T
189 T
11373198 TCTGAAAAAA
Statistics
Matches: 171, Mismatches: 12, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
198 3 0.02
199 17 0.10
200 90 0.53
201 53 0.31
203 8 0.05
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (199 bp):
AAATATTTCAAAAAATGAAAATTTCCTTAAAATTCAAAAAATTCACAAAACTTAAAAACCTGAAA
AATAAAAACAATCTAAAATTTTTTTGAAAAATTTTGAAAATAAAAAAATATATTTTTTTTGAAAA
TAAAAAAATTCTAAAAAATTCTAAAAATCTAAAAAATTTTATAAAAAAATAAAAAATTTCAAAAA
TCTA
Found at i:11373193 original size:19 final size:20
Alignment explanation
Indices: 11373168--11373269 Score: 70
Period size: 20 Copynumber: 5.3 Consensus size: 20
11373158 TGAAGCAATC
11373168 TAAAAAATTTTATAAAAAAA
1 TAAAAAATTTTATAAAAAAA
* * *
11373188 TTAAAAATTTTCTGAAAAAA
1 TAAAAAATTTTATAAAAAAA
* *
11373208 T-AAAAATTTT-CAAAAATA
1 TAAAAAATTTTATAAAAAAA
* * *
11373226 TAAAACA--TTCTAAAAAAT
1 TAAAAAATTTTATAAAAAAA
* *
11373244 TATAACAATTTTA-AAAAATA
1 TA-AAAAATTTTATAAAAAAA
11373264 TAAAAA
1 TAAAAA
11373270 CATAAAATTT
Statistics
Matches: 61, Mismatches: 16, Indels: 11
0.69 0.18 0.12
Matches are distributed among these distances:
17 2 0.03
18 13 0.21
19 19 0.31
20 25 0.41
21 2 0.03
ACGTcount: A:0.63, C:0.05, G:0.01, T:0.31
Consensus pattern (20 bp):
TAAAAAATTTTATAAAAAAA
Found at i:11373193 original size:20 final size:19
Alignment explanation
Indices: 11373170--11373269 Score: 80
Period size: 19 Copynumber: 5.3 Consensus size: 19
11373160 AAGCAATCTA
11373170 AAAAATTTTATAAAAAAATT
1 AAAAATTTTATAAAAAAA-T
* *
11373190 AAAAATTTTCTGAAAAAAT
1 AAAAATTTTATAAAAAAAT
* *
11373209 AAAAATTTT-CAAAAATAT
1 AAAAATTTTATAAAAAAAT
* *
11373227 AAAACATTCTA-AAAAATTAT
1 AAAA-ATTTTATAAAAA-AAT
* *
11373247 AACAATTTTA-AAAAATAT
1 AAAAATTTTATAAAAAAAT
11373265 AAAAA
1 AAAAA
11373270 CATAAAATTT
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
18 17 0.25
19 29 0.43
20 22 0.32
ACGTcount: A:0.63, C:0.05, G:0.01, T:0.31
Consensus pattern (19 bp):
AAAAATTTTATAAAAAAAT
Found at i:11373212 original size:18 final size:18
Alignment explanation
Indices: 11373170--11373243 Score: 73
Period size: 20 Copynumber: 4.0 Consensus size: 18
11373160 AAGCAATCTA
*
11373170 AAAAATTTTATAAAAAAATT
1 AAAAATTTTCT-AAAAAA-T
11373190 AAAAATTTTCTGAAAAAAT
1 AAAAATTTTCT-AAAAAAT
11373209 AAAAATTTTC-AAAAATAT
1 AAAAATTTTCTAAAAA-AT
11373227 AAAACA--TTCTAAAAAAT
1 AAAA-ATTTTCTAAAAAAT
11373244 TATAACAATT
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
17 10 0.20
18 11 0.22
19 12 0.24
20 16 0.33
ACGTcount: A:0.62, C:0.05, G:0.01, T:0.31
Consensus pattern (18 bp):
AAAAATTTTCTAAAAAAT
Found at i:11373221 original size:68 final size:68
Alignment explanation
Indices: 11373111--11373244 Score: 173
Period size: 68 Copynumber: 2.0 Consensus size: 68
11373101 AATTTTGAAA
* * * * * *
11373111 ATAAAAAAATATATAAATTTTTTTGAAAAAAAAATTTTTCAAAAATCTGAAGCAATCTAAAAAAT
1 ATAAAAAAATATATAAAATTTTCTGAAAAAAAAAATTTTCAAAAATATAAAACAATCTAAAAAAT
11373176 TTT
66 TTT
*
11373179 ATAAAAAAAT-TA-AAAATTTTCTGAAAAAATAAAAATTTTCAAAAATATAAAACATTCTAAAAA
1 ATAAAAAAATATATAAAATTTTCTG-AAAAA-AAAAATTTTCAAAAATATAAAACAATCTAAAAA
11373242 ATT
64 ATT
11373245 ATAACAATTT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
66 9 0.16
67 7 0.12
68 41 0.72
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (68 bp):
ATAAAAAAATATATAAAATTTTCTGAAAAAAAAAATTTTCAAAAATATAAAACAATCTAAAAAAT
TTT
Found at i:11373287 original size:26 final size:27
Alignment explanation
Indices: 11373245--11373296 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
11373235 CTAAAAAATT
*
11373245 ATAACAATTTTAAAAAATATA-AAAAC
1 ATAACAATTTTAAAAAAGATACAAAAC
11373271 ATAA-AATTTTAATAAAAGATACAAAA
1 ATAACAATTTTAA-AAAAGATACAAAA
11373297 AAAATTCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 8 0.35
26 11 0.48
27 4 0.17
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (27 bp):
ATAACAATTTTAAAAAAGATACAAAAC
Found at i:11373406 original size:12 final size:12
Alignment explanation
Indices: 11373372--11373418 Score: 55
Period size: 11 Copynumber: 4.2 Consensus size: 12
11373362 AAAATGAAAA
*
11373372 TTTT-CAAAATT
1 TTTTACAAATTT
11373383 TTTTA-AAATTT
1 TTTTACAAATTT
11373394 TTTTAC-AATTT
1 TTTTACAAATTT
*
11373405 TTTTTCAAATTT
1 TTTTACAAATTT
11373417 TT
1 TT
11373419 AGTTTTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 24 0.77
12 7 0.23
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (12 bp):
TTTTACAAATTT
Found at i:11373571 original size:9 final size:10
Alignment explanation
Indices: 11373551--11373585 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
11373541 TTTAATTTCT
*
11373551 TTTTTTATAA
1 TTTTTTAGAA
11373561 TTTTTTA-AA
1 TTTTTTAGAA
11373570 TTTTTTAGAA
1 TTTTTTAGAA
11373580 TTTTTT
1 TTTTTT
11373586 GTTGAGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.38
10 15 0.62
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (10 bp):
TTTTTTAGAA
Found at i:11374541 original size:19 final size:19
Alignment explanation
Indices: 11374484--11374541 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
11374474 AAAATAAAAA
* *
11374484 TAATATAATTTAAAAT-TT
1 TAATAAAATTAAAAATATT
*
11374502 TAATAATAATTATATATATATT
1 TAATAA-AATTA-A-AAATATT
11374524 TAATAAAATTAAAAATAT
1 TAATAAAATTAAAAATAT
11374542 ATTTTTAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
18 5 0.16
19 9 0.28
20 2 0.06
21 8 0.25
22 8 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAATAAAATTAAAAATATT
Found at i:11374541 original size:21 final size:21
Alignment explanation
Indices: 11374500--11374553 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
11374490 AATTTAAAAT
* *
11374500 TTTAATAATAATTATATATATA
1 TTTAATAA-AATTAAAAATATA
11374522 TTTAATAAAATTAAAAATATA
1 TTTAATAAAATTAAAAATATA
*
11374543 TTT-TTAAAATT
1 TTTAATAAAATT
11374554 TTTGTGTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 7 0.24
21 14 0.48
22 8 0.28
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTAATAAAATTAAAAATATA
Found at i:11374617 original size:32 final size:32
Alignment explanation
Indices: 11374581--11374647 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
11374571 TATTGTACAT
*
11374581 AATTTTTATATAAAATATGATATAAATATATA
1 AATTTTAATATAAAATATGATATAAATATATA
*** *
11374613 AATTTTAATATTTTATATTATATAAATATATA
1 AATTTTAATATAAAATATGATATAAATATATA
11374645 AAT
1 AAT
11374648 CATCATATCT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (32 bp):
AATTTTAATATAAAATATGATATAAATATATA
Found at i:11375491 original size:21 final size:20
Alignment explanation
Indices: 11375448--11375491 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
11375438 AAAATAATTA
11375448 TATAAATTAATCAAATTAAAT
1 TATAAATTAAT-AAATTAAAT
11375469 TATAAATTTAAT-AATTAACAT
1 TATAAA-TTAATAAATTAA-AT
11375490 TA
1 TA
11375492 ATTATAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 6 0.29
21 10 0.48
22 5 0.24
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
TATAAATTAATAAATTAAAT
Found at i:11376108 original size:17 final size:17
Alignment explanation
Indices: 11376066--11376109 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
11376056 ATATTAATAA
11376066 AAAATTAT-AAACTTAT
1 AAAATTATAAAACTTAT
*
11376082 AAAATCATAAAACTTAT
1 AAAATTATAAAACTTAT
* *
11376099 CAATTTATAAA
1 AAAATTATAAA
11376110 TAAAAATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAACTTAT
Found at i:11377704 original size:18 final size:17
Alignment explanation
Indices: 11377677--11377710 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
11377667 TATAATGACT
11377677 TCAAAAAATAATAAATAG
1 TCAAAAAATAA-AAATAG
*
11377695 TCAAATAATAAAAATA
1 TCAAAAAATAAAAATA
11377711 ATTGTGACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.24
Consensus pattern (17 bp):
TCAAAAAATAAAAATAG
Found at i:11378603 original size:19 final size:20
Alignment explanation
Indices: 11378571--11378609 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
11378561 TGGATTGAGG
*
11378571 GAAAGGTAAAAAAAATAAAA
1 GAAAGGTAAAAAAAACAAAA
*
11378591 GAAA-GTAATAAAAACAAAA
1 GAAAGGTAAAAAAAACAAAA
11378610 AAAAAATTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.74, C:0.03, G:0.13, T:0.10
Consensus pattern (20 bp):
GAAAGGTAAAAAAAACAAAA
Found at i:11378908 original size:22 final size:22
Alignment explanation
Indices: 11378883--11378932 Score: 75
Period size: 23 Copynumber: 2.3 Consensus size: 22
11378873 ATTTTTTTAA
11378883 TTTT-ATTAATTTTAAAACTTT
1 TTTTCATTAATTTTAAAACTTT
*
11378904 CTTTTCTTTAATTTTAAAACTTT
1 -TTTTCATTAATTTTAAAACTTT
11378927 TTTTCA
1 TTTTCA
11378933 ATATTTATCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTCATTAATTTTAAAACTTT
Found at i:11378914 original size:23 final size:22
Alignment explanation
Indices: 11378888--11378931 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 22
11378878 TTTAATTTTA
11378888 TTAATTTTAAAACTTTCTTTTCT
1 TTAATTTTAAAACTTT-TTTTCT
11378911 TTAATTTTAAAACTTTTTTTC
1 TTAATTTTAAAACTTTTTTTC
11378932 AATATTTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.61
Consensus pattern (22 bp):
TTAATTTTAAAACTTTTTTTCT
Found at i:11380367 original size:17 final size:17
Alignment explanation
Indices: 11380336--11380379 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
11380326 ATATTAATAA
*
11380336 AAAATTAT-AAGTTTAT
1 AAAATTATAAAATTTAT
11380352 AAAATTATAAAATTTAT
1 AAAATTATAAAATTTAT
* *
11380369 TAATTTATAAA
1 AAAATTATAAA
11380380 CAAAAATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
AAAATTATAAAATTTAT
Found at i:11381383 original size:21 final size:22
Alignment explanation
Indices: 11381350--11381402 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
11381340 TTATATTTAT
11381350 ATATTTATATATTTT-AAAAATA
1 ATATTT-TATATTTTAAAAAATA
11381372 ATATTTTATATTTTAAAAAATA
1 ATATTTTATATTTTAAAAAATA
11381394 ATATTTTAT
1 ATATTTTAT
11381403 TAATTTCGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 8 0.27
22 22 0.73
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATATTTTATATTTTAAAAAATA
Found at i:11383620 original size:16 final size:16
Alignment explanation
Indices: 11383591--11383642 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
11383581 AATACATACC
* *
11383591 GAATTTGGGGTTTTTA
1 GAATTTTGGATTTTTA
11383607 GAATTTTGGA-TTTTA
1 GAATTTTGGATTTTTA
*
11383622 -AAGTTTTGGATTTTAA
1 GAA-TTTTGGATTTTTA
11383638 GAATT
1 GAATT
11383643 AGAGATTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 2 0.07
15 12 0.40
16 14 0.47
17 2 0.07
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (16 bp):
GAATTTTGGATTTTTA
Found at i:11385888 original size:131 final size:131
Alignment explanation
Indices: 11385655--11385892 Score: 293
Period size: 131 Copynumber: 1.8 Consensus size: 131
11385645 ATCTCTTAGA
* * * *
11385655 AATCATGCCCGAAGGTCTTACAGAATCAATGGAACAACATCGTAATTCAAAAAATAAGGAATCGA
1 AATCATGCCCAAAAGTCTTACAGAATCAATGGAACAACATCGCAAGTCAAAAAATAAGGAATCGA
* * *
11385720 TCGAGACAACATCATGAATCAAAATTATTTCTAAAGGTCTTAGAAATTATACCCAGAGGTCTTAT
66 TCGAGACAACACCACGAATCAAAATTATCTCTAAAGGTCTTAGAAATTATACCCAGAGGTCTTAT
11385785 G
131 G
* * *
11385786 AATCATGTCCAAAAGTCTTACAGAATCGACA-GG-ATAACATCGCAAGTCAAAAAATAATGAATC
1 AATCATGCCCAAAAGTCTTACAGAATC-A-ATGGAACAACATCGCAAGTCAAAAAATAAGGAATC
* * * * *
11385849 GATCGGGATAACACCGCGAATCAAATTTATGCT-TGAAGGTCTTA
64 GATCGAGACAACACCACGAATCAAAATTAT-CTCTAAAGGTCTTA
11385893 CAGAATCGAC
Statistics
Matches: 89, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
131 84 0.94
132 4 0.04
133 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.24
Consensus pattern (131 bp):
AATCATGCCCAAAAGTCTTACAGAATCAATGGAACAACATCGCAAGTCAAAAAATAAGGAATCGA
TCGAGACAACACCACGAATCAAAATTATCTCTAAAGGTCTTAGAAATTATACCCAGAGGTCTTAT
G
Found at i:11385946 original size:87 final size:87
Alignment explanation
Indices: 11385800--11385968 Score: 293
Period size: 87 Copynumber: 1.9 Consensus size: 87
11385790 ATGTCCAAAA
11385800 GTCTTACAGAATCGACAGGATAACATCGCAAGTCAAAAAATAATGAATCGATCGGGATAACACCG
1 GTCTTACAGAATCGACAGGATAACATCGCAAGTCAAAAAATAATGAATCGATCGGGATAACACCG
11385865 CGAATCAAATTTATGCTTGAAG
66 CGAATCAAATTTATGCTTGAAG
* * * * *
11385887 GTCTTACAGAATCGACGGGATAACATTGTAAGTTAAAAAATAATGAATCGATCGGGATAACATCG
1 GTCTTACAGAATCGACAGGATAACATCGCAAGTCAAAAAATAATGAATCGATCGGGATAACACCG
11385952 CGAATCAAATTTATGCT
66 CGAATCAAATTTATGCT
11385969 CAGAGGTCTT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 77 1.00
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.24
Consensus pattern (87 bp):
GTCTTACAGAATCGACAGGATAACATCGCAAGTCAAAAAATAATGAATCGATCGGGATAACACCG
CGAATCAAATTTATGCTTGAAG
Found at i:11385989 original size:22 final size:22
Alignment explanation
Indices: 11385964--11386030 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
11385954 AATCAAATTT
11385964 ATGCTCAGAGGTCTT-AGAAATC
1 ATGCTCAGAGGTCTTAAG-AATC
*
11385986 ATGCT-TGAAGGTCTTAAGAATC
1 ATGCTCAG-AGGTCTTAAGAATC
11386008 ATG-TCCAGAGGTCTTACAGAATC
1 ATGCT-CAGAGGTCTTA-AGAATC
11386031 GACGGGACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
21 2 0.05
22 27 0.71
23 9 0.24
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (22 bp):
ATGCTCAGAGGTCTTAAGAATC
Found at i:11386053 original size:218 final size:218
Alignment explanation
Indices: 11385659--11386110 Score: 577
Period size: 218 Copynumber: 2.1 Consensus size: 218
11385649 CTTAGAAATC
* *
11385659 ATGCCCGAAGGTCTTACAGAATCAATGGAACAACATCGTAATTCAAAAAATAAGGAATCGATCGA
1 ATGCCTGAAGGTCTTACAGAATCAACGGAACAACATCGTAATTCAAAAAATAAGGAATCGATCGA
* * * *
11385724 GACAACATCATGAATCAAAATTATTTCTAAAGGTCTTAGAAATTATACCCAGAGGTCTTATGAAT
66 GACAACATCACGAATCAAAATTATCTCTAAAGGTCTTAGAAATCATACCCAGAGGTCTTAAGAAT
* *
11385789 CATGTCCAAAAGTCTTACAGAATCGACAGGATAACATCGCAAGTCAAAAAATAATGAATCGATCG
131 CATGTCCAAAAGTCTTACAGAATCGACAGGACAACACCGCAAGTCAAAAAATAATGAATCGATCG
* *
11385854 GGATAACACCGCGAATCAAATTT
196 AGATAACACCGCAAATCAAATTT
* * * * * *
11385877 ATGCTTGAAGGTCTTACAGAATCGACGGGATAACATTGTAAGTT-AAAAAATAATGAATCGATCG
1 ATGCCTGAAGGTCTTACAGAATCAACGGAACAACATCGTAA-TTCAAAAAATAAGGAATCGATCG
* * * * * * **
11385941 GGATAACATCGCGAATCAAATTTATGCTC-AGAGGTCTTAGAAATCAT-GCTTGAAGGTCTTAAG
65 AGACAACATCACGAATCAAAATTAT-CTCTAAAGGTCTTAGAAATCATACCCAG-AGGTCTTAAG
* * * *
11386004 AATCATGTCCAGAGGTCTTACAGAATCGACGGGACAACACCGTAAGTCAAAAAATAATGAATCGA
128 AATCATGTCCAAAAGTCTTACAGAATCGACAGGACAACACCGCAAGTCAAAAAATAATGAATCGA
* * *
11386069 TCGAGATAACACTGTAAATCGAATTT
193 TCGAGATAACACCGCAAATCAAATTT
11386095 ATGCCTGAAGGTCTTA
1 ATGCCTGAAGGTCTTA
11386111 GAAATCATGC
Statistics
Matches: 199, Mismatches: 32, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
217 2 0.01
218 193 0.97
219 4 0.02
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (218 bp):
ATGCCTGAAGGTCTTACAGAATCAACGGAACAACATCGTAATTCAAAAAATAAGGAATCGATCGA
GACAACATCACGAATCAAAATTATCTCTAAAGGTCTTAGAAATCATACCCAGAGGTCTTAAGAAT
CATGTCCAAAAGTCTTACAGAATCGACAGGACAACACCGCAAGTCAAAAAATAATGAATCGATCG
AGATAACACCGCAAATCAAATTT
Found at i:11386125 original size:23 final size:22
Alignment explanation
Indices: 11386098--11386161 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 22
11386088 CGAATTTATG
11386098 CCTGAAGGTCTT-AGAAATCATGC
1 CCTG-AGGTCTTAAG-AATCATGC
* *
11386121 CCTGAGATCTTAAGAATCATGT
1 CCTGAGGTCTTAAGAATCATGC
*
11386143 CCGGAGGTCTTATAGAATC
1 CCTGAGGTCTTA-AGAATC
11386162 GACTGAGATA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
22 23 0.66
23 12 0.34
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (22 bp):
CCTGAGGTCTTAAGAATCATGC
Found at i:11386248 original size:132 final size:132
Alignment explanation
Indices: 11385885--11386258 Score: 488
Period size: 131 Copynumber: 2.8 Consensus size: 132
11385875 TTATGCTTGA
** * *
11385885 AGGTCTTACAGAATCGACGGGATAACATTGTAAGTTAAAAAATAATGAATCGATCGGGATAACAT
1 AGGTCTTACAGAATCGACGGGATAACACAGTAAGTCAAAAAATAATGAATCGATCGAGATAACAT
** * * * *
11385950 CGCGAATCAAATTTATGCTCAGAGGTCTTAGAAATCATG-CTTGAAGGTCTTAAGAATCATGTCC
66 CGTAAATCAAATTTATGCTTAGAAGTCTTAGAAATCATGCCCTGAAGATCTTAAGAATCATGTCC
11386014 AG
131 AG
* *
11386016 AGGTCTTACAGAATCGACGGGACAACACCGTAAGTCAAAAAATAATGAATCGATCGAGATAACA-
1 AGGTCTTACAGAATCGACGGGATAACACAGTAAGTCAAAAAATAATGAATCGATCGAGATAACAT
* *
11386080 CTGTAAATCGAATTTATGCCT-GAAGGTCTTAGAAATCATGCCCTG-AGATCTTAAGAATCATGT
66 C-GTAAATCAAATTTATGCTTAGAA-GTCTTAGAAATCATGCCCTGAAGATCTTAAGAATCATGT
*
11386143 CCGG
129 CCAG
* * * *
11386147 AGGTCTTATAGAATCGACTGAGATAACACAGTAAGTCAAAAAATAAGGAATCGATCGAAATAACA
1 AGGTCTTACAGAATCGAC-GGGATAACACAGTAAGTCAAAAAATAATGAATCGATCGAGATAACA
* * *
11386212 TCATAAATCAAAATTATGCTTAGAAGTCTTACAAATCATGCCC-GAAG
65 TCGTAAATCAAATTTATGCTTAGAAGTCTTAGAAATCATGCCCTGAAG
11386259 GTTTTACAAA
Statistics
Matches: 211, Mismatches: 25, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
130 3 0.01
131 126 0.60
132 78 0.37
133 4 0.02
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.25
Consensus pattern (132 bp):
AGGTCTTACAGAATCGACGGGATAACACAGTAAGTCAAAAAATAATGAATCGATCGAGATAACAT
CGTAAATCAAATTTATGCTTAGAAGTCTTAGAAATCATGCCCTGAAGATCTTAAGAATCATGTCC
AG
Found at i:11386357 original size:22 final size:23
Alignment explanation
Indices: 11386330--11386379 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
11386320 ACCACGAATT
*
11386330 AAAATTATGCCCAGAGGTTTTA-
1 AAAATTATGCCCAGAGGTCTTAC
*
11386352 AAAATTATGCCTAGAGGTCTTAC
1 AAAATTATGCCCAGAGGTCTTAC
11386375 AAAAT
1 AAAAT
11386380 CGATTGGGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 20 0.80
23 5 0.20
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (23 bp):
AAAATTATGCCCAGAGGTCTTAC
Found at i:11386494 original size:132 final size:131
Alignment explanation
Indices: 11386330--11387074 Score: 640
Period size: 131 Copynumber: 5.7 Consensus size: 131
11386320 ACCACGAATT
* * * * *
11386330 AAAATTATGCCCAGAGGTTTTAAAAATTATGCCTAGAGGTCTTACAAAATCGATTGGGACAACAC
1 AAAATTATGCCTAGAGGTCTTAGAAATCATGCCTAGAGGTCTTACAGAATCGATTGGGACAACAC
* * * * *
11386395 CGCAAGTCAAAAATTAAGAAATCAATCAGGACAACACCGTGAATCAAATTTATGTTCGGAGATCT
66 CGCAAGTCAAAAAATAAG-AATCAATCAGGATAACACCGTAAATCAAATTTATGTTCAGAGGTCT
11386460 TA
130 TA
* * * * * * *
11386462 AAGATTATGCCTAAAGGTTTTAGAAATCATGCC-CGAAGTTCTTACAAAATTGATTGGGACAACA
1 AAAATTATGCCTAGAGGTCTTAGAAATCATGCCTAG-AGGTCTTACAGAATCGATTGGGACAACA
* ** * * * * *
11386526 CCGCAAGTTAAAAAATCAAGAATTGATTAGGATAACACTGTAAATTAAATTTATGTCCGGAGGTC
65 CCGCAAGTCAAAAAAT-AAGAATCAATCAGGATAACACCGTAAATCAAATTTATGTTCAGAGGTC
11386591 TTA
129 TTA
* * * * * * **
11386594 GAAATCATG-TTCGGATGTCTTAGAAATCATGCCT-GAAGGTCTTACAGAATTGA-TGACACAAC
1 AAAATTATGCCT-AGAGGTCTTAGAAATCATGCCTAG-AGGTCTTACAGAATCGATTGGGACAAC
** * * * * * *
11386656 ACTACAAGTTAAAAAATAATGAATCAATCGGGATAACACGGTAAATCGAATTTATGCTCAGAAGT
64 ACCGCAAGTCAAAAAATAA-GAATCAATCAGGATAACACCGTAAATCAAATTTATGTTCAGAGGT
11386721 CTTA
128 CTTA
* * * ** ** *
11386725 AAAATTATGCCTAAAGATCTTATAAATCATGCCCGGAGGTCTTACAGAATCGA-CAGGACAACAT
1 AAAATTATGCCTAGAGGTCTTAGAAATCATGCCTAGAGGTCTTACAGAATCGATTGGGACAACAC
* * * * *
11386789 CGTAAGTCAAAAAATAATAAATCAATC-GAGATAACATCGTAAATCGAATTTATGTTTAGAGGTC
66 CGCAAGTCAAAAAATAA-GAATCAATCAG-GATAACACCGTAAATCAAATTTATGTTCAGAGGTC
11386853 TTA
129 TTA
** * * * * * *
11386856 AAAATTATGCCCGGAGGTTTTAAAAATCATGCCTAGAGATCTTACAGAATCAATT-AGATAACAC
1 AAAATTATGCCTAGAGGTCTTAGAAATCATGCCTAGAGGTCTTACAGAATCGATTGGGACAACAC
* * * * * * **
11386920 CGTAAGTCAAAAAATAATGAATCGATCAAGATAATATCGTGAATCAAATTTATGCCCAGAGGTCT
66 CGCAAGTCAAAAAATAA-GAATCAATCAGGATAACACCGTAAATCAAATTTATGTTCAGAGGTCT
11386985 TA
130 TA
* ** * * * * *
11386987 AAAATTATGCCTGGAGGTCTTAGAAATCATGCCCGGAGATTTTATAGAATCGATCGGGATAACAC
1 AAAATTATGCCTAGAGGTCTTAGAAATCATGCCTAGAGGTCTTACAGAATCGATTGGGACAACAC
*
11387052 CGTAAGTCAAAAAATAAAGAATC
66 CGCAAGTCAAAAAAT-AAGAATC
11387075 GATCGGAACA
Statistics
Matches: 499, Mismatches: 102, Indels: 24
0.80 0.16 0.04
Matches are distributed among these distances:
130 3 0.01
131 314 0.63
132 177 0.35
133 5 0.01
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (131 bp):
AAAATTATGCCTAGAGGTCTTAGAAATCATGCCTAGAGGTCTTACAGAATCGATTGGGACAACAC
CGCAAGTCAAAAAATAAGAATCAATCAGGATAACACCGTAAATCAAATTTATGTTCAGAGGTCTT
A
Found at i:11386603 original size:22 final size:22
Alignment explanation
Indices: 11386578--11386637 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
11386568 AATTAAATTT
11386578 ATGTCCGGAGGTCTTAGAAATC
1 ATGTCCGGAGGTCTTAGAAATC
* *
11386600 ATGTTCGGATGTCTTAGAAATC
1 ATGTCCGGAGGTCTTAGAAATC
*
11386622 ATG-CCTGAAGGTCTTA
1 ATGTCC-GGAGGTCTTA
11386638 CAGAATTGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 1 0.03
22 31 0.97
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.32
Consensus pattern (22 bp):
ATGTCCGGAGGTCTTAGAAATC
Found at i:11386872 original size:22 final size:22
Alignment explanation
Indices: 11386847--11386888 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11386837 TTTATGTTTA
*
11386847 GAGGTCTTAAAAATTATGCCCG
1 GAGGTCTTAAAAATCATGCCCG
*
11386869 GAGGTTTTAAAAATCATGCC
1 GAGGTCTTAAAAATCATGCC
11386889 TAGAGATCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (22 bp):
GAGGTCTTAAAAATCATGCCCG
Found at i:11386905 original size:262 final size:261
Alignment explanation
Indices: 11386330--11387068 Score: 795
Period size: 262 Copynumber: 2.8 Consensus size: 261
11386320 ACCACGAATT
* * * *
11386330 AAAATTATGCCCAGAGGTTTTAAAAATTATGCCTAGAGGTCTTACAAAATCGATTGGGACAACAC
1 AAAATTATGCCCGGAGGTTTTAAAAATCATGCCTAGAGGTCTTACAGAATCGA-TGAGACAACAC
* * * *
11386395 CGCAAGTCAAAAATTAA-GAAATCAATCAGGACAACACCGTGAATCAAATTTATGTTC-GGAGAT
65 CGCAAGTCAAAAAATAATG-AATCAATCAGGATAACA-CGTGAATCAAATTTATGCTCAGAAG-T
* * * * * * *
11386458 CTTAAAGATTATGCCTAAAGGTTTTAGAAATCATGCCCGAAGTTCTTACAAAATTGATTGGGACA
127 CTTAAAAATTATGCCTAAAGGTCTTAGAAATCATGCCCGGAGATCTTACAGAATCGATCGGGACA
* * * * * * *
11386523 ACACCGCAAGTTAAAAAATCAAGAATTGATTAGGATAACACTGTAAATTAAATTTATGTCCGGAG
192 ACACCGTAAGTCAAAAAAT-AAGAAATCAATAGGATAACACTGTAAATCAAATTTATGTCCAGAG
11386588 GTCTTA
256 GTCTTA
* * ** * * * * *
11386594 GAAATCATGTTCGGATGTCTTAGAAATCATGCCT-GAAGGTCTTACAGAATTGATGACACAACAC
1 AAAATTATGCCCGGAGGTTTTAAAAATCATGCCTAG-AGGTCTTACAGAATCGATGAGACAACAC
** * * * *
11386658 TACAAGTTAAAAAATAATGAATCAATCGGGATAACACGGTAAATCGAATTTATGCTCAGAAGTCT
65 CGCAAGTCAAAAAATAATGAATCAATCAGGATAACAC-GTGAATCAAATTTATGCTCAGAAGTCT
* * * *
11386723 TAAAAATTATGCCTAAAGATCTTATAAATCATGCCCGGAGGTCTTACAGAATCGA-CAGGACAAC
129 TAAAAATTATGCCTAAAGGTCTTAGAAATCATGCCCGGAGATCTTACAGAATCGATCGGGACAAC
* * * * **
11386787 ATCGTAAGTCAAAAAATAATAAATCAATCGAGATAACA-TCGTAAATCGAATTTATGTTTAGAGG
194 ACCGTAAGTCAAAAAATAAGAAATCAATAG-GATAACACT-GTAAATCAAATTTATGTCCAGAGG
11386851 TCTTA
257 TCTTA
* * * *
11386856 AAAATTATGCCCGGAGGTTTTAAAAATCATGCCTAGAGATCTTACAGAATCAATTAGATAACACC
1 AAAATTATGCCCGGAGGTTTTAAAAATCATGCCTAGAGGTCTTACAGAATCGATGAGACAACACC
* * * * * *
11386921 GTAAGTCAAAAAATAATGAATCGATCAAGATAATATCGTGAATCAAATTTATGCCCAGAGGTCTT
66 GCAAGTCAAAAAATAATGAATCAATCAGGATAACA-CGTGAATCAAATTTATGCTCAGAAGTCTT
** * * *
11386986 AAAAATTATGCCTGGAGGTCTTAGAAATCATGCCCGGAGATTTTATAGAATCGATCGGGATAACA
130 AAAAATTATGCCTAAAGGTCTTAGAAATCATGCCCGGAGATCTTACAGAATCGATCGGGACAACA
11387051 CCGTAAGTCAAAAAATAA
195 CCGTAAGTCAAAAAATAA
11387069 AGAATCGATC
Statistics
Matches: 385, Mismatches: 81, Indels: 19
0.79 0.17 0.04
Matches are distributed among these distances:
261 9 0.02
262 201 0.52
263 131 0.34
264 44 0.11
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.27
Consensus pattern (261 bp):
AAAATTATGCCCGGAGGTTTTAAAAATCATGCCTAGAGGTCTTACAGAATCGATGAGACAACACC
GCAAGTCAAAAAATAATGAATCAATCAGGATAACACGTGAATCAAATTTATGCTCAGAAGTCTTA
AAAATTATGCCTAAAGGTCTTAGAAATCATGCCCGGAGATCTTACAGAATCGATCGGGACAACAC
CGTAAGTCAAAAAATAAGAAATCAATAGGATAACACTGTAAATCAAATTTATGTCCAGAGGTCTT
A
Found at i:11387024 original size:22 final size:22
Alignment explanation
Indices: 11386971--11387024 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
11386961 AATCAAATTT
* *
11386971 ATGCCCAGAGGTCTTAAAAATT
1 ATGCCCGGAGGTCTTAAAAATC
* *
11386993 ATGCCTGGAGGTCTTAGAAATC
1 ATGCCCGGAGGTCTTAAAAATC
11387015 ATGCCCGGAG
1 ATGCCCGGAG
11387025 ATTTTATAGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (22 bp):
ATGCCCGGAGGTCTTAAAAATC
Found at i:11387164 original size:88 final size:88
Alignment explanation
Indices: 11387015--11387206 Score: 237
Period size: 88 Copynumber: 2.2 Consensus size: 88
11387005 CTTAGAAATC
* * * * *
11387015 ATGCCCGGAGATTTTATAGAATCGATCGGGATAACACCGTAAGTCAAAAAATAAAGAATCGATC-
1 ATGCCCGGAGGTCTTACAGAATCGATCGGGACAACACCGCAAGTCAAAAAATAAAGAATCGATCA
* **
11387079 GGAACAACATCGCGAATTGAATTT
66 GG-ACAACATAGCGAATCAAATTT
*
11387103 ATGCCCGGAGGTCTTACAGAATCGA-CTGGGACAACATCGCAAGTCAAAAAATCAAA-AATCGAT
1 ATGCCCGGAGGTCTTACAGAATCGATC-GGGACAACACCGCAAGTCAAAAAAT-AAAGAATCGAT
*
11387166 CAGGATAACATAGCGAATCAAATTT
64 CAGGACAACATAGCGAATCAAATTT
*
11387191 ATACCCGGAGGTCTTA
1 ATGCCCGGAGGTCTTA
11387207 GAAATCATGC
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
87 1 0.01
88 84 0.93
89 5 0.06
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.21
Consensus pattern (88 bp):
ATGCCCGGAGGTCTTACAGAATCGATCGGGACAACACCGCAAGTCAAAAAATAAAGAATCGATCA
GGACAACATAGCGAATCAAATTT
Found at i:11387282 original size:110 final size:110
Alignment explanation
Indices: 11387114--11387323 Score: 253
Period size: 110 Copynumber: 1.9 Consensus size: 110
11387104 TGCCCGGAGG
* * * * *
11387114 TCTTACAGAATCGACTGGGACAACATCGCAAGTCAAAAAATCAAAAATCGATCAGGATAACATAG
1 TCTTACAAAATCGACTAGGACAACACCGCAAGTCAAAAAATCAAAAATCAATCAGGATAACACAG
*
11387179 CGAA-TCAAATTTATACCCGGAGGTCTTAGAAATCATGCTCAGAGA
66 CGAATTCAAA-TTATACCCGAAGGTCTTAGAAATCATGCTCAGAGA
* * * ** * *
11387224 TCTTACAAAATCGACTAGGATAATACCGCGAGTCAAAAAAT-AAAGAATCAATTGGGATAATACC
1 TCTTACAAAATCGACTAGGACAACACCGCAAGTCAAAAAATCAAA-AATCAATCAGGATAACACA
* *
11387288 GCGAATTGAAATTATACCCGAAGGTTTTAGAAATCA
65 GCGAATTCAAATTATACCCGAAGGTCTTAGAAATCA
11387324 ACATCTTTAG
Statistics
Matches: 83, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
109 3 0.04
110 76 0.92
111 4 0.05
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (110 bp):
TCTTACAAAATCGACTAGGACAACACCGCAAGTCAAAAAATCAAAAATCAATCAGGATAACACAG
CGAATTCAAATTATACCCGAAGGTCTTAGAAATCATGCTCAGAGA
Found at i:11395809 original size:15 final size:16
Alignment explanation
Indices: 11395780--11395830 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
11395770 GAATTTGGTG
*
11395780 TTTTCAGAATTTTGGA
1 TTTTAAGAATTTTGGA
*
11395796 TTTT-AGAGTTTTGGA
1 TTTTAAGAATTTTGGA
*
11395811 TTTTAAGAATTTGGGA
1 TTTTAAGAATTTTGGA
11395827 TTTT
1 TTTT
11395831 GGATTTTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
15 14 0.45
16 17 0.55
ACGTcount: A:0.24, C:0.02, G:0.22, T:0.53
Consensus pattern (16 bp):
TTTTAAGAATTTTGGA
Found at i:11395859 original size:64 final size:62
Alignment explanation
Indices: 11395773--11395908 Score: 157
Period size: 64 Copynumber: 2.2 Consensus size: 62
11395763 GCATATCGAA
* **
11395773 TTTGGTGTTTTCAGAATTTTGGATTTTAGAGTTTTGGATTTTAAGAATTTGGGATTTTGGATTT
1 TTTGGGGTTTTCAGAAAATTGGATTTTAGAGTTTTGGATTTT-AGAATTT-GGATTTTGGATTT
* *** * **
11395837 TTTGGGGTTTTTAGAAAATTGGATTTTTTTGTTTTTGATTTTAGGGTTTGGATTTTGGATTT
1 TTTGGGGTTTTCAGAAAATTGGATTTTAGAGTTTTGGATTTTAGAATTTGGATTTTGGATTT
11395899 TTT-GGGTTTT
1 TTTGGGGTTTT
11395909 GATTTTGGGT
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
61 7 0.11
62 16 0.26
63 5 0.08
64 34 0.55
ACGTcount: A:0.17, C:0.01, G:0.26, T:0.57
Consensus pattern (62 bp):
TTTGGGGTTTTCAGAAAATTGGATTTTAGAGTTTTGGATTTTAGAATTTGGATTTTGGATTT
Found at i:11395886 original size:13 final size:13
Alignment explanation
Indices: 11395870--11395977 Score: 57
Period size: 13 Copynumber: 8.2 Consensus size: 13
11395860 TTTTTTTGTT
11395870 TTTGATTTTAGGG
1 TTTGATTTTAGGG
11395883 TTTGGATTTT--GG
1 TTT-GATTTTAGGG
*
11395895 ATT--TTTT-GGG
1 TTTGATTTTAGGG
11395905 TTTTGATTTT-GGG
1 -TTTGATTTTAGGG
* *
11395918 TTTGAGGTTTAGGA
1 TTTGA-TTTTAGGG
* *
11395932 TTTTAGTTTTATGG
1 TTTGA-TTTTAGGG
*
11395946 TTTAGAGGATTTAGGG
1 TTT-GA--TTTTAGGG
11395962 TTTGATTTTAGGG
1 TTTGATTTTAGGG
11395975 TTT
1 TTT
11395978 ATAGGATTTA
Statistics
Matches: 74, Mismatches: 12, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
9 4 0.05
10 2 0.03
11 2 0.03
12 9 0.12
13 23 0.31
14 21 0.28
15 3 0.04
16 10 0.14
ACGTcount: A:0.15, C:0.00, G:0.31, T:0.55
Consensus pattern (13 bp):
TTTGATTTTAGGG
Found at i:11395895 original size:36 final size:36
Alignment explanation
Indices: 11395855--11395935 Score: 110
Period size: 36 Copynumber: 2.2 Consensus size: 36
11395845 TTTTAGAAAA
* *
11395855 TTGGATTTTTTTGTTTTTGATTTTAGGGTTTG-GATT
1 TTGGATTTTTTGGGTTTTGATTTT-GGGTTTGAGATT
*
11395891 TTGGATTTTTTGGGTTTTGATTTTGGGTTTGAGGTT
1 TTGGATTTTTTGGGTTTTGATTTTGGGTTTGAGATT
*
11395927 TAGGATTTT
1 TTGGATTTT
11395936 AGTTTTATGG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 7 0.17
36 33 0.82
ACGTcount: A:0.11, C:0.00, G:0.28, T:0.60
Consensus pattern (36 bp):
TTGGATTTTTTGGGTTTTGATTTTGGGTTTGAGATT
Found at i:11395897 original size:21 final size:21
Alignment explanation
Indices: 11395868--11395948 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
11395858 GATTTTTTTG
*
11395868 TTTTTGATTTTAGGGTTTGGA
1 TTTTGGATTTTAGGGTTTGGA
* *
11395889 TTTTGGATTTTTTGGGTTTTGA
1 TTTTGGA-TTTTAGGGTTTGGA
* *
11395911 TTTTGGGTTTGA-GGTTTAGGA
1 TTTTGGATTTTAGGGTTT-GGA
* *
11395932 TTTTAG-TTTTATGGTTT
1 TTTTGGATTTTAGGGTTT
11395949 AGAGGATTTA
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
20 9 0.19
21 21 0.44
22 18 0.38
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.59
Consensus pattern (21 bp):
TTTTGGATTTTAGGGTTTGGA
Found at i:11395905 original size:22 final size:22
Alignment explanation
Indices: 11395875--11395916 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11395865 TTGTTTTTGA
11395875 TTTTAGGGTTTGGATTTTGGAT
1 TTTTAGGGTTTGGATTTTGGAT
* *
11395897 TTTTTGGGTTTTGATTTTGG
1 TTTTAGGGTTTGGATTTTGG
11395917 GTTTGAGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.10, C:0.00, G:0.31, T:0.60
Consensus pattern (22 bp):
TTTTAGGGTTTGGATTTTGGAT
Found at i:11395963 original size:16 final size:16
Alignment explanation
Indices: 11395939--11395993 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
11395929 GGATTTTAGT
*
11395939 TTTATGGTTTAGAGGA
1 TTTAGGGTTTAGAGGA
*
11395955 TTTAGGGTTT-GA--T
1 TTTAGGGTTTAGAGGA
*
11395968 TTTAGGGTTTATAGGA
1 TTTAGGGTTTAGAGGA
*
11395984 TTTAAGGTTT
1 TTTAGGGTTT
11395994 TGAAATTTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
13 10 0.32
14 1 0.03
15 2 0.06
16 18 0.58
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (16 bp):
TTTAGGGTTTAGAGGA
Found at i:11395970 original size:29 final size:29
Alignment explanation
Indices: 11395906--11395993 Score: 101
Period size: 29 Copynumber: 3.1 Consensus size: 29
11395896 TTTTTTGGGT
*
11395906 TTTGATTTT-GGGTTT-GAGG-TTTAGGA
1 TTTGATTTTAGGGTTTAGAGGATTTAGGG
* *
11395932 TTTTAGTTTTATGGTTTAGAGGATTTAGGG
1 TTTGA-TTTTAGGGTTTAGAGGATTTAGGG
* *
11395962 TTTGATTTTAGGGTTTATAGGATTTAAGG
1 TTTGATTTTAGGGTTTAGAGGATTTAGGG
11395991 TTT
1 TTT
11395994 TGAAATTTAG
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
26 4 0.08
27 4 0.08
28 5 0.10
29 28 0.55
30 10 0.20
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.51
Consensus pattern (29 bp):
TTTGATTTTAGGGTTTAGAGGATTTAGGG
Found at i:11396352 original size:3 final size:3
Alignment explanation
Indices: 11396346--11396427 Score: 91
Period size: 3 Copynumber: 28.3 Consensus size: 3
11396336 ATTTTTGTAG
*
11396346 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AGT ATT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
11396393 TTT AGTT ATT A-T CTT ATT -TT ATT -TT ATT TTT ATT A
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
11396428 AAAACAATCA
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
2 7 0.10
3 57 0.85
4 3 0.04
ACGTcount: A:0.28, C:0.01, G:0.02, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:11398467 original size:34 final size:34
Alignment explanation
Indices: 11398428--11398500 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
11398418 TTTTTAAATA
* *
11398428 ATATTAATATAATTATTAAAATATAAAAAATTATT
1 ATATTAATAAAATTATTAAAAT-TAAAAAATAATT
* *
11398463 -TATTATTAAAATTATTAATATTAAAAAATAATT
1 ATATTAATAAAATTATTAAAATTAAAAAATAATT
11398496 ATATT
1 ATATT
11398501 TTAATAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 11 0.33
34 22 0.67
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (34 bp):
ATATTAATAAAATTATTAAAATTAAAAAATAATT
Found at i:11398475 original size:16 final size:17
Alignment explanation
Indices: 11398454--11398530 Score: 63
Period size: 16 Copynumber: 4.5 Consensus size: 17
11398444 TAAAATATAA
11398454 AAAATTATT-TATTATT
1 AAAATTATTATATTATT
*
11398470 AAAATTATTAATATTA-A
1 AAAATTATT-ATATTATT
*
11398487 AAAATAATTATATT-TT
1 AAAATTATTATATTATT
11398503 AATAATAATATT-TATTATT
1 AA-AAT--TATTATATTATT
11398522 AAAAATTAT
1 -AAAATTAT
11398531 GTTAATATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
16 16 0.33
17 14 0.29
18 9 0.18
19 8 0.16
20 2 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AAAATTATTATATTATT
Found at i:11398486 original size:15 final size:16
Alignment explanation
Indices: 11398454--11398542 Score: 56
Period size: 16 Copynumber: 5.2 Consensus size: 16
11398444 TAAAATATAA
*
11398454 AAAATTATTTATTATT
1 AAAATTATTTAATATT
11398470 AAAATTA-TTAATATT
1 AAAATTATTTAATATT
* * *
11398485 AAAAAATAATTATATTTT
1 -AAAATTATTTA-ATATT
*
11398503 AATAATAATATTTATTATT
1 AA-AAT--TATTTAATATT
11398522 AAAAATTATGTTAATA-T
1 -AAAATTAT-TTAATATT
11398539 AAAA
1 AAAA
11398543 AATAATTAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
15 7 0.12
16 17 0.30
17 9 0.16
18 11 0.19
19 6 0.11
20 7 0.12
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (16 bp):
AAAATTATTTAATATT
Found at i:11398551 original size:16 final size:16
Alignment explanation
Indices: 11398447--11398558 Score: 55
Period size: 16 Copynumber: 6.6 Consensus size: 16
11398437 TAATTATTAA
*
11398447 AATATAAAAAATTATT
1 AATATAAAAAATAATT
* * *
11398463 TAT-TATTAAAATTATT
1 AATATA-AAAAATAATT
11398479 AATATTAAAAAATAATT
1 AATA-TAAAAAATAATT
* *
11398496 ATATTTTAATAATAATATTT
1 A-A-TATAA-AA-AATAATT
* * *
11398516 ATTATTAAAAATTATGTT
1 AATA-TAAAAAATA-ATT
11398534 AATATAAAAAATAATT
1 AATATAAAAAATAATT
*
11398550 AAAATAAAA
1 AATATAAAA
11398559 CCGTTTATTA
Statistics
Matches: 72, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
15 2 0.03
16 23 0.32
17 20 0.28
18 14 0.19
19 6 0.08
20 7 0.10
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (16 bp):
AATATAAAAAATAATT
Found at i:11398600 original size:18 final size:18
Alignment explanation
Indices: 11398574--11398660 Score: 74
Period size: 18 Copynumber: 4.8 Consensus size: 18
11398564 TATTATTCTT
*
11398574 TATACTATTTATTAATAA
1 TATAATATTTATTAATAA
* *
11398592 TATATTATTTATTCATATAT
1 TATAATATTTATT-A-ATAA
11398612 TATAATATTTATTAATTAA
1 TATAATATTTATTAA-TAA
11398631 -ATTAATATTTATT-AT--
1 TA-TAATATTTATTAATAA
*
11398646 TATATTATTTATTAA
1 TATAATATTTATTAA
11398661 ATTCACACTA
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
15 10 0.17
16 2 0.03
17 1 0.02
18 15 0.26
19 15 0.26
20 15 0.26
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
TATAATATTTATTAATAA
Found at i:11399586 original size:10 final size:10
Alignment explanation
Indices: 11399573--11399683 Score: 57
Period size: 10 Copynumber: 10.8 Consensus size: 10
11399563 TTATATTCAC
*
11399573 AAATATATAT
1 AAATAAATAT
11399583 AAATAAATAT
1 AAATAAATAT
*
11399593 ATTCATAAATAAT
1 A--AATAAAT-AT
11399606 AAATAAAT-T
1 AAATAAATAT
11399615 ATAATCAAATA-
1 A-AAT-AAATAT
* * *
11399626 AACTTAA-AC
1 AAATAAATAT
*
11399635 AAATAAATTCT
1 AAATAAA-TAT
**
11399646 AAACGAATAT
1 AAATAAATAT
*
11399656 AAATAAATTT
1 AAATAAATAT
*
11399666 AAATAAACAT
1 AAATAAATAT
11399676 AAATAAAT
1 AAATAAAT
11399684 TTTAAAATAA
Statistics
Matches: 74, Mismatches: 18, Indels: 18
0.67 0.16 0.16
Matches are distributed among these distances:
8 1 0.01
9 9 0.12
10 39 0.53
11 16 0.22
12 6 0.08
13 3 0.04
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (10 bp):
AAATAAATAT
Found at i:11399586 original size:26 final size:27
Alignment explanation
Indices: 11399551--11399615 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 27
11399541 ATATATCATG
**
11399551 AATAT-TAAATTGTTATATTCACAAAT
1 AATATATAAATTAATATATTCACAAAT
* *
11399577 -ATATATAAATAAATATATTCATAAAT
1 AATATATAAATTAATATATTCACAAAT
*
11399603 AATAAATAAATTA
1 AATATATAAATTA
11399616 TAATCAAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
25 4 0.13
26 17 0.55
27 10 0.32
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (27 bp):
AATATATAAATTAATATATTCACAAAT
Done.