Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008702.1 Hibiscus syriacus cultivar Beakdansim tig00111741_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3201804
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 14
Found at i:1846340 original size:21 final size:21
Alignment explanation
Indices: 1846298--1846341 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1846288 ACCCCGGGAG
*
1846298 CTAGTTCTTCACGAGCTGCTC
1 CTAGTTCTTCACGAGCTCCTC
* *
1846319 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCACGAGCTCCTC
1846340 CT
1 CT
1846342 CCTCCTCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.36, G:0.16, T:0.39
Consensus pattern (21 bp):
CTAGTTCTTCACGAGCTCCTC
Found at i:1847157 original size:20 final size:21
Alignment explanation
Indices: 1847120--1847159 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1847110 AAATTAAGTT
1847120 AAATGAATTTTAAGATTTTAC
1 AAATGAATTTTAAGATTTTAC
1847141 AAATG-ATTTTACA-ATTTTA
1 AAATGAATTTTA-AGATTTTA
1847160 TATCGATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (21 bp):
AAATGAATTTTAAGATTTTAC
Found at i:1847441 original size:65 final size:64
Alignment explanation
Indices: 1847332--1847533 Score: 219
Period size: 65 Copynumber: 3.1 Consensus size: 64
1847322 GTGATGCACT
* * * * *
1847332 GATGCATCAA-CCATGCATCGATGCATTAATGAAT-TAATTGAAACATCGAATGCATTCCATGCA
1 GATGCA-CAAGCCATGCATCGATGCACTCA-GAATAT-TTTCAAACATCGAATGCATTTCATGCA
*
1847395 CC
63 TC
**** ** *
1847397 GATGCATTCTCCATGCATCGATGCACTTTGAATATTTTCAAAACATCGAATGCATTTGATGCATC
1 GATGCACAAGCCATGCATCGATGCACTCAGAATATTTTC-AAACATCGAATGCATTTCATGCATC
**
1847462 GATGCACAAGCCATGCATCGATGCACTCAGGCTATTTTCAAACATCGAATGCATTTCATGCATC
1 GATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAAACATCGAATGCATTTCATGCATC
1847526 GATGCACA
1 GATGCACA
1847534 CTTGGTGCAC
Statistics
Matches: 114, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
64 38 0.33
65 76 0.67
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (64 bp):
GATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAAACATCGAATGCATTTCATGCATC
Found at i:1847550 original size:64 final size:65
Alignment explanation
Indices: 1847372--1847535 Score: 222
Period size: 65 Copynumber: 2.5 Consensus size: 65
1847362 GAATTAATTG
* * ** **
1847372 AAACATCGAATGCATTCCATGCACCGATGCATTCTCCATGCATCGATGCACTTTGAATATTTTCA
1 AAACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCA
* ** **
1847437 AAACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCACTCAGGCTATTTTC-
1 AAACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCA
1847501 AAACATCGAATGCATTTCATGCATCGATGCACACT
1 AAACATCGAATGCATTTCATGCATCGATGCACACT
1847536 TGGTGCACCG
Statistics
Matches: 85, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
64 32 0.38
65 53 0.62
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (65 bp):
AAACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCA
Found at i:1849926 original size:19 final size:19
Alignment explanation
Indices: 1849902--1849948 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
1849892 TATGAATGAA
1849902 TAAAATGCAATAC-ATAAAG
1 TAAAATGCAATACGA-AAAG
1849921 TAAAATGCAATACGAAAAG
1 TAAAATGCAATACGAAAAG
1849940 TAAAATGCA
1 TAAAATGCA
1849949 GATGTAAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 26 0.96
20 1 0.04
ACGTcount: A:0.57, C:0.11, G:0.13, T:0.19
Consensus pattern (19 bp):
TAAAATGCAATACGAAAAG
Found at i:1853345 original size:16 final size:16
Alignment explanation
Indices: 1853321--1853362 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
1853311 TGTCCATGTT
*
1853321 TGACTCGATCTTTTGG
1 TGACCCGATCTTTTGG
1853337 TGACCCGATCTTTTGG
1 TGACCCGATCTTTTGG
1853353 TGACCCGATC
1 TGACCCGATC
1853363 CGGGTTATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.14, C:0.26, G:0.24, T:0.36
Consensus pattern (16 bp):
TGACCCGATCTTTTGG
Found at i:1860111 original size:13 final size:14
Alignment explanation
Indices: 1860093--1860122 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
1860083 AATAAATAAA
1860093 TTTGTTTTAATT-T
1 TTTGTTTTAATTAT
1860106 TTTGTTTTAATTAT
1 TTTGTTTTAATTAT
1860120 TTT
1 TTT
1860123 TATTACTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.77
Consensus pattern (14 bp):
TTTGTTTTAATTAT
Found at i:1862949 original size:22 final size:22
Alignment explanation
Indices: 1862921--1862970 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
1862911 AAATTATGGC
1862921 AACTTCAAACGACGAGTTCAAG
1 AACTTCAAACGACGAGTTCAAG
1862943 AACTTCAAACGACGAGTTCAAG
1 AACTTCAAACGACGAGTTCAAG
*
1862965 ATCTTC
1 AACTTC
1862971 TGACTCATGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.22
Consensus pattern (22 bp):
AACTTCAAACGACGAGTTCAAG
Found at i:1871891 original size:15 final size:15
Alignment explanation
Indices: 1871871--1871900 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1871861 ATTTTGTGAC
*
1871871 CCAACAGTATTCCTT
1 CCAACACTATTCCTT
1871886 CCAACACTATTCCTT
1 CCAACACTATTCCTT
1871901 TGGTTACCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.37, G:0.03, T:0.33
Consensus pattern (15 bp):
CCAACACTATTCCTT
Found at i:1877785 original size:21 final size:22
Alignment explanation
Indices: 1877735--1877786 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
1877725 CATATCTACA
* *
1877735 TTTTGCAAGGATGATAGATTCTC
1 TTTT-CAAAGATGATAGATTCGC
*
1877758 TTTTCAAAGATGGTAGATTCGC
1 TTTTCAAAGATGATAGATTCGC
1877780 -TTTCAAA
1 TTTTCAAA
1877787 AACCAAAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 7 0.27
22 15 0.58
23 4 0.15
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.38
Consensus pattern (22 bp):
TTTTCAAAGATGATAGATTCGC
Found at i:1878344 original size:16 final size:16
Alignment explanation
Indices: 1878323--1878364 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
1878313 ATGATTCTTT
1878323 CAAGATGATTATTAAG
1 CAAGATGATTATTAAG
1878339 CAAGATGATTATTAAG
1 CAAGATGATTATTAAG
1878355 CAAGATGATT
1 CAAGATGATT
1878365 CTTTCAAGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.31
Consensus pattern (16 bp):
CAAGATGATTATTAAG
Found at i:1888829 original size:10 final size:10
Alignment explanation
Indices: 1888792--1888834 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
1888782 TCATCTGATA
1888792 AAATAAAAT-
1 AAATAAAATG
*
1888801 AAATAGAATG
1 AAATAAAATG
*
1888811 AAATGAAATG
1 AAATAAAATG
*
1888821 AAATAAAATA
1 AAATAAAATG
1888831 AAAT
1 AAAT
1888835 TTTCTAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
9 8 0.29
10 20 0.71
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (10 bp):
AAATAAAATG
Found at i:1888867 original size:11 final size:11
Alignment explanation
Indices: 1888852--1888897 Score: 69
Period size: 11 Copynumber: 4.4 Consensus size: 11
1888842 AAACAAAGTG
*
1888852 AAATTAAAACG
1 AAATTAAAACA
1888863 AAATTAAAA-A
1 AAATTAAAACA
1888873 AAA-TAAAACA
1 AAATTAAAACA
1888883 AAATTAAAACA
1 AAATTAAAACA
1888894 AAAT
1 AAAT
1888898 GGGTTGCCTC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 5 0.16
10 7 0.22
11 20 0.62
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.17
Consensus pattern (11 bp):
AAATTAAAACA
Found at i:1888881 original size:20 final size:21
Alignment explanation
Indices: 1888856--1888897 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
1888846 AAAGTGAAAT
*
1888856 TAAAACGAAATTAAAA-AAAA
1 TAAAACAAAATTAAAACAAAA
1888876 TAAAACAAAATTAAAACAAAA
1 TAAAACAAAATTAAAACAAAA
1888897 T
1 T
1888898 GGGTTGCCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.17
Consensus pattern (21 bp):
TAAAACAAAATTAAAACAAAA
Found at i:1900030 original size:20 final size:20
Alignment explanation
Indices: 1900001--1900043 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1899991 ATTCCACCAC
*
1900001 ATGCAACTATACGCTCCTAA
1 ATGCAACTATACGATCCTAA
* *
1900021 ATGCATCTATATGATCCTAA
1 ATGCAACTATACGATCCTAA
1900041 ATG
1 ATG
1900044 GGCTCTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (20 bp):
ATGCAACTATACGATCCTAA
Found at i:1902073 original size:30 final size:29
Alignment explanation
Indices: 1902030--1902096 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 29
1902020 GGTGCTAAGG
1902030 AGAAAAGAA-GAAGAAGAACTAA-AACAAAGT
1 AGAAAA-AATGAAGAAG-A-TAAGAACAAAGT
1902060 AGAAAAAATGAAGAAGATAAGAACAAAGT
1 AGAAAAAATGAAGAAGATAAGAACAAAGT
1902089 A-AAAAAAT
1 AGAAAAAAT
1902097 AAGGGGGTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
28 10 0.29
29 12 0.34
30 13 0.37
ACGTcount: A:0.69, C:0.04, G:0.18, T:0.09
Consensus pattern (29 bp):
AGAAAAAATGAAGAAGATAAGAACAAAGT
Found at i:1902094 original size:29 final size:30
Alignment explanation
Indices: 1902039--1902095 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
1902029 GAGAAAAGAA
*
1902039 GAAGAAGAACTAAAACAAAGTAGAAAAAAT
1 GAAGAAGAACTAAAACAAAGTAAAAAAAAT
1902069 GAAGAAG-A-TAAGAACAAAGTAAAAAAA
1 GAAGAAGAACTAA-AACAAAGTAAAAAAA
1902096 TAAGGGGGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 3 0.12
29 15 0.60
30 7 0.28
ACGTcount: A:0.68, C:0.05, G:0.18, T:0.09
Consensus pattern (30 bp):
GAAGAAGAACTAAAACAAAGTAAAAAAAAT
Found at i:1904238 original size:20 final size:20
Alignment explanation
Indices: 1904210--1904269 Score: 50
Period size: 20 Copynumber: 2.9 Consensus size: 20
1904200 TTTCAGCTCA
*
1904210 TTGAATGAATCATGGTAATT
1 TTGATTGAATCATGGTAATT
* *
1904230 TTGATTGAACACGAATGGTTGATT
1 TTGATTGAA-TC--ATGG-TAATT
1904254 TTG-TTGAATCATGGTA
1 TTGATTGAATCATGGTA
1904270 CATATGGGCT
Statistics
Matches: 31, Mismatches: 5, Indels: 9
0.69 0.11 0.20
Matches are distributed among these distances:
19 1 0.03
20 12 0.39
21 1 0.03
22 1 0.03
23 9 0.29
24 7 0.23
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (20 bp):
TTGATTGAATCATGGTAATT
Found at i:1906444 original size:20 final size:20
Alignment explanation
Indices: 1906415--1906457 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
1906405 ATTCCACCAC
*
1906415 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
1906435 ATGCATCTATATGATCCTAA
1 ATGCAACTATATGATCCTAA
1906455 ATG
1 ATG
1906458 GGCTATTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:1906717 original size:27 final size:27
Alignment explanation
Indices: 1906678--1906747 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
1906668 TAAATGAAAG
1906678 GACTAAAATACCCTTGAACTTTAAAAT
1 GACTAAAATACCCTTGAACTTTAAAAT
* *
1906705 TACTAAAATACCCTTAAACTTTAAAAT
1 GACTAAAATACCCTTGAACTTTAAAAT
*
1906732 GACCAAAATACCCTTG
1 GACTAAAATACCCTTG
1906748 GGCTCCAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.29
Consensus pattern (27 bp):
GACTAAAATACCCTTGAACTTTAAAAT
Found at i:1907806 original size:39 final size:39
Alignment explanation
Indices: 1907747--1907824 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
1907737 AATCTACTGC
* * *
1907747 TAGGGTAAGTCATTACTGCAGGCTCCTTTGTTTTGTGCA
1 TAGGATAAGTCATTACTGCAGACTCCTTTGCTTTGTGCA
*
1907786 TAGGATAAGTCCTTACTGCAGACTCCTTTGCTTTGTGCA
1 TAGGATAAGTCATTACTGCAGACTCCTTTGCTTTGTGCA
1907825 CAGAGTAAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (39 bp):
TAGGATAAGTCATTACTGCAGACTCCTTTGCTTTGTGCA
Found at i:1907834 original size:39 final size:38
Alignment explanation
Indices: 1907750--1907840 Score: 119
Period size: 39 Copynumber: 2.3 Consensus size: 38
1907740 CTACTGCTAG
* * * *
1907750 GGTAAGTCATTACTGCAGGCTCCTTTGTTTTGTGCATA
1 GGTAAGTCCTTACTGCAGACTCCTTTGCTTTGTGCACA
1907788 GGATAAGTCCTTACTGCAGACTCCTTTGCTTTGTGCACA
1 GG-TAAGTCCTTACTGCAGACTCCTTTGCTTTGTGCACA
*
1907827 GAGTAAGTTCTTAC
1 G-GTAAGTCCTTAC
1907841 CGTAGTCTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
38 2 0.04
39 43 0.93
40 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (38 bp):
GGTAAGTCCTTACTGCAGACTCCTTTGCTTTGTGCACA
Found at i:1907892 original size:39 final size:40
Alignment explanation
Indices: 1907836--1907926 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 40
1907826 AGAGTAAGTT
* * *
1907836 CTTACCGTA-GTCTCATTTT-CTTCGTGCATAGGGGAAAAC
1 CTTACCGTATG-CCCATTTTACATCGTGCATAAGGGAAAAC
*
1907875 CTTATCGTATGCCCATTTTACATCGTGCATAAGGGAAAAC
1 CTTACCGTATGCCCATTTTACATCGTGCATAAGGGAAAAC
*
1907915 TTTACCGTATGC
1 CTTACCGTATGC
1907927 TCATATTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
39 15 0.34
40 29 0.66
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (40 bp):
CTTACCGTATGCCCATTTTACATCGTGCATAAGGGAAAAC
Found at i:1909090 original size:37 final size:37
Alignment explanation
Indices: 1909033--1909127 Score: 131
Period size: 37 Copynumber: 2.5 Consensus size: 37
1909023 CACTCCATCT
1909033 TTCAAGA-ACTCTTAAATTCACAATAAAACA-CTAAC
1 TTCAAGAGACTCTTAAATTCACAATAAAACACCTAAC
*
1909068 GTTCAAGAGACTCTTAATTTCACAATAAAACACTCTAAC
1 -TTCAAGAGACTCTTAAATTCACAATAAAACAC-CTAAC
*
1909107 TCCAAAGAGACTCTTAAATTC
1 TTC-AAGAGACTCTTAAATTC
1909128 CCCCCCTTAA
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
36 7 0.13
37 22 0.42
38 2 0.04
39 21 0.40
ACGTcount: A:0.43, C:0.23, G:0.06, T:0.27
Consensus pattern (37 bp):
TTCAAGAGACTCTTAAATTCACAATAAAACACCTAAC
Found at i:1910058 original size:2 final size:2
Alignment explanation
Indices: 1910023--1910050 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1910013 TCATATTGAT
1910023 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
1910051 AGTATATAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1911742 original size:18 final size:18
Alignment explanation
Indices: 1911719--1911759 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
1911709 CGACCCGTTT
1911719 ACCCGACCAGTTGACCCG
1 ACCCGACCAGTTGACCCG
*
1911737 ACCCGACCCGTTGACCCG
1 ACCCGACCAGTTGACCCG
1911755 ACCCG
1 ACCCG
1911760 TTGACCCGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.49, G:0.22, T:0.10
Consensus pattern (18 bp):
ACCCGACCAGTTGACCCG
Found at i:1911752 original size:8 final size:8
Alignment explanation
Indices: 1911741--1911795 Score: 66
Period size: 8 Copynumber: 7.5 Consensus size: 8
1911731 GACCCGACCC
1911741 GACCCGTT
1 GACCCGTT
1911749 GACCC---
1 GACCCGTT
1911754 GACCCGTT
1 GACCCGTT
1911762 GACCCGTT
1 GACCCGTT
*
1911770 GA-CTGTT
1 GACCCGTT
1911777 GACCCGTT
1 GACCCGTT
1911785 GA-CCGTT
1 GACCCGTT
1911792 GACC
1 GACC
1911796 GGAGTTGACC
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
5 5 0.12
7 13 0.32
8 22 0.55
ACGTcount: A:0.15, C:0.36, G:0.25, T:0.24
Consensus pattern (8 bp):
GACCCGTT
Found at i:1911752 original size:13 final size:13
Alignment explanation
Indices: 1911692--1911767 Score: 80
Period size: 13 Copynumber: 5.5 Consensus size: 13
1911682 AACCCGACCC
1911692 GACCCGACCCGTT
1 GACCCGACCCGTT
*
1911705 TACCCGACCCGTT
1 GACCCGACCCGTT
* *
1911718 TACCCGACCAGTT
1 GACCCGACCCGTT
1911731 GACCCGACCCGACCCGTT
1 -----GACCCGACCCGTT
1911749 GACCCGACCCGTT
1 GACCCGACCCGTT
1911762 GACCCG
1 GACCCG
1911768 TTGACTGTTG
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
13 43 0.80
18 11 0.20
ACGTcount: A:0.17, C:0.46, G:0.21, T:0.16
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:1911763 original size:31 final size:31
Alignment explanation
Indices: 1911706--1911767 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
1911696 CGACCCGTTT
*
1911706 ACCCGACCCGTTTACCCGACCAGTTGACCCG
1 ACCCGACCCGTTGACCCGACCAGTTGACCCG
*
1911737 ACCCGACCCGTTGACCCGACCCGTTGACCCG
1 ACCCGACCCGTTGACCCGACCAGTTGACCCG
1911768 TTGACTGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.18, C:0.47, G:0.21, T:0.15
Consensus pattern (31 bp):
ACCCGACCCGTTGACCCGACCAGTTGACCCG
Found at i:1911779 original size:7 final size:7
Alignment explanation
Indices: 1911757--1911796 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
1911747 TTGACCCGAC
1911757 CCGTTGA
1 CCGTTGA
1911764 CCCGTTGA
1 -CCGTTGA
*
1911772 CTGTTGA
1 CCGTTGA
1911779 CCCGTTGA
1 -CCGTTGA
1911787 CCGTTGA
1 CCGTTGA
1911794 CCG
1 CCG
1911797 GAGTTGACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
7 16 0.55
8 13 0.45
ACGTcount: A:0.12, C:0.33, G:0.28, T:0.28
Consensus pattern (7 bp):
CCGTTGA
Found at i:1911779 original size:15 final size:15
Alignment explanation
Indices: 1911757--1911795 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
1911747 TTGACCCGAC
1911757 CCGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
*
1911772 CTGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
1911787 CCGTTGACC
1 CCGTTGACC
1911796 GGAGTTGACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.13, C:0.33, G:0.26, T:0.28
Consensus pattern (15 bp):
CCGTTGACCCGTTGA
Found at i:1913110 original size:18 final size:18
Alignment explanation
Indices: 1913084--1913119 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1913074 TCGAAATGAC
*
1913084 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
1913102 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
1913120 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:1914297 original size:23 final size:23
Alignment explanation
Indices: 1914271--1914344 Score: 96
Period size: 23 Copynumber: 3.2 Consensus size: 23
1914261 AATTCTATTA
*
1914271 TGATCCTGACCTGGATTCTGATC
1 TGATCATGACCTGGATTCTGATC
*
1914294 TGAT-ATTGACATGGATTCTGATC
1 TGATCA-TGACCTGGATTCTGATC
*
1914317 TGATACATGACCTGGATTCTGATA
1 TGAT-CATGACCTGGATTCTGATC
1914341 TGAT
1 TGAT
1914345 ACTTGACTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
23 24 0.55
24 19 0.43
25 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (23 bp):
TGATCATGACCTGGATTCTGATC
Found at i:1914332 original size:24 final size:24
Alignment explanation
Indices: 1914277--1914351 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
1914267 ATTATGATCC
1914277 TGACCTGGATTCTGATCTGATA-T
1 TGACCTGGATTCTGATCTGATACT
* *
1914300 TGACATGGATTCTGATCTGATACA
1 TGACCTGGATTCTGATCTGATACT
*
1914324 TGACCTGGATTCTGATATGATACT
1 TGACCTGGATTCTGATCTGATACT
1914348 TGAC
1 TGAC
1914352 TTGAATTATG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 21 0.46
24 25 0.54
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.36
Consensus pattern (24 bp):
TGACCTGGATTCTGATCTGATACT
Found at i:1915757 original size:45 final size:45
Alignment explanation
Indices: 1915683--1915793 Score: 161
Period size: 45 Copynumber: 2.5 Consensus size: 45
1915673 TATATATATA
*
1915683 TTGCAATTCCAGTGAGCATATCAGAGTGTTTATCCCGTTAAAATT
1 TTGCAATTCCAGTGAGCATATCAGAGTGTTTATCCCGTTAAAAGT
* * * *
1915728 TTGCAATTCCAGTGAGAATATTATG-GTGTTTATTCTGTTAAAAGT
1 TTGCAATTCCAGTGAGCATATCA-GAGTGTTTATCCCGTTAAAAGT
1915773 TTGCAATTCCAGTGAGCATAT
1 TTGCAATTCCAGTGAGCATAT
1915794 ATGTATATTT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 58 0.98
46 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (45 bp):
TTGCAATTCCAGTGAGCATATCAGAGTGTTTATCCCGTTAAAAGT
Found at i:1920718 original size:2 final size:2
Alignment explanation
Indices: 1920706--1920752 Score: 57
Period size: 2 Copynumber: 25.0 Consensus size: 2
1920696 CCTCTAATGT
1920706 TA TA T- TA TA TA TA TA T- TA TCA TA T- TA TA -A TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA
1920745 TA TA TA TA
1 TA TA TA TA
1920753 ATTTATTTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
1 4 0.10
2 34 0.85
3 2 0.05
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1921909 original size:19 final size:18
Alignment explanation
Indices: 1921885--1921928 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 18
1921875 TTTTTATATA
1921885 TTTTA-TAGTATTATTAGTT
1 TTTTACTAGTATT-TTA-TT
1921904 TTTTATCTAGTATTTTATT
1 TTTTA-CTAGTATTTTATT
1921923 TTTTAC
1 TTTTAC
1921929 ATATATGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 1 0.04
19 12 0.52
20 3 0.13
21 7 0.30
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.66
Consensus pattern (18 bp):
TTTTACTAGTATTTTATT
Found at i:1922094 original size:19 final size:18
Alignment explanation
Indices: 1922072--1922116 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
1922062 TTCCCTCGTC
**
1922072 TTATTTTACTTTTTTTTAT
1 TTATTTTA-TTTAATTTAT
1922091 TTATTGTTATTTAATTTAT
1 TTATT-TTATTTAATTTAT
1922110 TTATTTT
1 TTATTTT
1922117 TGTCGTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 18 0.78
20 3 0.13
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (18 bp):
TTATTTTATTTAATTTAT
Found at i:1922100 original size:10 final size:9
Alignment explanation
Indices: 1922072--1922135 Score: 58
Period size: 9 Copynumber: 6.7 Consensus size: 9
1922062 TTCCCTCGTC
1922072 TTATTTTACT
1 TTATTTTA-T
*
1922082 TTTTTTTAT
1 TTATTTTAT
1922091 TTATTGTTAT
1 TTATT-TTAT
*
1922101 TTAATTTAT
1 TTATTTTAT
1922110 TTATTTT-T
1 TTATTTTAT
1922118 GTCGTATTTTAT
1 -T--TATTTTAT
1922130 TTATTT
1 TTATTT
1922136 ACATTTGTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
8 1 0.02
9 21 0.47
10 15 0.33
11 7 0.16
12 1 0.02
ACGTcount: A:0.19, C:0.03, G:0.05, T:0.73
Consensus pattern (9 bp):
TTATTTTAT
Found at i:1922125 original size:24 final size:23
Alignment explanation
Indices: 1922086--1922136 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
1922076 TTTACTTTTT
1922086 TTTATTTATTGTTATTTAATTTA
1 TTTATTTATTGTTATTTAATTTA
*
1922109 TTTATTT-TTGTCGTATTTTATTTA
1 TTTATTTATTGT--TATTTAATTTA
1922133 TTTA
1 TTTA
1922137 CATTTGTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 4 0.16
23 7 0.28
24 14 0.56
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.71
Consensus pattern (23 bp):
TTTATTTATTGTTATTTAATTTA
Found at i:1922142 original size:24 final size:24
Alignment explanation
Indices: 1922098--1922143 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
1922088 TATTTATTGT
**
1922098 TATTTAATTTATTTATTTTTGTCG
1 TATTTAATTTATTTACATTTGTCG
*
1922122 TATTTTATTTATTTACATTTGT
1 TATTTAATTTATTTACATTTGT
1922144 TCCTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.22, C:0.04, G:0.07, T:0.67
Consensus pattern (24 bp):
TATTTAATTTATTTACATTTGTCG
Found at i:1925567 original size:22 final size:21
Alignment explanation
Indices: 1925524--1925566 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 21
1925514 ATTTCTTGCG
1925524 TTTTATATTTCATGTTTTTTTA
1 TTTTATATTTCATG-TTTTTTA
1925546 TTTTATATTTTCCATGTTTTT
1 TTTTATA-TTT-CATGTTTTT
1925567 ACATTCGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 7 0.37
23 8 0.42
24 4 0.21
ACGTcount: A:0.16, C:0.07, G:0.05, T:0.72
Consensus pattern (21 bp):
TTTTATATTTCATGTTTTTTA
Found at i:1932686 original size:11 final size:11
Alignment explanation
Indices: 1932672--1932696 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1932662 ACAAGAAAAC
1932672 AAAAAAAACAA
1 AAAAAAAACAA
1932683 AAAAAAAACAA
1 AAAAAAAACAA
1932694 AAA
1 AAA
1932697 GAGAAAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:1932696 original size:9 final size:9
Alignment explanation
Indices: 1932655--1932688 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
1932645 CCTAAGTTGA
1932655 AAAAAAAAC
1 AAAAAAAAC
*
1932664 -AAGAAAAC
1 AAAAAAAAC
1932672 AAAAAAAAC
1 AAAAAAAAC
1932681 AAAAAAAA
1 AAAAAAAA
1932689 AACAAAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:1932696 original size:17 final size:17
Alignment explanation
Indices: 1932654--1932696 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
1932644 TCCTAAGTTG
1932654 AAAAAAAAACAAGAAAA
1 AAAAAAAAACAAGAAAA
*
1932671 CAAAAAAAACAA-AAAA
1 AAAAAAAAACAAGAAAA
1932687 AAAACAAAAA
1 AAAA-AAAAA
1932697 GAGAAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.88, C:0.09, G:0.02, T:0.00
Consensus pattern (17 bp):
AAAAAAAAACAAGAAAA
Found at i:1932704 original size:20 final size:20
Alignment explanation
Indices: 1932654--1932696 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1932644 TCCTAAGTTG
* *
1932654 AAAAAAA-AACAAGAAAACA
1 AAAAAAACAAAAAAAAAACA
1932673 AAAAAAACAAAAAAAAAACA
1 AAAAAAACAAAAAAAAAACA
1932693 AAAA
1 AAAA
1932697 GAGAAAAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.88, C:0.09, G:0.02, T:0.00
Consensus pattern (20 bp):
AAAAAAACAAAAAAAAAACA
Found at i:1933697 original size:105 final size:105
Alignment explanation
Indices: 1933509--1934402 Score: 1448
Period size: 105 Copynumber: 8.5 Consensus size: 105
1933499 AGGTTTTACC
* *
1933509 CAGAGTCAATTCCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
1933574 ACGAAGGGACCGCTGGTTGTCAACAAATATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
1933614 CAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1933679 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
1933719 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCATG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
1933784 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* * *
1933824 CAGAGCCAATTTCAACTTCACAACGAGGGGTATTGGACTCCAAACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
1933889 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTG
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
1933929 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACA
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
1933994 ACGAAGGGATCGCTGGTTGTCAATAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* *
1934034 CAGAGCCAATTTCAACTTCACAACGGAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
1934099 ACGAACGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
1934139 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAAACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
1934204 ACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAATTT
* * * *
1934245 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTTATG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * * * * *
1934310 ATGAAGGGACCGCTGGTTGTCAATAAAAAACTTCCCAGTTT
66 ACGAAGGGACCGCTGGTTGTCAA-CAAACATTTCTCAATTT
* ** *
1934351 CAGAGTCAATTTCAACTTCACGGCGAAGGATATTGGCCT-CAGAACAACGCAA
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAG-ACAACGCAA
1934403 CTTACATTGG
Statistics
Matches: 739, Mismatches: 47, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
105 588 0.80
106 148 0.20
107 3 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
Found at i:1934890 original size:2 final size:2
Alignment explanation
Indices: 1934878--1934938 Score: 85
Period size: 2 Copynumber: 32.0 Consensus size: 2
1934868 CCTCTAATGT
1934878 TA TA T- TA TA TA TA TA TA T- TA TCA TA T- TA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA
1934917 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
1934939 ATTTATTTAT
Statistics
Matches: 54, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
1 4 0.07
2 48 0.89
3 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1936232 original size:2 final size:2
Alignment explanation
Indices: 1936220--1936250 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1936210 AGTTATATTT
*
1936220 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1936251 GTGTGTGTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1936311 original size:10 final size:10
Alignment explanation
Indices: 1936298--1936331 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
1936288 ATTTTACTGT
1936298 TTTTTATTTA
1 TTTTTATTTA
1936308 TTTTTATTTA
1 TTTTTATTTA
*
1936318 -ATTTATTTA
1 TTTTTATTTA
1936327 TTTTT
1 TTTTT
1936332 GTCGTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:1936340 original size:19 final size:20
Alignment explanation
Indices: 1936299--1936349 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
1936289 TTTTACTGTT
*
1936299 TTTTATTTATTTTTATTTAA
1 TTTTATTTATTTTTATGTAA
*
1936319 -TTTATTTATTTTTGTCGT-A
1 TTTTATTTATTTTTAT-GTAA
1936338 TTTTATTT-TTTT
1 TTTTATTTATTTT
1936350 ACATTTGTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (20 bp):
TTTTATTTATTTTTATGTAA
Found at i:1939519 original size:13 final size:13
Alignment explanation
Indices: 1939501--1939525 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1939491 ACTCGACCCG
1939501 ACCTGACCCGTTA
1 ACCTGACCCGTTA
1939514 ACCTGACCCGTT
1 ACCTGACCCGTT
1939526 GACCGTTGGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.40, G:0.16, T:0.24
Consensus pattern (13 bp):
ACCTGACCCGTTA
Found at i:1945096 original size:17 final size:19
Alignment explanation
Indices: 1945074--1945109 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
1945064 TTTTACAGAC
1945074 ATTGATATG-ATAA-AAAT
1 ATTGATATGCATAAGAAAT
1945091 ATTGATATGCATAAGAAAT
1 ATTGATATGCATAAGAAAT
1945110 GTTAGTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.50, C:0.03, G:0.14, T:0.33
Consensus pattern (19 bp):
ATTGATATGCATAAGAAAT
Found at i:1946833 original size:24 final size:24
Alignment explanation
Indices: 1946737--1946833 Score: 97
Period size: 24 Copynumber: 4.0 Consensus size: 24
1946727 GAATATTTTA
* *
1946737 TCTGATTTCTGATTTGAATTCTGT
1 TCTGATATCTGATCTGAATTCTGT
* * *
1946761 TTTGACATCTGATCTGAAATCTGT
1 TCTGATATCTGATCTGAATTCTGT
* * *
1946785 TCTGAT-TCTTAACATGGATTCTGT
1 TCTGATATCTGATC-TGAATTCTGT
*
1946809 TCTGATATCTGATCTGAATTATGT
1 TCTGATATCTGATCTGAATTCTGT
1946833 T
1 T
1946834 TTTGATTTAG
Statistics
Matches: 56, Mismatches: 15, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
23 5 0.09
24 46 0.82
25 5 0.09
ACGTcount: A:0.22, C:0.14, G:0.16, T:0.47
Consensus pattern (24 bp):
TCTGATATCTGATCTGAATTCTGT
Found at i:1947014 original size:2 final size:2
Alignment explanation
Indices: 1947007--1947053 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
1946997 CGGATGGGGG
1947007 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1947049 TA TA T
1 TA TA T
1947054 GTTTTAAAAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1952079 original size:13 final size:13
Alignment explanation
Indices: 1952061--1952085 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1952051 ATAGGACTTC
1952061 GTTCCTGGAATCT
1 GTTCCTGGAATCT
1952074 GTTCCTGGAATC
1 GTTCCTGGAATC
1952086 CAATCAAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (13 bp):
GTTCCTGGAATCT
Found at i:1960618 original size:27 final size:27
Alignment explanation
Indices: 1960564--1960619 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
1960554 TATATCATTT
*
1960564 TACACATATTCACATAATTAACATACA
1 TACACATATTCACATAATTAACAAACA
* *
1960591 TACATATATTCACAT-ATATCACAAACA
1 TACACATATTCACATAAT-TAACAAACA
1960618 TA
1 TA
1960620 GTGATGCACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.08
27 23 0.92
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.30
Consensus pattern (27 bp):
TACACATATTCACATAATTAACAAACA
Found at i:1961128 original size:20 final size:21
Alignment explanation
Indices: 1961068--1961142 Score: 59
Period size: 21 Copynumber: 3.5 Consensus size: 21
1961058 GTTCCCCCAT
1961068 GTATCGATACCCTCCA--CATAG
1 GTATCGATA-CCT-CATTCATAG
*
1961089 GTATCGATACCTCTTTCATAGG
1 GTATCGATACCTCATTCATA-G
1961111 GTATCGATA-CT-ATTCATACAG
1 GTATCGATACCTCATTCAT--AG
*
1961132 GTACCGATACC
1 GTATCGATACC
1961143 CCTTGCATCA
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
19 1 0.02
20 8 0.18
21 24 0.53
22 12 0.27
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (21 bp):
GTATCGATACCTCATTCATAG
Found at i:1962715 original size:21 final size:21
Alignment explanation
Indices: 1962689--1962733 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
1962679 GTGTAATCCC
1962689 CTTGTTTCAAATTCAGAAATT
1 CTTGTTTCAAATTCAGAAATT
1962710 CTTGTTTCAAATTCAGAAATT
1 CTTGTTTCAAATTCAGAAATT
1962731 CTT
1 CTT
1962734 TTTTTCATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.44
Consensus pattern (21 bp):
CTTGTTTCAAATTCAGAAATT
Found at i:1964126 original size:21 final size:21
Alignment explanation
Indices: 1964102--1964163 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
1964092 ACCAAATAAG
*
1964102 TGTTCCGAAGTACCACATATA
1 TGTTCCGAAGAACCACATATA
**
1964123 TGTTCC-ATAGAATTACATATA
1 TGTTCCGA-AGAACCACATATA
* *
1964144 TGTCCCGAAGGACCACATAT
1 TGTTCCGAAGAACCACATAT
1964164 GACCCTCGAC
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.29
Consensus pattern (21 bp):
TGTTCCGAAGAACCACATATA
Found at i:1967286 original size:44 final size:45
Alignment explanation
Indices: 1967218--1967316 Score: 132
Period size: 44 Copynumber: 2.3 Consensus size: 45
1967208 AACTCAACGA
* * * **
1967218 TATC-GATACCCTTCAAGGATTATCGATACTACTATGTGTAGTAG
1 TATCAGATACCATCCAAGGAGTATCGATACTACTATGTAAAGTAG
1967262 TAT-AGATACCATCCAAGGAGTATCGATACTACTATGTAAAGTAG
1 TATCAGATACCATCCAAGGAGTATCGATACTACTATGTAAAGTAG
1967306 TATCA-ATACCA
1 TATCAGATACCA
1967317 ATCATGGTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
44 47 0.98
45 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.30
Consensus pattern (45 bp):
TATCAGATACCATCCAAGGAGTATCGATACTACTATGTAAAGTAG
Found at i:1967309 original size:24 final size:24
Alignment explanation
Indices: 1967238--1967314 Score: 63
Period size: 24 Copynumber: 3.4 Consensus size: 24
1967228 CTTCAAGGAT
**
1967238 TATCGATACTACTATGTGTAGTAG
1 TATCGATACTACTATGTAAAGTAG
* ** *
1967262 TATAGATAC--C-AT-CCAAGGAG
1 TATCGATACTACTATGTAAAGTAG
1967282 TATCGATACTACTATGTAAAGTAG
1 TATCGATACTACTATGTAAAGTAG
*
1967306 TATCAATAC
1 TATCGATAC
1967315 CAATCATGGT
Statistics
Matches: 39, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
20 12 0.31
21 2 0.05
22 2 0.05
23 2 0.05
24 21 0.54
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (24 bp):
TATCGATACTACTATGTAAAGTAG
Found at i:1968548 original size:31 final size:30
Alignment explanation
Indices: 1968513--1968596 Score: 89
Period size: 32 Copynumber: 2.7 Consensus size: 30
1968503 GAGTACCTTA
* *
1968513 GGGCCTGAGAGCCTACCCAAGAAAATTCTTG
1 GGGCC-GAGAGCCTACCCAAGAAAAATCTCG
*
1968544 GGGCC-ACGGAGGCTTACCCAAGAAAAATCTCG
1 GGGCCGA--GA-GCCTACCCAAGAAAAATCTCG
1968576 GGGCCGCAGAGCCTACCCAAG
1 GGGCCG-AGAGCCTACCCAAG
1968597 GGTCACATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
29 1 0.02
31 17 0.39
32 25 0.57
34 1 0.02
ACGTcount: A:0.29, C:0.30, G:0.29, T:0.13
Consensus pattern (30 bp):
GGGCCGAGAGCCTACCCAAGAAAAATCTCG
Found at i:1968955 original size:13 final size:13
Alignment explanation
Indices: 1968927--1968967 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
1968917 TGCAATTGAG
* *
1968927 ATTTCAAACAGAT
1 ATTTAAAACAGTT
*
1968940 ATTTAAAATAGTT
1 ATTTAAAACAGTT
1968953 ATTTAAAACAGTT
1 ATTTAAAACAGTT
1968966 AT
1 AT
1968968 ATTGCCCCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAAAACAGTT
Found at i:1974058 original size:2 final size:2
Alignment explanation
Indices: 1974051--1974082 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1974041 CAAACCAAAC
1974051 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1974083 TAAGATTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1975299 original size:23 final size:22
Alignment explanation
Indices: 1975270--1975350 Score: 83
Period size: 23 Copynumber: 3.6 Consensus size: 22
1975260 ACATGACCTT
1975270 GTGCATCGATGCACATTCAATG
1 GTGCATCGATGCACATTCAATG
* *
1975292 AGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAATG
* * *
1975314 GTGTATCGATGTACATTCAAAGG
1 GTGCATCGATGCACATTC-AATG
1975337 GATGCATCGATGCA
1 G-TGCATCGATGCA
1975351 ATGTTAAGTG
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
21 14 0.30
22 3 0.07
23 19 0.41
24 10 0.22
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAATG
Found at i:1979192 original size:21 final size:20
Alignment explanation
Indices: 1979158--1979210 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
1979148 TGAGAATTTT
*
1979158 TCATTTTTCA-ATTTTGAAATA
1 TCATTTTT-ATATTTT-AAAAA
1979179 TCATTTTTATATTTTAAAAA
1 TCATTTTTATATTTTAAAAA
*
1979199 TAATTTCTTATA
1 TCATTT-TTATA
1979211 ATCCGAAGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 10 0.36
21 18 0.64
ACGTcount: A:0.36, C:0.08, G:0.02, T:0.55
Consensus pattern (20 bp):
TCATTTTTATATTTTAAAAA
Found at i:1979200 original size:22 final size:21
Alignment explanation
Indices: 1979158--1979197 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1979148 TGAGAATTTT
*
1979158 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTAAAATA
1979179 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
1979198 ATAATTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAATA
Found at i:1981209 original size:45 final size:45
Alignment explanation
Indices: 1981140--1981242 Score: 147
Period size: 45 Copynumber: 2.3 Consensus size: 45
1981130 GGTGCACTAA
* * *
1981140 GAGTGCATCGATGCATGAAGTGCATTCGATG-TTTCA-AACAAGCCT
1 GAGTGCATCGATGCATAAAATGCATTCAATGTTTTCATAA-AA-CCT
1981185 GAGTGCATCGATGCATAAAATGCATTCAATGTTTTCATAAAACCT
1 GAGTGCATCGATGCATAAAATGCATTCAATGTTTTCATAAAACCT
1981230 GAGTGCATCGATG
1 GAGTGCATCGATG
1981243 AATGGTATGT
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
45 44 0.83
46 7 0.13
47 2 0.04
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (45 bp):
GAGTGCATCGATGCATAAAATGCATTCAATGTTTTCATAAAACCT
Found at i:1982842 original size:35 final size:35
Alignment explanation
Indices: 1982742--1982842 Score: 130
Period size: 35 Copynumber: 2.9 Consensus size: 35
1982732 CAATTAGTGT
* ** *
1982742 ATCGATGAACCCTGCTGTGCATCCATGCACCGTGC
1 ATCGATGCACCCTGCTGTGCATCCATGCACTATAC
* * * *
1982777 ATCGATGCATCATGCTATGCATCTATGCACTATAC
1 ATCGATGCACCCTGCTGTGCATCCATGCACTATAC
1982812 ATCGATGCACCCTGCTGTGCATCCATGCACT
1 ATCGATGCACCCTGCTGTGCATCCATGCACT
1982843 CTGGTTCCAA
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 54 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.27
Consensus pattern (35 bp):
ATCGATGCACCCTGCTGTGCATCCATGCACTATAC
Found at i:1982986 original size:21 final size:21
Alignment explanation
Indices: 1982953--1982992 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
1982943 TTATTATAGA
*
1982953 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
1982975 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
1982993 ATATACGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:1983245 original size:34 final size:33
Alignment explanation
Indices: 1983206--1983276 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 33
1983196 TTTTGTAAAG
*
1983206 GGGAAAGGTTCTAGTTAAGCCCATGT-AAAAGCTA
1 GGGAAAGGTTCTAGTTAAG-CCAT-TAAAAAACTA
*
1983240 GGGAAAGGTTCTAGTTTAGCCATTAAAAAACTA
1 GGGAAAGGTTCTAGTTAAGCCATTAAAAAACTA
1983273 GGGA
1 GGGA
1983277 GTTGTAAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
32 1 0.03
33 15 0.44
34 18 0.53
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.24
Consensus pattern (33 bp):
GGGAAAGGTTCTAGTTAAGCCATTAAAAAACTA
Found at i:1986191 original size:20 final size:18
Alignment explanation
Indices: 1986166--1986262 Score: 62
Period size: 20 Copynumber: 5.4 Consensus size: 18
1986156 AATGCAATTA
1986166 GTGCATCGATACATCCTGTT
1 GTGCATCGATACA-CCT-TT
* *
1986186 GTGCATCCATGCA-C--T
1 GTGCATCGATACACCTTT
*
1986201 GTGCATCGATGCACCCTCTT
1 GTGCATCGATACA-CCT-TT
*
1986221 GTGCATCCATACA-C--T
1 GTGCATCGATACACCTTT
1986236 GTGCATCGATACACCCTGTT
1 GTGCATCGATACA-CCT-TT
1986256 GTGCATC
1 GTGCATC
1986263 CATGCACTGT
Statistics
Matches: 61, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
15 26 0.43
17 2 0.03
18 2 0.03
20 31 0.51
ACGTcount: A:0.20, C:0.31, G:0.20, T:0.30
Consensus pattern (18 bp):
GTGCATCGATACACCTTT
Found at i:1986205 original size:15 final size:15
Alignment explanation
Indices: 1986185--1986242 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 15
1986175 TACATCCTGT
1986185 TGTGCATCCATGCAC
1 TGTGCATCCATGCAC
*
1986200 TGTGCATCGATGCACCCTC
1 TGTGCATCCATGCA----C
*
1986219 TTGTGCATCCATACAC
1 -TGTGCATCCATGCAC
1986235 TGTGCATC
1 TGTGCATC
1986243 GATACACCCT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
15 21 0.60
16 1 0.03
19 1 0.03
20 12 0.34
ACGTcount: A:0.19, C:0.33, G:0.19, T:0.29
Consensus pattern (15 bp):
TGTGCATCCATGCAC
Found at i:1986205 original size:35 final size:35
Alignment explanation
Indices: 1986166--1986305 Score: 199
Period size: 35 Copynumber: 4.0 Consensus size: 35
1986156 AATGCAATTA
*
1986166 GTGCATCGATACATCCTGTTGTGCATCCATGCACT
1 GTGCATCGATACACCCTGTTGTGCATCCATGCACT
* * *
1986201 GTGCATCGATGCACCCTCTTGTGCATCCATACACT
1 GTGCATCGATACACCCTGTTGTGCATCCATGCACT
1986236 GTGCATCGATACACCCTGTTGTGCATCCATGCACT
1 GTGCATCGATACACCCTGTTGTGCATCCATGCACT
* * * **
1986271 GTACATTGATGCACCCTACTGTGCATCCATGCACT
1 GTGCATCGATACACCCTGTTGTGCATCCATGCACT
1986306 ATGGTTGCAA
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 93 1.00
ACGTcount: A:0.21, C:0.31, G:0.19, T:0.29
Consensus pattern (35 bp):
GTGCATCGATACACCCTGTTGTGCATCCATGCACT
Found at i:1986247 original size:15 final size:15
Alignment explanation
Indices: 1986220--1986249 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1986210 TGCACCCTCT
1986220 TGTGCATCCATACAC
1 TGTGCATCCATACAC
*
1986235 TGTGCATCGATACAC
1 TGTGCATCCATACAC
1986250 CCTGTTGTGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.27
Consensus pattern (15 bp):
TGTGCATCCATACAC
Found at i:1986254 original size:70 final size:70
Alignment explanation
Indices: 1986166--1986305 Score: 228
Period size: 70 Copynumber: 2.0 Consensus size: 70
1986156 AATGCAATTA
* *
1986166 GTGCATCGATACATCCTGTTGTGCATCCATGCACTGTGCATCGATGCACCCT-CTTGTGCATCCA
1 GTGCATCGATACACCCTGTTGTGCATCCATGCACTGTACATCGATGCACCCTAC-TGTGCATCCA
1986230 TACACT
65 TACACT
*
1986236 GTGCATCGATACACCCTGTTGTGCATCCATGCACTGTACATTGATGCACCCTACTGTGCATCCAT
1 GTGCATCGATACACCCTGTTGTGCATCCATGCACTGTACATCGATGCACCCTACTGTGCATCCAT
*
1986301 GCACT
66 ACACT
1986306 ATGGTTGCAA
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
70 64 0.98
71 1 0.02
ACGTcount: A:0.21, C:0.31, G:0.19, T:0.29
Consensus pattern (70 bp):
GTGCATCGATACACCCTGTTGTGCATCCATGCACTGTACATCGATGCACCCTACTGTGCATCCAT
ACACT
Found at i:1986302 original size:20 final size:20
Alignment explanation
Indices: 1986198--1986304 Score: 56
Period size: 20 Copynumber: 5.8 Consensus size: 20
1986188 GCATCCATGC
*
1986198 ACTGTGCATCGATGCACCCT
1 ACTGTGCATCCATGCACCCT
1986218 -CTTGTGCATCCAT--A--C-
1 AC-TGTGCATCCATGCACCCT
* *
1986233 ACTGTGCATCGATACACCCT
1 ACTGTGCATCCATGCACCCT
**
1986253 GTTGTGCATCCATG----C-
1 ACTGTGCATCCATGCACCCT
* **
1986268 ACTGTACATTGATGCACCCT
1 ACTGTGCATCCATGCACCCT
1986288 ACTGTGCATCCATGCAC
1 ACTGTGCATCCATGCAC
1986305 TATGGTTGCA
Statistics
Matches: 61, Mismatches: 14, Indels: 24
0.62 0.14 0.24
Matches are distributed among these distances:
15 19 0.31
16 3 0.05
17 1 0.02
18 1 0.02
19 3 0.05
20 34 0.56
ACGTcount: A:0.21, C:0.33, G:0.18, T:0.28
Consensus pattern (20 bp):
ACTGTGCATCCATGCACCCT
Found at i:1987098 original size:16 final size:16
Alignment explanation
Indices: 1987067--1987114 Score: 78
Period size: 16 Copynumber: 2.9 Consensus size: 16
1987057 AATTTGAATT
1987067 TCTGGATCAAAGTCAAC
1 TCTGG-TCAAAGTCAAC
*
1987084 TCTGGTCACAGTCAAC
1 TCTGGTCAAAGTCAAC
1987100 TCTGGTCAAAGTCAA
1 TCTGGTCAAAGTCAA
1987115 TGGGTCAGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 24 0.83
17 5 0.17
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (16 bp):
TCTGGTCAAAGTCAAC
Found at i:1993082 original size:21 final size:21
Alignment explanation
Indices: 1993058--1993110 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
1993048 GCTTCATGTA
*
1993058 GTATCGATACCACATGAATGG
1 GTATAGATACCACATGAATGG
1993079 GTATAGATACCACATGAATGG
1 GTATAGATACCACATGAATGG
1993100 GTATAGATACC
1 GTATAGATACC
1993111 CTTTATGTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (21 bp):
GTATAGATACCACATGAATGG
Found at i:1993151 original size:24 final size:21
Alignment explanation
Indices: 1993117--1993173 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 21
1993107 TACCCTTTAT
*
1993117 GTAGTATCGATACCATAGGCAAAG
1 GTAGTACCGATACC-TA-GC-AAG
*
1993141 GTAGTACCGATA-CTATCAAG
1 GTAGTACCGATACCTAGCAAG
1993161 GTAGTACCGATAC
1 GTAGTACCGATAC
1993174 TACCATAGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 15 0.50
21 1 0.03
22 2 0.07
23 1 0.03
24 11 0.37
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (21 bp):
GTAGTACCGATACCTAGCAAG
Found at i:1993163 original size:20 final size:20
Alignment explanation
Indices: 1993138--1993175 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1993128 ACCATAGGCA
1993138 AAGGTAGTACCGATACTATC
1 AAGGTAGTACCGATACTATC
1993158 AAGGTAGTACCGATACTA
1 AAGGTAGTACCGATACTA
1993176 CCATAGAGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (20 bp):
AAGGTAGTACCGATACTATC
Found at i:1993665 original size:33 final size:33
Alignment explanation
Indices: 1993628--1993697 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
1993618 TTTTGTAAAG
*
1993628 GGGAAAGATTCTAGCTTAGCCCGTGAA-AAGCTA
1 GGGAAAGATTCTAACTTAGCCCGTGAATAA-CTA
* *
1993661 GGGAAAGGTTCTAATTTAGCCCGTGAATAACTA
1 GGGAAAGATTCTAACTTAGCCCGTGAATAACTA
1993694 GGGA
1 GGGA
1993698 GTTTGTAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 31 0.94
34 2 0.06
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.23
Consensus pattern (33 bp):
GGGAAAGATTCTAACTTAGCCCGTGAATAACTA
Found at i:1995368 original size:89 final size:89
Alignment explanation
Indices: 1995255--1995457 Score: 336
Period size: 89 Copynumber: 2.3 Consensus size: 89
1995245 CATTTCTTAT
* *
1995255 CAATCTACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTC
1 CAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTC
1995320 CATAAGCTCGTAAGCTTATTTTAC
66 CATAAGCTCGTAAGCTTATTTTAC
* *
1995344 CAATATACTTACCATTTGTTCCATAAGCTCGTAATCTTATTTTACCAATATACTTACCATTATTC
1 CAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTC
*
1995409 CATAAGCTTGTAAGCTTATTTTAC
66 CATAAGCTCGTAAGCTTATTTTAC
* *
1995433 CAATACACTTGCCA-TTATTCCATAA
1 CAATATACTTACCATTTATTCCATAA
1995458 ACCATATTCC
Statistics
Matches: 106, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
88 10 0.09
89 96 0.91
ACGTcount: A:0.31, C:0.24, G:0.06, T:0.39
Consensus pattern (89 bp):
CAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTC
CATAAGCTCGTAAGCTTATTTTAC
Found at i:1995383 original size:45 final size:44
Alignment explanation
Indices: 1995255--1995457 Score: 325
Period size: 44 Copynumber: 4.6 Consensus size: 44
1995245 CATTTCTTAT
* *
1995255 CAATCTACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTAC
1995300 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
* *
1995344 CAATATACTTACCATTTGTTCCATAAGCTCGTAATCTTATTTTAC
1 CAATATACTTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTAC
*
1995389 CAATATACTTACCATTATTCCATAAGCTTGTAAGCTTATTTTAC
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
* *
1995433 CAATACACTTGCCATTATTCCATAA
1 CAATATACTTACCATTATTCCATAA
1995458 ACCATATTCC
Statistics
Matches: 148, Mismatches: 9, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
44 93 0.63
45 55 0.37
ACGTcount: A:0.31, C:0.24, G:0.06, T:0.39
Consensus pattern (44 bp):
CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
Found at i:2005218 original size:45 final size:46
Alignment explanation
Indices: 2005131--2005220 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 46
2005121 TGAAAAAGCT
* *
2005131 TGAGTGCATCGATGCATGGTCTTGTGCATCGATGCATCAAATGCAC
1 TGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCAC
2005177 TGAGTGCATCGATGCATGGT-ATGTGCATCGATGCATAAAATGCA
1 TGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
2005221 TTAGATGTTC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
45 22 0.52
46 20 0.48
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (46 bp):
TGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCAC
Found at i:2006286 original size:15 final size:15
Alignment explanation
Indices: 2006263--2006294 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2006253 GGAGGCACTT
*
2006263 GATCCTGATGAGAAC
1 GATCATGATGAGAAC
2006278 GATCATGATGAGAAC
1 GATCATGATGAGAAC
2006293 GA
1 GA
2006295 AGGGTACTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.16, G:0.28, T:0.19
Consensus pattern (15 bp):
GATCATGATGAGAAC
Found at i:2012893 original size:45 final size:45
Alignment explanation
Indices: 2012804--2012893 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 45
2012794 TTGAAAAAGC
* * **
2012804 CTGAGTGCATCGATGCATGGTCATGTGTATCGATGCATCCATGCA
1 CTGAGTGCATCGATGCATGGTCATGTGCATCAATGCATAAATGCA
2012849 CTGAGTGCATCGATGCATGGT-ATGTGCATCAATGCATAAAATGCA
1 CTGAGTGCATCGATGCATGGTCATGTGCATCAATGCAT-AAATGCA
2012894 TTCGATGTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 14 0.35
45 26 0.65
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.28
Consensus pattern (45 bp):
CTGAGTGCATCGATGCATGGTCATGTGCATCAATGCATAAATGCA
Found at i:2015403 original size:33 final size:33
Alignment explanation
Indices: 2015361--2015427 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
2015351 TGTAAAGTGT
*
2015361 AAAGGTTCTAGCTGAGCCCGTGAAAAGCTAGGG
1 AAAGGTTCTAGCTGAGCCCGTGAAAAACTAGGG
* *
2015394 AAAGGTTCTAGTTTAGCCCGTGAAAAACTAGGG
1 AAAGGTTCTAGCTGAGCCCGTGAAAAACTAGGG
2015427 A
1 A
2015428 GTTTGTAAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (33 bp):
AAAGGTTCTAGCTGAGCCCGTGAAAAACTAGGG
Found at i:2016691 original size:21 final size:21
Alignment explanation
Indices: 2016665--2016776 Score: 92
Period size: 21 Copynumber: 5.4 Consensus size: 21
2016655 ATTTTGGACT
2016665 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* *
2016686 ATCGCAACGCGAACTTGGACT--
1 ATCGCAA--CGAATTTGGAATAA
*
2016707 ATCGCAACAAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* * *
2016728 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
2016749 ATCGCAACGAATTTGG-A-AA
1 ATCGCAACGAATTTGGAATAA
2016768 ATCGCAACG
1 ATCGCAACG
2016777 CGAACTCCGA
Statistics
Matches: 71, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
19 25 0.35
21 28 0.39
23 18 0.25
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.21
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATAA
Found at i:2016720 original size:42 final size:42
Alignment explanation
Indices: 2016661--2016797 Score: 233
Period size: 42 Copynumber: 3.3 Consensus size: 42
2016651 TGCGATTTTG
*
2016661 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
2016703 GACTATCGCAACAAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
2016745 GACTATCGCAACGAATTTGG-A-AAATCGCAACGCGAACTCC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
2016785 GACTATCGCAACG
1 GACTATCGCAACG
2016798 CGAACTTCGA
Statistics
Matches: 91, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
40 31 0.34
41 1 0.01
42 59 0.65
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:2016774 original size:61 final size:62
Alignment explanation
Indices: 2016728--2016860 Score: 162
Period size: 61 Copynumber: 2.1 Consensus size: 62
2016718 TTTGGAATAA
* * *
2016728 ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGG-A-AAATCGCAACGCGAACTCCGACT
1 ATCGCAACGCGAACTTCGACTATCGCAACAAATTTGGAATAAATCGCAAC-CAAACTCCGAAT
* * * * *
2016789 ATCGCAACGCGAACTTCGACTATCGTAACAAATTTGGAATAAATCGCAAATCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACTATCGCAACAAATTTGGAATAAATCGC-AACCAAACTCCGAAT
2016852 ATCGCAACG
1 ATCGCAACG
2016861 AATTTGGAAA
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
61 35 0.54
62 1 0.02
63 27 0.42
64 2 0.03
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (62 bp):
ATCGCAACGCGAACTTCGACTATCGCAACAAATTTGGAATAAATCGCAACCAAACTCCGAAT
Found at i:2016792 original size:21 final size:21
Alignment explanation
Indices: 2016686--2016904 Score: 148
Period size: 21 Copynumber: 10.6 Consensus size: 21
2016676 TTTGGAATAA
*
2016686 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTCGACT
* * * *
2016707 ATCGCAA--CAAATTTGGAAT
1 ATCGCAACGCGAACTTCGACT
2016726 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTCGACT
* * **
2016749 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTCGACT
*
2016768 ATCGCAACGCGAACTCCGACT
1 ATCGCAACGCGAACTTCGACT
2016789 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* * * * *
2016810 ATCGTAA--CAAATTTGGAAT
1 ATCGCAACGCGAACTTCGACT
**
2016829 AAATCGCAAATCGAACTTCGACT
1 --ATCGCAACGCGAACTTCGACT
* * **
2016852 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTCGACT
*
2016871 ATCGCAACACGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
2016892 ATCGCAACGCGAA
1 ATCGCAACGCGAA
2016905 TATGTAAATC
Statistics
Matches: 150, Mismatches: 36, Indels: 24
0.71 0.17 0.11
Matches are distributed among these distances:
19 47 0.31
21 87 0.58
23 16 0.11
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:2016836 original size:103 final size:103
Alignment explanation
Indices: 2016686--2016904 Score: 384
Period size: 103 Copynumber: 2.1 Consensus size: 103
2016676 TTTGGAATAA
* *
2016686 ATCGCAACGCGAACTTGGACTATCGCAACAAATTTGGAATAAATCGCAACGCGAACTTCGACTAT
1 ATCGCAACGCGAACTTCGACTATCGCAACAAATTTGGAATAAATCGCAAAGCGAACTTCGACTAT
*
2016751 CGCAACGAATTTGGAAAATCGCAACGCGAACTCCGACT
66 CGCAACGAATTTGGAAAATCGCAACACGAACTCCGACT
* *
2016789 ATCGCAACGCGAACTTCGACTATCGTAACAAATTTGGAATAAATCGCAAATCGAACTTCGACTAT
1 ATCGCAACGCGAACTTCGACTATCGCAACAAATTTGGAATAAATCGCAAAGCGAACTTCGACTAT
*
2016854 CGCAACGAATTTGGAAAATCGCAACACGAACTTCGACT
66 CGCAACGAATTTGGAAAATCGCAACACGAACTCCGACT
2016892 ATCGCAACGCGAA
1 ATCGCAACGCGAA
2016905 TATGTAAATC
Statistics
Matches: 110, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (103 bp):
ATCGCAACGCGAACTTCGACTATCGCAACAAATTTGGAATAAATCGCAAAGCGAACTTCGACTAT
CGCAACGAATTTGGAAAATCGCAACACGAACTCCGACT
Found at i:2016905 original size:42 final size:42
Alignment explanation
Indices: 2016789--2016900 Score: 167
Period size: 42 Copynumber: 2.7 Consensus size: 42
2016779 AACTCCGACT
* * *
2016789 ATCGCAACGCGAACTTCGACTATCGTAACAAATTTGGAATAA
1 ATCGCAACACGAACTTCGACTATCGCAACGAATTTGGAATAA
2016831 ATCGCAA-ATCGAACTTCGACTATCGCAACGAATTTGG-A-AA
1 ATCGCAACA-CGAACTTCGACTATCGCAACGAATTTGGAATAA
2016871 ATCGCAACACGAACTTCGACTATCGCAACG
1 ATCGCAACACGAACTTCGACTATCGCAACG
2016901 CGAATATGTA
Statistics
Matches: 65, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
40 30 0.46
41 2 0.03
42 33 0.51
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (42 bp):
ATCGCAACACGAACTTCGACTATCGCAACGAATTTGGAATAA
Found at i:2016939 original size:21 final size:21
Alignment explanation
Indices: 2016913--2016965 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
2016903 AATATGTAAA
2016913 TCGCGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCGAAGT
*
2016934 TTGCGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCGAAGT
2016955 TCGCGTTGCGA
1 TCGCGTTGCGA
2016966 ATCTGGAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.17, C:0.19, G:0.34, T:0.30
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCGAAGT
Found at i:2022995 original size:28 final size:28
Alignment explanation
Indices: 2022937--2022997 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
2022927 AATACATGAT
*
2022937 TAAAAATAACAAAAATACCCCTATAGGG
1 TAAAAATAACAAAAATACCCCGATAGGG
* * *
2022965 TAAAAATGACCAAAATACCCTCGA-AGTG
1 TAAAAATAACAAAAATACCC-CGATAGGG
2022993 TAAAA
1 TAAAA
2022998 TTACTATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 26 0.93
29 2 0.07
ACGTcount: A:0.52, C:0.18, G:0.11, T:0.18
Consensus pattern (28 bp):
TAAAAATAACAAAAATACCCCGATAGGG
Found at i:2028131 original size:18 final size:18
Alignment explanation
Indices: 2028107--2028157 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
2028097 GACCAGTTAC
2028107 AACCCGACCCAACCCGTT
1 AACCCGACCCAACCCGTT
* **
2028125 GACCCGACCTGACCCGTT
1 AACCCGACCCAACCCGTT
*
2028143 AACCCAACCCAACCC
1 AACCCGACCCAACCC
2028158 ACTGACTCGA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.27, C:0.51, G:0.12, T:0.10
Consensus pattern (18 bp):
AACCCGACCCAACCCGTT
Found at i:2028201 original size:15 final size:16
Alignment explanation
Indices: 2028181--2028214 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
2028171 TTTGCCCGAC
2028181 CCGTTGACC-CGTTGA
1 CCGTTGACCGCGTTGA
2028196 CCGTTGACCGGCGTTGA
1 CCGTTGACC-GCGTTGA
2028213 CC
1 CC
2028215 ACTGTTGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.12, C:0.35, G:0.29, T:0.24
Consensus pattern (16 bp):
CCGTTGACCGCGTTGA
Found at i:2033146 original size:22 final size:21
Alignment explanation
Indices: 2033085--2033208 Score: 137
Period size: 22 Copynumber: 5.8 Consensus size: 21
2033075 ATTTTTGTGC
2033085 ATAGAGTATCGATACCCC-TGA
1 ATAG-GTATCGATACCCCTTGA
*
2033106 TACAGGTATCGATACCCCCTTTGA
1 -ATAGGTATCGATA-CCCC-TTGA
2033130 ATAGGTATCGATACCCCTTGA
1 ATAGGTATCGATACCCCTTGA
* *
2033151 ATAGGTATTGTTACCCCCTTGA
1 ATAGGTATCGATA-CCCCTTGA
2033173 ATAGGTATCGATACCCCCTTG-
1 ATAGGTATCGATA-CCCCTTGA
*
2033194 AT-GTTATCGATACCC
1 ATAGGTATCGATACCC
2033209 TATGTCGGGT
Statistics
Matches: 91, Mismatches: 7, Indels: 11
0.83 0.06 0.10
Matches are distributed among these distances:
19 3 0.03
20 9 0.10
21 26 0.29
22 38 0.42
23 12 0.13
24 3 0.03
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (21 bp):
ATAGGTATCGATACCCCTTGA
Found at i:2033157 original size:44 final size:43
Alignment explanation
Indices: 2033085--2033208 Score: 155
Period size: 44 Copynumber: 2.9 Consensus size: 43
2033075 ATTTTTGTGC
*
2033085 ATAGAGTATCGATACCCC-TGATACAGGTATCGATACCCCCTTTGA
1 ATAG-GTATCGATACCCCTTGA-ATAGGTATCGATACCCCC-TTGA
* *
2033130 ATAGGTATCGATACCCCTTGAATAGGTATTGTTACCCCCTTGA
1 ATAGGTATCGATACCCCTTGAATAGGTATCGATACCCCCTTGA
*
2033173 ATAGGTATCGATACCCCCTTG-AT-GTTATCGATACCC
1 ATAGGTATCGATA-CCCCTTGAATAGGTATCGATACCC
2033209 TATGTCGGGT
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
42 10 0.14
43 19 0.27
44 35 0.49
45 7 0.10
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (43 bp):
ATAGGTATCGATACCCCTTGAATAGGTATCGATACCCCCTTGA
Found at i:2035578 original size:14 final size:14
Alignment explanation
Indices: 2035559--2035588 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2035549 TGTTATAGTA
2035559 AGGGGGAGTATTTT
1 AGGGGGAGTATTTT
2035573 AGGGGGAGTATTTT
1 AGGGGGAGTATTTT
2035587 AG
1 AG
2035589 AAAATCATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.43, T:0.33
Consensus pattern (14 bp):
AGGGGGAGTATTTT
Found at i:2036852 original size:35 final size:34
Alignment explanation
Indices: 2036744--2036858 Score: 108
Period size: 35 Copynumber: 3.3 Consensus size: 34
2036734 ACAAACTGAC
* *
2036744 AATTCCTTATATAGGTTCAGACCGA-CGTAACTGGT
1 AATTCCTTATATATGTTCA-ACCGATCG-AATTGGT
** * *
2036779 AATTCCTTATGGCATGTTCAACTCAATCAAACTT-GT
1 AATTCCTTAT-ATATGTTCAAC-CGATCGAA-TTGGT
2036815 AATTCCTTATATATGTTCATACCGATCGAATTGGT
1 AATTCCTTATATATGTTCA-ACCGATCGAATTGGT
2036850 AATTCCTTA
1 AATTCCTTA
2036859 CAGATCTAAG
Statistics
Matches: 64, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
34 2 0.03
35 36 0.56
36 24 0.38
37 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.37
Consensus pattern (34 bp):
AATTCCTTATATATGTTCAACCGATCGAATTGGT
Found at i:2043465 original size:22 final size:21
Alignment explanation
Indices: 2043423--2043462 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2043413 GAGTTTATTT
*
2043423 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
2043444 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
2043463 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:2049516 original size:81 final size:82
Alignment explanation
Indices: 2049377--2049531 Score: 186
Period size: 81 Copynumber: 1.9 Consensus size: 82
2049367 TAGTGTTTTT
* * * * ** * *
2049377 ATACAAACGTCGCTAAAGATTCGTACTTTAGTGGTATTTTTATGTAAACGCCATTAAATATTGTA
1 ATACAAACGCCGCTAAAGACTCGTACTTTAGTGATATTTTTATATAAAAACCACTAAATATTATA
2049442 CTTTAATGACGTTTTAA
66 CTTTAATGACGTTTTAA
* * * *
2049459 ATACAATCGCCGCTAAATACTCTTACTTTAGTGAT-TTTTTATATAAAAACCGCTAAATATTATA
1 ATACAAACGCCGCTAAAGACTCGTACTTTAGTGATATTTTTATATAAAAACCACTAAATATTATA
*
2049523 TTTTAATGA
66 CTTTAATGA
2049532 TATTTTTATA
Statistics
Matches: 60, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
81 31 0.52
82 29 0.48
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (82 bp):
ATACAAACGCCGCTAAAGACTCGTACTTTAGTGATATTTTTATATAAAAACCACTAAATATTATA
CTTTAATGACGTTTTAA
Found at i:2049538 original size:40 final size:39
Alignment explanation
Indices: 2049468--2049590 Score: 131
Period size: 40 Copynumber: 3.1 Consensus size: 39
2049458 AATACAATCG
* *
2049468 CCGCTAAATACTCT-TACTTTAGTGATTTTTTATATAAAAA
1 CCGCTAAATA-T-TATATTTTAGTGATTTTTTATACAAAAA
* *
2049508 CCGCTAAATATTATATTTTAATGATATTTTTATACAAAAG
1 CCGCTAAATATTATATTTTAGTGAT-TTTTTATACAAAAA
* * * * *
2049548 CCGGTAAAAATCATATTTTAGTGACTTTTTATACAAATA
1 CCGCTAAATATTATATTTTAGTGATTTTTTATACAAAAA
2049587 CCGC
1 CCGC
2049591 AAAAAATTCA
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
38 1 0.01
39 26 0.38
40 42 0.61
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.40
Consensus pattern (39 bp):
CCGCTAAATATTATATTTTAGTGATTTTTTATACAAAAA
Found at i:2049539 original size:82 final size:78
Alignment explanation
Indices: 2049373--2049604 Score: 185
Period size: 79 Copynumber: 2.9 Consensus size: 78
2049363 TTAGTAGTGT
* * * * * ** **
2049373 TTTTATACAAACGTCGCTAAAGATTCGTACTTTAGTGGTATTTTTATGTAAACGCCATTAAATAT
1 TTTTATACAAACGCCGCTAAA-AATCATACTTTAGTGAT-TTTTTATATAAAAACCGCTAAATAT
* *
2049438 TGTACTTTAATGACG
64 TATACTTTAATGAAG
* * *
2049453 TTTTAAATACAATCGCCGCTAAATACTCTTACTTTAGTGATTTTTTATATAAAAACCGCTAAATA
1 TTTT--ATACAAACGCCGCTAAA-AATCATACTTTAGTGATTTTTTATATAAAAACCGCTAAATA
* *
2049518 TTATATTTTAATGATAT
63 TTATACTTTAATGA-AG
* * * * * * * *
2049535 TTTTATACAAAAGCCGGTAAAAATCATATTTTAGTGACTTTTTATACAAATACCGCAAAAAATTC
1 TTTTATACAAACGCCGCTAAAAATCATACTTTAGTGATTTTTTATATAAAAACCGCTAAATATT-
2049600 ATACT
65 ATACT
2049605 GCAATGACTT
Statistics
Matches: 121, Mismatches: 27, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
79 35 0.29
80 22 0.18
81 31 0.26
82 33 0.27
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.39
Consensus pattern (78 bp):
TTTTATACAAACGCCGCTAAAAATCATACTTTAGTGATTTTTTATATAAAAACCGCTAAATATTA
TACTTTAATGAAG
Found at i:2049581 original size:39 final size:39
Alignment explanation
Indices: 2049485--2049602 Score: 128
Period size: 40 Copynumber: 3.0 Consensus size: 39
2049475 ATACTCTTAC
* * * *
2049485 TTTAGTGATTTTTTATATAAAAACCGCTAAATATTATAT
1 TTTAGTGAATTTTTATACAAAAACCGCTAAAAATCATAT
* * *
2049524 TTTAATGATATTTTTATACAAAAGCCGGTAAAAATCATAT
1 TTTAGTGA-ATTTTTATACAAAAACCGCTAAAAATCATAT
* * *
2049564 TTTAGTGACTTTTTATACAAATACCGCAAAAAATTCATA
1 TTTAGTGAATTTTTATACAAAAACCGCTAAAAA-TCATA
2049603 CTGCAATGAC
Statistics
Matches: 64, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
39 27 0.42
40 37 0.58
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.40
Consensus pattern (39 bp):
TTTAGTGAATTTTTATACAAAAACCGCTAAAAATCATAT
Found at i:2050359 original size:50 final size:54
Alignment explanation
Indices: 2050305--2050413 Score: 120
Period size: 54 Copynumber: 2.1 Consensus size: 54
2050295 TTTTCAATTT
* * *
2050305 TATAAAAAAATTATA-TAA-ATTTTA-T-GAATTTAAAATTTTTAAAGA-AAATA
1 TATAAAAAAATTATAGTAATATTATAGTAGAATTT-AAATTATTAAAAATAAATA
** *
2050355 TATAAATTAATTATAGTAATATTATAGTAGAATTTAACTTATTAAAAATAAATA
1 TATAAAAAAATTATAGTAATATTATAGTAGAATTTAAATTATTAAAAATAAATA
2050409 TATAA
1 TATAA
2050414 TAAGGACAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
50 13 0.27
51 3 0.06
52 5 0.10
53 11 0.23
54 16 0.33
ACGTcount: A:0.54, C:0.01, G:0.05, T:0.40
Consensus pattern (54 bp):
TATAAAAAAATTATAGTAATATTATAGTAGAATTTAAATTATTAAAAATAAATA
Found at i:2050850 original size:17 final size:18
Alignment explanation
Indices: 2050812--2050858 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
2050802 TGTTTCTGAG
2050812 GGAATTGAAATCTGTGAA
1 GGAATTGAAATCTGTGAA
2050830 GGAATTGAAATCTGT-AA
1 GGAATTGAAATCTGTGAA
*
2050847 GGAATTGGAATC
1 GGAATTGAAATC
2050859 CAATTCCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 13 0.46
18 15 0.54
ACGTcount: A:0.38, C:0.06, G:0.28, T:0.28
Consensus pattern (18 bp):
GGAATTGAAATCTGTGAA
Found at i:2051637 original size:263 final size:265
Alignment explanation
Indices: 2051256--2051824 Score: 864
Period size: 263 Copynumber: 2.1 Consensus size: 265
2051246 TCACCCGACC
2051256 CGACCCGAAATAATAAAAAAATTATTTTTATTCAATAAAAACAATGACTTAATTGGAAAAAAATA
1 CGACCCGAAATAATAAAAAAATTATTTTTATTCAATAAAAACAATGACTTAATTGGAAAAAAATA
*
2051321 TATATATAGAGGAGTATTATTGTAATTATTCCTAAATATATAAAGTAAAATTATATATTTTTTCG
66 TATATATAGAGGAGTATTATTGTAATTATTCCTAAATATATAAAGTAAAATTATATATATTTTCG
* *
2051386 GGTCGGGTCGGGTATTTTTCACCCTAAACCCGAACTCGA-CCGGACTCGATTATTACACTTAAAA
131 GGTCGGGTCGGGTATTTTTCACCCTAAACCCGAACTCGATCCGG-CTCGAATATCACACTTAAAA
*
2051450 AAATCCGACCCGACCCGACCAAAATAAAATTTCACCCGACCCGACCTGAATATATGAATTAGAAA
195 AAA-CCGACCCGACCCGACCAAAATAAAATTTCACCCGACCCGACCTGAATATATAAATTAGAAA
2051515 CCTGACT
259 CCTGACT
* *
2051522 CGACCCGAAATAAT-ACAAAATTATTTTTATTCAATAAAAACAGTGACTTAATT-GAAAAAAATT
1 CGACCCGAAATAATAAAAAAATTATTTTTATTCAATAAAAACAATGACTTAATTGGAAAAAAA-T
*
2051585 ATATATATAG-GG-GTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTC
65 ATATATATAGAGGAGTATTATTGTAATTATTCCTAAATATATAAAGTAAAATTATATATATTTTC
*** *
2051648 GGGTCGGGTCGGGTATTTTTCACCCTAAACCCGAACTCGATTTTGCTCGAATATCATACTTAAAA
130 GGGTCGGGTCGGGTATTTTTCACCCTAAACCCGAACTCGATCCGGCTCGAATATCACACTTAAAA
* * *
2051713 AAACCGATCCGACCTGACTAAAATAAAATTTCACCCGACCCGACCTGAATATATAAATTAGAAA-
195 AAACCGACCCGACCCGACCAAAATAAAATTTCACCCGACCCGACCTGAATATATAAATTAGAAAC
*
2051777 CTCGACC
260 CT-GACT
*
2051784 CGACCC-AACCCAAAATAAAAAAAATATATTTTTATTCAATA
1 CGACCCGAA---ATAAT-AAAAAAAT-TATTTTTATTCAATA
2051825 TATGAATAAG
Statistics
Matches: 277, Mismatches: 17, Indels: 17
0.89 0.05 0.05
Matches are distributed among these distances:
261 4 0.01
262 66 0.24
263 109 0.39
264 15 0.05
265 48 0.17
266 20 0.07
267 15 0.05
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (265 bp):
CGACCCGAAATAATAAAAAAATTATTTTTATTCAATAAAAACAATGACTTAATTGGAAAAAAATA
TATATATAGAGGAGTATTATTGTAATTATTCCTAAATATATAAAGTAAAATTATATATATTTTCG
GGTCGGGTCGGGTATTTTTCACCCTAAACCCGAACTCGATCCGGCTCGAATATCACACTTAAAAA
AACCGACCCGACCCGACCAAAATAAAATTTCACCCGACCCGACCTGAATATATAAATTAGAAACC
TGACT
Found at i:2053966 original size:21 final size:21
Alignment explanation
Indices: 2053942--2054000 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
2053932 TGATTTATTA
* *
2053942 TTATGGATTTCAATTTTTTTG
1 TTATGGATTTCAAGTTTGTTG
2053963 TTATGGATTTCAAGTTTGTTG
1 TTATGGATTTCAAGTTTGTTG
* *
2053984 TTATGGCTGTCAAGTTT
1 TTATGGATTTCAAGTTT
2054001 ATTGGATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.19, C:0.07, G:0.20, T:0.54
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTGTTG
Found at i:2054929 original size:32 final size:32
Alignment explanation
Indices: 2054893--2054984 Score: 148
Period size: 32 Copynumber: 2.9 Consensus size: 32
2054883 ACCAAGAGTG
** * *
2054893 TACCTTGGGGTGTAAGAGCCTACCCAATGGAA
1 TACCTTGGGGCCTTAGAGCCTACCCAAGGGAA
2054925 TACCTTGGGGCCTTAGAGCCTACCCAAGGGAA
1 TACCTTGGGGCCTTAGAGCCTACCCAAGGGAA
2054957 TACCTTGGGGCCTTAGAGCCTACCCAAG
1 TACCTTGGGGCCTTAGAGCCTACCCAAG
2054985 TGTCACGTTA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 56 1.00
ACGTcount: A:0.25, C:0.27, G:0.27, T:0.21
Consensus pattern (32 bp):
TACCTTGGGGCCTTAGAGCCTACCCAAGGGAA
Found at i:2061436 original size:15 final size:14
Alignment explanation
Indices: 2061397--2061436 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
2061387 AATAGGCAAA
*
2061397 TTTGAAAACTA-TT
1 TTTGAAAACAATTT
2061410 TTTGAAAACAATTT
1 TTTGAAAACAATTT
2061424 TTTGAAAAGCAAT
1 TTTGAAAA-CAAT
2061437 ATTTAGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 10 0.42
14 10 0.42
15 4 0.17
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.40
Consensus pattern (14 bp):
TTTGAAAACAATTT
Found at i:2061985 original size:44 final size:45
Alignment explanation
Indices: 2061915--2062022 Score: 155
Period size: 44 Copynumber: 2.4 Consensus size: 45
2061905 CGATGCACTG
* * * *
2061915 CATAGTGTATCAATTCATATTTCAAGGAATGCTTCGGTGCACCTT
1 CATAGTGTATCGATACATATTTCAAGGAATGCATCGGTACACCTT
*
2061960 CATAGTGTATCGATACATA-TTCAAGGAATGCATCGGTACACTTT
1 CATAGTGTATCGATACATATTTCAAGGAATGCATCGGTACACCTT
*
2062004 CATAGTGTATCGATGCATA
1 CATAGTGTATCGATACATA
2062023 GTGCACAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 40 0.70
45 17 0.30
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (45 bp):
CATAGTGTATCGATACATATTTCAAGGAATGCATCGGTACACCTT
Found at i:2066096 original size:117 final size:117
Alignment explanation
Indices: 2065876--2066096 Score: 284
Period size: 117 Copynumber: 1.9 Consensus size: 117
2065866 CTTTTAAATC
* * *
2065876 GAAATTTTCTTTTTCAATAATTTCAAATTTTATTTTTGAAAGCTCTAAATCCTTCTTCAAGATTT
1 GAAAATTTCTTTTTCAATAATTTCAAATTTTATTTTTGAAAGCTCCAAATCCTTCTTCAACATTT
* *
2065941 CATTTTGATTTTCAAAATCCATTTTCGTTTCTAGAAGAAGTTTGTTTAATTT
66 CATTTTGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAATTT
* * * * *
2065993 GAAAATTTCTTTTTCAA-AGTTTTTAGATTTTATTTTTGAAAGCTCCAACTCCTTTTTCAACATT
1 GAAAATTTCTTTTTCAATA-ATTTCAAATTTTATTTTTGAAAGCTCCAAATCCTTCTTCAACATT
* * **
2066057 TCATTTTGATTTTCCAAGTCTGTTTTAGCTTTC-AAAAGAA
65 TCATTTTGATTTTCAAAATCCATTTTAG-TTTCTAAAAGAA
2066097 TATCATTTTT
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
116 1 0.01
117 83 0.94
118 4 0.05
ACGTcount: A:0.29, C:0.14, G:0.09, T:0.48
Consensus pattern (117 bp):
GAAAATTTCTTTTTCAATAATTTCAAATTTTATTTTTGAAAGCTCCAAATCCTTCTTCAACATTT
CATTTTGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAATTT
Found at i:2071357 original size:9 final size:9
Alignment explanation
Indices: 2071343--2071678 Score: 155
Period size: 9 Copynumber: 36.1 Consensus size: 9
2071333 TTACTATTAT
2071343 TTTTCTTTA
1 TTTTCTTTA
2071352 TTTTCTTTA
1 TTTTCTTTA
2071361 TTTTATTCATTT-
1 --TT-TTC-TTTA
2071373 TTTCTCTTTA
1 TTT-TCTTTA
2071383 TTTT-TTTA
1 TTTTCTTTA
2071391 -TTT-TTTA
1 TTTTCTTTA
*
2071398 TATCTCTTTA
1 T-TTTCTTTA
*
2071408 TCTTTATTTA
1 T-TTTCTTTA
2071418 -TTTCTTTA
1 TTTTCTTTA
*
2071426 TATTT-TTTCT
1 T-TTTCTTT-A
*
2071436 TTTTCTTAA
1 TTTTCTTTA
2071445 TTTGT-TTTA
1 TTT-TCTTTA
2071454 TTTTCTTTA
1 TTTTCTTTA
*
2071463 TATTTATATT-
1 T-TTTCT-TTA
2071473 TATTT-TTTA
1 T-TTTCTTTA
*
2071482 TTTTATTTTA
1 TTTT-CTTTA
* *
2071492 TTTTATTTT
1 TTTTCTTTA
2071501 TTTATCTTTA
1 TTT-TCTTTA
*
2071511 TCTTTATTTTA
1 T-TTT-CTTTA
*
2071522 TTTTATTTA
1 TTTTCTTTA
* *
2071531 TTTTATTTTC
1 TTTT-CTTTA
2071541 TTTATCTTTA
1 TTT-TCTTTA
*
2071551 TTTTCATTA
1 TTTTCTTTA
2071560 TTTTCTTTA
1 TTTTCTTTA
*
2071569 -CTT-TTTA
1 TTTTCTTTA
2071576 TCTTTACTTTA
1 T-TTT-CTTTA
*
2071587 TCTTTTTTTA
1 T-TTTCTTTA
*
2071597 TTTTCGTTA
1 TTTTCTTTA
2071606 TCTTTCTTT-
1 T-TTTCTTTA
2071615 TCGTTATC-TTA
1 T--TT-TCTTTA
2071626 TTTTCTTTA
1 TTTTCTTTA
2071635 -TTTCATTT-
1 TTTTC-TTTA
*
2071643 GTTT-TTTA
1 TTTTCTTTA
2071651 TTTTCTTTA
1 TTTTCTTTA
2071660 TTTTCTTTA
1 TTTTCTTTA
*
2071669 TTTTCATTA
1 TTTTCTTTA
2071678 T
1 T
2071679 CTTTTTTCTC
Statistics
Matches: 258, Mismatches: 31, Indels: 76
0.71 0.08 0.21
Matches are distributed among these distances:
7 14 0.05
8 28 0.11
9 108 0.42
10 78 0.30
11 24 0.09
12 3 0.01
13 3 0.01
ACGTcount: A:0.15, C:0.10, G:0.01, T:0.74
Consensus pattern (9 bp):
TTTTCTTTA
Found at i:2071412 original size:31 final size:30
Alignment explanation
Indices: 2071327--2071576 Score: 104
Period size: 31 Copynumber: 8.3 Consensus size: 30
2071317 TATATGTATA
*
2071327 TATTTTTTACTATTATTTTTCTTTATTTTCTT
1 TATTTTTTA-TATT-TTTATCTTTATTTTCTT
*
2071359 TATTTTATTCAT-TTTTTCTCTTTATTTT-TT
1 TATTTT-TT-ATATTTTTATCTTTATTTTCTT
2071389 TATTTTTTATATCTCTTTATCTTTATTTATTTCTT
1 TATTTTTTATAT-T-TTTATCTTTA--T-TTTCTT
* *
2071424 TATATTTTT-T-CTTTT-TCTTAATTTGT-TT
1 TAT-TTTTTATATTTTTATCTTTATTT-TCTT
* *
2071452 TATTTTCTT-TATATTTATATTTA-TTT-TT
1 TATTTT-TTATATTTTTATCTTTATTTTCTT
*
2071480 TATTTTATTTTA-TTTTAT-TTT-TTTATCTT
1 TATTTT-TTATATTTTTATCTTTATTT-TCTT
*
2071509 TA--TCTT-TA-TTTTAT-TTTATTTAT-TT
1 TATTTTTTATATTTTTATCTTTATTT-TCTT
* * *
2071534 TATTTTCTTTATCTTTATTTTCATTATTTTCTT
1 TA-TTT-TTTATATTT-TTATCTTTATTTTCTT
*
2071567 TACTTTTTAT
1 TATTTTTTAT
2071577 CTTTACTTTA
Statistics
Matches: 174, Mismatches: 16, Indels: 57
0.70 0.06 0.23
Matches are distributed among these distances:
25 15 0.09
26 7 0.04
27 9 0.05
28 30 0.17
29 18 0.10
30 14 0.08
31 34 0.20
32 17 0.10
33 15 0.09
34 4 0.02
35 6 0.03
36 5 0.03
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (30 bp):
TATTTTTTATATTTTTATCTTTATTTTCTT
Found at i:2071517 original size:48 final size:47
Alignment explanation
Indices: 2071416--2071615 Score: 151
Period size: 48 Copynumber: 4.2 Consensus size: 47
2071406 TATCTTTATT
* * * *
2071416 TATTTCTTTATATTTTTTCTTTT-TCTTAATTTGTTTTATTTTCTTTA
1 TATTTATTT-TATTTTTTATTTTATTTTAATTTATTTTATTTTCTTTA
*
2071463 TATTTATATTTATTTTTTATTTTATTTTATTTTATTTT-TTTATCTTTA
1 TATTTAT-TTTATTTTTTATTTTATTTTAATTTATTTTATTT-TCTTTA
* * *
2071511 TCTTTATTTTATTTTATTTATTTTATTTT-CTTTATCTTTATTTTCATTA
1 TATTTATTTTA-TTT-TTTATTTTATTTTAATTTAT-TTTATTTTCTTTA
* * * * *
2071560 T-TTT-CTTTACTTTTTATCTTTACTTT-ATCTTTTTTTATTTTCGTTA
1 TATTTATTTTATTTTTTAT-TTTATTTTAAT-TTATTTTATTTTCTTTA
* *
2071606 TCTTTCTTTT
1 TATTTATTTT
2071616 CGTTATCTTA
Statistics
Matches: 127, Mismatches: 15, Indels: 21
0.78 0.09 0.13
Matches are distributed among these distances:
45 5 0.04
46 23 0.18
47 35 0.28
48 39 0.31
49 22 0.17
50 3 0.02
ACGTcount: A:0.16, C:0.09, G:0.01, T:0.74
Consensus pattern (47 bp):
TATTTATTTTATTTTTTATTTTATTTTAATTTATTTTATTTTCTTTA
Found at i:2071550 original size:6 final size:5
Alignment explanation
Indices: 2071449--2071600 Score: 107
Period size: 5 Copynumber: 28.8 Consensus size: 5
2071439 TCTTAATTTG
* *
2071449 TTTTA TTTTC TTTATA TTTATA TTTATT TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTT-TA TTT-TA TTT-TA TTTTA TTTTA TTTTA TTTTA
*
2071497 -TTT- TTTTA TCTTTA TCTTTA TTTTA TTTTA -TTTA TTTTA TTTT- CTTTA
1 TTTTA TTTTA T-TTTA T-TTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
* *
2071545 TCTTTA TTTTCA TTATTT TCTTTA CTTTTTA TCTTTA CTTTA TCTTT- TTTTA
1 T-TTTA TTTT-A TT-TTA T-TTTA --TTTTA T-TTTA TTTTA T-TTTA TTTTA
2071597 TTTT
1 TTTT
2071601 CGTTATCTTT
Statistics
Matches: 122, Mismatches: 10, Indels: 30
0.75 0.06 0.19
Matches are distributed among these distances:
4 16 0.13
5 54 0.44
6 44 0.36
7 7 0.06
8 1 0.01
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTA
Done.