Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 7 of 255
Found at i:2034517 original size:6 final size:6
Alignment explanation
Indices: 2034487--2034537 Score: 57
Period size: 6 Copynumber: 8.0 Consensus size: 6
2034477 CTTCAAAAAT
* *
2034487 AAATAA AAGACAA TAAATAA TAATAA AAATAA AAATAA AAATAA AATATAA
1 AAATAA AA-ATAA -AAATAA AAATAA AAATAA AAATAA AAATAA AA-ATAA
2034538 GGGACTCAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
6 26 0.68
7 10 0.26
8 2 0.05
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:2045157 original size:31 final size:31
Alignment explanation
Indices: 2045119--2045216 Score: 160
Period size: 31 Copynumber: 3.2 Consensus size: 31
2045109 GAACAGTACC
* *
2045119 ACACACGCCTGTGTGGTAAGGCCGTGTGATT
1 ACACACGCCTGTATGGTCAGGCCGTGTGATT
2045150 ACACACGCCTGTATGGTCAGGCCGTGTGATT
1 ACACACGCCTGTATGGTCAGGCCGTGTGATT
* *
2045181 ACACACGCCCGTATGGTCAGGCCGTCTGATT
1 ACACACGCCTGTATGGTCAGGCCGTGTGATT
2045212 ACACA
1 ACACA
2045217 TGCCCATGTG
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.21, C:0.28, G:0.28, T:0.23
Consensus pattern (31 bp):
ACACACGCCTGTATGGTCAGGCCGTGTGATT
Found at i:2045622 original size:34 final size:34
Alignment explanation
Indices: 2045584--2045653 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
2045574 CCTATTTCTC
2045584 ACCCAACTTTAACCATTTTCCTACATGAAAACTT
1 ACCCAACTTTAACCATTTTCCTACATGAAAACTT
2045618 ACCCAACTTTAACCATTTTCCTACATGAAAACTT
1 ACCCAACTTTAACCATTTTCCTACATGAAAACTT
2045652 AC
1 AC
2045654 ATGTATATGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.36, C:0.30, G:0.03, T:0.31
Consensus pattern (34 bp):
ACCCAACTTTAACCATTTTCCTACATGAAAACTT
Found at i:2050775 original size:20 final size:20
Alignment explanation
Indices: 2050747--2050784 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2050737 AAAGGAGCTA
2050747 TGTGATCTGAGCTCATGAGT
1 TGTGATCTGAGCTCATGAGT
* *
2050767 TGTGGTCTGAGTTCATGA
1 TGTGATCTGAGCTCATGA
2050785 TATATGTGAT
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:0.18, C:0.13, G:0.32, T:0.37
Consensus pattern (20 bp):
TGTGATCTGAGCTCATGAGT
Found at i:2056401 original size:30 final size:30
Alignment explanation
Indices: 2056365--2056432 Score: 136
Period size: 30 Copynumber: 2.3 Consensus size: 30
2056355 GAATTCAATC
2056365 CACACGGCTGTACGACACAGCCGTGTGAAG
1 CACACGGCTGTACGACACAGCCGTGTGAAG
2056395 CACACGGCTGTACGACACAGCCGTGTGAAG
1 CACACGGCTGTACGACACAGCCGTGTGAAG
2056425 CACACGGC
1 CACACGGC
2056433 CTGGACGCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.26, C:0.32, G:0.29, T:0.12
Consensus pattern (30 bp):
CACACGGCTGTACGACACAGCCGTGTGAAG
Found at i:2059165 original size:20 final size:19
Alignment explanation
Indices: 2059119--2059165 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
2059109 GTAATTCATG
2059119 TTTAATTGCTGAATGGAGT
1 TTTAATTGCTGAATGGAGT
* *
2059138 TTTGAATTGGTAGAATTGAGT
1 TTT-AATTGCT-GAATGGAGT
2059159 TTTAATT
1 TTTAATT
2059166 TTAAGAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 10 0.42
21 11 0.46
ACGTcount: A:0.28, C:0.02, G:0.23, T:0.47
Consensus pattern (19 bp):
TTTAATTGCTGAATGGAGT
Found at i:2063536 original size:40 final size:40
Alignment explanation
Indices: 2063492--2063652 Score: 223
Period size: 40 Copynumber: 4.0 Consensus size: 40
2063482 AGAATTGAGA
* * * *
2063492 GTTATATCCGAGCTAAGTCTCGAAGAGCATTCGTGTTGGT
1 GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
* *
2063532 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGT
1 GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
*
2063572 GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCCGGT
1 GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
* * * *
2063612 GTTACATCCGGGCTAAGTCCTGAAGGGCATTCATGCCGGT
1 GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
2063652 G
1 G
2063653 ATGTGTAATC
Statistics
Matches: 111, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 111 1.00
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (40 bp):
GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
Found at i:2063898 original size:25 final size:25
Alignment explanation
Indices: 2063859--2063913 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
2063849 TGTGAAATAA
2063859 CGAATGAATATAGGCACTATGTGTG
1 CGAATGAATATAGGCACTATGTGTG
*
2063884 CGAATGAAT-TGAGGCACTGTGTGTG
1 CGAATGAATAT-AGGCACTATGTGTG
2063909 CGAAT
1 CGAAT
2063914 TCTTTAACCG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.27
Consensus pattern (25 bp):
CGAATGAATATAGGCACTATGTGTG
Found at i:2063936 original size:28 final size:28
Alignment explanation
Indices: 2063897--2063992 Score: 95
Period size: 28 Copynumber: 3.4 Consensus size: 28
2063887 ATGAATTGAG
*
2063897 GCACTGTGTGTGCGAATTCTTTAACCGA
1 GCACTATGTGTGCGAATTCTTTAACCGA
* ** * ** *
2063925 GCACTATGTGTGTGAGA-TCGGTCAGTGG
1 GCACTATGTGTGCGA-ATTCTTTAACCGA
*
2063953 GCACTGTGTGTGCGAATTCTTTAACCGA
1 GCACTATGTGTGCGAATTCTTTAACCGA
2063981 GCACTATGTGTG
1 GCACTATGTGTG
2063993 TGAGATCAGT
Statistics
Matches: 49, Mismatches: 17, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
27 1 0.02
28 47 0.96
29 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (28 bp):
GCACTATGTGTGCGAATTCTTTAACCGA
Found at i:2063963 original size:56 final size:56
Alignment explanation
Indices: 2063896--2064019 Score: 239
Period size: 56 Copynumber: 2.2 Consensus size: 56
2063886 AATGAATTGA
*
2063896 GGCACTGTGTGTGCGAATTCTTTAACCGAGCACTATGTGTGTGAGATCGGTCAGTG
1 GGCACTGTGTGTGCGAATTCTTTAACCGAGCACTATGTGTGTGAGATCAGTCAGTG
2063952 GGCACTGTGTGTGCGAATTCTTTAACCGAGCACTATGTGTGTGAGATCAGTCAGTG
1 GGCACTGTGTGTGCGAATTCTTTAACCGAGCACTATGTGTGTGAGATCAGTCAGTG
2064008 GGCACTGTGTGT
1 GGCACTGTGTGT
2064020 ACGGATTTTG
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 67 1.00
ACGTcount: A:0.19, C:0.18, G:0.32, T:0.31
Consensus pattern (56 bp):
GGCACTGTGTGTGCGAATTCTTTAACCGAGCACTATGTGTGTGAGATCAGTCAGTG
Found at i:2064012 original size:28 final size:28
Alignment explanation
Indices: 2063925--2064019 Score: 84
Period size: 28 Copynumber: 3.4 Consensus size: 28
2063915 CTTTAACCGA
*
2063925 GCACTATGTGTGTGAGATCGGTCAGTGG
1 GCACTATGTGTGTGAGATCAGTCAGTGG
* * ** * ** *
2063953 GCACTGTGTGTGCGA-ATTCTTTAACCGA
1 GCACTATGTGTGTGAGA-TCAGTCAGTGG
2063981 GCACTATGTGTGTGAGATCAGTCAGTGG
1 GCACTATGTGTGTGAGATCAGTCAGTGG
*
2064009 GCACTGTGTGT
1 GCACTATGTGT
2064020 ACGGATTTTG
Statistics
Matches: 48, Mismatches: 17, Indels: 4
0.70 0.25 0.06
Matches are distributed among these distances:
27 1 0.02
28 46 0.96
29 1 0.02
ACGTcount: A:0.19, C:0.17, G:0.34, T:0.31
Consensus pattern (28 bp):
GCACTATGTGTGTGAGATCAGTCAGTGG
Found at i:2065135 original size:20 final size:19
Alignment explanation
Indices: 2065089--2065135 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
2065079 GTAATTCATG
2065089 TTTAATTGCTGAATGGAGT
1 TTTAATTGCTGAATGGAGT
* *
2065108 TTTGAATTGGTAGAATTGAGT
1 TTT-AATTGCT-GAATGGAGT
2065129 TTTAATT
1 TTTAATT
2065136 TTAAGAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 10 0.42
21 11 0.46
ACGTcount: A:0.28, C:0.02, G:0.23, T:0.47
Consensus pattern (19 bp):
TTTAATTGCTGAATGGAGT
Found at i:2074884 original size:32 final size:30
Alignment explanation
Indices: 2074857--2074937 Score: 81
Period size: 30 Copynumber: 2.6 Consensus size: 30
2074847 AACACCTGAG
2074857 GTGCACATTCCCTTTTCAAATGAACACCAA
1 GTGCACATTCCCTTTTCAAATGAACACCAA
* * * *
2074887 GTGTACATTTCCTTTTCAAGTGTACACACAA
1 GTGCACATTCCCTTTTCAAATGAACAC-CAA
* * *
2074918 GGGGTACATTTCCTTTTCAA
1 -GTGCACATTCCCTTTTCAA
2074938 GTGTACACAC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
30 23 0.52
31 3 0.07
32 18 0.41
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (30 bp):
GTGCACATTCCCTTTTCAAATGAACACCAA
Found at i:2074938 original size:32 final size:32
Alignment explanation
Indices: 2074861--2075069 Score: 278
Period size: 32 Copynumber: 6.6 Consensus size: 32
2074851 CCTGAGGTGC
* * *
2074861 ACATTCCCTTTTCAAATG-A-ACACCAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
* *
2074891 ACATTTCCTTTTCAAGTGTACACACAAGGGGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
2074923 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
** *
2074955 ACAAATCCTTTTCAAGTGTACATACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
* **
2074987 ACGTTTCCTTTTCAAGTGTACACACAAAGACT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
**
2075019 ACAAATCCTTTTCAAGTGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
*
2075051 ACGTTTCCTTTTCAAGTGT
1 ACATTTCCTTTTCAAGTGT
2075070 CACCCTTTCG
Statistics
Matches: 153, Mismatches: 24, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
30 16 0.10
31 1 0.01
32 136 0.89
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (32 bp):
ACATTTCCTTTTCAAGTGTACACACAAAGTGT
Found at i:2076002 original size:32 final size:32
Alignment explanation
Indices: 2075943--2076184 Score: 310
Period size: 32 Copynumber: 7.6 Consensus size: 32
2075933 CCCGAGGTGC
* *
2075943 ACATTCCCTTTTCAAATGGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGT-GTACACACAAAGTGT
2075976 ACATTTCCTTTTCAAGTGTACACACAAGAG-GT
1 ACATTTCCTTTTCAAGTGTACACACAA-AGTGT
*
2076008 ACATTTCCCTTTCAAGTGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
** *
2076040 ACAAATCCTTTTCAAGTGTACATACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
*
2076072 ACGTTTCCTTTTCAAGTGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
** *
2076104 ACAAATCTTTTTCAAGTGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
** * *
2076136 A-AAATCCTTTTCAAGTATGCACACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
*
2076167 AC-GTTCCTTTTCAAGTGT
1 ACATTTCCTTTTCAAGTGT
2076185 CACCATTTCA
Statistics
Matches: 185, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
31 43 0.23
32 125 0.68
33 17 0.09
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (32 bp):
ACATTTCCTTTTCAAGTGTACACACAAAGTGT
Found at i:2076079 original size:96 final size:95
Alignment explanation
Indices: 2075949--2076184 Score: 350
Period size: 96 Copynumber: 2.5 Consensus size: 95
2075939 GTGCACATTC
* * **
2075949 CCTTTTCAAATGGTACACACAAAGTGTACATTTCCTTTTCAAGTGTACACACAAGAG-GTACATT
1 CCTTTTCAAGT-GTACACACAAAGTGTACGTTTCCTTTTCAAGTGTACACACAA-AGTGTACAAA
2076013 TCCCTTTCAAGTGTACACACAAAGTGTACAAAT
64 TCCCTTTCAAGTGTACACACAAAGTGTA-AAAT
*
2076046 CCTTTTCAAGTGTACATACAAAGTGTACGTTTCCTTTTCAAGTGTACACACAAAGTGTACAAATC
1 CCTTTTCAAGTGTACACACAAAGTGTACGTTTCCTTTTCAAGTGTACACACAAAGTGTACAAATC
**
2076111 TTTTTCAAGTGTACACACAAAGTGTAAAAT
66 CCTTTCAAGTGTACACACAAAGTGTAAAAT
* *
2076141 CCTTTTCAAGTATGCACACAAAGTGTACG-TTCCTTTTCAAGTGT
1 CCTTTTCAAGTGTACACACAAAGTGTACGTTTCCTTTTCAAGTGT
2076185 CACCATTTCA
Statistics
Matches: 128, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
94 15 0.12
95 32 0.25
96 71 0.55
97 10 0.08
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (95 bp):
CCTTTTCAAGTGTACACACAAAGTGTACGTTTCCTTTTCAAGTGTACACACAAAGTGTACAAATC
CCTTTCAAGTGTACACACAAAGTGTAAAAT
Found at i:2085800 original size:30 final size:30
Alignment explanation
Indices: 2085764--2085820 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
2085754 ACGGTCATGA
*
2085764 CACACGGGCATGTGGTCTGCCCGTGTGCCT
1 CACACGGGCATGTGGTCTACCCGTGTGCCT
** *
2085794 CACACGGGTGTGTGGTTTACCCGTGTG
1 CACACGGGCATGTGGTCTACCCGTGTG
2085821 GACGTGCCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.11, C:0.28, G:0.35, T:0.26
Consensus pattern (30 bp):
CACACGGGCATGTGGTCTACCCGTGTGCCT
Found at i:2086629 original size:4 final size:4
Alignment explanation
Indices: 2086620--2086747 Score: 256
Period size: 4 Copynumber: 32.0 Consensus size: 4
2086610 TTACTACCAA
2086620 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2086668 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2086716 TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG
2086748 AATTACTACC
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 124 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:2087071 original size:30 final size:30
Alignment explanation
Indices: 2087027--2087083 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
2087017 ACGGCCATGA
* *
2087027 CACACGGGCATGTGGTCTGCCCGTGTGCCT
1 CACACAGGCATGTGGTCTACCCGTGTGCCT
* *
2087057 CACACAGGCGTGTGGTTTACCCGTGTG
1 CACACAGGCATGTGGTCTACCCGTGTG
2087084 GACGTGCCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.12, C:0.30, G:0.33, T:0.25
Consensus pattern (30 bp):
CACACAGGCATGTGGTCTACCCGTGTGCCT
Found at i:2087892 original size:4 final size:4
Alignment explanation
Indices: 2087883--2087921 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
2087873 TTACTACCAA
2087883 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
2087922 ATATATTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:2088936 original size:7 final size:6
Alignment explanation
Indices: 2088915--2088975 Score: 52
Period size: 7 Copynumber: 9.7 Consensus size: 6
2088905 AGTCTCCAAA
* * *
2088915 AAAAAT AAGAGAT AATAAAT AATAA- AAATAT AAAATAT AAAATAT AAAAAT
1 AAAAAT AA-AAAT AA-AAAT AAAAAT AAAAAT AAAA-AT AAAA-AT AAAAAT
2088966 AAAAAT AAAA
1 AAAAAT AAAA
2088976 GGGACTCAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
5 3 0.07
6 19 0.42
7 23 0.51
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.21
Consensus pattern (6 bp):
AAAAAT
Found at i:2088954 original size:22 final size:21
Alignment explanation
Indices: 2088931--2088972 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 21
2088921 AAGAGATAAT
2088931 AAATAATAAAAATATAAAATATA
1 AAAT-ATAAAAATA-AAAATATA
2088954 AAATATAAAAATAAAAATA
1 AAATATAAAAATAAAAATA
2088973 AAAGGGACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
22 9 0.47
23 4 0.21
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (21 bp):
AAATATAAAAATAAAAATATA
Found at i:2088958 original size:14 final size:14
Alignment explanation
Indices: 2088935--2088975 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
2088925 GATAATAAAT
2088935 AATA-AAAATATAA
1 AATATAAAATATAA
2088948 AATATAAAATATAA
1 AATATAAAATATAA
2088962 AA-ATAAAA-ATAA
1 AATATAAAATATAA
2088974 AA
1 AA
2088976 GGGACTCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.22
13 10 0.37
14 11 0.41
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
AATATAAAATATAA
Found at i:2095927 original size:72 final size:73
Alignment explanation
Indices: 2095784--2095970 Score: 214
Period size: 72 Copynumber: 2.6 Consensus size: 73
2095774 GATACATGTA
* * * * * *
2095784 ATGTGGGTCCGGGTGCTAACTTTGTGATTAGGCCCGTGAGTAACTCGTTGAACGAGCATTTCATG
1 ATGTGGGTCCGGGTACTAACTTCGTGATCAGGACCGTGAGTAACTCGATGAACGAGCATTACATG
*
2095849 TTAATGCT
66 ATAATGCT
* * * *
2095857 ATGTGGGTCCGGGTATTAACTTCGTGA-CAGGACCTTGAGTAGCTCGATGAGCGAGCATTACATG
1 ATGTGGGTCCGGGTACTAACTTCGTGATCAGGACCGTGAGTAACTCGATGAACGAGCATTACATG
2095921 ATAATGCT
66 ATAATGCT
* * * * * *
2095929 ATGTGGGTCGGGGTGCTAACTTTGTGAACAAGCCCGTGAGTA
1 ATGTGGGTCCGGGTACTAACTTCGTGATCAGGACCGTGAGTA
2095971 GCTTAAATGC
Statistics
Matches: 95, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
72 60 0.63
73 35 0.37
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.29
Consensus pattern (73 bp):
ATGTGGGTCCGGGTACTAACTTCGTGATCAGGACCGTGAGTAACTCGATGAACGAGCATTACATG
ATAATGCT
Found at i:2095983 original size:72 final size:72
Alignment explanation
Indices: 2095784--2095995 Score: 207
Period size: 72 Copynumber: 2.9 Consensus size: 72
2095774 GATACATGTA
** * * *
2095784 ATGTGGGTCCGGGTGCTAACTTTGTGATTAGGCCCGTGAGTAACTCGTTGAA--CGAGCATTTCA
1 ATGTGGGTCCGGGTGCTAACTTTGTGAACAGGCCCGTGAGT-A-GC-TTAAATGCGAGCATTACA
*
2095847 TGTTAATGCT
63 TGATAATGCT
** * * * **
2095857 ATGTGGGTCCGGGTATTAACTTCGTG-ACAGGACCTTGAGTAGC-TCGATGAGCGAGCATTACAT
1 ATGTGGGTCCGGGTGCTAACTTTGTGAACAGGCCCGTGAGTAGCTTAAAT--GCGAGCATTACAT
2095920 GATAATGCT
64 GATAATGCT
* * *
2095929 ATGTGGGTCGGGGTGCTAACTTTGTGAACAAGCCCGTGAGTAGCTTAAATGCGAGTATTACATGA
1 ATGTGGGTCCGGGTGCTAACTTTGTGAACAGGCCCGTGAGTAGCTTAAATGCGAGCATTACATGA
2095994 TA
66 TA
2095996 TGAGGCAGCT
Statistics
Matches: 111, Mismatches: 22, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
68 2 0.02
70 1 0.01
71 1 0.01
72 67 0.60
73 37 0.33
74 3 0.03
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (72 bp):
ATGTGGGTCCGGGTGCTAACTTTGTGAACAGGCCCGTGAGTAGCTTAAATGCGAGCATTACATGA
TAATGCT
Found at i:2096255 original size:5 final size:5
Alignment explanation
Indices: 2096245--2096272 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
2096235 GTTTATGTGA
2096245 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
2096273 GAACACACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:2100670 original size:5 final size:5
Alignment explanation
Indices: 2100660--2100686 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
2100650 CAATTTGTTA
2100660 AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA
2100687 CACAGATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:2103822 original size:31 final size:31
Alignment explanation
Indices: 2103780--2103852 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
2103770 AATACCACAT
* *
2103780 ACGCCCGTGTGGCCAGGCCGAGTGATTACAC
1 ACGCCCATGTGGCCAGGCAGAGTGATTACAC
* *
2103811 ACGCCCATGTGGTCAGGCAGTGTGATTACAC
1 ACGCCCATGTGGCCAGGCAGAGTGATTACAC
*
2103842 ACGCCCTTGTG
1 ACGCCCATGTG
2103853 ACTTGGGACA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.19, C:0.30, G:0.30, T:0.21
Consensus pattern (31 bp):
ACGCCCATGTGGCCAGGCAGAGTGATTACAC
Found at i:2104945 original size:32 final size:32
Alignment explanation
Indices: 2104878--2105121 Score: 319
Period size: 32 Copynumber: 7.6 Consensus size: 32
2104868 CCCGAGGTGC
* *
2104878 ACATTCCCTTTTCAAATGGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGT-GTACACACAAAGTGT
*
2104911 ACATTTCCTTTTCAAGTGTGCACACAAAAG-GT
1 ACATTTCCTTTTCAAGTGTACACAC-AAAGTGT
*
2104943 ACATTTCCTTTTCAAGTGCACACACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
** * *
2104975 ACAAATCCTTTTCAAGTGTACATACAAAGTGA
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
**
2105007 ATGTTTCCTTTTCAAGTGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
** *
2105039 ACAAATCCTTTTCAAGTGTACACACAAAGTCT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
**
2105071 ACAAATCCTTTTCAAGTGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
*
2105103 ACGTTTCCTTTTCAAGTGT
1 ACATTTCCTTTTCAAGTGT
2105122 CACCCTTTCA
Statistics
Matches: 184, Mismatches: 25, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
31 4 0.02
32 161 0.88
33 19 0.10
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (32 bp):
ACATTTCCTTTTCAAGTGTACACACAAAGTGT
Found at i:2105014 original size:96 final size:96
Alignment explanation
Indices: 2104884--2105121 Score: 361
Period size: 96 Copynumber: 2.5 Consensus size: 96
2104874 GTGCACATTC
* * * **
2104884 CCTTTTCAAATGGTACACACAAAGTGTACATTTCCTTTTCAAGTGTGCACACAAAAG-GTACATT
1 CCTTTTCAAGT-GTACACACAAAGTGTACGTTTCCTTTTCAAGTGTACACAC-AAAGTGTACAAA
*
2104948 TCCTTTTCAAGTGCACACACAAAGTGTACAAAT
64 TCCTTTTCAAGTGCACACACAAAGTCTACAAAT
* * *
2104981 CCTTTTCAAGTGTACATACAAAGTGAATGTTTCCTTTTCAAGTGTACACACAAAGTGTACAAATC
1 CCTTTTCAAGTGTACACACAAAGTGTACGTTTCCTTTTCAAGTGTACACACAAAGTGTACAAATC
*
2105046 CTTTTCAAGTGTACACACAAAGTCTACAAAT
66 CTTTTCAAGTGCACACACAAAGTCTACAAAT
2105077 CCTTTTCAAGTGTACACACAAAGTGTACGTTTCCTTTTCAAGTGT
1 CCTTTTCAAGTGTACACACAAAGTGTACGTTTCCTTTTCAAGTGT
2105122 CACCCTTTCA
Statistics
Matches: 127, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
95 4 0.03
96 113 0.89
97 10 0.08
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (96 bp):
CCTTTTCAAGTGTACACACAAAGTGTACGTTTCCTTTTCAAGTGTACACACAAAGTGTACAAATC
CTTTTCAAGTGCACACACAAAGTCTACAAAT
Found at i:2114361 original size:3 final size:3
Alignment explanation
Indices: 2114350--2114583 Score: 57
Period size: 3 Copynumber: 75.7 Consensus size: 3
2114340 AAAAAAGAAG
* * * * * * *
2114350 TAA TGA TAA TAA TAA TAG GAG TAA TAA TAA TAA T-T TAA TGA TGA TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
* * * * * *
2114398 CAA TAA TAA -AA GGAA CAA AAA TAA TAG TAA TAA TAA -AGA TATT TAA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TA-A TA-A TAA
* ** * *
2114444 TAA TAG TAA TAA TAA CGA TGA T-A TAAA TAA TAA TATA TACA TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TA-A TA-A TAA TAA
* * * * *
2114491 TAA TATT TAGA -AA TAA AAA TAA TGGAA GTAG TAA TAA CAA TAG TAA
1 TAA TA-A TA-A TAA TAA TAA TAA T--AA -TAA TAA TAA TAA TAA TAA
* * * * *
2114537 TAG TAA TAA -AGA TAA CAG CAA GAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2114582 TA
1 TA
2114584 TATTTCATTC
Statistics
Matches: 169, Mismatches: 46, Indels: 32
0.68 0.19 0.13
Matches are distributed among these distances:
2 8 0.05
3 140 0.83
4 18 0.11
5 2 0.01
6 1 0.01
ACGTcount: A:0.59, C:0.03, G:0.10, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:2115148 original size:13 final size:13
Alignment explanation
Indices: 2115132--2115156 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2115122 CGTCGCCCAC
2115132 CGCCGGCCACCGT
1 CGCCGGCCACCGT
2115145 CGCCGGCCACCG
1 CGCCGGCCACCG
2115157 CACACGGTGG
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:0.08, C:0.56, G:0.32, T:0.04
Consensus pattern (13 bp):
CGCCGGCCACCGT
Found at i:2115734 original size:23 final size:24
Alignment explanation
Indices: 2115689--2115734 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2115679 GGATCTGGGT
2115689 TTAGTAGGGTTTGGGGTTATTGGC
1 TTAGTAGGGTTTGGGGTTATTGGC
2115713 TTAGT-GGGTTTAGGGGTT-TTGG
1 TTAGTAGGGTTT-GGGGTTATTGG
2115735 GCCCAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.11, C:0.02, G:0.43, T:0.43
Consensus pattern (24 bp):
TTAGTAGGGTTTGGGGTTATTGGC
Found at i:2116096 original size:42 final size:42
Alignment explanation
Indices: 2115984--2116111 Score: 186
Period size: 42 Copynumber: 3.1 Consensus size: 42
2115974 AGACATGTGA
* * * *
2115984 CTTCAATCAATTCCACTAAAACTTCAAGGAGATTTACTGTAG
1 CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTAG
*
2116026 CTTCGATTAA-TCCACTGAAACTTCAAGGAGATCTGCTGTAG
1 CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTAG
* *
2116067 CTTCGATCAATTCCACTGAAACTTTAAGGAGATCTGCTGTGG
1 CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTAG
2116109 CTT
1 CTT
2116112 TTAGCTGCTC
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
41 37 0.48
42 40 0.52
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (42 bp):
CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTAG
Found at i:2146367 original size:23 final size:23
Alignment explanation
Indices: 2146341--2146396 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
2146331 AATATCTAAT
2146341 AATTTTATATTTTTATTTATTAA
1 AATTTTATATTTTTATTTATTAA
2146364 AATTTTATATTTTTATTTATTAA
1 AATTTTATATTTTTATTTATTAA
2146387 AATTTTATAT
1 AATTTTATAT
2146397 ATAGTCGTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
AATTTTATATTTTTATTTATTAA
Found at i:2146520 original size:22 final size:22
Alignment explanation
Indices: 2146476--2146520 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
2146466 TTTATGTATT
* *
2146476 ATAAATAATATAATATATAAAA
1 ATAAATAATATAAAACATAAAA
* *
2146498 ATAAATAATGTAAAACATTAAA
1 ATAAATAATATAAAACATAAAA
2146520 A
1 A
2146521 CTTAAAAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (22 bp):
ATAAATAATATAAAACATAAAA
Found at i:2153407 original size:31 final size:29
Alignment explanation
Indices: 2153356--2153414 Score: 82
Period size: 31 Copynumber: 2.0 Consensus size: 29
2153346 TTGGTTACAT
*
2153356 ATATTTCAATTATTATAATTTAATCATTA
1 ATATTTCAATTATAATAATTTAATCATTA
*
2153385 ATATTATCAATTTATAATAATTTGATCATT
1 ATATT-TCAA-TTATAATAATTTAATCATT
2153415 GTGCATTATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 5 0.19
30 4 0.15
31 17 0.65
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.51
Consensus pattern (29 bp):
ATATTTCAATTATAATAATTTAATCATTA
Found at i:2153656 original size:21 final size:22
Alignment explanation
Indices: 2153619--2153660 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
2153609 CCTTGAACTC
*
2153619 AAACCTCAAACCTTAAACATCG
1 AAACCTCAAACCATAAACATCG
2153641 AAACCT-AAACCATAAACATC
1 AAACCTCAAACCATAAACATC
2153661 AAATCCAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.50, C:0.31, G:0.02, T:0.17
Consensus pattern (22 bp):
AAACCTCAAACCATAAACATCG
Found at i:2153699 original size:28 final size:28
Alignment explanation
Indices: 2153626--2153699 Score: 69
Period size: 28 Copynumber: 2.6 Consensus size: 28
2153616 CTCAAACCTC
* * *
2153626 AAACCTTAAACATCGAAACCTAAACCAT
1 AAACCTCAAATATCGAACCCTAAACCAT
* * *
2153654 AAACATCAAAT-CCAGAACCCTAAACCTT
1 AAACCTCAAATATC-GAACCCTAAACCAT
*
2153682 TAACCTCAAATATCGAAC
1 AAACCTCAAATATCGAAC
2153700 ACGAACCCTA
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
27 1 0.03
28 33 0.94
29 1 0.03
ACGTcount: A:0.47, C:0.30, G:0.04, T:0.19
Consensus pattern (28 bp):
AAACCTCAAATATCGAACCCTAAACCAT
Found at i:2153761 original size:13 final size:14
Alignment explanation
Indices: 2153726--2153763 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
2153716 TCGAACCTTG
*
2153726 AACCTAGAACCTAA
1 AACCTTGAACCTAA
2153740 AACCTTGAACCT-A
1 AACCTTGAACCTAA
*
2153753 AATCTTGAACC
1 AACCTTGAACC
2153764 CCAAACTCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.42, C:0.29, G:0.08, T:0.21
Consensus pattern (14 bp):
AACCTTGAACCTAA
Found at i:2154071 original size:22 final size:24
Alignment explanation
Indices: 2154023--2154071 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 24
2154013 TTAATGATCA
* *
2154023 AATCGTAATAATTGAAACATCAGT
1 AATCGTAATAATTGAAACAACAAT
*
2154047 AATCGT-A-AATTTAAACAACAAT
1 AATCGTAATAATTGAAACAACAAT
2154069 AAT
1 AAT
2154072 GGACTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 15 0.68
23 1 0.05
24 6 0.27
ACGTcount: A:0.51, C:0.12, G:0.08, T:0.29
Consensus pattern (24 bp):
AATCGTAATAATTGAAACAACAAT
Found at i:2154978 original size:228 final size:223
Alignment explanation
Indices: 2154524--2155034 Score: 704
Period size: 228 Copynumber: 2.3 Consensus size: 223
2154514 ATGTAGCCGC
* * * ** *
2154524 GGAGGTGGATGTTGTAGCTGAGAAAGACAATGAAAAGAGATATCTTCTCAACAGCGCCAA-AGTG
1 GGAGGTGGATATTGTAGCTGAGAAAGAGAATGAAACGAGATATCTTCTCAATGGCGCCAACAGCG
* *
2154588 AGTTGCGCTAAGGTTGGCTCCGGATGCTCGGATGTTGATGTTAATGGAAACGACTCCGTTAATGG
66 AGTAGCGCTAAGGTTGGCTCCGGATGCACGGATGTTGATGTTAATGGAAACGACTCCGTTAATGG
* * *
2154653 AGTTGTAGTGGAACCGGATGGCAATTGCGTTGTCGAAGAAGAACACGAAGTGAAATCCGAATCAG
131 AGTTGTAGTGGAACCGGATGACAATTGCATTGTCGAAAAAGAACACGAAGTGAAATCCGAATCAG
* * *
2154718 ATTCGGTTACTATTACTATGCATCAGCA
196 ATTCGGTTACTATGACTATGAATCAACA
* * *
2154746 GGAGGTGGGTATTGAAGCTGAGAAAGAGAATGAAACGAGATATCTTGTCAATGGCGCCAACA-CG
1 GGAGGTGGATATTGTAGCTGAGAAAGAGAATGAAACGAGATATCTTCTCAATGGCGCCAACAGCG
* * * *
2154810 AGTAGCGTTAAGGTTGGCTCCGGCA-GCACGGATGTTTATGTTAACGTAAATGGAAGCGACTCTG
66 AGTAGCGCTAAGGTTGGCTCCGG-ATGCACGGATGTTGATG-T----T-AATGGAAACGACTCCG
* * * *
2154874 TTAATGGAGTTGTAGTGGAATCGGGTGACAATTGCATTGTCGAAAAAGACCACGAAGTGAAATCG
124 TTAATGGAGTTGTAGTGGAACCGGATGACAATTGCATTGTCGAAAAAGAACACGAAGTGAAATCC
*
2154939 GAATCTGATTCGGTTACTATGACTATGAATCAACA
189 GAATCAGATTCGGTTACTATGACTATGAATCAACA
2154974 GGAGGTGGATATTGTAGCTGAGAAAGAGAATGAAACGAGATATCTTCTCAATGGCGCCAAC
1 GGAGGTGGATATTGTAGCTGAGAAAGAGAATGAAACGAGATATCTTCTCAATGGCGCCAAC
2155035 GAGGTCGGCT
Statistics
Matches: 252, Mismatches: 29, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
222 87 0.35
223 3 0.01
227 1 0.00
228 161 0.64
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.24
Consensus pattern (223 bp):
GGAGGTGGATATTGTAGCTGAGAAAGAGAATGAAACGAGATATCTTCTCAATGGCGCCAACAGCG
AGTAGCGCTAAGGTTGGCTCCGGATGCACGGATGTTGATGTTAATGGAAACGACTCCGTTAATGG
AGTTGTAGTGGAACCGGATGACAATTGCATTGTCGAAAAAGAACACGAAGTGAAATCCGAATCAG
ATTCGGTTACTATGACTATGAATCAACA
Found at i:2155197 original size:198 final size:202
Alignment explanation
Indices: 2154859--2156578 Score: 1609
Period size: 222 Copynumber: 7.9 Consensus size: 202
2154849 GTTAACGTAA
* * *
2154859 ATGGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTGCATTGTCGAAAAAGAC
1 ATGGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTACATTGTCGAAGATGAC
* * *
2154924 CACGAAGTGAAATCGGAATCTGATTCGGTTACTATGACTATGAATCAACAGGAGGTGGATATTGT
66 CACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGAATCAACAGGAGGTGGATATTGA
* *
2154989 AGCTGAGAAAGAGAATGAAACGAGATATCTTCTCAATGGCGCCAA-CG-AGGTCGGCTTCGGCAG
131 AGCTGAGAAAGAGAATGAAACGAGTTATCTTCTCAATGGCGCCAAGCGTAGGTTGGCTTCGGCAG
2155052 C-TTTG-
196 CTTTTGT
2155057 ATGGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTACATTGTCGAAGATGAC
1 ATGGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTACATTGTCGAAGATGAC
* * * *
2155122 CACGAAGTGAAATCCGAATCTGATTCAGTTACTATTACTATGCATCAGCAGGAGGTGGGTATTGA
66 CACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGAATCAACAGGAGGTGGATATTGA
*
2155187 AGCTGAGAAAGAGAATGAAACGAGTTATCTGCTCAATGGCGCCAACACTAGTAGCGTTAAGGTTG
131 AGCTGAGAAAGAGAATGAAACGAGTTATCTTCTCAATGGCG----C-C-A--AGCG-T-AGGTTG
*
2155252 GCTCCGGCAGCACGGATGTTTATGTTAACGT
186 GCTTCGGCAG--C-------T-T-TT---GT
* *
2155283 AAATGGAAGCGACTCCGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTGCATTGTCG-A-A-G
1 --ATGGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTACATTGTCGAAGATG
2155345 ACCACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGAATCAACAGGAGGTGGATATT
64 ACCACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGAATCAACAGGAGGTGGATATT
* * *
2155410 GTAGCTGAGAAAGAGAATGAAACGAGCTATCTTCTCAATGGCGCGAACGCGAGTTGCCTTAAGGT
129 GAAGCTGAGAAAGAGAATGAAACGAGTTATCTTCTCAATGGCGCCAA-GC-----G---T-AGGT
2155475 TGGCTTCGGCAGCTTTGATGTTT
184 TGGCTTCGGCAGCTTT--TG--T
*
2155498 ATGTTAACGTAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGATGACAATTACATTGTCGAA
1 ATG-----G-AAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTACATTGTCGAA
* * *
2155563 GATGACCACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGCATCAGCAGGAGGTGGG
60 GATGACCACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGAATCAACAGGAGGTGGA
* *
2155628 TATTGAAGCTGAGAAAGAGAATGAAACGAGTTATCTTCTCAATGGCACCAACAAGAGTAGAATTA
125 TATTGAAGCTGAGAAAGAGAATGAAACGAGTTATCTTCTCAATGGC-GC--C-A-AG-CG---T-
* *
2155693 AGGTTGGCTCCGTCAGCACGGATGTTTATGTTAACGT
180 AGGTTGGCT---TC-G---GCA-G-CT-T-TT---GT
* * *
2155730 AAATGGAAGCGACTCCGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTGCATTGTCGAAGAAG
1 --ATGGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTACATTGTCGAAGATG
* *
2155795 ACCACGAAGTGAAATCCGAATCTGATTCGGTTACTTTTACTATGAATCAGCAGGAGGTGGATATT
64 ACCACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGAATCAACAGGAGGTGGATATT
* * * *
2155860 GTAGCTGAGAAAGAGAAAGAAACGGGATATCTTCTCAATGGCGCCAACGCGAGTTGCGTTAAGGT
129 GAAGCTGAGAAAGAGAATGAAACGAGTTATCTTCTCAATGGCGCC-A----A---GCG-T-AGGT
*
2155925 TAGCTTCGGCAGCTTTGATGTTTATGTT
184 TGGCTTCGGCAGC-------TTT-TG-T
*
2155953 AATGGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTGCATTGTCGAAGATGA
1 -ATGGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTACATTGTCGAAGATGA
* * * ** * *
2156018 CCACGAAGTGAAATCCGAATCTGATTCGATTACTATTGCTAGGCGTCAGCAGGAGGTGGGTATTG
65 CCACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGAATCAACAGGAGGTGGATATTG
2156083 AAGCTGAGAAAGAGAATGAAACGAGTTATCTTCTCAATGGCGCCAACACTAGTAGCGTTAAGGTT
130 AAGCTGAGAAAGAGAATGAAACGAGTTATCTTCTCAATGGCG----C-C-A--AGCG-T-AGGTT
*
2156148 GGCTCCGGCAGCACGGATGTTTATGTTAACGT
185 GGCTTCGGCAG--C-------T-T-TT---GT
* *
2156180 AAATGGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTGCATTGTCGAAGAAG
1 --ATGGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTACATTGTCGAAGATG
*
2156245 ACCACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGAATCAACAAGAGGTGGATATT
64 ACCACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGAATCAACAGGAGGTGGATATT
* * * *
2156310 GTAGCTGAGAAAGAGAAAGAAACGAGCTATCTTCTCAATGGCGCCAACGTGAGTTGCCTTAAGGT
129 GAAGCTGAGAAAGAGAATGAAACGAGTTATCTTCTCAATGGCGCC-A----A---G-CGT-AGGT
2156375 TGGCTTCGGCAGCTTTGATGTTT
184 TGGCTTCGGCAGCTTT--TG--T
2156398 ATGCTAACGGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTACATTGTCGAA
1 A---T---GGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTACATTGTCGAA
** * * * *
2156463 GATGACCAAAAAGTGAAATCCGAATCTGATTCAGTTACTATTACTATGCATCAGCAGGAGGTGGG
60 GATGACCACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGAATCAACAGGAGGTGGA
*
2156528 TATTGAAGCTGAGAAAGAAAATGAAACGAGTTATCTTCTCAATGGCGCCAA
125 TATTGAAGCTGAGAAAGAGAATGAAACGAGTTATCTTCTCAATGGCGCCAA
2156579 CACTAGTAGC
Statistics
Matches: 1295, Mismatches: 110, Indels: 215
0.80 0.07 0.13
Matches are distributed among these distances:
198 159 0.12
202 1 0.00
203 1 0.00
204 1 0.00
206 1 0.00
207 2 0.00
210 14 0.01
212 1 0.00
213 4 0.00
214 1 0.00
215 2 0.00
216 4 0.00
217 3 0.00
218 5 0.00
219 54 0.04
220 2 0.00
221 6 0.00
222 456 0.35
223 6 0.00
224 6 0.00
225 134 0.10
226 8 0.01
227 6 0.00
228 402 0.31
229 4 0.00
230 2 0.00
231 3 0.00
232 2 0.00
233 1 0.00
234 4 0.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (202 bp):
ATGGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTACATTGTCGAAGATGAC
CACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGAATCAACAGGAGGTGGATATTGA
AGCTGAGAAAGAGAATGAAACGAGTTATCTTCTCAATGGCGCCAAGCGTAGGTTGGCTTCGGCAG
CTTTTGT
Found at i:2155800 original size:228 final size:228
Alignment explanation
Indices: 2155057--2156751 Score: 2550
Period size: 228 Copynumber: 7.5 Consensus size: 228
2155047 GGCAGCTTTG
* *
2155057 ATGGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTACATTGTCGAAGATGAC
1 ATGGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTGCATTGTCGAAGAAGAC
* *
2155122 CACGAAGTGAAATCCGAATCTGATTCAGTTACTATTACTATGCATCAGCAGGAGGTGGGTATTGA
66 CACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGAATCAGCAGGAGGTGGGTATTGA
* *
2155187 AGCTGAGAAAGAGAATGAAACGAGTTATCTGCTCAATGGCGCCAACACTAGTAGCGTTAAGGTTG
131 AGCTGAGAAAGAGAATGAAACGAGTTATCTTCTCAATGGCGCCAACACGAGTAGCGTTAAGGTTG
*
2155252 GCTCCGGCAGCACGGATGTTTATGTTAACGTAA
196 GCTCCGGCAGCATGGATGTTTATGTTAACGTAA
*
2155285 ATGGAAGCGACTCCGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTGCATTGTC---GAAGAC
1 ATGGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTGCATTGTCGAAGAAGAC
* * *
2155347 CACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGAATCAACAGGAGGTGGATATTGT
66 CACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGAATCAGCAGGAGGTGGGTATTGA
* * * * *
2155412 AGCTGAGAAAGAGAATGAAACGAGCTATCTTCTCAATGGCGCGAACGCGAGTTGCCTTAAGGTTG
131 AGCTGAGAAAGAGAATGAAACGAGTTATCTTCTCAATGGCGCCAACACGAGTAGCGTTAAGGTTG
* * *
2155477 GCTTCGGCAGCTTTGATGTTTATGTTAACG---
196 GCTCCGGCAGCATGGATGTTTATGTTAACGTAA
* * *
2155507 -T--AAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGATGACAATTACATTGTCGAAGATGAC
1 ATGGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTGCATTGTCGAAGAAGAC
*
2155569 CACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGCATCAGCAGGAGGTGGGTATTGA
66 CACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGAATCAGCAGGAGGTGGGTATTGA
* * **
2155634 AGCTGAGAAAGAGAATGAAACGAGTTATCTTCTCAATGGCACCAACAAGAGTAGAATTAAGGTTG
131 AGCTGAGAAAGAGAATGAAACGAGTTATCTTCTCAATGGCGCCAACACGAGTAGCGTTAAGGTTG
* *
2155699 GCTCCGTCAGCACGGATGTTTATGTTAACGTAA
196 GCTCCGGCAGCATGGATGTTTATGTTAACGTAA
*
2155732 ATGGAAGCGACTCCGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTGCATTGTCGAAGAAGAC
1 ATGGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTGCATTGTCGAAGAAGAC
* * *
2155797 CACGAAGTGAAATCCGAATCTGATTCGGTTACTTTTACTATGAATCAGCAGGAGGTGGATATTGT
66 CACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGAATCAGCAGGAGGTGGGTATTGA
* * * * * *
2155862 AGCTGAGAAAGAGAAAGAAACGGGATATCTTCTCAATGGCGCCAACGCGAGTTGCGTTAAGGTTA
131 AGCTGAGAAAGAGAATGAAACGAGTTATCTTCTCAATGGCGCCAACACGAGTAGCGTTAAGGTTG
* * *
2155927 GCTTCGGCAGCTTTGATGTTTATG-T----T-A
196 GCTCCGGCAGCATGGATGTTTATGTTAACGTAA
*
2155954 ATGGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTGCATTGTCGAAGATGAC
1 ATGGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTGCATTGTCGAAGAAGAC
* * * **
2156019 CACGAAGTGAAATCCGAATCTGATTCGATTACTATTGCTAGGCGTCAGCAGGAGGTGGGTATTGA
66 CACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGAATCAGCAGGAGGTGGGTATTGA
*
2156084 AGCTGAGAAAGAGAATGAAACGAGTTATCTTCTCAATGGCGCCAACACTAGTAGCGTTAAGGTTG
131 AGCTGAGAAAGAGAATGAAACGAGTTATCTTCTCAATGGCGCCAACACGAGTAGCGTTAAGGTTG
*
2156149 GCTCCGGCAGCACGGATGTTTATGTTAACGTAA
196 GCTCCGGCAGCATGGATGTTTATGTTAACGTAA
2156182 ATGGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTGCATTGTCGAAGAAGAC
1 ATGGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTGCATTGTCGAAGAAGAC
* * * *
2156247 CACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGAATCAACAAGAGGTGGATATTGT
66 CACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGAATCAGCAGGAGGTGGGTATTGA
* * ** * *
2156312 AGCTGAGAAAGAGAAAGAAACGAGCTATCTTCTCAATGGCGCCAACGTGAGTTGCCTTAAGGTTG
131 AGCTGAGAAAGAGAATGAAACGAGTTATCTTCTCAATGGCGCCAACACGAGTAGCGTTAAGGTTG
* * *
2156377 GCTTCGGCAGCTTTGATGTTTATG----C-T-A
196 GCTCCGGCAGCATGGATGTTTATGTTAACGTAA
* * *
2156404 ACGGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTACATTGTCGAAGATGAC
1 ATGGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTGCATTGTCGAAGAAGAC
** * *
2156469 CAAAAAGTGAAATCCGAATCTGATTCAGTTACTATTACTATGCATCAGCAGGAGGTGGGTATTGA
66 CACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGAATCAGCAGGAGGTGGGTATTGA
* *
2156534 AGCTGAGAAAGAAAATGAAACGAGTTATCTTCTCAATGGCGCCAACACTAGTAGCGTTAAGGTTG
131 AGCTGAGAAAGAGAATGAAACGAGTTATCTTCTCAATGGCGCCAACACGAGTAGCGTTAAGGTTG
*
2156599 GCTCCAGCAGCATGGATGTTTATGTTAACGTAA
196 GCTCCGGCAGCATGGATGTTTATGTTAACGTAA
*
2156632 ATGGAAGCGACTCCGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTGCATTGTCGAAGAAGAC
1 ATGGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTGCATTGTCGAAGAAGAC
* * *
2156697 CACGAAGTGAAATCGGAATCTGATTCAGTTACTATTAGTATGAATCAGCAGGAGG
66 CACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGAATCAGCAGGAGG
2156752 GGGAGAAACC
Statistics
Matches: 1309, Mismatches: 137, Indels: 42
0.88 0.09 0.03
Matches are distributed among these distances:
219 49 0.04
221 1 0.00
222 544 0.42
223 3 0.00
224 1 0.00
225 149 0.11
226 2 0.00
227 3 0.00
228 557 0.43
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (228 bp):
ATGGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTGCATTGTCGAAGAAGAC
CACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGAATCAGCAGGAGGTGGGTATTGA
AGCTGAGAAAGAGAATGAAACGAGTTATCTTCTCAATGGCGCCAACACGAGTAGCGTTAAGGTTG
GCTCCGGCAGCATGGATGTTTATGTTAACGTAA
Found at i:2156040 original size:450 final size:450
Alignment explanation
Indices: 2155059--2156751 Score: 3025
Period size: 450 Copynumber: 3.8 Consensus size: 450
2155049 CAGCTTTGAT
2155059 GGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTACATTGTCGAAGATGACCA
1 GGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTACATTGTCGAAGATGACCA
2155124 CGAAGTGAAATCCGAATCTGATTCAGTTACTATTACTATGCATCAGCAGGAGGTGGGTATTGAAG
66 CGAAGTGAAATCCGAATCTGATTCAGTTACTATTACTATGCATCAGCAGGAGGTGGGTATTGAAG
*
2155189 CTGAGAAAGAGAATGAAACGAGTTATCTGCTCAATGGCGCCAACACTAGTAGCGTTAAGGTTGGC
131 CTGAGAAAGAGAATGAAACGAGTTATCTTCTCAATGGCGCCAACACTAGTAGCGTTAAGGTTGGC
2155254 TCCGGCAGCACGGATGTTTATGTTAACGTAAATGGAAGCGACTCCGTTAATGGAGTTGTAGTGGA
196 TCCGGCAGCACGGATGTTTATGTTAACGTAAATGGAAGCGACTCCGTTAATGGAGTTGTAGTGGA
2155319 ATCGGGTGACAATTGCATTGTC---GAAGACCACGAAGTGAAATCCGAATCTGATTCGGTTACTA
261 ATCGGGTGACAATTGCATTGTCGAAGAAGACCACGAAGTGAAATCCGAATCTGATTCGGTTACTA
*
2155381 TTACTATGAATCAACAGGAGGTGGATATTGTAGCTGAGAAAGAGAATGAAACGAGCTATCTTCTC
326 TTACTATGAATCAACAGGAGGTGGATATTGTAGCTGAGAAAGAGAAAGAAACGAGCTATCTTCTC
*
2155446 AATGGCGCGAACGCGAGTTGCCTTAAGGTTGGCTTCGGCAGCTTTGATGTTTATGTTAAC
391 AATGGCGCCAACGCGAGTTGCCTTAAGGTTGGCTTCGGCAGCTTTGATGTTTATGTTAAC
* *
2155506 GTAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGATGACAATTACATTGTCGAAGATGACCA
1 GGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTACATTGTCGAAGATGACCA
*
2155571 CGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGCATCAGCAGGAGGTGGGTATTGAAG
66 CGAAGTGAAATCCGAATCTGATTCAGTTACTATTACTATGCATCAGCAGGAGGTGGGTATTGAAG
* ** **
2155636 CTGAGAAAGAGAATGAAACGAGTTATCTTCTCAATGGCACCAACAAGAGTAGAATTAAGGTTGGC
131 CTGAGAAAGAGAATGAAACGAGTTATCTTCTCAATGGCGCCAACACTAGTAGCGTTAAGGTTGGC
*
2155701 TCCGTCAGCACGGATGTTTATGTTAACGTAAATGGAAGCGACTCCGTTAATGGAGTTGTAGTGGA
196 TCCGGCAGCACGGATGTTTATGTTAACGTAAATGGAAGCGACTCCGTTAATGGAGTTGTAGTGGA
*
2155766 ATCGGGTGACAATTGCATTGTCGAAGAAGACCACGAAGTGAAATCCGAATCTGATTCGGTTACTT
261 ATCGGGTGACAATTGCATTGTCGAAGAAGACCACGAAGTGAAATCCGAATCTGATTCGGTTACTA
* * *
2155831 TTACTATGAATCAGCAGGAGGTGGATATTGTAGCTGAGAAAGAGAAAGAAACGGGATATCTTCTC
326 TTACTATGAATCAACAGGAGGTGGATATTGTAGCTGAGAAAGAGAAAGAAACGAGCTATCTTCTC
* * *
2155896 AATGGCGCCAACGCGAGTTGCGTTAAGGTTAGCTTCGGCAGCTTTGATGTTTATGTTAAT
391 AATGGCGCCAACGCGAGTTGCCTTAAGGTTGGCTTCGGCAGCTTTGATGTTTATGTTAAC
*
2155956 GGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTGCATTGTCGAAGATGACCA
1 GGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTACATTGTCGAAGATGACCA
* * *
2156021 CGAAGTGAAATCCGAATCTGATTC-GATTACTATTGCTAGGCGTCAGCAGGAGGTGGGTATTGAA
66 CGAAGTGAAATCCGAATCTGATTCAG-TTACTATTACTATGCATCAGCAGGAGGTGGGTATTGAA
2156085 GCTGAGAAAGAGAATGAAACGAGTTATCTTCTCAATGGCGCCAACACTAGTAGCGTTAAGGTTGG
130 GCTGAGAAAGAGAATGAAACGAGTTATCTTCTCAATGGCGCCAACACTAGTAGCGTTAAGGTTGG
*
2156150 CTCCGGCAGCACGGATGTTTATGTTAACGTAAATGGAAGCGACTCTGTTAATGGAGTTGTAGTGG
195 CTCCGGCAGCACGGATGTTTATGTTAACGTAAATGGAAGCGACTCCGTTAATGGAGTTGTAGTGG
2156215 AATCGGGTGACAATTGCATTGTCGAAGAAGACCACGAAGTGAAATCCGAATCTGATTCGGTTACT
260 AATCGGGTGACAATTGCATTGTCGAAGAAGACCACGAAGTGAAATCCGAATCTGATTCGGTTACT
*
2156280 ATTACTATGAATCAACAAGAGGTGGATATTGTAGCTGAGAAAGAGAAAGAAACGAGCTATCTTCT
325 ATTACTATGAATCAACAGGAGGTGGATATTGTAGCTGAGAAAGAGAAAGAAACGAGCTATCTTCT
* *
2156345 CAATGGCGCCAACGTGAGTTGCCTTAAGGTTGGCTTCGGCAGCTTTGATGTTTATGCTAAC
390 CAATGGCGCCAACGCGAGTTGCCTTAAGGTTGGCTTCGGCAGCTTTGATGTTTATGTTAAC
2156406 GGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTACATTGTCGAAGATGACCA
1 GGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTACATTGTCGAAGATGACCA
**
2156471 AAAAGTGAAATCCGAATCTGATTCAGTTACTATTACTATGCATCAGCAGGAGGTGGGTATTGAAG
66 CGAAGTGAAATCCGAATCTGATTCAGTTACTATTACTATGCATCAGCAGGAGGTGGGTATTGAAG
*
2156536 CTGAGAAAGAAAATGAAACGAGTTATCTTCTCAATGGCGCCAACACTAGTAGCGTTAAGGTTGGC
131 CTGAGAAAGAGAATGAAACGAGTTATCTTCTCAATGGCGCCAACACTAGTAGCGTTAAGGTTGGC
* *
2156601 TCCAGCAGCATGGATGTTTATGTTAACGTAAATGGAAGCGACTCCGTTAATGGAGTTGTAGTGGA
196 TCCGGCAGCACGGATGTTTATGTTAACGTAAATGGAAGCGACTCCGTTAATGGAGTTGTAGTGGA
* *
2156666 ATCGGGTGACAATTGCATTGTCGAAGAAGACCACGAAGTGAAATCGGAATCTGATTCAGTTACTA
261 ATCGGGTGACAATTGCATTGTCGAAGAAGACCACGAAGTGAAATCCGAATCTGATTCGGTTACTA
* *
2156731 TTAGTATGAATCAGCAGGAGG
326 TTACTATGAATCAACAGGAGG
2156752 GGGAGAAACC
Statistics
Matches: 1184, Mismatches: 57, Indels: 7
0.95 0.05 0.01
Matches are distributed among these distances:
447 272 0.23
449 1 0.00
450 910 0.77
451 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.27
Consensus pattern (450 bp):
GGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTACATTGTCGAAGATGACCA
CGAAGTGAAATCCGAATCTGATTCAGTTACTATTACTATGCATCAGCAGGAGGTGGGTATTGAAG
CTGAGAAAGAGAATGAAACGAGTTATCTTCTCAATGGCGCCAACACTAGTAGCGTTAAGGTTGGC
TCCGGCAGCACGGATGTTTATGTTAACGTAAATGGAAGCGACTCCGTTAATGGAGTTGTAGTGGA
ATCGGGTGACAATTGCATTGTCGAAGAAGACCACGAAGTGAAATCCGAATCTGATTCGGTTACTA
TTACTATGAATCAACAGGAGGTGGATATTGTAGCTGAGAAAGAGAAAGAAACGAGCTATCTTCTC
AATGGCGCCAACGCGAGTTGCCTTAAGGTTGGCTTCGGCAGCTTTGATGTTTATGTTAAC
Found at i:2160357 original size:20 final size:19
Alignment explanation
Indices: 2160334--2160406 Score: 78
Period size: 20 Copynumber: 3.7 Consensus size: 19
2160324 AAATTACAAA
2160334 AAAAATTCAAAATTATTTT
1 AAAAATTCAAAATTATTTT
* *
2160353 CAAAAATTTAAAATAAATTTT
1 -AAAAATTCAAAAT-TATTTT
2160374 -AAAATTCAAAA-TATTTAT
1 AAAAATTCAAAATTATTT-T
2160392 AAAAATTCCAAAATT
1 AAAAATT-CAAAATT
2160407 TATATTTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
17 4 0.09
18 1 0.02
19 16 0.36
20 17 0.39
21 6 0.14
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATTCAAAATTATTTT
Found at i:2160404 original size:27 final size:27
Alignment explanation
Indices: 2160351--2160406 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
2160341 CAAAATTATT
**
2160351 TTCAAAAATTTAAAATAAATTTTAAAA
1 TTCAAAAATTTAAAATAAATTCCAAAA
*
2160378 TTCAAAATATTTATAA-AAATTCCAAAA
1 TTCAAAA-ATTTAAAATAAATTCCAAAA
2160405 TT
1 TT
2160407 TATATTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 18 0.72
28 7 0.28
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (27 bp):
TTCAAAAATTTAAAATAAATTCCAAAA
Found at i:2160407 original size:18 final size:19
Alignment explanation
Indices: 2160334--2160410 Score: 72
Period size: 19 Copynumber: 4.1 Consensus size: 19
2160324 AAATTACAAA
2160334 AAAAATTCAAAATTATTT-T
1 AAAAATTCAAAA-TATTTAT
*
2160353 CAAAAATTTAAAATAAATTT-T
1 -AAAAATTCAAAAT--ATTTAT
2160374 -AAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
2160392 AAAAATTCCAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
2160410 A
1 A
2160411 TTTTTAAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
17 4 0.08
18 8 0.16
19 22 0.44
20 11 0.22
21 5 0.10
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:2160436 original size:26 final size:26
Alignment explanation
Indices: 2160387--2160437 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
2160377 ATTCAAAATA
* **
2160387 TTTATAAAAATTCCAAAATTTATATT
1 TTTAAAAAAATTCCAAAAAATATATT
*
2160413 TTTAAAAAAATTCTAAAAAATATAT
1 TTTAAAAAAATTCCAAAAAATATAT
2160438 AAAGAAAGTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (26 bp):
TTTAAAAAAATTCCAAAAAATATATT
Found at i:2162340 original size:14 final size:14
Alignment explanation
Indices: 2162321--2162347 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2162311 GTTGTGACAG
2162321 GTAAAGATATAGAA
1 GTAAAGATATAGAA
2162335 GTAAAGATATAGA
1 GTAAAGATATAGA
2162348 CAATTCTTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.22, T:0.22
Consensus pattern (14 bp):
GTAAAGATATAGAA
Found at i:2162574 original size:17 final size:17
Alignment explanation
Indices: 2162552--2162609 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
2162542 TCAAACATTT
2162552 GTTCATATAAAATAACA
1 GTTCATATAAAATAACA
* *
2162569 GTTCATATCAAATGACA
1 GTTCATATAAAATAACA
* ** *
2162586 GCTCATGCAAAATAATA
1 GTTCATATAAAATAACA
2162603 GTTCATA
1 GTTCATA
2162610 CTCTATCATA
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (17 bp):
GTTCATATAAAATAACA
Found at i:2163479 original size:42 final size:43
Alignment explanation
Indices: 2163412--2163533 Score: 192
Period size: 43 Copynumber: 2.9 Consensus size: 43
2163402 TTTTTTTTTG
* * *
2163412 CCTTTAGCGGCGCTTTTCCCGCAAACGCCGCTAAAGA-CATGA
1 CCTTTAACGGCGCTTTTCCCACAAACGCCGCTAAAAACCATGA
*
2163454 CCTTTAACGGCGCTTTTTCCACAAACGCCGCTAAAAACCATGA
1 CCTTTAACGGCGCTTTTCCCACAAACGCCGCTAAAAACCATGA
*
2163497 CCTTTAACGGTGCTTTTCCCACAAACGCCGCTAAAAA
1 CCTTTAACGGCGCTTTTCCCACAAACGCCGCTAAAAA
2163534 ATATAAACTT
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
42 33 0.45
43 40 0.55
ACGTcount: A:0.28, C:0.33, G:0.16, T:0.23
Consensus pattern (43 bp):
CCTTTAACGGCGCTTTTCCCACAAACGCCGCTAAAAACCATGA
Found at i:2169807 original size:14 final size:14
Alignment explanation
Indices: 2169785--2169827 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
2169775 ATACCCATGG
*
2169785 CCATTAAACTTAAA
1 CCATAAAACTTAAA
*
2169799 CCATAAAACCCTAAA
1 CCATAAAA-CTTAAA
*
2169814 CCATAAACCTTAAA
1 CCATAAAACTTAAA
2169828 TCTTAAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (14 bp):
CCATAAAACTTAAA
Found at i:2170152 original size:41 final size:41
Alignment explanation
Indices: 2170089--2170225 Score: 206
Period size: 41 Copynumber: 3.3 Consensus size: 41
2170079 GTTATATGAC
2170089 TTTTAGCGGCGTTTTA-TCGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACT-GAAAGCGCCGCTAATGCTCTGGT
* *
2170130 TTTTAGCGGCGCTTTACTGAAAGCGCCGCTAATGCTTTGGAT
1 TTTTAGCGGCGTTTTACTGAAAGCGCCGCTAATGCTCTGG-T
* *
2170172 TTTT-GCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTAGT
1 TTTTAGCGGCGTTTTACTGAAAGCGCCGCTAATGCTCTGGT
2170212 TTTTAGCGGCGTTT
1 TTTTAGCGGCGTTT
2170226 CTATTGCTCT
Statistics
Matches: 87, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
40 5 0.06
41 76 0.87
42 6 0.07
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACTGAAAGCGCCGCTAATGCTCTGGT
Found at i:2170261 original size:24 final size:27
Alignment explanation
Indices: 2170203--2170271 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
2170193 GCGCCGCTAA
*
2170203 TGCTCTAGTTTTTAGCGGCGTTTCTAT
1 TGCTCTATTTTTTAGCGGCGTTTCTAT
*
2170230 TGCTCTATTTTTTAGTGGCG-TT-T-T
1 TGCTCTATTTTTTAGCGGCGTTTCTAT
2170254 TGCTCTA-TTTTTAGCGGC
1 TGCTCTATTTTTTAGCGGC
2170272 ATTTTTTAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
23 10 0.26
24 8 0.21
25 1 0.03
26 2 0.05
27 18 0.46
ACGTcount: A:0.10, C:0.17, G:0.22, T:0.51
Consensus pattern (27 bp):
TGCTCTATTTTTTAGCGGCGTTTCTAT
Found at i:2170347 original size:42 final size:42
Alignment explanation
Indices: 2170261--2170349 Score: 119
Period size: 40 Copynumber: 2.1 Consensus size: 42
2170251 TTTTGCTCTA
* *
2170261 TTTTTAGCGGCATTTTTTAGTAAAAACGTTGCTATTGCCCTG
1 TTTTTAGCGGCAGTTTTTAGTAAAAACGTCGCTATTGCCCTG
* *
2170303 TTTTTAGCGGC-GTTTTTGGT-AAAACGTCGCTATTGCTCTG
1 TTTTTAGCGGCAGTTTTTAGTAAAAACGTCGCTATTGCCCTG
2170343 TGTTTTA
1 T-TTTTA
2170350 CAATTTTTGC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
40 19 0.45
41 12 0.29
42 11 0.26
ACGTcount: A:0.18, C:0.16, G:0.21, T:0.45
Consensus pattern (42 bp):
TTTTTAGCGGCAGTTTTTAGTAAAAACGTCGCTATTGCCCTG
Found at i:2170713 original size:36 final size:36
Alignment explanation
Indices: 2170658--2170740 Score: 118
Period size: 36 Copynumber: 2.4 Consensus size: 36
2170648 CTCACGCATA
*
2170658 TATATTAT-T-TATGAAAAAACCATGCACCCATACT
1 TATATTATATATATGAAAAAACCATGCACACATACT
*
2170692 TATATTATATATAT-AACAAAACCATGCACACATATT
1 TATATTATATATATGAA-AAAACCATGCACACATACT
2170728 TATATTATATATA
1 TATATTATATATA
2170741 CACCTACTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
34 8 0.18
35 3 0.07
36 33 0.75
ACGTcount: A:0.45, C:0.16, G:0.04, T:0.36
Consensus pattern (36 bp):
TATATTATATATATGAAAAAACCATGCACACATACT
Found at i:2171074 original size:19 final size:19
Alignment explanation
Indices: 2171050--2171087 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
2171040 ATTACCTTAG
2171050 CTTGCGTACAAGAATTTAA
1 CTTGCGTACAAGAATTTAA
*
2171069 CTTGCGTACTAGAATTTAA
1 CTTGCGTACAAGAATTTAA
2171088 ATGCAGTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (19 bp):
CTTGCGTACAAGAATTTAA
Found at i:2172752 original size:27 final size:27
Alignment explanation
Indices: 2172714--2172769 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
2172704 CGACGGTGAC
*
2172714 CAATGAAAGTATGCAGGTGAATGCAAG
1 CAATAAAAGTATGCAGGTGAATGCAAG
2172741 CAATAAAAGTATGCAGGTGAATGCAAG
1 CAATAAAAGTATGCAGGTGAATGCAAG
2172768 CA
1 CA
2172770 CTCACGATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.43, C:0.12, G:0.27, T:0.18
Consensus pattern (27 bp):
CAATAAAAGTATGCAGGTGAATGCAAG
Found at i:2185391 original size:21 final size:21
Alignment explanation
Indices: 2185365--2185405 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2185355 AGACGAGCGA
* *
2185365 TACTCCACAATAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
2185386 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
2185406 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:2188941 original size:20 final size:19
Alignment explanation
Indices: 2188912--2188951 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
2188902 ATATATCTTG
2188912 ATTTATTTGATTCTAATCA
1 ATTTATTTGATTCTAATCA
*
2188931 ATTTAATTTGATTTTAATCA
1 ATTT-ATTTGATTCTAATCA
2188951 A
1 A
2188952 ATTGATTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (19 bp):
ATTTATTTGATTCTAATCA
Found at i:2192267 original size:28 final size:28
Alignment explanation
Indices: 2192204--2192301 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
2192194 ATATTAAGTC
*
2192204 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
2192231 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * * *
2192259 CGTACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
2192288 CGCACACTTAGTGC
1 CGCACACTTAGTGC
2192302 CAATCTCATG
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 22 0.35
28 22 0.35
29 18 0.29
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:2194224 original size:24 final size:24
Alignment explanation
Indices: 2194192--2194237 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
2194182 TCGCTATAGA
*
2194192 TTGAGCATTAGCAGCGTTTTTCGC
1 TTGAGCATTAGCAGCGCTTTTCGC
*
2194216 TTGAGCATTAGCGGCGCTTTTC
1 TTGAGCATTAGCAGCGCTTTTC
2194238 AAAAAGAGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (24 bp):
TTGAGCATTAGCAGCGCTTTTCGC
Found at i:2197315 original size:20 final size:21
Alignment explanation
Indices: 2197290--2197328 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
2197280 TCAAACCTTA
2197290 AACCTCAAA-CTTGAATTTTG
1 AACCTCAAATCTTGAATTTTG
2197310 AACCTCAAATCTTGAATTT
1 AACCTCAAATCTTGAATTT
2197329 AGGGTTCGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.36
Consensus pattern (21 bp):
AACCTCAAATCTTGAATTTTG
Found at i:2197477 original size:14 final size:15
Alignment explanation
Indices: 2197447--2197480 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
2197437 ATTATGTATC
2197447 AATTATATGAAAAAT
1 AATTATATGAAAAAT
*
2197462 AATTAT-TGAAATAT
1 AATTATATGAAAAAT
2197476 AATTA
1 AATTA
2197481 AACAATTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (15 bp):
AATTATATGAAAAAT
Found at i:2198591 original size:15 final size:15
Alignment explanation
Indices: 2198571--2198602 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2198561 ATAATACACC
2198571 AATTGACAACTAGCT
1 AATTGACAACTAGCT
2198586 AATTGACAACTAGCT
1 AATTGACAACTAGCT
2198601 AA
1 AA
2198603 CCATCACAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (15 bp):
AATTGACAACTAGCT
Found at i:2201695 original size:42 final size:43
Alignment explanation
Indices: 2201593--2201747 Score: 240
Period size: 43 Copynumber: 3.6 Consensus size: 43
2201583 GCTGGTATTA
* **
2201593 TATTTGGGCCTTCGTGCCTAGCAGGCTTTATGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
2201636 TATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGCCGGT-ATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
2201678 TATTCGGGCCTTTGTGCCTAGCAGTCTGCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
2201721 TATTCGGGCCTTCGTGCCTAGCAGGCT
1 TATTCGGGCCTTCGTGCCTAGCAGGCT
2201748 ATGATGCTGG
Statistics
Matches: 101, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 38 0.38
43 63 0.62
ACGTcount: A:0.10, C:0.24, G:0.33, T:0.33
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:2201785 original size:45 final size:45
Alignment explanation
Indices: 2201721--2201817 Score: 124
Period size: 45 Copynumber: 2.2 Consensus size: 45
2201711 CGGTGATGTG
* * * *
2201721 TATTCGGGCCTTCGTGCCTAGCAGGCTATGATGCTGGTG-GAATAC
1 TATTCGGACCTTCGAGCCTAGCAGGCTATAATGCCGGTGAG-ATAC
* *
2201766 TATTCGGACCTTTGAGCCTAGCATGCTATAATGCCGGTGAGATAC
1 TATTCGGACCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
2201811 TATTCGG
1 TATTCGG
2201818 GCTTTCAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
45 44 0.98
46 1 0.02
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.30
Consensus pattern (45 bp):
TATTCGGACCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
Found at i:2207155 original size:56 final size:55
Alignment explanation
Indices: 2207033--2207174 Score: 160
Period size: 56 Copynumber: 2.6 Consensus size: 55
2207023 GCGAAATAGT
* * **
2207033 CGTGGGTGAGCCTGCCAAAATAACACGGGCGTGCGACATGCCCGTGCCTTGAAAC
1 CGTGGGTGAACCTGCCAAAATAACACGGGCGTGCGACACGCCCGTGCCAAGAAAC
* * * * *
2207088 CAT-GGTCGAACCTGTCAAATTAACAACGGGTGTGCGACACGCCCGTGCCAAGCAAC
1 CGTGGGT-GAACCTGCCAAAATAAC-ACGGGCGTGCGACACGCCCGTGCCAAGAAAC
* *
2207144 TGTGGGTGAACCTGCCAAAACAACACGGGCG
1 CGTGGGTGAACCTGCCAAAATAACACGGGCG
2207175 AAGACCTTCA
Statistics
Matches: 69, Mismatches: 15, Indels: 6
0.77 0.17 0.07
Matches are distributed among these distances:
54 3 0.04
55 22 0.32
56 41 0.59
57 3 0.04
ACGTcount: A:0.27, C:0.29, G:0.29, T:0.15
Consensus pattern (55 bp):
CGTGGGTGAACCTGCCAAAATAACACGGGCGTGCGACACGCCCGTGCCAAGAAAC
Found at i:2213524 original size:32 final size:32
Alignment explanation
Indices: 2213457--2213668 Score: 253
Period size: 32 Copynumber: 6.6 Consensus size: 32
2213447 CCCGAGGTGC
* * *
2213457 ACATTCCCTTTTCAAATGGTACACATAAAGTGT
1 ACATTTCCTTTTCAAGT-GTACACACAAAGTGT
* *
2213490 ACATTTCCTTTTCAAGTGTACACACAAGGGGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
*
2213522 ACATTTCCTTTTCAAGTGTACATACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
** * * *
2213554 ACAAATCCTTTTCAAGTGTATATACAATGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
* * *
2213586 ACGTTTCCTTTTCAAGTATACACACAAAGTCT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
***
2213618 ACAAACCCTTTTCAAGTGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
*
2213650 ACGTTTCCTTTTCAAGTGT
1 ACATTTCCTTTTCAAGTGT
2213669 CAAACTTTCG
Statistics
Matches: 149, Mismatches: 30, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
32 134 0.90
33 15 0.10
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (32 bp):
ACATTTCCTTTTCAAGTGTACACACAAAGTGT
Found at i:2219913 original size:17 final size:18
Alignment explanation
Indices: 2219861--2220037 Score: 236
Period size: 17 Copynumber: 9.9 Consensus size: 18
2219851 AATCATATCT
*
2219861 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
2219880 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
2219898 TCTAAGATTG-AATCATA
1 TCTAAGATTGCAATCATA
* *
2219915 TCTAAGATTG-TATCACA
1 TCTAAGATTGCAATCATA
2219932 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
2219950 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
2219967 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
2219985 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
*
2220002 TCTAAGATTGCATATCACA
1 TCTAAGATTGCA-ATCATA
*
2220021 TGTAAGATTGCATATCA
1 TCTAAGATTGCA-ATCA
2220038 ATGAAGATTA
Statistics
Matches: 143, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
17 64 0.45
18 47 0.33
19 32 0.22
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:2219918 original size:35 final size:35
Alignment explanation
Indices: 2219861--2220030 Score: 261
Period size: 35 Copynumber: 4.8 Consensus size: 35
2219851 AATCATATCT
* *
2219861 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGCA-ATCATATCTAAGATTG-TATCATA
*
2219898 TCTAAGATTG-AATCATATCTAAGATTGTATCACA
1 TCTAAGATTGCAATCATATCTAAGATTGTATCATA
2219932 TCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCAATCATATCTAAGATTGTATCATA
2219967 TCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCAATCATATCTAAGATTGTATCATA
* *
2220002 TCTAAGATTGCATATCACATGTAAGATTG
1 TCTAAGATTGCA-ATCATATCTAAGATTG
2220031 CATATCAATG
Statistics
Matches: 126, Mismatches: 5, Indels: 5
0.93 0.04 0.04
Matches are distributed among these distances:
34 15 0.12
35 86 0.68
36 15 0.12
37 10 0.08
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.36
Consensus pattern (35 bp):
TCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:2219940 original size:52 final size:53
Alignment explanation
Indices: 2219861--2220037 Score: 243
Period size: 52 Copynumber: 3.3 Consensus size: 53
2219851 AATCATATCT
2219861 TCTAAGATTGTATATCATATCTAAGATTGCAATCATATCTAAGATTGAATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATATCTAAGATTGAATCATA
* *
2219915 TCTAAGATTG-TATCACATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCAATCATATCTAAGATTGAATCATA
* *
2219967 TCTAAGATTGCA-ATCATATCTAAGATTG-TATCATATCTAAGATTGCATATCACA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATATCTAAGATTG-A-ATCATA
*
2220021 TGTAAGATTGCATATCA
1 TCTAAGATTG-ATATCA
2220038 ATGAAGATTA
Statistics
Matches: 111, Mismatches: 7, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
52 66 0.59
53 15 0.14
54 26 0.23
55 4 0.04
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (53 bp):
TCTAAGATTGATATCATATCTAAGATTGCAATCATATCTAAGATTGAATCATA
Found at i:2220457 original size:26 final size:26
Alignment explanation
Indices: 2220428--2220535 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
2220418 TGGTACAAAT
2220428 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
2220454 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
2220480 TGATAATGGGCTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2220506 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2220532 TGAT
1 TGAT
2220536 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.08, G:0.25, T:0.34
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:2222050 original size:26 final size:26
Alignment explanation
Indices: 2222021--2222073 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
2222011 TTTACAGTTT
2222021 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
2222047 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
2222073 T
1 T
2222074 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:2223912 original size:207 final size:207
Alignment explanation
Indices: 2223455--2224455 Score: 1691
Period size: 207 Copynumber: 4.8 Consensus size: 207
2223445 AAATCTACTT
* * ** * *
2223455 CTTCAATTTGTTCCCTGACAATATTGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * *
2223520 GCGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * * ** * * *
2223585 GGATC-CGCTTCAGTCTAATCATTTGAAGGTTAGATCTGCTATATGTCTGTCCTTCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
2223649 GGAGATGCCAAA
196 GGAGATGCCAAA
2223661 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
2223726 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
2223791 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
2223856 GGAGATGCCAAA
196 GGAGATGCCAAA
2223868 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* *
2223933 GTGAAAGCCAAATAAACTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
2223998 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAA
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
2224063 GGAGATGCCAAA
196 GGAGATGCCAAA
2224075 C-TCTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACA
1 CTTC-GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACA
* *
2224139 CGTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCATAAGGATGCCAAACCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
* *
2224204 TGGATCTTGCTTCAGTAGAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCTGTCGAATA
130 TGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATA
* *
2224269 TAGAGACGCCAAA
195 TGGAGATGCCAAA
* * *
2224282 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
2224347 GTGAAAGCCAAATCAACTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
2224412 GGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATG
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATG
2224456 CTTTAACCTG
Statistics
Matches: 754, Mismatches: 38, Indels: 5
0.95 0.05 0.01
Matches are distributed among these distances:
206 128 0.17
207 624 0.83
208 2 0.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
GGAGATGCCAAA
Found at i:2224559 original size:84 final size:83
Alignment explanation
Indices: 2224461--2224749 Score: 395
Period size: 84 Copynumber: 3.4 Consensus size: 83
2224451 CTATGCTTTA
* * *
2224461 ACCTGTTACCCTACTACTTAGGGGGTTAAGGCGCATCTTCGATCTGCTCCACTACTACTTAGGGA
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGCATCTTCGATCTGCTCCACTACTGCTTAGGGA
*
2224526 GATAAGATCCGTAATTTT
66 GATAAGATCTGTAATTTT
*
2224544 GACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCATCGTT-GATCTGTTCCACTACTGCTT
1 -ACCTGTTACCCTACTGCTTAGGGGATTAAGGC--G-CATC-TTCGATCTGCTCCACTACTGCTT
2224608 AGGGAGATAAGATCTGTAATTTT
61 AGGGAGATAAGATCTGTAATTTT
*
2224631 AGCCTGTTACCCTACTGCTTAGAGGG-TTAAGGCG-AGTCTTCGATCTGCTCCATTACTGCTTAG
1 A-CCTGTTACCCTACTGCTTAG-GGGATTAAGGCGCA-TCTTCGATCTGCTCCACTACTGCTTAG
* * *
2224694 AGAGATAAGATCTGCAAATTTA
63 GGAGATAAGATCTG-TAATTTT
2224716 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGC
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGC
2224750 TGAATTTTGT
Statistics
Matches: 184, Mismatches: 10, Indels: 21
0.86 0.05 0.10
Matches are distributed among these distances:
83 6 0.03
84 93 0.51
85 7 0.04
86 2 0.01
87 71 0.39
88 5 0.03
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (83 bp):
ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGCATCTTCGATCTGCTCCACTACTGCTTAGGGA
GATAAGATCTGTAATTTT
Found at i:2224649 original size:43 final size:43
Alignment explanation
Indices: 2224512--2224738 Score: 157
Period size: 43 Copynumber: 5.3 Consensus size: 43
2224502 ATCTGCTCCA
* *
2224512 CTACTACTTAGGGAGATAAGATCCGTAATTTTGACCTGTTACC
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTTGACCTGTTACC
* * * * *
2224555 CTACTGCTTAGGG-GATTAAG-GCGAGTCATCGTTGATCTGTT-CC
1 CTACTGCTTAGGGAGA-TAAGATC-TGTAAT-TTTGACCTGTTACC
2224598 ACTACTGCTTAGGGAGATAAGATCTGTAATTTT-AGCCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATCTGTAATTTTGA-CCTGTTACC
* * * * * *
2224642 CTACTGCTTAGAGG-GTTAAG-GC-G-AGTCTTCGATCTGCT-CC
1 CTACTGCTTAG-GGAGATAAGATCTGTAAT-TTTGACCTGTTACC
* * * * *
2224682 ATTACTGCTTAGAGAGATAAGATCTGCAAATTTAACCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATCTGTAATTTTGACCTGTTACC
2224726 CTACTGCTTAGGG
1 CTACTGCTTAGGG
2224739 GATTAAGGCG
Statistics
Matches: 138, Mismatches: 29, Indels: 34
0.69 0.14 0.17
Matches are distributed among these distances:
40 5 0.04
41 22 0.16
42 7 0.05
43 64 0.46
44 37 0.27
45 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (43 bp):
CTACTGCTTAGGGAGATAAGATCTGTAATTTTGACCTGTTACC
Found at i:2225712 original size:13 final size:14
Alignment explanation
Indices: 2225694--2225726 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
2225684 TTGGCCTCTC
2225694 TATTTTT-TCTTTT
1 TATTTTTCTCTTTT
2225707 TATTTTTCTCTTTT
1 TATTTTTCTCTTTT
*
2225721 TCTTTT
1 TATTTT
2225727 ATTTTTTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (14 bp):
TATTTTTCTCTTTT
Found at i:2225741 original size:20 final size:19
Alignment explanation
Indices: 2225698--2225745 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
2225688 CCTCTCTATT
*
2225698 TTTTCTTTTTATTTTTCTCT
1 TTTTC-TTTTATTTTTCTCC
*
2225718 TTTTCTTTTATTTTTTTGCC
1 TTTTCTTTTATTTTTCT-CC
2225738 TTTT-TTTT
1 TTTTCTTTT
2225746 GAAATAGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.04, C:0.12, G:0.02, T:0.81
Consensus pattern (19 bp):
TTTTCTTTTATTTTTCTCC
Found at i:2231536 original size:18 final size:18
Alignment explanation
Indices: 2231500--2231626 Score: 184
Period size: 18 Copynumber: 6.9 Consensus size: 18
2231490 AATCATATCT
*
2231500 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
2231519 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
2231537 TCTAAAATTGCAATCATA
1 TCTAAGATTGCAATCATA
2231555 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
2231573 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
*
2231590 TCTAAGATTGCATATCACA
1 TCTAAGATTGCA-ATCATA
2231609 TCTAAGATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
2231627 TGAAGATTAT
Statistics
Matches: 99, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
17 16 0.16
18 50 0.51
19 33 0.33
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:2249084 original size:18 final size:18
Alignment explanation
Indices: 2249042--2249085 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
2249032 CACATTTTGG
* *
2249042 CAAATTAATACAATTTGC
1 CAAATTAATACAAATTAC
* *
2249060 CATATTAATACAAATTAT
1 CAAATTAATACAAATTAC
2249078 CAAATTAA
1 CAAATTAA
2249086 CATAGTTCAC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.34
Consensus pattern (18 bp):
CAAATTAATACAAATTAC
Found at i:2249447 original size:36 final size:36
Alignment explanation
Indices: 2249409--2249491 Score: 107
Period size: 36 Copynumber: 2.4 Consensus size: 36
2249399 CTCACGCATA
* * *
2249409 TATATTATATAT-GAA-AAAACCGTGCACCCATATT
1 TATATTATATATATAACAAAACCATGCACACATATT
*
2249443 TATATTACATATATAACAAAACCATGCACACATATT
1 TATATTATATATATAACAAAACCATGCACACATATT
*
2249479 GATATTATATATA
1 TATATTATATATA
2249492 CACCTACTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
34 11 0.27
35 2 0.05
36 28 0.68
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.34
Consensus pattern (36 bp):
TATATTATATATATAACAAAACCATGCACACATATT
Found at i:2251529 original size:27 final size:27
Alignment explanation
Indices: 2251491--2251546 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
2251481 CGACGGTGAC
2251491 CAATGAAAGTATGCAGGTGAATGCAAG
1 CAATGAAAGTATGCAGGTGAATGCAAG
2251518 CAATGAAAGTATGCAGGTGAATGCAAG
1 CAATGAAAGTATGCAGGTGAATGCAAG
2251545 CA
1 CA
2251547 CTCACGATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.12, G:0.29, T:0.18
Consensus pattern (27 bp):
CAATGAAAGTATGCAGGTGAATGCAAG
Found at i:2255585 original size:20 final size:21
Alignment explanation
Indices: 2255560--2255601 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
2255550 ACTTCAAACC
2255560 TTAAACCTCAAA-CTTGAATT
1 TTAAACCTCAAATCTTGAATT
*
2255580 TTAAACCTCAAATCTTTAATT
1 TTAAACCTCAAATCTTGAATT
2255601 T
1 T
2255602 AGGGTTCGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.40
Consensus pattern (21 bp):
TTAAACCTCAAATCTTGAATT
Found at i:2257315 original size:43 final size:43
Alignment explanation
Indices: 2257236--2257437 Score: 221
Period size: 43 Copynumber: 4.7 Consensus size: 43
2257226 CAATGTCATA
* * * ** * *
2257236 TCCCAGATATGGACTTACATGTTGTCATATATCGATGCCAATAG
1 TCCCAGACATGGTCTTACACGTAATCACATAACGATGCCAAT-G
* * *
2257280 -CCCAG-CTATGGTCTTACAAGAAATCACATAACGATGTCAATG
1 TCCCAGAC-ATGGTCTTACACGTAATCACATAACGATGCCAATG
* * * *
2257322 TCCTAGACATGGTTTTACATGTAATCACATAACGATGCCAGTG
1 TCCCAGACATGGTCTTACACGTAATCACATAACGATGCCAATG
2257365 -CCTCAGACATGGTCTTACACGTAATCACATAACGATGCCAATG
1 TCC-CAGACATGGTCTTACACGTAATCACATAACGATGCCAATG
*
2257408 TCCAAGACATGGTCTTACACGTAATCACAT
1 TCCCAGACATGGTCTTACACGTAATCACAT
2257438 CTCGATAATC
Statistics
Matches: 133, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
42 3 0.02
43 127 0.95
44 3 0.02
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGTAATCACATAACGATGCCAATG
Found at i:2260437 original size:30 final size:30
Alignment explanation
Indices: 2260387--2260457 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
2260377 ATGCTAATGG
* *
2260387 GTGACTAGTTTGTCACTTTTCGATAACTT-A
1 GTGACTATTTTGTCACTTTTC-AAAACTTAA
* * *
2260417 GTGACTATTTTGTTATTTTTCAAAAGTTAA
1 GTGACTATTTTGTCACTTTTCAAAACTTAA
2260447 GTGACTATTTT
1 GTGACTATTTT
2260458 TTCAACTATC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 5 0.14
30 30 0.86
ACGTcount: A:0.25, C:0.11, G:0.15, T:0.48
Consensus pattern (30 bp):
GTGACTATTTTGTCACTTTTCAAAACTTAA
Found at i:2261671 original size:14 final size:15
Alignment explanation
Indices: 2261652--2261681 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
2261642 ATATTTGAAT
2261652 TGTTCTTAATT-ATG
1 TGTTCTTAATTCATG
2261666 TGTTCTTAATTCATG
1 TGTTCTTAATTCATG
2261681 T
1 T
2261682 TTTGATATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.20, C:0.10, G:0.13, T:0.57
Consensus pattern (15 bp):
TGTTCTTAATTCATG
Found at i:2262596 original size:12 final size:12
Alignment explanation
Indices: 2262579--2262603 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2262569 AGCAAGAGGA
2262579 CGATATTTCAAC
1 CGATATTTCAAC
2262591 CGATATTTCAAC
1 CGATATTTCAAC
2262603 C
1 C
2262604 ACCACCGAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (12 bp):
CGATATTTCAAC
Found at i:2271872 original size:19 final size:19
Alignment explanation
Indices: 2271848--2271907 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
2271838 TGTACATACA
2271848 AAGTGTACAAATCCTTTTC
1 AAGTGTACAAATCCTTTTC
* *
2271867 AAGTGTACACA--C----A
1 AAGTGTACAAATCCTTTTC
2271880 AAGTGTACAAATCCTTTTC
1 AAGTGTACAAATCCTTTTC
2271899 AAGTGTACA
1 AAGTGTACA
2271908 CACAAAGTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 12
0.66 0.09 0.26
Matches are distributed among these distances:
13 10 0.32
15 1 0.03
17 1 0.03
19 19 0.61
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (19 bp):
AAGTGTACAAATCCTTTTC
Found at i:2272064 original size:32 final size:32
Alignment explanation
Indices: 2271763--2272047 Score: 417
Period size: 32 Copynumber: 8.9 Consensus size: 32
2271753 GTGCACATTC
* **
2271763 CCTTTTCAAATGGTACACACAAAGTGTACATTT
1 CCTTTTCAAGT-GTACACACAAAGTGTACAAAT
* * **
2271796 CCTTTTCAAGTGTACACACAAGGGGTACATTT
1 CCTTTTCAAGTGTACACACAAAGTGTACAAAT
* *
2271828 CTTTTTCAAGTGTACATACAAAGTGTACAAAT
1 CCTTTTCAAGTGTACACACAAAGTGTACAAAT
2271860 CCTTTTCAAGTGTACACACAAAGTGTACAAAT
1 CCTTTTCAAGTGTACACACAAAGTGTACAAAT
2271892 CCTTTTCAAGTGTACACACAAAGTGTACAAAT
1 CCTTTTCAAGTGTACACACAAAGTGTACAAAT
* * **
2271924 CCTTTTCAAGTGAACATACAAAGTGTACATTT
1 CCTTTTCAAGTGTACACACAAAGTGTACAAAT
*
2271956 CCTTTCCAAGTGTACACACAAAGTGTACAAAT
1 CCTTTTCAAGTGTACACACAAAGTGTACAAAT
* *
2271988 CCTTTTCAAATGTACACACAAAGTCTACAAAT
1 CCTTTTCAAGTGTACACACAAAGTGTACAAAT
2272020 CCTTTTCAAGTGTACACACAAAGTGTAC
1 CCTTTTCAAGTGTACACACAAAGTGTAC
2272048 GTTTCCATTT
Statistics
Matches: 227, Mismatches: 25, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
32 217 0.96
33 10 0.04
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (32 bp):
CCTTTTCAAGTGTACACACAAAGTGTACAAAT
Found at i:2279445 original size:13 final size:13
Alignment explanation
Indices: 2279429--2279496 Score: 56
Period size: 13 Copynumber: 5.4 Consensus size: 13
2279419 ATATGTAAGG
2279429 ATAATATATATAA
1 ATAATATATATAA
2279442 ATAAT-TA-ATAA
1 ATAATATATATAA
2279453 AT-ATATA-ATACA
1 ATAATATATATA-A
*
2279465 AGTAAAATATA-ATA
1 A-TAATATATATA-A
*
2279479 ATAATATATAAAA
1 ATAATATATATAA
2279492 ATAAT
1 ATAAT
2279497 GATGGAAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
10 2 0.04
11 11 0.24
12 4 0.09
13 20 0.43
14 8 0.17
15 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (13 bp):
ATAATATATATAA
Found at i:2279550 original size:37 final size:35
Alignment explanation
Indices: 2279468--2279571 Score: 104
Period size: 35 Copynumber: 2.9 Consensus size: 35
2279458 TAATACAAGT
*
2279468 AAAAT-ATAATAATAATATATAAAAATAATGATGG
1 AAAATAATAATAATAATATATAAAAATAATGATCG
* *
2279502 AAAATAATAATAATAATTTGTGAAAAATAAT-ATACG
1 AAAATAATAATAATAATATAT-AAAAATAATGAT-CG
*
2279538 ATAAATAATAATAAGATATATATGATAAAATAAT
1 A-AAATAATAATAATA-ATATAT-A-AAAATAAT
2279572 CTTATAGTGT
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
34 5 0.09
35 15 0.26
36 11 0.19
37 13 0.22
38 6 0.10
39 8 0.14
ACGTcount: A:0.61, C:0.01, G:0.08, T:0.31
Consensus pattern (35 bp):
AAAATAATAATAATAATATATAAAAATAATGATCG
Found at i:2281163 original size:20 final size:20
Alignment explanation
Indices: 2281138--2281194 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
2281128 TTATGAATTC
* *
2281138 ATCATGTCCATTTCATACAT
1 ATCATGTGCATATCATACAT
2281158 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
2281178 ATCATGTGCATATCATA
1 ATCATGTGCATATCATA
2281195 TCCCACGTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:2281169 original size:11 final size:11
Alignment explanation
Indices: 2281155--2281193 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
2281145 CCATTTCATA
2281155 CATATCATGTG
1 CATATCATGTG
*
2281166 CATATCA--TA
1 CATATCATGTG
2281175 CATATCATGTG
1 CATATCATGTG
2281186 CATATCAT
1 CATATCAT
2281194 ATCCCACGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
11 16 0.67
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (11 bp):
CATATCATGTG
Found at i:2284627 original size:22 final size:21
Alignment explanation
Indices: 2284573--2284627 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
2284563 GGTTTAATGC
2284573 TATTTTAGCATTTA-AAAATA
1 TATTTTAGCATTTATAAAATA
* **
2284593 AATTTTAG-A-TTATTTAATA
1 TATTTTAGCATTTATAAAATA
2284612 TTATTTTAGCATTTAT
1 -TATTTTAGCATTTAT
2284628 CTTATAGTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
18 3 0.11
19 5 0.19
20 14 0.52
21 1 0.04
22 4 0.15
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (21 bp):
TATTTTAGCATTTATAAAATA
Found at i:2285352 original size:35 final size:36
Alignment explanation
Indices: 2285300--2285382 Score: 91
Period size: 35 Copynumber: 2.3 Consensus size: 36
2285290 CATCGAATTC
2285300 TAAACCAT-AAATATCAAATCCT-AACCTCTAAA-CCT
1 TAAACC-TCAAATATCAAA-CCTGAACCTCTAAACCCT
* *
2285335 TAAACCTCAAATCTCAAACCTGAACCTTTAAACCCT
1 TAAACCTCAAATATCAAACCTGAACCTCTAAACCCT
*
2285371 TCAAACTTCAAA
1 T-AAACCTCAAA
2285383 CCTTAAACCT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
34 4 0.10
35 24 0.59
36 4 0.10
37 9 0.22
ACGTcount: A:0.43, C:0.30, G:0.01, T:0.25
Consensus pattern (36 bp):
TAAACCTCAAATATCAAACCTGAACCTCTAAACCCT
Found at i:2285395 original size:14 final size:14
Alignment explanation
Indices: 2285322--2285397 Score: 55
Period size: 14 Copynumber: 5.2 Consensus size: 14
2285312 ATCAAATCCT
*
2285322 AACCTCTAAACCTTA
1 AACCT-TAAACCTCA
* *
2285337 AACCTCAAATCTCA
1 AACCTTAAACCTCA
* *
2285351 AACC-TGAACCTTTA
1 AACCTTAAACC-TCA
*
2285365 AACCCTTCAAACTTCA
1 AA-CCTT-AAACCTCA
2285381 AACCTTAAACCTCA
1 AACCTTAAACCTCA
2285395 AAC
1 AAC
2285398 TTGAATTTTG
Statistics
Matches: 46, Mismatches: 11, Indels: 9
0.70 0.17 0.14
Matches are distributed among these distances:
13 3 0.07
14 24 0.52
15 11 0.24
16 5 0.11
17 3 0.07
ACGTcount: A:0.41, C:0.34, G:0.01, T:0.24
Consensus pattern (14 bp):
AACCTTAAACCTCA
Found at i:2287439 original size:43 final size:43
Alignment explanation
Indices: 2287392--2287542 Score: 214
Period size: 43 Copynumber: 3.5 Consensus size: 43
2287382 TAGCCCAGCT
* * *
2287392 ATGGTCTTACAAGAAATCACATAACGATGTCAATGTCCTAGAC
1 ATGGTCTTACACGTAATCACATAACGATGCCAATGTCCTAGAC
* * *
2287435 ATGGTTTTACATGTAATCACATAACGATGCCAGTG-CCTCAGAC
1 ATGGTCTTACACGTAATCACATAACGATGCCAATGTCCT-AGAC
* *
2287478 ATGGTCTTACACGTAATCACATAATGATGCCAATGTCCAAGAC
1 ATGGTCTTACACGTAATCACATAACGATGCCAATGTCCTAGAC
2287521 ATGGTCTTACACGTAATCACAT
1 ATGGTCTTACACGTAATCACAT
2287543 CTCGATAATC
Statistics
Matches: 96, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
42 3 0.03
43 91 0.95
44 2 0.02
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACATAACGATGCCAATGTCCTAGAC
Found at i:2290252 original size:29 final size:29
Alignment explanation
Indices: 2290195--2290253 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
2290185 AAGTATAAAC
* **
2290195 ATATTGGGTCATTTATATAAAAAGTAAAA
1 ATATTGGGCCATTTATATAAAAACAAAAA
2290224 ATATTGGGCCATTTATGA-AAAAACAAAAA
1 ATATTGGGCCATTTAT-ATAAAAACAAAAA
2290253 A
1 A
2290254 GGAAGGACGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 25 0.96
30 1 0.04
ACGTcount: A:0.51, C:0.07, G:0.14, T:0.29
Consensus pattern (29 bp):
ATATTGGGCCATTTATATAAAAACAAAAA
Found at i:2291633 original size:21 final size:20
Alignment explanation
Indices: 2291596--2291637 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
2291586 TGCCCAAGGA
*
2291596 AAGCCGATTGATCCATCTAAG
1 AAGCCGATTCATCCATC-AAG
2291617 AAGCCGGATTCAT-CATCAAG
1 AAGCC-GATTCATCCATCAAG
2291637 A
1 A
2291638 CTGAAGATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 9 0.47
22 6 0.32
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (20 bp):
AAGCCGATTCATCCATCAAG
Found at i:2301940 original size:32 final size:32
Alignment explanation
Indices: 2301863--2302080 Score: 238
Period size: 32 Copynumber: 6.8 Consensus size: 32
2301853 TGCACACCTG
* * * * *
2301863 AAGTGCACATTCCCTTTTCAAATGATGCACATA
1 AAGTGTACATTTCCTTTTCAAGTG-TACACACA
*
2301896 AAGTGTACATTTCCTTTTCAAGTGCACACACA
1 AAGTGTACATTTCCTTTTCAAGTGTACACACA
* *
2301928 AGGGGTACATTTCCTTTTCAAGTGTACACACA
1 AAGTGTACATTTCCTTTTCAAGTGTACACACA
** * *
2301960 AAGTGTACAAATCCTTTTCAAGTGTATATACA
1 AAGTGTACATTTCCTTTTCAAGTGTACACACA
* **
2301992 ATGTGTATGTTTCCTTTTCAAGTGTACACACA
1 AAGTGTACATTTCCTTTTCAAGTGTACACACA
** ** *
2302024 AAGACTACAAATCCTTTTCAAGTGTACACAAA
1 AAGTGTACATTTCCTTTTCAAGTGTACACACA
*
2302056 AAGTGTACGTTTCCTTTTCAAGTGT
1 AAGTGTACATTTCCTTTTCAAGTGT
2302081 CACCCTTTCG
Statistics
Matches: 150, Mismatches: 35, Indels: 1
0.81 0.19 0.01
Matches are distributed among these distances:
32 129 0.86
33 21 0.14
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (32 bp):
AAGTGTACATTTCCTTTTCAAGTGTACACACA
Found at i:2302009 original size:96 final size:96
Alignment explanation
Indices: 2301905--2302080 Score: 262
Period size: 96 Copynumber: 1.8 Consensus size: 96
2301895 AAAGTGTACA
* ** ** *
2301905 TTTCCTTTTCAAGTGCACACACAAGGGGTACATTTCCTTTTCAAGTGTACACACAAAGTGTACAA
1 TTTCCTTTTCAAGTGCACACACAAAGACTACAAATCCTTTTCAAGTGTACACAAAAAGTGTACAA
2301970 ATCCTTTTCAAGTGTATATACAATGTGTATG
66 ATCCTTTTCAAGTGTATATACAATGTGTATG
* **
2302001 TTTCCTTTTCAAGTGTACACACAAAGACTACAAATCCTTTTCAAGTGTACACAAAAAGTGTACGT
1 TTTCCTTTTCAAGTGCACACACAAAGACTACAAATCCTTTTCAAGTGTACACAAAAAGTGTACAA
*
2302066 TTCCTTTTCAAGTGT
66 ATCCTTTTCAAGTGT
2302081 CACCCTTTCG
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 70 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (96 bp):
TTTCCTTTTCAAGTGCACACACAAAGACTACAAATCCTTTTCAAGTGTACACAAAAAGTGTACAA
ATCCTTTTCAAGTGTATATACAATGTGTATG
Found at i:2320161 original size:19 final size:18
Alignment explanation
Indices: 2320139--2320174 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2320129 ACTTAAGCCA
2320139 AATAACAAAATCCAAAACC
1 AATAAC-AAATCCAAAACC
*
2320158 AATATCAAATCCAAAAC
1 AATAACAAATCCAAAAC
2320175 ATAGTCCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.61, C:0.25, G:0.00, T:0.14
Consensus pattern (18 bp):
AATAACAAATCCAAAACC
Found at i:2321338 original size:21 final size:21
Alignment explanation
Indices: 2321301--2321340 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2321291 AAAACACAAA
*
2321301 TCAGATCATAATGTCATATTT
1 TCAGATCATAATATCATATTT
2321322 TCAGAATCAT-ATATCATAT
1 TCAG-ATCATAATATCATAT
2321341 CATATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (21 bp):
TCAGATCATAATATCATATTT
Found at i:2337820 original size:21 final size:21
Alignment explanation
Indices: 2337794--2337834 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2337784 AGACGAGCGA
* *
2337794 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
2337815 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
2337835 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:2346260 original size:9 final size:9
Alignment explanation
Indices: 2346242--2346292 Score: 50
Period size: 10 Copynumber: 5.4 Consensus size: 9
2346232 TAAATTATTA
2346242 TTTTAATTT
1 TTTTAATTT
*
2346251 TTTT-ACTT
1 TTTTAATTT
2346259 TTTTAATTTT
1 TTTTAA-TTT
2346269 TTTATAATTT
1 TTT-TAATTT
*
2346279 TTTAGAATTT
1 TTT-TAATTT
2346289 TTTT
1 TTTT
2346293 GAAAATTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
8 7 0.20
9 5 0.14
10 20 0.57
11 3 0.09
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (9 bp):
TTTTAATTT
Found at i:2346279 original size:17 final size:16
Alignment explanation
Indices: 2346240--2346279 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
2346230 TTTAAATTAT
2346240 TATTTTAATTTTTTTA
1 TATTTTAATTTTTTTA
*
2346256 CTTTTTTAATTTTTTTA
1 -TATTTTAATTTTTTTA
2346273 TAATTTT
1 T-ATTTT
2346280 TTAGAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (16 bp):
TATTTTAATTTTTTTA
Found at i:2346347 original size:20 final size:19
Alignment explanation
Indices: 2346322--2346394 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
2346312 AAAAATATTA
2346322 ATTTTGGAATTTTTATAAA-T
1 ATTTT-GAATTTTTA-AAATT
* *
2346342 ATTTTGAGTTTTAAAAATT
1 ATTTTGAATTTTTAAAATT
2346361 ATTTTTGAATTTTTGAAAATT
1 A-TTTTGAATTTTT-AAAATT
2346382 ATTTTGAATTTTT
1 ATTTTGAATTTTT
2346395 TGTAATTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
18 3 0.07
19 9 0.20
20 27 0.59
21 7 0.15
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.58
Consensus pattern (19 bp):
ATTTTGAATTTTTAAAATT
Found at i:2346385 original size:40 final size:42
Alignment explanation
Indices: 2346308--2346393 Score: 108
Period size: 39 Copynumber: 2.1 Consensus size: 42
2346298 TTTTATAAAT
*
2346308 TTTTAAAAATATTAATTTTGGAATTTTTATAAATATTTTGAG
1 TTTTAAAAATATTAATTTTGGAATTTTTATAAATATTTTGAA
*
2346350 TTTT-AAAA-ATT-ATTTTTGAATTTTTGA-AAATTATTTTGAA
1 TTTTAAAAATATTAATTTTGGAATTTTT-ATAAA-TATTTTGAA
2346390 TTTT
1 TTTT
2346394 TTGTAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
39 16 0.40
40 16 0.40
41 4 0.10
42 4 0.10
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (42 bp):
TTTTAAAAATATTAATTTTGGAATTTTTATAAATATTTTGAA
Found at i:2346395 original size:21 final size:21
Alignment explanation
Indices: 2346258--2346396 Score: 78
Period size: 20 Copynumber: 6.7 Consensus size: 21
2346248 TTTTTTTACT
* * *
2346258 TTTTTAATTTTTTTATAATT-
1 TTTTGAATTTTTTGAAAATTA
2346278 TTTTAGAATTTTTTTGAAAATT-
1 TTTT-GAA-TTTTTTGAAAATTA
* * **
2346300 TTATAAATTTTTAAAAATATTAA
1 TTTTGAATTTTTTGAAA-ATT-A
2346323 TTTTGGAA-TTTTT-ATAAA-TA
1 TTTT-GAATTTTTTGA-AAATTA
* *
2346343 TTTTG-A-GTTTTAAAAATTA
1 TTTTGAATTTTTTGAAAATTA
2346362 TTTTTGAA-TTTTTGAAAATTA
1 -TTTTGAATTTTTTGAAAATTA
2346383 TTTTGAATTTTTTG
1 TTTTGAATTTTTTG
2346397 TAATTTTTGT
Statistics
Matches: 94, Mismatches: 13, Indels: 23
0.72 0.10 0.18
Matches are distributed among these distances:
18 8 0.09
19 4 0.04
20 29 0.31
21 26 0.28
22 16 0.17
23 9 0.10
24 2 0.02
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (21 bp):
TTTTGAATTTTTTGAAAATTA
Found at i:2351956 original size:20 final size:20
Alignment explanation
Indices: 2351931--2351970 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2351921 GGAAAGAATA
2351931 AAAAAAGGGAAAAT-GAAAAT
1 AAAAAA-GGAAAATAGAAAAT
*
2351951 AAAAAAGTAAAATAGAAAAT
1 AAAAAAGGAAAATAGAAAAT
2351971 TAGATGGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.12
Consensus pattern (20 bp):
AAAAAAGGAAAATAGAAAAT
Found at i:2367131 original size:107 final size:108
Alignment explanation
Indices: 2367005--2367220 Score: 380
Period size: 107 Copynumber: 2.0 Consensus size: 108
2366995 TAAACAAAAA
* *
2367005 ATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAGTAATAAAATTTCTAACAA
1 ATTAGTTTAACAAAACAATGATATATTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAA
2367070 AATTGTATTAAAATTTTTGTTAATTACTCT-ATAAAATTTTTG
66 AATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTG
* *
2367112 ATTATTTTAACAAAACAATGATATATTAAGTTGGAATAAGTTTTAAATAATAAAATTTCTAACAA
1 ATTAGTTTAACAAAACAATGATATATTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAA
*
2367177 AATTGTATTAAAATTTTTTTTAATTACTCTGATAAAATTTTTG
66 AATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTG
2367220 A
1 A
2367221 CGTGTTTTTT
Statistics
Matches: 103, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
107 90 0.87
108 13 0.13
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.43
Consensus pattern (108 bp):
ATTAGTTTAACAAAACAATGATATATTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAA
AATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTG
Found at i:2368486 original size:22 final size:20
Alignment explanation
Indices: 2368449--2368490 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 20
2368439 AGTTATATAC
2368449 ATTATTTAATATTTTAAATT
1 ATTATTTAATATTTTAAATT
2368469 ATTATTTTAATTATTTTAAATT
1 ATTA-TTTAA-TATTTTAAATT
2368491 TTTTAACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.20
21 5 0.25
22 11 0.55
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTATTTAATATTTTAAATT
Found at i:2373178 original size:8 final size:8
Alignment explanation
Indices: 2373162--2373194 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
2373152 TATTCATTCT
*
2373162 TTATTTTA
1 TTATATTA
2373170 TTATATTA
1 TTATATTA
2373178 TTATATTA
1 TTATATTA
2373186 TTATATTA
1 TTATATTA
2373194 T
1 T
2373195 ATTTAGTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
TTATATTA
Found at i:2373651 original size:7 final size:7
Alignment explanation
Indices: 2373639--2373667 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
2373629 TATATGCTCT
2373639 ATATTCA
1 ATATTCA
2373646 ATATTCA
1 ATATTCA
2373653 ATATTCA
1 ATATTCA
2373660 ATATTCA
1 ATATTCA
2373667 A
1 A
2373668 AAAAATCCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (7 bp):
ATATTCA
Found at i:2381936 original size:6 final size:6
Alignment explanation
Indices: 2381921--2381950 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
2381911 TAATATTTTT
2381921 AATTTCA AATTTA AATTTA AATTTA AATTT
1 AATTT-A AATTTA AATTTA AATTTA AATTT
2381951 TTTATTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.78
7 5 0.22
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (6 bp):
AATTTA
Found at i:2382563 original size:19 final size:19
Alignment explanation
Indices: 2382526--2382575 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
2382516 TTTTATATTT
***
2382526 TTTATAATTTTTTTGAAAA
1 TTTATAATTTTTAAAAAAA
2382545 TTTATAATTTTTAAAAAAA
1 TTTATAATTTTTAAAAAAA
*
2382564 TATATAAATTTT
1 TTTAT-AATTTT
2382576 GGAATTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
TTTATAATTTTTAAAAAAA
Found at i:2391028 original size:68 final size:64
Alignment explanation
Indices: 2390917--2391046 Score: 181
Period size: 68 Copynumber: 2.0 Consensus size: 64
2390907 AGAAAATAAA
* * *
2390917 TTTTAATACATTATATTTTGTGATTCAGTAATTATGACTATCTAATTGT-ATTTATTTACGCGT
1 TTTTAATACATTATATTTTGTAATTCAGTAATTATGACAATCTAATTGTAAATTATTTACGCGT
2390980 TTTTAATACATTATATTTTGTAAATTAATTCAGTAATTATGACAATCTAATTGTAAATTATTTAC
1 TTTTAATACATTATATTTTG-----TAATTCAGTAATTATGACAATCTAATTGTAAATTATTTAC
2391045 GC
61 GC
2391047 CATGCAAGTA
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
63 20 0.34
68 27 0.47
69 11 0.19
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.48
Consensus pattern (64 bp):
TTTTAATACATTATATTTTGTAATTCAGTAATTATGACAATCTAATTGTAAATTATTTACGCGT
Found at i:2391683 original size:16 final size:17
Alignment explanation
Indices: 2391662--2391695 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2391652 TTTCAAAGCA
2391662 AAATTA-TAATAAACTT
1 AAATTATTAATAAACTT
*
2391678 AAATTATTAATTAACTT
1 AAATTATTAATAAACTT
2391695 A
1 A
2391696 TTTAGGTCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATTATTAATAAACTT
Done.