Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold179
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: 2991183
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.31
Warning! 65816 characters in sequence are not A, C, G, or T
File 14 of 18
Found at i:1888223 original size:20 final size:20
Alignment explanation
Indices: 1888185--1888234 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
1888175 TATGCTTTGC
**
1888185 ATCGATACAT-GTTAATTGT
1 ATCGATACATGGACAATTGT
1888204 ATCGATACATGGACAATTGT
1 ATCGATACATGGACAATTGT
1888224 ATCGATACATG
1 ATCGATACATG
1888235 AGATTGGCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (20 bp):
ATCGATACATGGACAATTGT
Found at i:1888289 original size:20 final size:20
Alignment explanation
Indices: 1888264--1888329 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
1888254 TACCACTGTT
1888264 TGTATCGATACATGGTACAA
1 TGTATCGATACATGGTACAA
1888284 TGTATCGATACAT--T---A
1 TGTATCGATACATGGTACAA
*
1888299 --TATCAATACATGGTACAA
1 TGTATCGATACATGGTACAA
1888317 TGTATCGATACAT
1 TGTATCGATACAT
1888330 TGTATCGATA
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
13 10 0.27
15 2 0.05
18 2 0.05
20 23 0.62
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATGGTACAA
Found at i:1888342 original size:13 final size:13
Alignment explanation
Indices: 1888312--1888342 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1888302 CAATACATGG
*
1888312 TACAATGTATCGA
1 TACATTGTATCGA
1888325 TACATTGTATCGA
1 TACATTGTATCGA
1888338 TACAT
1 TACAT
1888343 GATGAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:1888362 original size:33 final size:33
Alignment explanation
Indices: 1888263--1888343 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
1888253 CTACCACTGT
1888263 TTGTATCGATACATGGTACAATGTATCGATACA
1 TTGTATCGATACATGGTACAATGTATCGATACA
* *
1888296 TTATATCAATACATGGTACAATGTATCGATACA
1 TTGTATCGATACATGGTACAATGTATCGATACA
1888329 TTGTATCGATACATG
1 TTGTATCGATACATG
1888344 ATGAATTATA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.35
Consensus pattern (33 bp):
TTGTATCGATACATGGTACAATGTATCGATACA
Found at i:1890668 original size:15 final size:15
Alignment explanation
Indices: 1890648--1890677 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1890638 GATAAAGTGT
1890648 TTGAAAAAAAAAAAA
1 TTGAAAAAAAAAAAA
1890663 TTGAAAAAAAAAAAA
1 TTGAAAAAAAAAAAA
1890678 AAAATTCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (15 bp):
TTGAAAAAAAAAAAA
Found at i:1890713 original size:21 final size:21
Alignment explanation
Indices: 1890687--1890743 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
1890677 AAAAATTCCA
*
1890687 AATGTATCGATACATTTGTAT
1 AATGTATCGATACATTTGTAG
*
1890708 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
1890729 AATGTATCGATACAT
1 AATGTATCGATACAT
1890744 CCTACAAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.39
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:1890823 original size:19 final size:19
Alignment explanation
Indices: 1890799--1890866 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1890789 AATTCAACAA
1890799 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1890818 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1890833 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1890850 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1890867 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1890838 original size:13 final size:13
Alignment explanation
Indices: 1890820--1890844 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1890810 ACATAAGTTT
1890820 TGTATCGATACAA
1 TGTATCGATACAA
1890833 TGTATCGATACA
1 TGTATCGATACA
1890845 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1890842 original size:32 final size:32
Alignment explanation
Indices: 1890801--1890863 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1890791 TTCAACAATT
*
1890801 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1890833 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1890864 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1890924 original size:13 final size:13
Alignment explanation
Indices: 1890906--1890931 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1890896 CATTTTTCTG
1890906 TGTATCGATACAT
1 TGTATCGATACAT
1890919 TGTATCGATACAT
1 TGTATCGATACAT
1890932 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1890928 original size:33 final size:33
Alignment explanation
Indices: 1890886--1890952 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1890876 GCCAAGGAAA
***
1890886 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
1890919 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
1890952 T
1 T
1890953 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:1893430 original size:27 final size:28
Alignment explanation
Indices: 1893400--1893475 Score: 111
Period size: 27 Copynumber: 2.8 Consensus size: 28
1893390 TTTCTTCACA
1893400 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
1893427 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
1893455 -TGAGGGGATACTCCAACCCCG
1 AT-CGGGGATACTCCAACCCCG
1893476 ACTTTATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
27 25 0.56
28 20 0.44
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.22
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:1893526 original size:51 final size:51
Alignment explanation
Indices: 1893458--1893628 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
1893448 TTATTTCTGA
* * *
1893458 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
1893509 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** * *
1893562 GGGGATACTCCAATTCCGATTTTATTTCCAAAAGTACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAA-TACCAATTTTTCATAATC
*
1893614 GAGGATACTCCAACC
1 GGGGATACTCCAACC
1893629 TCGTTATTTC
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 36 0.37
52 18 0.19
53 35 0.36
54 8 0.08
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:1893647 original size:28 final size:28
Alignment explanation
Indices: 1893611--1893692 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
1893601 ATTTTTCACA
*
1893611 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
1893639 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
1893667 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
1893693 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:1894934 original size:1 final size:1
Alignment explanation
Indices: 1894928--1894962 Score: 70
Period size: 1 Copynumber: 35.0 Consensus size: 1
1894918 AACAGACAAC
1894928 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1894963 AGAGGAGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:1896248 original size:26 final size:26
Alignment explanation
Indices: 1896182--1896255 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 26
1896172 ATGTTGGAGA
* **
1896182 GAATAACGAGGTTGGAGTGTCCCTCG
1 GAATAACGAGGTTGGAGTATCCCGAG
* *
1896208 GAAGTAACGGGGTTGGAGTATCCCGAT
1 GAA-TAACGAGGTTGGAGTATCCCGAG
1896235 GAATAACGAGGTTGG-GTATCC
1 GAATAACGAGGTTGGAGTATCC
1896256 TCTTTGTGGA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
25 6 0.15
26 14 0.34
27 21 0.51
ACGTcount: A:0.26, C:0.16, G:0.35, T:0.23
Consensus pattern (26 bp):
GAATAACGAGGTTGGAGTATCCCGAG
Found at i:1899040 original size:31 final size:32
Alignment explanation
Indices: 1898998--1899059 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
1898988 GTGCTAATTA
*
1898998 TGTATCGATACAATAC-GTATGTATCGATACAT
1 TGTATCGATACAAAACTGTAT-TATCGATACAT
*
1899030 TGTA-CGATACAAAACTTTATTATCGATACA
1 TGTATCGATACAAAACTGTATTATCGATACA
1899060 AATTGTGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 20 0.74
32 7 0.26
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (32 bp):
TGTATCGATACAAAACTGTATTATCGATACAT
Found at i:1899205 original size:16 final size:16
Alignment explanation
Indices: 1899184--1899215 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1899174 TTGGAATTTT
1899184 TTTTTTTTTTTGTCAA
1 TTTTTTTTTTTGTCAA
*
1899200 TTTTTTTTTTTTTCAA
1 TTTTTTTTTTTGTCAA
1899216 AACCTTTATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.06, G:0.03, T:0.78
Consensus pattern (16 bp):
TTTTTTTTTTTGTCAA
Found at i:1901602 original size:35 final size:34
Alignment explanation
Indices: 1901549--1901630 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 34
1901539 AAGAATTCAT
1901549 CATGGTATCGATACAATGTAGCGGATACATTGTAC
1 CATGGTATCGATACAATGTAGC-GATACATTGTAC
* *
1901584 CATGGTAGT-GATATAATGTATCGATACATTGTAC
1 CATGGTA-TCGATACAATGTAGCGATACATTGTAC
1901618 C-T-GTA-CGATACAA
1 CATGGTATCGATACAA
1901631 ACATGGTAGG
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
31 6 0.14
32 3 0.07
33 1 0.02
34 13 0.31
35 18 0.43
36 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (34 bp):
CATGGTATCGATACAATGTAGCGATACATTGTAC
Found at i:1967888 original size:30 final size:30
Alignment explanation
Indices: 1967852--1967917 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
1967842 CACCAAAAAC
1967852 AATATCATCAACATATACTTGTACAATTAA
1 AATATCATCAACATATACTTGTACAATTAA
1967882 AATATCATCAACATATACTTGTACAATTAA
1 AATATCATCAACATATACTTGTACAATTAA
1967912 AATATC
1 AATATC
1967918 TTTTCTTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (30 bp):
AATATCATCAACATATACTTGTACAATTAA
Found at i:1971113 original size:3 final size:3
Alignment explanation
Indices: 1971099--1971142 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
1971089 CGAGTCAACT
* * *
1971099 TCA TCA TTA TCA TCA TCA TCA TCA TCA TCA TTA TCT TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1971143 TTTGATGGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.41
Consensus pattern (3 bp):
TCA
Found at i:1971116 original size:12 final size:12
Alignment explanation
Indices: 1971099--1971141 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
1971089 CGAGTCAACT
1971099 TCATCATTATCA
1 TCATCATTATCA
*
1971111 TCATCATCATCA
1 TCATCATTATCA
*
1971123 TCATCATTATCT
1 TCATCATTATCA
1971135 TCATCAT
1 TCATCAT
1971142 CTTTGATGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.42
Consensus pattern (12 bp):
TCATCATTATCA
Found at i:1972756 original size:13 final size:13
Alignment explanation
Indices: 1972738--1972762 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1972728 TTTGAGACAA
1972738 TGTATCGATACAT
1 TGTATCGATACAT
1972751 TGTATCGATACA
1 TGTATCGATACA
1972763 ATGTGCCATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1972838 original size:20 final size:20
Alignment explanation
Indices: 1972812--1972866 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
1972802 CTGCCAGTTT
**
1972812 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTGAA
*
1972832 GATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
1972851 CATGTATCGATACAAT
1 CATGTATCGATACAAT
1972867 ATATCGATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:1980760 original size:51 final size:50
Alignment explanation
Indices: 1980647--1980751 Score: 147
Period size: 50 Copynumber: 2.1 Consensus size: 50
1980637 TAATATGCAT
* * * *
1980647 AAAAAAATAATGACAATGCTTGGATGAAAACCCTAAAGGGCATTCAAGTA
1 AAAAAAAGAATGACAATGCTTGGATGAAAACCCGAAAAGGCACTCAAGTA
* * *
1980697 AAAAAAAGAATGACAATGCTTGGATGAAAACTCGAAAAGGCGCTCAGGTA
1 AAAAAAAGAATGACAATGCTTGGATGAAAACCCGAAAAGGCACTCAAGTA
1980747 AAAAA
1 AAAAA
1980752 TTTGAATGAA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.50, C:0.13, G:0.20, T:0.17
Consensus pattern (50 bp):
AAAAAAAGAATGACAATGCTTGGATGAAAACCCGAAAAGGCACTCAAGTA
Found at i:1981518 original size:77 final size:78
Alignment explanation
Indices: 1981385--1981598 Score: 227
Period size: 77 Copynumber: 2.8 Consensus size: 78
1981375 TTTAGCTCGA
* * * * *
1981385 CCACTCATTCCCAATCAT-TCTCTTCTTTTCCATATGCTAGATGATATTGGTGCATCACAAGGCC
1 CCACACATTCCCAATCATATC-CTTCATTCCCAAATACTAGATGATATTGGTGCATCACAAGG-C
1981449 AAAGA-GGGCACTTC
64 AAAGAGGGGCACTTC
** * * *
1981463 CTGCACATTCCCAATCGTA-CCTTCATTCCCAAATACTAGATGATATTGGTGCATCACATGGCTA
1 CCACACATTCCCAATCATATCCTTCATTCCCAAATACTAGATGATATTGGTGCATCACAAGGCAA
**
1981527 AGAGGGGCGTTTC
66 AGAGGGGCACTTC
* * * * * *
1981540 CCATACATTCCCAATCATATCCTTCCTTCCCAAATACTAAATGGTATTGATGGATCACA
1 CCACACATTCCCAATCATATCCTTCATTCCCAAATACTAGATGATATTGGTGCATCACA
1981599 TGGGCATAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
76 5 0.04
77 58 0.52
78 49 0.44
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (78 bp):
CCACACATTCCCAATCATATCCTTCATTCCCAAATACTAGATGATATTGGTGCATCACAAGGCAA
AGAGGGGCACTTC
Found at i:1981620 original size:78 final size:77
Alignment explanation
Indices: 1981390--1981620 Score: 200
Period size: 78 Copynumber: 3.0 Consensus size: 77
1981380 CTCGACCACT
* * * * * * * * *
1981390 CATTCCCAATCATTCTCTTCTTTTCCATATGCTAGATGATATTGGTGCATCACAAGGCCAA-AGA
1 CATTCCCAATCATAC-CTTCATTCCCAAATACTAAATGATATTGATGCATCACATGGCTAAGAG-
***
1981454 GGGCACT-TCCTGCA
64 GGGCA-TATCCCATA
* * *
1981468 CATTCCCAATCGTACCTTCATTCCCAAATACTAGATGATATTGGTGCATCACATGGCTAAGAGGG
1 CATTCCCAATCATACCTTCATTCCCAAATACTAAATGATATTGATGCATCACATGGCTAAGAGGG
* *
1981533 GCGTTTCCCATA
66 GCATATCCCATA
* * *
1981545 CATTCCCAATCATATCCTTCCTTCCCAAATACTAAATGGTATTGATGGATCACATGGGC-ATA-A
1 CATTCCCAATCATA-CCTTCATTCCCAAATACTAAATGATATTGATGCATCACAT-GGCTA-AGA
1981608 GGGGCATATCCCA
63 GGGGCATATCCCA
1981621 CAAACTTCTC
Statistics
Matches: 128, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
76 1 0.01
77 60 0.47
78 63 0.49
79 4 0.03
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (77 bp):
CATTCCCAATCATACCTTCATTCCCAAATACTAAATGATATTGATGCATCACATGGCTAAGAGGG
GCATATCCCATA
Found at i:1981819 original size:42 final size:42
Alignment explanation
Indices: 1981773--1981864 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 42
1981763 TCCGACATGG
* *
1981773 GAGACTTCTTCATCTTTCGTCTGCCCGTCAGCTTAGGCC-TGA
1 GAGACTTCTTCATCTTTCGTATGCCCATCAGCTTA-GCCTTGA
1981815 GAGACTTCTTCATCTTTCGTATGCCCATCAGCTTAGCCTTGA
1 GAGACTTCTTCATCTTTCGTATGCCCATCAGCTTAGCCTTGA
1981857 GAGACTTC
1 GAGACTTC
1981865 CTTTATCAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
41 3 0.06
42 44 0.94
ACGTcount: A:0.17, C:0.29, G:0.20, T:0.34
Consensus pattern (42 bp):
GAGACTTCTTCATCTTTCGTATGCCCATCAGCTTAGCCTTGA
Found at i:1983363 original size:146 final size:146
Alignment explanation
Indices: 1983200--1983481 Score: 352
Period size: 146 Copynumber: 1.9 Consensus size: 146
1983190 CGAGAATACG
* * * * * **
1983200 GTGTTTTCTACTCCGTAATTTTTTTCAATGGGATTTTTCTTGATTTTTAATTATTAAAATTTGTC
1 GTGTTTTCTACTCCGTAAATTTGTTCAAGGGGATTTTTCTCGATTTTCAATTATTAAAATTCATC
* * * * * *
1983265 AAATATTATCATTT-ATTTTATAGTAATTT-AGTTTTTAAAAATTTATTTATTTTCATGAGTTTT
66 AAACATTATCATTTGA-TTCATA-TAATTTCAGTTTTCAAAAATTCATTCATTTTCATGAATTTT
1983328 TGATTTTTTCAAAATATA
129 TGATTTTTTCAAAATATA
* * *
1983346 GTGTTTTCTACTCCGTAAATTTGTTCGAGGGGATTTTTCTCGGTTTTCAATTTTTAAAATTCATC
1 GTGTTTTCTACTCCGTAAATTTGTTCAAGGGGATTTTTCTCGATTTTCAATTATTAAAATTCATC
* * * *
1983411 AAACCTTATTATTTGATTCATATTATTTCAGTTTTCAAAAATTCATTCATTTTCATGAATTTTTT
66 AAACATTATCATTTGATTCATATAATTTCAGTTTTCAAAAATTCATTCATTTTCATGAATTTTTG
1983476 ATTTTT
131 ATTTTT
1983482 CCTTGAAACT
Statistics
Matches: 114, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
145 5 0.04
146 108 0.95
147 1 0.01
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.54
Consensus pattern (146 bp):
GTGTTTTCTACTCCGTAAATTTGTTCAAGGGGATTTTTCTCGATTTTCAATTATTAAAATTCATC
AAACATTATCATTTGATTCATATAATTTCAGTTTTCAAAAATTCATTCATTTTCATGAATTTTTG
ATTTTTTCAAAATATA
Found at i:1983633 original size:310 final size:303
Alignment explanation
Indices: 1983085--1983646 Score: 738
Period size: 310 Copynumber: 1.8 Consensus size: 303
1983075 TAATTTTTTA
* * * *
1983085 TTTTTAATTTTTAAAATTCATCAAATATTATCATTTATTTCATATTAATTCTTTTTCAAACATTC
1 TTTTCAATTTTTAAAATTCATCAAACATTATCATTTATTTCATATTAATTCGTTTTCAAAAATTC
* *
1983150 ATTCATTTTCATGAGATTTTTCCTTGAAATTTCTCTTTTTCGAGAATACGGTGTTTTCTACTCCG
66 ATTCATTTTCATGAGATTTTTCCTTGAAACTTCCCTTTTTCGAGAATACGGTGTTTTCTACTCCG
** *
1983215 TAATTTTTTTCAATGGGATTTTTCTTGATTTTTAATTATTAAAATTTGTCAAATATTATCATTTA
131 TAATTTTTTTCAATGGGATTTTTCTT-ATTTTTAATTATTAAAATTCATCAAATATCATCATTTA
* * * * *
1983280 TTTTATAGTAATTTAGTTTTTAAAAATTTATTTATTTTCATGAGTTTTTGATTTTTTCAAAATAT
195 TTTCATAGTAATTTAGTTTTAAAAAATTAATTCATTTTCATGAGTTTTGGATTTTTTCAAAATAT
1983345 AGTGTTTTCTACTCCGTAAATTTGTTCGAGGGGATTTTTCTCGG
260 AGTGTTTTCTACTCCGTAAATTTGTTCGAGGGGATTTTTCTCGG
* * *
1983389 TTTTCAATTTTTAAAATTCATCAAACCTTATTATTTGA-TTCATATTATTTCAGTTTTCAAAAAT
1 TTTTCAATTTTTAAAATTCATCAAACATTATCATTT-ATTTCATATTAATTC-GTTTTCAAAAAT
* * *
1983453 TCATTCATTTTCATGAATTTTTTATTTTTCCTTGAAACTTCCCTTTTTTGA-AATACTGTGTTTT
64 TCATTCATTTTCATG-A-----GATTTTTCCTTGAAACTTCCCTTTTTCGAGAATACGGTGTTTT
* * * *
1983517 TTACTCTGTGAATTTTTTTCGA-GAGGATTTTTCTCT-TTTTTAATTTTTAAAATTCATCAAATA
123 CTACTCCGT-AATTTTTTTCAATG-GGATTTTTCT-TATTTTTAATTATTAAAATTCATCAAATA
* *
1983580 TCATTATTTGA-TTCATATTAATTTAGTTTTAAAAAATTAATTCATTTTCATGAGTTTTGGATTT
185 TCATCATTT-ATTTCATAGTAATTTAGTTTTAAAAAATTAATTCATTTTCATGAGTTTTGGATTT
1983644 TTT
249 TTT
1983647 TGTTGAAATT
Statistics
Matches: 220, Mismatches: 26, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
304 44 0.20
305 26 0.12
306 1 0.00
310 101 0.46
311 47 0.21
312 1 0.00
ACGTcount: A:0.27, C:0.11, G:0.09, T:0.53
Consensus pattern (303 bp):
TTTTCAATTTTTAAAATTCATCAAACATTATCATTTATTTCATATTAATTCGTTTTCAAAAATTC
ATTCATTTTCATGAGATTTTTCCTTGAAACTTCCCTTTTTCGAGAATACGGTGTTTTCTACTCCG
TAATTTTTTTCAATGGGATTTTTCTTATTTTTAATTATTAAAATTCATCAAATATCATCATTTAT
TTCATAGTAATTTAGTTTTAAAAAATTAATTCATTTTCATGAGTTTTGGATTTTTTCAAAATATA
GTGTTTTCTACTCCGTAAATTTGTTCGAGGGGATTTTTCTCGG
Found at i:1983697 original size:164 final size:164
Alignment explanation
Indices: 1983348--1983737 Score: 429
Period size: 164 Copynumber: 2.4 Consensus size: 164
1983338 AAAATATAGT
* * * *
1983348 GTTTTCTACTCCGTAAA-TTTGTTCGAGGGGATTTTTCTCGGTTTTCAATTTTTAAAATTCATCA
1 GTTTTCTTCTTCGTAAATTTTTTTCGAGAGGATTTTTCTCGGTTTTCAATTTTTAAAATTCATCA
* * * * **
1983412 AACCTTATTATTTGATTCATATTATTTCAGTTTTCAAAAATTCATTCATTTTCATGAATTTTTTA
66 AACATCATTATTTGATTCATATTATTTCAGTTTTAAAAAATTAATTCATTTTCATGAATTTTGGA
*
1983477 TTTTTCCTTGAAACTTCCCTTTTTTGAAATACTGT
131 TTTTTCCTTGAAACTT-CCTTTTTTGAAATACTGA
* * *
1983512 GTTTT-TTAC-TCTGTGAATTTTTTTCGAGAGGATTTTTCTC-TTTTTTAATTTTTAAAATTCAT
1 GTTTTCTT-CTTC-GTAAATTTTTTTCGAGAGGATTTTTCTCGGTTTTCAATTTTTAAAATTCAT
* *
1983574 CAAATATCATTATTTGATTCATATTAATTT-AGTTTTAAAAAATTAATTCATTTTCATGAGTTTT
64 CAAACATCATTATTTGATTCATATT-ATTTCAGTTTTAAAAAATTAATTCATTTTCATGAATTTT
**
1983638 GGATTTTTTTGTTGAAA-TT-CTTTTTTCCGAGAA-ACTGA
128 GGA-TTTTTCCTTGAAACTTCCTTTTTT--GA-AATACTGA
* * * ** *
1983676 GTTTTCTTCTTCGTAAATTTTTTTGGGGA-GATTTTTCTTGGTTTAAAATTTTTAAAACTCAT
1 GTTTTCTTCTTCGTAAATTTTTTTCGAGAGGATTTTTCTCGGTTTTCAATTTTTAAAATTCAT
1983738 ATAATGTTGT
Statistics
Matches: 189, Mismatches: 26, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
162 7 0.04
163 11 0.06
164 130 0.69
165 41 0.22
ACGTcount: A:0.26, C:0.12, G:0.11, T:0.52
Consensus pattern (164 bp):
GTTTTCTTCTTCGTAAATTTTTTTCGAGAGGATTTTTCTCGGTTTTCAATTTTTAAAATTCATCA
AACATCATTATTTGATTCATATTATTTCAGTTTTAAAAAATTAATTCATTTTCATGAATTTTGGA
TTTTTCCTTGAAACTTCCTTTTTTGAAATACTGA
Found at i:1985228 original size:154 final size:154
Alignment explanation
Indices: 1984927--1985211 Score: 398
Period size: 154 Copynumber: 1.9 Consensus size: 154
1984917 TTTTTTGTAA
* * * *
1984927 AAATATTAATCATTTTTAATCTGTTATATTCCTATGGGTATCCGTAGGGGTATAAAAAATTAGAA
1 AAATATTAATCATTTTTAATCTGTTATATTCCTATAGGTATCCATAGGGATATAAAAAATTACAA
* *
1984992 AACAGTTTGTGTATCTTTTCGGTTTTCCATTAAGGTACAAAATGATTTTTTTCCAAAAATAAATA
66 AACACTTTGTATATCTTTTCGGTTTTCCATTAAGGTACAAAATGATTTTTTTCCAAAAATAAATA
*
1985057 AATTCACTCGTCGTTAATTTAAAC
131 AATTCAATCGTCGTTAATTTAAAC
* * * * *
1985081 AAATATTAATCGTTTTTAATCTTTTATATTCCTATAGGTTTCCATAGGGATATAAAAGATTTCAA
1 AAATATTAATCATTTTTAATCTGTTATATTCCTATAGGTATCCATAGGGATATAAAAAATTACAA
* *
1985146 AA-ACTTT-TCATATCTTTTCGAGTTTT-CATTAAGGTACGAAATGATTTTTTTTC-AAAATAAA
66 AACACTTTGT-ATATCTTTTCG-GTTTTCCATTAAGGTACAAAATGATTTTTTTCCAAAAATAAA
1985207 TAAAT
129 TAAAT
1985212 ATTAATGGTT
Statistics
Matches: 116, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
152 14 0.12
153 39 0.34
154 63 0.54
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (154 bp):
AAATATTAATCATTTTTAATCTGTTATATTCCTATAGGTATCCATAGGGATATAAAAAATTACAA
AACACTTTGTATATCTTTTCGGTTTTCCATTAAGGTACAAAATGATTTTTTTCCAAAAATAAATA
AATTCAATCGTCGTTAATTTAAAC
Found at i:1985268 original size:128 final size:128
Alignment explanation
Indices: 1985076--1985326 Score: 360
Period size: 128 Copynumber: 2.0 Consensus size: 128
1985066 GTCGTTAATT
*
1985076 TAAACAAATATTAATCGTTTTTAATCTTTTATATTCCTATAGGTTTCCATAGGGATATAAAAGAT
1 TAAACAAATATTAATCGTTTTTAATCTTTTATATTCCTATAGGTATCCATAGGGATATAAAAGAT
* * * * * *
1985141 TTCAAAAACTTTTCATATCTTTTCGAGTTTTCATTAAGGTACGAAATGA-TTTTTTTTCAAAA
66 TTCAAAAACTTTTCATATCTTTGCAAGTATCCATTAAGGTACAAAATGACATTTTTTTCAAAA
* * * *
1985203 TAAATAAATATTAATGGTTTTTTAATCTTTTATATTCCTATAGGTATCCTTAGGGGTATAAAAGA
1 TAAACAAATATTAATCG-TTTTTAATCTTTTATATTCCTATAGGTATCCATAGGGATATAAAAGA
** *
1985268 TTTCAAAAACTTTTTGTATCTTTGCAAGTATCCATTATGGTACAAAATGACATTTTTTT
65 TTTCAAAAACTTTTCATATCTTTGCAAGTATCCATTAAGGTACAAAATGACATTTTTTT
1985327 AGAAAAATTA
Statistics
Matches: 108, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
127 15 0.14
128 86 0.80
129 7 0.06
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (128 bp):
TAAACAAATATTAATCGTTTTTAATCTTTTATATTCCTATAGGTATCCATAGGGATATAAAAGAT
TTCAAAAACTTTTCATATCTTTGCAAGTATCCATTAAGGTACAAAATGACATTTTTTTCAAAA
Found at i:1988117 original size:13 final size:12
Alignment explanation
Indices: 1988099--1988159 Score: 60
Period size: 13 Copynumber: 5.3 Consensus size: 12
1988089 ACATATTACT
1988099 TTGTATCGATAC
1 TTGTATCGATAC
1988111 ATTGTATCGATAC
1 -TTGTATCGATAC
1988124 TTGT-TC--T--
1 TTGTATCGATAC
*
1988131 TGGTATCGATAC
1 TTGTATCGATAC
1988143 ATTGTATCGATAC
1 -TTGTATCGATAC
1988156 TTGT
1 TTGT
1988160 TCTTGGTATC
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
7 3 0.08
8 2 0.05
9 1 0.03
10 1 0.03
11 2 0.05
12 8 0.20
13 23 0.57
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.44
Consensus pattern (12 bp):
TTGTATCGATAC
Found at i:1988138 original size:19 final size:19
Alignment explanation
Indices: 1988114--1988174 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
1988104 TCGATACATT
1988114 GTATCGATACTTGTTCTTG
1 GTATCGATACTTGTTCTTG
*
1988133 GTATCGATAC-----ATT-
1 GTATCGATACTTGTTCTTG
1988146 GTATCGATACTTGTTCTTG
1 GTATCGATACTTGTTCTTG
1988165 GTATCGATAC
1 GTATCGATAC
1988175 ACAATGAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
13 10 0.29
14 2 0.06
18 2 0.06
19 20 0.59
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.43
Consensus pattern (19 bp):
GTATCGATACTTGTTCTTG
Found at i:1988141 original size:32 final size:32
Alignment explanation
Indices: 1988082--1988175 Score: 152
Period size: 32 Copynumber: 2.9 Consensus size: 32
1988072 CACCCAGATA
* * *
1988082 TATCGATACATATTACTTTGTATCGATACATTG
1 TATCGATACTTGTT-CTTGGTATCGATACATTG
1988115 TATCGATACTTGTTCTTGGTATCGATACATTG
1 TATCGATACTTGTTCTTGGTATCGATACATTG
1988147 TATCGATACTTGTTCTTGGTATCGATACA
1 TATCGATACTTGTTCTTGGTATCGATACA
1988176 CAATGAATTG
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 46 0.79
33 12 0.21
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.43
Consensus pattern (32 bp):
TATCGATACTTGTTCTTGGTATCGATACATTG
Found at i:1989802 original size:3 final size:3
Alignment explanation
Indices: 1989794--1989824 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
1989784 CTTTTAAGTC
*
1989794 ATG ATG ATG AAG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1989825 AGTTGACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (3 bp):
ATG
Found at i:1991135 original size:20 final size:20
Alignment explanation
Indices: 1991112--1991164 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
1991102 CATGAAGGAC
1991112 TGTATCGATACATGGTGAAA
1 TGTATCGATACATGGTGAAA
* *
1991132 TGTATCTATACATGGTTAAA
1 TGTATCGATACATGGTGAAA
* *
1991152 TGTTTCGAAACAT
1 TGTATCGATACAT
1991165 TGAGCCCAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATGGTGAAA
Found at i:1994006 original size:13 final size:13
Alignment explanation
Indices: 1993984--1994013 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1993974 GCTAAAACTC
1993984 ACATTATATCGAT
1 ACATTATATCGAT
*
1993997 ACATTGTATCGAT
1 ACATTATATCGAT
1994010 ACAT
1 ACAT
1994014 GATGGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (13 bp):
ACATTATATCGAT
Found at i:1998817 original size:12 final size:11
Alignment explanation
Indices: 1998795--1998870 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
1998785 AGAGAAAGAA
*
1998795 GAGAGAGGAGG
1 GAGATAGGAGG
1998806 GATGATAGGAGG
1 GA-GATAGGAGG
*
1998818 AGAGACAGGA--
1 -GAGATAGGAGG
*
1998828 GAGATAGTA--
1 GAGATAGGAGG
1998837 GAGATAGGAGG
1 GAGATAGGAGG
1998848 GATGATAGGAGG
1 GA-GATAGGAGG
*
1998860 AGAGACAGGAG
1 -GAGATAGGAG
1998871 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:1998827 original size:24 final size:24
Alignment explanation
Indices: 1998794--1998879 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
1998784 AAGAGAAAGA
*
1998794 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
1998818 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
1998836 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
1998860 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
1998880 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:1998846 original size:42 final size:42
Alignment explanation
Indices: 1998785--1998903 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
1998775 TAGCCCTCAA
* *
1998785 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
1998827 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
1998869 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
1998904 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:2005814 original size:42 final size:42
Alignment explanation
Indices: 2005767--2005885 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
2005757 TTCTTCTTTC
* * *
2005767 CTCCTCCTGTCATCCATCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
2005809 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
2005851 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
2005886 TTGAGGGCTA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.09, C:0.45, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:2005826 original size:12 final size:11
Alignment explanation
Indices: 2005800--2005875 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
2005790 TCTATTATCT
*
2005800 CTCCTGTCTCTC
1 CTCCTATCTC-C
2005812 CTCCTATCATCC
1 CTCCTATC-TCC
2005824 CTCCTATCT--
1 CTCCTATCTCC
*
2005833 CTACTATCT--
1 CTCCTATCTCC
*
2005842 CTCCTGTCTCTC
1 CTCCTATCTC-C
2005854 CTCCTATCATCC
1 CTCCTATC-TCC
*
2005866 CTCCTCTCTC
1 CTCCTATCTC
2005876 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:2005827 original size:24 final size:24
Alignment explanation
Indices: 2005791--2005876 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
2005781 CATCCTCTCT
* *
2005791 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
2005815 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
2005836 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
2005857 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
2005877 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:2005851 original size:18 final size:18
Alignment explanation
Indices: 2005783--2005852 Score: 50
Period size: 18 Copynumber: 3.6 Consensus size: 18
2005773 CTGTCATCCA
* *
2005783 TCCTCTCTCTATTATCTC
1 TCCTGTCTCTACTATCTC
*
2005801 TCCTGTCTCTCCTCCTATCATCCC
1 TCCTG--TCT-CTACTATC-T--C
*
2005825 TCCTATCTCTACTATCTC
1 TCCTGTCTCTACTATCTC
2005843 TCCTGTCTCT
1 TCCTGTCTCT
2005853 CCTCCTATCA
Statistics
Matches: 40, Mismatches: 6, Indels: 12
0.69 0.10 0.21
Matches are distributed among these distances:
18 14 0.35
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.43, G:0.03, T:0.44
Consensus pattern (18 bp):
TCCTGTCTCTACTATCTC
Found at i:2006619 original size:44 final size:44
Alignment explanation
Indices: 2006556--2006655 Score: 191
Period size: 44 Copynumber: 2.3 Consensus size: 44
2006546 AAGCTGTAAC
*
2006556 AATGATCAGAATTAACTCAAATAAAGATTCAATCTTGACATATG
1 AATGATCAGAATTAACTCAAATAAAGATTCAATCTTGACACATG
2006600 AATGATCAGAATTAACTCAAATAAAGATTCAATCTTGACACATG
1 AATGATCAGAATTAACTCAAATAAAGATTCAATCTTGACACATG
2006644 AATGATCAGAAT
1 AATGATCAGAAT
2006656 CAAATGCTGG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (44 bp):
AATGATCAGAATTAACTCAAATAAAGATTCAATCTTGACACATG
Found at i:2009897 original size:16 final size:16
Alignment explanation
Indices: 2009878--2009949 Score: 74
Period size: 16 Copynumber: 4.5 Consensus size: 16
2009868 ACCTGAACTT
*
2009878 GAAATAACTCGAACCC
1 GAAATGACTCGAACCC
* *
2009894 GAAATGACCCGAATCC
1 GAAATGACTCGAACCC
2009910 -AGAATGACTCGAACCC
1 GA-AATGACTCGAACCC
* * *
2009926 GAAATGACCCAAATCC
1 GAAATGACTCGAACCC
2009942 GAAATGAC
1 GAAATGAC
2009950 CCAAATAATT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
15 1 0.02
16 44 0.96
17 1 0.02
ACGTcount: A:0.42, C:0.29, G:0.17, T:0.12
Consensus pattern (16 bp):
GAAATGACTCGAACCC
Found at i:2009948 original size:32 final size:32
Alignment explanation
Indices: 2009878--2009949 Score: 110
Period size: 32 Copynumber: 2.2 Consensus size: 32
2009868 ACCTGAACTT
* *
2009878 GAAATAACTCGAACCCGAAATGACCCGAATCC
1 GAAATGACTCGAACCCGAAATGACCCAAATCC
2009910 -AGAATGACTCGAACCCGAAATGACCCAAATCC
1 GA-AATGACTCGAACCCGAAATGACCCAAATCC
2009942 GAAATGAC
1 GAAATGAC
2009950 CCAAATAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
31 1 0.03
32 34 0.94
33 1 0.03
ACGTcount: A:0.42, C:0.29, G:0.17, T:0.12
Consensus pattern (32 bp):
GAAATGACTCGAACCCGAAATGACCCAAATCC
Found at i:2009950 original size:16 final size:16
Alignment explanation
Indices: 2009892--2009955 Score: 76
Period size: 16 Copynumber: 4.0 Consensus size: 16
2009882 TAACTCGAAC
*
2009892 CCGAAATGACCCGAAT
1 CCGAAATGACCCAAAT
* * *
2009908 CC-AGAATGACTCGAAC
1 CCGA-AATGACCCAAAT
2009924 CCGAAATGACCCAAAT
1 CCGAAATGACCCAAAT
2009940 CCGAAATGACCCAAAT
1 CCGAAATGACCCAAAT
2009956 AATTAACCCG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
15 1 0.02
16 39 0.95
17 1 0.02
ACGTcount: A:0.41, C:0.31, G:0.16, T:0.12
Consensus pattern (16 bp):
CCGAAATGACCCAAAT
Found at i:2010088 original size:19 final size:18
Alignment explanation
Indices: 2010055--2010105 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
2010045 TAAAATTTTG
* *
2010055 AATTAGTTATATAATATGT
1 AATTA-TTATTTAATATAT
*
2010074 AATTATATATTTAATGTAT
1 AATTAT-TATTTAATATAT
2010093 AATTATTATTTAA
1 AATTATTATTTAA
2010106 AAATAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 8 0.29
19 20 0.71
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (18 bp):
AATTATTATTTAATATAT
Found at i:2011023 original size:53 final size:53
Alignment explanation
Indices: 2010928--2011030 Score: 136
Period size: 53 Copynumber: 1.9 Consensus size: 53
2010918 CTTGAACATA
*
2010928 ATTAACCCGAATGTTAAACCCGATTAACTCGAATCTAGAATGACCCAAACTCG
1 ATTAACCCGAATGTTAAACCCGATTAACTCGAAACTAGAATGACCCAAACTCG
* * * * *
2010981 ATTAACTCGAGTGTTAAACCCGATTGAC-CTAAACTCGAAATGACCCAAAC
1 ATTAACCCGAATGTTAAACCCGATTAACTCGAAACTAG-AATGACCCAAAC
2011031 CCGAAACAAC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
52 6 0.14
53 37 0.86
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.22
Consensus pattern (53 bp):
ATTAACCCGAATGTTAAACCCGATTAACTCGAAACTAGAATGACCCAAACTCG
Found at i:2011030 original size:16 final size:16
Alignment explanation
Indices: 2011005--2011104 Score: 53
Period size: 16 Copynumber: 6.2 Consensus size: 16
2010995 TAAACCCGAT
*
2011005 TGACCTAAACTCGAAA
1 TGACCCAAACTCGAAA
*
2011021 TGACCCAAACCCGAAA
1 TGACCCAAACTCGAAA
** * *
2011037 CAACCCGAAC-CTAAAA
1 TGACCCAAACTC-GAAA
**
2011053 TGACCTGAA-TCCGAAA
1 TGACCCAAACT-CGAAA
* *
2011069 TGACCCGAA-TCCAAA
1 TGACCCAAACTCGAAA
*
2011084 GTGACCCAAACCCGAAA
1 -TGACCCAAACTCGAAA
2011101 TGAC
1 TGAC
2011105 TTGAACCCAA
Statistics
Matches: 64, Mismatches: 15, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
15 5 0.08
16 54 0.84
17 5 0.08
ACGTcount: A:0.42, C:0.32, G:0.14, T:0.12
Consensus pattern (16 bp):
TGACCCAAACTCGAAA
Found at i:2011057 original size:32 final size:31
Alignment explanation
Indices: 2011018--2011142 Score: 97
Period size: 32 Copynumber: 3.9 Consensus size: 31
2011008 CCTAAACTCG
2011018 AAATGACCCAAACCCGAAACAACCCGAACCTA
1 AAATGACCCAAACCCGAAACAACCCGAACC-A
** * **
2011050 AAATGACCTGAATCCGAAATGACCCGAATCCA
1 AAATGACCCAAACCCGAAACAACCCGAA-CCA
* ** **
2011082 AAGTGACCCAAACCCGAAATGACTTGAACCCA
1 AAATGACCCAAACCCGAAACAACCCGAA-CCA
* **
2011114 AAATGACCCGAACTTGAAAACAACCCGAA
1 AAATGACCCAAACCCG-AAACAACCCGAA
2011143 AATTTTATAA
Statistics
Matches: 71, Mismatches: 20, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
32 61 0.86
33 10 0.14
ACGTcount: A:0.44, C:0.31, G:0.14, T:0.11
Consensus pattern (31 bp):
AAATGACCCAAACCCGAAACAACCCGAACCA
Found at i:2011126 original size:16 final size:16
Alignment explanation
Indices: 2011018--2011126 Score: 92
Period size: 16 Copynumber: 6.8 Consensus size: 16
2011008 CCTAAACTCG
* *
2011018 AAATGACCCAAACCCG
1 AAATGACCCGAACCCA
** *
2011034 AAACAACCCGAACCTA
1 AAATGACCCGAACCCA
* * *
2011050 AAATGACCTGAATCCG
1 AAATGACCCGAACCCA
*
2011066 AAATGACCCGAATCCA
1 AAATGACCCGAACCCA
* * *
2011082 AAGTGACCCAAACCCG
1 AAATGACCCGAACCCA
**
2011098 AAATGACTTGAACCCA
1 AAATGACCCGAACCCA
2011114 AAATGACCCGAAC
1 AAATGACCCGAAC
2011127 TTGAAAACAA
Statistics
Matches: 69, Mismatches: 24, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
16 69 1.00
ACGTcount: A:0.43, C:0.32, G:0.14, T:0.11
Consensus pattern (16 bp):
AAATGACCCGAACCCA
Found at i:2012321 original size:27 final size:27
Alignment explanation
Indices: 2012283--2012370 Score: 95
Period size: 28 Copynumber: 3.2 Consensus size: 27
2012273 GATTAATAAG
* *
2012283 ATCAATAAGAAAGATCAAGGAAGCGAA
1 ATCAACAAGAAAAATCAAGGAAGCGAA
* * *
2012310 ATCAACAAGAAAAATCAGGGGAAACAAA
1 ATCAACAAGAAAAATCA-AGGAAGCGAA
* *
2012338 ATCAACAATAAAAATCAAAGGAAGAGAA
1 ATCAACAAGAAAAATC-AAGGAAGCGAA
2012366 ATCAA
1 ATCAA
2012371 TGAGGGAATA
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
27 15 0.31
28 33 0.67
29 1 0.02
ACGTcount: A:0.60, C:0.12, G:0.17, T:0.10
Consensus pattern (27 bp):
ATCAACAAGAAAAATCAAGGAAGCGAA
Found at i:2014225 original size:51 final size:51
Alignment explanation
Indices: 2014164--2014362 Score: 202
Period size: 51 Copynumber: 3.9 Consensus size: 51
2014154 GCAGTTATCC
* * * * * *
2014164 TTATTGATTACTATTAGGACTGTGATTAGGATTATCCTTATTTTGTTAAGA
1 TTATTAATTACTATTAGGACTGTGATTAGGATTGTCCTTGTTTAGTCAGGA
* * * * *
2014215 TTATTAATTACTATTAGGACCGTGATTAAGATTGCCCCTGTTTAGCCAGGA
1 TTATTAATTACTATTAGGACTGTGATTAGGATTGTCCTTGTTTAGTCAGGA
* * * * *
2014266 TTATTAATTAATGTTAGAACTATGATTAGAATTGTCCTTGTTTAGTCAGGA
1 TTATTAATTACTATTAGGACTGTGATTAGGATTGTCCTTGTTTAGTCAGGA
** **
2014317 TTATTAATTAC-AGTTAGGACTAAGATTAATATTGTCCTTGTTTAGT
1 TTATTAATTACTA-TTAGGACTGTGATTAGGATTGTCCTTGTTTAGT
2014363 TAAGACTGTA
Statistics
Matches: 120, Mismatches: 27, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
51 120 1.00
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.43
Consensus pattern (51 bp):
TTATTAATTACTATTAGGACTGTGATTAGGATTGTCCTTGTTTAGTCAGGA
Found at i:2014344 original size:102 final size:102
Alignment explanation
Indices: 2014177--2014361 Score: 228
Period size: 102 Copynumber: 1.8 Consensus size: 102
2014167 TTGATTACTA
* * * * * **
2014177 TTAGGACTGTGATTAGGATTATCCTTATTTTGTTAAGATTATTAATTACTATTAGGACCGTGATT
1 TTAGAACTATGATTAGAATTATCCTTATTTAGTCAAGATTATTAATTACTATTAGGACCAAGATT
2014242 AAGATTGCCCCTGTTTAGCCAGGATTATTAATTAATG
66 AAGATTGCCCCTGTTTAGCCAGGATTATTAATTAATG
* * * *
2014279 TTAGAACTATGATTAGAATTGTCCTTGTTTAGTCAGGATTATTAATTAC-AGTTAGGACTAAGAT
1 TTAGAACTATGATTAGAATTATCCTTATTTAGTCAAGATTATTAATTACTA-TTAGGACCAAGAT
* * *
2014343 TAATATTGTCCTTGTTTAG
65 TAAGATTGCCCCTGTTTAG
2014362 TTAAGACTGT
Statistics
Matches: 68, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
101 1 0.01
102 67 0.99
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (102 bp):
TTAGAACTATGATTAGAATTATCCTTATTTAGTCAAGATTATTAATTACTATTAGGACCAAGATT
AAGATTGCCCCTGTTTAGCCAGGATTATTAATTAATG
Found at i:2017178 original size:19 final size:19
Alignment explanation
Indices: 2017151--2017193 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
2017141 ATAATAGAGA
*
2017151 TTATTAGGTCAATTCATGT
1 TTATCAGGTCAATTCATGT
2017170 TTATCAGGTCAATTCATGT
1 TTATCAGGTCAATTCATGT
2017189 TTATC
1 TTATC
2017194 TCATTTGAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.47
Consensus pattern (19 bp):
TTATCAGGTCAATTCATGT
Found at i:2018414 original size:780 final size:780
Alignment explanation
Indices: 2016741--2018720 Score: 2319
Period size: 780 Copynumber: 2.5 Consensus size: 780
2016731 TCCTAATGGC
* *
2016741 AGAAAGAAAAGGTTTCTTGCAAAATCAAGGCATCAAAATTGTGTATCCAAACGTGGAAAATGTGT
1 AGAAAGAAAAGCTTTCTTGCAAAATCAA-GCATCAAAATTGTGTATCCAAATGTGGAAAATGTGT
* * *
2016806 TTATGCTGCCCAACAATGGATTGAATATAGATTTTTATAGGAATCCATGATTGTTTTGATTGATG
65 TTATGGTGCCCAACTATGGATTGACTATAGATTTTTATAGGAATCCATGATTGTTTTGATTGATG
* * *
2016871 GATGAACTTCAACTCTAAGGAAAATAATGGAAAGGAAAGCTTTTCATACGAAACCAAACTATCAA
130 GATGAACTTCAACTCTAAGGAAAATAATGGAAAGAAAAGCTTTTCCTACGAAACCAAAGTATCAA
** * * * * * * *
2016936 TATCATGTTAACAAATGAGGAAAACGGATTATGGTGGCCAACTACAAAAGGAATGGAGAATATTA
195 TATTGTGTT-CCTAAGGAGGAAAATGGTTTATGGTGGCCAATTAAAAAAGGAATGGAGAATATTA
2017001 TGAGAATCCATTTTTCTCTCATTTGATGGATGAACAATGATTTTAAGGAAAATGGGGG--A-AAA
259 TGAGAATCCATTTTTCTCTCATTTGATGGATGAACAATGATTTTAAGGAAAATGGGGGAAAGAAA
*
2017063 TGCTTTTCTT-TATTATACAAAGCATCAATATCATGGATCCCAATGAGGAGCATGTGTTTCTCTC
324 TGCTTTTCTTCAATT-TACAAAGCATCAATATCATGGATCCCAATGA-GAGCATGTGTTTCTCTC
** * * * * * *
2017127 ACCGAGTCATGAAAATAATAGAGATTATTAGGTCAATTCATGTTTATCAGGTCAATTCATGTTTA
387 ACCGAAACATGAAAAGAATAGAGA-CAGTAGGT-AATCCATG----T-AGG--AATCCAAGTTTA
* * * * * * * *
2017192 TCTCATTTGAGAGGCTAACTTTGATTCAAGGGAAATTGGTGGAGAGAAAAGCAACTGTAGACAAA
443 TCTCATTTGACAGGATAACTTTAATTCAAGAGAAAATGGTAGAAAGAAAAGCAACTCTAG--AAA
* * * * * ** *
2017257 ATCAAAGCATCATATCATGTTTCCTAATGGGACAGGATTATGGTGCCCCATCATGACAAGAAAGG
506 ACCAAAGCATCAGATCATGTTACCTAATGGGACAAGATTATGGTGCCCAATCACAAAAAGAAAGG
* *
2017322 AGATTATTATGAGAATCCATATAGTCTTATTTGATGGATGAACATTAATTCTAAGGAGAATGCGA
571 AGATTATTATGAGAATCCA-ATAGTCTTATTTGATGGATGAAAATTAATTCTAAGGAGAATGCAA
2017387 AAATAATCAGCTTTTCTTGTGAAACCAAAACATCAATATCATGTATCCCAATGAGGAATATTTGT
635 AAATAATCAGCTTTTCTTGTGAAACCAAAACATCAATATCATGTATCCCAATGAGGAATA--T-T
* * * *
2017452 TTTTGTTGCCGAGTCATGAAAAGAATGGAGATTATTGTGTCAATTCATATTTGTCTCATAAACTT
697 TTTTGTTGCCAAGTCATGAAAAGAATGGAGATTATTGTGTCAATTCATATTTGACGCACAAACTT
* *
2017517 TGATTCTAAGGAAAATGGT
762 TGATTCTAAGAAAAACGGT
* * * * *
2017536 AGAAAGAAACGCTTTCATG-AGAAA-CCAGACATCAAAATTGTGCATCCTAATGTGGAAAATGTG
1 AGAAAGAAAAGCTTTCTTGCA-AAATCAAG-CATCAAAATTGTGTATCCAAATGTGGAAAATGTG
* * * * * *
2017599 TTTATGGTGCCCAAGTATGGA-TAACATACAGATTTTTACAAGAATCCATGGTTGTTTTGATTGA
64 TTTATGGTGCCCAACTATGGATTGAC-TATAGATTTTTATAGGAATCCATGATTGTTTTGATTGA
* * *
2017663 TGGACGAATTTCAACTCTAAGGAAAAATAATGGAAAGAAAAGCTTTTCCTATGAAACCAAAGTAT
128 TGGATGAACTTCAACTCTAAGG-AAAATAATGGAAAGAAAAGCTTTTCCTACGAAACCAAAGTAT
*
2017728 CAATATTGTGTTCTCTAAGGAGGAAAATGGGTTTATGGTGGCCAATTAAAAAAGGAGTGGAGAAT
192 CAATATTGTGTTC-CTAAGGAGGAAAAT-GGTTTATGGTGGCCAATTAAAAAAGGAATGGAGAAT
** *
2017793 ATTAAAAGAATCCATTTTTCTCCCATTTGATGGATGAACAATGATTTTAAGGAAAATGGGGGAAA
255 ATTATGAGAATCCATTTTTCTCTCATTTGATGGATGAACAATGATTTTAAGGAAAATGGGGGAAA
* *
2017858 GAAATGCTTTTCTTCCATTTACAAAGCATCAATATCATGGATCCCAATGAGATGCATGTGTTTTT
320 GAAATGCTTTTCTTCAATTTACAAAGCATCAATATCATGGATCCCAATGAGA-GCATGTGTTTCT
* * * * *
2017923 GTCACTGAAACATGAAAAGAATAGAG-CGGT-GG--ATACCATG-AGG-ATCCAAGTTTGTCTTG
384 CTCACCGAAACATGAAAAGAATAGAGACAGTAGGTAAT-CCATGTAGGAATCCAAGTTTATC-TC
*** *
2017982 A-TTGACA-GATAAACTTTAATTCTAA-AGAAAATGGTAGAAAGAAAAGCTTTTCCTATG-AAGC
447 ATTTGACAGGAT-AACTTTAATTC-AAGAGAAAATGGTAGAAAGAAAAGCAACT-CTA-GAAAAC
* ** * *
2018043 CAAAGCATTAGATTGTGTTACTTATTGAGGATAACAAGATTATGGTGCCCAATCACAAAAAGAAA
508 CAAAGCATCAGATCATGTTACCTAATG-GG---ACAAGATTATGGTGCCCAATCACAAAAAGAAA
*
2018108 GGAGATTATTATGAGAATCC-ATAGTCTTATTTGATGGATGAAAATTTATTCTAAGGAGAATGCA
569 GGAGATTATTATGAGAATCCAATAGTCTTATTTGATGGATGAAAATTAATTCTAAGGAGAATGCA
* * * * *
2018172 AAAATGATCAAGCTTTTCTTTTGAAACCAAAGCATCAGTATCGTGTATCCCAATGAGG-A-A-TT
634 AAAATAATC-AGCTTTTCTTGTGAAACCAAAACATCAATATCATGTATCCCAATGAGGAATATTT
* * *
2018234 TTT-TTGCCAAGTCATGAAAAGAATGGAGATTATTGTGTCAATTCATA-TTGAGGGACGAACTTT
698 TTTGTTGCCAAGTCATGAAAAGAATGGAGATTATTGTGTCAATTCATATTTGACGCACAAACTTT
2018297 GATTCTAAGAAAAACGGT
763 GATTCTAAGAAAAACGGT
* *
2018315 AGAAAGAAAAGCTTTGTTGCAAAATCAACGCATCAAAATTGTGTATCCCAATGTGGAAAATGTGT
1 AGAAAGAAAAGCTTTCTTGCAAAATCAA-GCATCAAAATTGTGTATCCAAATGTGGAAAATGTGT
* * *
2018380 TTATGGTGCCCAACTATGGATTGACTATAGATTTTTATAGGAATCCATGTTTGTCTTGACTGATG
65 TTATGGTGCCCAACTATGGATTGACTATAGATTTTTATAGGAATCCATGATTGTTTTGATTGATG
* * * * * * * * *
2018445 GATGAACTTCGACTCCAAGGAAAATAATAGAGAGAAAAGCTTCTCCCACAAAACTAAAGAATCAA
130 GATGAACTTCAACTCTAAGGAAAATAATGGAAAGAAAAGCTTTTCCTACGAAACCAAAGTATCAA
* ** **
2018510 TATTGTGTTACCTAAGAAGG-CCAT-GTTTATGGTGGCTGATTACAAAAA-GAATGGAGAATATT
195 TATTGTGTT-CCTAAGGAGGAAAATGGTTTATGGTGGCCAATTA-AAAAAGGAATGGAGAATATT
*
2018572 ATGAGAATCCA-TTTTCTCTCATTTGATGGATGAACAATGATTCTAAGGAAAATGGGGGAAAGAA
258 ATGAGAATCCATTTTTCTCTCATTTGATGGATGAACAATGATTTTAAGGAAAATGGGGGAAAGAA
* *
2018636 ATGCTTTTCTTCAATTTACAAAGCATCAATATCATGGTTCCCAATGAGAAGC-T-TGTTTCTATC
323 ATGCTTTTCTTCAATTTACAAAGCATCAATATCATGGATCCCAATGAG-AGCATGTGTTTCTCTC
* *
2018699 TCC-AAATCATGAAAAGATTAGA
387 ACCGAAA-CATGAAAAGAATAGA
2018721 TATTATTATG
Statistics
Matches: 1020, Mismatches: 135, Indels: 82
0.82 0.11 0.07
Matches are distributed among these distances:
772 3 0.00
773 23 0.02
774 1 0.00
775 99 0.10
776 39 0.04
777 5 0.00
778 2 0.00
779 99 0.10
780 149 0.15
781 9 0.01
784 24 0.02
785 47 0.05
786 56 0.05
787 45 0.04
788 50 0.05
793 5 0.00
794 110 0.11
795 78 0.08
796 93 0.09
797 1 0.00
798 3 0.00
799 76 0.07
800 3 0.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (780 bp):
AGAAAGAAAAGCTTTCTTGCAAAATCAAGCATCAAAATTGTGTATCCAAATGTGGAAAATGTGTT
TATGGTGCCCAACTATGGATTGACTATAGATTTTTATAGGAATCCATGATTGTTTTGATTGATGG
ATGAACTTCAACTCTAAGGAAAATAATGGAAAGAAAAGCTTTTCCTACGAAACCAAAGTATCAAT
ATTGTGTTCCTAAGGAGGAAAATGGTTTATGGTGGCCAATTAAAAAAGGAATGGAGAATATTATG
AGAATCCATTTTTCTCTCATTTGATGGATGAACAATGATTTTAAGGAAAATGGGGGAAAGAAATG
CTTTTCTTCAATTTACAAAGCATCAATATCATGGATCCCAATGAGAGCATGTGTTTCTCTCACCG
AAACATGAAAAGAATAGAGACAGTAGGTAATCCATGTAGGAATCCAAGTTTATCTCATTTGACAG
GATAACTTTAATTCAAGAGAAAATGGTAGAAAGAAAAGCAACTCTAGAAAACCAAAGCATCAGAT
CATGTTACCTAATGGGACAAGATTATGGTGCCCAATCACAAAAAGAAAGGAGATTATTATGAGAA
TCCAATAGTCTTATTTGATGGATGAAAATTAATTCTAAGGAGAATGCAAAAATAATCAGCTTTTC
TTGTGAAACCAAAACATCAATATCATGTATCCCAATGAGGAATATTTTTTGTTGCCAAGTCATGA
AAAGAATGGAGATTATTGTGTCAATTCATATTTGACGCACAAACTTTGATTCTAAGAAAAACGGT
Found at i:2019811 original size:157 final size:157
Alignment explanation
Indices: 2018554--2021834 Score: 880
Period size: 157 Copynumber: 20.8 Consensus size: 157
2018544 GCTGATTACA
* * * * * **
2018554 AAAAGAATGGAGAATATTATGAGAATCCAT-TTTCTCTCATTTGATGGATGAACAATGATTCTAA
1 AAAAGAATAGAGATTATTATGTGAATCCATGTTTATCTCATTTGAGGGATGAACTTTGATTCTAA
* * *
2018618 GGAAAATGGGGGAAAGAAATGCTTTTCTT-CAATTTACAAAGCATCAATATCATGGTTCCCAATG
66 GGAAAATGGTGGAAAGAAAAGCTTTTCTTACAA---ACAAAGCATCAATATCATGTTTCCCAATG
* * * *
2018682 AG--AAGCTTGTTTCTAT-CT-CCAAATCATG
128 AGAAAAACATG-TT-TATGGTGCCCAATCATG
* * * ** * **
2018710 AAAAGATTAGATATTATTATGTCAATTAATGTTTATCTCATTTGAGGGATGAAATTTGATTCTCG
1 AAAAGAATAGAGATTATTATGTGAATCCATGTTTATCTCATTTGAGGGATGAACTTTGATTCTAA
* *
2018775 GGAAAATGGTGGAAAAAAAAGC-TTTCTTACAAAACTAAAGCATCAATATCATGTTTCTCAATGA
66 GGAAAATGGTGGAAAGAAAAGCTTTTCTTAC-AAAC-AAAGCATCAATATCATGTTTCCCAATGA
* ** *
2018839 GGAAAATGTGTTTATGGTGCCCAATCAAG
129 GAAAAACATGTTTATGGTGCCCAATCATG
* * * * * * * * * * * *
2018868 AATAGAGTGGTGATT-TCCATGGGGATCCATGTTTGTCTTGA-TTAACGGATGAACTTTGATTTT
1 AAAAGAATAGAGATTAT-TATGTGAATCCATGTTTATC-TCATTTGAGGGATGAACTTTGATTCT
* * * * *
2018931 AAGGAAAATGGTAGAAAGAAAAGCTTTTGC-TAGGAAGCGAAAGCATCAA-ATCGTGTTTCCTAA
64 AAGGAAAATGGTGGAAAGAAAAGCTTTT-CTTA-CAAAC-AAAGCATCAATATCATGTTTCCCAA
* * *
2018994 TGAGGAGAACGA-GATTATGGTGCCCAATCATG
126 TGAGAAAAAC-ATGTTTATGGTGCCCAATCATG
* * * * * * * * *
2019026 ACAAGAA-AGGAGATTACTATGAGGA-CC-CGTATAGTCTTATTTGATGGATGAACATTGATTC-
1 AAAAGAATA-GAGATTATTATGTGAATCCATGTTTA-TCTCATTTGAGGGATGAACTTTGATTCT
* * * * * * * * *
2019087 ATAGGAGAAT-GTGAAAATGAACAGCATTTCTTATGAATCCAAAGTATCAATATCGTGTATCCCA
64 A-AGGAAAATGGTGGAAA-GAAAAGCTTTTCTTA-CAA-ACAAAGCATCAATATCATGTTTCCCA
* ** * * * *
2019151 ATGA-AGAATATTTGTTTTTGTTGCCGAGTCATG
125 ATGAGA-AAAACATGTTTATGGTGCCCAATCATG
* * * * * * * *
2019184 GATAGAATGGAGATTATTTTGTCAATTCATATTTATCTCATTTGAGAGATGAACTTTGATTCTAA
1 AAAAGAATAGAGATTATTATGTGAATCCATGTTTATCTCATTTGAGGGATGAACTTTGATTCTAA
* * * * * ** * *
2019249 GGAAAATGGTGGAAA-AAAAGC-TTTCCTGCGAAATCACAGTATCAAAATTGTGTATCCCAATGT
66 GGAAAATGGTGGAAAGAAAAGCTTTTCTTAC-AAA-CAAAGCATCAATATCATGTTTCCCAATGA
* *** *
2019312 GCAAATTGTGTTTATGGTGCCCAATTATG
129 GAAAAACATGTTTATGGTGCCCAATCATG
* * * * * * * ** ** *
2019341 GATAGAATATAGATT-TT-TGTAGGAATCCTTGTTTGTCTTA-TTGATGGACAAACTTCCACTCT
1 AAAAGAATAGAGATTATTATGT--GAATCCATGTTTATCTCATTTGAGGGATGAACTTTGATTCT
* * * * ** *
2019403 AAGGAAAATAGTGGAAAGAAAAGCTTTTCTTGCAAAACCAAAGTATCAATATTATGTTAGCTAAT
64 AAGGAAAATGGTGGAAAGAAAAGCTTTTCTTAC-AAA-CAAAGCATCAATATCATGTTTCCCAAT
* * * *
2019468 AAGGAAAA-ATGGGTTTATGGTGGCCAATTAT-
127 GAGAAAAACAT--GTTTATGGTGCCCAATCATG
* * ** * * * * * ** *
2019499 AAAAGGAATCGATATTATTATAAGAATCCGTTTTTCTCTCATTTCATGGATGAACAATGATTTTA
1 AAAA-GAATAGAGATTATTATGTGAATCCATGTTTATCTCATTTGAGGGATGAACTTTGATTCTA
* * * * ** **
2019564 AGGAAAATAAG-GGAGAGAAATGCTTTTCTTCCCTTTACAAAGCATCAATATCATGGATCCCAAT
65 AGGAAAAT-GGTGGAAAGAAAAGCTTTTCTT-AC-AAACAAAGCATCAATATCATGTTTCCCAAT
* * *
2019628 GAG--AAGCTTGTATT-T-GT-CACTGAATCATG
127 GAGAAAAACATGT-TTATGGTGC-C-CAATCATG
* * * *
2019657 AAAAGAATAGAGATTATTATGTCAATTCATGTTTATCTCATTTGAGGGATGAACTTTTATTCTAG
1 AAAAGAATAGAGATTATTATGTGAATCCATGTTTATCTCATTTGAGGGATGAACTTTGATTCTAA
* * * **
2019722 GGAAAATAGTGGAAAGAAAAGC-TTTCATACAAGACAAAGCATCAATATCATGTGTCTTAATGAG
66 GGAAAATGGTGGAAAGAAAAGCTTTTCTTACAA-ACAAAGCATCAATATCATGTTTCCCAATGAG
* *
2019786 AAAAACATGTTTATGGTGCCTAATCA-A
130 AAAAACATGTTTATGGTGCCCAATCATG
* * * * * * * * *
2019813 AAATAGAGTGGTGACTACCT-TGTGGATCCATGTTTGTCTCGA-TTGAAGGATAAACTTTGATTC
1 AAA-AGAATAGAGATTA-TTATGTGAATCCATGTTTATCTC-ATTTGAGGGATGAACTTTGATTC
* * * *
2019876 TAAGGAAAATGGTGGAACGAAATGCTTTTCTTATGAAATCAAAGCATCAGATA--ATGTTTCCTA
63 TAAGGAAAATGGTGGAAAGAAAAGCTTTTCTTA-CAAA-CAAAGCATCA-ATATCATGTTTCCCA
* * * * *
2019939 ATCA-AGAGAACAGGATTATGGTGCCTAATCATG
125 ATGAGA-AAAACATGTTTATGGTGCCCAATCATG
* * * *
2019972 AAAAGAA-AGGAGATTATTATGAGAATCCATG--TAGTCTTATTTGATGGATGAACATTGATTCT
1 AAAAGAATA-GAGATTATTATGTGAATCCATGTTTA-TCTCATTTGAGGGATGAACTTTGATTCT
* *** * ** ** * *
2020034 AAGGAGAAT-GCAAAAATGATAAGCTTTTCTTGTGAAACCAAAGCATCAATATTGTGTCTCCTAA
64 AAGGAAAATGGTGGAAA-GAAAAGCTTTTCTT-ACAAA-CAAAGCATCAATATCATGTTTCCCAA
* * * ** * * ** * *
2020098 AGAGGAATATTTGTTTTTGTTGCTGAGTCACG
126 TGAGAAAAACATGTTTATGGTGCCCAATCATG
* * * * * *
2020130 AAAAGAATGGAGATTATTGTGTCAATTCA--TATATCTCATTTGAGGGACGAA-TTTGATTCTAC
1 AAAAGAATAGAGATTATTATGTGAATCCATGTTTATCTCATTTGAGGGATGAACTTTGATTCTA-
* * * * * ** * * *
2020192 A-GAAAATGGTAG-AA-AAAAGGTATT-TTGCGAAAAAAAGCATCAATATTGTGTATCCCAGTTA
65 AGGAAAATGGTGGAAAGAAAAGCTTTTCTTAC-AAACAAAGCATCAATATCATGTTTCCCAATGA
** * * * **
2020253 GAAAAATGTGTTTGTGGTGGCTAATTGTG
129 GAAAAACATGTTTATGGTGCCCAATCATG
* * * * *
2020282 AATAGAAT-GCAGATT-TTTTTTGAAAATCCATGTTTGTCTTGA-TTGATGGGCA--AACTTTGA
1 AAAAGAATAG-AGATTATTATGTG--AATCCATGTTTATC-TCATTTGA-GGG-ATGAACTTTGA
** * * * ** *
2020342 TTCTAAGGAAAATAATGGAAAGAAAATCTTTTCCTACAAAACCAAGCATCAAT-TTGTGTTTCCT
60 TTCTAAGGAAAATGGTGGAAAGAAAAGCTTTTCTTAC-AAACAAAGCATCAATATCATGTTTCCC
* * * * * *
2020406 ATTGAGGAGAACAGGTTTATGGTGTCCAATTATG
124 AATGAGAAAAACATGTTTATGGTGCCCAATCATG
* * * * *
2020440 AAATGAATGGAGAATGT-TCTATGAAATGGAGAATGTTC-TGAGAATCCATTTTCTCTTATTTAA
1 AAAAGAATAGAG-AT-TAT-TATG---T---GAA--TCCAT--G--T---TTATCTC--ATTTGA
* ** * * * * * * ** * *
2020503 TGGATGAACACTAATTCTAAGGAAAATGGGGGAGATAAATGCTTTTCTTGCATTCCCTAGGCATC
46 GGGATGAACTTTGATTCTAAGGAAAATGGTGGAAAGAAAAGCTTTTCTTACA--AACAAAGCATC
* ** * * * **** * * * *
2020568 AAAATCATGGATCCTAGTGTGGGGTACATGTTTTTGTTGTCAAATCATG
109 AATATCATGTTTCCCAATGAGAAAAACATGTTTATGGTGCCCAATCATG
* * * * *
2020617 AAAAGAATAGAGATTATTATGTCAATTCAAGTTTGTCTCATTTGAGGGATGAACTTCGATTCT-A
1 AAAAGAATAGAGATTATTATGTGAATCCATGTTTATCTCATTTGAGGGATGAACTTTGATTCTAA
* * * * *
2020681 GGAAAAATGATGGAAAGAAAAGC-TTTCTTTGCAAAACTAGAGCTTCAATATCATGTGTCCCAAT
66 GG-AAAATGGTGGAAAGAAAAGCTTTTC-TTAC-AAAC-AAAGCATCAATATCATGTTTCCCAAT
* *
2020745 GA-TAAAA-ATGGTCTATGGTGCCCAAT--TG
127 GAGAAAAACAT-GTTTATGGTGCCCAATCATG
*** * * ** * * * * * * * *
2020773 AGAATAGAGGGGTGTTTACCATGAGGATCCATGTTTGTCTCAATTGATGAATGTATTTTGATTCT
1 A-AA-AGAATAGAGATTATTATGTGAATCCATGTTTATCTCATTTGAGGGATGAACTTTGATTCT
* * *
2020838 AAGGAAAATGGTAGAAAG-AAAGCTTTTCCTATGA-AAACCAAAGCATCAGAT-T-GTGTTTCCT
64 AAGGAAAATGGTGGAAAGAAAAGCTTTT-CT-T-ACAAA-CAAAGCATCA-ATATCATGTTTCCC
* * *** * * * **
2020899 AATAAGGAAAATGGGATTACGGTGCCTAATCACAA
124 AATGAGAAAAACATGTTTATGGTGCCCAATCA-TG
* * *** * * ** * * * *
2020934 AAAAGAAAAAGAGATTGTTACAAGAATTCAT-ATGGTCTCATTTGATGGCTGAACATTGATTCCA
1 AAAAG-AATAGAGATTATTATGTGAATCCATGTTTATCTCATTTGAGGGATGAACTTTGATTCTA
*** * * **
2020998 A-GAAGAAT-GTGGGAAAGATCTGCCTTTCTTGCAAAACCAAAGCATCAATATCATGCATCCCAA
65 AGGAA-AATGGT-GGAAAGAAAAGCTTTTCTTAC-AAA-CAAAGCATCAATATCATGTTTCCCAA
* ** * *
2021061 -GAG---TATGTGTTGT-TGTTGCCAAATCATG
126 TGAGAAAAACATGTT-TATGGTGCCCAATCATG
* * * ** **
2021089 AAAAGAATGGAGAGATTATTGTGTCAATTCATGTTTGCCTCATTTGAGGGACAAACTTTTG-TTC
1 AAAAGAAT--AGAGATTATTATGTGAATCCATGTTTATCTCATTTGAGGGATGAAC-TTTGATTC
* * * * * *
2021153 TAAGAAAAATGGTGGAAAGAAAAGC-TTTCTTGCCAAACCAAGCATTACTATCATGTATCCCAAT
63 TAAGGAAAATGGTGGAAAGAAAAGCTTTTCTT-ACAAACAAAGCATCAATATCATGTTTCCCAAT
* * * **
2021217 GAG-GAAA-ATGTGTATGGTGCCCACTTGTG
127 GAGAAAAACATGTTTATGGTGCCCAATCATG
* *** * * * * * *
2021246 AAAATG-GT-GAAGATTATTACAAGAATCCATGTTTGTCTTGA-CTAATGGATGAACTTTGACTC
1 AAAA-GAATAG-AGATTATTATGTGAATCCATGTTTATC-TCATTTGAGGGATGAACTTTGATTC
* * * * *
2021308 AAAGGAAAATGGTGGAAA-AATAAGCTTTTTCTATGA-AACCGAAGCATCAATATTATGTTTCCT
63 TAAGGAAAATGGTGGAAAGAA-AAGC-TTTTCT-T-ACAAACAAAGCATCAATATCATGTTTCCC
* * * *
2021371 AATGAG--GAGCATGGATTTATGGAGCCCAATCAAG
124 AATGAGAAAAACAT-G-TTTATGGTGCCCAATCATG
* * * * * * * ** *
2021405 AAACGAATGGAGATTATTACGAGAACCCATGTTTGTCTCATTGGA-TAATTAAACTTTGATTCT-
1 AAAAGAATAGAGATTATTATGTGAATCCATGTTTATCTCATTTGAGGGA-TGAACTTTGATTCTA
* * * * * * *
2021468 AGGAAAAAAGG-AGAAAGATAGGCTTTTCTTATGAAACCAAGGCATCAATATCATGTAT---AA-
65 AGG-AAAATGGTGGAAAGAAAAGCTTTTCTTA-CAAA-CAAAGCATCAATATCATGTTTCCCAAT
** ** * * *
2021528 G-G-AGTATGTGTTCT-TGTTG-CTATATCTTG
127 GAGAAAAACATGTT-TATGGTGCCCA-ATCATG
* * * * * * ** * *
2021557 AAAACATTGGAGATTGTTTTGTCAATCCATGTTGGTTTCATTTGAGGGATGAACTTTAATTCTAA
1 AAAAGAATAGAGATTATTATGTGAATCCATGTTTATCTCATTTGAGGGATGAACTTTGATTCTAA
* * * * *
2021622 GGAAAATGGTGGAAAGAAAAGCTTTCTTTTGA-AACCAAAGCTTCAATATCATGTATCCCAATAA
66 GGAAAATGGTGGAAAGAAAAGCTTT-TCTT-ACAAACAAAGCATCAATATCATGTTTCCCAATGA
* ** * *
2021686 GGAAAATGTGTTTGT-GTGCTCAATCATG
129 GAAAAACATGTTTATGGTGCCCAATCATG
* * * * ** * * **
2021714 AATAGAGTGGAGA-TATTATGAGAATCCACATATGTCTCGA-TTGACAGATGAACTTTGATTCTA
1 AAAAGAATAGAGATTATTATGTGAATCCATGTTTATCTC-ATTTGAGGGATGAACTTTGATTCTA
* * *
2021777 AGGAAAATGTTGGAAAGAAAAG-TATTTCCTATGAAACCAAAGCATCAATATCATGTTT
65 AGGAAAATGGTGGAAAGAAAAGCT-TTTCTTA-CAAA-CAAAGCATCAATATCATGTTT
2021835 TCTAAAAGAC
Statistics
Matches: 2259, Mismatches: 663, Indels: 405
0.68 0.20 0.12
Matches are distributed among these distances:
151 7 0.00
152 131 0.06
153 31 0.01
154 23 0.01
155 130 0.06
156 277 0.12
157 562 0.25
158 550 0.24
159 304 0.13
160 108 0.05
161 14 0.01
164 2 0.00
165 2 0.00
166 2 0.00
167 6 0.00
168 1 0.00
169 2 0.00
170 1 0.00
172 2 0.00
173 5 0.00
174 4 0.00
175 41 0.02
176 12 0.01
177 42 0.02
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (157 bp):
AAAAGAATAGAGATTATTATGTGAATCCATGTTTATCTCATTTGAGGGATGAACTTTGATTCTAA
GGAAAATGGTGGAAAGAAAAGCTTTTCTTACAAACAAAGCATCAATATCATGTTTCCCAATGAGA
AAAACATGTTTATGGTGCCCAATCATG
Found at i:2019849 original size:473 final size:464
Alignment explanation
Indices: 2018422--2021723 Score: 1609
Period size: 473 Copynumber: 7.0 Consensus size: 464
2018412 TTTTATAGGA
* * * * *
2018422 ATCCATGTTTGTCTTGACTGATGGATGAACTTCGACTCCAAGGAAAATAATAGAGAGAAAAGCTT
1 ATCCATGTTTGTCTTGATTGATGGATAAACTTCGACTCTAAGGAAAATAGTAGAAAGAAAAGCTT
* *** * * ** **
2018487 CTCCCACAAAACTAAAGAATCAATATTGTGTTACCTAAGAAGG-CCAT-GTTTATGGTGGCTGAT
66 TTCTTGCAAAACCAAAGAATCAATATTGTGTTACCTAATAAGGAAAATGGTTTATGGTGGCCAAT
* * *
2018550 TACAAAAAGAATGGAGAATATTATGAGAATCC-ATTTTCTCTCATTTGATGGATGAACAATGATT
131 TA-TAAAAGAATGGAGATTATTATGAGAATCCGTTTTTCTCTCATTTGATGGATGAACAATGATT
* *
2018614 CTAAGGAAAATGGGGGAAAGAAATGCTTTTCTTCAATTTACAAAGCATCAATATCATGGTTCCCA
195 TTAAGGAAAAT--GGGAAAGAAATGCTTTTCTTCAATTTACAAAGCATCAATATCATGGATCCCA
* * * * * *
2018679 ATGAGAAGCTTGTTTCTATCTCCAAATCATGAAAAGATTAGATATTATTATGTCAATTAATGTTT
258 ATGAGAAGCTTGTTT-TGTCACCGAATCATGAAAAGAATAGAGATTATTATGTCAATTCATGTTT
* * *
2018744 ATCTCATTTGAGGGATGAAATTTGATTCTCGGGAAAATGGTGGAAAAAAAAGCTTTCTTACAAAA
322 ATCTCATTTGAGGGATGAACTTTGATTCTAGGGAAAATGGTGG-AAAAAAAGCTTTCATAC-AAA
* *
2018809 CTAAAGCATCAATATCATGTTTCTCAATGAGGAAAATGTGTTTATGGTGCCCAATCAAGAATAGA
385 C-AAAGCATCAATATCATGTATCTCAATGAGAAAAATGTGTTTATGGTGCCCAATCAAGAATAGA
* *
2018874 GTGGTGATTTCCATGGGG
449 GTGGTGA--TCCTTGTGG
* * * * * * *
2018892 ATCCATGTTTGTCTTGATTAACGGATGAACTTTGATTTTAAGGAAAATGGTAGAAAGAAAAGCTT
1 ATCCATGTTTGTCTTGATTGATGGATAAACTTCGACTCTAAGGAAAATAGTAGAAAGAAAAGCTT
* * * * * * * * * * * *
2018957 TTGCTAG-GAAGCGAAAGCATCAA-ATCGTGTTTCCTAATGAGGAGAACGAGATTATGGTGCCCA
66 TT-CTTGCAAAACCAAAGAATCAATATTGTGTTACCTAATAAGGAAAATG-GTTTATGGTGGCCA
* * * * * * ** *
2019020 ATCATGACAAGAAAGGAGATTACTATGAGGACCCGTATAGTCT-T-ATTTGATGGATGAACATTG
129 ATTAT-AAAAGAATGGAGATTATTATGAGAATCCGT-TTTTCTCTCATTTGATGGATGAACAATG
* * * * * * * *
2019083 A-TTCATAGGAGAATGTGAAAATGAACA-GCATTTCTT--ATGAATCCAAAGTATCAATATCGTG
192 ATTTTA-AGGAAAATG-GGAAA-GAA-ATGCTTTTCTTCAAT--TTACAAAGCATCAATATCATG
* ** ** * * * * *
2019144 TATCCCAATGAAGAATATTTGTTTTTGTTGCCGAGTCATGGATAGAATGGAGATTATTTTGTCAA
251 GATCCCAATG-AGAA-GCTTG-TTTTGTCACCGAATCATGAAAAGAATAGAGATTATTATGTCAA
* * *
2019209 TTCATATTTATCTCATTTGAGAGATGAACTTTGATTCTAAGGAAAATGGTGGAAAAAAAGCTTTC
313 TTCATGTTTATCTCATTTGAGGGATGAACTTTGATTCTAGGGAAAATGGTGGAAAAAAAGCTTTC
* * * * * ** * * * * *
2019274 CTGCGAAATCACAGTATCAAAATTGTGTATCCCAATGTGCAAATTGTGTTTATGGTGCCCAATTA
378 ATAC-AAA-CAAAGCATCAATATCATGTATCTCAATGAGAAAAATGTGTTTATGGTGCCCAATCA
* * * * **
2019339 TGGATAGAAT-ATAGATTTTTGTAGG
441 AGAATAGAGTGGT-GATCCTTGT-GG
* * * *
2019364 AATCCTTGTTTGTCTT-ATTGATGGACAAACTTCCACTCTAAGGAAAATAGTGGAAAGAAAAGCT
1 -ATCCATGTTTGTCTTGATTGATGGATAAACTTCGACTCTAAGGAAAATAGTAGAAAGAAAAGCT
* * *
2019428 TTTCTTGCAAAACCAAAGTATCAATATTATGTTAGCTAATAAGGAAAAATGGGTTTATGGTGGCC
65 TTTCTTGCAAAACCAAAGAATCAATATTGTGTTACCTAATAAGG-AAAAT-GGTTTATGGTGGCC
* * * *
2019493 AATTATAAAAGGAATCGATATTATTATAAGAATCCGTTTTTCTCTCATTTCATGGATGAACAATG
128 AATTATAAAA-GAATGGAGATTATTATGAGAATCCGTTTTTCTCTCATTTGATGGATGAACAATG
* **
2019558 ATTTTAAGGAAAATAAGGGAGAGAAATGCTTTTCTTCCCTTTACAAAGCATCAATATCATGGATC
192 ATTTTAAGGAAAAT--GGGAAAGAAATGCTTTTCTTCAATTTACAAAGCATCAATATCATGGATC
*
2019623 CCAATGAGAAGCTTGTATTTGTCACTGAATCATGAAAAGAATAGAGATTATTATGTCAATTCATG
255 CCAATGAGAAGCTTGT-TTTGTCACCGAATCATGAAAAGAATAGAGATTATTATGTCAATTCATG
* *
2019688 TTTATCTCATTTGAGGGATGAACTTTTATTCTAGGGAAAATAGTGGAAAGAAAAGCTTTCATACA
319 TTTATCTCATTTGAGGGATGAACTTTGATTCTAGGGAAAATGGTGGAAA-AAAAGCTTTCATACA
* * ** * *
2019753 AGACAAAGCATCAATATCATGTGTCTTAATGAGAAAAACATGTTTATGGTGCCTAATCAAAAATA
383 A-ACAAAGCATCAATATCATGTATCTCAATGAGAAAAATGTGTTTATGGTGCCCAATCAAGAATA
2019818 GAGTGGTGACTACCTTGTGG
447 GAGTGGTGA-T-CCTTGTGG
* * * * * * * *
2019838 ATCCATGTTTGTCTCGATTGAAGGATAAACTTTGATTCTAAGGAAAATGGTGGAACGAAATGCTT
1 ATCCATGTTTGTCTTGATTGATGGATAAACTTCGACTCTAAGGAAAATAGTAGAAAGAAAAGCTT
*** * * * * *
2019903 TTCTTATGAAATCAAAGCATCAGATAATGT-TT-CCTAATCAAGAGAACA-GGATTATGGT-GCC
66 TTCTTGCAAAACCAAAGAATCA-ATATTGTGTTACCTAAT-AAG-GAAAATGGTTTATGGTGGCC
* * * ** *
2019964 TAATCATGAAAAGAAAGGAGATTATTATGAGAATCCATGTAGTCT-T-ATTTGATGGATGAACAT
128 -AATTAT-AAAAGAATGGAGATTATTATGAGAATCCGT-TTTTCTCTCATTTGATGGATGAACAA
* * ** * **
2020027 TGATTCTAAGGAGAATGCAAAAATGATAA-GCTTTTCTTGTGAA---ACCAAAGCATCAATATTG
190 TGATTTTAAGGAAAATG-GGAAA-GA-AATGCTTTTC-T-TCAATTTA-CAAAGCATCAATATCA
** * * ** ** * * * * *
2020088 TGTCTCCTAAAGAGGAATATTTGTTTTTGTTGCTGAGTCACGAAAAGAATGGAGATTATTGTGTC
249 TGGATCCCAATGA-GAA-GCTTG-TTTTGTCACCGAATCATGAAAAGAATAGAGATTATTATGTC
* * ** * *
2020153 AATTCA--TATATCTCATTTGAGGGACGAA-TTTGATTCTACAGAAAATGGTAG-AAAAAAGGTA
311 AATTCATGTTTATCTCATTTGAGGGATGAACTTTGATTCTAGGGAAAATGGTGGAAAAAAAGCT-
* * * ** * * * * * *
2020214 TT-TTGCGAAAAAAAGCATCAATATTGTGTATCCCAGTTAGAAAAATGTGTTTGTGGTGGCTAAT
375 TTCATAC-AAACAAAGCATCAATATCATGTATCTCAATGAGAAAAATGTGTTTATGGTGCCCAAT
*** * ** ** * *
2020278 TGTGAATAGAATGCAGATTTTTTTTGAAA
439 CAAGAATAGAGTGGTGA-TCCTTGTG--G
** * * * * *
2020307 ATCCATGTTTGTCTTGATTGATGGGCAAACTTTGATTCTAAGGAAAATAATGGAAAGAAAATCTT
1 ATCCATGTTTGTCTTGATTGATGGATAAACTTCGACTCTAAGGAAAATAGTAGAAAGAAAAGCTT
* * * * * * *
2020372 TTCCTACAAAACC-AAGCATCAAT-TTGTGTTTCCTATTGAGGAGAACA-GGTTTATGGTGTCCA
66 TTCTTGCAAAACCAAAGAATCAATATTGTGTTACCTAATAAGGA-AA-ATGGTTTATGGTGGCCA
* * * *
2020434 ATTATGAAATGAATGGAGAATGTTCTATGAAATGGAGAATGTTCTGAGAATCCATTTTCTCTTAT
129 ATTAT-AAAAGAATGGAG-A---T-TAT--TAT-GAGAA---TC--CG--T---TTTTCTCTCAT
* * * * * * ** * *
2020499 TTAATGGATGAACACTAATTCTAAGGAAAATGGGGGAGATAAATGCTTTTCTTGC-ATTCCCTAG
175 TTGATGGATGAACAATGATTTTAAGGAAAAT--GGGAAAGAAATGCTTTTCTT-CAATTTACAAA
* * * * ** * *** *
2020563 GCATCAAAATCATGGATCCTAGTGTGGGGTACATGTTTTTGTTGTCAAATCATGAAAAGAATAGA
237 GCATCAATATCATGGATCCCAATGAGAAG--CTTG-TTTTGTCACCGAATCATGAAAAGAATAGA
* * * * *
2020628 GATTATTATGTCAATTCAAGTTTGTCTCATTTGAGGGATGAACTTCGATTCTAGGAAAAATGATG
299 GATTATTATGTCAATTCATGTTTATCTCATTTGAGGGATGAACTTTGATTCTAGGGAAAATGGTG
* * * * * * *
2020693 GAAAGAAAAGCTTTCTTTGCAAAACTAGAGCTTCAATATCATGTGTCCCAATGATAAAAATG-GT
364 GAAA-AAAAGCTTTC-ATAC-AAAC-AAAGCATCAATATCATGTATCTCAATGAGAAAAATGTGT
* ** * * * *
2020757 CTATGGTGCCCAATTGAGAATAGAGGGGTGTTTACCATGAGG
425 TTATGGTGCCCAATCAAGAATAGAGTGGTG-AT-CCTTGTGG
** * ** * * * *
2020799 ATCCATGTTTGTCTCAATTGATGAATGTATTTTGATTCTAAGGAAAATGGTAGAAAG-AAAGCTT
1 ATCCATGTTTGTCTTGATTGATGGATAAACTTCGACTCTAAGGAAAATAGTAGAAAGAAAAGCTT
* * * * *
2020863 TTCCTATG-AAAACCAAAGCATC-AGATTGTGTTTCCTAATAAGGAAAATGGGATTACGGT-GCC
66 TT-CT-TGCAAAACCAAAGAATCAATATTGTGTTACCTAATAAGGAAAAT-GGTTTATGGTGGCC
* * ** * ** * * * ** *
2020925 TAATCACAAAAAAGAAAAAGAGATTGTTACAAGAATTC-ATATGGTCTCATTTGATGGCTGAACA
128 -AAT--TATAAAAG-AATGGAGATTATTATGAGAATCCGTTTTTCTCTCATTTGATGGATGAACA
* ** ** * *
2020989 TTGATTCCAA-GAAGAATGTGGGAAAGATCTGCCTTTCTTGCAA--AACCAAAGCATCAATATCA
189 ATGATTTTAAGGAA-AA--TGGGAAAGAAATGCTTTTCTT-CAATTTA-CAAAGCATCAATATCA
* * ** * *
2021051 TGCATCCCAA-GAGTA--TGTGTTGTTGTTGCCAAATCATGAAAAGAATGGAGAGATTATTGTGT
249 TGGATCCCAATGAGAAGCT-TGTT-TTGTCACCGAATCATGAAAAGAAT--AGAGATTATTATGT
** ** * *
2021113 CAATTCATGTTTGCCTCATTTGAGGGACAAACTTTTG-TTCTAAGAAAAATGGTGGAAAGAAAAG
310 CAATTCATGTTTATCTCATTTGAGGGATGAAC-TTTGATTCTAGGGAAAATGGTGGAAA-AAAAG
* * * * * * *
2021177 CTTTCTTGCCAAACCAAGCATTACTATCATGTATCCCAATGAGGAAAATGTG--TATGGTGCCCA
373 CTTTCAT-ACAAACAAAGCATCAATATCATGTATCTCAATGAGAAAAATGTGTTTATGGTGCCCA
* *** * ** ** ** *
2021240 CTTGTGAAAATG-GTGAAGATTATTACAAGA
437 ATCAAGAATA-GAGTGGTGATCCTT--GTGG
* * * * * * *
2021270 ATCCATGTTTGTCTTGACTAATGGATGAACTTTGACTCAAAGGAAAATGGTGGAAA-AATAAGCT
1 ATCCATGTTTGTCTTGATTGATGGATAAACTTCGACTCTAAGGAAAATAGTAGAAAGAA-AAGC-
* * * * * ** * *
2021334 TTTTCTATG--AAACCGAAGCATCAATATTATGTTTCCTAATGAGGAGCATGGATTTATGGAGCC
64 TTTTCT-TGCAAAACCAAAGAATCAATATTGTGTTACCTAATAAGGAAAATGG-TTTATGGTGGC
* * * * * * * * * *
2021397 CAATCA-AGAAACGAATGGAGATTATTACGAGAACCCATGTTTGTCTCATTGGAT-AATTAAACT
127 CAATTATA-AAA-GAATGGAGATTATTATGAGAATCCGTTTTTCTCTCATTTGATGGA-TGAACA
* * * * * ** *
2021460 TTGATTCT-AGGAAAAAAGGAGAAAGATAGGCTTTTCTT--ATGAAACCAAGGCATCAATATCAT
189 ATGATTTTAAGG-AAAATGG-GAAAGAAATGCTTTTCTTCAAT-TTA-CAAAGCATCAATATCAT
* * * ** * * * * * * *
2021522 GTAT---AAGGAGTA--TGTGTTCTTGT-TGCTATATCTTGAAAACATTGGAGATTGTTTTGTCA
250 GGATCCCAATGAGAAGCT-TGTT-TTGTCACCGA-ATCATGAAAAGAATAGAGATTATTATGTCA
* ** * * *
2021581 ATCCATGTTGGTTTCATTTGAGGGATGAACTTTAATTCTAAGGAAAATGGTGGAAAGAAAAGCTT
312 ATTCATGTTTATCTCATTTGAGGGATGAACTTTGATTCTAGGGAAAATGGTGGAAA-AAAAGCTT
* ** * * * * * *
2021646 TCTTTTGAAACCAAAGCTTCAATATCATGTATCCCAATAAGGAAAATGTGTTTGT-GTGCTCAAT
376 TC-ATACAAA-CAAAGCATCAATATCATGTATCTCAATGAGAAAAATGTGTTTATGGTGCCCAAT
*
2021710 CATGAATAGAGTGG
439 CAAGAATAGAGTGG
2021724 AGATATTATG
Statistics
Matches: 2156, Mismatches: 525, Indels: 304
0.72 0.18 0.10
Matches are distributed among these distances:
465 3 0.00
466 76 0.04
467 53 0.02
468 142 0.07
469 96 0.04
470 154 0.07
471 210 0.10
472 291 0.13
473 336 0.16
474 283 0.13
475 86 0.04
476 76 0.04
477 3 0.00
478 1 0.00
479 2 0.00
483 1 0.00
484 1 0.00
485 6 0.00
486 5 0.00
487 103 0.05
488 3 0.00
489 20 0.01
490 19 0.01
491 14 0.01
492 64 0.03
493 67 0.03
494 35 0.02
495 6 0.00
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.32
Consensus pattern (464 bp):
ATCCATGTTTGTCTTGATTGATGGATAAACTTCGACTCTAAGGAAAATAGTAGAAAGAAAAGCTT
TTCTTGCAAAACCAAAGAATCAATATTGTGTTACCTAATAAGGAAAATGGTTTATGGTGGCCAAT
TATAAAAGAATGGAGATTATTATGAGAATCCGTTTTTCTCTCATTTGATGGATGAACAATGATTT
TAAGGAAAATGGGAAAGAAATGCTTTTCTTCAATTTACAAAGCATCAATATCATGGATCCCAATG
AGAAGCTTGTTTTGTCACCGAATCATGAAAAGAATAGAGATTATTATGTCAATTCATGTTTATCT
CATTTGAGGGATGAACTTTGATTCTAGGGAAAATGGTGGAAAAAAAGCTTTCATACAAACAAAGC
ATCAATATCATGTATCTCAATGAGAAAAATGTGTTTATGGTGCCCAATCAAGAATAGAGTGGTGA
TCCTTGTGG
Found at i:2022234 original size:151 final size:154
Alignment explanation
Indices: 2022044--2022322 Score: 347
Period size: 151 Copynumber: 1.8 Consensus size: 154
2022034 TATTTGTGGG
* * *
2022044 ATGAACTTTGATTCCAAGGAAAATGGTAGAAAGAAAAGC-TTT-CT-TGCAAAACTA-AAGCA-A
1 ATGAACTTTAATTCCAAGAAAAATGATAGAAAGAAAAGCTTTTCCTAT-CAAAA--AGAAGCATA
* * *
2022104 AATATCATCATTCCCAATAAGAAAATA-TGTTTATGGTGCCCAATCGTGAAAAAAGTGGA-ATTA
63 AATATCATCATTCCCAATAAGAAAA-ACAGTTTATGGTGCCCAATCATGAAAAAAATGGACATTA
2022167 TGAGAATCTACATTTGTCTGACTGACAA
127 TGAGAATCTACATTTGTCTGACTGACAA
* * * *
2022195 ATGAACTTTAATTCTAAGAAAAATGATGGAAAGAAAAGCTTTTCCTATTAAAAAGAAGCATCAAT
1 ATGAACTTTAATTCCAAGAAAAATGATAGAAAGAAAAGCTTTTCCTATCAAAAAGAAGCATAAAT
** *
2022260 ATCATGTTTCCTAATAAGAAAAACGAGTTTATGGTGCCCAATCATGAAAAAAATGGACATTAT
66 ATCATCATTCCCAATAAGAAAAAC-AGTTTATGGTGCCCAATCATGAAAAAAATGGACATTAT
2022323 AACCAGAAAC
Statistics
Matches: 107, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
151 35 0.33
152 9 0.08
153 28 0.26
154 30 0.28
155 5 0.05
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.28
Consensus pattern (154 bp):
ATGAACTTTAATTCCAAGAAAAATGATAGAAAGAAAAGCTTTTCCTATCAAAAAGAAGCATAAAT
ATCATCATTCCCAATAAGAAAAACAGTTTATGGTGCCCAATCATGAAAAAAATGGACATTATGAG
AATCTACATTTGTCTGACTGACAA
Found at i:2022386 original size:159 final size:156
Alignment explanation
Indices: 2021852--2022740 Score: 503
Period size: 159 Copynumber: 5.6 Consensus size: 156
2021842 GACTGAAGAA
* * * * * * *
2021852 TATTACAACAATCCATTCTTGTCTTATATGATGGATGAACATTGATTCTAAGGAAAATGACGAAA
1 TATTAC-AGAATCCATTTTTGTCTCATTTGATGGATGAATATTGATTCTAAGGAAAATGAGGGAA
* * * * ** * * * * * * *
2021917 AG-AAAGCATTTCTTGTGAACCCAAAGCATCAATATCATATATCCCAATGAGGAATATGTGTTTT
65 AGAAAAGCTTTTCCTATTAAAACAAAGCATCAATATCATGTTTCCTAAT-AAGAAAAAG-GTTTA
* * * ** *
2021981 TGTTGCCGAATCAAGAAAAAGTTGGAGAT
128 TGGTGCCCAATCATGAAAAAAATGGACAT
* * * *
2022010 TTTTA-TGTCAATCC-TTGTTTGTCTTATTTG-TGGGATGAACT-TTGATTCCAAGGAAAATG-G
1 TATTACAG--AATCCATT-TTTGTCTCATTTGAT-GGATGAA-TATTGATTCTAAGGAAAATGAG
* * * ** *
2022070 TAGAAAGAAAAGC-TTT-CT-TGCAAAACTAAAGCA-AAATATCATCATTCCCAATAAGAAAATA
61 -GGAAAGAAAAGCTTTTCCTAT-TAAAAC-AAAGCATCAATATCATGTTTCCTAATAAGAAAA-A
* * *
2022131 TGTTTATGGTGCCCAATCGTGAAAAAAGTGGA-AT
122 GGTTTATGGTGCCCAATCATGAAAAAAATGGACAT
* * ** * * *** * * *
2022165 TA-T-GAGAATCTACATTTGTCTGA-CTGACAAATGAACT-TTAATTCTAAGAAAAATGATGGAA
1 TATTACAGAATCCATTTTTGTCTCATTTGATGGATGAA-TATTGATTCTAAGGAAAATGAGGGAA
2022226 AGAAAAGCTTTTCCTATTAAAA-AGAAGCATCAATATCATGTTTCCTAATAAGAAAAACGAGTTT
65 AGAAAAGCTTTTCCTATTAAAACA-AAGCATCAATATCATGTTTCCTAATAAGAAAAA-G-GTTT
2022290 ATGGTGCCCAATCATGAAAAAAATGGACAT
127 ATGGTGCCCAATCATGAAAAAAATGGACAT
* * * *
2022320 TATAACCAGAAACCATTTTTGCCTCATTTGATGGATGAATATTGATTCTAAGGAAAATGGGGGAA
1 TATTA-CAGAATCCATTTTTGTCTCATTTGATGGATGAATATTGATTCTAAGGAAAATGAGGGAA
* * * * * * *
2022385 AGTAAAGCTGTT-CT-TGTAAAACCAAAGCACCAATGTCATATATCCTAATGAGAAAAATGTGTT
65 AGAAAAGCTTTTCCTAT-TAAAA-CAAAGCATCAATATCATGTTTCCTAATAAGAAAAA-G-GTT
* * * * *
2022448 TATGGTGCCTAGTCATGAAAAAAGTCGATAT
126 TATGGTGCCCAATCATGAAAAAAATGGACAT
* * * **
2022479 TATTACGAGAATCCATATTTGTCTCGA-TTAATGGATGGACT-TCAATTCTAAGGAAAATG-GTG
1 TATTAC-AGAATCCATTTTTGTCTC-ATTTGATGGAT-GAATATTGATTCTAAGGAAAATGAG-G
* * * * * * * *
2022541 GAAAGAAAAACTTTTCTTGTGAAACCAAAGAATCAATATCATGTTGTTTCCAAATAAGGAGAATA
62 GAAAGAAAAGCTTTTCCTATTAAAACAAAGCATCAATATCA---TGTTTCCTAATAA-GA-AAAA
* * * *
2022606 GGTTTGTGGTACCCAATCATGAAAAGAATGGAGAT
122 GGTTTATGGTGCCCAATCATGAAAAAAATGGACAT
* * * * ** *
2022641 TATTA-AGAGATTCAGTTTTGTGTCATTTGGTGGACAAACATTGATTCTAAGGAAAAT-AGGGAA
1 TATTACAGA-ATCCATTTTTGTCTCATTTGATGGATGAATATTGATTCTAAGGAAAATGAGGGAA
2022704 AGAAAAGCTTTTCCTA-TAAAACCAAAGCATCAATATC
65 AGAAAAGCTTTTCCTATTAAAA-CAAAGCATCAATATC
2022741 GTATATCCCA
Statistics
Matches: 555, Mismatches: 130, Indels: 90
0.72 0.17 0.12
Matches are distributed among these distances:
151 36 0.06
152 21 0.04
153 28 0.05
154 32 0.06
155 7 0.01
156 30 0.05
157 23 0.04
158 80 0.14
159 173 0.31
160 45 0.08
161 34 0.06
162 40 0.07
163 3 0.01
164 3 0.01
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.30
Consensus pattern (156 bp):
TATTACAGAATCCATTTTTGTCTCATTTGATGGATGAATATTGATTCTAAGGAAAATGAGGGAAA
GAAAAGCTTTTCCTATTAAAACAAAGCATCAATATCATGTTTCCTAATAAGAAAAAGGTTTATGG
TGCCCAATCATGAAAAAAATGGACAT
Found at i:2025095 original size:15 final size:15
Alignment explanation
Indices: 2025075--2025104 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2025065 TTTTTTTTTC
2025075 AAGAATAAAAAAAGA
1 AAGAATAAAAAAAGA
*
2025090 AAGAATACAAAAAGA
1 AAGAATAAAAAAAGA
2025105 GAGGAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.03, G:0.13, T:0.07
Consensus pattern (15 bp):
AAGAATAAAAAAAGA
Found at i:2025895 original size:24 final size:23
Alignment explanation
Indices: 2025862--2025953 Score: 79
Period size: 24 Copynumber: 4.2 Consensus size: 23
2025852 AAGAGAAAGA
*
2025862 AGAGAGAGGAGGGATGATAAGAGG
1 AGAGACAGGAGGGATGAT-AGAGG
*
2025886 AGAGACAGGA--GA-GAT--AGT
1 AGAGACAGGAGGGATGATAGAGG
*
2025904 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATA-GAGG
* *
2025928 AGAGACAGGAGAGATAATAGA-G
1 AGAGACAGGAGGGATGATAGAGG
2025950 AGAG
1 AGAG
2025954 GAGGGATGAC
Statistics
Matches: 55, Mismatches: 7, Indels: 14
0.72 0.09 0.18
Matches are distributed among these distances:
18 11 0.20
20 2 0.04
21 6 0.11
22 7 0.13
23 2 0.04
24 27 0.49
ACGTcount: A:0.43, C:0.02, G:0.45, T:0.10
Consensus pattern (23 bp):
AGAGACAGGAGGGATGATAGAGG
Found at i:2025914 original size:42 final size:42
Alignment explanation
Indices: 2025853--2025971 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
2025843 CAACCCTCAA
* * *
2025853 AGAGAAAGAAGAGAGAGGAGGGATGATAAGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
2025895 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
2025937 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
2025972 GAGAGAAGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.44, C:0.03, G:0.45, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:2037454 original size:9 final size:9
Alignment explanation
Indices: 2037440--2037500 Score: 56
Period size: 9 Copynumber: 7.1 Consensus size: 9
2037430 CTCTCTTTAT
2037440 TATCTCTCC
1 TATCTCTCC
2037449 TATCTCTCC
1 TATCTCTCC
* *
2037458 T-CCTAT-C
1 TATCTCTCC
*
2037465 -ATCCCTCC
1 TATCTCTCC
*
2037473 TATCTCTAC
1 TATCTCTCC
2037482 TATCTCTCC
1 TATCTCTCC
*
2037491 TGTCTCTCC
1 TATCTCTCC
2037500 T
1 T
2037501 CCTATCACCC
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
7 3 0.08
8 4 0.10
9 33 0.82
ACGTcount: A:0.11, C:0.44, G:0.02, T:0.43
Consensus pattern (9 bp):
TATCTCTCC
Found at i:2037462 original size:12 final size:12
Alignment explanation
Indices: 2037445--2037479 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
2037435 TTTATTATCT
2037445 CTCCTATCTCTC
1 CTCCTATCTCTC
2037457 CTCCTATCATC-C
1 CTCCTATC-TCTC
2037469 CTCCTATCTCT
1 CTCCTATCTCT
2037480 ACTATCTCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 2 0.10
12 17 0.81
13 2 0.10
ACGTcount: A:0.11, C:0.49, G:0.00, T:0.40
Consensus pattern (12 bp):
CTCCTATCTCTC
Found at i:2037467 original size:42 final size:42
Alignment explanation
Indices: 2037412--2037530 Score: 166
Period size: 42 Copynumber: 2.8 Consensus size: 42
2037402 TTCTTCTCTC
* * *
2037412 CTCCTCCTGTCATCCCTCCTCTCTTTATTATCTCTCCTATCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTATCT
* *
2037454 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTATCT
* * *
2037496 CTCCTCCTATCACCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
2037531 TTGAGGGCTA
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.09, C:0.46, G:0.02, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTATCT
Found at i:2042937 original size:14 final size:15
Alignment explanation
Indices: 2042913--2042941 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2042903 ACTAGTTCAT
2042913 CCAACCTTTTTTTTG
1 CCAACCTTTTTTTTG
2042928 CCAA-CTTTTTTTTG
1 CCAACCTTTTTTTTG
2042942 AAATGATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.14, C:0.24, G:0.07, T:0.55
Consensus pattern (15 bp):
CCAACCTTTTTTTTG
Found at i:2047509 original size:20 final size:20
Alignment explanation
Indices: 2047484--2047523 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
2047474 CGAAAAATAG
2047484 GGGACAGCATTGTGCTGTCC
1 GGGACAGCATTGTGCTGTCC
2047504 GGGACAGCATTGTGCTGTCC
1 GGGACAGCATTGTGCTGTCC
2047524 CACTTTTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.25, G:0.35, T:0.25
Consensus pattern (20 bp):
GGGACAGCATTGTGCTGTCC
Found at i:2049694 original size:20 final size:21
Alignment explanation
Indices: 2049669--2049726 Score: 68
Period size: 20 Copynumber: 2.8 Consensus size: 21
2049659 CATGTTCTTA
2049669 TATCGATACATTTACTTA-TG
1 TATCGATACATTTACTTATTG
2049689 TATCGATACA-TTACCTTATTG
1 TATCGATACATTTA-CTTATTG
2049710 TAAT-GATACAATTTACT
1 T-ATCGATAC-ATTTACT
2049727 GAATTTCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
19 3 0.09
20 14 0.42
21 8 0.24
22 5 0.15
23 3 0.09
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.43
Consensus pattern (21 bp):
TATCGATACATTTACTTATTG
Found at i:2057733 original size:79 final size:78
Alignment explanation
Indices: 2057548--2058178 Score: 569
Period size: 79 Copynumber: 8.0 Consensus size: 78
2057538 AGCATCAAAA
* * * *
2057548 TTTTCATCTTAAGGGATACTCCAACCCTATCAATTTCGAGGGGATACTCCAACCCGTTTTTTACT
1 TTTTCATC-TCAGGGATACTCCAACCCCATTAATTTCGAGGGGATACTCCAACCCCTTTTTTA-T
*
2057613 TTCAAAATA-TCAAT
64 TTCAAAATATTAAAT
* * * * * *
2057627 TTTTCATTTCAAGGATACTCCAACCCCATTATTTTTGAGGGGATTCTCTAACCCCTTTTTTATTT
1 TTTTCATCTCAGGGATACTCCAACCCCATTAATTTCGAGGGGATACTCCAACCCCTTTTTTATTT
2057692 CAAAAATATTAAAT
66 C-AAAATATTAAAT
* * *
2057706 TTTTTATCTCAGGGATACTCTAACCCCATCAATTTCGAGGGGATACTCCAA-CCCTATTTTTATT
1 TTTTCATCTCAGGGATACTCCAACCCCATTAATTTCGAGGGGATACTCCAACCCCT-TTTTTATT
* *
2057770 TCCAAAATGTTAAAA
65 T-CAAAATATTAAAT
* * * * * *
2057785 CTTTCATCGTGA-GGATACTCCAACCCCGTTATTTTTGAGGGGCTACTCCAACCCCTTTTTTATT
1 TTTTCATC-TCAGGGATACTCCAACCCCATTAATTTCGAGGGGATACTCCAACCCCTTTTTTATT
2057849 TCAAAAATATTAAAT
65 TC-AAAATATTAAAT
* * * * * * *
2057864 TTTTCATCTC-GAGGATACTCCAACCTCATCAATTCCAAAGGGATACTCCAACCCCATTCTTATT
1 TTTTCATCTCAG-GGATACTCCAACCCCATTAATTTCGAGGGGATACTCCAACCCCTTTTTTATT
*
2057928 TCCAAAATATTAAAA
65 T-CAAAATATTAAAT
* * * *** * * * *
2057943 TTTTCATCGCGGGGATACTCAAACCTTGTTATTTTCAAGGGGATACTCCAACTCCATTTTTATTT
1 TTTTCATCTCAGGGATACTCCAACCCCATTAATTTCGAGGGGATACTCCAACCCCTTTTTTA-TT
*
2058008 TCAAAATATTAAAA
65 TCAAAATATTAAAT
* * * * *
2058022 TTTTCATCTCAGGGATACTCCAA-CCC--T-GTTCCGAGGAGATACTCTAACCCCATTTTTATTT
1 TTTTCATCTCAGGGATACTCCAACCCCATTAATTTCGAGGGGATACTCCAACCCCTTTTTTATTT
**
2058083 CTAAAATA-TCGAT
66 C-AAAATATTAAAT
* * * * * * *
2058096 TTTTCACCATCAGGGATACTCCAACCCCATCACTTTCAAGAGGATACTCCAACCCCATTTTCACT
1 TTTTCATC-TCAGGGATACTCCAACCCCATTAATTTCGAGGGGATACTCCAACCCCTTTTTTA-T
* *
2058161 TCCAAAACATTAAAT
64 TTCAAAATATTAAAT
2058176 TTT
1 TTT
2058179 ATTTCATCTT
Statistics
Matches: 448, Mismatches: 84, Indels: 39
0.78 0.15 0.07
Matches are distributed among these distances:
74 13 0.03
75 46 0.10
76 4 0.01
77 4 0.01
78 58 0.13
79 302 0.67
80 21 0.05
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.35
Consensus pattern (78 bp):
TTTTCATCTCAGGGATACTCCAACCCCATTAATTTCGAGGGGATACTCCAACCCCTTTTTTATTT
CAAAATATTAAAT
Found at i:2057858 original size:158 final size:157
Alignment explanation
Indices: 2057548--2058178 Score: 639
Period size: 158 Copynumber: 4.0 Consensus size: 157
2057538 AGCATCAAAA
* * * **
2057548 TTTTCATCTTAAGGGATACTCCAACCCTATCAATTTCGAGGGGATACTCCAACCCGTTTTTTACT
1 TTTTCATC-TCAGGGATACTCCAACCCCATCAATTCCGAGGGGATACTCCAACCCCATTTTTA-T
* * * * * * * *
2057613 TT-CAAAATATCAATTTTTCAT-TTCAAGGATACTCCAACCCCATTATTTTTGAGGGGATTCTCT
64 TTCCAAAATTTAAAATTTTCATCGT-GAGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCC
2057676 AACCCCTTTTTTATTTCAAAAATATTAAAT
128 AACCCCTTTTTTATTTCAAAAATATTAAAT
* * * *
2057706 TTTTTATCTCAGGGATACTCTAACCCCATCAATTTCGAGGGGATACTCCAACCCTATTTTTATTT
1 TTTTCATCTCAGGGATACTCCAACCCCATCAATTCCGAGGGGATACTCCAACCCCATTTTTATTT
* *
2057771 CCAAAATGTTAAAACTTTCATCGTGAGGATACTCCAACCCCGTTATTTTTGAGGGGCTACTCCAA
66 CCAAAAT-TTAAAATTTTCATCGTGAGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAA
2057836 CCCCTTTTTTATTTCAAAAATATTAAAT
130 CCCCTTTTTTATTTCAAAAATATTAAAT
* * * *
2057864 TTTTCATCTC-GAGGATACTCCAACCTCATCAATTCCAAAGGGATACTCCAACCCCATTCTTATT
1 TTTTCATCTCAG-GGATACTCCAACCCCATCAATTCCGAGGGGATACTCCAACCCCATTTTTATT
* * * ** **
2057928 TCCAAAATATTAAAATTTTCATCGCGGGGATACTCAAACCTTGTTATTTTCAAGGGGATACTCCA
65 TCCAAAAT-TTAAAATTTTCATCGTGAGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCA
* * *
2057993 ACTCCATTTTTATTTTC-AAAATATTAAAA
129 ACCCCTTTTTTA-TTTCAAAAATATTAAAT
* * *
2058022 TTTTCATCTCAGGGATACTCCAA-CCC-T--GTTCCGAGGAGATACTCTAACCCCATTTTTATTT
1 TTTTCATCTCAGGGATACTCCAACCCCATCAATTCCGAGGGGATACTCCAACCCCATTTTTATTT
* * ** * * * * * * * ** *
2058083 CTAAAATATCGATTTTTCACCATCAGGGATACTCCAACCCCATCACTTTCAAGAGGATACTCCAA
66 CCAAAATTTAAAATTTTCATCGTGA-GGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAA
* * * * *
2058148 CCCCATTTTCACTTCCAAAACATTAAAT
130 CCCCTTTTTTATTTCAAAAATATTAAAT
2058176 TTT
1 TTT
2058179 ATTTCATCTT
Statistics
Matches: 399, Mismatches: 66, Indels: 20
0.82 0.14 0.04
Matches are distributed among these distances:
153 12 0.03
154 88 0.22
156 4 0.01
157 58 0.15
158 231 0.58
159 6 0.02
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.35
Consensus pattern (157 bp):
TTTTCATCTCAGGGATACTCCAACCCCATCAATTCCGAGGGGATACTCCAACCCCATTTTTATTT
CCAAAATTTAAAATTTTCATCGTGAGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAAC
CCCTTTTTTATTTCAAAAATATTAAAT
Found at i:2057986 original size:237 final size:231
Alignment explanation
Indices: 2057544--2058178 Score: 654
Period size: 237 Copynumber: 2.7 Consensus size: 231
2057534 TAAAAGCATC
* * *
2057544 AAAATTTTCATCTTAAGGGATACTCCAA-CCCTATCAATTTCGAGGGGATACTCCAACCCGTTTT
1 AAAACTTTCATC-TCAGGGATACTCCAACCCCT-T-AATTTCGAGGGGATACTCCAACCCCTTTT
* * * * * *
2057608 TTACTTTCAAAATATCAATTTTTCATTTCAAGGATACTCCAACCCCATTATTTTTGAGGGGATTC
63 TTA-TTTCAAAATATCAATTTTTCATCTC-AGGATACTCCAACCCCATCA-ATTTCAAGGGATAC
* * * * * * *
2057673 TCTAACCCCTTTTTTATTTCAAAAATATTAAATTTTTTATCTCAGGGATACTCTAACCCCATCAA
125 TCCAACCCC-ATTTTATTTCCAAAATATTAAAATTTTCATCGCAGGGATACTCAAACCCCATCAA
* *
2057738 TTTCGAGGGGATACTCCAAC-CCTATTTTTATTTCCAAAATGTT
189 TTTCAAGGGGATACTCCAACTCC-ATTTTTATTTCCAAAATATT
* * * *
2057781 AAAACTTTCATCGTGA-GGATACTCCAACCCCGTTATTTTTGAGGGGCTACTCCAACCCCTTTTT
1 AAAACTTTCATC-TCAGGGATACTCCAACCCC-TTAATTTCGAGGGGATACTCCAACCCCTTTTT
* * *
2057845 TATTTCAAAAATATTAAATTTTTCATCTCGAGGATACTCCAACCTCATCAATTCCAAAGGGATAC
64 TATTTC-AAAATA-TCAATTTTTCATCTC-AGGATACTCCAACCCCATCAATTTC-AAGGGATAC
* *** * *
2057910 TCCAACCCCATTCTTATTTCCAAAATATTAAAATTTTCATCGCGGGGATACTCAAACCTTGTTAT
125 TCCAACCCCATT-TTATTTCCAAAATATTAAAATTTTCATCGCAGGGATACTCAAACCCCATCAA
*
2057975 TTTCAAGGGGATACTCCAACTCCATTTTTATTTTCAAAATATT
189 TTTCAAGGGGATACTCCAACTCCATTTTTATTTCCAAAATATT
* * * * * *
2058018 AAAATTTTCATCTCAGGGATACTCCAA-CCC-T-GTTCCGAGGAGATACTCTAACCCCATTTTTA
1 AAAACTTTCATCTCAGGGATACTCCAACCCCTTAATTTCGAGGGGATACTCCAACCCCTTTTTTA
* * *
2058080 TTTCTAAAATATCGATTTTTCACCATCAGGGATACTCCAACCCCATCACTTTCAAGAGGATACTC
66 TTTC-AAAATATCAATTTTTCATC-TCA-GGATACTCCAACCCCATCAATTTCAAG-GGATACTC
* *
2058145 CAACCCCATTTTCACTTCCAAAACATT-AAATTTT
127 CAACCCCATTTT-ATTTCCAAAATATTAAAATTTT
2058179 ATTTCATCTT
Statistics
Matches: 335, Mismatches: 51, Indels: 29
0.81 0.12 0.07
Matches are distributed among these distances:
232 23 0.07
233 87 0.26
234 1 0.00
235 4 0.01
236 54 0.16
237 163 0.49
238 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.35
Consensus pattern (231 bp):
AAAACTTTCATCTCAGGGATACTCCAACCCCTTAATTTCGAGGGGATACTCCAACCCCTTTTTTA
TTTCAAAATATCAATTTTTCATCTCAGGATACTCCAACCCCATCAATTTCAAGGGATACTCCAAC
CCCATTTTATTTCCAAAATATTAAAATTTTCATCGCAGGGATACTCAAACCCCATCAATTTCAAG
GGGATACTCCAACTCCATTTTTATTTCCAAAATATT
Found at i:2070010 original size:42 final size:42
Alignment explanation
Indices: 2069955--2070073 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
2069945 TTCTTCTCTC
* *
2069955 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
2069997 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
2070039 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
2070074 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:2070014 original size:12 final size:11
Alignment explanation
Indices: 2069988--2070063 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
2069978 TCTATTATCT
*
2069988 CTCCTGTCTCTC
1 CTCCTATCTC-C
2070000 CTCCTATCATCC
1 CTCCTATC-TCC
2070012 CTCCTATCT--
1 CTCCTATCTCC
*
2070021 CTACTATCT--
1 CTCCTATCTCC
*
2070030 CTCCTGTCTCTC
1 CTCCTATCTC-C
2070042 CTCCTATCATCC
1 CTCCTATC-TCC
*
2070054 CTCCTCTCTC
1 CTCCTATCTC
2070064 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:2070015 original size:24 final size:24
Alignment explanation
Indices: 2069979--2070064 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
2069969 CCTCCTCTCT
* *
2069979 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
2070003 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
2070024 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
2070045 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
2070065 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:2070039 original size:18 final size:18
Alignment explanation
Indices: 2069970--2070040 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
2069960 CCTGTCATCC
* *
2069970 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
2069988 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
2070010 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
2070030 CTCCTGTCTCT
1 CTCCTGTCTCT
2070041 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:2077479 original size:42 final size:42
Alignment explanation
Indices: 2077424--2077542 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
2077414 TTCTTCTCTC
* *
2077424 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
2077466 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
2077508 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
2077543 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:2077483 original size:12 final size:11
Alignment explanation
Indices: 2077457--2077532 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
2077447 TCTATTATCT
*
2077457 CTCCTGTCTCTC
1 CTCCTATCTC-C
2077469 CTCCTATCATCC
1 CTCCTATC-TCC
2077481 CTCCTATCT--
1 CTCCTATCTCC
*
2077490 CTACTATCT--
1 CTCCTATCTCC
*
2077499 CTCCTGTCTCTC
1 CTCCTATCTC-C
2077511 CTCCTATCATCC
1 CTCCTATC-TCC
*
2077523 CTCCTCTCTC
1 CTCCTATCTC
2077533 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:2077484 original size:24 final size:24
Alignment explanation
Indices: 2077448--2077533 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
2077438 CCTCCTCTCT
* *
2077448 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
2077472 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
2077493 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
2077514 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
2077534 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:2077508 original size:18 final size:18
Alignment explanation
Indices: 2077439--2077509 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
2077429 CCTGTCATCC
* *
2077439 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
2077457 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
2077479 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
2077499 CTCCTGTCTCT
1 CTCCTGTCTCT
2077510 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:2084851 original size:20 final size:20
Alignment explanation
Indices: 2084826--2084867 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
2084816 AATGCTGGTT
2084826 TTTCCTCTCTTTTTATATTC
1 TTTCCTCTCTTTTTATATTC
* * *
2084846 TTTCCTTTTTTTTTGTATTC
1 TTTCCTCTCTTTTTATATTC
2084866 TT
1 TT
2084868 GAAAAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.07, C:0.19, G:0.02, T:0.71
Consensus pattern (20 bp):
TTTCCTCTCTTTTTATATTC
Found at i:2097650 original size:26 final size:26
Alignment explanation
Indices: 2097603--2097652 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
2097593 TATTAGACTT
*
2097603 CACATCATGCAATTATAATACCATTC
1 CACATCATGCAATTACAATACCATTC
*
2097629 CACATCATGC-ATTCACATTACCAT
1 CACATCATGCAATT-ACAATACCAT
2097653 CACACTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 18 0.86
ACGTcount: A:0.36, C:0.30, G:0.04, T:0.30
Consensus pattern (26 bp):
CACATCATGCAATTACAATACCATTC
Found at i:2098491 original size:36 final size:38
Alignment explanation
Indices: 2098444--2098544 Score: 127
Period size: 38 Copynumber: 2.7 Consensus size: 38
2098434 ACGGCACCTA
2098444 AGTCAAAGCCCACACAAGCTGGT-GCAACCT-AGT-TCG
1 AGTCAAAGCCCACACAAGCTGGTGGCAACCTAAGTCT-G
*
2098480 AGTCAAAGCCCACACAAGTTGGTGGCAACCTAAGTCTG
1 AGTCAAAGCCCACACAAGCTGGTGGCAACCTAAGTCTG
* * * *
2098518 AGTTAAAACCCACATAAGCTAGTGGCA
1 AGTCAAAGCCCACACAAGCTGGTGGCA
2098545 CCCACGTCAA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
36 22 0.39
37 7 0.12
38 26 0.46
39 1 0.02
ACGTcount: A:0.34, C:0.27, G:0.22, T:0.18
Consensus pattern (38 bp):
AGTCAAAGCCCACACAAGCTGGTGGCAACCTAAGTCTG
Found at i:2102137 original size:25 final size:22
Alignment explanation
Indices: 2102095--2102164 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 22
2102085 TAGTTTTTAA
*
2102095 AGTGAAATCTATAGTCTTTTCT
1 AGTGAAATCTAAAGTCTTTTCT
* *
2102117 ATTGAAAATCTCCAAAGTCTTTTCAA
1 AGTG-AAATCT--AAAGTCTTTTC-T
2102143 AGTGAAATCTAAAGTCTTTTCT
1 AGTGAAATCTAAAGTCTTTTCT
2102165 TTGTAATGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
22 3 0.08
23 17 0.44
25 16 0.41
26 3 0.08
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (22 bp):
AGTGAAATCTAAAGTCTTTTCT
Found at i:2102295 original size:179 final size:180
Alignment explanation
Indices: 2101979--2102307 Score: 570
Period size: 179 Copynumber: 1.8 Consensus size: 180
2101969 TACTAACATG
* *
2101979 TTTTCTTTGTGATGATTTATTTACATTCATGTTTTCAAATCATTTCAAATCAAACCAAAGGCAAT
1 TTTTCTTTGTAATGATTTATTTACATTCATGTTTTCAAATCATTTCAAATAAAACCAAAGGCAAT
* * ** * * *
2102044 GTTCCGTGTGAGTATCTCTCCAGTGCTTAACATGGAATATTTAGTTTTTAAAGTGAAATCTATAG
66 GTTCCATGTGAGTATCTCTCCAGTGCTCAACATGGAATATCCAGTTTTCAAAGTGAAATCCAAAG
2102109 TCTTTTCTATTGAAAATCTCCAAAGTCTTTTCAAAGTGAAATCTAAAGTC
131 TCTTTTCTATTGAAAATCTCCAAAGTCTTTTCAAAGTGAAATCTAAAGTC
2102159 TTTTCTTTGTAATGA-TTATTTACATTCATGTTTTCAAATCATTTCAAATAAAACCAAAGGCAAT
1 TTTTCTTTGTAATGATTTATTTACATTCATGTTTTCAAATCATTTCAAATAAAACCAAAGGCAAT
2102223 GTTCCATGTGAGTATCTCTCCAGTGCTCAACATGGAATATCCAGTTTTCAAAGTGAAATCCAAAG
66 GTTCCATGTGAGTATCTCTCCAGTGCTCAACATGGAATATCCAGTTTTCAAAGTGAAATCCAAAG
2102288 TCTTTTCTATTGAAAATCTC
131 TCTTTTCTATTGAAAATCTC
2102308 TATGCTCCCC
Statistics
Matches: 140, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
179 126 0.90
180 14 0.10
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.39
Consensus pattern (180 bp):
TTTTCTTTGTAATGATTTATTTACATTCATGTTTTCAAATCATTTCAAATAAAACCAAAGGCAAT
GTTCCATGTGAGTATCTCTCCAGTGCTCAACATGGAATATCCAGTTTTCAAAGTGAAATCCAAAG
TCTTTTCTATTGAAAATCTCCAAAGTCTTTTCAAAGTGAAATCTAAAGTC
Found at i:2108022 original size:157 final size:155
Alignment explanation
Indices: 2107704--2108107 Score: 430
Period size: 157 Copynumber: 2.6 Consensus size: 155
2107694 TATGCCATTC
* * * *
2107704 CATGTTTGTCTCATTTGAGGGACGAACTTTGATTCTAAGA-ATATGTTAGAAAGAAAAGC-TTTC
1 CATGTTTGTCTCATTTGACGGATGAACTTTGATTCTAAGAGAAATGGT-GAAAGAAAAGCTTTTC
*
2107767 TTGC-AAAACAAAAGCA-CTAATATCATGTGTCCTAATGTGAAAAATGTGTTTATGGTGACCAAT
65 TTACAAAAAC-AAAGCATC-AATATCATGTGTCCTAA-GTGAAAAATGTGTTTATGGTGACCAAT
* * *
2107830 CTGAAAAGAGTGGAGATTATTACAAAAAT
127 CCGAAAAGAATGGAGAATATTACAAAAAT
* **
2107859 CTATGTTTGTCTCAGTTGACAAATGAACTTTGATTCTAAGAGAAATGGTGGAAAGAAAAGCTTTT
1 C-ATGTTTGTCTCATTTGACGGATGAACTTTGATTCTAAGAGAAATGGT-GAAAGAAAAGCTTTT
* * * *
2107924 CCTACAAAAACAAAGCATCAATATCATGTTTCCTGA-TGAAGAGAATG-GTTTATGGTGCCCAAT
64 CTTACAAAAACAAAGCATCAATATCATGTGTCCTAAGTGAA-A-AATGTGTTTATGGTGACCAAT
*
2107987 CACGAAAAGAATGGA-AATATT-CTAAGAATT
127 C-CGAAAAGAATGGAGAATATTAC-AA-AAAT
** * * *
2108017 CATGTTAATCTCATTTGATGGATGAACTTTGATTATAAG-GAAAATGAGTGAAAGACAAGCTTTT
1 CATGTTTGTCTCATTTGACGGATGAACTTTGATTCTAAGAG-AAATG-GTGAAAGAAAAGCTTTT
*
2108081 CTTACAAAATCAAAGCATCAATATCAT
64 CTTACAAAAACAAAGCATCAATATCAT
2108108 ATATCCCATT
Statistics
Matches: 210, Mismatches: 27, Indels: 22
0.81 0.10 0.08
Matches are distributed among these distances:
155 1 0.00
156 40 0.19
157 115 0.55
158 48 0.23
159 6 0.03
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.30
Consensus pattern (155 bp):
CATGTTTGTCTCATTTGACGGATGAACTTTGATTCTAAGAGAAATGGTGAAAGAAAAGCTTTTCT
TACAAAAACAAAGCATCAATATCATGTGTCCTAAGTGAAAAATGTGTTTATGGTGACCAATCCGA
AAAGAATGGAGAATATTACAAAAAT
Found at i:2108253 original size:158 final size:158
Alignment explanation
Indices: 2108091--2108430 Score: 380
Period size: 159 Copynumber: 2.1 Consensus size: 158
2108081 CTTACAAAAT
* * * ** * *
2108091 CAAAGCATCAATATCATATATCCCATTAAAGAGTATGT-TTTTTGTTGTCAAATTATGAAAAGAA
1 CAAAGCATCAATATCATGTATCCCAATAAAGAGTATATGTCATTGTTGCCAAATCATGAAAAGAA
* * * *
2108155 TGGATATTATTATGTCAAGCCATGTTTGTCTCATTAGAGGG-TCAAACTTTGAATCTAAGGAAAA
66 TGGAGATTATTACGTCAAGCCATGTATGCCTCATTAGAGGGAT-AAACTTTGAATCTAAGGAAAA
2108219 AGGTAGAAAGAAAAAACTTTAT-TGTGAAAC
130 AGGTAGAAAG-AAAAACTTT-TCTGTGAAAC
* * * * * *
2108249 CAAAGCTTTAATATCATGTATTCTAATGAGGAGTATATGTCATTGTTGCCAAATCATGAAAAGAA
1 CAAAGCATCAATATCATGTATCCCAATAAAGAGTATATGTCATTGTTGCCAAATCATGAAAAGAA
* * * * * * *
2108314 TGGAGATTGTTACGTCAATCCATGTATGCCTCATTGGAGGGATGAGCTTTGATTCTAAGGAAAAT
66 TGGAGATTATTACGTCAAGCCATGTATGCCTCATTAGAGGGATAAACTTTGAATCTAAGGAAAAA
* *
2108379 GGTGGAAAGAAAAGCTTTTCCTGTGAAAC
131 GGTAGAAAGAAAAACTTTT-CTGTGAAAC
*
2108408 CAAAGTATCAATATCATGTATCC
1 CAAAGCATCAATATCATGTATCC
2108431 TAATGAGAAA
Statistics
Matches: 148, Mismatches: 30, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
157 1 0.01
158 37 0.25
159 109 0.74
160 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.31
Consensus pattern (158 bp):
CAAAGCATCAATATCATGTATCCCAATAAAGAGTATATGTCATTGTTGCCAAATCATGAAAAGAA
TGGAGATTATTACGTCAAGCCATGTATGCCTCATTAGAGGGATAAACTTTGAATCTAAGGAAAAA
GGTAGAAAGAAAAACTTTTCTGTGAAAC
Found at i:2108354 original size:159 final size:158
Alignment explanation
Indices: 2108132--2108437 Score: 393
Period size: 159 Copynumber: 1.9 Consensus size: 158
2108122 AGTATGTTTT
* * * * * *
2108132 TTGTTGTCAAATTATGAAAAGAATGGATATTATTATGTCAAGCCATGTTTGTCTCATTAGAGGG-
1 TTGTTGCCAAATCATGAAAAGAATGGAGATTATTACGTCAAGCCATGTATGCCTCATTAGAGGGA
*
2108196 TCAAACTTTGAATCTAAGGAAAAAGGTAGAAAGAAAAAACTTTAT-TGTGAAACCAAAGCT-TTA
66 T-AAACTTTGAATCTAAGGAAAAAGGTAGAAAG-AAAAACTTT-TCTGTGAAACCAAAG-TATCA
*
2108259 ATATCATGTATTCTAATGAGGAGTATATGTCA
127 ATATCATGTATCCTAATGAGGAGTATATGTCA
* * *
2108291 TTGTTGCCAAATCATGAAAAGAATGGAGATTGTTACGTCAATCCATGTATGCCTCATTGGAGGGA
1 TTGTTGCCAAATCATGAAAAGAATGGAGATTATTACGTCAAGCCATGTATGCCTCATTAGAGGGA
* * * * * *
2108356 TGAGCTTTGATTCTAAGGAAAATGGTGGAAAGAAAAGCTTTTCCTGTGAAACCAAAGTATCAATA
66 TAAACTTTGAATCTAAGGAAAAAGGTAGAAAGAAAAACTTTT-CTGTGAAACCAAAGTATCAATA
2108421 TCATGTATCCTAATGAG
130 TCATGTATCCTAATGAG
2108438 AAAAATGTGC
Statistics
Matches: 126, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
157 1 0.01
158 9 0.07
159 115 0.91
160 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (158 bp):
TTGTTGCCAAATCATGAAAAGAATGGAGATTATTACGTCAAGCCATGTATGCCTCATTAGAGGGA
TAAACTTTGAATCTAAGGAAAAAGGTAGAAAGAAAAACTTTTCTGTGAAACCAAAGTATCAATAT
CATGTATCCTAATGAGGAGTATATGTCA
Found at i:2108576 original size:155 final size:155
Alignment explanation
Indices: 2108353--2108654 Score: 365
Period size: 155 Copynumber: 1.9 Consensus size: 155
2108343 CTCATTGGAG
* * * * * *
2108353 GGATGAGCTTTGATTCTAAGGAAAATGGTGGAAAGAAAAGCTTTTCCTGTGAAACCAAAGTATCA
1 GGATGAACTTTGATTCTAAGGAAAATAGTGGAAAGAAAAACTTTTCATGGGAAACCAAAGCATCA
* ** ** **
2108418 ATATCATGTATCCTAATGA-GAAAAATGTGCTTAAAGTGCCTAATTGTGAAATGAGTGGAGATTA
66 ATATCATGTATCCTAATGATG-AAAATGGGCTTAAAGTGCCTAATCATGAAAAAAAAGGAGATTA
*
2108482 TTACAAGAATCTATGTCTCAATTAAA
130 TTACAAGAATCCATGTCTCAATTAAA
* * *
2108508 GGATGAACTTTGATTCTGAGGAAAATAGTGGAGAGAAAAACTTGTT-ATGGGAAACCAAAGCATT
1 GGATGAACTTTGATTCTAAGGAAAATAGTGGAAAGAAAAACTT-TTCATGGGAAACCAAAGCATC
** * * **
2108572 AATATTGTGTTTCCTAATGATGACAATGGGCTTATGGTGCCTAATCATGAAAAAAAAGGAGATTA
65 AATATCATGTATCCTAATGATGAAAATGGGCTTAAAGTGCCTAATCATGAAAAAAAAGGAGATTA
2108637 TTACAAGAATCCATGTCT
130 TTACAAGAATCCATGTCT
2108655 GTCATATTTG
Statistics
Matches: 122, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
155 119 0.98
156 3 0.02
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.29
Consensus pattern (155 bp):
GGATGAACTTTGATTCTAAGGAAAATAGTGGAAAGAAAAACTTTTCATGGGAAACCAAAGCATCA
ATATCATGTATCCTAATGATGAAAATGGGCTTAAAGTGCCTAATCATGAAAAAAAAGGAGATTAT
TACAAGAATCCATGTCTCAATTAAA
Found at i:2108762 original size:155 final size:157
Alignment explanation
Indices: 2108603--2108950 Score: 345
Period size: 155 Copynumber: 2.2 Consensus size: 157
2108593 GACAATGGGC
* * *
2108603 TTATGGTGCCTAATCATGAAAAAAAAGGAGATTATTACAAGAATCCATGTCTGTCAT-ATTTGAT
1 TTATGGTGCCTAATCATGAAAAAAATGGAGATTATTACAACAATCCATGTCTG-CATCATTTGAG
* * * * *
2108667 TAACAAAATTT-TATTATAAGAAAAATGG-GGAAATAAAAGCTTTTCTTGTGAAA-CCAAAGCAT
65 GAACAAAATTTAAATT-TAAGAAAAATGGTAGAAAGAAAAGC-TTTCTTG-CAAACCCAAAGCAT
* *
2108729 CAA-T-ATGTATCCCAAAGA-GAAGTATGTAT
127 CAACTCATATATCCCAAAGAGGAA-AATGTAT
* * * * * *
2108758 TTATGTTG-CTGAATCA-CAAAAAGAATGGAGATTGTTACATCAATCCATGTTTGCCTCATTTGA
1 TTATGGTGCCT-AATCATGAAAAA-AATGGAGATTATTACAACAATCCATGTCTGCATCATTTGA
* ** * *
2108821 GGGATGAAGTTTAAATTTAAGGAAAATGGTAGAAAGAAAAGCTTTCTTGCAAACCCAAAGCATCA
64 GGAACAAAATTTAAATTTAAGAAAAATGGTAGAAAGAAAAGCTTTCTTGCAAACCCAAAGCATCA
*
2108886 ACGTCATATATCCTAAAGAGGAAAATGTAT
129 AC-TCATATATCCCAAAGAGGAAAATGTAT
* *
2108916 TTATGGTGCCCAATCATGAATAAAATGGAGATTAT
1 TTATGGTGCCTAATCATGAAAAAAATGGAGATTAT
2108951 AATCAGAGTC
Statistics
Matches: 154, Mismatches: 27, Indels: 21
0.76 0.13 0.10
Matches are distributed among these distances:
154 12 0.08
155 79 0.51
156 13 0.08
157 1 0.01
158 41 0.27
159 8 0.05
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.30
Consensus pattern (157 bp):
TTATGGTGCCTAATCATGAAAAAAATGGAGATTATTACAACAATCCATGTCTGCATCATTTGAGG
AACAAAATTTAAATTTAAGAAAAATGGTAGAAAGAAAAGCTTTCTTGCAAACCCAAAGCATCAAC
TCATATATCCCAAAGAGGAAAATGTAT
Found at i:2108963 original size:158 final size:155
Alignment explanation
Indices: 2108683--2108968 Score: 332
Period size: 158 Copynumber: 1.8 Consensus size: 155
2108673 AATTTTATTA
* * * *
2108683 TAAGAAAAATGGGGAAATAAAAGCTTTTCTTGTGAAACCAAAGCATCAATATGTATCCCAAAGAG
1 TAAGAAAAATGGAGAAAGAAAAGCTTTTCTTGTCAAACCAAAGCATCAATATATATCCCAAAGAG
* * ** *
2108748 AAGTATGTATTTATGTTGCTGAATCACAAAAAGAATGGAGATTGTTACATCAATCCATGTTTGCC
66 AAGAATGTATTTATGGTGCCCAATCACAAAAAGAATGGAGATTGATACATCAATCCATGTTTGCC
2108813 TCATTTGAGGGATGAAGTTTAAATT
131 TCATTTGAGGGATGAAGTTTAAATT
* *
2108838 TAAGGAAAATGGTAGAAAGAAAAGC-TTTCTTG-CAAACCCAAAGCATCAACGTCATATATCCTA
1 TAAGAAAAATGG-AGAAAGAAAAGCTTTTCTTGTCAAA-CCAAAGCATCAA--T-ATATATCCCA
* *
2108901 AAGAGGAA-AATGTATTTATGGTGCCCAATCATGAATAA-AATGGAGATT-ATA-ATCAGAGTCC
61 AAGA-GAAGAATGTATTTATGGTGCCCAATCA-CAAAAAGAATGGAGATTGATACATCA-A-TCC
2108962 ATGTTTG
122 ATGTTTG
2108969 TCTTGGTTGA
Statistics
Matches: 109, Mismatches: 13, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
154 3 0.03
155 30 0.28
156 14 0.13
157 4 0.04
158 51 0.47
159 7 0.06
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.28
Consensus pattern (155 bp):
TAAGAAAAATGGAGAAAGAAAAGCTTTTCTTGTCAAACCAAAGCATCAATATATATCCCAAAGAG
AAGAATGTATTTATGGTGCCCAATCACAAAAAGAATGGAGATTGATACATCAATCCATGTTTGCC
TCATTTGAGGGATGAAGTTTAAATT
Found at i:2112800 original size:79 final size:77
Alignment explanation
Indices: 2112690--2113303 Score: 781
Period size: 78 Copynumber: 7.8 Consensus size: 77
2112680 GCATCAAAAA
* * *
2112690 GGGATACTCCAACCCC-GTTTCATTTTCGAAATATTAAAATTTTCATCTCGGGTATACTCAAACC
1 GGGATACTCCAACCCCATTTTTATTTT-GAAATATTAAAATTTTCATCTCGGG-ATACTCTAACC
*
2112754 CTGTTATTTTTGAG
64 CTGTTATTTTCGAG
*
2112768 AGGATACTCCAACCCCATTTTTATTTTTGAAATATTAAAATTTTCATCTCGAGGATACTCTAACC
1 GGGATACTCCAACCCCATTTTTA-TTTTGAAATATTAAAATTTTCATCTCG-GGATACTCTAACC
2112833 CTGTTATTTTCGAG
64 CTGTTATTTTCGAG
* *
2112847 GGGATACTCCAATCCCTTTTTTATTTTTGAAATATTAAAATTTTCATCTCAGGGATACTCTAACC
1 GGGATACTCCAACCCCATTTTTA-TTTTGAAATATTAAAATTTTCATCTC-GGGATACTCTAACC
*
2112912 TTGTTA-TTTCTGAG
64 CTGTTATTTTC-GAG
** **
2112926 GGGATACTCCAACCCTGTTTTTATTTCCAAATATTAAAATTTTCATCTCGGGGATACTCTAA-CC
1 GGGATACTCCAACCCCATTTTTATTTTGAAATATTAAAATTTTCATCTC-GGGATACTCTAACCC
2112990 TCGTTATTTTCGAG
65 T-GTTATTTTCGAG
* * *
2113004 GGGATAATCCAAACCCATTTTTATTTTGAAATATTAAAATTTTCATCTCGAGGATACTCCAACCC
1 GGGATACTCCAACCCCATTTTTATTTTGAAATATTAAAATTTTCATCTCG-GGATACTCTAACCC
2113069 TGTTATTTTCGAG
65 TGTTATTTTCGAG
* * * *
2113082 GGGATACTCCAATCCCTTTTTTATTTTTGAAATATTAAATTTTTCATCTCAAGGATACTCTAA-C
1 GGGATACTCCAACCCCATTTTTA-TTTTGAAATATTAAAATTTTCATCTC-GGGATACTCTAACC
2113146 CTCGTTA-TTTCTGAG
64 CT-GTTATTTTC-GAG
* ** **
2113161 GGGATACTCTAACCCTGTTTTTATTTCCAAATATTAAAATTTTCATCTCGGGGATACTCTAA-CC
1 GGGATACTCCAACCCCATTTTTATTTTGAAATATTAAAATTTTCATCTC-GGGATACTCTAACCC
*
2113225 TCGTTATTTTCAAG
65 T-GTTATTTTCGAG
* * *
2113239 GGGATAATCCAACCCCATTTTTATTTTGAAATATTAAAATTTTCATCTCAAGGATACTCCAACCC
1 GGGATACTCCAACCCCATTTTTATTTTGAAATATTAAAATTTTCATCTC-GGGATACTCTAACCC
2113304 CGTTTTTATT
Statistics
Matches: 473, Mismatches: 48, Indels: 29
0.86 0.09 0.05
Matches are distributed among these distances:
77 3 0.01
78 251 0.53
79 212 0.45
80 7 0.01
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.39
Consensus pattern (77 bp):
GGGATACTCCAACCCCATTTTTATTTTGAAATATTAAAATTTTCATCTCGGGATACTCTAACCCT
GTTATTTTCGAG
Found at i:2113102 original size:235 final size:235
Alignment explanation
Indices: 2112690--2113303 Score: 1043
Period size: 235 Copynumber: 2.6 Consensus size: 235
2112680 GCATCAAAAA
* * * * *
2112690 GGGATACTCCAACCCCG-TTTCATTTTCGAAATATTAAAATTTTCATCTCGGGTATACTCAAACC
1 GGGATACTCCAACCCTGTTTTTA-TTTCCAAATATTAAAATTTTCATCTCGGGGATACTCTAACC
* * *
2112754 -CTGTTATTTTTGAGAGGATACTCCAACCCCATTTTTATTTTTGAAATATTAAAATTTTCATCTC
65 TC-GTTATTTTCGAGGGGATAATCCAACCCCATTTTTA-TTTTGAAATATTAAAATTTTCATCTC
*
2112818 GAGGATACTCTAACCCTGTTATTTTCGAGGGGATACTCCAATCCCTTTTTTATTTTTGAAATATT
128 GAGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAATCCCTTTTTTATTTTTGAAATATT
* *
2112883 AAAATTTTCATCTCAGGGATACTCTAACCTTGTTATTTCTGAG
193 AAAATTTTCATCTCAAGGATACTCTAACCTCGTTATTTCTGAG
2112926 GGGATACTCCAACCCTGTTTTTATTTCCAAATATTAAAATTTTCATCTCGGGGATACTCTAACCT
1 GGGATACTCCAACCCTGTTTTTATTTCCAAATATTAAAATTTTCATCTCGGGGATACTCTAACCT
*
2112991 CGTTATTTTCGAGGGGATAATCCAAACCCATTTTTATTTTGAAATATTAAAATTTTCATCTCGAG
66 CGTTATTTTCGAGGGGATAATCCAACCCCATTTTTATTTTGAAATATTAAAATTTTCATCTCGAG
2113056 GATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAATCCCTTTTTTATTTTTGAAATATTAAA
131 GATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAATCCCTTTTTTATTTTTGAAATATTAAA
*
2113121 TTTTTCATCTCAAGGATACTCTAACCTCGTTATTTCTGAG
196 ATTTTCATCTCAAGGATACTCTAACCTCGTTATTTCTGAG
*
2113161 GGGATACTCTAACCCTGTTTTTATTTCCAAATATTAAAATTTTCATCTCGGGGATACTCTAACCT
1 GGGATACTCCAACCCTGTTTTTATTTCCAAATATTAAAATTTTCATCTCGGGGATACTCTAACCT
* *
2113226 CGTTATTTTCAAGGGGATAATCCAACCCCATTTTTATTTTGAAATATTAAAATTTTCATCTCAAG
66 CGTTATTTTCGAGGGGATAATCCAACCCCATTTTTATTTTGAAATATTAAAATTTTCATCTCGAG
2113291 GATACTCCAACCC
131 GATACTCCAACCC
2113304 CGTTTTTATT
Statistics
Matches: 359, Mismatches: 17, Indels: 5
0.94 0.04 0.01
Matches are distributed among these distances:
235 269 0.75
236 85 0.24
237 5 0.01
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.39
Consensus pattern (235 bp):
GGGATACTCCAACCCTGTTTTTATTTCCAAATATTAAAATTTTCATCTCGGGGATACTCTAACCT
CGTTATTTTCGAGGGGATAATCCAACCCCATTTTTATTTTGAAATATTAAAATTTTCATCTCGAG
GATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAATCCCTTTTTTATTTTTGAAATATTAAA
ATTTTCATCTCAAGGATACTCTAACCTCGTTATTTCTGAG
Found at i:2113421 original size:27 final size:27
Alignment explanation
Indices: 2113388--2113444 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
2113378 CCCCGTTTCT
2113388 TTTCGAATTTCTTTTAAAATTTAGAAC
1 TTTCGAATTTCTTTTAAAATTTAGAAC
2113415 TTTCGAATTTCTTTTAAAATTTAGAAC
1 TTTCGAATTTCTTTTAAAATTTAGAAC
2113442 TTT
1 TTT
2113445 TCCCTAGGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.51
Consensus pattern (27 bp):
TTTCGAATTTCTTTTAAAATTTAGAAC
Found at i:2114698 original size:61 final size:61
Alignment explanation
Indices: 2114579--2114700 Score: 208
Period size: 61 Copynumber: 2.0 Consensus size: 61
2114569 ATGGTGCTCA
***
2114579 ATGGTGAAAAGAGTGGAGATTATTATGAGAGTCCATGTTTGTCTCGATTAATGGATGAACT
1 ATGGTGAAAAGAGTGGAGATTATTATGAGAGTCCATGTTTGTCTCGATTAACAAATGAACT
*
2114640 ATGGTGAAAAGAGTGGAGATTATTATGAGAGTCCATGTTTGTCTCGATTGACAAATGAACT
1 ATGGTGAAAAGAGTGGAGATTATTATGAGAGTCCATGTTTGTCTCGATTAACAAATGAACT
2114701 TTGTTTCTAA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.32, C:0.09, G:0.27, T:0.32
Consensus pattern (61 bp):
ATGGTGAAAAGAGTGGAGATTATTATGAGAGTCCATGTTTGTCTCGATTAACAAATGAACT
Found at i:2115136 original size:159 final size:157
Alignment explanation
Indices: 2114644--2115529 Score: 712
Period size: 159 Copynumber: 5.6 Consensus size: 157
2114634 TGAACTATGG
* * * * *
2114644 TGAAAAGAGTGGAGATTATTATGAGAGTCCATGTTTGTCTCGA-TTGACAAATGAACTTTGTTTC
1 TGAAAAGAATGGAGATTATTATGAGAATCCATGTTTGTCTC-ATTTGATAGATGAACTTTGATTC
* ** * * * * * *
2114708 TAAGGATAATAGTTAAAAGAAAAGTTTTTCCTATGAAACCAATGCATCAATAACGTGTTTCCTAA
65 TAAGGAAAAT-GTGGAAAGAAAAGCTTTTCTTGTGAAACCAA-GCATCAATATCATGTATCCTAA
* * *
2114773 TGAGGAGAATGGGTTTTTGGTGCCGAATCA
128 TGAGGAGAATGTGTTTATGGTGCCTAATCA
* * *
2114803 TGAAAAGAATGAAGATTATTATAAGAATCCATGTTTGTCTCATTTGATAGATGGACTTTGATTCT
1 TGAAAAGAATGGAGATTATTATGAGAATCCATGTTTGTCTCATTTGATAGATGAACTTTGATTCT
* * * * * * *
2114868 AATGAAACTGATGG-AA-AAAA-CTTCTCTTTTGAAACCAAAGCATTAGTATCGTGTATCCTAAT
66 AAGGAAAATG-TGGAAAGAAAAGCTTTTCTTGTGAAACC-AAGCATCAATATCATGTATCCTAAT
* * * ** * * *
2114930 TAAGAGTATGCATTTTTGTTG-TTGAATCA
129 GAGGAGAATGTGTTTATGGTGCCT-AATCA
* * ** * *
2114959 TGAAAAGAATTGAGATTATTATGTA-AATCCATGTTTGCCTCATTTGAGGGGTGAACTTTGATTA
1 TGAAAAGAATGGAGATTATTATG-AGAATCCATGTTTGTCTCATTTGATAGATGAACTTTGATTC
** *
2115023 TAAGGAAAATAGTGGAAAGAAAAGCTTTTCTTGCAAAACCATAGCATTAATATCATGGT-TCCTA
65 TAAGGAAAAT-GTGGAAAGAAAAGCTTTTCTTGTGAAACCA-AGCATCAATATCAT-GTATCCTA
*
2115087 ATGAGGAGAATAG-GTTTATGGTACCTAATCA
127 ATGAGGAGAAT-GTGTTTATGGTGCCTAATCA
* * * *
2115118 TGAAAAGAGTGGAGATTATTTTGAGAATCAATGTTTGTCTCATTTGATGGATGAACTTTGATTCT
1 TGAAAAGAATGGAGATTATTATGAGAATCCATGTTTGTCTCATTTGATAGATGAACTTTGATTCT
* * * **
2115183 AA-GAAAATGTAGGAAAGAAGAGCTTTCCATGTGAAACCAAGGCATCAATATCATGTATTGTAAT
66 AAGGAAAATGT-GGAAAGAAAAGCTTTTCTTGTGAAACCAA-GCATCAATATCATGTATCCTAAT
* * * *
2115247 AAGGAGTATGTGCTTTTAT--TGTCAAATCA
129 GAGGAGAATGTG--TTTATGGTGCCTAATCA
** * * * * * *
2115276 TGAAAAGAATGGAGATTATTATGTCAATTCATGTTTGTTTCAGTTCA-AGGA-CAAGCTTTAATT
1 TGAAAAGAATGGAGATTATTATGAGAATCCATGTTTGTCTCATTTGATA-GATGAA-CTTTGATT
* *
2115339 CTAGGGAAAATGGTGG-AAGAAAAGC-TTTCTTGTGAAACCAAAGCATCAATATCATGTATCCCA
64 CTAAGGAAAAT-GTGGAAAGAAAAGCTTTTCTTGTGAAACC-AAGCATCAATATCATGTATCCTA
* *
2115402 AT-AGGAAAATGTGTTTATGGTGCCCAATCA
127 ATGAGGAGAATGTGTTTATGGTGCCTAATCA
** * * *
2115432 TGAAAAGTGTGGACG-TTATTATGAGAATCCATGTTTATATC--TTGATTGATGCATAAGCTTTG
1 TGAAAAGAATGGA-GATTATTATGAGAATCCATGTTTGTCTCATTTGATAGATG---AA-CTTTG
** *
2115494 ATTCTAACAAAAATGGTAGAAAGAAAAGCTTTTCTT
61 ATTCTAAGGAAAAT-GTGGAAAGAAAAGCTTTTCTT
2115530 ACAAAAATGA
Statistics
Matches: 579, Mismatches: 113, Indels: 69
0.76 0.15 0.09
Matches are distributed among these distances:
154 10 0.02
156 164 0.28
157 51 0.09
158 153 0.26
159 184 0.32
160 17 0.03
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (157 bp):
TGAAAAGAATGGAGATTATTATGAGAATCCATGTTTGTCTCATTTGATAGATGAACTTTGATTCT
AAGGAAAATGTGGAAAGAAAAGCTTTTCTTGTGAAACCAAGCATCAATATCATGTATCCTAATGA
GGAGAATGTGTTTATGGTGCCTAATCA
Found at i:2115518 original size:317 final size:317
Alignment explanation
Indices: 2114708--2115525 Score: 754
Period size: 315 Copynumber: 2.6 Consensus size: 317
2114698 ACTTTGTTTC
* ** * * * * * *
2114708 TAAGGATAATAGTTAAAAGAAAAGTTTTTCCTATG--AAACCAATGCATCAATAACGTGTTTCCT
1 TAAGGAAAATAGTGGAAAGAAAAGCTTTT-CT-TGCAAAACCAAAGCATCAATATCATGGTTCCC
* * * * * * * * *
2114771 AATGAGGAGAATGGGTTTTTGGTGCCGAATCATGAAAAGAATGAAGATTATTATAAGAATCCATG
64 AATGAGGAAAATAGGTTTATGGTACCCAATCATGAAAAGAGTGGAGATTATTATGAGAATCAATG
* * * * * *
2114836 TTTGTCTCATTTGATAG-ATGGACTTTGATTCTAATGAAACTG-ATGG-AA-AAAA-C-TTCTCT
129 TTTATATCATTTGAT-GCATGAACTTTGATTCTAA-AAAAATGTA-GGAAAGAAAAGCTTTC-CA
* * * * * ** *** * **
2114895 TTTGAAACCAAAGCATTAGTATCGTGTATCCTAATTAA-GAGTATGCATTTTTGTTGTTGAATCA
190 TGTGAAACCAAGGCATCAATATCATGTATTGTAA-TAAGGAGTATGTGCTTTTATTGTCAAATCA
* * * * ** *
2114959 TGAAAAGAATTGAGATTATTATGTAAATCCATGTTTGCCTCATTTGAGGGGTGAACTTTGATTA
254 TGAAAAGAATGGAGATTATTATGTAAATCCATGTTTGCCTCAGTTCAGAGGACAACTTTAATTA
* * *
2115023 TAAGGAAAATAGTGGAAAGAAAAGCTTTTCTTGCAAAACCATAGCATTAATATCATGGTTCCTAA
1 TAAGGAAAATAGTGGAAAGAAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATGGTTCCCAA
* * *
2115088 TGAGGAGAATAGGTTTATGGTACCTAATCATGAAAAGAGTGGAGATTATTTTGAGAATCAATGTT
66 TGAGGAAAATAGGTTTATGGTACCCAATCATGAAAAGAGTGGAGATTATTATGAGAATCAATGTT
* * * * *
2115153 TGTCTCATTTGATGGATGAACTTTGATTCTAAGAAAATGTAGGAAAGAAGAGCTTTCCATGTGAA
131 TATATCATTTGATGCATGAACTTTGATTCTAAAAAAATGTAGGAAAGAAAAGCTTTCCATGTGAA
2115218 ACCAAGGCATCAATATCATGTATTGTAATAAGGAGTATGTGCTTTTATTGTCAAATCATGAAAAG
196 ACCAAGGCATCAATATCATGTATTGTAATAAGGAGTATGTGCTTTTATTGTCAAATCATGAAAAG
* * ** *
2115283 AATGGAGATTATTATGTCAATTCATGTTTGTTTCAGTTCA-AGGACAAGCTTTAATTC
261 AATGGAGATTATTATGTAAATCCATGTTTGCCTCAGTTCAGAGGACAA-CTTTAATTA
* * **
2115340 TAGGGAAAATGGTGG-AAGAAAAGC-TTTCTTGTGAAACCAAAGCATCAATATCAT-GTATCCCA
1 TAAGGAAAATAGTGGAAAGAAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATGGT-TCCCA
* * *
2115402 AT-AGGAAAAT-GTGTTTATGGTGCCCAATCATGAAAAGTGTGGACG-TTATTATGAGAATCCAT
65 ATGAGGAAAATAG-GTTTATGGTACCCAATCATGAAAAGAGTGGA-GATTATTATGAGAATCAAT
*
2115464 GTTTATATCTTGATTGATGCAT-AAGCTTTGATTCTAACAAAAATGGTA-GAAAGAAAAGCTTT
128 GTTTATATCAT--TTGATGCATGAA-CTTTGATTCTAA-AAAAAT-GTAGGAAAGAAAAGCTTT
2115526 TCTTACAAAA
Statistics
Matches: 418, Mismatches: 67, Indels: 34
0.81 0.13 0.07
Matches are distributed among these distances:
313 3 0.01
314 71 0.17
315 172 0.41
316 39 0.09
317 127 0.30
318 6 0.01
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.33
Consensus pattern (317 bp):
TAAGGAAAATAGTGGAAAGAAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATGGTTCCCAA
TGAGGAAAATAGGTTTATGGTACCCAATCATGAAAAGAGTGGAGATTATTATGAGAATCAATGTT
TATATCATTTGATGCATGAACTTTGATTCTAAAAAAATGTAGGAAAGAAAAGCTTTCCATGTGAA
ACCAAGGCATCAATATCATGTATTGTAATAAGGAGTATGTGCTTTTATTGTCAAATCATGAAAAG
AATGGAGATTATTATGTAAATCCATGTTTGCCTCAGTTCAGAGGACAACTTTAATTA
Found at i:2117270 original size:12 final size:12
Alignment explanation
Indices: 2117253--2117315 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 12
2117243 AGAAAGAAGA
2117253 GATAGGAGGGAT
1 GATAGGAGGGAT
2117265 GATAGGAGGAGA-
1 GATAGGAGG-GAT
*
2117277 GATAGGAGAGAT
1 GATAGGAGGGAT
*
2117289 AATA-GA--GA-
1 GATAGGAGGGAT
2117297 G--AGGAGGGAT
1 GATAGGAGGGAT
2117307 GATAGGAGG
1 GATAGGAGG
2117316 AGGAGAGAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 16
0.68 0.05 0.27
Matches are distributed among these distances:
6 1 0.03
7 2 0.05
9 4 0.10
10 1 0.03
11 4 0.10
12 26 0.65
13 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.48, T:0.13
Consensus pattern (12 bp):
GATAGGAGGGAT
Found at i:2117301 original size:18 final size:18
Alignment explanation
Indices: 2117274--2117323 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
2117264 TGATAGGAGG
*
2117274 AGAGATAGGAGAGATAAT
1 AGAGAGAGGAGAGATAAT
* *
2117292 AGAGAGAGGAGGGATGAT
1 AGAGAGAGGAGAGATAAT
2117310 AG-GAGGAGGAGAGA
1 AGAGA-GAGGAGAGA
2117324 AGAAGATGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 2 0.07
18 25 0.93
ACGTcount: A:0.44, C:0.00, G:0.46, T:0.10
Consensus pattern (18 bp):
AGAGAGAGGAGAGATAAT
Found at i:2123486 original size:42 final size:42
Alignment explanation
Indices: 2123431--2123540 Score: 175
Period size: 42 Copynumber: 2.6 Consensus size: 42
2123421 TTCTTCTCTC
* * *
2123431 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATATCTCCTGTCT
*
2123473 CTCCTCCTATCATCCCTCCTATCTCTACTATATCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATATCTCCTGTCT
*
2123515 CTCCTTCTATCATCCCTCCTCTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCT
2123541 TCTTTCTCTT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.10, C:0.45, G:0.03, T:0.42
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATATCTCCTGTCT
Found at i:2123491 original size:24 final size:24
Alignment explanation
Indices: 2123455--2123540 Score: 76
Period size: 24 Copynumber: 3.8 Consensus size: 24
2123445 CCTCCTCTCT
* * *
2123455 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTA
*
2123479 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTA
*
2123500 CTAT-AT--CTCCTGTCTCTCCTT
1 CTATCATCCCTCCTGTCTCTCCTA
*
2123521 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
2123541 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 6 0.12
21 12 0.24
22 6 0.12
24 21 0.43
ACGTcount: A:0.12, C:0.43, G:0.02, T:0.43
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTA
Found at i:2124150 original size:42 final size:42
Alignment explanation
Indices: 2124095--2124213 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
2124085 TTCTTCTCTC
* *
2124095 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
2124137 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
2124179 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
2124214 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:2124154 original size:12 final size:11
Alignment explanation
Indices: 2124128--2124203 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
2124118 TCTATTATCT
*
2124128 CTCCTGTCTCTC
1 CTCCTATCTC-C
2124140 CTCCTATCATCC
1 CTCCTATC-TCC
2124152 CTCCTATCT--
1 CTCCTATCTCC
*
2124161 CTACTATCT--
1 CTCCTATCTCC
*
2124170 CTCCTGTCTCTC
1 CTCCTATCTC-C
2124182 CTCCTATCATCC
1 CTCCTATC-TCC
*
2124194 CTCCTCTCTC
1 CTCCTATCTC
2124204 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:2124155 original size:24 final size:24
Alignment explanation
Indices: 2124119--2124204 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
2124109 CCTCCTCTCT
* *
2124119 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
2124143 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
2124164 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
2124185 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
2124205 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:2124179 original size:18 final size:18
Alignment explanation
Indices: 2124110--2124180 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
2124100 CCTGTCATCC
* *
2124110 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
2124128 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
2124150 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
2124170 CTCCTGTCTCT
1 CTCCTGTCTCT
2124181 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:2124587 original size:664 final size:664
Alignment explanation
Indices: 2123316--2124643 Score: 2611
Period size: 664 Copynumber: 2.0 Consensus size: 664
2123306 CTTGCTCTAT
2123316 CTTCAACTCCCACTCTAAGTATGCTTCAACATCATTCCTTCCATGAAAACTGGGAATCTTTATTT
1 CTTCAACTCCCACTCTAAGTATGCTTCAACATCATTCCTTCCATGAAAACTGGGAATCTTTATTT
*
2123381 TTACTCCACCGATTCTCTCATTTTCTCTCACTCTTCCATGTTCTTCTCTCCTCCTCCTGTCATCC
66 TTACTCCACCGATTCTCTCATTTTCTCTCACTCTTCCATCTTCTTCTCTCCTCCTCCTGTCATCC
2123446 CTCCTCTCTCTATTATCTCTCCTGTCTCTCCTCCTATCATCCCTCCTATCTCTACTATATCTCCT
131 CTCCTCTCTCTATTATCTCTCCTGTCTCTCCTCCTATCATCCCTCCTATCTCTACTATATCTCCT
* *
2123511 GTCTCTCCTTCTATCATCCCTCCTCTCTCTTCTTTCTCTTTGAGGGTTACTAGAATCTCCATGGG
196 GTCTCTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCTTTGAGGGCTACTAGAATCTCCATGGG
2123576 TAGGTGGAGAATTGTCACGTGGCTGCCTTCTTGCATTATTTGCCACTGTCTCTTGAATATTCCTT
261 TAGGTGGAGAATTGTCACGTGGCTGCCTTCTTGCATTATTTGCCACTGTCTCTTGAATATTCCTT
2123641 ATGGCTTCATTCTGCGTTTCAAACATTCTTTCAAATCTTTGTGCAAGTCTTTCAATTTGCACTCT
326 ATGGCTTCATTCTGCGTTTCAAACATTCTTTCAAATCTTTGTGCAAGTCTTTCAATTTGCACTCT
2123706 AACAGCCAAGGACTTAGGTGAGGGAGGAGTACTCTCCCCACTTGATCTTTCTTCATGAGACATAG
391 AACAGCCAAGGACTTAGGTGAGGGAGGAGTACTCTCCCCACTTGATCTTTCTTCATGAGACATAG
2123771 CTGCAGAATTATAAAGATTAATGCAATAAAATGTCCTCTCCACTCACTAAGTGTTTCACTCAATA
456 CTGCAGAATTATAAAGATTAATGCAATAAAATGTCCTCTCCACTCACTAAGTGTTTCACTCAATA
2123836 GATGTTCACTCGTGTTTCACTCAAAATTGGCTTTTGTGTATTGATTTCACTCTTGCCTTTTTCCC
521 GATGTTCACTCGTGTTTCACTCAAAATTGGCTTTTGTGTATTGATTTCACTCTTGCCTTTTTCCC
2123901 CTCAAGTGTTCTCAACAGTTCTTAAGGAAGTCAACCTCCAGTCCACACAATCAACCACAACCAAG
586 CTCAAGTGTTCTCAACAGTTCTTAAGGAAGTCAACCTCCAGTCCACACAATCAACCACAACCAAG
2123966 TGACAATCAACTAA
651 TGACAATCAACTAA
2123980 CTTCAACTCCCACTCTAAGTATGCTTCAACATCATTCCTTCCATGAAAACTGGGAATCTTTATTT
1 CTTCAACTCCCACTCTAAGTATGCTTCAACATCATTCCTTCCATGAAAACTGGGAATCTTTATTT
2124045 TTACTCCACCGATTCTCTCATTTTCTCTCACTCTTCCATCTTCTTCTCTCCTCCTCCTGTCATCC
66 TTACTCCACCGATTCTCTCATTTTCTCTCACTCTTCCATCTTCTTCTCTCCTCCTCCTGTCATCC
*
2124110 CTCCTCTCTCTATTATCTCTCCTGTCTCTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCT
131 CTCCTCTCTCTATTATCTCTCCTGTCTCTCCTCCTATCATCCCTCCTATCTCTACTATATCTCCT
2124175 GTCTCTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCTTTGAGGGCTACTAGAATCTCCATGGG
196 GTCTCTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCTTTGAGGGCTACTAGAATCTCCATGGG
2124240 TAGGTGGAGAATTGTCACGTGGCTGCCTTCTTGCATTATTTGCCACTGTCTCTTGAATATTCCTT
261 TAGGTGGAGAATTGTCACGTGGCTGCCTTCTTGCATTATTTGCCACTGTCTCTTGAATATTCCTT
2124305 ATGGCTTCATTCTGCGTTTCAAACATTCTTTCAAATCTTTGTGCAAGTCTTTCAATTTGCACTCT
326 ATGGCTTCATTCTGCGTTTCAAACATTCTTTCAAATCTTTGTGCAAGTCTTTCAATTTGCACTCT
2124370 AACAGCCAAGGACTTAGGTGAGGGAGGAGTACTCTCCCCACTTGATCTTTCTTCATGAGACATAG
391 AACAGCCAAGGACTTAGGTGAGGGAGGAGTACTCTCCCCACTTGATCTTTCTTCATGAGACATAG
2124435 CTGCAGAATTATAAAGATTAATGCAATAAAATGTCCTCTCCACTCACTAAGTGTTTCACTCAATA
456 CTGCAGAATTATAAAGATTAATGCAATAAAATGTCCTCTCCACTCACTAAGTGTTTCACTCAATA
2124500 GATGTTCACTCGTGTTTCACTCAAAATTGGCTTTTGTGTATTGATTTCACTCTTGCCTTTTTCCC
521 GATGTTCACTCGTGTTTCACTCAAAATTGGCTTTTGTGTATTGATTTCACTCTTGCCTTTTTCCC
*
2124565 CTCAAGTGTTCTCAATAGTTCTTAAGGAAGTCAACCTCCAGTCCACACAATCAACCACAACCAAG
586 CTCAAGTGTTCTCAACAGTTCTTAAGGAAGTCAACCTCCAGTCCACACAATCAACCACAACCAAG
2124630 TGACAATCAACTAA
651 TGACAATCAACTAA
2124644 GTGAGGCAAC
Statistics
Matches: 659, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
664 659 1.00
ACGTcount: A:0.22, C:0.29, G:0.12, T:0.36
Consensus pattern (664 bp):
CTTCAACTCCCACTCTAAGTATGCTTCAACATCATTCCTTCCATGAAAACTGGGAATCTTTATTT
TTACTCCACCGATTCTCTCATTTTCTCTCACTCTTCCATCTTCTTCTCTCCTCCTCCTGTCATCC
CTCCTCTCTCTATTATCTCTCCTGTCTCTCCTCCTATCATCCCTCCTATCTCTACTATATCTCCT
GTCTCTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCTTTGAGGGCTACTAGAATCTCCATGGG
TAGGTGGAGAATTGTCACGTGGCTGCCTTCTTGCATTATTTGCCACTGTCTCTTGAATATTCCTT
ATGGCTTCATTCTGCGTTTCAAACATTCTTTCAAATCTTTGTGCAAGTCTTTCAATTTGCACTCT
AACAGCCAAGGACTTAGGTGAGGGAGGAGTACTCTCCCCACTTGATCTTTCTTCATGAGACATAG
CTGCAGAATTATAAAGATTAATGCAATAAAATGTCCTCTCCACTCACTAAGTGTTTCACTCAATA
GATGTTCACTCGTGTTTCACTCAAAATTGGCTTTTGTGTATTGATTTCACTCTTGCCTTTTTCCC
CTCAAGTGTTCTCAACAGTTCTTAAGGAAGTCAACCTCCAGTCCACACAATCAACCACAACCAAG
TGACAATCAACTAA
Found at i:2126438 original size:155 final size:156
Alignment explanation
Indices: 2126271--2126602 Score: 639
Period size: 156 Copynumber: 2.1 Consensus size: 156
2126261 TTGAGAGACA
2126271 AACTTTGATTCTAAGGAAAATGGTGGAAAAAAACTTTCTTGC-AAACAATAGCATCAATATCATG
1 AACTTTGATTCTAAGGAAAATGGTGGAAAAAAACTTTCTTGCAAAACAATAGCATCAATATCATG
*
2126335 TATTCCAATGAGAGAATTGTGTTTAAGATGCCCAATTGTGAAAAGGGTTGAGATTATTATAAGAG
66 TATTCCAAAGAGAGAATTGTGTTTAAGATGCCCAATTGTGAAAAGGGTTGAGATTATTATAAGAG
2126400 TCCGTGTCTATCTCTATTGATGAATG
131 TCCGTGTCTATCTCTATTGATGAATG
2126426 AACTTTGATTCTAAGGAAAATGGTGGAAAAAAACTTTCTTGCAAAACAATAGCATCAATATCATG
1 AACTTTGATTCTAAGGAAAATGGTGGAAAAAAACTTTCTTGCAAAACAATAGCATCAATATCATG
2126491 TATTCCAAAGAGAGAATTGTGTTTAAGATGCCCAATTGTGAAAAGGGTTGAGATTATTATAAGAG
66 TATTCCAAAGAGAGAATTGTGTTTAAGATGCCCAATTGTGAAAAGGGTTGAGATTATTATAAGAG
*
2126556 TCTGTGTCTATCTCTATTGATGAATG
131 TCCGTGTCTATCTCTATTGATGAATG
2126582 AACTTTGATTCTAAGGAAAAT
1 AACTTTGATTCTAAGGAAAAT
2126603 AATTAAAAGA
Statistics
Matches: 174, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
155 42 0.24
156 132 0.76
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (156 bp):
AACTTTGATTCTAAGGAAAATGGTGGAAAAAAACTTTCTTGCAAAACAATAGCATCAATATCATG
TATTCCAAAGAGAGAATTGTGTTTAAGATGCCCAATTGTGAAAAGGGTTGAGATTATTATAAGAG
TCCGTGTCTATCTCTATTGATGAATG
Found at i:2129255 original size:83 final size:83
Alignment explanation
Indices: 2129113--2129278 Score: 271
Period size: 83 Copynumber: 2.0 Consensus size: 83
2129103 GAAAACACAC
* * *
2129113 TGATGAGAACCAAGGAAGGTCCATTGAAGACAACGAATTGAAGGCGTTGGGAAGGTTTCAAGGAC
1 TGATGAAAACCAAGGAAGGTCCATTGAAGACAAAGAACTGAAGGCGTTGGGAAGGTTTCAAGGAC
*
2129178 CAATGACGAGGGCAAAGG
66 CAATAACGAGGGCAAAGG
*
2129196 TGATGAAAACCAAGGAAGGTCCATTGAAGACAAAGACCTGAAGGCGTT-GGAAGGATTTCAAGGA
1 TGATGAAAACCAAGGAAGGTCCATTGAAGACAAAGAACTGAAGGCGTTGGGAAGG-TTTCAAGGA
2129260 CCAATAACGAGGGCAAAGG
65 CCAATAACGAGGGCAAAGG
2129279 CAAAGAGGAT
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
82 6 0.08
83 71 0.92
ACGTcount: A:0.38, C:0.15, G:0.32, T:0.15
Consensus pattern (83 bp):
TGATGAAAACCAAGGAAGGTCCATTGAAGACAAAGAACTGAAGGCGTTGGGAAGGTTTCAAGGAC
CAATAACGAGGGCAAAGG
Found at i:2129308 original size:83 final size:83
Alignment explanation
Indices: 2129124--2129308 Score: 185
Period size: 83 Copynumber: 2.2 Consensus size: 83
2129114 GATGAGAACC
* ** * ** *
2129124 AAGGAAGGTCCATTGAAGACAACGAATTGAAGGCGTTGGGAAGGTTTCAAGGACCAATGACGAGG
1 AAGGAAGGACCAGAGAAGACAAAGACCTGAAGGCGTTGGGAAGGTTTCAAGGACCAATAACGAGG
** * *
2129189 GCAAAGGTGATGAAAACC
66 GCAAAGGCAAAGAAAACA
* **
2129207 AAGGAAGGTCCATTGAAGACAAAGACCTGAAGGCGTT-GGAAGGATTTCAAGGACCAATAACGAG
1 AAGGAAGGACCAGAGAAGACAAAGACCTGAAGGCGTTGGGAAGG-TTTCAAGGACCAATAACGAG
** *
2129271 GGCAAAGGCAAAGAGGATA
65 GGCAAAGGCAAAGAAAACA
2129290 AAGGAA-GACCTAGAGAAGA
1 AAGGAAGGACC-AGAGAAGA
2129309 TGGTTGCTGG
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
82 9 0.10
83 77 0.90
ACGTcount: A:0.41, C:0.14, G:0.32, T:0.14
Consensus pattern (83 bp):
AAGGAAGGACCAGAGAAGACAAAGACCTGAAGGCGTTGGGAAGGTTTCAAGGACCAATAACGAGG
GCAAAGGCAAAGAAAACA
Found at i:2130845 original size:12 final size:11
Alignment explanation
Indices: 2130823--2130898 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
2130813 AGAGAAAGAA
*
2130823 GAGAGAGGAGG
1 GAGATAGGAGG
2130834 GATGATAGGAGG
1 GA-GATAGGAGG
*
2130846 AGAGACAGGA--
1 -GAGATAGGAGG
*
2130856 GAGATAGTA--
1 GAGATAGGAGG
2130865 GAGATAGGAGG
1 GAGATAGGAGG
2130876 GATGATAGGAGG
1 GA-GATAGGAGG
*
2130888 AGAGACAGGAG
1 -GAGATAGGAG
2130899 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:2130855 original size:24 final size:24
Alignment explanation
Indices: 2130822--2130907 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
2130812 AAGAGAAAGA
*
2130822 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
2130846 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
2130864 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
2130888 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
2130908 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:2130874 original size:42 final size:42
Alignment explanation
Indices: 2130813--2130931 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
2130803 TAGCCCTCAA
* *
2130813 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
2130855 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
2130897 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
2130932 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:2137469 original size:12 final size:11
Alignment explanation
Indices: 2137450--2137525 Score: 61
Period size: 12 Copynumber: 6.9 Consensus size: 11
2137440 AGAGAAAGAA
2137450 GAGATAGGAGG
1 GAGATAGGAGG
2137461 GATGATAGGAGG
1 GA-GATAGGAGG
*
2137473 AGAGCTAGGA--
1 -GAGATAGGAGG
*
2137483 GAGATAGTA--
1 GAGATAGGAGG
*
2137492 GAGATGGGAGG
1 GAGATAGGAGG
2137503 GATGATAGGAGG
1 GA-GATAGGAGG
2137515 AGAGATAGGAG
1 -GAGATAGGAG
2137526 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 14 0.26
11 4 0.08
12 31 0.58
13 4 0.08
ACGTcount: A:0.37, C:0.01, G:0.49, T:0.13
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:2137502 original size:42 final size:42
Alignment explanation
Indices: 2137440--2137564 Score: 162
Period size: 42 Copynumber: 2.9 Consensus size: 42
2137430 TAGCCTTCAA
* * * *
2137440 AGAGAAAGAAGAGATAGGAGGGATGATAGGAGGAGAGCTAGG
1 AGAGATAGTAGAGATGGGAGGGATGATAGGAGGAGAGATAGG
2137482 AGAGATAGTAGAGATGGGAGGGATGATAGGAGGAGAGATAGG
1 AGAGATAGTAGAGATGGGAGGGATGATAGGAGGAGAGATAGG
*
2137524 AGAGATAATAGAGA-GAGGAGGGATGACTGGAGGAGGAGAGA
1 AGAGATAGTAGAGATG-GGAGGGATGA-T--AGGAGGAGAGA
2137565 AGAAGATGGA
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
41 1 0.01
42 61 0.82
43 1 0.01
45 11 0.15
ACGTcount: A:0.41, C:0.02, G:0.46, T:0.11
Consensus pattern (42 bp):
AGAGATAGTAGAGATGGGAGGGATGATAGGAGGAGAGATAGG
Found at i:2144948 original size:17 final size:17
Alignment explanation
Indices: 2144924--2144960 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
2144914 ATACTAGAGC
*
2144924 ATTTTTTTTCATTTTTTT
1 ATTTTTTTGC-TTTTTTT
2144942 ATTTTTTTGCTTTTTTT
1 ATTTTTTTGCTTTTTTT
2144959 AT
1 AT
2144961 GGATGATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.11, C:0.05, G:0.03, T:0.81
Consensus pattern (17 bp):
ATTTTTTTGCTTTTTTT
Found at i:2147118 original size:156 final size:157
Alignment explanation
Indices: 2146816--2147130 Score: 578
Period size: 156 Copynumber: 2.0 Consensus size: 157
2146806 GTCCTCCAAA
* *
2146816 AGTGACTTAGAAACTTAGAGTCTTTATCCAAAACTCTGCTCCTTGGCAAGCCATGCAACCTTACA
1 AGTGACTCAGAAACTTA-AGTCTTTATCCAAAACTATGCTCCTTGGCAAGCCATGCAACCTTACA
2146881 ATCTCTTTGAAGTACAAGTCCGCAACATGTGTAGCATCATTTACTTTCCTACATGGAACAAAATG
65 ATCTCTTTGAAGTACAAGTCCGCAACATGTGTAGCATCATTTACTTTCCTACATGGAACAAAATG
2146946 AGCCATCTCTGAGAAACGGCCCATAACC
130 AGCCATCTCTGAGAAACGGCCCATAACC
2146974 AGTGACTCAGAAACTT-AGTCTTTATCCAAAACTATGCTCCTTGGCAAGCCATGCAACCTTACAA
1 AGTGACTCAGAAACTTAAGTCTTTATCCAAAACTATGCTCCTTGGCAAGCCATGCAACCTTACAA
*
2147038 TCTCTTTGAAGTACAAGTTCGCAACATGTGTAGCATCATTTACTTTCCTACATGGAACAAAATGA
66 TCTCTTTGAAGTACAAGTCCGCAACATGTGTAGCATCATTTACTTTCCTACATGGAACAAAATGA
*
2147103 GCCATCTCTGAGAAACGGTCCATAACC
131 GCCATCTCTGAGAAACGGCCCATAACC
2147130 A
1 A
2147131 CAAATATGGA
Statistics
Matches: 153, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
156 138 0.90
158 15 0.10
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (157 bp):
AGTGACTCAGAAACTTAAGTCTTTATCCAAAACTATGCTCCTTGGCAAGCCATGCAACCTTACAA
TCTCTTTGAAGTACAAGTCCGCAACATGTGTAGCATCATTTACTTTCCTACATGGAACAAAATGA
GCCATCTCTGAGAAACGGCCCATAACC
Done.