Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold15
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: 4011073
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 11440 characters in sequence are not A, C, G, or T
File 13 of 25
Found at i:1984683 original size:32 final size:32
Alignment explanation
Indices: 1984641--1984711 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
1984631 AGCTTCGTAG
1984641 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
* *
1984673 TGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
1984705 CGATACA
1 CGATACA
1984712 AATCATTGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:1984705 original size:19 final size:19
Alignment explanation
Indices: 1984649--1984712 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
1984639 AGCGATACAT
*
1984649 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
*
1984668 TGTATTGAT---ACA--T-
1 TGTATCGATACAACACTTA
1984681 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
1984700 TGTATCGATACAA
1 TGTATCGATACAA
1984713 ATCATTGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
13 8 0.22
14 1 0.03
16 5 0.14
18 1 0.03
19 21 0.58
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:1985068 original size:20 final size:19
Alignment explanation
Indices: 1985043--1985115 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
1985033 CTACCAGTTT
**
1985043 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
*
1985063 CATGTATTGATACAATGAA
1 CATGTATCGATACAATGAA
*
1985082 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
1985103 -ATGTATCGATACA
1 CATGTATCGATACA
1985116 TCTAGATATG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 17 0.37
20 28 0.61
21 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1985087 original size:19 final size:20
Alignment explanation
Indices: 1985043--1985096 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
1985033 CTACCAGTTT
**
1985043 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTGAA
*
1985063 CATGTATTGATACAA-TGAA
1 CATGTATCGATACAATTGAA
1985082 CATGTATCGATACAA
1 CATGTATCGATACAA
1985097 AGCATAATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:1991819 original size:15 final size:15
Alignment explanation
Indices: 1991801--1991835 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
1991791 CGAGTCAACT
1991801 TCATCATTATCATCA
1 TCATCATTATCATCA
*
1991816 TCATCATTATCTTCA
1 TCATCATTATCATCA
1991831 TCATC
1 TCATC
1991836 TTTGATGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (15 bp):
TCATCATTATCATCA
Found at i:1993534 original size:19 final size:20
Alignment explanation
Indices: 1993490--1993543 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
1993480 CTGCCAGTTT
**
1993490 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTGAA
1993510 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
1993529 CATGTATCGATACAA
1 CATGTATCGATACAA
1993544 AACATTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:1994155 original size:16 final size:18
Alignment explanation
Indices: 1994115--1994166 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 18
1994105 AAATACTGTA
1994115 TTTCTTTATTTTCTTATCT
1 TTTCTTT-TTTTCTTATCT
1994134 TGTTCTTTTTTT-TTAT-T
1 T-TTCTTTTTTTCTTATCT
1994151 TTTCTTTTTCTTCTTA
1 TTTCTTTTT-TTCTTA
1994167 CTATATGCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 8 0.27
17 4 0.13
18 7 0.23
19 5 0.17
20 6 0.20
ACGTcount: A:0.08, C:0.13, G:0.02, T:0.77
Consensus pattern (18 bp):
TTTCTTTTTTTCTTATCT
Found at i:1998406 original size:20 final size:20
Alignment explanation
Indices: 1998361--1998435 Score: 105
Period size: 20 Copynumber: 3.7 Consensus size: 20
1998351 ACTAAGGAAA
* **
1998361 TGTATCGATACATTTACTGTT
1 TGTATCGATACATTT-TTCAT
1998382 TGTATCGATACATTTTTCAT
1 TGTATCGATACATTTTTCAT
*
1998402 TGTATTGATACATTTTTCAT
1 TGTATCGATACATTTTTCAT
1998422 TGTATCGATACATT
1 TGTATCGATACATT
1998436 CTGGGTTTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 34 0.69
21 15 0.31
ACGTcount: A:0.25, C:0.13, G:0.12, T:0.49
Consensus pattern (20 bp):
TGTATCGATACATTTTTCAT
Found at i:2000950 original size:78 final size:79
Alignment explanation
Indices: 2000853--2001025 Score: 192
Period size: 79 Copynumber: 2.2 Consensus size: 79
2000843 ACCATCGAGG
* *
2000853 ATACTCCAACCCCATTGTTTCCAAG-GGCATACTCCAA-CTCCA-TTTTAATTTCCAAAAAATAA
1 ATACTCCAACCTCGTTGTTTCCAAGAGG-ATACTCCAACCT-CATTTTTAATTTCCAAAAAATAA
2000915 AATTTTCATCTTAGGG-
64 AATTTTCATCTT-GGGA
* * *** * * * *
2000931 ATACTCTAATCTCGTTGTTTTTGAGAGGATACTCCAACCTTATTTTTATTTTCGAAATAATAAAA
1 ATACTCCAACCTCGTTGTTTCCAAGAGGATACTCCAACCTCATTTTTAATTTCCAAAAAATAAAA
2000996 TTTTCATCTTGGGA
66 TTTTCATCTTGGGA
2001010 ATACTCCAACCTCGTT
1 ATACTCCAACCTCGTT
2001026 ATTATTTCAA
Statistics
Matches: 78, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
78 31 0.40
79 47 0.60
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (79 bp):
ATACTCCAACCTCGTTGTTTCCAAGAGGATACTCCAACCTCATTTTTAATTTCCAAAAAATAAAA
TTTTCATCTTGGGA
Found at i:2001019 original size:51 final size:51
Alignment explanation
Indices: 2000959--2001071 Score: 138
Period size: 51 Copynumber: 2.2 Consensus size: 51
2000949 TTTTGAGAGG
* * * **
2000959 ATACTCCAACCTTATTTTTATTTTC-GAAATAATAAAATTTTCATCTTGGGA
1 ATACTCCAACCTCATTATTA-TTTCAAAAATAATAAAATTTTCATCGCGGGA
* * *
2001010 ATACTCCAACCTCGTTATTATTTCAAAAATATTAAAATTTTCATCGCGGGG
1 ATACTCCAACCTCATTATTATTTCAAAAATAATAAAATTTTCATCGCGGGA
2001061 ATACTCCAACC
1 ATACTCCAACC
2001072 CCATCAGTTC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 4 0.08
51 49 0.92
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.37
Consensus pattern (51 bp):
ATACTCCAACCTCATTATTATTTCAAAAATAATAAAATTTTCATCGCGGGA
Found at i:2001211 original size:79 final size:78
Alignment explanation
Indices: 2001010--2001282 Score: 213
Period size: 79 Copynumber: 3.5 Consensus size: 78
2001000 CATCTTGGGA
* * * ** *
2001010 ATACTCCAA-CCTCGTTATTATTTCAAAAATATTAAAATT-TTCATCGCGGGGATACTCCAACCC
1 ATACTCCAACCCT-ATTTTTATTTCTAAAATATT-AAATTCTTCATTTC-GAGATACTCCAACCC
* * *
2001073 CATCA-GTTCTGAGGAG
63 CGTTATTTTC-GAGGAG
* *
2001089 ATACTCTAACACTATTTTTATTTCTAAAATATTAAATTCTTCATCGTT-GAGATACTCCAACCCC
1 ATACTCCAACCCTATTTTTATTTCTAAAATATTAAATTCTTCAT--TTCGAGATACTCCAACCCC
*
2001153 GTTATTTTCGAGGGG
64 GTTATTTTCGAGGAG
** * *
2001168 ATACTCCAACCCT-TGTTTCTATTTCTAAAATA-TCGA-TCTTTCATTTCGGGGATACTCTAACC
1 ATACTCCAACCCTAT-TTT-TATTTCTAAAATATTAAATTC-TTCATTTC-GAGATACTCCAACC
*
2001230 CTGTTATTTTCGAGGAG
62 CCGTTATTTTCGAGGAG
* *
2001247 ATA-TTCAACCCTATTCTTATTTC-AAAAGTATTAAAT
1 ATACTCCAACCCTATTTTTATTTCTAAAA-TATTAAAT
2001283 ATTTCATCTT
Statistics
Matches: 156, Mismatches: 24, Indels: 28
0.75 0.12 0.13
Matches are distributed among these distances:
76 4 0.03
77 10 0.06
78 20 0.13
79 104 0.67
80 18 0.12
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.37
Consensus pattern (78 bp):
ATACTCCAACCCTATTTTTATTTCTAAAATATTAAATTCTTCATTTCGAGATACTCCAACCCCGT
TATTTTCGAGGAG
Found at i:2001895 original size:19 final size:19
Alignment explanation
Indices: 2001871--2001909 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
2001861 GGTTGAATAC
2001871 AACCTTTTACAACACAATG
1 AACCTTTTACAACACAATG
2001890 AACCTTTTACAACACAATG
1 AACCTTTTACAACACAATG
2001909 A
1 A
2001910 GATTTTACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.26, G:0.05, T:0.26
Consensus pattern (19 bp):
AACCTTTTACAACACAATG
Found at i:2001917 original size:18 final size:18
Alignment explanation
Indices: 2001874--2001919 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 18
2001864 TGAATACAAC
2001874 CTTTTACAACACAATGAA
1 CTTTTACAACACAATGAA
2001892 CCTTTTACAACACAATGAGA
1 -CTTTTACAACACAATGA-A
2001912 -TTTTACAA
1 CTTTTACAA
2001920 ACGAGAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.31
19 17 0.65
20 1 0.04
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (18 bp):
CTTTTACAACACAATGAA
Found at i:2002400 original size:32 final size:33
Alignment explanation
Indices: 2002357--2002420 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
2002347 CAATTTAATG
*
2002357 TGTATCAATACTAAG-AACATGTATTGATACAA
1 TGTATCAATACTAAGCAACATGTATCGATACAA
* *
2002389 TGTATCGATACTAAGCAATATGTATCGATACA
1 TGTATCAATACTAAGCAACATGTATCGATACA
2002421 TTTGGGTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (33 bp):
TGTATCAATACTAAGCAACATGTATCGATACAA
Found at i:2002540 original size:20 final size:22
Alignment explanation
Indices: 2002515--2002560 Score: 69
Period size: 20 Copynumber: 2.1 Consensus size: 22
2002505 GATATGTTAG
2002515 ATTATTTTTAA-CTTG-AAAAC
1 ATTATTTTTAAGCTTGAAAAAC
2002535 ATTATTTTTAATGCTTGAAAAAC
1 ATTATTTTTAA-GCTTGAAAAAC
2002558 ATT
1 ATT
2002561 TATACTTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.48
22 4 0.17
23 8 0.35
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.46
Consensus pattern (22 bp):
ATTATTTTTAAGCTTGAAAAAC
Found at i:2002569 original size:24 final size:22
Alignment explanation
Indices: 2002526--2002569 Score: 52
Period size: 24 Copynumber: 1.9 Consensus size: 22
2002516 TTATTTTTAA
**
2002526 CTTGAAAACATTATTTTTAATG
1 CTTGAAAACATTATACTTAATG
2002548 CTTGAAAAACATTTATACTTAA
1 CTTG-AAAACA-TTATACTTAA
2002570 CTCTAAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 6 0.33
24 8 0.44
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (22 bp):
CTTGAAAACATTATACTTAATG
Found at i:2003464 original size:13 final size:13
Alignment explanation
Indices: 2003446--2003470 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2003436 CTTTTCACGA
2003446 TGTATCGATACAT
1 TGTATCGATACAT
2003459 TGTATCGATACA
1 TGTATCGATACA
2003471 AGTCCCATGT
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:2003563 original size:19 final size:20
Alignment explanation
Indices: 2003518--2003569 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
2003508 CTGCCAGTTT
* *
2003518 CATGTATTGATACAATTGAG
1 CATGTATCGATACAATTGAA
*
2003538 TATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
2003557 CATGTATCGATAC
1 CATGTATCGATAC
2003570 CATGTATCGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:2003575 original size:13 final size:13
Alignment explanation
Indices: 2003557--2003582 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2003547 ATACAATGAA
2003557 CATGTATCGATAC
1 CATGTATCGATAC
2003570 CATGTATCGATAC
1 CATGTATCGATAC
2003583 AAAGCATAAT
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:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
CATGTATCGATAC
Found at i:2008428 original size:21 final size:21
Alignment explanation
Indices: 2008402--2008457 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 21
2008392 CTGCCAATTT
**
2008402 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAATTTGAA
2008423 CATGTATCGATAC-A-TTGAA
1 CATGTATCGATACAATTTGAA
*
2008442 CATGTATTGATACAAT
1 CATGTATCGATACAAT
2008458 GTATCGATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 15 0.50
20 2 0.07
21 13 0.43
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (21 bp):
CATGTATCGATACAATTTGAA
Found at i:2010925 original size:13 final size:13
Alignment explanation
Indices: 2010907--2010934 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2010897 AAATAGTACC
2010907 CAATGTATCGATA
1 CAATGTATCGATA
2010920 CAATGTATCGATA
1 CAATGTATCGATA
2010933 CA
1 CA
2010935 GGGAATGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2017181 original size:21 final size:20
Alignment explanation
Indices: 2017155--2017228 Score: 80
Period size: 20 Copynumber: 3.7 Consensus size: 20
2017145 CTGCCAATTT
*
2017155 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA-TTGAC
*
2017176 CATGTATCGATAC-ATTGAG
1 CATGTATCGATACAATTGAC
* *
2017195 CATGTATCGATACAA-GGCAG
1 CATGTATCGATACAATTG-AC
2017215 CATGTATCGATACA
1 CATGTATCGATACA
2017229 TCTGGGTGTG
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
19 17 0.35
20 18 0.38
21 13 0.27
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAC
Found at i:2020301 original size:13 final size:13
Alignment explanation
Indices: 2020283--2020313 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2020273 ACAATTCACT
*
2020283 ATGTATTGATACA
1 ATGTATCGATACA
2020296 ATGTATCGATACA
1 ATGTATCGATACA
2020309 ATGTA
1 ATGTA
2020314 AGTTTAGCTA
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:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2020397 original size:32 final size:33
Alignment explanation
Indices: 2020356--2020418 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
2020346 CAATTCATGC
*
2020356 GTATCGATACTAAG-AACATGTATTGATACAAT
1 GTATCGATACTAAGCAACATGTATCGATACAAT
*
2020388 GTATCGATACTAAGCAATATGTATCGATACA
1 GTATCGATACTAAGCAACATGTATCGATACA
2020419 TCTAGGTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (33 bp):
GTATCGATACTAAGCAACATGTATCGATACAAT
Found at i:2021795 original size:582 final size:582
Alignment explanation
Indices: 2020691--2021856 Score: 1992
Period size: 582 Copynumber: 2.0 Consensus size: 582
2020681 TTATATTAAA
*
2020691 ACCATGATCCTAACATATGTATTTTTGTGTGTGTTATTTTGTGTGAATTTGTTCGTTATTTTCTA
1 ACCATGATCCTAACATATGTATTTTTGTGTGTGTTATTTTGTGTGAATTTGTTCATTATTTTCTA
** *
2020756 TCTTACTAACAGGTTTCCTTTCGTAGGGACCTTATGCATTCGTGTTTTAAAAACTATCTTTAAAG
66 TCTTACTAACACATTTCCTTTCGTAGGGACCTTATGCATTCGTGCTTTAAAAACTATCTTTAAAG
* * *
2020821 ATCATAAAATGATATTCCGTGTCGATATCTCTCTAATGCTTGGCACGAAATATTTGATTTTTTCG
131 ATCACAAAATGATATTCCATGTCGATATCTCTCCAATGCTTGGCACGAAATATTTGATTTTTTCG
* * * *
2020886 AACCTAATCCGAAAACCTTTTTTATAAAAAAATCACCATATTCCTCACTTCTACGAGGTGCATAG
196 AACCTAATCCAAAAACCTTTTTTATAAAAAAATCACCATATTCCTCACTTCTACCAGATACATAG
*
2020951 GTGATATAAGTTTTCGTACTAAACCTGGATTTGTAGTTTTCACAAAACTTCATGCATTAGAGGGA
261 GTGATATAAGTTTTCGTACTAAACCTGGATTTGTAGTTTTCACAAAACTACATGCATTAGAGGGA
* *
2021016 TTTATATTAAAATAATGATAAAAATGGAATCGAGGAAATCGAGATTTAAGTGAGACATAGTTAGA
326 TTTATATCAAAATAATGATAAAAATGGAATCGAGGAAATCAAGATTTAAGTGAGACATAGTTAGA
* * * *
2021081 AGGTACCAATTTTAGGCATCGTGGGGGTGCTAATCATTTCCCACAGGTAACCAATTCCCGAACCT
391 AGGTACCAATTTCAGGCATCATGGGGGTGCTAATCATTCCCCACAGGTAACCAACTCCCGAACCT
*
2021146 AAACACGTAGACCGCGAAATCGATATTTCGAGTTTTGTGACTCGAGACATAGGTTTCAATAAGTA
456 AAACACGTAGACCGCGAAATCGATATTTCGAGTTTTATGACTCGAGACATAGGTTTCAATAAGTA
* * *
2021211 TCCGATCTTGCCTAGCCCGAAATGATCGATGGCGAATCCAAGTTCATGGTCATTTCGTGGTG
521 TCCGATCATGCCTAGCCCGAAATGATCGATGGCAAATCCAAGTTCATGGTCATTTCATGGTG
2021273 ACCATGATCCTAACATATGTATTTTTGTGTGTGTTATTTTGTGTGAATTTGTTCATTATTTTCTA
1 ACCATGATCCTAACATATGTATTTTTGTGTGTGTTATTTTGTGTGAATTTGTTCATTATTTTCTA
*
2021338 TCTTACTAACACATTTCCTTTCGTAGGGTCCTTATGCATTCGTGCTTTAAAAACTATCTTTAAAG
66 TCTTACTAACACATTTCCTTTCGTAGGGACCTTATGCATTCGTGCTTTAAAAACTATCTTTAAAG
*
2021403 ATCACAAAATGATATTCCATGTCGGTATCTCTCCAATGCTTGGCACGAAATATTTGATTTTTTCG
131 ATCACAAAATGATATTCCATGTCGATATCTCTCCAATGCTTGGCACGAAATATTTGATTTTTTCG
*
2021468 AACCTAATCCAAAAACCTTTTTTATAAAAAAATCACCATGTTCCTCACTTCT-CCATGATACATA
196 AACCTAATCCAAAAACCTTTTTTATAAAAAAATCACCATATTCCTCACTTCTACCA-GATACATA
* *
2021532 GGTGATATAAGTTTTCGTACTAAACTTGGATTTGTAGTTTTCACAAAACTACATGCATTGGAGGG
260 GGTGATATAAGTTTTCGTACTAAACCTGGATTTGTAGTTTTCACAAAACTACATGCATTAGAGGG
*
2021597 ATTTATATCAAAATAATGATAAAAATGGAATCGAGGAAATCAAGATTTATGTGAGACATAGTTAG
325 ATTTATATCAAAATAATGATAAAAATGGAATCGAGGAAATCAAGATTTAAGTGAGACATAGTTAG
* * * *
2021662 AAGGTACCAATTTCAGGCGTCATGGGGGTGCTAATCCTTCCCCATAGGTAACCAACTCCCGATCC
390 AAGGTACCAATTTCAGGCATCATGGGGGTGCTAATCATTCCCCACAGGTAACCAACTCCCGAACC
** *
2021727 TAAACACGTAGACCGCGGGATCGATATTTTGAGTTTTATGACTCGAGACATAGGTTTCAATAAGT
455 TAAACACGTAGACCGCGAAATCGATATTTCGAGTTTTATGACTCGAGACATAGGTTTCAATAAGT
*
2021792 ATCCGATCATGCCTAGCCCGAAATGATCGGTGGCAAATCCAAGTTCATGGTCATTTCATGGTG
520 ATCCGATCATGCCTAGCCCGAAATGATCGATGGCAAATCCAAGTTCATGGTCATTTCATGGTG
2021855 AC
1 AC
2021857 TATTCGAGAC
Statistics
Matches: 547, Mismatches: 36, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
581 2 0.00
582 545 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (582 bp):
ACCATGATCCTAACATATGTATTTTTGTGTGTGTTATTTTGTGTGAATTTGTTCATTATTTTCTA
TCTTACTAACACATTTCCTTTCGTAGGGACCTTATGCATTCGTGCTTTAAAAACTATCTTTAAAG
ATCACAAAATGATATTCCATGTCGATATCTCTCCAATGCTTGGCACGAAATATTTGATTTTTTCG
AACCTAATCCAAAAACCTTTTTTATAAAAAAATCACCATATTCCTCACTTCTACCAGATACATAG
GTGATATAAGTTTTCGTACTAAACCTGGATTTGTAGTTTTCACAAAACTACATGCATTAGAGGGA
TTTATATCAAAATAATGATAAAAATGGAATCGAGGAAATCAAGATTTAAGTGAGACATAGTTAGA
AGGTACCAATTTCAGGCATCATGGGGGTGCTAATCATTCCCCACAGGTAACCAACTCCCGAACCT
AAACACGTAGACCGCGAAATCGATATTTCGAGTTTTATGACTCGAGACATAGGTTTCAATAAGTA
TCCGATCATGCCTAGCCCGAAATGATCGATGGCAAATCCAAGTTCATGGTCATTTCATGGTG
Found at i:2024139 original size:23 final size:22
Alignment explanation
Indices: 2024113--2024156 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
2024103 TTTTTTCATT
* *
2024113 TTTTTATTGTTTTTATTATGATA
1 TTTTTATTATTTTGATT-TGATA
2024136 TTTTTATTATTTTGATTTGAT
1 TTTTTATTATTTTGATTTGAT
2024157 TTGAATTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.70
Consensus pattern (22 bp):
TTTTTATTATTTTGATTTGATA
Found at i:2025660 original size:155 final size:156
Alignment explanation
Indices: 2025369--2025660 Score: 340
Period size: 155 Copynumber: 1.9 Consensus size: 156
2025359 GTTTTTATAG
* *
2025369 TATGTAATATATAATGTATATGTGTAATTATAACAAAAATGTGTAATACATATTTTATTACATAC
1 TATGTAACATATAATATATATGTGTAATTATAACAAAAATGTGTAATACATATTTTATTACATAC
* * * * ** *
2025434 GATTCTAAACTTGGGTAATAGATAATATAATTTATGTAACTTTTGTATTTTATATAAAACTAGTT
66 GATGCTAAACTTAGGTAATAGATAATATAATTTATGCAACTATAATATTTTATATAAAACTACTT
*
2025499 TTTATTAACTTTGCTTAAAACATTTT
131 TATATTAACTTTGCTTAAAACATTTT
* * * *
2025525 TATGTAACATATAA-AT-TATGTGTAATTGA-AA-GAAAATTTGTAATACTTATTTCTATTACCT
1 TATGTAACATATAATATATATGTGTAATT-ATAACAAAAATGTGTAATACATATTT-TATTACAT
* * * * ** *
2025586 ATGATGGTAATCTTATGTAATTAGATAATATAATTTATGCAACTATAATATTTTATATATTATTA
64 ACGATGCTAAACTTAGGTAA-TAGATAATATAATTTATGCAACTATAATATTTTATATAAAACTA
2025651 CTTTATATTA
128 CTTTATATTA
2025661 TCTAATGGGA
Statistics
Matches: 112, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
153 18 0.16
154 34 0.30
155 47 0.42
156 13 0.12
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.45
Consensus pattern (156 bp):
TATGTAACATATAATATATATGTGTAATTATAACAAAAATGTGTAATACATATTTTATTACATAC
GATGCTAAACTTAGGTAATAGATAATATAATTTATGCAACTATAATATTTTATATAAAACTACTT
TATATTAACTTTGCTTAAAACATTTT
Found at i:2027447 original size:13 final size:13
Alignment explanation
Indices: 2027429--2027454 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2027419 CAATTTTTTG
2027429 TGTATCGATACAT
1 TGTATCGATACAT
2027442 TGTATCGATACAT
1 TGTATCGATACAT
2027455 ACTTTGTGTA
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:2027466 original size:32 final size:33
Alignment explanation
Indices: 2027409--2027472 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
2027399 TACAAGCCAA
**
2027409 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
2027442 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
2027473 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:2029563 original size:21 final size:20
Alignment explanation
Indices: 2029534--2029576 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
2029524 GACTAGTGTG
* *
2029534 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
2029555 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
2029575 GG
1 GG
2029577 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:2030025 original size:13 final size:13
Alignment explanation
Indices: 2030007--2030032 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2029997 TATAATCCCC
2030007 TTGTATCGATACA
1 TTGTATCGATACA
2030020 TTGTATCGATACA
1 TTGTATCGATACA
2030033 AAGAAAATTG
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):
TTGTATCGATACA
Found at i:2032133 original size:15 final size:15
Alignment explanation
Indices: 2032113--2032143 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2032103 ATTTCGTTTG
2032113 GAGCTTCTTCATTTT
1 GAGCTTCTTCATTTT
2032128 GAGCTTCTTCATTTT
1 GAGCTTCTTCATTTT
2032143 G
1 G
2032144 GACATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.19, G:0.16, T:0.52
Consensus pattern (15 bp):
GAGCTTCTTCATTTT
Found at i:2036225 original size:13 final size:13
Alignment explanation
Indices: 2036207--2036232 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2036197 CAATTTTTTG
2036207 TGTATCGATACAT
1 TGTATCGATACAT
2036220 TGTATCGATACAT
1 TGTATCGATACAT
2036233 ACTTTGTGTA
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:2036244 original size:32 final size:33
Alignment explanation
Indices: 2036187--2036248 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
2036177 TACAAGCCAA
**
2036187 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
2036220 TGTATCGATAC-ATACTTTGTGTATCGATA
1 TGTATCGATACAATACTTTGTGTATCGATA
2036249 AAAGTTTGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 16 0.59
33 11 0.41
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:2036909 original size:2 final size:2
Alignment explanation
Indices: 2036902--2036927 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2036892 TTCATATTTC
2036902 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2036928 TGTACTAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2046770 original size:9 final size:11
Alignment explanation
Indices: 2046744--2046772 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
2046734 GAAGTTTTTA
2046744 TGAAAAATATT
1 TGAAAAATATT
2046755 TGAAAAAT-TT
1 TGAAAAATATT
2046765 TGAAAAAT
1 TGAAAAAT
2046773 CATCTAGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.34
Consensus pattern (11 bp):
TGAAAAATATT
Found at i:2050025 original size:13 final size:13
Alignment explanation
Indices: 2050007--2050031 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2049997 TTGATAGTTA
2050007 TTTAAAATAATTT
1 TTTAAAATAATTT
2050020 TTTAAAATAATT
1 TTTAAAATAATT
2050032 ATATAAGCAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTTAAAATAATTT
Found at i:2054225 original size:18 final size:19
Alignment explanation
Indices: 2054199--2054242 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
2054189 TATTTTAAAC
2054199 TTAATTATAAAAATAA-ATA
1 TTAA-TATAAAAATAATATA
* *
2054218 TTAATATAAACATAATATT
1 TTAATATAAAAATAATATA
2054237 TTAATA
1 TTAATA
2054243 ATATAATAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (19 bp):
TTAATATAAAAATAATATA
Found at i:2054297 original size:17 final size:17
Alignment explanation
Indices: 2054277--2054319 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
2054267 TTAGACTGGT
*
2054277 CCAATTTAGCCTATGGA
1 CCAATCTAGCCTATGGA
2054294 CCAATCTAGCCTATGGA
1 CCAATCTAGCCTATGGA
2054311 CCAATCTAG
1 CCAATCTAG
2054320 ATATTCGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (17 bp):
CCAATCTAGCCTATGGA
Found at i:2057167 original size:33 final size:33
Alignment explanation
Indices: 2057130--2057192 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
2057120 TATACAATTG
2057130 AATATCAAGTTTT-ACAATCCATTTTCAATTCTT
1 AATATCAA-TTTTCACAATCCATTTTCAATTCTT
* *
2057163 AATATCAATTTTCATAATCCTTTTTCAATT
1 AATATCAATTTTCACAATCCATTTTCAATT
2057193 AGTAATCCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 4 0.15
33 23 0.85
ACGTcount: A:0.33, C:0.17, G:0.02, T:0.48
Consensus pattern (33 bp):
AATATCAATTTTCACAATCCATTTTCAATTCTT
Found at i:2057465 original size:32 final size:33
Alignment explanation
Indices: 2057428--2057502 Score: 84
Period size: 32 Copynumber: 2.3 Consensus size: 33
2057418 TGTGTTAAAA
*
2057428 GTATTATA-AATTTATATTTATATA-ACTTTTAC
1 GTATTATATAATTCAT-TTTATATATACTTTTAC
*
2057460 GTATTA-ATAATTCATTTTATGTATACTTTTAC
1 GTATTATATAATTCATTTTATATATACTTTTAC
*
2057492 ATATATATATA
1 GTAT-TATATA
2057503 GAAAAAGAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
31 8 0.22
32 23 0.64
33 2 0.06
34 3 0.08
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (33 bp):
GTATTATATAATTCATTTTATATATACTTTTAC
Found at i:2057617 original size:15 final size:16
Alignment explanation
Indices: 2057588--2057620 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2057578 AGTATTATAA
2057588 ATTTATATAAAATTTT
1 ATTTATATAAAATTTT
*
2057604 ATTTATATAAATTTTT
1 ATTTATATAAAATTTT
2057620 A
1 A
2057621 CATGTTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTTATATAAAATTTT
Found at i:2057908 original size:17 final size:17
Alignment explanation
Indices: 2057886--2057918 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2057876 TCATGTTATT
*
2057886 TTCATATTATATTTTAA
1 TTCATATAATATTTTAA
2057903 TTCATATAATATTTTA
1 TTCATATAATATTTTA
2057919 TGTTACAACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
TTCATATAATATTTTAA
Found at i:2064327 original size:9 final size:9
Alignment explanation
Indices: 2064308--2064339 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
2064298 TGGTGTCATA
2064308 TTTTA-TAT
1 TTTTATTAT
2064316 TTTTATTAT
1 TTTTATTAT
2064325 TTTTATTAT
1 TTTTATTAT
2064334 TTTTAT
1 TTTTAT
2064340 ATCACATCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.22
9 18 0.78
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTATTAT
Found at i:2065602 original size:20 final size:19
Alignment explanation
Indices: 2065558--2065602 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
2065548 TATCATAATA
*
2065558 ATTATATTAATTATATTTC
1 ATTATAATAATTATATTTC
* *
2065577 AATATAATATATTATATTTT
1 ATTATAATA-ATTATATTTC
2065597 ATTATA
1 ATTATA
2065603 TTTTGATATT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTATAATAATTATATTTC
Found at i:2067484 original size:13 final size:13
Alignment explanation
Indices: 2067466--2067491 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2067456 GATAAAGTGT
2067466 TTGAAAAAAAAAA
1 TTGAAAAAAAAAA
2067479 TTGAAAAAAAAAA
1 TTGAAAAAAAAAA
2067492 AAAATTTATC
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:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (13 bp):
TTGAAAAAAAAAA
Found at i:2067528 original size:21 final size:21
Alignment explanation
Indices: 2067504--2067560 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
2067494 AATTTATCCA
2067504 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
2067525 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
2067546 AATGTATCGATACAT
1 AATGTATCGATACAT
2067561 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:2067640 original size:19 final size:19
Alignment explanation
Indices: 2067616--2067683 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
2067606 AATTCAACAA
2067616 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2067635 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2067650 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
2067667 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2067684 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:2067655 original size:13 final size:13
Alignment explanation
Indices: 2067637--2067661 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2067627 ACATAAGTTT
2067637 TGTATCGATACAA
1 TGTATCGATACAA
2067650 TGTATCGATACA
1 TGTATCGATACA
2067662 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:2067659 original size:32 final size:32
Alignment explanation
Indices: 2067618--2067680 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2067608 TTCAACAATT
*
2067618 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2067650 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2067681 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:2067741 original size:13 final size:13
Alignment explanation
Indices: 2067723--2067748 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2067713 CATTTTTCTG
2067723 TGTATCGATACAT
1 TGTATCGATACAT
2067736 TGTATCGATACAT
1 TGTATCGATACAT
2067749 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:2067745 original size:33 final size:33
Alignment explanation
Indices: 2067703--2067769 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2067693 GCCAAGGAAA
***
2067703 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
2067736 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
2067769 T
1 T
2067770 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:2070228 original size:53 final size:51
Alignment explanation
Indices: 2070103--2070235 Score: 162
Period size: 51 Copynumber: 2.6 Consensus size: 51
2070093 TTGAGTTTAT
* * *
2070103 CAATTCTCCACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACAC
1 CAATTCTTCACAATCGAGGATACTCCAACTCCGATTTTATTTTAAAAACAC
* * *
2070154 TAATT-TTCTATAATCGCGGATACTCCAACTCCGATTTTATTTCTAAAAAACAC
1 CAATTCTTC-ACAATCGAGGATACTCCAACTCCGATTTTATTT-T-AAAAACAC
2070207 CAATTTCTTCACAATCG-GGATACTCCAAC
1 CAA-TTCTTCACAATCGAGGATACTCCAAC
2070236 CCTGTTGATC
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
50 2 0.03
51 34 0.49
52 1 0.01
53 21 0.30
54 8 0.12
55 3 0.04
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.32
Consensus pattern (51 bp):
CAATTCTTCACAATCGAGGATACTCCAACTCCGATTTTATTTTAAAAACAC
Found at i:2070289 original size:28 final size:27
Alignment explanation
Indices: 2070223--2070294 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 27
2070213 CTTCACAATC
*
2070223 GGGATACTCCAACCCTGTTGATCATCG
1 GGGATACTCCAACCCCGTTGATCATCG
**
2070250 GGGATACTCCAACCCCGTT-ATTTTCGAG
1 GGGATACTCCAACCCCGTTGATCATC--G
2070278 GGGATACTCCAACCCCG
1 GGGATACTCCAACCCCG
2070295 ACTTTATTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 4 0.10
27 18 0.45
28 18 0.45
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (27 bp):
GGGATACTCCAACCCCGTTGATCATCG
Found at i:2070343 original size:51 final size:51
Alignment explanation
Indices: 2070277--2070709 Score: 320
Period size: 51 Copynumber: 8.3 Consensus size: 51
2070267 TTATTTTCGA
* * **
2070277 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTAATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCATAATC
* * * * *
2070328 GGGGATATTCCAACCCCGGTTTTATTGCTAAAACACTAA-TTTTCTATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTC-ATAATC
* * *
2070379 GGGGATACTCCAACTCCGATTTTATTTCCAAAAAACATCAATTTCTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCC--AAAACACCAATTT-TTCATAATC
* * ** * * **
2070433 GGGGATACTCCAACCCCG--TTGATCATCGGGGATACTCCAACCCCGTTATTTC-CGA--
1 GGGGATACTCCAACCCCGATTTTAT-TTC--CAAAACACCAA-----TT-TTTCATAATC
* * * **
2070488 GGGGATACTCCAACCCCGACTTTATTTCTAAAATATTAATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCATAATC
* * * * * *
2070539 GGGGATATTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTT-CATAATC
* * * * *
2070591 GGGGATACTCCAACCCCGGTTTTATTTTCGAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTC-ATAATC
* * *
2070643 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCATAGTC
1 GGGGATACTCCAACCCCGATTTTATTTCC-AAAACACCAATTTTTCATAATC
*
2070695 GAGGATACTCCAACC
1 GGGGATACTCCAACC
2070710 TTGTTATTTC
Statistics
Matches: 299, Mismatches: 61, Indels: 43
0.74 0.15 0.11
Matches are distributed among these distances:
48 4 0.01
49 3 0.01
50 5 0.02
51 101 0.34
52 94 0.31
53 29 0.10
54 28 0.09
55 21 0.07
56 2 0.01
57 6 0.02
58 5 0.02
59 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCATAATC
Found at i:2070500 original size:28 final size:27
Alignment explanation
Indices: 2070430--2070505 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 27
2070420 TTTCTTCACA
2070430 ATCGGGGATACTCCAACCCCGTTGATC
1 ATCGGGGATACTCCAACCCCGTTGATC
2070457 ATCGGGGATACTCCAACCCCGTT-AT-
1 ATCGGGGATACTCCAACCCCGTTGATC
*
2070482 TTCCGAGGGGATACTCCAACCCCG
1 AT-C--GGGGATACTCCAACCCCG
2070506 ACTTTATTTC
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
25 1 0.02
26 3 0.07
27 23 0.51
28 18 0.40
ACGTcount: A:0.22, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTGATC
Found at i:2070531 original size:211 final size:210
Alignment explanation
Indices: 2070114--2070617 Score: 848
Period size: 211 Copynumber: 2.4 Consensus size: 210
2070104 AATTCTCCAC
* * * * *
2070114 AATCGAGGATATTCCAACTCCGATTTTATT-TTCAAAACACTAATTTTCTATAATCGCGGATACT
1 AATCGGGGATATTCCAACCCCGGTTTTATTGCT-AAAACACTAATTTTCTATAATCGGGGATACT
* *
2070178 CCAACTCCGATTTTATTTCTAAAAAACACCAATTTCTTCACAATCGGGATACTCCAACCCTGTTG
65 CCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGATACTCCAACCCCGTTG
*
2070243 ATCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCCAA
130 ATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAA
2070308 AATATTAATTTTTCAT
195 AATATTAATTTTTCAT
2070324 AATCGGGGATATTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTCTATAATCGGGGATACTC
1 AATCGGGGATATTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTCTATAATCGGGGATACTC
*
2070389 CAACTCCGATTTTATTTCCAAAAAACATCAATTTCTTCACAATCGGGGATACTCCAACCCCGTTG
66 CAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATC-GGGATACTCCAACCCCGTTG
*
2070454 ATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCTAA
130 ATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAA
2070519 AATATTAATTTTTCAT
195 AATATTAATTTTTCAT
* *
2070535 AATCGGGGATATTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATCGGGGATACT
1 AATCGGGGATATTCCAACCCCGGTTTTATTGCTAAAACACTAA-TTTTCTATAATCGGGGATACT
* *
2070600 CCAACCCCGGTTTTATTT
65 CCAACTCCGATTTTATTT
2070618 TCGAAACACC
Statistics
Matches: 277, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
210 100 0.36
211 142 0.51
212 35 0.13
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (210 bp):
AATCGGGGATATTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTCTATAATCGGGGATACTC
CAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGATACTCCAACCCCGTTGA
TCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAA
ATATTAATTTTTCAT
Found at i:2070730 original size:263 final size:261
Alignment explanation
Indices: 2070277--2070819 Score: 718
Period size: 263 Copynumber: 2.1 Consensus size: 261
2070267 TTATTTTCGA
* * * * * *
2070277 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTAATTTTTCATAATCGGGGATATTCCAAC
1 GGGGATATTCCAACCCCGACTTTATTGCCAAAACACTAATTTTTCACAATCGGGGATACTCCAAC
*
2070342 CCCGGTTTTATTGCTAAAACACTAATTTTCTATAATCGGGGATACTCCAACTCCGATTTTATTTC
66 CCCGGTTTTATTGCTAAAACACCAATTTTCTATAATCGGGGATACTCCAACTCCGATTTTATTTC
* *
2070407 CAAAAAACATCAATTTCTTCACAATCGGGGATACTCCAACCCCGTTGATCATCGGGGATACTCCA
131 CAAAAAACA-CAATTTCTTCACAATCGAGGATACTCCAACCCCGTTGATCATCAGGGATACTCCA
** * * *
2070472 ACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCTAAAATATTAATTTTTCATAA
195 ACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATATTAATTTCTCATAA
2070537 TC
260 TC
** *
2070539 GGGGATATTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATCGGGGATACTCCAA
1 GGGGATATTCCAACCCCGACTTTATTGCCAAAACACTAATTTTT-CACAATCGGGGATACTCCAA
* * *
2070604 CCCCGGTTTTATT-TTCGAAACACCAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTAT
65 CCCCGGTTTTATTGCT-AAAACACCAATTTT-CTATAATCGGGGATACTCCAACTCCGATTTTAT
* * **
2070668 TTCCAAAAATAC-CAATTT-TTCATAGTCGAGGATACTCCAACCTTGTT-ATTTCATCAGGGATA
128 TTCCAAAAA-ACACAATTTCTTCACAATCGAGGATACTCCAACCCCGTTGA--TCATCAGGGATA
* * *
2070730 CTCTAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGATTTCT
190 CTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATATTAATTTCT
* *
2070795 CATGATT
255 CATAATC
2070802 GGGGATACTT-CAACCCCG
1 GGGGATA-TTCCAACCCCG
2070820 TTATTCCAAC
Statistics
Matches: 245, Mismatches: 29, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
261 1 0.00
262 62 0.25
263 137 0.56
264 43 0.18
265 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (261 bp):
GGGGATATTCCAACCCCGACTTTATTGCCAAAACACTAATTTTTCACAATCGGGGATACTCCAAC
CCCGGTTTTATTGCTAAAACACCAATTTTCTATAATCGGGGATACTCCAACTCCGATTTTATTTC
CAAAAAACACAATTTCTTCACAATCGAGGATACTCCAACCCCGTTGATCATCAGGGATACTCCAA
CCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATATTAATTTCTCATAAT
C
Found at i:2083180 original size:14 final size:14
Alignment explanation
Indices: 2083161--2083198 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
2083151 CCTTCTCTTC
2083161 AAAAAAAAAGCAAA
1 AAAAAAAAAGCAAA
*
2083175 AAAAAAAAAGGAAA
1 AAAAAAAAAGCAAA
2083189 AAAACAAAAA
1 AAAA-AAAAA
2083199 AACAAAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.87, C:0.05, G:0.08, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAGCAAA
Found at i:2083189 original size:22 final size:22
Alignment explanation
Indices: 2083163--2083205 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
2083153 TTCTCTTCAA
2083163 AAAAAAAGCAAAAAAAAAAAAGG
1 AAAAAAA-CAAAAAAAAAAAAGG
*
2083186 AAAAAAACAAAAAAACAAAA
1 AAAAAAACAAAAAAAAAAAA
2083206 CAAAGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.86, C:0.07, G:0.07, T:0.00
Consensus pattern (22 bp):
AAAAAAACAAAAAAAAAAAAGG
Found at i:2083214 original size:22 final size:23
Alignment explanation
Indices: 2083163--2083214 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
2083153 TTCTCTTCAA
*
2083163 AAAAAAAGCAAAAAAAAAAAAGG
1 AAAAAAAGCAAAAAAAAAAAAGC
*
2083186 AAAAAAA-CAAAAAAACAAAA-C
1 AAAAAAAGCAAAAAAAAAAAAGC
2083207 AAAGAAAA
1 AAA-AAAA
2083215 AGAGAGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 3 0.12
22 16 0.62
23 7 0.27
ACGTcount: A:0.85, C:0.08, G:0.08, T:0.00
Consensus pattern (23 bp):
AAAAAAAGCAAAAAAAAAAAAGC
Found at i:2084283 original size:55 final size:55
Alignment explanation
Indices: 2084204--2084935 Score: 1027
Period size: 55 Copynumber: 13.2 Consensus size: 55
2084194 TTCCAGTTCC
*
2084204 CAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCT
1 CAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCT
*
2084259 CAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCT
1 CAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCT
*
2084314 CAGAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-AGTCCT
1 CAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
* *
2084368 CAAAAAGCGGGACACATCACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
1 CAAAGAGCAGG----A-CACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
*
2084428 CAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCC
1 CAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
* *
2084483 CAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCA-TTTTCCAGTCCT
1 CAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCT
*
2084538 CAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCC
1 CAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
* *
2084593 CAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCCAGTCCT
1 CAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
*
2084648 CAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCT
1 CAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCT
* *
2084703 CAAAGAACAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCT
1 CAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCT
* *
2084758 CAAAGAGCAGGACACCTCTTAAAGCCCACTACAAGTTGGTGGCACCTTTCATTCCC
1 CAAAGAGCAGGACACCTCTTAAAGCCCAC-ACAAGTTGGTGGCACCTTTCAGTCCT
*
2084814 CAAAGAGCAGGACA-CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
1 CAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
* * * * * *
2084869 CAAAGAGCAGGACGCCT-TTCAAAGCCCACACGAGTTGCTGGCACTTTTTACTCCT
1 CAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
*
2084924 CAATGAGCAGGA
1 CAAAGAGCAGGA
2084936 TACAGTTTAT
Statistics
Matches: 622, Mismatches: 35, Indels: 40
0.89 0.05 0.06
Matches are distributed among these distances:
54 25 0.04
55 485 0.78
56 57 0.09
57 3 0.00
58 1 0.00
59 36 0.06
60 15 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (55 bp):
CAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
Found at i:2084444 original size:26 final size:26
Alignment explanation
Indices: 2084414--2084503 Score: 74
Period size: 26 Copynumber: 3.3 Consensus size: 26
2084404 AAGTTGGTGG
*
2084414 CACCTTTCAGTCCTCAAAGAGCAGGA
1 CACCTTTCAGTCCACAAAGAGCAGGA
* * * **
2084440 CACCTCTTAAAGCCCACACAAGTTGGTGG-
1 CACCT-TT-CAGTCCACA-AAG-AGCAGGA
*
2084469 CACCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCACAAAGAGCAGGA
2084495 CACCTTTCA
1 CACCTTTCA
2084504 AAGCCCACCC
Statistics
Matches: 47, Mismatches: 12, Indels: 10
0.68 0.17 0.14
Matches are distributed among these distances:
25 3 0.06
26 17 0.36
27 8 0.17
28 8 0.17
29 8 0.17
30 3 0.06
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (26 bp):
CACCTTTCAGTCCACAAAGAGCAGGA
Found at i:2085494 original size:13 final size:13
Alignment explanation
Indices: 2085476--2085501 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2085466 GATAAAGTGT
2085476 TTGAAAAAAAAAA
1 TTGAAAAAAAAAA
2085489 TTGAAAAAAAAAA
1 TTGAAAAAAAAAA
2085502 AAAAAATTTA
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:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (13 bp):
TTGAAAAAAAAAA
Found at i:2085540 original size:21 final size:21
Alignment explanation
Indices: 2085516--2085572 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
2085506 AATTTATCCA
2085516 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
2085537 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
2085558 AATGTATCGATACAT
1 AATGTATCGATACAT
2085573 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:2085652 original size:19 final size:19
Alignment explanation
Indices: 2085628--2085695 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
2085618 AATTCAACAA
2085628 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2085647 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2085662 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
2085679 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2085696 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:2085667 original size:13 final size:13
Alignment explanation
Indices: 2085649--2085673 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2085639 ACATAAGTTT
2085649 TGTATCGATACAA
1 TGTATCGATACAA
2085662 TGTATCGATACA
1 TGTATCGATACA
2085674 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:2085671 original size:32 final size:32
Alignment explanation
Indices: 2085630--2085692 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2085620 TTCAACAATT
*
2085630 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2085662 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2085693 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:2085753 original size:13 final size:13
Alignment explanation
Indices: 2085735--2085760 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2085725 CATTTTTCTG
2085735 TGTATCGATACAT
1 TGTATCGATACAT
2085748 TGTATCGATACAT
1 TGTATCGATACAT
2085761 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:2085757 original size:33 final size:33
Alignment explanation
Indices: 2085715--2085781 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2085705 GCCAAGGAAA
***
2085715 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
2085748 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
2085781 T
1 T
2085782 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:2088264 original size:27 final size:25
Alignment explanation
Indices: 2088234--2088309 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 25
2088224 TTTCTTCACA
2088234 ATCGGGGATACTCCAACCCTGTTGAT
1 ATCGGGGATACTCCAACCCTGTT-AT
*
2088260 CATCGGGGATACTCCAACCCCGTTAT
1 -ATCGGGGATACTCCAACCCTGTTAT
*
2088286 TTCCGAGGGGATACTCCAACCCTG
1 AT-C--GGGGATACTCCAACCCTG
2088310 ACTTTATTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
25 1 0.02
26 3 0.07
27 22 0.51
28 17 0.40
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (25 bp):
ATCGGGGATACTCCAACCCTGTTAT
Found at i:2088499 original size:211 final size:210
Alignment explanation
Indices: 2088128--2088671 Score: 837
Period size: 211 Copynumber: 2.6 Consensus size: 210
2088118 AATTCTCCAC
* * * *
2088128 AATCGAGGATATTCCAACTCCGATTTTATT-TTCAAAACACTAATTTTCTATAATCGCGGATACT
1 AATCGGGGATATTCCAAC-CCGGTTTTATTGCT-AAAACACTAATTTTCTATAATCGGGGATACT
*
2088192 CCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCCTGTT
64 CCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCCCGTT
* *
2088257 GATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCTGACTTTATTTCCA
129 GATCATCGGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCA
2088322 AAATATTAATTTTTCAT
194 AAATATTAATTTTTCAT
2088339 AATCGGGGATATTCCAACCCTGGTTTTATTGCTAAAACACTAATTTTCTATAATCGGGGATACTC
1 AATCGGGGATATTCCAACCC-GGTTTTATTGCTAAAACACTAATTTTCTATAATCGGGGATACTC
* *
2088404 TAACTCCGATTTTATTTCCAAAAAACATCAATTTCTTCACAATCGGGGATACTCCAACCCCGTTG
65 CAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCCCGTTG
*
2088469 ATCATCGGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCTAA
130 ATCATCGGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAA
2088534 AATATTAATTTTTCAT
195 AATATTAATTTTTCAT
* *
2088550 AATCGGGGATATTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATCGGGGATACT
1 AATCGGGGATATTCCAA-CCCGGTTTTATTGCTAAAACACTAA-TTTTCTATAATCGGGGATACT
* * * * *
2088615 CCAACCCCGGTTTTATTTTC--GAAACACCAATTTTCCTT--TAATCGGGGATACTCCAAC
64 CCAACTCCGATTTTATTTCCAAAAAACACCAA-TTT-CTTCACAATCGGGGATACTCCAAC
2088672 TCCGATTTTA
Statistics
Matches: 308, Mismatches: 19, Indels: 13
0.91 0.06 0.04
Matches are distributed among these distances:
210 28 0.09
211 238 0.77
212 42 0.14
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.32
Consensus pattern (210 bp):
AATCGGGGATATTCCAACCCGGTTTTATTGCTAAAACACTAATTTTCTATAATCGGGGATACTCC
AACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCCCGTTGA
TCATCGGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAA
ATATTAATTTTTCAT
Found at i:2088628 original size:52 final size:51
Alignment explanation
Indices: 2088125--2088724 Score: 292
Period size: 51 Copynumber: 11.4 Consensus size: 51
2088115 ATCAATTCTC
* * *
2088125 CACAATCGAGGATATTCCAACTCCGATTTTATTT-TCAAAACACTAA-TTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTCT-AAAACACTAATTTTT
* * * * *
2088175 CTATAATCGCGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTT
1 C-ACAATCGGGGATACTCCAACCCCGATTTTATTT-C-TAAAACACTAATTT-TT
* * * ** ***
2088230 CACAATCGGGGATACTCCAACCCTG-TTGATCATCGGGGATACTCCAAC-CCCGTTATTT
1 CACAATCGGGGATACTCCAACCCCGATT--TTAT------TTCTAAAACACTAATT-TTT
* * * * * *
2088288 C-CGA--GGGGATACTCCAACCCTGACTTTATTTCCAAAATATTAATTTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTT
* * * * *
2088336 CATAATCGGGGATATTCCAACCCTGGTTTTATTGCTAAAACACTAA-TTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTT
* * * * *
2088386 CTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACATCAATTTCTT
1 C-ACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACAC-T-AATTT-TT
* * ** **
2088441 CACAATCGGGGATACTCCAACCCCG-TTGATCATCGGGGATACTCCAAC-CCCATTATTT
1 CACAATCGGGGATACTCCAACCCCGATT--TTAT------TTCTAAAACACTAATT-TTT
* * * *
2088499 C-CGA--GGGGATACTCCAACCCCGACTTTATTTCTAAAATATTAATTTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTT
* * * *
2088547 CATAATCGGGGATATTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTT
* * * *
2088598 CCACAATCGGGGATACTCCAACCCCGGTTTTATTT-TCGAAACACCAATTTTC
1 -CACAATCGGGGATACTCCAACCCCGATTTTATTTCT-AAAACACTAATTTTT
** * * * *
2088650 CTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
1 C-ACAATCGGGGATACTCCAACCCCGATTTTATTT-CTAAAACACTAATTTTT
* * *
2088703 CACAGTCGAGGATACTTCAACC
1 CACAATCGGGGATACTCCAACC
2088725 TTGTTATTTC
Statistics
Matches: 412, Mismatches: 94, Indels: 86
0.70 0.16 0.15
Matches are distributed among these distances:
48 17 0.04
49 7 0.02
50 6 0.01
51 136 0.33
52 88 0.21
53 28 0.07
54 51 0.12
55 48 0.12
56 2 0.00
57 4 0.01
58 13 0.03
59 5 0.01
60 2 0.00
61 5 0.01
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (51 bp):
CACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTT
Found at i:2088739 original size:263 final size:261
Alignment explanation
Indices: 2088292--2088834 Score: 691
Period size: 263 Copynumber: 2.1 Consensus size: 261
2088282 TTATTTCCGA
* * * * * * *
2088292 GGGGATACTCCAACCCTGACTTTATTTCCAAAATATTAATTTTTCATAATCGGGGATATTCCAAC
1 GGGGATATTCCAACCCCGACTTTATTGCCAAAACACTAATTTTTCACAATCGGGGATACTCCAAC
* * *
2088357 CCTGGTTTTATTGCTAAAACACTAATTTTCTATAATCGGGGATACTCTAACTCCGATTTTATTTC
66 CCCGGTTTTATTGCTAAAACACCAATTTTCTATAATCGGGGATACTCCAACTCCGATTTTATTTC
*
2088422 CAAAAAACATCAATTTCTTCACAATCGGGGATACTCCAACCCCGTTGATCATCGGGGATACTCCA
131 CAAAAAACA-CAATTTCTTCACAATCGAGGATACTCCAACCCCGTTGATCATCGGGGATACTCCA
** * * *
2088487 ACCCCATTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCTAAAATATTAATTTTTCATAA
195 ACCCCATTACCTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATATTAATTTCTCATAA
2088552 TC
260 TC
** *
2088554 GGGGATATTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATCGGGGATACTCCAA
1 GGGGATATTCCAACCCCGACTTTATTGCCAAAACACTAATTTTT-CACAATCGGGGATACTCCAA
* * *
2088619 CCCCGGTTTTATT-TTCGAAACACCAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTAT
65 CCCCGGTTTTATTGCT-AAAACACCAATTTT-CTATAATCGGGGATACTCCAACTCCGATTTTAT
* * **
2088683 TTCCAAAAATAC-CAATTT-TTCACAGTCGAGGATACTTCAACCTTGTT-ATTTCATCGGGGATA
128 TTCCAAAAA-ACACAATTTCTTCACAATCGAGGATACTCCAACCCCGTTGA--TCATCGGGGATA
* * * *
2088745 CTCTAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGATTTCT
190 CTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATATTAATTTCT
* *
2088810 CATGATT
255 CATAATC
2088817 GGGGATACTT-CAACCCCG
1 GGGGATA-TTCCAACCCCG
2088835 TTATTCCAAC
Statistics
Matches: 242, Mismatches: 32, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
261 1 0.00
262 61 0.25
263 136 0.56
264 42 0.17
265 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (261 bp):
GGGGATATTCCAACCCCGACTTTATTGCCAAAACACTAATTTTTCACAATCGGGGATACTCCAAC
CCCGGTTTTATTGCTAAAACACCAATTTTCTATAATCGGGGATACTCCAACTCCGATTTTATTTC
CAAAAAACACAATTTCTTCACAATCGAGGATACTCCAACCCCGTTGATCATCGGGGATACTCCAA
CCCCATTACCTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATATTAATTTCTCATAAT
C
Found at i:2102118 original size:1 final size:1
Alignment explanation
Indices: 2102098--2102223 Score: 81
Period size: 1 Copynumber: 126.0 Consensus size: 1
2102088 GGCGTCCTCC
* * * ** * * * * * *
2102098 AAAAAACAAACAAAATAAAAAAAAAACCAAAAAAAAACAACAAAACAAAAAAAAAACAAACAAAC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * *
2102163 AAAACAAAAACAAAAAACAAAAAAAAACAAAACAAAAAAGAACAAAAAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2102224 CAACAACAAC
Statistics
Matches: 89, Mismatches: 36, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 89 1.00
ACGTcount: A:0.85, C:0.13, G:0.01, T:0.01
Consensus pattern (1 bp):
A
Found at i:2102134 original size:22 final size:22
Alignment explanation
Indices: 2102100--2102245 Score: 131
Period size: 22 Copynumber: 6.5 Consensus size: 22
2102090 CGTCCTCCAA
*
2102100 AAAACAAACAAAATA-AAAAAA-
1 AAAACAAA-AAAAAACAAAAAAC
*
2102121 AAACCAAAAAAAAACAACAAAAC
1 AAAACAAAAAAAAACAA-AAAAC
2102144 AAAA-AAAAAACAAACAAACAAAAC
1 AAAACAAAAAA-AAAC-AA-AAAAC
2102168 AAAAACAAAAAACAAA-AAAAAAC
1 -AAAACAAAAAA-AAACAAAAAAC
* *
2102191 AAAACAAAAAAGAACAAAAAAA
1 AAAACAAAAAAAAACAAAAAAC
* *
2102213 AAAACAAAAAACAAC-AACAAC
1 AAAACAAAAAAAAACAAAAAAC
2102234 AACAACAAAAAA
1 AA-AACAAAAAA
2102246 GCGTCCAGAT
Statistics
Matches: 108, Mismatches: 8, Indels: 17
0.81 0.06 0.13
Matches are distributed among these distances:
20 5 0.05
21 17 0.16
22 50 0.46
23 12 0.11
24 10 0.09
25 4 0.04
26 10 0.09
ACGTcount: A:0.83, C:0.16, G:0.01, T:0.01
Consensus pattern (22 bp):
AAAACAAAAAAAAACAAAAAAC
Found at i:2102225 original size:19 final size:19
Alignment explanation
Indices: 2102097--2102245 Score: 126
Period size: 20 Copynumber: 7.4 Consensus size: 19
2102087 CGGCGTCCTC
2102097 CAAAAAACAAACAAAATAAAA
1 CAAAAAACAAA-AAAA-AAAA
2102118 -AAAAAACCAAAAAAAAACAA
1 CAAAAAA-CAAAAAAAAA-AA
2102138 CAAAACAA-AAAAAAAACAAA
1 CAAAA-AACAAAAAAAA-AAA
2102158 CAAACAAAACAAAAACAAAAAA
1 C-AA-AAAACAAAAA-AAAAAA
*
2102180 CAAAAAA-AAACAAAACAAA
1 CAAAAAACAAA-AAAAAAAA
*
2102199 -AAAGAACAAAAAAAAAAA
1 CAAAAAACAAAAAAAAAAA
*
2102217 CAAAAAACAACAACAACAACAA
1 CAAAAAACAA-AA-AA-AAAAA
2102239 CAAAAAA
1 CAAAAAA
2102246 GCGTCCAGAT
Statistics
Matches: 108, Mismatches: 5, Indels: 29
0.76 0.04 0.20
Matches are distributed among these distances:
18 12 0.11
19 21 0.19
20 31 0.29
21 17 0.16
22 24 0.22
23 3 0.03
ACGTcount: A:0.83, C:0.16, G:0.01, T:0.01
Consensus pattern (19 bp):
CAAAAAACAAAAAAAAAAA
Found at i:2102225 original size:66 final size:68
Alignment explanation
Indices: 2102097--2102245 Score: 103
Period size: 70 Copynumber: 2.1 Consensus size: 68
2102087 CGGCGTCCTC
* * * *
2102097 CAAAAAACAAACAAAATAAAAAAA-AAACCAAAAAAAAACA-ACAAAACAAAAAAAAAACAAACA
1 CAAAAAA-AAACAAAACAAAAAAACAAAACAAAAAAAAACACA-AAAACAACAAAACAACAAAC-
2102160 AACAAAA
63 AA-AAAA
* * *
2102167 CAAAAACAAAA-AACAA-AAAAAAACAAAACAAAAAAGAACAAAAAAAAAAACAAAA-AAC-AAC
1 CAAAAA-AAAACAA-AACAAAAAAACAAAACAAAAAAAAAC-ACAAAAACAACAAAACAACAAAC
2102228 AACAACAA
63 AA-AA-AA
*
2102236 CAACAAAAAA
1 CAAAAAAAAA
2102246 GCGTCCAGAT
Statistics
Matches: 68, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
68 9 0.13
69 19 0.28
70 27 0.40
71 12 0.18
72 1 0.01
ACGTcount: A:0.83, C:0.16, G:0.01, T:0.01
Consensus pattern (68 bp):
CAAAAAAAAACAAAACAAAAAAACAAAACAAAAAAAAACACAAAAACAACAAAACAACAAACAAA
AAA
Found at i:2103718 original size:27 final size:28
Alignment explanation
Indices: 2103677--2103735 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
2103667 CATTTATCAC
* *
2103677 CCTTCAAAAGTCCACAAGTCAGTGGCAA
1 CCTTCAAAAGCCCACAAATCAGTGGCAA
*
2103705 CCTTC-AAAGCCCACAAATCAGTGGCAC
1 CCTTCAAAAGCCCACAAATCAGTGGCAA
2103732 CCTT
1 CCTT
2103736 TTTTCGAAGC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 23 0.82
28 5 0.18
ACGTcount: A:0.32, C:0.34, G:0.15, T:0.19
Consensus pattern (28 bp):
CCTTCAAAAGCCCACAAATCAGTGGCAA
Found at i:2103839 original size:30 final size:30
Alignment explanation
Indices: 2103679--2103909 Score: 190
Period size: 30 Copynumber: 7.7 Consensus size: 30
2103669 TTTATCACCC
* *
2103679 TTCAAAAGTCCACAAGTCAGTGGCAACC--
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
*
2103707 TTC-AAAGCCCACAAATCAGTGGCACCCTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCC--TT
* * * *
2103738 TTC-GAAGCCCATAAGTCGGTGGCA-TCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
* * * * *
2103766 TTCCAAAGCTCACAACTCTA-TAGCACTCTTT
1 TTCAAAAGCCCACAAGTC-AGTGGCAC-CCTT
** *
2103797 TTCTTTTTAAGCCCACAAGTTAGTGGCACCCTT
1 TTC---AAAAGCCCACAAGTCAGTGGCACCCTT
*
2103830 TTCAAAAGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
*
2103860 TTCAAAAGCCCACAAGTCAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
2103889 TT-AAAAGCCCACAAGTCAGTG
1 TTCAAAAGCCCACAAGTCAGTG
2103910 ATGCAAACCT
Statistics
Matches: 164, Mismatches: 27, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
27 21 0.13
28 27 0.16
29 17 0.10
30 52 0.32
31 25 0.15
33 7 0.04
34 15 0.09
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (30 bp):
TTCAAAAGCCCACAAGTCAGTGGCACCCTT
Found at i:2103925 original size:60 final size:60
Alignment explanation
Indices: 2103805--2103933 Score: 165
Period size: 60 Copynumber: 2.1 Consensus size: 60
2103795 TTTTCTTTTT
* * * * *
2103805 AAGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCTCAA
2103865 AAGCCCACAAGTCAGTGGCAACC-TTT-AAAAGCCCACAAGTCAGTGATGCAAACC-TCTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTTCAAAAGCCCACAAGTCAGTG--GC-AACCTTCTCAA
2103925 AAGCCCACA
1 AAGCCCACA
2103934 CAAGTTGGTG
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
58 18 0.30
59 3 0.05
60 37 0.61
61 3 0.05
ACGTcount: A:0.34, C:0.31, G:0.16, T:0.19
Consensus pattern (60 bp):
AAGCCCACAAGTCAGTGGCAACCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCTCAA
Found at i:2104022 original size:48 final size:48
Alignment explanation
Indices: 2103953--2104181 Score: 256
Period size: 48 Copynumber: 4.8 Consensus size: 48
2103943 GGCGTCTCCT
* *
2103953 TTTAAGCCCAATATAGCTGGCCTTGAATTAGCATATTGGCACCTTGC-C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-CAC
* * *
2104001 TTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTCATA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCA-C
* * *
2104050 TTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCA----C-C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCAC
2104093 -TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CA-C
* * *
2104144 TTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
2104182 ACATCCTTTT
Statistics
Matches: 152, Mismatches: 17, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
42 37 0.24
45 1 0.01
47 1 0.01
48 41 0.27
49 37 0.24
51 1 0.01
52 34 0.22
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (48 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCAC
Found at i:2104110 original size:42 final size:42
Alignment explanation
Indices: 2104051--2104136 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
2104041 ACCTTCATAT
*
2104051 TTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCACC
1 TTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCACC
* *
2104093 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
1 TTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCACC
2104135 TT
1 TT
2104137 TTCCATCTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (42 bp):
TTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCACC
Found at i:2104130 original size:91 final size:93
Alignment explanation
Indices: 2104002--2104181 Score: 292
Period size: 91 Copynumber: 1.9 Consensus size: 93
2103992 CACCTTGCCT
*
2104002 TTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACC-TT-CATATTTAAGTCCAATGTA
1 TTAAGTCCAATATAGCTGGCCTTAAATCAGCATATTGGCACCTTTCCATATTTAAGTCCAATGTA
2104065 GCTGACCTTGAATCAGCACATTGGCACC
66 GCTGACCTTGAATCAGCACATTGGCACC
* * *
2104093 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATGT
1 TTAAGTCCAATATAGCTGGCCTTAAATCAGCATATTGGCACC-TTTCCATATTTAAGTCCAATGT
*
2104158 AGCTGGCCTTGAATCAGCACATTG
65 AGCTGACCTTGAATCAGCACATTG
2104182 ACATCCTTTT
Statistics
Matches: 81, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
91 40 0.49
93 2 0.02
94 39 0.48
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (93 bp):
TTAAGTCCAATATAGCTGGCCTTAAATCAGCATATTGGCACCTTTCCATATTTAAGTCCAATGTA
GCTGACCTTGAATCAGCACATTGGCACC
Found at i:2104136 original size:21 final size:21
Alignment explanation
Indices: 2104069--2104136 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
2104059 AATGTAGCTG
*
2104069 ACCTTGAATCAGCACATTGGC
1 ACCTTGAATCAGCATATTGGC
** *
2104090 ACCTT-AAGTCCAATATAGCTGG-
1 ACCTTGAA-T-CAGCATA-TTGGC
2104112 -CCTTGAATCAGCATATTGGC
1 ACCTTGAATCAGCATATTGGC
2104132 ACCTT
1 ACCTT
2104137 TTCCATCTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 12
0.64 0.13 0.23
Matches are distributed among these distances:
19 3 0.09
20 7 0.21
21 15 0.44
22 6 0.18
23 3 0.09
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (21 bp):
ACCTTGAATCAGCATATTGGC
Found at i:2105094 original size:13 final size:13
Alignment explanation
Indices: 2105076--2105100 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2105066 CATAAAGTGT
2105076 TGTATCGATACAA
1 TGTATCGATACAA
2105089 TGTATCGATACA
1 TGTATCGATACA
2105101 TATTTTTTTG
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:2105094 original size:33 final size:33
Alignment explanation
Indices: 2105056--2105122 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2105046 TTCAACAATT
2105056 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
2105089 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
2105122 T
1 T
2105123 TTAAGCTACT
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:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:2105181 original size:13 final size:13
Alignment explanation
Indices: 2105163--2105187 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2105153 ATAACTTAAA
2105163 TGTATCGATACAT
1 TGTATCGATACAT
2105176 TGTATCGATACA
1 TGTATCGATACA
2105188 CTGATCTTTG
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:2105252 original size:52 final size:52
Alignment explanation
Indices: 2105176--2105376 Score: 332
Period size: 52 Copynumber: 3.9 Consensus size: 52
2105166 ATCGATACAT
**
2105176 TGTATCGATACACTGA-TCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-ATTCAATGTATCGATACATGCAGGCAAATTTGCCCAGA
* ** *
2105228 TGTATCGATACATTATAAAATGTATCGATACACGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTTGCCCAGA
2105280 TGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTTGCCCAGA
2105332 TGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTT
2105377 TCATATTTCG
Statistics
Matches: 138, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
51 1 0.01
52 137 0.99
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:2111349 original size:55 final size:55
Alignment explanation
Indices: 2111208--2111702 Score: 681
Period size: 55 Copynumber: 8.8 Consensus size: 55
2111198 CTTTTAAAAT
* *
2111208 CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAG
1 CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAG
* * *
2111269 CCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAGGAGCAAGACACCTTTCAAAG
1 CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAG
**
2111324 CCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACACCTCTT-AAAG
1 CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCT-TTCAAAG
* *
2111379 CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAG
1 CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAG
* * *
2111440 CCCACACGAGTTGGTGGCACTTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAG
1 CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAG
*
2111495 CCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAG
1 CCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACACCT-TTCAAAG
*
2111550 CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAG
1 CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAG
2111605 CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAG
1 CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAG
* * *
2111660 CCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGA
1 CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA
2111703 TACACTTTAT
Statistics
Matches: 395, Mismatches: 27, Indels: 30
0.87 0.06 0.07
Matches are distributed among these distances:
54 6 0.02
55 291 0.74
56 7 0.02
57 1 0.00
59 2 0.01
60 2 0.01
61 86 0.22
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (55 bp):
CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAG
Found at i:2111467 original size:171 final size:171
Alignment explanation
Indices: 2111208--2111702 Score: 860
Period size: 171 Copynumber: 2.9 Consensus size: 171
2111198 CTTTTAAAAT
2111208 CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCA
1 CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCA
* *
2111273 CACAAGTTGGTGGCACCTTTCAGTCCCCAAGGAGCAAGACACCTTTCAAAGCCCACACAAGTTGG
66 CACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGG
2111338 TGGCATTTTTCAGTCCTCAAAGAGCAGGACACCTCTTAAAG
131 TGGCATTTTTCAGTCCTCAAAGAGCAGGACACCTCTTAAAG
2111379 CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCA
1 CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCA
* *
2111444 CACGAGTTGGTGGCACTTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGG
66 CACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGG
*
2111509 TGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAG
131 TGGCATTTTTCAGTCCTCAAAGAGCAGGACACCTCTTAAAG
*
2111550 CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC-----C-TTTCAAAGCCCA
1 CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCA
* *
2111609 CACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACGAGTTGG
66 CACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGG
2111674 TGGCACTTTTT-AGTCCTCAAAGAGCAGGA
131 TGGCA-TTTTTCAGTCCTCAAAGAGCAGGA
2111703 TACACTTTAT
Statistics
Matches: 312, Mismatches: 11, Indels: 8
0.94 0.03 0.02
Matches are distributed among these distances:
165 96 0.31
166 5 0.02
171 211 0.68
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (171 bp):
CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCA
CACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGG
TGGCATTTTTCAGTCCTCAAAGAGCAGGACACCTCTTAAAG
Found at i:2112515 original size:21 final size:21
Alignment explanation
Indices: 2112490--2112566 Score: 93
Period size: 21 Copynumber: 3.7 Consensus size: 21
2112480 TTTTTATCCA
*
2112490 AATGTATTGATACATTCGTAG
1 AATGTATCGATACATTCGTAG
* *
2112511 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTCGTAG
* *
2112532 AATGTATCGATATATTC-TACT
1 AATGTATCGATACATTCGTA-G
2112553 AATGTATCGATACA
1 AATGTATCGATACA
2112567 GGGTCCCAAC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 1 0.02
21 46 0.98
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.38
Consensus pattern (21 bp):
AATGTATCGATACATTCGTAG
Found at i:2112627 original size:19 final size:19
Alignment explanation
Indices: 2112603--2112666 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
2112593 TTTCAGCGAT
2112603 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
2112622 TTGTATCGATAC--AA--G
1 TTGTATCGATACATAAGTG
*
2112637 --GTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
2112654 TTGTATCGATACA
1 TTGTATCGATACA
2112667 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 10 0.26
15 3 0.08
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:2112641 original size:32 final size:32
Alignment explanation
Indices: 2112605--2112674 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
2112595 TCAGCGATTT
2112605 GTATCGATACATAAGTGTTGTATCGATACAAG
1 GTATCGATACATAAGTGTTGTATCGATACAAG
* *
2112637 GTATCGATACATAAGTTTTGTATCGATACAAT
1 GTATCGATACATAAGTGTTGTATCGATACAAG
2112669 GTATCG
1 GTATCG
2112675 CTAGGAAGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (32 bp):
GTATCGATACATAAGTGTTGTATCGATACAAG
Found at i:2112736 original size:13 final size:13
Alignment explanation
Indices: 2112718--2112743 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2112708 TATTTTTCTG
2112718 TGTATCGATACAT
1 TGTATCGATACAT
2112731 TGTATCGATACAT
1 TGTATCGATACAT
2112744 CTATTCTTTG
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:2113304 original size:10 final size:10
Alignment explanation
Indices: 2113278--2113306 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
2113268 CTTTAGCAAA
2113278 AAAAAAAC-C
1 AAAAAAACAC
2113287 AAAAAAACAC
1 AAAAAAACAC
2113297 AAAAAAACAC
1 AAAAAAACAC
2113307 TATTCCATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAACAC
Found at i:2115220 original size:52 final size:51
Alignment explanation
Indices: 2115101--2115496 Score: 210
Period size: 52 Copynumber: 7.6 Consensus size: 51
2115091 TTAAGTTTCT
* * * * *
2115101 CAATTGTTCATAATCGGGGATACACCAACCCCGATTTTATTTTCAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCTGATTTTATTTCCAAAACAC
* ** *
2115152 CAATTTTCCTTTAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAACAC
1 CAATTTTTC-ACAATCGGGGATACTCCAACCCTGATTTTATTTCC-AAAACAC
* * ***** * *
2115205 CAATTTTTCACAATCGAGGATACTCCAA-CCTCATTATCTCATCGGGGATACTC
1 CAATTTTTCACAATCGGGGATACTCCAACCCTGATT-T-T-ATTTCCAAAACAC
* * ** * *
2115258 CAACCCCGTTATTTC-CGA--GGGGATACTCCAACCCCGGCTTTATTTCCAAAATAT
1 CAA-----TT-TTTCACAATCGGGGATACTCCAACCCTGATTTTATTTCCAAAACAC
** * * * * * * * *
2115312 TGATTTCTCATAATGGGGGAAACTCTAACCCCGGTTTTATTTCTAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCTGATTTTATTTCCAAAACAC
* * * *
2115363 TAATTTTCCACAATCGGGGATACTCCAA-CCTCGGTTTTATTTTCAAAACA-
1 CAATTTTTCACAATCGGGGATACTCCAACCCT-GATTTTATTTCCAAAACAC
* ** * * *
2115413 CACATTTTCCTTTAATCAGGGATACCCCAACTCTGATTTTATTTCCAAAAACAC
1 CA-ATTTTTC-ACAATCGGGGATACTCCAACCCTGATTTTATTTCC-AAAACAC
*
2115467 CAATTTTTCACAATCGAGGATACTCCAACC
1 CAATTTTTCACAATCGGGGATACTCCAACC
2115497 TCATTATTTC
Statistics
Matches: 253, Mismatches: 71, Indels: 41
0.69 0.19 0.11
Matches are distributed among these distances:
48 3 0.01
49 3 0.01
50 3 0.01
51 86 0.34
52 87 0.34
53 37 0.15
54 9 0.04
55 1 0.00
56 13 0.05
57 3 0.01
58 4 0.02
59 4 0.02
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.32
Consensus pattern (51 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCTGATTTTATTTCCAAAACAC
Found at i:2115253 original size:28 final size:28
Alignment explanation
Indices: 2115217--2115292 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 28
2115207 ATTTTTCACA
* *
2115217 ATCGAGGATACTCCAACCTCATTATCTC
1 ATCGGGGATACTCCAACCCCATTATCTC
* *
2115245 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCATTATCTC
***
2115273 CGAGGGGATACTCCAACCCC
1 ATCGGGGATACTCCAACCCC
2115293 GGCTTTATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.25, C:0.34, G:0.17, T:0.24
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCATTATCTC
Found at i:2115382 original size:51 final size:51
Alignment explanation
Indices: 2115276--2115496 Score: 187
Period size: 51 Copynumber: 4.3 Consensus size: 51
2115266 TTATTTCCGA
* * * * * * *
2115276 GGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGA-TTTCTCATAATG
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTC-CACAATC
* *
2115327 GGGGAAACTCTAACCCCGGTTTTATTTCTAAAACACTAATTTTCCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCACAATC
* **
2115378 GGGGATACTCCAACCTCGGTTTTATTT-TCAAAACAC-ACATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCT-AAAACACTA-ATTTTCC-ACAATC
* * * * * * * *
2115430 AGGGATACCCCAACTCTGATTTTATTTCCAAAAACACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTT-CTAAAACACTAATTTTCCACAATC
*
2115482 GAGGATACTCCAACC
1 GGGGATACTCCAACC
2115497 TCATTATTTC
Statistics
Matches: 135, Mismatches: 28, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
50 2 0.01
51 75 0.56
52 44 0.33
53 13 0.10
54 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCACAATC
Found at i:2115606 original size:262 final size:262
Alignment explanation
Indices: 2115112--2115606 Score: 762
Period size: 262 Copynumber: 1.9 Consensus size: 262
2115102 AATTGTTCAT
* *
2115112 AATCGGGGATACACCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACACCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCAGGGATACC
2115177 CCAACTCTGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCATTAT
66 CCAACTCTGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCATTAT
* *
2115242 CTCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAA
131 CTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAA
* * ** *
2115307 AATATTGATTTCTCATAATGGGGGAAACTCTAACCCCGGTTTTATTTCTAAAACACTAATTTTCC
196 AATATCGATTTCTCACAACCGGGGAAACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCC
2115372 AC
261 AC
* * *
2115374 AATCGGGGATACTCCAACCTCGGTTTTATTTTCAAAACA-CACATTTTCCTTTAATCAGGGATAC
1 AATCGGGGATACACCAACCCCGATTTTATTTTCAAAACACCA-ATTTTCCTTTAATCAGGGATAC
2115438 CCCAACTCTGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCATTA
65 CCCAACTCTGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCATTA
* *** *
2115503 TTTCATCGGGGATACTCCAACCCCGTTACCTT-CGAGGGGATACTCCAATTTCGATTTTATTTCC
130 TCTCATCGGGGATACTCCAACCCCGTTA-CTTCCGAGGGGATACTCCAACCCCGACTTTATTTCC
* * *
2115567 -TAATCATCGATTTTTCACAACCGGGGATACTCCAACCCCG
194 AAAAT-ATCGATTTCTCACAACCGGGGAAACTCCAACCCCG
2115607 TTATTTTCAA
Statistics
Matches: 210, Mismatches: 20, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
261 5 0.02
262 203 0.97
263 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (262 bp):
AATCGGGGATACACCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCAGGGATACC
CCAACTCTGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCATTAT
CTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAA
AATATCGATTTCTCACAACCGGGGAAACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCC
AC
Found at i:2130742 original size:13 final size:13
Alignment explanation
Indices: 2130724--2130748 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2130714 CATAAAGTGT
2130724 TGTATCGATACAA
1 TGTATCGATACAA
2130737 TGTATCGATACA
1 TGTATCGATACA
2130749 TATTTTTTTG
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:2130746 original size:33 final size:33
Alignment explanation
Indices: 2130704--2130770 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2130694 TTCAATGATT
2130704 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
2130737 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
2130770 T
1 T
2130771 TTAAGCTACT
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:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:2130829 original size:13 final size:13
Alignment explanation
Indices: 2130811--2130835 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2130801 ATTACTCAAA
2130811 TGTATCGATACAT
1 TGTATCGATACAT
2130824 TGTATCGATACA
1 TGTATCGATACA
2130836 CCGATCTTTG
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:2130972 original size:52 final size:52
Alignment explanation
Indices: 2130844--2130964 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
2130834 CACCGATCTT
* *
2130844 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
2130896 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
2130948 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
2130965 ATAAATTTTC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2136241 original size:12 final size:11
Alignment explanation
Indices: 2136211--2136240 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
2136201 TCGTACCAAG
2136211 AAAAAAAACAA
1 AAAAAAAACAA
2136222 AAAAAAAACAA
1 AAAAAAAACAA
2136233 AAAAAAAA
1 AAAAAAAA
2136241 AGGGTCCAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:2137470 original size:28 final size:28
Alignment explanation
Indices: 2137444--2137669 Score: 281
Period size: 29 Copynumber: 7.9 Consensus size: 28
2137434 CGTTCATCTC
*
2137444 TTCAAAGCCCACAGGTCAGTGGCATCTCT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CT
* **
2137473 TTAAAAAAACCACAAGTCAGTGGCATCCT
1 TT-CAAAGCCCACAAGTCAGTGGCATCCT
*
2137502 TTCAAAGCCCACAAGTCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
2137530 TCTCAAGGCCCATAAGTTAGTGGCATCCT
1 T-TCAAAGCCCACAAGTCAGTGGCATCCT
* *
2137559 TCTCAAAGCCCACAAGTTAGTGGTATCCT
1 T-TCAAAGCCCACAAGTCAGTGGCATCCT
* *
2137588 TCTCAAAGCCCACAAGTAAGTGGCATCTT
1 T-TCAAAGCCCACAAGTCAGTGGCATCCT
*
2137617 TTCAAAGCCCACAAGTCAGTGCCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
2137645 TTTAAAGCCCACAAGTCAGTGGCAT
1 TTCAAAGCCCACAAGTCAGTGGCAT
2137670 AAGTTAGTGG
Statistics
Matches: 172, Mismatches: 23, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
28 70 0.41
29 82 0.48
30 20 0.12
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:2137512 original size:58 final size:57
Alignment explanation
Indices: 2137444--2137950 Score: 354
Period size: 56 Copynumber: 8.7 Consensus size: 57
2137434 CGTTCATCTC
* * **
2137444 TTCAAAGCCCACAGGTCAGTGGCATCTCTT-TAAAAAAACCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CTTCT-CAAAGCCCACAAGTCAGTGGCATCCT
* * * *
2137502 TTCAAAGCCCACAAGTCAATGGCATCCTTCTCAAGGCCCATAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCATCCT
* * * *
2137559 TCTCAAAGCCCACAAGTTAGTGGTATCCTTCTCAAAGCCCACAAGTAAGTGGCATCTT
1 T-TCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCATCCT
* * ***
2137617 TTCAAAGCCCACAAGTCAGTGCCATCCTT-TTAAAGCCCACAAGTCAGTGGCATAAG
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCATCCT
** * * ** * *
2137673 TT-AGTGGCATCTTTTCA-AAGCCCACAAGTCAGTGGAGTCTTTTCCAAGCCCACAAGTCAGTGG
1 TTCA-AAGC--C----CACAAG---TC-AGT--G-GCATCCTTCTCAAAGCCCACAAGTCAGTGG
*
2137736 CA-CATT
52 CATC-CT
* * * * * *
2137742 TTCAAAGCCCATAAGTTAGTGGCA-CCTTTTCACAGCCCACAAGTCAATGGCA-CTTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCATC-CT
* * * * *
2137798 TTCAAAGCCCACAAGTCAGTGGCAT-TTTTTCATAGCCCATAAGTCAGTGGCA-CATT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCATC-CT
* * * *
2137854 TTCAAAGCCCACAAATCAGTGGCA-CCTTCTCAAAGCCCACAAGTTAGAGGCA-CTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCATCCT
* *
2137909 TCTCAAAGCCCACAAGTCAGCGGCATCCTT-TTAAAGCCCACA
1 T-TCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACA
2137951 CAAGTCGGTA
Statistics
Matches: 363, Mismatches: 62, Indels: 50
0.76 0.13 0.11
Matches are distributed among these distances:
55 4 0.01
56 178 0.49
57 55 0.15
58 77 0.21
60 3 0.01
61 3 0.01
62 2 0.01
63 2 0.01
64 4 0.01
65 3 0.01
67 2 0.01
68 4 0.01
69 25 0.07
70 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (57 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:2137699 original size:41 final size:41
Alignment explanation
Indices: 2137629--2137707 Score: 124
Period size: 41 Copynumber: 1.9 Consensus size: 41
2137619 CAAAGCCCAC
2137629 AAGTCAGTGCCATCCTTTTAAAGCCCACAAGTCAGTGGCAT
1 AAGTCAGTGCCATCCTTTTAAAGCCCACAAGTCAGTGGCAT
* *
2137670 AAGTTAGTGGCAT-CTTTTCAAAGCCCACAAGTCAGTGG
1 AAGTCAGTGCCATCCTTTT-AAAGCCCACAAGTCAGTGG
2137708 AGTCTTTTCC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 5 0.14
41 30 0.86
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (41 bp):
AAGTCAGTGCCATCCTTTTAAAGCCCACAAGTCAGTGGCAT
Found at i:2137713 original size:28 final size:28
Alignment explanation
Indices: 2137670--2137950 Score: 322
Period size: 28 Copynumber: 10.0 Consensus size: 28
2137660 TCAGTGGCAT
*
2137670 AAGTTAGTGGCATCTTTTCAAAGCCCAC
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
*
2137698 AAGTCAGTGG-AGTCTTTTCCAAGCCCAC
1 AAGTCAGTGGCA-TCTTTTCAAAGCCCAC
*
2137726 AAGTCAGTGGCA-CATTTTCAAAGCCCAT
1 AAGTCAGTGGCATC-TTTTCAAAGCCCAC
* * *
2137754 AAGTTAGTGGCACCTTTTCACAGCCCAC
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
*
2137782 AAGTCAATGGCA-CTTTTTCAAAGCCCAC
1 AAGTCAGTGGCATC-TTTTCAAAGCCCAC
* * *
2137810 AAGTCAGTGGCATTTTTTCATAGCCCAT
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
2137838 AAGTCAGTGGCA-CATTTTCAAAGCCCAC
1 AAGTCAGTGGCATC-TTTTCAAAGCCCAC
* * *
2137866 AAATCAGTGGCACCTTCTCAAAGCCCAC
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
* *
2137894 AAGTTAGAGGCA-CTTTCTCAAAGCCCAC
1 AAGTCAGTGGCATCTTT-TCAAAGCCCAC
*
2137922 AAGTCAGCGGCATCCTTTT-AAAGCCCAC
1 AAGTCAGTGGCAT-CTTTTCAAAGCCCAC
2137950 A
1 A
2137951 CAAGTCGGTA
Statistics
Matches: 217, Mismatches: 25, Indels: 22
0.82 0.09 0.08
Matches are distributed among these distances:
27 6 0.03
28 203 0.94
29 4 0.02
30 4 0.02
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (28 bp):
AAGTCAGTGGCATCTTTTCAAAGCCCAC
Found at i:2137722 original size:69 final size:69
Alignment explanation
Indices: 2137601--2137737 Score: 215
Period size: 69 Copynumber: 2.0 Consensus size: 69
2137591 CAAAGCCCAC
2137601 AAGTAAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGCCATCCTTTTAAAGCCCACAAGTCAGTG
1 AAGTAAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGCCATCCTTTTAAAGCCCACAAGTCAGTG
2137666 GCAT
66 GCAT
* * *
2137670 AAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTG-GAGT-CTTTTCCAAGCCCACAAGTCAG
1 AAGTAAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGCCA-TCCTTTT-AAAGCCCACAAGTCAG
2137733 TGGCA
64 TGGCA
2137738 CATTTTCAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
68 6 0.10
69 57 0.90
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (69 bp):
AAGTAAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGCCATCCTTTTAAAGCCCACAAGTCAGTG
GCAT
Found at i:2137763 original size:97 final size:98
Alignment explanation
Indices: 2137572--2137765 Score: 277
Period size: 97 Copynumber: 2.0 Consensus size: 98
2137562 CAAAGCCCAC
*
2137572 AAGTTAGTGGTATCCTTCTCAAAGCCCACAAGTAAGTGGCATCTTTTCAAAGCCCACAAGTCAGT
1 AAGTTAGTGGCATCCTTCTCAAAGCCCACAAGTAAGTGGCATCTTTTCAAAGCCCACAAGTCAGT
*
2137637 GCCATCCTTTTAAAGCCCACAAGTCAGTGGCAT
66 GCCATCATTTTAAAGCCCACAAGTCAGTGGCAT
* * *
2137670 AAGTTAGTGGCAT-CTTTTCAAAGCCCACAAGTCAGTGG-AGTCTTTTCCAAGCCCACAAGTCAG
1 AAGTTAGTGGCATCCTTCTCAAAGCCCACAAGTAAGTGGCA-TCTTTTCAAAGCCCACAAGTCAG
* * *
2137733 TGGCA-CATTTTCAAAGCCCATAAGTTAGTGGCA
65 TGCCATCATTTT-AAAGCCCACAAGTCAGTGGCA
2137766 CCTTTTCACA
Statistics
Matches: 86, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
96 6 0.07
97 68 0.79
98 12 0.14
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (98 bp):
AAGTTAGTGGCATCCTTCTCAAAGCCCACAAGTAAGTGGCATCTTTTCAAAGCCCACAAGTCAGT
GCCATCATTTTAAAGCCCACAAGTCAGTGGCAT
Found at i:2137808 original size:84 final size:83
Alignment explanation
Indices: 2137667--2137982 Score: 357
Period size: 84 Copynumber: 3.7 Consensus size: 83
2137657 AAGTCAGTGG
* * * *
2137667 CATAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGG-AGTCTTTTCCAAGCCCACAAGTC
1 CATAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACT-TTTTCAAAGCCCACAAGTC
2137731 AGTGGCACATTTTCAAAGCC
65 AGTGGCAC-TTTTCAAAGCC
* * *
2137751 CATAAGTTAGTGGCACCTTTTCACAGCCCACAAGTCAATGGCACTTTTTCAAAGCCCACAAGTCA
1 CATAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACTTTTTCAAAGCCCACAAGTCA
* *
2137816 GTGGCATTTTTTCATAGCC
66 GTGGCA-CTTTTCAAAGCC
* * * * *
2137835 CATAAGTCAGTGGCACATTTTCAAAGCCCACAAATCAGTGGCACCTTCTCAAAGCCCACAAGTTA
1 CATAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACTTTTTCAAAGCCCACAAGTCA
*
2137900 GAGGCACTTTCTCAAAGCC
66 GTGGCACTTT-TCAAAGCC
* * * * *
2137919 CACAAGTCAGCGGCATCCTTTT-AAAGCCCACACAAGTCGGTAGCAACTTTCTTTAAAGCCCACA
1 CATAAGTCAGTGGCA-CCTTTTCAAAG-CC-CACAAGTCAGTGGC-ACTTT-TTCAAAGCCCACA
2137983 CAAGTTAGTG
Statistics
Matches: 197, Mismatches: 27, Indels: 12
0.83 0.11 0.05
Matches are distributed among these distances:
83 3 0.02
84 159 0.81
85 9 0.05
86 11 0.06
87 4 0.02
88 11 0.06
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (83 bp):
CATAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACTTTTTCAAAGCCCACAAGTCA
GTGGCACTTTTCAAAGCC
Found at i:2138840 original size:20 final size:20
Alignment explanation
Indices: 2138815--2138931 Score: 108
Period size: 20 Copynumber: 5.7 Consensus size: 20
2138805 TTTTACCTAG
*
2138815 ATGTATCAATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* *** *
2138835 ATGTATCAATACATGGATGA
1 ATGTATCGATACATTTTTCA
*
2138855 ATGTATCGATAAATTTTTCA
1 ATGTATCGATACATTTTTCA
**
2138875 ATGTATCGATACATTCTACCCA
1 ATGTATCGATACATT-T-TTCA
*
2138897 GATGTATCGATACATTGTTCA
1 -ATGTATCGATACATTTTTCA
*
2138918 ATGTATAGATACAT
1 ATGTATCGATACAT
2138932 CTAGTTAAAA
Statistics
Matches: 77, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
20 57 0.74
21 3 0.04
22 2 0.03
23 15 0.19
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2138918 original size:43 final size:43
Alignment explanation
Indices: 2138808--2138931 Score: 137
Period size: 43 Copynumber: 3.0 Consensus size: 43
2138798 TCTGTCTTTT
* * * *
2138808 TACCTAGATGTATCAATACATTTTTCAATGTATCAATACA-TG
1 TACCCAGATGTATCGATACATTTTTCAATGTATCGATACATTC
* ** *
2138850 GA-TGA-ATGTATCGATAAATTTTTCAATGTATCGATACATTC
1 TACCCAGATGTATCGATACATTTTTCAATGTATCGATACATTC
* *
2138891 TACCCAGATGTATCGATACATTGTTCAATGTATAGATACAT
1 TACCCAGATGTATCGATACATTTTTCAATGTATCGATACAT
2138932 CTAGTTAAAA
Statistics
Matches: 66, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
40 30 0.45
41 3 0.05
42 2 0.03
43 31 0.47
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (43 bp):
TACCCAGATGTATCGATACATTTTTCAATGTATCGATACATTC
Found at i:2146988 original size:22 final size:24
Alignment explanation
Indices: 2146944--2146990 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
2146934 CACACACACA
*
2146944 AATATAATAATGTATGTATATATT
1 AATATAATAATGAATGTATATATT
2146968 AATATAA-AATGAAT-TATATATT
1 AATATAATAATGAATGTATATATT
2146990 A
1 A
2146991 TTCTGACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.41
23 6 0.27
24 7 0.32
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (24 bp):
AATATAATAATGAATGTATATATT
Found at i:2148750 original size:47 final size:46
Alignment explanation
Indices: 2148637--2148754 Score: 130
Period size: 47 Copynumber: 2.5 Consensus size: 46
2148627 TTGGCATAGA
* *
2148637 TAAAGCTACAAACTCTTCTTAAAAACAACTTATAAGTTTTACACAGG
1 TAAAGTTACAAAC-CTTCTTACAAACAACTTATAAGTTTTACACAGG
* * * *
2148684 TAAAGTTACATACCTTTCTTACAAACAATTTATAATTTTTGCAC-GG
1 TAAAGTTACAAACC-TTCTTACAAACAACTTATAAGTTTTACACAGG
*
2148730 ATAAATTTACAAACACTTCTTACAA
1 -TAAAGTTACAAAC-CTTCTTACAA
2148755 TCATCACAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
46 3 0.05
47 56 0.93
48 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.34
Consensus pattern (46 bp):
TAAAGTTACAAACCTTCTTACAAACAACTTATAAGTTTTACACAGG
Found at i:2150155 original size:76 final size:78
Alignment explanation
Indices: 2150054--2150257 Score: 227
Period size: 76 Copynumber: 2.6 Consensus size: 78
2150044 GAGATAATAA
* * * * *
2150054 CGGGGTTGGAGTGTTCCCTT-GAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATG
1 CGGGGTTGGAGT-ATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-
*
2150118 A-TT-AGAA-AAAAT
64 ATTTGAGAATAAAAC
* **
2150130 CGGGATTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCTAATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATA-
* *
2150195 TTTGGGAATAAAGC
65 TTTGAGAATAAAAC
* * *
2150209 CGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGAT
2150258 GAAATAACGA
Statistics
Matches: 106, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
75 7 0.07
76 48 0.45
77 2 0.02
78 3 0.03
79 46 0.43
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.25
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
TTGAGAATAAAAC
Found at i:2150166 original size:28 final size:28
Alignment explanation
Indices: 2150122--2150175 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
2150112 TCGATGATTA
2150122 GAAAAAATCGGGATTGGAGTATCCCTTC
1 GAAAAAATCGGGATTGGAGTATCCCTTC
*
2150150 GAAAATAA-CGGGGTTGGAGTATCCCT
1 GAAAA-AATCGGGATTGGAGTATCCCT
2150176 AATTATGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (28 bp):
GAAAAAATCGGGATTGGAGTATCCCTTC
Found at i:2150249 original size:28 final size:28
Alignment explanation
Indices: 2150209--2150280 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
2150199 GGAATAAAGC
** *
2150209 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2150237 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2150265 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
2150281 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:2150338 original size:52 final size:50
Alignment explanation
Indices: 2150269--2150438 Score: 182
Period size: 52 Copynumber: 3.3 Consensus size: 50
2150259 AAATAACGAG
* * *
2150269 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGT-GTTTT-GAAATAAAACCGGA
** * *
2150321 GTTGGAGTATCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTGTTTTG-AAATAAAACC-GGA
*
2150374 -TTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AACGATAAAACCGGA
1 GTTGGAGTATCCCCGATTGT-GAAAAATTGGTGTTTTGAA--ATAAAACCGGA
2150425 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
2150439 TCGAAAATAA
Statistics
Matches: 99, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
50 2 0.02
51 4 0.04
52 81 0.82
53 12 0.12
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAATAAAACCGGA
Done.