Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 110 of 131
Found at i:36599820 original size:11 final size:11
Alignment explanation
Indices: 36599804--36599834 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
36599794 TAATCATCAA
36599804 ACATATCATGC
1 ACATATCATGC
36599815 ACATATCATGC
1 ACATATCATGC
*
36599826 ACAAATCAT
1 ACATATCAT
36599835 ACATACAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.42, C:0.26, G:0.06, T:0.26
Consensus pattern (11 bp):
ACATATCATGC
Found at i:36600406 original size:23 final size:24
Alignment explanation
Indices: 36600362--36600406 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
36600352 TTTCTCATAT
* **
36600362 TTTCAATTCAATCATTTTTCCACC
1 TTTCAATTCAATAATTAATCCACC
36600386 TTTCAA-TCAATAATTAATCCA
1 TTTCAATTCAATAATTAATCCA
36600407 TAAATTCACA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 12 0.67
24 6 0.33
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.42
Consensus pattern (24 bp):
TTTCAATTCAATAATTAATCCACC
Found at i:36600561 original size:3 final size:3
Alignment explanation
Indices: 36600553--36600602 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
36600543 CCACTCATCT
*
36600553 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAC TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
36600601 TA
1 TA
36600603 TAACTTGAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:36600848 original size:22 final size:24
Alignment explanation
Indices: 36600806--36600849 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
36600796 TAACTAAACT
36600806 TACTTACTTTTCTAACTTAATTCA
1 TACTTACTTTTCTAACTTAATTCA
36600830 TACTT-CTTTTCT-ACTTAATT
1 TACTTACTTTTCTAACTTAATT
36600850 TCTTGCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 7 0.35
24 5 0.25
ACGTcount: A:0.25, C:0.20, G:0.00, T:0.55
Consensus pattern (24 bp):
TACTTACTTTTCTAACTTAATTCA
Found at i:36603745 original size:19 final size:19
Alignment explanation
Indices: 36603706--36603742 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
36603696 ATTCAACTAC
*
36603706 CAAAAAAAATATTAACTTT
1 CAAAAAAAATACTAACTTT
36603725 CAAAAAAAA-ACTAACTTT
1 CAAAAAAAATACTAACTTT
36603743 TCATAAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.27
Consensus pattern (19 bp):
CAAAAAAAATACTAACTTT
Found at i:36614135 original size:17 final size:18
Alignment explanation
Indices: 36614113--36614155 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
36614103 ACTTAGAAAT
*
36614113 TATTTTTATTAT-ACTAA
1 TATTTTTATAATAACTAA
*
36614130 TATTTTTATAATAATTAA
1 TATTTTTATAATAACTAA
36614148 TATTTTTA
1 TATTTTTA
36614156 AAAACATGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTTTTATAATAACTAA
Found at i:36617921 original size:17 final size:17
Alignment explanation
Indices: 36617899--36617934 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
36617889 AAATCCCAGA
36617899 TTTTGATACCCATATCT
1 TTTTGATACCCATATCT
36617916 TTTTGATACCCATATCT
1 TTTTGATACCCATATCT
36617933 TT
1 TT
36617935 GACTTTCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (17 bp):
TTTTGATACCCATATCT
Found at i:36641762 original size:162 final size:164
Alignment explanation
Indices: 36641469--36641795 Score: 471
Period size: 162 Copynumber: 2.0 Consensus size: 164
36641459 AAAATTCTCA
36641469 GATGTTAATCATGATCATTTTCATTTTTCGAGTAGATCAATAGATCATCTATGAAAACAACAACA
1 GATGTTAATCATGATCATTTTCATTTTTCGAGTAGATCAATAGATCATCTATGAAAACAACAACA
* * * *
36641534 AACCAATCCAGATATAAATTAAAAATTATGTTCATCAGATCCATAAAAGTAGATGGGGAGTTGGT
66 AACC-ATACAAATATAAATGAAAAATTATGTTCATCAGATCCATAAAAGCAGATGGGGAGTTGGT
* * *
36641599 TAGTCCAAATGATATTACTAGAAACTCATAGTGTC
130 TAGCCCAAACGACATTACTAGAAACTCATAGTGTC
* * * * *
36641634 GATGTTGATGATGATCATTTTCATTTTTTGAGTAGATCAATATATCATCTATGAACACAACAA-A
1 GATGTTAATCATGATCATTTTCATTTTTCGAGTAGATCAATAGATCATCTATGAAAACAACAACA
** *
36641698 TTCC-TACAAATATAAATGAAAATTTATGTTCATCAGATCCATAAAAGCAGATGGGGCA-TTGGT
66 AACCATACAAATATAAATGAAAAATTATGTTCATCAGATCCATAAAAGCAGATGGGG-AGTTGGT
*
36641761 TAGCCCAAACGACATTACTAGAAACTCGTAGTGTC
130 TAGCCCAAACGACATTACTAGAAACTCATAGTGTC
36641796 TGTGTCAATT
Statistics
Matches: 145, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
162 83 0.57
163 1 0.01
164 3 0.02
165 58 0.40
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (164 bp):
GATGTTAATCATGATCATTTTCATTTTTCGAGTAGATCAATAGATCATCTATGAAAACAACAACA
AACCATACAAATATAAATGAAAAATTATGTTCATCAGATCCATAAAAGCAGATGGGGAGTTGGTT
AGCCCAAACGACATTACTAGAAACTCATAGTGTC
Found at i:36649079 original size:21 final size:20
Alignment explanation
Indices: 36649055--36649093 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
36649045 TTAGAATCGT
36649055 TTTTAAGAAAGGTATCGATTA
1 TTTTAAGAAA-GTATCGATTA
* *
36649076 TTTTCAGAAATTATCGAT
1 TTTTAAGAAAGTATCGAT
36649094 ATCGGTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (20 bp):
TTTTAAGAAAGTATCGATTA
Found at i:36649294 original size:20 final size:20
Alignment explanation
Indices: 36649244--36649320 Score: 59
Period size: 20 Copynumber: 3.9 Consensus size: 20
36649234 CTGGCTTGTT
*
36649244 TGAAAATCATTTTGA-TGTG-
1 TGAAAATCATTTTAACT-TGA
* *
36649263 TTAAAATGATTTTAACTTGA
1 TGAAAATCATTTTAACTTGA
* * *
36649283 TGGAAATCATTTTGACTTGG
1 TGAAAATCATTTTAACTTGA
* *
36649303 TTAAAATCATTTTCACTT
1 TGAAAATCATTTTAACTT
36649321 AATTTTAAAA
Statistics
Matches: 45, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
19 14 0.31
20 31 0.69
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.44
Consensus pattern (20 bp):
TGAAAATCATTTTAACTTGA
Found at i:36654748 original size:21 final size:20
Alignment explanation
Indices: 36654724--36654762 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
36654714 TTAGAATCGT
36654724 TTTTAAGAAAGGTATCGATTA
1 TTTTAAGAAA-GTATCGATTA
* *
36654745 TTTTCAGAAATTATCGAT
1 TTTTAAGAAAGTATCGAT
36654763 ATCGGTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (20 bp):
TTTTAAGAAAGTATCGATTA
Found at i:36654963 original size:20 final size:20
Alignment explanation
Indices: 36654913--36654989 Score: 59
Period size: 20 Copynumber: 3.9 Consensus size: 20
36654903 CTGGCTTGTT
*
36654913 TGAAAATCATTTTGA-TGTG-
1 TGAAAATCATTTTAACT-TGA
* *
36654932 TTAAAATGATTTTAACTTGA
1 TGAAAATCATTTTAACTTGA
* * *
36654952 TGGAAATCATTTTGACTTGG
1 TGAAAATCATTTTAACTTGA
* *
36654972 TTAAAATCATTTTCACTT
1 TGAAAATCATTTTAACTT
36654990 AATTTTAAAA
Statistics
Matches: 45, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
19 14 0.31
20 31 0.69
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.44
Consensus pattern (20 bp):
TGAAAATCATTTTAACTTGA
Found at i:36658105 original size:2 final size:2
Alignment explanation
Indices: 36658098--36658129 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
36658088 GTTGAACAGA
36658098 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36658130 TTGTGAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36667140 original size:22 final size:22
Alignment explanation
Indices: 36667113--36667156 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
36667103 AACAAATTGC
36667113 CAAAAGAATGCGAAGAAAGAAA
1 CAAAAGAATGCGAAGAAAGAAA
36667135 CAAAAGAATGCGAAGAAAGAAA
1 CAAAAGAATGCGAAGAAAGAAA
36667157 AAATATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.64, C:0.09, G:0.23, T:0.05
Consensus pattern (22 bp):
CAAAAGAATGCGAAGAAAGAAA
Found at i:36669146 original size:28 final size:28
Alignment explanation
Indices: 36669069--36669152 Score: 79
Period size: 28 Copynumber: 3.1 Consensus size: 28
36669059 CATACCTTTT
36669069 AATTAATC-AAT-ATAAATTATTTATAA
1 AATTAATCTAATAATAAATTATTTATAA
*
36669095 AATTAATCATACATAA-AAA-AATTTA-AA
1 AATTAATC-TA-ATAATAAATTATTTATAA
* *
36669122 ACTTAAATCTAATAATAAATTATTTTTAA
1 AATT-AATCTAATAATAAATTATTTATAA
36669151 AA
1 AA
36669153 CATTAATATA
Statistics
Matches: 45, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
26 12 0.27
27 10 0.22
28 14 0.31
29 8 0.18
30 1 0.02
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (28 bp):
AATTAATCTAATAATAAATTATTTATAA
Found at i:36674251 original size:29 final size:28
Alignment explanation
Indices: 36674175--36674260 Score: 84
Period size: 29 Copynumber: 2.9 Consensus size: 28
36674165 CCACGCCATG
36674175 AATTAATTAATTTTTTTAAAATTTTAAAA
1 AATTAATTAA-TTTTTTAAAATTTTAAAA
**
36674204 AATTAAAAAATATATTTTAAAATTTTAAAA
1 AATTAATTAAT-T-TTTTAAAATTTTAAAA
* *
36674234 TTAATT-ATTAATTTTTTATATTTTTAA
1 --AATTAATTAATTTTTTAAAATTTTAA
36674261 TTTTTAAAAG
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
28 1 0.02
29 21 0.45
30 17 0.36
31 4 0.09
32 4 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
AATTAATTAATTTTTTAAAATTTTAAAA
Found at i:36674280 original size:36 final size:36
Alignment explanation
Indices: 36674214--36674282 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
36674204 AATTAAAAAA
* *
36674214 TATATTTTAAAATTTTAAAATTAATTATTAATTTTT
1 TATATTTTAAAATTTTAAAATGAATAATTAATTTTT
* *
36674250 TATATTTTTAATTTTTAAAA-GAAGTAATTAATT
1 TATATTTTAAAATTTTAAAATGAA-TAATTAATT
36674283 GTTAATGTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 2 0.07
36 26 0.93
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (36 bp):
TATATTTTAAAATTTTAAAATGAATAATTAATTTTT
Found at i:36678621 original size:34 final size:35
Alignment explanation
Indices: 36678568--36678634 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
36678558 CAAACACCAG
*
36678568 AAAATATTTTTCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
*
36678603 AAAATATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
36678635 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:36679132 original size:41 final size:41
Alignment explanation
Indices: 36679087--36679214 Score: 186
Period size: 41 Copynumber: 3.1 Consensus size: 41
36679077 TAAAAATTTT
*
36679087 AAAAAATTAAAAAAAGTATTTTTAAAATATTTGAAAATTAA
1 AAAAAATTAAAAAAAGTATTTTAAAAATATTTGAAAATTAA
* *
36679128 AAAAAATTAAAAAAAGTATTTTAAAAATATTTTGAAATTTTA
1 AAAAAATTAAAAAAAGTATTTTAAAAATA-TTTGAAAATTAA
* * *
36679170 AAAAAATT-AAAAAAGTATGTAAAAAATATTTTAAAATTAA
1 AAAAAATTAAAAAAAGTATTTTAAAAATATTTGAAAATTAA
36679210 AAAAA
1 AAAAA
36679215 TAAATATATT
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
40 14 0.18
41 46 0.59
42 18 0.23
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (41 bp):
AAAAAATTAAAAAAAGTATTTTAAAAATATTTGAAAATTAA
Found at i:36679133 original size:32 final size:31
Alignment explanation
Indices: 36679072--36679132 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
36679062 GGCCCATTTT
36679072 TATTTTAAAAATTTTAAAAAATTAAAAAAAG
1 TATTTTAAAAATTTTAAAAAATTAAAAAAAG
* *
36679103 TATTTTTAAAATATTT-GAAAATTAAAAAAA
1 TATTTTAAAAAT-TTTAAAAAATTAAAAAAA
36679133 ATTAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 24 0.89
32 3 0.11
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (31 bp):
TATTTTAAAAATTTTAAAAAATTAAAAAAAG
Found at i:36679828 original size:30 final size:31
Alignment explanation
Indices: 36679797--36679941 Score: 109
Period size: 32 Copynumber: 4.6 Consensus size: 31
36679787 TCATTTGAAA
36679797 TTTTTAGAAAATTCTAATTAGACCCTTAAAT
1 TTTTTAGAAAATTCTAATTAGACCCTTAAAT
* * *** *
36679828 TTTTTGGAAAGCTT-T-ATTTCTCCCTTAAAG
1 TTTTTAGAAA-ATTCTAATTAGACCCTTAAAT
*
36679858 CTTTTA-AAAAGTTCTAATTAGACCCTCTCAAAT
1 TTTTTAGAAAA-TTCTAATTAGACCCT-T-AAAT
* * *
36679891 TTTTTA-AAAATTCTAATTATACCTTTTAAT
1 TTTTTAGAAAATTCTAATTAGACCCTTAAAT
* *
36679921 TCTTTTTGAAAATTTTAATTA
1 T-TTTTAGAAAATTCTAATTA
36679942 TGTTCTCTTA
Statistics
Matches: 87, Mismatches: 19, Indels: 15
0.72 0.16 0.12
Matches are distributed among these distances:
29 5 0.06
30 20 0.23
31 22 0.25
32 28 0.32
33 12 0.14
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.46
Consensus pattern (31 bp):
TTTTTAGAAAATTCTAATTAGACCCTTAAAT
Found at i:36684892 original size:10 final size:10
Alignment explanation
Indices: 36684877--36684902 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
36684867 ATAGACTAAC
36684877 AAAATGGTAT
1 AAAATGGTAT
36684887 AAAATGGTAT
1 AAAATGGTAT
36684897 AAAATG
1 AAAATG
36684903 ATAACAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.19, T:0.27
Consensus pattern (10 bp):
AAAATGGTAT
Found at i:36685008 original size:6 final size:6
Alignment explanation
Indices: 36684979--36685047 Score: 97
Period size: 6 Copynumber: 11.5 Consensus size: 6
36684969 CATCCATCCC
*
36684979 CTACAT -TACAT CTACAAAT C-ACAT TTACAT CTACAT CTACAT CTACAT
1 CTACAT CTACAT CTAC--AT CTACAT CTACAT CTACAT CTACAT CTACAT
36685027 CTACAT CTACAT CTACAT CTA
1 CTACAT CTACAT CTACAT CTA
36685048 TGTACCAAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
5 7 0.12
6 45 0.79
7 2 0.04
8 3 0.05
ACGTcount: A:0.36, C:0.30, G:0.00, T:0.33
Consensus pattern (6 bp):
CTACAT
Found at i:36688433 original size:125 final size:124
Alignment explanation
Indices: 36688211--36688641 Score: 691
Period size: 125 Copynumber: 3.5 Consensus size: 124
36688201 AAATCAAAGT
*
36688211 AGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGAGCTTTTGCTATAGTTGGT
1 AGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTATAGTTGGT
**
36688276 CCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAAAACGCTTCAAGC
66 CCT-AAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTATAAAAAACGCTTCAAGC
* * *
36688336 AGGATGCTTAATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGTGCTTTTGCTATAGTTGGT
1 AGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTATAGTTGGT
*
36688401 CCTAAAAAAATAATTTCAAGTTGACGTTTCTGAGCGAATAGTATAAAAAACGCTTCAAGC
66 CCT-AAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTATAAAAAACGCTTCAAGC
* * *
36688461 AGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCTACGTAGACGCGCTTTTGCTACAGTTGGT
1 AGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTATAGTTGGT
* * *
36688526 CCTGAAAAATAATTTCGAGTTCACGTTTCTGAGCGAATAGTATAAAAAACGCTTCAAGT
66 CCTAAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTATAAAAAACGCTTCAAGC
* * * *
36688585 ATGATGCTTTATCAGAAGAATTTATGAAATCGCGCCCTCGTGGACGCCCTTTTGCTA
1 AGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTA
36688642 CAGTAGCATG
Statistics
Matches: 283, Mismatches: 23, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
124 103 0.36
125 180 0.64
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (124 bp):
AGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTATAGTTGGT
CCTAAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTATAAAAAACGCTTCAAGC
Found at i:36691826 original size:21 final size:21
Alignment explanation
Indices: 36691800--36691842 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
36691790 ATTAGGATTA
*
36691800 TGGGGTTTTTATGTTAAGGGT
1 TGGGGTTTTTAAGTTAAGGGT
36691821 TGGGGTTTTTAAGTTAAGGGT
1 TGGGGTTTTTAAGTTAAGGGT
36691842 T
1 T
36691843 TAGGGTTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.00, G:0.37, T:0.47
Consensus pattern (21 bp):
TGGGGTTTTTAAGTTAAGGGT
Found at i:36691874 original size:7 final size:7
Alignment explanation
Indices: 36691862--36691902 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
36691852 GGTTTGTCAA
36691862 ATAAATT
1 ATAAATT
36691869 ATAAATT
1 ATAAATT
36691876 -T-AATT
1 ATAAATT
*
36691881 ATAATTT
1 ATAAATT
36691888 ATAAATTT
1 ATAAA-TT
36691896 ATAAATT
1 ATAAATT
36691903 TTTAATAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
5 4 0.14
6 2 0.07
7 16 0.55
8 7 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (7 bp):
ATAAATT
Found at i:36691896 original size:8 final size:8
Alignment explanation
Indices: 36691862--36691903 Score: 50
Period size: 8 Copynumber: 5.0 Consensus size: 8
36691852 GGTTTGTCAA
36691862 ATAAA-TT
1 ATAAATTT
36691869 ATAAATTT
1 ATAAATTT
36691877 AATTATAATTT
1 -A-TA-AATTT
36691888 ATAAATTT
1 ATAAATTT
36691896 ATAAATTT
1 ATAAATTT
36691904 TTAATAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
7 5 0.16
8 15 0.48
9 3 0.10
10 3 0.10
11 5 0.16
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATAAATTT
Found at i:36693046 original size:7 final size:7
Alignment explanation
Indices: 36693036--36693061 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
36693026 TTATATACGT
36693036 AATACTA
1 AATACTA
36693043 AATACTA
1 AATACTA
36693050 AATACTA
1 AATACTA
36693057 AATAC
1 AATAC
36693062 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:36693255 original size:20 final size:20
Alignment explanation
Indices: 36693230--36693267 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
36693220 TTTATTTTTA
36693230 AAAATCT-ATATAATAATTGT
1 AAAATCTAATATAA-AATTGT
36693250 AAAATCTAATATAAAATT
1 AAAATCTAATATAAAATT
36693268 TACCTCGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (20 bp):
AAAATCTAATATAAAATTGT
Found at i:36693523 original size:198 final size:196
Alignment explanation
Indices: 36693177--36693568 Score: 606
Period size: 198 Copynumber: 2.0 Consensus size: 196
36693167 CGAGCATGAC
* * * * *
36693177 TTGCGGGATGGTTCCACCTAATTAAATAATTTTTTAGCATACTTTTATTTTTAAAAATCTATATA
1 TTGCGGGATAGTTCCACCTAATTAAAGAAATTTTTAGCATACTATTATTTTTAAAAATCTACATA
* *
36693242 ATAATTGTAAAATCTAATATAAAATTTACCTCGTTATGAGTGGGAATGTATATAGGTGGTCCACT
66 ATAATTGTAAAATCTAATATAAAATTTACCTCCTTATGAATGGGAATGTATATAGGTGGTCCACT
**
36693307 CGAGGACGTAAAAATGGAAAGCGAAATTGTGCCCATGACTACAGTAGTGACAGGCAACCTCCGAC
131 CGAGGACGTAAAAATGGAAAGCGAAACCGTGCCCATGACTACAGTAGTGACAGGCAACCTCCGAC
36693372 T
196 T
* *
36693373 TTGCTGGATAGTTCCACTTAATTAAAGAAATTTTTAGCATACTATTATTTTTAAAAATCTACATA
1 TTGCGGGATAGTTCCACCTAATTAAAGAAATTTTTAGCATACTATTATTTTTAAAAATCTACATA
*
36693438 ATAATTGTAAAAAATCTAATATAAAATTTACCTCCTTATTAATGGGAATGTATAT-GAGTGGTCC
66 ATAATTGT--AAAATCTAATATAAAATTTACCTCCTTATGAATGGGAATGTATATAG-GTGGTCC
* * * *
36693502 ACTCGAGGACGTAGAAATGGAAAGCGAAACCGTGCCTATGACTGCAGTAGTGATAGGCAACCTCC
128 ACTCGAGGACGTAAAAATGGAAAGCGAAACCGTGCCCATGACTACAGTAGTGACAGGCAACCTCC
36693567 GA
193 GA
36693569 TTTTCGCTTT
Statistics
Matches: 177, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
196 66 0.37
197 1 0.01
198 110 0.62
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (196 bp):
TTGCGGGATAGTTCCACCTAATTAAAGAAATTTTTAGCATACTATTATTTTTAAAAATCTACATA
ATAATTGTAAAATCTAATATAAAATTTACCTCCTTATGAATGGGAATGTATATAGGTGGTCCACT
CGAGGACGTAAAAATGGAAAGCGAAACCGTGCCCATGACTACAGTAGTGACAGGCAACCTCCGAC
T
Found at i:36694471 original size:22 final size:22
Alignment explanation
Indices: 36694446--36694504 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
36694436 AAATATGAAT
* *
36694446 TTGAGAGAAA-TTTAGAAGGAAA
1 TTGAGAGAAACTTGA-AAGCAAA
*
36694468 TTGAGAGCAACTTGAAAGCAAA
1 TTGAGAGAAACTTGAAAGCAAA
*
36694490 TTGAGAGAAAATTGA
1 TTGAGAGAAACTTGA
36694505 GAAAATAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 28 0.90
23 3 0.10
ACGTcount: A:0.47, C:0.05, G:0.25, T:0.22
Consensus pattern (22 bp):
TTGAGAGAAACTTGAAAGCAAA
Found at i:36698045 original size:22 final size:21
Alignment explanation
Indices: 36698020--36698064 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
36698010 AAATGCAAGT
*
36698020 AAAATAGAGAGATTTAGAAGCA
1 AAAAT-GAGACATTTAGAAGCA
* *
36698042 AAAATGATACCTTTAGAAGCA
1 AAAATGAGACATTTAGAAGCA
36698063 AA
1 AA
36698065 CTGCGGAGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.53, C:0.09, G:0.18, T:0.20
Consensus pattern (21 bp):
AAAATGAGACATTTAGAAGCA
Found at i:36699011 original size:14 final size:14
Alignment explanation
Indices: 36698992--36699022 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
36698982 ACCTCCGTCT
36698992 TCCACCGATCCACC
1 TCCACCGATCCACC
*
36699006 TCCACCGGTCCACC
1 TCCACCGATCCACC
36699020 TCC
1 TCC
36699023 GGTCCTCCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.58, G:0.10, T:0.16
Consensus pattern (14 bp):
TCCACCGATCCACC
Found at i:36701661 original size:22 final size:20
Alignment explanation
Indices: 36701618--36701656 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
36701608 TAATTTAAAA
36701618 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
36701638 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
36701657 ATGTAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:36701780 original size:20 final size:20
Alignment explanation
Indices: 36701755--36701794 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
36701745 AATATTTTCC
*
36701755 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
36701775 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
36701795 TCATTTTAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:36710926 original size:28 final size:28
Alignment explanation
Indices: 36710894--36710948 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
36710884 AACCAAAATC
*
36710894 AAATCCA-AAAGCTTAGTCTAAAAATAAA
1 AAATCCAGAAAACTTAGT-TAAAAATAAA
36710922 AAATCCAGAAAACTTAGTTAAAAATAA
1 AAATCCAGAAAACTTAGTTAAAAATAA
36710949 TTCAAACCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 16 0.64
29 9 0.36
ACGTcount: A:0.58, C:0.13, G:0.07, T:0.22
Consensus pattern (28 bp):
AAATCCAGAAAACTTAGTTAAAAATAAA
Found at i:36716183 original size:30 final size:30
Alignment explanation
Indices: 36716147--36716254 Score: 153
Period size: 30 Copynumber: 3.6 Consensus size: 30
36716137 GAGAATGAAA
*
36716147 TGCTCACATAAGCTGACAATATTTCAAGGT
1 TGCTCACACAAGCTGACAATATTTCAAGGT
*
36716177 TGCTCACATAAGCTGACAATATTTCAAGGT
1 TGCTCACACAAGCTGACAATATTTCAAGGT
* ** *
36716207 TGCTCACACAAGCTGACATTATAACCAGGT
1 TGCTCACACAAGCTGACAATATTTCAAGGT
*
36716237 TGCTCACACAAGATGACA
1 TGCTCACACAAGCTGACA
36716255 TTATATCGAG
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 72 1.00
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (30 bp):
TGCTCACACAAGCTGACAATATTTCAAGGT
Found at i:36717447 original size:25 final size:25
Alignment explanation
Indices: 36717418--36717469 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
36717408 ACTTAATCCA
*
36717418 TCATTAACAATTATAAGTGGAATCT
1 TCATTAAAAATTATAAGTGGAATCT
36717443 TCATTAAAAATTATAAGTGGAATCT
1 TCATTAAAAATTATAAGTGGAATCT
36717468 TC
1 TC
36717470 CATCATCAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (25 bp):
TCATTAAAAATTATAAGTGGAATCT
Found at i:36718438 original size:13 final size:13
Alignment explanation
Indices: 36718399--36718464 Score: 80
Period size: 13 Copynumber: 5.1 Consensus size: 13
36718389 AGTTTGGCAA
36718399 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
36718412 TG-TTGTGGAAAAG
1 TGCTT-TTGAAAAG
* *
36718425 TGTTTTTGAGAAG
1 TGCTTTTGAAAAG
*
36718438 TGCTTTTGATAAG
1 TGCTTTTGAAAAG
36718451 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
36718464 T
1 T
36718465 TTGGTTTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
12 2 0.04
13 41 0.91
14 2 0.04
ACGTcount: A:0.27, C:0.05, G:0.27, T:0.41
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:36721187 original size:414 final size:413
Alignment explanation
Indices: 36720417--36721244 Score: 1622
Period size: 414 Copynumber: 2.0 Consensus size: 413
36720407 AGTGATTTTG
36720417 GGAGAGGAAAAGCTAACGGATGTTATTGCAGTCACTACGGGTATCGTGGTCGTGAATTTTTTTAA
1 GGAGAGGAAAAGCTAACGGATGTTATTGCAGTCACTACGGGTATCGTGGTCGTGAATTTTTTTAA
36720482 AATTCGCACAATTTATTGTAAAACATAATAATTATAATTATAATTATAAAAAGTCACTTTTAATG
66 AATTCGCACAATTTATTGTAAAACATAATAATTATAATTATAATTATAAAAAGTCACTTTTAATG
36720547 ATTTCTAGAGTGTTTTCTAATACTTATGAACTTTTATTAATATGAGATATGAGAACAACTTTTAT
131 ATTTCTAGAGTGTTTTCTAATACTTATGAACTTTTATTAATAT-AGATATGAGAACAACTTTTAT
36720612 AATCATTAATTATTCTTACATTTATTTACGAATTTTCTAAGAACGTTATATTAACTTATAACAAA
195 AATCATTAATTATTCTTACATTTATTTACGAATTTTCTAAGAACGTTATATTAACTTATAACAAA
36720677 GTAAAAATAAAAGGAAACATTAAACATTTATCATATTTAATAAGTTTGAAAGCTTTTATATATAA
260 GTAAAAATAAAAGGAAACATTAAACATTTATCATATTTAATAAGTTTGAAAGCTTTTATATATAA
36720742 AATAATTGAAAATTCATACCTGAGATGTGCCTTCAATATTTCTTGATAGCTTTGAAGATGGTGAA
325 AATAATTGAAAATTCATACCTGAGATGTGCCTTCAATATTTCTTGATAGCTTTGAAGATGGTGAA
36720807 GATATAAACATTCTATGCTGCAAA
390 GATATAAACATTCTATGCTGCAAA
36720831 GGAGAGGAAAAGCTAACGGATGTTATTGCAGTCACTACGGGTATCGTGGTCGTGAATTTTTTTAA
1 GGAGAGGAAAAGCTAACGGATGTTATTGCAGTCACTACGGGTATCGTGGTCGTGAATTTTTTTAA
36720896 AATTCGCACAATTTATTGTAAAACATAATAATTATAATTATAATTATAAAAAGTCACTTTTAATG
66 AATTCGCACAATTTATTGTAAAACATAATAATTATAATTATAATTATAAAAAGTCACTTTTAATG
36720961 ATTTCTAGAGTGTTTTCTAATACTTATGAACTTTTATTAATAT-GATATGAGAACACAACTTTTA
131 ATTTCTAGAGTGTTTTCTAATACTTATGAACTTTTATTAATATAGATATGAG-A-ACAACTTTTA
36721025 TAATCATTAATTATTCTTACATTTATTTACGAATTTTCTAAGAACGTTATATTAACTTATAACAA
194 TAATCATTAATTATTCTTACATTTATTTACGAATTTTCTAAGAACGTTATATTAACTTATAACAA
36721090 AGTAAAAATAAAAGGAAACATTAAACATTTATCATATTTAATAAGTTTGAAAGCTTTTATATATA
259 AGTAAAAATAAAAGGAAACATTAAACATTTATCATATTTAATAAGTTTGAAAGCTTTTATATATA
36721155 AAATAATTGAAAATTCATACCTGAGATGTGCCTTCAATATTTCTTGATAGCTTTGAAGATGGTGA
324 AAATAATTGAAAATTCATACCTGAGATGTGCCTTCAATATTTCTTGATAGCTTTGAAGATGGTGA
36721220 AGATATAAACATTCTATGCTGCAAA
389 AGATATAAACATTCTATGCTGCAAA
36721245 AGGAAAAAAA
Statistics
Matches: 412, Mismatches: 0, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
412 8 0.02
413 1 0.00
414 403 0.98
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (413 bp):
GGAGAGGAAAAGCTAACGGATGTTATTGCAGTCACTACGGGTATCGTGGTCGTGAATTTTTTTAA
AATTCGCACAATTTATTGTAAAACATAATAATTATAATTATAATTATAAAAAGTCACTTTTAATG
ATTTCTAGAGTGTTTTCTAATACTTATGAACTTTTATTAATATAGATATGAGAACAACTTTTATA
ATCATTAATTATTCTTACATTTATTTACGAATTTTCTAAGAACGTTATATTAACTTATAACAAAG
TAAAAATAAAAGGAAACATTAAACATTTATCATATTTAATAAGTTTGAAAGCTTTTATATATAAA
ATAATTGAAAATTCATACCTGAGATGTGCCTTCAATATTTCTTGATAGCTTTGAAGATGGTGAAG
ATATAAACATTCTATGCTGCAAA
Found at i:36721656 original size:18 final size:18
Alignment explanation
Indices: 36721629--36721667 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
36721619 CTTGGTTTTC
* *
36721629 ATATAATTGATATGGAGG
1 ATATAATTGAGAAGGAGG
*
36721647 ATATATTTGAGAAGGAGG
1 ATATAATTGAGAAGGAGG
36721665 ATA
1 ATA
36721668 CATGAGAGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.31
Consensus pattern (18 bp):
ATATAATTGAGAAGGAGG
Found at i:36722648 original size:14 final size:14
Alignment explanation
Indices: 36722610--36722652 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
36722600 CAAAATGTAC
36722610 AATATAATTAAA-T
1 AATATAATTAAATT
36722623 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
36722638 AA-ATAATTTAATT
1 AATATAATTAAATT
36722651 AA
1 AA
36722653 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:36738706 original size:17 final size:17
Alignment explanation
Indices: 36738684--36738717 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
36738674 GGCAACAACA
36738684 AAGAATACTAATACTTT
1 AAGAATACTAATACTTT
36738701 AAGAATACTAATACTTT
1 AAGAATACTAATACTTT
36738718 GGCACATCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (17 bp):
AAGAATACTAATACTTT
Found at i:36743255 original size:5 final size:5
Alignment explanation
Indices: 36743245--36743270 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
36743235 TGAGCATTCG
36743245 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
36743271 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:36744504 original size:9 final size:9
Alignment explanation
Indices: 36744490--36744526 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
36744480 NNNNNTTTGA
36744490 TATTCGAAT
1 TATTCGAAT
36744499 TATTCGAAT
1 TATTCGAAT
*
36744508 TATTCGAGT
1 TATTCGAAT
36744517 TATTCGAAT
1 TATTCGAAT
36744526 T
1 T
36744527 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:36770116 original size:41 final size:41
Alignment explanation
Indices: 36770056--36770197 Score: 194
Period size: 41 Copynumber: 3.5 Consensus size: 41
36770046 GAACCAAGTA
* * * *
36770056 TTTGAAAAAGCACCGCTAATGCTGGTGGCTTTAGCGGCATT
1 TTTGAGAAAGCGCCACTAATGCTGGTGGCTTTAGCGGCGTT
*
36770097 TTTGAGAAAGCGTCACTAATGCTGGTGGCTTTAGCGGCGTT
1 TTTGAGAAAGCGCCACTAATGCTGGTGGCTTTAGCGGCGTT
* * *
36770138 TTTGAGAAAACGCCGCTAATGCTGGGGGCTTTAGCGGCGTT
1 TTTGAGAAAGCGCCACTAATGCTGGTGGCTTTAGCGGCGTT
* *
36770179 TTTGAAAAAGCGCCTCTAA
1 TTTGAGAAAGCGCCACTAA
36770198 AAACATTTTA
Statistics
Matches: 89, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 89 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (41 bp):
TTTGAGAAAGCGCCACTAATGCTGGTGGCTTTAGCGGCGTT
Found at i:36770607 original size:15 final size:15
Alignment explanation
Indices: 36770587--36770620 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
36770577 TAGGATTTAA
*
36770587 GGTTTAAGGGTTATG
1 GGTTTAAGGGTTAGG
*
36770602 GGTTTATGGGTTAGG
1 GGTTTAAGGGTTAGG
36770617 GGTT
1 GGTT
36770621 AGAGGTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.44, T:0.41
Consensus pattern (15 bp):
GGTTTAAGGGTTAGG
Found at i:36770636 original size:7 final size:7
Alignment explanation
Indices: 36770583--36770642 Score: 50
Period size: 7 Copynumber: 8.4 Consensus size: 7
36770573 AGGCTAGGAT
*
36770583 TTAAGGT
1 TTAAGGG
36770590 TTAAGGG
1 TTAAGGG
*
36770597 TTATGGG
1 TTAAGGG
*
36770604 TTTATGGG
1 -TTAAGGG
*
36770612 TTAGGGG
1 TTAAGGG
36770619 TT-AGAGG
1 TTAAG-GG
36770626 TTAAGGG
1 TTAAGGG
*
36770633 TTAAGAG
1 TTAAGGG
36770640 TTA
1 TTA
36770643 GTGATTTAGG
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
6 1 0.02
7 35 0.78
8 9 0.20
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.37
Consensus pattern (7 bp):
TTAAGGG
Found at i:36770797 original size:14 final size:14
Alignment explanation
Indices: 36770775--36770904 Score: 66
Period size: 14 Copynumber: 9.1 Consensus size: 14
36770765 TTAATTATCA
*
36770775 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
*
36770789 TTATGGTTTGGGGT
1 TTATGGTTTAGGGT
* *
36770803 ATATGTTTTAGGGT
1 TTATGGTTTAGGGT
** * *
36770817 TTAAAGTTTAAAAGAT
1 TTATGGTTT--AGGGT
*
36770833 GTTAT--TTTAAGGT
1 -TTATGGTTTAGGGT
*
36770846 TTATGGATTATGGGT
1 TTATGGTTTA-GGGT
* * *
36770861 TTAGGGTTTATGAT
1 TTATGGTTTAGGGT
*
36770875 TTATGGTTTATGGT
1 TTATGGTTTAGGGT
*
36770889 TTACGGTTTAAGGGT
1 TTATGGTTT-AGGGT
36770904 T
1 T
36770905 GGGGTTCAAG
Statistics
Matches: 86, Mismatches: 23, Indels: 13
0.70 0.19 0.11
Matches are distributed among these distances:
12 4 0.05
13 4 0.05
14 53 0.62
15 19 0.22
16 3 0.03
17 3 0.03
ACGTcount: A:0.22, C:0.01, G:0.28, T:0.48
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:36770867 original size:7 final size:7
Alignment explanation
Indices: 36770838--36770956 Score: 53
Period size: 7 Copynumber: 16.7 Consensus size: 7
36770828 AAGATGTTAT
*
36770838 TTTAAGG
1 TTTAGGG
*
36770845 TTTATGG
1 TTTAGGG
*
36770852 ATTATGGG
1 TTTA-GGG
36770860 TTTAGGG
1 TTTAGGG
* *
36770867 TTTATGA
1 TTTAGGG
*
36770874 TTTATGG
1 TTTAGGG
*
36770881 TTTATGG
1 TTTAGGG
*
36770888 TTTACGG
1 TTTAGGG
36770895 TTTAAGGG
1 TTT-AGGG
*
36770903 -TTGGGG
1 TTTAGGG
* * *
36770909 TTCAAGA
1 TTTAGGG
36770916 TTTAGGG
1 TTTAGGG
* *
36770923 GTTA-AG
1 TTTAGGG
36770929 TATTAGGG
1 T-TTAGGG
*
36770937 GTTAGGGG
1 TTTA-GGG
36770945 TTTAGGG
1 TTTAGGG
36770952 TTTAG
1 TTTAG
36770957 ATTAATTAGT
Statistics
Matches: 83, Mismatches: 23, Indels: 12
0.70 0.19 0.10
Matches are distributed among these distances:
6 4 0.05
7 64 0.77
8 15 0.18
ACGTcount: A:0.20, C:0.02, G:0.35, T:0.43
Consensus pattern (7 bp):
TTTAGGG
Found at i:36770898 original size:21 final size:22
Alignment explanation
Indices: 36770838--36770904 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 22
36770828 AAGATGTTAT
*
36770838 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGTTTATGGTTTATGGG
* *
36770860 TTTAGGGTTTATGATTTAT-GG
1 TTTAAGGTTTATGGTTTATGGG
* * *
36770881 TTTATGGTTTACGGTTTAAGGG
1 TTTAAGGTTTATGGTTTATGGG
36770903 TT
1 TT
36770905 GGGGTTCAAG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
21 17 0.46
22 20 0.54
ACGTcount: A:0.19, C:0.01, G:0.30, T:0.49
Consensus pattern (22 bp):
TTTAAGGTTTATGGTTTATGGG
Found at i:36772341 original size:43 final size:43
Alignment explanation
Indices: 36772269--36772412 Score: 200
Period size: 43 Copynumber: 3.3 Consensus size: 43
36772259 CGCTAAAAGG
* * *
36772269 CATGATCTTTAGCGGCGTTTGTGGGTAAAA-CGCCACCAAAGAT
1 CATGTTCTTTAGCGGCGTTTGT-GATAAAAGCGCCACTAAAGAT
* * *
36772312 CATGTTATTTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGT
1 CATGTT-CTTTAGCGGCGTTTGTGATAAAAGCGCCACTAAAGAT
36772356 CATGTTCTTTAGCGGCGTTTGTGATAAAAGCGCCACTAAAGAT
1 CATGTTCTTTAGCGGCGTTTGTGATAAAAGCGCCACTAAAGAT
*
36772399 CATGTTCTATAGCG
1 CATGTTCTTTAGCG
36772413 TTTTTTCACA
Statistics
Matches: 89, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
43 58 0.65
44 31 0.35
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (43 bp):
CATGTTCTTTAGCGGCGTTTGTGATAAAAGCGCCACTAAAGAT
Found at i:36772426 original size:43 final size:43
Alignment explanation
Indices: 36772294--36772426 Score: 115
Period size: 43 Copynumber: 3.1 Consensus size: 43
36772284 CGTTTGTGGG
* * * ***
36772294 TAAAA-CGCCACCAAAGATCATGTTATTTTAGCGGCGTTTGTGA
1 TAAAAGCGCCACTAAAGATCATGTT-CTATAGCGGCGTTTCACA
* * * ***
36772337 TAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGA
1 TAAAAGCGCCACTAAAGATCATGTTCTATAGCGGCGTTTCACA
***
36772380 TAAAAGCGCCACTAAAGATCATGTTCTATAGCGTTTTTTCACA
1 TAAAAGCGCCACTAAAGATCATGTTCTATAGCGGCGTTTCACA
36772423 TAAA
1 TAAA
36772427 CGTCGCAAAA
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
43 60 0.79
44 16 0.21
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (43 bp):
TAAAAGCGCCACTAAAGATCATGTTCTATAGCGGCGTTTCACA
Found at i:36772696 original size:22 final size:22
Alignment explanation
Indices: 36772666--36772739 Score: 103
Period size: 22 Copynumber: 3.4 Consensus size: 22
36772656 TGCTAGGCAC
36772666 TAAGCCTGAATAACACCGACAT
1 TAAGCCTGAATAACACCGACAT
* *
36772688 TAAGACTGAATAACACCGGCAT
1 TAAGCCTGAATAACACCGACAT
* *
36772710 TAAGCCTGAATAAAACCGACAC
1 TAAGCCTGAATAACACCGACAT
*
36772732 TAATCCTG
1 TAAGCCTG
36772740 CTAGGCACTA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.41, C:0.26, G:0.15, T:0.19
Consensus pattern (22 bp):
TAAGCCTGAATAACACCGACAT
Found at i:36773492 original size:35 final size:35
Alignment explanation
Indices: 36773453--36773526 Score: 148
Period size: 35 Copynumber: 2.1 Consensus size: 35
36773443 CCAATTGAAG
36773453 CTTTACAAAATAATAGCATGAACCCTAATTTTTTT
1 CTTTACAAAATAATAGCATGAACCCTAATTTTTTT
36773488 CTTTACAAAATAATAGCATGAACCCTAATTTTTTT
1 CTTTACAAAATAATAGCATGAACCCTAATTTTTTT
36773523 CTTT
1 CTTT
36773527 CTCTCCTTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.42
Consensus pattern (35 bp):
CTTTACAAAATAATAGCATGAACCCTAATTTTTTT
Found at i:36778713 original size:43 final size:42
Alignment explanation
Indices: 36778652--36778816 Score: 142
Period size: 43 Copynumber: 3.9 Consensus size: 42
36778642 GATTTCGATA
* *
36778652 TGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCAACT
1 TGTGTTTACGTGTAAGACCACGTCTAGGACGTTGGCATCAA-T
** * * *
36778695 TGTGTTTACGTGTAAGACCATATCTAAGACATTGGCATCGTAT
1 TGTGTTTACGTGTAAGACCACGTCTAGGACGTTGGCATC-AAT
*
36778738 T-TGATTT--GTGTAAGACC-CTGTCTAGGACAG-TGGCATCGAT
1 TGTG-TTTACGTGTAAGACCAC-GTCTAGGAC-GTTGGCATCAAT
* * *
36778778 ATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 -TGTGTTTACGTGTAAGACCACGTCTAGGACGTTGGCAT
36778817 TGTACGAGTC
Statistics
Matches: 97, Mismatches: 15, Indels: 20
0.73 0.11 0.15
Matches are distributed among these distances:
40 2 0.02
41 27 0.28
42 5 0.05
43 61 0.63
44 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (42 bp):
TGTGTTTACGTGTAAGACCACGTCTAGGACGTTGGCATCAAT
Found at i:36778772 original size:41 final size:42
Alignment explanation
Indices: 36778704--36778785 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 42
36778694 TTGTGTTTAC
* *
36778704 GTGTAAGACCATATCTAAGACATTGGCATCG-TATTTGATTT
1 GTGTAAGACCATATCTAAGACAGTGGCATCGATATGTGATTT
* * *
36778745 GTGTAAGACCCTGTCTAGGACAGTGGCATCGATATGTGATT
1 GTGTAAGACCATATCTAAGACAGTGGCATCGATATGTGATT
36778786 ACATGTAAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
41 27 0.77
42 8 0.23
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (42 bp):
GTGTAAGACCATATCTAAGACAGTGGCATCGATATGTGATTT
Found at i:36779006 original size:16 final size:17
Alignment explanation
Indices: 36778977--36779008 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
36778967 TGAATTGATG
36778977 ATATGAAGTTATGTGAA
1 ATATGAAGTTATGTGAA
36778994 ATATGAA-TTATGTGA
1 ATATGAAGTTATGTGA
36779009 TTGCATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (17 bp):
ATATGAAGTTATGTGAA
Found at i:36782047 original size:26 final size:26
Alignment explanation
Indices: 36782009--36782059 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
36781999 GTTTCAAGGA
*
36782009 AAGTCACAATGGTGTCGTTCCGAGGC
1 AAGTCACAATGGTGTCATTCCGAGGC
* * *
36782035 AAGTCATATTGGTGTCATTCTGAGG
1 AAGTCACAATGGTGTCATTCCGAGG
36782060 ACGCAACAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (26 bp):
AAGTCACAATGGTGTCATTCCGAGGC
Found at i:36804857 original size:14 final size:14
Alignment explanation
Indices: 36804817--36804867 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
36804807 GTGATGACTA
36804817 ATTAGTTTAATTTCT
1 ATTA-TTTAATTTCT
* *
36804832 ACT-TTGAATTTCT
1 ATTATTTAATTTCT
*
36804845 ATTATTTAATTTCA
1 ATTATTTAATTTCT
*
36804859 ATTAATTAA
1 ATTATTTAA
36804868 ATAATAATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
13 11 0.38
14 16 0.55
15 2 0.07
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.55
Consensus pattern (14 bp):
ATTATTTAATTTCT
Found at i:36826616 original size:2 final size:2
Alignment explanation
Indices: 36826609--36826637 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
36826599 ATCCAGTTTC
36826609 CT CT CT CT CT CT CT CT CT CT CT CT C- CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
36826638 TGTCACTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:36827980 original size:3 final size:3
Alignment explanation
Indices: 36827972--36828012 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
36827962 TACTACATAC
36827972 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
36828013 ACATTTATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:36830217 original size:44 final size:43
Alignment explanation
Indices: 36830168--36830254 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 43
36830158 GTGATCAGTC
*
36830168 TACATCAAGAAAATTTGCATCAATCA-AGAAATAGAATAAAACAA
1 TACATCAACAAAATTTGCATCAATCAGA-AAATAG-ATAAAACAA
*
36830212 TACATCAACAATATTTGCATCAATCAGAAAATAGATAAAACAA
1 TACATCAACAAAATTTGCATCAATCAGAAAATAGATAAAACAA
36830255 CAATCAGATT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
43 9 0.22
44 30 0.75
45 1 0.03
ACGTcount: A:0.55, C:0.15, G:0.08, T:0.22
Consensus pattern (43 bp):
TACATCAACAAAATTTGCATCAATCAGAAAATAGATAAAACAA
Found at i:36831959 original size:11 final size:10
Alignment explanation
Indices: 36831936--36831985 Score: 73
Period size: 10 Copynumber: 4.7 Consensus size: 10
36831926 CTATTTGTTC
36831936 TCTTTCTTTTT
1 TCTTT-TTTTT
36831947 TCTTTTTTCTT
1 TCTTTTTT-TT
36831958 TCTTTTTTTTT
1 TC-TTTTTTTT
36831969 TCTTTTTTTT
1 TCTTTTTTTT
36831979 TCTTTTT
1 TCTTTTT
36831986 AAAGTTTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
10 18 0.49
11 13 0.35
12 6 0.16
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:36831961 original size:22 final size:21
Alignment explanation
Indices: 36831936--36831983 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 21
36831926 CTATTTGTTC
36831936 TCTTTCTTTTTTCTTTTTTCTT
1 TCTTTCTTTTTTCTTTTTT-TT
*
36831958 TCTTTTTTTTTTCTTTTTTTT
1 TCTTTCTTTTTTCTTTTTTTT
36831979 TCTTT
1 TCTTT
36831984 TTAAAGTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (21 bp):
TCTTTCTTTTTTCTTTTTTTT
Found at i:36831985 original size:7 final size:7
Alignment explanation
Indices: 36831938--36831976 Score: 60
Period size: 7 Copynumber: 5.4 Consensus size: 7
36831928 ATTTGTTCTC
36831938 TTTCTTT
1 TTTCTTT
36831945 TTTCTTT
1 TTTCTTT
36831952 TTTCTTT
1 TTTCTTT
*
36831959 CTTTTTTT
1 -TTTCTTT
36831967 TTTCTTT
1 TTTCTTT
36831974 TTT
1 TTT
36831977 TTTCTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 23 0.79
8 6 0.21
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTCTTT
Found at i:36834836 original size:2 final size:2
Alignment explanation
Indices: 36834829--36834863 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
36834819 CATTCGTGGT
36834829 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
36834864 AACCCAACGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:36836125 original size:2 final size:2
Alignment explanation
Indices: 36836118--36836142 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
36836108 TTTCAAAACC
36836118 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
36836143 ACAAGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36838006 original size:17 final size:16
Alignment explanation
Indices: 36837964--36838000 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
36837954 AAACCCCGAA
36837964 AACCCGAAAAACAAAG
1 AACCCGAAAAACAAAG
*
36837980 AACCCGAAAAATAAAG
1 AACCCGAAAAACAAAG
36837996 AACCC
1 AACCC
36838001 TTAAAACGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.59, C:0.27, G:0.11, T:0.03
Consensus pattern (16 bp):
AACCCGAAAAACAAAG
Found at i:36838137 original size:24 final size:24
Alignment explanation
Indices: 36838110--36838161 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
36838100 TTAGTAAGTC
*
36838110 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
36838134 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
36838158 AAAT
1 AAAT
36838162 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:36841118 original size:20 final size:19
Alignment explanation
Indices: 36841064--36841124 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 19
36841054 TGTTGGAGTT
36841064 TGAATCGAATTAAACAACAAA
1 TGAATCG-ATTAAACAA-AAA
* *
36841085 -GAATTGGTTTAAACAAAAA
1 TGAA-TCGATTAAACAAAAA
36841104 TGAATCGATTCAAACAGAAAA
1 TGAATCGATT-AAACA-AAAA
36841125 ATAATTGATT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
19 7 0.22
20 19 0.59
21 6 0.19
ACGTcount: A:0.54, C:0.11, G:0.13, T:0.21
Consensus pattern (19 bp):
TGAATCGATTAAACAAAAA
Found at i:36841134 original size:21 final size:22
Alignment explanation
Indices: 36841099--36841144 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
36841089 TGGTTTAAAC
36841099 AAAAATGAATCGATTCAAACAG
1 AAAAATGAATCGATTCAAACAG
* * *
36841121 AAAAAT-AATTGATTTAAATAG
1 AAAAATGAATCGATTCAAACAG
36841142 AAA
1 AAA
36841145 GACAATCAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.59, C:0.07, G:0.11, T:0.24
Consensus pattern (22 bp):
AAAAATGAATCGATTCAAACAG
Found at i:36842812 original size:26 final size:26
Alignment explanation
Indices: 36842776--36842829 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
36842766 AAACCATTTT
36842776 TAGGATTTTGCATATTTCTAGAAAAC
1 TAGGATTTTGCATATTTCTAGAAAAC
36842802 TAGGATTTTGCATATTTCTAGAAAAC
1 TAGGATTTTGCATATTTCTAGAAAAC
36842828 TA
1 TA
36842830 AGTCTAAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (26 bp):
TAGGATTTTGCATATTTCTAGAAAAC
Found at i:36843400 original size:45 final size:45
Alignment explanation
Indices: 36843329--36843459 Score: 165
Period size: 45 Copynumber: 2.9 Consensus size: 45
36843319 TATACGCTTG
*
36843329 AAATGAATAAGACCATAGCTGAAAGATGCTATGACATCATGACA-
1 AAATGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGACAT
* * * * *
36843373 AGGATGAGTAAGACCATAGCTAAAAGATGCTATGGCATCGTGATAT
1 A-AATGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGACAT
* * *
36843419 AAATTAGTAAGACCATGGCTGAAAGATGATATGACATCATG
1 AAATGAGTAAGACCATAGCTGAAAGATGCTATGACATCATG
36843460 GTAAATAGAA
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
44 1 0.01
45 70 0.97
46 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.23
Consensus pattern (45 bp):
AAATGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGACAT
Found at i:36843499 original size:90 final size:89
Alignment explanation
Indices: 36843336--36843501 Score: 201
Period size: 90 Copynumber: 1.8 Consensus size: 89
36843326 TTGAAATGAA
* * * *
36843336 TAAGACCATAGCTGAAAGATGCTATGACATCATGACAAGGATGAGTAAGACCATAGCTAAAAGAT
1 TAAGACCATAGCTGAAAGATGATATGACATCATGACAA-GATGACTAAAACCATAGCTAAAAGAC
36843401 GCTATGGCATCGTGATATAAATTAG
65 GCTATGGCATCGTGATATAAATTAG
* ** * *
36843426 TAAGACCATGGCTGAAAGATGATATGACATCATGGTAA-ATAGAACTAAAACCATAGTTGAAAGA
1 TAAGACCATAGCTGAAAGATGATATGACATCATGACAAGAT-G-ACTAAAACCATAGCTAAAAGA
36843490 CGCGT-TGGCATC
64 CGC-TATGGCATC
36843502 CTTGATAGTC
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
88 2 0.03
89 1 0.02
90 60 0.94
91 1 0.02
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (89 bp):
TAAGACCATAGCTGAAAGATGATATGACATCATGACAAGATGACTAAAACCATAGCTAAAAGACG
CTATGGCATCGTGATATAAATTAG
Found at i:36845440 original size:122 final size:129
Alignment explanation
Indices: 36845302--36845777 Score: 544
Period size: 134 Copynumber: 3.6 Consensus size: 129
36845292 ACATAGATAA
36845302 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
*
36845367 TAAATAGTTATATTAATTAATTTCAGTC-AAA-AT-A-T-A-AATATTCTTTT-AAAACAATAT
66 TAAACAGTTATATTAATTAATTTCAGTCAAAATATAATTAATAATATTCTTTTGAAAACAATAT
* * * * *
36845424 ATTTAATATATGAATTTGATTCATACAAAATATTAATTCTATATATATTACCGAATTTATTCATG
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
** *
36845489 TAAACAGTTATATTAATTAATTTTGGTCAAAATATAAAAGAATTAAAATTAATATTCTTTTGGAA
66 TAAACAGTTATATTAATTAATTTCAGTCAAAATAT-----AATT--AA-TAATATTCTTTTGAAA
*
36845554 ATAATAT
123 ACAATAT
* *
36845561 AATTAATATATGAATTTGATTCATACGAAATATTAATCGTATATATTTTACCGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
* *
36845626 TAAACA-TT-TA-T-ATTAATTTC-GATCAAAATATAAAAGACATGGAAATTAATATTCTTTTGG
66 TAAACAGTTATATTAATTAATTTCAG-TCAAAATAT-----A-AT--TAA-TAATATTCTTTTGA
*
36845686 AAATAATAT
121 AAACAATAT
* *
36845695 AATTAATATATGAATTTGATTCATACGAAATATTAATCGTATATATTTTACCGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
*
36845760 TAAACATTTATATTAATT
66 TAAACAGTTATATTAATT
36845778 TCGATCAAAA
Statistics
Matches: 312, Mismatches: 19, Indels: 30
0.86 0.05 0.08
Matches are distributed among these distances:
122 85 0.27
123 3 0.01
124 2 0.01
130 1 0.00
131 1 0.00
132 1 0.00
133 23 0.07
134 101 0.32
135 4 0.01
136 15 0.05
137 73 0.23
138 3 0.01
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (129 bp):
AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
TAAACAGTTATATTAATTAATTTCAGTCAAAATATAATTAATAATATTCTTTTGAAAACAATAT
Found at i:36845655 original size:63 final size:63
Alignment explanation
Indices: 36845588--36845790 Score: 153
Period size: 63 Copynumber: 3.1 Consensus size: 63
36845578 GATTCATACG
36845588 AAATATTAATCGTATATATTTTACCGAATTTATTAATATAAACATTTATATTAATTTCGATCA
1 AAATATTAATCGTATATATTTTACCGAATTTATTAATATAAACATTTATATTAATTTCGATCA
* * * *** * * * ** *
36845651 AAATATAAAAGACATGGAAATTAATATTCTTTTGGAAATAATATAAT-TAATATATGAAT-TTGA
1 AAATAT----TA-ATCG-TA-T-ATATT-TTACCGAATTTAT-TAATATAA-ACATTTATATTAA
*
36845714 -TTC-ATACG
55 TTTCGAT-CA
36845722 AAATATTAATCGTATATATTTTACCGAATTTATTAATATAAACATTTATATTAATTTCGATCA
1 AAATATTAATCGTATATATTTTACCGAATTTATTAATATAAACATTTATATTAATTTCGATCA
36845785 AAATAT
1 AAATAT
36845791 AAAAGACATG
Statistics
Matches: 98, Mismatches: 26, Indels: 32
0.63 0.17 0.21
Matches are distributed among these distances:
61 9 0.09
62 14 0.14
63 21 0.21
64 3 0.03
65 1 0.01
66 3 0.03
67 2 0.02
68 3 0.03
69 1 0.01
70 3 0.03
71 15 0.15
72 14 0.14
73 9 0.09
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.41
Consensus pattern (63 bp):
AAATATTAATCGTATATATTTTACCGAATTTATTAATATAAACATTTATATTAATTTCGATCA
Found at i:36845723 original size:134 final size:134
Alignment explanation
Indices: 36845403--36845832 Score: 686
Period size: 134 Copynumber: 3.2 Consensus size: 134
36845393 TCAAAATATA
* * * *
36845403 AATATTCTTTT-AAAACAATATATTTAATATATGAATTTGATTCATACAAAATATTAATTC-TAT
1 AATATTCTTTTGGAAATAATATAATTAATATATGAATTTGATTCATACGAAATATTAA-TCGTAT
* * * * *
36845466 ATATATTACCGAATTTATTCATGTAAACAGTTATATTAATTAATTTTGGTCAAAATATAAAAGA-
65 ATATTTTACCGAATTTATTAATATAAACA-TT-TA-T-ATTAATTTCGATCAAAATATAAAAGAC
**
36845530 ATTAAAATT
126 ATGGAAATT
36845539 AATATTCTTTTGGAAATAATATAATTAATATATGAATTTGATTCATACGAAATATTAATCGTATA
1 AATATTCTTTTGGAAATAATATAATTAATATATGAATTTGATTCATACGAAATATTAATCGTATA
36845604 TATTTTACCGAATTTATTAATATAAACATTTATATTAATTTCGATCAAAATATAAAAGACATGGA
66 TATTTTACCGAATTTATTAATATAAACATTTATATTAATTTCGATCAAAATATAAAAGACATGGA
36845669 AATT
131 AATT
36845673 AATATTCTTTTGGAAATAATATAATTAATATATGAATTTGATTCATACGAAATATTAATCGTATA
1 AATATTCTTTTGGAAATAATATAATTAATATATGAATTTGATTCATACGAAATATTAATCGTATA
36845738 TATTTTACCGAATTTATTAATATAAACATTTATATTAATTTCGATCAAAATATAAAAGACATGGA
66 TATTTTACCGAATTTATTAATATAAACATTTATATTAATTTCGATCAAAATATAAAAGACATGGA
36845803 AATT
131 AATT
*
36845807 AATATTCTTTTGGAAAGAATATAATT
1 AATATTCTTTTGGAAATAATATAATT
36845833 CATTTTTCTA
Statistics
Matches: 279, Mismatches: 12, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
133 24 0.09
134 167 0.60
135 2 0.01
136 15 0.05
137 71 0.25
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.41
Consensus pattern (134 bp):
AATATTCTTTTGGAAATAATATAATTAATATATGAATTTGATTCATACGAAATATTAATCGTATA
TATTTTACCGAATTTATTAATATAAACATTTATATTAATTTCGATCAAAATATAAAAGACATGGA
AATT
Found at i:36846536 original size:33 final size:33
Alignment explanation
Indices: 36846476--36846558 Score: 96
Period size: 33 Copynumber: 2.5 Consensus size: 33
36846466 GGTATGTGTA
**
36846476 TATATATAATATATAAT-CGTATATGGGTTTTGT
1 TATATATAATATAT-ATGCGTATATGGGTCATGT
* *
36846509 TATATATAATATATATGCGTTTTTGGGTCATGT
1 TATATATAATATATATGCGTATATGGGTCATGT
* *
36846542 TTTCTATAATATATATG
1 TATATATAATATATATG
36846559 TATATATGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
32 2 0.05
33 41 0.95
ACGTcount: A:0.31, C:0.05, G:0.14, T:0.49
Consensus pattern (33 bp):
TATATATAATATATATGCGTATATGGGTCATGT
Found at i:36850026 original size:49 final size:48
Alignment explanation
Indices: 36849899--36850034 Score: 148
Period size: 49 Copynumber: 2.8 Consensus size: 48
36849889 GAGATAAATA
* * * *
36849899 GCCACTGGTAGGACATGTTAGTTGCAAACTAGAATGACAGATGTGATGG
1 GCCACTGGTAGGACATGTTAGTTGCTAACCAGATTGGCAGATGT-ATGG
* * *
36849948 ACCACTGGTAGGGCATGCTAGTTGCTAACCAGATTGGCATGTATGT-TGG
1 GCCACTGGTAGGACATGTTAGTTGCTAACCAGATTGGCA-G-ATGTATGG
* * *
36849997 GCCACTAGTAGGACATGTTAGTTGTTAACCAGGTTGGC
1 GCCACTGGTAGGACATGTTAGTTGCTAACCAGATTGGC
36850035 GGCCACTGGT
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
49 67 0.93
50 1 0.01
51 4 0.06
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (48 bp):
GCCACTGGTAGGACATGTTAGTTGCTAACCAGATTGGCAGATGTATGG
Found at i:36856963 original size:54 final size:54
Alignment explanation
Indices: 36856898--36857020 Score: 147
Period size: 54 Copynumber: 2.3 Consensus size: 54
36856888 TTTTCACATG
* * ** *
36856898 GCCTAAGACACGGCTGTGTGTGTCAAGTCACTGAATTACACGGTCTAGCACACA
1 GCCTACGACACGGCCGTGTGTCACAAGTCACAGAATTACACGGTCTAGCACACA
* * * * * *
36856952 GCCTACTACACGGCCGTGTGTCACAAGTTAGAGAGTTACACGGTCTGGCACACG
1 GCCTACGACACGGCCGTGTGTCACAAGTCACAGAATTACACGGTCTAGCACACA
36857006 GCCTACGACACGGCC
1 GCCTACGACACGGCC
36857021 ATGTAACCTA
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.25, C:0.29, G:0.26, T:0.20
Consensus pattern (54 bp):
GCCTACGACACGGCCGTGTGTCACAAGTCACAGAATTACACGGTCTAGCACACA
Found at i:36857042 original size:54 final size:54
Alignment explanation
Indices: 36856933--36857047 Score: 133
Period size: 54 Copynumber: 2.1 Consensus size: 54
36856923 AGTCACTGAA
* * ** * *
36856933 TTACACGGTCTAGCACACAGCCTACTACACGGCCGTGTGTCACAAGTTAGAGAG
1 TTACACGGTCTAGCACACAGCCTACGACACGGCCATGTAACACAACTCAGAGAG
* * *
36856987 TTACACGGTCTGGCACACGGCCTACGACACGGCCATGTAAC-CTAACTCAGTGAG
1 TTACACGGTCTAGCACACAGCCTACGACACGGCCATGTAACAC-AACTCAGAGAG
36857041 TTACACG
1 TTACACG
36857048 ATTTAAGACA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 1 0.02
54 50 0.98
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (54 bp):
TTACACGGTCTAGCACACAGCCTACGACACGGCCATGTAACACAACTCAGAGAG
Found at i:36857618 original size:14 final size:14
Alignment explanation
Indices: 36857601--36857685 Score: 71
Period size: 14 Copynumber: 6.1 Consensus size: 14
36857591 TGTGTCTATC
*
36857601 AATCCGTATGTATG
1 AATCCGCATGTATG
* *
36857615 AATCCACATTTATG
1 AATCCGCATGTATG
* *** *
36857629 GATCTATATCTATG
1 AATCCGCATGTATG
36857643 AATCCGCATGTATG
1 AATCCGCATGTATG
* *
36857657 AATTCGCATTTATG
1 AATCCGCATGTATG
*
36857671 AATCTGCATGTATG
1 AATCCGCATGTATG
36857685 A
1 A
36857686 TTATGTATTT
Statistics
Matches: 54, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 54 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.36
Consensus pattern (14 bp):
AATCCGCATGTATG
Found at i:36857641 original size:42 final size:42
Alignment explanation
Indices: 36857595--36857675 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
36857585 ATAATCTGTG
* *
36857595 TCTATCAATCCGTATGTATGAATCCACATTTATGGATCTATA
1 TCTATCAATCCGCATGTATGAATCCACATTTATGAATCTATA
* * *
36857637 TCTATGAATCCGCATGTATGAATTCGCATTTATGAATCT
1 TCTATCAATCCGCATGTATGAATCCACATTTATGAATCT
36857676 GCATGTATGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (42 bp):
TCTATCAATCCGCATGTATGAATCCACATTTATGAATCTATA
Found at i:36857685 original size:42 final size:42
Alignment explanation
Indices: 36857595--36857685 Score: 110
Period size: 42 Copynumber: 2.2 Consensus size: 42
36857585 ATAATCTGTG
* * * *
36857595 TCTATCAATCCGTATGTATGAATCCACATTTATGGATCTATA
1 TCTATGAATCCGCATGTATGAATCCACATTTATGAATCTACA
* * *
36857637 TCTATGAATCCGCATGTATGAATTCGCATTTATGAATCTGCA
1 TCTATGAATCCGCATGTATGAATCCACATTTATGAATCTACA
*
36857679 TGTATGA
1 TCTATGA
36857686 TTATGTATTT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (42 bp):
TCTATGAATCCGCATGTATGAATCCACATTTATGAATCTACA
Found at i:36860042 original size:65 final size:65
Alignment explanation
Indices: 36859938--36860067 Score: 224
Period size: 65 Copynumber: 2.0 Consensus size: 65
36859928 TTACTAAAAA
* * *
36859938 ATAGTAATTACATCATTTTTCCTAGATAAATGACTCGTGATCACGTTACTTTCTATTATGTAATG
1 ATAGTAATTAAATCATTTTTCCTAGACAAATGACTCGTGATCACGTTACTTTCTATCATGTAATG
*
36860003 ATAGTAATTAAATCATTTTTCCTAGACAAATGACTCGTGATCACGTTACTTTCTATCATTTAATG
1 ATAGTAATTAAATCATTTTTCCTAGACAAATGACTCGTGATCACGTTACTTTCTATCATGTAATG
36860068 TCAATGAGAA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.41
Consensus pattern (65 bp):
ATAGTAATTAAATCATTTTTCCTAGACAAATGACTCGTGATCACGTTACTTTCTATCATGTAATG
Found at i:36860685 original size:20 final size:20
Alignment explanation
Indices: 36860660--36860700 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
36860650 GACGAATAAA
*
36860660 TTTTCTATTGTTGTCCAAAG
1 TTTTCTATTGTCGTCCAAAG
36860680 TTTTCTATTGTCGTCCAAAG
1 TTTTCTATTGTCGTCCAAAG
36860700 T
1 T
36860701 ACTACCGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.49
Consensus pattern (20 bp):
TTTTCTATTGTCGTCCAAAG
Found at i:36862864 original size:2 final size:2
Alignment explanation
Indices: 36862857--36862882 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
36862847 GAAAGAGTGC
36862857 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
36862883 CCTTGACAAT
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:36881716 original size:31 final size:31
Alignment explanation
Indices: 36881647--36881716 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
36881637 AATATAGTGG
*
36881647 CAATGATTTAAATAAATATTTTTGAATAATT
1 CAATGATTTAAATAAATATTTTTAAATAATT
* * *
36881678 TAGTGATTTTAATGAAATA-TTTTAAATAATT
1 CAATGATTTAAAT-AAATATTTTTAAATAATT
36881709 CAATGATT
1 CAATGATT
36881717 ATTTTATAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
31 27 0.84
32 5 0.16
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.46
Consensus pattern (31 bp):
CAATGATTTAAATAAATATTTTTAAATAATT
Found at i:36891822 original size:25 final size:25
Alignment explanation
Indices: 36891715--36891825 Score: 86
Period size: 25 Copynumber: 4.4 Consensus size: 25
36891705 ATTTATGTAT
* * *
36891715 GCTCATACGAGCTATGAATCA-GTA
1 GCTCATACGAGCTGTAAATCAGGGA
* *
36891739 TGCTC-TCACGAGCTGTGATTC-GGGAA
1 -GCTCAT-ACGAGCTGTAAATCAGGG-A
* * *
36891765 GCTTATAAGAGCT-TCAAATTAGGGA
1 GCTCATACGAGCTGT-AAATCAGGGA
36891790 GCTCATACGAGCTGTAAATCAGGGA
1 GCTCATACGAGCTGTAAATCAGGGA
36891815 GCTCATACGAG
1 GCTCATACGAG
36891826 TTGTGGTGTG
Statistics
Matches: 68, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
24 2 0.03
25 60 0.88
26 6 0.09
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (25 bp):
GCTCATACGAGCTGTAAATCAGGGA
Found at i:36895592 original size:26 final size:26
Alignment explanation
Indices: 36895514--36895594 Score: 117
Period size: 26 Copynumber: 3.1 Consensus size: 26
36895504 AACACACCAA
*
36895514 TATCGCAGCAAAGCTGCCAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
* * *
36895540 CATCGCAGCAGAGCTGCCAGTATCAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
*
36895566 TATCGTAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
36895592 TAT
1 TAT
36895595 ATGTGGCAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.20
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:36895839 original size:27 final size:25
Alignment explanation
Indices: 36895801--36895994 Score: 147
Period size: 27 Copynumber: 7.3 Consensus size: 25
36895791 GGTCATAATA
* *
36895801 GTCATTTTACCCTATGGGATTATTTTG
1 GTCATTTTACCCTATGGG--TAATTCG
*
36895828 GTCATTTTACCCTATAGGGATATTTCG
1 GTCATTTTACCCTAT-GGG-TAATTCG
* * *
36895855 GTTATTTTACCCTGTGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGTAATTCG
* * *
36895881 ATCATTTTATCCTGTAGAGGTAATTCG
1 GTCATTTTACCCTAT-G-GGTAATTCG
* *
36895908 GTCATTTTATCCTGTGAGGGTAATTCG
1 GTCATTTTACCCTAT--GGGTAATTCG
36895935 GTCATTTTACCCTATGGGGTTAATTCG
1 GTCATTTTACCCTAT-GGG-TAATTCG
* *
36895962 GTGATTTTACCATATGGGGTAATT-G
1 GTCATTTTACCCTAT-GGGTAATTCG
36895987 GATCATTT
1 G-TCATTT
36895995 ATTGACCTCT
Statistics
Matches: 145, Mismatches: 17, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
25 2 0.01
26 33 0.23
27 105 0.72
28 5 0.03
ACGTcount: A:0.20, C:0.15, G:0.22, T:0.43
Consensus pattern (25 bp):
GTCATTTTACCCTATGGGTAATTCG
Found at i:36895983 original size:80 final size:77
Alignment explanation
Indices: 36895802--36895994 Score: 181
Period size: 80 Copynumber: 2.4 Consensus size: 77
36895792 GTCATAATAG
* * * *
36895802 TCATTTTACCCTATGGGATTATTTTGGTCATTTTACCCTATAGGGATATTTCGGTTATTTTACCC
1 TCATTTTA-CCTATGGG-GTA-ATTGGTCATTTTACCCTATAGGGATAATTCGGTCATTTTACCC
* *
36895867 TGTGGGGTATTTCGA
63 TATGGGGTAATTCGA
* * * *
36895882 TCATTTTATCCTGTAGAGGTAATTCGGTCATTTTATCCTGTGAGGG-TAATTCGGTCATTTTACC
1 TCATTTTA-CCTAT-GGGGTAATT-GGTCATTTTACCCTAT-AGGGATAATTCGGTCATTTTACC
*
36895946 CTATGGGGTTAATTCGG
62 CTATGGGG-TAATTCGA
*
36895963 TGATTTTACCATATGGGGTAATTGGATCATTT
1 TCATTTTACC-TATGGGGTAATTGG-TCATTT
36895995 ATTGACCTCT
Statistics
Matches: 92, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
79 4 0.04
80 67 0.73
81 21 0.23
ACGTcount: A:0.20, C:0.15, G:0.22, T:0.43
Consensus pattern (77 bp):
TCATTTTACCTATGGGGTAATTGGTCATTTTACCCTATAGGGATAATTCGGTCATTTTACCCTAT
GGGGTAATTCGA
Found at i:36896055 original size:83 final size:83
Alignment explanation
Indices: 36895955--36896112 Score: 226
Period size: 83 Copynumber: 1.9 Consensus size: 83
36895945 CCTATGGGGT
* * * *
36895955 TAATTCGGTGATTTTACCATATGGGGTAATTGGATCATTTATTGACCTCTCAAAAGATCTGCAGT
1 TAATTCGGTCATTTTACCATATGGAGTAATTCGATCATTTATCGACCTCTCAAAAGATCTGCAGT
36896020 CGCCTCGAGCAACTTAGG
66 CGCCTCGAGCAACTTAGG
* * * * * *
36896038 TAATTTGGTCATTTTACCCTGTGGAGTAATTCGATCATTTATCGACCTCTCGAAAGGTTTGCAGT
1 TAATTCGGTCATTTTACCATATGGAGTAATTCGATCATTTATCGACCTCTCAAAAGATCTGCAGT
36896103 CGCCTCGAGC
66 CGCCTCGAGC
36896113 GATTCAAGTA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
83 65 1.00
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.34
Consensus pattern (83 bp):
TAATTCGGTCATTTTACCATATGGAGTAATTCGATCATTTATCGACCTCTCAAAAGATCTGCAGT
CGCCTCGAGCAACTTAGG
Found at i:36905801 original size:21 final size:21
Alignment explanation
Indices: 36905755--36905801 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
36905745 ATAAACCATG
* *
36905755 TTTTATTTTAATTAATTTCCA
1 TTTTACTTAAATTAATTTCCA
*
36905776 ATTTACTTAAATTAATCTT-CA
1 TTTTACTTAAATTAAT-TTCCA
36905797 TTTTA
1 TTTTA
36905802 TATTATCATC
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTACTTAAATTAATTTCCA
Found at i:36923404 original size:143 final size:144
Alignment explanation
Indices: 36923216--36923710 Score: 556
Period size: 153 Copynumber: 3.3 Consensus size: 144
36923206 AACATGCTCG
* *
36923216 TATTTCAGTCATTTGTTCGTATTTTTTTCCCCGGATTTTATTACTTTAAAAATAATACTATTTTC
1 TATTTCAGCCATTTGTTCGTA-TTTTTTCCCCGAATTTTATTACTTTAAAAATAATACTATTTTC
* *
36923281 TAGTTTT-ATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTTATTGAAA
65 TAGTTTTAATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAAT-AAA
36923345 TTTAAAAAAAAACCCT
129 TTTAAAAAAAAACCCT
36923361 TATTTCAGCCATTTGTTCGT-TTTTTTCCCCGAATTTTATTACTTTAAACAA-AATACTATTTTC
1 TATTTCAGCCATTTGTTCGTATTTTTTCCCCGAATTTTATTACTTTAAA-AATAATACTATTTTC
* *
36923424 TAGTTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTT
65 TAG--------TTTTA-ATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTT
**
36923489 TAAATAAAATTT--AAAAAAACTAT
121 TAAAT-AAATTTAAAAAAAAACCCT
* * * *
36923512 TATTTCGGCCCTTTGTTCTTATTTTTTCCCCGGATTTTATTACTTTTAAAAAATATAATATTTTC
1 TATTTCAGCCATTTGTTCGTATTTTTTCCCCGAATTTTATTAC-TTT--AAAA-ATAATA----C
* *
36923577 TAATTTTATTA-TTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTCTT
58 T-ATTTT-CTAGTTTTA-ATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTT
36923641 TTAAATAAA-TTAAAAAAAAACCCT
120 TTAAATAAATTTAAAAAAAAACCCT
* **
36923665 TATTTCGGCCATTTGTTCGTATTTTTTTACC-AGATTTTATTACTTT
1 TATTTCAGCCATTTGTTCGTATTTTTTCCCCGA-ATTTTATTACTTT
36923711 CAATAAAAAA
Statistics
Matches: 300, Mismatches: 24, Indels: 45
0.81 0.07 0.12
Matches are distributed among these distances:
143 42 0.14
144 2 0.01
145 19 0.06
151 32 0.11
152 27 0.09
153 160 0.53
154 1 0.00
155 4 0.01
156 4 0.01
160 2 0.01
161 5 0.02
162 2 0.01
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.51
Consensus pattern (144 bp):
TATTTCAGCCATTTGTTCGTATTTTTTCCCCGAATTTTATTACTTTAAAAATAATACTATTTTCT
AGTTTTAATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATT
TAAAAAAAAACCCT
Found at i:36923486 original size:153 final size:153
Alignment explanation
Indices: 36923288--36923710 Score: 624
Period size: 153 Copynumber: 2.8 Consensus size: 153
36923278 TTCTAGTTTT
* *
36923288 ATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTTATTGAAATTTAAAAA
1 ATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAAT-AAATTTAAAAA
*
36923353 AAAACCCTTATTTCAGCCATTTGTTCGT-TTTTTTCCCCGAATTTTATTACTTTAAACAAA-ATA
65 AAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTCCCCGAATTTTATTACTTTAAA-AAATATA
* *
36923416 CTATTTTCTAGTTTTATTATTTTAC
129 ATATTTTCTAATTTTATTATTTTAC
* *
36923441 ATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAAATTT--AAA
1 ATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAAT-AAATTTAAAAA
** * * *
36923504 AAAACTATTATTTCGGCCCTTTGTTCTTATTTTTTCCCCGGATTTTATTACTTTTAAAAAATATA
65 AAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTCCCCGAATTTTATTAC-TTTAAAAAATATA
36923569 ATATTTTCTAATTTTATTATTTTAC
129 ATATTTTCTAATTTTATTATTTTAC
*
36923594 ATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTCTTTTAAATAAA-TTAAAAAA
1 ATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTTAAAAAA
**
36923658 AAACCCTTATTTCGGCCATTTGTTCGTATTTTTTTACC-AGATTTTATTACTTT
66 AAACCCTTATTTCGGCCATTTGTTCGTATTTTTTCCCCGA-ATTTTATTACTTT
36923711 CAATAAAAAA
Statistics
Matches: 241, Mismatches: 23, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
151 28 0.12
152 30 0.12
153 183 0.76
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (153 bp):
ATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTTAAAAAA
AAACCCTTATTTCGGCCATTTGTTCGTATTTTTTCCCCGAATTTTATTACTTTAAAAAATATAAT
ATTTTCTAATTTTATTATTTTAC
Found at i:36926194 original size:24 final size:24
Alignment explanation
Indices: 36926142--36926195 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
36926132 TTAATACTTG
*
36926142 TAAATTATAATAAAAATTATATTT
1 TAAATTTTAATAAAAATTATATTT
*
36926166 T-AATTTTCATAAAAA-TATAGTTT
1 TAAATTTTAATAAAAATTATA-TTT
36926189 TAAATTT
1 TAAATTT
36926196 CCACCCTTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 4 0.15
23 16 0.62
24 6 0.23
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (24 bp):
TAAATTTTAATAAAAATTATATTT
Found at i:36926500 original size:2 final size:2
Alignment explanation
Indices: 36926493--36926518 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
36926483 AGGACTTAGA
36926493 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
36926519 GTTTGTTCAT
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:36930561 original size:13 final size:13
Alignment explanation
Indices: 36930540--36930570 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
36930530 TAAGGGAATA
36930540 AGAAATATTATAG
1 AGAAATATTATAG
*
36930553 AGAATTATTATAG
1 AGAAATATTATAG
36930566 AGAAA
1 AGAAA
36930571 GGGAATAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.16, T:0.29
Consensus pattern (13 bp):
AGAAATATTATAG
Found at i:36937378 original size:7 final size:7
Alignment explanation
Indices: 36937366--36937390 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
36937356 ACTATTTAAA
36937366 TTAACAT
1 TTAACAT
36937373 TTAACAT
1 TTAACAT
36937380 TTAACAT
1 TTAACAT
36937387 TTAA
1 TTAA
36937391 AAATTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (7 bp):
TTAACAT
Found at i:36938556 original size:19 final size:20
Alignment explanation
Indices: 36938518--36938557 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
36938508 TAAAAAATAT
* *
36938518 ATTAATATTTATATATTTTA
1 ATTAATATTTAAATAATTTA
36938538 ATTAA-ATTTAAATAATTTA
1 ATTAATATTTAAATAATTTA
36938557 A
1 A
36938558 AAAAAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTAATATTTAAATAATTTA
Found at i:36944661 original size:36 final size:36
Alignment explanation
Indices: 36944618--36944690 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
36944608 TTGTTTACTA
* * *
36944618 GCGATATAAAATGTAAAATGTGCGAACGATTTGTTG
1 GCGATATAAAATGTAAAAAGTGCAAACGATTCGTTG
*
36944654 GCGATATAAAATGTAAAAAGTGCAAACTATTCGTTG
1 GCGATATAAAATGTAAAAAGTGCAAACGATTCGTTG
36944690 G
1 G
36944691 AATATGAGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (36 bp):
GCGATATAAAATGTAAAAAGTGCAAACGATTCGTTG
Found at i:36947398 original size:51 final size:50
Alignment explanation
Indices: 36947215--36947559 Score: 295
Period size: 51 Copynumber: 6.8 Consensus size: 50
36947205 ACTTTTATCA
* * *
36947215 TTCGATACACGTAGTAGCCTTCACATTGTACTACACACGTGATC-AAGTT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
* * * **
36947264 TTACGGTTCATGTAGTAGCCTTTACATAGTACTACACACGTGA-TTAAGTT
1 TT-CGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
* * * **
36947314 TTACGGTTCACGTAGTAGCCTTCACATAATACTACACACGTGACAAAAAAAT
1 TT-CGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGAC-CAAAGTT
* * * * *
36947366 TTCGGTACACATAGTAGCCTTCACTTAGTACTACAAATGTGACCATCA-TT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGTT
* * * *
36947416 TATCGATTCACGTAGTAGCCTTCACACAATACTACACACGTGACCAAAGCTT
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAG-TT
* * * * * *
36947468 CTT-GGTACACATTGTAGCCTTCACTTAGTACTACAAATGTGACCATCA-TT
1 -TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGTT
* * *
36947518 TATCGATACACGTAGTAGCTTTCACACAGTACTACACACGTG
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTG
36947560 TTCATCGATA
Statistics
Matches: 235, Mismatches: 49, Indels: 22
0.77 0.16 0.07
Matches are distributed among these distances:
49 3 0.01
50 87 0.37
51 135 0.57
52 9 0.04
53 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (50 bp):
TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
Found at i:36947441 original size:102 final size:100
Alignment explanation
Indices: 36947216--36947559 Score: 386
Period size: 102 Copynumber: 3.4 Consensus size: 100
36947206 CTTTTATCAT
*** * * **
36947216 TCGATACACGTAGTAGCCTTCACATTGTACTACACACGTGATC-AAGTTTTACGGTTCATGTAGT
1 TCGATACACGTAGTAGCCTTCACACAATACTACACACGTGA-CAAAGATTT-CGGTACACATAGT
* * * * ** ***
36947280 AGCCTTTACATAGTACTACACACGTGATTAAGTTTTA
64 AGCCTTCACTTAGTACTACAAATGTGACCATCATTTA
* * * *
36947317 -CGGTTCACGTAGTAGCCTTCACATAATACTACACACGTGACAAAAAAATTTCGGTACACATAGT
1 TCGATACACGTAGTAGCCTTCACACAATACTACACACGTGAC--AAAGATTTCGGTACACATAGT
36947381 AGCCTTCACTTAGTACTACAAATGTGACCATCATTTA
64 AGCCTTCACTTAGTACTACAAATGTGACCATCATTTA
* * * *
36947418 TCGATTCACGTAGTAGCCTTCACACAATACTACACACGTGACCAAAGCTTCTTGGTACACATTGT
1 TCGATACACGTAGTAGCCTTCACACAATACTACACACGTGA-CAAAGATT-TCGGTACACATAGT
36947483 AGCCTTCACTTAGTACTACAAATGTGACCATCATTTA
64 AGCCTTCACTTAGTACTACAAATGTGACCATCATTTA
* *
36947520 TCGATACACGTAGTAGCTTTCACACAGTACTACACACGTG
1 TCGATACACGTAGTAGCCTTCACACAATACTACACACGTG
36947560 TTCATCGATA
Statistics
Matches: 210, Mismatches: 27, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
99 1 0.00
100 36 0.17
101 43 0.20
102 129 0.61
103 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (100 bp):
TCGATACACGTAGTAGCCTTCACACAATACTACACACGTGACAAAGATTTCGGTACACATAGTAG
CCTTCACTTAGTACTACAAATGTGACCATCATTTA
Found at i:36951567 original size:24 final size:24
Alignment explanation
Indices: 36951527--36951573 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
36951517 AAAGGGAAAT
*
36951527 AAGAGAAAGTGATGGAAAATGTTG
1 AAGAGAAAGTGAAGGAAAATGTTG
*
36951551 AAGAGAAAG-GAAAGGAAAGTGTT
1 AAGAGAAAGTG-AAGGAAAATGTT
36951574 ATAAATTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.49, C:0.00, G:0.34, T:0.17
Consensus pattern (24 bp):
AAGAGAAAGTGAAGGAAAATGTTG
Found at i:36957710 original size:21 final size:21
Alignment explanation
Indices: 36957684--36957727 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
36957674 CAAGCATTTT
36957684 TTTTTCTTAAAACTAAAGCAG
1 TTTTTCTTAAAACTAAAGCAG
36957705 TTTTTCTTAAAACTAAAGCAG
1 TTTTTCTTAAAACTAAAGCAG
36957726 TT
1 TT
36957728 AGGTAATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (21 bp):
TTTTTCTTAAAACTAAAGCAG
Found at i:36962220 original size:92 final size:92
Alignment explanation
Indices: 36962058--36962821 Score: 1242
Period size: 92 Copynumber: 8.3 Consensus size: 92
36962048 CAACAATATA
*
36962058 TATATTCATATACGAATCAATTCGGCAACTTATCTTCATATACAAATCAATTTCGATAATGTATA
1 TATAATCATATACGAATCAATTCGGCAACTTATCTTCATATACAAATCAATTTCGATAATGTATA
* *
36962123 ACCATATACAAATAAATTTTAACAAAG
66 ACCATATACAAATAAATTTCAGCAAAG
*
36962150 TATAATCATATACGAATCAATTCGGCAACTTATCTTCATATACAAATCAATTTCGATAATGCATA
1 TATAATCATATACGAATCAATTCGGCAACTTATCTTCATATACAAATCAATTTCGATAATGTATA
* *
36962215 ACCATATACAAATAAATTTTAGCAATG
66 ACCATATACAAATAAATTTCAGCAAAG
* * *
36962242 CATAATTATATACGAATCAATTCGGCAACTTATCTTCATTTACAAATCAATTTCGATAATGTATA
1 TATAATCATATACGAATCAATTCGGCAACTTATCTTCATATACAAATCAATTTCGATAATGTATA
* * *
36962307 ACCATATATAGATAAATTTCAGCAATG
66 ACCATATACAAATAAATTTCAGCAAAG
* *
36962334 TCTAATCATATACGAATCAATTCGACAACTTATCTTCATATACAAATCAATTTCGATAATGTATA
1 TATAATCATATACGAATCAATTCGGCAACTTATCTTCATATACAAATCAATTTCGATAATGTATA
*
36962399 ACCATATACAAATATATTTCAGCAAAG
66 ACCATATACAAATAAATTTCAGCAAAG
* * *
36962426 TATAATCATATACGAATCAATTCAGCAATTTATCTTCATATACAAATCAATTTTGATAATGTATA
1 TATAATCATATACGAATCAATTCGGCAACTTATCTTCATATACAAATCAATTTCGATAATGTATA
36962491 ACCATATACAAATAAATTTCAGCAAAG
66 ACCATATACAAATAAATTTCAGCAAAG
36962518 TATAATCATATACGAATCAATTCGGCAACTTATCTTCATATACAAATCAATTTCGATAATGTATA
1 TATAATCATATACGAATCAATTCGGCAACTTATCTTCATATACAAATCAATTTCGATAATGTATA
*
36962583 ACCATATACAAATAAATTTCAGCAATG
66 ACCATATACAAATAAATTTCAGCAAAG
* * *
36962610 TATAATTATATACGAATCAATTCGACAACTTATCTTCATTTACAAATCAATTTCGATAATGTATA
1 TATAATCATATACGAATCAATTCGGCAACTTATCTTCATATACAAATCAATTTCGATAATGTATA
36962675 ACCATATACAAATAAATTTCA-CAAATG
66 ACCATATACAAATAAATTTCAGCAAA-G
* * * *
36962702 TATAATCATATACGAATCAATTTGACAACTTATCTTTATATACAAATCAATTTCGATAATATATA
1 TATAATCATATACGAATCAATTCGGCAACTTATCTTCATATACAAATCAATTTCGATAATGTATA
* *
36962767 ACCATATACAAATAAATTTTAGCAATG
66 ACCATATACAAATAAATTTCAGCAAAG
* *
36962794 TATAATTATATACGAATTAATTCGGCAA
1 TATAATCATATACGAATCAATTCGGCAA
36962822 TGTATAAAAC
Statistics
Matches: 625, Mismatches: 45, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
91 3 0.00
92 619 0.99
93 3 0.00
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (92 bp):
TATAATCATATACGAATCAATTCGGCAACTTATCTTCATATACAAATCAATTTCGATAATGTATA
ACCATATACAAATAAATTTCAGCAAAG
Found at i:36965755 original size:43 final size:43
Alignment explanation
Indices: 36965681--36965810 Score: 156
Period size: 43 Copynumber: 3.0 Consensus size: 43
36965671 ACATAGGATT
* *
36965681 TCGATATGTGTTTTCGTGTAAGACCACGTCTGGGA-TGTTGGCA
1 TCGATATGTGTTTACGTGTAAGACCACGTCTGGGACAG-TGGCA
* *
36965724 TCGACT-TGTGTTTACGTGTAAGGCCATGTCTGGGACAGTGGCA
1 TCGA-TATGTGTTTACGTGTAAGACCACGTCTGGGACAGTGGCA
* * * *
36965767 TCGATATGTGATTACATGTAAGACCACGTCCGGGACATTGGCA
1 TCGATATGTGTTTACGTGTAAGACCACGTCTGGGACAGTGGCA
36965810 T
1 T
36965811 TATACGAGCC
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 1 0.01
43 71 0.96
44 2 0.03
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (43 bp):
TCGATATGTGTTTACGTGTAAGACCACGTCTGGGACAGTGGCA
Found at i:36974351 original size:16 final size:16
Alignment explanation
Indices: 36974330--36974363 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
36974320 ATGGAGAGTG
36974330 TTGAGAATATTTGATA
1 TTGAGAATATTTGATA
*
36974346 TTGAGAATCTTTGATA
1 TTGAGAATATTTGATA
36974362 TT
1 TT
36974364 ATTAAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.18, T:0.47
Consensus pattern (16 bp):
TTGAGAATATTTGATA
Found at i:36977487 original size:13 final size:13
Alignment explanation
Indices: 36977469--36977500 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
36977459 TAAACTCTTA
36977469 AATATTATTAAAT
1 AATATTATTAAAT
36977482 AATATTATTAAAT
1 AATATTATTAAAT
36977495 AATATT
1 AATATT
36977501 TACTAACTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AATATTATTAAAT
Found at i:36978144 original size:24 final size:23
Alignment explanation
Indices: 36978108--36978152 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
36978098 ATAAAATGGT
*
36978108 TTATTTACCATTTTGGATCTTTTC
1 TTATTTACCATTTAGG-TCTTTTC
*
36978132 TTATTTACTATTTAGGTCTTT
1 TTATTTACCATTTAGGTCTTT
36978153 AAACCTTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.18, C:0.13, G:0.09, T:0.60
Consensus pattern (23 bp):
TTATTTACCATTTAGGTCTTTTC
Found at i:36979039 original size:96 final size:97
Alignment explanation
Indices: 36978874--36979067 Score: 381
Period size: 96 Copynumber: 2.0 Consensus size: 97
36978864 AATCTATATC
36978874 TTTATAATTTTTAAAGGATTAAATCAAATTTTTATCATTTTTTTACTAGGGAAGGTTATTCGCGA
1 TTTATAATTTTTAAAGGATTAAATCAAATTTTTATCATTTTTTTACTAGGGAAGGTTATTCGCGA
36978939 GTCTCCCTGATTGATTCTCGTGTTGCCACGTG
66 GTCTCCCTGATTGATTCTCGTGTTGCCACGTG
36978971 TTTATAA-TTTTAAAGGATTAAATCAAATTTTTATCATTTTTTTACTAGGGAAGGTTATTCGCGA
1 TTTATAATTTTTAAAGGATTAAATCAAATTTTTATCATTTTTTTACTAGGGAAGGTTATTCGCGA
36979035 GTCTCCCTGATTGATTCTCGTGTTGCCACGTG
66 GTCTCCCTGATTGATTCTCGTGTTGCCACGTG
36979067 T
1 T
36979068 CCCAATCGAT
Statistics
Matches: 97, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
96 90 0.93
97 7 0.07
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (97 bp):
TTTATAATTTTTAAAGGATTAAATCAAATTTTTATCATTTTTTTACTAGGGAAGGTTATTCGCGA
GTCTCCCTGATTGATTCTCGTGTTGCCACGTG
Found at i:36984949 original size:4 final size:4
Alignment explanation
Indices: 36984940--36984970 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
36984930 TTCTCTAACA
36984940 ATCC ATCC ATCC ATCC ATCC ATCC ATGCC AT
1 ATCC ATCC ATCC ATCC ATCC ATCC AT-CC AT
36984971 GGGTGCCTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.26, C:0.45, G:0.03, T:0.26
Consensus pattern (4 bp):
ATCC
Found at i:36985116 original size:3 final size:3
Alignment explanation
Indices: 36985108--36985148 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
36985098 CACGCCGAAG
* * *
36985108 CCT CCT CCT CCT CCT CCT CCT CCT CTT CTT CTT CCT CCT CC
1 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CC
36985149 ATCTTCCTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (3 bp):
CCT
Found at i:36987753 original size:2 final size:2
Alignment explanation
Indices: 36987746--36987774 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
36987736 TATACTTCCC
36987746 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
36987775 ACATCGTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36992183 original size:16 final size:16
Alignment explanation
Indices: 36992162--36992195 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
36992152 ATGTTTATAT
*
36992162 AATATGATTTGTTTTG
1 AATATGATATGTTTTG
*
36992178 AATATGGTATGTTTTG
1 AATATGATATGTTTTG
36992194 AA
1 AA
36992196 CATGTATGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (16 bp):
AATATGATATGTTTTG
Found at i:36993535 original size:3 final size:3
Alignment explanation
Indices: 36993523--36993568 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
36993513 TCTCTCACTC
36993523 TCT T-T TCT TCT TCT TCT TCTT TCT T-T TCT T-T TCT T-T TCT TCT
1 TCT TCT TCT TCT TCT TCT TC-T TCT TCT TCT TCT TCT TCT TCT TCT
36993565 TCT T
1 TCT T
36993569 TTTTTTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
2 8 0.21
3 27 0.71
4 3 0.08
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (3 bp):
TCT
Found at i:36993548 original size:4 final size:5
Alignment explanation
Indices: 36993523--36993578 Score: 64
Period size: 5 Copynumber: 11.2 Consensus size: 5
36993513 TCTCTCACTC
36993523 TCTTT TCTTCT TCTTCT TC-TT TCTTT TCTTT TCTTT TCTTCT TCTTT
1 TCTTT TCTT-T TCTT-T TCTTT TCTTT TCTTT TCTTT TCTT-T TCTTT
36993570 T-TTT T-TTT T
1 TCTTT TCTTT T
36993579 TTTGGCATTT
Statistics
Matches: 48, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
4 11 0.23
5 23 0.48
6 14 0.29
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TCTTT
Found at i:36993567 original size:21 final size:22
Alignment explanation
Indices: 36993523--36993580 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
36993513 TCTCTCACTC
36993523 TCTTTTC--TTCTTCTTCTTCTT
1 TCTTTTCTTTTCTT-TTCTTCTT
36993544 TCTTTTCTTTTCTTTTCTTC-T
1 TCTTTTCTTTTCTTTTCTTCTT
* *
36993565 TCTTTTTTTTTTTTTT
1 TCTTTTCTTTTCTTTT
36993581 TGGCATTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 22 0.67
22 6 0.18
23 5 0.15
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (22 bp):
TCTTTTCTTTTCTTTTCTTCTT
Done.