Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009072.1 Hibiscus syriacus cultivar Beakdansim tig00112503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2600608
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 13
Found at i:1877736 original size:24 final size:24
Alignment explanation
Indices: 1877709--1877767 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
1877699 CTTTGTTCGA
* *
1877709 TTTGATTAATATTTAAA-AAAAAGG
1 TTTGATTAAT-GTTAAAGAAAAAAG
*
1877733 TTTGATTAACTGTTAAAGAAAAAAT
1 TTTGATTAA-TGTTAAAGAAAAAAG
1877758 TTTGATTAAT
1 TTTGATTAAT
1877768 TCAATTTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 15 0.50
25 15 0.50
ACGTcount: A:0.46, C:0.02, G:0.12, T:0.41
Consensus pattern (24 bp):
TTTGATTAATGTTAAAGAAAAAAG
Found at i:1877775 original size:15 final size:15
Alignment explanation
Indices: 1877755--1877788 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
1877745 TTAAAGAAAA
*
1877755 AATTTTGATTAATTC
1 AATTTTGACTAATTC
1877770 AATTTTGACTAATTC
1 AATTTTGACTAATTC
1877785 AATT
1 AATT
1877789 CGATCTATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (15 bp):
AATTTTGACTAATTC
Found at i:1879381 original size:16 final size:16
Alignment explanation
Indices: 1879362--1879398 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
1879352 GTGCTTTAGT
*
1879362 ATTTTATCCTTTTATG
1 ATTTAATCCTTTTATG
*
1879378 ATTTAATCCTTTTATT
1 ATTTAATCCTTTTATG
1879394 ATTTA
1 ATTTA
1879399 GTTTCATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.24, C:0.11, G:0.03, T:0.62
Consensus pattern (16 bp):
ATTTAATCCTTTTATG
Found at i:1879761 original size:5 final size:5
Alignment explanation
Indices: 1879751--1879811 Score: 68
Period size: 5 Copynumber: 12.0 Consensus size: 5
1879741 TAATATTTTA
* * * *
1879751 TATTT TATTT TATTT TATAT TATTC TATTT TATGT TATGT TATTTT TATTT
1 TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT TA-TTT TATTT
*
1879802 TGTTT TATTT
1 TATTT TATTT
1879812 AAATATGATT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
5 43 0.91
6 4 0.09
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.74
Consensus pattern (5 bp):
TATTT
Found at i:1879779 original size:15 final size:14
Alignment explanation
Indices: 1879744--1879800 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 14
1879734 ATGATAGTAA
1879744 TATTTTATATTTTATTT
1 TATTTTATA--TTA-TT
1879761 TATTTTATATTATT
1 TATTTTATATTATT
*
1879775 CTATTTTATGTTATGT
1 -TATTTTATATTAT-T
1879791 TATTTT-TATT
1 TATTTTATATT
1879801 TTGTTTTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
14 5 0.14
15 21 0.58
16 1 0.03
17 9 0.25
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.72
Consensus pattern (14 bp):
TATTTTATATTATT
Found at i:1882381 original size:64 final size:65
Alignment explanation
Indices: 1882249--1882403 Score: 190
Period size: 64 Copynumber: 2.4 Consensus size: 65
1882239 TACACTTGGG
* * * * * *
1882249 GTGCATCGGTACAC-TATTACATTCGATGTTTCAAAAGAGCCAGGAGTGCATCGATGCATGGTCT
1 GTGCATCGGTACACAAAATGCATTCGATGATTCAAAAGAGCCAAGAGTGCATCAATGCATGGTCT
** *
1882313 GTGCATCGGTACACAAAATGCATTCGATGATTCAATAA-ATTCAAGAGTGCATCAATGTATGG-C
1 GTGCATCGGTACACAAAATGCATTCGATGATTCAA-AAGAGCCAAGAGTGCATCAATGCATGGTC
1882376 T
65 T
*
1882377 GTGCATCGGTACATAAAATGCATTCGA
1 GTGCATCGGTACACAAAATGCATTCGA
1882404 AATAGGGGTG
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
64 42 0.53
65 35 0.44
66 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (65 bp):
GTGCATCGGTACACAAAATGCATTCGATGATTCAAAAGAGCCAAGAGTGCATCAATGCATGGTCT
Found at i:1884512 original size:13 final size:13
Alignment explanation
Indices: 1884494--1884528 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
1884484 AATGCACAAT
1884494 TTTGAAAACT-ATG
1 TTTGAAAA-TGATG
1884507 TTTGAAAATGATG
1 TTTGAAAATGATG
1884520 TTTGAAAAT
1 TTTGAAAAT
1884529 CAATATGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 1 0.05
13 20 0.95
ACGTcount: A:0.40, C:0.03, G:0.17, T:0.40
Consensus pattern (13 bp):
TTTGAAAATGATG
Found at i:1884565 original size:20 final size:20
Alignment explanation
Indices: 1884542--1884587 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
1884532 TATGAAGTTT
1884542 TCAAAAACAACATAATTAAA
1 TCAAAAACAACATAATTAAA
* *
1884562 TCAAAAATAATATAATTAAA
1 TCAAAAACAACATAATTAAA
1884582 T-AAAAA
1 TCAAAAA
1884588 AAATTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (20 bp):
TCAAAAACAACATAATTAAA
Found at i:1885071 original size:23 final size:23
Alignment explanation
Indices: 1885040--1885100 Score: 113
Period size: 23 Copynumber: 2.7 Consensus size: 23
1885030 TGCATAGTGT
*
1885040 ATCGATGCACATTCAAGGAATGC
1 ATCGGTGCACATTCAAGGAATGC
1885063 ATCGGTGCACATTCAAGGAATGC
1 ATCGGTGCACATTCAAGGAATGC
1885086 ATCGGTGCACATTCA
1 ATCGGTGCACATTCA
1885101 TAGTGTATCG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (23 bp):
ATCGGTGCACATTCAAGGAATGC
Found at i:1885115 original size:21 final size:21
Alignment explanation
Indices: 1885019--1885142 Score: 119
Period size: 21 Copynumber: 5.8 Consensus size: 21
1885009 CCGTCGAGTT
*
1885019 TATCGATGCAC-TGCATAGTG
1 TATCGATGCACATTCATAGTG
1885039 TATCGATGCACATTCA-AGGAATG
1 TATCGATGCACATTCATA-G--TG
* *
1885062 CATCGGTGCACATTCA-AGGAATG
1 TATCGATGCACATTCATA-G--TG
* *
1885085 CATCGGTGCACATTCATAGTG
1 TATCGATGCACATTCATAGTG
1885106 TATCGATGCACATTCATAGTG
1 TATCGATGCACATTCATAGTG
*
1885127 TATCGATGCATATTCA
1 TATCGATGCACATTCA
1885143 AGGGATGCAT
Statistics
Matches: 93, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
20 12 0.13
21 40 0.43
23 40 0.43
24 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (21 bp):
TATCGATGCACATTCATAGTG
Found at i:1886278 original size:23 final size:23
Alignment explanation
Indices: 1886252--1886300 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
1886242 ATAAAGAATC
1886252 AAAATAAACTCAAATATAT-CATT
1 AAAATAAACTC-AATATATCCATT
* *
1886275 AAAATAAAGTCTATATATCCATT
1 AAAATAAACTCAATATATCCATT
1886298 AAA
1 AAA
1886301 CCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (23 bp):
AAAATAAACTCAATATATCCATT
Found at i:1898165 original size:53 final size:56
Alignment explanation
Indices: 1898081--1898190 Score: 199
Period size: 53 Copynumber: 2.0 Consensus size: 56
1898071 TTGCATAGCC
1898081 ATAATCCAATTTTCATCATCTAATGCTTCTTTGATATTCTTAGGCTCTATG-ATGA
1 ATAATCCAATTTTCATCATCTAATGCTTCTTTGATATTCTTAGGCTCTATGAATGA
1898136 ATAATCCAA-TTTC-TCATCTAATGCTTCTTTGATATTCTTAGGCTCTATGAATGA
1 ATAATCCAATTTTCATCATCTAATGCTTCTTTGATATTCTTAGGCTCTATGAATGA
1898190 A
1 A
1898191 ATAAATGCAG
Statistics
Matches: 54, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
53 36 0.67
54 9 0.17
55 9 0.17
ACGTcount: A:0.28, C:0.18, G:0.11, T:0.43
Consensus pattern (56 bp):
ATAATCCAATTTTCATCATCTAATGCTTCTTTGATATTCTTAGGCTCTATGAATGA
Found at i:1907491 original size:19 final size:18
Alignment explanation
Indices: 1907449--1907502 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
1907439 CAGAGGAAAT
*
1907449 CGATACCCTCATGAGGGAAC
1 CGATACCC-CCTG-GGGAAC
* *
1907469 CGATTCCCCCTAGGGGAAT
1 CGATACCCCCT-GGGGAAC
1907488 CGATACCCCCTGGGG
1 CGATACCCCCTGGGG
1907503 TTCTGGATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 4 0.14
19 17 0.59
20 8 0.28
ACGTcount: A:0.22, C:0.33, G:0.28, T:0.17
Consensus pattern (18 bp):
CGATACCCCCTGGGGAAC
Found at i:1914138 original size:26 final size:27
Alignment explanation
Indices: 1914082--1914139 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
1914072 AATATGTTTT
*
1914082 TCCCTCCCTAAAATTTTTATAAGTATG
1 TCCCTCCCTAAAATTTTTATAAGTATC
*
1914109 TCCCT-CCTAAAA-TTTTATAAGTTTAC
1 TCCCTCCCTAAAATTTTTATAAGTAT-C
1914135 TCCCT
1 TCCCT
1914140 AACATAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 11 0.39
26 12 0.43
27 5 0.18
ACGTcount: A:0.28, C:0.26, G:0.05, T:0.41
Consensus pattern (27 bp):
TCCCTCCCTAAAATTTTTATAAGTATC
Found at i:1917259 original size:30 final size:30
Alignment explanation
Indices: 1917179--1917259 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
1917169 GTCTTAAGTC
*
1917179 TTTGTTTATGTTATTTTGGTCTTTTAAATT
1 TTTGTTTATGTTATTTTAGTCTTTTAAATT
* * ** *
1917209 TTTATTTTTACTATTCTAGTCTTTTAAATT
1 TTTGTTTATGTTATTTTAGTCTTTTAAATT
*
1917239 TTTGTTTGTGTTATTTTAGTC
1 TTTGTTTATGTTATTTTAGTC
1917260 ATTTGATTTT
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.17, C:0.06, G:0.11, T:0.65
Consensus pattern (30 bp):
TTTGTTTATGTTATTTTAGTCTTTTAAATT
Found at i:1921782 original size:32 final size:32
Alignment explanation
Indices: 1921745--1921818 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
1921735 GCATCTTTAA
* *
1921745 AGATTCAACAGCAAATGTTGTGGTATATTTGG
1 AGATTCAACAGCAAATATTGGGGTATATTTGG
***
1921777 AGATTCAACATTGAATATTGGGGTATATTTGG
1 AGATTCAACAGCAAATATTGGGGTATATTTGG
* *
1921809 GGATTTAACA
1 AGATTCAACA
1921819 TCCTGATGCA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (32 bp):
AGATTCAACAGCAAATATTGGGGTATATTTGG
Found at i:1922152 original size:64 final size:64
Alignment explanation
Indices: 1922078--1922209 Score: 212
Period size: 64 Copynumber: 2.1 Consensus size: 64
1922068 TGAGTGTCTG
* *
1922078 TCAACAAACAACTTTT-CAATTTCATTCAGAGTTAATTTCAACTTCACAACGAAGGATATTGTAC
1 TCAACAAACAA-TTTTCCAATTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGAAC
* *
1922142 TCAACAAACAATTTTCCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAATGATATTGAAC
1 TCAACAAACAATTTTCCAATTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGAAC
1922206 TCAA
1 TCAA
1922210 AACGACACAA
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
63 4 0.06
64 59 0.94
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (64 bp):
TCAACAAACAATTTTCCAATTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGAAC
Found at i:1922481 original size:43 final size:43
Alignment explanation
Indices: 1922414--1922522 Score: 146
Period size: 43 Copynumber: 2.5 Consensus size: 43
1922404 CGAAGGGGCT
* * * **
1922414 ATCCATGATTTTAACTTCATGACGGAGGATATCGTACCCACGG
1 ATCCACGATTTCAACTTCACGACGGAGGATATCGTACCCACAC
* *
1922457 ATCCACGATTTCAACTCCACGACGGAGGATATCGTGCCCACAC
1 ATCCACGATTTCAACTTCACGACGGAGGATATCGTACCCACAC
*
1922500 AACCACGATTTCAACTTCACGAC
1 ATCCACGATTTCAACTTCACGAC
1922523 AAAATTAATC
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (43 bp):
ATCCACGATTTCAACTTCACGACGGAGGATATCGTACCCACAC
Found at i:1922613 original size:168 final size:168
Alignment explanation
Indices: 1922414--1922747 Score: 501
Period size: 168 Copynumber: 2.0 Consensus size: 168
1922404 CGAAGGGGCT
* * * * *
1922414 ATCCATGATTTTAACTTCATGACGGAGGATATCGTACCCACGGATCCACGATTTCAACTCCACGA
1 ATCCACGATTTTAACTCCACGACGGAGGATATCGTACCCACAGATCCACAATTTCAACTCCACGA
*
1922479 CGGAGGATATCGTGCCCACACAACCAC-GATTTCAACTTCACGA-CAAAATTAATCATGTACACC
66 CGGAGGATATCGTGCCCACACAACCACAG-TTTCAACTTCACGATCAAAA-GAATCATGTACACC
*
1922542 CGTAACATACAATACTTGGATTTCAACTTCACGACGAATC
129 CATAACATACAATACTTGGATTTCAACTTCACGACGAATC
*
1922582 ATCCACGATTTTAACTCCACGACGGAGGATATCGTACCCACATATCCACAATTTCAACTCCACGA
1 ATCCACGATTTTAACTCCACGACGGAGGATATCGTACCCACAGATCCACAATTTCAACTCCACGA
* * * * *
1922647 TGGAGGATATCGTGCCCACACAACCACAGTTTCAACTTCACGATGAAGAGAATCGTGTCCACCCA
66 CGGAGGATATCGTGCCCACACAACCACAGTTTCAACTTCACGATCAAAAGAATCATGTACACCCA
* *
1922712 TAACATATAATATTTGGATTTCAACTTCACGACGAA
131 TAACATACAATACTTGGATTTCAACTTCACGACGAA
1922748 GGATATCTAA
Statistics
Matches: 149, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
168 145 0.97
169 4 0.03
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (168 bp):
ATCCACGATTTTAACTCCACGACGGAGGATATCGTACCCACAGATCCACAATTTCAACTCCACGA
CGGAGGATATCGTGCCCACACAACCACAGTTTCAACTTCACGATCAAAAGAATCATGTACACCCA
TAACATACAATACTTGGATTTCAACTTCACGACGAATC
Found at i:1922643 original size:43 final size:43
Alignment explanation
Indices: 1922581--1922689 Score: 146
Period size: 43 Copynumber: 2.5 Consensus size: 43
1922571 CACGACGAAT
* *
1922581 CATCCACGATTTTAACTCCACGACGGAGGATATCGTACCCACA
1 CATCCACAATTTCAACTCCACGACGGAGGATATCGTACCCACA
* * *
1922624 TATCCACAATTTCAACTCCACGATGGAGGATATCGTGCCCACA
1 CATCCACAATTTCAACTCCACGACGGAGGATATCGTACCCACA
* * *
1922667 CAACCACAGTTTCAACTTCACGA
1 CATCCACAATTTCAACTCCACGA
1922690 TGAAGAGAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.31, C:0.32, G:0.15, T:0.22
Consensus pattern (43 bp):
CATCCACAATTTCAACTCCACGACGGAGGATATCGTACCCACA
Found at i:1922690 original size:43 final size:43
Alignment explanation
Indices: 1922584--1922708 Score: 144
Period size: 43 Copynumber: 2.9 Consensus size: 43
1922574 GACGAATCAT
* * * * * *
1922584 CCACGATTTTAACTCCACGACGGAGGATATCGTACCCACATAT
1 CCACAATTTCAACTCCACGATGGAGGATATCGTGCCCACACAA
1922627 CCACAATTTCAACTCCACGATGGAGGATATCGTGCCCACACAA
1 CCACAATTTCAACTCCACGATGGAGGATATCGTGCCCACACAA
* * * *
1922670 CCACAGTTTCAACTTCACGATGAAGAGA-ATCGTGTCCAC
1 CCACAATTTCAACTCCACGATGGAG-GATATCGTGCCCAC
1922709 CCATAACATA
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 69 0.97
44 2 0.03
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (43 bp):
CCACAATTTCAACTCCACGATGGAGGATATCGTGCCCACACAA
Found at i:1922887 original size:114 final size:116
Alignment explanation
Indices: 1922725--1923025 Score: 426
Period size: 114 Copynumber: 2.6 Consensus size: 116
1922715 CATATAATAT
* * *
1922725 TTGGATTTCAACTTCACGACGAAGGATATCTAATTCAAGGCTCGACTTCACAACGAAAGGGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
1922790 CCACTATTTCAACTCCACGACGAAGGATATCGTGCC-AC-TCATCTTTAGA
66 CCACTATTTCAACTCCACGACGAAGGATATCGTGCCTACATCATCTTTAGA
* * * *
1922839 TTGGATTTCAACTTTACGATGAAAGATATCCAATTCAAGGCTCAACTTCACAATGAAGGGGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
* * * * *
1922904 CCACGATTTCAACTTCATGACGAAGGGTATCGTGCCTACATTTATCTTTAGA
66 CCACTATTTCAACTCCACGACGAAGGATATCGTGCCTACA-TCATCTTTAGA
** * * *
1922956 TTATATTTCAACTTCACAACGAAGGGTATCCAATTCAAGGCTCAACTTCACAACGGAGGGGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
1923021 CCACT
66 CCACT
1923026 TTACAGCAAA
Statistics
Matches: 162, Mismatches: 22, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
114 90 0.56
115 2 0.01
117 70 0.43
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (116 bp):
TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
CCACTATTTCAACTCCACGACGAAGGATATCGTGCCTACATCATCTTTAGA
Found at i:1931637 original size:24 final size:24
Alignment explanation
Indices: 1931610--1931659 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
1931600 TGGTGGTTGA
*
1931610 TTTAATGGT-TGTTTGAACTTTATT
1 TTTAATGGTATATTT-AACTTTATT
*
1931634 TTTAATGGTATATTTAAGTTTATT
1 TTTAATGGTATATTTAACTTTATT
1931658 TT
1 TT
1931660 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.24, C:0.02, G:0.14, T:0.60
Consensus pattern (24 bp):
TTTAATGGTATATTTAACTTTATT
Found at i:1932607 original size:17 final size:17
Alignment explanation
Indices: 1932585--1932618 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1932575 CGGCTTAAAA
1932585 AAATGGTTAGGGTATAG
1 AAATGGTTAGGGTATAG
*
1932602 AAATGGTTATGGTATAG
1 AAATGGTTAGGGTATAG
1932619 GGGTAGGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (17 bp):
AAATGGTTAGGGTATAG
Found at i:1933356 original size:35 final size:36
Alignment explanation
Indices: 1933317--1933396 Score: 126
Period size: 36 Copynumber: 2.2 Consensus size: 36
1933307 AAATGGAATT
**
1933317 TGGTGATGATATAGGCATGAT-ATGGTGATGGACTA
1 TGGTGATGATATAGGCATGATAATGGTGATGGAAGA
*
1933352 TGGTGATGATATAGGCGTGATAATGGTGATGGAAGA
1 TGGTGATGATATAGGCATGATAATGGTGATGGAAGA
1933388 TGGTGATGA
1 TGGTGATGA
1933397 ACAAATTGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
35 20 0.49
36 21 0.51
ACGTcount: A:0.29, C:0.04, G:0.38, T:0.30
Consensus pattern (36 bp):
TGGTGATGATATAGGCATGATAATGGTGATGGAAGA
Found at i:1937024 original size:19 final size:19
Alignment explanation
Indices: 1937000--1937038 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1936990 ACCGATACTT
1937000 CTATACTAT-GGTATCGATA
1 CTATACT-TCGGTATCGATA
*
1937019 CTATACTTCTGTATCGATA
1 CTATACTTCGGTATCGATA
1937038 C
1 C
1937039 CCACTCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (19 bp):
CTATACTTCGGTATCGATA
Found at i:1937132 original size:20 final size:20
Alignment explanation
Indices: 1937107--1937158 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
1937097 CGTTACCCCT
1937107 AGTATCGATACTACTCCTTC
1 AGTATCGATACTACTCCTTC
1937127 AGTATCGATACTACTCCTTC
1 AGTATCGATACTACTCCTTC
1937147 AGTATCGATACT
1 AGTATCGATACT
1937159 TCTTAAAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (20 bp):
AGTATCGATACTACTCCTTC
Found at i:1944786 original size:13 final size:13
Alignment explanation
Indices: 1944768--1944832 Score: 103
Period size: 13 Copynumber: 5.0 Consensus size: 13
1944758 AATGACGCGC
*
1944768 AATGAGTGTCATA
1 AATGTGTGTCATA
* *
1944781 AATGAGCGTCATA
1 AATGTGTGTCATA
1944794 AATGTGTGTCATA
1 AATGTGTGTCATA
1944807 AATGTGTGTCATA
1 AATGTGTGTCATA
1944820 AATGTGTGTCATA
1 AATGTGTGTCATA
1944833 GATTTATGAC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 49 1.00
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.34
Consensus pattern (13 bp):
AATGTGTGTCATA
Found at i:1946976 original size:23 final size:23
Alignment explanation
Indices: 1946950--1947011 Score: 106
Period size: 23 Copynumber: 2.7 Consensus size: 23
1946940 ACTGAATATT
*
1946950 TGTCCCGAAGGACCGCGTAGAAA
1 TGTCCCGAAGGACCACGTAGAAA
*
1946973 TGTCCTGAAGGACCACGTAGAAA
1 TGTCCCGAAGGACCACGTAGAAA
1946996 TGTCCCGAAGGACCAC
1 TGTCCCGAAGGACCAC
1947012 ATATCACATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.31, C:0.27, G:0.27, T:0.15
Consensus pattern (23 bp):
TGTCCCGAAGGACCACGTAGAAA
Found at i:1947152 original size:23 final size:23
Alignment explanation
Indices: 1947122--1947165 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
1947112 TACATATATG
*
1947122 TCCCGAAGGACCATGTAGAATTT
1 TCCCGAAGGACCACGTAGAATTT
1947145 TCCCGAAGGACCACGTAGAAT
1 TCCCGAAGGACCACGTAGAAT
1947166 CATCTTGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.20
Consensus pattern (23 bp):
TCCCGAAGGACCACGTAGAATTT
Found at i:1947771 original size:22 final size:22
Alignment explanation
Indices: 1947746--1947789 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1947736 ACTATACGAT
*
1947746 ATGAACAATACCGTGAACAGTA
1 ATGAACAATACCATGAACAGTA
* *
1947768 ATGAACAGTGCCATGAACAGTA
1 ATGAACAATACCATGAACAGTA
1947790 CCGAATTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.18
Consensus pattern (22 bp):
ATGAACAATACCATGAACAGTA
Found at i:1953509 original size:15 final size:15
Alignment explanation
Indices: 1953491--1953522 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1953481 TATCAATACC
1953491 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
1953506 TTTTGCATACATTCA
1 TTTTGCATACATGCA
1953521 TT
1 TT
1953523 ATTCATTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:1957337 original size:18 final size:18
Alignment explanation
Indices: 1957302--1957337 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1957292 GCAATCATTC
* *
1957302 TTTACATTCTTTACTTTT
1 TTTACATTCATTAATTTT
1957320 TTTACATTCATTAATTTT
1 TTTACATTCATTAATTTT
1957338 CATTTATTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.14, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTACATTCATTAATTTT
Found at i:1961266 original size:19 final size:19
Alignment explanation
Indices: 1961240--1961295 Score: 78
Period size: 18 Copynumber: 2.9 Consensus size: 19
1961230 TAGTTTCTCT
1961240 AAATTCAATTTATTTTTTG
1 AAATTCAATTTATTTTTTG
* *
1961259 AGATTCAATTTA-TTTTCG
1 AAATTCAATTTATTTTTTG
1961277 AAATTCAATTTATTCTTTT
1 AAATTCAATTTATT-TTTT
1961296 ATTTTGTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 16 0.52
19 12 0.39
20 3 0.10
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.55
Consensus pattern (19 bp):
AAATTCAATTTATTTTTTG
Found at i:1962599 original size:113 final size:113
Alignment explanation
Indices: 1962433--1963097 Score: 989
Period size: 113 Copynumber: 6.0 Consensus size: 113
1962423 TAGCAAAGAT
* * *
1962433 TCAAATCCATCACAT--TGGATCAACATTTCCAGA-AAGAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAA-AGTTCATAATGAGAAGAACTCATCTG
*
1962495 AAGAAGGAAGAAGAAGTTCAAAATGAGAAGAGCTTGTTCAACCTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
*
1962544 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCAGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1962609 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
*
1962657 TCAAATCCATCACTTGATAGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT--
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* *
1962720 --------GAAGAAGTTTATAATGAGAAGAGCTTGTTCAACATTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
*
1962760 TCAAATCCATCACTTGATGGATTAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* *
1962825 AGAATGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTATGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
* *
1962873 TCAAAACCATCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* * * * ** *
1962938 AAAAAGAAGAACAAATTCATAATGAGAAGAATTTGTTCAA-CTTTTGT
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
** * * *
1962985 TTGAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
*
1963050 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
1963098 ATGACCCTAT
Statistics
Matches: 500, Mismatches: 40, Indels: 26
0.88 0.07 0.05
Matches are distributed among these distances:
103 99 0.20
111 14 0.03
112 96 0.19
113 289 0.58
114 2 0.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (113 bp):
TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
Found at i:1962842 original size:216 final size:215
Alignment explanation
Indices: 1962504--1963097 Score: 918
Period size: 216 Copynumber: 2.7 Consensus size: 215
1962494 GAAGAAGGAA
*
1962504 GAAGAAGTTCAAAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAG
1 GAAGAAGTTCATAATGAGAAGAGCTTGTTCAA-CTTTTGCTCAAATCCATCACTTGATGGATCAG
*
1962569 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCAGAAGAAGGAAGAAGAAGTTCATAATGA
65 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
* *
1962634 GAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATAGATCAGCTTTTCCAGAGAAAGTT
130 GAAGAGCTTGTTCAACCTTTTGCTCAAAACCATCACTTGATAGATCAGCTTTTCCAGAAAAAGTT
1962699 CATAATGAGAAGAACTCATCT
195 CATAATGAGAAGAACTCATCT
* *
1962720 GAAGAAGTTTATAATGAGAAGAGCTTGTTCAACATTTTGCTCAAATCCATCACTTGATGGATTAG
1 GAAGAAGTTCATAATGAGAAGAGCTTGTTCAAC-TTTTGCTCAAATCCATCACTTGATGGATCAG
*
1962785 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGA
65 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
* *
1962850 GAAGAGCTTGTTCAACCTTATGCTCAAAACCATCACTTGATGGATCAGCTTTTCCAGAAAAAGTT
130 GAAGAGCTTGTTCAACCTTTTGCTCAAAACCATCACTTGATAGATCAGCTTTTCCAGAAAAAGTT
1962915 CATAATGAGAAGAACTCATCT
195 CATAATGAGAAGAACTCATCT
** * ** * *
1962936 GAAAAAAGAAGAACAAATTCATAATGAGAAGAATTTGTTCAACTTTTGTTTGAATTCATCACTCG
1 G----AAGAAG------TTCATAATGAGAAGAGCTTGTTCAACTTTTGCTCAAATCCATCACTTG
*
1963001 ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
56 ATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
*
1963066 TCATAATGAGAAGAGCTTGTTCGACCTTTTGC
121 TCATAATGAGAAGAGCTTGTTCAACCTTTTGC
1963098 ATGACCCTAT
Statistics
Matches: 345, Mismatches: 22, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
215 1 0.00
216 206 0.60
220 6 0.02
225 109 0.32
226 23 0.07
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (215 bp):
GAAGAAGTTCATAATGAGAAGAGCTTGTTCAACTTTTGCTCAAATCCATCACTTGATGGATCAGC
TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
AAGAGCTTGTTCAACCTTTTGCTCAAAACCATCACTTGATAGATCAGCTTTTCCAGAAAAAGTTC
ATAATGAGAAGAACTCATCT
Found at i:1963429 original size:3 final size:3
Alignment explanation
Indices: 1963423--1963462 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
1963413 TATTTACTTA
1963423 TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1963463 AATAATTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:1963474 original size:26 final size:26
Alignment explanation
Indices: 1963420--1963470 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
1963410 TCTTATTTAC
* *
1963420 TTATATTATTATTATTATTATTATTA
1 TTATATTATTATTATTATAATAATTA
1963446 TTATATTATTATTATTA-AATAATTA
1 TTATATTATTATTATTATAATAATTA
1963471 ATTAATACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (26 bp):
TTATATTATTATTATTATAATAATTA
Found at i:1966071 original size:54 final size:54
Alignment explanation
Indices: 1966013--1966190 Score: 146
Period size: 54 Copynumber: 3.2 Consensus size: 54
1966003 TACATAATAA
* *
1966013 CATGTTAACACATATACTCCTTCATACACATAAATCATGTATTATTTATCGAAT
1 CATGTAAACACATATACTCATTCATACACATAAATCATGTATTATTTATCGAAT
* * * ** ** ** *
1966067 CATGTAAACACGCATATAACTTATGCATGCATTGTAAATCAAATAACATTT-TCGGAGT
1 CATGTAAACA--CATAT-ACTCATTCATACA-CATAAATCATGTATTATTTATC-GAAT
**
1966125 CACT-TCTTAC-CATATACTCATTCATACACATAAATCATGTATTATTTATCGAAT
1 CA-TGT-AAACACATATACTCATTCATACACATAAATCATGTATTATTTATCGAAT
1966179 CATGTAAACACA
1 CATGTAAACACA
1966191 CATATAACTT
Statistics
Matches: 88, Mismatches: 26, Indels: 20
0.66 0.19 0.15
Matches are distributed among these distances:
53 3 0.03
54 30 0.34
55 12 0.14
56 10 0.11
57 11 0.12
58 19 0.22
59 3 0.03
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (54 bp):
CATGTAAACACATATACTCATTCATACACATAAATCATGTATTATTTATCGAAT
Found at i:1966187 original size:112 final size:112
Alignment explanation
Indices: 1966023--1966250 Score: 429
Period size: 112 Copynumber: 2.0 Consensus size: 112
1966013 CATGTTAACA
* *
1966023 CATATACTCCTTCATACACATAAATCATGTATTATTTATCGAATCATGTAAACACGCATATAACT
1 CATATACTCATTCATACACATAAATCATGTATTATTTATCGAATCATGTAAACACACATATAACT
*
1966088 TATGCATGCATTGTAAATCAAATAACATTTTCGGAGTCACTTCTTAC
66 TATGCATGCATTGTAAATCAAATAACATTTTCGGAGTCACTTATTAC
1966135 CATATACTCATTCATACACATAAATCATGTATTATTTATCGAATCATGTAAACACACATATAACT
1 CATATACTCATTCATACACATAAATCATGTATTATTTATCGAATCATGTAAACACACATATAACT
1966200 TATGCATGCATTGTAAATCAAATAACATTTTCGGAGTCACTTATTAC
66 TATGCATGCATTGTAAATCAAATAACATTTTCGGAGTCACTTATTAC
1966247 CATA
1 CATA
1966251 GTAACTCTGT
Statistics
Matches: 113, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
112 113 1.00
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.35
Consensus pattern (112 bp):
CATATACTCATTCATACACATAAATCATGTATTATTTATCGAATCATGTAAACACACATATAACT
TATGCATGCATTGTAAATCAAATAACATTTTCGGAGTCACTTATTAC
Found at i:1966598 original size:21 final size:20
Alignment explanation
Indices: 1966560--1966598 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1966550 CCTGCATAAT
*
1966560 CTGTTAAAACCCAGAATTTA
1 CTGTTAAAACCCAAAATTTA
*
1966580 CTGTTTAAACCCGAAAATT
1 CTGTTAAAACCC-AAAATT
1966599 CATCATCTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (20 bp):
CTGTTAAAACCCAAAATTTA
Found at i:1971451 original size:20 final size:20
Alignment explanation
Indices: 1971426--1971468 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1971416 TCTAAGAGCC
*
1971426 CATTTAGGACCATTTAGATG
1 CATTTAGGACCATATAGATG
* *
1971446 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
1971466 CAT
1 CAT
1971469 GTGGTGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:1976373 original size:20 final size:20
Alignment explanation
Indices: 1976348--1976390 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1976338 TCTAAGAGCC
*
1976348 CATTTAGGACCATTTAGATG
1 CATTTAGGACCATATAGATG
* *
1976368 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
1976388 CAT
1 CAT
1976391 GTGGTGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:1978360 original size:21 final size:21
Alignment explanation
Indices: 1978334--1978413 Score: 88
Period size: 21 Copynumber: 3.7 Consensus size: 21
1978324 GACATATAGA
1978334 ATGTCCCGAAGGACCACATAT
1 ATGTCCCGAAGGACCACATAT
* * *
1978355 ATGTCCCGAATGACCTCATAAA
1 ATGTCCCGAAGGACCACAT-AT
* *
1978377 ATTGTCCTGAAGGACCCCATAT
1 A-TGTCCCGAAGGACCACATAT
*
1978399 ATGTCCCCAAGGACC
1 ATGTCCCGAAGGACC
1978414 TCGTAGAACC
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
21 29 0.60
22 4 0.08
23 15 0.31
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.21
Consensus pattern (21 bp):
ATGTCCCGAAGGACCACATAT
Found at i:1979495 original size:19 final size:19
Alignment explanation
Indices: 1979471--1979509 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1979461 ACCGATACTT
1979471 CTATATTAT-AGTATCGATA
1 CTATATT-TCAGTATCGATA
*
1979490 CTATATTTCTGTATCGATA
1 CTATATTTCAGTATCGATA
1979509 C
1 C
1979510 CCACTTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (19 bp):
CTATATTTCAGTATCGATA
Found at i:1982591 original size:64 final size:65
Alignment explanation
Indices: 1982541--1982676 Score: 177
Period size: 66 Copynumber: 2.1 Consensus size: 65
1982531 CACTAATTAC
*
1982541 ATTCGATGTTTC-AAAGAGCCAGGAGTGCATCGATGCATGGTCTATGCATCGATACACAAAATGA
1 ATTCGATGTTTCAAAAGAGCCAAGAGTGCATCGATGCATGGTCTATGCATCGATACACAAAATGA
* ** * *
1982605 ATTCGATGTTTCAAAAATATTCAAGAGTGCATCGATGCATGG-CTGGTACATCGATACACAAAAT
1 ATTCGATGTTTC-AAAAGAGCCAAGAGTGCATCGATGCATGGTCT-ATGCATCGATACACAAAAT
*
1982669 GC
64 GA
1982671 ATTCGA
1 ATTCGA
1982677 AATGGGTGTG
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
64 12 0.19
65 2 0.03
66 48 0.77
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.26
Consensus pattern (65 bp):
ATTCGATGTTTCAAAAGAGCCAAGAGTGCATCGATGCATGGTCTATGCATCGATACACAAAATGA
Found at i:1986988 original size:19 final size:19
Alignment explanation
Indices: 1986964--1987009 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
1986954 TTCTTGAGTA
1986964 TAGCCTTGAGCAACAAGTC
1 TAGCCTTGAGCAACAAGTC
1986983 TAGCCTTGAGCAACAAGTC
1 TAGCCTTGAGCAACAAGTC
1987002 TAGCCTTG
1 TAGCCTTG
1987010 TTTATCACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (19 bp):
TAGCCTTGAGCAACAAGTC
Found at i:1991222 original size:64 final size:65
Alignment explanation
Indices: 1991138--1991289 Score: 164
Period size: 65 Copynumber: 2.4 Consensus size: 65
1991128 CTAGGGGTGT
* * * * *
1991138 ATCGGTACACTAATTACATTCGATGTTT-TAAAGAGCCAGGAGTGCATCGATCCATGG-TCTGTG
1 ATCGGTACACAAAATGCATTCGATGTTTCAAAAGAGCCAAGAGTGCATCGATCCATGGCT-TGTG
1991201 C
65 C
* * ** * * *
1991202 ATCGGTACACAAAATGCATTCAATGTTTCAAAATATTCAAGAGTGCATCGATGCGTGGCTTGTGT
1 ATCGGTACACAAAATGCATTCGATGTTTCAAAAGAGCCAAGAGTGCATCGATCCATGGCTTGTGC
*
1991267 ATTGGTACACAAAATGCATTCGA
1 ATCGGTACACAAAATGCATTCGA
1991290 AATGGGTGTG
Statistics
Matches: 72, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
64 24 0.33
65 47 0.65
66 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (65 bp):
ATCGGTACACAAAATGCATTCGATGTTTCAAAAGAGCCAAGAGTGCATCGATCCATGGCTTGTGC
Found at i:1999352 original size:30 final size:30
Alignment explanation
Indices: 1999270--1999354 Score: 134
Period size: 30 Copynumber: 2.8 Consensus size: 30
1999260 TTTTATGTCT
* *
1999270 ACATTTAAGATGTTCATGCATACAATCATC
1 ACATTTAAGATGTTCATGCATATAGTCATC
*
1999300 ACATTTAAGATGTTCATACATATAGTCATC
1 ACATTTAAGATGTTCATGCATATAGTCATC
*
1999330 ATATTTAAGATGTTCATGCATATAG
1 ACATTTAAGATGTTCATGCATATAG
1999355 ATGTTCATCT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (30 bp):
ACATTTAAGATGTTCATGCATATAGTCATC
Found at i:2004165 original size:21 final size:21
Alignment explanation
Indices: 2004139--2004179 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
2004129 GATAAAAAAT
*
2004139 TACCTAAAACATTATTATTTC
1 TACCTAAAACATTAATATTTC
2004160 TACCTAAAACATTAATATTT
1 TACCTAAAACATTAATATTT
2004180 TTTAACATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (21 bp):
TACCTAAAACATTAATATTTC
Found at i:2005507 original size:15 final size:16
Alignment explanation
Indices: 2005487--2005520 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
2005477 AAGCAAAGAT
2005487 AAAACAAAGA-CAACA
1 AAAACAAAGATCAACA
*
2005502 AAAACAAATATCAACA
1 AAAACAAAGATCAACA
2005518 AAA
1 AAA
2005521 TCATCCCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.74, C:0.18, G:0.03, T:0.06
Consensus pattern (16 bp):
AAAACAAAGATCAACA
Found at i:2007997 original size:16 final size:16
Alignment explanation
Indices: 2007961--2008004 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
2007951 TAATTACTAT
2007961 AGTTTTTTTTATTTGA
1 AGTTTTTTTTATTTGA
2007977 A-TTTTATTTTATTT-A
1 AGTTTT-TTTTATTTGA
*
2007992 AGTTTTTTATATT
1 AGTTTTTTTTATT
2008005 ATTTGTTAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (16 bp):
AGTTTTTTTTATTTGA
Found at i:2017455 original size:20 final size:20
Alignment explanation
Indices: 2017430--2017478 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
2017420 AGAGATATAC
2017430 CGATGCACTAGTCCATGCAT
1 CGATGCACTAGTCCATGCAT
2017450 CGATGCACTAGTCCATGCAT
1 CGATGCACTAGTCCATGCAT
*
2017470 TGATGCACT
1 CGATGCACT
2017479 CTCAATTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (20 bp):
CGATGCACTAGTCCATGCAT
Found at i:2017672 original size:19 final size:19
Alignment explanation
Indices: 2017648--2017691 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
2017638 ATGCATTGAC
2017648 GCACTATCAGTGTACCGAT
1 GCACTATCAGTGTACCGAT
2017667 GCACTATCAGTGTACCGAT
1 GCACTATCAGTGTACCGAT
2017686 GCACTA
1 GCACTA
2017692 AGGATCCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (19 bp):
GCACTATCAGTGTACCGAT
Found at i:2017928 original size:11 final size:11
Alignment explanation
Indices: 2017912--2017947 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
2017902 ACAATCATCA
2017912 AGAATCAAGAG
1 AGAATCAAGAG
2017923 AGAATCAAGAG
1 AGAATCAAGAG
2017934 AGAATCAA-AG
1 AGAATCAAGAG
2017944 AGAA
1 AGAA
2017948 AGCATCAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 6 0.24
11 19 0.76
ACGTcount: A:0.58, C:0.08, G:0.25, T:0.08
Consensus pattern (11 bp):
AGAATCAAGAG
Found at i:2017929 original size:21 final size:21
Alignment explanation
Indices: 2017904--2017947 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2017894 AAGAAACAAC
*
2017904 AATCATCA-AGAATCAAGAGAG
1 AATCAACAGAGAATCAA-AGAG
*
2017925 AATCAAGAGAGAATCAAAGAG
1 AATCAACAGAGAATCAAAGAG
2017946 AA
1 AA
2017948 AGCATCAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.57, C:0.11, G:0.20, T:0.11
Consensus pattern (21 bp):
AATCAACAGAGAATCAAAGAG
Found at i:2023496 original size:21 final size:21
Alignment explanation
Indices: 2023470--2023525 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 21
2023460 TGTGCATAAG
2023470 GCATCGATACACTATGAAAGT
1 GCATCGATACACTATGAAAGT
* * *
2023491 GCATCGATGCATCCCTTTGAATGT
1 GCATCGAT--A-CACTATGAAAGT
2023515 GCATCGATACA
1 GCATCGATACA
2023526 TCATGAAGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
21 9 0.32
22 1 0.04
23 1 0.04
24 17 0.61
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (21 bp):
GCATCGATACACTATGAAAGT
Found at i:2023544 original size:45 final size:45
Alignment explanation
Indices: 2023470--2023571 Score: 113
Period size: 45 Copynumber: 2.3 Consensus size: 45
2023460 TGTGCATAAG
* *
2023470 GCATCGATACA-CTATGAAAGTGCATCGATGCATC-CCTTTGAATGT
1 GCATCGATACATCTATGAAAGTACACCGATGCA-CGCC-TTGAATGT
*
2023515 GCATCGATACATC-ATG-AAGATACACCGATGCACGCCTTGATTGT
1 GCATCGATACATCTATGAAAG-TACACCGATGCACGCCTTGAATGT
*
2023559 GCATCGATGCATC
1 GCATCGATACATC
2023572 CGTCGGATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
44 23 0.46
45 26 0.52
46 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (45 bp):
GCATCGATACATCTATGAAAGTACACCGATGCACGCCTTGAATGT
Found at i:2025315 original size:11 final size:11
Alignment explanation
Indices: 2025299--2025333 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
2025289 ACAATCATCA
2025299 AGAATCAAGAG
1 AGAATCAAGAG
2025310 AGAATCAAGAG
1 AGAATCAAGAG
*
2025321 AAAATCAA-AG
1 AGAATCAAGAG
2025331 AGA
1 AGA
2025334 TAGCATCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 4 0.18
11 18 0.82
ACGTcount: A:0.60, C:0.09, G:0.23, T:0.09
Consensus pattern (11 bp):
AGAATCAAGAG
Found at i:2026226 original size:17 final size:17
Alignment explanation
Indices: 2026204--2026257 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
2026194 ATTGCCATTC
2026204 TATAAATTTTATTTATT
1 TATAAATTTTATTTATT
* **
2026221 TATAAATATGCTTTATAGT
1 TATAAATTTTATTTAT--T
*
2026240 TTTAAATTTTATTTATT
1 TATAAATTTTATTTATT
2026257 T
1 T
2026258 TATTAAATGA
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
17 15 0.54
19 13 0.46
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (17 bp):
TATAAATTTTATTTATT
Found at i:2026263 original size:19 final size:19
Alignment explanation
Indices: 2026206--2026265 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
2026196 TGCCATTCTA
2026206 TAAATTTTATTTA-TTTA-
1 TAAATTTTATTTATTTTAT
* ** *
2026223 TAAATATGCTTTATAGTT-T
1 TAAATTTTATTTAT-TTTAT
2026242 TAAATTTTATTTATTTTAT
1 TAAATTTTATTTATTTTAT
2026261 TAAAT
1 TAAAT
2026266 GACATTACAA
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
17 10 0.32
18 2 0.06
19 19 0.61
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (19 bp):
TAAATTTTATTTATTTTAT
Found at i:2027643 original size:20 final size:20
Alignment explanation
Indices: 2027610--2027682 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
2027600 AAAAGGTAAC
*
2027610 AAATTTGACTAAACCGATTGG
1 AAATTTGACAAAACCGATT-G
*
2027631 AAA-TTGACAAAACCGGTTG
1 AAATTTGACAAAACCGATTG
*
2027650 AAATTTGACAAAACC-AGTTT
1 AAATTTGACAAAACCGA-TTG
*
2027670 CAATTTGACAAAA
1 AAATTTGACAAAA
2027683 TCAATAAAGA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 4 0.09
20 38 0.84
21 3 0.07
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (20 bp):
AAATTTGACAAAACCGATTG
Found at i:2032183 original size:25 final size:25
Alignment explanation
Indices: 2032137--2032186 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
2032127 CTCGTATAAA
* * *
2032137 TTGCACCAAAGTGTCGCGTAGAAAT
1 TTGCACCAAAGTATCACATAGAAAT
*
2032162 TTGCACCGAAGTATCACATAGAAAT
1 TTGCACCAAAGTATCACATAGAAAT
2032187 GTCTCGAAGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (25 bp):
TTGCACCAAAGTATCACATAGAAAT
Found at i:2032235 original size:23 final size:23
Alignment explanation
Indices: 2032209--2032273 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
2032199 CACATAGTAT
*
2032209 TGTCCTAAAAGACCGCGTAGAAA
1 TGTCCTAAATGACCGCGTAGAAA
* *
2032232 TGTCCCT-AATGACCACGTAGAAT
1 TGT-CCTAAATGACCGCGTAGAAA
*
2032255 TGTCCCAAATGACCGCGTA
1 TGTCCTAAATGACCGCGTA
2032274 AAACCCTCGA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 2 0.06
23 30 0.86
24 3 0.09
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (23 bp):
TGTCCTAAATGACCGCGTAGAAA
Found at i:2032247 original size:46 final size:46
Alignment explanation
Indices: 2032180--2032273 Score: 125
Period size: 46 Copynumber: 2.0 Consensus size: 46
2032170 AAGTATCACA
* * *
2032180 TAGAAATGTCTCGAAGGACCACATAGTATTGTCCTAAAAGACCGCG
1 TAGAAATGTCCCGAAGGACCACATAGAATTGTCCCAAAAGACCGCG
* * * *
2032226 TAGAAATGTCCCTAATGACCACGTAGAATTGTCCCAAATGACCGCG
1 TAGAAATGTCCCGAAGGACCACATAGAATTGTCCCAAAAGACCGCG
2032272 TA
1 TA
2032274 AAACCCTCGA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.22
Consensus pattern (46 bp):
TAGAAATGTCCCGAAGGACCACATAGAATTGTCCCAAAAGACCGCG
Found at i:2032386 original size:16 final size:16
Alignment explanation
Indices: 2032365--2032404 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
2032355 ACATAGCTTA
2032365 TCACATAGA-CATTTAT
1 TCACATAGATCATTT-T
2032381 TCACATAGATCATTTT
1 TCACATAGATCATTTT
2032397 TCACATAG
1 TCACATAG
2032405 CTTATATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (16 bp):
TCACATAGATCATTTT
Found at i:2034913 original size:20 final size:20
Alignment explanation
Indices: 2034868--2034905 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
2034858 GTAAACATAA
*
2034868 AGTATCGATACTTATTATAT
1 AGTATCAATACTTATTATAT
2034888 AGGTATCAATAC-TATTAT
1 A-GTATCAATACTTATTAT
2034906 TTCAGTATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (20 bp):
AGTATCAATACTTATTATAT
Found at i:2034923 original size:199 final size:200
Alignment explanation
Indices: 2034267--2035475 Score: 1437
Period size: 200 Copynumber: 6.2 Consensus size: 200
2034257 GAAAATGTCT
* * * ** * * **
2034267 AAGTTTCGATATTTTTTATATCTGTATCGATACTTTTATTCTA-TCATGGTTCTCAAACAATTTG
1 AAGTATCGATACTTATTATATAGGTATCGATACTATTATTCCAGT-ATGCATCTCAAACAATTTG
** * *
2034331 TC-CATAACAAAGTATCAATACCCATATATA-AAGTATCGATACTTGGAATTTCGAAACCTATTA
65 -CACGCAA-AAAGTATCGATACACATATA-ACAAGTATCGATACTTGGAATTTCGAAACCTATTA
2034394 CTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAATCTACCGGTTTAATGATAATAGGC
127 CTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAATCTACCGGTTTAATGATAATAGGC
2034459 GTAAACATA
192 GTAAACATA
* * * *
2034468 AAATATTGATACTTATTATATAAGTATCGATACTTTTATTCCAGTATGCATCTCAAACAATTTGC
1 AAGTATCGATACTTATTATATAGGTATCGATACTATTATTCCAGTATGCATCTCAAACAATTTGC
** * * * *
2034533 ACGCAAAAATGTATCGATACATGTATAACAAGTATCGCTACTTAGAATTTTGAAACCTTTTACTT
66 ACGCAAAAA-GTATCGATACACATATAACAAGTATCGATACTTGGAATTTCGAAACCTATTACTT
*
2034598 T-AAGTAATAGGTAAATTTACAATGTAAACGGTAAAAATCTACCGGTTTGATGATAATAGGCGTA
130 TAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAATCTACCGGTTTAATGATAATAGGCGTA
2034662 AACATA
195 AACATA
* * * * * *
2034668 AAGTATTGATACATT-TAATATAGATATCGATACTATTAGTCCAATATGCTTCTCAAACAATTTG
1 AAGTATCGATAC-TTATTATATAGGTATCGATACTATTATTCCAGTATGCATCTCAAACAATTTG
* * * *
2034732 CACGTC-AAAAGCATCGATACACATGT-ACAAAGTATCGATACTTAGAATTTCGAAACCTTTTAC
65 CACG-CAAAAAGTATCGATACACATATAAC-AAGTATCGATACTTGGAATTTCGAAACCTATTAC
* *
2034795 TTTAAAGTAATAGGTAAATTTACAATGTAAATGGTAAAAATCTATC-GTTTAATGATAATAGGCG
128 TTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAATCTACCGGTTTAATGATAATAGGCG
2034859 TAAACATA
193 TAAACATA
* * *
2034867 AAGTATCGATACTTATTATATAGGTATCAATACTATTATTTCAGTATGCGTCTCAAACAATTTGC
1 AAGTATCGATACTTATTATATAGGTATCGATACTATTATTCCAGTATGCATCTCAAACAATTTGC
* * *
2034932 ACGCAAAAAGTATCGATACACATATAACAAGTATCGATACTTGGACTTTCAAAACCTATTACTCT
66 ACGCAAAAAGTATCGATACACATATAACAAGTATCGATACTTGGAATTTCGAAACCTATTACTTT
* * *
2034997 AAAGTAATAGGTAAATTTACAATGTAAATGGTAAAAATCTACTGGTTTAATGATAATAGGCATAA
131 AAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAA
*
2035062 ATATA
196 ACATA
* *
2035067 AAGTATCGATAC---TT-T-T---TAT---TAC-AGTA-T---GTA---A-CTCAAACAATTTGT
1 AAGTATCGATACTTATTATATAGGTATCGATACTATTATTCCAGTATGCATCTCAAACAATTTGC
* * * *
2035112 ACGCAAAAAGTATCGATACACATATATA-ATGTACCGATACTTGGAATTTCAAAACCTATTACAT
66 ACGCAAAAAGTATCGATACACATATA-ACAAGTATCGATACTTGGAATTTCGAAACCTATTACTT
* * * * * *
2035176 TAAAGTAATAGGTTAATTTATAATGTAAACGGTAAATATCTACTGGTATAATTATAATAGGCGTA
130 TAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAATCTACCGGTTTAATGATAATAGGCGTA
2035241 AACATA
195 AACATA
* *
2035247 AAGTATCGATATTTATTATATAGGTATCGATACTTTTATTCCAGTATGCATCTCAAACAATTTGC
1 AAGTATCGATACTTATTATATAGGTATCGATACTATTATTCCAGTATGCATCTCAAACAATTTGC
* * * * *
2035312 ACACAAAAAAATATCGATACACATATAACAAGTATCG--A--T--AATTTTGAAACCTAGTATTT
66 ACGC-AAAAAGTATCGATACACATATAACAAGTATCGATACTTGGAATTTCGAAACCTATTACTT
* *
2035371 TAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAGTCTACCGGTTTAATGATAATAGGCATA
130 TAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAATCTACCGGTTTAATGATAATAGGCGTA
*
2035436 AA-TTA
195 AACATA
* *
2035441 TAAGTATCGATACTTTTTATATATGTATCGATACT
1 -AAGTATCGATACTTATTATATAGGTATCGATACT
2035476 TTCGATCTAA
Statistics
Matches: 874, Mismatches: 98, Indels: 78
0.83 0.09 0.07
Matches are distributed among these distances:
180 144 0.16
181 1 0.00
183 2 0.00
184 4 0.00
185 1 0.00
187 1 0.00
188 6 0.01
189 3 0.00
191 3 0.00
192 5 0.01
193 1 0.00
194 2 0.00
195 106 0.12
196 4 0.00
197 3 0.00
198 5 0.01
199 222 0.25
200 229 0.26
201 131 0.15
202 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.34
Consensus pattern (200 bp):
AAGTATCGATACTTATTATATAGGTATCGATACTATTATTCCAGTATGCATCTCAAACAATTTGC
ACGCAAAAAGTATCGATACACATATAACAAGTATCGATACTTGGAATTTCGAAACCTATTACTTT
AAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAA
ACATA
Found at i:2035219 original size:180 final size:180
Alignment explanation
Indices: 2034900--2035265 Score: 540
Period size: 180 Copynumber: 2.0 Consensus size: 180
2034890 GTATCAATAC
* ***
2034900 TATTATTTCAGTATGCGTCTCAAACAATTTGCACGCAAAAAGTATCGATACACATATAACAAGTA
1 TATTATTACAGTATGTAACTCAAACAATTTGCACGCAAAAAGTATCGATACACATATAACAAGTA
* * *
2034965 TCGATACTTGGACTTTCAAAACCTATTACTCTAAAGTAATAGGTAAATTTACAATGTAAATGGTA
66 CCGATACTTGGAATTTCAAAACCTATTACTCTAAAGTAATAGGTAAATTTACAATGTAAACGGTA
* *
2035030 AAAATCTACTGGTTTAATGATAATAGGCATAAATATAAAGTATCGATACTT
131 AAAATCTACTGGTATAATGATAATAGGCATAAACATAAAGTATCGATA-TT
* *
2035081 T-TTATTACAGTATGTAACTCAAACAATTTGTACGCAAAAAGTATCGATACACATATATA-ATGT
1 TATTATTACAGTATGTAACTCAAACAATTTGCACGCAAAAAGTATCGATACACATATA-ACAAGT
* *
2035144 ACCGATACTTGGAATTTCAAAACCTATTACAT-TAAAGTAATAGGTTAATTTATAATGTAAACGG
65 ACCGATACTTGGAATTTCAAAACCTATTAC-TCTAAAGTAATAGGTAAATTTACAATGTAAACGG
* * *
2035208 TAAATATCTACTGGTATAATTATAATAGGCGTAAACATAAAGTATCGATATT
129 TAAAAATCTACTGGTATAATGATAATAGGCATAAACATAAAGTATCGATATT
2035260 TATTAT
1 TATTAT
2035266 ATAGGTATCG
Statistics
Matches: 166, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
179 3 0.02
180 160 0.96
181 3 0.02
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (180 bp):
TATTATTACAGTATGTAACTCAAACAATTTGCACGCAAAAAGTATCGATACACATATAACAAGTA
CCGATACTTGGAATTTCAAAACCTATTACTCTAAAGTAATAGGTAAATTTACAATGTAAACGGTA
AAAATCTACTGGTATAATGATAATAGGCATAAACATAAAGTATCGATATT
Found at i:2035995 original size:18 final size:18
Alignment explanation
Indices: 2035967--2036012 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
2035957 CGAGACACAG
*
2035967 TTCTACTCAACCAAGGTCA
1 TTCTTCTCAACCAAGGT-A
2035986 -TCTTCTCAACCAAGGTA
1 TTCTTCTCAACCAAGGTA
2036003 TTCTTCTCAA
1 TTCTTCTCAA
2036013 GTAAGGGCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 1 0.04
18 24 0.96
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (18 bp):
TTCTTCTCAACCAAGGTA
Found at i:2038638 original size:18 final size:18
Alignment explanation
Indices: 2038615--2038651 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2038605 TATGCATTTG
*
2038615 TCAATTTTAATTTCAATT
1 TCAATTTGAATTTCAATT
*
2038633 TCAATTTGAATTTTAATT
1 TCAATTTGAATTTCAATT
2038651 T
1 T
2038652 GAGCTCCACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (18 bp):
TCAATTTGAATTTCAATT
Found at i:2038652 original size:12 final size:12
Alignment explanation
Indices: 2038617--2038653 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
2038607 TGCATTTGTC
*
2038617 AATTTTAATTTC
1 AATTTTAATTTG
*
2038629 AATTTCAATTTG
1 AATTTTAATTTG
2038641 AATTTTAATTTG
1 AATTTTAATTTG
2038653 A
1 A
2038654 GCTCCACTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (12 bp):
AATTTTAATTTG
Found at i:2040421 original size:200 final size:199
Alignment explanation
Indices: 2040061--2040688 Score: 918
Period size: 200 Copynumber: 3.1 Consensus size: 199
2040051 CACCTACTCC
* * * * * *
2040061 AAGTATCGCTCCACATACAACAAGTATCAATATTTAGACTTTCAAAACCTATTACTTTAAAGTAA
1 AAGTATCGATACACATATAACAAGTATCGATACTTGGACTTTCAAAACCTATTACTTTAAAGTAA
* *
2040126 TAGGTAAA-TTAAAATGAAAACGGTAAAAATCTACAAGTTTAATGATAATAGGCGTAAACATAAA
66 TAGGTAAATTTACAATGTAAACGGTAAAAATCTACAAGTTTAATGATAATAGGCGTAAACATAAA
*
2040190 GTACATATACTTATTATATAGGTATCGATATTGTTATTCCAGTATGTATCTCAAACAATTTGCAC
131 GTACA-ATACTTATTATATAGGTATCGATATTGTTATTCCAGTATGCATCTCAAACAATTTGCAC
*
2040255 ACAAA
195 GCAAA
* * *
2040260 AGGTATCGATACACATATAACAAGTATCGATACTTGGACTTTTAAAACTTATTACTTTAAAGTAA
1 AAGTATCGATACACATATAACAAGTATCGATACTTGGACTTTCAAAACCTATTACTTTAAAGTAA
* * ** * *
2040325 TAGGTAAATTTCCAATGTAAACGATAAAAATCTACTGGTTTAATGATAATGGGCATAAACATAAA
66 TAGGTAAATTTACAATGTAAACGGTAAAAATCTACAAGTTTAATGATAATAGGCGTAAACATAAA
* * **
2040390 TTATCGATACTTATTATATAGGTATCGATATTGTTATTCCAGTATGCATCTCAAACAATTTGTTC
131 GTA-CAATACTTATTATATAGGTATCGATATTGTTATTCCAGTATGCATCTCAAACAATTTGCAC
2040455 GCAAA
195 GCAAA
*
2040460 AAGTATCGCTACACATATAACAAGTATCGATACTTGGACTTTCAAAACCTATTACTTTAAAGTAA
1 AAGTATCGATACACATATAACAAGTATCGATACTTGGACTTTCAAAACCTATTACTTTAAAGTAA
*
2040525 TAGGTAAATTTACAATGTAAACGGTAAAAATCTACCAGTTTAATGATAATAGGCGTAAACATAAA
66 TAGGTAAATTTACAATGTAAACGGTAAAAATCTACAAGTTTAATGATAATAGGCGTAAACATAAA
*
2040590 GTACCAATACTTATTATATAAGTATCGATATTGTTATAAT-CAGTATGCATCTCAAACAATTTGC
131 GTA-CAATACTTATTATATAGGTATCGATATTGTTAT--TCCAGTATGCATCTCAAACAATTTGC
2040654 ACGCAAA
193 ACGCAAA
* * * **
2040661 ATGTCTCAATACGTATATAACAAGTATC
1 AAGTATCGATACACATATAACAAGTATC
2040689 AATATGTTTA
Statistics
Matches: 380, Mismatches: 45, Indels: 6
0.88 0.10 0.01
Matches are distributed among these distances:
199 64 0.17
200 263 0.69
201 52 0.14
202 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (199 bp):
AAGTATCGATACACATATAACAAGTATCGATACTTGGACTTTCAAAACCTATTACTTTAAAGTAA
TAGGTAAATTTACAATGTAAACGGTAAAAATCTACAAGTTTAATGATAATAGGCGTAAACATAAA
GTACAATACTTATTATATAGGTATCGATATTGTTATTCCAGTATGCATCTCAAACAATTTGCACG
CAAA
Found at i:2041738 original size:226 final size:225
Alignment explanation
Indices: 2041433--2041964 Score: 763
Period size: 226 Copynumber: 2.4 Consensus size: 225
2041423 ATGTACACAG
* * *
2041433 TAATATATTGATAATATTGA-AAATAAATTAAGTAATTAA-C---TTTGTTATCGTTTGATTTCT
1 TAATATGTTGATAATATTGATAAA-AAATCAAGTAATTAACCTATTTTGTTATCG-TCGATTTCT
* *
2041493 AAGGCCCCATCAACTTTAAAC-TGGCGCTATC-TATTACATTAAATAAGCCCTACTTGTTATGTT
64 AAGGCCCTATCAGCTTTAAACAT-GCGCTA-CATATTACATTAAATAAGCCCTACTTGTTATGTT
* * * * *
2041556 ATTATGGTTGATAATGTTTATAATAATTAACTTATTTTGTTATAGTCGGATTTCTAAGTATTCAT
127 ATTATGGGTGATAATGTTTATAATAATTAACCTATTTTGTTATAGTCGGATTTATAAGGATCCAT
2041621 CAGCTTAAACTTTGGTAACATTTTAGGCGCTACC
192 CAGCTTAAACTTTGGTAACATTTTAGGCGCTACC
** *
2041655 TAATATGTTGATAATATTGATAACGAATCAAGTAATTAACCTATTTTGTTATCATCAGATTTCTA
1 TAATATGTTGATAATATTGATAAAAAATCAAGTAATTAACCTATTTTGTTATCGTC-GATTTCTA
* ** *
2041720 AGGCTCTATCAGCTTTAAACATGCGCTACATATTACATTAAATAAGCGTTATTTGTTATGTTATT
65 AGGCCCTATCAGCTTTAAACATGCGCTACATATTACATTAAATAAGCCCTACTTGTTATGTTATT
* * * *
2041785 ATGGGTGATAATGTTTCTAGTAATTAACCTATTTTGTTATCGTCGGATTTATAAGGCTCCATCAG
130 ATGGGTGATAATGTTTATAATAATTAACCTATTTTGTTATAGTCGGATTTATAAGGATCCATCAG
*
2041850 CTTAAACTTTGTTAACATTTTAGGCGCTACC
195 CTTAAACTTTGGTAACATTTTAGGCGCTACC
2041881 TAATATGTTGATAATATTGATAAAAAATCAAGTAATTAACCTATTTTGTTATCGTCGAATTTCTA
1 TAATATGTTGATAATATTGATAAAAAATCAAGTAATTAACCTATTTTGTTATCGTCG-ATTTCTA
2041946 AGGCCCTATCAGCTTTAAA
65 AGGCCCTATCAGCTTTAAA
2041965 AATATGTTAC
Statistics
Matches: 275, Mismatches: 26, Indels: 14
0.87 0.08 0.04
Matches are distributed among these distances:
222 32 0.12
223 3 0.01
225 3 0.01
226 236 0.86
227 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (225 bp):
TAATATGTTGATAATATTGATAAAAAATCAAGTAATTAACCTATTTTGTTATCGTCGATTTCTAA
GGCCCTATCAGCTTTAAACATGCGCTACATATTACATTAAATAAGCCCTACTTGTTATGTTATTA
TGGGTGATAATGTTTATAATAATTAACCTATTTTGTTATAGTCGGATTTATAAGGATCCATCAGC
TTAAACTTTGGTAACATTTTAGGCGCTACC
Found at i:2041991 original size:12 final size:12
Alignment explanation
Indices: 2041970--2042001 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
2041960 TTAAAAATAT
*
2041970 GTTACCTATTAC
1 GTTACATATTAC
2041982 GTTACATATTAC
1 GTTACATATTAC
2041994 GTTACATA
1 GTTACATA
2042002 AGTGCTACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (12 bp):
GTTACATATTAC
Found at i:2048694 original size:2 final size:2
Alignment explanation
Indices: 2048689--2048716 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2048679 ACACACACAC
2048689 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
2048717 TAAGCCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2048968 original size:20 final size:18
Alignment explanation
Indices: 2048926--2048962 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2048916 CATAATAATA
* *
2048926 TTTTAAAAACTTATATAT
1 TTTTAAAAAATGATATAT
2048944 TTTTAAAAAATGATATAT
1 TTTTAAAAAATGATATAT
2048962 T
1 T
2048963 CATTTATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (18 bp):
TTTTAAAAAATGATATAT
Found at i:2051393 original size:16 final size:16
Alignment explanation
Indices: 2051374--2051426 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
2051364 CCATAACCCC
2051374 TATCACACATATATCA
1 TATCACACATATATCA
* * *
2051390 TATCATACACACATCA
1 TATCACACATATATCA
2051406 TATCACACATCATATACA
1 TATCACACAT-ATAT-CA
2051424 TAT
1 TAT
2051427 ATCACATACA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
16 21 0.72
17 3 0.10
18 5 0.17
ACGTcount: A:0.43, C:0.26, G:0.00, T:0.30
Consensus pattern (16 bp):
TATCACACATATATCA
Found at i:2051412 original size:12 final size:12
Alignment explanation
Indices: 2051374--2051420 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
2051364 CCATAACCCC
2051374 TATCACACAT-A
1 TATCACACATCA
*
2051385 TAT--CATATCA
1 TATCACACATCA
2051395 TA-CACACATCA
1 TATCACACATCA
2051406 TATCACACATCA
1 TATCACACATCA
2051418 TAT
1 TAT
2051421 ACATATATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
9 4 0.13
10 3 0.10
11 11 0.37
12 12 0.40
ACGTcount: A:0.43, C:0.28, G:0.00, T:0.30
Consensus pattern (12 bp):
TATCACACATCA
Found at i:2051782 original size:23 final size:23
Alignment explanation
Indices: 2051756--2051847 Score: 139
Period size: 23 Copynumber: 4.0 Consensus size: 23
2051746 CACCACAGCT
*
2051756 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
2051779 CGTAGAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
2051802 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
* *
2051825 CGTAGAATTGCATCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
2051848 TATAATAATG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 63 1.00
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:2052034 original size:103 final size:103
Alignment explanation
Indices: 2051869--2052075 Score: 371
Period size: 103 Copynumber: 2.0 Consensus size: 103
2051859 CCATAAAGAG
*
2051869 CACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACTTC
1 CACATATCATTCCTTAAGAATCATATACATATACTAAGGATCAAGTATGTGTCTCACCAGACTTC
2051934 ACACATGTTCCAAAGAATACATATATGTCCCGAAGGAC
66 ACACATGTTCCAAAGAATACATATATGTCCCGAAGGAC
* *
2051972 CACATATCATTCCTTAATAATCATATACATAT-GTCAAGGATCAAGTATGTGTCTCACCAGACTT
1 CACATATCATTCCTTAAGAATCATATACATATACT-AAGGATCAAGTATGTGTCTCACCAGACTT
2052036 CACACATGTTCCAAAGAATACATATATGTCCCGAAGGAC
65 CACACATGTTCCAAAGAATACATATATGTCCCGAAGGAC
2052075 C
1 C
2052076 GCGTAGACCC
Statistics
Matches: 100, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
102 1 0.01
103 99 0.99
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.28
Consensus pattern (103 bp):
CACATATCATTCCTTAAGAATCATATACATATACTAAGGATCAAGTATGTGTCTCACCAGACTTC
ACACATGTTCCAAAGAATACATATATGTCCCGAAGGAC
Found at i:2058059 original size:13 final size:13
Alignment explanation
Indices: 2058041--2058066 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2058031 TAATTTACTC
2058041 ATTTTTTTTTTGT
1 ATTTTTTTTTTGT
2058054 ATTTTTTTTTTGT
1 ATTTTTTTTTTGT
2058067 TTCCGTGTGG
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:0.08, C:0.00, G:0.08, T:0.85
Consensus pattern (13 bp):
ATTTTTTTTTTGT
Found at i:2058290 original size:29 final size:30
Alignment explanation
Indices: 2058248--2058305 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
2058238 TGTTTTTTTG
2058248 AGTCTCTCGACTATT-ATAAGTTACAAAAT
1 AGTCTCTCGACTATTCATAAGTTACAAAAT
* *
2058277 AGTCATCT-GACTATTCATATGTTTCAAAA
1 AGTC-TCTCGACTATTCATAAGTTACAAAA
2058306 ACATTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.36
Consensus pattern (30 bp):
AGTCTCTCGACTATTCATAAGTTACAAAAT
Found at i:2059993 original size:93 final size:93
Alignment explanation
Indices: 2059884--2060152 Score: 439
Period size: 93 Copynumber: 2.9 Consensus size: 93
2059874 TCAATTATTG
* * *
2059884 TTTTAGCGTCGATCTTTATAACTGTTCTTTTAAAAAATAAATTATGATCATAAAATTAATTTTAA
1 TTTTAGCGTCGGTCTTTACAAGTGTTCTTTTAAAAAATAAATTATGATCATAAAATTAATTTTAA
2059949 TATAATTTAATTTTAAAATGATGTTAAA
66 TATAATTTAATTTTAAAATGATGTTAAA
* *
2059977 TTTTAGCGTCGGTCTTTACAAGTGTTATTTTAAAAAATAAATTACGATCATAAAATTAATTTTAA
1 TTTTAGCGTCGGTCTTTACAAGTGTTCTTTTAAAAAATAAATTATGATCATAAAATTAATTTTAA
* *
2060042 TATAATTTAATTTTAAGATGGTGTTAAA
66 TATAATTTAATTTTAAAATGATGTTAAA
* * *
2060070 TTTTAGCGTCAGTCTTTACAAGTGTTCTTTTAAAAACTAAATTATGATCATAAAATCAATTTTAA
1 TTTTAGCGTCGGTCTTTACAAGTGTTCTTTTAAAAAATAAATTATGATCATAAAATTAATTTTAA
*
2060135 TATAGTTTAATTTTAAAA
66 TATAATTTAATTTTAAAA
2060153 GAAGATATTC
Statistics
Matches: 162, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 162 1.00
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.44
Consensus pattern (93 bp):
TTTTAGCGTCGGTCTTTACAAGTGTTCTTTTAAAAAATAAATTATGATCATAAAATTAATTTTAA
TATAATTTAATTTTAAAATGATGTTAAA
Found at i:2061387 original size:38 final size:38
Alignment explanation
Indices: 2061345--2061420 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
2061335 ATGAGTATAG
**
2061345 TTGTATATTAACGGCAGGAGTTAAATGCATAAATCCAA
1 TTGTATATTAACGGCAAAAGTTAAATGCATAAATCCAA
* *
2061383 TTGTATATTAATGGCAAAAGTTAAATGCATGAATCCAA
1 TTGTATATTAACGGCAAAAGTTAAATGCATAAATCCAA
2061421 CACATCATCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (38 bp):
TTGTATATTAACGGCAAAAGTTAAATGCATAAATCCAA
Found at i:2061681 original size:13 final size:13
Alignment explanation
Indices: 2061663--2061707 Score: 81
Period size: 13 Copynumber: 3.5 Consensus size: 13
2061653 CTACGAAAGG
2061663 CATGCGTCTTCAC
1 CATGCGTCTTCAC
2061676 CATGCGTCTTCAC
1 CATGCGTCTTCAC
*
2061689 CATGCGCCTTCAC
1 CATGCGTCTTCAC
2061702 CATGCG
1 CATGCG
2061708 CCTAAGCTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.16, C:0.40, G:0.18, T:0.27
Consensus pattern (13 bp):
CATGCGTCTTCAC
Found at i:2063699 original size:8 final size:8
Alignment explanation
Indices: 2063686--2063721 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
2063676 ATACCCAGAT
2063686 ATATATAC
1 ATATATAC
2063694 ATATATAC
1 ATATATAC
*
2063702 ATACATAC
1 ATATATAC
*
2063710 ATACATAC
1 ATATATAC
2063718 ATAT
1 ATAT
2063722 GTACGTACCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (8 bp):
ATATATAC
Found at i:2063705 original size:4 final size:4
Alignment explanation
Indices: 2063690--2063720 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
2063680 CCAGATATAT
*
2063690 ATAC ATAT ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
2063721 TGTACGTACC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (4 bp):
ATAC
Found at i:2063705 original size:12 final size:12
Alignment explanation
Indices: 2063684--2063721 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
2063674 TCATACCCAG
*
2063684 ATATATATACAT
1 ATATACATACAT
2063696 ATATACATACAT
1 ATATACATACAT
*
2063708 ACATACATACAT
1 ATATACATACAT
2063720 AT
1 AT
2063722 GTACGTACCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (12 bp):
ATATACATACAT
Found at i:2064712 original size:34 final size:31
Alignment explanation
Indices: 2064632--2064744 Score: 90
Period size: 34 Copynumber: 3.6 Consensus size: 31
2064622 GTTATTATTT
* * *
2064632 TTTAAATACTTATTATATTTTATATTAATATA
1 TTTATATAATTATTAT-TTTTTTATTAATATA
* *
2064664 ATTATATAAATATTATTTTTTTATTAAAATAATA
1 TTTATATAATTATTATTTTTTTATT--AAT-ATA
* *
2064698 TTTATATAATTATTATTTATTTA--AATTTA
1 TTTATATAATTATTATTTTTTTATTAATATA
*
2064727 TTAAT-TAATTATT-TTTTT
1 TTTATATAATTATTATTTTT
2064745 GCTAATTATT
Statistics
Matches: 67, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
27 4 0.06
28 8 0.12
29 6 0.09
30 3 0.04
31 8 0.12
32 12 0.18
33 3 0.04
34 23 0.34
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (31 bp):
TTTATATAATTATTATTTTTTTATTAATATA
Found at i:2066540 original size:21 final size:21
Alignment explanation
Indices: 2066514--2066574 Score: 97
Period size: 21 Copynumber: 2.9 Consensus size: 21
2066504 TGTCATCTCC
2066514 GCAGGGTTACATTCCTAGCCT
1 GCAGGGTTACATTCCTAGCCT
2066535 GCAGGGTTACATTCCTAGCCT
1 GCAGGGTTACATTCCTAGCCT
*
2066556 GCCA-GGTTACATGCCTAGC
1 G-CAGGGTTACATTCCTAGC
2066575 TCACAGGGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
21 36 0.95
22 2 0.05
ACGTcount: A:0.20, C:0.30, G:0.25, T:0.26
Consensus pattern (21 bp):
GCAGGGTTACATTCCTAGCCT
Found at i:2066584 original size:21 final size:20
Alignment explanation
Indices: 2066515--2066584 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 20
2066505 GTCATCTCCG
*
2066515 CAGGGTTACATTCCTAGCCTG
1 CAGGGTTACATTCCTAG-CTC
2066536 CAGGGTTACATTCCTAGCCTGC
1 CAGGGTTACATTCCTAG-CT-C
*
2066558 CA-GGTTACATGCCTAGCTC
1 CAGGGTTACATTCCTAGCTC
2066577 ACAGGGTT
1 -CAGGGTT
2066585 TTATACCATA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
19 1 0.02
20 4 0.09
21 37 0.84
22 2 0.05
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (20 bp):
CAGGGTTACATTCCTAGCTC
Found at i:2067182 original size:32 final size:33
Alignment explanation
Indices: 2067095--2067198 Score: 131
Period size: 33 Copynumber: 3.2 Consensus size: 33
2067085 ATAAATGTTT
* *
2067095 TTAAAATACAATTTATAGTGTTCGAAATTTAAAA
1 TTAAAATACAA-ATATAGTATTCGAAATTTAAAA
*
2067129 TTAAAATACAAATAATA-TATTCGAAATTTAAAT
1 TTAAAATACAAAT-ATAGTATTCGAAATTTAAAA
* *
2067162 TTAAAATAGAAAT-TAGTATTCGAAATTTAACA
1 TTAAAATACAAATATAGTATTCGAAATTTAAAA
2067194 TTAAA
1 TTAAA
2067199 TTCAACTTAA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
31 2 0.03
32 19 0.31
33 27 0.44
34 14 0.23
ACGTcount: A:0.51, C:0.06, G:0.07, T:0.37
Consensus pattern (33 bp):
TTAAAATACAAATATAGTATTCGAAATTTAAAA
Found at i:2067228 original size:41 final size:41
Alignment explanation
Indices: 2067172--2067280 Score: 102
Period size: 41 Copynumber: 2.6 Consensus size: 41
2067162 TTAAAATAGA
2067172 AATTAGTATTCGAAATTTAACATTAAATTCAACTTAATA-TTC-C
1 AATTA-TA-TCGAAATTTAACATTAAATTCAA-TT-ATAGTTCAC
* *
2067215 AATTATATCGAAA-TTAAAAGTTATATTTCAATTATAGTTCAC
1 AATTATATCGAAATTTAACA-TTA-AATTCAATTATAGTTCAC
*
2067257 AGTTAT-TC-AAATTTAACATTAAAT
1 AATTATATCGAAATTTAACATTAAAT
2067281 GTTTAATAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 14
0.75 0.07 0.19
Matches are distributed among these distances:
39 2 0.04
40 14 0.25
41 21 0.38
42 14 0.25
43 5 0.09
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (41 bp):
AATTATATCGAAATTTAACATTAAATTCAATTATAGTTCAC
Found at i:2067339 original size:34 final size:34
Alignment explanation
Indices: 2067296--2067402 Score: 151
Period size: 34 Copynumber: 3.1 Consensus size: 34
2067286 ATAAATGTTT
* *
2067296 TTAAAATACAATTTATAGTGTTCGAAATTTAAAA
1 TTAAAATACAAATTATAGTATTCGAAATTTAAAA
* * *
2067330 TTAAAATACAAATAATATTATTCGAAATTTAAAT
1 TTAAAATACAAATTATAGTATTCGAAATTTAAAA
* *
2067364 TTAAAATATAAATTATAGTATTCGAAATTTAACA
1 TTAAAATACAAATTATAGTATTCGAAATTTAAAA
2067398 TTAAA
1 TTAAA
2067403 TTCAACTTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 63 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (34 bp):
TTAAAATACAAATTATAGTATTCGAAATTTAAAA
Found at i:2068288 original size:124 final size:127
Alignment explanation
Indices: 2067858--2068329 Score: 771
Period size: 127 Copynumber: 3.8 Consensus size: 127
2067848 GTGTAATGCA
* *
2067858 ATGAATA-TTCTCGGGGGACATAAGTGACATAATAGGG-CA--ATAATATATTCTCTGACAAAAT
1 ATGAATAGTTCTCGGGGGACATAAGTGACATAATAGGGTAATGATAACATATTCTCTGACAAAAT
*
2067919 AATGGAAGGCGCGCCCCCAGGAACGCGCCTTCACGGTCCCCTAAGGAATAATAGGTATTGAC
66 AATGGAAGGCGCGCCCCCGGGAACGCGCCTTCACGGTCCCCTAAGGAATAATAGGTATTGAC
2067981 ATGAATAGTTC-CTGGGGGACATAAGTGACATAATAGGGTAATGATAACATATTCTCTGACAAAA
1 ATGAATAGTTCTC-GGGGGACATAAGTGACATAATAGGGTAATGATAACATATTCTCTGACAAAA
*
2068045 TAATGGAATGCGCGCCCCCGGGAACGCGCCTTCACGGTCCCCTAAGGAATAATAGGTATTGAC
65 TAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCACGGTCCCCTAAGGAATAATAGGTATTGAC
*
2068108 ATGAATAGTTCTCGGGGGACATAAGTGACATAATATGGTAATGATAACATATTCTCTGACAAAAT
1 ATGAATAGTTCTCGGGGGACATAAGTGACATAATAGGGTAATGATAACATATTCTCTGACAAAAT
* * *
2068173 -ATAGAAGGCGCGCCCCTGGGAATGCGCCTTCACGGT-CCCTAAGGAATAATAGGTATTGAC
66 AATGGAAGGCGCGCCCCCGGGAACGCGCCTTCACGGTCCCCTAAGGAATAATAGGTATTGAC
* *
2068233 ATGAATAGTTCT-GGGTGATATAAGTGACATAATAGGGTAATGATAACATATTCTCTGACAAAAT
1 ATGAATAGTTCTCGGGGGACATAAGTGACATAATAGGGTAATGATAACATATTCTCTGACAAAAT
* *
2068297 AATGGAAGGCGCCCCCCCGGGAACGCACCTTCA
66 AATGGAAGGCGCGCCCCCGGGAACGCGCCTTCA
2068330 TGTGAATAGT
Statistics
Matches: 325, Mismatches: 17, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
123 8 0.02
124 77 0.24
125 64 0.20
126 32 0.10
127 143 0.44
128 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (127 bp):
ATGAATAGTTCTCGGGGGACATAAGTGACATAATAGGGTAATGATAACATATTCTCTGACAAAAT
AATGGAAGGCGCGCCCCCGGGAACGCGCCTTCACGGTCCCCTAAGGAATAATAGGTATTGAC
Found at i:2068316 original size:251 final size:250
Alignment explanation
Indices: 2067858--2068329 Score: 779
Period size: 251 Copynumber: 1.9 Consensus size: 250
2067848 GTGTAATGCA
* * *
2067858 ATGAATATTCTCGGGGGACATAAGTGACATAATAGGGCAATAATATATTCTCTGACAAAATAATG
1 ATGAATATTCTCGGGGGACATAAGTGACATAATAGGGAAATAACATATTCTCTGACAAAATAATA
2067923 GAAGGCGCGCCCCCAGGAACGCGCCTTCACGGTCCCCTAAGGAATAATAGGTATTGACATGAATA
66 GAAGGCGCGCCCCCAGGAACGCGCCTTCACGGTCCCCTAAGGAATAATAGGTATTGACATGAATA
2067988 GTTCCTGGGGGACATAAGTGACATAATAGGGTAATGATAACATATTCTCTGACAAAATAATGGAA
131 GTTCCTGGGGGACATAAGTGACATAATAGGGTAATGATAACATATTCTCTGACAAAATAATGGAA
* * *
2068053 TGCGCGCCCCCGGGAACGCGCCTTCACGGTCCCCTAAGGAATAATAGGTATTGAC
196 GGCGCCCCCCCGGGAACGCACCTTCACGGTCCCCTAAGGAATAATAGGTATTGAC
*
2068108 ATGAATAGTTCTCGGGGGACATAAGTGACATAATATGGTAATGATAACATATTCTCTGACAAAAT
1 ATGAATA-TTCTCGGGGGACATAAGTGACATAATA-GGGAA--ATAACATATTCTCTGACAAAAT
** *
2068173 -ATAGAAGGCGCGCCCCTGGGAATGCGCCTTCACGGT-CCCTAAGGAATAATAGGTATTGACATG
62 AATAGAAGGCGCGCCCCCAGGAACGCGCCTTCACGGTCCCCTAAGGAATAATAGGTATTGACATG
* *
2068236 AATAGTT-CTGGGTGATATAAGTGACATAATAGGGTAATGATAACATATTCTCTGACAAAATAAT
127 AATAGTTCCTGGGGGACATAAGTGACATAATAGGGTAATGATAACATATTCTCTGACAAAATAAT
2068300 GGAAGGCGCCCCCCCGGGAACGCACCTTCA
192 GGAAGGCGCCCCCCCGGGAACGCACCTTCA
2068330 TGTGAATAGT
Statistics
Matches: 206, Mismatches: 12, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
250 7 0.03
251 109 0.53
252 37 0.18
253 32 0.16
254 21 0.10
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (250 bp):
ATGAATATTCTCGGGGGACATAAGTGACATAATAGGGAAATAACATATTCTCTGACAAAATAATA
GAAGGCGCGCCCCCAGGAACGCGCCTTCACGGTCCCCTAAGGAATAATAGGTATTGACATGAATA
GTTCCTGGGGGACATAAGTGACATAATAGGGTAATGATAACATATTCTCTGACAAAATAATGGAA
GGCGCCCCCCCGGGAACGCACCTTCACGGTCCCCTAAGGAATAATAGGTATTGAC
Found at i:2082441 original size:15 final size:15
Alignment explanation
Indices: 2082423--2082451 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2082413 TGGCCGCCCA
2082423 AACCGAATTAACCAT
1 AACCGAATTAACCAT
2082438 AACCGAATTAACCA
1 AACCGAATTAACCA
2082452 AACTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.28, G:0.07, T:0.17
Consensus pattern (15 bp):
AACCGAATTAACCAT
Found at i:2082848 original size:182 final size:184
Alignment explanation
Indices: 2082531--2082915 Score: 622
Period size: 182 Copynumber: 2.1 Consensus size: 184
2082521 TTTTCTAATT
* *
2082531 TATATAA-A-ATTAAATATTTTTTAATTCAAAAAAAGTTTATAATTAATTTAAATAATAAATAAT
1 TATATAATATATTTAATATTTTTTAATTCAAAAAAAGTTTACAATTAATTTAAATAATAAATAAT
* *
2082594 TATAAAATAAAAATTTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
66 TATAAAATAAAAATTATAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAATTATT
*
2082659 GGATCTTAAATTATTAATTGGGTTTTAAAT-AGTTTGGGCTT-AGCCCATATGTTA
131 AGATCTTAAATTATTAATTGGGTTTTAAATGA-TTTGGG-TTGAGCCCATATGTTA
*
2082713 TATATAATATATTTAATATTTTTTAATT-AAAAAACAGTTTACAATTAATTTAAATAATATATAA
1 TATATAATATATTTAATATTTTTTAATTCAAAAAA-AGTTTACAATTAATTTAAATAATAAATAA
*
2082777 TTATAAAATAAAAA-TATATAT-AATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAATTAT
65 TTATAAAATAAAAATTATAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAATTAT
*
2082840 TAGATCTTAAATTATTAATTGGGTTTTTAATGATTTGGGTTGAGCCCATATGTTA
130 TAGATCTTAAATTATTAATTGGGTTTTAAATGATTTGGGTTGAGCCCATATGTTA
2082895 TATATAATATATTTAATATTT
1 TATATAATATATTTAATATTT
2082916 AAAATTTAAT
Statistics
Matches: 190, Mismatches: 8, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
181 2 0.01
182 117 0.62
183 13 0.07
184 58 0.31
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (184 bp):
TATATAATATATTTAATATTTTTTAATTCAAAAAAAGTTTACAATTAATTTAAATAATAAATAAT
TATAAAATAAAAATTATAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAATTATT
AGATCTTAAATTATTAATTGGGTTTTAAATGATTTGGGTTGAGCCCATATGTTA
Found at i:2083559 original size:66 final size:66
Alignment explanation
Indices: 2083453--2083593 Score: 264
Period size: 66 Copynumber: 2.1 Consensus size: 66
2083443 TGTCACATGA
2083453 AAAACTGATGTATAAATACATTAAAGCCACATCATTATAACGTGGACGACAAGAAGTGTTAGGCT
1 AAAACTGATGTATAAATACATTAAAGCCACATCATTATAACGTGGACGACAAGAAGTGTTAGGCT
2083518 C
66 C
* *
2083519 AAAACTGATGTATAAATGCATTAAAGCTACATCATTATAACGTGGACGACAAGAAGTGTTAGGCT
1 AAAACTGATGTATAAATACATTAAAGCCACATCATTATAACGTGGACGACAAGAAGTGTTAGGCT
2083584 C
66 C
2083585 AAAACTGAT
1 AAAACTGAT
2083594 ATATTCTAAA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 73 1.00
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (66 bp):
AAAACTGATGTATAAATACATTAAAGCCACATCATTATAACGTGGACGACAAGAAGTGTTAGGCT
C
Found at i:2086134 original size:15 final size:16
Alignment explanation
Indices: 2086113--2086151 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
2086103 AATATAGGTC
2086113 AAAAATTAAA-ATTTG
1 AAAAATTAAACATTTG
*
2086128 TAAAATTAAAGCATTTG
1 AAAAATTAAA-CATTTG
2086145 AAAAATT
1 AAAAATT
2086152 GATATCATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 9 0.45
17 11 0.55
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.33
Consensus pattern (16 bp):
AAAAATTAAACATTTG
Found at i:2089165 original size:23 final size:22
Alignment explanation
Indices: 2089139--2089188 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
2089129 AACGATCAAG
2089139 AAAGAAAACGAAAAACATGCCAC
1 AAAGAAAA-GAAAAACATGCCAC
* * *
2089162 AAAGGTAAATAAAAACGTGCCAC
1 AAA-GAAAAGAAAAACATGCCAC
2089185 AAAG
1 AAAG
2089189 GCAGAGTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 1 0.04
23 18 0.78
24 4 0.17
ACGTcount: A:0.58, C:0.18, G:0.16, T:0.08
Consensus pattern (22 bp):
AAAGAAAAGAAAAACATGCCAC
Found at i:2096079 original size:206 final size:206
Alignment explanation
Indices: 2095725--2096138 Score: 801
Period size: 206 Copynumber: 2.0 Consensus size: 206
2095715 ATCCGGTTGT
* *
2095725 ATACTGGCTGCCAGAGGTGGTTCAGTCCTCCTTATGTACATACCGGAGGTACAATGTGAGTAGCA
1 ATACTGGCTGCCAGAGGTGGTTCAGTCCTCCTCATGTACATACCGGAGGTACAATGTGAGAAGCA
2095790 GCGGAAATGCCGGTGAGAAGTCCCATCGAGTCCAAACACCTAACATCAAGTGGATCCATAGCAAA
66 GCGGAAATGCCGGTGAGAAGTCCCATCGAGTCCAAACACCTAACATCAAGTGGATCCATAGCAAA
2095855 ATCATAAGTAAAATCCACAGTGTAAAAGGTCAATGGAAATAAACAAGATGCTAAATGTGTAATAT
131 ATCATAAGTAAAATCCACAGTGTAAAAGGTCAATGGAAATAAACAAGATGCTAAATGTGTAATAT
2095920 AAAGTCCAAGG
196 AAAGTCCAAGG
*
2095931 ATACTGGCTGCCAGAGGTGGTTCAGTCCTCCTCATGTATATACCGGAGGTACAATGTGAGAAGCA
1 ATACTGGCTGCCAGAGGTGGTTCAGTCCTCCTCATGTACATACCGGAGGTACAATGTGAGAAGCA
2095996 GCGGAAATGCCGGTGAGAAGTCCCATCGAGTCCAAACACCTAACATCAAGTGGATCCATAGCAAA
66 GCGGAAATGCCGGTGAGAAGTCCCATCGAGTCCAAACACCTAACATCAAGTGGATCCATAGCAAA
2096061 ATCATAAGTAAAATCCACAGTGTAAAAGGTCAATGGAAATAAACAAGATGCTAAATGTGTAATAT
131 ATCATAAGTAAAATCCACAGTGTAAAAGGTCAATGGAAATAAACAAGATGCTAAATGTGTAATAT
2096126 AAAGTCCAAGG
196 AAAGTCCAAGG
2096137 AT
1 AT
2096139 CAAAGGTCGA
Statistics
Matches: 205, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
206 205 1.00
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (206 bp):
ATACTGGCTGCCAGAGGTGGTTCAGTCCTCCTCATGTACATACCGGAGGTACAATGTGAGAAGCA
GCGGAAATGCCGGTGAGAAGTCCCATCGAGTCCAAACACCTAACATCAAGTGGATCCATAGCAAA
ATCATAAGTAAAATCCACAGTGTAAAAGGTCAATGGAAATAAACAAGATGCTAAATGTGTAATAT
AAAGTCCAAGG
Found at i:2110944 original size:14 final size:15
Alignment explanation
Indices: 2110898--2110944 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
2110888 TGATCATACG
*
2110898 ATAATATTTATTTTAA
1 ATAATAATTA-TTTAA
*
2110914 AAAATAATTATTT-A
1 ATAATAATTATTTAA
2110928 ATAATAA-TATTTAA
1 ATAATAATTATTTAA
2110942 ATA
1 ATA
2110945 TTTCTACAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 5 0.19
14 11 0.41
15 3 0.11
16 8 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATAATAATTATTTAA
Found at i:2112991 original size:22 final size:22
Alignment explanation
Indices: 2112939--2112992 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 22
2112929 TTAGTATTAG
* * *
2112939 TACTAAAGTGCCTCATCATTGA
1 TACTAAAGTGCATCAGCACTGA
** *
2112961 TACGGAAGTGCATTAGCACTGA
1 TACTAAAGTGCATCAGCACTGA
2112983 TACTAAAGTG
1 TACTAAAGTG
2112993 TCTTTGCATT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (22 bp):
TACTAAAGTGCATCAGCACTGA
Found at i:2115710 original size:13 final size:14
Alignment explanation
Indices: 2115692--2115720 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
2115682 CATTATATCA
2115692 AATAATAATAA-AT
1 AATAATAATAATAT
2115705 AATAATAATAATAT
1 AATAATAATAATAT
2115719 AA
1 AA
2115721 ACGCTTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AATAATAATAATAT
Found at i:2115972 original size:16 final size:16
Alignment explanation
Indices: 2115951--2115983 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2115941 TGCCTTTGGA
2115951 AAGTTTGAA-TATAATT
1 AAGTTT-AAGTATAATT
2115967 AAGTTTAAGTATAATT
1 AAGTTTAAGTATAATT
2115983 A
1 A
2115984 TACGATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 14 0.88
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (16 bp):
AAGTTTAAGTATAATT
Found at i:2117006 original size:19 final size:19
Alignment explanation
Indices: 2116979--2117023 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
2116969 CACGAAGGCG
*
2116979 TATGGACTATAGAACTTCT
1 TATGTACTATAGAACTTCT
2116998 TATGTACTATAGAACTTCT
1 TATGTACTATAGAACTTCT
2117017 TATGTAC
1 TATGTAC
2117024 AACTCAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (19 bp):
TATGTACTATAGAACTTCT
Found at i:2118585 original size:20 final size:21
Alignment explanation
Indices: 2118562--2118613 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
2118552 ATTATGACTA
2118562 TCGCAATGCGATTTT-CCAAT
1 TCGCAATGCGATTTTCCCAAT
**
2118582 TCGCGTTGCGATTTTCCCAAT
1 TCGCAATGCGATTTTCCCAAT
*
2118603 TCACAATGCGA
1 TCGCAATGCGA
2118614 ATAAGTAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCCAAT
Found at i:2118612 original size:21 final size:20
Alignment explanation
Indices: 2118565--2118613 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
2118555 ATGACTATCG
*
2118565 CAATGCGATTTTCCAATTCG
1 CAATGCGATTTTCCAATTCA
**
2118585 CGTTGCGATTTTCCCAATTCA
1 CAATGCGATTTT-CCAATTCA
2118606 CAATGCGA
1 CAATGCGA
2118614 ATAAGTAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (20 bp):
CAATGCGATTTTCCAATTCA
Found at i:2118667 original size:41 final size:41
Alignment explanation
Indices: 2118640--2118777 Score: 136
Period size: 41 Copynumber: 3.4 Consensus size: 41
2118630 GCGAATTGGG
2118640 AAAACCGCAATGCGATACTGACTATCGCAACGCGATAATAC
1 AAAACCGCAATGCGATACTGACTATCGCAACGCGATAATAC
* * * * *
2118681 AAAATCGTAATGCGATACTGACTTTCGCAACGCAATACTTAC
1 AAAACCGCAATGCGATACTGACTATCGCAACGCGATA-ATAC
*** * * *
2118723 --TTTCGCAACGCGATACTGACTTTCGCAACGAGATAATAC
1 AAAACCGCAATGCGATACTGACTATCGCAACGCGATAATAC
* *
2118762 ATAATCGCAATGCGAT
1 AAAACCGCAATGCGAT
2118778 TTTCAAAGCG
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
39 3 0.04
40 29 0.37
41 44 0.56
42 3 0.04
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.23
Consensus pattern (41 bp):
AAAACCGCAATGCGATACTGACTATCGCAACGCGATAATAC
Found at i:2118674 original size:20 final size:20
Alignment explanation
Indices: 2118645--2118757 Score: 111
Period size: 20 Copynumber: 5.6 Consensus size: 20
2118635 TTGGGAAAAC
* *
2118645 CGCAATGCGATACTGACTAT
1 CGCAACGCGATACTGACTTT
* **
2118665 CGCAACGCGATAAT-ACAAAAT
1 CGCAACGCGATACTGAC--TTT
* *
2118686 CGTAATGCGATACTGACTTT
1 CGCAACGCGATACTGACTTT
* *
2118706 CGCAACGCAATACTTACTTT
1 CGCAACGCGATACTGACTTT
2118726 CGCAACGCGATACTGACTTT
1 CGCAACGCGATACTGACTTT
*
2118746 CGCAACGAGATA
1 CGCAACGCGATA
2118758 ATACATAATC
Statistics
Matches: 75, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
19 2 0.03
20 58 0.77
21 13 0.17
22 2 0.03
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.24
Consensus pattern (20 bp):
CGCAACGCGATACTGACTTT
Found at i:2118968 original size:106 final size:106
Alignment explanation
Indices: 2118783--2118995 Score: 426
Period size: 106 Copynumber: 2.0 Consensus size: 106
2118773 GCGATTTTCA
2118783 AAGCGCCATTAGTATCGCAACGCGTATTTTATTTTCAAATTCCAAACACGAATGTTAATATATTG
1 AAGCGCCATTAGTATCGCAACGCGTATTTTATTTTCAAATTCCAAACACGAATGTTAATATATTG
2118848 GAACACTGAACCGTCCACAGTATATCCCGTAATCGCAAATC
66 GAACACTGAACCGTCCACAGTATATCCCGTAATCGCAAATC
2118889 AAGCGCCATTAGTATCGCAACGCGTATTTTATTTTCAAATTCCAAACACGAATGTTAATATATTG
1 AAGCGCCATTAGTATCGCAACGCGTATTTTATTTTCAAATTCCAAACACGAATGTTAATATATTG
2118954 GAACACTGAACCGTCCACAGTATATCCCGTAATCGCAAATC
66 GAACACTGAACCGTCCACAGTATATCCCGTAATCGCAAATC
2118995 A
1 A
2118996 TAACCTAAAA
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 107 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.28
Consensus pattern (106 bp):
AAGCGCCATTAGTATCGCAACGCGTATTTTATTTTCAAATTCCAAACACGAATGTTAATATATTG
GAACACTGAACCGTCCACAGTATATCCCGTAATCGCAAATC
Found at i:2119374 original size:20 final size:20
Alignment explanation
Indices: 2119349--2119394 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
2119339 ATTCTCTCGC
2119349 TGCGATAGTCAAATTCGCGT
1 TGCGATAGTCAAATTCGCGT
* ** *
2119369 TGCGATTGTCATTTTCGTGT
1 TGCGATAGTCAAATTCGCGT
2119389 TGCGAT
1 TGCGAT
2119395 TTTCATTTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.17, C:0.17, G:0.26, T:0.39
Consensus pattern (20 bp):
TGCGATAGTCAAATTCGCGT
Found at i:2119395 original size:20 final size:20
Alignment explanation
Indices: 2119362--2119404 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
2119352 GATAGTCAAA
2119362 TTCGCGTTGCGATTGTCATT
1 TTCGCGTTGCGATTGTCATT
* *
2119382 TTCGTGTTGCGATTTTCATT
1 TTCGCGTTGCGATTGTCATT
2119402 TTC
1 TTC
2119405 AGAAACTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.09, C:0.19, G:0.21, T:0.51
Consensus pattern (20 bp):
TTCGCGTTGCGATTGTCATT
Found at i:2120293 original size:65 final size:64
Alignment explanation
Indices: 2120189--2120319 Score: 253
Period size: 65 Copynumber: 2.0 Consensus size: 64
2120179 TATTTATGGA
2120189 AAGCTACATGGAATAAGTTATCGTCTGCCTTGGATGATCGAAAAAGTTTGCATGGCAATGGTTCC
1 AAGCTACATGGAATAAGTTATCGTCTGCCTTGGATGATCG-AAAAGTTTGCATGGCAATGGTTCC
2120254 AAGCTACATGGAATAAGTTATCGTCTGCCTTGGATGATCGAAAAGTTTGCATGGCAATGGTTCC
1 AAGCTACATGGAATAAGTTATCGTCTGCCTTGGATGATCGAAAAGTTTGCATGGCAATGGTTCC
2120318 AA
1 AA
2120320 ATACACTTTG
Statistics
Matches: 66, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
64 26 0.39
65 40 0.61
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (64 bp):
AAGCTACATGGAATAAGTTATCGTCTGCCTTGGATGATCGAAAAGTTTGCATGGCAATGGTTCC
Found at i:2120792 original size:18 final size:18
Alignment explanation
Indices: 2120771--2120818 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
2120761 TCCACATCGG
2120771 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
2120789 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
2120807 GAGCCATCACCT
1 GAGCCATCACCT
2120819 GATCGACCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.46, G:0.12, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:2121401 original size:19 final size:20
Alignment explanation
Indices: 2121347--2121413 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
2121337 TAGTTTACTT
* *
2121347 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
2121367 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
2121387 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
2121406 TCGCAACG
1 TCGCAACG
2121414 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:2121421 original size:14 final size:14
Alignment explanation
Indices: 2121402--2121460 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
2121392 ATGCGAAATG
2121402 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
2121416 AAAATCGCAACGCGAAATG
1 AAAATCGCAA--CG--A-C
2121435 AAAATCGCAACGAC
1 AAAATCGCAACGAC
2121449 AAAATCGCAACG
1 AAAATCGCAACG
2121461 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.49, C:0.25, G:0.17, T:0.08
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:2121431 original size:33 final size:33
Alignment explanation
Indices: 2121386--2121477 Score: 175
Period size: 33 Copynumber: 2.8 Consensus size: 33
2121376 GGAAATGGCT
*
2121386 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
2121419 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
2121452 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
2121478 TGCGATTTGT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.48, C:0.23, G:0.18, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Done.