Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008010.1 Hibiscus syriacus cultivar Beakdansim tig00110472_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: 3152856
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 14
Found at i:1805247 original size:34 final size:34
Alignment explanation
Indices: 1805202--1805289 Score: 95
Period size: 40 Copynumber: 2.4 Consensus size: 34
1805192 GCGATTTTCA
* *
1805202 TTTCGCATTGCGATTTCCTCGTTGCGATAGCCAT
1 TTTCGCGTTGCGATTTCCGCGTTGCGATAGCCAT
*
1805236 TTTCGCGTTGCGATAGCCATTTTCGCGTTGCGATAGCCAT
1 TTTCGCGTTGC----G--ATTTCCGCGTTGCGATAGCCAT
1805276 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
1805290 AGTCAAATGA
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
34 12 0.27
36 1 0.02
38 1 0.02
40 31 0.69
ACGTcount: A:0.14, C:0.25, G:0.24, T:0.38
Consensus pattern (34 bp):
TTTCGCGTTGCGATTTCCGCGTTGCGATAGCCAT
Found at i:1806336 original size:24 final size:24
Alignment explanation
Indices: 1806309--1806362 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1806299 GTATTCGAAA
* *
1806309 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
1806333 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
1806357 TTTGAT
1 TTTGAT
1806363 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:1806554 original size:12 final size:12
Alignment explanation
Indices: 1806537--1806561 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1806527 ATATAATCCT
1806537 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1806549 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1806561 G
1 G
1806562 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:1808876 original size:19 final size:19
Alignment explanation
Indices: 1808854--1808984 Score: 94
Period size: 19 Copynumber: 7.7 Consensus size: 19
1808844 GGAAATTACT
1808854 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1808873 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1808887 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1808906 ATCGCAATGC----T-AAT
1 ATCGCAATGCGAAATGAAA
* *
1808920 TTTGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
1808939 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
1808953 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1808972 ATCGCAACGCGAA
1 ATCGCAATGCGAA
1808985 TTTAATTTCG
Statistics
Matches: 84, Mismatches: 13, Indels: 30
0.66 0.10 0.24
Matches are distributed among these distances:
14 29 0.35
15 3 0.04
16 4 0.05
17 4 0.05
18 3 0.04
19 41 0.49
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1808896 original size:33 final size:33
Alignment explanation
Indices: 1808854--1808980 Score: 184
Period size: 33 Copynumber: 3.8 Consensus size: 33
1808844 GGAAATTACT
1808854 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* **
1808887 ATCGCAATGCGAAATGAAAATCGCAATGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
1808919 TTTTGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1808953 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
1808981 CGAATTTAAT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
32 1 0.01
33 79 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.17
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:1808963 original size:66 final size:66
Alignment explanation
Indices: 1808857--1808987 Score: 235
Period size: 66 Copynumber: 2.0 Consensus size: 66
1808847 AATTACTATC
* *
1808857 GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCTAATTT
1 GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
1808922 T
66 T
*
1808923 GCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
1 GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
1808988 AATTTCGCGT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.18
Consensus pattern (66 bp):
GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
T
Found at i:1809002 original size:19 final size:20
Alignment explanation
Indices: 1808980--1809022 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1808970 AAATCGCAAC
1808980 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
1808999 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
1809019 GCGA
1 GCGA
1809023 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:1809007 original size:14 final size:14
Alignment explanation
Indices: 1809008--1809041 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1808998 TGCGATTTTC
1809008 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
1809022 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
1809036 ATTTTC
1 ATTTTC
1809042 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:1809182 original size:14 final size:14
Alignment explanation
Indices: 1809163--1809195 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
1809153 CATCAATTAA
1809163 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1809177 ACAAATCACCTTTT
1 ACAAATCAACTTTT
1809191 ACAAA
1 ACAAA
1809196 ACAATTAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1810637 original size:42 final size:42
Alignment explanation
Indices: 1810591--1810674 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
1810581 CGATGAAAGT
* * *
1810591 GGCCTCTTGAACGGTGGGAGGGGACTCTTGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTTGAGGAATGATAGG
** *
1810633 GGCCTCTTCAACGATAGGAGTTGACTCTTGAGGGATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTTGAGGAATGATAGG
1810675 CGAGTCGGGC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.23, C:0.15, G:0.38, T:0.24
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTTGAGGAATGATAGG
Found at i:1812695 original size:20 final size:19
Alignment explanation
Indices: 1812664--1812724 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
1812654 GTCTTTGGTT
1812664 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
1812683 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
1812704 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
1812723 GA
1 GA
1812725 GAATCGCAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 4 0.11
20 29 0.83
21 2 0.06
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:1812746 original size:33 final size:33
Alignment explanation
Indices: 1812689--1812775 Score: 138
Period size: 33 Copynumber: 2.6 Consensus size: 33
1812679 ACGAGATAAT
*
1812689 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
1812723 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
*
1812756 GACAATCGCAACGCGAAATG
1 GAGAATCGCAACGCGAAATG
1812776 CAACGCGAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
33 36 0.72
34 14 0.28
ACGTcount: A:0.38, C:0.25, G:0.25, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:1812807 original size:19 final size:19
Alignment explanation
Indices: 1812783--1812834 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
1812773 ATGCAACGCG
1812783 AAATCGCAACGCGAAATAA
1 AAATCGCAACGCGAAATAA
*
1812802 AAATCGCAACGCGAAATGA
1 AAATCGCAACGCGAAATAA
*
1812821 AAATCGCAATGCGA
1 AAATCGCAACGCGA
1812835 TTTTGGTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.48, C:0.21, G:0.19, T:0.12
Consensus pattern (19 bp):
AAATCGCAACGCGAAATAA
Found at i:1812818 original size:13 final size:13
Alignment explanation
Indices: 1812759--1812799 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
1812749 GCGACCAGAC
1812759 AATCGCAACGCGA
1 AATCGCAACGCGA
1812772 AAT-GCAACGCGA
1 AATCGCAACGCGA
1812784 AATCGCAACGCGA
1 AATCGCAACGCGA
1812797 AAT
1 AAT
1812800 AAAAATCGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 12 0.44
13 15 0.56
ACGTcount: A:0.41, C:0.27, G:0.22, T:0.10
Consensus pattern (13 bp):
AATCGCAACGCGA
Found at i:1813500 original size:41 final size:41
Alignment explanation
Indices: 1813408--1813502 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 41
1813398 CGCTATGTAA
* * * ** *
1813408 ATCGCGTTGCGAAAGTCAGTATCTCGTTACGATTTTGTATT
1 ATCGCGTTGCGATAGTCAGTATCGCATTACGATTTTCCAAT
* *
1813449 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTCAGTATCGCATTACGATTTT-CCAAT
1813491 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
1813503 TTACTTATTC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 42 0.95
42 2 0.05
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (41 bp):
ATCGCGTTGCGATAGTCAGTATCGCATTACGATTTTCCAAT
Found at i:1813592 original size:21 final size:21
Alignment explanation
Indices: 1813552--1813592 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1813542 ATTGTATACC
**
1813552 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
1813573 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
1813593 GTGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:1814055 original size:12 final size:12
Alignment explanation
Indices: 1814038--1814062 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1814028 AATTAATTAG
1814038 TCAAATTAAGAT
1 TCAAATTAAGAT
1814050 TCAAATTAAGAT
1 TCAAATTAAGAT
1814062 T
1 T
1814063 GAATATGCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (12 bp):
TCAAATTAAGAT
Found at i:1817724 original size:19 final size:20
Alignment explanation
Indices: 1817684--1817729 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
1817674 GTTTCCAGAT
*
1817684 TTCTCTCATCTTCTTCCTTC
1 TTCTCTTATCTTCTTCCTTC
1817704 TT-TCTTATCTTCTTCAC-TC
1 TTCTCTTATCTTCTTC-CTTC
1817723 TTCTCTT
1 TTCTCTT
1817730 CTTCCAAACG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.07, C:0.35, G:0.00, T:0.59
Consensus pattern (20 bp):
TTCTCTTATCTTCTTCCTTC
Found at i:1818181 original size:157 final size:159
Alignment explanation
Indices: 1817991--1818307 Score: 536
Period size: 157 Copynumber: 2.0 Consensus size: 159
1817981 TGATAGAATT
*
1817991 AAAATTAGAACACTTGGAATTTGAGTAAGATTCTTAAATTCT-TATGGATGA-TAGTTTTTTATT
1 AAAATTAGAACACTTGGAATTTGAGTAAGATTCTTAAATTCTATATGGATGATTAGTTTTTTAGT
*
1818054 TTTAGAGAGGTATTGAAGGGATAATAA-TAGTTTTAGTAAGTGTATG-AAGCTAAGAGTATTAAA
66 TTT--AGAGGTATTGAAGGGATAATAATTAGTTTAAGTAAGTGTATGAAAGCTAAGA-TATTAAA
1818117 GGGAGTGAAATATG-ATGTTTGAGCTGAAATG
128 GGGAGTGAAATATGAATGTTTGAGCTGAAATG
*
1818148 AAAATTAGAACAGTTGGAATTTGAGTAAGATTCTTAAATTCTATATGGATGATTAGTTTTTTAGT
1 AAAATTAGAACACTTGGAATTTGAGTAAGATTCTTAAATTCTATATGGATGATTAGTTTTTTAGT
*
1818213 TTTAGAGGTATTGAATGGATAATAATTAGTTTAAGTAAGTGTATGAAAGCTAAGATATTAAAGGG
66 TTTAGAGGTATTGAAGGGATAATAATTAGTTTAAGTAAGTGTATGAAAGCTAAGATATTAAAGGG
1818278 AGTGAAATATGAATGTTTGAGCTGAAATG
131 AGTGAAATATGAATGTTTGAGCTGAAATG
1818307 A
1 A
1818308 GATGATTTTC
Statistics
Matches: 151, Mismatches: 4, Indels: 8
0.93 0.02 0.05
Matches are distributed among these distances:
157 62 0.41
158 48 0.32
159 41 0.27
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.36
Consensus pattern (159 bp):
AAAATTAGAACACTTGGAATTTGAGTAAGATTCTTAAATTCTATATGGATGATTAGTTTTTTAGT
TTTAGAGGTATTGAAGGGATAATAATTAGTTTAAGTAAGTGTATGAAAGCTAAGATATTAAAGGG
AGTGAAATATGAATGTTTGAGCTGAAATG
Found at i:1818385 original size:21 final size:21
Alignment explanation
Indices: 1818343--1818385 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1818333 TTTCTGGGCT
* *
1818343 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
1818364 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
1818385 A
1 A
1818386 CGTATAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:1819101 original size:22 final size:22
Alignment explanation
Indices: 1819051--1819101 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
1819041 CTTATGGACC
*
1819051 ATTATATG-GCACTACGGTGCA
1 ATTATACGCGCACTACGGTGCA
* *
1819072 ATTCTACGCGCACTTCGGTGCA
1 ATTATACGCGCACTACGGTGCA
*
1819094 TTTATACG
1 ATTATACG
1819102 AGCTGTGGTG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (22 bp):
ATTATACGCGCACTACGGTGCA
Found at i:1825131 original size:21 final size:21
Alignment explanation
Indices: 1825089--1825131 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1825079 TTTCTGGGCT
* *
1825089 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
1825110 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
1825131 A
1 A
1825132 CGTATATGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:1850181 original size:34 final size:31
Alignment explanation
Indices: 1850101--1850189 Score: 88
Period size: 34 Copynumber: 2.7 Consensus size: 31
1850091 GTTAGTATTT
* * *
1850101 TTTAAATAGTTATTATATTTTATATTAATATA
1 TTTATATAATTATTAT-TTTTTTATTAATATA
* *
1850133 TTTATGTAAATATTATTTTTTTATTAAAATAATA
1 TTTATATAATTATTATTTTTTTATT--AAT-ATA
*
1850167 TTTATATAATTATTATTTATTTA
1 TTTATATAATTATTATTTTTTTA
1850190 GAATTATTAT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
31 8 0.17
32 12 0.26
33 3 0.07
34 23 0.50
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.58
Consensus pattern (31 bp):
TTTATATAATTATTATTTTTTTATTAATATA
Found at i:1850219 original size:51 final size:49
Alignment explanation
Indices: 1850112--1850219 Score: 112
Period size: 51 Copynumber: 2.2 Consensus size: 49
1850102 TTAAATAGTT
*
1850112 ATTATATTTTATATTAATATATTTATGTAAATATTATTTTTTTATTAAA
1 ATTATATTTTATATTAATATATTTATGTAAATATTATTTTTTTATGAAA
* * * **
1850161 ATAATA-TTTATA-TAATTATTATTTATTTAGAATTATTATTTTTTTGTGCTA
1 ATTATATTTTATATTAA-TA-TATTTATGTA-AA-TATTATTTTTTTATGAAA
1850212 ATTATATT
1 ATTATATT
1850220 GTTTTGTCTA
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
47 3 0.06
48 8 0.17
49 14 0.30
50 2 0.04
51 19 0.40
52 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (49 bp):
ATTATATTTTATATTAATATATTTATGTAAATATTATTTTTTTATGAAA
Found at i:1850350 original size:17 final size:17
Alignment explanation
Indices: 1850328--1850381 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
1850318 AATGTTAATA
1850328 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
1850345 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
1850362 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
1850379 TTT
1 TTT
1850382 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:1851991 original size:21 final size:21
Alignment explanation
Indices: 1851962--1852055 Score: 127
Period size: 21 Copynumber: 4.5 Consensus size: 21
1851952 TATGCCATCT
*
1851962 CCGCTGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCGAGC
*
1851983 CCGCAGGGTTACATTTCGAGC
1 CCGCAGGGTTACATTCCGAGC
*
1852004 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCGAGC
* *
1852025 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCGAGC
1852046 CCGCAGGGTT
1 CCGCAGGGTT
1852056 TTATACCATA
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
20 2 0.03
21 62 0.94
22 2 0.03
ACGTcount: A:0.17, C:0.33, G:0.28, T:0.22
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCGAGC
Found at i:1852679 original size:34 final size:34
Alignment explanation
Indices: 1852574--1852680 Score: 142
Period size: 34 Copynumber: 3.1 Consensus size: 34
1852564 ATAAATGTTT
* *
1852574 TTAAAATACAAATTATATTATTCGATATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAAA
* *
1852608 TAAAAATAAAAATAATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAAA
* * * *
1852642 TTAAAATATAAATTATAGTATTCAAAATTTAACA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAAA
1852676 TTAAA
1 TTAAA
1852681 TTTCTACTTA
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:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (34 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAAA
Found at i:1853309 original size:128 final size:128
Alignment explanation
Indices: 1853076--1853553 Score: 868
Period size: 128 Copynumber: 3.7 Consensus size: 128
1853066 ATAATCCATC
*
1853076 TAGTGTCCCCGAGGGATATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
1853141 GGAAGGCGCCCCCCCGGGAACGCGCCTTCAAGTCCTCTGAGAAATAATAGGTACTGATATGAA
66 GGAAGGCGCCCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
1853204 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
1853269 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
66 GGAAGGCGCCCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
*
1853332 TAGTGTCCCCGAGGGACATGAGTGAAATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
1853397 GGAAGGCGCCCCCCCGGGAACGTGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
66 GGAAGGCGCCCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
*
1853460 TAGTGTCCCCGAGGGATATGA-TGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * *
1853524 GGAAGGCACGCCCCCGAGAACGCGCCTTCA
66 GGAAGGCGCCCCCCCGGGAACGCGCCTTCA
1853554 TGTGAATAGT
Statistics
Matches: 338, Mismatches: 12, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
127 68 0.20
128 270 0.80
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (128 bp):
TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
GGAAGGCGCCCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
Found at i:1853647 original size:8 final size:8
Alignment explanation
Indices: 1853634--1853673 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
1853624 TCACAAGCTT
1853634 TCAAATTC
1 TCAAATTC
1853642 TCAAATTC
1 TCAAATTC
* *
1853650 CCAAACTC
1 TCAAATTC
1853658 T-AAATTC
1 TCAAATTC
1853665 TCAAATTC
1 TCAAATTC
1853673 T
1 T
1853674 TTGAAAATGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.38, C:0.28, G:0.00, T:0.35
Consensus pattern (8 bp):
TCAAATTC
Found at i:1860543 original size:21 final size:21
Alignment explanation
Indices: 1860517--1860568 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
1860507 ATTTGGGCAA
*
1860517 TCTGGCATGTATCCTCATACT
1 TCTGGCACGTATCCTCATACT
1860538 TCTGGCACGTATCCTCATACT
1 TCTGGCACGTATCCTCATACT
*
1860559 TCTGGGACGT
1 TCTGGCACGT
1860569 TCATTCAGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.17, C:0.29, G:0.19, T:0.35
Consensus pattern (21 bp):
TCTGGCACGTATCCTCATACT
Found at i:1862355 original size:16 final size:17
Alignment explanation
Indices: 1862324--1862358 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
1862314 CGTATCGCCT
*
1862324 ACAAAATTTTACTATTC
1 ACAAAATTTCACTATTC
1862341 ACAAAA-TTCACTATTC
1 ACAAAATTTCACTATTC
1862357 AC
1 AC
1862359 GTGAGTAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.34
Consensus pattern (17 bp):
ACAAAATTTCACTATTC
Found at i:1902840 original size:2 final size:2
Alignment explanation
Indices: 1902835--1902860 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1902825 ACATACAAAC
1902835 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
1902861 CTAAACAGAA
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:1906108 original size:385 final size:382
Alignment explanation
Indices: 1905401--1906169 Score: 1502
Period size: 385 Copynumber: 2.0 Consensus size: 382
1905391 AAAGCACCGA
1905401 AAATGGATTATGAATAAAGCTGAAAAATCCTACTTACTAAGCAACTAAGCTGGCCTCCTCACTTT
1 AAATGGATTATGAATAAAGCTGAAAAATCCTACTTACTAAGCAACTAAGCTGGCCTCCTCACTTT
1905466 CAGGGACTATAATGTCGAGCCTCATCATAGGCTTATATCTATTAGGCACTTGAGCTCCGCTTGCA
66 CAGGGACTATAATGTCGAGCCTCATCATAGGCTTATATCTATTAGGCACTTGAGCTCCGCTTGCA
1905531 TGCAAACTTCAACCACCAGGAGCCTTGCCATAATATCTTTTTAAAGCACCTCTCAAGGGAGGCCC
131 TGCAAACTTCAACCACCAGGAGCCTTGCCATAATATCTTTTTAAAGCACCTCTCAAGGGAGGCCC
1905596 CTTTGGGGCTTGAACATGCCACACATAATTCGGTGGGAAAACTTCACCGACCGTGGCGTCCTGCC
196 CTTTGGGGCTTGAACATGCCACACATAATTCGGTGGGAAAACTTCACCGACCGTGGCGTCCTGCC
1905661 AACCGTGCTTCCCGTCTCTCCACTGGTGCTTGAATTCTCCGCAGAGTTTGGCGTTGTGACCCCAT
261 AACCGTGCTTCCCGTCTCTCCACTGGTGCTTGAATTCTCCGCAGAGTTTGGCGTTGTGACCCCAT
1905726 GGCCCTACATGGACCTCTGAGCAATATCCACATGCCTTTACCGTGTACTTCTCCATC
326 GGCCCTACATGGACCTCTGAGCAATATCCACATGCCTTTACCGTGTACTTCTCCATC
1905783 AAATGGATTATGAATAAAGCTGAAAAATCCTACTTACTAAGCAACTAAGCTGGCCTCCTCACTTT
1 AAATGGATTATGAATAAAGCTGAAAAATCCTACTTACTAAGCAACTAAGCTGGCCTCCTCACTTT
1905848 CAGGGACTATAATGTCGAGCCTCATCATAGGCTTATATCTATTAGGCACTTGAGCTCCAGCTTGC
66 CAGGGACTATAATGTCGAGCCTCATCATAGGCTTATATCTATTAGGCACTTGAGCTCC-GCTTGC
1905913 ATGCAAACTTCAACCACAGCAGGAGCCTTGCCATAATATCTTTTTAAAGCACCTCTCAAGGGAGG
130 ATGCAAACTTCAACCAC--CAGGAGCCTTGCCATAATATCTTTTTAAAGCACCTCTCAAGGGAGG
1905978 CCCCTTTGGGGCTTGAACATGCCACACATAATTCGGTGGGAAAACTTCACCGACCGTGGCGTCCT
193 CCCCTTTGGGGCTTGAACATGCCACACATAATTCGGTGGGAAAACTTCACCGACCGTGGCGTCCT
1906043 GCCAACCGTGCTTCCCGTCTCTCCACTGGTGCTTGAATTCTCCGCAGAGTTTGGCGTTGTGACCC
258 GCCAACCGTGCTTCCCGTCTCTCCACTGGTGCTTGAATTCTCCGCAGAGTTTGGCGTTGTGACCC
*
1906108 CATGGCCCTACATGGACCTCTGAGCAATATCCACATGCCTTTACCGTGTACTTCTTCATC
323 CATGGCCCTACATGGACCTCTGAGCAATATCCACATGCCTTTACCGTGTACTTCTCCATC
1906168 AA
1 AA
1906170 TTTCGTTACA
Statistics
Matches: 383, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
382 123 0.32
383 23 0.06
385 237 0.62
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (382 bp):
AAATGGATTATGAATAAAGCTGAAAAATCCTACTTACTAAGCAACTAAGCTGGCCTCCTCACTTT
CAGGGACTATAATGTCGAGCCTCATCATAGGCTTATATCTATTAGGCACTTGAGCTCCGCTTGCA
TGCAAACTTCAACCACCAGGAGCCTTGCCATAATATCTTTTTAAAGCACCTCTCAAGGGAGGCCC
CTTTGGGGCTTGAACATGCCACACATAATTCGGTGGGAAAACTTCACCGACCGTGGCGTCCTGCC
AACCGTGCTTCCCGTCTCTCCACTGGTGCTTGAATTCTCCGCAGAGTTTGGCGTTGTGACCCCAT
GGCCCTACATGGACCTCTGAGCAATATCCACATGCCTTTACCGTGTACTTCTCCATC
Found at i:1917170 original size:60 final size:59
Alignment explanation
Indices: 1917093--1917266 Score: 208
Period size: 60 Copynumber: 2.9 Consensus size: 59
1917083 GTATATACAT
* * *
1917093 ATAGTTT-GGGATAAAATTAAAATATTAAAAAGTTTAGGGACTAATTTAGAATGA-AAGTC
1 ATAGTTTAGGGATGAAATTGAAATATTTAAAAGTTT-GGGACTAATTTAGAATGATAA-TC
* * *
1917152 ATAGTTTAGGGATGAAATTGAAATGTTTAAAAGTTTGAGGACTACTCTAGAATGATAATC
1 ATAGTTTAGGGATGAAATTGAAATATTTAAAAGTTTG-GGACTAATTTAGAATGATAATC
* * * *
1917212 ATAGTTTAGGGATGAAATTGGAACATTTAAAAGTTTGGGGACCAATTTAAAATGA
1 ATAGTTTAGGGATGAAATTGAAATATTTAAAAGTTT-GGGACTAATTTAGAATGA
1917267 GAGGCATACT
Statistics
Matches: 98, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
59 8 0.08
60 87 0.89
61 3 0.03
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.32
Consensus pattern (59 bp):
ATAGTTTAGGGATGAAATTGAAATATTTAAAAGTTTGGGACTAATTTAGAATGATAATC
Found at i:1918017 original size:24 final size:24
Alignment explanation
Indices: 1917985--1918035 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
1917975 AACAAATTCG
* *
1917985 TTTGTAAGTTCATGTATTGGCTCA
1 TTTGAAAGTTCATGTATTGACTCA
*
1918009 TTTGAAAGTTCATTTATTGACTCA
1 TTTGAAAGTTCATGTATTGACTCA
1918033 TTT
1 TTT
1918036 ACTCGATTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.12, G:0.16, T:0.49
Consensus pattern (24 bp):
TTTGAAAGTTCATGTATTGACTCA
Found at i:1918693 original size:60 final size:59
Alignment explanation
Indices: 1918616--1918789 Score: 208
Period size: 60 Copynumber: 2.9 Consensus size: 59
1918606 GTATATACAT
* * *
1918616 ATAGTTT-GGGATAAAATTAAAATATTAAAAAGTTTAGGGACTAATTTAGAATGA-AAGTC
1 ATAGTTTAGGGATGAAATTGAAATATTTAAAAGTTT-GGGACTAATTTAGAATGATAA-TC
* * *
1918675 ATAGTTTAGGGATGAAATTGAAATGTTTAAAAGTTTGAGGACTACTCTAGAATGATAATC
1 ATAGTTTAGGGATGAAATTGAAATATTTAAAAGTTTG-GGACTAATTTAGAATGATAATC
* * * *
1918735 ATAGTTTAGGGATGAAATTGGAACATTTAAAAGTTTGGGGACCAATTTAAAATGA
1 ATAGTTTAGGGATGAAATTGAAATATTTAAAAGTTT-GGGACTAATTTAGAATGA
1918790 GAGGCATACT
Statistics
Matches: 98, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
59 8 0.08
60 87 0.89
61 3 0.03
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.32
Consensus pattern (59 bp):
ATAGTTTAGGGATGAAATTGAAATATTTAAAAGTTTGGGACTAATTTAGAATGATAATC
Found at i:1920818 original size:2 final size:2
Alignment explanation
Indices: 1920811--1920847 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
1920801 GTCTTCTCAG
1920811 AT AT AT AT AT A- 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 AT AT AT
1920848 GCAAGGCGAC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1933331 original size:18 final size:18
Alignment explanation
Indices: 1933310--1933346 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1933300 TTAAAATAAA
* *
1933310 TTTTATTTTTATATTATT
1 TTTTATTTTGATAATATT
1933328 TTTTATTTTGATAATATT
1 TTTTATTTTGATAATATT
1933346 T
1 T
1933347 GAGTAAAAAA
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:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (18 bp):
TTTTATTTTGATAATATT
Found at i:1939892 original size:35 final size:36
Alignment explanation
Indices: 1939852--1939926 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 36
1939842 TGATTTCGGA
*
1939852 TTTTGCTA-TTTTGGCAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1939887 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1939923 TTTT
1 TTTT
1939927 TTTAGCTATA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 8 0.21
36 30 0.79
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.43
Consensus pattern (36 bp):
TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:1940370 original size:15 final size:15
Alignment explanation
Indices: 1940350--1940379 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1940340 TATCACAATC
1940350 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
1940365 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
1940380 AGCACCGTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.47, T:0.13
Consensus pattern (15 bp):
GCGCAGGATTCCGGG
Found at i:1944895 original size:36 final size:36
Alignment explanation
Indices: 1944854--1944929 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
1944844 ATTTTCGGGA
*
1944854 TTTTGCTATTTTTGGCAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1944890 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1944926 TTTT
1 TTTT
1944930 TTAGCTATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:1946301 original size:29 final size:29
Alignment explanation
Indices: 1946259--1946338 Score: 142
Period size: 29 Copynumber: 2.8 Consensus size: 29
1946249 CGCCATAGGA
1946259 CGCCATGCAATCCAGGCGACCTTAGAGGT
1 CGCCATGCAATCCAGGCGACCTTAGAGGT
*
1946288 CGCCATGCAATCCAGGCGACCTTGGAGGT
1 CGCCATGCAATCCAGGCGACCTTAGAGGT
*
1946317 CGCCATGCAATCCGGGCGACCT
1 CGCCATGCAATCCAGGCGACCT
1946339 CCAAGGTGGA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.21, C:0.34, G:0.29, T:0.16
Consensus pattern (29 bp):
CGCCATGCAATCCAGGCGACCTTAGAGGT
Found at i:1946985 original size:21 final size:21
Alignment explanation
Indices: 1946960--1947003 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1946950 AATCTAGTTA
1946960 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
1946981 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
1947002 AT
1 AT
1947004 ATTATAGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:1947012 original size:25 final size:26
Alignment explanation
Indices: 1946978--1947034 Score: 91
Period size: 25 Copynumber: 2.3 Consensus size: 26
1946968 GTTAGTATAA
*
1946978 ATTATTAGTTTGTTAGTTTAAGTTAT
1 ATTATTAGTTTATTAGTTTAAGTTAT
1947004 ATTA-TAGTTTATTAGTTTAAGTTAT
1 ATTATTAGTTTATTAGTTTAAGTTAT
1947029 A-TATTA
1 ATTATTA
1947035 TATTATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 2 0.07
25 23 0.79
26 4 0.14
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (26 bp):
ATTATTAGTTTATTAGTTTAAGTTAT
Found at i:1947881 original size:26 final size:25
Alignment explanation
Indices: 1947852--1947910 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
1947842 AAATCATATT
*
1947852 ATTATTAAATCATTAAATATCAAATC
1 ATTATTAAAT-AGTAAATATCAAATC
*
1947878 ATTAGATT-AATAGTAATTATCAAATC
1 ATT--ATTAAATAGTAAATATCAAATC
1947904 ATTATTA
1 ATTATTA
1947911 GGTTTATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.11
26 19 0.68
27 3 0.11
28 3 0.11
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.41
Consensus pattern (25 bp):
ATTATTAAATAGTAAATATCAAATC
Found at i:1950817 original size:26 final size:26
Alignment explanation
Indices: 1950790--1951123 Score: 268
Period size: 26 Copynumber: 13.3 Consensus size: 26
1950780 GATGATTTAG
* *
1950790 TAATTATTTGATAATAATCATTATAG
1 TAATGATTTGATAATAATCATTATAA
1950816 TAATGATTTGATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
1950842 TAATGATTT-AGTAATAATCATTATAA
1 TAATGATTTGA-TAATAATCATTATAA
* * *
1950868 AAATGATTTAATAATGAT--TTA-AA
1 TAATGATTTGATAATAATCATTATAA
* * * * * * *
1950891 TATTTA-ATGAT-TTGATGATT-TAG
1 TAATGATTTGATAATAATCATTATAA
*
1950914 TAATGATTTGATAATAATCATTATAG
1 TAATGATTTGATAATAATCATTATAA
1950940 TAATGATTTGATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
*
1950966 TAATAATTT-AGTAATAATCATTATAA
1 TAATGATTTGA-TAATAATCATTATAA
* * *
1950992 AAATGATTTAATAATGAT--TTA-AA
1 TAATGATTTGATAATAATCATTATAA
* * * * * * *
1951015 TATTTA-ATGAT-TTGATGATT-TAG
1 TAATGATTTGATAATAATCATTATAA
1951038 TAATGATTTGATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
* * *
1951064 TAATGATTTTATAATAATTATT-TAG
1 TAATGATTTGATAATAATCATTATAA
* *
1951089 TAATTATTT-ATAATAATGATTTATAA
1 TAATGATTTGATAATAATCA-TTATAA
1951115 TAATGATTT
1 TAATGATTT
1951124 AATACTAACA
Statistics
Matches: 247, Mismatches: 43, Indels: 36
0.76 0.13 0.11
Matches are distributed among these distances:
21 8 0.03
22 6 0.02
23 24 0.10
24 23 0.09
25 26 0.11
26 158 0.64
27 2 0.01
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.45
Consensus pattern (26 bp):
TAATGATTTGATAATAATCATTATAA
Found at i:1950952 original size:124 final size:124
Alignment explanation
Indices: 1950732--1951127 Score: 688
Period size: 124 Copynumber: 3.2 Consensus size: 124
1950722 ATGTATTTAT
*
1950732 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATTAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
*
1950797 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATAATTTAGTAA
1950856 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1950921 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATAATTTAGTAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATAATTTAGTAA
1950980 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
* * * * *
1951045 TTGATAATAATCATTATAATAATGATTTTATAATAATTATT-TAGTAATTATTTA-TAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATAATTTAGTAA
* *
1951102 TAATGATTTATAATAATGATTTAATA
1 TAATCA-TTATAAAAATGATTTAATA
1951128 CTAACAAATG
Statistics
Matches: 262, Mismatches: 9, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
122 8 0.03
123 29 0.11
124 225 0.86
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.45
Consensus pattern (124 bp):
TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATAATTTAGTAA
Found at i:1951039 original size:98 final size:100
Alignment explanation
Indices: 1950937--1951116 Score: 269
Period size: 98 Copynumber: 1.8 Consensus size: 100
1950927 ATAATCATTA
1950937 TAGTAATGATTTGATAATAATCATTATAATAAT-AATTTAGTAATAATCATTATAAAAATGA-TT
1 TAGTAATGATTTGATAATAATCATTATAATAATGAATTTA-TAATAATCATT-TAAAAATGATTT
1951000 -TAATAATGATTTA-AATATTTAATGATTTGATGATT
64 ATAATAATGATTTATAATATTTAATGATTTGATGATT
* * ** *
1951035 TAGTAATGATTTGATAATAATCATTATAATAATGATTTTATAATAATTATTTAGTAATTATTTAT
1 TAGTAATGATTTGATAATAATCATTATAATAATGAATTTATAATAATCATTTAAAAATGATTTAT
1951100 AATAATGATTTATAATA
66 AATAATGATTTATAATA
1951117 ATGATTTAAT
Statistics
Matches: 73, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
97 6 0.08
98 45 0.62
99 18 0.25
100 4 0.05
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (100 bp):
TAGTAATGATTTGATAATAATCATTATAATAATGAATTTATAATAATCATTTAAAAATGATTTAT
AATAATGATTTATAATATTTAATGATTTGATGATT
Found at i:1951247 original size:17 final size:17
Alignment explanation
Indices: 1951222--1951254 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1951212 ACTAAATATT
*
1951222 TAATTATTTGATACTAG
1 TAATGATTTGATACTAG
1951239 TAATGATTTGATACTA
1 TAATGATTTGATACTA
1951255 AAAATCATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (17 bp):
TAATGATTTGATACTAG
Found at i:1953424 original size:15 final size:15
Alignment explanation
Indices: 1953406--1953438 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1953396 CACTAAAATT
*
1953406 TAATATAATAACTTA
1 TAATATAATAACTAA
1953421 TAATATAATAACTAA
1 TAATATAATAACTAA
1953436 TAA
1 TAA
1953439 ACTAACAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (15 bp):
TAATATAATAACTAA
Found at i:1953566 original size:32 final size:34
Alignment explanation
Indices: 1953491--1953572 Score: 100
Period size: 34 Copynumber: 2.5 Consensus size: 34
1953481 CTAAACCCTT
* *
1953491 AAAC-AACTAATAAAATATTTTTTTATATAACTA
1 AAACTAACTAATAAACTATTTTTTCATATAACTA
1953524 AAACTAACTAATAAACTATTTTTTCATTATAA-T-
1 AAACTAACTAATAAACTATTTTTTCA-TATAACTA
*
1953557 ATACT-ACTAATAAACT
1 AAACTAACTAATAAACT
1953573 TACTAACTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
32 11 0.25
33 8 0.18
34 20 0.45
35 5 0.11
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (34 bp):
AAACTAACTAATAAACTATTTTTTCATATAACTA
Found at i:1953712 original size:41 final size:41
Alignment explanation
Indices: 1953628--1953744 Score: 107
Period size: 41 Copynumber: 2.8 Consensus size: 41
1953618 ACTTAACTAT
*
1953628 TTAACTAACACAAACTAATTAAATAATTTTTT-ATATAACTAAC
1 TTAAC-AA-ACAAACTAATT-AATTATTTTTTAATATAACTAAC
1953671 TTAACAATACAAACTAATTAATTATTTTTTAACTAT-A-TAAC
1 TTAACAA-ACAAACTAATTAATTATTTTTTAA-TATAACTAAC
* * *
1953712 -TATCAAACATATACTAATTAAATAATTTTTAAT
1 TTAACAAACA-A-ACTAATTAATTATTTTTTAAT
1953745 TTATGTATAC
Statistics
Matches: 65, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
39 3 0.05
40 7 0.11
41 32 0.49
42 15 0.23
43 8 0.12
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (41 bp):
TTAACAAACAAACTAATTAATTATTTTTTAATATAACTAAC
Found at i:1953769 original size:41 final size:40
Alignment explanation
Indices: 1953634--1953769 Score: 100
Period size: 41 Copynumber: 3.3 Consensus size: 40
1953624 CTATTTAACT
* *
1953634 AACACAAACTAATTAAATAATTTTT---TATATAACTAACTT
1 AACATAAACTAATTAAATAATTTTTAACTATATAACT-A-TA
* *
1953673 AACAATACAAACTAATTAATTATTTTTTAACTATATAACTATCA
1 AAC-AT--AAACTAATTAAATAATTTTTAACTATATAACTAT-A
* * *
1953717 AACATATACTAATTAAATAATTTTTAATTTATGTATACTAT-
1 AACATAAACTAATTAAATAATTTTTAA-CTATATA-ACTATA
*
1953758 AACTTAAACTAA
1 AACATAAACTAA
1953770 CAATCATTTA
Statistics
Matches: 77, Mismatches: 11, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
39 3 0.04
40 1 0.01
41 29 0.38
42 23 0.30
43 8 0.10
44 4 0.05
45 9 0.12
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.40
Consensus pattern (40 bp):
AACATAAACTAATTAAATAATTTTTAACTATATAACTATA
Found at i:1953932 original size:4 final size:4
Alignment explanation
Indices: 1953896--1953961 Score: 55
Period size: 4 Copynumber: 16.5 Consensus size: 4
1953886 CCTTATCTCC
* ** **
1953896 CTTT C-TT C-TT CTTA CTTT CCTTT CTCC CTTT CTTT CTTT CCTTT CTCC
1 CTTT CTTT CTTT CTTT CTTT -CTTT CTTT CTTT CTTT CTTT -CTTT CTTT
1953944 CTTT CTTT CTTT CTTT CT
1 CTTT CTTT CTTT CTTT CT
1953962 CGGCTGCAAT
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
3 6 0.12
4 35 0.71
5 8 0.16
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.64
Consensus pattern (4 bp):
CTTT
Found at i:1953934 original size:21 final size:21
Alignment explanation
Indices: 1953904--1953962 Score: 102
Period size: 21 Copynumber: 2.9 Consensus size: 21
1953894 CCCTTTCTTC
*
1953904 TTCTTACTTTCCTTTCTCCCT
1 TTCTTTCTTTCCTTTCTCCCT
1953925 TTCTTTCTTTCCTTTCTCCCT
1 TTCTTTCTTTCCTTTCTCCCT
1953946 TTCTTTCTTT-CTTTCTC
1 TTCTTTCTTTCCTTTCTC
1953963 GGCTGCAATC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 7 0.19
21 30 0.81
ACGTcount: A:0.02, C:0.36, G:0.00, T:0.63
Consensus pattern (21 bp):
TTCTTTCTTTCCTTTCTCCCT
Found at i:1953995 original size:23 final size:23
Alignment explanation
Indices: 1953965--1954010 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
1953955 TCTTTCTCGG
1953965 CTGCAATCTCTTCTCCCTTTCTT
1 CTGCAATCTCTTCTCCCTTTCTT
1953988 CTGCAATCTCTTCTCCCTTTCTT
1 CTGCAATCTCTTCTCCCTTTCTT
1954011 TCTTTCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.09, C:0.39, G:0.04, T:0.48
Consensus pattern (23 bp):
CTGCAATCTCTTCTCCCTTTCTT
Found at i:1954244 original size:29 final size:29
Alignment explanation
Indices: 1954212--1954320 Score: 184
Period size: 29 Copynumber: 3.8 Consensus size: 29
1954202 ATGGGAATGG
1954212 CGCCGGGACTACATGGCGACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
1954241 CGCCGGGACTACATGGCGACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
1954270 CGCCGGGACTACATGGCGACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
* *
1954299 CGCCTAGG-CTGCATGGCGACCT
1 CGCC-GGGACTACATGGCGACCT
1954321 CTCTATTCCT
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
29 75 0.97
30 2 0.03
ACGTcount: A:0.22, C:0.32, G:0.31, T:0.15
Consensus pattern (29 bp):
CGCCGGGACTACATGGCGACCTACAAGGT
Found at i:1954426 original size:61 final size:63
Alignment explanation
Indices: 1954352--1954546 Score: 237
Period size: 61 Copynumber: 3.2 Consensus size: 63
1954342 TTGGCTCGTA
* *
1954352 TGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTCTCTAT-TC-CTGCATGCTCCCCAT
1 TGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTCTATATGTCGTTGCATGCTCCCCAT
1954413 TGGCTCGTATATGGCTCGTTGCATGCTCCCCA-TGGCTCGTATATGGCTCGTTGCATGCTCCCCA
1 TGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTC-TATAT-G-TCGTTGCATGCTCCCCA
1954477 T
63 T
* * *
1954478 TGGCTC-TCTAT---TCCTT-CATGCTCCCCATTGGCTCGTAT-GGCTCGTTGCATGCTCCCCAT
1 TGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTC-TATATG-TCGTTGCATGCTCCCCAT
1954537 TGGCTCGTAT
1 TGGCTCGTAT
1954547 GACTCGTATA
Statistics
Matches: 121, Mismatches: 6, Indels: 15
0.85 0.04 0.11
Matches are distributed among these distances:
59 26 0.21
60 19 0.16
61 50 0.41
64 6 0.05
65 20 0.17
ACGTcount: A:0.11, C:0.33, G:0.22, T:0.34
Consensus pattern (63 bp):
TGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTCTATATGTCGTTGCATGCTCCCCAT
Found at i:1954510 original size:93 final size:91
Alignment explanation
Indices: 1954351--1954546 Score: 356
Period size: 93 Copynumber: 2.1 Consensus size: 91
1954341 ATTGGCTCGT
1954351 ATGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTCTCTATTCCTGCATGCTCCCCATTGG
1 ATGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTCTCTATTCCTGCATGCTCCCCATTGG
1954416 CTCGTATATGGCTCGTTGCATGCTCCCC
66 CTCG--TATGGCTCGTTGCATGCTCCCC
*
1954444 ATGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTCTCTATTCCTTCATGCTCCCCATTGG
1 ATGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTCTCTATTCCTGCATGCTCCCCATTGG
1954509 CTCGTATGGCTCGTTGCATGCTCCCC
66 CTCGTATGGCTCGTTGCATGCTCCCC
1954535 ATTGGCTCGTAT
1 A-TGGCTCGTAT
1954547 GACTCGTATA
Statistics
Matches: 101, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
91 23 0.23
92 10 0.10
93 68 0.67
ACGTcount: A:0.12, C:0.33, G:0.21, T:0.34
Consensus pattern (91 bp):
ATGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTCTCTATTCCTGCATGCTCCCCATTGG
CTCGTATGGCTCGTTGCATGCTCCCC
Found at i:1954558 original size:11 final size:11
Alignment explanation
Indices: 1954544--1954601 Score: 62
Period size: 11 Copynumber: 5.1 Consensus size: 11
1954534 CATTGGCTCG
1954544 TATGACTCGTA
1 TATGACTCGTA
*
1954555 TATGGCTCGTA
1 TATGACTCGTA
* *
1954566 TGTCACCCTCGTA
1 TATGA--CTCGTA
1954579 TATGACTCGTA
1 TATGACTCGTA
*
1954590 TATGGCTCGTA
1 TATGACTCGTA
1954601 T
1 T
1954602 GTCACCCTCG
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
11 29 0.76
13 9 0.24
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (11 bp):
TATGACTCGTA
Found at i:1954585 original size:35 final size:35
Alignment explanation
Indices: 1954544--1954614 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
1954534 CATTGGCTCG
1954544 TATGACTCGTATATGGCTCGTATGTCACCCTCGTA
1 TATGACTCGTATATGGCTCGTATGTCACCCTCGTA
1954579 TATGACTCGTATATGGCTCGTATGTCACCCTCGTA
1 TATGACTCGTATATGGCTCGTATGTCACCCTCGTA
1954614 T
1 T
1954615 GTCACCCCGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (35 bp):
TATGACTCGTATATGGCTCGTATGTCACCCTCGTA
Found at i:1954627 original size:12 final size:13
Alignment explanation
Indices: 1954595--1954629 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
1954585 TCGTATATGG
1954595 CTCGTATGTCACC
1 CTCGTATGTCACC
1954608 CTCGTATGTCACC
1 CTCGTATGTCACC
1954621 C-CGTATGTC
1 CTCGTATGTC
1954630 GCCTGGATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 8 0.36
13 14 0.64
ACGTcount: A:0.14, C:0.37, G:0.17, T:0.31
Consensus pattern (13 bp):
CTCGTATGTCACC
Found at i:1961413 original size:15 final size:15
Alignment explanation
Indices: 1961395--1961424 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1961385 CCACGGTGCT
1961395 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
1961410 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
1961425 GATTGTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.47, G:0.27, T:0.13
Consensus pattern (15 bp):
CCCGGAATCCTGCGC
Found at i:1961891 original size:36 final size:36
Alignment explanation
Indices: 1961841--1961916 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
1961831 TTATAGCAAA
*
1961841 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1961877 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1961913 AAAA
1 AAAA
1961917 TCCCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:1968751 original size:21 final size:21
Alignment explanation
Indices: 1968726--1968769 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1968716 AATCTAGTTA
*
1968726 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGCTAGTATAAATT
* *
1968747 ATTAGTTTGCTAGTTTAAGTT
1 ATTAGTTTGCTAGTATAAATT
1968768 AT
1 AT
1968770 ATATTATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.02, G:0.16, T:0.52
Consensus pattern (21 bp):
ATTAGTTTGCTAGTATAAATT
Found at i:1969081 original size:11 final size:11
Alignment explanation
Indices: 1969067--1969127 Score: 63
Period size: 11 Copynumber: 5.5 Consensus size: 11
1969057 ATAAACTATT
1969067 CTTTAATATAA
1 CTTTAATATAA
*
1969078 CTTTAACTAT-T
1 CTTTAA-TATAA
1969089 CTTTAATATAA
1 CTTTAATATAA
*
1969100 CTTTAACTAT-T
1 CTTTAA-TATAA
1969111 CTTTAATATAA
1 CTTTAATATAA
*
1969122 CGTTAA
1 CTTTAA
1969128 CTAATAAACT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
10 6 0.15
11 29 0.71
12 6 0.15
ACGTcount: A:0.38, C:0.13, G:0.02, T:0.48
Consensus pattern (11 bp):
CTTTAATATAA
Found at i:1969085 original size:22 final size:22
Alignment explanation
Indices: 1969060--1969130 Score: 133
Period size: 22 Copynumber: 3.2 Consensus size: 22
1969050 ACAATTAATA
1969060 AACTATTCTTTAATATAACTTT
1 AACTATTCTTTAATATAACTTT
1969082 AACTATTCTTTAATATAACTTT
1 AACTATTCTTTAATATAACTTT
*
1969104 AACTATTCTTTAATATAACGTT
1 AACTATTCTTTAATATAACTTT
1969126 AACTA
1 AACTA
1969131 ATAAACTATT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.38, C:0.14, G:0.01, T:0.46
Consensus pattern (22 bp):
AACTATTCTTTAATATAACTTT
Found at i:1969139 original size:30 final size:29
Alignment explanation
Indices: 1969104--1969199 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 29
1969094 ATATAACTTT
1969104 AACTATTCTTTAATATAACGTT-AACTAATA
1 AACTATT-TTTAATATAAC-TTAAACTAATA
1969134 AACTATTTTTTAATATAACTTAAACTAATA
1 AACTA-TTTTTAATATAACTTAAACTAATA
* * *
1969164 AA-TGATTTTTAATTATAATTTATTACTAAAA
1 AACT-ATTTTTAA-TATAACTTA-AACTAATA
1969195 AACTA
1 AACTA
1969200 ATTAACTAAT
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
29 10 0.18
30 35 0.61
31 11 0.19
32 1 0.02
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.43
Consensus pattern (29 bp):
AACTATTTTTAATATAACTTAAACTAATA
Found at i:1969173 original size:29 final size:30
Alignment explanation
Indices: 1969104--1969181 Score: 99
Period size: 30 Copynumber: 2.6 Consensus size: 30
1969094 ATATAACTTT
*
1969104 AACTATTCTTTAATATAACGTTAACTAATA
1 AACTATTTTTTAATATAACGTTAACTAATA
1969134 AACTATTTTTTAATATAAC-TTAAACTAATA
1 AACTATTTTTTAATATAACGTT-AACTAATA
1969164 AA-TGA-TTTTTAATTATAA
1 AACT-ATTTTTTAA-TATAA
1969182 TTTATTACTA
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
29 10 0.23
30 34 0.77
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.44
Consensus pattern (30 bp):
AACTATTTTTTAATATAACGTTAACTAATA
Found at i:1969549 original size:31 final size:35
Alignment explanation
Indices: 1969488--1969551 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 35
1969478 TTTATAACAA
1969488 TAAACTAATTTAAATAATTATTCTTTTATATAACT
1 TAAACTAATTTAAATAATTATTCTTTTATATAACT
*
1969523 TAAACTAA-TTAACTAA-T-TT-TTTTATATAA
1 TAAACTAATTTAAATAATTATTCTTTTATATAA
1969552 TATAAATTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 10 0.36
32 2 0.07
33 1 0.04
34 7 0.25
35 8 0.29
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (35 bp):
TAAACTAATTTAAATAATTATTCTTTTATATAACT
Found at i:1970143 original size:80 final size:80
Alignment explanation
Indices: 1970010--1970175 Score: 296
Period size: 80 Copynumber: 2.1 Consensus size: 80
1970000 ATGCCCCGTA
*
1970010 CATGGCCCATGCATAGCACCAAAGCAGAGCATCAGCCGGGCAGAGCAGCAGAATAACGAGAACGT
1 CATGGCCCATACATAGCACCAAAGCAGAGCATCAGCCGGGCAGAGCAGCAGAATAACGAGAACGT
*
1970075 TGGACGCCGGACGTG
66 TAGACGCCGGACGTG
*
1970090 CATGGCCCATACATAGCACCAAAGCAGAGCATCAGCCGGGCAGAGCAGCAGAATCACGAGAACGT
1 CATGGCCCATACATAGCACCAAAGCAGAGCATCAGCCGGGCAGAGCAGCAGAATAACGAGAACGT
*
1970155 TAGACGCCGGGCGTG
66 TAGACGCCGGACGTG
1970170 CATGGC
1 CATGGC
1970176 GTCCTTATAG
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 82 1.00
ACGTcount: A:0.31, C:0.28, G:0.31, T:0.10
Consensus pattern (80 bp):
CATGGCCCATACATAGCACCAAAGCAGAGCATCAGCCGGGCAGAGCAGCAGAATAACGAGAACGT
TAGACGCCGGACGTG
Found at i:1971611 original size:126 final size:126
Alignment explanation
Indices: 1971385--1971631 Score: 313
Period size: 126 Copynumber: 2.0 Consensus size: 126
1971375 CATACCAAAA
* *
1971385 TAATAATAAAATAATTCAAATTGGCCAAAACAAGAACATTTCAAAAGTTCAATGAGTAAACTGAA
1 TAATAATAAAATAATTCAAAGTGACCAAAACAAGAACATTTCAAAAGTTCAATGAGTAAACTGAA
* * *
1971450 AAAATTGAAAGTGCAGTTAGTGAAATAAGAAAGAGAGTAAAGTTCAATGAGGAATGTTCTC
66 AAAATTGAAAGTACAGTGAGTGAAAAAAGAAAGAGAGTAAAGTTCAATGAGGAATGTTCTC
* * *
1971511 TAATAATAAAATAATTTAGAGTGACCAAAACATAAGTA-ATTT-AAAAGTT-AAGTGAGTAAA-T
1 TAATAATAAAATAATTCAAAGTGACCAAAAC--AAGAACATTTCAAAAGTTCAA-TGAGTAAACT
* * * * *
1971572 TAAAAAATTGAAAGTATAGTGAGTGATAAAAATAGAGAGAGTAAAGTTCAATGATGAATG
63 GAAAAAATTGAAAGTACAGTGAGTGA-AAAAAGAAAGAGAGTAAAGTTCAATGAGGAATG
1971632 ATGTAGTTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
125 25 0.24
126 71 0.68
127 4 0.04
128 4 0.04
ACGTcount: A:0.50, C:0.06, G:0.18, T:0.26
Consensus pattern (126 bp):
TAATAATAAAATAATTCAAAGTGACCAAAACAAGAACATTTCAAAAGTTCAATGAGTAAACTGAA
AAAATTGAAAGTACAGTGAGTGAAAAAAGAAAGAGAGTAAAGTTCAATGAGGAATGTTCTC
Found at i:1974384 original size:16 final size:16
Alignment explanation
Indices: 1974363--1974395 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1974353 TCAAAGTCTC
1974363 TGAATTATTCAACATT
1 TGAATTATTCAACATT
1974379 TGAATTATTCAACATT
1 TGAATTATTCAACATT
1974395 T
1 T
1974396 AAATCATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.45
Consensus pattern (16 bp):
TGAATTATTCAACATT
Found at i:1974531 original size:2 final size:2
Alignment explanation
Indices: 1974524--1974551 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1974514 GCCACCTTTC
1974524 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1974552 TAACTTATCT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1974961 original size:44 final size:44
Alignment explanation
Indices: 1974898--1974983 Score: 163
Period size: 44 Copynumber: 2.0 Consensus size: 44
1974888 AAAACAACAG
1974898 TAAATATTTGCAGACCCACAAATCCACTCTCCCCCTAAAGCTTT
1 TAAATATTTGCAGACCCACAAATCCACTCTCCCCCTAAAGCTTT
*
1974942 TAAATATTTGCAGACCCACAAATCCACTCTTCCCCTAAAGCT
1 TAAATATTTGCAGACCCACAAATCCACTCTCCCCCTAAAGCT
1974984 CAACTTAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.33, C:0.34, G:0.07, T:0.27
Consensus pattern (44 bp):
TAAATATTTGCAGACCCACAAATCCACTCTCCCCCTAAAGCTTT
Found at i:1975988 original size:36 final size:36
Alignment explanation
Indices: 1975948--1976054 Score: 84
Period size: 36 Copynumber: 3.0 Consensus size: 36
1975938 TAAGTTGGGA
1975948 TGTTCTTCTATGTTTCTTAGTCATGTGAGATTGTTT
1 TGTTCTTCTATGTTTCTTAGTCATGTGAGATTGTTT
* * *
1975984 TGTTC-TCATAT-TTT-TT-CTC-T-TTAAACTT-TTGT
1 TGTTCTTC-TATGTTTCTTAGTCATGTGAGA-TTGTT-T
*
1976016 GATGTTCTTCTATGTTTCTTAGCCATGTGAGATTGTTT
1 --TGTTCTTCTATGTTTCTTAGTCATGTGAGATTGTTT
1976054 T
1 T
1976055 TTTTTTAAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 24
0.63 0.08 0.29
Matches are distributed among these distances:
31 5 0.10
32 4 0.08
33 2 0.04
34 10 0.19
35 10 0.19
36 11 0.21
37 1 0.02
38 4 0.08
39 5 0.10
ACGTcount: A:0.15, C:0.13, G:0.16, T:0.56
Consensus pattern (36 bp):
TGTTCTTCTATGTTTCTTAGTCATGTGAGATTGTTT
Found at i:1977056 original size:23 final size:25
Alignment explanation
Indices: 1977030--1977085 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 25
1977020 AAATATAAAT
*
1977030 TATTATA-AT-ATTCTAATAATATA
1 TATTATAGATAATTATAATAATATA
*
1977053 TATTTTAAGATAATTATAATAATATA
1 TATTAT-AGATAATTATAATAATATA
*
1977079 TTTTATA
1 TATTATA
1977086 TTTATTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 5 0.19
24 1 0.04
25 3 0.12
26 17 0.65
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (25 bp):
TATTATAGATAATTATAATAATATA
Found at i:1987096 original size:17 final size:18
Alignment explanation
Indices: 1987076--1987116 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
1987066 AAATTATATT
1987076 AGTAAAAT-ATTAAATAA
1 AGTAAAATGATTAAATAA
*
1987093 AGTAAAATGCTTAAATAA
1 AGTAAAATGATTAAATAA
*
1987111 ATTAAA
1 AGTAAA
1987117 TACATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.29
Consensus pattern (18 bp):
AGTAAAATGATTAAATAA
Found at i:1989474 original size:23 final size:23
Alignment explanation
Indices: 1989448--1989495 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
1989438 ATAAAGTACA
*
1989448 ATAACATACTAGGTAGAGCTTAT
1 ATAACATAATAGGTAGAGCTTAT
** *
1989471 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGAGCTTAT
1989494 AT
1 AT
1989496 TTACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGAGCTTAT
Found at i:1990243 original size:18 final size:18
Alignment explanation
Indices: 1990220--1990254 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1990210 GAAATATATA
1990220 TGAAATTCAAACTCAAAT
1 TGAAATTCAAACTCAAAT
* *
1990238 TGAAATTTAAATTCAAA
1 TGAAATTCAAACTCAAA
1990255 CTCCAATTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.31
Consensus pattern (18 bp):
TGAAATTCAAACTCAAAT
Found at i:1990273 original size:24 final size:25
Alignment explanation
Indices: 1990217--1990273 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 25
1990207 GCCGAAATAT
1990217 ATATGAAATTCAAACTCAAATTGAA
1 ATATGAAATTCAAACTCAAATTGAA
* * *
1990242 AT-TTAAATTCAAACTCCAATT-AC
1 ATATGAAATTCAAACTCAAATTGAA
1990265 ATATGAAAT
1 ATATGAAAT
1990274 GAATTTGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 3 0.11
24 22 0.81
25 2 0.07
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.32
Consensus pattern (25 bp):
ATATGAAATTCAAACTCAAATTGAA
Found at i:1990484 original size:23 final size:23
Alignment explanation
Indices: 1990458--1990522 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
1990448 ATGCGAGATA
1990458 GATACCTATTACATTATATAAAC
1 GATACCTATTACATTATATAAAC
**
1990481 GATACCTATTACATTATATAAGG
1 GATACCTATTACATTATATAAAC
* *
1990504 GCTACCTATTACATCATAT
1 GATACCTATTACATTATAT
1990523 GTTTACCTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.35
Consensus pattern (23 bp):
GATACCTATTACATTATATAAAC
Found at i:1990705 original size:30 final size:30
Alignment explanation
Indices: 1990669--1990740 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
1990659 CATTTGCACA
1990669 AAAAATTATTTGATTGTTAATATATTTTAT
1 AAAAATTATTTGATTGTTAATATATTTTAT
**
1990699 AAAAATTATTTGATTGTTTTTATATTTTAT
1 AAAAATTATTTGATTGTTAATATATTTTAT
1990729 AAAATATTATTT
1 AAAA-ATTATTT
1990741 AGAATTTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 32 0.82
31 7 0.18
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (30 bp):
AAAAATTATTTGATTGTTAATATATTTTAT
Found at i:1990757 original size:30 final size:30
Alignment explanation
Indices: 1990669--1990757 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
1990659 CATTTGCACA
* *
1990669 AAAAATTATTTGATTG-TTAATATATTTTAT
1 AAAAATTATTTGAATGTTTTA-ATATTTTAT
* *
1990699 AAAAATTATTTGATTGTTTTTATATTTTAT
1 AAAAATTATTTGAATGTTTTAATATTTTAT
1990729 AAAATATTATTTAGAAT-TTTTAAT-TTTTA
1 AAAA-ATTATTT-GAATGTTTTAATATTTTA
1990758 ACAGCATTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
30 34 0.65
31 15 0.29
32 3 0.06
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (30 bp):
AAAAATTATTTGAATGTTTTAATATTTTAT
Found at i:1992405 original size:33 final size:33
Alignment explanation
Indices: 1992368--1992433 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1992358 CATCTTAATA
*
1992368 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
1992401 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
1992434 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:1994567 original size:24 final size:24
Alignment explanation
Indices: 1994530--1994582 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
1994520 CCGTTCTATC
1994530 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
1994554 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
1994578 TATTT
1 TATTT
1994583 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:1994773 original size:20 final size:19
Alignment explanation
Indices: 1994727--1994773 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
1994717 TCCGGTATCA
*
1994727 TTTTACCGTTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
1994746 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
1994767 TTTTACC
1 TTTTACC
1994774 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:1994920 original size:20 final size:20
Alignment explanation
Indices: 1994894--1994939 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
1994884 CACTTTTAAA
1994894 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
1994913 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
1994934 TTTACC
1 TTTACC
1994940 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:1996227 original size:22 final size:22
Alignment explanation
Indices: 1996202--1996282 Score: 65
Period size: 22 Copynumber: 3.5 Consensus size: 22
1996192 ATTTATTTAT
1996202 TAATATTTATAATAATATAATA
1 TAATATTTATAATAATATAATA
* *
1996224 TAATATTTTTAATATTATATAAAA
1 TAATATTTATAATA--ATATAATA
* *
1996248 TAATCAATTAT-ATGATAATAATA
1 TAAT-ATTTATAATAAT-ATAATA
*
1996271 TAAGATATTATA
1 TAATAT-TTATA
1996283 TTTTTATTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
22 16 0.36
23 12 0.27
24 13 0.29
25 4 0.09
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.44
Consensus pattern (22 bp):
TAATATTTATAATAATATAATA
Found at i:1996322 original size:24 final size:27
Alignment explanation
Indices: 1996279--1996354 Score: 84
Period size: 27 Copynumber: 2.8 Consensus size: 27
1996269 TATAAGATAT
*
1996279 TATATTTTTAT-TTTAATAAT-ATATAA
1 TATATTTATATATTTAATAATGA-ATAA
* *
1996305 AAAATTTATATATTTAATAATGAATAA
1 TATATTTATATATTTAATAATGAATAA
1996332 TATTATTTATATATTTAAATAAT
1 TA-TATTTATATATTT-AATAAT
1996355 ATTTTAATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
26 8 0.20
27 14 0.34
28 13 0.32
29 6 0.15
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (27 bp):
TATATTTATATATTTAATAATGAATAA
Found at i:1996367 original size:12 final size:11
Alignment explanation
Indices: 1996327--1996394 Score: 50
Period size: 11 Copynumber: 6.0 Consensus size: 11
1996317 TTTAATAATG
1996327 AATAATATTATT
1 AATAATATT-TT
* *
1996339 TAT-ATATTTA
1 AATAATATTTT
1996349 AATAATATTTT
1 AATAATATTTT
1996360 AATAAATATATTT
1 AAT-AATAT-TTT
**
1996373 AA-AATATACT
1 AATAATATTTT
1996383 AATTAATATTTT
1 AA-TAATATTTT
1996395 TAAAATATAA
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
10 6 0.14
11 19 0.44
12 13 0.30
13 5 0.12
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (11 bp):
AATAATATTTT
Found at i:1996378 original size:15 final size:14
Alignment explanation
Indices: 1996340--1996375 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
1996330 AATATTATTT
1996340 ATATATTTAAAT-A
1 ATATATTTAAATAA
1996353 ATAT-TTT-AATAA
1 ATATATTTAAATAA
1996365 ATATATTTAAA
1 ATATATTTAAA
1996376 ATATACTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
11 3 0.15
12 8 0.40
13 7 0.35
14 2 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATATTTAAATAA
Found at i:1996378 original size:23 final size:23
Alignment explanation
Indices: 1996340--1996403 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
1996330 AATATTATTT
**
1996340 ATATATTTAAATAATATTTTAATAA
1 ATATATTT-AA-AATATACTAATAA
*
1996365 ATATATTTAAAATATACTAATTA
1 ATATATTTAAAATATACTAATAA
*
1996388 ATATTTTTAAAATATA
1 ATATATTTAAAATATA
1996404 ATATAACACT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 25 0.71
24 2 0.06
25 8 0.23
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
ATATATTTAAAATATACTAATAA
Found at i:1996502 original size:29 final size:32
Alignment explanation
Indices: 1996436--1996505 Score: 85
Period size: 29 Copynumber: 2.3 Consensus size: 32
1996426 AATAATTTTT
*
1996436 ATAATA-TTTTATTTCACTAAAATATACAAAA
1 ATAATATTTTTATTTCAATAAAATATACAAAA
*
1996467 ATTAATATTTTTA-TT-AATAAAAT-TATAAAA
1 A-TAATATTTTTATTTCAATAAAATATACAAAA
1996497 ATAATATTT
1 ATAATATTT
1996506 AATAATAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 8 0.23
30 7 0.20
31 8 0.23
32 7 0.20
33 5 0.14
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (32 bp):
ATAATATTTTTATTTCAATAAAATATACAAAA
Found at i:1996749 original size:15 final size:14
Alignment explanation
Indices: 1996707--1996752 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
1996697 TTTCAGAAAT
*
1996707 ATAATTCATTTTCC
1 ATAATTCATTTTCA
*
1996721 ATAATTCAAATTTCA
1 ATAATTC-ATTTTCA
1996736 ATAATTCATTTTTCA
1 ATAATTCA-TTTTCA
1996751 AT
1 AT
1996753 TCTAGTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 8 0.30
15 19 0.70
ACGTcount: A:0.37, C:0.15, G:0.00, T:0.48
Consensus pattern (14 bp):
ATAATTCATTTTCA
Found at i:1997195 original size:13 final size:13
Alignment explanation
Indices: 1997177--1997219 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
1997167 TTCACACTTT
1997177 TAAATTTTTAATA
1 TAAATTTTTAATA
**
1997190 TAAATTCCT-A-A
1 TAAATTTTTAATA
1997201 TAAATTTTTAATA
1 TAAATTTTTAATA
1997214 TAAATT
1 TAAATT
1997220 CCTAAGTTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 8 0.33
12 2 0.08
13 14 0.58
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (13 bp):
TAAATTTTTAATA
Found at i:1997204 original size:24 final size:24
Alignment explanation
Indices: 1997177--1997224 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
1997167 TTCACACTTT
1997177 TAAATTTTTAATATAAATTCCTAA
1 TAAATTTTTAATATAAATTCCTAA
1997201 TAAATTTTTAATATAAATTCCTAA
1 TAAATTTTTAATATAAATTCCTAA
1997225 GTTCACACCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (24 bp):
TAAATTTTTAATATAAATTCCTAA
Found at i:1997246 original size:25 final size:24
Alignment explanation
Indices: 1997211--1997267 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
1997201 TAAATTTTTA
1997211 ATATAAATTCCTAAGTTCACACCCT
1 ATATAAATTCCTAAGTTCAC-CCCT
* *
1997236 ATATAATTTCCTATGTTCACCCCT
1 ATATAAATTCCTAAGTTCACCCCT
1997260 -TA-AAATTC
1 ATATAAATTC
1997268 TTGTAATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.17
23 2 0.07
24 4 0.14
25 18 0.62
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.37
Consensus pattern (24 bp):
ATATAAATTCCTAAGTTCACCCCT
Found at i:2001691 original size:21 final size:21
Alignment explanation
Indices: 2001665--2001704 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2001655 AGACAAGTAG
* *
2001665 TACTCCACAGCAGGTGGAGCA
1 TACTCCAAAACAGGTGGAGCA
2001686 TACTCCAAAACAGGTGGAG
1 TACTCCAAAACAGGTGGAG
2001705 TTTCAGCAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.25, G:0.28, T:0.15
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGCA
Found at i:2004290 original size:2 final size:2
Alignment explanation
Indices: 2004283--2004370 Score: 176
Period size: 2 Copynumber: 44.0 Consensus size: 2
2004273 AGATTTTTAG
2004283 AT AT AT AT AT 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 AT AT AT AT AT
2004325 AT AT AT AT AT 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 AT AT AT AT AT
2004367 AT AT
1 AT AT
2004371 CAAGTTATGA
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 86 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2009749 original size:17 final size:17
Alignment explanation
Indices: 2009727--2009766 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
2009717 TCCAATAGCA
2009727 TCTTTAACCAAATTGCT
1 TCTTTAACCAAATTGCT
2009744 TCTTTAACCAAATTGCT
1 TCTTTAACCAAATTGCT
2009761 TCTTTA
1 TCTTTA
2009767 CTGGCTTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.28, C:0.23, G:0.05, T:0.45
Consensus pattern (17 bp):
TCTTTAACCAAATTGCT
Found at i:2016642 original size:33 final size:33
Alignment explanation
Indices: 2016587--2016654 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
2016577 CAATATATTT
* * *
2016587 GGCATAATGTTATTTAACATATCTGCAGGCTAA
1 GGCATAAGGTTAATCAACATATCTGCAGGCTAA
*
2016620 GGCATAAGGTTAATCAATATATCTGCAGGCTAA
1 GGCATAAGGTTAATCAACATATCTGCAGGCTAA
2016653 GG
1 GG
2016655 TTTAATTTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (33 bp):
GGCATAAGGTTAATCAACATATCTGCAGGCTAA
Found at i:2017290 original size:2 final size:2
Alignment explanation
Indices: 2017285--2017319 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2017275 ATACATGTTT
2017285 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2017320 GCATGACTTA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2017383 original size:2 final size:2
Alignment explanation
Indices: 2017367--2017408 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
2017357 TTAAGAAATT
*
2017367 TA TA CA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2017408 T
1 T
2017409 CAGAAGAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2017579 original size:2 final size:2
Alignment explanation
Indices: 2017574--2017614 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2017564 TACATGTTTT
2017574 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2017615 GCATGACTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2017678 original size:2 final size:2
Alignment explanation
Indices: 2017671--2017707 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2017661 TTATACATGT
2017671 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2017708 TTTGTATTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2020503 original size:67 final size:67
Alignment explanation
Indices: 2020395--2020528 Score: 268
Period size: 67 Copynumber: 2.0 Consensus size: 67
2020385 GCTCCTCCTC
2020395 CTGGAATTTTTCCTTCAAGTCTATTGAAAGAGACATTGAAATATATAAGATAACGGAGCTTCTCC
1 CTGGAATTTTTCCTTCAAGTCTATTGAAAGAGACATTGAAATATATAAGATAACGGAGCTTCTCC
2020460 AG
66 AG
2020462 CTGGAATTTTTCCTTCAAGTCTATTGAAAGAGACATTGAAATATATAAGATAACGGAGCTTCTCC
1 CTGGAATTTTTCCTTCAAGTCTATTGAAAGAGACATTGAAATATATAAGATAACGGAGCTTCTCC
2020527 AG
66 AG
2020529 AGACTTGGGA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.31
Consensus pattern (67 bp):
CTGGAATTTTTCCTTCAAGTCTATTGAAAGAGACATTGAAATATATAAGATAACGGAGCTTCTCC
AG
Found at i:2021265 original size:29 final size:29
Alignment explanation
Indices: 2021230--2021311 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
2021220 AAACTAAATT
*
2021230 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
2021259 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
2021288 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
2021312 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:2025307 original size:29 final size:29
Alignment explanation
Indices: 2025272--2025353 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
2025262 AAACTAAATT
*
2025272 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
2025301 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
2025330 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
2025354 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:2026718 original size:32 final size:32
Alignment explanation
Indices: 2026677--2026741 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
2026667 AATTTGGAAG
* *
2026677 TAAACCTGTTCTTTATTTATTATCCATTTACC
1 TAAACCTGTTATTTATTTACTATCCATTTACC
*
2026709 TAAACCTGTTATTTATTTACTATTCATTTACC
1 TAAACCTGTTATTTATTTACTATCCATTTACC
2026741 T
1 T
2026742 GTGAAGTTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.26, C:0.20, G:0.03, T:0.51
Consensus pattern (32 bp):
TAAACCTGTTATTTATTTACTATCCATTTACC
Found at i:2039183 original size:15 final size:15
Alignment explanation
Indices: 2039163--2039192 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2039153 GTTCATTTAA
2039163 TAAATGAACGAACAT
1 TAAATGAACGAACAT
2039178 TAAATGAACGAACAT
1 TAAATGAACGAACAT
2039193 AAACGAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.20
Consensus pattern (15 bp):
TAAATGAACGAACAT
Found at i:2039835 original size:14 final size:14
Alignment explanation
Indices: 2039818--2039844 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2039808 GATTGGGTTA
2039818 AACATAAATGAACG
1 AACATAAATGAACG
2039832 AACATAAATGAAC
1 AACATAAATGAAC
2039845 ATAACCGAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.15, G:0.11, T:0.15
Consensus pattern (14 bp):
AACATAAATGAACG
Found at i:2039854 original size:24 final size:24
Alignment explanation
Indices: 2039818--2039880 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
2039808 GATTGGGTTA
** *
2039818 AACATAAATGAACGAACATAAATG
1 AACATAACCGAACGAACATAAACG
2039842 AACATAACCGAACGAACATAAACG
1 AACATAACCGAACGAACATAAACG
2039866 AACATAACCGAACGA
1 AACATAACCGAACGA
2039881 GATCTATGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.56, C:0.21, G:0.13, T:0.11
Consensus pattern (24 bp):
AACATAACCGAACGAACATAAACG
Found at i:2039858 original size:14 final size:14
Alignment explanation
Indices: 2039841--2039880 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
2039831 GAACATAAAT
2039841 GAACATAACCGAAC
1 GAACATAACCGAAC
2039855 GAACAT-A---AAC
1 GAACATAACCGAAC
2039865 GAACATAACCGAAC
1 GAACATAACCGAAC
2039879 GA
1 GA
2039881 GATCTATGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 8
0.73 0.00 0.27
Matches are distributed among these distances:
10 9 0.41
11 1 0.05
13 1 0.05
14 11 0.50
ACGTcount: A:0.53, C:0.25, G:0.15, T:0.07
Consensus pattern (14 bp):
GAACATAACCGAAC
Found at i:2040958 original size:20 final size:20
Alignment explanation
Indices: 2040933--2040970 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2040923 TTTGGTTCAC
2040933 GGAATGTAAGATTACCAGTG
1 GGAATGTAAGATTACCAGTG
2040953 GGAATGTAAGATTACCAG
1 GGAATGTAAGATTACCAG
2040971 GGAATAGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.24
Consensus pattern (20 bp):
GGAATGTAAGATTACCAGTG
Found at i:2041202 original size:38 final size:38
Alignment explanation
Indices: 2041127--2041203 Score: 95
Period size: 38 Copynumber: 2.0 Consensus size: 38
2041117 GTTGGAAAAT
*
2041127 ATTTATATATTTTTCTTTAAAAAAATTAAATTCATAAA
1 ATTTATATATTTTTCTTTAAAAAAATTAAAATCATAAA
* *
2041165 ATTTATATAATTTTT-TTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTTCTTTAAAAAAATT-AAAATCATAAA
2041203 A
1 A
2041204 AGGTTTAATG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
38 24 0.71
39 10 0.29
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (38 bp):
ATTTATATATTTTTCTTTAAAAAAATTAAAATCATAAA
Found at i:2041890 original size:29 final size:29
Alignment explanation
Indices: 2041853--2041992 Score: 129
Period size: 29 Copynumber: 4.7 Consensus size: 29
2041843 AAATAAATTT
*
2041853 AATAAAATATATTTTTAAGTTAAAATAAG
1 AATAAAATATATTTTTAAATTAAAATAAG
2041882 AATAAAATATATCTTTTTAAATTAAAATAATG
1 AATAAAATATA--TTTTTAAATTAAAATAA-G
* * * * *
2041914 -ATAAAAAATATTTTTAAACTCAATTAAT
1 AATAAAATATATTTTTAAATTAAAATAAG
* * * *
2041942 AATAAAATAATATATTAATAAGTTAAGATAAA
1 AATAAAAT-ATAT-TT-TTAAATTAAAATAAG
2041974 AATAAAATATATTTTTAAA
1 AATAAAATATATTTTTAAA
2041993 GATATATAAA
Statistics
Matches: 88, Mismatches: 16, Indels: 14
0.75 0.14 0.12
Matches are distributed among these distances:
29 34 0.39
30 6 0.07
31 31 0.35
32 17 0.19
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (29 bp):
AATAAAATATATTTTTAAATTAAAATAAG
Found at i:2041907 original size:31 final size:30
Alignment explanation
Indices: 2041826--2041989 Score: 118
Period size: 29 Copynumber: 5.3 Consensus size: 30
2041816 TCATTTAGTC
*
2041826 ATATTTTTAATAAATTAAAATAAATTTAATAAAAT
1 ATATTTTT--TAAATTAAAAT-AA--GAATAAAAT
*
2041861 ATA-TTTTTAAGTTAAAATAAGAATAAAAT
1 ATATTTTTTAAATTAAAATAAGAATAAAAT
*
2041890 ATATCTTTTTAAATTAAAATAATG-ATAAAAA
1 ATAT-TTTTTAAATTAAAATAA-GAATAAAAT
* * * *
2041921 ATA-TTTTTAAACTCAATTAATAATAAAAT
1 ATATTTTTTAAATTAAAATAAGAATAAAAT
** * * *
2041950 AATATATTAATAAGTTAAGATAAAAATAAAAT
1 -ATAT-TTTTTAAATTAAAATAAGAATAAAAT
2041982 ATATTTTT
1 ATATTTTT
2041990 AAAGATATAT
Statistics
Matches: 103, Mismatches: 19, Indels: 19
0.73 0.13 0.13
Matches are distributed among these distances:
29 31 0.30
30 5 0.05
31 31 0.30
32 29 0.28
34 4 0.04
35 3 0.03
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (30 bp):
ATATTTTTTAAATTAAAATAAGAATAAAAT
Found at i:2041990 original size:61 final size:60
Alignment explanation
Indices: 2041832--2041992 Score: 169
Period size: 61 Copynumber: 2.6 Consensus size: 60
2041822 AGTCATATTT
** *
2041832 TTAATAAATTAAAATAAATTTAATAAAATATATTTTTAAGTTAAAATAAGAATAAAATATATC
1 TTAATAAATTAAAATAAA---AATAAAATATATTTTTAAACTAAAATAAGAATAAAATATATA
** ** * * * *
2041895 TTTTTAAATTAAAATAATGATAAAAAATATTTTTAAACTCAATTAATAATAAAATAATATA
1 TTAATAAATTAAAATAAAAATAAAATATATTTTTAAACTAAAATAAGAATAAAAT-ATATA
* *
2041956 TTAATAAGTTAAGATAAAAATAAAATATATTTTTAAA
1 TTAATAAATTAAAATAAAAATAAAATATATTTTTAAA
2041993 GATATATAAA
Statistics
Matches: 79, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
60 30 0.38
61 34 0.43
63 15 0.19
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.39
Consensus pattern (60 bp):
TTAATAAATTAAAATAAAAATAAAATATATTTTTAAACTAAAATAAGAATAAAATATATA
Found at i:2043348 original size:16 final size:17
Alignment explanation
Indices: 2043329--2043383 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 17
2043319 GAAAAAAATA
2043329 ATAAT-AATATATGTAT
1 ATAATAAATATATGTAT
*
2043345 ATAATAAAATAAATGTAAAT
1 ATAAT-AAATATATGT--AT
2043365 ATATATAAATATATGTAT
1 ATA-ATAAATATATGTAT
2043383 A
1 A
2043384 AATGAGTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 5 0.16
18 11 0.34
20 14 0.44
21 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (17 bp):
ATAATAAATATATGTAT
Done.