Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_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: 8646418
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 43
Found at i:1674964 original size:21 final size:22
Alignment explanation
Indices: 1674939--1674984 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
1674929 CTAAATATTG
1674939 ATATTATAATTAAAA-TAAATT
1 ATATTATAATTAAAAGTAAATT
* *
1674960 ATATTATATTTAAAAGTAATTT
1 ATATTATAATTAAAAGTAAATT
1674982 ATA
1 ATA
1674985 ATGAATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
ATATTATAATTAAAAGTAAATT
Found at i:1676991 original size:22 final size:22
Alignment explanation
Indices: 1676943--1676991 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
1676933 GAAGGAAGGG
* *
1676943 AGAGGCAGAAAGATTGAGGAGG
1 AGAGGCAGAAAGAGTGAGGAGA
*
1676965 GGAGGCAGAAAG-GTGAGGAAGA
1 AGAGGCAGAAAGAGTGAGG-AGA
1676987 AGAGG
1 AGAGG
1676992 AGGTTTGCTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.41, C:0.04, G:0.49, T:0.06
Consensus pattern (22 bp):
AGAGGCAGAAAGAGTGAGGAGA
Found at i:1677033 original size:13 final size:14
Alignment explanation
Indices: 1677012--1677041 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
1677002 TATTTTTTTA
1677012 ATAATTTTTAAAAT
1 ATAATTTTTAAAAT
1677026 ATAA-TTTTAAAAT
1 ATAATTTTTAAAAT
1677039 ATA
1 ATA
1677042 TATTAATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTTTTAAAAT
Found at i:1681945 original size:16 final size:16
Alignment explanation
Indices: 1681924--1681954 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1681914 AGTCAATAAC
*
1681924 GGTCAATGGTCAACGT
1 GGTCAACGGTCAACGT
1681940 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
1681955 AGTTGGGTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.23, G:0.32, T:0.19
Consensus pattern (16 bp):
GGTCAACGGTCAACGT
Found at i:1690914 original size:24 final size:24
Alignment explanation
Indices: 1690886--1690933 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
1690876 TATTTTATCT
1690886 TATAATATATTAAAATTAAATTTA
1 TATAATATATTAAAATTAAATTTA
*
1690910 TATAATATATTAAATTTAAATTTA
1 TATAATATATTAAAATTAAATTTA
1690934 AAAACGTTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TATAATATATTAAAATTAAATTTA
Found at i:1691591 original size:16 final size:17
Alignment explanation
Indices: 1691560--1691593 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1691550 GACTACTTTA
*
1691560 TACTCTCATCAATATTT
1 TACTCTCATAAATATTT
1691577 TACTCTCA-AAATATTT
1 TACTCTCATAAATATTT
1691593 T
1 T
1691594 CTTTAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.47
Consensus pattern (17 bp):
TACTCTCATAAATATTT
Found at i:1696018 original size:19 final size:19
Alignment explanation
Indices: 1695996--1696035 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
1695986 AAATTCCAGA
1695996 ACCG-AGAATAGGTATCGAT
1 ACCGAAGAATA-GTATCGAT
*
1696015 ACCGAAGTATAGTATCGAT
1 ACCGAAGAATAGTATCGAT
1696034 AC
1 AC
1696036 TATAAGTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (19 bp):
ACCGAAGAATAGTATCGAT
Found at i:1696730 original size:23 final size:22
Alignment explanation
Indices: 1696704--1696784 Score: 72
Period size: 23 Copynumber: 3.5 Consensus size: 22
1696694 TTCTAAGCGA
1696704 TCCTTCGGGACAATTCTATATGG
1 TCCTTCGGGACAATTCTAT-TGG
* *
1696727 TCCTTCGGGACATTTCTACTCGG
1 TCCTTCGGGACAATTCTA-TTGG
* * * *
1696750 TTCTTCGCGATAATACTATGTGG
1 TCCTTCGGGACAATTCTAT-TGG
*
1696773 TCATTCGGGACA
1 TCCTTCGGGACA
1696785 TTTTTATGTG
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
22 1 0.02
23 42 0.95
24 1 0.02
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (22 bp):
TCCTTCGGGACAATTCTATTGG
Found at i:1711362 original size:20 final size:20
Alignment explanation
Indices: 1711339--1711449 Score: 150
Period size: 20 Copynumber: 5.5 Consensus size: 20
1711329 AACCCACAGA
*
1711339 TCATTTGTAAAGCCTTCGGG
1 TCATTTGTAAAGCCTACGGG
1711359 TCATTTGTAAAGCCTACGGG
1 TCATTTGTAAAGCCTACGGG
**
1711379 TCATTTGTAAAGCCTACATG
1 TCATTTGTAAAGCCTACGGG
* *
1711399 TCATTTGTAATGCCTCCGGG
1 TCATTTGTAAAGCCTACGGG
* *
1711419 TCATTTGTAAAACCTCCGGG
1 TCATTTGTAAAGCCTACGGG
*
1711439 TAATTTGTAAA
1 TCATTTGTAAA
1711450 TCCTTTGGGT
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 81 1.00
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (20 bp):
TCATTTGTAAAGCCTACGGG
Found at i:1711460 original size:40 final size:40
Alignment explanation
Indices: 1711339--1711462 Score: 142
Period size: 40 Copynumber: 3.1 Consensus size: 40
1711329 AACCCACAGA
* *
1711339 TCATTTGTAAAGCCTTCGGGTCATTTGTAAAGCCTACGGG
1 TCATTTGTAAAGCCTACGGGTCATTTGTAAATCCTACGGG
** *
1711379 TCATTTGTAAAGCCTACATGTCATTTGT-AATGCCTCCGGG
1 TCATTTGTAAAGCCTACGGGTCATTTGTAAAT-CCTACGGG
* * * **
1711419 TCATTTGTAAAACCTCCGGGTAATTTGTAAATCCTTTGGG
1 TCATTTGTAAAGCCTACGGGTCATTTGTAAATCCTACGGG
1711459 TCAT
1 TCAT
1711463 CTGTCAGTCT
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.03
40 65 0.93
41 3 0.04
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.35
Consensus pattern (40 bp):
TCATTTGTAAAGCCTACGGGTCATTTGTAAATCCTACGGG
Found at i:1711462 original size:60 final size:60
Alignment explanation
Indices: 1711334--1711449 Score: 169
Period size: 60 Copynumber: 1.9 Consensus size: 60
1711324 ATTAAAACCC
* * * *
1711334 ACAGATCATTTGTAAAGCCTTCGGGTCATTTGTAAAGCCTACGGGTCATTTGTAAAGCCT
1 ACAGGTCATTTGTAAAGCCTCCGGGTCATTTGTAAAACCTACGGGTAATTTGTAAAGCCT
* * *
1711394 ACATGTCATTTGTAATGCCTCCGGGTCATTTGTAAAACCTCCGGGTAATTTGTAAA
1 ACAGGTCATTTGTAAAGCCTCCGGGTCATTTGTAAAACCTACGGGTAATTTGTAAA
1711450 TCCTTTGGGT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 49 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.33
Consensus pattern (60 bp):
ACAGGTCATTTGTAAAGCCTCCGGGTCATTTGTAAAACCTACGGGTAATTTGTAAAGCCT
Found at i:1711646 original size:36 final size:37
Alignment explanation
Indices: 1711593--1711662 Score: 115
Period size: 36 Copynumber: 1.9 Consensus size: 37
1711583 CTTCTCAAAT
*
1711593 CAAATTCAACCTTCACGGAAGAGTAGT-GAAGTAATG
1 CAAATTCAACCTCCACGGAAGAGTAGTGGAAGTAATG
*
1711629 CAAATTCAATCTCCACGGAAGAGTAGTGGAAGTA
1 CAAATTCAACCTCCACGGAAGAGTAGTGGAAGTA
1711663 TTCCAACCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
36 25 0.81
37 6 0.19
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.21
Consensus pattern (37 bp):
CAAATTCAACCTCCACGGAAGAGTAGTGGAAGTAATG
Found at i:1712138 original size:7 final size:7
Alignment explanation
Indices: 1712126--1712165 Score: 52
Period size: 6 Copynumber: 6.3 Consensus size: 7
1712116 GAGTGACGTT
1712126 TATATTA
1 TATATTA
1712133 TATATTA
1 TATATTA
1712140 TATA-TA
1 TATATTA
1712146 -ATATTA
1 TATATTA
1712152 T-TATTA
1 TATATTA
1712158 -ATATTA
1 TATATTA
1712164 TA
1 TA
1712166 CTTATTTACA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
5 3 0.10
6 14 0.48
7 12 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
TATATTA
Found at i:1712142 original size:12 final size:12
Alignment explanation
Indices: 1712125--1712170 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
1712115 CGAGTGACGT
1712125 TTATATTATATA
1 TTATATTATATA
1712137 TTATA-TATAATA
1 TTATATTAT-ATA
1712149 TTATTATTA-ATA
1 TTA-TATTATATA
1712161 TTATACTTAT
1 TTATA-TTAT
1712171 TTACAAAGCC
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
11 5 0.17
12 20 0.69
13 2 0.07
14 2 0.07
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (12 bp):
TTATATTATATA
Found at i:1713286 original size:2 final size:2
Alignment explanation
Indices: 1713281--1713308 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1713271 ATATTTTAGC
1713281 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
1713309 GTTAGGATAA
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:1714164 original size:23 final size:23
Alignment explanation
Indices: 1714115--1714167 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
1714105 GAGTCGAGGG
* *
1714115 TTCTACGTGGTCCTTTAGGATAA
1 TTCTACGTAGTCCTTTAGGACAA
* * *
1714138 TTCTATGTAGTCCTTTGGGACAT
1 TTCTACGTAGTCCTTTAGGACAA
1714161 TTCTACG
1 TTCTACG
1714168 CGTTCAATTG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.42
Consensus pattern (23 bp):
TTCTACGTAGTCCTTTAGGACAA
Found at i:1721848 original size:18 final size:16
Alignment explanation
Indices: 1721827--1721869 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
1721817 TTAATTACAA
1721827 TATTTATATATTATTAAT
1 TATTTAT-TATTA-TAAT
*
1721845 TA-TTATTATTATATT
1 TATTTATTATTATAAT
1721860 TATTTATTAT
1 TATTTATTAT
1721870 AATCATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 5 0.22
16 12 0.52
17 4 0.17
18 2 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTTATTATTATAAT
Found at i:1721851 original size:13 final size:15
Alignment explanation
Indices: 1721826--1721869 Score: 56
Period size: 13 Copynumber: 2.9 Consensus size: 15
1721816 TTTAATTACA
1721826 ATATTTATATATTATT
1 ATATTTAT-TATTATT
1721842 A-A-TTATTATTATT
1 ATATTTATTATTATT
1721855 ATATTTATTTATTAT
1 ATATTTA-TTATTAT
1721870 AATCATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 8 0.32
14 5 0.20
15 4 0.16
16 8 0.32
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
ATATTTATTATTATT
Found at i:1724102 original size:2 final size:2
Alignment explanation
Indices: 1724095--1724165 Score: 71
Period size: 2 Copynumber: 38.0 Consensus size: 2
1724085 TTTAATCCAA
*
1724095 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT -T GT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
1724134 AT -T AT AT TT GT AA AT -T 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
1724166 GGATTATTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
1 5 0.08
2 54 0.92
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
AT
Found at i:1728121 original size:70 final size:70
Alignment explanation
Indices: 1728047--1728195 Score: 187
Period size: 70 Copynumber: 2.1 Consensus size: 70
1728037 CCGAACCTAT
*
1728047 TTTTTTTCTTCACTCT-TCTCTC-ACCCCAACCGA-AATAAAATGAAACTTACTAACGAAGAAGA
1 TTTTTTT-TT-ACTCTATCACTCAACCCC-ACCGACAATAAAATGAAACTTACTAACGAAGAAGA
1728109 AAGGTAAG
63 AAGGTAAG
** ** * *
1728117 TTTTTTTTTTGTCTATCACTCAAGGCCTCCGACGATAAAATGAAACTTACTAACGAAGAAGAAAG
1 TTTTTTTTTACTCTATCACTCAACCCCACCGACAATAAAATGAAACTTACTAACGAAGAAGAAAG
1728182 GTAAG
66 GTAAG
1728187 TTTTTTTTT
1 TTTTTTTTT
1728196 TTGTCTTTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
68 3 0.04
69 11 0.16
70 55 0.80
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (70 bp):
TTTTTTTTTACTCTATCACTCAACCCCACCGACAATAAAATGAAACTTACTAACGAAGAAGAAAG
GTAAG
Found at i:1729117 original size:16 final size:16
Alignment explanation
Indices: 1729096--1729129 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1729086 AAATTAGTAA
1729096 TTATATTTAATTTTCG
1 TTATATTTAATTTTCG
1729112 TTATATTTAATTTTCG
1 TTATATTTAATTTTCG
1729128 TT
1 TT
1729130 CCTTATTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.65
Consensus pattern (16 bp):
TTATATTTAATTTTCG
Found at i:1731209 original size:30 final size:32
Alignment explanation
Indices: 1731135--1731209 Score: 79
Period size: 31 Copynumber: 2.4 Consensus size: 32
1731125 GGTAGGGAAT
1731135 TTTTTTTAAAAAAGTTCTTTTTAATATATTTA
1 TTTTTTTAAAAAAGTTCTTTTTAATATATTTA
*
1731167 --TTTTTAATAAAAATAT-TTTTT-ATACT-TTTA
1 TTTTTTTAA-AAAAGT-TCTTTTTAATA-TATTTA
1731197 TTTTTTTAAAAAA
1 TTTTTTTAAAAAA
1731210 AATTCTCAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
30 14 0.38
31 15 0.41
32 8 0.22
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (32 bp):
TTTTTTTAAAAAAGTTCTTTTTAATATATTTA
Found at i:1731814 original size:36 final size:37
Alignment explanation
Indices: 1731759--1731829 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
1731749 CAAGGTGAGC
*
1731759 TCACCTTAAAATTCGAA-TTTTTTATGTTAGTTGTGT
1 TCACCTTAAAATTCAAATTTTTTTATGTTAGTTGTGT
*
1731795 TCACTTTAAAATTCAAATTTTTTTATGTTAGTTGT
1 TCACCTTAAAATTCAAATTTTTTTATGTTAGTTGT
1731830 TTATTTTACT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
36 15 0.47
37 17 0.53
ACGTcount: A:0.27, C:0.10, G:0.11, T:0.52
Consensus pattern (37 bp):
TCACCTTAAAATTCAAATTTTTTTATGTTAGTTGTGT
Found at i:1732658 original size:41 final size:41
Alignment explanation
Indices: 1732613--1732918 Score: 366
Period size: 41 Copynumber: 7.4 Consensus size: 41
1732603 ACACCACTAC
* * ** *
1732613 AGACTCATACTTTATTGACAATTTTATGCAAACGCCGCTAT
1 AGACTCGTACTTTAGTGACGTTTTTATACAAACGCCGCTAT
*
1732654 AGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAT
1 AGACTCGTACTTTAGTGACGTTTTTATACAAACGCCGCTAT
1732695 AGACTCGTACTTTAGTGACGTTTTTATACAAACGCCGCTAT
1 AGACTCGTACTTTAGTGACGTTTTTATACAAACGCCGCTAT
* *
1732736 AGACTCGTACTTTAGT-AGCGTTTTTATACAAACACCACTAT
1 AGACTCGTACTTTAGTGA-CGTTTTTATACAAACGCCGCTAT
* *
1732777 AGACTAGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAT
1 AGACTCGTACTTTAGTGACGTTTTTATACAAACGCCGCTAT
* *
1732818 AGGCTCGTACTTTAGTG--GTATTTTCATACAAACGCCACTAT
1 AGACTCGTACTTTAGTGACGT-TTTT-ATACAAACGCCGCTAT
* * * * * *
1732859 AGACTCATACTTTAGTGGCGTTTGTGTTTAAAAACACCGCTAA
1 AGACTCGTACTTTAGTGACGTTT-T-TATACAAACGCCGCTAT
**
1732902 AGACTTATACTTTAGTG
1 AGACTCGTACTTTAGTG
1732919 GCATTTGTGT
Statistics
Matches: 233, Mismatches: 24, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
39 2 0.01
40 5 0.02
41 193 0.83
42 2 0.01
43 30 0.13
44 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (41 bp):
AGACTCGTACTTTAGTGACGTTTTTATACAAACGCCGCTAT
Found at i:1732727 original size:82 final size:82
Alignment explanation
Indices: 1732600--1732920 Score: 410
Period size: 82 Copynumber: 3.9 Consensus size: 82
1732590 CATTTTCATT
* * * ** *
1732600 CAAACACCACTACAGACTCATACTTTATTGACAATTTTATGCAAACGCCGCTATAGACTCGTACT
1 CAAACGCCACTATAGACTCATACTTTAGTGACGTTTTTATACAAACGCCGCTATAGACTCGTACT
1732665 TTAGTGGCGTTTTTATA
66 TTAGTGGCGTTTTTATA
* *
1732682 CAAACGCCGCTATAGACTCGTACTTTAGTGACGTTTTTATACAAACGCCGCTATAGACTCGTACT
1 CAAACGCCACTATAGACTCATACTTTAGTGACGTTTTTATACAAACGCCGCTATAGACTCGTACT
*
1732747 TTAGTAGCGTTTTTATA
66 TTAGTGGCGTTTTTATA
* * *
1732764 CAAACACCACTATAGACT-AGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGGCTCGTAC
1 CAAACGCCACTATAGACTCA-TACTTTAGTGACGTTTTTATACAAACGCCGCTATAGACTCGTAC
** *
1732828 TTTAGTGGTATTTTCATA
65 TTTAGTGGCGTTTTTATA
* * * * * **
1732846 CAAACGCCACTATAGACTCATACTTTAGTGGCGTTTGTGTTTAAAAACACCGCTAAAGACTTATA
1 CAAACGCCACTATAGACTCATACTTTAGTGACGTTT-T-TATACAAACGCCGCTATAGACTCGTA
1732911 CTTTAGTGGC
64 CTTTAGTGGC
1732921 ATTTGTGTTT
Statistics
Matches: 208, Mismatches: 27, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
82 178 0.86
83 2 0.01
84 28 0.13
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (82 bp):
CAAACGCCACTATAGACTCATACTTTAGTGACGTTTTTATACAAACGCCGCTATAGACTCGTACT
TTAGTGGCGTTTTTATA
Found at i:1732803 original size:123 final size:123
Alignment explanation
Indices: 1732591--1732920 Score: 425
Period size: 123 Copynumber: 2.7 Consensus size: 123
1732581 GCCTAGTGTC
* * * * ** * *
1732591 ATTTTCATTCAAACACCACTACAGACTCATACTTTA-TTGACAATTTTATGCAAACGCCGCTATA
1 ATTTTCATACAAACGCCACTATAGACTCATACTTTAGTAG-CGTTTTTATACAAACACCGCTATA
*
1732655 GACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGTGACGT
65 GACTAGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGTG--GT
* * *
1732716 -TTTT-ATACAAACGCCGCTATAGACTCGTACTTTAGTAGCGTTTTTATACAAACACCACTATAG
1 ATTTTCATACAAACGCCACTATAGACTCATACTTTAGTAGCGTTTTTATACAAACACCGCTATAG
*
1732779 ACTAGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGGCTCGTACTTTAGTGGT
66 ACTAGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGTGGT
* * * *
1732837 ATTTTCATACAAACGCCACTATAGACTCATACTTTAGTGGCGTTTGTGTTTAAAAACACCGCTAA
1 ATTTTCATACAAACGCCACTATAGACTCATACTTTAGTAGCGTTT-T-TATACAAACACCGCTAT
1732902 AGACTTA-TACTTTAGTGGC
64 AGAC-TAGTACTTTAGTGGC
1732921 ATTTGTGTTT
Statistics
Matches: 179, Mismatches: 20, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
121 2 0.01
122 4 0.02
123 135 0.75
124 7 0.04
125 29 0.16
126 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.34
Consensus pattern (123 bp):
ATTTTCATACAAACGCCACTATAGACTCATACTTTAGTAGCGTTTTTATACAAACACCGCTATAG
ACTAGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGTGGT
Found at i:1739735 original size:22 final size:21
Alignment explanation
Indices: 1739695--1739750 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
1739685 CCGTTATACA
* *
1739695 AGGGGAGAATTGGTACCCCCT
1 AGGGGGGAATCGGTACCCCCT
*
1739716 GGGGGGGAATCGGTACCCCCT
1 AGGGGGGAATCGGTACCCCCT
1739737 AGGGGGGAATCGGT
1 AGGGGGGAATCGGT
1739751 TCCCTCTGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.20, C:0.21, G:0.43, T:0.16
Consensus pattern (21 bp):
AGGGGGGAATCGGTACCCCCT
Found at i:1740808 original size:12 final size:12
Alignment explanation
Indices: 1740791--1740819 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
1740781 TTTTTGTGCT
1740791 TGCTCCTCGGGC
1 TGCTCCTCGGGC
1740803 TGCTCCTCGGGC
1 TGCTCCTCGGGC
1740815 TGCTC
1 TGCTC
1740820 AGGCTCATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.41, G:0.31, T:0.28
Consensus pattern (12 bp):
TGCTCCTCGGGC
Found at i:1742288 original size:20 final size:20
Alignment explanation
Indices: 1742251--1742289 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1742241 AGATTGAGTG
* * *
1742251 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
1742271 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
1742290 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:1750409 original size:29 final size:30
Alignment explanation
Indices: 1750348--1750410 Score: 78
Period size: 29 Copynumber: 2.1 Consensus size: 30
1750338 TGACATGATA
*
1750348 TACATGCTTATATGAATATGCAATATGTAT
1 TACATGCTTATATGAATATGCAAGATGTAT
1750378 TACATG-TTATATGAA-ATGACATAGATGT-T
1 TACATGCTTATATGAATATG-CA-AGATGTAT
1750407 TACA
1 TACA
1750411 CATACATATG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 3 0.10
29 16 0.53
30 11 0.37
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (30 bp):
TACATGCTTATATGAATATGCAAGATGTAT
Found at i:1758642 original size:21 final size:22
Alignment explanation
Indices: 1758618--1758659 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
1758608 TTATGTAATT
*
1758618 TATTTTTTAA-AATAAAAACAC
1 TATTATTTAATAATAAAAACAC
*
1758639 TATTATTTAATAATAATAACA
1 TATTATTTAATAATAAAAACA
1758660 TTTTAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (22 bp):
TATTATTTAATAATAAAAACAC
Found at i:1759806 original size:2 final size:2
Alignment explanation
Indices: 1759801--1759877 Score: 154
Period size: 2 Copynumber: 38.5 Consensus size: 2
1759791 TGGAGGGTGG
1759801 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
1759843 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1759878 ATTTTTTAAA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 75 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1761427 original size:39 final size:40
Alignment explanation
Indices: 1761371--1761457 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 40
1761361 CAAAATTTAG
* *
1761371 AAGATGAAAAAATTGATT-TTTTGAGAATTTA-AAAGAGGA
1 AAGAGGAAAAAAATGATTATTTTGAGAATTTAGAAA-AGGA
* *
1761410 AAGAGGAAAAAAATGATTATTTTGGGAATTTAGAAAAGGG
1 AAGAGGAAAAAAATGATTATTTTGAGAATTTAGAAAAGGA
1761450 AAGAGGAA
1 AAGAGGAA
1761458 TTTTTTTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
39 16 0.38
40 23 0.55
41 3 0.07
ACGTcount: A:0.49, C:0.00, G:0.25, T:0.25
Consensus pattern (40 bp):
AAGAGGAAAAAAATGATTATTTTGAGAATTTAGAAAAGGA
Found at i:1761838 original size:23 final size:23
Alignment explanation
Indices: 1761812--1761868 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
1761802 TATATACATC
*
1761812 ATACATATATACATCATACATAT
1 ATACTTATATACATCATACATAT
1761835 ATACTTATATACATCATACATAT
1 ATACTTATATACATCATACATAT
1761858 ATACTTATATA
1 ATACTTATATA
1761869 TATTTATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.46, C:0.16, G:0.00, T:0.39
Consensus pattern (23 bp):
ATACTTATATACATCATACATAT
Found at i:1761861 original size:15 final size:15
Alignment explanation
Indices: 1761797--1761838 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
1761787 ACTTGTGTAT
*
1761797 ATACTTATATACATC
1 ATACATATATACATC
1761812 ATACATATATACATC
1 ATACATATATACATC
1761827 ATACATATATAC
1 ATACATATATAC
1761839 TTATATACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (15 bp):
ATACATATATACATC
Found at i:1761878 original size:18 final size:18
Alignment explanation
Indices: 1761794--1761907 Score: 68
Period size: 18 Copynumber: 5.9 Consensus size: 18
1761784 CACACTTGTG
*
1761794 TATATACTTATATACATCA
1 TATATACTTATATATAT-A
* * *
1761813 TACATA-TATACATCATACA
1 TATATACT-TATAT-ATATA
1761832 TATATACTTATATACATCATACA
1 TATATACTTATAT--AT-AT--A
*
1761855 TATATACTTATATATATT
1 TATATACTTATATATATA
* *
1761873 TATATACATATCTATATA
1 TATATACTTATATATATA
* *
1761891 TAGATACTTTTATATAT
1 TATATACTTATATATAT
1761908 GAGAAAATAA
Statistics
Matches: 73, Mismatches: 15, Indels: 15
0.71 0.15 0.15
Matches are distributed among these distances:
18 29 0.40
19 19 0.26
20 8 0.11
21 3 0.04
23 14 0.19
ACGTcount: A:0.42, C:0.13, G:0.01, T:0.44
Consensus pattern (18 bp):
TATATACTTATATATATA
Found at i:1762059 original size:20 final size:20
Alignment explanation
Indices: 1762034--1762183 Score: 126
Period size: 20 Copynumber: 7.4 Consensus size: 20
1762024 GTTTCCAGAT
*
1762034 TCGCAACGCGATTTTGACTA
1 TCGCAACGCGATTATGACTA
* * *
1762054 TCGCAATGCGAATATGTA-AA
1 TCGCAACGCGATTATG-ACTA
* *
1762074 TCGCAACGAGATTCTGACTA
1 TCGCAACGCGATTATGACTA
*
1762094 TCGCAACGCGATAAT-ACATAA
1 TCGCAACGCGATTATGAC-T-A
*
1762115 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTATGACTA
* *
1762135 TCGCAACGTGATAAT-ACATAA
1 TCGCAACGCGATTATGAC-T-A
* *
1762156 TCGCAACACGATTCTGACTA
1 TCGCAACGCGATTATGACTA
1762176 TCGCAACG
1 TCGCAACG
1762184 TGATAATACA
Statistics
Matches: 100, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
19 5 0.05
20 62 0.62
21 29 0.29
22 4 0.04
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (20 bp):
TCGCAACGCGATTATGACTA
Found at i:1762119 original size:21 final size:21
Alignment explanation
Indices: 1762093--1762208 Score: 105
Period size: 21 Copynumber: 5.6 Consensus size: 21
1762083 GATTCTGACT
1762093 ATCGCAACGCGATAATACATA
1 ATCGCAACGCGATAATACATA
**
1762114 ATCGCAACGCGATTCTGAC-T-
1 ATCGCAACGCGATAAT-ACATA
*
1762134 ATCGCAACGTGATAATACATA
1 ATCGCAACGCGATAATACATA
* **
1762155 ATCGCAACACGATTCTGAC-T-
1 ATCGCAACGCGATAAT-ACATA
* *
1762175 ATCGCAACGTGATAATACAAA
1 ATCGCAACGCGATAATACATA
*
1762196 ATCGCAATGCGAT
1 ATCGCAACGCGAT
1762209 TTTCAAAGTG
Statistics
Matches: 73, Mismatches: 16, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
19 4 0.05
20 26 0.36
21 39 0.53
22 4 0.05
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.22
Consensus pattern (21 bp):
ATCGCAACGCGATAATACATA
Found at i:1762128 original size:41 final size:41
Alignment explanation
Indices: 1762034--1762209 Score: 239
Period size: 41 Copynumber: 4.3 Consensus size: 41
1762024 GTTTCCAGAT
* * **
1762034 TCGCAACGCGATTTTGACTATCGCAATGCG--AATATGTAAA
1 TCGCAACGCGATTCTGACTATCGCAACGCGATAATACAT-AA
*
1762074 TCGCAACGAGATTCTGACTATCGCAACGCGATAATACATAA
1 TCGCAACGCGATTCTGACTATCGCAACGCGATAATACATAA
*
1762115 TCGCAACGCGATTCTGACTATCGCAACGTGATAATACATAA
1 TCGCAACGCGATTCTGACTATCGCAACGCGATAATACATAA
* * *
1762156 TCGCAACACGATTCTGACTATCGCAACGTGATAATACAAAA
1 TCGCAACGCGATTCTGACTATCGCAACGCGATAATACATAA
*
1762197 TCGCAATGCGATT
1 TCGCAACGCGATT
1762210 TTCAAAGTGC
Statistics
Matches: 123, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
40 27 0.22
41 91 0.74
42 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (41 bp):
TCGCAACGCGATTCTGACTATCGCAACGCGATAATACATAA
Found at i:1762399 original size:22 final size:22
Alignment explanation
Indices: 1762359--1762400 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1762349 GCGACATCCG
*
1762359 TCCCCATCTCCGACGAAATCAT
1 TCCCCATCTCCGACAAAATCAT
*
1762381 TCCCCATCTCCGGCAAAATC
1 TCCCCATCTCCGACAAAATC
1762401 CGTCTATCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.43, G:0.10, T:0.21
Consensus pattern (22 bp):
TCCCCATCTCCGACAAAATCAT
Found at i:1762881 original size:20 final size:20
Alignment explanation
Indices: 1762856--1762904 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
1762846 GTGATTATCT
1762856 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
1762876 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
*
1762896 TGTTGCGAT
1 CGTTGCGAT
1762905 TTTCATTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:1762910 original size:20 final size:20
Alignment explanation
Indices: 1762872--1762927 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
1762862 GATAGTCAAA
* **
1762872 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
1762892 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
1762912 TTCGTGTTGCGATTTT
1 TTCGTGTTGCGATTTT
1762928 AAGTTTCAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.11, C:0.16, G:0.23, T:0.50
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:1762934 original size:20 final size:20
Alignment explanation
Indices: 1762891--1762934 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
1762881 CGATAGTCAT
* *
1762891 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
1762911 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
1762931 TTTC
1 TTTC
1762935 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:1764671 original size:18 final size:18
Alignment explanation
Indices: 1764648--1764697 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
1764638 TTTACTCGTA
1764648 ATTTCACTTATATTAACC
1 ATTTCACTTATATTAACC
*
1764666 ATTTCACTTAGATTAACC
1 ATTTCACTTATATTAACC
1764684 ATTTCACTTATATT
1 ATTTCACTTATATT
1764698 GCTTAGTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.32, C:0.20, G:0.02, T:0.46
Consensus pattern (18 bp):
ATTTCACTTATATTAACC
Found at i:1764885 original size:20 final size:20
Alignment explanation
Indices: 1764862--1764925 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
1764852 TTAAAATAGT
1764862 AACGCGAAAATGACTATCGC
1 AACGCGAAAATGACTATCGC
*
1764882 AACGCGGAAATGACTATCGC
1 AACGCGAAAATGACTATCGC
*
1764902 AACGC-AAATTTGACTATCGC
1 AACGCGAAA-ATGACTATCGC
1764922 AACG
1 AACG
1764926 GGATAATCGC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
19 2 0.05
20 38 0.95
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (20 bp):
AACGCGAAAATGACTATCGC
Found at i:1764956 original size:33 final size:34
Alignment explanation
Indices: 1764917--1764992 Score: 109
Period size: 33 Copynumber: 2.3 Consensus size: 34
1764907 AAATTTGACT
* *
1764917 ATCGCAACGGGATAATCGCAATAC-AAAATAAAA
1 ATCGCAACGGGAAAATCACAATACGAAAATAAAA
* *
1764950 ATCGCAACGTGAAAATCACAATGCGAAAATAAAA
1 ATCGCAACGGGAAAATCACAATACGAAAATAAAA
1764984 ATCGCAACG
1 ATCGCAACG
1764993 CGAATGTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
33 20 0.53
34 18 0.47
ACGTcount: A:0.50, C:0.20, G:0.16, T:0.14
Consensus pattern (34 bp):
ATCGCAACGGGAAAATCACAATACGAAAATAAAA
Found at i:1765349 original size:42 final size:42
Alignment explanation
Indices: 1765303--1765396 Score: 127
Period size: 42 Copynumber: 2.2 Consensus size: 42
1765293 CCTCTCTTAT
1765303 CGTTCAAGAGGCCCCTATCATCCCTCAAGAG-TCCACTCCCAC
1 CGTTCAAGAGGCCCCTATCATCCCTCAAGAGATCC-CTCCCAC
* ** *
1765345 CGTTCAAGAGGCCCCTGTCATCGTTGAAGAGATCCCTCCCAC
1 CGTTCAAGAGGCCCCTATCATCCCTCAAGAGATCCCTCCCAC
*
1765387 CATTCAAGAG
1 CGTTCAAGAG
1765397 CCCGATTCAC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 43 0.93
43 3 0.07
ACGTcount: A:0.24, C:0.37, G:0.18, T:0.20
Consensus pattern (42 bp):
CGTTCAAGAGGCCCCTATCATCCCTCAAGAGATCCCTCCCAC
Found at i:1765351 original size:21 final size:20
Alignment explanation
Indices: 1765327--1765396 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
1765317 CTATCATCCC
1765327 TCAAGAGTCCACTCCCACCGT
1 TCAAGAGTCC-CTCCCACCGT
* ** *
1765348 TCAAGAGGCCCCTGTCATCGT
1 TCAAGA-GTCCCTCCCACCGT
* *
1765369 TGAAGAGATCCCTCCCACCAT
1 TCAAGAG-TCCCTCCCACCGT
1765390 TCAAGAG
1 TCAAGAG
1765397 CCCGATTCAC
Statistics
Matches: 36, Mismatches: 11, Indels: 4
0.71 0.22 0.08
Matches are distributed among these distances:
20 1 0.03
21 32 0.89
22 3 0.08
ACGTcount: A:0.26, C:0.36, G:0.19, T:0.20
Consensus pattern (20 bp):
TCAAGAGTCCCTCCCACCGT
Found at i:1766944 original size:20 final size:20
Alignment explanation
Indices: 1766919--1766996 Score: 95
Period size: 20 Copynumber: 3.9 Consensus size: 20
1766909 AGGTACACTT
*
1766919 TCGCAACGCTAAACTCAAAA
1 TCGCAACGCGAAACTCAAAA
* *
1766939 TCGCAATGCGAAAGTCAAAA
1 TCGCAACGCGAAACTCAAAA
*
1766959 TCGCAATGCGAAAGC-CAAAA
1 TCGCAACGCGAAA-CTCAAAA
*
1766979 TCGCAACGCGAAAGTCAA
1 TCGCAACGCGAAACTCAA
1766997 TTCGCGTTGC
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.44, C:0.26, G:0.18, T:0.13
Consensus pattern (20 bp):
TCGCAACGCGAAACTCAAAA
Found at i:1766963 original size:40 final size:40
Alignment explanation
Indices: 1766919--1766996 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
1766909 AGGTACACTT
* *
1766919 TCGCAACGCTAAA-CTCAAAATCGCAATGCGAAAGTCAAAA
1 TCGCAACGCGAAAGC-CAAAATCGCAACGCGAAAGTCAAAA
*
1766959 TCGCAATGCGAAAGCCAAAATCGCAACGCGAAAGTCAA
1 TCGCAACGCGAAAGCCAAAATCGCAACGCGAAAGTCAA
1766997 TTCGCGTTGC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 33 0.97
41 1 0.03
ACGTcount: A:0.44, C:0.26, G:0.18, T:0.13
Consensus pattern (40 bp):
TCGCAACGCGAAAGCCAAAATCGCAACGCGAAAGTCAAAA
Found at i:1767056 original size:20 final size:20
Alignment explanation
Indices: 1767031--1767165 Score: 142
Period size: 20 Copynumber: 7.0 Consensus size: 20
1767021 CTTTGTGATT
1767031 TTCTCGTTGCGATAGTCAAA
1 TTCTCGTTGCGATAGTCAAA
* *
1767051 TTCTCGTTGCGATAATTAAA
1 TTCTCGTTGCGATAGTCAAA
*
1767071 TTCACGTTGCGATAGTCAAA
1 TTCTCGTTGCGATAGTCAAA
1767091 TT-TGCGTTGCGATAGTCAAA
1 TTCT-CGTTGCGATAGTCAAA
*
1767111 TTCGCGTTGCGAT--T----
1 TTCTCGTTGCGATAGTCAAA
1767125 TT-TGCGTTGCGATAGTCAAA
1 TTCT-CGTTGCGATAGTCAAA
* *
1767145 TTCGCGTTGCGATATTCAAA
1 TTCTCGTTGCGATAGTCAAA
1767165 T
1 T
1767166 GAATGTGTAA
Statistics
Matches: 95, Mismatches: 10, Indels: 20
0.76 0.08 0.16
Matches are distributed among these distances:
14 11 0.12
16 1 0.01
18 1 0.01
20 82 0.86
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.36
Consensus pattern (20 bp):
TTCTCGTTGCGATAGTCAAA
Found at i:1767129 original size:34 final size:34
Alignment explanation
Indices: 1767091--1767157 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
1767081 GATAGTCAAA
1767091 TTTGCGTTGCGATAGTCAAATTCGCGTTGCGATT
1 TTTGCGTTGCGATAGTCAAATTCGCGTTGCGATT
1767125 TTTGCGTTGCGATAGTCAAATTCGCGTTGCGAT
1 TTTGCGTTGCGATAGTCAAATTCGCGTTGCGAT
1767158 ATTCAAATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (34 bp):
TTTGCGTTGCGATAGTCAAATTCGCGTTGCGATT
Found at i:1767133 original size:94 final size:93
Alignment explanation
Indices: 1766986--1767158 Score: 258
Period size: 94 Copynumber: 1.8 Consensus size: 93
1766976 AAATCGCAAC
* * *
1766986 GCGAAAGTCAATTCGCGTTGCGATAGTCTAATACGCTTTGTGATTTTCTCGTTGCGATAGTCAAA
1 GCGAAAGTCAATTCGCGTTGCGATAGTCAAATACGCGTTGCGATTTTCTCGTTGCGATAGTCAAA
*
1767051 TTCTCGTTGCGATAATTAAATTCACGTT
66 TTCGCGTTGCGATAATTAAATTCACGTT
* * *
1767079 GCGATAGTCAAATTTGCGTTGCGATAGTCAAATTCGCGTTGCGATTTT-TGCGTTGCGATAGTCA
1 GCGAAAGTC-AATTCGCGTTGCGATAGTCAAATACGCGTTGCGATTTTCT-CGTTGCGATAGTCA
1767143 AATTCGCGTTGCGATA
64 AATTCGCGTTGCGATA
1767159 TTCAAATGAA
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
93 9 0.13
94 62 0.87
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (93 bp):
GCGAAAGTCAATTCGCGTTGCGATAGTCAAATACGCGTTGCGATTTTCTCGTTGCGATAGTCAAA
TTCGCGTTGCGATAATTAAATTCACGTT
Found at i:1767388 original size:140 final size:140
Alignment explanation
Indices: 1767136--1767418 Score: 548
Period size: 140 Copynumber: 2.0 Consensus size: 140
1767126 TTGCGTTGCG
1767136 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
*
1767201 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAATTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
1767266 AATACACATA
131 AATACACATA
*
1767276 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATTA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1767341 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
1767406 AATACACATA
131 AATACACATA
1767416 ATA
1 ATA
1767419 CAACGTTTGC
Statistics
Matches: 141, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 141 1.00
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (140 bp):
ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:1767499 original size:18 final size:18
Alignment explanation
Indices: 1767476--1767510 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1767466 AAGCCGGTTG
*
1767476 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
1767494 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
1767511 GCCTTTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:1769807 original size:24 final size:24
Alignment explanation
Indices: 1769773--1769826 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1769763 CTGAAACATC
1769773 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* * *
1769797 ATCAAAGTCCGGGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
1769821 ATCAAA
1 ATCAAA
1769827 TTTCGAATAC
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:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:1770680 original size:20 final size:20
Alignment explanation
Indices: 1770647--1770793 Score: 133
Period size: 20 Copynumber: 7.4 Consensus size: 20
1770637 GAAATTCAGT
*
1770647 GTTGCGACAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
* *
1770667 GTTCCGATAGTCAGAATCGA
1 GTTGCGATAGTCAGAATCGC
* **
1770687 GTTGTGATTATGT-ATTATCGC
1 GTTGCGA-TA-GTCAGAATCGC
*
1770708 GTTGGGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
**
1770728 GTTGCGATTATGT-ATTATCGC
1 GTTGCGA-TA-GTCAGAATCGC
1770749 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
*
1770769 GTTGCGAT--TTAG-ATCGC
1 GTTGCGATAGTCAGAATCGC
1770786 GTTGCGAT
1 GTTGCGAT
1770794 TTTGTTGGTC
Statistics
Matches: 104, Mismatches: 17, Indels: 15
0.76 0.12 0.11
Matches are distributed among these distances:
17 13 0.12
18 3 0.03
19 4 0.04
20 52 0.50
21 28 0.27
22 4 0.04
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCGC
Found at i:1770719 original size:41 final size:41
Alignment explanation
Indices: 1770662--1770777 Score: 196
Period size: 41 Copynumber: 2.8 Consensus size: 41
1770652 GACAGTCAGA
* * *
1770662 ATCGCGTTCCGATAGTCAGAATCGAGTTGTGATTATGTATT
1 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATT
*
1770703 ATCGCGTTGGGATAGTCAGAATCGCGTTGCGATTATGTATT
1 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATT
1770744 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATT
1 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATT
1770778 TAGATCGCGT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (41 bp):
ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATT
Found at i:1770786 original size:17 final size:18
Alignment explanation
Indices: 1770720--1770795 Score: 75
Period size: 17 Copynumber: 4.0 Consensus size: 18
1770710 TGGGATAGTC
1770720 AGAATCGCGTTGCGA-TT
1 AGAATCGCGTTGCGATTT
*
1770737 ATGTATTATCGCGTTGCGATAGTC
1 A-G-A--ATCGCGTTGCGAT--TT
1770761 AGAATCGCGTTGCGATTT
1 AGAATCGCGTTGCGATTT
1770779 AG-ATCGCGTTGCGATTT
1 AGAATCGCGTTGCGATTT
1770796 TGTTGGTCAT
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
17 16 0.32
18 4 0.08
19 1 0.02
20 13 0.26
21 12 0.24
22 1 0.02
23 1 0.02
24 2 0.04
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (18 bp):
AGAATCGCGTTGCGATTT
Found at i:1770904 original size:2 final size:2
Alignment explanation
Indices: 1770899--1771121 Score: 163
Period size: 2 Copynumber: 114.0 Consensus size: 2
1770889 TGTGTGTAAT
**
1770899 TA TA TA TA TA TA TA TA TA GG TA TA -A GTA TA TA TA TA CT- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA
* * *
1770941 -A CTA TA -A TG TA TA GT- TA TA TA TA T- TA TA TA TT TA TA TA AA
1 TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1770981 TA TA TA CT- TA TA -A 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
* *
1771022 TA TA TA TA TA TA CT- TA TA -A TA TA -A GTA TA GTG TA CA T- TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA
*
1771061 TA -A TA T- TA TCA TA -A CA T- TCA TCA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA T-A TA TA TA TA T-A T-A TA TA TA TA TA TA TA TA
1771100 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
1771122 AAATTGATTT
Statistics
Matches: 180, Mismatches: 15, Indels: 52
0.73 0.06 0.21
Matches are distributed among these distances:
1 16 0.09
2 150 0.83
3 14 0.08
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:1780292 original size:17 final size:16
Alignment explanation
Indices: 1780270--1780308 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
1780260 TATATTATCA
1780270 ATAAATAGAATTTTTAT
1 ATAAATA-AATTTTTAT
1780287 ATAAAT-AATTTTTAT
1 ATAAATAAATTTTTAT
*
1780302 TTAAATA
1 ATAAATA
1780309 TTTAGAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 14 0.70
17 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
ATAAATAAATTTTTAT
Found at i:1780981 original size:19 final size:19
Alignment explanation
Indices: 1780957--1781021 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
1780947 GAACCCACAT
1780957 AATAAATATAAATATTTAA
1 AATAAATATAAATATTTAA
1780976 AATAAAATCATAAATA--TAA
1 AAT-AAAT-ATAAATATTTAA
*
1780995 ATTAAAT-TAAATTATTTAA
1 AATAAATATAAA-TATTTAA
1781014 AA-AAATAT
1 AATAAATAT
1781022 TTTTAAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
16 4 0.11
17 2 0.05
18 8 0.21
19 13 0.34
20 4 0.11
21 7 0.18
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
AATAAATATAAATATTTAA
Found at i:1782221 original size:16 final size:17
Alignment explanation
Indices: 1782200--1782232 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
1782190 ATGAGGTGTC
1782200 ACATTAACTTTT-CAAA
1 ACATTAACTTTTACAAA
1782216 ACATTAACTTTTACAAA
1 ACATTAACTTTTACAAA
1782233 TCTAATAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.36
Consensus pattern (17 bp):
ACATTAACTTTTACAAA
Found at i:1783372 original size:12 final size:12
Alignment explanation
Indices: 1783355--1783388 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
1783345 GAAAATAAAG
1783355 AAAACTTAATGT
1 AAAACTTAATGT
*
1783367 AAAACTTGATGT
1 AAAACTTAATGT
1783379 AAAAC-TAATG
1 AAAACTTAATG
1783389 GCCCTAGCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (12 bp):
AAAACTTAATGT
Found at i:1802238 original size:60 final size:60
Alignment explanation
Indices: 1802166--1802285 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
1802156 TATCACTTCT
1802166 CATATAAACACATCACATGCATATATGATCATTTGTCTTGTCATACATAACTTGGAATTA
1 CATATAAACACATCACATGCATATATGATCATTTGTCTTGTCATACATAACTTGGAATTA
*
1802226 CATATAAACACATCACATGCATATATGATCATTTGTCTTGTTATACATAACTTGGAATTA
1 CATATAAACACATCACATGCATATATGATCATTTGTCTTGTCATACATAACTTGGAATTA
1802286 TTCTCTTATG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.36
Consensus pattern (60 bp):
CATATAAACACATCACATGCATATATGATCATTTGTCTTGTCATACATAACTTGGAATTA
Found at i:1803374 original size:10 final size:10
Alignment explanation
Indices: 1803359--1803960 Score: 193
Period size: 13 Copynumber: 50.5 Consensus size: 10
1803349 TCATAAACCA
1803359 ATATATATAT
1 ATATATATAT
1803369 ATATATATAT
1 ATATATATAT
1803379 ATATATATAT
1 ATATATATAT
1803389 ATATATATAT
1 ATATATATAT
1803399 ATATATATAT
1 ATATATATAT
1803409 ATATATATAT
1 ATATATATAT
* *
1803419 ATATATTTCAA
1 ATATATAT-AT
1803430 ACTATATATAT
1 A-TATATATAT
* * * *
1803441 -TTTTTAAAA
1 ATATATATAT
1803450 ATCATATAT-T
1 AT-ATATATAT
*
1803460 ATATATATTT
1 ATATATATAT
* * *
1803470 TTTTA-AAACT
1 ATATATATA-T
1803480 ATACTATACTAT
1 ATA-TATA-TAT
1803492 ACTATACTATACT
1 A-TATA-TATA-T
1803505 ATACTATACTAT
1 ATA-TATA-TAT
1803517 ACTATACTATACT
1 A-TATA-TATA-T
1803530 ATACTATACTAT
1 ATA-TATA-TAT
1803542 ACTATACTATACT
1 A-TATA-TATA-T
1803555 ATACTATACTAT
1 ATA-TATA-TAT
1803567 ACTATACTATACT
1 A-TATA-TATA-T
1803580 ATACTATACTAT
1 ATA-TATA-TAT
1803592 ACTATACTATACT
1 A-TATA-TATA-T
1803605 ATACTATACTAT
1 ATA-TATA-TAT
1803617 ACTATACTATACT
1 A-TATA-TATA-T
1803630 ATACTATACTAT
1 ATA-TATA-TAT
1803642 ACTATACTATACT
1 A-TATA-TATA-T
1803655 ATACTATACTAT
1 ATA-TATA-TAT
1803667 ACTATACTATACT
1 A-TATA-TATA-T
1803680 ATACTATACTAT
1 ATA-TATA-TAT
1803692 ACTATACTATACT
1 A-TATA-TATA-T
1803705 ATACTATACTAT
1 ATA-TATA-TAT
1803717 ACTATACTATACT
1 A-TATA-TATA-T
1803730 ATACTATACTAT
1 ATA-TATA-TAT
1803742 ACTATACTATACT
1 A-TATA-TATA-T
1803755 ATACTATACTAT
1 ATA-TATA-TAT
1803767 ACTATACTATACT
1 A-TATA-TATA-T
1803780 ATACTATACTAT
1 ATA-TATA-TAT
1803792 ACTATACTATACT
1 A-TATA-TATA-T
1803805 ATACTATACTAT
1 ATA-TATA-TAT
1803817 ACTATACTACTAT
1 A-TATA-TA-TAT
1803830 ACTATACTATACT
1 A-TATA-TATA-T
1803843 ATACTATACTAT
1 ATA-TATA-TAT
1803855 ACTATACTATACT
1 A-TATA-TATA-T
1803868 ATACTATACTAT
1 ATA-TATA-TAT
1803880 ACTATACTATACT
1 A-TATA-TATA-T
1803893 ATACTATACTAT
1 ATA-TATA-TAT
1803905 ACTATACTATACT
1 A-TATA-TATA-T
1803918 ATACTATACTAT
1 ATA-TATA-TAT
1803930 ACTATACTATACT
1 A-TATA-TATA-T
1803943 ATACTATACTAT
1 ATA-TATA-TAT
1803955 ACTATA
1 A-TATA
1803961 CTATGCTATA
Statistics
Matches: 473, Mismatches: 19, Indels: 198
0.69 0.03 0.29
Matches are distributed among these distances:
9 12 0.03
10 66 0.14
11 8 0.02
12 191 0.40
13 196 0.41
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.42
Consensus pattern (10 bp):
ATATATATAT
Found at i:1803395 original size:30 final size:30
Alignment explanation
Indices: 1803359--1803960 Score: 193
Period size: 38 Copynumber: 16.8 Consensus size: 30
1803349 TCATAAACCA
1803359 ATATATATATATATATATATATATATATAT
1 ATATATATATATATATATATATATATATAT
1803389 ATATATATATATATATATATATATATATAT
1 ATATATATATATATATATATATATATATAT
* * * * * *
1803419 ATATATTTCAAACTATATATAT-TTTTTAAAA
1 ATATATAT-ATA-TATATATATATATATATAT
* * * *
1803450 ATCATATAT-TATATATATTTTTTTA-AAACT
1 AT-ATATATATATATATATATATATATATA-T
1803480 ATACTATACTATACTATACTATACTATACTATACTAT
1 ATA-TATA-TATA-TATA-TATA-TATA-TATA-TAT
1803517 ACTATACTATACTATACTATACTATACTATACTATACT
1 A-TATA-TATA-TATA-TATA-TATA-TATA-TATA-T
1803555 ATACTATACTATACTATACTATACTATACTATACTAT
1 ATA-TATA-TATA-TATA-TATA-TATA-TATA-TAT
1803592 ACTATACTATACTATACTATACTATACTATACTATACT
1 A-TATA-TATA-TATA-TATA-TATA-TATA-TATA-T
1803630 ATACTATACTATACTATACTATACTATACTATACTAT
1 ATA-TATA-TATA-TATA-TATA-TATA-TATA-TAT
1803667 ACTATACTATACTATACTATACTATACTATACTATACT
1 A-TATA-TATA-TATA-TATA-TATA-TATA-TATA-T
1803705 ATACTATACTATACTATACTATACTATACTATACTAT
1 ATA-TATA-TATA-TATA-TATA-TATA-TATA-TAT
1803742 ACTATACTATACTATACTATACTATACTATACTATACT
1 A-TATA-TATA-TATA-TATA-TATA-TATA-TATA-T
1803780 ATACTATACTATACTATACTATACTATACTATACTAT
1 ATA-TATA-TATA-TATA-TATA-TATA-TATA-TAT
1803817 ACTATACTACTATACTATACTATACTATACTATACTAT
1 A-TATA-TA-TATA-TATA-TATA-TATA-TATA-TAT
1803855 ACTATACTATACTATACTATACTATACTATACTATACT
1 A-TATA-TATA-TATA-TATA-TATA-TATA-TATA-T
1803893 ATACTATACTATACTATACTATACTATACTATACTAT
1 ATA-TATA-TATA-TATA-TATA-TATA-TATA-TAT
1803930 ACTATACTATACTATACTATACTATACTATA
1 A-TATA-TATA-TATA-TATA-TATA-TATA
1803961 CTATGCTATA
Statistics
Matches: 462, Mismatches: 15, Indels: 183
0.70 0.02 0.28
Matches are distributed among these distances:
29 12 0.03
30 47 0.10
31 10 0.02
32 16 0.03
33 4 0.01
34 3 0.01
35 2 0.00
36 2 0.00
37 165 0.36
38 201 0.44
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.42
Consensus pattern (30 bp):
ATATATATATATATATATATATATATATAT
Found at i:1803482 original size:25 final size:27
Alignment explanation
Indices: 1803430--1803492 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
1803420 TATATTTCAA
1803430 ACTATATATATTTTTTAAAAATCATAT
1 ACTATATATATTTTTTAAAAATCATAT
* *
1803457 ATTATATATATTTTTTTAAAA-C-TAT
1 ACTATATATATTTTTTAAAAATCATAT
1803482 ACTATACTATA
1 ACTATA-TATA
1803493 CTATACTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 8 0.25
26 5 0.16
27 19 0.59
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (27 bp):
ACTATATATATTTTTTAAAAATCATAT
Found at i:1804132 original size:5 final size:5
Alignment explanation
Indices: 1803477--1804129 Score: 1004
Period size: 5 Copynumber: 131.0 Consensus size: 5
1803467 TTTTTTTAAA
1803477 ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT
1 ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT
1803527 ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT
1 ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT
1803577 ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT
1 ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT
1803627 ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT
1 ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT
1803677 ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT
1 ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT
1803727 ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT
1 ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT
1803777 ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT AC--T
1 ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT
1803825 ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT
1 ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT
1803875 ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT
1 ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT
*
1803925 ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT GCTAT ACTAT
1 ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT
* * * * * * * * *
1803975 GCTAT ACTAT GCTAT GCTAT GCTAT GCTAT GCTAT GCTAT GCTAT GCTAT
1 ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT
* * * * * * * * * * *
1804025 GCTAT GCTAT GCTAT GCTAT GCTAT GCTAT GCTAT GCTCT GCTAT GCTAT
1 ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT
* * * * * * * * * *
1804075 GCTAT GCTAT GCTAT GCTAT GCTAT GCTAT GCTAT GCTAT GCTAT GCTAT
1 ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT
*
1804125 GCTAT
1 ACTAT
1804130 GCTCTGCTAT
Statistics
Matches: 639, Mismatches: 7, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
3 3 0.00
5 636 1.00
ACGTcount: A:0.35, C:0.20, G:0.05, T:0.40
Consensus pattern (5 bp):
ACTAT
Found at i:1804195 original size:5 final size:5
Alignment explanation
Indices: 1803984--1804194 Score: 134
Period size: 5 Copynumber: 42.2 Consensus size: 5
1803974 TGCTATACTA
* * * * * * * * * *
1803984 TGCTA TGCTA TGCTA TGCTA TGCTA TGCTA TGCTA TGCTA TGCTA TGCTA
1 TGCTC TGCTC TGCTC TGCTC TGCTC TGCTC TGCTC TGCTC TGCTC TGCTC
* * * * * * * * *
1804034 TGCTA TGCTA TGCTA TGCTA TGCTA TGCTC TGCTA TGCTA TGCTA TGCTA
1 TGCTC TGCTC TGCTC TGCTC TGCTC TGCTC TGCTC TGCTC TGCTC TGCTC
* * * * * * * * *
1804084 TGCTA TGCTA TGCTA TGCTA TGCTA TGCTA TGCTA TGCTA TGCTA TGCTC
1 TGCTC TGCTC TGCTC TGCTC TGCTC TGCTC TGCTC TGCTC TGCTC TGCTC
* *
1804134 TGCTA TGCTC TGCTC TGCTC TGCTC TGCTC TGCTC TACTC TGCTC TGCTC
1 TGCTC TGCTC TGCTC TGCTC TGCTC TGCTC TGCTC TGCTC TGCTC TGCTC
* *
1804184 TACTC TACTC T
1 TGCTC TGCTC T
1804195 ATTCTAGAAA
Statistics
Matches: 198, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 198 1.00
ACGTcount: A:0.15, C:0.26, G:0.18, T:0.40
Consensus pattern (5 bp):
TGCTC
Found at i:1805351 original size:167 final size:167
Alignment explanation
Indices: 1805142--1805633 Score: 548
Period size: 168 Copynumber: 2.9 Consensus size: 167
1805132 CTGAATGAAA
** * * * *
1805142 TCAAACTCAAAAGCTTTGGTTTACACATAGATCTTCTTGGCTTAAGGTATGCTGTAAATTAGACA
1 TCAAACTTGAAAGCTTTGGTTTACAAATAGCTCTTCTTGGCTTAAGCTATGCTGTAAATTAGGCA
**
1805207 AATTAGGTCTTCTTATTGACTTAAAGACCTCAATTTGAATTTTGACAAAAAAGTAATTCTTCGCT
66 ACCTAGGTCTTCTT-TTGACTTAAAGACCTCAATTTGAATTTTGACAAAAAAGTAATTCTTCGCT
* *
1805272 GCTA-AATGCAAG-CGATGTGCTTTCGAGCTGAACAGAG
130 GCTACAATGC-GGTCGATGTGCTTTCGAGATGAACAGAG
* *
1805309 TCAAACTTGAAAGCTTTAGTTTACAAATAGCTCTTGTTGGCTTAAGCTATGCTGTAAATTAGGCA
1 TCAAACTTGAAAGCTTTGGTTTACAAATAGCTCTTCTTGGCTTAAGCTATGCTGTAAATTAGGCA
* * * * *** *
1805374 ACCTAGGTCTTAATTTTGGCTTAAAGACCTCATTTTGAATTTTTACCGGAAAGTAATTCCTCGCT
66 ACCTAGGTCTT-CTTTTGACTTAAAGACCTCAATTTGAATTTTGACAAAAAAGTAATTCTTCGCT
* ** *
1805439 ACTACCAA-GCGGTCGATGTGCTTTTAAGATGAATAGAG
130 GCTA-CAATGCGGTCGATGTGCTTTCGAGATGAACAGAG
* * * * * * * *
1805477 TCGAACTTGAATGTTTTGGTTGATAGATAACTCTTCTTGGCTTAAGCTATG-TCGTAAATTAGGT
1 TCAAACTTGAAAGCTTTGGTTTACAAATAGCTCTTCTTGGCTTAAGCTATGCT-GTAAATTAGGC
*
1805541 AACCTAGGTCTTCTTCTTGACTTAAAGACCTCAATTTCAATTTTGACTAGAAAATAGT--TTCTT
65 AACCTAGGTCTTCTT-TTGACTTAAAGACCTCAATTTGAATTTTGAC-A-AAAA-AGTAATTCTT
*
1805604 -GCTGCTACCATGCGGTCGATGTGCTTTCGA
126 CGCTGCTACAATGCGGTCGATGTGCTTTCGA
1805634 TTTAAGTGGA
Statistics
Matches: 268, Mismatches: 47, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
167 118 0.44
168 139 0.52
169 6 0.02
170 2 0.01
171 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (167 bp):
TCAAACTTGAAAGCTTTGGTTTACAAATAGCTCTTCTTGGCTTAAGCTATGCTGTAAATTAGGCA
ACCTAGGTCTTCTTTTGACTTAAAGACCTCAATTTGAATTTTGACAAAAAAGTAATTCTTCGCTG
CTACAATGCGGTCGATGTGCTTTCGAGATGAACAGAG
Found at i:1805909 original size:292 final size:292
Alignment explanation
Indices: 1805541--1806173 Score: 759
Period size: 292 Copynumber: 2.2 Consensus size: 292
1805531 TAAATTAGGT
* * *
1805541 AACCTAGGTCTTCTTCTTGACTTAAAGACCTCAATTTCAATTTTGACTAGAAAATAGTTTCTTGC
1 AACCTAGGTCTTCTTCTTG-CTTAAAGACCTCAATTTCAATTTTGACCACAAAATAGTTTCTTAC
* * ** * *
1805606 TGCTACCATGCGGTCGATGTGCTTTCGATTTAAGTGGAATCGAACTCAAATCGCAGACAACCTAG
65 TACTACCATGCGGTCGATGTGCTCTCGAGATAAGTGGAATCAAACTCAAATCGCAAACAACCTAG
* * * * * ***
1805671 GTCTTTTTTTTGGCTTAAAGACCTCGGTATTGACGTTTGAGTGAAGGGTAATTCCTTGCTGTTAC
130 GTCTTCTTCTTAGATTAAAGACATCGGTATTGACGTTTGACCAAAGGGTAATTCCTTGCTGTTAC
* * * * *
1805736 CATGCAACCAATGTAGTCTTTAAGCTGAATGGAATCGAACTTGAGAGCTTTTGTTTATAAATAGC
195 CATGCAACCAATGTACTCATCAAGCTGAATGGAATCGAACTTGAGAGCTTTTATTTACAAATAGC
*
1805801 TCTTCTCTACTTAAGATATGTTG-AAAATAAGC
260 TCTTCTCTACTTAAGATATATTGTAAAATAAGC
* * * *
1805833 AACTTAGGTCTTCTTCTTAGCTTAAAGACAC-CAATTTGAATTTTTACCACAAAGTA-TTTCCTT
1 AACCTAGGTCTTCTTCTT-GCTTAAAGAC-CTCAATTTCAATTTTGACCACAAAATAGTTT-CTT
* *
1805896 ACTACTGCCATGCGGTCGATGTGCTCTCGAGATGAGTGGAATCAAACTCAAATCGCAAACAACCT
63 ACTACTACCATGCGGTCGATGTGCTCTCGAGATAAGTGGAATCAAACTCAAATCGCAAACAACCT
* * *
1805961 AGGTCTTCTTCTTAGATTAAAGACATCGTTATTGATGTTTGACCAAAGGGTAATTCCTTGTTGTT
128 AGGTCTTCTTCTTAGATTAAAGACATCGGTATTGACGTTTGACCAAAGGGTAATTCCTTGCTGTT
* * * * * *
1806026 ACCCTGCGACCAATTTACTCATCAAGCTGATTGGAATTGAACTTGAGAGCTTTTATTTACATATA
193 ACCATGCAACCAATGTACTCATCAAGCTGAATGGAATCGAACTTGAGAGCTTTTATTTACAAATA
* * * * *
1806091 TCTCTTCTTTACTTAAGCTATATTGTAAATTAGGC
258 GCTCTTCTCTACTTAAGATATATTGTAAAATAAGC
* * * ** *
1806126 AACCTATGTCTTCTTTTTTGCTTAAAGACTTCGGTTTGAATTTTGACC
1 AACCTAGGTCTTC-TTCTTGCTTAAAGACCTCAATTTCAATTTTGACC
1806174 GGGAGGTAGT
Statistics
Matches: 285, Mismatches: 50, Indels: 11
0.82 0.14 0.03
Matches are distributed among these distances:
291 3 0.01
292 234 0.82
293 44 0.15
294 4 0.01
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (292 bp):
AACCTAGGTCTTCTTCTTGCTTAAAGACCTCAATTTCAATTTTGACCACAAAATAGTTTCTTACT
ACTACCATGCGGTCGATGTGCTCTCGAGATAAGTGGAATCAAACTCAAATCGCAAACAACCTAGG
TCTTCTTCTTAGATTAAAGACATCGGTATTGACGTTTGACCAAAGGGTAATTCCTTGCTGTTACC
ATGCAACCAATGTACTCATCAAGCTGAATGGAATCGAACTTGAGAGCTTTTATTTACAAATAGCT
CTTCTCTACTTAAGATATATTGTAAAATAAGC
Found at i:1810338 original size:23 final size:23
Alignment explanation
Indices: 1810307--1810351 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1810297 ACCCATAACA
1810307 GTTCATACCTCGAACAT-GTTTCC
1 GTTCATACC-CGAACATGGTTTCC
* *
1810330 GTTCTTACCCGGACATGGTTTC
1 GTTCATACCCGAACATGGTTTC
1810352 TAATCATGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.36
Consensus pattern (23 bp):
GTTCATACCCGAACATGGTTTCC
Found at i:1811894 original size:20 final size:18
Alignment explanation
Indices: 1811856--1811896 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
1811846 GCCTTCTCAC
*
1811856 TTTCTTTTTTTTTGGTTT
1 TTTCTTTTTTTGTGGTTT
1811874 TTTCTCTTTTTTGTGGCTTT
1 TTTCT-TTTTTTGTGG-TTT
1811894 TTT
1 TTT
1811897 TTGCATCGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 9 0.45
20 6 0.30
ACGTcount: A:0.00, C:0.10, G:0.12, T:0.78
Consensus pattern (18 bp):
TTTCTTTTTTTGTGGTTT
Found at i:1812623 original size:5 final size:5
Alignment explanation
Indices: 1812601--1812634 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
1812591 AAGTAAATAA
1812601 AAAAT AAAGAT GAAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAA-AT -AAAAT AAAAT AAAAT AAAAT AA
1812635 TATACTATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 20 0.74
6 4 0.15
7 3 0.11
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:1812664 original size:2 final size:2
Alignment explanation
Indices: 1812657--1812695 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
1812647 TTCAAAATAC
*
1812657 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1812696 TGCATTTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1812791 original size:22 final size:21
Alignment explanation
Indices: 1812729--1812821 Score: 87
Period size: 21 Copynumber: 4.2 Consensus size: 21
1812719 TTTTCAAATA
*
1812729 TATATATTTTAAAAACCATAT
1 TATATGTTTTAAAAACCATAT
* *
1812750 AATATGTTTTCAAAACCATAT
1 TATATGTTTTAAAAACCATAT
*
1812771 TATATGTTTTAAAAAATCATATAT
1 TATATGTTTT-AAAAA-C-CATAT
* * *
1812795 TATATATATTTCAAAACTATAT
1 TATATGT-TTTAAAAACCATAT
1812817 TATAT
1 TATAT
1812822 ATATATTGTA
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
21 27 0.45
22 14 0.23
23 2 0.03
24 14 0.23
25 3 0.05
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.44
Consensus pattern (21 bp):
TATATGTTTTAAAAACCATAT
Found at i:1813066 original size:2 final size:2
Alignment explanation
Indices: 1813059--1813095 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1813049 TAGTAATTTA
1813059 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1813096 AGTATTTTTC
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1813476 original size:13 final size:13
Alignment explanation
Indices: 1813458--1813482 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1813448 TATTAAATTA
1813458 GTTTTTCATATTC
1 GTTTTTCATATTC
1813471 GTTTTTCATATT
1 GTTTTTCATATT
1813483 TTACTTTCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.12, G:0.08, T:0.64
Consensus pattern (13 bp):
GTTTTTCATATTC
Found at i:1814368 original size:25 final size:25
Alignment explanation
Indices: 1814336--1814385 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
1814326 TAACATAATC
1814336 TTATTTTGATAAAATAAATTCTATA
1 TTATTTTGATAAAATAAATTCTATA
1814361 TTATTTTGATAAAATAAATTCTATA
1 TTATTTTGATAAAATAAATTCTATA
1814386 AAACATAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (25 bp):
TTATTTTGATAAAATAAATTCTATA
Found at i:1817003 original size:21 final size:22
Alignment explanation
Indices: 1816989--1817036 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 22
1816979 AAAATTAATT
1816989 ATAAAAA-TACTAAAAATAAAA
1 ATAAAAAGTACTAAAAATAAAA
1817010 ATAAAAAGTACTAAAAAATTAAAA
1 ATAAAAAGTACT-AAAAA-TAAAA
1817034 ATA
1 ATA
1817037 TATACTAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 7 0.29
22 4 0.17
23 5 0.21
24 8 0.33
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (22 bp):
ATAAAAAGTACTAAAAATAAAA
Found at i:1817016 original size:22 final size:24
Alignment explanation
Indices: 1816978--1817036 Score: 70
Period size: 22 Copynumber: 2.6 Consensus size: 24
1816968 CATATATATG
**
1816978 AAAAATTAATTAT-AAAAATACT-
1 AAAAATTAAAAATAAAAAATACTA
*
1817000 AAAAA-TAAAAATAAAAAGTACTA
1 AAAAATTAAAAATAAAAAATACTA
1817023 AAAAATTAAAAATA
1 AAAAATTAAAAATA
1817037 TATACTAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 5 0.16
22 13 0.42
23 5 0.16
24 8 0.26
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAAATTAAAAATAAAAAATACTA
Found at i:1817511 original size:24 final size:23
Alignment explanation
Indices: 1817451--1817513 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 23
1817441 TAATTTATAC
*
1817451 ATAAAATTTAATTTTATAACTTT
1 ATAATATTTAATTTTATAACTTT
*
1817474 -T-ATATTTCATTTTTATAGGACTTT
1 ATAATATTT-AATTTTATA--ACTTT
1817498 ATAATATTT-ATTTTAT
1 ATAATATTTAATTTTAT
1817514 TTAATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
21 5 0.16
22 9 0.28
24 11 0.34
25 1 0.03
26 6 0.19
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (23 bp):
ATAATATTTAATTTTATAACTTT
Found at i:1817677 original size:17 final size:15
Alignment explanation
Indices: 1817642--1817692 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
1817632 TTTTTAGTAA
**
1817642 TTTAATTT-TTTAAT
1 TTTAATTTATTTTTT
1817656 TTTAATATTAATTTTTT
1 TTTAAT-TT-ATTTTTT
*
1817673 TTTAATTTTTTTTTT
1 TTTAATTTATTTTTT
1817688 TTTAA
1 TTTAA
1817693 AAATAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 6 0.19
15 13 0.42
16 2 0.06
17 10 0.32
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTAATTTATTTTTT
Found at i:1825383 original size:12 final size:12
Alignment explanation
Indices: 1825366--1825391 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1825356 GTAAGAAGAT
1825366 TGATACTCTCTA
1 TGATACTCTCTA
1825378 TGATACTCTCTA
1 TGATACTCTCTA
1825390 TG
1 TG
1825392 TAACCTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (12 bp):
TGATACTCTCTA
Found at i:1828225 original size:36 final size:37
Alignment explanation
Indices: 1828176--1828257 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 37
1828166 TGGCAACCTA
1828176 CTTTG-AAAATGG-TTTTCAAAATTTGGTAAATATTT
1 CTTTGAAAAATGGTTTTTCAAAATTTGGTAAATATTT
* * *
1828211 CTTTGAAAAATGGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATGGTTTTTCAAAATTTGGTAAATATTT
*
1828248 -GTTGAAAAAT
1 CTTTGAAAAAT
1828258 TGTAATGGGG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
35 5 0.12
36 16 0.39
37 20 0.49
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (37 bp):
CTTTGAAAAATGGTTTTTCAAAATTTGGTAAATATTT
Found at i:1837314 original size:19 final size:20
Alignment explanation
Indices: 1837287--1837324 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
1837277 GGGATCCTAC
1837287 AAAAGGAAAAAGT-CAAGGT
1 AAAAGGAAAAAGTACAAGGT
* *
1837306 AAAATGAAACAGTACAAGG
1 AAAAGGAAAAAGTACAAGG
1837325 ATGATTCATC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.58, C:0.08, G:0.24, T:0.11
Consensus pattern (20 bp):
AAAAGGAAAAAGTACAAGGT
Found at i:1837699 original size:20 final size:20
Alignment explanation
Indices: 1837670--1837707 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1837660 TTTCAAAGGA
1837670 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
1837690 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
1837708 GAATAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:1837876 original size:64 final size:65
Alignment explanation
Indices: 1837718--1837879 Score: 227
Period size: 65 Copynumber: 2.5 Consensus size: 65
1837708 GAATAAATTG
* * * * *
1837718 AACATCGAATGCAGTTTATGCATCGATGCACTCTCCATACATCGATGCACTCAGGTTTTAATGAA
1 AACATCGAATGCATTTTATGCATCGATGCACACACCATACATCGATGCACTCAGGTCTTAATCAA
* * * *
1837783 AACATCGATTGCATTTTATGCATCGATGCACACACCATGCATCGATGCACTTAGG-CTTATTCAA
1 AACATCGAATGCATTTTATGCATCGATGCACACACCATACATCGATGCACTCAGGTCTTAATCAA
*
1837847 AACATCGAATGCATTTTATGCATCAATGCACAC
1 AACATCGAATGCATTTTATGCATCGATGCACAC
1837880 TTAGTGCACC
Statistics
Matches: 86, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
64 37 0.43
65 49 0.57
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.29
Consensus pattern (65 bp):
AACATCGAATGCATTTTATGCATCGATGCACACACCATACATCGATGCACTCAGGTCTTAATCAA
Found at i:1837893 original size:64 final size:64
Alignment explanation
Indices: 1837718--1837897 Score: 218
Period size: 64 Copynumber: 2.8 Consensus size: 64
1837708 GAATAAATTG
* * * * *
1837718 AACATCGAATGCAGTTTATGCATCGATGCACTCTCCATACATCGATGCACTCAGGTTTTAATGAA
1 AACATCGAATGCATTTTATGCATCGATGCACACT-CATGCATCGATGCACTCAGGTCTTAATCAA
* * * *
1837783 AACATCGATTGCATTTTATGCATCGATGCACACACCATGCATCGATGCACTTAGG-CTTATTCAA
1 AACATCGAATGCATTTTATGCATCGATGCACAC-TCATGCATCGATGCACTCAGGTCTTAATCAA
* * *
1837847 AACATCGAATGCATTTTATGCATCAATGCACACTTAGTGCACCGATGCACT
1 AACATCGAATGCATTTTATGCATCGATGCACACTCA-TGCATCGATGCACT
1837898 AAGTGTTCCA
Statistics
Matches: 99, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
63 1 0.01
64 50 0.51
65 48 0.48
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (64 bp):
AACATCGAATGCATTTTATGCATCGATGCACACTCATGCATCGATGCACTCAGGTCTTAATCAA
Found at i:1840371 original size:168 final size:173
Alignment explanation
Indices: 1840043--1840389 Score: 623
Period size: 168 Copynumber: 2.0 Consensus size: 173
1840033 AAAAGGAAAA
1840043 AATTCAAAAGCCAACTTTGTTAGAAAAAGTTTTAGAAACTCCTATCATAGAGGTCCCCGAATAAT
1 AATTCAAAAGCCAACTTTGTTAGAAAAAGTTTTAGAAACTCCTATCATA-AGGTCCCCGAATAAT
1840108 CTCAAATGGAAAGATCGTTAGAAGTATATGAGTTCCTAAAGAACTCATTACTACTAAAGATAAGG
65 CTCAAATGGAAAGATCGTTAGAAGTATATGAGTTCCTAAAGAA--CATTACTACTAAAGATAAGG
1840173 ATATCCTACACAAATGGATACCTAAGGGACTAGG-TTTTGGAAACT
128 ATATCCTACACAAATGGATACCTAAGGGACTAGGATTTTGGAAACT
1840218 AATTCAAAAGCCAACTTTGTTAGAAAAAGTTTTAGAAACTCCTATCAT-AGGT-CCCGAATAATC
1 AATTCAAAAGCCAACTTTGTTAGAAAAAGTTTTAGAAACTCCTATCATAAGGTCCCCGAATAATC
*
1840281 TCAAAT-TAAAGATCGTTAGAAGTATATGAGTTCCTAAAGAA-ATTACTACTAAAGATAAGGATA
66 TCAAATGGAAAGATCGTTAGAAGTATATGAGTTCCTAAAGAACATTACTACTAAAGATAAGGATA
1840344 TCCTACACAAATGGATACCTAAGGGACTAGGATTTTGGAAACT
131 TCCTACACAAATGGATACCTAAGGGACTAGGATTTTGGAAACT
1840387 AAT
1 AAT
1840390 GAATATGGAC
Statistics
Matches: 170, Mismatches: 1, Indels: 8
0.95 0.01 0.04
Matches are distributed among these distances:
168 53 0.31
169 14 0.08
171 34 0.20
172 17 0.10
173 4 0.02
175 48 0.28
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (173 bp):
AATTCAAAAGCCAACTTTGTTAGAAAAAGTTTTAGAAACTCCTATCATAAGGTCCCCGAATAATC
TCAAATGGAAAGATCGTTAGAAGTATATGAGTTCCTAAAGAACATTACTACTAAAGATAAGGATA
TCCTACACAAATGGATACCTAAGGGACTAGGATTTTGGAAACT
Found at i:1841727 original size:186 final size:186
Alignment explanation
Indices: 1841413--1841760 Score: 687
Period size: 186 Copynumber: 1.9 Consensus size: 186
1841403 TGCCAAAATA
1841413 TTTTTGGGCGAAAGCCACAAATACCGCTTGTTATGTTATAAATCGAGTAATGATTAGGCCAATTT
1 TTTTTGGGCGAAAGCCACAAATACCGCTTGTTATGTTATAAATCGAGTAATGATTAGGCCAATTT
1841478 TAAAGAAAACTCCATATGAAATTTTTGAAATAAAAAGCCTAACATTAGCTATTTTCATCCTTTTG
66 TAAAGAAAACTCCATATGAAATTTTTGAAATAAAAAGCCTAACATTAGCTATTTTCATCCTTTTG
1841543 GATGTAAATGTTTTGTTTTAAACAACGGTAAGACATGATAATCCCCTTCAGAGAAG
131 GATGTAAATGTTTTGTTTTAAACAACGGTAAGACATGATAATCCCCTTCAGAGAAG
*
1841599 TTTTTGGGCGAAAGGCACAAATACCGCTTGTTATGTTATAAATCGAGTAATGATTAGGCCAATTT
1 TTTTTGGGCGAAAGCCACAAATACCGCTTGTTATGTTATAAATCGAGTAATGATTAGGCCAATTT
1841664 TAAAGAAAACTCCATATGAAATTTTTGAAATAAAAAGCCTAACATTAGCTATTTTCATCCTTTTG
66 TAAAGAAAACTCCATATGAAATTTTTGAAATAAAAAGCCTAACATTAGCTATTTTCATCCTTTTG
1841729 GATGTAAATGTTTTGTTTTAAACAACGGTAAG
131 GATGTAAATGTTTTGTTTTAAACAACGGTAAG
1841761 GACAATCTTG
Statistics
Matches: 161, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
186 161 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.34
Consensus pattern (186 bp):
TTTTTGGGCGAAAGCCACAAATACCGCTTGTTATGTTATAAATCGAGTAATGATTAGGCCAATTT
TAAAGAAAACTCCATATGAAATTTTTGAAATAAAAAGCCTAACATTAGCTATTTTCATCCTTTTG
GATGTAAATGTTTTGTTTTAAACAACGGTAAGACATGATAATCCCCTTCAGAGAAG
Found at i:1845265 original size:20 final size:20
Alignment explanation
Indices: 1845240--1845283 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
1845230 GTCTTAACAT
1845240 CTCTCTTGACAATCCCATTC
1 CTCTCTTGACAATCCCATTC
1845260 CTCTCTTGACAATCCCATTC
1 CTCTCTTGACAATCCCATTC
1845280 CTCT
1 CTCT
1845284 TCAAAACCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.18, C:0.41, G:0.05, T:0.36
Consensus pattern (20 bp):
CTCTCTTGACAATCCCATTC
Found at i:1845781 original size:29 final size:29
Alignment explanation
Indices: 1845739--1845796 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
1845729 CCTCTCGATC
*
1845739 CTCCGATGGAGTAGATTTTTCCTTGTTAT
1 CTCCGATAGAGTAGATTTTTCCTTGTTAT
1845768 CTCCGATAGAGTAGATTTTTCCTTGTTAT
1 CTCCGATAGAGTAGATTTTTCCTTGTTAT
1845797 GCTTTCTTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.45
Consensus pattern (29 bp):
CTCCGATAGAGTAGATTTTTCCTTGTTAT
Found at i:1846600 original size:45 final size:45
Alignment explanation
Indices: 1846525--1846625 Score: 123
Period size: 45 Copynumber: 2.2 Consensus size: 45
1846515 TGCACTCATA
* * * *
1846525 CATCGATGCACTCAGGTTTTAATGAAAACATTGATTGCATTTTATG
1 CATCGATGCACTCAGGTCTTAATCAAAACATCGAATGCATTTTA-G
* * *
1846571 CATCGATGCACTTAGG-CTTATTCAAAACATCGAATGTATTTTAG
1 CATCGATGCACTCAGGTCTTAATCAAAACATCGAATGCATTTTAG
1846615 CATCGATGCAC
1 CATCGATGCAC
1846626 ACTTAGTGCA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 12 0.25
45 21 0.44
46 15 0.31
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.34
Consensus pattern (45 bp):
CATCGATGCACTCAGGTCTTAATCAAAACATCGAATGCATTTTAG
Found at i:1846855 original size:17 final size:18
Alignment explanation
Indices: 1846833--1846870 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
1846823 TTGATCAACA
1846833 CAAGAAATAACA-AGAAT
1 CAAGAAATAACAGAGAAT
* *
1846850 CAAGAATTAAGAGAGAAT
1 CAAGAAATAACAGAGAAT
1846868 CAA
1 CAA
1846871 AGAGAAAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.13
Consensus pattern (18 bp):
CAAGAAATAACAGAGAAT
Found at i:1864209 original size:24 final size:25
Alignment explanation
Indices: 1864147--1864209 Score: 110
Period size: 25 Copynumber: 2.5 Consensus size: 25
1864137 TATCGCCATG
1864147 GAGAAACATTTTACCCTCCTCTATCT
1 GAGAAACA-TTTACCCTCCTCTATCT
1864173 GAGAAACATTTACCCTCCTCTATCT
1 GAGAAACATTTACCCTCCTCTATCT
1864198 GAG-AACATTTAC
1 GAGAAACATTTAC
1864210 TCCAATGCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
24 9 0.24
25 20 0.54
26 8 0.22
ACGTcount: A:0.30, C:0.29, G:0.10, T:0.32
Consensus pattern (25 bp):
GAGAAACATTTACCCTCCTCTATCT
Found at i:1866770 original size:187 final size:187
Alignment explanation
Indices: 1866436--1866809 Score: 732
Period size: 187 Copynumber: 2.0 Consensus size: 187
1866426 TCTTGCAGTA
1866436 TTTTTGGGAATATTATTCGCTGCAACATTGGGATTCGCCTAATCTTCCATAGGGTTATCAGCCTG
1 TTTTTGGGAATATTATTCGCTGCAACATTGGGATTCGCCTAATCTTCCATAGGGTTATCAGCCTG
1866501 AAACTATAGTTGATTCATATTGCCTCTGACACGCCGAGCACATTGCCTTTATCTGAACAAATCGC
66 AAACTATAGTTGATTCATATTGCCTCTGACACGCCGAGCACATTGCCTTTATCTGAACAAATCGC
1866566 TCGATCTTAGGTCTAATGGTACTAATGGTTCATTAGCAGATCTTCTGGTCATCCAAC
131 TCGATCTTAGGTCTAATGGTACTAATGGTTCATTAGCAGATCTTCTGGTCATCCAAC
1866623 TTTTTGGGAATATTATTCGCTGCAACATTGGGATTCGCCTAATCTTCCATAGGGTTATCAGCCTG
1 TTTTTGGGAATATTATTCGCTGCAACATTGGGATTCGCCTAATCTTCCATAGGGTTATCAGCCTG
1866688 AAACTATAGTTGATTCATATTGCCTCTGACACGCCGAGCACATTGCCTTTATCTGAAC-AATCGC
66 AAACTATAGTTGATTCATATTGCCTCTGACACGCCGAGCACATTGCCTTTATCTGAACAAATCGC
1866752 TCGATCTTAGGTTCTAATGGTACTAATGGTTCATTAGCAGATCTTCTGGTCATCCAAC
131 TCGATCTTAGG-TCTAATGGTACTAATGGTTCATTAGCAGATCTTCTGGTCATCCAAC
1866810 GATACAAACC
Statistics
Matches: 186, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
186 17 0.09
187 169 0.91
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (187 bp):
TTTTTGGGAATATTATTCGCTGCAACATTGGGATTCGCCTAATCTTCCATAGGGTTATCAGCCTG
AAACTATAGTTGATTCATATTGCCTCTGACACGCCGAGCACATTGCCTTTATCTGAACAAATCGC
TCGATCTTAGGTCTAATGGTACTAATGGTTCATTAGCAGATCTTCTGGTCATCCAAC
Found at i:1870389 original size:29 final size:27
Alignment explanation
Indices: 1870356--1870409 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 27
1870346 CTTAATTATA
1870356 AAATAAGTG-TCTAAACTATATTTTTTTTC
1 AAATAAGTGTTC-AAACT-T-TTTTTTTTC
*
1870385 AAATAGGTGTTCAAACTTTTTTTTT
1 AAATAAGTGTTCAAACTTTTTTTTT
1870410 GAATCAACGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 7 0.30
28 1 0.04
29 13 0.57
30 2 0.09
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.50
Consensus pattern (27 bp):
AAATAAGTGTTCAAACTTTTTTTTTTC
Found at i:1870976 original size:27 final size:27
Alignment explanation
Indices: 1870939--1870990 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
1870929 GGAAAAAAGT
1870939 TTTTCAAAGTTTGA-GTTTTTTTAAGA
1 TTTTCAAAGTTTGAGGTTTTTTTAAGA
*
1870965 TTTTCAAAAGTTTTAGGTTTTTTTAA
1 TTTTC-AAAGTTTGAGGTTTTTTTAA
1870991 AATAAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 5 0.22
27 8 0.35
28 10 0.43
ACGTcount: A:0.27, C:0.04, G:0.13, T:0.56
Consensus pattern (27 bp):
TTTTCAAAGTTTGAGGTTTTTTTAAGA
Found at i:1872167 original size:27 final size:28
Alignment explanation
Indices: 1872129--1872187 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
1872119 GGGATTGTAA
* *
1872129 TAAAGGTTTTC-AAAGTTTGAGTTTTTT
1 TAAAGATTTTCAAAAGTTTGAGGTTTTT
*
1872156 TAAAGATTTTCAAAAGTTTTAGGTTTTT
1 TAAAGATTTTCAAAAGTTTGAGGTTTTT
1872184 TAAA
1 TAAA
1872188 ATAAAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 10 0.36
28 18 0.64
ACGTcount: A:0.32, C:0.03, G:0.15, T:0.49
Consensus pattern (28 bp):
TAAAGATTTTCAAAAGTTTGAGGTTTTT
Found at i:1895052 original size:11 final size:11
Alignment explanation
Indices: 1895038--1895062 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1895028 TGTCTTTTCT
1895038 TGATTGTAACC
1 TGATTGTAACC
1895049 TGATTGTAACC
1 TGATTGTAACC
1895060 TGA
1 TGA
1895063 ATTCAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (11 bp):
TGATTGTAACC
Found at i:1895563 original size:42 final size:40
Alignment explanation
Indices: 1895517--1895708 Score: 91
Period size: 42 Copynumber: 4.8 Consensus size: 40
1895507 GGATAATATT
1895517 TTTTATCTTTGTTTTAGTATTTAGTTTAAATAGGATTTAGTA
1 TTTTAT-TTTGTTTTAGTATTTAGTTTAAATAGGATTTA-TA
** * * *
1895559 TTTTAATTAAGTTTTAGGATAATA-TTTTAAT---A-TTATA
1 TTTT-ATTTTGTTTTAGTAT-TTAGTTTAAATAGGATTTATA
* *
1895596 TTTTAACTTTG---TA-T-TTTAGTTTAAATAGGTTTTAGTA
1 TTTT-ATTTTGTTTTAGTATTTAGTTTAAATAGGATTTA-TA
** * * * *
1895633 TTTTAATTAGGATTTAGGATATTATTTTAAATAGTATTT-TA
1 TTTT-ATTTTGTTTTAGTAT-TTAGTTTAAATAGGATTTATA
1895674 TTTTATATTTGTTTTAGGTATTTTAGTTTAAATAG
1 TTTTAT-TTTGTTTTA-GTA-TTTAGTTTAAATAG
1895709 TTTTAAGAGT
Statistics
Matches: 109, Mismatches: 24, Indels: 34
0.65 0.14 0.20
Matches are distributed among these distances:
31 2 0.02
32 7 0.06
34 2 0.02
36 3 0.03
37 20 0.18
38 3 0.03
39 1 0.01
40 4 0.04
41 12 0.11
42 35 0.32
43 20 0.18
ACGTcount: A:0.30, C:0.01, G:0.12, T:0.56
Consensus pattern (40 bp):
TTTTATTTTGTTTTAGTATTTAGTTTAAATAGGATTTATA
Found at i:1896362 original size:16 final size:18
Alignment explanation
Indices: 1896341--1896380 Score: 66
Period size: 16 Copynumber: 2.3 Consensus size: 18
1896331 CTTTAAATTA
1896341 TTTATTTAATT-TT-TCT
1 TTTATTTAATTGTTATCT
1896357 TTTATTTAATTGTTATCT
1 TTTATTTAATTGTTATCT
1896375 TTTATT
1 TTTATT
1896381 GTAAAAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 11 0.50
17 2 0.09
18 9 0.41
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTATTTAATTGTTATCT
Found at i:1896479 original size:20 final size:20
Alignment explanation
Indices: 1896407--1896482 Score: 66
Period size: 20 Copynumber: 3.7 Consensus size: 20
1896397 AAAATCCCCT
* **
1896407 TTTTTATCTTTACTATTATAA
1 TTTTTAT-TTTATTATTATCC
*
1896428 TTTATTATTTTATTATTTTCC
1 TTT-TTATTTTATTATTATCC
1896449 TTTTCTA-TTTATTATTAT-C
1 TTTT-TATTTTATTATTATCC
1896468 TATTTTATTTTATTA
1 T-TTTTATTTTATTA
1896483 AATCTTTTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
19 4 0.09
20 21 0.46
21 17 0.37
22 4 0.09
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTATTTTATTATTATCC
Found at i:1896480 original size:14 final size:14
Alignment explanation
Indices: 1896432--1896480 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
1896422 TTATAATTTA
1896432 TTATTTTAT-TATT
1 TTATTTTATCTATT
**
1896445 TTCCTTT-TCTA-T
1 TTATTTTATCTATT
1896457 TTATTATTATCTATT
1 TTATT-TTATCTATT
1896472 TTATTTTAT
1 TTATTTTAT
1896481 TAAATCTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
12 5 0.18
13 9 0.32
14 8 0.29
15 6 0.21
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.71
Consensus pattern (14 bp):
TTATTTTATCTATT
Found at i:1909813 original size:37 final size:36
Alignment explanation
Indices: 1909772--1909892 Score: 131
Period size: 36 Copynumber: 3.3 Consensus size: 36
1909762 ATCTCCACGG
1909772 AAGAGTAGTGAAACAA-GCATGCAATCAAGCCTTCAC-A
1 AAGAGTAGTGAAACAATGCA---AATCAAGCCTTCACAA
*
1909809 AAGAGTAGTGAAGCAATGCAAATCAAGCCTTCACAA
1 AAGAGTAGTGAAACAATGCAAATCAAGCCTTCACAA
* * * * *
1909845 AAGAGTGGTGAAGCAATACAATTC-AGCTTTCACAAA
1 AAGAGTAGTGAAACAATGCAAATCAAGCCTTCAC-AA
1909881 AAGAGTAGTGAA
1 AAGAGTAGTGAA
1909893 GCAAGATCAA
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
35 22 0.29
36 35 0.47
37 15 0.20
38 3 0.04
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.18
Consensus pattern (36 bp):
AAGAGTAGTGAAACAATGCAAATCAAGCCTTCACAA
Found at i:1909856 original size:36 final size:36
Alignment explanation
Indices: 1909786--1909896 Score: 149
Period size: 36 Copynumber: 3.2 Consensus size: 36
1909776 GTAGTGAAAC
1909786 AAGC-ATGC-AATCAAGCCTTCAC-AAAGAGTAGTG
1 AAGCAATGCAAATCAAGCCTTCACAAAAGAGTAGTG
*
1909819 AAGCAATGCAAATCAAGCCTTCACAAAAGAGTGGTG
1 AAGCAATGCAAATCAAGCCTTCACAAAAGAGTAGTG
* * *
1909855 AAGCAATACAATTC-AGCTTTCACAAAAAGAGTAGTG
1 AAGCAATGCAAATCAAGCCTTCAC-AAAAGAGTAGTG
1909891 AAGCAA
1 AAGCAA
1909897 GATCAAATCA
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
33 4 0.06
34 4 0.06
35 22 0.32
36 39 0.57
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.18
Consensus pattern (36 bp):
AAGCAATGCAAATCAAGCCTTCACAAAAGAGTAGTG
Found at i:1913959 original size:5 final size:5
Alignment explanation
Indices: 1913949--1914156 Score: 347
Period size: 5 Copynumber: 42.4 Consensus size: 5
1913939 TAGGTTAAAT
1913949 TATTA TATTA TATTA TA-TA TATT- TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1913997 TATTA TATTA TATTA TATTA TATTA TATTA TA-TA TATTA T-TTA T-TTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
*
1914044 TATTA TATTA TATTA TA-TC TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1914093 TATTA TATTA TATTA TATTA TATTATA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TA-T-TA TATTA TATTA TATTA TATTA TATTA
1914145 TATTA TATTA TA
1 TATTA TATTA TA
1914157 ATCTATTCAG
Statistics
Matches: 194, Mismatches: 2, Indels: 14
0.92 0.01 0.07
Matches are distributed among these distances:
4 23 0.12
5 165 0.85
6 2 0.01
7 4 0.02
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:1914291 original size:3 final size:3
Alignment explanation
Indices: 1914279--1914327 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
1914269 TGATGAGGAG
1914279 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1914326 AT
1 AT
1914328 ATATATACAT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1916156 original size:43 final size:43
Alignment explanation
Indices: 1916051--1916157 Score: 117
Period size: 43 Copynumber: 2.4 Consensus size: 43
1916041 TTACAATCAT
1916051 ACAAGATGATGACCTTATCCTTCGAAGAGAAACTCAAAACAACAA
1 ACAAGATG-TGACCTTAT-CTTCGAAGAGAAACTCAAAACAACAA
* * * **
1916096 ACAAAATGTGAATCTTATCTTCGAAGAG-AACTCAAAATAGTAA
1 ACAAGATGTG-ACCTTATCTTCGAAGAGAAACTCAAAACAACAA
*
1916139 ACATGATGTTGACCTTATC
1 ACAAGATG-TGACCTTATC
1916158 CTCCAAAGAG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
43 25 0.48
44 14 0.27
45 13 0.25
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (43 bp):
ACAAGATGTGACCTTATCTTCGAAGAGAAACTCAAAACAACAA
Found at i:1917327 original size:30 final size:30
Alignment explanation
Indices: 1917293--1917354 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
1917283 TAAATAAAAT
* * *
1917293 ATATGGTCATTTTTGTTTTGTTTAATTAAG
1 ATATGGTCACTTTTATTTTATTTAATTAAG
*
1917323 ATATGTTCACTTTTATTTTATTTAATTAAG
1 ATATGGTCACTTTTATTTTATTTAATTAAG
1917353 AT
1 AT
1917355 GTGATCACCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.56
Consensus pattern (30 bp):
ATATGGTCACTTTTATTTTATTTAATTAAG
Found at i:1917595 original size:29 final size:30
Alignment explanation
Indices: 1917558--1917632 Score: 84
Period size: 29 Copynumber: 2.5 Consensus size: 30
1917548 TTATTATAAC
**
1917558 TTAATAATATATTTTATTATTAT-TTTAA-TT
1 TTAA-AATATATTTTATT-TTATATAAAATTT
1917588 TTAAAATATA-TTTATTTTATATAAAATTT
1 TTAAAATATATTTTATTTTATATAAAATTT
1917617 TTAAAATATTATTTTA
1 TTAAAATA-TATTTTA
1917633 ACTTTTCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
27 4 0.10
28 9 0.23
29 16 0.41
30 6 0.15
31 4 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (30 bp):
TTAAAATATATTTTATTTTATATAAAATTT
Found at i:1918881 original size:51 final size:54
Alignment explanation
Indices: 1918710--1919241 Score: 437
Period size: 51 Copynumber: 10.2 Consensus size: 54
1918700 ACTAAATAGA
* * * *
1918710 CACTAAGTGTGC-ATTCCACGGAATTCATC-TATGTGGATGAATAACCGTTTCA-G
1 CACTATGTGTGCAAATCCACGGAATTCATCATA-GTTGATGAATAACCG-TACAGG
* * * * *
1918763 CACTAAGAGTGC-ATTTCACGGAATTCATCATGAGTTGATGAATAACCGTATAGG
1 CACTATGTGTGCAAATCCACGGAATTCATCAT-AGTTGATGAATAACCGTACAGG
* *
1918817 CACTATATGTGCAAACCCACGGAATTCATCAT-GTTGATGAATAA-CG-ACAGG
1 CACTATGTGTGCAAATCCACGGAATTCATCATAGTTGATGAATAACCGTACAGG
*
1918868 CACTATGTGTGCAAATCCAAGGAATTCATCATGAGTTGATGAATAACCGTACAGG
1 CACTATGTGTGCAAATCCACGGAATTCATCAT-AGTTGATGAATAACCGTACAGG
*
1918923 CACTATGTGTGCAAA-CC-C--AATTCATCATTAGTTGATGAAT-A-CGTACAGA
1 CACTATGTGTGCAAATCCACGGAATTCATCA-TAGTTGATGAATAACCGTACAGG
*
1918972 CACTATGT-TAC-AATCCACGGAATTCATCATGAGTTGATG-ATAA-CGT--A--
1 CACTATGTGTGCAAATCCACGGAATTCATCAT-AGTTGATGAATAACCGTACAGG
* * * * * *
1919019 CATTATATGTGCAAATCCATGGAATTCATCATGAGTTAATGAAT-ATCGTACATG
1 CACTATGTGTGCAAATCCACGGAATTCATCAT-AGTTGATGAATAACCGTACAGG
* *
1919073 CACTAT-TGTGCAAATCCAAGGAA---AT-ATGAGTTGATGAATAAACCGTACAAG
1 CACTATGTGTGCAAATCCACGGAATTCATCAT-AGTTGATGAAT-AACCGTACAGG
* * * * *
1919124 CACTAGGTGTGC-AATCCATGAAATTCATCTTGAGTTGATGAATAACCGTACATG
1 CACTATGTGTGCAAATCCACGGAATTCATCAT-AGTTGATGAATAACCGTACAGG
* * *
1919178 CAC-GTGTGTGC-AA-CC-CGTAATTCATCATGAGTTGATGAACT-ACCGTATAGG
1 CACTATGTGTGCAAATCCACGGAATTCATCAT-AGTTGATGAA-TAACCGTACAGG
* *
1919229 TACTACGTGTGCA
1 CACTATGTGTGCA
1919242 TCTTAATAAT
Statistics
Matches: 403, Mismatches: 43, Indels: 66
0.79 0.08 0.13
Matches are distributed among these distances:
47 8 0.02
48 6 0.01
49 57 0.14
50 11 0.03
51 127 0.32
52 18 0.04
53 77 0.19
54 49 0.12
55 50 0.12
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (54 bp):
CACTATGTGTGCAAATCCACGGAATTCATCATAGTTGATGAATAACCGTACAGG
Found at i:1919151 original size:204 final size:204
Alignment explanation
Indices: 1918779--1919215 Score: 529
Period size: 204 Copynumber: 2.1 Consensus size: 204
1918769 GAGTGCATTT
1918779 CACGGAATTCATCATGAGTTGATGAATAACCGTATAGGCACTATATGTGCAAACCCACGGAATTC
1 CACGGAATTCATCATGAGTTGATG-ATAACCG-ATA-GCACTATATGTGCAAACCCACGGAATTC
*
1918844 ATCATGTTGATGAATAACGACAGGCACTATGTGTGCAAATCCAAGGAATTCATCATGAGTTGATG
63 ATCATGTTAATGAATAACGACAGGCACTATGTGTGCAAATCCAAGGAA-T-ATCATGAGTTGATG
* * *
1918909 AATAACCGTACAGGCACTATGTGTGCAAACCCAATTCATCATT-AGTTGATGAAT-A-CGTACA-
126 AATAACCGTACAAGCACTAGGTGTGCAAACCAAATTCATC-TTGAGTTGATGAATAACCGTACAT
1918970 GACACTATGT-TACAATC
190 G-CAC-ATGTGTACAA-C
* * *
1918987 CACGGAATTCATCATGAGTTGATGATAA-CG-TA-CATTATATGTGCAAATCCATGGAATTCATC
1 CACGGAATTCATCATGAGTTGATGATAACCGATAGCACTATATGTGCAAACCCACGGAATTCATC
* *
1919049 ATGAGTTAATGAATATCGTACATGCACTAT-TGTGCAAATCCAAGGAA-AT-ATGAGTTGATGAA
66 AT--GTTAATGAATAACG-ACAGGCACTATGTGTGCAAATCCAAGGAATATCATGAGTTGATGAA
*
1919111 TAAACCGTACAAGCACTAGGTGTGCAATCCATGAAATTCATCTTGAGTTGATGAATAACCGTACA
128 T-AACCGTACAAGCACTAGGTGTGCAAACC---AAATTCATCTTGAGTTGATGAATAACCGTACA
* *
1919176 TGCACGTGTGTGCAAC
189 TGCACATGTGTACAAC
*
1919192 C-CGTAATTCATCATGAGTTGATGA
1 CACGGAATTCATCATGAGTTGATGA
1919216 ACTACCGTAT
Statistics
Matches: 204, Mismatches: 13, Indels: 28
0.83 0.05 0.11
Matches are distributed among these distances:
200 14 0.07
201 27 0.13
202 29 0.14
203 2 0.01
204 72 0.35
205 16 0.08
206 15 0.07
207 5 0.02
208 24 0.12
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (204 bp):
CACGGAATTCATCATGAGTTGATGATAACCGATAGCACTATATGTGCAAACCCACGGAATTCATC
ATGTTAATGAATAACGACAGGCACTATGTGTGCAAATCCAAGGAATATCATGAGTTGATGAATAA
CCGTACAAGCACTAGGTGTGCAAACCAAATTCATCTTGAGTTGATGAATAACCGTACATGCACAT
GTGTACAAC
Found at i:1919599 original size:44 final size:43
Alignment explanation
Indices: 1919490--1919637 Score: 226
Period size: 43 Copynumber: 3.4 Consensus size: 43
1919480 ATGGTGTAAA
*
1919490 AAAGGCATGAAATGATGTCATAAT-AAATGTATAACAGTGTAT
1 AAAGGCATGAAAGGATGTCATAATGAAATGTATAACAGTGTAT
1919532 AAAAGGCATGAAAGGATGTCATAAATGAAATGTATAACAGTGTAT
1 -AAAGGCATGAAAGGATGTCAT-AATGAAATGTATAACAGTGTAT
* * **
1919577 AAAGGCATGAAAGGATGCCATAATGAAATGTATCATGGTGTAT
1 AAAGGCATGAAAGGATGTCATAATGAAATGTATAACAGTGTAT
1919620 AAAGGCATGAAAGGATGT
1 AAAGGCATGAAAGGATGT
1919638 ATGAAATTAA
Statistics
Matches: 97, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
43 56 0.58
44 23 0.24
45 18 0.19
ACGTcount: A:0.44, C:0.07, G:0.24, T:0.25
Consensus pattern (43 bp):
AAAGGCATGAAAGGATGTCATAATGAAATGTATAACAGTGTAT
Found at i:1920252 original size:23 final size:23
Alignment explanation
Indices: 1920215--1920272 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 23
1920205 AAAATTGAGT
1920215 AAAATAATAAAAAAA-G-AATATAA
1 AAAATAA-AAAAAAATGAAATA-AA
1920238 AAAATAAAAATAAAATGAAATAAA
1 AAAATAAAAA-AAAATGAAATAAA
1920262 AATAATAAAAA
1 AA-AATAAAAA
1920273 GGTTAAACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
22 3 0.10
23 11 0.35
24 5 0.16
25 12 0.39
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.17
Consensus pattern (23 bp):
AAAATAAAAAAAAATGAAATAAA
Found at i:1921885 original size:84 final size:84
Alignment explanation
Indices: 1921741--1923703 Score: 2014
Period size: 84 Copynumber: 23.4 Consensus size: 84
1921731 CTTTGATGAT
* * * * * * ** *
1921741 AGATAACCCTTCTCGCCTTGAGTTATGTTGTAAATTTGATATGCCTTTGAGCTAAATGTAATCGA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAA--TGATGTGCCTTGGAGCTGAGCGTAGTCGA
1921806 ACTCGAAGGTCTTTTGTTGGC
64 ACTCGAAGGTCTTTTGTTGGC
* * * * * * * * *
1921827 ATATAGCCCTTCTTGCCTTGAGATATGCTACAAACGATGTGCCTTTGAGCTGAGTGTAATCGAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* * *
1921892 TTGAAGGTC-TTGGTTGAC
66 TCGAAGGTCTTTTGTTGGC
* * * * * * *
1921910 AGATAACCCTTCTCGCCTTGAGTTATGTTGTAAATTGGATATGCCTTTGAGCTGAGTGTAATCGA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAA-T-GATGTGCCTTGGAGCTGAGCGTAGTCGA
*
1921975 ACTCGAAGGTCTTTTATTGGC
64 ACTCGAAGGTCTTTTGTTGGC
* * * * * * * *
1921996 AGATATCCCTTCTTA-CCTTGAGTTGTGTTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCAAA
1 AGATAACCCTTC-TAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
*
1922060 CTCGAAGGTC---T-TCGGC
65 CTCGAAGGTCTTTTGTTGGC
* * * ** * *
1922076 AGATAGCCCTTCTTGCCTTGAG-T-TGCTGCAAATGATGTGCCTTTGAGCTGAATGGAATCGAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
*
1922139 TCGAAGGTC-TTTGTTGAC
66 TCGAAGGTCTTTTGTTGGC
* * * * *
1922157 AGATAACCCTTCTATCCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGCGTAGTCAAAT
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* * *
1922222 TCAAAGGTCTTTTGGTGGT
66 TCGAAGGTCTTTTGTTGGC
* * * ** *
1922241 AGATAGCCCTTCTAGCCTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCACAGTCAAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
*
1922306 TCGAAGGTCTTTAGTTGGC
66 TCGAAGGTCTTTTGTTGGC
* * *
1922325 AGATAA--CTTCTAGCCTTGAGTTATGCTACAAATGATGTGTGATGTGTCTTAGAGCTGAGCGTA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGC-AA--A----TGATGTGCCTTGGAGCTGAGCGTA
* *
1922388 GTCGAACTC-ACAGGTCTTTTGGTGGA
59 GTCGAACTCGA-AGGTCTTTTGTTGGC
* ** * * *
1922414 AGATAACCCTTTTAGCCTT-ATGTTATATTGTAAATTATGTGCCTTGGAGCTGAGCGTAATCGAA
1 AGATAACCCTTCTAGCCTTGA-GTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
*
1922478 CTCGAAGGT-TATTGGTTGGC
65 CTCGAAGGTCT-TTTGTTGGC
* * * *
1922498 AGATAACCCTTCTAGCCTTGAGTTATGCTCCAAATGATGTGTCTTGGAGCTGAGCATAGTCAAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* * * *
1922563 TCAAAGGTATTTTGGTGGT
66 TCGAAGGTCTTTTGTTGGC
* * * * * *
1922582 AGATAGCCCTTCTAGCCTTAAGTTATACTACAAATGATGCGCCTAGGAGCTGAGCGTAGTCGAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* *
1922647 TCGAAGGTTTTTTGGTGGC
66 TCGAAGGTCTTTTGTTGGC
** * ** * * *
1922666 AGATAACCCTTCTAGTGTTCAACTATGCTGCAAATGATATGCCTTGTAGCTGAGCGTAGTCAAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
1922731 TCGAAGGTCTTTTGTTGGC
66 TCGAAGGTCTTTTGTTGGC
* * * * * * * * *
1922750 AAATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATATTCCTTGGAGCTGAGCATGGTCGAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* *
1922815 TCGAATGTCTTTTGGTGGC
66 TCGAAGGTCTTTTGTTGGC
* * * * * *
1922834 AGATAGCCCTTTTAGCCTTGAGTTATGCTGCAAATGATATGCCTTAGAGTTGAGCATAGTCGAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* * * *
1922899 TCGAAAGTATTTAGTTGGT
66 TCGAAGGTCTTTTGTTGGC
* * * *
1922918 AGATAACCCTTCTAGTCTTGAGTTATACTCCAAATGATGTGTCTTGGAGCTGAGCGTAGTCGAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* *
1922983 TCGCAGGTCTTTTGGTGGC
66 TCGAAGGTCTTTTGTTGGC
* * * * * * * *
1923002 AGATAATCCTTCTAGACTTAAGCTATGCTGCAAATTATGTGCCTTGGAGCTTAGTGTAGTCGAAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
*
1923067 TCGAAGGTCTTTGGTTGGC
66 TCGAAGGTCTTTTGTTGGC
* *
1923086 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATCATATGCCTTGGAGCTGAGCGTAGTCGAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
*
1923151 TCAAAGGTCTTTT-TGTGGC
66 TCGAAGGTCTTTTGT-TGGC
* * * * * * * *
1923170 AGATAACCCTTCTAGCCTTAAGCTATGCTGTAATTGATGCGCCTTGGAGCTGAGCATAGTCAAAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* * * *
1923235 TCGAACGCCTTTTGGTGGT
66 TCGAAGGTCTTTTGTTGGC
* * * * * *
1923254 AGATAGCCCTTCTAGACTTGAGCTATGGTGCAAATGATATGCTTTGGAGCTGAGCGTAGTCGAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* * *
1923319 GCGAAGGACTTTTGTTGGA
66 TCGAAGGTCTTTTGTTGGC
* * * * * * * *
1923338 AAATAATCCTTCTTGCCTTGAGCTATGTTGTAAATGATATGCCTTGGAGCTGAGCGTAGTCAAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* *
1923403 TTGAAGGTCTTTTGGTGGC
66 TCGAAGGTCTTTTGTTGGC
* * * *
1923422 AGATAGCCCTTCTAGCCTTGAGTTATGCTGCAAATAATATGCCTTGGAGCTGACCGTAGTCGAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* *
1923487 TTGAAGGTCTTTGGTTGGC
66 TCGAAGGTCTTTTGTTGGC
*
1923506 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
*
1923571 TCAAAGGTCTTTT-TTGGC
66 TCGAAGGTCTTTTGTTGGC
* * * * *
1923589 AAATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
*
1923654 TCAAAGGTCTTTTGTTGGC
66 TCGAAGGTCTTTTGTTGGC
* * *
1923673 AAATAGCCCTTCTTGCCTTGAGTTATGCTGC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGC
1923704 CAATAATTTC
Statistics
Matches: 1570, Mismatches: 278, Indels: 60
0.82 0.15 0.03
Matches are distributed among these distances:
78 44 0.03
79 2 0.00
80 23 0.01
81 23 0.01
82 21 0.01
83 156 0.10
84 1129 0.72
85 42 0.03
86 62 0.04
87 1 0.00
88 2 0.00
89 46 0.03
90 3 0.00
91 16 0.01
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.33
Consensus pattern (84 bp):
AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
TCGAAGGTCTTTTGTTGGC
Found at i:1925073 original size:100 final size:99
Alignment explanation
Indices: 1924846--1925115 Score: 339
Period size: 100 Copynumber: 2.7 Consensus size: 99
1924836 GACTAGCTGG
* * * * **
1924846 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGAACAGCTCAATA-TCGTTGTATAGAT
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGATAACTCAAGATTTATTGTATAGAT
1924910 ATTATAATCACCTTTATCAGGCTAGCTGAAAATT
66 ATTATAATCACCTTTATCAGGCTAGCTGAAAATT
*
1924944 ATCCATAAAGCCGAGGCGTTTAACCAATTGCTCTAGAGGGATAACTCAAGATTTATTGTATAGAT
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGATAACTCAAGATTTATTGTATAGAT
* * **
1925009 ATTATAATCACCTTTATCATGCTTAGCTTAATCTT
66 ATTATAATCACCTTTATCAGGC-TAGCTGAAAATT
** * * * * *
1925044 ATCCATAAAGTTGGGGTGTTTAACCAATTG-TTTAAGAGGGATATCTCAAGCTTTATTGTATATA
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCT-AGAGGGATAACTCAAGATTTATTGTATAGA
1925108 TA-TATAAT
65 TATTATAAT
1925116 TATAATTTGG
Statistics
Matches: 150, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
98 46 0.31
99 40 0.27
100 64 0.43
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (99 bp):
ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGATAACTCAAGATTTATTGTATAGAT
ATTATAATCACCTTTATCAGGCTAGCTGAAAATT
Found at i:1928363 original size:20 final size:20
Alignment explanation
Indices: 1928338--1928381 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
1928328 TATTTAGGTA
1928338 GATCGGTCACCATCTTACCT
1 GATCGGTCACCATCTTACCT
1928358 GATCGGTCACCATCTTACCT
1 GATCGGTCACCATCTTACCT
1928378 GATC
1 GATC
1928382 AGCGTTTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.20, C:0.34, G:0.16, T:0.30
Consensus pattern (20 bp):
GATCGGTCACCATCTTACCT
Done.