Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 23 of 91
Found at i:4651668 original size:18 final size:18
Alignment explanation
Indices: 4651647--4651702 Score: 85
Period size: 18 Copynumber: 3.1 Consensus size: 18
4651637 ATGTTATTTA
* *
4651647 TATAATAATTATTATTAT
1 TATAATTATAATTATTAT
*
4651665 TATAATTATAATTATAAT
1 TATAATTATAATTATTAT
4651683 TATAATTATAATTATTAT
1 TATAATTATAATTATTAT
4651701 TA
1 TA
4651703 ATATATATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TATAATTATAATTATTAT
Found at i:4651720 original size:12 final size:12
Alignment explanation
Indices: 4651657--4651722 Score: 75
Period size: 12 Copynumber: 5.6 Consensus size: 12
4651647 TATAATAATT
4651657 ATTATTATTATA
1 ATTATTATTATA
*
4651669 ATTATAATTATA
1 ATTATTATTATA
*
4651681 ATTATAATTATA
1 ATTATTATTATA
4651693 ATTATTATTA-A
1 ATTATTATTATA
4651704 TATATATTATT-TA
1 -AT-TATTATTATA
4651717 A-TATTA
1 ATTATTA
4651723 CAAAACCCAA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
10 5 0.10
11 1 0.02
12 35 0.71
13 8 0.16
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTATTATTATA
Found at i:4653832 original size:28 final size:27
Alignment explanation
Indices: 4653801--4653853 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
4653791 AATTCTTTCC
* *
4653801 TTTCAAAATTTTTATATTTATTCATTAT
1 TTTCAAAATATTTATATGT-TTCATTAT
*
4653829 TTTCATAATATTTATATGTTTCATT
1 TTTCAAAATATTTATATGTTTCATT
4653854 TTATTTGCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 6 0.27
28 16 0.73
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (27 bp):
TTTCAAAATATTTATATGTTTCATTAT
Found at i:4657112 original size:15 final size:15
Alignment explanation
Indices: 4657094--4657125 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4657084 ATCAATACTT
4657094 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
4657109 TTTTGCATACATTCA
1 TTTTGCATACATGCA
4657124 TT
1 TT
4657126 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:4664404 original size:1 final size:1
Alignment explanation
Indices: 4664389--4664483 Score: 64
Period size: 1 Copynumber: 95.0 Consensus size: 1
4664379 GCTTGAAGAG
* * * * * * * * *
4664389 AAAAAGAAAAGAAAAAAAAAAGAGAAAAAGAAAAAAAAGAAAAAAAAAGAGAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * *
4664454 AGAAAAAAAAGAGAAAAAAGAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4664484 GGGGGGGGGT
Statistics
Matches: 66, Mismatches: 28, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (1 bp):
A
Found at i:4664416 original size:18 final size:18
Alignment explanation
Indices: 4664395--4664484 Score: 110
Period size: 18 Copynumber: 4.9 Consensus size: 18
4664385 AGAGAAAAAG
4664395 AAAAGAAAAAAAAAAGAGA
1 AAAAGAAAAAAAAAAGA-A
*
4664414 AAAAGAAAAAAAAGAAAAA
1 AAAAGAAAAAAAA-AAGAA
*
4664433 AAAAGAGAAAAAGAAA-AA
1 AAAAGA-AAAAAAAAAGAA
*
4664451 AAAAGAAAAAAAAGAGAA
1 AAAAGAAAAAAAAAAGAA
*
4664469 AAAAGAAGAAAAAAAG
1 AAAAGAAAAAAAAAAG
4664485 GGGGGGGGTC
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
17 7 0.11
18 24 0.39
19 22 0.35
20 9 0.15
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAAAAAAAGAA
Found at i:4664435 original size:28 final size:28
Alignment explanation
Indices: 4664390--4664482 Score: 136
Period size: 27 Copynumber: 3.3 Consensus size: 28
4664380 CTTGAAGAGA
4664390 AAAAGAAAAGAAAAAAAAAAGAGAAAAAG
1 AAAA-AAAAGAAAAAAAAAAGAGAAAAAG
4664419 AAAAAAAAG-AAAAAAAAAGAGAAAAAG
1 AAAAAAAAGAAAAAAAAAAGAGAAAAAG
*
4664446 AAAAAAAA-AGAAAAAAAAGAGAAAAAAG
1 AAAAAAAAGAAAAAAAAAAGAG-AAAAAG
4664474 AAGAAAAAA
1 AA-AAAAAA
4664483 AGGGGGGGGG
Statistics
Matches: 60, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
27 37 0.62
28 13 0.22
29 10 0.17
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (28 bp):
AAAAAAAAGAAAAAAAAAAGAGAAAAAG
Found at i:4665989 original size:83 final size:83
Alignment explanation
Indices: 4665840--4666394 Score: 894
Period size: 83 Copynumber: 6.7 Consensus size: 83
4665830 GAACAAATGC
* *
4665840 AATGTACTCATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
**
4665905 CATTGAATTTGGGAGATG
66 CATTGAATTTGAAAGATG
* * * * *
4665923 AATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCAGGTTTGGCAGAACAAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
* * *
4665988 CATTGAAATTGGAAGAGG
66 CATTGAATTTGAAAGATG
* *
4666006 AATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAGT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
*
4666071 TATTGAATTTGAAAGATG
66 CATTGAATTTGAAAGATG
**
4666089 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCGGT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
* *
4666154 TATTGAATTTGAAAGAGG
66 CATTGAATTTGAAAGATG
*
4666172 AATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
*
4666237 CATTGAATTTGGAAGATG
66 CATTGAATTTGAAAGATG
* * *
4666255 AATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
4666320 CATTGAATTTGAAAGATG
66 CATTGAATTTGAAAGATG
4666338 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA
4666395 TGAACCCCAA
Statistics
Matches: 435, Mismatches: 37, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 435 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (83 bp):
AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
CATTGAATTTGAAAGATG
Found at i:4667438 original size:113 final size:113
Alignment explanation
Indices: 4667235--4667753 Score: 716
Period size: 113 Copynumber: 4.6 Consensus size: 113
4667225 GCAAAGATTT
* *
4667235 AAATCCATCA-TTCAATGGATCAACTTTTCCAATTCGAGTTCATAATGAGAAAAACTCATCTGAA
1 AAATCCATCACTT-GATGGATCAACTTTTCCAGTTCGAGTTCATAATGAGAAAAACTCATCTGAA
* *
4667299 GAAGGAAGAAGAAGTTCATAAAGAGAAGAATTTGTTCAACCTTTTGCTC
65 GAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
*
4667348 AAATCCATCACTTGATGGATCAACTTTTCCAGTTCGAGTTCATAATGAGAAAAACTCATTTGAAG
1 AAATCCATCACTTGATGGATCAACTTTTCCAGTTCGAGTTCATAATGAGAAAAACTCATCTGAAG
4667413 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
66 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * *
4667461 AAATCCATCACTTGATGGATTAACTTTTCCAGTTCGAGTTCATAATGGGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAACTTTTCCAGTTCGAGTTCATAATGAGAAAAACTCATCTGAAG
4667526 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
66 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * * **** *
4667574 AAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAACTTTTCCAGTTCGAGTTCATAATGAGAAAAACTCATCTGAAG
* * * * * *
4667639 AAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTTAACCCTTTGCTT
66 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * * **** **** *
4667687 GAATTCATCATTTGATGGATCAACAGCGCCAAAGAGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAACTTTTCCAGTTCGAGTTCATAATGAGAAAAACTCATCTGAAG
4667752 AA
66 AA
4667754 CTTGTTTAAC
Statistics
Matches: 373, Mismatches: 32, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
113 371 0.99
114 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (113 bp):
AAATCCATCACTTGATGGATCAACTTTTCCAGTTCGAGTTCATAATGAGAAAAACTCATCTGAAG
AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
Found at i:4667794 original size:87 final size:86
Alignment explanation
Indices: 4667662--4667840 Score: 234
Period size: 87 Copynumber: 2.1 Consensus size: 86
4667652 TTCATAATAA
* * * * *
4667662 GAAGAACTTGTTTAACCCTTTGCTTGAATTCATCATTTGATGGATCAACAGCGCCAAAGAGAGTT
1 GAAGAACTTGTTTAACCCTTTGCTTAAATTCATCACTTAATGGATCAACAGCGACAAAGAAAGTT
4667727 CATAATGAGAAGAACTCATCT
66 CATAATGAGAAGAACTCATCT
**** *
4667748 GAAGAACTTGTTTAACCCTTTTG-TTCAAATTCATCACTTAATGGATCAACCTTTACAGAGAAAG
1 GAAGAACTTGTTTAACCC-TTTGCTT-AAATTCATCACTTAATGGATCAACAGCGACAAAGAAAG
*
4667812 TTCATAATGAGAAGAACTCATTT
64 TTCATAATGAGAAGAACTCATCT
4667835 GAAGAA
1 GAAGAA
4667841 AAGAAAGTTC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
86 20 0.25
87 60 0.75
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (86 bp):
GAAGAACTTGTTTAACCCTTTGCTTAAATTCATCACTTAATGGATCAACAGCGACAAAGAAAGTT
CATAATGAGAAGAACTCATCT
Found at i:4668119 original size:3 final size:3
Alignment explanation
Indices: 4668111--4668145 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
4668101 TGTTATTTAT
* *
4668111 ATA ATA ATA ATA ATA ATT ATA ATT ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
4668146 TATTATTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
ATA
Found at i:4668133 original size:18 final size:18
Alignment explanation
Indices: 4668110--4668148 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
4668100 ATGTTATTTA
4668110 TATAATAATAATAATAAT
1 TATAATAATAATAATAAT
*
4668128 TATAATTATAATAATAAT
1 TATAATAATAATAATAAT
4668146 TAT
1 TAT
4668149 TATTATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TATAATAATAATAATAAT
Found at i:4670807 original size:36 final size:37
Alignment explanation
Indices: 4670736--4670820 Score: 120
Period size: 37 Copynumber: 2.3 Consensus size: 37
4670726 ATCCCATTAT
*
4670736 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATCTACCAAACTTTGAAAAAC
* *
4670772 TATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
1 CATTTTTCAAAGAAACATCTACCAAACTTTGAAAAAC
4670808 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
4670821 TTGGTTACCA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 13 0.30
37 30 0.70
ACGTcount: A:0.42, C:0.20, G:0.05, T:0.33
Consensus pattern (37 bp):
CATTTTTCAAAGAAACATCTACCAAACTTTGAAAAAC
Found at i:4671934 original size:15 final size:15
Alignment explanation
Indices: 4671914--4671972 Score: 109
Period size: 15 Copynumber: 3.9 Consensus size: 15
4671904 TGAGTCATTA
4671914 CCCGCTCCGCATCCT
1 CCCGCTCCGCATCCT
4671929 CCCGCTCCGCATCCT
1 CCCGCTCCGCATCCT
*
4671944 CCCGCTCCGCATCCG
1 CCCGCTCCGCATCCT
4671959 CCCGCTCCGCATCC
1 CCCGCTCCGCATCC
4671973 GTCTGCCCAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.07, C:0.61, G:0.15, T:0.17
Consensus pattern (15 bp):
CCCGCTCCGCATCCT
Found at i:4680288 original size:21 final size:21
Alignment explanation
Indices: 4680264--4680317 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
4680254 AACAAATGGG
*
4680264 TAGTATTGGTACAACTGGCTA
1 TAGTATCGGTACAACTGGCTA
*
4680285 TAGTATCGGTACAATTGGCTA
1 TAGTATCGGTACAACTGGCTA
*
4680306 TGGTATCGGTAC
1 TAGTATCGGTAC
4680318 TACTATATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (21 bp):
TAGTATCGGTACAACTGGCTA
Found at i:4680590 original size:18 final size:18
Alignment explanation
Indices: 4680567--4680604 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4680557 GTGATATTTG
* *
4680567 AATATTTGAATCGAATAT
1 AATATTTAAATCAAATAT
4680585 AATATTTAAATCAAATAT
1 AATATTTAAATCAAATAT
4680603 AA
1 AA
4680605 AATGTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (18 bp):
AATATTTAAATCAAATAT
Found at i:4690418 original size:2 final size:2
Alignment explanation
Indices: 4690411--4690438 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4690401 CCTATTCTGT
4690411 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
4690439 CACATACATA
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):
TA
Found at i:4691624 original size:2 final size:2
Alignment explanation
Indices: 4691619--4691654 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4691609 ACTATATAAC
4691619 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4691655 GGCCGACCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4691746 original size:40 final size:40
Alignment explanation
Indices: 4691676--4691759 Score: 107
Period size: 41 Copynumber: 2.1 Consensus size: 40
4691666 CAGGCTTATA
* * * * *
4691676 AGGCTTTTTAATAAGTCTAAGCATGTTCTATTTAATTTAAT
1 AGGCTTTTAAAAAAGCCTAAGCATGATCTATTT-ATTAAAT
4691717 AGGCTTTTAAAAAAGCCTAAGC-TGATCTATTTATTAAAT
1 AGGCTTTTAAAAAAGCCTAAGCATGATCTATTTATTAAAT
4691756 AGGC
1 AGGC
4691760 CAGTCCAGGC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
39 10 0.26
40 9 0.24
41 19 0.50
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (40 bp):
AGGCTTTTAAAAAAGCCTAAGCATGATCTATTTATTAAAT
Found at i:4693566 original size:25 final size:27
Alignment explanation
Indices: 4693536--4693585 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
4693526 TTAAGTGTAG
*
4693536 TTTTTGCATTGTTTTA-TT-TTATTAA
1 TTTTTGCATAGTTTTACTTGTTATTAA
*
4693561 TTTTTGTATAGTTTTACTTGTTATT
1 TTTTTGCATAGTTTTACTTGTTATT
4693586 TTCATCAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 14 0.67
26 2 0.10
27 5 0.24
ACGTcount: A:0.18, C:0.04, G:0.10, T:0.68
Consensus pattern (27 bp):
TTTTTGCATAGTTTTACTTGTTATTAA
Found at i:4698486 original size:18 final size:18
Alignment explanation
Indices: 4698463--4698500 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
4698453 GAGAGGTTAA
4698463 TCTCAACACCCATTATTG
1 TCTCAACACCCATTATTG
4698481 TCTCAACACCCATTATTG
1 TCTCAACACCCATTATTG
4698499 TC
1 TC
4698501 CCACCAGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.34, G:0.05, T:0.34
Consensus pattern (18 bp):
TCTCAACACCCATTATTG
Found at i:4706567 original size:54 final size:54
Alignment explanation
Indices: 4706453--4706570 Score: 128
Period size: 54 Copynumber: 2.2 Consensus size: 54
4706443 ATTGCACCAA
* * *
4706453 AGTGCCGAAATGAAAATTCACAAACTCATTATGAATTCCATGGATTGCACAGAT
1 AGTGCCGAAATGAAAATTCACAAACACATTATGAATACCATGGATTACACAGAT
* *** * * * **
4706507 AATGCCGAAATGGTTATTCATAAACACATTTTGAATACCATGGCTTACACATTT
1 AGTGCCGAAATGAAAATTCACAAACACATTATGAATACCATGGATTACACAGAT
4706561 AGTGCCGAAA
1 AGTGCCGAAA
4706571 ATGCACTGTT
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (54 bp):
AGTGCCGAAATGAAAATTCACAAACACATTATGAATACCATGGATTACACAGAT
Found at i:4707188 original size:20 final size:21
Alignment explanation
Indices: 4707160--4707211 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 21
4707150 ATTCCAGGCT
* * *
4707160 CTATAGTATCAGTAC-CTCTA
1 CTATGGTATCACTACTCTATA
4707180 CTATGGTATCACTACTTCTATA
1 CTATGGTATCACTAC-TCTATA
4707202 CTATGGTATC
1 CTATGGTATC
4707212 GATACTCCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 13 0.48
22 14 0.52
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (21 bp):
CTATGGTATCACTACTCTATA
Found at i:4709373 original size:20 final size:21
Alignment explanation
Indices: 4709347--4709405 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
4709337 TCAAGAATAT
*
4709347 AAAGTTTGAAAATTTTCC-T-
1 AAAGTTTGAAAACTTTCCATG
*
4709366 AGAAGTTTGGAAACTTTCCATG
1 A-AAGTTTGAAAACTTTCCATG
*
4709388 AAAGTTTGAAATCTTTCC
1 AAAGTTTGAAAACTTTCC
4709406 CATAATTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 15 0.45
21 16 0.48
22 1 0.03
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (21 bp):
AAAGTTTGAAAACTTTCCATG
Found at i:4709392 original size:21 final size:19
Alignment explanation
Indices: 4709346--4709405 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 19
4709336 TTCAAGAATA
* *
4709346 TAAAGTTTGAAAATTTTCC
1 TAAAGTTTGGAAACTTTCC
4709365 TAGAAGTTTGGAAACTTTCC
1 TA-AAGTTTGGAAACTTTCC
4709385 ATGAAAGTTT-GAAATCTTTCC
1 -T-AAAGTTTGGAAA-CTTTCC
4709406 CATAATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 2 0.06
20 19 0.54
21 13 0.37
22 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (19 bp):
TAAAGTTTGGAAACTTTCC
Found at i:4711620 original size:35 final size:33
Alignment explanation
Indices: 4711557--4711629 Score: 92
Period size: 35 Copynumber: 2.2 Consensus size: 33
4711547 CCTTACAAAC
* *
4711557 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTTT
1 TCCCTAGTTTTACCGGGATAAACTAGAACCTTT
*
4711590 TCCCTAGCTTTTACACGGGATAAGCTAGAACCTTT
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAACCTTT
*
4711625 CCCCT
1 TCCCT
4711630 TTACAAAAGG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 7 0.21
34 5 0.15
35 22 0.65
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (33 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACCTTT
Found at i:4711939 original size:21 final size:21
Alignment explanation
Indices: 4711913--4711954 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
4711903 CCAGAATGGG
*
4711913 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
4711934 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
4711955 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:4712107 original size:34 final size:36
Alignment explanation
Indices: 4712067--4712152 Score: 140
Period size: 34 Copynumber: 2.4 Consensus size: 36
4712057 AAATCATGCA
4712067 GGGGGAATCTGTACCCGGGGAATCGATA-CCCCT-G
1 GGGGGAATCTGTACCCGGGGAATCGATACCCCCTGG
* *
4712101 GGGGGAATCTGTTCCTGGGGAATCGATACCCCCTGG
1 GGGGGAATCTGTACCCGGGGAATCGATACCCCCTGG
4712137 GGGGGAATCTGTACCC
1 GGGGGAATCTGTACCC
4712153 CCTGGACAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
34 26 0.57
35 5 0.11
36 15 0.33
ACGTcount: A:0.19, C:0.26, G:0.36, T:0.20
Consensus pattern (36 bp):
GGGGGAATCTGTACCCGGGGAATCGATACCCCCTGG
Found at i:4712143 original size:21 final size:21
Alignment explanation
Indices: 4712117--4712157 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4712107 ATCTGTTCCT
4712117 GGGGAATC-GATACCCCCTGGG
1 GGGGAATCTG-TACCCCCTGGG
4712138 GGGGAATCTGTACCCCCTGG
1 GGGGAATCTGTACCCCCTGG
4712158 ACAATCTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.17, C:0.29, G:0.37, T:0.17
Consensus pattern (21 bp):
GGGGAATCTGTACCCCCTGGG
Found at i:4713646 original size:19 final size:20
Alignment explanation
Indices: 4713603--4713650 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
4713593 TCTAAATCCT
*
4713603 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
4713623 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
4713642 TTTTCAAAA
1 TTTTCAAAA
4713651 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:4714889 original size:21 final size:21
Alignment explanation
Indices: 4714865--4714906 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4714855 CCAGAATGGG
* *
4714865 GGGAATCGGTACCTCTTCATA
1 GGGAATCGATACCCCTTCATA
4714886 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
4714907 ATATTCCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:4715040 original size:15 final size:15
Alignment explanation
Indices: 4715020--4715075 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
4715010 AATCATGCAG
4715020 GGGGAATCTGTACCC
1 GGGGAATCTGTACCC
4715035 GGGGAATC-GATACCCC
1 GGGGAATCTG-TA-CCC
* *
4715051 TGGGGGAATTTGTTCCC
1 --GGGGAATCTGTACCC
4715068 GGGGAATC
1 GGGGAATC
4715076 GATACCCCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
14 1 0.03
15 17 0.52
16 3 0.09
17 3 0.09
18 8 0.24
19 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.36, T:0.21
Consensus pattern (15 bp):
GGGGAATCTGTACCC
Found at i:4715090 original size:34 final size:33
Alignment explanation
Indices: 4715019--4715101 Score: 139
Period size: 33 Copynumber: 2.5 Consensus size: 33
4715009 AAATCATGCA
*
4715019 GGGGGAATCTGTACCCGGGGAATCGATACCCCT
1 GGGGGAATCTGTTCCCGGGGAATCGATACCCCT
*
4715052 GGGGGAATTTGTTCCCGGGGAATCGATACCCCCT
1 GGGGGAATCTGTTCCCGGGGAATCGATA-CCCCT
4715086 GGGGGAATCTGTTCCC
1 GGGGGAATCTGTTCCC
4715102 CCTTGGGGGG
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 26 0.57
34 20 0.43
ACGTcount: A:0.18, C:0.27, G:0.34, T:0.22
Consensus pattern (33 bp):
GGGGGAATCTGTTCCCGGGGAATCGATACCCCT
Found at i:4715102 original size:19 final size:19
Alignment explanation
Indices: 4715047--4715118 Score: 64
Period size: 19 Copynumber: 3.9 Consensus size: 19
4715037 GGAATCGATA
*
4715047 CCCCTGGGGGAATTTGTT-
1 CCCCTGGGGGAATCTGTTC
*
4715065 -CCC--GGGGAATC-GATAC
1 CCCCTGGGGGAATCTG-TTC
4715081 CCCCTGGGGGAATCTGTTC
1 CCCCTGGGGGAATCTGTTC
4715100 CCCCTTGGGGGGAATCTGT
1 CCCC-T-GGGGGAATCTGT
4715119 ACCCTCTGGA
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
14 1 0.02
15 8 0.19
17 6 0.14
19 14 0.33
20 2 0.05
21 12 0.28
ACGTcount: A:0.14, C:0.28, G:0.33, T:0.25
Consensus pattern (19 bp):
CCCCTGGGGGAATCTGTTC
Found at i:4715108 original size:20 final size:20
Alignment explanation
Indices: 4715080--4715118 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
4715070 GGAATCGATA
4715080 CCCCCT-GGGGGAATCTGTT
1 CCCCCTGGGGGGAATCTGTT
4715099 CCCCCTTGGGGGGAATCTGT
1 CCCCC-TGGGGGGAATCTGT
4715119 ACCCTCTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 1 0.06
21 12 0.67
ACGTcount: A:0.10, C:0.31, G:0.33, T:0.26
Consensus pattern (20 bp):
CCCCCTGGGGGGAATCTGTT
Found at i:4716304 original size:3 final size:3
Alignment explanation
Indices: 4716296--4716324 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4716286 TTTATTTTAC
4716296 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
4716325 ACGTGGGTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:4717458 original size:44 final size:44
Alignment explanation
Indices: 4717408--4717632 Score: 362
Period size: 44 Copynumber: 5.1 Consensus size: 44
4717398 AAAACGAATT
*
4717408 ATAAATGAAATGCATAACGGTGCATTAAGGCATGAAATGATGCC
1 ATAAATGAAATGCATAACGGTGCATTAAGGCATGAAAGGATGCC
*
4717452 ATAAATG-AATGCATAACGGTGCATTAAGGCATGAAAGGATGTC
1 ATAAATGAAATGCATAACGGTGCATTAAGGCATGAAAGGATGCC
* *
4717495 ATAAATGAAATGCATAATGGTGCATTAAGGCATGAAATGATGCC
1 ATAAATGAAATGCATAACGGTGCATTAAGGCATGAAAGGATGCC
* *
4717539 ATAAATGAAATGCATAACAGTGCAATAAGGCATGAAAGGATGCC
1 ATAAATGAAATGCATAACGGTGCATTAAGGCATGAAAGGATGCC
** *
4717583 ATAAACAAAATGCATAATGGTGCATTAAGGCATGAAAGGATGCC
1 ATAAATGAAATGCATAACGGTGCATTAAGGCATGAAAGGATGCC
4717627 ATAAAT
1 ATAAAT
4717633 AAAAATAATG
Statistics
Matches: 165, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
43 41 0.25
44 124 0.75
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.22
Consensus pattern (44 bp):
ATAAATGAAATGCATAACGGTGCATTAAGGCATGAAAGGATGCC
Found at i:4720458 original size:22 final size:22
Alignment explanation
Indices: 4720411--4720460 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
4720401 ATCATTACAT
* * * *
4720411 ATGATGTTTATCATGAATATAT
1 ATGATATTTATCATGAAAACAC
4720433 ATGATATTTATCATGAAAACAC
1 ATGATATTTATCATGAAAACAC
4720455 ATGATA
1 ATGATA
4720461 CTCGAGTCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (22 bp):
ATGATATTTATCATGAAAACAC
Found at i:4720726 original size:29 final size:29
Alignment explanation
Indices: 4720694--4720751 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
4720684 CTCATGGCAT
4720694 GCCAATTGTACCACTAACACTCAAGTCAC
1 GCCAATTGTACCACTAACACTCAAGTCAC
4720723 GCCAATTGTACCACTAACACTCAAGTCAC
1 GCCAATTGTACCACTAACACTCAAGTCAC
4720752 ATAAATTGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.34, G:0.10, T:0.21
Consensus pattern (29 bp):
GCCAATTGTACCACTAACACTCAAGTCAC
Found at i:4720758 original size:29 final size:29
Alignment explanation
Indices: 4720697--4720759 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
4720687 ATGGCATGCC
* *
4720697 AATTGTACCACTAACACTCAAGTCACGCC
1 AATTGTACCACTAACACTCAAGTCACACA
*
4720726 AATTGTACCACTAACACTCAAGTCACATA
1 AATTGTACCACTAACACTCAAGTCACACA
4720755 AATTG
1 AATTG
4720760 GGCTCTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.24
Consensus pattern (29 bp):
AATTGTACCACTAACACTCAAGTCACACA
Found at i:4722517 original size:16 final size:16
Alignment explanation
Indices: 4722498--4722532 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4722488 GAAAAAGTCG
4722498 GATATCCGAAAATTCA
1 GATATCCGAAAATTCA
* *
4722514 GATATCTGAAATTTCA
1 GATATCCGAAAATTCA
4722530 GAT
1 GAT
4722533 CGGATATCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (16 bp):
GATATCCGAAAATTCA
Found at i:4723307 original size:27 final size:27
Alignment explanation
Indices: 4723277--4723340 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
4723267 GATTTTTTTC
4723277 GGGTTGATTAAGAAGAGAAACAACTCT
1 GGGTTGATTAAGAAGAGAAACAACTCT
**
4723304 GGGTTGATTAAGAAGAGAAACAGTTCT
1 GGGTTGATTAAGAAGAGAAACAACTCT
*
4723331 GGGTCGATTA
1 GGGTTGATTA
4723341 TAGCCCATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.36, C:0.09, G:0.30, T:0.25
Consensus pattern (27 bp):
GGGTTGATTAAGAAGAGAAACAACTCT
Found at i:4735245 original size:22 final size:19
Alignment explanation
Indices: 4735194--4735251 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 19
4735184 GAATGCTCGG
4735194 ATGGTACCGATA-CCCCCA
1 ATGGTACCGATACCCCCCA
*
4735212 ATAGGTATCGATACCCCCATGCA
1 AT-GGTACCGATACCCCC---CA
4735235 ATGGTACCGATACCCCC
1 ATGGTACCGATACCCCC
4735252 TTAGGAGGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 2 0.06
19 9 0.27
20 4 0.12
22 14 0.42
23 4 0.12
ACGTcount: A:0.28, C:0.36, G:0.17, T:0.19
Consensus pattern (19 bp):
ATGGTACCGATACCCCCCA
Found at i:4741058 original size:42 final size:43
Alignment explanation
Indices: 4740989--4741087 Score: 130
Period size: 42 Copynumber: 2.3 Consensus size: 43
4740979 CCCTAACACA
* *
4740989 GGTATCGATACCCCCTGTTAATAGGTATCGATACCCCCAT-TG
1 GGTATCGATACCCTCTGTTAATAGGTATCGATACCCCCATGAG
* * *
4741031 GGTACCGATACCCTCT-TTGAATGGGTATCGATACCCCCCTGAG
1 GGTATCGATACCCTCTGTT-AATAGGTATCGATACCCCCATGAG
4741074 GGTATCGATACCCT
1 GGTATCGATACCCT
4741088 TCATGGGGTC
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
41 2 0.04
42 33 0.67
43 14 0.29
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.27
Consensus pattern (43 bp):
GGTATCGATACCCTCTGTTAATAGGTATCGATACCCCCATGAG
Found at i:4741062 original size:23 final size:22
Alignment explanation
Indices: 4740989--4741086 Score: 73
Period size: 23 Copynumber: 4.6 Consensus size: 22
4740979 CCCTAACACA
*
4740989 GGTATCGATACCCCCTGTT-AATA
1 GGTATCGATA-CCCCT-TTGAATG
* *
4741012 GGTATCGATACCCC---CATTG
1 GGTATCGATACCCCTTTGAATG
*
4741031 GGTACCGATACCCTCTTTGAATG
1 GGTATCGATACCC-CTTTGAATG
**
4741054 GGTATCGATACCCCCCTG-A-G
1 GGTATCGATACCCCTTTGAATG
4741074 GGTATCGATACCC
1 GGTATCGATACCC
4741087 TTCATGGGGT
Statistics
Matches: 62, Mismatches: 8, Indels: 13
0.75 0.10 0.16
Matches are distributed among these distances:
19 14 0.23
20 15 0.24
21 1 0.02
22 7 0.11
23 25 0.40
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (22 bp):
GGTATCGATACCCCTTTGAATG
Found at i:4741096 original size:20 final size:20
Alignment explanation
Indices: 4741012--4741086 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 20
4741002 CCTGTTAATA
*
4741012 GGTATCGATACCCCCAT-TG
1 GGTATCGATACCCCCATGAG
* **
4741031 GGTACCGATACCCTCTTTGAATG
1 GGTATCGATACCC-CCATG-A-G
*
4741054 GGTATCGATACCCCCCTGAG
1 GGTATCGATACCCCCATGAG
4741074 GGTATCGATACCC
1 GGTATCGATACCC
4741087 TTCATGGGGT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
19 12 0.27
20 16 0.36
21 1 0.02
22 3 0.07
23 13 0.29
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.25
Consensus pattern (20 bp):
GGTATCGATACCCCCATGAG
Found at i:4745163 original size:69 final size:69
Alignment explanation
Indices: 4745043--4745244 Score: 368
Period size: 69 Copynumber: 2.9 Consensus size: 69
4745033 TTATCGATAG
*
4745043 ATCAAATAGTCACTTTAAACTTTTATTTTTTTGATGAATTTTAACTCTACGTTTTATTTTGAGAC
1 ATCAAATAGTCACTTTTAACTTTTA-TTTTTTGATGAATTTTAACTCTACGTTTTATTTTGAGAC
4745108 AATCA
65 AATCA
*
4745113 ATCAAATAGTCATTTTTAACTTTTATTTTTTGATGAATTTTAACTCTACGTTTTATTTTGAGACA
1 ATCAAATAGTCACTTTTAACTTTTATTTTTTGATGAATTTTAACTCTACGTTTTATTTTGAGACA
4745178 ATCA
66 ATCA
*
4745182 ATCAAATAGTCACTTTTAACTTTTATTTTTTGATGAATTTTAACTCTACGTTATATTTTGAGA
1 ATCAAATAGTCACTTTTAACTTTTATTTTTTGATGAATTTTAACTCTACGTTTTATTTTGAGA
4745245 TAAAAAACTC
Statistics
Matches: 128, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
69 105 0.82
70 23 0.18
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.49
Consensus pattern (69 bp):
ATCAAATAGTCACTTTTAACTTTTATTTTTTGATGAATTTTAACTCTACGTTTTATTTTGAGACA
ATCA
Found at i:4745534 original size:16 final size:16
Alignment explanation
Indices: 4745513--4745545 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4745503 GCTGGAAAGC
4745513 TCCATTTACCTGTAAT
1 TCCATTTACCTGTAAT
*
4745529 TCCATTTACCTTTAAT
1 TCCATTTACCTGTAAT
4745545 T
1 T
4745546 AGGCTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.03, T:0.48
Consensus pattern (16 bp):
TCCATTTACCTGTAAT
Found at i:4753320 original size:21 final size:19
Alignment explanation
Indices: 4753289--4753332 Score: 61
Period size: 21 Copynumber: 2.2 Consensus size: 19
4753279 GGGGAAATCA
4753289 GATGAATAGTATCAATATT
1 GATGAATAGTATCAATATT
*
4753308 GATGCAATAAGTATCGATATT
1 GATG-AAT-AGTATCAATATT
4753329 GATG
1 GATG
4753333 TGGGTATCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.18
20 3 0.14
21 15 0.68
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.34
Consensus pattern (19 bp):
GATGAATAGTATCAATATT
Found at i:4753866 original size:55 final size:55
Alignment explanation
Indices: 4753782--4754015 Score: 378
Period size: 55 Copynumber: 4.3 Consensus size: 55
4753772 TACCGAATGA
*
4753782 CACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGG
1 CACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
*
4753837 CACTGTGTGTGCAAAATTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
1 CACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
* *
4753892 CACTGTGTGTGCAAAACTAAGAAATTTATAATAAGTTTATGAATTTCCGTATGGA
1 CACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
* * * ***
4753947 CACTATGTGTGCAAAACTAAGAAATTCATAATAAATTTATGAATTTTCGTATAAT
1 CACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
4754002 CACTGTGTGTGCAA
1 CACTGTGTGTGCAA
4754016 CCCACGGAAT
Statistics
Matches: 166, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 166 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.35
Consensus pattern (55 bp):
CACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
Found at i:4754053 original size:54 final size:54
Alignment explanation
Indices: 4754007--4754123 Score: 162
Period size: 54 Copynumber: 2.2 Consensus size: 54
4753997 ATAATCACTG
* * *
4754007 TGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACAGTATATGCAATA
1 TGTGTGCAACCCACGCAATTCATCATATATTGATAAACAACAGTATATGCAATA
* ** *
4754061 TGTGTGCAACCCATGCAATTCATCATATATTGATAAACAATTGTATATGCACTA
1 TGTGTGCAACCCACGCAATTCATCATATATTGATAAACAACAGTATATGCAATA
*
4754115 AGTGTGCAA
1 TGTGTGCAA
4754124 ACTCTTTTCA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (54 bp):
TGTGTGCAACCCACGCAATTCATCATATATTGATAAACAACAGTATATGCAATA
Found at i:4754267 original size:49 final size:49
Alignment explanation
Indices: 4754133--4754278 Score: 186
Period size: 49 Copynumber: 3.0 Consensus size: 49
4754123 AACTCTTTTC
* *
4754133 AATGCCTAACGGAGCATTTTTGGCAGAAAGGTGTCACTAATGCAAGTTA
1 AATGCCTAACGGTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTA
* ** * * * * *
4754182 GATG-AAAATGATGCATTATTGGCCGAAAGGTTCCACTAATGCAAGTTA
1 AATGCCTAACGGTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTA
*
4754230 AATGCCTAACGGTGCATTTTTGGCAGAAATGTGCCACTAATGCAAGTTA
1 AATGCCTAACGGTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTA
4754279 GATGAAGAAC
Statistics
Matches: 77, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
48 38 0.49
49 39 0.51
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.27
Consensus pattern (49 bp):
AATGCCTAACGGTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTA
Found at i:4756743 original size:14 final size:14
Alignment explanation
Indices: 4756721--4756757 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
4756711 AAAAGGAAAA
*
4756721 AATATAGGCTCAAT
1 AATAAAGGCTCAAT
4756735 AATAAAGGCTCAAT
1 AATAAAGGCTCAAT
4756749 AATAAAGGC
1 AATAAAGGC
4756758 AACCGATGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.22
Consensus pattern (14 bp):
AATAAAGGCTCAAT
Found at i:4757758 original size:17 final size:17
Alignment explanation
Indices: 4757729--4757777 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
4757719 ACCTAAAAAT
4757729 ATAAAGAAAAATAAATA-
1 ATAAAG-AAAATAAATAC
4757746 ATCAAAGAAAATAAATAC
1 AT-AAAGAAAATAAATAC
*
4757764 ATAAATAAAATAAA
1 ATAAAGAAAATAAA
4757778 AAATAAGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 23 0.79
18 6 0.21
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.18
Consensus pattern (17 bp):
ATAAAGAAAATAAATAC
Found at i:4765825 original size:16 final size:16
Alignment explanation
Indices: 4765804--4765841 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
4765794 AGGTTTCAGA
4765804 TTCAGATTCCAATTCC
1 TTCAGATTCCAATTCC
4765820 TTCAGATTCCAATTCC
1 TTCAGATTCCAATTCC
*
4765836 ATCAGA
1 TTCAGA
4765842 AATATTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (16 bp):
TTCAGATTCCAATTCC
Found at i:4766085 original size:54 final size:54
Alignment explanation
Indices: 4765867--4766071 Score: 358
Period size: 54 Copynumber: 3.8 Consensus size: 54
4765857 CAAATGCCAC
* *
4765867 CTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACTATTTCGACA
1 CTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCATTTCGACA
*
4765921 CTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGACA
1 CTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCATTTCGACA
4765975 CTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCATTTC-AGCA
1 CTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCATTTCGA-CA
*
4766029 CTAAGTGTGCATTTCAAGAAATTCATCCTATGTGGATGAATAA
1 CTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAA
4766072 TCGTTTCTGC
Statistics
Matches: 145, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
53 1 0.01
54 144 0.99
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (54 bp):
CTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCATTTCGACA
Found at i:4766106 original size:108 final size:108
Alignment explanation
Indices: 4765882--4766108 Score: 325
Period size: 108 Copynumber: 2.1 Consensus size: 108
4765872 TGTGCATTTC
* *
4765882 ACGGAATTCATCCTATGTGGATGAATAACTATTTCGACACTAAGTGTGCATTTCACGAAATTCAT
1 ACGGAATTCATCCTATGTGGATGAATAACCATTTCGACACTAAGTGTGCATTTCAAGAAATTCAT
* ****
4765947 CCTATGTGGATGAATAACCGTTTCGACACTAAGTGTGCATTTC
66 CCTATGTGGATGAATAACCGTTTCGACACTAAGTGTACAAGGA
*
4765990 ACGAAATTCATCCTATGTGGATGAATAACCATTTC-AGCACTAAGTGTGCATTTCAAGAAATTCA
1 ACGGAATTCATCCTATGTGGATGAATAACCATTTCGA-CACTAAGTGTGCATTTCAAGAAATTCA
*
4766054 TCCTATGTGGATGAATAATCGTTTCTG-CACT-AGATGTACAAGGA
65 TCCTATGTGGATGAATAACCGTTTC-GACACTAAG-TGTACAAGGA
4766098 ACGGAATTCAT
1 ACGGAATTCAT
4766109 AATTTATTTA
Statistics
Matches: 106, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
107 3 0.03
108 102 0.96
109 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.31
Consensus pattern (108 bp):
ACGGAATTCATCCTATGTGGATGAATAACCATTTCGACACTAAGTGTGCATTTCAAGAAATTCAT
CCTATGTGGATGAATAACCGTTTCGACACTAAGTGTACAAGGA
Found at i:4768933 original size:17 final size:17
Alignment explanation
Indices: 4768913--4768946 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4768903 TCAATCCGAT
4768913 TTTCTAGACTTTAACAC
1 TTTCTAGACTTTAACAC
**
4768930 TTTCTAGTTTTTAACAC
1 TTTCTAGACTTTAACAC
4768947 AATTTCCAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.21, G:0.06, T:0.47
Consensus pattern (17 bp):
TTTCTAGACTTTAACAC
Found at i:4773969 original size:21 final size:21
Alignment explanation
Indices: 4773945--4773993 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
4773935 TGACTATCGT
*
4773945 ATTGTGATTTTCCAAATTCGC
1 ATTGCGATTTTCCAAATTCGC
*
4773966 ATTGCGATTTTCCGAATTCGC
1 ATTGCGATTTTCCAAATTCGC
*
4773987 AATGCGA
1 ATTGCGA
4773994 ATATGTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (21 bp):
ATTGCGATTTTCCAAATTCGC
Found at i:4774008 original size:20 final size:20
Alignment explanation
Indices: 4773983--4774038 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
4773973 TTTTCCGAAT
4773983 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATATGTAAA
4774003 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATATGTAAA
* *
4774023 TCGTAATGCGATTATG
1 TCGCAATGCGAATATG
4774039 ACTATCGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (20 bp):
TCGCAATGCGAATATGTAAA
Found at i:4774045 original size:20 final size:20
Alignment explanation
Indices: 4774030--4774069 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4774020 AAATCGTAAT
4774030 GCGATTATGACTATCGCAAC
1 GCGATTATGACTATCGCAAC
* *
4774050 GCGATTCTGACTGTCGCAAC
1 GCGATTATGACTATCGCAAC
4774070 ACTGAATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (20 bp):
GCGATTATGACTATCGCAAC
Found at i:4774922 original size:24 final size:24
Alignment explanation
Indices: 4774890--4774943 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
4774880 GTATTTGAAG
4774890 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
4774914 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
4774938 TTTGAT
1 TTTGAT
4774944 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:4778417 original size:20 final size:18
Alignment explanation
Indices: 4778379--4778425 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 18
4778369 GAAACTTAAA
*
4778379 ATCGCAACACGAATGACT
1 ATCGCAACGCGAATGACT
4778397 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAA--TGACT
4778417 ATCGCAACG
1 ATCGCAACG
4778426 AGAGAATCGC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 12 0.46
20 14 0.54
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (18 bp):
ATCGCAACGCGAATGACT
Found at i:4778499 original size:20 final size:20
Alignment explanation
Indices: 4778471--4778548 Score: 120
Period size: 20 Copynumber: 3.9 Consensus size: 20
4778461 GATTCTTTCA
* **
4778471 TTGCAATAGTCAAATTCGTG
1 TTGCGATAGTCATTTTCGTG
4778491 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGTCATTTTCGTG
*
4778511 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGTG
4778531 TTGCGATAGTCATTTTCG
1 TTGCGATAGTCATTTTCG
4778549 CATTGCGAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.41
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGTG
Found at i:4780511 original size:20 final size:20
Alignment explanation
Indices: 4780433--4780526 Score: 134
Period size: 20 Copynumber: 4.7 Consensus size: 20
4780423 GAAACTTAAA
**
4780433 ATCGCAACACGAAAATGAAA
1 ATCGCAACACGAAAATGACT
4780453 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
4780473 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
* **
4780493 ATCGCAACGCGAATTTGACT
1 ATCGCAACACGAAAATGACT
*
4780513 ATCGCAACGCGAAA
1 ATCGCAACACGAAA
4780527 CTAAAATGGC
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 68 1.00
ACGTcount: A:0.44, C:0.24, G:0.17, T:0.15
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:4781209 original size:40 final size:40
Alignment explanation
Indices: 4781147--4781253 Score: 160
Period size: 40 Copynumber: 2.7 Consensus size: 40
4781137 GAAAATTGCA
* *
4781147 TTGCGATAGTCAGCATCGCGTTGTGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCGTTGCGATAGTCAGAATCTCG
*
4781187 TTGCGATAGTCAGAATCTCGTTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCGTTGCGATAGTCAGAATCTCG
* * *
4781227 TTGCGATAGTAATAATCGCATTGCGAT
1 TTGCGATAGTCAGAATCGCGTTGCGAT
4781254 TTACATATTC
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (40 bp):
TTGCGATAGTCAGAATCGCGTTGCGATAGTCAGAATCTCG
Found at i:4781243 original size:20 final size:20
Alignment explanation
Indices: 4781147--4781236 Score: 153
Period size: 20 Copynumber: 4.5 Consensus size: 20
4781137 GAAAATTGCA
* *
4781147 TTGCGATAGTCAGCATCGCG
1 TTGCGATAGTCAGAATCTCG
*
4781167 TTGTGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
4781187 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
4781207 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
4781227 TTGCGATAGT
1 TTGCGATAGT
4781237 AATAATCGCA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCTCG
Found at i:4781250 original size:20 final size:20
Alignment explanation
Indices: 4781147--4781253 Score: 142
Period size: 20 Copynumber: 5.3 Consensus size: 20
4781137 GAAAATTGCA
*
4781147 TTGCGATAGTCAGCATCGCG
1 TTGCGATAGTCAGAATCGCG
* *
4781167 TTGTGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCG
*
4781187 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCG
*
4781207 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCG
* * *
4781227 TTGCGATAGTAATAATCGCA
1 TTGCGATAGTCAGAATCGCG
4781247 TTGCGAT
1 TTGCGAT
4781254 TTACATATTC
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 79 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:4787759 original size:48 final size:48
Alignment explanation
Indices: 4787703--4787802 Score: 173
Period size: 48 Copynumber: 2.1 Consensus size: 48
4787693 CATACTTTGT
4787703 GTATGATGGTTATCGATCGATTTTGTTTAATGCATAAGTTCCATTTTC
1 GTATGATGGTTATCGATCGATTTTGTTTAATGCATAAGTTCCATTTTC
* * *
4787751 GTATGATGGTTATCGATCGATTTTGTTTAATGCATATGTTGCATTTTT
1 GTATGATGGTTATCGATCGATTTTGTTTAATGCATAAGTTCCATTTTC
4787799 GTAT
1 GTAT
4787803 CAGTACTATA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.22, C:0.10, G:0.20, T:0.48
Consensus pattern (48 bp):
GTATGATGGTTATCGATCGATTTTGTTTAATGCATAAGTTCCATTTTC
Found at i:4787933 original size:53 final size:53
Alignment explanation
Indices: 4787822--4787933 Score: 145
Period size: 53 Copynumber: 2.1 Consensus size: 53
4787812 ATGTACTTTT
* * *
4787822 GGCACCATGTGTGCACCCATGGTATTTATAATGAGTTTATGAATGACCATTTC
1 GGCACTATGTGTGCACCCATGGAATTCATAATGAGTTTATGAATGACCATTTC
* * * *
4787875 AGCACTATGTGTGCATCCATGGAATTCATAATGAGTTTGTGAATTACC-TGTTC
1 GGCACTATGTGTGCACCCATGGAATTCATAATGAGTTTATGAATGACCAT-TTC
4787928 GGCACT
1 GGCACT
4787934 TAGGTGCAAC
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
52 1 0.02
53 49 0.98
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (53 bp):
GGCACTATGTGTGCACCCATGGAATTCATAATGAGTTTATGAATGACCATTTC
Found at i:4794930 original size:46 final size:47
Alignment explanation
Indices: 4794841--4794931 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 47
4794831 ATACTTTGTG
*
4794841 TATGATGGTTATCGATCGATTTTTTTAATGCATAAGTTCCATTTTCA
1 TATGATGGTTATCAATCGATTTTTTTAATGCATAAGTTCCATTTTCA
* * *
4794888 TATGATGGTTATCAATCGA-TTTTTTAATGGATATGTTGCATTTT
1 TATGATGGTTATCAATCGATTTTTTTAATGCATAAGTTCCATTTT
4794932 TGTATCAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 22 0.55
47 18 0.45
ACGTcount: A:0.25, C:0.10, G:0.16, T:0.48
Consensus pattern (47 bp):
TATGATGGTTATCAATCGATTTTTTTAATGCATAAGTTCCATTTTCA
Found at i:4795036 original size:53 final size:52
Alignment explanation
Indices: 4794951--4795067 Score: 153
Period size: 53 Copynumber: 2.2 Consensus size: 52
4794941 ACTATATGTA
* * * *
4794951 CTTTCGGCACTCTGTGTGCACCCATGGTATTCATAATGAGTTTATGAATGAC
1 CTTTCGACACTATGTATGCACCCATGGAATTCATAATGAGTTTATGAATGAC
* * *
4795003 CATTTCGACACTATGTATGCATCCATGGAATTCATAATGAGTTTGTGAATTAC
1 C-TTTCGACACTATGTATGCACCCATGGAATTCATAATGAGTTTATGAATGAC
4795056 CTGTTCGACACT
1 CT-TTCGACACT
4795068 TAGGTGCAAC
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
52 2 0.04
53 54 0.96
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.35
Consensus pattern (52 bp):
CTTTCGACACTATGTATGCACCCATGGAATTCATAATGAGTTTATGAATGAC
Found at i:4796642 original size:17 final size:17
Alignment explanation
Indices: 4796620--4796660 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
4796610 CCTAGTAAAG
4796620 TAGAAGCTATTATGAAT
1 TAGAAGCTATTATGAAT
4796637 TAGAAGCTATTATGAAT
1 TAGAAGCTATTATGAAT
4796654 TAGAAGC
1 TAGAAGC
4796661 AACCTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (17 bp):
TAGAAGCTATTATGAAT
Found at i:4798335 original size:15 final size:14
Alignment explanation
Indices: 4798315--4798350 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
4798305 TAGGTTTAAA
*
4798315 TTTAATTTTAAATAT
1 TTTAATTCTAAA-AT
4798330 TTTAATTCTAAAAT
1 TTTAATTCTAAAAT
4798344 TTTAATT
1 TTTAATT
4798351 GAATAGATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTAATTCTAAAAT
Found at i:4799270 original size:21 final size:20
Alignment explanation
Indices: 4799246--4799285 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
4799236 TCGGGTTTTA
*
4799246 ATTAATATTATTATCTTATTT
1 ATTAATATTACTAT-TTATTT
*
4799267 ATTATTATTACTATTTATT
1 ATTAATATTACTATTTATT
4799286 ACTTAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTAATATTACTATTTATTT
Found at i:4802251 original size:15 final size:15
Alignment explanation
Indices: 4802231--4802268 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
4802221 TATGTTGAAC
**
4802231 AAAACATGCGGGTAG
1 AAAACATGCAAGTAG
4802246 AAAACATGCAAGTAG
1 AAAACATGCAAGTAG
4802261 AAAACATG
1 AAAACATG
4802269 TGTGGGTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.50, C:0.13, G:0.24, T:0.13
Consensus pattern (15 bp):
AAAACATGCAAGTAG
Found at i:4810227 original size:65 final size:65
Alignment explanation
Indices: 4810121--4810247 Score: 200
Period size: 65 Copynumber: 2.0 Consensus size: 65
4810111 ATACACAATT
* * * *
4810121 TCCAAAGATGGTAGATCCTCTTTTCAAAGATGAAAGTTCTATTGGATTTCTGCACAAGTTCATTC
1 TCCAAAGATGGTAGATCATCTTTTCAAAGATGAAAGCTCTATTGAATTTCTACACAAGTTCATTC
* *
4810186 TCCAAAGATGGTAGATCATCTTTTCAAAGATGGAAGCTCTATTTAATTTCTACACAAGTTCA
1 TCCAAAGATGGTAGATCATCTTTTCAAAGATGAAAGCTCTATTGAATTTCTACACAAGTTCA
4810248 GGAAAGTCAA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 56 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (65 bp):
TCCAAAGATGGTAGATCATCTTTTCAAAGATGAAAGCTCTATTGAATTTCTACACAAGTTCATTC
Found at i:4810685 original size:38 final size:38
Alignment explanation
Indices: 4810634--4811612 Score: 761
Period size: 38 Copynumber: 24.8 Consensus size: 38
4810624 GAAGCTTTAA
* *
4810634 CTTGACTCTCTCGTGAAGAGAAGTTAATCTTTGTTATT
1 CTTGACTTTCTCGTGAAGAGAAGTCAATCTTTGTTATT
*
4810672 CTTGACTTTCTCGTGAAGAGAAGTCAATCTTTTTTATT
1 CTTGACTTTCTCGTGAAGAGAAGTCAATCTTTGTTATT
*
4810710 CTTGACTTACTCGTGAAGAGAAGTCAATCTTTGTTATT
1 CTTGACTTTCTCGTGAAGAGAAGTCAATCTTTGTTATT
* ** *
4810748 ATTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATT
1 CTTGACTTTCTCGTGAAGAGAAGTCAATC-TT---TGTTATT
4810790 CTTGAC-TTCATCGTGAAGAGAAGTCAATCTTTGTTATT
1 CTTGACTTTC-TCGTGAAGAGAAGTCAATCTTTGTTATT
* * * * * *
4810828 ATTAACTTTCTCGTAAAGGGAAGTCAATCATTATTATT
1 CTTGACTTTCTCGTGAAGAGAAGTCAATCTTTGTTATT
** *
4810866 CTTGACTCCCTCGTGAAGAGGAA-TCAATCATTTAATATTATT
1 CTTGACTTTCTCGTGAAGA-GAAGTCAATC--TT--TGTTATT
* *
4810908 CTTGAC-TTCTCGTAAAGAGAAGTTAATCTTTGTTATT
1 CTTGACTTTCTCGTGAAGAGAAGTCAATCTTTGTTATT
* * * *
4810945 CTTGACTCTCTCGTGAAGAG-AGATCAGTATGTGTTATT
1 CTTGACTTTCTCGTGAAGAGAAG-TCAATCTTTGTTATT
* * * *
4810983 CTTGACTTCCTCGTGAAGAGAGGTCAGTCTGTGTTATT
1 CTTGACTTTCTCGTGAAGAGAAGTCAATCTTTGTTATT
*
4811021 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
1 CTTGACTTTCTCGTGAAGAGAAGTCAATC-TT---TGTTATT
* *
4811063 CTTGAC-TTCTTTGTGAAGAGAAATCAAT-TTT-TCTATT
1 CTTGACTTTC-TCGTGAAGAGAAGTCAATCTTTGT-TATT
* * * *
4811100 CTTGACTTCCTTGCGAAGAGAAGTCAATCTTTTTTATT
1 CTTGACTTTCTCGTGAAGAGAAGTCAATCTTTGTTATT
* * *
4811138 CTTGACTTCCTCATGAAGAGAAGTCAATCTTTATTATT
1 CTTGACTTTCTCGTGAAGAGAAGTCAATCTTTGTTATT
* ** * * *
4811176 CTTAACTCCCTTC-TGAAAATG-AGTCAATGTTTCAATATTATT
1 CTTGACTTTC-TCGTGAAGA-GAAGTCAAT-CTT---TGTTATT
* *
4811218 CTTGACTTTCTAGTGAAGAAAAGTCAATCTTTGTTATT
1 CTTGACTTTCTCGTGAAGAGAAGTCAATCTTTGTTATT
**
4811256 CTTGACTCCCTCGTGAAGAGGAA-TCAATCTTTCATTGTCT-TT
1 CTTGACTTTCTCGTGAAGA-GAAGTCAATC--T--TTGT-TATT
* * * *
4811298 CTTGACTCTATCGTGAAGAGGAGTCAATATTTCAATGTTATT
1 CTTGACTTTCTCGTGAAGAGAAGTCAAT-CTT---TGTTATT
* * * *
4811340 ATTG---TCCTCATGAAGAGAAGTCAATCTATGTTATT
1 CTTGACTTTCTCGTGAAGAGAAGTCAATCTTTGTTATT
*
4811375 CTTGACTTCCTCGTGAAGAGAAGT--ATCTTTGTTATT
1 CTTGACTTTCTCGTGAAGAGAAGTCAATCTTTGTTATT
** *
4811411 CTTGACTCCCTCGTGAAGAGGAGTTAATCAATCTTTGTTATT
1 CTTGACTTTCTCGTGAAGA-GA---AGTCAATCTTTGTTATT
* *
4811453 CTTGA-TTTCCTCATTAAGAGAAGTCAATCTTTGTTATT
1 CTTGACTTT-CTCGTGAAGAGAAGTCAATCTTTGTTATT
*
4811491 CTTGACTTTCTCGTGAATAGGAA-TCAATCTTTCAGTTTTTTCATT
1 CTTGACTTTCTCGTGAAGA-GAAGTCAATCTTT--G----TT-ATT
* *
4811536 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTCAATATTTTCATT
1 CTTGACTTTCTCGTGAAGAGAAGTCAATC--T---T-TGTT-ATT
* *
4811581 CTTAACTTTCTCGTGAAGAGGAGTCAATCTTT
1 CTTGACTTTCTCGTGAAGAGAAGTCAATCTTT
4811613 TAGTGTCGTC
Statistics
Matches: 772, Mismatches: 99, Indels: 139
0.76 0.10 0.14
Matches are distributed among these distances:
35 10 0.01
36 30 0.04
37 43 0.06
38 376 0.49
39 44 0.06
40 11 0.01
41 29 0.04
42 159 0.21
43 2 0.00
44 4 0.01
45 61 0.08
47 1 0.00
50 1 0.00
51 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (38 bp):
CTTGACTTTCTCGTGAAGAGAAGTCAATCTTTGTTATT
Found at i:4811219 original size:273 final size:269
Alignment explanation
Indices: 4810649--4811612 Score: 855
Period size: 273 Copynumber: 3.5 Consensus size: 269
4810639 CTCTCTCGTG
** * *
4810649 AAGAGAAGTTAATCTTTGTTATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTTTTTATTCTTG
1 AAGAGAAGTT-ATCAATATTATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTG
* * * *
4810714 ACTTACTCGTGAAGAGAAGTCAATCTTTGTTATTATTGACTCCCTCGTGAAGAGGAGTCAATCTT
65 ACTTCCTCGTGAAGAGAGGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTT
* * * *
4810779 TCAATGTTATTCTTGACTTCATCGTGAAGAGAAGTCAATCTTTGTTATTATTAACTTTCTCGTAA
130 TCAATGTTATTCTTGACTTCATCGTGAAGAGAAGTCAATCTTT-TTATTCTTGACTTCCTCGTGA
* *
4810844 AGGGAAGTCAATCATTATTATTCTTGACTCCCTCGTGAAGAGGAA-TCAATCATTTAATATTATT
194 AGAGAAGTCAATCTTTATTATTCTTGACTCCCTCGTGAAGA-GAAGTCAATCA-TT-ATATTATT
* * *
4810908 CTTGACTTCTCGTA
256 CTTAACTCCTCGAA
** * * * * *
4810922 AAGAGAAGTTAATCTTTGTTATTCTTGACTCTCTCGTGAAGAG-AGATCAGTATGTGTTATTCTT
1 AAGAGAAGTT-ATCAATATTATTCTTGACTTTCTCGTGAAGAGAAG-TCAATCTTTGTTATTCTT
* * *
4810986 GACTTCCTCGTGAAGAGAGGTCAGTCTGTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCT
64 GACTTCCTCGTGAAGAGAGGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCT
* * * * *
4811051 TTCAATGTTATTCTTGACTTCTTTGTGAAGAGAAATCAAT-TTTTCTATTCTTGACTTCCTTGCG
129 TTCAATGTTATTCTTGACTTCATCGTGAAGAGAAGTCAATCTTTT-TATTCTTGACTTCCTCGTG
* * *
4811115 AAGAGAAGTCAATCTTTTTTATTCTTGACTTCCTCATGAAGAGAAGTCAATC-TT-TATTATTCT
193 AAGAGAAGTCAATCTTTATTATTCTTGACTCCCTCGTGAAGAGAAGTCAATCATTATATTATTCT
4811178 TAACTCCCTTCTGAA
258 TAACT-CC-TC-GAA
* *
4811193 AATGAGTCAATGTT-TCAATATTATTCTTGACTTTCTAGTGAAGAAAAGTCAATCTTTGTTATTC
1 AA-GAG--AA-GTTATCAATATTATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTTGTTATTC
* * *
4811257 TTGACTCCCTCGTGAAGAG-GAATCAATCTTTCATTGTCT-TTCTTGAC-TCTATCGTGAAGAGG
62 TTGACTTCCTCGTGAAGAGAG-GTCAATC--T--TTGT-TATTCTTGACTTC-CTCGTGAAGAGG
* * * * *
4811319 AGTCAATATTTCAATGTTATTATTG---TCCTCATGAAGAGAAGTCAATCTATGTTATTCTTGAC
120 AGTCAATCTTTCAATGTTATTCTTGACTTCATCGTGAAGAGAAGTCAATCT-TTTTATTCTTGAC
* * *
4811381 TTCCTCGTGAAGAGAAGT--ATCTTTGTTATTCTTGACTCCCTCGTGAAGAGGAGTTAATCAATC
184 TTCCTCGTGAAGAGAAGTCAATCTTTATTATTCTTGACTCCCTCGTGAAGAGAAGTCAATC-AT-
* * ** *
4811444 TTTGTTATTCTTGATTTCCTC-ATT
247 TATATTATTCTT-AACTCCTCGA-A
* ** * *
4811468 AAGAGAAGTCAATCTTTGTTATTCTTGACTTTCTCGTGAATAGGAA-TCAATCTTTCAGTTTTTT
1 AAGAGAAGT-TATCAATATTATTCTTGACTTTCTCGTGAAGA-GAAGTCAATCTTT--G----TT
* * * *
4811532 CATTCTTGACTTTCTCGTGAAGAG-GAGTCAATCTTTCAATATTTTCATTCTTAACTTTCTCGTG
58 -ATTCTTGACTTCCTCGTGAAGAGAG-GTCAATC--T---T-TGTT-ATTCTTGACTTCCTCGTG
4811596 AAGAGGAGTCAATCTTT
114 AAGAGGAGTCAATCTTT
4811613 TAGTGTCGTC
Statistics
Matches: 572, Mismatches: 78, Indels: 72
0.79 0.11 0.10
Matches are distributed among these distances:
268 13 0.02
269 1 0.00
270 4 0.01
271 10 0.02
272 67 0.12
273 282 0.49
274 27 0.05
275 35 0.06
276 7 0.01
277 55 0.10
278 3 0.01
279 2 0.00
280 32 0.06
281 3 0.01
282 2 0.00
283 28 0.05
284 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (269 bp):
AAGAGAAGTTATCAATATTATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGA
CTTCCTCGTGAAGAGAGGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTT
CAATGTTATTCTTGACTTCATCGTGAAGAGAAGTCAATCTTTTTATTCTTGACTTCCTCGTGAAG
AGAAGTCAATCTTTATTATTCTTGACTCCCTCGTGAAGAGAAGTCAATCATTATATTATTCTTAA
CTCCTCGAA
Found at i:4811270 original size:235 final size:231
Alignment explanation
Indices: 4810634--4811568 Score: 863
Period size: 235 Copynumber: 4.0 Consensus size: 231
4810624 GAAGCTTTAA
* *
4810634 CTTGAC-TCTCTCGTGAAGAGAAGTTAATCTTTGTTATTCTTGACTTTCTCGTGAAGAGAAGTCA
1 CTTGACTTC-CTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCA
* ** * * * *
4810698 ATCTTTTTTATTCTTGACTTACTCGTGAAGAGAAGTCAATCT-TTGTTATTATTGACTCCCTCGT
65 ATCTTTGTTATTCTTGACTCCCTCGTGAAGAG-AGTCAATGTATTGTTATTCTTGACTTCCTAGT
* *
4810762 GAAGAGGAGTCAATCTTTCAATGTTATTCTTGACTTCATCGTGAAGA-GAAGTCAATC-TT--TG
129 GAAGAGAAGTCAATC-TT---TGTTATTCTTGACTTCCTCGTGAAGAGGAA-TCAATCTTTCATG
* * * * * *
4810823 TTATTATTAACTT-TCTCGTAAAGGGAAGTCAATCATTAT-TATT
189 TTATTCTTGACTTCTATCGTGAAGAGAAGTCAAT--TTTTCTATT
* * *
4810866 CTTGACTCCCTCGTGAAGAGGAA-TCAATCATTTAATATTATTCTTGACTT-CTCGTAAAGAGAA
1 CTTGACTTCCTCGTGAAGA-GAAGTCAATC--TT--TGTTATTCTTGACTTCCTCGTGAAGAGAA
* *
4810929 GTTAATCTTTGTTATTCTTGACTCTCTCGTGAAGAGAGATC-A-GTATGTGTTATTCTTGACTTC
61 GTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGAGAG-TCAATGTAT-TGTTATTCTTGACTTC
* * * *
4810992 CTCGTGAAGAGAGGTCAGTCTGTGTTATTCTTGACTTCCTCGTGAAGA-GAAGTCAATCTTTCAA
124 CTAGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGGAA-TCAATCTTTC-A
* *
4811056 TGTTATTCTTGACTTCT-TTGTGAAGAGAAATCAATTTTTCTATT
187 TGTTATTCTTGACTTCTATCGTGAAGAGAAGTCAATTTTTCTATT
* * * *
4811100 CTTGACTTCCTTGCGAAGAGAAGTCAATCTTTTTTATTCTTGACTTCCTCATGAAGAGAAGTCAA
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAA
* * * * * *
4811165 TCTTTATTATTCTTAACTCCCTTC-TGAAAATGAGTCAATGTTTCAATATTATTCTTGACTTTCT
66 TCTTTGTTATTCTTGACTCCC-TCGTGAAGA-GAGTCAATG--T-ATTGTTATTCTTGACTTCCT
* *
4811229 AGTGAAGAAAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGAGGAATCAATCTTTCATTGT
126 AGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGGAATCAATCTTTCA-TGT
* * *
4811294 CT-TTCTTGAC-TCTATCGTGAAGAGGAGTCAATATTTCAATGT
190 -TATTCTTGACTTCTATCGTGAAGAGAAGTCAATTTTTCTAT-T
* * * *
4811336 -TATTATTGTCCTCATGAAGAGAAGTCAATCTATGTTATTCTTGACTTCCTCGTGAAGAGAAGT-
1 CT-TGACT-TCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTC
* *
4811399 -ATCTTTGTTATTCTTGACTCCCTCGTGAAGAGGAGTTAATCAATCT-TTGTTATTCTTGATTTC
64 AATCTTTGTTATTCTTGACTCCCTCGTGAAGA-GAG----TCAATGTATTGTTATTCTTGACTTC
* * *
4811462 CTCA-TTAAGAGAAGTCAATCTTTGTTATTCTTGACTTTCTCGTGAATAGGAATCAATCTTTCAG
124 CT-AGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGGAATCAATCTTTCA-
* * * *
4811526 TTTTTTCATTCTTGACTT-TCTCGTGAAGAGGAGTCAATCTTTC
187 --TGTT-ATTCTTGACTTCTATCGTGAAGAGAAGTCAATTTTTC
4811569 AATATTTTCA
Statistics
Matches: 588, Mismatches: 73, Indels: 78
0.80 0.10 0.11
Matches are distributed among these distances:
230 14 0.02
231 75 0.13
232 31 0.05
233 12 0.02
234 39 0.07
235 301 0.51
236 26 0.04
237 53 0.09
238 31 0.05
239 6 0.01
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (231 bp):
CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAA
TCTTTGTTATTCTTGACTCCCTCGTGAAGAGAGTCAATGTATTGTTATTCTTGACTTCCTAGTGA
AGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGGAATCAATCTTTCATGTTATTCT
TGACTTCTATCGTGAAGAGAAGTCAATTTTTCTATT
Found at i:4811552 original size:45 final size:45
Alignment explanation
Indices: 4811483--4811894 Score: 289
Period size: 45 Copynumber: 9.2 Consensus size: 45
4811473 AAGTCAATCT
* * * *
4811483 TTGTTATTCTTGACTTTCTCGTGAATAGGAATCAATCTTTCAGTT
1 TTGTCATTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTG
* * *
4811528 TTTTCATTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTCAATA
1 TTGTCATTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTG
* * *
4811573 TTTTCATTCTTAACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTG
1 TTGTCATTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTG
* * * *
4811618 TCGTC-TTCCTTGACTTTCTCATGAAGATGAGTCAATCTTTTAGTG
1 TTGTCATT-CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTG
* * * * *
4811663 TTGTC-TTCCTTGACTTTCTCGCGAAGATGAGTCGATCTTTTAGTT
1 TTGTCATT-CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTG
* * * * * *
4811708 TTGTCCTAT-TTGAATTTCTCATGAAGAGAAGTCAACCTTT-TGTG
1 TTGTCAT-TCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTG
* ** * * * * * *
4811752 GTGTTGTTCTTAACTTTCTCGTGAAGAGAATTCAACCTTTTATTG
1 TTGTCATTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTG
* * * * **
4811797 ATGTTATTCATAACTTTCTCGCAAAGAGGAG-CTAATCATTT-AGCTG
1 TTGTCATTCTTGACTTTCTCGTGAAGAGGAGTC-AATC-TTTCAG-TG
* * * * * * *
4811843 -TGTTATTCTTGACTTTATCATGAAGAAGAGCCAACCTTTTAGTG
1 TTGTCATTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTG
*
4811887 ATGTCATT
1 TTGTCATT
4811895 TTCAACTTGA
Statistics
Matches: 300, Mismatches: 56, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
43 1 0.00
44 41 0.14
45 250 0.83
46 7 0.02
47 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.42
Consensus pattern (45 bp):
TTGTCATTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTG
Found at i:4812006 original size:51 final size:47
Alignment explanation
Indices: 4811850--4812008 Score: 122
Period size: 51 Copynumber: 3.1 Consensus size: 47
4811840 CTGTGTTATT
* * * * * *
4811850 CTTGACTTTATCATGAAGAAGAGCCAACCTTTTAGTGATGTCATTTTCAA
1 CTTGACTTTCTCATG-AGAGGAGTCAA-CTTTTAGTAATGTTA-TCTCAA
* *
4811900 CTTGACTTTCTCATAGAGAGGAATCAACTTTTCAGTAGTATCCTT-TCTCAA
1 CTTGACTTTCTCAT-GAGAGGAGTCAACTTTT-AGTA--AT-GTTATCTCAA
*
4811951 CTTGACTTTCTCATGTAGAGGAGTTAATCTTTTAGTAATGTTATCTCCAA
1 CTTGACTTTCTCATG-AGAGGAGTCAA-CTTTTAGTAATGTTATCT-CAA
4812001 TCTTGACT
1 -CTTGACT
4812009 CTCTTAGGAC
Statistics
Matches: 88, Mismatches: 11, Indels: 19
0.75 0.09 0.16
Matches are distributed among these distances:
48 2 0.02
49 10 0.11
50 28 0.32
51 40 0.45
52 7 0.08
53 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (47 bp):
CTTGACTTTCTCATGAGAGGAGTCAACTTTTAGTAATGTTATCTCAA
Found at i:4812881 original size:134 final size:135
Alignment explanation
Indices: 4812741--4813068 Score: 444
Period size: 134 Copynumber: 2.4 Consensus size: 135
4812731 AATCGATTCT
* * * *
4812741 GATTCAATCTTTCCTGAAGAGCAGTGAAGTGGATTAATATTTTCTCGAGTCTGATCTCCCT-TAA
1 GATTCAATCTTCCCTGAAGAGCAGTAAAGTGGATCAAAATTTTCTCGAGTCTGATCTCCCTCTAA
* * *
4812805 AAAGTAGTTGAGCATATTCTTTTTCTTTTAAATATGGTATTCCTAAAGAGTAGCGAAGAAAATAA
66 AAAGTAGTGGAGCAGATTCTTTTTCTTTCAAATATGGTATTCCTAAAGAGTAGCGAAGAAAATAA
4812870 AGTTC
131 AGTTC
* * *
4812875 GATTCAATCTTCCCTGAGGAGCAGTAAAGTGGATCAAAATTTTCTCTAGTCTGATCT-CCTCTAG
1 GATTCAATCTTCCCTGAAGAGCAGTAAAGTGGATCAAAATTTTCTCGAGTCTGATCTCCCTCTAA
* * * * * *
4812939 AGAGTAGTGGAGCAGATTCTTTTTCTTTCAGATTTGGTTTTCCTAAAGAGTAGCGAAGGAAATCA
66 AAAGTAGTGGAGCAGATTCTTTTTCTTTCAAATATGGTATTCCTAAAGAGTAGCGAAGAAAATAA
4813004 AGTTC
131 AGTTC
* ** ** *
4813009 TATTCAGCCTTCCCTGAAGAGCACCAAAGTGGATCAAAATTTTCTCGAGTCTAATCTCCC
1 GATTCAATCTTCCCTGAAGAGCAGTAAAGTGGATCAAAATTTTCTCGAGTCTGATCTCCC
4813069 CTGGAGAAAC
Statistics
Matches: 168, Mismatches: 24, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
133 3 0.02
134 163 0.97
135 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.34
Consensus pattern (135 bp):
GATTCAATCTTCCCTGAAGAGCAGTAAAGTGGATCAAAATTTTCTCGAGTCTGATCTCCCTCTAA
AAAGTAGTGGAGCAGATTCTTTTTCTTTCAAATATGGTATTCCTAAAGAGTAGCGAAGAAAATAA
AGTTC
Found at i:4813237 original size:3 final size:3
Alignment explanation
Indices: 4813224--4813284 Score: 113
Period size: 3 Copynumber: 20.3 Consensus size: 3
4813214 CCGGGTTTTA
*
4813224 ATT AAT 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
4813272 ATT ATT ATT ATT A
1 ATT ATT ATT ATT A
4813285 CTTAAATAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:4824469 original size:19 final size:18
Alignment explanation
Indices: 4824447--4824501 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
4824437 TCAGTTTATG
*
4824447 TTTTAATTTTTATTTTACT
1 TTTT-ATTTTTATTTTACA
* *
4824466 TTTTATTTAATATATTACA
1 TTTTATTT-TTATTTTACA
4824485 TTTTATTATTTATTTTA
1 TTTTATT-TTTATTTTA
4824502 TTATTATTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
18 4 0.14
19 24 0.83
20 1 0.03
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTATTTTTATTTTACA
Found at i:4824487 original size:26 final size:25
Alignment explanation
Indices: 4824458--4824507 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
4824448 TTTAATTTTT
4824458 ATTTTACTT-TTTATTTAATATATTAC
1 ATTTTA-TTATTTATTTAAT-TATTAC
*
4824484 ATTTTATTATTTATTTTATTATTA
1 ATTTTATTATTTATTTAATTATTA
4824508 TTATGGTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (25 bp):
ATTTTATTATTTATTTAATTATTAC
Found at i:4824501 original size:12 final size:12
Alignment explanation
Indices: 4824455--4824506 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
4824445 TGTTTTAATT
4824455 TTTATTTTACTT-
1 TTTATTTTA-TTA
*
4824467 TTTATTTAATATA
1 TTTATTTTAT-TA
*
4824480 TTACATTTTATTA
1 TT-TATTTTATTA
4824493 TTTATTTTATTA
1 TTTATTTTATTA
4824505 TT
1 TT
4824507 ATTATGGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
11 1 0.03
12 20 0.61
13 6 0.18
14 6 0.18
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTATTTTATTA
Found at i:4824693 original size:3 final size:3
Alignment explanation
Indices: 4824685--4824734 Score: 59
Period size: 3 Copynumber: 16.3 Consensus size: 3
4824675 TTATATATAT
4824685 TTA TTA TTA TTA TTA TTA TTA TATA TT- TTA TTA TATA TTA TATA TT-
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T-TA TTA T-TA TTA
4824731 TTA T
1 TTA T
4824735 ATTTTTTTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
2 4 0.10
3 29 0.69
4 9 0.21
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:4824702 original size:12 final size:13
Alignment explanation
Indices: 4824678--4824737 Score: 79
Period size: 12 Copynumber: 4.6 Consensus size: 13
4824668 TCATTACTTA
4824678 TATATATTTATTAT
1 TATATA-TTATTAT
4824692 TAT-TATTATTAT
1 TATATATTATTAT
4824704 TATATATT-TTAT
1 TATATATTATTAT
4824716 TATATATTATATAT
1 TATATATTAT-TAT
*
4824730 TTTATATT
1 TATATATT
4824738 TTTTTAGGTT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
12 22 0.52
13 7 0.17
14 13 0.31
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TATATATTATTAT
Found at i:4824704 original size:19 final size:18
Alignment explanation
Indices: 4824682--4824738 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
4824672 TACTTATATA
4824682 TATTTATTATTA--TTAT
1 TATTTATTATTATTTTAT
4824698 TA-TTATTATATATTTTAT
1 TATTTATTAT-TATTTTAT
*
4824716 TATATATTATATATTTTA-
1 TATTTATTAT-TATTTTAT
4824734 TATTT
1 TATTT
4824739 TTTTAGGTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
15 7 0.20
16 4 0.11
18 10 0.29
19 14 0.40
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TATTTATTATTATTTTAT
Found at i:4824735 original size:9 final size:9
Alignment explanation
Indices: 4824675--4824740 Score: 66
Period size: 9 Copynumber: 7.2 Consensus size: 9
4824665 TCTTCATTAC
4824675 TTATATATAT
1 TTATATAT-T
4824685 TTAT-TATT
1 TTATATATT
4824693 ATTAT-TATT
1 -TTATATATT
4824702 ATTATATATT
1 -TTATATATT
*
4824712 TTATTATATA
1 TTA-TATATT
4824722 TTATATATT
1 TTATATATT
4824731 TTATAT-TT
1 TTATATATT
4824739 TT
1 TT
4824741 TTAGGTTATT
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
8 5 0.10
9 30 0.59
10 16 0.31
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTATATATT
Found at i:4824737 original size:26 final size:27
Alignment explanation
Indices: 4824670--4824741 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 27
4824660 TTTTGTCTTC
4824670 ATTACTTATATATATTTATTATTATTATT
1 ATTA-TTATATAT-TTTATTATTATTATT
4824699 ATTATTATATATTTTATTATATATTATAT
1 ATTATTATATATTTTATTAT-TATTAT-T
*
4824728 ATT-TTATATTTTTT
1 ATTATTATATATTTT
4824742 TAGGTTATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 8 0.20
28 24 0.60
29 8 0.20
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (27 bp):
ATTATTATATATTTTATTATTATTATT
Found at i:4836468 original size:21 final size:21
Alignment explanation
Indices: 4836444--4836509 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
4836434 ACCTGCGATT
4836444 TCAACTCCACGACGGAGGATA
1 TCAACTCCACGACGGAGGATA
** * *
4836465 TCAAAC-CCAC-ACATCCACGATT
1 TC-AACTCCACGAC--GGAGGATA
4836487 TCAACTCCACGACGGAGGATA
1 TCAACTCCACGACGGAGGATA
4836508 TC
1 TC
4836510 GTGCCATTTG
Statistics
Matches: 32, Mismatches: 8, Indels: 10
0.64 0.16 0.20
Matches are distributed among these distances:
20 2 0.06
21 15 0.47
22 13 0.41
23 2 0.06
ACGTcount: A:0.33, C:0.33, G:0.17, T:0.17
Consensus pattern (21 bp):
TCAACTCCACGACGGAGGATA
Found at i:4837357 original size:2 final size:2
Alignment explanation
Indices: 4837352--4837396 Score: 51
Period size: 2 Copynumber: 24.0 Consensus size: 2
4837342 TTTCATAACC
*
4837352 AT AT AT TT AT AT AT -T AT AT -T AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
4837391 AA AT AT
1 AT AT AT
4837397 TATTATTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
1 3 0.08
2 33 0.92
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:4837389 original size:11 final size:11
Alignment explanation
Indices: 4837359--4837399 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
4837349 ACCATATATT
4837359 TATATATTATA
1 TATATATTATA
4837370 T-TATA-TATA
1 TATATATTATA
4837379 TATATATTATA
1 TATATATTATA
*
4837390 TAAATATTAT
1 TATATATTAT
4837400 TATTTTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 5 0.19
10 8 0.30
11 14 0.52
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
TATATATTATA
Found at i:4837391 original size:22 final size:20
Alignment explanation
Indices: 4837352--4837390 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4837342 TTTCATAACC
*
4837352 ATATATTTATATATTATATT
1 ATATATATATATATTATATT
4837372 ATATATATATATATTATAT
1 ATATATATATATATTATAT
4837391 AAATATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATATATATATATATTATATT
Found at i:4838383 original size:19 final size:18
Alignment explanation
Indices: 4838361--4838422 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 18
4838351 TAAAATTCAG
4838361 TTTATGTTTTAATTTTTAT
1 TTTATGTTTT-ATTTTTAT
*
4838380 TTTACT-TTTTATTTAATAT
1 TTTA-TGTTTTATTT-TTAT
* *
4838399 ATTACGTTTTATTATTTAT
1 TTTATGTTTTATT-TTTAT
4838418 TTTAT
1 TTTAT
4838423 TATTATTATG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
18 4 0.12
19 27 0.82
20 2 0.06
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTATGTTTTATTTTTAT
Found at i:4838408 original size:26 final size:25
Alignment explanation
Indices: 4838379--4838427 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
4838369 TTAATTTTTA
4838379 TTTTACTT-TTTATTTAATATATTACG
1 TTTTA-TTATTTATTTAAT-TATTACG
*
4838405 TTTTATTATTTATTTTATTATTA
1 TTTTATTATTTATTTAATTATTA
4838428 TTATGGTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTTATTATTTATTTAATTATTACG
Found at i:4838620 original size:23 final size:23
Alignment explanation
Indices: 4838594--4838657 Score: 80
Period size: 21 Copynumber: 2.9 Consensus size: 23
4838584 TTTTGTCTTC
4838594 ATTACTTATATA-TATATTTTATT
1 ATTA-TTATATATTATATTTTATT
*
4838617 ATTATTATATATTTTATTTTA-T
1 ATTATTATATATTATATTTTATT
*
4838639 ATT-TTATATTTTATATTTT
1 ATTATTATATATTATATTTT
4838658 TTAGGTTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 14 0.38
22 11 0.30
23 12 0.32
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (23 bp):
ATTATTATATATTATATTTTATT
Found at i:4838641 original size:7 final size:7
Alignment explanation
Indices: 4838606--4838657 Score: 70
Period size: 7 Copynumber: 7.1 Consensus size: 7
4838596 TACTTATATA
4838606 TATATTT
1 TATATTT
4838613 TATTATTAT
1 TA-TATT-T
4838622 TATATATT
1 TATAT-TT
4838630 T-TATTT
1 TATATTT
4838636 TATATTT
1 TATATTT
4838643 TATATTT
1 TATATTT
4838650 TATATTT
1 TATATTT
4838657 T
1 T
4838658 TTAGGTTATT
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
6 3 0.07
7 25 0.61
8 9 0.22
9 4 0.10
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TATATTT
Found at i:4838646 original size:19 final size:18
Alignment explanation
Indices: 4838594--4838652 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 18
4838584 TTTTGTCTTC
4838594 ATTACTTATATATATATTTT
1 ATTA-TTAT-TATATATTTT
4838614 ATTATTATTATATATTTT
1 ATTATTATTATATATTTT
* *
4838632 ATTTTATATTTTATATTTT
1 ATTAT-TATTATATATTTT
4838651 AT
1 AT
4838653 ATTTTTTAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
18 14 0.39
19 18 0.50
20 4 0.11
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTATTATTATATATTTT
Found at i:4838680 original size:28 final size:28
Alignment explanation
Indices: 4838606--4838672 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
4838596 TACTTATATA
**
4838606 TATATTTTATTATTATTATATATTTTATTT
1 TATATTTTA-TATT-TTATATATTTTAGGT
*
4838636 TATATTTTATATTTTATATTTTTTAGGT
1 TATATTTTATATTTTATATATTTTAGGT
4838664 TAT-TTTTAT
1 TATATTTTAT
4838673 TTATTTATTG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 6 0.18
28 15 0.44
29 4 0.12
30 9 0.26
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (28 bp):
TATATTTTATATTTTATATATTTTAGGT
Found at i:4844577 original size:21 final size:21
Alignment explanation
Indices: 4844534--4844577 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
4844524 GGATGAACTA
*
4844534 TGGCTTTGCAAAAGTGTTGCT
1 TGGCTTTGCAAAAGTGTTCCT
*
4844555 TGGCTTTGTAACAAGT-TTCCT
1 TGGCTTTGCAA-AAGTGTTCCT
4844576 TG
1 TG
4844578 ATTTTTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.18, C:0.16, G:0.25, T:0.41
Consensus pattern (21 bp):
TGGCTTTGCAAAAGTGTTCCT
Found at i:4850487 original size:22 final size:22
Alignment explanation
Indices: 4850461--4850515 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
4850451 CTTGGATGGA
*
4850461 GTATCGATACTCCTGGTTAATG
1 GTATCGATACTCCTGGTCAATG
4850483 GTATCGATACTCCTGGTCAATG
1 GTATCGATACTCCTGGTCAATG
4850505 GTATCGATACT
1 GTATCGATACT
4850516 TGTCTGAGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (22 bp):
GTATCGATACTCCTGGTCAATG
Found at i:4852597 original size:140 final size:140
Alignment explanation
Indices: 4852453--4852808 Score: 472
Period size: 140 Copynumber: 2.5 Consensus size: 140
4852443 ATATTAATCT
* * * * * *
4852453 TAATTAATTTTAACTAATTATTTAATCGAATATTCAATGTGGACCCTCGAGCATTTAACGCAAGG
1 TAATTGATTTTAACTAATTATTTAATAGAATAATCGATGTGGACCCTCGAGCATTTAATGCGAGG
*
4852518 ACCAAATCAAATATTCCCTAAATTAAGGGGCTAAAGTGAAATTAAGCCTAAAAT-GAAGGCTCTA
66 ACCAAATCAAATATTCCCTAAATTAAGGGACTAAAGTGAAATTAAGCCTAAAATAG-AGGCTCTA
*
4852582 ATTAATAAACC
130 ATTAACAAACC
* *
4852593 TAATTGATTTTAACCT-ATTATTGAATAGAATAAGT-GATGTGGACCCTCGGGCATTTAATGCGA
1 TAATTGATTTTAA-CTAATTATTTAATAGAATAA-TCGATGTGGACCCTCGAGCATTTAATGCGA
* * *
4852656 GGACCAAATCAAATATTCTCTAAATTTAGGGACTAAAGTGAAATTACGCCTAAAATAGAGGCTCT
64 GGACCAAATCAAATATTCCCTAAATTAAGGGACTAAAGTGAAATTAAGCCTAAAATAGAGGCTCT
*
4852721 AATTAACAACCC
129 AATTAACAAACC
* * *
4852733 TAATTGA-TTTAACCAATT-TTTAAATTGAATAATCGATGTGGACACTC-ATGCATTTAATGCGA
1 TAATTGATTTTAACTAATTATTT-AATAGAATAATCGATGTGGACCCTCGA-GCATTTAATGCGA
4852795 GGACCAAATCAAAT
64 GGACCAAATCAAAT
4852809 TACTCACCTA
Statistics
Matches: 190, Mismatches: 19, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
138 4 0.02
139 56 0.29
140 126 0.66
141 4 0.02
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (140 bp):
TAATTGATTTTAACTAATTATTTAATAGAATAATCGATGTGGACCCTCGAGCATTTAATGCGAGG
ACCAAATCAAATATTCCCTAAATTAAGGGACTAAAGTGAAATTAAGCCTAAAATAGAGGCTCTAA
TTAACAAACC
Found at i:4852995 original size:14 final size:16
Alignment explanation
Indices: 4852970--4853003 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
4852960 TACAAGAAAC
4852970 TAAAAGGCATAAA-TT
1 TAAAAGGCATAAACTT
4852985 TAAAA-GCATAAACTT
1 TAAAAGGCATAAACTT
4853000 TAAA
1 TAAA
4853004 GATTGAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.26
Consensus pattern (16 bp):
TAAAAGGCATAAACTT
Found at i:4855784 original size:22 final size:22
Alignment explanation
Indices: 4855759--4855824 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
4855749 GGCGACATCC
4855759 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
4855781 GTCCCCATCTCCGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
* *
4855803 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
4855825 TTCACGGTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.24, C:0.39, G:0.15, T:0.21
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:4856233 original size:20 final size:20
Alignment explanation
Indices: 4856160--4856248 Score: 90
Period size: 20 Copynumber: 4.5 Consensus size: 20
4856150 GCGATTCTGT
* *
4856160 CGTTGTGATTTTCA-TTTCG
1 CGTTGCGATTGTCATTTTCG
* **
4856179 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
*
4856199 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* *
4856219 TGTTGCGATTTTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
*
4856239 TGTTGCGATT
1 CGTTGCGATT
4856249 CAAAGTTTCA
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
19 11 0.18
20 49 0.82
ACGTcount: A:0.15, C:0.17, G:0.24, T:0.45
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:4856257 original size:20 final size:20
Alignment explanation
Indices: 4856214--4856257 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
4856204 CGATAGTCAT
*** *
4856214 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTCAAAG
4856234 TTTCGTGTTGCGATTCAAAG
1 TTTCGTGTTGCGATTCAAAG
4856254 TTTC
1 TTTC
4856258 AGAAACTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.16, G:0.20, T:0.50
Consensus pattern (20 bp):
TTTCGTGTTGCGATTCAAAG
Found at i:4858163 original size:20 final size:20
Alignment explanation
Indices: 4858138--4858314 Score: 139
Period size: 20 Copynumber: 9.5 Consensus size: 20
4858128 AGAATAGTTT
4858138 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
4858158 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* *
4858178 ACTATCGCAA--AG-AGA-G
1 ACTATCGCAATGCGAAAATG
4858194 A--ATCGCAATGCG-AAATG
1 ACTATCGCAATGCGAAAATG
**
4858211 AAAATCGCAA--C-AACAA--
1 ACTATCGCAATGCGAA-AATG
*
4858227 A--ATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
4858245 ACTATTGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
4858265 ACTATCGCAATGCGAAAATT
1 ACTATCGCAATGCGAAAATG
* * **
4858285 TCTATCACAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
4858305 ACTATCGCAA
1 ACTATCGCAA
4858315 CGAAAGAATC
Statistics
Matches: 127, Mismatches: 16, Indels: 28
0.74 0.09 0.16
Matches are distributed among these distances:
14 14 0.11
16 9 0.07
17 8 0.06
18 4 0.03
19 7 0.06
20 85 0.67
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:4858386 original size:20 final size:20
Alignment explanation
Indices: 4858359--4858447 Score: 142
Period size: 20 Copynumber: 4.5 Consensus size: 20
4858349 GCGATTCTCT
**
4858359 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
*
4858379 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
4858399 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
4858419 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
4858439 CGTTACGAT
1 CGTTGCGAT
4858448 TTTAAGTTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:4859022 original size:21 final size:21
Alignment explanation
Indices: 4858927--4859034 Score: 76
Period size: 21 Copynumber: 5.1 Consensus size: 21
4858917 GCCTGACTCA
4858927 CCTGTCATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
** *
4858948 TCCCCT-ATTGTTCAAGAGGCC
1 -CCTGTCATCGTTCAAGAGGCC
* ** *
4858969 CCTATCATCCCTCAAGAGTCC
1 CCTGTCATCGTTCAAGAGGCC
* *
4858990 CCT-CCTACCGTTCAAGAGGCC
1 CCTGTC-ATCGTTCAAGAGGCC
* * *
4859011 ACTGTCATCGTTGAAGAGGTC
1 CCTGTCATCGTTCAAGAGGCC
4859032 CCT
1 CCT
4859035 CCCAATATTC
Statistics
Matches: 63, Mismatches: 20, Indels: 7
0.70 0.22 0.08
Matches are distributed among these distances:
20 4 0.06
21 55 0.87
22 4 0.06
ACGTcount: A:0.20, C:0.35, G:0.19, T:0.25
Consensus pattern (21 bp):
CCTGTCATCGTTCAAGAGGCC
Found at i:4859035 original size:42 final size:42
Alignment explanation
Indices: 4858928--4859036 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 42
4858918 CCTGACTCAC
* ** *
4858928 CTGTCATCGTTCAAGAGG-CCTCCCCTATTGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGGTCC-CTCCTACCGTTCAAGAGGCCA
* **
4858970 CTATCATCCCTCAAGA-GTCCCCTCCTACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGGT-CCCTCCTACCGTTCAAGAGGCCA
*
4859012 CTGTCATCGTTGAAGAGGTCCCTCC
1 CTGTCATCGTTCAAGAGGTCCCTCC
4859037 CAATATTCTA
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
41 1 0.02
42 48 0.91
43 4 0.08
ACGTcount: A:0.20, C:0.36, G:0.19, T:0.25
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGGTCCCTCCTACCGTTCAAGAGGCCA
Found at i:4860440 original size:14 final size:14
Alignment explanation
Indices: 4860421--4860456 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
4860411 ATTGTTTAAT
4860421 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
4860435 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
4860449 TGATTTGT
1 TGATTTGT
4860457 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:4860650 original size:24 final size:19
Alignment explanation
Indices: 4860595--4860640 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
4860585 GCAACGAGAG
4860595 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4860614 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4860633 AATCGCAA
1 AATCGCAA
4860641 CGCGTTGCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.48, C:0.17, G:0.20, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:4860685 original size:33 final size:33
Alignment explanation
Indices: 4860643--4860737 Score: 120
Period size: 33 Copynumber: 2.8 Consensus size: 33
4860633 AATCGCAACG
4860643 CGTTGCGATTTT-ATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
*
4860676 CGTTGCGATTTTCATTTCGCATTGCGTTTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
* ** *
4860709 CGTTGTGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTT-CGCATTGCGAT
4860738 AGTCAATTTC
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
33 44 0.81
34 10 0.19
ACGTcount: A:0.12, C:0.22, G:0.21, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:4860738 original size:20 final size:19
Alignment explanation
Indices: 4860709--4860797 Score: 124
Period size: 20 Copynumber: 4.5 Consensus size: 19
4860699 GCGTTTCTCT
*
4860709 CGTTGTGATAGTCATTTCCG
1 CGTTGCGATAGTCATTT-CG
4860729 CGTTGCGATAGTCAATTTCG
1 CGTTGCGATAGTC-ATTTCG
4860749 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCA-TTTCG
*
4860769 TGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAT-TTCG
4860789 CGTTGCGAT
1 CGTTGCGAT
4860798 TTCCGTGTTG
Statistics
Matches: 63, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.03
20 57 0.90
21 4 0.06
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:4860810 original size:34 final size:36
Alignment explanation
Indices: 4860721--4860817 Score: 110
Period size: 40 Copynumber: 2.6 Consensus size: 36
4860711 TTGTGATAGT
*
4860721 CATTTCCGCGTTGCGATAGTCAATTTCGCGTTGCGATAG
1 CATTTCCGTGTTGCGATAGTCAATTTCGCGTTGC---AG
*
4860760 TCATTTTCGTGTTGCGATAGTC-ATATTCGCGTTGC-G
1 -CATTTCCGTGTTGCGATAGTCAAT-TTCGCGTTGCAG
4860796 -ATTTCCGTGTTGCGATAGTCAA
1 CATTTCCGTGTTGCGATAGTCAA
4860818 ATGAATGTCT
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
34 19 0.37
35 1 0.02
36 1 0.02
39 2 0.04
40 29 0.56
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.37
Consensus pattern (36 bp):
CATTTCCGTGTTGCGATAGTCAATTTCGCGTTGCAG
Found at i:4863297 original size:24 final size:24
Alignment explanation
Indices: 4863246--4863297 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
4863236 ATCTGCGTAT
* *
4863246 TGACCAAGATCAAAGTCCGAGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
4863270 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
4863294 TGAC
1 TGAC
4863298 TAGTACTCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:4864186 original size:20 final size:20
Alignment explanation
Indices: 4864125--4864191 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
4864115 AAATTCAGTA
* *
4864125 TTGCAATAGTCAGAATCTCA
1 TTGCGATAGTCAGAATCTCG
4864145 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
* *
4864165 TTGCGATAGTCAGATTCGCG
1 TTGCGATAGTCAGAATCTCG
4864185 TTGCGAT
1 TTGCGAT
4864192 TTACGTATTC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCTCG
Done.