Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 186 of 313
Found at i:57456731 original size:28 final size:26
Alignment explanation
Indices: 57456680--57456740 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 26
57456670 ATTAATTTCA
*
57456680 AATATTTTTAATATAATGATATATAT
1 AATATTTTTAATATAATGACATATAT
* *
57456706 AATATTTTTATTATATAATTACATATTT
1 AATATTTTTA--ATATAATGACATATAT
*
57456734 ATTATTT
1 AATATTT
57456741 GATTTTATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 10 0.34
28 19 0.66
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (26 bp):
AATATTTTTAATATAATGACATATAT
Found at i:57458727 original size:15 final size:15
Alignment explanation
Indices: 57458709--57458821 Score: 59
Period size: 15 Copynumber: 7.3 Consensus size: 15
57458699 GAAGGAGCCA
57458709 AAGAAGGAAGAACCC
1 AAGAAGGAAGAACCC
* * *
57458724 AAGAAAGAGGAGGAGCC
1 AAG-AAG-GAAGAACCC
*
57458741 -A-AAGAAAGAACCC
1 AAGAAGGAAGAACCC
**
57458754 AAGAAGGAAGAAGAGCAG
1 AAGAAGGAAG-A-A-CCC
* * *
57458772 AAGAAAGAAGAGCCT
1 AAGAAGGAAGAACCC
* *
57458787 AAGAAGGAGGAACCA
1 AAGAAGGAAGAACCC
*
57458802 AAAAAGGAAGAACCC
1 AAGAAGGAAGAACCC
57458817 AAGAA
1 AAGAA
57458822 AGAGGAAGAG
Statistics
Matches: 69, Mismatches: 22, Indels: 14
0.66 0.21 0.13
Matches are distributed among these distances:
13 5 0.07
14 4 0.06
15 37 0.54
16 5 0.07
17 8 0.12
18 10 0.14
ACGTcount: A:0.56, C:0.14, G:0.29, T:0.01
Consensus pattern (15 bp):
AAGAAGGAAGAACCC
Found at i:57458836 original size:45 final size:45
Alignment explanation
Indices: 57458693--57458839 Score: 121
Period size: 45 Copynumber: 3.3 Consensus size: 45
57458683 CAAAAGAGCC
57458693 AGAG-AAGAAGGAG--CCAAAGAAGGAAGAACCCAAGAAAGAGGA
1 AGAGCAAGAAGGAGAACCAAAGAAGGAAGAACCCAAGAAAGAGGA
* * ** *
57458735 GGAGCCAAAGAA--AGAACCCAAGAAGGAAGAAGAGC-AG-AAGAAAGA
1 AGAG-C-AAGAAGGAGAACCAAAGAAGGAAGAA-CCCAAGAAAG-AGGA
*
57458780 AGAGCCTAAGAAGGAGGAACCAAAAAAGGAAGAACCCAAGAAAGAGGA
1 AGAG-C-AAGAAGGA-GAACCAAAGAAGGAAGAACCCAAGAAAGAGGA
57458828 AGAG-AAGAAGGA
1 AGAGCAAGAAGGA
57458840 AGAGGAGAAA
Statistics
Matches: 81, Mismatches: 12, Indels: 21
0.71 0.11 0.18
Matches are distributed among these distances:
42 3 0.04
43 2 0.02
44 3 0.04
45 42 0.52
46 1 0.01
47 2 0.02
48 25 0.31
49 3 0.04
ACGTcount: A:0.55, C:0.12, G:0.32, T:0.01
Consensus pattern (45 bp):
AGAGCAAGAAGGAGAACCAAAGAAGGAAGAACCCAAGAAAGAGGA
Found at i:57458839 original size:30 final size:30
Alignment explanation
Indices: 57458709--57458842 Score: 110
Period size: 30 Copynumber: 4.4 Consensus size: 30
57458699 GAAGGAGCCA
*
57458709 AAGAAGGAAGAACCCAAGAAAGAGGAGGAG
1 AAGAAGGAAGAACCCAAGAAAGAGGAAGAG
* * * *
57458739 CCA-AAGAAAGAACCCAAGAAGGAAGAAGAGCAG
1 -AAGAAGGAAGAACCCAAGAAAG-AGGA-AG-AG
* * * * *
57458772 AAGAAAGAAGAGCCTAAGAAGGAGGAACCA-
1 AAGAAGGAAGAACCCAAGAAAGAGGAA-GAG
*
57458802 AAAAAGGAAGAACCCAAGAAAGAGGAAGAG
1 AAGAAGGAAGAACCCAAGAAAGAGGAAGAG
57458832 AAGAAGGAAGA
1 AAGAAGGAAGA
57458843 GGAGAAAAGG
Statistics
Matches: 78, Mismatches: 19, Indels: 13
0.71 0.17 0.12
Matches are distributed among these distances:
29 1 0.01
30 49 0.63
31 6 0.08
32 5 0.06
33 17 0.22
ACGTcount: A:0.56, C:0.12, G:0.31, T:0.01
Consensus pattern (30 bp):
AAGAAGGAAGAACCCAAGAAAGAGGAAGAG
Found at i:57462100 original size:19 final size:19
Alignment explanation
Indices: 57462076--57462129 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
57462066 AATCTTCAAG
57462076 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
57462095 GATATGTAATCTTAGTTAT
1 GATATGCAATCTTAGATAT
57462114 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
57462130 AGATATGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:57462105 original size:36 final size:34
Alignment explanation
Indices: 57462065--57462136 Score: 83
Period size: 38 Copynumber: 2.0 Consensus size: 34
57462055 TATGGAAACA
57462065 TAATCTTCA-AGGATATGCAATCTTAGATATGATATG
1 TAATCTT-ATAGGATATGCAATCTTAGA-A-GATATG
*
57462101 TAATCTTAGTTATGATATGCAATCTTAGAAGATATG
1 TAATCTTA--TAGGATATGCAATCTTAGAAGATATG
57462137 ATTTTGTCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
35 1 0.03
36 13 0.41
37 1 0.03
38 17 0.53
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.38
Consensus pattern (34 bp):
TAATCTTATAGGATATGCAATCTTAGAAGATATG
Found at i:57466885 original size:19 final size:21
Alignment explanation
Indices: 57466845--57466902 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
57466835 TTCATTAATA
57466845 ATGTAATTTTTTTATATATAT
1 ATGTAATTTTTTTATATATAT
*
57466866 ATGTAATTTTTTTATCTATAT
1 ATGTAATTTTTTTATATATAT
*
57466887 ATGT-ATATTTTTATAT
1 ATGTAATTTTTTTATAT
57466903 TTTTTATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 10 0.29
21 24 0.71
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (21 bp):
ATGTAATTTTTTTATATATAT
Found at i:57466894 original size:29 final size:29
Alignment explanation
Indices: 57466861--57466935 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 29
57466851 TTTTTTTATA
*
57466861 TATATATGTA-ATTTTTT-TATCTATATATG
1 TATATATGTATATTTTTTATAT-T-TATACG
* *
57466890 TATATTTTTATATTTTTTATATTTATACG
1 TATATATGTATATTTTTTATATTTATACG
* *
57466919 TATATATTTATGTTTTT
1 TATATATGTATATTTTT
57466936 AAAATAATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
29 28 0.72
30 8 0.21
31 3 0.08
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (29 bp):
TATATATGTATATTTTTTATATTTATACG
Found at i:57467309 original size:15 final size:16
Alignment explanation
Indices: 57467289--57467324 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
57467279 TTTCTATGCC
57467289 ATTGTTATATTTA-TT
1 ATTGTTATATTTATTT
*
57467304 ATTGTTGTATTTATTT
1 ATTGTTATATTTATTT
57467320 ATTGT
1 ATTGT
57467325 GGCATTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.67
Consensus pattern (16 bp):
ATTGTTATATTTATTT
Found at i:57471851 original size:6 final size:6
Alignment explanation
Indices: 57471835--57471885 Score: 68
Period size: 6 Copynumber: 8.3 Consensus size: 6
57471825 TGATGATGGA
*
57471835 AAAAAG GAAAAG AAAAAG -AAAAG AAAAAG AAAAAG AAAGAAG AAAGAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA-AAG AAA-AAG
57471884 AA
1 AA
57471886 GAGGAAAAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
5 5 0.12
6 24 0.59
7 12 0.29
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:57471856 original size:17 final size:17
Alignment explanation
Indices: 57471836--57471896 Score: 67
Period size: 17 Copynumber: 3.8 Consensus size: 17
57471826 GATGATGGAA
57471836 AAAAGGAAAAGAAAAAG
1 AAAAGGAAAAGAAAAAG
*
57471853 AAAAGAAAAAGAAAAAG
1 AAAAGGAAAAGAAAAAG
57471870 -AAA-G--AAGAAAGAAG
1 AAAAGGAAAAGAAA-AAG
*
57471884 AAGAGGAAAAGAA
1 AAAAGGAAAAGAA
57471897 GAGGCCAAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
13 6 0.17
14 3 0.08
15 2 0.06
16 4 0.11
17 16 0.44
18 5 0.14
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (17 bp):
AAAAGGAAAAGAAAAAG
Found at i:57473188 original size:44 final size:44
Alignment explanation
Indices: 57473140--57473433 Score: 419
Period size: 44 Copynumber: 6.7 Consensus size: 44
57473130 ACAAAATTTT
* * *
57473140 TCTCCTTGGTCAGCAGTGGAATATGTTGAAAATTGTAAATCCTA
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAATCCTA
* * *
57473184 TCTCCCTGGTCAGCAGTGGAATAGGCTGAAGAGTGTAAGTCCTA
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAATCCTA
* * * *
57473228 TTTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTATGAATCTTA
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAATCCTA
57473272 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAATCCTA
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAATCCTA
* * *
57473316 TCTCTCTGGTCAGCAATGGAATAGGTTGAAGATTGTAAGTCCTA
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAATCCTA
* *
57473360 TCTCCCTGGTCAGCAGTGAAATAGGTTGAAGATTGTGAATCCTA
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAATCCTA
* *
57473404 TCTCCCTGAG-CAACAGTGGAGTAGGTTGAA
1 TCTCCCTG-GTCAGCAGTGGAATAGGTTGAA
57473434 AGTAGCAGAT
Statistics
Matches: 221, Mismatches: 28, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
44 220 1.00
45 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (44 bp):
TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAATCCTA
Found at i:57473555 original size:50 final size:50
Alignment explanation
Indices: 57473487--57473604 Score: 112
Period size: 50 Copynumber: 2.4 Consensus size: 50
57473477 AAGACATCAG
* * * * *
57473487 TCTTATCGCCTTGACGTTGCA-CTGGAAAAGATTGAAGTCACAATGGCAAA
1 TCTTATCTCCCTGGCGTTGCAGC-GGAAAAGATTGAAGCCACAACGGCAAA
* * ** * **
57473537 TCTTATTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCACGACGGTGAA
1 TCTTATCTCCCTGGCGTTGCAGCGGAAAAGATTGAAGCCACAACGGCAAA
57473587 TCTTATCTCCCTGGCGTT
1 TCTTATCTCCCTGGCGTT
57473605 AAGGCTTGGA
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
50 53 0.98
51 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.29
Consensus pattern (50 bp):
TCTTATCTCCCTGGCGTTGCAGCGGAAAAGATTGAAGCCACAACGGCAAA
Found at i:57473859 original size:44 final size:45
Alignment explanation
Indices: 57473797--57473907 Score: 156
Period size: 44 Copynumber: 2.5 Consensus size: 45
57473787 AAAGATGACG
*
57473797 AATCTTATCTC-CATGAAGTTGCAATGGAGCAGATTAAAGCCA-AT
1 AATCTTATCTCTC-TGAAGTTGCAATGGAGCAGATTAAAACCACAT
* * *
57473841 AATCCTATCTCTCTGAAGTTGCAATGGAGCGGATTAAAATCACAT
1 AATCTTATCTCTCTGAAGTTGCAATGGAGCAGATTAAAACCACAT
57473886 -ATCTTATCTCTCTGAAGTTGCA
1 AATCTTATCTCTCTGAAGTTGCA
57473908 GAGAACAGAT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
44 57 0.95
45 3 0.05
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (45 bp):
AATCTTATCTCTCTGAAGTTGCAATGGAGCAGATTAAAACCACAT
Found at i:57474049 original size:45 final size:45
Alignment explanation
Indices: 57473925--57474049 Score: 196
Period size: 45 Copynumber: 2.8 Consensus size: 45
57473915 GATCATATCT
* *
57473925 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA
*
57473970 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAATCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA
* * *
57474015 AGTCTTATCCCCCTGAAATTGCAGTGGGGCAGACT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
57474050 AAATAAACAA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
45 74 1.00
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (45 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA
Found at i:57474623 original size:19 final size:19
Alignment explanation
Indices: 57474599--57474652 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
57474589 AATCTTCAAG
57474599 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
57474618 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
57474637 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
57474653 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:57474628 original size:36 final size:36
Alignment explanation
Indices: 57474588--57474659 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 36
57474578 TATGGAAACA
57474588 TAATCTT-CA-AGGATATGCAATCTTAGATATGATATG
1 TAATCTTACATAGGATATGCAATCTTAGA-A-GATATG
* *
57474624 TAATCTTAGATATGATATGCAATCTTAGAAGATATG
1 TAATCTTACATAGGATATGCAATCTTAGAAGATATG
57474660 ATTTTGTCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 13 0.41
37 2 0.06
38 17 0.53
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (36 bp):
TAATCTTACATAGGATATGCAATCTTAGAAGATATG
Found at i:57477027 original size:29 final size:29
Alignment explanation
Indices: 57476937--57477014 Score: 147
Period size: 29 Copynumber: 2.7 Consensus size: 29
57476927 TTTGATATCT
57476937 AAAATAAAAAAACTAAATTCCTGAAAATA
1 AAAATAAAAAAACTAAATTCCTGAAAATA
*
57476966 AAAATAAAAAAATTAAATTCCTGAAAATA
1 AAAATAAAAAAACTAAATTCCTGAAAATA
57476995 AAAATAAAAAAACTAAATTC
1 AAAATAAAAAAACTAAATTC
57477015 TAAATGTTCA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.67, C:0.09, G:0.03, T:0.22
Consensus pattern (29 bp):
AAAATAAAAAAACTAAATTCCTGAAAATA
Found at i:57481240 original size:50 final size:50
Alignment explanation
Indices: 57481165--57481295 Score: 190
Period size: 50 Copynumber: 2.6 Consensus size: 50
57481155 CATTTGGGTA
* *
57481165 AAGAGGTCCCATGTAAGACCATGTCTGGTACATGGCGTTGGCACCGAGAT
1 AAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* *
57481215 AAGAGGTCTTATGTAAGACTATGTCTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* ** *
57481265 GAGAACTCTCATGTAAGACCATATCTGGGAC
1 AAGAGGTCTCATGTAAGACCATGTCTGGGAC
57481296 CATGTAAGAC
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 71 1.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (50 bp):
AAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
Found at i:57481302 original size:22 final size:22
Alignment explanation
Indices: 57481274--57481317 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
57481264 TGAGAACTCT
57481274 CATGTAAGACCATATCTGGGAC
1 CATGTAAGACCATATCTGGGAC
* *
57481296 CATGTAAGACCATGTTTGGGAC
1 CATGTAAGACCATATCTGGGAC
57481318 ATGGCTTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (22 bp):
CATGTAAGACCATATCTGGGAC
Found at i:57485692 original size:27 final size:27
Alignment explanation
Indices: 57485662--57485996 Score: 245
Period size: 27 Copynumber: 12.4 Consensus size: 27
57485652 TAAAGTGACC
57485662 GAAATACCCTCGATGGGTAAAATTACT
1 GAAATACCCTCGATGGGTAAAATTACT
* *
57485689 GAAATACTCTCGATGGGTAAAATTATT
1 GAAATACCCTCGATGGGTAAAATTACT
* * *
57485716 GAAATACCCT-TATAGGGTAAAGTTAAT
1 GAAATACCCTCGAT-GGGTAAAATTACT
* * *
57485743 CGAAATACCCTTGAAGGGTAAAATTACC
1 -GAAATACCCTCGATGGGTAAAATTACT
*
57485771 GAAATACCCTCGACGGGTAAAATTA-T
1 GAAATACCCTCGATGGGTAAAATTACT
* * *
57485797 CGAAATACCCT-TATAGGATAAAATTACC
1 -GAAATACCCTCGAT-GGGTAAAATTACT
* **
57485825 GAAATACCCTCAAAAGGTAAAATTA-T
1 GAAATACCCTCGATGGGTAAAATTACT
* * ** *
57485851 CAAATACCCTTGACAGGTAAAATTATT
1 GAAATACCCTCGATGGGTAAAATTACT
* *
57485878 GAAATACCCTTGATAGGTAAAATTA-T
1 GAAATACCCTCGATGGGTAAAATTACT
57485904 CGAAATACCCTC-ATAGGGTAAAATTAC-
1 -GAAATACCCTCGAT-GGGTAAAATTACT
* * * *
57485931 CAACATACCC-CTAAAGGGTAAAATTACC
1 GAA-ATACCCTC-GATGGGTAAAATTACT
* * * * *
57485959 AAAATACCCCCAAAGGGTAAAATGACT
1 GAAATACCCTCGATGGGTAAAATTACT
*
57485986 AAAATAACCCT
1 GAAAT-ACCCT
57485997 ATAAGGTAAA
Statistics
Matches: 254, Mismatches: 37, Indels: 33
0.78 0.11 0.10
Matches are distributed among these distances:
26 30 0.12
27 194 0.76
28 29 0.11
29 1 0.00
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (27 bp):
GAAATACCCTCGATGGGTAAAATTACT
Found at i:57485720 original size:54 final size:54
Alignment explanation
Indices: 57485650--57485981 Score: 291
Period size: 54 Copynumber: 6.1 Consensus size: 54
57485640 TGTCAATTGT
* * *
57485650 GGTAAAGTGACCGAAATACCCTCGATGGGTAAAATTA-CTGAAATACTCTCGATG
1 GGTAAAATTACCGAAATACCCTCGATGGGTAAAATTATC-GAAATACCCTCGATG
** * * * *
57485704 GGTAAAATTATTGAAATACCCT-TATAGGGTAAAGTTAATCGAAATACCCTTGAAG
1 GGTAAAATTACCGAAATACCCTCGAT-GGGTAAAATT-ATCGAAATACCCTCGATG
* *
57485759 GGTAAAATTACCGAAATACCCTCGACGGGTAAAATTATCGAAATACCCT-TATAG
1 GGTAAAATTACCGAAATACCCTCGATGGGTAAAATTATCGAAATACCCTCGAT-G
* * ** * **
57485813 GATAAAATTACCGAAATACCCTCAAAAGGTAAAATTATC-AAATACCCTTGACA
1 GGTAAAATTACCGAAATACCCTCGATGGGTAAAATTATCGAAATACCCTCGATG
** * *
57485866 GGTAAAATTATTGAAATACCCTTGATAGGTAAAATTATCGAAATACCCTC-ATAG
1 GGTAAAATTACCGAAATACCCTCGATGGGTAAAATTATCGAAATACCCTCGAT-G
* * * * * * *
57485920 GGTAAAATTACC-AACATACCC-CTAAAGGGTAAAATTACCAAAATACCCCCAAAG
1 GGTAAAATTACCGAA-ATACCCTC-GATGGGTAAAATTATCGAAATACCCTCGATG
57485974 GGTAAAAT
1 GGTAAAAT
57485982 GACTAAAATA
Statistics
Matches: 225, Mismatches: 42, Indels: 22
0.78 0.15 0.08
Matches are distributed among these distances:
53 48 0.21
54 132 0.59
55 43 0.19
56 2 0.01
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (54 bp):
GGTAAAATTACCGAAATACCCTCGATGGGTAAAATTATCGAAATACCCTCGATG
Found at i:57485763 original size:82 final size:81
Alignment explanation
Indices: 57485661--57485930 Score: 366
Period size: 82 Copynumber: 3.3 Consensus size: 81
57485651 GTAAAGTGAC
* * *
57485661 CGAAATACCCTCGATGGGTAAAATTACTGAAATACTCTCGATGGGTAAAATTATTGAAATACCCT
1 CGAAATACCCTCGAAGGGTAAAATTACTGAAATACCCTCGACGGGTAAAATTATTGAAATACCCT
*
57485726 TATAGGGTAAAGTTAAT
66 TATAGGGTAAAATT-AT
* * *
57485743 CGAAATACCCTTGAAGGGTAAAATTACCGAAATACCCTCGACGGGTAAAATTATCGAAATACCCT
1 CGAAATACCCTCGAAGGGTAAAATTACTGAAATACCCTCGACGGGTAAAATTATTGAAATACCCT
* *
57485808 TATAGGATAAAATTAC
66 TATAGGGTAAAATTAT
* * * * *
57485824 CGAAATACCCTCAAAAGGTAAAATTA-TCAAATACCCTTGACAGGTAAAATTATTGAAATACCCT
1 CGAAATACCCTCGAAGGGTAAAATTACTGAAATACCCTCGACGGGTAAAATTATTGAAATACCCT
57485888 TGATA-GGTAAAATTAT
66 T-ATAGGGTAAAATTAT
57485904 CGAAATACCCTC-ATAGGGTAAAATTAC
1 CGAAATACCCTCGA-AGGGTAAAATTAC
57485931 CAACATACCC
Statistics
Matches: 165, Mismatches: 20, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
79 1 0.01
80 66 0.40
81 27 0.16
82 71 0.43
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.26
Consensus pattern (81 bp):
CGAAATACCCTCGAAGGGTAAAATTACTGAAATACCCTCGACGGGTAAAATTATTGAAATACCCT
TATAGGGTAAAATTAT
Found at i:57485902 original size:107 final size:108
Alignment explanation
Indices: 57485650--57485981 Score: 379
Period size: 107 Copynumber: 3.1 Consensus size: 108
57485640 TGTCAATTGT
* * *
57485650 GGTAAAGTGACCGAAATACCCTCGATGGGTAAAATTA-CTGAAATACTCTCGAT-GGGTAAAATT
1 GGTAAAATTACCGAAATACCCTCGATGGGTAAAATTATC-GAAATACCCTC-ATAGGGTAAAATT
** * * * *
57485713 ATTGAAATACCCTTATAGGGTAAAGTTAATCGAAATACCCTTGAAG
64 ACCGAAATACCCTCAAAGGGTAAAATT-ATCAAAATACCCTTGAAG
* * *
57485759 GGTAAAATTACCGAAATACCCTCGACGGGTAAAATTATCGAAATACCCTTATAGGATAAAATTAC
1 GGTAAAATTACCGAAATACCCTCGATGGGTAAAATTATCGAAATACCCTCATAGGGTAAAATTAC
*
57485824 CGAAATACCCTCAAAAGGTAAAATTATC-AAATACCCTTGACA-
66 CGAAATACCCTCAAAGGGTAAAATTATCAAAATACCCTTGA-AG
** * *
57485866 GGTAAAATTATTGAAATACCCTTGATAGGTAAAATTATCGAAATACCCTCATAGGGTAAAATTAC
1 GGTAAAATTACCGAAATACCCTCGATGGGTAAAATTATCGAAATACCCTCATAGGGTAAAATTAC
* ***
57485931 C-AACATACCC-CTAAAGGGTAAAATTACCAAAATACCCCCAAAG
66 CGAA-ATACCCTC-AAAGGGTAAAATTATCAAAATACCCTTGAAG
57485974 GGTAAAAT
1 GGTAAAAT
57485982 GACTAAAATA
Statistics
Matches: 192, Mismatches: 24, Indels: 15
0.83 0.10 0.06
Matches are distributed among these distances:
106 3 0.02
107 92 0.48
108 23 0.12
109 73 0.38
110 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (108 bp):
GGTAAAATTACCGAAATACCCTCGATGGGTAAAATTATCGAAATACCCTCATAGGGTAAAATTAC
CGAAATACCCTCAAAGGGTAAAATTATCAAAATACCCTTGAAG
Found at i:57485997 original size:54 final size:54
Alignment explanation
Indices: 57485892--57486008 Score: 146
Period size: 54 Copynumber: 2.2 Consensus size: 54
57485882 TACCCTTGAT
* * * * * * *
57485892 AGGTAAAATTATCGAAATACCCTCATAGGGTAAAATTACCAACATACCCCTA-A
1 AGGTAAAATTACCAAAATACCCCCAAAGGGTAAAATGACCAAAATAACCCTATA
*
57485945 AGGGTAAAATTACCAAAATACCCCCAAAGGGTAAAATGACTAAAATAACCCTATA
1 A-GGTAAAATTACCAAAATACCCCCAAAGGGTAAAATGACCAAAATAACCCTATA
57486000 AGGTAAAAT
1 AGGTAAAAT
57486009 GACTTGTTCT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
53 1 0.02
54 51 0.94
55 2 0.04
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.21
Consensus pattern (54 bp):
AGGTAAAATTACCAAAATACCCCCAAAGGGTAAAATGACCAAAATAACCCTATA
Found at i:57486012 original size:27 final size:27
Alignment explanation
Indices: 57485918--57486011 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 27
57485908 ATACCCTCAT
* * *
57485918 AGGGTAAAATTACCAACATACCCCTAA
1 AGGGTAAAATGACCAAAATAACCCTAA
* * *
57485945 AGGGTAAAATTACCAAAATACCCCCAA
1 AGGGTAAAATGACCAAAATAACCCTAA
*
57485972 AGGGTAAAATGACTAAAATAACCCTATA
1 AGGGTAAAATGACCAAAATAACCCTA-A
57486000 A-GGTAAAATGAC
1 AGGGTAAAATGAC
57486012 TTGTTCTATG
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 58 0.97
28 2 0.03
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.18
Consensus pattern (27 bp):
AGGGTAAAATGACCAAAATAACCCTAA
Found at i:57486182 original size:26 final size:26
Alignment explanation
Indices: 57486147--57486248 Score: 125
Period size: 26 Copynumber: 3.9 Consensus size: 26
57486137 TTACCACAAA
*
57486147 TACTGTTACTAGCAGCTTTACTGCGT
1 TACTGATACTAGCAGCTTTACTGCGT
* *
57486173 TACTGATACTGGCAGCTCTACTGCGT
1 TACTGATACTAGCAGCTTTACTGCGT
* * *
57486199 TACTGTTACTAGCAACTTTGCTGCGT
1 TACTGATACTAGCAGCTTTACTGCGT
*
57486225 TACT-ATTACTGGCAGCTTTACTGC
1 TACTGA-TACTAGCAGCTTTACTGC
57486249 AATATTGGTG
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
26 63 1.00
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.36
Consensus pattern (26 bp):
TACTGATACTAGCAGCTTTACTGCGT
Found at i:57486209 original size:52 final size:52
Alignment explanation
Indices: 57486147--57486248 Score: 161
Period size: 52 Copynumber: 2.0 Consensus size: 52
57486137 TTACCACAAA
*
57486147 TACTGTTACTAGCAGCTTTACTGCGTTACTGA-TACTGGCAGCTCTACTGCGT
1 TACTGTTACTAGCAACTTTACTGCGTTACT-ATTACTGGCAGCTCTACTGCGT
* *
57486199 TACTGTTACTAGCAACTTTGCTGCGTTACTATTACTGGCAGCTTTACTGC
1 TACTGTTACTAGCAACTTTACTGCGTTACTATTACTGGCAGCTCTACTGC
57486249 AATATTGGTG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 1 0.02
52 45 0.98
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.36
Consensus pattern (52 bp):
TACTGTTACTAGCAACTTTACTGCGTTACTATTACTGGCAGCTCTACTGCGT
Found at i:57491612 original size:20 final size:21
Alignment explanation
Indices: 57491587--57491627 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
57491577 TTACCGAATT
57491587 CTCTCTTCCCATC-TCTTCTC
1 CTCTCTTCCCATCTTCTTCTC
**
57491607 CTCTCTTTTCATCTTCTTCTC
1 CTCTCTTCCCATCTTCTTCTC
57491628 TTTTTTTTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.05, C:0.44, G:0.00, T:0.51
Consensus pattern (21 bp):
CTCTCTTCCCATCTTCTTCTC
Found at i:57492343 original size:27 final size:27
Alignment explanation
Indices: 57492300--57492630 Score: 249
Period size: 27 Copynumber: 12.3 Consensus size: 27
57492290 TGCAAATTAT
*
57492300 GGTAAAATGATCGAAATACCCTCGATG
1 GGTAAAATTATCGAAATACCCTCGATG
* * *
57492327 GGTAAAATTATCAAAATACCCTCTAAG
1 GGTAAAATTATCGAAATACCCTCGATG
* * *
57492354 GGT-AAATTACCGAAGTACCCTCAATG
1 GGTAAAATTATCGAAATACCCTCGATG
* *
57492380 GGTAAAATTATTGAAATACCCTC-ATAA
1 GGTAAAATTATCGAAATACCCTCGAT-G
* * * *
57492407 GGTAAAGTTATCGAGATACCCTTGAAG
1 GGTAAAATTATCGAAATACCCTCGATG
* *
57492434 GGTAGAATTGTCGAAATACCCTC-ATGG
1 GGTAAAATTATCGAAATACCCTCGAT-G
* * * **
57492461 GGTAAAATTACCGAAATACCTTTGAAA
1 GGTAAAATTATCGAAATACCCTCGATG
* * **
57492488 CGTAAAATTATCGAAATACCCTTGACA
1 GGTAAAATTATCGAAATACCCTCGATG
* * *
57492515 AGTAAAATTACCAAAATACCCTCGATG
1 GGTAAAATTATCGAAATACCCTCGATG
* *
57492542 GGTAAAATTATTGAAATACCC-CTATAG
1 GGTAAAATTATCGAAATACCCTCGAT-G
* * *
57492569 GGTAAAATT-GCTGAAATACCCTTGAAG
1 GGTAAAATTATC-GAAATACCCTCGATG
* * * * * *
57492596 GGTAAAATGACCAAAATACCCCCAAAG
1 GGTAAAATTATCGAAATACCCTCGATG
57492623 GGTAAAAT
1 GGTAAAAT
57492631 GACTAAAATA
Statistics
Matches: 237, Mismatches: 58, Indels: 18
0.76 0.19 0.06
Matches are distributed among these distances:
26 27 0.11
27 206 0.87
28 4 0.02
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.24
Consensus pattern (27 bp):
GGTAAAATTATCGAAATACCCTCGATG
Found at i:57492359 original size:54 final size:55
Alignment explanation
Indices: 57492300--57492630 Score: 302
Period size: 54 Copynumber: 6.1 Consensus size: 55
57492290 TGCAAATTAT
* * * *
57492300 GGTAAAATGATCGAAATACCCTCGATGGGTAAAATTATCAAAATACCCTCTA-AG
1 GGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTATCGAAATACCCTCTATAG
* * *
57492354 GGT-AAATTACCGAAGTACCCTC-AATGGGTAAAATTATTGAAATACCCTC-ATAA
1 GGTAAAATTACCGAAATACCCTCGAA-GGGTAAAATTATCGAAATACCCTCTATAG
* * * * * * *
57492407 GGTAAAGTTATCGAGATACCCTTGAAGGGTAGAATTGTCGAAATACCCTC-ATGG
1 GGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTATCGAAATACCCTCTATAG
* * ** *
57492461 GGTAAAATTACCGAAATACCTTTGAAACGTAAAATTATCGAAATACCCT-TGACA-
1 GGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTATCGAAATACCCTCT-ATAG
* * * *
57492515 AGTAAAATTACCAAAATACCCTCGATGGGTAAAATTATTGAAATACCC-CTATAG
1 GGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTATCGAAATACCCTCTATAG
* * * * * * * *
57492569 GGTAAAATTGCTGAAATACCCTTGAAGGGTAAAATGACCAAAATACCC-CCAAAG
1 GGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTATCGAAATACCCTCTATAG
57492623 GGTAAAAT
1 GGTAAAAT
57492631 GACTAAAATA
Statistics
Matches: 221, Mismatches: 48, Indels: 16
0.78 0.17 0.06
Matches are distributed among these distances:
52 2 0.01
53 44 0.20
54 172 0.78
55 3 0.01
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.24
Consensus pattern (55 bp):
GGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTATCGAAATACCCTCTATAG
Found at i:57492493 original size:81 final size:80
Alignment explanation
Indices: 57492300--57492657 Score: 300
Period size: 81 Copynumber: 4.4 Consensus size: 80
57492290 TGCAAATTAT
* * ** *
57492300 GGTAAAATGATCGAAATACCCTCGAT-GGGTAAAATTATCAAAATACCCTCT-AAGGGTAAATTA
1 GGTAAAATTATTGAAATACCCTC-ATAACGTAAAATTATCGAAATACCCT-TGAAGGGTAAATTA
*
57492363 CCGAAGTACCCTCAATG
64 CCGAAATACCCTCAATG
* * * **
57492380 GGTAAAATTATTGAAATACCCTCATAAGGTAAAGTTATCGAGATACCCTTGAAGGGTAGAATTGT
1 GGTAAAATTATTGAAATACCCTCATAACGTAAAATTATCGAAATACCCTTGAAGGGTA-AATTAC
57492445 CGAAATACCCTC-ATGG
65 CGAAATACCCTCAAT-G
** * * *
57492461 GGTAAAATTACCGAAATACCTTTGA-AACGTAAAATTATCGAAATACCCTTGACA-AGTAAAATT
1 GGTAAAATTATTGAAATACC-CTCATAACGTAAAATTATCGAAATACCCTTGA-AGGGT-AAATT
* *
57492524 ACCAAAATACCCTCGATG
63 ACCGAAATACCCTCAATG
** * *
57492542 GGTAAAATTATTGAAATACCC-CTATAGGGTAAAATT-GCTGAAATACCCTTGAAGGGTAAAATG
1 GGTAAAATTATTGAAATACCCTC-ATAACGTAAAATTATC-GAAATACCCTTGAAGGGT-AAATT
* * *
57492605 ACCAAAATACCCCCAAAG
63 ACCGAAATACCCTCAATG
* * * *
57492623 GGTAAAATGACTAAAATAACCC-CATAAGGTAAAAT
1 GGTAAAATTATTGAAAT-ACCCTCATAACGTAAAAT
57492658 GACTGTTGTA
Statistics
Matches: 229, Mismatches: 36, Indels: 25
0.79 0.12 0.09
Matches are distributed among these distances:
79 3 0.01
80 52 0.23
81 163 0.71
82 11 0.05
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.24
Consensus pattern (80 bp):
GGTAAAATTATTGAAATACCCTCATAACGTAAAATTATCGAAATACCCTTGAAGGGTAAATTACC
GAAATACCCTCAATG
Found at i:57492631 original size:27 final size:27
Alignment explanation
Indices: 57492516--57492661 Score: 116
Period size: 27 Copynumber: 5.4 Consensus size: 27
57492506 CCCTTGACAA
* * * * *
57492516 GTAAAATTACCAAAATACCCTCGATGG
1 GTAAAATGACTAAAATACCCCCAAAGG
* * * * *
57492543 GTAAAATTATTGAAATACCCCTATAGG
1 GTAAAATGACTAAAATACCCCCAAAGG
* ***
57492570 GTAAAATTG-CTGAAATACCCTTGAAGG
1 GTAAAA-TGACTAAAATACCCCCAAAGG
*
57492597 GTAAAATGACCAAAATACCCCCAAAGG
1 GTAAAATGACTAAAATACCCCCAAAGG
*
57492624 GTAAAATGACTAAAATAACCCCATAA-G
1 GTAAAATGACTAAAATACCCCCA-AAGG
57492651 GTAAAATGACT
1 GTAAAATGACT
57492662 GTTGTACCCC
Statistics
Matches: 96, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
26 2 0.02
27 91 0.95
28 3 0.03
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.22
Consensus pattern (27 bp):
GTAAAATGACTAAAATACCCCCAAAGG
Found at i:57492886 original size:26 final size:26
Alignment explanation
Indices: 57492844--57492935 Score: 96
Period size: 26 Copynumber: 3.5 Consensus size: 26
57492834 ACTGCTATTA
** *
57492844 GCAGCTTTGCTTTGTTATTGATACTG
1 GCAGCTTTGCTGCGTTACTGATACTG
* * *
57492870 GCAGCTTTGTTGCGTTACTGTTACTA
1 GCAGCTTTGCTGCGTTACTGATACTG
*
57492896 GTAGCTTTGCTGCGTTACT-ATTACTG
1 GCAGCTTTGCTGCGTTACTGA-TACTG
*
57492922 GTAGCTTTGCTGCG
1 GCAGCTTTGCTGCG
57492936 ATATTGGTAT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.14, C:0.18, G:0.25, T:0.42
Consensus pattern (26 bp):
GCAGCTTTGCTGCGTTACTGATACTG
Found at i:57493095 original size:28 final size:29
Alignment explanation
Indices: 57493052--57493124 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 29
57493042 GATTATTATT
* *
57493052 TTGGGCTAAGGTCCAC-ATTGTTACTGTA
1 TTGGGCTAAGGCCCACAATTGCTACTGTA
57493080 TTGGGCTAAGGCCCACATATTGCTACTGTA
1 TTGGGCTAAGGCCCACA-ATTGCTACTGTA
* *
57493110 TAGGGCTCAGGCCCA
1 TTGGGCTAAGGCCCA
57493125 AACTGATTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 15 0.38
30 24 0.62
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (29 bp):
TTGGGCTAAGGCCCACAATTGCTACTGTA
Found at i:57498459 original size:36 final size:35
Alignment explanation
Indices: 57498401--57498479 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 35
57498391 AAGCCCTCCA
* * *
57498401 AAACACACCAATGCTTATAAGAGCTAGTCCAACCG
1 AAACACACAAATGCTTAAAAGAGCTAATCCAACCG
**
57498436 AAACACACAAGATGCTTAAAAGAGCTAATCCCTCCG
1 AAACACACAA-ATGCTTAAAAGAGCTAATCCAACCG
57498472 AAACACAC
1 AAACACAC
57498480 CAAACAGAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
35 9 0.24
36 29 0.76
ACGTcount: A:0.43, C:0.29, G:0.13, T:0.15
Consensus pattern (35 bp):
AAACACACAAATGCTTAAAAGAGCTAATCCAACCG
Found at i:57508343 original size:17 final size:17
Alignment explanation
Indices: 57508317--57508354 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
57508307 GTAATTCGCG
57508317 TAAATGATCAGA-TCACA
1 TAAATGATCA-ATTCACA
*
57508334 TAAATTATCAATTCACA
1 TAAATGATCAATTCACA
57508351 TAAA
1 TAAA
57508355 ATATATGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 1 0.05
17 18 0.95
ACGTcount: A:0.50, C:0.16, G:0.05, T:0.29
Consensus pattern (17 bp):
TAAATGATCAATTCACA
Found at i:57516289 original size:45 final size:45
Alignment explanation
Indices: 57516225--57516343 Score: 130
Period size: 45 Copynumber: 2.6 Consensus size: 45
57516215 TTGGCTTAAA
* * * * *
57516225 GGAAATGATTAAGACCATAGTTAAAAGATACTATGACACTATATC
1 GGAAATAAATAAGACCATAGTTAAAAGACACTATGACACCATACC
* *
57516270 GGAAATAAATAAGACCATAGTTGAAAGACACTATGGCACCATACC
1 GGAAATAAATAAGACCATAGTTAAAAGACACTATGACACCATACC
* * * * *
57516315 AGAAACAAGTAAGACCATAGCTGAAAGAC
1 GGAAATAAATAAGACCATAGTTAAAAGAC
57516344 GTTATGGCAT
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.46, C:0.17, G:0.18, T:0.19
Consensus pattern (45 bp):
GGAAATAAATAAGACCATAGTTAAAAGACACTATGACACCATACC
Found at i:57516419 original size:45 final size:45
Alignment explanation
Indices: 57516328--57516434 Score: 135
Period size: 45 Copynumber: 2.4 Consensus size: 45
57516318 AACAAGTAAG
* * * **
57516328 ACCATAGCTGAAAGACGTTATGGCATCATAATTCTAATGAGTAAA
1 ACCATAGCTGAAAGACGTCATGGCATCATAATTCAAACGAACAAA
*
57516373 ACTATAGCTGAAAGACGTCATGGCATCATGAA-TCAAACGAACAAA
1 ACCATAGCTGAAAGACGTCATGGCATCAT-AATTCAAACGAACAAA
*
57516418 ACCATAGTTGAAAGACG
1 ACCATAGCTGAAAGACG
57516435 CTATGGAAAC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
45 51 0.96
46 2 0.04
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.21
Consensus pattern (45 bp):
ACCATAGCTGAAAGACGTCATGGCATCATAATTCAAACGAACAAA
Found at i:57518760 original size:18 final size:18
Alignment explanation
Indices: 57518737--57518779 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
57518727 TTTCAGGTAA
57518737 AACCGAATT-AATTCGGTT
1 AACCG-ATTGAATTCGGTT
57518755 AACCGATTGAATTCGGTT
1 AACCGATTGAATTCGGTT
*
57518773 AATCGAT
1 AACCGAT
57518780 CGGTTAACCG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (18 bp):
AACCGATTGAATTCGGTT
Found at i:57520173 original size:6 final size:6
Alignment explanation
Indices: 57520162--57520188 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
57520152 CAATTCAATA
57520162 AAAATT AAAATT AAAATT AAAATT AAA
1 AAAATT AAAATT AAAATT AAAATT AAA
57520189 GGTCCCTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (6 bp):
AAAATT
Found at i:57525221 original size:16 final size:16
Alignment explanation
Indices: 57525200--57525254 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
57525190 GTTTGGTTCA
57525200 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
*
57525216 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
*
57525232 CTGTAATGGAATAGAA
1 CTGTAATGGAATAGAG
57525248 CTGTAAT
1 CTGTAAT
57525255 AGTAATTCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.29
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:57525327 original size:44 final size:44
Alignment explanation
Indices: 57525236--57525362 Score: 211
Period size: 44 Copynumber: 2.9 Consensus size: 44
57525226 ATAGAGCTGT
*
57525236 AATGGAATAGAACTGTAATAGTAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGT-ATTC-TTGTGTTTGGTTGAATGG
*
57525281 AATGAAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAATGG
57525325 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTT
1 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTT
57525363 AGCATGAGAA
Statistics
Matches: 78, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
43 1 0.01
44 56 0.72
45 21 0.27
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.39
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAATGG
Found at i:57525556 original size:17 final size:18
Alignment explanation
Indices: 57525510--57525545 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
57525500 TTATTATTAA
57525510 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
57525528 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
57525546 TTTAATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:57525580 original size:55 final size:55
Alignment explanation
Indices: 57525464--57525580 Score: 137
Period size: 56 Copynumber: 2.1 Consensus size: 55
57525454 GATTATTAAT
* * *
57525464 ATAAATAATAAATAATTTAATCATATTTTAACATAGTTATTATTAAATATAATTTA
1 ATAAA-AATAAATAATTTAATAAAATTTTAACATAATTATTATTAAATATAATTTA
* * * *
57525520 ATAAAAATATATAATTTAATAAAAATTTTAATATAATTATTCTTATATA-AATTTA
1 ATAAAAATAAATAATTTAAT-AAAATTTTAACATAATTATTATTAAATATAATTTA
*
57525575 CTAAAA
1 ATAAAA
57525581 TCATTGTACA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
55 25 0.48
56 27 0.52
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (55 bp):
ATAAAAATAAATAATTTAATAAAATTTTAACATAATTATTATTAAATATAATTTA
Found at i:57525630 original size:18 final size:18
Alignment explanation
Indices: 57525607--57525653 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
57525597 AATATGCCCG
*
57525607 GGCCCAAACTAATAAATA
1 GGCCCAAACTAATAAACA
* *
57525625 GGCCCAAACCATTAAACA
1 GGCCCAAACTAATAAACA
*
57525643 AGCCCAAACTA
1 GGCCCAAACTA
57525654 TCTCAAGCCC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.30, G:0.11, T:0.13
Consensus pattern (18 bp):
GGCCCAAACTAATAAACA
Found at i:57526064 original size:16 final size:16
Alignment explanation
Indices: 57526033--57526065 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
57526023 TTATTCTTAG
57526033 TTTCGTTTTGTAATTT
1 TTTCGTTTTGTAATTT
57526049 TTTCTGTTTTGT-ATTT
1 TTTC-GTTTTGTAATTT
57526065 T
1 T
57526066 ATTTTTCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.09, C:0.06, G:0.12, T:0.73
Consensus pattern (16 bp):
TTTCGTTTTGTAATTT
Found at i:57526656 original size:3 final size:3
Alignment explanation
Indices: 57526650--57526693 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
57526640 AGTTTTTTTA
57526650 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
57526694 CCCTTACTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:57528860 original size:13 final size:13
Alignment explanation
Indices: 57528842--57528867 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57528832 AAAGAGATTT
57528842 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
57528855 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
57528868 AAATTGAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
GTTTTCTAGTAAA
Found at i:57528937 original size:19 final size:20
Alignment explanation
Indices: 57528900--57528939 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
57528890 TCTTTTCGCA
* *
57528900 TTCATTTCATGCATTTGCAT
1 TTCATTACATGCATATGCAT
57528920 TTCATTACAT-CATATGCAT
1 TTCATTACATGCATATGCAT
57528939 T
1 T
57528940 AGACACCGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.47
Consensus pattern (20 bp):
TTCATTACATGCATATGCAT
Found at i:57531747 original size:14 final size:13
Alignment explanation
Indices: 57531728--57531768 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
57531718 AGTGATGTGA
57531728 AAAATGAAAAGATG
1 AAAATGAAAA-ATG
57531742 AAAATGAAAAATG
1 AAAATGAAAAATG
*
57531755 AAAAGGTAAAAATG
1 AAAATG-AAAAATG
57531769 GAAAGGCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 8 0.32
14 17 0.68
ACGTcount: A:0.66, C:0.00, G:0.20, T:0.15
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:57531748 original size:6 final size:7
Alignment explanation
Indices: 57531725--57531758 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
57531715 AGAAGTGATG
57531725 TGAAAAA
1 TGAAAAA
57531732 TGAAAAGA
1 TGAAAA-A
57531740 TG-AAAA
1 TGAAAAA
57531746 TGAAAAA
1 TGAAAAA
57531753 TGAAAA
1 TGAAAA
57531759 GGTAAAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 3 0.12
7 19 0.76
8 3 0.12
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.15
Consensus pattern (7 bp):
TGAAAAA
Found at i:57531751 original size:21 final size:21
Alignment explanation
Indices: 57531725--57531768 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
57531715 AGAAGTGATG
*
57531725 TGAAAAATGAAAAGATGAAAA
1 TGAAAAATGAAAAGATAAAAA
*
57531746 TGAAAAATGAAAAGGTAAAAA
1 TGAAAAATGAAAAGATAAAAA
57531767 TG
1 TG
57531769 GAAAGGCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.64, C:0.00, G:0.20, T:0.16
Consensus pattern (21 bp):
TGAAAAATGAAAAGATAAAAA
Found at i:57533074 original size:45 final size:45
Alignment explanation
Indices: 57533016--57533702 Score: 482
Period size: 45 Copynumber: 15.3 Consensus size: 45
57533006 GGAGTAGTAA
*
57533016 CAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCGAAGAAAG
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAATAGATCGAAGAAAG
* * *** * * *
57533061 CAGATATTATCTTCATGTACTGG-CGTGAAATAGATCAAAGATAA-
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAATAGATCGAAGA-AAG
* * *
57533105 CAGATCTTGCCTTCCCATACTGGTGACGAAACAGATCGAAGAAAG
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAATAGATCGAAGAAAG
* * *
57533150 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGATAG
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAATAGATCGAAGAAAG
* * * *
57533195 CAGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAA
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAATAGATCGAAGAAAG
*** *** * *
57533240 CAGATCTTGTCTTCATGTACTGG-CATGAAGTAGATCAAAGATAA-
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAATAGATCGAAGA-AAG
* *
57533284 CAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATAGAAGAAAG
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAATAGATCGAAGAAAG
*** *** * *
57533329 CAGATCTTGTCTTCATGTACTGG-CATGAAGTAGATCAAAGATAA-
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAATAGATCGAAGA-AAG
* *
57533373 CAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATAGAAGAAAG
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAATAGATCGAAGAAAG
*** * * * * * *
57533418 CAGATCTTGTCTTCATGTACTGG-CGTGAAGTTGATCAAAGGTAA-
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAATAGATCGAA-GAAAG
* * *
57533462 CAGATCTTATCTTTCCATACTGGTGGCGAAGTAGATCGAAAGAAAG
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAATAGATCG-AAGAAAG
* *** *** * *
57533508 CAAATCTTGTCTTCATGTACTGG-CATGAAGTAGATCAAAGATAA-
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAATAGATCGAAGA-AAG
* * **
57533552 CAGATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAGGAAAAAG
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAATAGATCGAA-G--AAAG
* * * *** * * * *
57533600 TAAAGCTTGTCTTCATGTATTGGT-GTGAAGTAGATCAAAGACAA-
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAATAGATCGAAGA-AAG
* * * *
57533644 CAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAGAA-
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAATAGATCGAAGA-AAG
57533689 CAGATCTTGTCTTC
1 CAGATCTTGTCTTC
57533703 ATGTATTGGC
Statistics
Matches: 491, Mismatches: 130, Indels: 42
0.74 0.20 0.06
Matches are distributed among these distances:
44 169 0.34
45 269 0.55
46 21 0.04
47 15 0.03
48 17 0.03
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.26
Consensus pattern (45 bp):
CAGATCTTGTCTTCCCATACTGGTGGCGAAATAGATCGAAGAAAG
Found at i:57533316 original size:179 final size:178
Alignment explanation
Indices: 57533013--57533740 Score: 974
Period size: 179 Copynumber: 4.1 Consensus size: 178
57533003 AGTGGAGTAG
* * *
57533013 TAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCGAAGAAAGCAGATATTATCTTCATG
1 TAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCGAAGAAAACAGATCTTGTCTTCATG
* * *
57533078 TACTGGCGTGAAATAGATCAAAGATAACAGATCTTGCCTTCCCATACTGGTGACGAAACAGATCG
66 TACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCG
*** ***
57533143 AAGAAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGA
131 AAGAAAGCAGATCTTGTCTTCATGTACTGG-CATGAAGTAGATCAAAGA
* * * **
57533192 TAGCAGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATG
1 TAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCGAAGAAAACAGATCTTGTCTTCATG
* *
57533257 TACTGGCATGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATAG
66 TACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCG
57533322 AAGAAAGCAGATCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGA
131 AAGAAAGCAGATCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGA
* *
57533370 TAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATAGAAGAAAGCAGATCTTGTCTTCATG
1 TAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCGAAGAAAACAGATCTTGTCTTCATG
* * * * **
57533435 TACTGGCGTGAAGTTGATCAAAGGTAACAGATCTTATCTTTCCATACTGGTGGCGAAGTAGATCG
66 TACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCG
*
57533500 AAAGAAAGCAAATCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGA
131 -AAGAAAGCAGATCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGA
* * * *
57533549 TAACAGATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAGGAAAA-AGTAAAGCTTGTCTT
1 TAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCGAA-GAAAACAG---ATCTTGTCTT
* * * * * * **
57533613 CATGTATTGGTGTGAAGTAGATCAAAGACAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAG
62 CATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAG
* * * *
57533678 ATCGAAGAGAA-CAGATCTTGTCTTCATGTATTGGCGTAAAGTAGATCGAAGA
127 ATCGAAGA-AAGCAGATCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGA
*
57533730 TTACAGATCTT
1 TAACAGATCTT
57533741 ATCTCCCTAA
Statistics
Matches: 486, Mismatches: 57, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
178 130 0.27
179 232 0.48
180 4 0.01
181 50 0.10
182 70 0.14
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (178 bp):
TAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCGAAGAAAACAGATCTTGTCTTCATG
TACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCG
AAGAAAGCAGATCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGA
Found at i:57533517 original size:268 final size:267
Alignment explanation
Indices: 57533013--57533744 Score: 1061
Period size: 268 Copynumber: 2.7 Consensus size: 267
57533003 AGTGGAGTAG
* *
57533013 TAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCGAAGAAAGCAGATATTATCTTCATG
1 TAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCGAAGAAAGCAGATCTTGTCTTCATG
* * *
57533078 TACTGGCGTGAAATAGATCAAAGATAACAGATCTTGCCTTCCCATACTGGTGACGAAACAGATCG
66 TACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCG
*** * * *
57533143 AAGAAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGATAGCAGATCTTATCTT
131 AAGAAAGCAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAACAGATCTTATCTT
* *
57533208 CCCATACTGGTGGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCATGAAGTAG
195 CCCATACTGGTGGCGAAGTAGATCGAAGAAAACAAATCTTGTCTTCATGTACTGGCATGAAGTAG
57533273 ATCAAAGA
260 ATCAAAGA
*
57533281 TAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATAGAAGAAAGCAGATCTTGTCTTCATG
1 TAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCGAAGAAAGCAGATCTTGTCTTCATG
* *
57533346 TACTGGCATGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATAG
66 TACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCG
* * *
57533411 AAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTTGATCAAAGGTAACAGATCTTATCTTT
131 AAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTATCTTC
*
57533476 CCATACTGGTGGCGAAGTAGATCGAAAGAAAGCAAATCTTGTCTTCATGTACTGGCATGAAGTAG
196 CCATACTGGTGGCGAAGTAGATCG-AAGAAAACAAATCTTGTCTTCATGTACTGGCATGAAGTAG
57533541 ATCAAAGA
260 ATCAAAGA
* * * * * *
57533549 TAACAGATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAGGAAAAAGTAAAGCTTGTCTTC
1 TAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCGAA-G--AAAGCAGATCTTGTCTTC
* * * * * * **
57533614 ATGTATTGGTGTGAAGTAGATCAAAGACAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGA
63 ATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGA
* * * *
57533679 TCGAAGAGAA-CAGATCTTGTCTTCATGTATTGGCGTAAAGTAGATCGAAGATTACAGATCTTAT
128 TCGAAGA-AAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTAT
57533743 CT
192 CT
57533745 CCCTAAACAG
Statistics
Matches: 416, Mismatches: 43, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
267 52 0.12
268 234 0.56
269 1 0.00
271 127 0.31
272 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (267 bp):
TAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCGAAGAAAGCAGATCTTGTCTTCATG
TACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCG
AAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTATCTTC
CCATACTGGTGGCGAAGTAGATCGAAGAAAACAAATCTTGTCTTCATGTACTGGCATGAAGTAGA
TCAAAGA
Found at i:57533747 original size:89 final size:89
Alignment explanation
Indices: 57533013--57533740 Score: 981
Period size: 89 Copynumber: 8.1 Consensus size: 89
57533003 AGTGGAGTAG
* * *
57533013 TAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCGAAGAAAGCAGATATTATCTTCATG
1 TAACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCTTCATG
*
57533078 TACTGGCGTGAAATAGATCAAAGA
66 TACTGGCGTGAAGTAGATCAAAGA
* * * ***
57533102 TAACAGATCTTGCCTTCCCATACTGGTGACGAAACAGATCGAAGAAAGCAGATCTTGTCTTCCCA
1 TAACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCTTCATG
* *
57533167 TACTGGTGGCGAAGTAGATCAAAGA
66 TACTGG-CGTGAAGTAGATCAAAGA
* * * * *
57533192 TAGCAGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATG
1 TAACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCTTCATG
*
57533257 TACTGGCATGAAGTAGATCAAAGA
66 TACTGGCGTGAAGTAGATCAAAGA
* *
57533281 TAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATAGAAGAAAGCAGATCTTGTCTTCATG
1 TAACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCTTCATG
*
57533346 TACTGGCATGAAGTAGATCAAAGA
66 TACTGGCGTGAAGTAGATCAAAGA
* *
57533370 TAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATAGAAGAAAGCAGATCTTGTCTTCATG
1 TAACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCTTCATG
* *
57533435 TACTGGCGTGAAGTTGATCAAAGG
66 TACTGGCGTGAAGTAGATCAAAGA
* * * *
57533459 TAACAGATCTTATCTTTCCATACTGGTGGCGAAGTAGATCGAAAGAAAGCAAATCTTGTCTTCAT
1 TAACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCG-AAGAAAGCAGATCTTGTCTTCAT
*
57533524 GTACTGGCATGAAGTAGATCAAAGA
65 GTACTGGCGTGAAGTAGATCAAAGA
* * * * *
57533549 TAACAGATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAGGAAAAAGTAAAGCTTGTCTTC
1 TAACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAA-G--AAAGCAGATCTTGTCTTC
* *
57533614 ATGTATTGGTGTGAAGTAGATCAAAGA
63 ATGTACTGGCGTGAAGTAGATCAAAGA
* * * * *
57533641 CAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAGAA-CAGATCTTGTCTTCAT
1 TAACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGA-AAGCAGATCTTGTCTTCAT
* * *
57533705 GTATTGGCGTAAAGTAGATCGAAGA
65 GTACTGGCGTGAAGTAGATCAAAGA
*
57533730 TTACAGATCTT
1 TAACAGATCTT
57533741 ATCTCCCTAA
Statistics
Matches: 567, Mismatches: 66, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
89 330 0.58
90 158 0.28
91 1 0.00
92 78 0.14
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (89 bp):
TAACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCTTCATG
TACTGGCGTGAAGTAGATCAAAGA
Found at i:57533878 original size:132 final size:132
Alignment explanation
Indices: 57533726--57534144 Score: 727
Period size: 132 Copynumber: 3.2 Consensus size: 132
57533716 AAGTAGATCG
*
57533726 AAGATTACAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAA-GATGGTAGATTTTACCTC
1 AAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-AAGGATGGTAGATTTTACCTC
*
57533790 CCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGA
65 CCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGA
57533855 TTA
130 TTA
*
57533858 AAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATGGCAGATTTTACCTCC
1 AAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATGGTAGATTTTACCTCC
*
57533923 CTGAGGTTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTGGGCAGCAGTGGAATAGAT
66 CTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGAT
*
57533988 TG
131 TA
*
57533990 AAGATTACAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATCAAGGAT-GTCAGATTTTACCTC
1 AAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATGGT-AGATTTTACCTC
57534054 CCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGA
65 CCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGA
*
57534119 TCA
130 TTA
57534122 AAGATTACAGAT-TCTATCTCCCT
1 AAGATTACAGATCT-TATCTCCCT
57534145 GGGCAGCAGT
Statistics
Matches: 274, Mismatches: 10, Indels: 6
0.94 0.03 0.02
Matches are distributed among these distances:
131 4 0.01
132 270 0.99
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (132 bp):
AAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATGGTAGATTTTACCTCC
CTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGAT
TA
Found at i:57534138 original size:176 final size:176
Alignment explanation
Indices: 57533956--57534320 Score: 669
Period size: 176 Copynumber: 2.1 Consensus size: 176
57533946 GAAGCCAATA
*
57533956 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTA
1 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTA
*
57534021 ATGGAGCAGATCAAGGATGTCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAG
66 ATGGAGCAGATCAAGGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAG
57534086 TAATTCTATCTCCCTGGGCAGCAGTGGAATAGATCAAAGATTACAG
131 TAATTCTATCTCCCTGGGCAGCAGTGGAATAGATCAAAGATTACAG
57534132 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTA
1 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTA
*
57534197 GTGGAGCAGATCAAGGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAG
66 ATGGAGCAGATCAAGGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAG
**
57534262 TAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAG
131 TAATTCTATCTCCCTGGGCAGCAGTGGAATAGATCAAAGATTACAG
57534308 ATAT-TATCTCCCT
1 AT-TCTATCTCCCT
57534321 AAGCAGTAGT
Statistics
Matches: 183, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
176 182 0.99
177 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (176 bp):
ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTA
ATGGAGCAGATCAAGGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAG
TAATTCTATCTCCCTGGGCAGCAGTGGAATAGATCAAAGATTACAG
Found at i:57534246 original size:308 final size:308
Alignment explanation
Indices: 57533824--57534452 Score: 1179
Period size: 308 Copynumber: 2.0 Consensus size: 308
57533814 GAAGCCAGTA
57533824 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTA
1 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTA
*
57533889 GTGGAGCAGATCAAGGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAA
66 GTGGAGCAGATCAAGGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAA
*
57533954 TAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAG
131 TAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATATTATCTCCCTAAGCAG
*
57534019 TAATGGAGCAGATCAAGGATGTCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCC
196 TAATGGAGCAGATCAAGGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCC
57534084 AGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATCAAAGATTACAG
261 AGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATCAAAGATTACAG
57534132 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTA
1 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTA
*
57534197 GTGGAGCAGATCAAGGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAG
66 GTGGAGCAGATCAAGGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAA
57534262 TAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATATTATCTCCCTAAGCAG
131 TAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATATTATCTCCCTAAGCAG
*
57534327 TAGTGGAGCAGATCAAGGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCC
196 TAATGGAGCAGATCAAGGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCC
**
57534392 AGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAG
261 AGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATCAAAGATTACAG
57534440 A-TCTTATCTCCCT
1 ATTC-TATCTCCCT
57534453 AAGCAGTAGT
Statistics
Matches: 313, Mismatches: 7, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
307 2 0.01
308 311 0.99
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (308 bp):
ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTA
GTGGAGCAGATCAAGGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAA
TAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATATTATCTCCCTAAGCAG
TAATGGAGCAGATCAAGGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCC
AGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATCAAAGATTACAG
Found at i:57534409 original size:176 final size:175
Alignment explanation
Indices: 57533956--57534364 Score: 541
Period size: 176 Copynumber: 2.3 Consensus size: 175
57533946 GAAGCCAATA
** * ** * *
57533956 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTA
1 ATTCTATCTCCCTAAGCAGCAGTGGAACAGATCAAAGATGACAGATCTTACCTCCCTAAG-AGTA
* * * * *
57534021 ATGGAGCAGATCAAGGATGTCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAG
65 GTGGAGCACATCAAGCATGACAGATTCTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAG
57534086 TAATTCTATCTCCCTGGGCAGCAGTGGAATAGATCAAAGATTACAG
130 TAATTCTATCTCCCTGGGCAGCAGTGGAATAGATCAAAGATTACAG
** * * * *
57534132 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTA
1 ATTCTATCTCCCTAAGCAGCAGTGGAACAGATCAAAGATGACAGATCTTACCTCCCTAAG-AGTA
* * *
57534197 GTGGAGCAGATCAAGGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAG
65 GTGGAGCACATCAAGCATGACAGATTCTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAG
**
57534262 TAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAG
130 TAATTCTATCTCCCTGGGCAGCAGTGGAATAGATCAAAGATTACAG
* * * *
57534308 ATAT-TATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATGACAGATTTTACCTCCCT
1 AT-TCTATCTCCCTAAGCAGCAGTGGAACAGATCAAAGATGACAGATCTTACCTCCCT
57534365 GAGGTTACAG
Statistics
Matches: 217, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
176 216 1.00
177 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (175 bp):
ATTCTATCTCCCTAAGCAGCAGTGGAACAGATCAAAGATGACAGATCTTACCTCCCTAAGAGTAG
TGGAGCACATCAAGCATGACAGATTCTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGT
AATTCTATCTCCCTGGGCAGCAGTGGAATAGATCAAAGATTACAG
Found at i:57534541 original size:132 final size:132
Alignment explanation
Indices: 57534132--57534470 Score: 651
Period size: 132 Copynumber: 2.6 Consensus size: 132
57534122 AAGATTACAG
*
57534132 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTA
1 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTA
57534197 GTGGAGCAGATCAAGGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAG
66 GTGGAGCAGATCAAGGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAG
57534262 TA
131 TA
*
57534264 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATATTATCTCCCTAAGCAGTA
1 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTA
57534329 GTGGAGCAGATCAAGGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAG
66 GTGGAGCAGATCAAGGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAG
57534394 TA
131 TA
57534396 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTA
1 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTA
*
57534461 GTGGGGCAGA
66 GTGGAGCAGA
57534471 CTGAAGATGT
Statistics
Matches: 203, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
132 203 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (132 bp):
ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTA
GTGGAGCAGATCAAGGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAG
TA
Found at i:57534541 original size:308 final size:308
Alignment explanation
Indices: 57533824--57534551 Score: 1059
Period size: 308 Copynumber: 2.4 Consensus size: 308
57533814 GAAGCCAGTA
** * * *
57533824 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTA
1 ATTCTATCTCCCTAAGCAGCAGTGGAACAGACTAAAGATTACAGATCTTATCTCCCTAAGCAGCA
* ** **
57533889 GTGGAGCAGATCAAGGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAA
66 GTGGAGCAGATCAAAGATAACAGATCCTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAA
*
57533954 TAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAG
131 TAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATATTATCTCCCTAAGCAG
*
57534019 TAATGGAGCAGATCAAGGATGTCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCC
196 TAATGGAGCAGATCAAGGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCC
57534084 AGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATCAAAGATTACAG
261 AGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATCAAAGATTACAG
** * * *
57534132 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTA
1 ATTCTATCTCCCTAAGCAGCAGTGGAACAGACTAAAGATTACAGATCTTATCTCCCTAAGCAGCA
* * ** *
57534197 GTGGAGCAGATCAAGGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAG
66 GTGGAGCAGATCAAAGATAACAGATCCTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAA
57534262 TAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATATTATCTCCCTAAGCAG
131 TAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATATTATCTCCCTAAGCAG
*
57534327 TAGTGGAGCAGATCAAGGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCC
196 TAATGGAGCAGATCAAGGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCC
**
57534392 AGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAG
261 AGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATCAAAGATTACAG
* ** * *
57534440 A-TCTTATCTCCCTAAGCAGTAGTGGGGCAGACTGAAGATGT-C-GAATCTTATCTCCCTGAAGT
1 ATTC-TATCTCCCTAAGCAGCAGTGGAACAGACTAAAGAT-TACAG-ATCTTATCTCCCT-AAGC
* * * * * * *
57534502 TGCAGTGGAGCAGGTTAAAGATAATA-ATCCTATCTCCCTGAAGTTGCAGT
62 AGCAGTGGAGCAGATCAAAGATAACAGATCCTACCTCCCTGAGGTTACAGT
57534552 AGAGCAGATT
Statistics
Matches: 388, Mismatches: 28, Indels: 8
0.92 0.07 0.02
Matches are distributed among these distances:
307 3 0.01
308 362 0.93
309 23 0.06
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (308 bp):
ATTCTATCTCCCTAAGCAGCAGTGGAACAGACTAAAGATTACAGATCTTATCTCCCTAAGCAGCA
GTGGAGCAGATCAAAGATAACAGATCCTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAA
TAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATATTATCTCCCTAAGCAG
TAATGGAGCAGATCAAGGATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCC
AGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATCAAAGATTACAG
Found at i:57534580 original size:44 final size:42
Alignment explanation
Indices: 57534483--57534731 Score: 144
Period size: 44 Copynumber: 5.8 Consensus size: 42
57534473 GAAGATGTCG
* * ***
57534483 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGATAAT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAA-A-CCC
*
57534527 AATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCAC
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACC-C
* ** *** *
57534570 AGATCTTATCTCTCTGAAGTTGCAG-AG-GGGGA-TCGCATCC
1 A-ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCC
* * * ** *
57534610 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACAGAAGAAACC
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TTAA-AACCC
* * * * * **
57534654 AATCCTATCTCCTTGAAATTGCAATGGAGTGGATTAAAACCGC
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACC-C
* * *
57534697 ATATCTCATCTCTCTGAAGTTGCAGCAGAGCAGAT
1 A-ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGAT
57534732 CGCATCAGAT
Statistics
Matches: 150, Mismatches: 46, Indels: 18
0.70 0.21 0.08
Matches are distributed among these distances:
39 20 0.13
40 3 0.02
41 6 0.04
42 6 0.04
43 8 0.05
44 107 0.71
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (42 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCC
Found at i:57534658 original size:127 final size:127
Alignment explanation
Indices: 57534485--57534721 Score: 325
Period size: 127 Copynumber: 1.9 Consensus size: 127
57534475 AGATGTCGAA
* ** * *
57534485 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGATAATAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGGACAAAGATAACAATCCTATCTCCCTGAAATTGCA
* *
57534550 GTAGAGCAGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGAGGGGGATCGCATCCAG
66 ATAGAGCAGATTAAAACCACAGATCTCATCTCTCTGAAGTTGCAGAGGGGGATCGCATCCAG
*
57534612 TCTTATCTCCCTAAAGTTGCAGTGGAGCA-GACAGAAGA-AACCAATCCTATCTCCTTGAAATTG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGGACA-AAGATAA-CAATCCTATCTCCCTGAAATTG
* ** * *
57534675 CAATGGAGTGGATTAAAACCGCATATCTCATCTCTCTGAAGTTGCAG
64 CAATAGAGCAGATTAAAACCACAGATCTCATCTCTCTGAAGTTGCAG
57534722 CAGAGCAGAT
Statistics
Matches: 95, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
126 4 0.04
127 91 0.96
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (127 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAGCAGGACAAAGATAACAATCCTATCTCCCTGAAATTGCA
ATAGAGCAGATTAAAACCACAGATCTCATCTCTCTGAAGTTGCAGAGGGGGATCGCATCCAG
Found at i:57536121 original size:3 final size:3
Alignment explanation
Indices: 57536095--57536200 Score: 107
Period size: 3 Copynumber: 36.0 Consensus size: 3
57536085 AATCCTTAAT
* *
57536095 TTA TTA TT- TTA GTT- TTT TTA -TA TTA TTAA TTA -TG TTA -TA TTTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA T-TA
57536138 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
57536186 -TA GTTA TTA CTA TTA
1 TTA -TTA TTA TTA TTA
57536201 CCCTTACTAT
Statistics
Matches: 88, Mismatches: 5, Indels: 20
0.78 0.04 0.18
Matches are distributed among these distances:
2 11 0.12
3 67 0.76
4 10 0.11
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:57537401 original size:21 final size:20
Alignment explanation
Indices: 57537376--57537437 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 20
57537366 TTCGACAATC
57537376 ATAATATATAATACTATAAAA
1 ATAATATATAAT-CTATAAAA
**
57537397 ATAATATATAATCTACT--TT
1 ATAATATATAATCTA-TAAAA
57537416 ATAATATATAATGCTATAAAA
1 ATAATATATAAT-CTATAAAA
57537437 A
1 A
57537438 ACTTGAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
19 13 0.39
20 6 0.18
21 14 0.42
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (20 bp):
ATAATATATAATCTATAAAA
Found at i:57540648 original size:3 final size:3
Alignment explanation
Indices: 57540640--57540677 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
57540630 TTTATCCAGC
57540640 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
57540678 TTCAAATCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:57542164 original size:33 final size:33
Alignment explanation
Indices: 57542107--57542244 Score: 132
Period size: 33 Copynumber: 4.2 Consensus size: 33
57542097 ACTTACCCTA
* *
57542107 TGTTTAATATCCCAGTGGACTATCTTTGTTTTG
1 TGTTTACTATCCCAGTGGACTATCTTTGTTCTG
* * * * *
57542140 TGTTTACTATTCCAGCGGATTATCTCTATTCTG
1 TGTTTACTATCCCAGTGGACTATCTTTGTTCTG
* * * * * * *
57542173 TGTTTACTGTCCTAGTAGATTGTCTATGTTTTG
1 TGTTTACTATCCCAGTGGACTATCTTTGTTCTG
* *
57542206 TGTTTACTGTCCCAGTGAACTATCTTTGTTCTG
1 TGTTTACTATCCCAGTGGACTATCTTTGTTCTG
57542239 TGTTTA
1 TGTTTA
57542245 TTGTCTTAGC
Statistics
Matches: 82, Mismatches: 23, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
33 82 1.00
ACGTcount: A:0.17, C:0.17, G:0.18, T:0.49
Consensus pattern (33 bp):
TGTTTACTATCCCAGTGGACTATCTTTGTTCTG
Found at i:57546350 original size:13 final size:13
Alignment explanation
Indices: 57546332--57546357 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57546322 ACAATCGAAT
57546332 TTTTTGTTTTTTG
1 TTTTTGTTTTTTG
57546345 TTTTTGTTTTTTG
1 TTTTTGTTTTTTG
57546358 CTGAGAAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (13 bp):
TTTTTGTTTTTTG
Found at i:57547163 original size:51 final size:51
Alignment explanation
Indices: 57547103--57547204 Score: 170
Period size: 51 Copynumber: 2.0 Consensus size: 51
57547093 CGGATCACAT
57547103 TTATCACTTGTCACTTGTC-CTTAATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCAC-TAATCAGATAAGTGTAGCTAAAGCTACCAC
* *
57547154 TTATCACTTGTTACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCAC
57547205 CACTACACCA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
51 47 0.98
52 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:57547411 original size:43 final size:42
Alignment explanation
Indices: 57547295--57547430 Score: 114
Period size: 43 Copynumber: 3.2 Consensus size: 42
57547285 CCGCAAAAAA
* * * * *
57547295 GCCGCTAAAGGTCATGACTTTTAGTGGCACTTTTA-GAAAAAC
1 GCCGCTAAA-GACATGACCTTTAGTGGCGCTTTTATCACAAAC
* * * *
57547337 GCCGCTAAAGACATGATCTTTCGCGACGCTTTTATCACAAAC
1 GCCGCTAAAGACATGACCTTTAGTGGCGCTTTTATCACAAAC
* * *
57547379 GCTGCTAATA-AGCATGACCTTTAGTGGCGCTTTTATCGCAAAT
1 GCCGCTAA-AGA-CATGACCTTTAGTGGCGCTTTTATCACAAAC
*
57547422 GCCACTAAA
1 GCCGCTAAA
57547431 AGTACCGTTC
Statistics
Matches: 73, Mismatches: 18, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
41 18 0.25
42 23 0.32
43 32 0.44
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (42 bp):
GCCGCTAAAGACATGACCTTTAGTGGCGCTTTTATCACAAAC
Found at i:57562273 original size:16 final size:15
Alignment explanation
Indices: 57562248--57562277 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
57562238 AAGAAAGTTT
57562248 TTAGTAGTAGTTAGA
1 TTAGTAGTAGTTAGA
57562263 TTAGTTAGTAGTTAG
1 TTAG-TAGTAGTTAG
57562278 CAGTTAGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (15 bp):
TTAGTAGTAGTTAGA
Found at i:57566819 original size:12 final size:12
Alignment explanation
Indices: 57566803--57566844 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
57566793 ATGAAATTGT
57566803 AAAATAAATA-A
1 AAAATAAATATA
57566814 ATAAATAAATATA
1 A-AAATAAATATA
*
57566827 AAAATAAACAGTA
1 AAAATAAATA-TA
57566840 AAAAT
1 AAAAT
57566845 TCAACCTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 1 0.04
12 17 0.63
13 9 0.33
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (12 bp):
AAAATAAATATA
Found at i:57571855 original size:16 final size:16
Alignment explanation
Indices: 57571832--57571876 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
57571822 ATAATTACAC
57571832 TAAA-AAATAATAAAA
1 TAAATAAATAATAAAA
* *
57571847 TAAATAAATAATACAT
1 TAAATAAATAATAAAA
*
57571863 TAAATAAAAAATAA
1 TAAATAAATAATAA
57571877 CTCTTAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
15 4 0.16
16 21 0.84
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAATAAATAATAAAA
Found at i:57583469 original size:18 final size:18
Alignment explanation
Indices: 57583446--57583481 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
57583436 TATTGTTTTG
57583446 AAATTTAAAATATATAAA
1 AAATTTAAAATATATAAA
57583464 AAATTTAAAATATATAAA
1 AAATTTAAAATATATAAA
57583482 TTATTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATTTAAAATATATAAA
Found at i:57583491 original size:18 final size:18
Alignment explanation
Indices: 57583446--57583491 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
57583436 TATTGTTTTG
*
57583446 AAATTTAAAATATATAAA
1 AAATTAAAAATATATAAA
*
57583464 AAATTTAAAATATATAAA
1 AAATTAAAAATATATAAA
**
57583482 TTATTAAAAA
1 AAATTAAAAA
57583492 AACTCATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATTAAAAATATATAAA
Found at i:57584733 original size:37 final size:38
Alignment explanation
Indices: 57584666--57584743 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 38
57584656 GAGAAAATGA
* *
57584666 ATAAATTTATAAAAATATAAAAAGATATATATGTATAT
1 ATAAATTTATAAAAATATAAAAAGATATATAAGAATAT
*
57584704 ATAAA-TTAT-AAAATATAAAAAATATATATAAGAATAT
1 ATAAATTTATAAAAATAT-AAAAAGATATATAAGAATAT
57584741 ATA
1 ATA
57584744 TATACATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 7 0.19
37 24 0.67
38 5 0.14
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (38 bp):
ATAAATTTATAAAAATATAAAAAGATATATAAGAATAT
Found at i:57584784 original size:43 final size:39
Alignment explanation
Indices: 57584666--57584786 Score: 108
Period size: 43 Copynumber: 3.0 Consensus size: 39
57584656 GAGAAAATGA
57584666 ATAAATTTATAAAAATATAAAAAGATATATAT-G---TATAT
1 ATAAA-TTAT-AAAATATAAAAA-ATATATATAGATATATAT
57584704 ATAAATTATAAAATATAAAAAATATATATAAGAATATATAT
1 ATAAATTATAAAATATAAAAAATATATAT-AG-ATATATAT
*
57584745 ATACATTTATGAAAATGA-AAAAAATATGCATATAGATATATA
1 ATA-AATTAT-AAAAT-ATAAAAAATAT--ATATAGATATATA
57584787 GATATGTATA
Statistics
Matches: 71, Mismatches: 1, Indels: 17
0.80 0.01 0.19
Matches are distributed among these distances:
35 8 0.11
36 12 0.17
37 5 0.07
38 5 0.07
41 8 0.11
42 5 0.07
43 21 0.30
44 3 0.04
45 4 0.06
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.34
Consensus pattern (39 bp):
ATAAATTATAAAATATAAAAAATATATATAGATATATAT
Found at i:57586638 original size:50 final size:49
Alignment explanation
Indices: 57586545--57587120 Score: 349
Period size: 50 Copynumber: 11.7 Consensus size: 49
57586535 CTGTTCACCA
* ** *
57586545 GGGAAGTAAGATTTGTTGTTGTAGCTTCAATCTATT-TAACTGCAATGTTG
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-TTCT-ACTGCAATGTCG
* * * ** * *
57586595 GGGAAGCAAGATTCGCCATTGTAGCTTCAATCTATTCTGCTGCACCGCCT
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-TTCTACTGCAATGTCG
*
57586645 GGGAAGTAAGATTCGCCGTTG-CGACTTCAATC-TT-TA---CAATGTCG
1 GGGAAGTAAGATTCGCCGTTGTAG-CTTCAATCTTTCTACTGCAATGTCG
* * * * ** * *
57586689 GGGAAGCAAGATTCGTCGTTGTAGCTTCAATCTGTTCCACTACACCGCCA
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-TTCTACTGCAATGTCG
* * * * * *
57586739 GGGAAGTAAGATTTGTCGTTATGGCTTCAATCTTTTCAATTGCAATGTCG
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATC-TTTCTACTGCAATGTCG
* * * * ** * *
57586789 GCGAAGTAAGATTCACCATTGTAGCTTCAATCTGTTCCACTGCACCGCCT
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-TTCTACTGCAATGTCG
* * * * *
57586839 GGGAAGTAAGATTCACCGTTGTGGCCTCAATCTTTTTAATTGCAATGTCG
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTCT-ACTGCAATGTCG
** * ** * *
57586889 GGGAAGCGAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCT
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-TTCTACTGCAATGTCG
* * * * *
57586939 GGGAAGTAAGATTCACCGTTGTGGCCTCAATCTTTTTAATTGCAATGTCG
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTCT-ACTGCAATGTCG
** * ** * *
57586989 GGGAAGCGAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCT
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-TTCTACTGCAATGTCG
* ** * * * * * *
57587039 GAGAAGTAAGATTTACCGTTGTGGCCTCAATCTTT-TAATTACAATGCCA
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTCT-ACTGCAATGTCG
** * *
57587088 GGGAAGCGAGATTCACTGTTGTAGCTTCAATCT
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT
57587121 GTTCCACCAC
Statistics
Matches: 392, Mismatches: 118, Indels: 33
0.72 0.22 0.06
Matches are distributed among these distances:
44 31 0.08
45 1 0.00
46 2 0.01
47 2 0.01
48 2 0.01
49 41 0.10
50 307 0.78
51 6 0.02
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (49 bp):
GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTCTACTGCAATGTCG
Found at i:57586821 original size:100 final size:100
Alignment explanation
Indices: 57586562--57587141 Score: 769
Period size: 100 Copynumber: 5.9 Consensus size: 100
57586552 AAGATTTGTT
* * * * * * *
57586562 GTTGTAGCTTCAATCTATTTAACTGCAATGTTGGGGAAGCAAGATTCGCCATTGTAGCTTCAATC
1 GTTGTGGCCTCAATCTTTTTAATTGCAATGTCGGGGAAGCGAGATTCGCCGTTGTAGCTTCAATC
* ** *
57586627 TATTCTGCTGCACCGCCTGGGAAGTAAGATTCGCC
66 TGTTCCACTGCACCGCCTGGGAAGTAAGATTCACC
* * * * *
57586662 GTTGCGACTTCAATC--TTT-A---CAATGTCGGGGAAGCAAGATTCGTCGTTGTAGCTTCAATC
1 GTTGTGGCCTCAATCTTTTTAATTGCAATGTCGGGGAAGCGAGATTCGCCGTTGTAGCTTCAATC
* * ***
57586721 TGTTCCACTACACCGCCAGGGAAGTAAGATTTGTC
66 TGTTCCACTGCACCGCCTGGGAAGTAAGATTCACC
* * * * ** * *
57586756 GTTATGGCTTCAATCTTTTCAATTGCAATGTCGGCGAAGTAAGATTCACCATTGTAGCTTCAATC
1 GTTGTGGCCTCAATCTTTTTAATTGCAATGTCGGGGAAGCGAGATTCGCCGTTGTAGCTTCAATC
57586821 TGTTCCACTGCACCGCCTGGGAAGTAAGATTCACC
66 TGTTCCACTGCACCGCCTGGGAAGTAAGATTCACC
57586856 GTTGTGGCCTCAATCTTTTTAATTGCAATGTCGGGGAAGCGAGATTCGCCGTTGTAGCTTCAATC
1 GTTGTGGCCTCAATCTTTTTAATTGCAATGTCGGGGAAGCGAGATTCGCCGTTGTAGCTTCAATC
57586921 TGTTCCACTGCACCGCCTGGGAAGTAAGATTCACC
66 TGTTCCACTGCACCGCCTGGGAAGTAAGATTCACC
57586956 GTTGTGGCCTCAATCTTTTTAATTGCAATGTCGGGGAAGCGAGATTCGCCGTTGTAGCTTCAATC
1 GTTGTGGCCTCAATCTTTTTAATTGCAATGTCGGGGAAGCGAGATTCGCCGTTGTAGCTTCAATC
* *
57587021 TGTTCCACTGCACCGCCTGAGAAGTAAGATTTACC
66 TGTTCCACTGCACCGCCTGGGAAGTAAGATTCACC
* * * * *
57587056 GTTGTGGCCTCAATC-TTTTAATTACAATGCCAGGGAAGCGAGATTCACTGTTGTAGCTTCAATC
1 GTTGTGGCCTCAATCTTTTTAATTGCAATGTCGGGGAAGCGAGATTCGCCGTTGTAGCTTCAATC
**
57587120 TGTTCCACCACACCGCCTGGGA
66 TGTTCCACTGCACCGCCTGGGA
57587142 GATAATATTG
Statistics
Matches: 429, Mismatches: 45, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
94 77 0.18
96 2 0.00
97 2 0.00
98 3 0.01
99 63 0.15
100 282 0.66
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (100 bp):
GTTGTGGCCTCAATCTTTTTAATTGCAATGTCGGGGAAGCGAGATTCGCCGTTGTAGCTTCAATC
TGTTCCACTGCACCGCCTGGGAAGTAAGATTCACC
Found at i:57587310 original size:128 final size:128
Alignment explanation
Indices: 57587138--57587927 Score: 1219
Period size: 128 Copynumber: 6.2 Consensus size: 128
57587128 CACACCGCCT
* * * * * *
57587138 GGGAGATAATATTGGTTGCGATCTACTCTACTGCAAGTTCAGAGAGATAAGATCTGTGTTTTTAA
1 GGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
* *
57587203 TCCGCTCCACTGTAACTTCAAGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTACTGCTTA
66 TCCGCTCCACTGCAACTTCAAGGAGATAGGATTGATTTCTTCTGTCTACTCCACTACTGCTTA
*
57587266 GGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGATTTTAA
1 GGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
* * *
57587331 TCCACTCTACTGCAACTTC-AGGAAGATAGGATTGATTTCTTCTGTCTACTCCACTTCTGCTTA
66 TCCGCTCCACTGCAACTTCAAGG-AGATAGGATTGATTTCTTCTGTCTACTCCACTACTGCTTA
*
57587394 GGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGATTTTAA
1 GGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
* * *
57587459 TCCACTCTACTGCAACTTC-AGGAAGATAGGATTGATTTCTTCTGTCTACTCCACTTCTGCTTA
66 TCCGCTCCACTGCAACTTCAAGG-AGATAGGATTGATTTCTTCTGTCTACTCCACTACTGCTTA
57587522 GGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
1 GGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
* *
57587587 TCCGCTCCACTGCAACTTCAGGGAAATAGGATTGATTTCTTCTGTCTACTCCACTACTGCTTA
66 TCCGCTCCACTGCAACTTCAAGGAGATAGGATTGATTTCTTCTGTCTACTCCACTACTGCTTA
*
57587650 GGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAG-GTATAAGATTTGTGATTTTA
1 GGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAG-ATAAGATCTGTGATTTTA
* ** * * *
57587714 GTTTGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCTACTACTGCTTA
65 ATCCGCTCCACTGCAACTTCAAGGAGATAGGATTGATTTCTTCTGTCTACTCCACTACTGCTTA
* *
57587778 AGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAG-GTATAAGATTTGTGATTTTA
1 GGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAG-ATAAGATCTGTGATTTTA
* ** * * *
57587842 GTTTGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTATTGCTTA
65 ATCCGCTCCACTGCAACTTCAAGGAGATAGGATTGATTTCTTCTGTCTACTCCACTACTGCTTA
57587906 GGGAGATAAGACTGGATGCGAT
1 GGGAGATAAGACTGGATGCGAT
57587928 AAATCTGCTT
Statistics
Matches: 630, Mismatches: 29, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
127 4 0.01
128 624 0.99
129 2 0.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.33
Consensus pattern (128 bp):
GGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
TCCGCTCCACTGCAACTTCAAGGAGATAGGATTGATTTCTTCTGTCTACTCCACTACTGCTTA
Found at i:57587343 original size:44 final size:42
Alignment explanation
Indices: 57587158--57587880 Score: 183
Period size: 44 Copynumber: 17.0 Consensus size: 42
57587148 ATTGGTTGCG
* *
57587158 ATCTACTCTACTGCAAGTTCAGAGAGATAAGATCTGTGTTTTTA
1 ATCTACTCTACTGCAACTTCAGAGAGATAAGA-CT-TGATTTTA
** * * * *
57587202 ATCCGCTCCACTGTAACTTCA-AGGAGATAGGA-TTGATTTCTTCT
1 ATCTACTCTACTGCAACTTCAGA-GAGATAAGACTTGA-TT-TT-A
* * * * ** * * ***
57587246 GTCTGCTCCACTACTGCTT-AGGGAGATAAGACTGGA-TGCG
1 ATCTACTCTACTGCAACTTCAGAGAGATAAGACTTGATTTTA
*
57587286 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGATTTTA
1 ATCTACTCTACTGCAACTTCAGAGAGATAAGA-CT-TGATTTTA
* * *
57587330 ATCCACTCTACTGCAACTTCAG-GAAGATAGGA-TTGATTTCTTCT
1 ATCTACTCTACTGCAACTTCAGAG-AGATAAGACTTGA-TT-TT-A
* * * ** * * ***
57587374 GTCTACTCCACTTCTGCTT-AGGGAGATAAGACTGGA-TGCG
1 ATCTACTCTACTGCAACTTCAGAGAGATAAGACTTGATTTTA
*
57587414 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGATTTTA
1 ATCTACTCTACTGCAACTTCAGAGAGATAAGA-CT-TGATTTTA
* * *
57587458 ATCCACTCTACTGCAACTTCAG-GAAGATAGGA-TTGATTTCTTCT
1 ATCTACTCTACTGCAACTTCAGAG-AGATAAGACTTGA-TT-TT-A
* * * ** * * ***
57587502 GTCTACTCCACTTCTGCTT-AGGGAGATAAGACTGGA-TGCG
1 ATCTACTCTACTGCAACTTCAGAGAGATAAGACTTGATTTTA
*
57587542 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTA
1 ATCTACTCTACTGCAACTTCAGAGAGATAAGA-CT-TGATTTTA
** * * * * *
57587586 ATCCGCTCCACTGCAACTTCAGGGAAATAGGA-TTGATTTCTTCT
1 ATCTACTCTACTGCAACTTCAGAGAGATAAGACTTGA-TT-TT-A
* * * ** * * ***
57587630 GTCTACTCCACTACTGCTT-AGGGAGATAAGACTGGA-TGCG
1 ATCTACTCTACTGCAACTTCAGAGAGATAAGACTTGATTTTA
* *
57587670 ATCTGCTCTACTGCAACTTCAGAG-GTATAAGATTTGTGATTTTA
1 ATCTACTCTACTGCAACTTCAGAGAG-ATAAGA-CT-TGATTTTA
* * * * * * *
57587714 GTTTGCTCCACTGCAACTTCAGGGAGATAGGA-TTGATTTCTTCT
1 ATCTACTCTACTGCAACTTCAGAGAGATAAGACTTGA-TT-TT-A
* * * ** * * ***
57587758 GTCTGCTCTACTACTGCTTAAG-GAGATAAGACTGGA-TGCG
1 ATCTACTCTACTGCAACTTCAGAGAGATAAGACTTGATTTTA
* *
57587798 ATCTGCTCTACTGCAACTTCAGAG-GTATAAGATTTGTGATTTTA
1 ATCTACTCTACTGCAACTTCAGAGAG-ATAAGA-CT-TGATTTTA
* * * * * *
57587842 GTTTGCTCCACTGCAACTTCAGGGAGATAGGA-TTGATTT
1 ATCTACTCTACTGCAACTTCAGAGAGATAAGACTTGATTT
57587881 CTTCTGTCTG
Statistics
Matches: 485, Mismatches: 144, Indels: 103
0.66 0.20 0.14
Matches are distributed among these distances:
40 72 0.15
41 69 0.14
42 29 0.06
43 68 0.14
44 245 0.51
45 2 0.00
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (42 bp):
ATCTACTCTACTGCAACTTCAGAGAGATAAGACTTGATTTTA
Found at i:57588430 original size:24 final size:24
Alignment explanation
Indices: 57588377--57588433 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
57588367 GGATTGCCCT
57588377 CACTGTAATCTTCAAAGTTCAATC
1 CACTGTAATCTTCAAAGTTCAATC
* * **
57588401 CGCTGTAGTCTTCAGGGTT-AAGTC
1 CACTGTAATCTTCAAAGTTCAA-TC
57588425 CACTGTAAT
1 CACTGTAAT
57588434 TTTGGGACAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
23 2 0.08
24 24 0.92
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (24 bp):
CACTGTAATCTTCAAAGTTCAATC
Found at i:57589288 original size:6 final size:6
Alignment explanation
Indices: 57589279--57589345 Score: 57
Period size: 7 Copynumber: 10.7 Consensus size: 6
57589269 GACCTCTCCT
*
57589279 TTTTTC TTTTTC TTTTCTT TTTATTC TTTATTC TTTATTC -TTTTC ATTTTTC
1 TTTTTC TTTTTC TTTT-TC TTT-TTC TTT-TTC TTT-TTC TTTTTC -TTTTTC
*
57589331 -TTTTC TTTTTG TTTT
1 TTTTTC TTTTTC TTTT
57589346 ATTTTTTTTA
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
5 8 0.15
6 20 0.38
7 24 0.45
8 1 0.02
ACGTcount: A:0.06, C:0.13, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTTTC
Found at i:57589794 original size:7 final size:7
Alignment explanation
Indices: 57589782--57589816 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
57589772 CCCCGGTAGA
57589782 GTTTTTT
1 GTTTTTT
57589789 GTTTTTT
1 GTTTTTT
*
57589796 ATTTTTT
1 GTTTTTT
57589803 GTTTTTT
1 GTTTTTT
57589810 GTTTTTT
1 GTTTTTT
57589817 TATTTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.03, C:0.00, G:0.11, T:0.86
Consensus pattern (7 bp):
GTTTTTT
Found at i:57589808 original size:21 final size:22
Alignment explanation
Indices: 57589782--57589824 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
57589772 CCCCGGTAGA
57589782 GTTTTTTG-TTTTTTATTTTTT
1 GTTTTTTGTTTTTTTATTTTTT
57589803 GTTTTTTGTTTTTTTATTTTTT
1 GTTTTTTGTTTTTTTATTTTTT
57589825 TGCCTCCACT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.05, C:0.00, G:0.09, T:0.86
Consensus pattern (22 bp):
GTTTTTTGTTTTTTTATTTTTT
Found at i:57594863 original size:37 final size:37
Alignment explanation
Indices: 57594791--57594863 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
57594781 AAAATGAATA
* *
57594791 AAATTATAAAAATATAAAAAGATATATACGTATATAC
1 AAATTATAAAAATATAAAAAGATATATAAGAATATAC
57594828 AAATTAT-AAAATATAAAAA-ATATATGTAAGAATATA
1 AAATTATAAAAATATAAAAAGATATA--TAAGAATATA
57594864 TATACATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 5 0.16
36 12 0.38
37 15 0.47
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (37 bp):
AAATTATAAAAATATAAAAAGATATATAAGAATATAC
Found at i:57596104 original size:55 final size:55
Alignment explanation
Indices: 57596038--57596145 Score: 189
Period size: 55 Copynumber: 2.0 Consensus size: 55
57596028 TGCGGATGGG
* *
57596038 ACGGTGGCTGTGGGCTAGGGCGGCGGCAGAGCAAGTGGACGACCCTAGGTGCGCC
1 ACGGTGGCTGTGGGCTAGGGCGGCGACAGAGCAAGTGGAAGACCCTAGGTGCGCC
*
57596093 ACGGTGGCTGTGGGCTAGGGCGGCGATAGAGCAAGTGGAAGACCCTAGGTGCG
1 ACGGTGGCTGTGGGCTAGGGCGGCGACAGAGCAAGTGGAAGACCCTAGGTGCG
57596146 GCGCACCTAG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.19, C:0.22, G:0.45, T:0.14
Consensus pattern (55 bp):
ACGGTGGCTGTGGGCTAGGGCGGCGACAGAGCAAGTGGAAGACCCTAGGTGCGCC
Found at i:57597672 original size:18 final size:18
Alignment explanation
Indices: 57597645--57597711 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 18
57597635 TCAAGTTTAA
*
57597645 TATTATTATATAATAAAT
1 TATTAATATATAATAAAT
57597663 TATTAATATAATTAATATAAT
1 TATTAATAT-A-TAATA-AAT
* *
57597684 TAATT-ATTTTTAATAAAT
1 T-ATTAATATATAATAAAT
57597702 TATTTAATAT
1 TA-TTAATAT
57597712 TTAAATTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
17 1 0.03
18 14 0.36
19 9 0.23
20 5 0.13
21 7 0.18
22 3 0.08
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TATTAATATATAATAAAT
Found at i:57597678 original size:9 final size:9
Alignment explanation
Indices: 57597641--57597687 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
57597631 TAAATCAAGT
*
57597641 TTAATATTA
1 TTAATATAA
57597650 TT-ATATAA
1 TTAATATAA
*
57597658 -TAA-ATTA
1 TTAATATAA
57597665 TTAATATAA
1 TTAATATAA
57597674 TTAATATAA
1 TTAATATAA
57597683 TTAAT
1 TTAAT
57597688 TATTTTTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
7 4 0.12
8 9 0.28
9 19 0.59
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (9 bp):
TTAATATAA
Found at i:57597688 original size:25 final size:24
Alignment explanation
Indices: 57597641--57597691 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
57597631 TAAATCAAGT
*
57597641 TTAATATTATTATATAATAAATTA
1 TTAATATAATTATATAATAAATTA
*
57597665 TTAATATAATTAATATAATTAATTA
1 TTAATATAATT-ATATAATAAATTA
57597690 TT
1 TT
57597692 TTTAATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TTAATATAATTATATAATAAATTA
Found at i:57598948 original size:15 final size:12
Alignment explanation
Indices: 57598917--57598941 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57598907 ATATTATAAA
57598917 AATAATATACTT
1 AATAATATACTT
57598929 AATAATATACTT
1 AATAATATACTT
57598941 A
1 A
57598942 CTCATAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
AATAATATACTT
Found at i:57600421 original size:79 final size:78
Alignment explanation
Indices: 57600289--57600435 Score: 195
Period size: 79 Copynumber: 1.9 Consensus size: 78
57600279 TGTAAACATG
* * * * * * *
57600289 AATCAATTAAATAATTCTGTTTTAGGATTTTATTCCTACCGTTCAATAGAATTTGTTTGATTTTC
1 AATCAATTAAACAATTCTATTTCAGGATTCTATTCCTACCGTTCAATAAAATTTATTCGA-TTTC
57600354 TGTTTCCCAACAGA
65 TGTTTCCCAACAGA
* **
57600368 AATCAATTGAACAATTCTATTTCAGGATTCTATTCCTATTGTTCAATAAAATTTATTCGATTTCT
1 AATCAATTAAACAATTCTATTTCAGGATTCTATTCCTACCGTTCAATAAAATTTATTCGATTTCT
57600433 GTT
66 GTT
57600436 GTTAACAGTA
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
78 8 0.14
79 50 0.86
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (78 bp):
AATCAATTAAACAATTCTATTTCAGGATTCTATTCCTACCGTTCAATAAAATTTATTCGATTTCT
GTTTCCCAACAGA
Found at i:57604401 original size:21 final size:20
Alignment explanation
Indices: 57604368--57604406 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
57604358 AATTAGAACA
57604368 TTTTTTTAAATAAGTATATTG
1 TTTTTTTAAATAA-TATATTG
**
57604389 TTTTTTTTTATAATATAT
1 TTTTTTTAAATAATATAT
57604407 AGCATGGACA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTTTTTAAATAATATATTG
Found at i:57606960 original size:21 final size:21
Alignment explanation
Indices: 57606934--57606981 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
57606924 TCAAAAATTC
** *
57606934 AAAAATCCTTAAAATTATAAA
1 AAAAATCCCAAAAAATATAAA
57606955 AAAAATCCCAAAAAATATAAA
1 AAAAATCCCAAAAAATATAAA
*
57606976 AGAAAT
1 AAAAAT
57606982 TTAAATTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.67, C:0.10, G:0.02, T:0.21
Consensus pattern (21 bp):
AAAAATCCCAAAAAATATAAA
Found at i:57615005 original size:205 final size:202
Alignment explanation
Indices: 57614429--57615008 Score: 505
Period size: 205 Copynumber: 2.8 Consensus size: 202
57614419 TACCGCCAAG
*
57614429 GCGTTAGTAGTCCAACGGTTAGGATAATTGCCTTCCAAGCAATAGACCCGGGTTCGACTCCCGGC
1 GCGTTTGTAGTCCAACGGTTAGGATAATTGCCTTCCAAGCAATAGACCC-GGTTCGACTCCCGGC
* * *
57614494 AAACGCAATAGCATTATCTTCA-ATTT-TTTTTGTTGGGCTTCGGAGTTTGGGCACTCG-GGGAC
65 AAACGCAATAGCATTAT-TTTATTTTTATTTTTGTTGGG-TTCGGAGTTTGAGCACT-GAGGGAC
* * ** * *
57614556 TTCAACAGGCCCTATGTTTGTAAGT-TACATTTTTTTTTTATACATTTTGTGACTATAATTAGCC
127 TTCAACAGGCCCTA--TATATAAGTATAC---TTTTTTTTATACATGCTGAGAC-ATAATTAACC
* *
57614620 GAGGTATATTTAATGAA
186 GAGATATATTTAACGAA
*
57614637 GCGTTTGTAGTCAAACGGTTAGGATAATTGCCTTCCAAGC-A-A-A-----TTCGACTCCCGGCA
1 GCGTTTGTAGTCCAACGGTTAGGATAATTGCCTTCCAAGCAATAGACCCGGTTCGACTCCCGGCA
* * *
57614694 AACGCAATAGC-TTA-ATTATCTGTTCTGA-TTTTGTTGGGTTCGTAGTTTTTGAGCACTTAGGG
66 AACGCAATAGCATTATTTTAT-T-TT-T-ATTTTTGTTGGGTTCGGAG--TTTGAGCACTGAGGG
* * * **
57614756 ACTT-AACAGGCCCTAATATAGTTAATATAATTTACTTTTTTTTTTAATATGCTGAGA-ATTGTT
125 ACTTCAACAGGCCCT-ATATA--TAA-GT-A--TACTTTTTTTTAT-ACATGCTGAGACATAATT
*
57614819 AACTGAGATATATTGTCAACGAA
182 AACCGAGATATATT-T-AACGAA
*
57614842 GCGTTTGTAGTCCAACGGTTAGGATAATTGCCTTCCAAGCAATAGACCCGCGTTCGACTCTCGGC
1 GCGTTTGTAGTCCAACGGTTAGGATAATTGCCTTCCAAGCAATAGACCCG-GTTCGACTCCCGGC
* * *
57614907 AAACGCAATAGCAATAGTTTTATTTTTAATTTCCTTTTTGGGTTTGGAGTTTGAGCACTGAGGGA
65 AAACGCAATAGCATTA-TTTTATTTTT-ATTT--TTGTTGGGTTCGGAGTTTGAGCACTGAGGGA
57614972 CTTCAACAGGCCCTA-ATATAAGTA-ACGTTTTTTTTAT
126 CTTCAACAGGCCCTATATATAAGTATAC-TTTTTTTTAT
57615009 TTTATATTTT
Statistics
Matches: 302, Mismatches: 33, Indels: 74
0.74 0.08 0.18
Matches are distributed among these distances:
196 2 0.01
198 3 0.01
199 27 0.09
200 9 0.03
201 20 0.07
202 20 0.07
203 16 0.05
204 10 0.03
205 52 0.17
206 2 0.01
207 7 0.02
208 48 0.16
210 1 0.00
211 1 0.00
212 3 0.01
214 29 0.10
215 25 0.08
216 11 0.04
217 16 0.05
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.36
Consensus pattern (202 bp):
GCGTTTGTAGTCCAACGGTTAGGATAATTGCCTTCCAAGCAATAGACCCGGTTCGACTCCCGGCA
AACGCAATAGCATTATTTTATTTTTATTTTTGTTGGGTTCGGAGTTTGAGCACTGAGGGACTTCA
ACAGGCCCTATATATAAGTATACTTTTTTTTATACATGCTGAGACATAATTAACCGAGATATATT
TAACGAA
Found at i:57621968 original size:91 final size:91
Alignment explanation
Indices: 57621857--57622037 Score: 353
Period size: 91 Copynumber: 2.0 Consensus size: 91
57621847 TCGGAGTCTT
57621857 TATTTATAGGCATGAGAAGTATAAAAGAAGTAAAGATCTAATTCTAATAACTACTAGAATTTAAA
1 TATTTATAGGCATGAGAAGTATAAAAGAAGTAAAGATCTAATTCTAATAACTACTAGAATTTAAA
57621922 GTACATTAAAACTTTATCTTCATCAC
66 GTACATTAAAACTTTATCTTCATCAC
*
57621948 TATTTATAGGCATGATAAGTATAAAAGAAGTAAAGATCTAATTCTAATAACTACTAGAATTTAAA
1 TATTTATAGGCATGAGAAGTATAAAAGAAGTAAAGATCTAATTCTAATAACTACTAGAATTTAAA
57622013 GTACATTAAAACTTTATCTTCATCA
66 GTACATTAAAACTTTATCTTCATCA
57622038 TGATGGACAT
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (91 bp):
TATTTATAGGCATGAGAAGTATAAAAGAAGTAAAGATCTAATTCTAATAACTACTAGAATTTAAA
GTACATTAAAACTTTATCTTCATCAC
Found at i:57627256 original size:9 final size:9
Alignment explanation
Indices: 57627242--57627412 Score: 50
Period size: 9 Copynumber: 18.6 Consensus size: 9
57627232 CTGCTTTTAC
57627242 TAAAAATTA
1 TAAAAATTA
*
57627251 TAAAAA-AA
1 TAAAAATTA
57627259 TAAAAATCTA
1 TAAAAAT-TA
57627269 T-AAAATCTA
1 TAAAAAT-TA
*
57627278 TAAATATTA
1 TAAAAATTA
**
57627287 TTAAATTTTAA
1 -TAAAAATT-A
57627298 TAAAAAAATT-
1 T--AAAAATTA
* *
57627308 CAAATATTA
1 TAAAAATTA
*
57627317 -AAAATTTA
1 TAAAAATTA
*
57627325 TTAAAAAATA
1 -TAAAAATTA
*
57627335 GAAAAA-TA
1 TAAAAATTA
***
57627343 TAAAAACCG
1 TAAAAATTA
*
57627352 TAAAAAATA
1 TAAAAATTA
57627361 TAAAAAATTGTA
1 T-AAAAA-T-TA
*
57627373 AAAAAATTA
1 TAAAAATTA
57627382 T-AAAATATA
1 TAAAAAT-TA
*
57627391 TAGAAA-TA
1 TAAAAATTA
*
57627399 TAAAAAATA
1 TAAAAATTA
57627408 TAAAA
1 TAAAA
57627413 TTTTATAAAG
Statistics
Matches: 121, Mismatches: 24, Indels: 34
0.68 0.13 0.19
Matches are distributed among these distances:
8 38 0.31
9 41 0.34
10 29 0.24
11 6 0.05
12 7 0.06
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.29
Consensus pattern (9 bp):
TAAAAATTA
Found at i:57627366 original size:10 final size:10
Alignment explanation
Indices: 57627353--57627412 Score: 54
Period size: 10 Copynumber: 6.3 Consensus size: 10
57627343 TAAAAACCGT
57627353 AAAAAATATA
1 AAAAAATATA
* *
57627363 AAAAATTGTA
1 AAAAAATATA
57627373 AAAAAAT-T-
1 AAAAAATATA
*
57627381 ATAAAATATA
1 AAAAAATATA
* *
57627391 TAGAAATAT-
1 AAAAAATATA
57627400 AAAAAATATA
1 AAAAAATATA
57627410 AAA
1 AAA
57627413 TTTTATAAAG
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
8 6 0.16
9 9 0.24
10 23 0.61
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (10 bp):
AAAAAATATA
Found at i:57627378 original size:47 final size:47
Alignment explanation
Indices: 57627309--57627421 Score: 115
Period size: 47 Copynumber: 2.4 Consensus size: 47
57627299 AAAAAAATTC
* * *
57627309 AAATATTAAAAATTTATTAAAAAATAGAAAA-ATATAAAAACCGTAAA
1 AAATATAAAAAATTTATAAAAAAATAGAAAATATATAAAAA-CATAAA
* * * *
57627356 AAATATAAAAAATTGTA-AAAAAATTATAAAATATATAGAAATATAAA
1 AAATATAAAAAATT-TATAAAAAAATAGAAAATATATAAAAACATAAA
*
57627403 AAATAT-AAAATTTTATAAA
1 AAATATAAAAAATTTATAAA
57627422 GTCGTAAGAA
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
45 2 0.04
46 9 0.16
47 34 0.62
48 10 0.18
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (47 bp):
AAATATAAAAAATTTATAAAAAAATAGAAAATATATAAAAACATAAA
Found at i:57627405 original size:19 final size:19
Alignment explanation
Indices: 57627309--57627409 Score: 66
Period size: 18 Copynumber: 5.4 Consensus size: 19
57627299 AAAAAAATTC
*
57627309 AAATAT-TAAAAATTTATTAA
1 AAATATATAAAAA--TATAAA
*
57627329 AAA-ATAGAAAAATATAAA
1 AAATATATAAAAATATAAA
***
57627347 AACCGTA-AAAAATATAAA
1 AAATATATAAAAATATAAA
* * *
57627365 AAAT-TGTAAAAAAATTATA
1 AAATATATAAAAATA-TAAA
*
57627384 AAATATATAGAAATATAAA
1 AAATATATAAAAATATAAA
57627403 AAATATA
1 AAATATA
57627410 AAATTTTATA
Statistics
Matches: 63, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
17 1 0.02
18 26 0.41
19 21 0.33
20 15 0.24
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (19 bp):
AAATATATAAAAATATAAA
Found at i:57627711 original size:16 final size:16
Alignment explanation
Indices: 57627673--57627711 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
57627663 TTTTATAAAA
*
57627673 AATTTTAATTTTTAAT
1 AATTTTAATATTTAAT
*
57627689 AAATTTAATATTTAAT
1 AATTTTAATATTTAAT
*
57627705 ATTTTTA
1 AATTTTA
57627712 TTAAAATTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
AATTTTAATATTTAAT
Found at i:57627720 original size:19 final size:19
Alignment explanation
Indices: 57627693--57627749 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
57627683 TTTAATAAAT
*
57627693 TTAATATTTAATATTTTTA
1 TTAAAATTTAATATTTTTA
*
57627712 TTAAAATTTAATAAATTTT-
1 TTAAAATTTAAT-ATTTTTA
*
57627731 CTAAAATTT-AT-TTTTTA
1 TTAAAATTTAATATTTTTA
57627748 TT
1 TT
57627750 TATTTTTCTA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
16 4 0.13
17 1 0.03
18 2 0.06
19 19 0.61
20 5 0.16
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TTAAAATTTAATATTTTTA
Found at i:57640506 original size:30 final size:30
Alignment explanation
Indices: 57640470--57640548 Score: 113
Period size: 30 Copynumber: 2.6 Consensus size: 30
57640460 CTAACTAGGA
57640470 ATCTCCTCTTGGTCTCACTTAAGCATATAG
1 ATCTCCTCTTGGTCTCACTTAAGCATATAG
* *
57640500 ATCTCCTATTGGTCTCACTTAGGCATATAG
1 ATCTCCTCTTGGTCTCACTTAAGCATATAG
* * *
57640530 GTCTTCTCTCGGTCTCACT
1 ATCTCCTCTTGGTCTCACT
57640549 ATTCGGCATA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.19, C:0.28, G:0.15, T:0.38
Consensus pattern (30 bp):
ATCTCCTCTTGGTCTCACTTAAGCATATAG
Found at i:57648122 original size:16 final size:17
Alignment explanation
Indices: 57648094--57648129 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
57648084 TTAAAATTGG
*
57648094 ATTGAGAAAATTATTTA
1 ATTGAGAAAATTAATTA
57648111 ATTGAG-AAATTAATTA
1 ATTGAGAAAATTAATTA
57648127 ATT
1 ATT
57648130 TAAATTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (17 bp):
ATTGAGAAAATTAATTA
Found at i:57655578 original size:23 final size:23
Alignment explanation
Indices: 57655523--57655586 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 23
57655513 TAAAGGTTAA
* *
57655523 TGAATT-TATATATTTAATCATTC
1 TGAATTATATATATTAAAT-ATAC
57655546 T--ATTAT-TATATTAAATATAC
1 TGAATTATATATATTAAATATAC
*
57655566 TGAATTATATATATAAAATAT
1 TGAATTATATATATTAAATAT
57655587 TAAGTTATCG
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
20 4 0.12
21 12 0.35
22 6 0.18
23 12 0.35
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (23 bp):
TGAATTATATATATTAAATATAC
Found at i:57656605 original size:59 final size:59
Alignment explanation
Indices: 57656489--57656627 Score: 138
Period size: 59 Copynumber: 2.3 Consensus size: 59
57656479 TTAAAATTTG
* * * * *
57656489 TTGAGGGCTAAGTTTATTGATTTTTTTAGAATTTGAATTAAAATGATAAATTTTGTAAATA
1 TTGAGGGCTAA-TTTGTTGATTTTTTTA-AATTTGAATCAAAATGATAAAATATGTAAACA
* *
57656550 TTGAGGGCTAATTTGTTGATTTTTTGT-ATTTATG-ATCAAATTGATAAAATATGTAAACA
1 TTGAGGGCTAATTTGTTGATTTTTT-TAAATT-TGAATCAAAATGATAAAATATGTAAACA
*
57656609 TTATAGGGCTAAATTTGTT
1 TT-GAGGGCT-AATTTGTT
57656628 ATTGTACTAA
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
59 25 0.38
60 21 0.32
61 20 0.30
ACGTcount: A:0.34, C:0.04, G:0.17, T:0.45
Consensus pattern (59 bp):
TTGAGGGCTAATTTGTTGATTTTTTTAAATTTGAATCAAAATGATAAAATATGTAAACA
Found at i:57659370 original size:40 final size:40
Alignment explanation
Indices: 57659315--57659711 Score: 429
Period size: 40 Copynumber: 9.9 Consensus size: 40
57659305 AATTATTGTA
**
57659315 TGAATGCACATACGTGCCCCTAATTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * * *
57659355 TGAATGTAGATACGTGCCTCTGATTGTACTTCGATATCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
57659395 TGAATGCACATACATGCCCCTGTTTGTACTTCGGTATCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * *
57659435 TAAATTCACATATGTGCCCCTATTTGTACTTTGGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
57659475 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTA-CCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
57659514 TTAGATGCACATACGTGCCTCTGTTTGTACTTCGGTACCCT
1 TGA-ATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * * *
57659555 TGGATACACATACATGCCCCTGTTTGTACTTCAGTATCCT
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
** * *
57659595 TGAATGCACATACGTGCCTTTATTTGTACTTCGATACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * *
57659635 T-AGATGCACATACATGTCCCTATTTGTACTTCAGTAACCC
1 TGA-ATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * *
57659675 TGAATACACATATGTGCCCTTGATTGTACTTCGGTAC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTAC
57659712 TTATGAAGGC
Statistics
Matches: 293, Mismatches: 60, Indels: 8
0.81 0.17 0.02
Matches are distributed among these distances:
39 6 0.02
40 283 0.97
41 4 0.01
ACGTcount: A:0.22, C:0.27, G:0.17, T:0.34
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:57662083 original size:15 final size:16
Alignment explanation
Indices: 57662065--57662098 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
57662055 AAATTAAATT
*
57662065 AATTAA-CTAGATGCA
1 AATTAACCTAAATGCA
57662080 AATTAACCTAAATGCA
1 AATTAACCTAAATGCA
57662096 AAT
1 AAT
57662099 GAGATGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (16 bp):
AATTAACCTAAATGCA
Found at i:57686800 original size:437 final size:438
Alignment explanation
Indices: 57685975--57686847 Score: 1712
Period size: 437 Copynumber: 2.0 Consensus size: 438
57685965 AAAAATACAG
* *
57685975 GTTAGTGTTCACTTTATCATTATTTTAATGCATAAAGTTTATTGAAATTAATAATTTACAATTAT
1 GTTAGGGTTAACTTTATCATTATTTTAATGCATAAAGTTTATTGAAATTAATAATTTACAATTAT
*
57686040 AAAAATCTTAGTATAACATTTAACATTTAACATGTTATGTAGGAAAATCCTGATTTTAAAGGATT
66 AAAAATATTAGTATAACATTTAACATTTAACATGTTATGTAGGAAAATCCTGATTTTAAAGGATT
57686105 TAAGAAGAAAGGAATTGAACCACGATTGAATGAGTTAATGTGGCAAATGTTTGGTGGTATTGTAG
131 TAAGAAGAAAGGAATTGAACCACGATTGAATGAGTTAATGTGGCAAATGTTTGGTGGTATTGTAG
57686170 CCACTGGAGAGAACACATGGGCACCTTCGTCTGGTGTTCTTCCAAGTGGGGTTCCTATGGGAGAT
196 CCACTGGAGAGAACACATGGGCACCTTCGTCTGGTGTTCTTCCAAGTGGGGTTCCTATGGGAGAT
57686235 GATGCACCTAATGAGGGATTTAGTGATTCAGATGGACATAGTAACGAGAATGAAGGTATTCCTCC
261 GATGCACCTAATGAGGGATTTAGTGATTCAGATGGACATAGTAACGAGAATGAAGGTATTCCTCC
57686300 TGATGAGGTACCATCAAACCCTTCTCATGAAATCCCCAATCGAAGAAAGCAAACACTTGGGGCTG
326 TGATGAGGTACCATCAAACCCTTCTCATGAAATCCCCAATCGAAGAAAGCAAACACTTGGGGCTG
57686365 TACACGGTAAAGGAAAAAAAATCAAGTTCAAGTAGAAAATCATCAAAA
391 TACACGGTAAAGGAAAAAAAATCAAGTTCAAGTAGAAAATCATCAAAA
57686413 GTTAGGGTTAACTTTATCATTATTTTAATGCATAAAGTTTATTGAAATTAATAATTTACAATTAT
1 GTTAGGGTTAACTTTATCATTATTTTAATGCATAAAGTTTATTGAAATTAATAATTTACAATTAT
57686478 AAAAATATTAGTATAACATTTAA-ATTTAACATGTTATGTAGGAAAATCCTGATTTTAAAGGATT
66 AAAAATATTAGTATAACATTTAACATTTAACATGTTATGTAGGAAAATCCTGATTTTAAAGGATT
57686542 TAAGAAGAAAGGAATTGAACCACGATTGAATGAGTTAATGTGGCAAATGTTTGGTGGTATTGTAG
131 TAAGAAGAAAGGAATTGAACCACGATTGAATGAGTTAATGTGGCAAATGTTTGGTGGTATTGTAG
57686607 CCACTGGAGAGAACACATGGGCACCTTCGTCTGGTGTTCTTCCAAGTGGGGTTCCTATGGGAGAT
196 CCACTGGAGAGAACACATGGGCACCTTCGTCTGGTGTTCTTCCAAGTGGGGTTCCTATGGGAGAT
57686672 GATGCACCTAATGAGGGATTTAGTGATTCAGATGGACATAGTAACGAGAATGAAGGTATTCCTCC
261 GATGCACCTAATGAGGGATTTAGTGATTCAGATGGACATAGTAACGAGAATGAAGGTATTCCTCC
57686737 TGATGAGGTACCATCAAACCCTTCTCATGAAATCCCCAATCGAAGAAAGCAAACACTTGGGGCTG
326 TGATGAGGTACCATCAAACCCTTCTCATGAAATCCCCAATCGAAGAAAGCAAACACTTGGGGCTG
57686802 TACACGGTAAAGGAAAAAAAATCAAGTTCAAGTAGAAAATCATCAA
391 TACACGGTAAAGGAAAAAAAATCAAGTTCAAGTAGAAAATCATCAA
57686848 GAAATACATT
Statistics
Matches: 432, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
437 347 0.80
438 85 0.20
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (438 bp):
GTTAGGGTTAACTTTATCATTATTTTAATGCATAAAGTTTATTGAAATTAATAATTTACAATTAT
AAAAATATTAGTATAACATTTAACATTTAACATGTTATGTAGGAAAATCCTGATTTTAAAGGATT
TAAGAAGAAAGGAATTGAACCACGATTGAATGAGTTAATGTGGCAAATGTTTGGTGGTATTGTAG
CCACTGGAGAGAACACATGGGCACCTTCGTCTGGTGTTCTTCCAAGTGGGGTTCCTATGGGAGAT
GATGCACCTAATGAGGGATTTAGTGATTCAGATGGACATAGTAACGAGAATGAAGGTATTCCTCC
TGATGAGGTACCATCAAACCCTTCTCATGAAATCCCCAATCGAAGAAAGCAAACACTTGGGGCTG
TACACGGTAAAGGAAAAAAAATCAAGTTCAAGTAGAAAATCATCAAAA
Found at i:57687694 original size:4 final size:4
Alignment explanation
Indices: 57687685--57687720 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
57687675 GCTTCATGTT
*
57687685 TTTA TTTA TTTA CTTA TTTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTT
57687721 TTACAAACCC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 26 0.90
5 3 0.10
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:57687706 original size:17 final size:17
Alignment explanation
Indices: 57687684--57687721 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
57687674 TGCTTCATGT
57687684 TTTTATTTATTTACTTA
1 TTTTATTTATTTACTTA
*
57687701 TTTTATTTATTTATTTA
1 TTTTATTTATTTACTTA
57687718 TTTT
1 TTTT
57687722 TACAAACCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATTTATTTACTTA
Found at i:57688764 original size:22 final size:24
Alignment explanation
Indices: 57688718--57688762 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
57688708 GAAAAATATT
*
57688718 AAATATATATATTTTTTATTTTTA
1 AAATATATATAGTTTTTATTTTTA
57688742 AAATATA-ATAGTTTTTATTTT
1 AAATATATATAGTTTTTATTTT
57688763 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (24 bp):
AAATATATATAGTTTTTATTTTTA
Found at i:57688908 original size:68 final size:68
Alignment explanation
Indices: 57688829--57689038 Score: 352
Period size: 68 Copynumber: 3.1 Consensus size: 68
57688819 TCAAGTTTGT
* *
57688829 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATATAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
57688894 AAA
66 AAA
* *
57688897 TTTACTAATCAAATGTTGGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTAAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
57688962 AAA
66 AAA
*
57688965 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATAGAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
57689028 AAT
66 AAA
57689031 TTTACTAA
1 TTTACTAA
57689039 CAATTAATTT
Statistics
Matches: 134, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
66 26 0.19
67 1 0.01
68 107 0.80
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (68 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
AAA
Found at i:57688968 original size:9 final size:9
Alignment explanation
Indices: 57688927--57688966 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
57688917 TTTTATTACA
57688927 ACAATTAAT
1 ACAATTAAT
57688936 ACAATTAAT
1 ACAATTAAT
57688945 ACAATTAAT
1 ACAATTAAT
*
57688954 A-ATTTAAT
1 ACAATTAAT
57688962 A-AATT
1 ACAATT
57688967 TACTAATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
8 10 0.34
9 19 0.66
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (9 bp):
ACAATTAAT
Found at i:57689048 original size:16 final size:16
Alignment explanation
Indices: 57689027--57689068 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
57689017 AATAATTTGA
*
57689027 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
57689043 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
57689059 TAGTTTTAAT
1 TAATTTTAAT
57689069 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:57689052 original size:22 final size:22
Alignment explanation
Indices: 57689042--57689102 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
57689032 TTACTAACAA
* ** *
57689042 TTAATTTTAATAACAATTAGTT
1 TTAATTTTAATAAAAAAAAATT
*
57689064 TTAATTTTATTAAAAAAAAATT
1 TTAATTTTAATAAAAAAAAATT
*
57689086 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
57689103 CGGGCCGGGC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
TTAATTTTAATAAAAAAAAATT
Found at i:57689589 original size:4 final size:4
Alignment explanation
Indices: 57689571--57689620 Score: 59
Period size: 4 Copynumber: 12.2 Consensus size: 4
57689561 ATCTCCTCAC
57689571 ATTT -TTT ATTTT ATTT ATTGT -TATT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT A-TTT ATTT ATT-T AT-TT ATTT ATTT ATTT ATTT ATTT ATTT
57689620 A
1 A
57689621 CATGTTCATT
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
3 3 0.07
4 31 0.76
5 7 0.17
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:57695643 original size:23 final size:23
Alignment explanation
Indices: 57695596--57695654 Score: 82
Period size: 23 Copynumber: 2.5 Consensus size: 23
57695586 TTTATGTCCC
57695596 AAAATTACAGTGGACTGAACGTTG
1 AAAATTACAGT-GACTGAACGTTG
* * *
57695620 AAGATTACAGTGATTGAACTTTG
1 AAAATTACAGTGACTGAACGTTG
57695643 AAAATTACAGTG
1 AAAATTACAGTG
57695655 GGGAAAATCC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 21 0.68
24 10 0.32
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.29
Consensus pattern (23 bp):
AAAATTACAGTGACTGAACGTTG
Done.