Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397259.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_147.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 10737078
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 75620 characters in sequence are not A, C, G, or T
File 18 of 22
Found at i:7845457 original size:3 final size:3
Alignment explanation
Indices: 7845449--7845478 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
7845439 GTTCTAGTTT
*
7845449 TGA TGA TGA TGA TGA TGA TGA CGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
7845479 ATGTATGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.33, T:0.30
Consensus pattern (3 bp):
TGA
Found at i:7846633 original size:26 final size:25
Alignment explanation
Indices: 7846586--7846649 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 25
7846576 ATCATAAAAA
7846586 AATAATAAATAATAATTATTTAATTATT
1 AATAATAAA-AATAATTATTTAA-T-TT
7846614 AATAATAAAAA-AATTATTTAATTT
1 AATAATAAAAATAATTATTTAATTT
7846638 AA-AATAAAAATA
1 AATAATAAAAATA
7846650 TAAAAATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
23 8 0.23
24 5 0.14
25 1 0.03
26 10 0.29
27 2 0.06
28 9 0.26
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (25 bp):
AATAATAAAAATAATTATTTAATTT
Found at i:7846680 original size:28 final size:29
Alignment explanation
Indices: 7846640--7846694 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
7846630 TTTAATTTAA
7846640 AATAAAAATATAAAAATTTAATTAAATAT
1 AATAAAAATATAAAAATTTAATTAAATAT
* *
7846669 AATAAAAA-ATAAAATTTTATTTAAAT
1 AATAAAAATATAAAAATTTAATTAAAT
7846695 TTTTGTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (29 bp):
AATAAAAATATAAAAATTTAATTAAATAT
Found at i:7856594 original size:2 final size:2
Alignment explanation
Indices: 7856589--7856613 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7856579 ACACACACAC
7856589 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
7856614 AAGAATTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7859101 original size:24 final size:23
Alignment explanation
Indices: 7859057--7859103 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
7859047 ACTAAAGAAA
* * *
7859057 AAAAATTATATAATTATAATTAT
1 AAAAATTATAAAAATAAAATTAT
7859080 AAAAATTAATAAAAATAAAATTAT
1 AAAAATT-ATAAAAATAAAATTAT
7859104 TTTTTTATCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
AAAAATTATAAAAATAAAATTAT
Found at i:7870254 original size:17 final size:17
Alignment explanation
Indices: 7870232--7870265 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7870222 CAACTTCTTG
* *
7870232 AATAAATATAATTATTT
1 AATAAACATAACTATTT
7870249 AATAAACATAACTATTT
1 AATAAACATAACTATTT
7870266 CAACAATCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (17 bp):
AATAAACATAACTATTT
Found at i:7887955 original size:17 final size:17
Alignment explanation
Indices: 7887933--7887972 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
7887923 TCACATATTA
7887933 TTTTTCTT-TTCTTTTAT
1 TTTTTCTTATTC-TTTAT
7887950 TTTTTCTTATTCTTTAT
1 TTTTTCTTATTCTTTAT
7887967 TTTTTC
1 TTTTTC
7887973 CGTCTTTGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 19 0.86
18 3 0.14
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTTCTTATTCTTTAT
Found at i:7901253 original size:16 final size:16
Alignment explanation
Indices: 7901232--7901262 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7901222 ACTTACTGGA
7901232 TCCTTTTTTATGCTGT
1 TCCTTTTTTATGCTGT
*
7901248 TCCTTTTTTTTGCTG
1 TCCTTTTTTATGCTG
7901263 CATGGGAGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.03, C:0.19, G:0.13, T:0.65
Consensus pattern (16 bp):
TCCTTTTTTATGCTGT
Found at i:7902591 original size:2 final size:2
Alignment explanation
Indices: 7902584--7902628 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
7902574 ATGCTCTGTT
7902584 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7902626 TA T
1 TA T
7902629 CAGAATAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7911724 original size:117 final size:117
Alignment explanation
Indices: 7911576--7911824 Score: 347
Period size: 117 Copynumber: 2.1 Consensus size: 117
7911566 GGAAGAATAT
* * *
7911576 GAAGAGAAAGAAGGGAAGGAAGAGCAGAAGATGGGAGAAGAAGAGGAATTAGAGGTGAAC-AAGG
1 GAAGAGAAAGAAGGGAAGGAAGAGCAAAAGATGGAAGAAGAAGAGGAATTAGAGGAG-ACTAAGG
* * * *
7911640 AAAACAATGATGAAGAAAAAGATGAGGAGGATGACAAAGAGGAAACGACTGAA
65 AAAACAATAAAGAAGAAAAAGAAGAGGAGGATGACAAAGAGGAAACAACTGAA
* * * *
7911693 GAAGAGAAAGAAGGGAAGGATGAGGAAAAGATGGAAGAAGAAGAGGATTTAGAGGAGACTGAGGA
1 GAAGAGAAAGAAGGGAAGGAAGAGCAAAAGATGGAAGAAGAAGAGGAATTAGAGGAGACTAAGGA
* * * *
7911758 AAGCAGTAAAGAAGAAAAAGAAGAGGATGATGACAAAGAGGAAACAAGTGAA
66 AAACAATAAAGAAGAAAAAGAAGAGGAGGATGACAAAGAGGAAACAACTGAA
7911810 GAAGAGAAAGAAGGG
1 GAAGAGAAAGAAGGG
7911825 GAGCTCAAAG
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
116 2 0.02
117 114 0.98
ACGTcount: A:0.52, C:0.04, G:0.37, T:0.08
Consensus pattern (117 bp):
GAAGAGAAAGAAGGGAAGGAAGAGCAAAAGATGGAAGAAGAAGAGGAATTAGAGGAGACTAAGGA
AAACAATAAAGAAGAAAAAGAAGAGGAGGATGACAAAGAGGAAACAACTGAA
Found at i:7920076 original size:35 final size:35
Alignment explanation
Indices: 7919993--7920076 Score: 96
Period size: 35 Copynumber: 2.4 Consensus size: 35
7919983 CTAATTTATG
* **
7919993 CAGAATAACTAGAACAAGTGAAGTGCTACTTCACA
1 CAGAACAACTAGAACAAGTGAAACGCTACTTCACA
* * *
7920028 CAGAATAACTAGAACAAGTGAAACGCTATTTTACA
1 CAGAACAACTAGAACAAGTGAAACGCTACTTCACA
* *
7920063 TAGAACAATTAGAA
1 CAGAACAACTAGAA
7920077 AAAGCATAAC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.46, C:0.17, G:0.15, T:0.21
Consensus pattern (35 bp):
CAGAACAACTAGAACAAGTGAAACGCTACTTCACA
Found at i:7920391 original size:29 final size:31
Alignment explanation
Indices: 7920326--7920400 Score: 86
Period size: 29 Copynumber: 2.5 Consensus size: 31
7920316 TGTATACCGG
* *
7920326 TTCACATACACCTT-TTTCTCTTGTACCTAT
1 TTCACATACAACTTCTTTCTCTTGAACCTAT
7920356 TTC-CATACAACTTCTTT-TCTTGAACCTA-
1 TTCACATACAACTTCTTTCTCTTGAACCTAT
* *
7920384 TTCACATATAGCTTCTT
1 TTCACATACAACTTCTT
7920401 CTTTTATACC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
28 3 0.08
29 30 0.77
30 6 0.15
ACGTcount: A:0.23, C:0.28, G:0.04, T:0.45
Consensus pattern (31 bp):
TTCACATACAACTTCTTTCTCTTGAACCTAT
Found at i:7926010 original size:54 final size:50
Alignment explanation
Indices: 7925952--7926117 Score: 131
Period size: 53 Copynumber: 3.1 Consensus size: 50
7925942 TTTTTAATAG
7925952 AATTTTCTATTAGAGAAGTATTTTCATTAGAATTCCATTGAAAATTTCCGACAA
1 AATTTTC-ATTAGA-AAGTATTTTCA-TAGAATTCCATTGAAAATTTCC-ACAA
* * * *
7926006 AATTTTCATTGGAAATATATTTTCA-ACGAAATT-TATGTTGGAAATTTCCAACATA
1 AATTTTCATTAGAAA-GTATTTTCATA-G-AATTCCA--TTGAAAATTTCC-ACA-A
* *
7926061 AATTTTCA-TAGAAAAGGATTTTTCATGGAATTCCATTGAAAATTTCTCACAA
1 AATTTTCATTAG-AAAGTA-TTTTCATAGAATTCCATTGAAAATTTC-CACAA
7926113 AATTT
1 AATTT
7926118 CCATAGGAAA
Statistics
Matches: 90, Mismatches: 11, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
51 1 0.01
52 10 0.11
53 30 0.33
54 29 0.32
55 20 0.22
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (50 bp):
AATTTTCATTAGAAAGTATTTTCATAGAATTCCATTGAAAATTTCCACAA
Found at i:7926172 original size:107 final size:107
Alignment explanation
Indices: 7925950--7926173 Score: 253
Period size: 107 Copynumber: 2.1 Consensus size: 107
7925940 AATTTTTAAT
* * *
7925950 AGAATTTTCTATTAGAGAAGTATTTTCATTAGAATTCCATTGAAAATTTCCGACAAAATTTTCAT
1 AGAATTTTCTATTAGAAAAGGATTTTCATTAGAATTCCATTGAAAATTTCCGACAAAATTTCCAT
* **
7926015 TGGAAATATATTTTCAACGAAATTTATGTTGGAAATTTCCAAC
66 AGGAAATATATTTTCAACGAAATTTATG-TAAAAATTTCCAAC
* *
7926058 ATAAATTTTC-A-TAGAAAAGGATTTTTCA-TGGAATTCCATTGAAAATTTCTC-ACAAAATTTC
1 A-GAATTTTCTATTAGAAAAGGA-TTTTCATTAGAATTCCATTGAAAATTTC-CGACAAAATTTC
*
7926119 CATAGGAAAT-TCATTTTCAATGAAAAATTCTATG-AAAAATTTCCAAC
63 CATAGGAAATAT-ATTTTCAACG--AAATT-TATGTAAAAATTTCCAAC
7926166 AGAATTTT
1 AGAATTTT
7926174 TTATCGATGA
Statistics
Matches: 99, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
106 1 0.01
107 61 0.62
108 21 0.21
109 12 0.12
110 4 0.04
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (107 bp):
AGAATTTTCTATTAGAAAAGGATTTTCATTAGAATTCCATTGAAAATTTCCGACAAAATTTCCAT
AGGAAATATATTTTCAACGAAATTTATGTAAAAATTTCCAAC
Found at i:7933494 original size:8 final size:8
Alignment explanation
Indices: 7933481--7933511 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
7933471 CTTTCACCAC
7933481 TCTCTCTT
1 TCTCTCTT
7933489 TCTCTCTT
1 TCTCTCTT
*
7933497 TCTCTCAT
1 TCTCTCTT
7933505 TCTCTCT
1 TCTCTCT
7933512 GATCTCCATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.03, C:0.39, G:0.00, T:0.58
Consensus pattern (8 bp):
TCTCTCTT
Found at i:7936665 original size:72 final size:72
Alignment explanation
Indices: 7936547--7936682 Score: 202
Period size: 72 Copynumber: 1.9 Consensus size: 72
7936537 GAAGAGCCAT
* * *
7936547 CCTCAAATTTGGTGTTAGACTCTGAGAACACCTCTATCCAAGCTGAGAGTGAAGTGTCCACAGAT
1 CCTCAAATTTGGTATTAAACTCTGAGAACACCTCTATCCAAGCTGAGAGTGAAATGTCCACAGAT
7936612 GAATCAA
66 GAATCAA
* * *
7936619 CCTCAAATTTGGTATTAAACTTTGAGAACATCTCTA-CCCAGCCTGAGAGTGAAATGTCCACAGA
1 CCTCAAATTTGGTATTAAACTCTGAGAACACCTCTATCCAAG-CTGAGAGTGAAATGTCCACAGA
7936683 AGAGCAGCAA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
71 4 0.07
72 53 0.93
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (72 bp):
CCTCAAATTTGGTATTAAACTCTGAGAACACCTCTATCCAAGCTGAGAGTGAAATGTCCACAGAT
GAATCAA
Found at i:7949652 original size:21 final size:21
Alignment explanation
Indices: 7949623--7949663 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7949613 AAGACTGGAT
* *
7949623 GGCATCACTGAGGTTTTGATA
1 GGCACCACTGAGGTTATGATA
7949644 GGCACCACTGAGGTTATGAT
1 GGCACCACTGAGGTTATGAT
7949664 GGATATCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (21 bp):
GGCACCACTGAGGTTATGATA
Found at i:7962714 original size:2 final size:2
Alignment explanation
Indices: 7962707--7962736 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7962697 TAGATTCTTT
7962707 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7962737 GACATCATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7967969 original size:15 final size:15
Alignment explanation
Indices: 7967951--7967980 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7967941 TATTCACTTC
*
7967951 ATTTATTTTTTATTT
1 ATTTATTTTTCATTT
7967966 ATTTATTTTTCATTT
1 ATTTATTTTTCATTT
7967981 CAGCTTTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (15 bp):
ATTTATTTTTCATTT
Found at i:7968112 original size:7 final size:7
Alignment explanation
Indices: 7968100--7968126 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
7968090 GGAGTCCTGA
7968100 AAGCTTC
1 AAGCTTC
7968107 AAGCTTC
1 AAGCTTC
7968114 AAGCTTC
1 AAGCTTC
7968121 AAGCTT
1 AAGCTT
7968127 GATCCATGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (7 bp):
AAGCTTC
Found at i:7977003 original size:2 final size:2
Alignment explanation
Indices: 7976996--7977033 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
7976986 AATGAATGAC
7976996 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7977034 CATGCATTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7983990 original size:2 final size:2
Alignment explanation
Indices: 7983978--7984017 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
7983968 AGTAGCATTT
* *
7983978 GA GA AA GA GA GA GA GA GA GA GA GA GA GA GA GA GA TA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7984018 AACAGAGCCC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.45, T:0.03
Consensus pattern (2 bp):
GA
Found at i:7991104 original size:2 final size:2
Alignment explanation
Indices: 7991097--7991147 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
7991087 AAAGAGGAAA
7991097 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
7991139 AG AG AG AG A
1 AG AG AG AG A
7991148 CTACCAAGGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7997122 original size:29 final size:26
Alignment explanation
Indices: 7997090--7997434 Score: 119
Period size: 29 Copynumber: 12.8 Consensus size: 26
7997080 TTTATTATTA
7997090 ATTTTTATATAATATCATTTCTTAAATAT
1 ATTTTTATATAATAT-ATTT-TT-AATAT
*
7997119 ATTTTTAATATCATATATTTATT--T-T
1 ATTTTT-ATATAATATATTT-TTAATAT
* * *
7997144 ATTTATTATTATAATAT-TTTATATTTT
1 ATTT-TTA-TATAATATATTTTTAATAT
* *
7997171 ATTTTTAATATATTTATATTTTTATTATT
1 ATTTTT-ATATA-ATATATTTTTAATA-T
7997200 AATTTTTATATAATATCATTTCTTAAATAT
1 -ATTTTTATATAATAT-ATTT-TT-AATAT
* * * *
7997230 ATTTTTAATGTCATATA-TTTTATTTT
1 ATTTTT-ATATAATATATTTTTAATAT
* *
7997256 ATTTATTATTATAATAT-TTTATT-TTTT
1 ATTT-TTA-TATAATATATTT-TTAATAT
* * *
7997283 ATTTTTAATATATTTATATTTATATTATT
1 ATTTTT-ATATA-ATATATTTTTAATA-T
7997312 AATTTTTATATAATATCATATTTTAAATAT
1 -ATTTTTATATAATAT-AT-TTTT-AATAT
*
7997342 ATTTTTAATATCATATA-TTTT-AT-T
1 ATTTTT-ATATAATATATTTTTAATAT
* * * *
7997366 TTTATTTAT-TATTATAATTTTATTAT
1 ATT-TTTATATAATATATTTTTAATAT
*
7997392 A-TTTTAT-T--T-TCATTCTTAATAT
1 ATTTTTATATAATAT-ATTTTTAATAT
*
7997414 ATTTTTATTATTATATATTTT
1 ATTTTTA-TATAATATATTTT
7997435 ATTTTAATTT
Statistics
Matches: 245, Mismatches: 31, Indels: 82
0.68 0.09 0.23
Matches are distributed among these distances:
21 1 0.00
22 10 0.04
23 10 0.04
24 17 0.07
25 17 0.07
26 32 0.13
27 43 0.18
28 23 0.09
29 44 0.18
30 42 0.17
31 6 0.02
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (26 bp):
ATTTTTATATAATATATTTTTAATAT
Found at i:7997183 original size:23 final size:23
Alignment explanation
Indices: 7997118--7997202 Score: 75
Period size: 23 Copynumber: 3.4 Consensus size: 23
7997108 TTCTTAAATA
7997118 TATTTTTAATATCATATATT-TATTT
1 TATTTTTAATAT-AT-T-TTATATTT
7997143 TATTTATTATTATAATATTTTATATTT
1 TATTT-TTA--AT-ATATTTTATATTT
7997170 TATTTTTAATATA-TTTATATTTT
1 TATTTTTAATATATTTTATA-TTT
*
7997193 TATTATTAAT
1 TATTTTTAAT
7997203 TTTTATATAA
Statistics
Matches: 53, Mismatches: 1, Indels: 14
0.78 0.01 0.21
Matches are distributed among these distances:
22 6 0.11
23 15 0.28
24 2 0.04
25 5 0.09
26 8 0.15
27 11 0.21
28 4 0.08
29 2 0.04
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (23 bp):
TATTTTTAATATATTTTATATTT
Found at i:7997286 original size:112 final size:112
Alignment explanation
Indices: 7997064--7997436 Score: 594
Period size: 112 Copynumber: 3.3 Consensus size: 112
7997054 AAAATATAAA
7997064 TTTAATATATTTAT-TTTTTATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAAT
1 TTTAATATATTTATATTTTTATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAAT
7997128 ATCATATA-TTTATTTTATTTATTATTATAATATTTTATATTTTATT
66 ATCATATATTTTATTTTATTTATTATTATAATATTTTATATTTTATT
7997174 TTTAATATATTTATATTTTTATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAAT
1 TTTAATATATTTATATTTTTATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAAT
* *
7997239 GTCATATATTTTATTTTATTTATTATTATAATATTTTATTTTTTATT
66 ATCATATATTTTATTTTATTTATTATTATAATATTTTATATTTTATT
*
7997286 TTTAATATATTTATATTTATATTATTAATTTTTATATAATATCATATT-TTAAATATATTTTTAA
1 TTTAATATATTTATATTTTTATTATTAATTTTTATATAATATCAT-TTCTTAAATATATTTTTAA
*
7997350 TATCATATATTTTATTTTTATTTATTATTATAATTTTATTATATTTTA-T
65 TATCATATATTTTA-TTTTATTTATTATTATAATATT-TTATATTTTATT
* *
7997399 TTTCAT-TCTTAATATATTTTTATTATTATATATTTTAT
1 TTTAATATATT--TATATTTTTATTATTA-AT-TTTTAT
7997437 TTTAATTTGT
Statistics
Matches: 245, Mismatches: 9, Indels: 12
0.92 0.03 0.05
Matches are distributed among these distances:
110 14 0.06
111 57 0.23
112 113 0.46
113 29 0.12
114 24 0.10
115 2 0.01
116 6 0.02
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (112 bp):
TTTAATATATTTATATTTTTATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAAT
ATCATATATTTTATTTTATTTATTATTATAATATTTTATATTTTATT
Found at i:7997295 original size:23 final size:22
Alignment explanation
Indices: 7997250--7997310 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 22
7997240 TCATATATTT
7997250 TATTTTATTTATTATTAT-A-A
1 TATTTTATTTATTATTATAATA
* *
7997270 TATTTTATTTTTTATTTTTAATA
1 TATTTTATTTATTA-TTATAATA
7997293 TATTTATATTTA-TATTAT
1 TATTT-TATTTATTATTAT
7997311 TAATTTTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 13 0.39
21 3 0.09
22 4 0.12
23 8 0.24
24 5 0.15
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (22 bp):
TATTTTATTTATTATTATAATA
Found at i:7997313 original size:23 final size:23
Alignment explanation
Indices: 7997138--7997322 Score: 114
Period size: 21 Copynumber: 8.4 Consensus size: 23
7997128 ATCATATATT
7997138 TATTT-TATTTATTATTA-TAATA
1 TATTTATATTTA-TATTATTAATA
*
7997160 T-TTTATATTT-TATTTTTAATA
1 TATTTATATTTATATTATTAATA
*
7997181 TATTTATATTTTTATTATTAAT-
1 TATTTATATTTATATTATTAATA
* *
7997203 T-TTTATATAATATCATTTCTTAAATA
1 TATTTATAT-TTAT-A-TTATT-AATA
* *
7997229 TATTTTTAATGTCATA-TATT--T-
1 TATTTAT-AT-TTATATTATTAATA
7997250 TATTT-TATTTATTATTA-TAATA
1 TATTTATATTTA-TATTATTAATA
* *
7997272 T-TTTAT-TTTTTATTTTTAATA
1 TATTTATATTTATATTATTAATA
7997293 TATTTATATTTATATTATTAAT-
1 TATTTATATTTATATTATTAATA
7997315 T-TTTATAT
1 TATTTATAT
7997323 AATATCATAT
Statistics
Matches: 128, Mismatches: 15, Indels: 41
0.70 0.08 0.22
Matches are distributed among these distances:
18 2 0.02
19 5 0.04
20 11 0.09
21 41 0.32
22 27 0.21
23 22 0.17
24 4 0.03
25 6 0.05
26 1 0.01
27 5 0.04
28 4 0.03
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (23 bp):
TATTTATATTTATATTATTAATA
Found at i:7997323 original size:23 final size:23
Alignment explanation
Indices: 7997260--7997437 Score: 65
Period size: 23 Copynumber: 7.8 Consensus size: 23
7997250 TATTTTATTT
*
7997260 ATTATTATAATATTT-TATTTTTT
1 ATTATTAT-ATATTTATATTATTT
* *
7997283 ATTTTTAATATATTTATATT-TAT
1 ATTATT-ATATATTTATATTATTT
* * *
7997306 ATTATTA-ATTTTTATATAATATC
1 ATTATTATATATTTATATTAT-TT
**
7997329 A-TATT-T-TAAATATATT-TTT
1 ATTATTATATATTTATATTATTT
* * *
7997348 AATATCATATATTTTATTTTTATTT
1 ATTATTATATA-TTTA-TATTATTT
7997373 ATTATTATA-ATTT-TATTATATT
1 ATTATTATATATTTATATTAT-TT
* *
7997395 -TTATTTTCAT-TCTTAATATATTTTT
1 ATTATTAT-ATAT-TT-ATAT-TATTT
7997420 ATTATTATATATTT-TATT
1 ATTATTATATATTTATATT
7997438 TTAATTTGTT
Statistics
Matches: 113, Mismatches: 22, Indels: 41
0.64 0.12 0.23
Matches are distributed among these distances:
19 2 0.02
20 4 0.04
21 27 0.24
22 13 0.12
23 29 0.26
24 10 0.09
25 19 0.17
26 9 0.08
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (23 bp):
ATTATTATATATTTATATTATTT
Found at i:7997365 original size:5 final size:5
Alignment explanation
Indices: 7997357--7997620 Score: 74
Period size: 5 Copynumber: 51.4 Consensus size: 5
7997347 TAATATCATA
* *
7997357 TATTT TATTTT TATTTAT TATTAT AATTT TATTA TATTT TATTT TCATTCT
1 TATTT TA-TTT TA-TT-T TATT-T TATTT TATTT TATTT TATTT T-ATT-T
* * * * * ** *
7997408 TAATA TATTTT TATTAT TA-TA TATTT TATTT TAATT TGTTT TA-CC TATAT
1 TATTT TA-TTT TATT-T TATTT TATTT TATTT TATTT TATTT TATTT TATTT
* * * *
7997458 TATAT AATGTT AATTT T-TTA TATTT TATTT TATTT TATTTT TATTCT
1 TATTT TAT-TT TATTT TATTT TATTT TATTT TATTT TA-TTT TATT-T
* * * * * * * * *
7997505 TATAT TA-TA TATTT TATTT TAATT TGTTT TACTA TATTA TA-TA AATGTT
1 TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT TAT-TT
* * * * *
7997554 AATTTT TATAT TATTT T-TTT TTTTT TATTCT TATAT TA-TA TATTT TATTT
1 TA-TTT TATTT TATTT TATTT TATTT TATT-T TATTT TATTT TATTT TATTT
* * *
7997604 TAATA TGTTT TATTT TA
1 TATTT TATTT TATTT TA
7997621 ATTATAATAT
Statistics
Matches: 190, Mismatches: 50, Indels: 38
0.68 0.18 0.14
Matches are distributed among these distances:
4 18 0.09
5 117 0.62
6 49 0.26
7 6 0.03
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.68
Consensus pattern (5 bp):
TATTT
Found at i:7997387 original size:39 final size:37
Alignment explanation
Indices: 7997337--7997444 Score: 107
Period size: 34 Copynumber: 2.9 Consensus size: 37
7997327 TCATATTTTA
*
7997337 AATATATTTTTAATATCATATATTTTATTTTTATTTATT
1 AATATATTTTT-ATAT-ATATATTTTATTTTAATTTATT
* * * *
7997376 ATTATA-ATTT-TAT-TATATTTTATTTTCA-TTCTT
1 AATATATTTTTATATATATATTTTATTTTAATTTATT
7997409 AATATATTTTTATTATTATATATTTTATTTTAATTT
1 AATATATTTTTA-TA-TATATATTTTATTTTAATTT
7997445 GTTTTACCTA
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
33 9 0.16
34 17 0.30
36 5 0.09
37 1 0.02
38 17 0.30
39 7 0.12
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (37 bp):
AATATATTTTTATATATATATTTTATTTTAATTTATT
Found at i:7997394 original size:34 final size:33
Alignment explanation
Indices: 7997355--7997424 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
7997345 TTTAATATCA
* *
7997355 TATATTTTATTTTTATTTATTATTATAATTTTAT
1 TATATTTTATTTTCA-TTATTAATATAATTTTAT
* *
7997389 TATATTTTATTTTCATTCTTAATATATTTTTAT
1 TATATTTTATTTTCATTATTAATATAATTTTAT
7997422 TAT
1 TAT
7997425 TATATATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 18 0.56
34 14 0.44
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (33 bp):
TATATTTTATTTTCATTATTAATATAATTTTAT
Found at i:7997433 original size:33 final size:31
Alignment explanation
Indices: 7997355--7997442 Score: 79
Period size: 33 Copynumber: 2.7 Consensus size: 31
7997345 TTTAATATCA
* *
7997355 TATATTTTATTTTTATTTATTATTATAATTTTAT
1 TATATTATA-TTTTA-TT-TTAATATAATTTTAT
* *
7997389 TATATTTTATTTTCATTCTTAATATATTTTTAT
1 TATATTATATTTT-ATT-TTAATATAATTTTAT
7997422 TAT-TATATATTTTATTTTAAT
1 TATAT-TATATTTTATTTTAAT
7997443 TTGTTTTACC
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
31 5 0.10
32 4 0.08
33 29 0.60
34 10 0.21
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (31 bp):
TATATTATATTTTATTTTAATATAATTTTAT
Found at i:7997473 original size:29 final size:27
Alignment explanation
Indices: 7997438--7997560 Score: 83
Period size: 32 Copynumber: 4.3 Consensus size: 27
7997428 ATATTTTATT
7997438 TTAATTTGTTTTACCTATATTATATAATG
1 TTAATTT-TTTTA-CTATATTATATAATG
* * *
7997467 TTAA-TTTTTTA-TATTTTATTTTAT-
1 TTAATTTTTTTACTATATTATATAATG
* *
7997491 TTTATTTTTATT-CTTATATTATATATTTTATT
1 TTAATTTTT-TTAC-TATATTATATA----ATG
7997523 TTAATTTGTTTTACTATATTATATAAATG
1 TTAATTT-TTTTACTATATTATAT-AATG
7997552 TTAATTTTT
1 TTAATTTTT
7997561 ATATTATTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 25
0.68 0.08 0.23
Matches are distributed among these distances:
24 3 0.04
25 14 0.19
26 2 0.03
27 13 0.18
28 4 0.05
29 13 0.18
31 2 0.03
32 18 0.25
33 4 0.05
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.65
Consensus pattern (27 bp):
TTAATTTTTTTACTATATTATATAATG
Found at i:7997546 original size:32 final size:31
Alignment explanation
Indices: 7997475--7997547 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 31
7997465 TGTTAATTTT
7997475 TTATATT-T-TATTTTATTTTATTTTTATTC
1 TTATATTATATATTTTATTTTATTTTTATTC
7997504 TTATATTATATATTTTATTTTAATTTGTT-TTAC
1 TTATATTATATATTTTATTTT-ATTT-TTATT-C
7997537 -TATATTATATA
1 TTATATTATATA
7997548 AATGTTAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
29 7 0.18
30 1 0.03
31 11 0.28
32 17 0.44
33 3 0.08
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.68
Consensus pattern (31 bp):
TTATATTATATATTTTATTTTATTTTTATTC
Found at i:7997552 original size:85 final size:79
Alignment explanation
Indices: 7997413--7997615 Score: 307
Period size: 80 Copynumber: 2.5 Consensus size: 79
7997403 ATTCTTAATA
* *
7997413 TATTTTTATTATTATATATTTTATTTTAATTTGTTTTACCTATATTATATAATGTTAATTTTTTA
1 TATTCTTA-TATTATATATTTTATTTTAATATGTTTTA-CTATATTATATAATGTTAA-TTTTTA
7997478 TATTTTATTTTATTTTATTTT
63 TA--TTATTTT-TTTT-TTTT
*
7997499 TATTCTTATATTATATATTTTATTTTAATTTGTTTTACTATATTATATAAATGTTAATTTTTATA
1 TATTCTTATATTATATATTTTATTTTAATATGTTTTACTATATTATAT-AATGTTAATTTTTATA
7997564 TTATTTTTTTTTTTT
65 TTATTTTTTTTTTTT
7997579 TATTCTTATATTATATATTTTATTTTAATATGTTTTA
1 TATTCTTATATTATATATTTTATTTTAATATGTTTTA
7997616 TTTTAATTAT
Statistics
Matches: 114, Mismatches: 2, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
80 40 0.35
81 4 0.04
82 7 0.06
84 19 0.17
85 37 0.32
86 7 0.06
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (79 bp):
TATTCTTATATTATATATTTTATTTTAATATGTTTTACTATATTATATAATGTTAATTTTTATAT
TATTTTTTTTTTTT
Found at i:7997620 original size:15 final size:15
Alignment explanation
Indices: 7997163--7997622 Score: 79
Period size: 15 Copynumber: 30.1 Consensus size: 15
7997153 TATAATATTT
7997163 TATATTTTATTTTTAA
1 TATATTTTA-TTTTAA
*
7997179 TATATTTATATTTTTA
1 TATATTT-TATTTTAA
* *
7997195 T-TA-TTAATTTTTA
1 TATATTTTATTTTAA
* *
7997208 TATAATATCATTTCTTAAA
1 TAT-ATTTTA-TT-TT-AA
* * *
7997227 TATATTTTTAATGTCA
1 TATA-TTTTATTTTAA
*
7997243 TATATTTTATTTTATT
1 TATATTTTATTTTA-A
7997259 TATTATTATAATATTTT-A
1 TA-TATT-T--TATTTTAA
7997277 T-T-TTTTATTTTTAA
1 TATATTTTA-TTTTAA
7997291 TATA-TTTATATTT-A
1 TATATTTTAT-TTTAA
*
7997305 TAT-TATTAATTTTTATA
1 TATAT-TTTA-TTTTA-A
**
7997322 TAATATCATATTTTAAA
1 T-ATATTTTATTTT-AA
* * *
7997339 TATATTTTTAATATCA
1 TATA-TTTTATTTTAA
7997355 TATATTTTA-TTT--
1 TATATTTTATTTTAA
7997367 T-TA-TTTATTATT-A
1 TATATTTTATT-TTAA
* *
7997380 TA-ATTTTATTATAT
1 TATATTTTATTTTAA
*
7997394 TTTATTTTCATTCTTAA
1 TATATTTT-ATT-TTAA
7997411 TATATTTTTATTATT-A
1 TATA-TTTTATT-TTAA
7997427 TATATTTTATTTTAA
1 TATATTTTATTTTAA
* * **
7997442 TTTGTTTTA-CCT-A
1 TATATTTTATTTTAA
* * *
7997455 TATTATATAATGTTAA
1 TA-TATTTTATTTTAA
* *
7997471 T-TTTTTATATTTTAT
1 TATATTT-TATTTTAA
*
7997486 TTTATTTTATTTT--
1 TATATTTTATTTTAA
* *
7997499 TAT-TCTTATATT-A
1 TATATTTTATTTTAA
7997512 TATATTTTATTTTAA
1 TATATTTTATTTTAA
* *
7997527 TTTGTTTTACTATATTATA
1 TATATTTTA-T-T-TTA-A
* * *
7997546 TAAATGTTAATTTTTA
1 TATAT-TTTATTTTAA
**
7997562 TATTATTTT-TTTTTT
1 TA-TATTTTATTTTAA
* *
7997577 TTTATTCTTATATT-A
1 TATATT-TTATTTTAA
7997592 TATATTTTATTTTAA
1 TATATTTTATTTTAA
*
7997607 TATGTTTTATTTTAA
1 TATATTTTATTTTAA
7997622 T
1 T
7997623 TATAATATTA
Statistics
Matches: 320, Mismatches: 69, Indels: 111
0.64 0.14 0.22
Matches are distributed among these distances:
10 4 0.01
11 3 0.01
12 12 0.04
13 22 0.07
14 47 0.15
15 101 0.32
16 55 0.17
17 37 0.12
18 18 0.06
19 12 0.04
20 9 0.03
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (15 bp):
TATATTTTATTTTAA
Found at i:8000676 original size:24 final size:24
Alignment explanation
Indices: 8000644--8000691 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
8000634 ACATCCTTAT
8000644 AGATTAATTTCAATAACAAATGGG
1 AGATTAATTTCAATAACAAATGGG
8000668 AGATTAATTTCAATAACAAATGGG
1 AGATTAATTTCAATAACAAATGGG
8000692 GGATACATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.08, G:0.17, T:0.29
Consensus pattern (24 bp):
AGATTAATTTCAATAACAAATGGG
Found at i:8003242 original size:2 final size:2
Alignment explanation
Indices: 8003229--8003261 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
8003219 CATAGAACAC
*
8003229 AG AG AC AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
8003262 CTAATGCAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8020712 original size:49 final size:50
Alignment explanation
Indices: 8020640--8020740 Score: 186
Period size: 49 Copynumber: 2.0 Consensus size: 50
8020630 AAGCATAAGC
*
8020640 AATATGATCTACAATTAATTTTATATTTAATTTTATAA-CCGGTCATATG
1 AATATGATCTACAATTAATTTTATATTTAATTTTATAAGCCAGTCATATG
8020689 AATATGATCTACAATTAATTTTATATTTAATTTTATAAGCCAGTCATATG
1 AATATGATCTACAATTAATTTTATATTTAATTTTATAAGCCAGTCATATG
8020739 AA
1 AA
8020741 ATACTAACAT
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 38 0.76
50 12 0.24
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.44
Consensus pattern (50 bp):
AATATGATCTACAATTAATTTTATATTTAATTTTATAAGCCAGTCATATG
Found at i:8021064 original size:3 final size:3
Alignment explanation
Indices: 8021056--8021094 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
8021046 GGGAAAGCCT
8021056 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
8021095 AAAAATGTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:8029480 original size:2 final size:2
Alignment explanation
Indices: 8029473--8029497 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8029463 CTTTAAATTA
8029473 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8029498 GAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8029502 original size:2 final size:2
Alignment explanation
Indices: 8029497--8029528 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
8029487 ATATATATAT
*
8029497 AG AG AG AG AG AG AG AG AG AG AG AG GG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
8029529 GACCTATACC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8039636 original size:16 final size:15
Alignment explanation
Indices: 8039615--8039657 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
8039605 TTAATCAGAT
8039615 AAAAAAATAGAAACAA
1 AAAAAAATA-AAACAA
*
8039631 AAAAAAAGTAAAATAA
1 AAAAAAA-TAAAACAA
8039647 AAAAATAATAA
1 AAAAA-AATAA
8039658 TATTGATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 20 0.83
17 4 0.17
ACGTcount: A:0.81, C:0.02, G:0.05, T:0.12
Consensus pattern (15 bp):
AAAAAAATAAAACAA
Found at i:8039930 original size:17 final size:17
Alignment explanation
Indices: 8039895--8039940 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
8039885 AAAAAGAGAG
* *
8039895 TAATAAAAAGAATAAAA
1 TAATAAAAGGAAAAAAA
8039912 TAA-ATAAAGGAAAAAAA
1 TAATA-AAAGGAAAAAAA
8039929 TAATAAAAGGAA
1 TAATAAAAGGAA
8039941 GATTTCAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 1 0.04
17 23 0.92
18 1 0.04
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (17 bp):
TAATAAAAGGAAAAAAA
Found at i:8044893 original size:21 final size:20
Alignment explanation
Indices: 8044845--8044896 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
8044835 CTTCCATTTT
*
8044845 TATTTTAAT-ATTATAATTA
1 TATTTTAATAATTATAACTA
*
8044864 TAATCTTAATAATTATTAACTA
1 T-ATTTTAATAATTA-TAACTA
8044886 TATTTTAATAA
1 TATTTTAATAA
8044897 AACCTTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 1 0.04
20 7 0.26
21 13 0.48
22 6 0.22
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (20 bp):
TATTTTAATAATTATAACTA
Found at i:8047649 original size:23 final size:23
Alignment explanation
Indices: 8047615--8047668 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
8047605 AATTATGTAC
* *
8047615 TTTGGTTTGCTTATAGTTGGCAT
1 TTTGGTTCGCTTATAGTTGGCAA
8047638 TTTGGTTCGCTTATAGTTGGCAA
1 TTTGGTTCGCTTATAGTTGGCAA
8047661 TTTGGTTC
1 TTTGGTTC
8047669 AACCTTGCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.13, C:0.11, G:0.26, T:0.50
Consensus pattern (23 bp):
TTTGGTTCGCTTATAGTTGGCAA
Found at i:8052718 original size:2 final size:2
Alignment explanation
Indices: 8052711--8052737 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8052701 ACACAAATAT
8052711 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
8052738 TTTTATCTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:8058145 original size:79 final size:79
Alignment explanation
Indices: 8058010--8058163 Score: 290
Period size: 79 Copynumber: 1.9 Consensus size: 79
8058000 CAATTTAAAA
8058010 AATCCAACCAAACCCAACTTTGGAAGTTCCTAGATTTATTTTTTCTCATTAAATTTCAAGACTTT
1 AATCCAACCAAACCCAACTTTGGAAGTTCCTAGATTTATTTTTTCTCATTAAATTTCAAGACTTT
8058075 TATCTGTATGCATG
66 TATCTGTATGCATG
* *
8058089 AATCCAACCAAACCCAACTTTGGAAGTTCCTAGATTTGTTTTTTCTCATTATATTTCAAGACTTT
1 AATCCAACCAAACCCAACTTTGGAAGTTCCTAGATTTATTTTTTCTCATTAAATTTCAAGACTTT
8058154 TATCTGTATG
66 TATCTGTATG
8058164 GATGCATGTA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 73 1.00
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.40
Consensus pattern (79 bp):
AATCCAACCAAACCCAACTTTGGAAGTTCCTAGATTTATTTTTTCTCATTAAATTTCAAGACTTT
TATCTGTATGCATG
Found at i:8066434 original size:2 final size:2
Alignment explanation
Indices: 8066429--8066464 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
8066419 TTAATATGTG
8066429 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8066465 GATTGTTATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8066513 original size:14 final size:15
Alignment explanation
Indices: 8066494--8066534 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
8066484 TGAAATACAC
8066494 AATTAAAATA-ATTA
1 AATTAAAATATATTA
*
8066508 AATTAAAATATATTC
1 AATTAAAATATATTA
*
8066523 AAGTAAAATATA
1 AATTAAAATATA
8066535 ATTTTATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (15 bp):
AATTAAAATATATTA
Found at i:8070847 original size:19 final size:19
Alignment explanation
Indices: 8070823--8070860 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
8070813 AATCTCCCTC
*
8070823 TCAGATTATGCATAAATAT
1 TCAGATGATGCATAAATAT
8070842 TCAGATGATGCATAAATAT
1 TCAGATGATGCATAAATAT
8070861 ATATGTGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (19 bp):
TCAGATGATGCATAAATAT
Found at i:8072832 original size:21 final size:20
Alignment explanation
Indices: 8072806--8072844 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
8072796 TTATAATTTT
*
8072806 AATTATTTTGTAATTAAATTA
1 AATTATTTT-TAATAAAATTA
8072827 AATTATTTTTAATAAAAT
1 AATTATTTTTAATAAAAT
8072845 ATTTTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (20 bp):
AATTATTTTTAATAAAATTA
Found at i:8072916 original size:23 final size:23
Alignment explanation
Indices: 8072889--8072973 Score: 77
Period size: 23 Copynumber: 3.7 Consensus size: 23
8072879 CGTGCACATG
8072889 ATATTATATATTATATTAAAAAA
1 ATATTATATATTATATTAAAAAA
* *
8072912 ATATTATTAAATT-TA-TATAAAA
1 ATATTA-TATATTATATTAAAAAA
* *
8072934 ATATTTTACACGTTATAATTAAAAAA
1 ATATTATATA--TTAT-ATTAAAAAA
8072960 ATATTAT-TATTATA
1 ATATTATATATTATA
8072974 CGTCATATAT
Statistics
Matches: 49, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
21 3 0.06
22 12 0.24
23 14 0.29
24 6 0.12
25 2 0.04
26 12 0.24
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (23 bp):
ATATTATATATTATATTAAAAAA
Found at i:8073033 original size:52 final size:54
Alignment explanation
Indices: 8072925--8073040 Score: 148
Period size: 54 Copynumber: 2.2 Consensus size: 54
8072915 TTATTAAATT
* * * **
8072925 TATATAAAAATATTTTACACGTTATAATTAAAAAAATATTATTATTATACGTCA
1 TATATAAAAATATGTTACAAGTTATAATTAAAAAAATATTATTATTACACACCA
8072979 TATATAAAAATATGTTACAAGTTAT-ATTGAAAAAAA-A-TATTATTACACACCA
1 TATATAAAAATATGTTACAAGTTATAATT-AAAAAAATATTATTATTACACACCA
*
8073031 TATTTAAAAA
1 TATATAAAAA
8073041 AATTTATTAC
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
52 21 0.38
53 4 0.07
54 30 0.55
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.37
Consensus pattern (54 bp):
TATATAAAAATATGTTACAAGTTATAATTAAAAAAATATTATTATTACACACCA
Found at i:8073926 original size:17 final size:16
Alignment explanation
Indices: 8073887--8073939 Score: 65
Period size: 15 Copynumber: 3.3 Consensus size: 16
8073877 ATATAGTAAA
*
8073887 ATTTTTATAAATTAAT
1 ATTTTAATAAATTAAT
8073903 A-TTTAATAAATTAAT
1 ATTTTAATAAATTAAT
8073918 AATTTTAATTAAA-TAAT
1 -ATTTTAA-TAAATTAAT
8073935 ATTTT
1 ATTTT
8073940 TGACTGATCC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 13 0.39
16 7 0.21
17 9 0.27
18 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTTAATAAATTAAT
Found at i:8082884 original size:15 final size:15
Alignment explanation
Indices: 8082864--8082894 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
8082854 CATGGCACGT
8082864 TTGGTGTCATTCCAC
1 TTGGTGTCATTCCAC
8082879 TTGGTGTCATTCCAC
1 TTGGTGTCATTCCAC
8082894 T
1 T
8082895 GGCAAAGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.19, T:0.42
Consensus pattern (15 bp):
TTGGTGTCATTCCAC
Found at i:8084585 original size:20 final size:20
Alignment explanation
Indices: 8084543--8084586 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
8084533 TTCGTCTCCT
* ***
8084543 TCTTCCTTCTCACCTTTTTC
1 TCTTACTTCTCACCTTACCC
8084563 TCTTACTTCTCACCTTACCC
1 TCTTACTTCTCACCTTACCC
8084583 TCTT
1 TCTT
8084587 CTCTTTCTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.09, C:0.41, G:0.00, T:0.50
Consensus pattern (20 bp):
TCTTACTTCTCACCTTACCC
Found at i:8084943 original size:19 final size:19
Alignment explanation
Indices: 8084919--8084956 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
8084909 TTAACAGTTG
*
8084919 CTATTTATCTATCGATAGA
1 CTATTTATCTATCAATAGA
8084938 CTATTTATCTATCAATAGA
1 CTATTTATCTATCAATAGA
8084957 TAATATAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.42
Consensus pattern (19 bp):
CTATTTATCTATCAATAGA
Found at i:8084969 original size:20 final size:20
Alignment explanation
Indices: 8084944--8084982 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8084934 TAGACTATTT
8084944 ATCTATCAATAGATAATATA
1 ATCTATCAATAGATAATATA
**
8084964 ATCTATTGATAGATAATAT
1 ATCTATCAATAGATAATAT
8084983 GATCAATTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (20 bp):
ATCTATCAATAGATAATATA
Found at i:8084991 original size:20 final size:20
Alignment explanation
Indices: 8084952--8084996 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
8084942 TTATCTATCA
*
8084952 ATAGATAATATAATCTATTG
1 ATAGATAATATAATCAATTG
*
8084972 ATAGATAATATGATCAATTG
1 ATAGATAATATAATCAATTG
8084992 ATAGA
1 ATAGA
8084997 ATTTTCTATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.47, C:0.04, G:0.13, T:0.36
Consensus pattern (20 bp):
ATAGATAATATAATCAATTG
Found at i:8085818 original size:2 final size:2
Alignment explanation
Indices: 8085811--8085839 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8085801 GTGAATTAGA
8085811 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8085840 AACAATGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8093094 original size:25 final size:25
Alignment explanation
Indices: 8093047--8093094 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
8093037 ATAAAAATAC
* *
8093047 TTTTTATTTTATATGTAATTATTTA
1 TTTTTATTTGATATGTAAATATTTA
* *
8093072 TTTTTATTTGATTTTTAAATATT
1 TTTTTATTTGATATGTAAATATT
8093095 AATAATTTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (25 bp):
TTTTTATTTGATATGTAAATATTTA
Found at i:8093182 original size:25 final size:26
Alignment explanation
Indices: 8093124--8093187 Score: 62
Period size: 25 Copynumber: 2.5 Consensus size: 26
8093114 GAAATATCAA
* *
8093124 TAATTTATCATTTAAATATTACATAT
1 TAATTTTTAATTTAAATATTACATAT
*
8093150 T--TTATTTAATTTAAATATTA-TTAT
1 TAATT-TTTAATTTAAATATTACATAT
*
8093174 TAATTTTTATTTTA
1 TAATTTTTAATTTA
8093188 TTTTATTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
24 6 0.19
25 22 0.71
26 3 0.10
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (26 bp):
TAATTTTTAATTTAAATATTACATAT
Found at i:8093329 original size:61 final size:60
Alignment explanation
Indices: 8093134--8093337 Score: 173
Period size: 61 Copynumber: 3.3 Consensus size: 60
8093124 TAATTTATCA
* * *
8093134 TTTAAATATTACATATTTTATTTAATTTAAATATTATTATTAATT-TTTATTTTATTTTATTT
1 TTTAAATATTA-ATAATTTATTTAATTTAAATATTAATA-T-ATTATTTAGTTTATTTTATTT
* * * *
8093196 TGTAAATATTAAT-ATTTGA--TCATTTAAATATTAATATTTTATTTATAGTTTAATCATTAATA
1 TTTAAATATTAATAATTT-ATTTAATTTAAATATTAATATATTA-TT-TAGTTT-AT--TTTAT-
8093258 TT
59 TT
* * * *
8093260 TTAAAATGTTAATAATTTATTTAATTTAAATATTAGTATGATTACTTAGTTTATTTTATTT
1 TTTAAATATTAATAATTTATTTAATTTAAATATTAATAT-ATTATTTAGTTTATTTTATTT
*
8093321 TTTAAATGTTAATAATT
1 TTTAAATATTAATAATT
8093338 GATCATTTAA
Statistics
Matches: 114, Mismatches: 16, Indels: 25
0.74 0.10 0.16
Matches are distributed among these distances:
57 2 0.02
58 1 0.01
59 17 0.15
60 8 0.07
61 23 0.20
62 14 0.12
63 4 0.04
64 15 0.13
65 10 0.09
66 17 0.15
67 3 0.03
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (60 bp):
TTTAAATATTAATAATTTATTTAATTTAAATATTAATATATTATTTAGTTTATTTTATTT
Found at i:8093396 original size:125 final size:122
Alignment explanation
Indices: 8093150--8093396 Score: 293
Period size: 125 Copynumber: 2.0 Consensus size: 122
8093140 TATTACATAT
* * * *
8093150 TTTATTTAATTTAAATATTATTATTAATTTTTATTTTATTTTATTTTGTAAATATTAATATTTGA
1 TTTATTTAATTTAAATATTAGTATTAATTCTTAGTTTATTTTATTTTGTAAATATTAATAATTGA
* * *
8093215 TCATTTAAATATTAATATTTTATTTATAGTTTAATCATTAATATTTTAAAATGTTAATAA
66 TCATTTAAAGATTAAAATTTTATTTATAGTTTAATCATTAATATTTT---AGGTTAATAA
* * *
8093275 TTTATTTAATTTAAATATTAGTA-TGATTACTTAGTTTATTTTATTTTTTAAATGTTAATAATTG
1 TTTATTTAATTTAAATATTAGTATTAATT-CTTAGTTTATTTTATTTTGTAAATATTAATAATTG
*
8093339 ATCATTTAAAGATTAAAATTTTATCATTAATATTTTAAAAT-ATTAATATTTT-GGTTAA
65 ATCATTTAAAGATTAAAATTTTAT--TT-ATAGTTT--AATCATTAATATTTTAGGTTAA
8093397 CTTAAATATT
Statistics
Matches: 105, Mismatches: 11, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
124 4 0.04
125 79 0.75
127 2 0.02
128 6 0.06
129 11 0.10
130 3 0.03
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (122 bp):
TTTATTTAATTTAAATATTAGTATTAATTCTTAGTTTATTTTATTTTGTAAATATTAATAATTGA
TCATTTAAAGATTAAAATTTTATTTATAGTTTAATCATTAATATTTTAGGTTAATAA
Found at i:8105493 original size:18 final size:17
Alignment explanation
Indices: 8105470--8105506 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
8105460 TGTCAAAAAA
8105470 AATAATTTTAAATAATTT
1 AATAATTTTAAAT-ATTT
*
8105488 AATAATTTTATATATTT
1 AATAATTTTAAATATTT
8105505 AA
1 AA
8105507 CTAAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AATAATTTTAAATATTT
Found at i:8105536 original size:22 final size:22
Alignment explanation
Indices: 8105488--8105529 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
8105478 TAAATAATTT
8105488 AATAATTTTATATATTTAACTA
1 AATAATTTTATATATTTAACTA
8105510 AATAATTTTATATATTTAAC
1 AATAATTTTATATATTTAAC
8105530 AATATAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (22 bp):
AATAATTTTATATATTTAACTA
Found at i:8105908 original size:29 final size:29
Alignment explanation
Indices: 8105836--8105910 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 29
8105826 AAATTTAAAC
* * **
8105836 TTTATTATGTAATTTATTTTTTTTATATT
1 TTTATTATTTAATTTATTTGTAATATATT
* * *
8105865 TGGTGTAATTT-ATTTATTTGTAATATATT
1 T-TTATTATTTAATTTATTTGTAATATATT
8105894 TTTATTATTTAATTTAT
1 TTTATTATTTAATTTAT
8105911 GAATTAAATC
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
28 6 0.18
29 23 0.68
30 5 0.15
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (29 bp):
TTTATTATTTAATTTATTTGTAATATATT
Found at i:8119039 original size:122 final size:121
Alignment explanation
Indices: 8118805--8119039 Score: 262
Period size: 122 Copynumber: 1.9 Consensus size: 121
8118795 TAAACATGAC
* * *
8118805 ATGTAACTATGTCTCTATCTTTGTGTCTAATTAGAACATTAACTTTTACAGTTAAATACTTTAAA
1 ATGTAACTATGTCTCTATCTTTGTATCTAATTAGAACATAAACTCTTACAGTTAAATACTTTAAA
* * * **
8118870 TATGACGTGTAACAATTTTTTTTAATATGATATGTACTATTGTTTTTTCAACATAAA
66 CATGACGTGTAACAATTTTTTTTAACATGATAGGTAC-ATTAATTTTTCAACATAAA
* * * *
8118927 ATGTAACTCA-GTCTCTATCTTTGTATTTTATTATG-ATATAAACTCTTAGAGTTAAATACTTTA
1 ATGTAACT-ATGTCTCTATCTTTGTATCTAATTA-GAACATAAACTCTTACAGTTAAATACTTTA
* *
8118990 AACATGATGTGTAACAATATTTTTTTTCAACATGGTAGGTA-A-TAATTTTT
64 AACATGACGTGTAAC-A-ATTTTTTTT-AACATGATAGGTACATTAATTTTT
8119040 TTATTTCAAC
Statistics
Matches: 94, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
122 71 0.76
123 4 0.04
124 9 0.10
125 10 0.11
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.45
Consensus pattern (121 bp):
ATGTAACTATGTCTCTATCTTTGTATCTAATTAGAACATAAACTCTTACAGTTAAATACTTTAAA
CATGACGTGTAACAATTTTTTTTAACATGATAGGTACATTAATTTTTCAACATAAA
Found at i:8119051 original size:29 final size:28
Alignment explanation
Indices: 8119000--8119071 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 28
8118990 AACATGATGT
* * * *
8119000 GTAACAATATTTTTTTTCAACA-TGGTAG
1 GTAATAATTTTTTTTTTCAACATTGCT-C
8119028 GTAATAATTTTTTTATTTCAACATTGCTC
1 GTAATAATTTTTTT-TTTCAACATTGCTC
8119057 GTAATAATTTTTTTT
1 GTAATAATTTTTTTT
8119072 CAACATGACG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 13 0.34
29 22 0.58
30 3 0.08
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.51
Consensus pattern (28 bp):
GTAATAATTTTTTTTTTCAACATTGCTC
Found at i:8119194 original size:27 final size:26
Alignment explanation
Indices: 8119152--8119204 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
8119142 AAATACGGTG
8119152 TAATTTTTTTTTAACATAACGTGTAA
1 TAATTTTTTTTTAACATAACGTGTAA
* *
8119178 TAATTTTTTTTTCAACATGATGTGTAA
1 TAATTTTTTTTT-AACATAACGTGTAA
8119205 CTTGATTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.32, C:0.08, G:0.09, T:0.51
Consensus pattern (26 bp):
TAATTTTTTTTTAACATAACGTGTAA
Found at i:8120769 original size:23 final size:24
Alignment explanation
Indices: 8120723--8120771 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
8120713 AAAAAATTTT
*
8120723 AATTTTTTGTTATTAATGAGATGA
1 AATTTTTTGTTATTAATGACATGA
* *
8120747 AATTTTTTGTT-TTTATTACATGA
1 AATTTTTTGTTATTAATGACATGA
8120770 AA
1 AA
8120772 GTGTCTTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (24 bp):
AATTTTTTGTTATTAATGACATGA
Found at i:8122417 original size:46 final size:48
Alignment explanation
Indices: 8122330--8122423 Score: 120
Period size: 46 Copynumber: 2.0 Consensus size: 48
8122320 TTTGTATGTG
* * *
8122330 TATAATTTTTAATTATTTGAATTATGATAATGTGTCATAAAAAGTTTA
1 TATAATTTTTAATTATTTGAATTATAATAATGTATCATAAAAAATTTA
* **
8122378 TATAATTTTTAA-T-TTTGTATTATAATAATGTATTGTAAAAAATTTA
1 TATAATTTTTAATTATTTGAATTATAATAATGTATCATAAAAAATTTA
8122424 GTACAATAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
46 27 0.68
47 1 0.03
48 12 0.30
ACGTcount: A:0.40, C:0.01, G:0.09, T:0.50
Consensus pattern (48 bp):
TATAATTTTTAATTATTTGAATTATAATAATGTATCATAAAAAATTTA
Found at i:8122961 original size:30 final size:30
Alignment explanation
Indices: 8122904--8122962 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
8122894 TTTTTTACCC
*
8122904 ATTAAATATTAAAAATTTTGATTATTTATT
1 ATTAAATATTAAAAATTTTGATAATTTATT
* *
8122934 ATTAAATCTTAATAAATTTTTA-AATTTAT
1 ATTAAATATTAA-AAATTTTGATAATTTAT
8122963 CTAAAAAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (30 bp):
ATTAAATATTAAAAATTTTGATAATTTATT
Found at i:8124655 original size:18 final size:18
Alignment explanation
Indices: 8124632--8124682 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
8124622 AATAGTATTC
8124632 CTGGTGGTGGCGGTGATG
1 CTGGTGGTGGCGGTGATG
* *
8124650 CTGGTGGTGGAGGTGTTG
1 CTGGTGGTGGCGGTGATG
* *
8124668 ATGGCGGTGGCGGTG
1 CTGGTGGTGGCGGTG
8124683 GTGGTGGAGA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.06, C:0.10, G:0.57, T:0.27
Consensus pattern (18 bp):
CTGGTGGTGGCGGTGATG
Found at i:8128807 original size:27 final size:27
Alignment explanation
Indices: 8128747--8128813 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
8128737 CATTATATGA
* *
8128747 AATTGAATATAAATTATAATTTTTAAT
1 AATTTAATATAATTTATAATTTTTAAT
* *
8128774 AATTTAATTTAATTTATATATTTTTTAT
1 AATTTAATATAATTTATA-ATTTTTAAT
*
8128802 GA-TTAATATAAT
1 AATTTAATATAAT
8128814 ATTTATTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 24 0.73
28 9 0.27
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (27 bp):
AATTTAATATAATTTATAATTTTTAAT
Found at i:8146042 original size:28 final size:28
Alignment explanation
Indices: 8146004--8146059 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
8145994 GGATAAAAGT
8146004 TAGTTAATATATTGAATGATAAATGCAA
1 TAGTTAATATATTGAATGATAAATGCAA
* *
8146032 TAGTTGATATATTGTATGATAAATGCAA
1 TAGTTAATATATTGAATGATAAATGCAA
8146060 ACCAGAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.43, C:0.04, G:0.16, T:0.38
Consensus pattern (28 bp):
TAGTTAATATATTGAATGATAAATGCAA
Found at i:8153673 original size:105 final size:107
Alignment explanation
Indices: 8153555--8153771 Score: 330
Period size: 110 Copynumber: 2.0 Consensus size: 107
8153545 GGACAATCTG
*
8153555 TATATATAGTCTTCACTTAATTTC-AA-TAATCTAGTTCAACACTCAATAGTAGAGAAACCGATC
1 TATATATAGTCTTCACTTAATTTCTAATTAATCCAGTTCAACACTCAATAGTAGAGAAACCGATC
*
8153618 ATTAAAGTTTTCTATGAATTCTAATGTAGGACTATATATATA
66 ATTAAAGTTTTCTATGAATTCTAATGTAGGAATATATATATA
* * * * *
8153660 TATATGTAGTCTTCACTTAATTTCTAGTAATTGATCCAGTTCAACACTCAATAGTTGTGAAGCCG
1 TATATATAGTCTTCACTTAATTTC---TAATTAATCCAGTTCAACACTCAATAGTAGAGAAACCG
8153725 ATCATTAAAGTTTTCTATGAATTCTAATGTAGGAATATATATATA
63 ATCATTAAAGTTTTCTATGAATTCTAATGTAGGAATATATATATA
8153770 TA
1 TA
8153772 CACACACATA
Statistics
Matches: 100, Mismatches: 7, Indels: 5
0.89 0.06 0.04
Matches are distributed among these distances:
105 23 0.23
109 2 0.02
110 75 0.75
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (107 bp):
TATATATAGTCTTCACTTAATTTCTAATTAATCCAGTTCAACACTCAATAGTAGAGAAACCGATC
ATTAAAGTTTTCTATGAATTCTAATGTAGGAATATATATATA
Found at i:8153766 original size:2 final size:2
Alignment explanation
Indices: 8153759--8153802 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
8153749 TAATGTAGGA
* * * *
8153759 AT AT AT AT AT AT AC AC AC AC AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8153801 AT
1 AT
8153803 GCAGAGAGAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (2 bp):
AT
Found at i:8153810 original size:2 final size:2
Alignment explanation
Indices: 8153805--8153836 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
8153795 ATATATATGC
*
8153805 AG AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
8153837 TCTTCACTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8155778 original size:17 final size:18
Alignment explanation
Indices: 8155736--8155785 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
8155726 TGTAAATGTA
*
8155736 ATAAAAA-ATAAATACATG
1 ATAAAAATATAAA-ACATC
*
8155754 ATACAAATATAAAA-ATC
1 ATAAAAATATAAAACATC
8155771 ATAAAAATGATAAAA
1 ATAAAAAT-ATAAAA
8155786 TGATTAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 9 0.33
18 13 0.48
19 5 0.19
ACGTcount: A:0.68, C:0.06, G:0.04, T:0.22
Consensus pattern (18 bp):
ATAAAAATATAAAACATC
Found at i:8156177 original size:3 final size:3
Alignment explanation
Indices: 8156171--8156205 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
8156161 AAAAAAAAAA
* *
8156171 AAT AAT AAT AAT GAT AAT AAT AAT AAT AGT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8156206 ATGAATAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:8157088 original size:64 final size:64
Alignment explanation
Indices: 8156982--8157119 Score: 172
Period size: 64 Copynumber: 2.2 Consensus size: 64
8156972 CGGTTCGACC
* * ** * *
8156982 GGGGGGGGGGAATTAGGTCACTGGCTCGCGAGGGGGGTGGAAATTAGGTTCTGCGGACGGCCG-G
1 GGGGGGGGGGAATTAGGTCACCGACTCAAGAGGAGGGTGGAAATTAGGTT-GGCGGACGGCCGAG
* *
8157046 GGGGGGGGGGAATTAGGTCGCCGACTCAAGAGGCAGGG-GGAAATTAGGTTGGCGGACGGGCGAG
1 GGGGGGGGGGAATTAGGTCACCGACTCAAGAGG-AGGGTGGAAATTAGGTTGGCGGACGGCCGAG
8157110 GGGGGGGGGG
1 GGGGGGGGGG
8157120 GGGGGAATTA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
63 10 0.16
64 51 0.80
65 3 0.05
ACGTcount: A:0.17, C:0.14, G:0.55, T:0.14
Consensus pattern (64 bp):
GGGGGGGGGGAATTAGGTCACCGACTCAAGAGGAGGGTGGAAATTAGGTTGGCGGACGGCCGAG
Found at i:8157116 original size:31 final size:31
Alignment explanation
Indices: 8157009--8157116 Score: 83
Period size: 31 Copynumber: 3.4 Consensus size: 31
8156999 TCACTGGCTC
8157009 GCGAGGGGGGTGGAAATTAGGTTCTGCGGACGG
1 GCGAGGGGGG-GGAAATTAGGTTC-GCGGACGG
* * * * **
8157042 CCGGGGGGGGGGGGAATTAGG-TCGCCGACTC
1 GC-GAGGGGGGGGAAATTAGGTTCGCGGACGG
** * *
8157073 AAGAGGCAGGGGGAAATTAGGTTGGCGGACGG
1 GCGAGG-GGGGGGAAATTAGGTTCGCGGACGG
8157105 GCGAGGGGGGGG
1 GCGAGGGGGGGG
8157117 GGGGGGGGAA
Statistics
Matches: 54, Mismatches: 18, Indels: 8
0.68 0.22 0.10
Matches are distributed among these distances:
30 3 0.06
31 22 0.41
32 12 0.22
33 10 0.19
34 7 0.13
ACGTcount: A:0.19, C:0.14, G:0.55, T:0.13
Consensus pattern (31 bp):
GCGAGGGGGGGGAAATTAGGTTCGCGGACGG
Found at i:8157340 original size:31 final size:31
Alignment explanation
Indices: 8157297--8157357 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
8157287 TACAATAACC
8157297 GACGGTTACGGTCGGTTGGGCGGTCCCAACT
1 GACGGTTACGGTCGGTTGGGCGGTCCCAACT
*
8157328 GACGGTTGCGGTCGGTTGGGCGGTCCCAAC
1 GACGGTTACGGTCGGTTGGGCGGTCCCAAC
8157358 CGATCGCCGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.11, C:0.26, G:0.41, T:0.21
Consensus pattern (31 bp):
GACGGTTACGGTCGGTTGGGCGGTCCCAACT
Found at i:8172415 original size:15 final size:15
Alignment explanation
Indices: 8172373--8172413 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
8172363 TAATATTATA
8172373 ATTAAAATAAAATAT
1 ATTAAAATAAAATAT
8172388 ATTAAAATAAAATAT
1 ATTAAAATAAAATAT
*
8172403 A-TAATATAAAA
1 ATTAAAATAAAA
8172414 ATTAAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 9 0.36
15 16 0.64
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
ATTAAAATAAAATAT
Found at i:8172525 original size:29 final size:29
Alignment explanation
Indices: 8172493--8172549 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
8172483 TAACATATAT
*
8172493 AATATAAA-AAATTATATTAAAAAAATAAA
1 AATA-AAATAAATGATATTAAAAAAATAAA
* *
8172522 AATAAAATATATGATATTAAAAATATAA
1 AATAAAATAAATGATATTAAAAAAATAA
8172550 CTAAGAGATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (29 bp):
AATAAAATAAATGATATTAAAAAAATAAA
Found at i:8172547 original size:14 final size:14
Alignment explanation
Indices: 8172489--8172549 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
8172479 AAAATAACAT
8172489 ATATAATA-TAAAA
1 ATATAATATTAAAA
*
8172502 A-ATTATATTAAAA
1 ATATAATATTAAAA
* * *
8172515 AAATAAAAATAAAA
1 ATATAATATTAAAA
*
8172529 TATATGATATTAAAA
1 -ATATAATATTAAAA
8172544 ATATAA
1 ATATAA
8172550 CTAAGAGATG
Statistics
Matches: 36, Mismatches: 9, Indels: 5
0.72 0.18 0.10
Matches are distributed among these distances:
12 5 0.14
13 7 0.19
14 14 0.39
15 10 0.28
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (14 bp):
ATATAATATTAAAA
Found at i:8172787 original size:15 final size:15
Alignment explanation
Indices: 8172745--8172788 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
8172735 TAATATTATT
8172745 TTTTTCTACAATCACA
1 TTTTT-TACAATCACA
* **
8172761 TTGTTTGTAATCACA
1 TTTTTTACAATCACA
8172776 TTTTTTACAATCA
1 TTTTTTACAATCA
8172789 TATTACCTGT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
15 18 0.82
16 4 0.18
ACGTcount: A:0.30, C:0.18, G:0.05, T:0.48
Consensus pattern (15 bp):
TTTTTTACAATCACA
Found at i:8173013 original size:34 final size:34
Alignment explanation
Indices: 8172975--8173042 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
8172965 TTGCGAGACA
*
8172975 CAAGTTCTGCGAAGATACCAAAATGACTTGAAAT
1 CAAGTTCTACGAAGATACCAAAATGACTTGAAAT
*
8173009 CAAGTTCTATGAAGATACCAAAATGACTTGAAAT
1 CAAGTTCTACGAAGATACCAAAATGACTTGAAAT
8173043 TAAAAATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (34 bp):
CAAGTTCTACGAAGATACCAAAATGACTTGAAAT
Found at i:8176115 original size:2 final size:2
Alignment explanation
Indices: 8176110--8176143 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8176100 ACACACACAC
8176110 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8176144 TTGTATACCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8177592 original size:21 final size:21
Alignment explanation
Indices: 8177566--8177605 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
8177556 GGTACTAGAA
8177566 CATTTTGGAATGCAAGATGAT
1 CATTTTGGAATGCAAGATGAT
8177587 CATTTTGGAATGCAAGATG
1 CATTTTGGAATGCAAGATG
8177606 CTAAGTGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.33
Consensus pattern (21 bp):
CATTTTGGAATGCAAGATGAT
Found at i:8179388 original size:60 final size:59
Alignment explanation
Indices: 8179306--8179476 Score: 261
Period size: 60 Copynumber: 2.9 Consensus size: 59
8179296 TGGCCCTTCT
* * * * *
8179306 TTTCTTTGGTAAGCTTCGTCTTTTGTTTGAAATACCCTGCCCTCTTTTTTGGCCTTTTC
1 TTTCTTTGGTAAGTTTCATCTTTTGTTTGAAGTACTCTGCCCTCTCTTTTGGCCTTTTC
*
8179365 TTTCTTTTGGTAAGTTTCATCTTTTGTTTGAAGTACTCTACCCTCTCTTTTGGCCTTTTC
1 TTTC-TTTGGTAAGTTTCATCTTTTGTTTGAAGTACTCTGCCCTCTCTTTTGGCCTTTTC
*
8179425 TTTGCTTTGGTAAGTTTCATCTTTTGTTTGAAGTACTTTGCCCTCTCTTTTG
1 TTT-CTTTGGTAAGTTTCATCTTTTGTTTGAAGTACTCTGCCCTCTCTTTTG
8179477 TTCAAGAAAA
Statistics
Matches: 102, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
59 4 0.04
60 97 0.95
61 1 0.01
ACGTcount: A:0.11, C:0.21, G:0.15, T:0.53
Consensus pattern (59 bp):
TTTCTTTGGTAAGTTTCATCTTTTGTTTGAAGTACTCTGCCCTCTCTTTTGGCCTTTTC
Found at i:8179918 original size:25 final size:25
Alignment explanation
Indices: 8179884--8179937 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
8179874 TAATTGATCA
8179884 CTTTAATATTAATTGGCCTCTCATG
1 CTTTAATATTAATTGGCCTCTCATG
8179909 CTTTAATATTAATTGGCCTCTCATG
1 CTTTAATATTAATTGGCCTCTCATG
8179934 CTTT
1 CTTT
8179938 GTCTCACGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.46
Consensus pattern (25 bp):
CTTTAATATTAATTGGCCTCTCATG
Found at i:8185718 original size:25 final size:24
Alignment explanation
Indices: 8185682--8185733 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
8185672 AATTTTTTAA
* * *
8185682 AAAATAAGACAAATAATAAAATTTT
1 AAAATAAAACAAAGAA-AAAATTAT
8185707 AAAATAAAACAAAGAAAAAATTAT
1 AAAATAAAACAAAGAAAAAATTAT
8185731 AAA
1 AAA
8185734 TTTTTGAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.21
Consensus pattern (24 bp):
AAAATAAAACAAAGAAAAAATTAT
Found at i:8190300 original size:2 final size:2
Alignment explanation
Indices: 8190293--8190327 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
8190283 ATGATTGTTA
* *
8190293 AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8190328 CAAAACTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8191446 original size:19 final size:18
Alignment explanation
Indices: 8191418--8191453 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
8191408 GATAGCCGTC
*
8191418 ATTGCTCAATTTTTAATA
1 ATTGCTCAATTTATAATA
8191436 ATTGACTCAATTTATAAT
1 ATTG-CTCAATTTATAAT
8191454 CTTATATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.47
Consensus pattern (18 bp):
ATTGCTCAATTTATAATA
Found at i:8209374 original size:2 final size:2
Alignment explanation
Indices: 8209369--8209394 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8209359 ATTTTTTCTC
8209369 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
8209395 CATTTTCTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8209798 original size:29 final size:30
Alignment explanation
Indices: 8209766--8209854 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
8209756 GTCTTAATTT
* * *
8209766 TTTTTATTTT-ACTTAATTAAGTTTTTATA
1 TTTTTATTTTAACTAAAATAAATTTTTATA
*
8209795 TTTTTATTTTAAGTAAAATAAATTTTTATA
1 TTTTTATTTTAACTAAAATAAATTTTTATA
* * * *
8209825 TTTTTATTTTGAGTCAAATAAATTATTATA
1 TTTTTATTTTAACTAAAATAAATTTTTATA
8209855 ACTAATGATT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
29 10 0.19
30 42 0.81
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (30 bp):
TTTTTATTTTAACTAAAATAAATTTTTATA
Found at i:8209821 original size:30 final size:30
Alignment explanation
Indices: 8209787--8209854 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
8209777 CTTAATTAAG
8209787 TTTTTATATTTTTATTTTAAGTAAAATAAA
1 TTTTTATATTTTTATTTTAAGTAAAATAAA
* *
8209817 TTTTTATATTTTTATTTTGAGTCAAATAAA
1 TTTTTATATTTTTATTTTAAGTAAAATAAA
*
8209847 TTATTATA
1 TTTTTATA
8209855 ACTAATGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.57
Consensus pattern (30 bp):
TTTTTATATTTTTATTTTAAGTAAAATAAA
Found at i:8214921 original size:2 final size:2
Alignment explanation
Indices: 8214914--8214938 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8214904 AATTTAATCC
8214914 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8214939 CACTCACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8217809 original size:15 final size:15
Alignment explanation
Indices: 8217760--8217852 Score: 50
Period size: 15 Copynumber: 6.3 Consensus size: 15
8217750 TGATTAAAGA
8217760 ATTATAAATAATTAT
1 ATTATAAATAATTAT
* * *
8217775 TTTATTAGAT-ATAAT
1 ATTA-TAAATAATTAT
*
8217790 TTTATAAATAATTAT
1 ATTATAAATAATTAT
* **
8217805 ATTATGAA-AGGT-T
1 ATTATAAATAATTAT
*
8217818 ATTA-AATATAATTTT
1 ATTATAA-ATAATTAT
* *
8217833 TTTATAAAAAATTAT
1 ATTATAAATAATTAT
8217848 ATTAT
1 ATTAT
8217853 GAAAGAAACA
Statistics
Matches: 56, Mismatches: 16, Indels: 12
0.67 0.19 0.14
Matches are distributed among these distances:
12 1 0.02
13 6 0.11
14 8 0.14
15 35 0.62
16 6 0.11
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.49
Consensus pattern (15 bp):
ATTATAAATAATTAT
Found at i:8217820 original size:40 final size:41
Alignment explanation
Indices: 8217776--8217857 Score: 121
Period size: 43 Copynumber: 2.0 Consensus size: 41
8217766 AATAATTATT
* *
8217776 TTATTAGATATAA-TTTTATAAATAATTATATTATGAAAGG
1 TTATTAAATATAATTTTTATAAAAAATTATATTATGAAAGG
8217816 TTATTAAATATAATTTTTTTATAAAAAATTATATTATGAAAG
1 TTATTAAATATAA--TTTTTATAAAAAATTATATTATGAAAG
8217858 AAACAACTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 12 0.32
43 25 0.68
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (41 bp):
TTATTAAATATAATTTTTATAAAAAATTATATTATGAAAGG
Found at i:8233645 original size:24 final size:25
Alignment explanation
Indices: 8233598--8233645 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
8233588 GAGGAAAGCT
* *
8233598 AGTTTGGTATAGCATTGGGATGTAA
1 AGTTTGATATACCATTGGGATGTAA
*
8233623 AGTTTGATATACCA-TGGGGTGTA
1 AGTTTGATATACCATTGGGATGTA
8233646 TAGTGGGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.27, C:0.06, G:0.31, T:0.35
Consensus pattern (25 bp):
AGTTTGATATACCATTGGGATGTAA
Found at i:8234657 original size:41 final size:41
Alignment explanation
Indices: 8234597--8234679 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
8234587 GATGAAAATG
* * *
8234597 GGGAGTTCATACTAGACATGGTGATGAATTAACTTAAGGGC
1 GGGAGTTCAAACTAAACATGGTGATGAATTAACCTAAGGGC
8234638 GGGAGTTCAAACTAAACATGGTGATGAATTAACCTAAGGGC
1 GGGAGTTCAAACTAAACATGGTGATGAATTAACCTAAGGGC
8234679 G
1 G
8234680 TGTTTGGTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.34, C:0.13, G:0.29, T:0.24
Consensus pattern (41 bp):
GGGAGTTCAAACTAAACATGGTGATGAATTAACCTAAGGGC
Found at i:8235041 original size:18 final size:20
Alignment explanation
Indices: 8235020--8235065 Score: 69
Period size: 18 Copynumber: 2.4 Consensus size: 20
8235010 AAAATATTTA
*
8235020 AATATTATTTAA-TAT-ATT
1 AATATTATTTAACTATAATC
8235038 AATATTATTTAACTATAATC
1 AATATTATTTAACTATAATC
8235058 AATATTAT
1 AATATTAT
8235066 AAAGAATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 12 0.48
19 3 0.12
20 10 0.40
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (20 bp):
AATATTATTTAACTATAATC
Found at i:8235049 original size:10 final size:10
Alignment explanation
Indices: 8235014--8235088 Score: 57
Period size: 10 Copynumber: 7.4 Consensus size: 10
8235004 GAAATGAAAA
8235014 TATTTAAATAT
1 TATTT-AATAT
8235025 TATTTAATA-
1 TATTTAATAT
8235034 TA-TTAATAT
1 TATTTAATAT
8235043 TATTTAACTA-
1 TATTTAA-TAT
* *
8235053 TAATCAATAT
1 TATTTAATAT
**
8235063 TATAAAGAATAT
1 TAT--TTAATAT
8235075 TATTTAATAT
1 TATTTAATAT
8235085 TATT
1 TATT
8235089 ATTTCAATAT
Statistics
Matches: 51, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
8 6 0.12
9 6 0.12
10 24 0.47
11 7 0.14
12 8 0.16
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (10 bp):
TATTTAATAT
Found at i:8235100 original size:45 final size:45
Alignment explanation
Indices: 8235040--8235133 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 45
8235030 AATATATTAA
* * *
8235040 TATTATTTAACTATAATCAATATTATAAAGAATATTATTTAATAT
1 TATTATTTAACTATAATAAATATAATAAAGAAAATTATTTAATAT
* **
8235085 TATTATTTCAA-TATAATAAATGTAATAAAGAAAATTATTTTGTAT
1 TATTATTT-AACTATAATAAATATAATAAAGAAAATTATTTAATAT
8235130 TATT
1 TATT
8235134 TAAATTTAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
45 40 0.95
46 2 0.05
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (45 bp):
TATTATTTAACTATAATAAATATAATAAAGAAAATTATTTAATAT
Found at i:8235397 original size:53 final size:54
Alignment explanation
Indices: 8235295--8235397 Score: 120
Period size: 53 Copynumber: 1.9 Consensus size: 54
8235285 TAAATTATTT
* ** * * *
8235295 AATTTTAATAAAGAGTATGTTTTTCTCATTATAGTATTTTTGTTTTTTAATTTAA
1 AATTTTAATAAAGAGTA-GTTTTTATCATTATACCATTATTATTCTTTAATTTAA
8235350 AATTTTAATAAAGAGTA-TTTTTATCATT-TACCCATTATTATTCTTTAA
1 AATTTTAATAAAGAGTAGTTTTTATCATTATA-CCATTATTATTCTTTAA
8235398 CTATTTTTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
52 2 0.05
53 22 0.54
55 17 0.41
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (54 bp):
AATTTTAATAAAGAGTAGTTTTTATCATTATACCATTATTATTCTTTAATTTAA
Found at i:8239820 original size:2 final size:2
Alignment explanation
Indices: 8239813--8239841 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8239803 AAAGGCCATT
8239813 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8239842 GATCAAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8240401 original size:13 final size:13
Alignment explanation
Indices: 8240369--8240428 Score: 54
Period size: 12 Copynumber: 4.7 Consensus size: 13
8240359 TACAAAAATG
*
8240369 TATTAAAAAACA-
1 TATTAAAAAATAT
8240381 TATATAAAAAATAT
1 TAT-TAAAAAATAT
8240395 TATT-AAAAATAT
1 TATTAAAAAATAT
* *
8240407 TTTTAACAACATAT
1 TATTAA-AAAATAT
8240421 T-TTAAAAA
1 TATTAAAAA
8240429 TATACTATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
12 16 0.40
13 14 0.35
14 10 0.25
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (13 bp):
TATTAAAAAATAT
Found at i:8242697 original size:15 final size:16
Alignment explanation
Indices: 8242671--8242700 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8242661 TTTTTAATTT
8242671 TTAAAAATTAAAATCA
1 TTAAAAATTAAAATCA
8242687 TTAAAAA-TAAAATC
1 TTAAAAATTAAAATC
8242701 CACATAATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAAAAATTAAAATCA
Found at i:8253800 original size:17 final size:16
Alignment explanation
Indices: 8253778--8253810 Score: 57
Period size: 16 Copynumber: 2.0 Consensus size: 16
8253768 TTTTGCATGG
8253778 TACAAAAAGAAAAAAAA
1 TACAAAAA-AAAAAAAA
8253795 TACAAAAAAAAAAAAA
1 TACAAAAAAAAAAAAA
8253811 AACCCACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.85, C:0.06, G:0.03, T:0.06
Consensus pattern (16 bp):
TACAAAAAAAAAAAAA
Found at i:8253811 original size:17 final size:17
Alignment explanation
Indices: 8253778--8253811 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8253768 TTTTGCATGG
*
8253778 TACAAAAAGAAAAAAAA
1 TACAAAAAAAAAAAAAA
8253795 TACAAAAAAAAAAAAAA
1 TACAAAAAAAAAAAAAA
8253812 ACCCACATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.85, C:0.06, G:0.03, T:0.06
Consensus pattern (17 bp):
TACAAAAAAAAAAAAAA
Found at i:8302528 original size:2 final size:2
Alignment explanation
Indices: 8302521--8302546 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8302511 AACCATTTCA
8302521 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
8302547 CCATGCACGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8302898 original size:23 final size:24
Alignment explanation
Indices: 8302849--8302899 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
8302839 TTCCCATTTT
* *
8302849 TTTTTTAAATATATATAATAATAA
1 TTTTTTAAATATATAAAAAAATAA
8302873 TTTTTTAAAT-TAATAAAAAAAT-A
1 TTTTTTAAATAT-ATAAAAAAATAA
8302896 TTTT
1 TTTT
8302900 AATTTCTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TTTTTTAAATATATAAAAAAATAA
Found at i:8310139 original size:21 final size:21
Alignment explanation
Indices: 8310113--8310154 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
8310103 GCCAGCCAAA
8310113 GTCATGTAAAAGCAAATTAGT
1 GTCATGTAAAAGCAAATTAGT
*
8310134 GTCATGTAAAAGGAAATTAGT
1 GTCATGTAAAAGCAAATTAGT
8310155 AATAGATTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (21 bp):
GTCATGTAAAAGCAAATTAGT
Found at i:8315466 original size:31 final size:31
Alignment explanation
Indices: 8315431--8315491 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
8315421 AATAATTAAT
*
8315431 TATAATAATTTATTTGATTCAAAATAAAAAG
1 TATAATAACTTATTTGATTCAAAATAAAAAG
*
8315462 TATAATGACTTATTTGATTCAAAATAAAAA
1 TATAATAACTTATTTGATTCAAAATAAAAA
8315492 TGTACAAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.38
Consensus pattern (31 bp):
TATAATAACTTATTTGATTCAAAATAAAAAG
Found at i:8316151 original size:21 final size:21
Alignment explanation
Indices: 8316098--8316143 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
8316088 TCATAAAAAA
* *
8316098 ATTTAAATAAATTTTTTTATT
1 ATTTAATTAAATTTTTATATT
8316119 ATTTAATTAAATTTTTATATT
1 ATTTAATTAAATTTTTATATT
8316140 -TTTA
1 ATTTA
8316144 TTTTAAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTTAATTAAATTTTTATATT
Done.