Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 21 of 126
Found at i:6830313 original size:22 final size:22
Alignment explanation
Indices: 6830240--6830313 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
6830230 GGGTCTCAAA
*
6830240 TTTTTTTTAACTTTTAATAGCCCAAT
1 TTTTTTTTAACTTTTAA-A---AAAT
* * *
6830266 TTTTTTTACCAACTTTTAAGAGAT
1 TTTTTTT--TAACTTTTAAAAAAT
6830290 TTTTTTTTAACTTTTAAAAAAT
1 TTTTTTTTAACTTTTAAAAAAT
6830312 TT
1 TT
6830314 AAAACCCTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
22 14 0.36
24 9 0.23
26 7 0.18
28 9 0.23
ACGTcount: A:0.30, C:0.11, G:0.04, T:0.55
Consensus pattern (22 bp):
TTTTTTTTAACTTTTAAAAAAT
Found at i:6830534 original size:14 final size:15
Alignment explanation
Indices: 6830517--6830545 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6830507 TCATATTTAA
6830517 AATTTA-TTTAATAT
1 AATTTATTTTAATAT
6830531 AATTTATTTTAATAT
1 AATTTATTTTAATAT
6830546 TTGTAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTTATTTTAATAT
Found at i:6831570 original size:25 final size:25
Alignment explanation
Indices: 6831542--6831590 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
6831532 GTTGAATTTG
*
6831542 ATTTCTGAAAATAT-TTTTTATTTTC
1 ATTT-TGAAAAAATGTTTTTATTTTC
*
6831567 ATTTTTAAAAAATGTTTTTATTTT
1 ATTTTGAAAAAATGTTTTTATTTT
6831591 TTATTTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (25 bp):
ATTTTGAAAAAATGTTTTTATTTTC
Found at i:6831604 original size:26 final size:26
Alignment explanation
Indices: 6831547--6831605 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
6831537 ATTTGATTTC
6831547 TGAAAATATTTTTTATTTTCA-TTTT
1 TGAAAATATTTTTTATTTTCATTTTT
* *
6831572 T-AAAAAATGTTTTTATTTTTTATTTTT
1 TGAAAATAT-TTTTTA-TTTTCATTTTT
6831599 TGAAAAT
1 TGAAAAT
6831606 TAAAAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
24 6 0.22
25 7 0.26
26 5 0.19
27 5 0.19
28 4 0.15
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (26 bp):
TGAAAATATTTTTTATTTTCATTTTT
Found at i:6836950 original size:24 final size:21
Alignment explanation
Indices: 6836923--6836971 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
6836913 TCTCACAATT
6836923 TATTTATATGGTAATATAATTCTA
1 TATTTATAT-GT-ATATAA-TCTA
*
6836947 TATTTTTATGTATATAATCTA
1 TATTTATATGTATATAATCTA
6836968 TATT
1 TATT
6836972 CTTTTTATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 8 0.33
22 6 0.25
23 2 0.08
24 8 0.33
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.55
Consensus pattern (21 bp):
TATTTATATGTATATAATCTA
Found at i:6837658 original size:19 final size:21
Alignment explanation
Indices: 6837626--6837669 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
6837616 GACAGACAAA
6837626 ATTTTGATAA-TTTT-TTTAT
1 ATTTTGATAATTTTTATTTAT
6837645 ATTTT-ATAAGTTTTTATTTAT
1 ATTTTGATAA-TTTTTATTTAT
6837666 ATTT
1 ATTT
6837670 GAACATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.18
19 5 0.23
20 4 0.18
21 9 0.41
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (21 bp):
ATTTTGATAATTTTTATTTAT
Found at i:6838429 original size:13 final size:14
Alignment explanation
Indices: 6838411--6838439 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
6838401 GATGTGGTAG
6838411 TGCCACATCAT-AC
1 TGCCACATCATCAC
6838424 TGCCACATCATCAC
1 TGCCACATCATCAC
6838438 TG
1 TG
6838440 AAGGCTAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.28, C:0.38, G:0.10, T:0.24
Consensus pattern (14 bp):
TGCCACATCATCAC
Found at i:6840960 original size:25 final size:27
Alignment explanation
Indices: 6840932--6840982 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 27
6840922 CCAATTAGAA
*
6840932 AAATAATAATAAT-AAAA-GTCATTCC
1 AAATAACAATAATAAAAAGGTCATTCC
6840957 AAATAACAATAATAAAAAGGTCATTC
1 AAATAACAATAATAAAAAGGTCATTC
6840983 GAACCGGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 12 0.52
26 4 0.17
27 7 0.30
ACGTcount: A:0.57, C:0.12, G:0.06, T:0.25
Consensus pattern (27 bp):
AAATAACAATAATAAAAAGGTCATTCC
Found at i:6841784 original size:24 final size:23
Alignment explanation
Indices: 6841752--6841797 Score: 83
Period size: 24 Copynumber: 2.0 Consensus size: 23
6841742 GAACCAAAAT
6841752 TATTTATTATATATATTTTTTGAC
1 TATTTATTATATAT-TTTTTTGAC
6841776 TATTTATTATATATTTTTTTGA
1 TATTTATTATATATTTTTTTGA
6841798 AATATACATC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.65
Consensus pattern (23 bp):
TATTTATTATATATTTTTTTGAC
Found at i:6846909 original size:22 final size:23
Alignment explanation
Indices: 6846884--6846947 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
6846874 GCTGGGGAAA
* *
6846884 CAGTAAGCACACACAGTGC-AAT
1 CAGTAGGCACACAAAGTGCAAAT
* * *
6846906 CAGTAGGCGCACATAGCGCAAAT
1 CAGTAGGCACACAAAGTGCAAAT
6846929 CAGTAGGCACACAAAGTGC
1 CAGTAGGCACACAAAGTGC
6846948 GAAACAATAA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
22 15 0.44
23 19 0.56
ACGTcount: A:0.38, C:0.27, G:0.23, T:0.12
Consensus pattern (23 bp):
CAGTAGGCACACAAAGTGCAAAT
Found at i:6849614 original size:52 final size:52
Alignment explanation
Indices: 6849532--6849718 Score: 277
Period size: 52 Copynumber: 3.6 Consensus size: 52
6849522 TAAATGAAAT
*
6849532 AGGTCTGATGACTATGTGTCATCGTAAGTATATGAATCCTTTACGGATTATA
1 AGGTCCGATGACTATGTGTCATCGTAAGTATATGAATCCTTTACGGATTATA
* * *
6849584 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACTGATTATG
1 AGGTCCGATGACTATGTGTCATCGTAAGTATATGAATCCTTTACGGATTATA
* * *
6849636 AGGTCCGATGATTATGTGTCATCGTAAGTATATGATTCCCATTACGGATTA-A
1 AGGTCCGATGACTATGTGTCATCGTAAGTATATGAAT-CCTTTACGGATTATA
* *
6849688 AGGTCCGATGACTTTGTGTCATCGTGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTAAGTAT
6849719 CAAATATGCA
Statistics
Matches: 121, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
52 110 0.91
53 11 0.09
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTAAGTATATGAATCCTTTACGGATTATA
Found at i:6850301 original size:48 final size:48
Alignment explanation
Indices: 6850244--6850336 Score: 168
Period size: 48 Copynumber: 1.9 Consensus size: 48
6850234 GAAGTACAGA
* *
6850244 ATAGGAGAGAGGTTGCTCACTGACTTGGGTTGTATTGGTAGTTATTAT
1 ATAGGAGAGAGGTTGCTCACTAACTTGAGTTGTATTGGTAGTTATTAT
6850292 ATAGGAGAGAGGTTGCTCACTAACTTGAGTTGTATTGGTAGTTAT
1 ATAGGAGAGAGGTTGCTCACTAACTTGAGTTGTATTGGTAGTTAT
6850337 CGTAAGTATC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.25, C:0.09, G:0.30, T:0.37
Consensus pattern (48 bp):
ATAGGAGAGAGGTTGCTCACTAACTTGAGTTGTATTGGTAGTTATTAT
Found at i:6851688 original size:33 final size:33
Alignment explanation
Indices: 6851650--6851744 Score: 82
Period size: 33 Copynumber: 3.2 Consensus size: 33
6851640 TTTATTTTTT
6851650 TCAATTTAATCGTATATTAATGATATAAATATA
1 TCAATTTAATCGTATATTAATGATATAAATATA
* *
6851683 TCAATTT-A--GT-T-TT-AT-TTA-AAATAAA
1 TCAATTTAATCGTATATTAATGATATAAATATA
* * *
6851708 T-AAATTAATCGTATATTAATGACATAAATGTA
1 TCAATTTAATCGTATATTAATGATATAAATATA
6851740 TCAAT
1 TCAAT
6851745 ATCTTGTTTG
Statistics
Matches: 45, Mismatches: 8, Indels: 18
0.63 0.11 0.25
Matches are distributed among these distances:
24 4 0.09
25 8 0.18
26 2 0.04
27 4 0.09
28 3 0.07
29 3 0.07
30 4 0.09
31 1 0.02
32 7 0.16
33 9 0.20
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (33 bp):
TCAATTTAATCGTATATTAATGATATAAATATA
Found at i:6856467 original size:21 final size:22
Alignment explanation
Indices: 6856438--6856490 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
6856428 CATCGGAATT
* * *
6856438 TATG-AAAAATAAAATTATTAA
1 TATGTAAAAACAATATTAATAA
6856459 TATGTAAAAACCAATATTAATAA
1 TATGTAAAAA-CAATATTAATAA
6856482 TATGTAAAA
1 TATGTAAAA
6856491 GGAAAGAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 4 0.15
22 5 0.19
23 18 0.67
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (22 bp):
TATGTAAAAACAATATTAATAA
Found at i:6856912 original size:6 final size:6
Alignment explanation
Indices: 6856903--6856932 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
6856893 CTTTGTTTTG
6856903 CTTTCC CTTTCC CTTTCC CTTTCC CTTTCC
1 CTTTCC CTTTCC CTTTCC CTTTCC CTTTCC
6856933 TTCCCACTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (6 bp):
CTTTCC
Found at i:6895839 original size:42 final size:42
Alignment explanation
Indices: 6895780--6895864 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
6895770 ATGAAGAGCT
6895780 ACTCATTTTTTAAAAGAAATTATCTATAGTCGATGGTGCTTC
1 ACTCATTTTTTAAAAGAAATTATCTATAGTCGATGGTGCTTC
6895822 ACTCATTTTTTAAAAGAAATTATCTATAGTCGATGGTGCTTC
1 ACTCATTTTTTAAAAGAAATTATCTATAGTCGATGGTGCTTC
6895864 A
1 A
6895865 ACGATGATAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (42 bp):
ACTCATTTTTTAAAAGAAATTATCTATAGTCGATGGTGCTTC
Found at i:6905115 original size:19 final size:19
Alignment explanation
Indices: 6905091--6905128 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
6905081 CTAACTCAAA
6905091 TATACTGTGTAACATATTT
1 TATACTGTGTAACATATTT
6905110 TATACTGTGTAACATATTT
1 TATACTGTGTAACATATTT
6905129 AAAATATGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (19 bp):
TATACTGTGTAACATATTT
Found at i:6908618 original size:13 final size:13
Alignment explanation
Indices: 6908600--6908624 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6908590 GGATAGTGTA
6908600 AATAAGGTAAATC
1 AATAAGGTAAATC
6908613 AATAAGGTAAAT
1 AATAAGGTAAAT
6908625 ATTTCATGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.04, G:0.16, T:0.24
Consensus pattern (13 bp):
AATAAGGTAAATC
Found at i:6918969 original size:14 final size:15
Alignment explanation
Indices: 6918944--6918976 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
6918934 CGACCTGCCA
*
6918944 ATATTAATTTTTTTT
1 ATATTAATTTTTATT
6918959 ATATT-ATTTTTATT
1 ATATTAATTTTTATT
6918973 ATAT
1 ATAT
6918977 AATAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
ATATTAATTTTTATT
Found at i:6938194 original size:3 final size:3
Alignment explanation
Indices: 6938186--6938212 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
6938176 ATTGAAGCAA
6938186 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
6938213 TTATTAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:6942128 original size:16 final size:18
Alignment explanation
Indices: 6942097--6942134 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
6942087 TTTCCTTCTT
6942097 TTATATTTATTAATATTA
1 TTATATTTATTAATATTA
6942115 TTATA-TTA-TAATATTA
1 TTATATTTATTAATATTA
6942131 TTAT
1 TTAT
6942135 TAATTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 12 0.60
17 3 0.15
18 5 0.25
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTATATTTATTAATATTA
Found at i:6943993 original size:41 final size:41
Alignment explanation
Indices: 6943948--6944043 Score: 120
Period size: 41 Copynumber: 2.3 Consensus size: 41
6943938 TATTCTCAAC
* * *
6943948 TATATTTATTAAATAGAAAATTGATATGTTTAGTAAATAAT
1 TATATTTATTAAACAGAAAATTGATATGCTTAGTAAACAAT
** *
6943989 TATATTTAACAAACAGAAATTTGATATGCTTAGTAAACAAT
1 TATATTTATTAAACAGAAAATTGATATGCTTAGTAAACAAT
*
6944030 TTTATTTAATTAAA
1 TATATTT-ATTAAA
6944044 AATTTCAATT
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 41 0.91
42 4 0.09
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (41 bp):
TATATTTATTAAACAGAAAATTGATATGCTTAGTAAACAAT
Found at i:6945914 original size:150 final size:150
Alignment explanation
Indices: 6945643--6946234 Score: 900
Period size: 150 Copynumber: 3.9 Consensus size: 150
6945633 TAGGCGATCT
* * * * *
6945643 GGAGGCACATTCCACTAAGGATCTACTACTACCTATCACATTGGATGAAGAAGAGTGCGGAATTC
1 GGAGGCACCTTCCACTGAGGATCTACTACTACCCATCACATTGGATGGAGAAGAGTGAGGAATTC
* * * *
6945708 CACTGTATGTCTCACTTCTAGGAGTCCTTCCTCCACTCTTCTTATTAGTTTTCCTTCCAAGATTT
66 CACCGTGTGTCTCACTTCTAGGAGTCCTTCCTCCACTCTTTTTATCAGTTTTCCTTCCAAGATTT
*
6945773 TCTTCACTATGCAATTTGGA
131 TCTTCACTGTGCAATTTGGA
* * *
6945793 GGAGGCACCTTCCACTGAGGATATACTACTACCCATCACATTGGATGGAGAAGAGCGGGGAATTC
1 GGAGGCACCTTCCACTGAGGATCTACTACTACCCATCACATTGGATGGAGAAGAGTGAGGAATTC
**
6945858 CACCGTGTGTCTCACTTCTAGGAGTCCTTCCTCCACTCTTTTTATCAGTTTTCCTTCCATTATTT
66 CACCGTGTGTCTCACTTCTAGGAGTCCTTCCTCCACTCTTTTTATCAGTTTTCCTTCCAAGATTT
6945923 TCTTCACTGTGCAATTTGGA
131 TCTTCACTGTGCAATTTGGA
* *
6945943 GGAGGCACCTTTCACTGAGGATCTACTACTACCCATCACATTGGACGGAGAAGAGTGAGGAATTC
1 GGAGGCACCTTCCACTGAGGATCTACTACTACCCATCACATTGGATGGAGAAGAGTGAGGAATTC
** * *
6946008 CACTC-TGCATCTCACTTCTAGGACTCCTTCCTCCACTCCTTTTATCAGTTTTCCTTCCAAGATT
66 CAC-CGTGTGTCTCACTTCTAGGAGTCCTTCCTCCACTCTTTTTATCAGTTTTCCTTCCAAGATT
6946072 TTCTTCACTGTGCAATTTGGA
130 TTCTTCACTGTGCAATTTGGA
* *
6946093 GGAGGCACCTTCCACCGAGGATCTACTACTACCAATCACATTGGATGGAGAAGAGTGAGGAATTC
1 GGAGGCACCTTCCACTGAGGATCTACTACTACCCATCACATTGGATGGAGAAGAGTGAGGAATTC
* * * **
6946158 CATCATGTGTCTCGCTTCTAGGAGT-CTGTCCTCCACTCTTTTTATCAGTTTTCCTTCCATTATT
66 CACCGTGTGTCTCACTTCTAGGAGTCCT-TCCTCCACTCTTTTTATCAGTTTTCCTTCCAAGATT
6946222 TTCTTCACTGTGC
130 TTCTTCACTGTGC
6946235 TTTCTCTTCT
Statistics
Matches: 402, Mismatches: 37, Indels: 6
0.90 0.08 0.01
Matches are distributed among these distances:
149 3 0.01
150 398 0.99
151 1 0.00
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.33
Consensus pattern (150 bp):
GGAGGCACCTTCCACTGAGGATCTACTACTACCCATCACATTGGATGGAGAAGAGTGAGGAATTC
CACCGTGTGTCTCACTTCTAGGAGTCCTTCCTCCACTCTTTTTATCAGTTTTCCTTCCAAGATTT
TCTTCACTGTGCAATTTGGA
Found at i:6952371 original size:32 final size:33
Alignment explanation
Indices: 6952335--6952403 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
6952325 AGTCAAGTAG
*
6952335 AAATCAATGTTCAAGTT-AA-TTTAGGGTTTAAA
1 AAATCAATCTTCAA-TTAAAGTTTAGGGTTTAAA
* *
6952367 AAATCAATCTTCCATTAAAGTTTAGGGTTTCAA
1 AAATCAATCTTCAATTAAAGTTTAGGGTTTAAA
6952400 AAAT
1 AAAT
6952404 TACCTTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 2 0.06
32 14 0.44
33 16 0.50
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (33 bp):
AAATCAATCTTCAATTAAAGTTTAGGGTTTAAA
Found at i:6960775 original size:26 final size:26
Alignment explanation
Indices: 6960746--6960807 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
6960736 TCTAGACATA
* *
6960746 AAATCCTAAACTCCAATCCT-AACCTT
1 AAATCCTAAACT-CAAACCTCAAACTT
6960772 AAATCAC-AAACTCAAACCTCAAACTT
1 AAATC-CTAAACTCAAACCTCAAACTT
*
6960798 AAACCCTAAA
1 AAATCCTAAA
6960808 ATTGAACCCT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 7 0.23
26 22 0.73
27 1 0.03
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (26 bp):
AAATCCTAAACTCAAACCTCAAACTT
Found at i:6960966 original size:28 final size:28
Alignment explanation
Indices: 6960935--6961004 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 28
6960925 AGAGTTTAAG
*
6960935 GTTTAAGATTTAAGGTTATAGATTTGAA
1 GTTTAAGATTTAAGGTTATAGATTCGAA
* * * * *
6960963 GTTTAGGGTTCAAGGTTTTAGATTCGAG
1 GTTTAAGATTTAAGGTTATAGATTCGAA
* *
6960991 GTTCATGATTTAAG
1 GTTTAAGATTTAAG
6961005 ATCAAAAAAT
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.29, C:0.04, G:0.26, T:0.41
Consensus pattern (28 bp):
GTTTAAGATTTAAGGTTATAGATTCGAA
Found at i:6960993 original size:42 final size:42
Alignment explanation
Indices: 6960919--6961001 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
6960909 TTTGGGTTCT
* *
6960919 AAGTTTAGAGTTTAAGGTTTAAGATTTAAGGTT-ATAGATTTG
1 AAGTTTAGAGTTCAAGGTTTAAGATTCAAGGTTCAT-GATTTG
* * *
6960961 AAGTTTAGGGTTCAAGGTTTTAGATTCGAGGTTCATGATTT
1 AAGTTTAGAGTTCAAGGTTTAAGATTCAAGGTTCATGATTT
6961002 AAGATCAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.29, C:0.04, G:0.25, T:0.42
Consensus pattern (42 bp):
AAGTTTAGAGTTCAAGGTTTAAGATTCAAGGTTCATGATTTG
Found at i:6961630 original size:7 final size:7
Alignment explanation
Indices: 6961618--6961645 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
6961608 TGATGGTGAA
6961618 GCAGCCT
1 GCAGCCT
6961625 GCAGCCT
1 GCAGCCT
6961632 GCAGCCT
1 GCAGCCT
6961639 GCAGCCT
1 GCAGCCT
6961646 ACAGGGCCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.43, G:0.29, T:0.14
Consensus pattern (7 bp):
GCAGCCT
Found at i:6964934 original size:51 final size:51
Alignment explanation
Indices: 6964870--6964973 Score: 138
Period size: 51 Copynumber: 2.0 Consensus size: 51
6964860 AGAATACGCT
* * *
6964870 TGGGCACTGAGTGCCAAGCCCGTCGGCTAAACATCC-CTCCAAAAACACGTC
1 TGGGCACTAAGTGCCAAGCCCGTAGGCTAAACATCCTC-CCAAAAACACATC
* * *
6964921 TGGGCACTAAGTGCCAAGTCCGTAGGCTACACATTCTCCCAAAAACACATC
1 TGGGCACTAAGTGCCAAGCCCGTAGGCTAAACATCCTCCCAAAAACACATC
6964972 TG
1 TG
6964974 AATCGCTATG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
51 45 0.98
52 1 0.02
ACGTcount: A:0.29, C:0.33, G:0.20, T:0.18
Consensus pattern (51 bp):
TGGGCACTAAGTGCCAAGCCCGTAGGCTAAACATCCTCCCAAAAACACATC
Found at i:6973693 original size:15 final size:15
Alignment explanation
Indices: 6973656--6973685 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6973646 GATCATAGTG
*
6973656 TAAATTTAAAAAAAT
1 TAAATTGAAAAAAAT
6973671 TAAATTGAAAAAAAT
1 TAAATTGAAAAAAAT
6973686 AAACTTGAGA
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:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (15 bp):
TAAATTGAAAAAAAT
Found at i:6988661 original size:6 final size:6
Alignment explanation
Indices: 6988639--6988722 Score: 73
Period size: 6 Copynumber: 14.0 Consensus size: 6
6988629 GTTTAAATTG
* * * *
6988639 ATTTAA ATTTAT TTTTAA ATTTAA ATTT-A TTTTAA ATTTAA ATTTACC
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTA-A
* * *
6988687 TTTTAAA ATTTAA ATTT-G CTTTAA ATTTAA ATTTAA
1 ATTT-AA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
6988723 TCAAATTTAG
Statistics
Matches: 60, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
5 7 0.12
6 46 0.77
7 6 0.10
8 1 0.02
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (6 bp):
ATTTAA
Found at i:6988673 original size:17 final size:18
Alignment explanation
Indices: 6988639--6988721 Score: 116
Period size: 17 Copynumber: 4.6 Consensus size: 18
6988629 GTTTAAATTG
*
6988639 ATTTAAATTTATTTTTAA
1 ATTTAAATTTACTTTTAA
6988657 ATTTAAATTTA-TTTTAA
1 ATTTAAATTTACTTTTAA
6988674 ATTTAAATTTACCTTTTAAA
1 ATTTAAATTTA-CTTTT-AA
*
6988694 ATTTAAATTTGC-TTTAA
1 ATTTAAATTTACTTTTAA
6988711 ATTTAAATTTA
1 ATTTAAATTTA
6988722 ATCAAATTTA
Statistics
Matches: 60, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
17 29 0.48
18 14 0.23
19 5 0.08
20 12 0.20
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (18 bp):
ATTTAAATTTACTTTTAA
Found at i:6988710 original size:37 final size:35
Alignment explanation
Indices: 6988639--6988721 Score: 121
Period size: 37 Copynumber: 2.3 Consensus size: 35
6988629 GTTTAAATTG
* *
6988639 ATTTAAATTTATTTTTAAATTTAAATTTATTTTAA
1 ATTTAAATTTATTTTAAAATTTAAATTTACTTTAA
*
6988674 ATTTAAATTTACCTTTTAAAATTTAAATTTGCTTTAA
1 ATTTAAATTTA--TTTTAAAATTTAAATTTACTTTAA
6988711 ATTTAAATTTA
1 ATTTAAATTTA
6988722 ATCAAATTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
35 11 0.26
37 32 0.74
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (35 bp):
ATTTAAATTTATTTTAAAATTTAAATTTACTTTAA
Found at i:6989522 original size:16 final size:15
Alignment explanation
Indices: 6989497--6989526 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
6989487 ACAATTTTAA
6989497 TAATAATATTAGTAG
1 TAATAATATTAGTAG
6989512 TAATAAATATTAGTA
1 TAAT-AATATTAGTA
6989527 ACAGATAATA
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:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
TAATAATATTAGTAG
Found at i:6990765 original size:60 final size:56
Alignment explanation
Indices: 6990701--6990919 Score: 268
Period size: 60 Copynumber: 3.9 Consensus size: 56
6990691 TGACCCCAAG
* * *
6990701 CTTTTCCAAAATCATATTTTTGACCCCAAAACTTTTTAAAAATTACATTTGACCCTTAAA
1 CTTTTCCAAAATTATA-TTTTAACCCTAAAACTTTTT-AAAATTACATTT-ACCC-TAAA
*
6990761 CTTTTCCAAAATTATATTTTGACCCTAAAACTTTTTGAAAATTACATTTTTACCCATAAA
1 CTTTTCCAAAATTATATTTTAACCCTAAAACTTTTT-AAAATTACA--TTTACCC-TAAA
* *
6990821 CTTTTCCAAAATTATATTTTAACACTAAAACTCTTTAAAATTACA-TT---C-AAA
1 CTTTTCCAAAATTATATTTTAACCCTAAAACTTTTTAAAATTACATTTACCCTAAA
*
6990872 CTTTTCCAAAATTATATTTTAACCCTAAAACTTTCTAAAATTACATTT
1 CTTTTCCAAAATTATATTTTAACCCTAAAACTTTTTAAAATTACATTT
6990920 TTACCCTCAA
Statistics
Matches: 146, Mismatches: 10, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
51 45 0.31
52 2 0.01
53 1 0.01
56 2 0.01
59 37 0.25
60 56 0.38
61 3 0.02
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.41
Consensus pattern (56 bp):
CTTTTCCAAAATTATATTTTAACCCTAAAACTTTTTAAAATTACATTTACCCTAAA
Found at i:6990852 original size:30 final size:30
Alignment explanation
Indices: 6990686--6990926 Score: 186
Period size: 30 Copynumber: 8.4 Consensus size: 30
6990676 TCAAAAACAG
* * *
6990686 CATTTTGACCC-CAAGCTTTTCCAAAATCA
1 CATTTTGACCCTAAAACTTTTCCAAAATTA
* * **
6990715 TATTTTTGACCCCAAAACTTTTTAAAAATTA
1 CA-TTTTGACCCTAAAACTTTTCCAAAATTA
*
6990746 CA-TTTGACCCTTAAACTTTTCCAAAATTA
1 CATTTTGACCCTAAAACTTTTCCAAAATTA
* **
6990775 TATTTTGACCCTAAAACTTTTTGAAAATTA
1 CATTTTGACCCTAAAACTTTTCCAAAATTA
*
6990805 CATTTTTACCC-ATAAACTTTTCCAAAATTA
1 CATTTTGACCCTA-AAACTTTTCCAAAATTA
* * *
6990835 TATTTTAACACTAAAACTCTTT--AAAATTA
1 CATTTTGACCCTAAAACT-TTTCCAAAATTA
6990864 CA--TT----C--AAACTTTTCCAAAATTA
1 CATTTTGACCCTAAAACTTTTCCAAAATTA
* * *
6990886 TATTTTAACCCTAAAAC-TTTCTAAAATTA
1 CATTTTGACCCTAAAACTTTTCCAAAATTA
*
6990915 CATTTTTACCCT
1 CATTTTGACCCT
6990927 CAAGTTTTCT
Statistics
Matches: 169, Mismatches: 27, Indels: 32
0.74 0.12 0.14
Matches are distributed among these distances:
20 3 0.02
21 5 0.03
22 8 0.05
23 1 0.01
24 2 0.01
27 2 0.01
28 1 0.01
29 55 0.33
30 74 0.44
31 18 0.11
ACGTcount: A:0.37, C:0.21, G:0.02, T:0.40
Consensus pattern (30 bp):
CATTTTGACCCTAAAACTTTTCCAAAATTA
Found at i:6990894 original size:51 final size:51
Alignment explanation
Indices: 6990818--6990918 Score: 177
Period size: 51 Copynumber: 2.0 Consensus size: 51
6990808 TTTTACCCAT
6990818 AAACTTTTCCAAAATTATATTTTAACACTAAAACTCTT-TAAAATTACATTC
1 AAACTTTTCCAAAATTATATTTTAACACTAAAACT-TTCTAAAATTACATTC
*
6990869 AAACTTTTCCAAAATTATATTTTAACCCTAAAACTTTCTAAAATTACATT
1 AAACTTTTCCAAAATTATATTTTAACACTAAAACTTTCTAAAATTACATT
6990919 TTTACCCTCA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
50 2 0.04
51 46 0.96
ACGTcount: A:0.43, C:0.18, G:0.00, T:0.40
Consensus pattern (51 bp):
AAACTTTTCCAAAATTATATTTTAACACTAAAACTTTCTAAAATTACATTC
Found at i:6990935 original size:29 final size:28
Alignment explanation
Indices: 6990873--6991173 Score: 136
Period size: 29 Copynumber: 10.4 Consensus size: 28
6990863 ACATTCAAAC
* * *
6990873 TTTTCCAAAATTATATTTTAACCCTAAAA
1 TTTTCCAAAATTACATTTTTACCCT-CAA
* *
6990902 CTTTCTAAAATTACATTTTTACCCTCAA
1 TTTTCCAAAATTACATTTTTACCCTCAA
* * * *
6990930 GTTTTCTATAATTTCATTTTTAACCC-CGA
1 -TTTTCCAAAATTACATTTTT-ACCCTCAA
*
6990959 TTTTACCAAAAATTACCA--TTTACCGCTAAA
1 TTTT-CC-AAAATTA-CATTTTTACC-CTCAA
* *
6990989 CTTTCCAAAATT-CTATTTTGACCC-CAA
1 TTTTCCAAAATTAC-ATTTTTACCCTCAA
* * *
6991016 TTTTACTAAATTTACCA-TTTTACCCCCAAA
1 TTTT-CCAAAATTA-CATTTTTACCCTC-AA
* *
6991046 CTTTCCAAAATTACCA-TTTTACCCTCGAG
1 TTTTCCAAAATTA-CATTTTTACCCTC-AA
* * *
6991075 CTTTCCAAAATTCCATTTTTGACCC-CGA
1 TTTTCCAAAATTACATTTTT-ACCCTCAA
* * *
6991103 TTTTACTAAAATTTAC-TATTTTACTCTCGA
1 TTTT-CCAAAA-TTACAT-TTTTACCCTCAA
6991133 TCTTTCCAAAATTACCA-TTTTACCCTCGAA
1 T-TTTCCAAAATTA-CATTTTTACCCTC-AA
*
6991163 CTTTCCAAAAT
1 TTTTCCAAAAT
6991174 CCTGTTTTTG
Statistics
Matches: 209, Mismatches: 38, Indels: 50
0.70 0.13 0.17
Matches are distributed among these distances:
26 1 0.00
27 6 0.03
28 34 0.16
29 122 0.58
30 41 0.20
31 5 0.02
ACGTcount: A:0.32, C:0.25, G:0.03, T:0.40
Consensus pattern (28 bp):
TTTTCCAAAATTACATTTTTACCCTCAA
Found at i:6991142 original size:88 final size:88
Alignment explanation
Indices: 6990868--6991233 Score: 315
Period size: 88 Copynumber: 4.2 Consensus size: 88
6990858 AAATTACATT
* ** * * *
6990868 CAAACTTTTCCAAAATTA-TATTTTAACCCTAAAACTTTCTAAAATTACATTTTT-ACCCTCAAG
1 CAAAC-TTTCCAAAATTACCATTTT-ACCCTCGAACTTTCCAAAATTCCATTTTTGACCC-CGA-
* *
6990931 TTTT-CTATAATTT-C-ATTTTTAACCC
62 TTTTACTAAAATTTACTA-TTTTACCCC
* * * * *
6990956 C-GATTTTACCAAAAATTACCA-TTTACCGCT-AAACTTTCCAAAATTCTA-TTTTGACCCCAAT
1 CAAACTTT-CC-AAAATTACCATTTTACC-CTCGAACTTTCCAAAATTCCATTTTTGACCCCGAT
*
6991017 TTTACT-AAATTTACCATTTTACCCC
63 TTTACTAAAATTTACTATTTTACCCC
*
6991042 CAAACTTTCCAAAATTACCATTTTACCCTCGAGCTTTCCAAAATTCCATTTTTGACCCCGATTTT
1 CAAACTTTCCAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCCCGATTTT
* *
6991107 ACTAAAATTTACTATTTTACTCT
66 ACTAAAATTTACTATTTTACCCC
* * * **
6991130 CGATCTTTCCAAAATTACCATTTTACCCTCGAACTTTCCAAAA-TCCTGTTTTTGACTTCGATTT
1 CAAACTTTCCAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCC-ATTTTTGACCCCGATTT
* *
6991194 CACTAAAAATTACCT-TTTTACCCC
65 TACTAAAATTTA-CTATTTTACCCC
** *
6991218 TGAACTTCCCAAAATT
1 CAAACTTTCCAAAATT
6991234 CTATTTTTGA
Statistics
Matches: 233, Mismatches: 30, Indels: 30
0.80 0.10 0.10
Matches are distributed among these distances:
85 21 0.09
86 45 0.19
87 51 0.22
88 113 0.48
89 3 0.01
ACGTcount: A:0.31, C:0.26, G:0.04, T:0.39
Consensus pattern (88 bp):
CAAACTTTCCAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCCCGATTTT
ACTAAAATTTACTATTTTACCCC
Found at i:6991304 original size:60 final size:58
Alignment explanation
Indices: 6990945--6991330 Score: 267
Period size: 59 Copynumber: 6.6 Consensus size: 58
6990935 CTATAATTTC
* * * ** *
6990945 ATTTTTAACCCCGATTTTACCAAAAATTACCA-TTTACCGCTAAACTTTCCAAAATTCT
1 ATTTTTGACTCCGATTTTA-CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCT
* * * * *
6991003 A-TTTTGACCCCAATTTTACTAAATTTACCATTTTACCCCCAAACTTTCCAAAATTACC-
1 ATTTTTGACTCCGATTTTACAAAAATTACCATTTTACCCCCGAACTTTCCAAAA-T-CCT
* * * * * *
6991061 A-TTTT-ACCCTCGAGCTTT-CCAAAATT-CCATTTTTGA-CCCCG-ATTTTACTAAAAT-TT
1 ATTTTTGACTC-CGA-TTTTACAAAAATTACCA-TTTT-ACCCCCGAACTTT-CCAAAATCCT
* *
6991117 ACTATTTT-ACTCTCGATCTTT-CCAAAATTACCATTTTACCCTCGAACTTTCCAAAATCCT
1 A-T-TTTTGACTC-CGAT-TTTACAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCT
* * * * * * *
6991177 GTTTTTGACTTCGATTTCACTAAAAATTACCTTTTTACCCCTGAACTTCCCAAAATTCT
1 ATTTTTGACTCCGATTTTAC-AAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCT
*
6991236 ATTTTTGACTCCGATTTTACAAAAAATTACCATTTTATCCCCCGAACTTTCCAAAATCCC
1 ATTTTTGACTCCGATTTTAC-AAAAATTACCATTTTA-CCCCCGAACTTTCCAAAATCCT
** *
6991296 ATTTTTGAC-CTAATTTTGACCAAAATTACCATTTT
1 ATTTTTGACTCCGATTTT-ACAAAAATTACCATTTT
6991331 GCTCCCTGGT
Statistics
Matches: 264, Mismatches: 42, Indels: 43
0.76 0.12 0.12
Matches are distributed among these distances:
56 11 0.04
57 49 0.19
58 38 0.14
59 129 0.49
60 37 0.14
ACGTcount: A:0.30, C:0.26, G:0.05, T:0.39
Consensus pattern (58 bp):
ATTTTTGACTCCGATTTTACAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCT
Found at i:7002880 original size:101 final size:101
Alignment explanation
Indices: 7002751--7003255 Score: 667
Period size: 101 Copynumber: 5.0 Consensus size: 101
7002741 ATACAACGGA
* * * *
7002751 AAAGATCTAAGACCGTAATGGCAGATCCAATACTACAAAAACACAAAAGGGAAAGGTCTAAGTCG
1 AAAGATCTAAGACCGCAATGGCAGATCCAGTACCACAAAAATACAAAAGGGAAAGGTCTAAGTCG
* *
7002816 CAACGGTGGACCGTGTACCTCA-AAAGCATGGAAGGG
66 CAACGGCGGACCGTGTACCTCAGAAA-CATGAAAGGG
* * * * *
7002852 AAAGATCTAAGACCGCAATAGCAGATCCAGTATCGCAAAAACACAAAAGGGAAAGGTTTAAGTCG
1 AAAGATCTAAGACCGCAATGGCAGATCCAGTACCACAAAAATACAAAAGGGAAAGGTCTAAGTCG
* *
7002917 CAACGGCAGACCGTGTACCTTAGAAACATGAAAGGG
66 CAACGGCGGACCGTGTACCTCAGAAACATGAAAGGG
* * *
7002953 AAAGATCTAAGACTGCAACGGCGGATCCAGTACCACAAAAATACAAAAAGGGAAAGGTCTAAGTC
1 AAAGATCTAAGACCGCAATGGCAGATCCAGTACCACAAAAATAC-AAAAGGGAAAGGTCTAAGTC
7003018 GCAACGGCGGACCGTGTACCTCAGAAACATGAAAGGG
65 GCAACGGCGGACCGTGTACCTCAGAAACATGAAAGGG
* *
7003055 AAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAAATACAAAAAGGGAAAGGTCTAAGTC
1 AAAGATCTAAGACCGCAATGGCAGATCCAGTACCACAAAAATAC-AAAAGGGAAAGGTCTAAGTC
* * *
7003120 GCAACGGCGGACTGTGTA-TTACAGAAGCATG-AAGGG
65 GCAACGGCGGACCGTGTACCT-CAGAAACATGAAAGGG
* * * * *
7003156 AAAGATCTAAAACCGCAATGGCAGATCTAGTACCACAAAGATACAAAAGGGAAATGTTTAAGTCG
1 AAAGATCTAAGACCGCAATGGCAGATCCAGTACCACAAAAATACAAAAGGGAAAGGTCTAAGTCG
* * * *
7003221 CAACGACGAACCCG-GTATCTTAGAAACATGAAAGG
66 CAACGGCGGA-CCGTGTACCTCAGAAACATGAAAGG
7003256 TCAAATCCAC
Statistics
Matches: 360, Mismatches: 38, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
100 38 0.11
101 175 0.49
102 147 0.41
ACGTcount: A:0.41, C:0.20, G:0.24, T:0.15
Consensus pattern (101 bp):
AAAGATCTAAGACCGCAATGGCAGATCCAGTACCACAAAAATACAAAAGGGAAAGGTCTAAGTCG
CAACGGCGGACCGTGTACCTCAGAAACATGAAAGGG
Found at i:7002902 original size:51 final size:51
Alignment explanation
Indices: 7002751--7003209 Score: 306
Period size: 51 Copynumber: 9.1 Consensus size: 51
7002741 ATACAACGGA
* * * * *
7002751 AAAGATCTAAGACCGTAATGGCAGATCCAATACTACAAAAACACAAAAGGG
1 AAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAAACACAAAAGGG
* * * * * * ***
7002802 AAAGGTCTAAG-TCGCAACGGTGGA-CCGTGTACCTCAAAAGCATGGAAGGG
1 AAAGATCTAAGACCGCAACGGCGGATCC-AGTACCACAAAAACACAAAAGGG
** * * *
7002852 AAAGATCTAAGACCGCAATAGCAGATCCAGTATCGCAAAAACACAAAAGGG
1 AAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAAACACAAAAGGG
* * * * * ** * **
7002903 AAAGGTTTAAG-TCGCAACGGCAGA-CCGTGTACCTTAGAAACATGAAAGGG
1 AAAGATCTAAGACCGCAACGGCGGATCC-AGTACCACAAAAACACAAAAGGG
* *
7002953 AAAGATCTAAGACTGCAACGGCGGATCCAGTACCACAAAAATACAAAAAGGG
1 AAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAAACAC-AAAAGGG
* * * * * **
7003005 AAAGGTCTAAG-TCGCAACGGCGGA-CCGTGTACCTCAGAAACATGAAAGGG
1 AAAGATCTAAGACCGCAACGGCGGATCC-AGTACCACAAAAACACAAAAGGG
*
7003055 AAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAAATACAAAAAGGG
1 AAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAAACAC-AAAAGGG
* * ** ** * * **
7003107 AAAGGTCTAAG-TCGCAACGGCGGA-CTGTGTATTACAGAAGCA-TGAAGGG
1 AAAGATCTAAGACCGCAACGGCGGATC-CAGTACCACAAAAACACAAAAGGG
* * * * * *
7003156 AAAGATCTAAAACCGCAATGGCAGATCTAGTACCACAAAGATACAAAAGGG
1 AAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAAACACAAAAGGG
7003207 AAA
1 AAA
7003210 TGTTTAAGTC
Statistics
Matches: 299, Mismatches: 94, Indels: 30
0.71 0.22 0.07
Matches are distributed among these distances:
49 18 0.06
50 105 0.35
51 138 0.46
52 38 0.13
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.14
Consensus pattern (51 bp):
AAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAAACACAAAAGGG
Found at i:7003157 original size:203 final size:201
Alignment explanation
Indices: 7002751--7003255 Score: 667
Period size: 203 Copynumber: 2.5 Consensus size: 201
7002741 ATACAACGGA
* * * *
7002751 AAAGATCTAAGACCGTAATGGCAGATCCAATACTACAAAAACACAAAAGGGAAAGGTCTAAGTCG
1 AAAGATCTAAGACCGCAATGGCAGATCCAGTACCACAAAAATACAAAAGGGAAAGGTCTAAGTCG
* * *
7002816 CAACGGTGGACCGTGTACCTCA-AAAGCATGGAAGGGAAAGATCTAAGACCGCAATAGCAGATCC
66 CAACGGCGGACCGTGTACCTCAGAAA-CATGAAAGGGAAAGATCTAAGACCGCAACAGCAGATCC
* * *
7002880 AGTATCGCAAAAACACAAAAGGGAAAGGTTTAAGTCGCAACGGCAGACCGTGTACCTTAGAAACA
130 AGTACCACAAAAACACAAAAGGGAAAGGTCTAAGTCGCAACGGCAGACCGTGTA-CTTAGAAACA
7002945 TGAAAGGG
194 TGAAAGGG
* * *
7002953 AAAGATCTAAGACTGCAACGGCGGATCCAGTACCACAAAAATACAAAAAGGGAAAGGTCTAAGTC
1 AAAGATCTAAGACCGCAATGGCAGATCCAGTACCACAAAAATAC-AAAAGGGAAAGGTCTAAGTC
* *
7003018 GCAACGGCGGACCGTGTACCTCAGAAACATGAAAGGGAAAGATCTAAGACCGCAACGGCGGATCC
65 GCAACGGCGGACCGTGTACCTCAGAAACATGAAAGGGAAAGATCTAAGACCGCAACAGCAGATCC
* * * *
7003083 AGTACCACAAAAATACAAAAAGGGAAAGGTCTAAGTCGCAACGGCGGACTGTGTA-TTACAGAAG
130 AGTACCACAAAAACAC-AAAAGGGAAAGGTCTAAGTCGCAACGGCAGACCGTGTACTT--AGAAA
7003147 CATG-AAGGG
192 CATGAAAGGG
* * * * *
7003156 AAAGATCTAAAACCGCAATGGCAGATCTAGTACCACAAAGATACAAAAGGGAAATGTTTAAGTCG
1 AAAGATCTAAGACCGCAATGGCAGATCCAGTACCACAAAAATACAAAAGGGAAAGGTCTAAGTCG
* * * *
7003221 CAACGACGAACCCG-GTATCTTAGAAACATGAAAGG
66 CAACGGCGGA-CCGTGTACCTCAGAAACATGAAAGG
7003256 TCAAATCCAC
Statistics
Matches: 266, Mismatches: 31, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
202 85 0.32
203 135 0.51
204 46 0.17
ACGTcount: A:0.41, C:0.20, G:0.24, T:0.15
Consensus pattern (201 bp):
AAAGATCTAAGACCGCAATGGCAGATCCAGTACCACAAAAATACAAAAGGGAAAGGTCTAAGTCG
CAACGGCGGACCGTGTACCTCAGAAACATGAAAGGGAAAGATCTAAGACCGCAACAGCAGATCCA
GTACCACAAAAACACAAAAGGGAAAGGTCTAAGTCGCAACGGCAGACCGTGTACTTAGAAACATG
AAAGGG
Found at i:7003666 original size:6 final size:6
Alignment explanation
Indices: 7003645--7003710 Score: 55
Period size: 6 Copynumber: 11.0 Consensus size: 6
7003635 GTTTAAATTG
* * * *
7003645 ATTTAA ATTT-A TTTTAA ATTTAA ATTTACCT TTTTAA ATTTAA ATTT-G
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTA--A ATTTAA ATTTAA ATTTAA
*
7003693 CTTTAA ATTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA
7003711 TCAAATTTAG
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
5 7 0.15
6 35 0.76
8 4 0.09
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (6 bp):
ATTTAA
Found at i:7003667 original size:17 final size:17
Alignment explanation
Indices: 7003645--7003709 Score: 85
Period size: 17 Copynumber: 3.6 Consensus size: 17
7003635 GTTTAAATTG
7003645 ATTTAAATTTATTTTAA
1 ATTTAAATTTATTTTAA
7003662 ATTTAAATTTACCTTTTTAA
1 ATTTAAATTTA---TTTTAA
**
7003682 ATTTAAATTTGCTTTAA
1 ATTTAAATTTATTTTAA
7003699 ATTTAAATTTA
1 ATTTAAATTTA
7003710 ATCAAATTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
17 26 0.62
20 16 0.38
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (17 bp):
ATTTAAATTTATTTTAA
Found at i:7004968 original size:16 final size:15
Alignment explanation
Indices: 7004943--7004972 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
7004933 ACACTTTTAA
7004943 TAATAATATTAGTAG
1 TAATAATATTAGTAG
7004958 TAATAAATATTAGTA
1 TAAT-AATATTAGTA
7004973 ACAGATAATA
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:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
TAATAATATTAGTAG
Found at i:7006185 original size:30 final size:30
Alignment explanation
Indices: 7006151--7006466 Score: 257
Period size: 30 Copynumber: 10.6 Consensus size: 30
7006141 CTAAACTATC
* *
7006151 TAAAAATGACATTTTAACCCCAAAACTCTT
1 TAAAAATTACATTTTAACCCCAAAACTTTT
* * *
7006181 TAAAAATTACATTTTGACACCTAAACTTTT
1 TAAAAATTACATTTTAACCCCAAAACTTTT
** * *
7006211 CCAAAATCATATTTTAACCCCAAAACTTTT
1 TAAAAATTACATTTTAACCCCAAAACTTTT
* **
7006241 TAAACATTACATTTTAACCCTTAAACTTTT
1 TAAAAATTACATTTTAACCCCAAAACTTTT
** * * * *
7006271 CCAAAATCATATTTTAACCCTAAATCTTTT
1 TAAAAATTACATTTTAACCCCAAAACTTTT
*
7006301 TGAAAATTACATTTTAATCCCC-AAACTTTT
1 TAAAAATTACATTTTAA-CCCCAAAACTTTT
* * ** * *
7006331 TCAAAATTATA-TTTAACCTTAAAACTCTC
1 TAAAAATTACATTTTAACCCCAAAACTTTT
*
7006360 TAAAAA-TACATTTTGA-CCCATAAACTTTT
1 TAAAAATTACATTTTAACCCCA-AAACTTTT
* * *
7006389 TCAAAATTATATTTTAACCCCAAAACTTTC
1 TAAAAATTACATTTTAACCCCAAAACTTTT
* * * *
7006419 T-AAAATTATATTTTTACCCCTAAACTTTC
1 TAAAAATTACATTTTAACCCCAAAACTTTT
*
7006448 T-AAAATTCCATTTTTAACC
1 TAAAAATTACA-TTTTAACC
7006467 TCGATTTTAC
Statistics
Matches: 225, Mismatches: 54, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
28 7 0.03
29 65 0.29
30 146 0.65
31 7 0.03
ACGTcount: A:0.39, C:0.21, G:0.01, T:0.39
Consensus pattern (30 bp):
TAAAAATTACATTTTAACCCCAAAACTTTT
Found at i:7006233 original size:60 final size:59
Alignment explanation
Indices: 7006161--7006446 Score: 328
Period size: 60 Copynumber: 4.8 Consensus size: 59
7006151 TAAAAATGAC
*
7006161 ATTTTAACCCCAAAACTCTTTAAAAATTACATTTTGACACCTAAACTTTTCCAAAATCAT
1 ATTTTAACCCCAAAACTCTTTAAAAATTACATTTTAAC-CCTAAACTTTTCCAAAATCAT
* *
7006221 ATTTTAACCCCAAAACTTTTTAAACATTACATTTTAACCCTTAAACTTTTCCAAAATCAT
1 ATTTTAACCCCAAAACTCTTTAAAAATTACATTTTAACCC-TAAACTTTTCCAAAATCAT
* * * * * * *
7006281 ATTTTAACCCTAAATCTTTTTGAAAATTACATTTTAATCCCCAAACTTTTTCAAAATTAT
1 ATTTTAACCCCAAAACTCTTTAAAAATTACATTTTAA-CCCTAAACTTTTCCAAAATCAT
** * * * *
7006341 A-TTTAACCTTAAAACTCTCTAAAAA-TACATTTTGACCCATAAACTTTTTCAAAATTAT
1 ATTTTAACCCCAAAACTCTTTAAAAATTACATTTTAACCC-TAAACTTTTCCAAAATCAT
* *
7006399 ATTTTAACCCCAAAACT-TTCT-AAAATTATATTTTTACCCCTAAACTTT
1 ATTTTAACCCCAAAACTCTT-TAAAAATTACA-TTTTAACCCTAAACTTT
7006447 CTAAAATTCC
Statistics
Matches: 196, Mismatches: 23, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
57 3 0.02
58 33 0.17
59 46 0.23
60 111 0.57
61 3 0.02
ACGTcount: A:0.38, C:0.21, G:0.01, T:0.39
Consensus pattern (59 bp):
ATTTTAACCCCAAAACTCTTTAAAAATTACATTTTAACCCTAAACTTTTCCAAAATCAT
Found at i:7006460 original size:29 final size:29
Alignment explanation
Indices: 7006138--7006609 Score: 205
Period size: 30 Copynumber: 16.0 Consensus size: 29
7006128 TCCCTGAAAG
* * *
7006138 CCCCTAAACTATCTAAAAATGACATTTTAA
1 CCCCTAAACTTTCT-AAAATTACATTTTTA
* *
7006168 CCCCAAAACTCTT-TAAAAATTACATTTTGA
1 CCCCTAAACT-TTCT-AAAATTACATTTTTA
* * * * *
7006198 CACCTAAACTTTTCCAAAATCATATTTTAA
1 CCCCTAAAC-TTTCTAAAATTACATTTTTA
* * *
7006228 CCCCAAAACTTTTTAAACATTACATTTTAA
1 CCCCTAAACTTTCTAAA-ATTACATTTTTA
* *
7006258 CCCTTAAACTTTTCCAAAA-T-CATATTTTA
1 CCCCTAAAC-TTTCTAAAATTACAT-TTTTA
* * *
7006287 ACCCTAAATCTTTTTGAAAATTACATTTTAA
1 CCCCTAAA-CTTTCT-AAAATTACATTTTTA
* *
7006318 TCCCC-AAACTTTTTCAAAATT--ATATTTA
1 -CCCCTAAACTTTCT-AAAATTACATTTTTA
* * * * *
7006346 ACCTTAAAACTCTCTAAAAATACATTTTGA
1 CCCCT-AAACTTTCTAAAATTACATTTTTA
* * * *
7006376 CCCATAAACTTTTTCAAAATTATATTTTAA
1 CCCCTAAACTTTCT-AAAATTACATTTTTA
* *
7006406 CCCCAAAACTTTCTAAAATTATATTTTTA
1 CCCCTAAACTTTCTAAAATTACATTTTTA
*
7006435 CCCCTAAACTTTCTAAAATTCCATTTTTA
1 CCCCTAAACTTTCTAAAATTACATTTTTA
* ** * * *
7006464 -ACCTCGATTTTACCAAAAATTGTCA-TTTTA
1 CCCCTAAACTTT--CTAAAATT-ACATTTTTA
* * *
7006494 CTCCC-GAACTTTCCAAAATTCCATTTTTGA
1 C-CCCTAAACTTTCTAAAATTACATTTTT-A
** *
7006524 --CCTCGATTTTACTAAAATTTACCA-TTTTA
1 CCCCTAAACTTT-CTAAAA-TTA-CATTTTTA
** *
7006553 CCCCTAATTTTTCCAAAATTACCA-TTTTA
1 CCCCTAAACTTTCTAAAATTA-CATTTTTA
* **
7006582 CCCCTAAACTTTCCAAAATCCCATTTTT
1 CCCCTAAACTTTCTAAAATTACATTTTT
7006610 TATCCCGATT
Statistics
Matches: 336, Mismatches: 76, Indels: 61
0.71 0.16 0.13
Matches are distributed among these distances:
27 4 0.01
28 28 0.08
29 123 0.37
30 142 0.42
31 31 0.09
32 8 0.02
ACGTcount: A:0.36, C:0.23, G:0.02, T:0.39
Consensus pattern (29 bp):
CCCCTAAACTTTCTAAAATTACATTTTTA
Found at i:7006483 original size:59 final size:58
Alignment explanation
Indices: 7006420--7006580 Score: 189
Period size: 59 Copynumber: 2.7 Consensus size: 58
7006410 AAAACTTTCT
*
7006420 AAAATTATATTTTTACCCCTAAACTTTCTAAAATTCCATTTTTAACCTCGATTTTACCA
1 AAAATTATA-TTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTTACCA
* * * *
7006479 AAAATTGTCATTTTACTCCC-GAACTTTCCAAAATTCCATTTTTGACCTCGATTTTACTA
1 AAAATTAT-ATTTTAC-CCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTTACCA
* * **
7006538 AAATTTACCATTTTACCCCTAATTTTTCCAAAATTACCATTTT
1 AAAATTA-TATTTTACCCCTAAACTTTCCAAAATT-CCATTTT
7006581 ACCCCTAAAC
Statistics
Matches: 86, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
58 3 0.03
59 72 0.84
60 11 0.13
ACGTcount: A:0.32, C:0.23, G:0.03, T:0.42
Consensus pattern (58 bp):
AAAATTATATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTTACCA
Found at i:7006520 original size:88 final size:85
Alignment explanation
Indices: 7006390--7006790 Score: 232
Period size: 88 Copynumber: 4.6 Consensus size: 85
7006380 TAAACTTTTT
* * ** * *
7006390 CAAAATTAT-ATTTTAACCCCAAAACTTTCTAAAATTATATTTTTACCCCTAAACTTTCTAAAAT
1 CAAAATTATCATTTT-ACCCC-GAACTTTCCAAAATTCCATTTTTA-CCCTGAACTTTCCAAAAT
7006454 T-CCATTTTTAACCTCGATTTTAC
63 TACCA-TTTTAACCTCGATTTTAC
* * *
7006477 CAAAAATTGTCATTTTACTCCCGAACTTTCCAAAATTCCATTTTTGA-CCTCG-ATTTTACTAAA
1 C-AAAATTATCATTTTAC-CCCGAACTTTCCAAAATTCCATTTTT-ACCCT-GAACTTT-CCAAA
* * *
7006540 ATTTACCATTTT-ACCCCTAATTTTTC
61 A-TTACCATTTTAACCTC-GATTTTAC
* * * **
7006566 CAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTTATCCC-GATTTTTCCAAAAT
1 CAAAATTATCATTTTACCCC-GAACTTTCCAAAATTCCA-TTTTTA-CCCTGAACTTTCCAAAAT
* *
7006630 TACCATTTTACCCTCGAACTTT-C
63 TACCATTTTAACCTCG-ATTTTAC
* * *
7006653 CAAAATCCTAT--TTTTAACCCTG-A-TTTCACTAAAAATCACCTTTTTACCCTCGAACTTTCCA
1 CAAAAT--TATCATTTT-ACCCCGAACTTTC-C-AAAATTC-CATTTTTACCCT-GAACTTTCCA
* * *
7006714 CAATT-TCATTTTTAATCTCGATTTTAC
59 AAATTACCA-TTTTAACCTCGATTTTAC
* * *
7006741 CAAAAATTATCTTTTTACCCCCGAACTTCCCAAAATTCTATTTTTGACCC
1 C-AAAATTATCATTTTA-CCCCGAACTTTCCAAAATTCCATTTTT-ACCC
7006791 CAATTTTATC
Statistics
Matches: 243, Mismatches: 38, Indels: 64
0.70 0.11 0.19
Matches are distributed among these distances:
85 4 0.02
86 5 0.02
87 52 0.21
88 116 0.48
89 56 0.23
90 7 0.03
91 3 0.01
ACGTcount: A:0.31, C:0.26, G:0.03, T:0.40
Consensus pattern (85 bp):
CAAAATTATCATTTTACCCCGAACTTTCCAAAATTCCATTTTTACCCTGAACTTTCCAAAATTAC
CATTTTAACCTCGATTTTAC
Found at i:7006631 original size:58 final size:58
Alignment explanation
Indices: 7006559--7006877 Score: 279
Period size: 59 Copynumber: 5.4 Consensus size: 58
7006549 TTTACCCCTA
* * *
7006559 ATTTTTCCAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTTATCCCG
1 ATTTTACCAAAATTACCATTTTACCCCTGAACTTTCCAAAATCCCATTTTTGATCCCG
* * *
7006617 ATTTTTCCAAAATTACCATTTTA-CCCTCGAACTTTCCAAAATCCTATTTTT-AACCCTG
1 ATTTTACCAAAATTACCATTTTACCCCT-GAACTTTCCAAAATCCCATTTTTGATCCC-G
* * * * * ** * *
7006675 ATTTCACTAAAAATCACCTTTTTA-CCCTCGAACTTTCCACAATTTCATTTTTAATCTCG
1 ATTTTAC-CAAAATTACCATTTTACCCCT-GAACTTTCCAAAATCCCATTTTTGATCCCG
* * * * * * * *
7006734 ATTTTACCAAAAATTATCTTTTTACCCCCGAACTTCCCAAAATTCTATTTTTGACCCCA
1 ATTTTACC-AAAATTACCATTTTACCCCTGAACTTTCCAAAATCCCATTTTTGATCCCG
* * ** *
7006793 ATTTTATCAAAAATTACCA-TTTATCCCCTAAACTTAACAAAATCCCATTTTTGA-CCCA
1 ATTTTA-CCAAAATTACCATTTTA-CCCCTGAACTTTCCAAAATCCCATTTTTGATCCCG
7006851 ATTTTGACCAAAATTACCATTTTACCC
1 ATTTT-ACCAAAATTACCATTTTACCC
7006878 TGGAGTATCC
Statistics
Matches: 214, Mismatches: 37, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
57 8 0.04
58 77 0.36
59 122 0.57
60 7 0.03
ACGTcount: A:0.31, C:0.28, G:0.03, T:0.38
Consensus pattern (58 bp):
ATTTTACCAAAATTACCATTTTACCCCTGAACTTTCCAAAATCCCATTTTTGATCCCG
Found at i:7006652 original size:29 final size:29
Alignment explanation
Indices: 7006441--7006777 Score: 141
Period size: 29 Copynumber: 11.5 Consensus size: 29
7006431 TTTACCCCTA
* *
7006441 AACTTTCTAAAATT-CCATTTTTAACCTCG
1 AACTTTCCAAAATTACCA-TTTTACCCTCG
* **
7006470 -ATTTTACCAAAAATTGTCATTTTACTCC-CG
1 AACTTT-CC-AAAATTACCATTTTAC-CCTCG
7006500 AACTTTCCAAAATT-CCATTTTTGA-CCTCG
1 AACTTTCCAAAATTACCA-TTTT-ACCCTCG
* * *
7006529 -ATTTTACTAAAATTTACCATTTTACCC-CT
1 AACTTT-CCAAAA-TTACCATTTTACCCTCG
* *
7006558 AATTTTTCCAAAATTACCATTTTACCC-CTA
1 AA-CTTTCCAAAATTACCATTTTACCCTC-G
* *
7006588 AACTTTCCAAAA-TCCCATTTTTTATCC-CG
1 AACTTTCCAAAATTACCA--TTTTACCCTCG
**
7006617 ATTTTTCCAAAATTACCATTTTACCCTCG
1 AACTTTCCAAAATTACCATTTTACCCTCG
7006646 AACTTTCCAAAA-T-CCTATTTTTAACCCT-G
1 AACTTTCCAAAATTACC-A-TTTT-ACCCTCG
* *
7006675 -A-TTTCACTAAAAATCACCTTTTTACCCTCG
1 AACTTTC-C--AAAATTACCATTTTACCCTCG
* * **
7006705 AACTTTCCACAATT-TCATTTTTAATCTCG
1 AACTTTCCAAAATTACCA-TTTTACCCTCG
* * * *
7006734 -ATTTTACCAAAAATTATCTTTTTACCCCCG
1 AACTTT-CC-AAAATTACCATTTTACCCTCG
*
7006764 AACTTCCCAAAATT
1 AACTTTCCAAAATT
7006778 CTATTTTTGA
Statistics
Matches: 236, Mismatches: 37, Indels: 70
0.69 0.11 0.20
Matches are distributed among these distances:
27 6 0.03
28 32 0.14
29 97 0.41
30 73 0.31
31 22 0.09
32 6 0.03
ACGTcount: A:0.30, C:0.27, G:0.03, T:0.40
Consensus pattern (29 bp):
AACTTTCCAAAATTACCATTTTACCCTCG
Found at i:7006872 original size:30 final size:29
Alignment explanation
Indices: 7006770--7006873 Score: 79
Period size: 30 Copynumber: 3.6 Consensus size: 29
7006760 CCCGAACTTC
*
7006770 CCAAAATT-CTATTTTTGACCCCAATTTTA
1 CCAAAATTACCATTTTTGA-CCCAATTTTA
* * * **
7006799 TCAAAAATTACCATTTAT-CCCCTAAACTTA
1 -CCAAAATTACCATTTTTGACCC-AATTTTA
* *
7006829 ACAAAA-TCCCATTTTTGACCCAATTTTGA
1 CCAAAATTACCATTTTTGACCCAATTTT-A
7006858 CCAAAATTACCATTTT
1 CCAAAATTACCATTTT
7006874 ACCCTGGAGT
Statistics
Matches: 54, Mismatches: 15, Indels: 10
0.68 0.19 0.13
Matches are distributed among these distances:
28 12 0.22
29 16 0.30
30 20 0.37
31 6 0.11
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.37
Consensus pattern (29 bp):
CCAAAATTACCATTTTTGACCCAATTTTA
Found at i:7010122 original size:22 final size:22
Alignment explanation
Indices: 7010079--7010122 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
7010069 TATTAAAATA
* *
7010079 ATAAAATTATATTTTAACTTTC
1 ATAAAATCATATCTTAACTTTC
7010101 ATAAAATCATATACTTAA-TTTC
1 ATAAAATCATAT-CTTAACTTTC
7010123 GGTCCCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAAATCATATCTTAACTTTC
Found at i:7012731 original size:31 final size:29
Alignment explanation
Indices: 7012659--7012731 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 29
7012649 TGAATTTTTT
*
7012659 TTAAATTGTTTTTTTTTAAAATTATCAGA
1 TTAAATTGATTTTTTTTAAAATTATCAGA
**
7012688 TTAAACTT-ATTTTTTTTAAATTATTATGGGA
1 TTAAA-TTGATTTTTTTTAAA--ATTATCAGA
*
7012719 TTAGATTGATTTT
1 TTAAATTGATTTT
7012732 ATAAAAATAC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
29 16 0.44
30 4 0.11
31 16 0.44
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.56
Consensus pattern (29 bp):
TTAAATTGATTTTTTTTAAAATTATCAGA
Found at i:7029183 original size:2 final size:2
Alignment explanation
Indices: 7029176--7029243 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
7029166 AGCCTTATTT
7029176 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
7029218 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
7029244 GTAACTCAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7031532 original size:23 final size:24
Alignment explanation
Indices: 7031506--7031551 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
7031496 GAACCCCAAT
*
7031506 TTATT-GTGTATGTTTTTATTTTG
1 TTATTAGTATATGTTTTTATTTTG
7031529 TTATTAGTATATGTTTTTATTTT
1 TTATTAGTATATGTTTTTATTTT
7031552 ATTGTATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.17, C:0.00, G:0.13, T:0.70
Consensus pattern (24 bp):
TTATTAGTATATGTTTTTATTTTG
Found at i:7036756 original size:92 final size:92
Alignment explanation
Indices: 7036594--7036780 Score: 347
Period size: 92 Copynumber: 2.0 Consensus size: 92
7036584 ACCAGGACCC
*
7036594 TAACCGACGACGGTCTCATGTTTTTGGTGTTACAGTCCCAATTTTTTATTTTATTACTAGTATAT
1 TAACCGACGACGGTCTCAAGTTTTTGGTGTTACAGTCCCAATTTTTTATTTTATTACTAGTATAT
*
7036659 GTTTTTATTTTATTGTATTACCTTTTA
66 ATTTTTATTTTATTGTATTACCTTTTA
*
7036686 TAACCGACGACGGTCTCAAGTTTTTGGTGTTACAGTCCTAATTTTTTATTTTATTACTAGTATAT
1 TAACCGACGACGGTCTCAAGTTTTTGGTGTTACAGTCCCAATTTTTTATTTTATTACTAGTATAT
7036751 ATTTTTATTTTATTGTATTACCTTTTA
66 ATTTTTATTTTATTGTATTACCTTTTA
7036778 TAA
1 TAA
7036781 TTTTTTTAAA
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 92 1.00
ACGTcount: A:0.24, C:0.13, G:0.12, T:0.51
Consensus pattern (92 bp):
TAACCGACGACGGTCTCAAGTTTTTGGTGTTACAGTCCCAATTTTTTATTTTATTACTAGTATAT
ATTTTTATTTTATTGTATTACCTTTTA
Found at i:7039955 original size:31 final size:31
Alignment explanation
Indices: 7039912--7039973 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
7039902 CTTAGCAGCC
*
7039912 CAGTGACTTAAATAAAAACTTTT-GAATAGTT
1 CAGTAACTTAAATAAAAA-TTTTAGAATAGTT
*
7039943 CAGTAACTTAAATGAAAATTTTAGAATAGTT
1 CAGTAACTTAAATAAAAATTTTAGAATAGTT
7039974 TAGTGACAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (31 bp):
CAGTAACTTAAATAAAAATTTTAGAATAGTT
Found at i:7040396 original size:3 final size:3
Alignment explanation
Indices: 7040388--7040419 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
7040378 ATAAAGCCAT
7040388 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
7040420 GTTTGGAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:7045800 original size:18 final size:17
Alignment explanation
Indices: 7045777--7045810 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
7045767 TTTCAATAAA
7045777 TTTAAAAAAAAGTTATTT
1 TTTAAAAAAAA-TTATTT
*
7045795 TTTAAAAGAAATTATT
1 TTTAAAAAAAATTATT
7045811 GGATTTAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
TTTAAAAAAAATTATTT
Found at i:7045973 original size:41 final size:41
Alignment explanation
Indices: 7045916--7045993 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
7045906 CACTTCCAGT
7045916 TGGAAACTCTTTCTGTCACATCAATTGAAAAAGCTTCTAGC
1 TGGAAACTCTTTCTGTCACATCAATTGAAAAAGCTTCTAGC
*
7045957 TGGAAGCTCTTTCTGTCACATCAATTGAAAAAGCTTC
1 TGGAAACTCTTTCTGTCACATCAATTGAAAAAGCTTC
7045994 CAATTAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (41 bp):
TGGAAACTCTTTCTGTCACATCAATTGAAAAAGCTTCTAGC
Found at i:7046008 original size:41 final size:41
Alignment explanation
Indices: 7045919--7046009 Score: 128
Period size: 41 Copynumber: 2.2 Consensus size: 41
7045909 TTCCAGTTGG
* * **
7045919 AAACTCTTTCTGTCACATCAATTGAAAAAGCTTCTAGCTGG
1 AAACTCTTTCTGTCACATCAATTGAAAAAGCTTCCAACTAA
* *
7045960 AAGCTCTTTCTGTCACATCAATTGAAAAAGCTTCCAATTAA
1 AAACTCTTTCTGTCACATCAATTGAAAAAGCTTCCAACTAA
7046001 AAACTCTTT
1 AAACTCTTT
7046010 TTTTTCTTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.33
Consensus pattern (41 bp):
AAACTCTTTCTGTCACATCAATTGAAAAAGCTTCCAACTAA
Found at i:7047115 original size:29 final size:31
Alignment explanation
Indices: 7047081--7047145 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
7047071 TTTTCAAATG
* * *
7047081 TGTATA-A-TTGAATCAAAACTAAAGTTTCA
1 TGTATACATTTGAACCAAAACCAAAGGTTCA
7047110 TGTATACATTTGAACCAAAACCAAAGGTTCA
1 TGTATACATTTGAACCAAAACCAAAGGTTCA
7047141 TGTAT
1 TGTAT
7047146 CAAATTGCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 6 0.19
30 1 0.03
31 24 0.77
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (31 bp):
TGTATACATTTGAACCAAAACCAAAGGTTCA
Found at i:7049734 original size:16 final size:16
Alignment explanation
Indices: 7049713--7049743 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7049703 AATAAAAAAA
7049713 TCAAGATATCATAAAT
1 TCAAGATATCATAAAT
*
7049729 TCAAGATATGATAAA
1 TCAAGATATCATAAA
7049744 ACTTAATAAA
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:0.52, C:0.10, G:0.10, T:0.29
Consensus pattern (16 bp):
TCAAGATATCATAAAT
Found at i:7051780 original size:20 final size:19
Alignment explanation
Indices: 7051754--7051798 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
7051744 ATATTTTCTC
* * *
7051754 ATAAAAATATTAAAATATT
1 ATAAAAAGAATAAAAAATT
7051773 ATTAAAAAGAATAAAAAATT
1 A-TAAAAAGAATAAAAAATT
7051793 ATAAAA
1 ATAAAA
7051799 GTATGTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (19 bp):
ATAAAAAGAATAAAAAATT
Found at i:7051906 original size:30 final size:28
Alignment explanation
Indices: 7051829--7051926 Score: 94
Period size: 30 Copynumber: 3.4 Consensus size: 28
7051819 AAATTCTGAT
*
7051829 AAATTATCAAATTAAT-AAAACATATTTA
1 AAATTATTAAATTAATAAAAACATA-TTA
*
7051857 AAA-TATTTAAATTTTATAAAAACATATTA
1 AAATTA-TTAAA-TTAATAAAAACATATTA
7051886 AAATTATTAAATACTAATAAAAATCATA-TA
1 AAATTATTAAAT--TAATAAAAA-CATATTA
*
7051916 CAATTATTAAA
1 AAATTATTAAA
7051927 AATATTAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
27 2 0.03
28 8 0.14
29 15 0.25
30 30 0.51
31 4 0.07
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (28 bp):
AAATTATTAAATTAATAAAAACATATTA
Found at i:7051944 original size:29 final size:28
Alignment explanation
Indices: 7051872--7051965 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 28
7051862 TTTAAATTTT
*
7051872 ATAAAAA-CATATTAAAATTATTAAATACTA
1 ATAAAAATCATA-T-AAATTATTAAA-AATA
7051902 ATAAAAATCATATACAATTATTAAAAATA
1 ATAAAAATCATATA-AATTATTAAAAATA
* * * *
7051931 TTAAAATTGATATAAACTTA-TAAAAATC
1 ATAAAAATCATATAAA-TTATTAAAAATA
7051959 ATAAAAA
1 ATAAAAA
7051966 AAAAACATAA
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
28 14 0.26
29 18 0.33
30 18 0.33
31 4 0.07
ACGTcount: A:0.61, C:0.06, G:0.01, T:0.32
Consensus pattern (28 bp):
ATAAAAATCATATAAATTATTAAAAATA
Found at i:7051946 original size:20 final size:21
Alignment explanation
Indices: 7051902--7051946 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
7051892 TTAAATACTA
*
7051902 ATAAAAATCATATACAATTAT
1 ATAAAAATCATATAAAATTAT
7051923 -TAAAAAT-AT-TAAAATTGAT
1 ATAAAAATCATATAAAATT-AT
7051942 ATAAA
1 ATAAA
7051947 CTTATAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
18 6 0.29
19 4 0.19
20 11 0.52
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (21 bp):
ATAAAAATCATATAAAATTAT
Found at i:7058394 original size:29 final size:26
Alignment explanation
Indices: 7058334--7058394 Score: 68
Period size: 29 Copynumber: 2.2 Consensus size: 26
7058324 TAAAATTCAC
* *
7058334 TAATTATAATAATTACTCAATTTATA
1 TAATTATAATAATTACTCAAATTAAA
7058360 TAATTATAAATAATTACACTCAAATTAAA
1 TAATTAT-AATAATT--ACTCAAATTAAA
*
7058389 TTATTA
1 TAATTA
7058395 GATTAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 7 0.24
27 7 0.24
29 15 0.52
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (26 bp):
TAATTATAATAATTACTCAAATTAAA
Found at i:7071631 original size:1 final size:1
Alignment explanation
Indices: 7071620--7071654 Score: 61
Period size: 1 Copynumber: 35.0 Consensus size: 1
7071610 CAATCACAGT
*
7071620 CCCCTCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
7071655 TAGGCAGCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.97, G:0.00, T:0.03
Consensus pattern (1 bp):
C
Found at i:7073897 original size:2 final size:2
Alignment explanation
Indices: 7073890--7073924 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7073880 AGGAACAAGG
7073890 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
7073925 CAAATCTACC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7074073 original size:2 final size:2
Alignment explanation
Indices: 7074068--7074096 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
7074058 AAAAGCTTTG
7074068 TC TC TC -C TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
7074097 CTCCTCTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:7081538 original size:2 final size:2
Alignment explanation
Indices: 7081531--7081583 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
7081521 CCATTTAATG
7081531 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
7081573 TA TA TA TA TA T
1 TA TA TA TA TA T
7081584 GATAACAAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7084691 original size:28 final size:28
Alignment explanation
Indices: 7084655--7084710 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
7084645 ATATAATACA
*
7084655 AACACAATATGAATTAATAAAGTAAATC
1 AACACAATATGAATTAATAAAATAAATC
*
7084683 AACATAATATGAATTAATAAAATAAATC
1 AACACAATATGAATTAATAAAATAAATC
7084711 TGGTATGAAC
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:0.59, C:0.09, G:0.05, T:0.27
Consensus pattern (28 bp):
AACACAATATGAATTAATAAAATAAATC
Found at i:7085190 original size:13 final size:13
Alignment explanation
Indices: 7085174--7085198 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7085164 ATAACAACTC
7085174 TATAAATATTTAA
1 TATAAATATTTAA
7085187 TATAAATATTTA
1 TATAAATATTTA
7085199 CGAGCTTAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TATAAATATTTAA
Found at i:7085627 original size:39 final size:38
Alignment explanation
Indices: 7085522--7085627 Score: 103
Period size: 38 Copynumber: 2.8 Consensus size: 38
7085512 TTTATATATC
*
7085522 TAAT-TATCTTAAA-TTTAAATTTAATTTAAATAATACA
1 TAATATAT-TTAAATTTTAAATTTAAATTAAATAATACA
* * * *
7085559 TATTTTATTATAATTTTTAAATTT-GATTAAATAATTA-A
1 TAATATATT-TAAATTTTAAATTTAAATTAAATAA-TACA
7085597 TAATATAGTTTAAATTTTAAATTTAAATTAA
1 TAATATA-TTTAAATTTTAAATTTAAATTAA
7085628 TTTATAAGGA
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
37 4 0.07
38 33 0.60
39 18 0.33
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (38 bp):
TAATATATTTAAATTTTAAATTTAAATTAAATAATACA
Found at i:7086124 original size:17 final size:17
Alignment explanation
Indices: 7086102--7086148 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 17
7086092 TCTCTTGACT
*
7086102 TTTAACCTTCCATTTTC
1 TTTAACCTTCCATCTTC
7086119 TTTAACCTTCCATCTTC
1 TTTAACCTTCCATCTTC
*
7086136 TTTAACCTCCCAT
1 TTTAACCTTCCAT
7086149 GACCTTTAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.19, C:0.34, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTAACCTTCCATCTTC
Found at i:7087436 original size:18 final size:18
Alignment explanation
Indices: 7087383--7087436 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
7087373 CACACTAGTA
*
7087383 GTCGTGGTCGAGGACATG
1 GTCGTGGTCGAGGACGTG
* *
7087401 GTTGTGGTC-ATGGTCGTG
1 GTCGTGGTCGA-GGACGTG
*
7087419 GTCGTGATCGAGGACGTG
1 GTCGTGGTCGAGGACGTG
7087437 AACGTGAACA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
17 1 0.04
18 26 0.93
19 1 0.04
ACGTcount: A:0.13, C:0.15, G:0.44, T:0.28
Consensus pattern (18 bp):
GTCGTGGTCGAGGACGTG
Found at i:7091639 original size:34 final size:33
Alignment explanation
Indices: 7091594--7091691 Score: 160
Period size: 34 Copynumber: 2.9 Consensus size: 33
7091584 TTTCATCTCT
* *
7091594 CTTGACTTTTAACCTTCCATCTTCCTTGACCTCC
1 CTTGACCTTTAACCTTCCATCTTCCTTAACCT-C
7091628 CTTGACCTTTAACCTTCCATCTTCCTTAACCTC
1 CTTGACCTTTAACCTTCCATCTTCCTTAACCTC
7091661 CTATGACCTTTAACCTTCCATCTTCCTTAAC
1 CT-TGACCTTTAACCTTCCATCTTCCTTAAC
7091692 TTTTCATATT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
33 3 0.05
34 58 0.95
ACGTcount: A:0.18, C:0.38, G:0.04, T:0.40
Consensus pattern (33 bp):
CTTGACCTTTAACCTTCCATCTTCCTTAACCTC
Found at i:7091690 original size:17 final size:17
Alignment explanation
Indices: 7091602--7091691 Score: 73
Period size: 17 Copynumber: 5.3 Consensus size: 17
7091592 CTCTTGACTT
7091602 TTAACCTTCCATCTTCC
1 TTAACCTTCCATCTTCC
*
7091619 TTGACC-TCC--CTTGACC
1 TTAACCTTCCATCTT--CC
7091635 TTTAACCTTCCATCTTCC
1 -TTAACCTTCCATCTTCC
**
7091653 TTAACC-TCCTAT-GACC
1 TTAACCTTCC-ATCTTCC
7091669 TTTAACCTTCCATCTTCC
1 -TTAACCTTCCATCTTCC
7091687 TTAAC
1 TTAAC
7091692 TTTTCATATT
Statistics
Matches: 57, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 3 0.05
16 10 0.18
17 31 0.54
18 10 0.18
20 3 0.05
ACGTcount: A:0.19, C:0.39, G:0.03, T:0.39
Consensus pattern (17 bp):
TTAACCTTCCATCTTCC
Found at i:7093792 original size:2 final size:2
Alignment explanation
Indices: 7093731--7093778 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
7093721 AATCAAAATG
* *
7093731 TA TA TC TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
7093773 CA TA TA
1 TA TA TA
7093779 CATGCGTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:7094091 original size:18 final size:18
Alignment explanation
Indices: 7094070--7094108 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
7094060 GCAAACGAGA
7094070 GGTCTCGAGCAAAGGAAG
1 GGTCTCGAGCAAAGGAAG
* * *
7094088 GGTCTTGGGCAGAGGAAG
1 GGTCTCGAGCAAAGGAAG
7094106 GGT
1 GGT
7094109 TTCGGGAGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.13, G:0.46, T:0.15
Consensus pattern (18 bp):
GGTCTCGAGCAAAGGAAG
Found at i:7094691 original size:38 final size:38
Alignment explanation
Indices: 7094649--7094830 Score: 169
Period size: 38 Copynumber: 4.8 Consensus size: 38
7094639 TATGCTTGCG
*
7094649 ATCTGCCTCATGATTGAGGAAAGAAATTG-ATGTCTTCA
1 ATCTGCCTCATGATTGAGGAAAGAGATTGAAT-TCTTCA
* * *
7094687 ATCTGCCTTC-TGATTAAGGTAAGAGATTGAATTCTCCA
1 ATCTGCC-TCATGATTGAGGAAAGAGATTGAATTCTTCA
*
7094725 ATCTGCCTCATGATTGA-GATAAGAGATTG-GTGTCTTCA
1 ATCTGCCTCATGATTGAGGA-AAGAGATTGAAT-TCTTCA
* *
7094763 CTTCTGCCCTC-TGATT-AGGGTAAGAGATTGAATTCTTCA
1 -ATCTG-CCTCATGATTGA-GGAAAGAGATTGAATTCTTCA
* * *
7094802 ATCTGCCTCATGATCGGGGTAAGAGATTG
1 ATCTGCCTCATGATTGAGGAAAGAGATTG
7094831 GATAGTGACG
Statistics
Matches: 118, Mismatches: 14, Indels: 24
0.76 0.09 0.15
Matches are distributed among these distances:
37 8 0.07
38 76 0.64
39 28 0.24
40 6 0.05
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.33
Consensus pattern (38 bp):
ATCTGCCTCATGATTGAGGAAAGAGATTGAATTCTTCA
Found at i:7094825 original size:77 final size:76
Alignment explanation
Indices: 7094532--7094831 Score: 284
Period size: 77 Copynumber: 4.0 Consensus size: 76
7094522 GAGATGGTAG
* * * * * * * * *
7094532 CTTCAATTTGCCTTCTAATTAAGGTAAAAGATTGGATGT-TTCAATCTACCCCATGATCGAGGTA
1 CTTCAATCTGCCCTCTGATTAAGGTAAGAGATTGAAT-TCTCCAATCTGCCTCATGATTGAGGTA
7094596 AGAGA-T--TGT
65 AGAGATTGGTGT
* * ** * * * * * * *
7094605 CTTCAATCTACCTTCTGATGCAGGTAAAAGACTGTATGCTTGCGATCTGCCTCATGATTGAGGAA
1 CTTCAATCTGCCCTCTGATTAAGGTAAGAGATTGAATTC-TCCAATCTGCCTCATGATTGAGGTA
* *
7094670 AGAAATTGATGT
65 AGAGATTGGTGT
* *
7094682 CTTCAATCTGCCTTCTGATTAAGGTAAGAGATTGAATTCTCCAATCTGCCTCATGATTGAGATAA
1 CTTCAATCTGCCCTCTGATTAAGGTAAGAGATTGAATTCTCCAATCTGCCTCATGATTGAGGTAA
7094747 GAGATTGGTGT
66 GAGATTGGTGT
* * * * *
7094758 CTTCACTTCTGCCCTCTGATTAGGGTAAGAGATTGAATTCTTCAATCTGCCTCATGATCGGGGTA
1 CTTCA-ATCTGCCCTCTGATTAAGGTAAGAGATTGAATTCTCCAATCTGCCTCATGATTGAGGTA
7094823 AGAGATTGG
65 AGAGATTGG
7094832 ATAGTGACGT
Statistics
Matches: 186, Mismatches: 35, Indels: 8
0.81 0.15 0.03
Matches are distributed among these distances:
73 30 0.16
74 23 0.12
75 1 0.01
76 36 0.19
77 96 0.52
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (76 bp):
CTTCAATCTGCCCTCTGATTAAGGTAAGAGATTGAATTCTCCAATCTGCCTCATGATTGAGGTAA
GAGATTGGTGT
Found at i:7095299 original size:98 final size:98
Alignment explanation
Indices: 7095167--7095791 Score: 704
Period size: 98 Copynumber: 6.4 Consensus size: 98
7095157 TTTATGTCTT
** * * *
7095167 TGAGGTACAAGGTTCGTTGTT-CTGACTTAAACCTTTCCCTCCGTATCTTTGTGGTATCAGATTC
1 TGAGGTACAAGGTTCGCCGTTGC-GACTTAAACCTTTCCCTCCATATCTTCGTGGTACCAGATTC
* *
7095231 GCCGTTGTGGCTTTAATCTTTCCCAGCATATTTT
65 GCCGTTGTGGCTTTAATCTTTCCCAGCATGTTTC
** * * * *
7095265 TGAGGTACAAGGTTCATCATTGTGACTTAAACCTTTCCC-CCATATCTTCGTGGTATCAGATTCA
1 TGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTCCATATCTTCGTGGTACCAGATTCG
* *
7095329 CCGTTGCGGC-TTAATCTTTCTCAGCATGTTTC
66 CCGTTGTGGCTTTAATCTTTCCCAGCATGTTTC
* * *
7095361 TGAGGTACAAGGTTCACTGTTGCGACTTAAACCTTTCCCTCCGTATCTTCGTGGTACCAGATTCG
1 TGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTCCATATCTTCGTGGTACCAGATTCG
* * ** *
7095426 TCATTGTAACTTTAATCTTTCCCAACATGTTTC
66 CCGTTGTGGCTTTAATCTTTCCCAGCATGTTTC
** * * * * *
7095459 TGAGGTACAAGGTTTACCATTGCGACTTAAACATTTCCCTCCGTATCTTCGTGGTACCAAATTTG
1 TGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTCCATATCTTCGTGGTACCAGATTCG
* * * *
7095524 TCGTTATGGCTTTAATCTTTCCCAGCATATTTT
66 CCGTTGTGGCTTTAATCTTTCCCAGCATGTTTC
* * *
7095557 TGAGGTACAAGGTTCGCCGTTACGA--TAAATCTTTCCCTCCATATCTCCGTGGTACTC-GATTC
1 TGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTCCATATCTTCGTGGTAC-CAGATTC
*** * * *
7095619 ATTGTTGCGGATTCAATCTTTCCCAGCATGTTTC
65 GCCGTTGTGGCTTTAATCTTTCCCAGCATGTTTC
* * * *
7095653 TAAGGTACAAGGTTCGCCGTTGCAACTTAAACATTTCCCTTCATATCTTCGTGGTACCAGATTCG
1 TGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTCCATATCTTCGTGGTACCAGATTCG
* * *
7095718 CCATTGTAGCTTCAATCTTTCCCAGCATGTTTC
66 CCGTTGTGGCTTTAATCTTTCCCAGCATGTTTC
* * * *
7095751 TAAGGTACAAGGTTCGCCATTACGACTTTAACCTTTCCCTC
1 TGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTC
7095792 TAAACCTGTA
Statistics
Matches: 444, Mismatches: 76, Indels: 14
0.83 0.14 0.03
Matches are distributed among these distances:
96 131 0.30
97 60 0.14
98 253 0.57
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (98 bp):
TGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTCCATATCTTCGTGGTACCAGATTCG
CCGTTGTGGCTTTAATCTTTCCCAGCATGTTTC
Found at i:7095342 original size:48 final size:48
Alignment explanation
Indices: 7095190--7095716 Score: 181
Period size: 49 Copynumber: 10.8 Consensus size: 48
7095180 TCGTTGTTCT
* * * *
7095190 GACTTAAACCTTTCCCTCCGTATCTTTGTGGTATCAGATTCGCCGTTGT
1 GACTTAAACCTTTCCCTCCATATCTTCGTGGTA-CAGATTCACCGTTGC
* * * ** * * * * * * *
7095239 GGCTTTAATCTTTCCCAGCATATTTTTGAGGTACAAGGTTCATCATTGT
1 GACTTAAACCTTTCCCTCCATATCTTCGTGGTAC-AGATTCACCGTTGC
7095288 GACTTAAACCTTTCCC-CCATATCTTCGTGGTATCAGATTCACCGTTGC
1 GACTTAAACCTTTCCCTCCATATCTTCGTGGTA-CAGATTCACCGTTGC
* * * ** * * * *
7095336 GGCTT-AATCTTTCTCAGCATGT-TTCTGAGGTACAAGGTTCACTGTTGC
1 GACTTAAACCTTTCCCTCCATATCTTC-GTGGTAC-AGATTCACCGTTGC
* ** * *
7095384 GACTTAAACCTTTCCCTCCGTATCTTCGTGGTACCAGATTCGTCATTGT
1 GACTTAAACCTTTCCCTCCATATCTTCGTGGTA-CAGATTCACCGTTGC
* * * ** * * * * *
7095433 AACTTTAATCTTTCCCAACATGT-TTCTGAGGTACAAGGTTTACCATTGC
1 GACTTAAACCTTTCCCTCCATATCTTC-GTGGTAC-AGATTCACCGTTGC
* * * *** **
7095482 GACTTAAACATTTCCCTCCGTATCTTCGTGGTACCAAATTTGTCGTTAT
1 GACTTAAACCTTTCCCTCCATATCTTCGTGGTA-CAGATTCACCGTTGC
* * * ** * * * * * *
7095531 GGCTTTAATCTTTCCCAGCATATTTTTGAGGTACAAGGTTCGCCGTTAC
1 GACTTAAACCTTTCCCTCCATATCTTCGTGGTAC-AGATTCACCGTTGC
* * * **
7095580 GA--TAAATCTTTCCCTCCATATCTCCGTGGTACTCGATTCATTGTTGC
1 GACTTAAACCTTTCCCTCCATATCTTCGTGGTAC-AGATTCACCGTTGC
* * ** * * *
7095627 GGA-TTCAATCTTTCCCAGCATGT-TTC-TAAGGTACAAGGTTCGCCGTTGC
1 -GACTTAAACCTTTCCCTCCATATCTTCGT--GGTAC-AGATTCACCGTTGC
* * *
7095676 AACTTAAACATTTCCCTTCATATCTTCGTGGTACCAGATTC
1 GACTTAAACCTTTCCCTCCATATCTTCGTGGTA-CAGATTC
7095717 GCCATTGTAG
Statistics
Matches: 334, Mismatches: 123, Indels: 42
0.67 0.25 0.08
Matches are distributed among these distances:
47 44 0.13
48 62 0.19
49 215 0.64
50 12 0.04
51 1 0.00
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (48 bp):
GACTTAAACCTTTCCCTCCATATCTTCGTGGTACAGATTCACCGTTGC
Found at i:7095564 original size:292 final size:292
Alignment explanation
Indices: 7095190--7095791 Score: 850
Period size: 292 Copynumber: 2.1 Consensus size: 292
7095180 TCGTTGTTCT
* * * *
7095190 GACTTAAACCTTTCCCTCCGTATCTTTGTGGTATCAGATTCGCCGTTGTGGCTTTAATCTTTCCC
1 GACTTAAACCTTTCCCTCCGTATCTTCGTGGTACCAAATTCGCCGTTATGGCTTTAATCTTTCCC
* ** *
7095255 AGCATATTTTTGAGGTACAAGGTTCATCATTGTGACTTAAACCTTTCCC-CCATATCTTCGTGGT
66 AGCATATTTTTGAGGTACAAGGTTCACCATTACGA--TAAACCTTTCCCTCCATATCTCCGTGGT
* * * *
7095319 A-TCAGATTCACCGTTGCGGCTT-AATCTTTCTCAGCATGTTTCTGAGGTACAAGGTTCACTGTT
129 ACTC-GATTCACCGTTGCGGATTCAATCTTTCCCAGCATGTTTCTAAGGTACAAGGTTCACCGTT
* * * * *
7095382 GCGACTTAAACCTTTCCCTCCGTATCTTCGTGGTACCAGATTCGTCATTGTAACTTTAATCTTTC
193 GCAACTTAAACATTTCCCTCCATATCTTCGTGGTACCAGATTCGCCATTGTAACTTCAATCTTTC
* * *
7095447 CCAACATGTTTCTGAGGTACAAGGTTTACCATTGC
258 CCAACATGTTTCTAAGGTACAAGGTTCACCATTAC
* * *
7095482 GACTTAAACATTTCCCTCCGTATCTTCGTGGTACCAAATTTGTCGTTATGGCTTTAATCTTTCCC
1 GACTTAAACCTTTCCCTCCGTATCTTCGTGGTACCAAATTCGCCGTTATGGCTTTAATCTTTCCC
* * *
7095547 AGCATATTTTTGAGGTACAAGGTTCGCCGTTACGATAAATCTTTCCCTCCATATCTCCGTGGTAC
66 AGCATATTTTTGAGGTACAAGGTTCACCATTACGATAAACCTTTCCCTCCATATCTCCGTGGTAC
** *
7095612 TCGATTCATTGTTGCGGATTCAATCTTTCCCAGCATGTTTCTAAGGTACAAGGTTCGCCGTTGCA
131 TCGATTCACCGTTGCGGATTCAATCTTTCCCAGCATGTTTCTAAGGTACAAGGTTCACCGTTGCA
* *
7095677 ACTTAAACATTTCCCTTCATATCTTCGTGGTACCAGATTCGCCATTGTAGCTTCAATCTTTCCCA
196 ACTTAAACATTTCCCTCCATATCTTCGTGGTACCAGATTCGCCATTGTAACTTCAATCTTTCCCA
* *
7095742 GCATGTTTCTAAGGTACAAGGTTCGCCATTAC
261 ACATGTTTCTAAGGTACAAGGTTCACCATTAC
*
7095774 GACTTTAACCTTTCCCTC
1 GACTTAAACCTTTCCCTC
7095792 TAAACCTGTA
Statistics
Matches: 272, Mismatches: 35, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
290 11 0.04
291 30 0.11
292 231 0.85
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (292 bp):
GACTTAAACCTTTCCCTCCGTATCTTCGTGGTACCAAATTCGCCGTTATGGCTTTAATCTTTCCC
AGCATATTTTTGAGGTACAAGGTTCACCATTACGATAAACCTTTCCCTCCATATCTCCGTGGTAC
TCGATTCACCGTTGCGGATTCAATCTTTCCCAGCATGTTTCTAAGGTACAAGGTTCACCGTTGCA
ACTTAAACATTTCCCTCCATATCTTCGTGGTACCAGATTCGCCATTGTAACTTCAATCTTTCCCA
ACATGTTTCTAAGGTACAAGGTTCACCATTAC
Found at i:7095593 original size:194 final size:195
Alignment explanation
Indices: 7095167--7095791 Score: 731
Period size: 194 Copynumber: 3.2 Consensus size: 195
7095157 TTTATGTCTT
** * *
7095167 TGAGGTACAAGGTTCGTTGTT-CTGACTTAAACCTTTCCCTCCGTATCTTTGTGGTATCAGATTC
1 TGAGGTACAAGGTTCGCCGTTAC-GAC-TAAACCTTTCCCTCCGTATCTTCGTGGTACCAGATTC
* * * * * *
7095231 GCCGTTGTGGCTTTAATCTTTCCCAGCATATTTTTGAGGTACAAGGTTCATCATTGTGACTTAAA
64 GTCGTTGTGACTTTAATCTTTCCCAGCATGTTTCTGAGGTACAAGGTTCACCATTGCGACTTAAA
* * * * *
7095296 CCTTTCCC-CCATATCTTCGTGGTATCAGATTCACCGTTGCGGC-TTAATCTTTCTCAGCATGTT
129 CATTTCCCTCCATATCTTCGTGGTACCAGATTCGCCGTTGTGGCTTTAATCTTTCCCAGCATGTT
7095359 TC
194 TC
* * *
7095361 TGAGGTACAAGGTTCACTGTTGCGACTTAAACCTTTCCCTCCGTATCTTCGTGGTACCAGATTCG
1 TGAGGTACAAGGTTCGCCGTTACGAC-TAAACCTTTCCCTCCGTATCTTCGTGGTACCAGATTCG
* * * *
7095426 TCATTGTAACTTTAATCTTTCCCAACATGTTTCTGAGGTACAAGGTTTACCATTGCGACTTAAAC
65 TCGTTGTGACTTTAATCTTTCCCAGCATGTTTCTGAGGTACAAGGTTCACCATTGCGACTTAAAC
* * * * * *
7095491 ATTTCCCTCCGTATCTTCGTGGTACCAAATTTGTCGTTATGGCTTTAATCTTTCCCAGCATATTT
130 ATTTCCCTCCATATCTTCGTGGTACCAGATTCGCCGTTGTGGCTTTAATCTTTCCCAGCATGTTT
*
7095556 T
195 C
* * * *
7095557 TGAGGTACAAGGTTCGCCGTTACGA-TAAATCTTTCCCTCCATATCTCCGTGGTACTC-GATTCA
1 TGAGGTACAAGGTTCGCCGTTACGACTAAACCTTTCCCTCCGTATCTTCGTGGTAC-CAGATTCG
* * * * * * *
7095620 TTGTTGCGGA-TTCAATCTTTCCCAGCATGTTTCTAAGGTACAAGGTTCGCCGTTGCAACTTAAA
65 TCGTTG-TGACTTTAATCTTTCCCAGCATGTTTCTGAGGTACAAGGTTCACCATTGCGACTTAAA
* * * *
7095684 CATTTCCCTTCATATCTTCGTGGTACCAGATTCGCCATTGTAGCTTCAATCTTTCCCAGCATGTT
129 CATTTCCCTCCATATCTTCGTGGTACCAGATTCGCCGTTGTGGCTTTAATCTTTCCCAGCATGTT
7095749 TC
194 TC
* * *
7095751 TAAGGTACAAGGTTCGCCATTACGACTTTAACCTTTCCCTC
1 TGAGGTACAAGGTTCGCCGTTACGAC-TAAACCTTTCCCTC
7095792 TAAACCTGTA
Statistics
Matches: 365, Mismatches: 59, Indels: 12
0.84 0.14 0.03
Matches are distributed among these distances:
194 282 0.77
195 30 0.08
196 53 0.15
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (195 bp):
TGAGGTACAAGGTTCGCCGTTACGACTAAACCTTTCCCTCCGTATCTTCGTGGTACCAGATTCGT
CGTTGTGACTTTAATCTTTCCCAGCATGTTTCTGAGGTACAAGGTTCACCATTGCGACTTAAACA
TTTCCCTCCATATCTTCGTGGTACCAGATTCGCCGTTGTGGCTTTAATCTTTCCCAGCATGTTTC
Found at i:7095675 original size:49 final size:48
Alignment explanation
Indices: 7095537--7095768 Score: 130
Period size: 49 Copynumber: 4.8 Consensus size: 48
7095527 TTATGGCTTT
* * * * *
7095537 AATCTTTCCCAGCATATTTTTGAGGTACAAGGTTCGCCGTTACGA-TA
1 AATCTTTCCCAGCATGTTTCTAAGGTACAAGGTTCGCCGTTGCGATTC
** * * *** ** * ***
7095584 AATCTTTCCCTCCATATCTCCGTGGTACTCGATTCATTGTTGCGGATTC
1 AATCTTTCCCAGCATGTTTCTAAGGTACAAGGTTCGCCGTTGC-GATTC
*
7095633 AATCTTTCCCAGCATGTTTCTAAGGTACAAGGTTCGCCGTTGCAACTT-
1 AATCTTTCCCAGCATGTTTCTAAGGTACAAGGTTCGCCGTTGCGA-TTC
* ** * * * * * *
7095681 AAACATTTCCCTTCATATCTTCGT--GGTACCAGATTCGCCATTGTAGCTTC
1 AATC-TTTCCCAGCATGT-TTC-TAAGGTACAAGGTTCGCCGTTG-CGATTC
7095731 AATCTTTCCCAGCATGTTTCTAAGGTACAAGGTTCGCC
1 AATCTTTCCCAGCATGTTTCTAAGGTACAAGGTTCGCC
7095769 ATTACGACTT
Statistics
Matches: 131, Mismatches: 44, Indels: 18
0.68 0.23 0.09
Matches are distributed among these distances:
47 31 0.24
48 9 0.07
49 84 0.64
50 6 0.05
51 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (48 bp):
AATCTTTCCCAGCATGTTTCTAAGGTACAAGGTTCGCCGTTGCGATTC
Found at i:7095769 original size:49 final size:49
Alignment explanation
Indices: 7095630--7095789 Score: 155
Period size: 49 Copynumber: 3.3 Consensus size: 49
7095620 TTGTTGCGGA
*
7095630 TTCAATCTTTCCCAGCATGTTTCTAAGGTACAAGGTTCGCCGTTGCAAC
1 TTCAATCTTTCCCAGCATGTTTCTAAGGTACAAGGTTCGCCATTGCAAC
* ** * * * * *
7095679 TT-AAACATTTCCCTTCATATCTTCGT--GGTACCAGATTCGCCATTGTAGC
1 TTCAATC-TTTCCCAGCATGT-TTC-TAAGGTACAAGGTTCGCCATTGCAAC
* *
7095728 TTCAATCTTTCCCAGCATGTTTCTAAGGTACAAGGTTCGCCATTACGAC
1 TTCAATCTTTCCCAGCATGTTTCTAAGGTACAAGGTTCGCCATTGCAAC
* *
7095777 TTTAACCTTTCCC
1 TTCAATCTTTCCC
7095790 TCTAAACCTG
Statistics
Matches: 84, Mismatches: 21, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
47 1 0.01
48 6 0.07
49 70 0.83
50 6 0.07
51 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.35
Consensus pattern (49 bp):
TTCAATCTTTCCCAGCATGTTTCTAAGGTACAAGGTTCGCCATTGCAAC
Found at i:7102928 original size:18 final size:18
Alignment explanation
Indices: 7102897--7102940 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
7102887 GTAGACAAGA
*
7102897 GGTCTCGGGCAGAGTAAG
1 GGTCTCGGGCAGAGGAAG
* *
7102915 GGTCTTGGGTAGAGGAAG
1 GGTCTCGGGCAGAGGAAG
7102933 GGTCTCGG
1 GGTCTCGG
7102941 AAGCGGACGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.18, C:0.14, G:0.48, T:0.20
Consensus pattern (18 bp):
GGTCTCGGGCAGAGGAAG
Found at i:7102998 original size:15 final size:15
Alignment explanation
Indices: 7102971--7103014 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
7102961 GGTTGATGTG
7102971 GTGCTGACGTGGCAC
1 GTGCTGACGTGGCAC
* *
7102986 GTGTTGACATGGCAC
1 GTGCTGACGTGGCAC
7103001 GTGCTGACGTGGCA
1 GTGCTGACGTGGCA
7103015 TGTAGCGACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.16, C:0.23, G:0.39, T:0.23
Consensus pattern (15 bp):
GTGCTGACGTGGCAC
Found at i:7106178 original size:24 final size:22
Alignment explanation
Indices: 7106134--7106178 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
7106124 TTTTTTAATT
7106134 TAAAATTAATTATAAAAATATA
1 TAAAATTAATTATAAAAATATA
7106156 TAAAATATCAA-T-TAAAAATATA
1 TAAAAT-T-AATTATAAAAATATA
7106178 T
1 T
7106179 GTTAATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 17 0.81
23 2 0.10
24 2 0.10
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
TAAAATTAATTATAAAAATATA
Found at i:7108165 original size:21 final size:21
Alignment explanation
Indices: 7108119--7108168 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
7108109 TTTTAAAAAA
* * *
7108119 ATATTTTTTAAATAATAATTG
1 ATATATTTTAAACAATAAATG
7108140 ATATATTTTAAACAATAAAT-
1 ATATATTTTAAACAATAAATG
7108160 ATTATATTT
1 A-TATATTT
7108169 ATTGAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
ATATATTTTAAACAATAAATG
Found at i:7108190 original size:14 final size:14
Alignment explanation
Indices: 7108155--7108201 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 14
7108145 TTTTAAACAA
7108155 TAAATATTATATTTAT
1 TAAA-ATTAT-TTTAT
*
7108171 TGAAATTTATTTT-T
1 T-AAAATTATTTTAT
7108185 TAAAATTATTTTAT
1 TAAAATTATTTTAT
7108199 TAA
1 TAA
7108202 TACAATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
13 10 0.37
14 6 0.22
15 3 0.11
16 5 0.19
17 3 0.11
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (14 bp):
TAAAATTATTTTAT
Found at i:7112709 original size:3 final size:3
Alignment explanation
Indices: 7112703--7112736 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
7112693 AATATTAGCA
* *
7112703 TCT TCT TCT TCT TCT TCT TCA TCA TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
7112737 TGGCAGTTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.06, C:0.32, G:0.00, T:0.62
Consensus pattern (3 bp):
TCT
Found at i:7123471 original size:3 final size:3
Alignment explanation
Indices: 7123427--7123453 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7123417 TAGTGGTCAT
7123427 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
7123454 AGACCCATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:7139593 original size:30 final size:30
Alignment explanation
Indices: 7139531--7139597 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
7139521 TAATCTATAT
*
7139531 TTTTATCATTTTTAAAGGATTAAATTAAAA
1 TTTTATCATTTTTAAAGGATTAAAGTAAAA
** **
7139561 TTTTATCATTTTTTGAGGATTAAAGTGTAA
1 TTTTATCATTTTTAAAGGATTAAAGTAAAA
7139591 TTTTATC
1 TTTTATC
7139598 TAAATTAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.34, C:0.04, G:0.10, T:0.51
Consensus pattern (30 bp):
TTTTATCATTTTTAAAGGATTAAAGTAAAA
Found at i:7140490 original size:23 final size:21
Alignment explanation
Indices: 7140456--7140498 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
7140446 TCATATTCTA
7140456 TAAATTATTTTTAATAAATATAC
1 TAAATTATTTTT-AT-AATATAC
7140479 TAAA-TATGTTTTATAATATA
1 TAAATTAT-TTTTATAATATA
7140499 AATTTAATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 6 0.32
22 5 0.26
23 8 0.42
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
TAAATTATTTTTATAATATAC
Found at i:7166327 original size:14 final size:14
Alignment explanation
Indices: 7166308--7166337 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
7166298 AGAAAAAAGA
7166308 AAGAAATAAATATG
1 AAGAAATAAATATG
7166322 AAGAAATAAATATG
1 AAGAAATAAATATG
7166336 AA
1 AA
7166338 AGTTCATAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.20
Consensus pattern (14 bp):
AAGAAATAAATATG
Found at i:7175610 original size:29 final size:30
Alignment explanation
Indices: 7175528--7175611 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 30
7175518 AAATTTTAAA
* * * *
7175528 TTAATAATAATAAAATTACATTTTAACTTT
1 TTAAAAATAATAAAAATATAATTTAACTTT
* *
7175558 TTAAAAATAATAAAAATTTGATTTAACTTT
1 TTAAAAATAATAAAAATATAATTTAACTTT
* *
7175588 TTAAAGATTAT-AAAATATAATTTA
1 TTAAAAATAATAAAAATATAATTTA
7175612 TTAAAATGAT
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
29 11 0.25
30 33 0.75
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (30 bp):
TTAAAAATAATAAAAATATAATTTAACTTT
Found at i:7177491 original size:29 final size:28
Alignment explanation
Indices: 7177455--7177531 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 28
7177445 GGAAATTCGA
* * *
7177455 GGGCAAAATTGGTAATTTTGGATGTTTGG
1 GGGCAAAA-TGGTAATTTTAGATGCTCGG
* *
7177484 GGTCAAAATGGTGATTTTTAGATGCTCGG
1 GGGCAAAATGGT-AATTTTAGATGCTCGG
7177513 GGGCAAAAATGGTAATTTT
1 GGGC-AAAATGGTAATTTT
7177532 TAGAAAGTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
28 4 0.10
29 27 0.69
30 8 0.21
ACGTcount: A:0.27, C:0.06, G:0.31, T:0.35
Consensus pattern (28 bp):
GGGCAAAATGGTAATTTTAGATGCTCGG
Found at i:7177610 original size:29 final size:29
Alignment explanation
Indices: 7177518--7177681 Score: 124
Period size: 28 Copynumber: 5.6 Consensus size: 29
7177508 CTCGGGGGCA
* * *
7177518 AAAATGGTAATTTTTAGAAAGTTTGGGGAGC
1 AAAAT-GTAATTTTT-GGAAGTTTGAGGTGC
* * * *
7177549 AGAAATGCAATTTTTGG-ACTATTG-GGGGT
1 A-AAATGTAATTTTTGGAAGT-TTGAGGTGC
7177578 AAAATGGTAATTTTTGGAAGTTTGAGGTG-
1 AAAAT-GTAATTTTTGGAAGTTTGAGGTGC
*
7177607 AAAATGTAATTTTTGGAAGTTCGAGG-GC
1 AAAATGTAATTTTTGGAAGTTTGAGGTGC
* *
7177635 AAAATGTAATTTTTGAGAAGTTCGAAGGT-T
1 AAAATGTAATTTTTG-GAAGTTTG-AGGTGC
*
7177665 AAAATATAA-TTTTGGAA
1 AAAATGTAATTTTTGGAA
7177682 AAGTTTAGGG
Statistics
Matches: 113, Mismatches: 11, Indels: 21
0.78 0.08 0.14
Matches are distributed among these distances:
27 1 0.01
28 42 0.37
29 37 0.33
30 20 0.18
31 9 0.08
32 4 0.04
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.35
Consensus pattern (29 bp):
AAAATGTAATTTTTGGAAGTTTGAGGTGC
Found at i:7177616 original size:28 final size:28
Alignment explanation
Indices: 7177578--7177681 Score: 131
Period size: 28 Copynumber: 3.6 Consensus size: 28
7177568 TATTGGGGGT
*
7177578 AAAATGGTAATTTTTGGAAGTTTGAGGTG
1 AAAAT-GTAATTTTTGGAAGTTCGAGGTG
7177607 AAAATGTAATTTTTGGAAGTTCGAGG-G
1 AAAATGTAATTTTTGGAAGTTCGAGGTG
*
7177634 CAAAATGTAATTTTTGAGAAGTTCGAAGGTT
1 -AAAATGTAATTTTTG-GAAGTTCG-AGGTG
*
7177665 AAAATATAA-TTTTGGAA
1 AAAATGTAATTTTTGGAA
7177682 AAGTTTAGGG
Statistics
Matches: 68, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
27 1 0.01
28 38 0.56
29 18 0.26
30 11 0.16
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.36
Consensus pattern (28 bp):
AAAATGTAATTTTTGGAAGTTCGAGGTG
Found at i:7177623 original size:57 final size:57
Alignment explanation
Indices: 7177444--7177681 Score: 189
Period size: 57 Copynumber: 4.1 Consensus size: 57
7177434 AAGTTGAAAG
* * * * *
7177444 TGGAAATTCGAGGGCAAAATTGGTAA-TTTTGGATGTTTGGGGTCAAAATGGTGATTTT
1 TGGAAGTTCGAGGGCAAAA-TGGTAATTTTTGGAAGTTTGAGGTGAAAAT-GTAATTTT
* * * * * * * *
7177502 TAGATGCTCGGGGGCAAAAATGGTAATTTTTAGAAAGTTTGGGGAGCAGAAATGCAATTTT
1 TGGAAGTTCGAGGGC-AAAATGGTAATTTTT-GGAAGTTTGAGGTG-A-AAATGTAATTTT
* *
7177563 TGGACTA-TT-GGGGGTAAAATGGTAATTTTTGGAAGTTTGAGGTGAAAATGTAATTTT
1 TGGA--AGTTCGAGGGCAAAATGGTAATTTTTGGAAGTTTGAGGTGAAAATGTAATTTT
* * *
7177620 TGGAAGTTCGAGGGCAAAAT-GTAATTTTTGAGAAGTTCGAAGGTTAAAATATAA-TTT
1 TGGAAGTTCGAGGGCAAAATGGTAATTTTTG-GAAGTTTG-AGGTGAAAATGTAATTTT
7177677 TGGAA
1 TGGAA
7177682 AAGTTTAGGG
Statistics
Matches: 145, Mismatches: 24, Indels: 23
0.76 0.12 0.12
Matches are distributed among these distances:
55 1 0.01
56 12 0.08
57 39 0.27
58 29 0.20
59 19 0.13
60 25 0.17
61 15 0.10
62 5 0.03
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (57 bp):
TGGAAGTTCGAGGGCAAAATGGTAATTTTTGGAAGTTTGAGGTGAAAATGTAATTTT
Found at i:7177675 original size:30 final size:28
Alignment explanation
Indices: 7177585--7177717 Score: 124
Period size: 28 Copynumber: 4.6 Consensus size: 28
7177575 GGTAAAATGG
* * *
7177585 TAATTTTTGGAAGTTTGAGGTGAAAATG
1 TAATTTTTGGAAGTTCGAGGTTAAAATA
** *
7177613 TAATTTTTGGAAGTTCGAGGGCAAAATG
1 TAATTTTTGGAAGTTCGAGGTTAAAATA
7177641 TAATTTTTGAGAAGTTCGAAGGTTAAAATA
1 TAATTTTTG-GAAGTTCG-AGGTTAAAATA
* *
7177671 TAA-TTTTGGAAAAGTTTAGGGGTTAAAATA
1 TAATTTTTGG--AAG-TTCGAGGTTAAAATA
*
7177701 TGATTTTTGGATAGTTC
1 TAATTTTTGGA-AGTTC
7177718 AGGGACCTTC
Statistics
Matches: 88, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
28 35 0.40
29 16 0.18
30 28 0.32
31 9 0.10
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.38
Consensus pattern (28 bp):
TAATTTTTGGAAGTTCGAGGTTAAAATA
Found at i:7179368 original size:7 final size:6
Alignment explanation
Indices: 7179356--7179432 Score: 61
Period size: 6 Copynumber: 12.8 Consensus size: 6
7179346 GGACTTTTAA
* * *
7179356 TTAAAT CTTAAAT TTAAAAT TTAAA- ATAAAT TTAAACT TTAAA- ATAAGT
1 TTAAAT -TTAAAT TT-AAAT TTAAAT TTAAAT TTAAA-T TTAAAT TTAAAT
* *
7179405 TTAAAT TTAAA- ATAAAT TTAAAC TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
7179433 ATAATTTAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
5 11 0.20
6 27 0.48
7 18 0.32
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (6 bp):
TTAAAT
Found at i:7179387 original size:18 final size:18
Alignment explanation
Indices: 7179364--7179452 Score: 121
Period size: 18 Copynumber: 5.1 Consensus size: 18
7179354 AATTAAATCT
7179364 TAAATTTAAAATTTAAAA
1 TAAATTTAAAATTTAAAA
*
7179382 TAAATTTAAACTTTAAAA
1 TAAATTTAAAATTTAAAA
*
7179400 TAAGTTT-AAATTTAAAA
1 TAAATTTAAAATTTAAAA
*
7179417 TAAATTT-AAACTTAAAA
1 TAAATTTAAAATTTAAAA
7179434 T-AATTTAAAATTTTAAAA
1 TAAATTTAAAA-TTTAAAA
7179452 T
1 T
7179453 TTAAAATTGA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
16 5 0.08
17 28 0.44
18 30 0.48
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.40
Consensus pattern (18 bp):
TAAATTTAAAATTTAAAA
Found at i:7179390 original size:35 final size:33
Alignment explanation
Indices: 7179364--7179452 Score: 108
Period size: 35 Copynumber: 2.5 Consensus size: 33
7179354 AATTAAATCT
7179364 TAAATTTAAAATTTAAAATAAATTTAAACTTTAAAA
1 TAAATTT-AAATTTAAAATAAATTT-AAC-TTAAAA
*
7179400 TAAGTTTAAATTTAAAATAAATTTAAACTTAAAA
1 TAAATTTAAATTTAAAATAAATTT-AACTTAAAA
7179434 T-AATTTAAAATTTTAAAAT
1 TAAATTT-AAA-TTTAAAAT
7179453 TTAAAATTGA
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
33 4 0.08
34 10 0.20
35 29 0.59
36 6 0.12
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.40
Consensus pattern (33 bp):
TAAATTTAAATTTAAAATAAATTTAACTTAAAA
Found at i:7184781 original size:20 final size:21
Alignment explanation
Indices: 7184756--7184883 Score: 84
Period size: 22 Copynumber: 5.9 Consensus size: 21
7184746 AAAAACGCAT
*
7184756 AAAAATAACATCC-AAACAAC
1 AAAAATAACAACCAAAACAAC
*
7184776 AAAAATAACAACCAAAACAGC
1 AAAAATAACAACCAAAACAAC
* *
7184797 AAAAAAAATAA-CAGCAAACAAC
1 AAAAATAACAACCA--AAACAAC
* *
7184819 ATTAAA-AACAACAAAAATAACAAC
1 A-AAAATAACAAC--CAA-AACAAC
* *
7184843 AAAAATAACAGCAAAAAC-AC
1 AAAAATAACAACCAAAACAAC
7184863 AAGAAAATAACAACCAAAACA
1 -A-AAAATAACAACCAAAACA
7184884 GTAAAAAAAC
Statistics
Matches: 84, Mismatches: 12, Indels: 21
0.72 0.10 0.18
Matches are distributed among these distances:
20 16 0.19
21 19 0.23
22 29 0.35
23 7 0.08
24 12 0.14
25 1 0.01
ACGTcount: A:0.70, C:0.20, G:0.03, T:0.07
Consensus pattern (21 bp):
AAAAATAACAACCAAAACAAC
Found at i:7184811 original size:15 final size:15
Alignment explanation
Indices: 7184791--7184859 Score: 54
Period size: 15 Copynumber: 4.7 Consensus size: 15
7184781 TAACAACCAA
7184791 AACAGCAAAAAAAAT
1 AACAGCAAAAAAAAT
* *
7184806 AACAGCAAACAACATT
1 AACAGCAAA-AAAAAT
* * *
7184822 AAAAACAACAAAAAT
1 AACAGCAAAAAAAAT
*
7184837 -A-A-CAACAAAAAT
1 AACAGCAAAAAAAAT
7184849 AACAGCAAAAA
1 AACAGCAAAAA
7184860 CACAAGAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
12 10 0.24
13 2 0.05
14 2 0.05
15 18 0.43
16 10 0.24
ACGTcount: A:0.71, C:0.17, G:0.04, T:0.07
Consensus pattern (15 bp):
AACAGCAAAAAAAAT
Found at i:7184815 original size:43 final size:44
Alignment explanation
Indices: 7184756--7184892 Score: 152
Period size: 43 Copynumber: 3.1 Consensus size: 44
7184746 AAAAACGCAT
*
7184756 AAAAATAACATCCAAACAACA-AAAATAACAACCAAAACAGCAAA
1 AAAAATAACA-GCAAACAACAGAAAATAACAACCAAAACAGCAAA
** * * * *
7184800 AAAAATAACAGCAAACAACATTAAA-AACAACAAAAATAACAAC
1 AAAAATAACAGCAAACAACAGAAAATAACAACCAAAACAGCAAA
* *
7184843 AAAAATAACAGCAAAAACACAAGAAAATAACAACCAAAACAGTAAA
1 AAAAATAACAGCAAACA-AC-AGAAAATAACAACCAAAACAGCAAA
7184889 AAAA
1 AAAA
7184893 CAAAAACAGC
Statistics
Matches: 75, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
43 39 0.52
44 15 0.20
45 4 0.05
46 17 0.23
ACGTcount: A:0.70, C:0.19, G:0.04, T:0.07
Consensus pattern (44 bp):
AAAAATAACAGCAAACAACAGAAAATAACAACCAAAACAGCAAA
Found at i:7184858 original size:11 final size:12
Alignment explanation
Indices: 7184770--7184881 Score: 69
Period size: 12 Copynumber: 9.8 Consensus size: 12
7184760 ATAACATCCA
7184770 AACAACAAAAAT
1 AACAACAAAAAT
* *
7184782 AACAACCAAAAC
1 AACAACAAAAAT
* *
7184794 AGCAAAAAAAAT
1 AACAACAAAAAT
*
7184806 AACAGC----A-
1 AACAACAAAAAT
*
7184813 AACAACATTAAA-
1 AACAACA-AAAAT
7184825 AACAACAAAAAT
1 AACAACAAAAAT
7184837 AACAACAAAAAT
1 AACAACAAAAAT
*
7184849 AACAGCAAAAA-
1 AACAACAAAAAT
* *
7184860 CACAA-GAAAAT
1 AACAACAAAAAT
7184871 AACAACCAAAA
1 AACAA-CAAAA
7184882 CAGTAAAAAA
Statistics
Matches: 74, Mismatches: 17, Indels: 17
0.69 0.16 0.16
Matches are distributed among these distances:
7 5 0.07
8 1 0.01
10 4 0.05
11 10 0.14
12 51 0.69
13 3 0.04
ACGTcount: A:0.71, C:0.20, G:0.04, T:0.06
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:7184882 original size:55 final size:55
Alignment explanation
Indices: 7184757--7184883 Score: 132
Period size: 55 Copynumber: 2.3 Consensus size: 55
7184747 AAAACGCATA
* * *
7184757 AAAATAACATCC-AAACAACAAAAATAACAACCAAAACAGCAAAAAAAATAACAG
1 AAAATAACATCCAAAACAACAAAAATAACAACAAAAACAACAAAAAAAACAACAG
* * ** * **
7184811 CAAACAACATTAAAAACAACAAAAATAACAACAAAAATAACAGCAAAAAC-ACAAG
1 AAAATAACATCCAAAACAACAAAAATAACAACAAAAACAACAAAAAAAACAAC-AG
*
7184866 AAAATAACAACCAAAACA
1 AAAATAACATCCAAAACA
7184884 GTAAAAAAAC
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
54 10 0.18
55 46 0.82
ACGTcount: A:0.69, C:0.20, G:0.03, T:0.07
Consensus pattern (55 bp):
AAAATAACATCCAAAACAACAAAAATAACAACAAAAACAACAAAAAAAACAACAG
Found at i:7184921 original size:21 final size:21
Alignment explanation
Indices: 7184875--7184942 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
7184865 GAAAATAACA
*
7184875 ACCAAAACAGTAAAAAA-A-C
1 ACCAAAACAGCAAAAAACAGC
7184894 A--AAAACAGCAAAAAA-AGC
1 ACCAAAACAGCAAAAAACAGC
* *
7184912 AATCAAAACAGTAAAAAACAGC
1 -ACCAAAACAGCAAAAAACAGC
7184934 ACCAAAACA
1 ACCAAAACA
7184943 AAAATATAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
17 14 0.34
18 1 0.02
19 2 0.05
21 21 0.51
22 3 0.07
ACGTcount: A:0.68, C:0.21, G:0.07, T:0.04
Consensus pattern (21 bp):
ACCAAAACAGCAAAAAACAGC
Found at i:7184929 original size:39 final size:39
Alignment explanation
Indices: 7184854--7184929 Score: 111
Period size: 38 Copynumber: 2.0 Consensus size: 39
7184844 AAAATAACAG
7184854 CAAAAACACAAGAAAATAACAACCAAAACAGTAAAAAAA
1 CAAAAACACAAGAAAATAACAACCAAAACAGTAAAAAAA
* *
7184893 CAAAAACAGCAA-AAAA-AGCAATCAAAACAGTAAAAAA
1 CAAAAACA-CAAGAAAATAACAACCAAAACAGTAAAAAA
7184930 CAGCACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 19 0.56
39 12 0.35
40 3 0.09
ACGTcount: A:0.71, C:0.17, G:0.07, T:0.05
Consensus pattern (39 bp):
CAAAAACACAAGAAAATAACAACCAAAACAGTAAAAAAA
Found at i:7186854 original size:19 final size:19
Alignment explanation
Indices: 7186830--7186869 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
7186820 TTTTTTTATT
*
7186830 ATTAGAATAAAAAAGTTTA
1 ATTAGAATAAAAAAGTATA
*
7186849 ATTAGAATAGAAAAGTATA
1 ATTAGAATAAAAAAGTATA
7186868 AT
1 AT
7186870 AAAAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (19 bp):
ATTAGAATAAAAAAGTATA
Found at i:7193227 original size:25 final size:25
Alignment explanation
Indices: 7193177--7193235 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
7193167 TATATTTATA
7193177 TTATATTATTTTAATATTTAATAATT
1 TTATA-TATTTTAATATTTAATAATT
* *
7193203 TTATATATTTT-TTATTTATTAAATT
1 TTATATATTTTAATATTTAAT-AATT
*
7193228 TTTTATAT
1 TTATATAT
7193236 AATCATTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 7 0.24
25 17 0.59
26 5 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (25 bp):
TTATATATTTTAATATTTAATAATT
Done.