Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 49 of 132
Found at i:13338031 original size:18 final size:21
Alignment explanation
Indices: 13338008--13338051 Score: 67
Period size: 18 Copynumber: 2.2 Consensus size: 21
13337998 GGGGTATGGG
13338008 TTTTATTT-GGT-TTGGG-TA
1 TTTTATTTGGGTGTTGGGCTA
13338026 TTTTATTTGGGTGTTGGGCTA
1 TTTTATTTGGGTGTTGGGCTA
13338047 TTTTA
1 TTTTA
13338052 GGAAAATGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.35
19 3 0.13
20 5 0.22
21 7 0.30
ACGTcount: A:0.11, C:0.02, G:0.27, T:0.59
Consensus pattern (21 bp):
TTTTATTTGGGTGTTGGGCTA
Found at i:13383605 original size:24 final size:24
Alignment explanation
Indices: 13383572--13383622 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
13383562 AGAAATAATC
* *
13383572 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCCGTTTATTTG
13383596 TTTCAATTAAACTCCGTTTATTTG
1 TTTCAATTAAACTCCGTTTATTTG
13383620 TTT
1 TTT
13383623 GAGTCAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.22, C:0.14, G:0.10, T:0.55
Consensus pattern (24 bp):
TTTCAATTAAACTCCGTTTATTTG
Found at i:13383631 original size:24 final size:24
Alignment explanation
Indices: 13383580--13383633 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
13383570 TCTTTCAGTT
* *
13383580 AAACTCTGTTTATTTGTTTCAATT
1 AAACTCCGTTTATTTGTTTCAATC
* *
13383604 AAACTCCGTTTATTTGTTTGAGTC
1 AAACTCCGTTTATTTGTTTCAATC
13383628 AAACTC
1 AAACTC
13383634 TTATTACTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.46
Consensus pattern (24 bp):
AAACTCCGTTTATTTGTTTCAATC
Found at i:13390923 original size:6 final size:6
Alignment explanation
Indices: 13390912--13390967 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
13390902 AATATGAAAA
* * * * *
13390912 TAAATT TAAATT CAAATT CAAATT TAAA-A TAAATC TAAATT TAAA-A
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
13390958 TAAATT TAAA
1 TAAATT TAAA
13390968 AGGGCTCAGT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
5 8 0.20
6 33 0.80
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (6 bp):
TAAATT
Found at i:13390951 original size:17 final size:16
Alignment explanation
Indices: 13390898--13390963 Score: 69
Period size: 17 Copynumber: 3.8 Consensus size: 16
13390888 TGCTTTTTCT
*
13390898 TTTAAATATGAAAATAAA
1 TTTAAA-AT-AAATTAAA
*
13390916 TTTAAATTCAAATTCAAA
1 TTTAAAAT-AAATT-AAA
13390934 TTTAAAATAAATCTAAA
1 TTTAAAATAAAT-TAAA
13390951 TTTAAAATAAATT
1 TTTAAAATAAATT
13390964 TAAAAGGGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
16 1 0.02
17 24 0.57
18 17 0.40
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (16 bp):
TTTAAAATAAATTAAA
Found at i:13390967 original size:17 final size:17
Alignment explanation
Indices: 13390912--13390967 Score: 76
Period size: 17 Copynumber: 3.2 Consensus size: 17
13390902 AATATGAAAA
*
13390912 TAAATTTAAATTCAAATT
1 TAAATTTAAAAT-AAATT
* *
13390930 CAAATTTAAAATAAATC
1 TAAATTTAAAATAAATT
13390947 TAAATTTAAAATAAATT
1 TAAATTTAAAATAAATT
13390964 TAAA
1 TAAA
13390968 AGGGCTCAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
17 23 0.70
18 10 0.30
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAATTTAAAATAAATT
Found at i:13393839 original size:6 final size:6
Alignment explanation
Indices: 13393802--13393871 Score: 51
Period size: 6 Copynumber: 12.2 Consensus size: 6
13393792 CTAAATCCAT
* * *
13393802 TTTAAA TTT-AT TTTAAGA -TTAAA TTT-AT TTTAAA TTTATA TTTAAA
1 TTTAAA TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
13393848 TTTAAA ATT--A TTCTAAA TTTAAA T
1 TTTAAA TTTAAA TT-TAAA TTTAAA T
13393872 AAACAAAGTC
Statistics
Matches: 49, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
4 2 0.04
5 10 0.20
6 34 0.69
7 3 0.06
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:13393843 original size:13 final size:12
Alignment explanation
Indices: 13393820--13393851 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
13393810 TATTTTAAGA
13393820 TTAAATTTAT-T
1 TTAAATTTATAT
13393831 TTAAATTTATAT
1 TTAAATTTATAT
13393843 TTAAATTTA
1 TTAAATTTA
13393852 AAATTATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTAAATTTATAT
Found at i:13393844 original size:17 final size:18
Alignment explanation
Indices: 13393802--13393845 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
13393792 CTAAATCCAT
13393802 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAAGA
13393820 -TTAAATTTATTTTAA-A
1 TTTAAATTTATTTTAAGA
*
13393836 TTTATATTTA
1 TTTAAATTTA
13393846 AATTTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 1 0.04
17 23 0.96
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
TTTAAATTTATTTTAAGA
Found at i:13393853 original size:18 final size:17
Alignment explanation
Indices: 13393802--13393871 Score: 62
Period size: 17 Copynumber: 4.4 Consensus size: 17
13393792 CTAAATCCAT
*
13393802 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTCTAA-A
*
13393820 -TTAAATTTATTTTAAA
1 TTTAAATTTATTCTAAA
13393836 TTT--A--TATT-TAAA
1 TTTAAATTTATTCTAAA
*
13393848 TTTAAAATTATTCTAAA
1 TTTAAATTTATTCTAAA
13393865 TTTAAAT
1 TTTAAAT
13393872 AAACAAAGTC
Statistics
Matches: 45, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
12 7 0.16
13 4 0.09
14 1 0.02
15 1 0.02
16 5 0.11
17 27 0.60
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTCTAAA
Found at i:13393858 original size:29 final size:28
Alignment explanation
Indices: 13393800--13393868 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 28
13393790 AACTAAATCC
*
13393800 ATTTTAAATTTATTTTAAGATTAAATTT
1 ATTTTAAATTTATTTTAAGATTAAAATT
13393828 ATTTTAAATTTATATTTAA-ATTTAAAATT
1 ATTTTAAATTTAT-TTTAAGA-TTAAAATT
*
13393857 ATTCTAAATTTA
1 ATTTTAAATTTA
13393869 AATAAACAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 14 0.38
29 23 0.62
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (28 bp):
ATTTTAAATTTATTTTAAGATTAAAATT
Found at i:13394050 original size:3 final size:3
Alignment explanation
Indices: 13394042--13394100 Score: 64
Period size: 3 Copynumber: 19.7 Consensus size: 3
13394032 AAATAGTATC
* * ** * *
13394042 AAT AAT AAT AAT ACT ATT CTT AAT AGT AAT AAT AAT AAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13394090 AAT AAT AAT AA
1 AAT AAT AAT AA
13394101 AAAGGCAGTC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:13395256 original size:30 final size:30
Alignment explanation
Indices: 13395213--13395284 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
13395203 TGAACTGTTT
* * *
13395213 AAAAATCATATTTTGACCCTTAAAAATTCC
1 AAAAATTACATTTTGACCCCTAAAAATTCC
**
13395243 AAAAATTACATTTTGACCCCTAAACTTTCC
1 AAAAATTACATTTTGACCCCTAAAAATTCC
*
13395273 AAAATTTACATT
1 AAAAATTACATT
13395285 ATTGCACTCG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.42, C:0.21, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAAATTACATTTTGACCCCTAAAAATTCC
Found at i:13395394 original size:59 final size:58
Alignment explanation
Indices: 13395304--13395665 Score: 312
Period size: 59 Copynumber: 6.2 Consensus size: 58
13395294 GAACTTCACA
* *
13395304 AAAATTACCAGTTTA-CCTCGAATTTCCAAAAATTCTATTTTTGACCCCAAACTTTCCC
1 AAAATTACCATTTTACCCTCGAA-TTCCAAAAATTCCATTTTTGACCCCAAACTTTCCC
* * *
13395362 AAAATTACCATTTTACCCCCGAATGTCTAAAAATTCCATTTTTGACTCCAAAC-TTCCC
1 AAAATTACCATTTTACCCTCGAAT-TCCAAAAATTCCATTTTTGACCCCAAACTTTCCC
* * * **
13395420 AAATGTTACCATTTTACCCTTAGACTTCCAAAAATTCCATTTTTGACCCTGAACTTTCCC
1 AAA-ATTACCATTTTACCC-TCGAATTCCAAAAATTCCATTTTTGACCCCAAACTTTCCC
** * * ** * * * *
13395480 AAAATTGTCATTTTACCCTCAAACATCCAAAAATTTTATTCTTGACCCCATACTTACCT
1 AAAATTACCATTTTACCCTCGAA-TTCCAAAAATTCCATTTTTGACCCCAAACTTTCCC
** * * *
13395539 AAAATTACCATTTTACCCTTAAACTTCTAAAAATTCCA----TG-TCCTAAACTTTCCC
1 AAAATTACCATTTTACCCTCGAA-TTCCAAAAATTCCATTTTTGACCCCAAACTTTCCC
* * *
13395593 AAAATTACCATTTTAACCC-CGAATGTCCAAAAATTCCATTTTT-ATCCTCGAAC-TTCCTA
1 AAAATTACCATTTT-ACCCTCGAAT-TCCAAAAATTCCATTTTTGA-CCCCAAACTTTCC-C
13395652 AAAATTACCATTTT
1 AAAATTACCATTTT
13395666 GCCCCTGGCA
Statistics
Matches: 241, Mismatches: 48, Indels: 29
0.76 0.15 0.09
Matches are distributed among these distances:
53 1 0.00
54 37 0.15
55 6 0.02
58 30 0.12
59 156 0.65
60 11 0.05
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.35
Consensus pattern (58 bp):
AAAATTACCATTTTACCCTCGAATTCCAAAAATTCCATTTTTGACCCCAAACTTTCCC
Found at i:13395449 original size:118 final size:118
Alignment explanation
Indices: 13395304--13395665 Score: 382
Period size: 118 Copynumber: 3.1 Consensus size: 118
13395294 GAACTTCACA
* ** * * *
13395304 AAAATTACCAGTTTA-CCTCGAATTTCCAAAAATTCTATTTTTGACCCCAAACTTTCCCAAAATT
1 AAAATTACCATTTTACCCTTAAACTTCCAAAAATTCCATTTTTGACCCTAAACTTTCCCAAAATT
* *
13395368 ACCATTTTACCCCCGAATGTCTAAAAATTCCATTTTTGACTCCAAACTT-CCC
66 ACCATTTTACCCCCGAATGTCCAAAAATTCCATTTTTGACCCCAAACTTACCC
* * *
13395420 AAATGTTACCATTTTACCCTTAGACTTCCAAAAATTCCATTTTTGACCCTGAACTTTCCCAAAAT
1 AAA-ATTACCATTTTACCCTTAAACTTCCAAAAATTCCATTTTTGACCCTAAACTTTCCCAAAAT
** * * ** ** * * *
13395485 TGTCATTTTACCCTCAAACATCCAAAAATTTTATTCTTGACCCCATACTTACCT
65 TACCATTTTACCCCCGAATGTCCAAAAATTCCATTTTTGACCCCAAACTTACCC
* *
13395539 AAAATTACCATTTTACCCTTAAACTTCTAAAAATTCCA----TG-TCCTAAACTTTCCCAAAATT
1 AAAATTACCATTTTACCCTTAAACTTCCAAAAATTCCATTTTTGACCCTAAACTTTCCCAAAATT
* * * *
13395599 ACCATTTTAACCCCGAATGTCCAAAAATTCCATTTTT-ATCCTCGAACTT-CCTA
66 ACCATTTTACCCCCGAATGTCCAAAAATTCCATTTTTGA-CCCCAAACTTACC-C
13395652 AAAATTACCATTTT
1 AAAATTACCATTTT
13395666 GCCCCTGGCA
Statistics
Matches: 200, Mismatches: 41, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
112 3 0.01
113 66 0.33
114 2 0.01
116 3 0.01
117 10 0.05
118 111 0.56
119 5 0.03
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.35
Consensus pattern (118 bp):
AAAATTACCATTTTACCCTTAAACTTCCAAAAATTCCATTTTTGACCCTAAACTTTCCCAAAATT
ACCATTTTACCCCCGAATGTCCAAAAATTCCATTTTTGACCCCAAACTTACCC
Found at i:13395463 original size:29 final size:29
Alignment explanation
Indices: 13395239--13395665 Score: 181
Period size: 30 Copynumber: 14.6 Consensus size: 29
13395229 CCCTTAAAAA
* *
13395239 TTCCAAAAATTACATTTTGACCC-CTAAAC
1 TTCCAAAAATTCCATTTTTACCCTC-AAAC
* * * * * *
13395268 TTTCCAAAATTTACATTATTGCACTCGAAC
1 -TTCCAAAAATTCCATTTTTACCCTCAAAC
* * *
13395298 TTCACAAAAATTACCA-GTTTA-CCTCGAAT
1 TTC-CAAAAATT-CCATTTTTACCCTCAAAC
*
13395327 TTCCAAAAATTCTATTTTTGACCC-CAAAC
1 TTCCAAAAATTCCATTTTT-ACCCTCAAAC
* * *
13395356 TTTCCCAAAATTACCA-TTTTACCCCCGAA-
1 -TTCCAAAAATT-CCATTTTTACCCTCAAAC
* *
13395385 TGTCTAAAAATTCCATTTTTGACTC-CAAAC
1 T-TCCAAAAATTCCATTTTT-ACCCTCAAAC
** * *
13395415 TTCCCAAATGTTACCA-TTTTACCCTTAGAC
1 TT-CCAAAAATT-CCATTTTTACCCTCAAAC
*
13395445 TTCCAAAAATTCCATTTTTGACCCT-GAAC
1 TTCCAAAAATTCCATTTTT-ACCCTCAAAC
* *
13395474 TTTCCCAAAATTGTCA-TTTTACCCTCAAAC
1 -TTCCAAAAATT-CCATTTTTACCCTCAAAC
* ** * *
13395504 ATCCAAAAATTTTATTCTTGACCC-CATAC
1 TTCCAAAAATTCCATT-TTTACCCTCAAAC
* *
13395533 TTACCTAAAATTACCA-TTTTACCCTTAAAC
1 TT-CCAAAAATT-CCATTTTTACCCTCAAAC
* *
13395563 TTCTAAAAATTCCA--TGT--CCT-AAAC
1 TTCCAAAAATTCCATTTTTACCCTCAAAC
* * *
13395587 TTTCCCAAAATTACCATTTTAACCC-CGAA-
1 -TTCCAAAAATT-CCATTTTTACCCTCAAAC
* *
13395616 TGTCCAAAAATTCCATTTTTATCCTCGAAC
1 T-TCCAAAAATTCCATTTTTACCCTCAAAC
13395646 TTCCTAAAAATTACCATTTT
1 TTCC-AAAAATT-CCATTTT
13395666 GCCCCTGGCA
Statistics
Matches: 299, Mismatches: 60, Indels: 75
0.69 0.14 0.17
Matches are distributed among these distances:
24 4 0.01
25 12 0.04
26 3 0.01
27 4 0.01
28 35 0.12
29 101 0.34
30 122 0.41
31 18 0.06
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.35
Consensus pattern (29 bp):
TTCCAAAAATTCCATTTTTACCCTCAAAC
Found at i:13399097 original size:23 final size:23
Alignment explanation
Indices: 13399078--13399127 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
13399068 GCCTTTTCTT
13399078 GCATTACATACATGCATTTTTTC
1 GCATTACATACATGCATTTTTTC
* ** *
13399101 GCATTGCATATTTGCATATTTTC
1 GCATTACATACATGCATTTTTTC
13399124 GCAT
1 GCAT
13399128 AATAATTCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.44
Consensus pattern (23 bp):
GCATTACATACATGCATTTTTTC
Found at i:13408084 original size:10 final size:10
Alignment explanation
Indices: 13408069--13408097 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
13408059 AATAAATAGT
13408069 ATCAATAATA
1 ATCAATAATA
13408079 ATCAATAATA
1 ATCAATAATA
13408089 AT-AATAATA
1 ATCAATAATA
13408098 CTATTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.37
10 12 0.63
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (10 bp):
ATCAATAATA
Found at i:13409293 original size:30 final size:30
Alignment explanation
Indices: 13409253--13409670 Score: 126
Period size: 30 Copynumber: 14.5 Consensus size: 30
13409243 AAAGGTCCCT
* *
13409253 AAACTATCCAAAAATCATATTTTGACCCCC
1 AAACTTTCCAAAAATCACATTTTGACCCCC
* *
13409283 AAACTTTCCAAAAGTTACATTTTGACCCCC
1 AAACTTTCCAAAAATCACATTTTGACCCCC
* * * *
13409313 AAACTTTCCAAAAGTTACA--TT-A-TCAC
1 AAACTTTCCAAAAATCACATTTTGACCCCC
* * * *
13409339 GAAC-TTCAAAAAAATTACCATTTT-ACCCCT
1 AAACTTTC-CAAAAATCA-CATTTTGACCCCC
*
13409369 AAA-TTT-CAAAAATTC-CATTTTTGA-CCCT
1 AAACTTTCCAAAAA-TCACA-TTTTGACCCCC
* * * *
13409397 AAACTTTCCCAAAATTACCATTTT-ATCCTC
1 AAACTTTCCAAAAATCA-CATTTTGACCCCC
*
13409427 AAA-TGTT-CAAAAATTC-CATTTTTGA-CCCT
1 AAACT-TTCCAAAAA-TCACA-TTTTGACCCCC
**
13409456 AAAC-TTCCTAAAAA-CTACCATTTT-A-CCTT
1 AAACTTTCC-AAAAATC-A-CATTTTGACCCCC
* ** * * *
13409485 AGAC-TTCC-AAAATTTCGTTTTTAACCCC
1 AAACTTTCCAAAAATCACATTTTGACCCCC
* * * **
13409513 AAACTTTCCTAAAATTAGATTTT-ACCCTT
1 AAACTTTCCAAAAATCACATTTTGACCCCC
* *
13409542 AAAC-TTCCAAAAATTC-CATTTT-AACCCT
1 AAACTTTCCAAAAA-TCACATTTTGACCCCC
13409570 AAACTTTCCAAAAATCACCATTTT-A-CCCC
1 AAACTTTCCAAAAATCA-CATTTTGACCCCC
* *
13409599 AAAC-ATCCAAAAATTC-CATTTTTA-CCCC
1 AAACTTTCCAAAAA-TCACATTTTGACCCCC
* * * *
13409627 AAATTTTCCTAAAATTACTATTTT-ACCCTC
1 AAACTTTCCAAAAATCAC-ATTTTGACCCCC
13409657 AAAC-TTCCAAAAAT
1 AAACTTTCCAAAAAT
13409671 TCTATTTTTA
Statistics
Matches: 298, Mismatches: 51, Indels: 79
0.70 0.12 0.18
Matches are distributed among these distances:
25 3 0.01
26 17 0.06
27 16 0.05
28 68 0.23
29 85 0.29
30 105 0.35
31 4 0.01
ACGTcount: A:0.37, C:0.27, G:0.03, T:0.33
Consensus pattern (30 bp):
AAACTTTCCAAAAATCACATTTTGACCCCC
Found at i:13409542 original size:57 final size:58
Alignment explanation
Indices: 13409349--13409767 Score: 390
Period size: 58 Copynumber: 7.2 Consensus size: 58
13409339 GAACTTCAAA
* * * * *
13409349 AAAATTACCATTTTACCC-CTAAATTTCAAAAATTCCATTTTTGACCCTAAACTTTCCC
1 AAAATTACCATTTTACCCTC-AAACTTCCAAAATTCCATTTTTAACCCCAAACTTTCCT
* * * * *
13409407 AAAATTACCATTTTATCCTCAAATGTTCAAAAATTCCATTTTTGACCCTAAAC-TTCCT
1 AAAATTACCATTTTACCCTCAAA-CTTCCAAAATTCCATTTTTAACCCCAAACTTTCCT
* * * * *
13409465 AAAAACTACCATTTTA-CCTTAGACTTCCAAAATTTCGTTTTTAACCCCAAACTTTCCT
1 -AAAATTACCATTTTACCCTCAAACTTCCAAAATTCCATTTTTAACCCCAAACTTTCCT
* * * *
13409523 AAAATTA-GATTTTACCCTTAAACTTCCAAAAATTCCA-TTTTAACCCTAAACTTTCCA
1 AAAATTACCATTTTACCCTCAAACTTCC-AAAATTCCATTTTTAACCCCAAACTTTCCT
* * *
13409580 AAAATCACCATTTTACCC-CAAACATCCAAAAATTCCATTTTT-ACCCCAAATTTTCCT
1 AAAATTACCATTTTACCCTCAAACTTCC-AAAATTCCATTTTTAACCCCAAACTTTCCT
* * **
13409637 AAAATTACTATTTTACCCTCAAACTTCCAAAAATTCTATTTTTAACATCAAACTTTCC-
1 AAAATTACCATTTTACCCTCAAACTTCC-AAAATTCCATTTTTAACCCCAAACTTTCCT
* * * * * * *
13409695 CAAATTACCATTTTACCCCCGAA-TGTCCAAAAATTCAATTTTTGACCTCGAAC-TTCCT
1 AAAATTACCATTTTACCCTCAAACT-TCC-AAAATTCCATTTTTAACCCCAAACTTTCCT
13409753 AAAAATTACCATTTT
1 -AAAATTACCATTTT
13409768 TCCTCGGGCA
Statistics
Matches: 306, Mismatches: 42, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
56 6 0.02
57 114 0.37
58 119 0.39
59 67 0.22
ACGTcount: A:0.36, C:0.26, G:0.02, T:0.36
Consensus pattern (58 bp):
AAAATTACCATTTTACCCTCAAACTTCCAAAATTCCATTTTTAACCCCAAACTTTCCT
Found at i:13409728 original size:29 final size:28
Alignment explanation
Indices: 13409253--13409767 Score: 270
Period size: 29 Copynumber: 17.8 Consensus size: 28
13409243 AAAGGTCCCT
* *
13409253 AAACTATCCAAAAA-TCATATTTTGACCCCC
1 AAACTTTCCAAAAATTC-CATTTT-A-CCCC
* *
13409283 AAACTTTCCAAAAGTTACATTTTGACCCCC
1 AAACTTTCCAAAAATTCCATTTT-A-CCCC
* * * *
13409313 AAACTTTCCAAAAGTTACA--TTATCAC
1 AAACTTTCCAAAAATTCCATTTTACCCC
* *
13409339 GAAC-TTCAAAAAAATTACCATTTTACCCC
1 AAACTTTC-CAAAAATT-CCATTTTACCCC
*
13409368 TAAA-TTT-CAAAAATTCCATTTTTGACCCT
1 -AAACTTTCCAAAAATTCCA-TTTT-ACCCC
* *
13409397 AAACTTTCCCAAAATTACCATTTTATCCTC
1 AAACTTTCCAAAAATT-CCATTTTA-CCCC
*
13409427 AAA-TGTT-CAAAAATTCCATTTTTGACCCT
1 AAACT-TTCCAAAAATTCCA-TTTT-ACCCC
* **
13409456 AAAC-TTCCTAAAAACTACCATTTTACCTT
1 AAACTTTCC-AAAAA-TTCCATTTTACCCC
* * **
13409485 AGAC-TTCCAAAATTTCGTTTTTAACCCC
1 AAACTTTCCAAAAATTCCATTTT-ACCCC
* ** *
13409513 AAACTTTCCTAAAATTAGATTTTACCCTT
1 AAACTTTCCAAAAATTCCATTTTACCC-C
*
13409542 AAAC-TTCCAAAAATTCCATTTTAACCCT
1 AAACTTTCCAAAAATTCCATTTT-ACCCC
*
13409570 AAACTTTCCAAAAATCACCATTTTACCCC
1 AAACTTTCCAAAAAT-TCCATTTTACCCC
*
13409599 AAAC-ATCCAAAAATTCCATTTTTACCCC
1 AAACTTTCCAAAAATTCCA-TTTTACCCC
* * *
13409627 AAATTTTCCTAAAATTACTATTTTACCCTC
1 AAACTTTCCAAAAATT-CCATTTTACCC-C
* **
13409657 AAAC-TTCCAAAAATTCTATTTTTAACATC
1 AAACTTTCCAAAAATTCCA-TTTT-ACCCC
*
13409686 AAACTTTCC-CAAATTACCATTTTACCCCC
1 AAACTTTCCAAAAATT-CCATTTTA-CCCC
* * * *
13409715 GAA-TGTCCAAAAATTCAATTTTTGACCTC
1 AAACTTTCCAAAAATTCCA-TTTT-ACCCC
*
13409744 GAAC-TTCCTAAAAATTACCATTTT
1 AAACTTTCC-AAAAATT-CCATTTT
13409768 TCCTCGGGCA
Statistics
Matches: 382, Mismatches: 62, Indels: 82
0.73 0.12 0.16
Matches are distributed among these distances:
25 3 0.01
26 11 0.03
27 15 0.04
28 86 0.23
29 149 0.39
30 108 0.28
31 10 0.03
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.34
Consensus pattern (28 bp):
AAACTTTCCAAAAATTCCATTTTACCCC
Found at i:13419948 original size:300 final size:299
Alignment explanation
Indices: 13419379--13419976 Score: 1036
Period size: 300 Copynumber: 2.0 Consensus size: 299
13419369 TATTTCTGAA
* *
13419379 GCAAGAAATATTTGGGATGAATTAATTTTGAATTTCAATCATTTACTTGTCATTTTCCTTTTTAA
1 GCAAGAAATATCTGGGATGAATTAATTTTGAATTTCAATCATTTACTTGTCATTGTCCTTTTTAA
* * *
13419444 AACGTGATAAGTGCGACGAAAGTTTTTAACAAAAAAAATATATTATGATATTACGCTTCGCATAA
66 AACGTGATAAGTGCGACGAAAGTTTTTAACAAAAAAAAGATATTATGATATTAAGCTTCCCATAA
*
13419509 TTATTTCAACATTGTGGCATATACATATCACTACTAGAGAAATCTAGTATAGCTCATTCGAGTTG
131 TTATTTCAACATTGTGCCATATACATATCACTACTAGAGAAATCTAGTATAGCTCATTCGAGTTG
*
13419574 GAGATAAACGTGCATTTCTAACCATCGCCATGACTAGAACATATATAACTACAAAAAGTTAGAAA
196 GAGATAAACGTGCATTTCTAACCATCGCCATGACTAGAACATATACAACTACAAAAAGTTAGAAA
*
13419639 AATAGGATGACACACATAACAAATATGTGTTCTTGTAAT
261 AATAGGATGACACACATAACAAATATGTGTTCCTGTAAT
13419678 GCAAGAAATATCTGGGATGAATTAATTTTGAATTTCAATCATTTACTTGTCATTGTCCTTTTTAA
1 GCAAGAAATATCTGGGATGAATTAATTTTGAATTTCAATCATTTACTTGTCATTGTCCTTTTTAA
*
13419743 AACGTGATAAGTGCGACGAAAAGTTTTTAACAACAAAAAAGATTTTATGATATTAAGCTTCCCAT
66 AACGTGATAAGTGCGACG-AAAGTTTTTAACAA-AAAAAAGATATTATGATATTAAGCTTCCCAT
***
13419808 AATTATTTCAACATTGTGCCATATACATATCACTACTAGAGAAATCTAGTATAGCTCATT-TTTT
129 AATTATTTCAACATTGTGCCATATACATATCACTACTAGAGAAATCTAGTATAGCTCATTCGAGT
* *
13419872 TGGAGATAAACGTGCATTTTTAACCGTCGCCATGACTAGAACATATACAACTACAAAAAGTTAGA
194 TGGAGATAAACGTGCATTTCTAACCATCGCCATGACTAGAACATATACAACTACAAAAAGTTAGA
*
13419937 AAAATAGGATGACACACATAACAAATATGTTTTCCTGTAA
259 AAAATAGGATGACACACATAACAAATATGTGTTCCTGTAA
13419977 AGAAGTGCTC
Statistics
Matches: 282, Mismatches: 15, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
299 81 0.29
300 115 0.41
301 86 0.30
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (299 bp):
GCAAGAAATATCTGGGATGAATTAATTTTGAATTTCAATCATTTACTTGTCATTGTCCTTTTTAA
AACGTGATAAGTGCGACGAAAGTTTTTAACAAAAAAAAGATATTATGATATTAAGCTTCCCATAA
TTATTTCAACATTGTGCCATATACATATCACTACTAGAGAAATCTAGTATAGCTCATTCGAGTTG
GAGATAAACGTGCATTTCTAACCATCGCCATGACTAGAACATATACAACTACAAAAAGTTAGAAA
AATAGGATGACACACATAACAAATATGTGTTCCTGTAAT
Found at i:13436880 original size:11 final size:11
Alignment explanation
Indices: 13436864--13436888 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13436854 ACGACCGACG
13436864 TCGAACCTCCA
1 TCGAACCTCCA
13436875 TCGAACCTCCA
1 TCGAACCTCCA
13436886 TCG
1 TCG
13436889 CCCTCTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.44, G:0.12, T:0.20
Consensus pattern (11 bp):
TCGAACCTCCA
Found at i:13445065 original size:29 final size:29
Alignment explanation
Indices: 13444982--13445083 Score: 90
Period size: 29 Copynumber: 3.6 Consensus size: 29
13444972 NNNNNNNNNN
* *
13444982 AAAAATGG-AATTTTTGGACATTTGAGGAT
1 AAAAATGGTAATTTTTGGAAATTT-AGGGT
* *
13445011 -AAAATGGTAA--TTGGGAAAGTTCAGGGT
1 AAAAATGGTAATTTTTGGAAA-TTTAGGGT
13445038 CAAAAATGG-AATTTTTGGAAATTTAGGGGT
1 -AAAAATGGTAATTTTTGGAAATTTA-GGGT
13445068 AAAAA-GGTAATTTTTG
1 AAAAATGGTAATTTTTG
13445084 TGAAGTTCGT
Statistics
Matches: 59, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
27 10 0.17
28 13 0.22
29 25 0.42
30 11 0.19
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.32
Consensus pattern (29 bp):
AAAAATGGTAATTTTTGGAAATTTAGGGT
Found at i:13445132 original size:30 final size:30
Alignment explanation
Indices: 13445097--13445159 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
13445087 AGTTCGTGAT
13445097 AATGTAAATTTTGGAAAATTTGGGGGTCAA
1 AATGTAAATTTTGGAAAATTTGGGGGTCAA
* *
13445127 AATGTAACTTTTGGAAAGTTTGGGGGTCAA
1 AATGTAAATTTTGGAAAATTTGGGGGTCAA
13445157 AAT
1 AAT
13445160 ATGATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (30 bp):
AATGTAAATTTTGGAAAATTTGGGGGTCAA
Found at i:13447136 original size:19 final size:20
Alignment explanation
Indices: 13447094--13447139 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 20
13447084 TTTTTAAATT
*
13447094 TAAA-TTAAATTTTAAAACA
1 TAAATTTAAATTTTAAAAAA
13447113 T--ATTTAAA-TTTAAAAAA
1 TAAATTTAAATTTTAAAAAA
13447130 TAAATTTAAA
1 TAAATTTAAA
13447140 ATGGGTTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
17 10 0.43
18 5 0.22
19 8 0.35
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
TAAATTTAAATTTTAAAAAA
Found at i:13447865 original size:209 final size:209
Alignment explanation
Indices: 13447505--13447955 Score: 591
Period size: 209 Copynumber: 2.2 Consensus size: 209
13447495 CTTGTTTCAA
* *
13447505 TCCACTTCTCAGTATCTCATCAGGAAGATAACCATTTTATTGCTTTGACCTACTTCTCAATATCT
1 TCCACTTCTCAGTATCTCATCAGGAAGATAACCATTTTATTACTTCGACCTACTTCTCAATATCT
* * *
13447570 CATCAGGAAGCTAGGGTTCGAAGATTCGCTTACTTTGAGCTTGGCTTCACTGATTTGGCCTTCTT
66 CATCAAGAAGCTAGGGTTCAAAGATTCGCTCACTTTGAGCTTGGCTTCACTGATTTGGCCTTCTT
* **
13447635 CTCAGTATCTCATCAGGAAGATTACAGCATCACTTGTTTCAATCTGCTTCTCCGTATCTCATC-A
131 CTCAGTATCTCATCAGGAAGATGACAGCATCACTTGTTTCAATCCACTTCTCCGTATCTCATCAA
* *
13447699 GAAAGGC-GAATTTGG
196 G-AAGACAG-ATCTGG
* *
13447714 TCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCAATATCT
1 TCCACTTCTCAGTATCTCATCAGGAAGATAACCATTTTATTACTTCGACCTACTTCTCAATATCT
* * * * *
13447779 CATCAAGAAGTTGGGGTTCAAAGATTTGCTCATTTTGAGCTTGGCTTCATTGATTTGGCCTTCTT
66 CATCAAGAAGCTAGGGTTCAAAGATTCGCTCACTTTGAGCTTGGCTTCACTGATTTGGCCTTCTT
* * * * * * * ** * *
13447844 CTTAGTATCTTATTAGGAAGATGGCCGCTTCGCTTGTTTTGATCCACTTCTCTGTGTCTCATCAA
131 CTCAGTATCTCATCAGGAAGATGACAGCATCACTTGTTTCAATCCACTTCTCCGTATCTCATCAA
13447909 GAAGACAGATCTGG
196 GAAGACAGATCTGG
* * *
13447923 TTCACTTCTCTGTATCTCATCAGGAAGGTAACC
1 TCCACTTCTCAGTATCTCATCAGGAAGATAACC
13447956 GCTTTATATT
Statistics
Matches: 209, Mismatches: 31, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
209 206 0.99
210 3 0.01
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.36
Consensus pattern (209 bp):
TCCACTTCTCAGTATCTCATCAGGAAGATAACCATTTTATTACTTCGACCTACTTCTCAATATCT
CATCAAGAAGCTAGGGTTCAAAGATTCGCTCACTTTGAGCTTGGCTTCACTGATTTGGCCTTCTT
CTCAGTATCTCATCAGGAAGATGACAGCATCACTTGTTTCAATCCACTTCTCCGTATCTCATCAA
GAAGACAGATCTGG
Found at i:13456179 original size:23 final size:23
Alignment explanation
Indices: 13456095--13456190 Score: 104
Period size: 23 Copynumber: 4.2 Consensus size: 23
13456085 TAGAATTATT
*
13456095 ATGCGAAAATATGCAAATATGCT-
1 ATGCGAAAAAATGCAAATATG-TA
** *
13456118 ATGCGAAAATGTGCAAATATGCA
1 ATGCGAAAAAATGCAAATATGTA
**
13456141 ATGCGAAAAAATGCATGTATGTA
1 ATGCGAAAAAATGCAAATATGTA
**
13456164 ATGCGAAAAAATGCATGTATGTA
1 ATGCGAAAAAATGCAAATATGTA
13456187 ATGC
1 ATGC
13456191 TATCACGAGT
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
23 65 1.00
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.25
Consensus pattern (23 bp):
ATGCGAAAAAATGCAAATATGTA
Found at i:13475568 original size:29 final size:28
Alignment explanation
Indices: 13475537--13475637 Score: 96
Period size: 30 Copynumber: 3.4 Consensus size: 28
13475527 TTCGGGGGGT
*
13475537 AAAATGGTAATTTGGGAAAGTTTGAGGTTA
1 AAAATGG-AATTTAGGAAAGTTTGAGG-TA
* *
13475567 AAAATAGAATTATTGG-AAGTTTGAGGGTA
1 AAAATGGAATT-TAGGAAAGTTTGA-GGTA
* *
13475596 AAAATGGTAATTTTAGGAAAATTTGGGGTA
1 AAAATGG-AA-TTTAGGAAAGTTTGAGGTA
13475626 AAAATGGAATTT
1 AAAATGGAATTT
13475638 TTGGATGTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
28 3 0.05
29 22 0.37
30 27 0.45
31 8 0.13
ACGTcount: A:0.41, C:0.00, G:0.27, T:0.33
Consensus pattern (28 bp):
AAAATGGAATTTAGGAAAGTTTGAGGTA
Found at i:13475570 original size:59 final size:60
Alignment explanation
Indices: 13475476--13475642 Score: 182
Period size: 59 Copynumber: 2.8 Consensus size: 60
13475466 ATGCCCCAGG
* * * *
13475476 AAAAATGGTAATTTTTAGG-AAGTTGGAGGTCAAAAATTGAATTTTTGGACA-TTCGGGGGGT
1 AAAAATGGTAA-TTTTAGGAAAGTTTGAGGTTAAAAATAGAATTTTTGGA-AGTT-GGAGGGT
* * *
13475537 -AAAATGGTAA-TTTGGGAAAGTTTGAGGTTAAAAATAGAATTATTGGAAGTTTGAGGGT
1 AAAAATGGTAATTTTAGGAAAGTTTGAGGTTAAAAATAGAATTTTTGGAAGTTGGAGGGT
* * *
13475595 AAAAATGGTAATTTTAGGAAAATTTG-GGGTAAAAATGGAATTTTTGGA
1 AAAAATGGTAATTTTAGGAAAGTTTGAGGTTAAAAATAGAATTTTTGGA
13475643 TGTTTGGGGT
Statistics
Matches: 90, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
58 11 0.12
59 57 0.63
60 22 0.24
ACGTcount: A:0.37, C:0.02, G:0.28, T:0.33
Consensus pattern (60 bp):
AAAAATGGTAATTTTAGGAAAGTTTGAGGTTAAAAATAGAATTTTTGGAAGTTGGAGGGT
Found at i:13475638 original size:29 final size:30
Alignment explanation
Indices: 13475533--13475638 Score: 123
Period size: 29 Copynumber: 3.6 Consensus size: 30
13475523 GACATTCGGG
*
13475533 GGGT-AAAATGGTAATTTGGGAAAGTTTGA
1 GGGTAAAAATGGTAATTTTGGAAAGTTTGA
* *
13475562 GGTTAAAAATAG-AATTATTGG-AAGTTTGA
1 GGGTAAAAATGGTAATT-TTGGAAAGTTTGA
*
13475591 GGGTAAAAATGGTAATTTTAGGAAAATTTG-
1 GGGTAAAAATGGTAATTTT-GGAAAGTTTGA
13475621 GGGTAAAAATGG-AATTTT
1 GGGTAAAAATGGTAATTTT
13475639 TGGATGTTTG
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
29 33 0.50
30 27 0.41
31 6 0.09
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (30 bp):
GGGTAAAAATGGTAATTTTGGAAAGTTTGA
Found at i:13476188 original size:22 final size:22
Alignment explanation
Indices: 13476163--13476210 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
13476153 AGTTTCAGCC
13476163 ACAAAACGACGTCGTTTTGATT
1 ACAAAACGACGTCGTTTTGATT
**
13476185 ACAACCCGACGTCGTTTTGATT
1 ACAAAACGACGTCGTTTTGATT
13476207 ACAA
1 ACAA
13476211 CCCGACCCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (22 bp):
ACAAAACGACGTCGTTTTGATT
Found at i:13476211 original size:22 final size:22
Alignment explanation
Indices: 13476169--13476216 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
13476159 AGCCACAAAA
13476169 CGACGTCGTTTTGATTACAACC
1 CGACGTCGTTTTGATTACAACC
13476191 CGACGTCGTTTTGATTACAACC
1 CGACGTCGTTTTGATTACAACC
13476213 CGAC
1 CGAC
13476217 CCGATCAGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (22 bp):
CGACGTCGTTTTGATTACAACC
Found at i:13476736 original size:29 final size:28
Alignment explanation
Indices: 13476604--13477014 Score: 180
Period size: 30 Copynumber: 14.1 Consensus size: 28
13476594 CCCAAAAGGT
* * *
13476604 CCCTAAACTATCCAAAAATCA-TATTTTGA
1 CCCTAAA-TTTCCAAAAATTACCATTTT-A
*
13476633 CCCTCAAACTTTCCAAAAGTTA-CATTTTAA
1 CCCT-AAA-TTTCCAAAAATTACCATTTT-A
* *
13476663 CCCTCAAACTTTCCAAAATTTA-CATTAT-
1 CCCT-AAA-TTTCCAAAAATTACCATTTTA
* * *
13476691 CAC-GAACTTCACAAAAATTACCATTTTA
1 CCCTAAATTTC-CAAAAATTACCATTTTA
13476719 CCCCTAAATTTCCAAAAATT-CCATTTTTGA
1 -CCCTAAATTTCCAAAAATTACCA-TTTT-A
* * * *
13476749 CCTTGAACTGTCCCAAAATTACCATTTTA
1 CCCT-AAATTTCCAAAAATTACCATTTTA
* ** *
13476778 TCCTCGATTGTCCAAAAAAT-CCATTTTTGA
1 CCCTAAATT-TCCAAAAATTACCA-TTTT-A
* * *
13476808 CTCTGAACTTCCAAAAAAATTACCATTTTA
1 CCCTAAATTTCC--AAAAATTACCATTTTA
*
13476838 CCCCTAAACTTCCAAAAATT-CCATTTTTAA
1 -CCCTAAATTTCCAAAAATTACCA-TTTT-A
* * *
13476868 CCCTGAACTTTCCCAAAATCACCATTTTA
1 CCCT-AAATTTCCAAAAATTACCATTTTA
** *
13476897 CCCCCAATCATCC-AAAATT-CCATTTTTA
1 CCCTAAAT-TTCCAAAAATTACCA-TTTTA
*
13476925 CCC-AAATTTTCCTAAAATTACCATTTTA
1 CCCTAAA-TTTCCAAAAATTACCATTTTA
* * **
13476953 CCCTCAAACTTCCAATAATT-TTATTTTTA
1 CCCT-AAATTTCCAAAAATTACCA-TTTTA
* *
13476982 ACCTCAAACTTTCCCAAAATTACCATTTTA
1 CCCT-AAA-TTTCCAAAAATTACCATTTTA
13477012 CCC
1 CCC
13477015 CCGAATGTCC
Statistics
Matches: 293, Mismatches: 58, Indels: 61
0.71 0.14 0.15
Matches are distributed among these distances:
25 3 0.01
26 10 0.03
27 13 0.04
28 43 0.15
29 85 0.29
30 109 0.37
31 27 0.09
32 3 0.01
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.34
Consensus pattern (28 bp):
CCCTAAATTTCCAAAAATTACCATTTTA
Found at i:13476767 original size:59 final size:59
Alignment explanation
Indices: 13476604--13477070 Score: 342
Period size: 59 Copynumber: 8.0 Consensus size: 59
13476594 CCCAAAAGGT
* * *
13476604 CCCTAAACTATCCAAAAA-T-CATATTTTGACCCTCAAACTTT-CCAAAAGTTA-CATTTTAA
1 CCCTAAA-TTTCCAAAAATTCCAT-TTTTGA-CCTCGAACTTTCCCAAAA-TTACCATTTTAC
* * * * *
13476663 CCCTCAAACTTTCCAAAATTTACA---TT-ATCACGAAC-TTCACAAAAATTACCATTTTAC
1 CCCT-AAA-TTTCCAAAAATTCCATTTTTGACCTCGAACTTTC-CCAAAATTACCATTTTAC
* *
13476720 CCCTAAATTTCCAAAAATTCCATTTTTGACCTTGAACTGTCCCAAAATTACCATTTTA-
1 CCCTAAATTTCCAAAAATTCCATTTTTGACCTCGAACTTTCCCAAAATTACCATTTTAC
* ** * *
13476778 TCCTCGATTGTCCAAAAAATCCATTTTTGA-CTCTGAAC-TTCCAAAAAAATTACCATTTTAC
1 CCCTAAATT-TCCAAAAATTCCATTTTTGACCTC-GAACTTTCC--CAAAATTACCATTTTAC
* * *
13476839 CCCTAAACTTCCAAAAATTCCATTTTTAACC-CTGAACTTTCCCAAAATCACCATTTTAC
1 CCCTAAATTTCCAAAAATTCCATTTTTGACCTC-GAACTTTCCCAAAATTACCATTTTAC
* * * * *
13476898 CCC-CAATCATCC-AAAATTCCATTTTT-ACC-CAAATTTTCCTAAAATTACCATTTTA-
1 CCCTAAAT-TTCCAAAAATTCCATTTTTGACCTCGAACTTTCCCAAAATTACCATTTTAC
* * ** * *
13476953 CCCTCAAACTTCCAATAATTTTATTTTTAACCTCAAACTTTCCCAAAATTACCATTTTAC
1 CCCT-AAATTTCCAAAAATTCCATTTTTGACCTCGAACTTTCCCAAAATTACCATTTTAC
** * * * *
13477013 CCCCGAATGTCCAAAAAATTCAATTTTTGACCTCCAAC-TTCCTAAGAATTACCATTTT
1 CCCTAAATTTCC-AAAAATTCCATTTTTGACCTCGAACTTTCCCAA-AATTACCATTTT
13477071 TCCTGGGGCA
Statistics
Matches: 327, Mismatches: 54, Indels: 53
0.75 0.12 0.12
Matches are distributed among these distances:
55 18 0.06
56 35 0.11
57 34 0.10
58 34 0.10
59 105 0.32
60 88 0.27
61 11 0.03
62 2 0.01
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.34
Consensus pattern (59 bp):
CCCTAAATTTCCAAAAATTCCATTTTTGACCTCGAACTTTCCCAAAATTACCATTTTAC
Found at i:13476922 original size:27 final size:27
Alignment explanation
Indices: 13476823--13476960 Score: 75
Period size: 28 Copynumber: 4.8 Consensus size: 27
13476813 AACTTCCAAA
*
13476823 AAAATTACCATTTTACCCCTAAA-CTTCC
1 AAAATT-CCATTTTACCCC-AAATCATCC
** *
13476851 AAAAATTCCATTTTTAACCCTGAA-CTTTCCC
1 -AAAATTCCA-TTTT-ACCCCAAATC-AT-CC
* *
13476882 AAAATCACCATTTTACCCCCAATCATCC
1 AAAAT-TCCATTTTACCCCAAATCATCC
**
13476910 AAAATTCCATTTTTA-CCCAAATTTTCC
1 AAAATTCCA-TTTTACCCCAAATCATCC
13476937 TAAAATTACCATTTTACCCTCAAA
1 -AAAATT-CCATTTTACCC-CAAA
13476961 CTTCCAATAA
Statistics
Matches: 88, Mismatches: 10, Indels: 21
0.74 0.08 0.18
Matches are distributed among these distances:
27 12 0.14
28 26 0.30
29 25 0.28
30 20 0.23
31 5 0.06
ACGTcount: A:0.36, C:0.30, G:0.01, T:0.33
Consensus pattern (27 bp):
AAAATTCCATTTTACCCCAAATCATCC
Found at i:13485605 original size:30 final size:29
Alignment explanation
Indices: 13485560--13485938 Score: 149
Period size: 29 Copynumber: 12.8 Consensus size: 29
13485550 ATGCCCGAGG
* *
13485560 AAAAATGATAATTTTTAGGAAGTTCGAGGTT
1 AAAAAT-AGAATTTTT-GGAAGTTCGAGGGT
* *
13485591 AAAAATTGAATTTTTGGACA-TTCGGGGGT
1 AAAAATAGAATTTTTGGA-AGTTCGAGGGT
* * * * *
13485620 -AAAATGGTAATTTTACGAAAGTTTGAGGTT
1 AAAAATAG-AATTTT-TGGAAGTTCGAGGGT
*
13485650 AAAAATAGAATTTTTGGAAGTTTGAGGGT
1 AAAAATAGAATTTTTGGAAGTTCGAGGGT
* * *
13485679 -AAAATAGTAATTTTAGGAAAATTTG-GGGT
1 AAAAATAG-AATTTTTGG-AAGTTCGAGGGT
* * * *
13485708 AAAAATGGAATTTTTGGATGTTTGGGGGT
1 AAAAATAGAATTTTTGGAAGTTCGAGGGT
* * * *
13485737 -AAAATGGTAACTTTGGGAATGTT-TAGGGTT
1 AAAAATAG-AATTTTTGGAA-GTTCGAGGG-T
* *
13485767 AAAAATGGAATTTTTGGAAGTT-TAGGGGT
1 AAAAATAGAATTTTTGGAAGTTCGA-GGGT
* *
13485796 -AAAATAGTAATTTTGGGAAAGTTTG-GGGTT
1 AAAAATAG-AATTTTTGG-AAGTTCGAGGG-T
* ** *
13485826 AAAAATGGAATTTTTGGACA-TTTAAGGAT
1 AAAAATAGAATTTTTGGA-AGTTCGAGGGT
* *
13485855 -AAAATGGTAATTTTGGGAAAGTTC-AGGGT
1 AAAAATAG-AATTTTTGG-AAGTTCGAGGGT
* *
13485884 CAAAAAT-GAAATTTTTGGAAATT-TAGGGGT
1 -AAAAATAG-AATTTTTGGAAGTTCGA-GGGT
*
13485914 -AAAATGGTAATTTTTGTGAAGTTCG
1 AAAAATAG-AATTTTTG-GAAGTTCG
13485939 TGATAATGTA
Statistics
Matches: 274, Mismatches: 43, Indels: 62
0.72 0.11 0.16
Matches are distributed among these distances:
28 43 0.16
29 113 0.41
30 88 0.32
31 30 0.11
ACGTcount: A:0.35, C:0.02, G:0.27, T:0.35
Consensus pattern (29 bp):
AAAAATAGAATTTTTGGAAGTTCGAGGGT
Found at i:13485631 original size:59 final size:57
Alignment explanation
Indices: 13485561--13485938 Score: 350
Period size: 59 Copynumber: 6.4 Consensus size: 57
13485551 TGCCCGAGGA
* * **
13485561 AAAATGATAATTTTTAGGAAGTTCGAGGTTAAAAATTGAATTTTTGGACATTCGGGGGT
1 AAAATGGTAA-TTTTAGGAAGTTCGAGGTTAAAAATGGAATTTTTGGA-ATTTAGGGGT
* * *
13485620 AAAATGGTAATTTTACGAAAGTTTGAGGTTAAAAATAGAATTTTTGGAAGTTT-GAGGGT
1 AAAATGGTAATTTTA-GGAAGTTCGAGGTTAAAAATGGAATTTTTGGAA-TTTAG-GGGT
* * * * * *
13485679 AAAATAGTAATTTTAGGAAAATTTG-GGGTAAAAATGGAATTTTTGGATGTTTGGGGGT
1 AAAATGGTAATTTTAGG-AAGTTCGAGGTTAAAAATGGAATTTTTGGA-ATTTAGGGGT
* * *
13485737 AAAATGGTAACTTTGGGAATGTT-TAGGGTTAAAAATGGAATTTTTGGAAGTTTAGGGGT
1 AAAATGGTAATTTTAGGAA-GTTCGA-GGTTAAAAATGGAATTTTTGGAA-TTTAGGGGT
* * * * * *
13485796 AAAATAGTAATTTTGGGAAAGTTTGGGGTTAAAAATGGAATTTTTGGACATTTAAGGAT
1 AAAATGGTAATTTTAGG-AAGTTCGAGGTTAAAAATGGAATTTTTGGA-ATTTAGGGGT
* * *
13485855 AAAATGGTAATTTTGGGAAAGTTC-AGGGTCAAAAATGAAATTTTTGGAAATTTAGGGGT
1 AAAATGGTAATTTTAGG-AAGTTCGA-GGTTAAAAATGGAATTTTTGG-AATTTAGGGGT
*
13485914 AAAATGGTAATTTTTGTGAAGTTCG
1 AAAATGGTAATTTTAG-GAAGTTCG
13485939 TGATAATGTA
Statistics
Matches: 269, Mismatches: 33, Indels: 33
0.80 0.10 0.10
Matches are distributed among these distances:
57 2 0.01
58 51 0.19
59 211 0.78
60 5 0.02
ACGTcount: A:0.35, C:0.02, G:0.27, T:0.35
Consensus pattern (57 bp):
AAAATGGTAATTTTAGGAAGTTCGAGGTTAAAAATGGAATTTTTGGAATTTAGGGGT
Found at i:13485697 original size:117 final size:116
Alignment explanation
Indices: 13485572--13486024 Score: 458
Period size: 117 Copynumber: 3.9 Consensus size: 116
13485562 AAATGATAAT
* * **
13485572 TTTTAGG-AAGTTCGAGGTTAAAAATTGAATTTTTGGACATTCGGGGGTAAAATGGTAATTTTAC
1 TTTTAGGAAAGTTCG-GGTTAAAAATGGAATTTTTGGACATTTGGGGGTAAAATGGTAATTTTGG
13485636 GAAAGTTT-GAGGTTAAAAATAGAATTTTTGGAAGTTT-GAGGGTAAAATAGTAA
65 GAAAGTTTAG-GGTTAAAAAT-GAATTTTTGGAAGTTTAG-GGGTAAAATAGTAA
* * * ** *
13485689 TTTTAGGAAAATTTGGGGTAAAAATGGAATTTTTGGATGTTTGGGGGTAAAATGGTAACTTTGGG
1 TTTTAGGAAAGTTCGGGTTAAAAATGGAATTTTTGGACATTTGGGGGTAAAATGGTAATTTTGGG
*
13485754 AATGTTTAGGGTTAAAAATGGAATTTTTGGAAGTTTAGGGGTAAAATAGTAA
66 AAAGTTTAGGGTTAAAAAT-GAATTTTTGGAAGTTTAGGGGTAAAATAGTAA
* * ** *
13485806 TTTTGGGAAAGTTTGGGGTTAAAAATGGAATTTTTGGACATTTAAGGATAAAATGGTAATTTTGG
1 TTTTAGGAAAG-TTCGGGTTAAAAATGGAATTTTTGGACATTTGGGGGTAAAATGGTAATTTTGG
* * * *
13485871 GAAAGTTCAGGGTCAAAAATGAAATTTTTGGAAATTTAGGGGTAAAATGGTAA
65 GAAAGTTTAGGGTTAAAAATG-AATTTTTGGAAGTTTAGGGGTAAAATAGTAA
* * * * * *
13485924 TTTTTGTG-AAGTTC--G-TGATAATGTAAATTTTGGAAAATTTGGGGGTCAAAAT-GTAAGTTT
1 TTTTAG-GAAAGTTCGGGTTAAAAATGGAATTTTTGG-ACATTTGGGGGT-AAAATGGTAA-TTT
* *
13485984 T-GGAAAGTTTGGGGGTCAAAATATG-ATTTTTGGATAGTTTA
62 TGGGAAAGTTT-AGGGTTAAAA-ATGAATTTTTGGA-AGTTTA
13486025 ATGACCTTTT
Statistics
Matches: 284, Mismatches: 40, Indels: 25
0.81 0.11 0.07
Matches are distributed among these distances:
114 14 0.05
115 30 0.11
116 23 0.08
117 110 0.39
118 106 0.37
119 1 0.00
ACGTcount: A:0.34, C:0.02, G:0.27, T:0.36
Consensus pattern (116 bp):
TTTTAGGAAAGTTCGGGTTAAAAATGGAATTTTTGGACATTTGGGGGTAAAATGGTAATTTTGGG
AAAGTTTAGGGTTAAAAATGAATTTTTGGAAGTTTAGGGGTAAAATAGTAA
Found at i:13485823 original size:29 final size:30
Alignment explanation
Indices: 13485615--13486024 Score: 243
Period size: 30 Copynumber: 14.0 Consensus size: 30
13485605 TGGACATTCG
* **
13485615 GGGGTAAAATGGTAATTTTACGAAAGTTT-
1 GGGGTAAAATAGTAATTTTTGGAAAGTTTA
*
13485644 GAGGTTAAAAATAG-AATTTTTGG-AAGTTT-
1 G-GGGT-AAAATAGTAATTTTTGGAAAGTTTA
* *
13485673 GAGGGTAAAATAGTAATTTTAGGAAAATTT-
1 G-GGGTAAAATAGTAATTTTTGGAAAGTTTA
* * *
13485703 GGGGTAAAA-ATGGAATTTTTGG-ATGTTTG
1 GGGGTAAAATA-GTAATTTTTGGAAAGTTTA
* * * *
13485732 GGGGTAAAATGGTAACTTTGGGAATGTTTA
1 GGGGTAAAATAGTAATTTTTGGAAAGTTTA
* *
13485762 GGGTTAAAA-ATGGAATTTTTGG-AAGTTTA
1 GGGGTAAAATA-GTAATTTTTGGAAAGTTTA
*
13485791 GGGGTAAAATAGTAATTTTGGGAAAGTTT-
1 GGGGTAAAATAGTAATTTTTGGAAAGTTTA
* *
13485820 GGGGTTAAAA-ATGGAATTTTTGGACA-TTTA
1 GGGG-TAAAATA-GTAATTTTTGGAAAGTTTA
* * * * *
13485850 AGGATAAAATGGTAATTTTGGGAAAGTTCA
1 GGGGTAAAATAGTAATTTTTGGAAAGTTTA
*
13485880 -GGGTCAAAA-ATGAAATTTTTGGAAA-TTTA
1 GGGGT-AAAATA-GTAATTTTTGGAAAGTTTA
*
13485909 GGGGTAAAATGGTAATTTTTGTG-AAG-TT-
1 GGGGTAAAATAGTAATTTTTG-GAAAGTTTA
* * * * * *
13485937 CGTG-ATAAT-GTAAATTTTGGAAAATTTG
1 GGGGTAAAATAGTAATTTTTGGAAAGTTTA
* *
13485965 GGGGTCAAAAT-GTAAGTTTTGGAAAGTTTG
1 GGGGT-AAAATAGTAATTTTTGGAAAGTTTA
* *
13485995 GGGGTCAAAATA-TGATTTTTGGATAGTTTA
1 GGGGT-AAAATAGTAATTTTTGGAAAGTTTA
13486025 ATGACCTTTT
Statistics
Matches: 297, Mismatches: 56, Indels: 55
0.73 0.14 0.13
Matches are distributed among these distances:
25 1 0.00
26 11 0.04
27 6 0.02
28 16 0.05
29 124 0.42
30 133 0.45
31 6 0.02
ACGTcount: A:0.34, C:0.02, G:0.28, T:0.36
Consensus pattern (30 bp):
GGGGTAAAATAGTAATTTTTGGAAAGTTTA
Found at i:13485992 original size:56 final size:55
Alignment explanation
Indices: 13485770--13485985 Score: 143
Period size: 59 Copynumber: 3.8 Consensus size: 55
13485760 TAGGGTTAAA
* * * * * * *
13485770 AATGGAATTTTTGGAAGTTTAGGGGTAAAATAGTAA-TTTTGGGAAAGTTTGGGGTTAAA
1 AATGAAATTTTTGGAAATTTAGGGGTAAAATGGTAAGTTTTGTG-AAG-TT--CG-TGAT
* * * * * * *
13485829 AATGGAATTTTTGGACATTTAAGGATAAAATGGTAA-TTTTGGGAAAGTTCAGGGTCAAA
1 AATGAAATTTTTGGAAATTTAGGGGTAAAATGGTAAGTTTTGTG-AAGTTC---GT-GAT
*
13485888 AATGAAATTTTTGGAAATTTAGGGGTAAAATGGTAATTTTTGTGAAGTTCGTGAT
1 AATGAAATTTTTGGAAATTTAGGGGTAAAATGGTAAGTTTTGTGAAGTTCGTGAT
*
13485943 AATGTAAA-TTTTGGAAAATTTGGGGGTCAAAAT-GTAAGTTTTG
1 AATG-AAATTTTTGG-AAATTTAGGGGT-AAAATGGTAAGTTTTG
13485986 GAAAGTTTGG
Statistics
Matches: 134, Mismatches: 15, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
55 11 0.08
56 25 0.19
57 5 0.04
58 3 0.02
59 84 0.63
60 6 0.04
ACGTcount: A:0.35, C:0.02, G:0.27, T:0.36
Consensus pattern (55 bp):
AATGAAATTTTTGGAAATTTAGGGGTAAAATGGTAAGTTTTGTGAAGTTCGTGAT
Found at i:13487973 original size:18 final size:18
Alignment explanation
Indices: 13487948--13487992 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
13487938 TTTTAAATAT
*
13487948 AAATTTAAATTTTAAAAC
1 AAATTTAAATTTAAAAAC
* *
13487966 ATATTTAAATTTAAAAAT
1 AAATTTAAATTTAAAAAC
13487984 AAATTTAAA
1 AAATTTAAA
13487993 ATGGGTTTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATTTAAATTTAAAAAC
Found at i:13488713 original size:209 final size:209
Alignment explanation
Indices: 13488353--13488803 Score: 600
Period size: 209 Copynumber: 2.2 Consensus size: 209
13488343 CTTGTTTCAA
* *
13488353 TCCACTTCTCAGTATCTCATCAGGAAGATAACCATTTTATTGCTTTGACCTACTTCTCAATATCT
1 TCCACTTCTCAGTATCTCATCAGGAAGATAACCATTTTATTACTTCGACCTACTTCTCAATATCT
* * *
13488418 CATCAGGAAGCTAGGGTTCGAAGATTCGCTTACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTT
66 CATCAAGAAGCTAGGGTTCAAAGATTCGCTCACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTT
* **
13488483 CTCAGTATCTCATCAGGAAGATTACAGCATCACTTGTTTCAATCTGCTTCTCCGTATCTCATC-A
131 CTCAGTATCTCATCAGGAAGATGACAGCATCACTTGTTTCAATCCACTTCTCCGTATCTCATCAA
* * *
13488547 GAAAGGCGAATTTGG
196 G-AAGACAAATCTGG
* *
13488562 TCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCAATATCT
1 TCCACTTCTCAGTATCTCATCAGGAAGATAACCATTTTATTACTTCGACCTACTTCTCAATATCT
* * * *
13488627 CATCAAGAAGTTGGGGTTCAAAGATTTGCTCATTTTGAGCTTGGCTTCATTGATTTGGCCTTCTT
66 CATCAAGAAGCTAGGGTTCAAAGATTCGCTCACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTT
* * * * * * * ** * *
13488692 CTTAGTATCTTATTAGGAAGATGGCCGCTTCGCTTGTTTTGATCCACTTCTCTGTGTCTCATCAA
131 CTCAGTATCTCATCAGGAAGATGACAGCATCACTTGTTTCAATCCACTTCTCCGTATCTCATCAA
13488757 GAAGACAAATCTGG
196 GAAGACAAATCTGG
* *
13488771 TTCACTTCTCTA-TATCTCATCAGGAAGGTAACC
1 TCCACTTCTC-AGTATCTCATCAGGAAGATAACC
13488804 GCTTTATATT
Statistics
Matches: 210, Mismatches: 30, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
209 207 0.99
210 3 0.01
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (209 bp):
TCCACTTCTCAGTATCTCATCAGGAAGATAACCATTTTATTACTTCGACCTACTTCTCAATATCT
CATCAAGAAGCTAGGGTTCAAAGATTCGCTCACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTT
CTCAGTATCTCATCAGGAAGATGACAGCATCACTTGTTTCAATCCACTTCTCCGTATCTCATCAA
GAAGACAAATCTGG
Found at i:13496951 original size:23 final size:23
Alignment explanation
Indices: 13496925--13496986 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
13496915 TTAGAATTAT
*
13496925 TATGCGAAAATATGCAAATATTC
1 TATGCGAAAATATGCAAATATGC
*
13496948 TATGCGAAAATGTGCAAATATGC
1 TATGCGAAAATATGCAAATATGC
* *
13496971 AATGCGAAAAAATGCA
1 TATGCGAAAATATGCA
13496987 TGCATGTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.24
Consensus pattern (23 bp):
TATGCGAAAATATGCAAATATGC
Found at i:13508952 original size:23 final size:23
Alignment explanation
Indices: 13508925--13508980 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
13508915 CATGGCATAT
* *
13508925 TTTTCGCATTGCATATTTGCACA
1 TTTTCGCATAGAATATTTGCACA
*
13508948 TTTTCGCATAGAATATTTGCATA
1 TTTTCGCATAGAATATTTGCACA
13508971 TTTTCGCATA
1 TTTTCGCATA
13508981 ATAATTCTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.45
Consensus pattern (23 bp):
TTTTCGCATAGAATATTTGCACA
Found at i:13517529 original size:209 final size:208
Alignment explanation
Indices: 13517086--13517535 Score: 589
Period size: 208 Copynumber: 2.2 Consensus size: 208
13517076 AATATAAAGC
* * * *
13517086 GGTTACCTTCCTGATGAGATA-TAGAGAAGTGAACCAGATTTGTCTTCTTGATGAGACACAGAGA
1 GGTTACCTTCCTGATGAGATACT-GAGAAGTGGACCAAATTCGCCTTCTTGATGAGACACAGAGA
** *
13517150 AGTGGATCAAAACAAGCGAAGCGGCCATCTTCCTAATAAGATACTAAGAAGAAGGCCAAATCAAT
65 AGCAGATCAAAACAAGCGAAGCGGCAATCTTCCTAATAAGATACTAAGAAGAAGGCCAAATCAAT
* * *
13517215 GAAGCAAGCTCAAAATGAGCAAATCTTTGAACCCCAACTTCTTGATGAGATATTGAGAAGCAGGT
130 GAAGCAAGCTCAAAATAAGCAAATCTTCGAACCCCAACTTCCTGATGAGATATTGAGAAGCAGGT
* *
13517280 CGAAGTAATAAAAT
195 CAAAGCAATAAAAT
* * *
13517294 GGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGCCTT-TCTGATGAGATACGGAGA
1 GGTTACCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGCCTTCT-TGATGAGACACAGAGA
** * * * * * * *
13517358 AGCAGATTGAAACAAGTGATGCTGTAATCTTCCTGATGAGATACTGAGAAGAAGGCCAAATCAAT
65 AGCAGATCAAAACAAGCGAAGCGGCAATCTTCCTAATAAGATACTAAGAAGAAGGCCAAATCAAT
* * * * *
13517423 GAAGCCAAGCTCAAAGTAAGCGAATCTTCGAACCCTAGCTTCCTGATGAGATATTGAGAAGTAGG
130 GAAG-CAAGCTCAAAATAAGCAAATCTTCGAACCCCAACTTCCTGATGAGATATTGAGAAGCAGG
13517488 TCAAAGCAATAAAAT
194 TCAAAGCAATAAAAT
*
13517503 GGTTATCTTCCTGATGAGATACTGAGAAGTGGA
1 GGTTACCTTCCTGATGAGATACTGAGAAGTGGA
13517536 TTGAAACAAG
Statistics
Matches: 209, Mismatches: 30, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
207 1 0.00
208 110 0.53
209 98 0.47
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (208 bp):
GGTTACCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGCCTTCTTGATGAGACACAGAGAA
GCAGATCAAAACAAGCGAAGCGGCAATCTTCCTAATAAGATACTAAGAAGAAGGCCAAATCAATG
AAGCAAGCTCAAAATAAGCAAATCTTCGAACCCCAACTTCCTGATGAGATATTGAGAAGCAGGTC
AAAGCAATAAAAT
Found at i:13519902 original size:30 final size:30
Alignment explanation
Indices: 13519862--13520225 Score: 140
Period size: 30 Copynumber: 12.5 Consensus size: 30
13519852 AAAGGTCATT
* *
13519862 AAACTATCCAAAAATCATATTTTGACCCCC
1 AAACTTTCCAAAAATCACATTTTGACCCCC
* *
13519892 AAACTTTCCAAAACTTACATTTTGACCCCC
1 AAACTTTCCAAAAATCACATTTTGACCCCC
* * * * *
13519922 AAATTTTCCAAAATTTACA--TT-A-TCAC
1 AAACTTTCCAAAAATCACATTTTGACCCCC
* * *
13519948 GAAC-TTCACAAAAATTACCATTTT-ACCCCT
1 AAACTTTC-CAAAAATCA-CATTTTGACCCCC
** *
13519978 AAA-TTTCCAAAAATTTCATTTTTGA-CCCT
1 AAACTTTCCAAAAATCACA-TTTTGACCCCC
* * * * **
13520007 GAACTTTCCCAAAATTACCATTTT-ATCCTT
1 AAACTTTCCAAAAATCA-CATTTTGACCCCC
* * *
13520037 AAA-TGTCCAAAAATTC-CATTTTTAACCCC
1 AAACTTTCCAAAAA-TCACATTTTGACCCCC
* * *
13520066 AAACTTTCCCAAAATTACTATTTT-ACCCCT
1 AAACTTTCCAAAAATCAC-ATTTTGACCCCC
* * *
13520096 AAAC-TTCCAAAAATTC-CATTTTTAACCCT
1 AAACTTTCCAAAAA-TCACATTTTGACCCCC
* * * *
13520125 AAACATTCCCAAAGTTACCATTTT-ACCCCC
1 AAACTTTCCAAAAATCA-CATTTTGACCCCC
*
13520155 AAAC-ATCCAAAAATTC-CATTTT-A-CCCC
1 AAACTTTCCAAAAA-TCACATTTTGACCCCC
* * * *
13520182 AAATTTTCCTAAAATTACTATTTT-ACCCTC
1 AAACTTTCCAAAAATCAC-ATTTTGACCCCC
13520212 AAAC-TTCCAAAAAT
1 AAACTTTCCAAAAAT
13520226 TCTATTTTTA
Statistics
Matches: 257, Mismatches: 51, Indels: 53
0.71 0.14 0.15
Matches are distributed among these distances:
25 3 0.01
26 12 0.05
27 11 0.04
28 30 0.12
29 77 0.30
30 111 0.43
31 13 0.05
ACGTcount: A:0.37, C:0.28, G:0.02, T:0.33
Consensus pattern (30 bp):
AAACTTTCCAAAAATCACATTTTGACCCCC
Found at i:13519990 original size:29 final size:29
Alignment explanation
Indices: 13519880--13520285 Score: 239
Period size: 29 Copynumber: 13.9 Consensus size: 29
13519870 CAAAAATCAT
* *
13519880 ATTTTGACCCCCAAACTTTCCAAAACTTA-C
1 ATTTT-ACCCCTAAA-TTTCCAAAAATTACC
* *
13519910 ATTTTGACCCCCAAATTTTCCAAAATTTA-C
1 ATTTT-ACCCCTAAA-TTTCCAAAAATTACC
* * * *
13519940 A--TTATCAC-GAACTTCACAAAAATTACC
1 ATTTTACCCCTAAATTTC-CAAAAATTACC
*
13519967 ATTTTACCCCTAAATTTCCAAAAATT-TC
1 ATTTTACCCCTAAATTTCCAAAAATTACC
* *
13519995 ATTTTTGA-CCCTGAACTTTCCCAAAATTACC
1 A-TTTT-ACCCCT-AAATTTCCAAAAATTACC
* * *
13520026 ATTTTATCCTTAAATGTCCAAAAATT-CC
1 ATTTTACCCCTAAATTTCCAAAAATTACC
* *
13520054 ATTTTTAACCCC-AAACTTTCCCAAAATTACT
1 A-TTTT-ACCCCTAAA-TTTCCAAAAATTACC
*
13520085 ATTTTACCCCTAAACTTCCAAAAATT-CC
1 ATTTTACCCCTAAATTTCCAAAAATTACC
* * * *
13520113 ATTTTTAACCCTAAACATTCCCAAAGTTACC
1 A-TTTTACCCCTAAA-TTTCCAAAAATTACC
* **
13520144 ATTTTACCCCCAAACATCCAAAAATT-CC
1 ATTTTACCCCTAAATTTCCAAAAATTACC
* *
13520172 ATTTTACCCC-AAATTTTCCTAAAATTACT
1 ATTTTACCCCTAAA-TTTCCAAAAATTACC
* *
13520201 ATTTTA-CCCTCAAACTTCCAAAAATT-CT
1 ATTTTACCCCT-AAATTTCCAAAAATTACC
* **
13520229 ATTTTTA-ACCTCAAACTTTCGTAAAATTACC
1 A-TTTTACCCCT-AAA-TTTCCAAAAATTACC
** *
13520260 ATTTTACCCCCGAATGTCCAAAAATT
1 ATTTTACCCCTAAATTTCCAAAAATT
13520286 CAATTTTTAA
Statistics
Matches: 296, Mismatches: 54, Indels: 53
0.73 0.13 0.13
Matches are distributed among these distances:
25 3 0.01
26 10 0.03
27 8 0.03
28 36 0.12
29 114 0.39
30 114 0.39
31 11 0.04
ACGTcount: A:0.35, C:0.28, G:0.02, T:0.34
Consensus pattern (29 bp):
ATTTTACCCCTAAATTTCCAAAAATTACC
Found at i:13520233 original size:116 final size:117
Alignment explanation
Indices: 13519861--13520297 Score: 446
Period size: 116 Copynumber: 3.7 Consensus size: 117
13519851 AAAAGGTCAT
* * *
13519861 TAAACTATCCAAAAA-TCATATTTTGACCCCCAAACTTT-CCAAAACTTA-CATTTTGACCCCCA
1 TAAACT-TCCAAAAATTC-TATTTTTAACCCTAAACTTTCCCAAAA-TTACCATTTT-ACCCCCA
* * * * * * * *
13519923 AATTTTCCAAAATTTACA--TT-ATCACGAAC-TTCACAAAAATTACCATTTTACCCC
62 AA-TGTCCAAAAATTCCATTTTAACCCCAAACTTTC-CCAAAATTACTATTTTACCCC
* * * * **
13519977 TAAATTTCCAAAAATT-TCATTTTTGACCCTGAACTTTCCCAAAATTACCATTTTATCCTTAAAT
1 TAAACTTCCAAAAATTCT-ATTTTTAACCCTAAACTTTCCCAAAATTACCATTTTACCCCCAAAT
13520041 GTCCAAAAATTCCATTTTTAACCCCAAACTTTCCCAAAATTACTATTTTACCCC
65 GTCCAAAAATTCCA-TTTTAACCCCAAACTTTCCCAAAATTACTATTTTACCCC
* * * **
13520095 TAAACTTCCAAAAATTCCATTTTTAACCCTAAACATTCCCAAAGTTACCATTTTACCCCCAAACA
1 TAAACTTCCAAAAATTCTATTTTTAACCCTAAACTTTCCCAAAATTACCATTTTACCCCCAAATG
* *
13520160 TCCAAAAATTCCATTTT-ACCCCAAATTTTCCTAAAATTACTATTTTA-CCC
66 TCCAAAAATTCCATTTTAACCCCAAACTTTCCCAAAATTACTATTTTACCCC
** *
13520210 TCAAACTTCCAAAAATTCTATTTTTAA-CCTCAAACTTTCGTAAAATTACCATTTTACCCCCGAA
1 T-AAACTTCCAAAAATTCTATTTTTAACCCT-AAACTTTCCCAAAATTACCATTTTACCCCCAAA
*
13520274 TGTCCAAAAATTCAATTTTTAACC
64 TGTCCAAAAATTCCA-TTTTAACC
13520298 TCGAACTTCC
Statistics
Matches: 268, Mismatches: 39, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
114 13 0.05
115 38 0.14
116 110 0.41
117 10 0.04
118 94 0.35
119 3 0.01
ACGTcount: A:0.36, C:0.27, G:0.02, T:0.34
Consensus pattern (117 bp):
TAAACTTCCAAAAATTCTATTTTTAACCCTAAACTTTCCCAAAATTACCATTTTACCCCCAAATG
TCCAAAAATTCCATTTTAACCCCAAACTTTCCCAAAATTACTATTTTACCCC
Found at i:13520295 original size:59 final size:57
Alignment explanation
Indices: 13519958--13520323 Score: 385
Period size: 59 Copynumber: 6.2 Consensus size: 57
13519948 GAACTTCACA
* * * *
13519958 AAAATTACCATTTTACCCCTAAATTTCCAAAAATTTCATTTTTGACCCTGAACTTTCCC
1 AAAATTACCATTTTACCCCCAAA-TTCCAAAAATTCCATTTTTAACCC-AAACTTTCCC
* **
13520017 AAAATTACCATTTTATCCTTAAATGTCCAAAAATTCCATTTTTAACCCCAAACTTTCCC
1 AAAATTACCATTTTACCCCCAAAT-TCCAAAAATTCCATTTTTAA-CCCAAACTTTCCC
* * *
13520076 AAAATTACTATTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCTAAACATTCCC
1 AAAATTACCATTTTACCCCCAAA-TTCCAAAAATTCCATTTTTAACCC-AAACTTTCCC
* * * * *
13520135 AAAGTTACCATTTTACCCCCAAACATCCAAAAATTCCA-TTTTACCCCAAATTTTCCT
1 AAAATTACCATTTTACCCCCAAA-TTCCAAAAATTCCATTTTTAACCCAAACTTTCCC
* * * **
13520192 AAAATTACTATTTTACCCTCAAACTTCCAAAAATTCTATTTTTAACCTCAAACTTTCGT
1 AAAATTACCATTTTACCCCCAAA-TTCCAAAAATTCCATTTTTAACC-CAAACTTTCCC
* * * *
13520251 AAAATTACCATTTTACCCCCGAATGTCCAAAAATTCAATTTTTAACCTCGAAC-TTCCTA
1 AAAATTACCATTTTACCCCCAAAT-TCCAAAAATTCCATTTTTAACC-CAAACTTTCC-C
*
13520310 AAAATTATCATTTT
1 AAAATTACCATTTT
13520324 TCCTCGGGCA
Statistics
Matches: 266, Mismatches: 33, Indels: 16
0.84 0.10 0.05
Matches are distributed among these distances:
57 40 0.15
58 23 0.09
59 199 0.75
60 4 0.02
ACGTcount: A:0.36, C:0.27, G:0.02, T:0.36
Consensus pattern (57 bp):
AAAATTACCATTTTACCCCCAAATTCCAAAAATTCCATTTTTAACCCAAACTTTCCC
Found at i:13520315 original size:30 final size:29
Alignment explanation
Indices: 13520042--13520315 Score: 143
Period size: 29 Copynumber: 9.3 Consensus size: 29
13520032 TCCTTAAATG
* *
13520042 TCCAAAAATTCCATTTTTAACCCCAAACTT
1 TCCAAAAATTCAATTTTTAACCTCAAAC-T
* * *
13520072 TCCCAAAATT-ACTATTTT-ACCCCTAAACT
1 TCCAAAAATTCAAT-TTTTAACCTC-AAACT
*
13520101 TCCAAAAATTCCATTTTTAACC-CTAAACAT
1 TCCAAAAATTCAATTTTTAACCTC-AAAC-T
* * * * * *
13520131 TCCCAAAGTTACCA-TTTTACCCCCAAACA
1 TCCAAAAATT-CAATTTTTAACCTCAAACT
* * *
13520160 TCCAAAAATTCCA-TTTT-ACCCCAAATTT
1 TCCAAAAATTCAATTTTTAACCTCAAA-CT
* * *
13520188 TCCTAAAATT-ACTATTTTACCCTCAAACT
1 TCCAAAAATTCAAT-TTTTAACCTCAAACT
*
13520217 TCCAAAAATTCTATTTTTAACCTCAAACTT
1 TCCAAAAATTCAATTTTTAACCTCAAAC-T
** * * * *
13520247 TCGTAAAATTACCA-TTTTACCCCCGAA-T
1 TCCAAAAATT-CAATTTTTAACCTCAAACT
*
13520275 GTCCAAAAATTCAATTTTTAACCTCGAACT
1 -TCCAAAAATTCAATTTTTAACCTCAAACT
13520305 TCCTAAAAATT
1 TCC-AAAAATT
13520316 ATCATTTTTC
Statistics
Matches: 190, Mismatches: 36, Indels: 36
0.73 0.14 0.14
Matches are distributed among these distances:
27 7 0.04
28 19 0.10
29 83 0.44
30 75 0.39
31 6 0.03
ACGTcount: A:0.36, C:0.28, G:0.02, T:0.34
Consensus pattern (29 bp):
TCCAAAAATTCAATTTTTAACCTCAAACT
Found at i:13528880 original size:29 final size:30
Alignment explanation
Indices: 13528808--13529239 Score: 187
Period size: 29 Copynumber: 14.8 Consensus size: 30
13528798 TGCCCCAGGA
* *
13528808 AAAATGGTAATTCTTAGG-AAGTT-GGAGGT
1 AAAATGGTAATT-TTTGGAAAGTTCGGGGGT
* *
13528837 CAAAAATTG-AATTTTTGGACA-TTCGGGGGT
1 --AAAATGGTAATTTTTGGAAAGTTCGGGGGT
* * * *
13528867 AAAATGGTAATTTTGGGAAAGTTTGAGGTT
1 AAAATGGTAATTTTTGGAAAGTTCGGGGGT
** * * *
13528897 AAAAAT-AAAATTATTGG-AAGTTTGAGGGT
1 -AAAATGGTAATTTTTGGAAAGTTCGGGGGT
* * *
13528926 AAAATGGTAATTTTAGGAAAATT-TGGGGT
1 AAAATGGTAATTTTTGGAAAGTTCGGGGGT
*
13528955 AAAAATGG-AATTTTTGG-ATGATT-GGGGGT
1 -AAAATGGTAATTTTTGGAAAG-TTCGGGGGT
* * * *
13528984 AAAATGGTGATTTTGGGAAAGTTCAGGGTT
1 AAAATGGTAATTTTTGGAAAGTTCGGGGGT
**
13529014 AAAAATGG-AATTTTTGG-AAGTTTAGGGGT
1 -AAAATGGTAATTTTTGGAAAGTTCGGGGGT
* *
13529043 AAAATGGTAATTTTTTGG-AAGTTC-AGAGT
1 AAAATGGTAA-TTTTTGGAAAGTTCGGGGGT
* * *
13529072 CAAAAATGG-ATTTTTTGGACAA--TCGAGGAT
1 --AAAATGGTAATTTTTGGA-AAGTTCGGGGGT
* * **
13529102 AAAATGGTAATTTTGGGACAGTTC-AAGGT
1 AAAATGGTAATTTTTGGAAAGTTCGGGGGT
**
13529131 CAAAAATGG-AATTTTTGGAAA-TTTAGGGGT
1 --AAAATGGTAATTTTTGGAAAGTTCGGGGGT
*
13529161 AAAATGGTAATTTTTGTG-AAGTTC--GTG-
1 AAAATGGTAATTTTTG-GAAAGTTCGGGGGT
* * * *
13529188 ATAAT-GTAAATTTTGGAAAGTTTGAGGGTT
1 AAAATGGTAATTTTTGGAAAGTTCG-GGGGT
*
13529218 AAAAT-GTAACTTTTGGAAAGTT
1 AAAATGGTAATTTTTGGAAAGTT
13529240 TGAGGGTCAA
Statistics
Matches: 307, Mismatches: 60, Indels: 69
0.70 0.14 0.16
Matches are distributed among these distances:
25 1 0.00
26 14 0.05
27 4 0.01
28 43 0.14
29 110 0.36
30 101 0.33
31 34 0.11
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (30 bp):
AAAATGGTAATTTTTGGAAAGTTCGGGGGT
Found at i:13529136 original size:118 final size:117
Alignment explanation
Indices: 13528808--13529185 Score: 465
Period size: 118 Copynumber: 3.2 Consensus size: 117
13528798 TGCCCCAGGA
* *
13528808 AAAATGGTAATTCTTAGGAAGTT-GGAGGTCAAAAATTGAATTTTTGGACATTCGGGGGTAAAAT
1 AAAATGGTAATT-TTAGGAAGTTCGGA-GTCAAAAATGGAATTTTTGGACAATCGGGGGTAAAAT
** ** *
13528872 GGTAATTTTGGGAAAGTTTGAGGTTAAAAATAAAATTATTGGAAGTTT-GAGGGT
64 GGTAATTTTGGGAAAGTTCAAGGTTAAAAATGGAATTTTTGGAAGTTTAG-GGGT
* * * ** *
13528926 AAAATGGTAATTTTAGGAAAATTTGGGGT-AAAAATGGAATTTTTGGATGATTGGGGGTAAAATG
1 AAAATGGTAATTTTAGG-AAGTTCGGAGTCAAAAATGGAATTTTTGGACAATCGGGGGTAAAATG
* *
13528990 GTGATTTTGGGAAAGTTCAGGGTTAAAAATGGAATTTTTGGAAGTTTAGGGGT
65 GTAATTTTGGGAAAGTTCAAGGTTAAAAATGGAATTTTTGGAAGTTTAGGGGT
* * * * *
13529043 AAAATGGTAATTTTTTGGAAGTTCAGAGTCAAAAATGGATTTTTTGGACAATCGAGGATAAAATG
1 AAAATGGTAA-TTTTAGGAAGTTCGGAGTCAAAAATGGAATTTTTGGACAATCGGGGGTAAAATG
* * *
13529108 GTAATTTTGGGACAGTTCAAGGTCAAAAATGGAATTTTTGGAAATTTAGGGGT
65 GTAATTTTGGGAAAGTTCAAGGTTAAAAATGGAATTTTTGGAAGTTTAGGGGT
*
13529161 AAAATGGTAATTTTTGTGAAGTTCG
1 AAAATGGTAATTTTAG-GAAGTTCG
13529186 TGATAATGTA
Statistics
Matches: 223, Mismatches: 31, Indels: 12
0.84 0.12 0.05
Matches are distributed among these distances:
117 102 0.46
118 119 0.53
119 2 0.01
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (117 bp):
AAAATGGTAATTTTAGGAAGTTCGGAGTCAAAAATGGAATTTTTGGACAATCGGGGGTAAAATGG
TAATTTTGGGAAAGTTCAAGGTTAAAAATGGAATTTTTGGAAGTTTAGGGGT
Found at i:13529184 original size:59 final size:59
Alignment explanation
Indices: 13528808--13529274 Score: 354
Period size: 59 Copynumber: 8.0 Consensus size: 59
13528798 TGCCCCAGGA
* * * * * **
13528808 AAAATGGTAATTCTTAGGAAGTTGGAGGTCAAAAATTGAATTTTTGGACATTCGGGGGT
1 AAAATGGTAATTTTTGGGAAGTTCGAGGTCAAAAATGGAATTTTTGGAAATTTAGGGGT
* * ** * *
13528867 AAAATGGTAA-TTTTGGGAAAGTTTGAGGTTAAAAATAAAATTATTGGAAGTTT-GAGGGT
1 AAAATGGTAATTTTTGGG-AAGTTCGAGGTCAAAAATGGAATTTTTGGAAATTTAG-GGGT
* * * * * * *
13528926 AAAATGGTAATTTTAGGAAAATTTGGGGT-AAAAATGGAATTTTTGGATGA-TTGGGGGT
1 AAAATGGTAATTTTTGGGAAGTTCGAGGTCAAAAATGGAATTTTTGGA-AATTTAGGGGT
* * *
13528984 AAAATGGTGA-TTTTGGGAAAGTTC-AGGGTTAAAAATGGAATTTTTGGAAGTTTAGGGGT
1 AAAATGGTAATTTTTGGG-AAGTTCGA-GGTCAAAAATGGAATTTTTGGAAATTTAGGGGT
* * ** *
13529043 AAAATGGTAATTTTTTGGAAGTTC-AGAGTCAAAAATGGATTTTTTGGACAATCGA-GGAT
1 AAAATGGTAATTTTTGGGAAGTTCGAG-GTCAAAAATGGAATTTTTGGA-AATTTAGGGGT
*
13529102 AAAATGGTAA-TTTTGGGACAGTTCAAGGTCAAAAATGGAATTTTTGGAAATTTAGGGGT
1 AAAATGGTAATTTTTGGGA-AGTTCGAGGTCAAAAATGGAATTTTTGGAAATTTAGGGGT
* * * * * *
13529161 AAAATGGTAATTTTTGTGAAGTTC---GT-GATAATGTAAATTTTGGAAAGTTTGAGGGTT
1 AAAATGGTAATTTTTGGGAAGTTCGAGGTCAAAAATGGAATTTTTGGAAA-TTT-AGGGGT
* * * *
13529218 AAAAT-GTAACTTTTGGAAAGTTTGAGGGTCAAAATAT-G-ATTTTTGGATAGTTTAGGG
1 AAAATGGTAATTTTTGGGAAGTTCGA-GGTCAAAA-ATGGAATTTTTGGA-AATTTAGGG
13529275 ACCTTTTGGG
Statistics
Matches: 327, Mismatches: 56, Indels: 50
0.76 0.13 0.12
Matches are distributed among these distances:
55 16 0.05
56 19 0.06
57 15 0.05
58 55 0.17
59 181 0.55
60 36 0.11
61 3 0.01
62 2 0.01
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.35
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGGAAGTTCGAGGTCAAAAATGGAATTTTTGGAAATTTAGGGGT
Found at i:13529225 original size:30 final size:30
Alignment explanation
Indices: 13529190--13529274 Score: 109
Period size: 30 Copynumber: 2.9 Consensus size: 30
13529180 AGTTCGTGAT
*
13529190 AATGTAAATTTTGGAAAGTTTGAGGGTTAA
1 AATGTAAATTTTGGAAAGTTTGAGGGTCAA
*
13529220 AATGTAACTTTTGGAAAGTTTGAGGGTCAA
1 AATGTAAATTTTGGAAAGTTTGAGGGTCAA
* * * *
13529250 AATATGATTTTTGGATAGTTT-AGGG
1 AATGTAAATTTTGGAAAGTTTGAGGG
13529275 ACCTTTTGGG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
29 4 0.08
30 45 0.92
ACGTcount: A:0.33, C:0.02, G:0.27, T:0.38
Consensus pattern (30 bp):
AATGTAAATTTTGGAAAGTTTGAGGGTCAA
Found at i:13529717 original size:22 final size:22
Alignment explanation
Indices: 13529664--13529711 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
13529654 GTCTGATCGG
13529664 GTCGGGTTGTAATCAAAACGAC
1 GTCGGGTTGTAATCAAAACGAC
13529686 GTCGGGTTGTAATCAAAACGAC
1 GTCGGGTTGTAATCAAAACGAC
13529708 GTCG
1 GTCG
13529712 TTTTGTGGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (22 bp):
GTCGGGTTGTAATCAAAACGAC
Found at i:13530885 original size:18 final size:17
Alignment explanation
Indices: 13530842--13530890 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 17
13530832 GGACTTTTGT
13530842 TTATTTAAATTTAGAATA
1 TTATTTAAATTTA-AATA
13530860 TT-TTTAAATTTAAATA
1 TTATTTAAATTTAAATA
13530876 TTAATTTAAATTTAA
1 TT-ATTTAAATTTAA
13530891 TTTTTAAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.21
17 10 0.34
18 13 0.45
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
TTATTTAAATTTAAATA
Found at i:13530924 original size:18 final size:18
Alignment explanation
Indices: 13530864--13530927 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
13530854 AGAATATTTT
* **
13530864 TAAATTTAAATATTAATT
1 TAAATTTAAATTTTAAAA
*
13530882 TAAATTTAATTTTTAAAA
1 TAAATTTAAATTTTAAAA
* *
13530900 CATATTTAAATTTTAAAA
1 TAAATTTAAATTTTAAAA
13530918 TAAATTTAAA
1 TAAATTTAAA
13530928 ATTGGTTTAG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAATTTAAATTTTAAAA
Found at i:13531678 original size:209 final size:208
Alignment explanation
Indices: 13531296--13531953 Score: 858
Period size: 209 Copynumber: 3.2 Consensus size: 208
13531286 AATCCGCTTT
* * * *
13531296 TCAGTATCTCATCAGGATGATAACCATTTTATTGCTTTGACCTGCTTCTCAATATCTCATCAGGA
1 TCAGTATCTCATCAGGAAGGTAACCACTTTATTGCTTCGACCTGCTTCTCAATATCTCATCAGGA
* *
13531361 AGCTGGGGTTCGAAGATTCGCTTACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTAAGTAT
66 AGCTGGGGTTCGAAGATTTGCTCACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTAAGTAT
* * * * * * * * * *
13531426 CTCATCAAGAAGATGACAGCATCACTTGTTTCAATCTACTTCTCCGTATCTCATCAGAAAGGCGA
131 CTCATCAAGAAGATGACCGCTTCGCTTGTTT-GATCCACTTCTCTGTGTCTCATTAGGAAGACGA
* *
13531491 ATTTGGTCCACTTC
195 ATCTGGTTCACTTC
* * *
13531505 TCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCATCAAGA
1 TCAGTATCTCATCAGGAAGGTAACCACTTTATTGCTTCGACCTGCTTCTCAATATCTCATCAGGA
* * *
13531570 AGTTGGGGTTCGAAGATTTGCTCATTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTTAGTAT
66 AGCTGGGGTTCGAAGATTTGCTCACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTAAGTAT
* * *
13531635 CTTATCAGGAAGATGACCGCTTCGCTTAGTTTGATCCACTTCTCTGTGTCTCATTAGGAAGACGG
131 CTCATCAAGAAGATGACCGCTTCGCTT-GTTTGATCCACTTCTCTGTGTCTCATTAGGAAGACGA
13531700 ATCTGGTTCACTTC
195 ATCTGGTTCACTTC
* ** *
13531714 TCTGTATCTCATCAGGAAGGTAACTGCTTTATTGCTTCGACCTGCTTCTCAATATCTCATTAGGA
1 TCAGTATCTCATCAGGAAGGTAACCACTTTATTGCTTCGACCTGCTTCTCAATATCTCATCAGGA
* * ** * *
13531779 AGCTAGGGTTCGAAGATTCT-CTCACTTTGAGCCT-ATTTTATTGATTTGGTCTTCTTC-ACAGT
66 AGCTGGGGTTCGAAGATT-TGCTCACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTA-AGT
*
13531841 ATCTCATCAAGAAGATGACCG-TATCGCTTGTTTTGATCCACTTTTCTGTGTCTCATTAGGAAGA
129 ATCTCATCAAGAAGATGACCGCT-TCGCTTG-TTTGATCCACTTCTCTGTGTCTCATTAGGAAGA
13531905 C-AGATCTGGTTCACTTC
192 CGA-ATCTGGTTCACTTC
* *
13531922 TCTGTATCTCATTAGGAAGGTAACCACTTTAT
1 TCAGTATCTCATCAGGAAGGTAACCACTTTAT
13531954 ATTTTGGATA
Statistics
Matches: 396, Mismatches: 47, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
207 2 0.01
208 123 0.31
209 266 0.67
210 5 0.01
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (208 bp):
TCAGTATCTCATCAGGAAGGTAACCACTTTATTGCTTCGACCTGCTTCTCAATATCTCATCAGGA
AGCTGGGGTTCGAAGATTTGCTCACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTAAGTAT
CTCATCAAGAAGATGACCGCTTCGCTTGTTTGATCCACTTCTCTGTGTCTCATTAGGAAGACGAA
TCTGGTTCACTTC
Found at i:13539383 original size:6 final size:6
Alignment explanation
Indices: 13539363--13539418 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
13539353 ACCGAGCCCT
* * * * *
13539363 TTTAAA TTT-AT TTTAAA TTTAGA TTT-AT TTTAAA TTTGAA TTTGAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
13539409 TTTAAA TTTA
1 TTTAAA TTTA
13539419 TTTTCATATT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
5 7 0.17
6 33 0.82
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (6 bp):
TTTAAA
Found at i:13539388 original size:17 final size:17
Alignment explanation
Indices: 13539363--13539418 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 17
13539353 ACCGAGCCCT
*
13539363 TTTAAATTTATTTTAAA
1 TTTAGATTTATTTTAAA
13539380 TTTAGATTTATTTTAAA
1 TTTAGATTTATTTTAAA
*
13539397 TTT-GAATTTGAATTTAAA
1 TTTAG-ATTT-ATTTTAAA
13539415 TTTA
1 TTTA
13539419 TTTTCATATT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 1 0.03
17 23 0.68
18 10 0.29
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (17 bp):
TTTAGATTTATTTTAAA
Found at i:13554126 original size:24 final size:24
Alignment explanation
Indices: 13554065--13554127 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
13554055 TAGAGTAATA
* *
13554065 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
* * *
13554089 GGAGTTTAATTGAAACAAATACAC
1 AGAGTTTAACTGAAACAAATAAAC
13554113 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
13554128 GATTATTTCT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.48, C:0.13, G:0.16, T:0.24
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:13572130 original size:22 final size:18
Alignment explanation
Indices: 13572105--13572149 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 18
13572095 CTCATTTTCC
13572105 TAAAATAGCCCAACACCCAAAA
1 TAAAATA-CCCAA-A-CC-AAA
13572127 TAAAATACCCAAACCAAA
1 TAAAATACCCAAACCAAA
13572145 TAAAA
1 TAAAA
13572150 CCCATACCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.35
19 2 0.09
20 1 0.04
21 5 0.22
22 7 0.30
ACGTcount: A:0.60, C:0.27, G:0.02, T:0.11
Consensus pattern (18 bp):
TAAAATACCCAAACCAAA
Found at i:13576673 original size:11 final size:11
Alignment explanation
Indices: 13576657--13576681 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13576647 TTTATTTTAC
13576657 TATTTTTATTT
1 TATTTTTATTT
13576668 TATTTTTATTT
1 TATTTTTATTT
13576679 TAT
1 TAT
13576682 CTCAATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:13583834 original size:591 final size:591
Alignment explanation
Indices: 13582708--13583808 Score: 1916
Period size: 591 Copynumber: 1.9 Consensus size: 591
13582698 GGAAAATAAT
*
13582708 TGTGAAACTAAAGTGGGTTGGCCCTGTCTTCAAGAAACTTTCATGAGTATTTTCGAGACAGGTAG
1 TGTGAAACTAAAGTGGGTTGGCCCTGTCTTCAAGAAACTTTCACGAGTATTTTCGAGACAGGTAG
13582773 TATTTCTAACAAGTGTTGCAGCGAACTTGTTACGTTGGGAAAAGTTTGCCACGCAGCATTAAGAA
66 TATTTCTAACAAGTGTTGCAGCGAACTTGTTACGTTGGGAAAAGTTTGCCACGCAGCATTAAGAA
* * *
13582838 AGAGGACTCTCGAGAATCCTCTATTCAAAGAACTAAACCCAACTACAATTATAGCGAAGAGCATC
131 AGAGGACTCTCGAGAATCCTCTATTCAAAGAAATAAACCCAACTAAAATTATAGCAAAGAGCATC
*
13582903 GAAACATGGAACAACTGCATGGCATTGATCGATTCACCATATCCGTCTGCTTAACGATATAGGAT
196 GAAACATGGAACAACTGCATGGCATTGATCGATTCACCATATCCGTCTGCTTAACGATATAAGAT
* *
13582968 TGCTTCAACTAACAATAAGTTACAGGACGTGATGTGCTCAAAATTGTTCTTTTGTCTTTATTTTC
261 TGCTTCAACTAACAACAAGTTACAAGACGTGATGTGCTCAAAATTGTTCTTTTGTCTTTATTTTC
* ** *
13583033 AATATTGTTCCTTAAGCGTCATTATTGTGTGTCGTTAAATTTAAGTCGAGTTAAATTATTTTAGT
326 AACATTGTTCCGGAAGCGTCATTATTGTCTGTCGTTAAATTTAAGTCGAGTTAAATTATTTTAGT
*
13583098 TGTACGAAAATTAAATGGTTCTAAAGAAGCCATTACGTAATACACTATGATTTTATAAGGCCCTT
391 TGTACGAAAATTAAATGGTTCTAAAGAAGCCATTACGTAATACACTATGATTTTATAAGGCCATT
* *
13583163 TTTTGTAATTTTATTGCATTAGAACTTGATAACCATCTCAAAACGAGTACTATATATTGTTTCAC
456 TTTTGTAATTTTATAGCATTAGAACTTGATAACCATCTCAAAACGAGTACTAGATATTGTTTCAC
* **
13583228 ATTGTTTAAATTGAAAAAAATTGCAATGTTATAAACGTTATGTTCATTGCAATAATGTGGAACAT
521 ATGGTAGAAATTGAAAAAAATTGCAATGTTATAAACGTTATGTTCATTGCAATAATGTGGAACAT
13583293 GGAACA
586 GGAACA
*
13583299 TGTGAAACTAAAGTTGGTTGGCCCTGTCTTCAAGAAACTTTCACGAGTATTTTCGAGACAGGTAG
1 TGTGAAACTAAAGTGGGTTGGCCCTGTCTTCAAGAAACTTTCACGAGTATTTTCGAGACAGGTAG
13583364 TATTTCTAACAAGTGTTGCAGCGAACTTGTTACGTTGGGAAAAGTTTGCCACGCAGCATTAAGAA
66 TATTTCTAACAAGTGTTGCAGCGAACTTGTTACGTTGGGAAAAGTTTGCCACGCAGCATTAAGAA
13583429 AGAGGACTCTCGAGAATCCTCTATTCAAAGAAATAAACCCAACTAAAATTATAGCAAAGAGCATC
131 AGAGGACTCTCGAGAATCCTCTATTCAAAGAAATAAACCCAACTAAAATTATAGCAAAGAGCATC
* * * *
13583494 GAAACATGGAACAACTGCATGGCATTGATCGATTTACCGTCTCCGTCTGCTTAATGATATAAGAT
196 GAAACATGGAACAACTGCATGGCATTGATCGATTCACCATATCCGTCTGCTTAACGATATAAGAT
* *
13583559 TGCTTCAACTAACAACAGGTTACAAGACGTGATGTGCTCAATATTGTTCTTTTGTCTTTATTTTC
261 TGCTTCAACTAACAACAAGTTACAAGACGTGATGTGCTCAAAATTGTTCTTTTGTCTTTATTTTC
*
13583624 AACATTGTTCCGGAAGCTTCATTATTGTCTGTCGTTAAATTTAAGTCGAGTTAAATTAATTTTAG
326 AACATTGTTCCGGAAGCGTCATTATTGTCTGTCGTTAAATTTAAGTCGAGTTAAATT-ATTTTAG
* *
13583689 TTGTACGAAAATTAAATGGTTCTAGAGAAGCCATTACTTAATACACTATGATTTTATAAGGCCAT
390 TTGTACGAAAATTAAATGGTTCTAAAGAAGCCATTACGTAATACACTATGATTTTATAAGGCCAT
* *
13583754 TATTTT-TAATTTTATAGCATTGGAACTTGATAACCATCTCAAATCGAGTACTAGA
455 T-TTTTGTAATTTTATAGCATTAGAACTTGATAACCATCTCAAAACGAGTACTAGA
13583809 ATTTTTGGTG
Statistics
Matches: 482, Mismatches: 26, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
591 363 0.75
592 115 0.24
593 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (591 bp):
TGTGAAACTAAAGTGGGTTGGCCCTGTCTTCAAGAAACTTTCACGAGTATTTTCGAGACAGGTAG
TATTTCTAACAAGTGTTGCAGCGAACTTGTTACGTTGGGAAAAGTTTGCCACGCAGCATTAAGAA
AGAGGACTCTCGAGAATCCTCTATTCAAAGAAATAAACCCAACTAAAATTATAGCAAAGAGCATC
GAAACATGGAACAACTGCATGGCATTGATCGATTCACCATATCCGTCTGCTTAACGATATAAGAT
TGCTTCAACTAACAACAAGTTACAAGACGTGATGTGCTCAAAATTGTTCTTTTGTCTTTATTTTC
AACATTGTTCCGGAAGCGTCATTATTGTCTGTCGTTAAATTTAAGTCGAGTTAAATTATTTTAGT
TGTACGAAAATTAAATGGTTCTAAAGAAGCCATTACGTAATACACTATGATTTTATAAGGCCATT
TTTTGTAATTTTATAGCATTAGAACTTGATAACCATCTCAAAACGAGTACTAGATATTGTTTCAC
ATGGTAGAAATTGAAAAAAATTGCAATGTTATAAACGTTATGTTCATTGCAATAATGTGGAACAT
GGAACA
Found at i:13586261 original size:29 final size:27
Alignment explanation
Indices: 13586141--13586571 Score: 203
Period size: 29 Copynumber: 14.8 Consensus size: 27
13586131 TGCCCAAGGA
*
13586141 AAAATGGTAATCTTTAGGAAGTTCGA-GGT
1 AAAATGG-AAT-TTTTGGAAGTT-GAGGGT
* *
13586170 CAAAAATTGAATTTTTGGACA-TTCGGGGGT
1 --AAAATGGAATTTTTGGA-AGTT-GAGGGT
* *
13586200 AAAATGGTAATTTTGGGAAAGTTCGAGGTT
1 AAAATGG-AATTTTTGG-AAGTT-GAGGGT
*
13586230 AAAAATAGAATTTTTGGAAGTCTGAGGGT
1 -AAAATGGAATTTTTGGAAGT-TGAGGGT
* * *
13586259 AAAATGGTAATTTTAGGAAAATTTG-GGAT
1 AAAATGG-AATTTTTGG--AAGTTGAGGGT
* *
13586288 AAAAATGGAATTTTTGGATGTTTGGGGGT
1 -AAAATGGAATTTTTGGAAG-TTGAGGGT
* * *
13586317 AAAATAGTG-ATTTTGGGAAAGTTCAAGGT
1 AAAAT-G-GAATTTTTGG-AAGTTGAGGGT
* * *
13586346 TAAA-GGAATTTTTTGAAGTTTAAGGGT
1 AAAATGGAATTTTTGGAAG-TTGAGGGT
* *
13586373 AAAATGGTAATTTTTGGGAAGTTTAGAGT
1 AAAATGG-AATTTTT-GGAAGTTGAGGGT
13586402 CAAAAATGGAATTTTTGGACA-TTCGAGGGT
1 --AAAATGGAATTTTTGGA-AGTT-GAGGGT
* *
13586432 GAAATGGTAATTTTGGGAAAGTTTG-GGGTT
1 AAAATGG-AATTTTTGG-AAG-TTGAGGG-T
* *
13586462 AAAAATGGAATTTTTTGAAGTCT-AAGGT
1 -AAAATGGAATTTTTGGAAGT-TGAGGGT
* *
13586490 AAAATGGTAGTTTTTAGGAAGTTTAGGGT
1 AAAATGG-AATTTTT-GGAAGTTGAGGGT
* *
13586519 CAAAAATGGAATTTTTGGAAATTTAGGGGT
1 --AAAATGGAATTTTTGGAAGTTGA-GGGT
13586549 AAAATGGTAATTTTTGTGAAGTT
1 AAAATGG-AATTTTTG-GAAGTT
13586572 TCGTGATAAT
Statistics
Matches: 313, Mismatches: 46, Indels: 83
0.71 0.10 0.19
Matches are distributed among these distances:
26 4 0.01
27 24 0.08
28 44 0.14
29 127 0.41
30 77 0.25
31 37 0.12
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.35
Consensus pattern (27 bp):
AAAATGGAATTTTTGGAAGTTGAGGGT
Found at i:13586550 original size:232 final size:232
Alignment explanation
Indices: 13586141--13586562 Score: 618
Period size: 232 Copynumber: 1.8 Consensus size: 232
13586131 TGCCCAAGGA
* * *
13586141 AAAATGGTAATCTTTAGGAAGTTCGAGGTCAAAAATTGAATTTTTGGACATTCGGGGGTAAAATG
1 AAAATGGTAATCTTTAGGAAGTTAGAGGTCAAAAATGGAATTTTTGGACATTCGAGGGTAAAATG
*
13586206 GTAATTTTGGGAAAGTTCGAGGTTAAAAATAGAATTTTTGGAAGTCTGAGGGTAAAATGGTAATT
66 GTAATTTTGGGAAAGTTCGAGGTTAAAAATAGAATTTTTGGAAGTCTGAAGGTAAAATGGTAATT
** * *
13586271 TTAGGAAAATTTGGGATAAAAATGGAATTTTTGGATGTTTGGGGGTAAAATAGTGATTTTGGGAA
131 TTAGGAAAATTTGGGATAAAAATGGAATTTTTGGAAATTTAGGGGTAAAATAGTAATTTTGGGAA
13586336 AGTTCAAGGTTAAAGGAATTTTTTGAAGTTTAAGGGT
196 AGTTCAAGGTTAAAGGAATTTTTTGAAGTTTAAGGGT
* * *
13586373 AAAATGGTAATTTTTGGGAAGTTTAGA-GTCAAAAATGGAATTTTTGGACATTCGAGGGTGAAAT
1 AAAATGGTAATCTTTAGGAAG-TTAGAGGTCAAAAATGGAATTTTTGGACATTCGAGGGTAAAAT
* * * * *
13586437 GGTAATTTTGGGAAAGTTTGGGGTTAAAAATGGAATTTTTTGAAGTCT-AAGGTAAAATGGTAGT
65 GGTAATTTTGGGAAAGTTCGAGGTTAAAAATAGAATTTTTGGAAGTCTGAAGGTAAAATGGTA-A
* *
13586501 TTTTAGG-AAGTTTAGGG-TCAAAAATGGAATTTTTGGAAATTTAGGGGTAAAATGGTAATTTT
129 TTTTAGGAAAATTT-GGGAT-AAAAATGGAATTTTTGGAAATTTAGGGGTAAAATAGTAATTTT
13586563 TGTGAAGTTT
Statistics
Matches: 168, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
231 19 0.11
232 145 0.86
233 4 0.02
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.35
Consensus pattern (232 bp):
AAAATGGTAATCTTTAGGAAGTTAGAGGTCAAAAATGGAATTTTTGGACATTCGAGGGTAAAATG
GTAATTTTGGGAAAGTTCGAGGTTAAAAATAGAATTTTTGGAAGTCTGAAGGTAAAATGGTAATT
TTAGGAAAATTTGGGATAAAAATGGAATTTTTGGAAATTTAGGGGTAAAATAGTAATTTTGGGAA
AGTTCAAGGTTAAAGGAATTTTTTGAAGTTTAAGGGT
Found at i:13586570 original size:59 final size:60
Alignment explanation
Indices: 13586141--13586663 Score: 380
Period size: 59 Copynumber: 9.0 Consensus size: 60
13586131 TGCCCAAGGA
* * * * **
13586141 AAAATGGTAATCTTTAGG-AAG-TTCGAGGTCAAAAATTGAATTTTTGGACA-TTCGGGGGT
1 AAAATGGTAATTTTTGGGAAAGTTTAG-GGTCAAAAATGGAATTTTTGGA-AGTTTAGGGGT
* * * *
13586200 AAAATGGTAA-TTTTGGGAAAG-TTCGAGGTTAAAAATAGAATTTTTGGAAGTCT-GAGGGT
1 AAAATGGTAATTTTTGGGAAAGTTTAG-GGTCAAAAATGGAATTTTTGGAAGTTTAG-GGGT
* * * *
13586259 AAAATGGTAA-TTTTAGGAAAATTT-GGGAT-AAAAATGGAATTTTTGGATGTTTGGGGGT
1 AAAATGGTAATTTTTGGGAAAGTTTAGGG-TCAAAAATGGAATTTTTGGAAGTTTAGGGGT
* * * * * * *
13586317 AAAATAGTGA-TTTTGGGAAAGTTCAAGGT--TAAA-GGAATTTTTTGAAGTTTAAGGGT
1 AAAATGGTAATTTTTGGGAAAGTTTAGGGTCAAAAATGGAATTTTTGGAAGTTTAGGGGT
* *
13586373 AAAATGGTAATTTTTGGG-AAGTTTAGAGTCAAAAATGGAATTTTTGGACA--TTCGAGGGT
1 AAAATGGTAATTTTTGGGAAAGTTTAGGGTCAAAAATGGAATTTTTGGA-AGTTTAG-GGGT
* * * * * *
13586432 GAAATGGTAA-TTTTGGGAAAGTTTGGGGTTAAAAATGGAATTTTTTGAAGTCTA-AGGT
1 AAAATGGTAATTTTTGGGAAAGTTTAGGGTCAAAAATGGAATTTTTGGAAGTTTAGGGGT
* * *
13586490 AAAATGGTAGTTTTTAGG-AAGTTTAGGGTCAAAAATGGAATTTTTGGAAATTTAGGGGT
1 AAAATGGTAATTTTTGGGAAAGTTTAGGGTCAAAAATGGAATTTTTGGAAGTTTAGGGGT
* * * * * * *
13586549 AAAATGGTAATTTTTGTG-AAGTTT--CGT-GATAATGTAAATTTTGGAAAGTTTGGGGGTT
1 AAAATGGTAATTTTTGGGAAAGTTTAGGGTCAAAAATGGAATTTTTGG-AAGTTTAGGGG-T
* *
13586607 AAAAT-GTAACTTTT-GGAAAGTTTGGGGGTCAAAATAT-G-ATTTTTGGATAGTTTAGGG
1 AAAATGGTAATTTTTGGGAAAGTTT-AGGGTCAAAA-ATGGAATTTTTGGA-AGTTTAGGG
13586664 ACCTTTTGGG
Statistics
Matches: 371, Mismatches: 66, Indels: 53
0.76 0.13 0.11
Matches are distributed among these distances:
56 49 0.13
57 35 0.09
58 114 0.31
59 148 0.40
60 21 0.06
61 2 0.01
62 2 0.01
ACGTcount: A:0.33, C:0.03, G:0.28, T:0.36
Consensus pattern (60 bp):
AAAATGGTAATTTTTGGGAAAGTTTAGGGTCAAAAATGGAATTTTTGGAAGTTTAGGGGT
Found at i:13586610 original size:117 final size:115
Alignment explanation
Indices: 13586141--13586663 Score: 404
Period size: 117 Copynumber: 4.5 Consensus size: 115
13586131 TGCCCAAGGA
* * * * **
13586141 AAAATGGTAATCTTTAGGAAG-TTCGAGGTCAAAAATTGAATTTTTGGACATTCGGGGGTAAAAT
1 AAAATGGTAATTTTTAGGAAGTTTAG-GGTCAAAAATGGAATTTTTGGAAATTTAGGGGTAAAAT
* * * *
13586205 GGTAATTTTGGGAAAGTTCGAGGTTAAAAATAGAATTTTTGGAAGTCTGAGGGT
65 GGTAATTTTGGGAAAGTTCGA--TGATAAA-GGAAATTTTGGAAGTCTGAGGGT
* ** *
13586259 AAAATGGTAA-TTTTAGGAAAATTT-GGGAT-AAAAATGGAATTTTTGGATGTTTGGGGGTAAAA
1 AAAATGGTAATTTTTAGG-AAGTTTAGGG-TCAAAAATGGAATTTTTGGAAATTTAGGGGTAAAA
* * * * * * * * *
13586321 TAGTGATTTTGGGAAAGTTCAAGGTTAAAGGAATTTTTTGAAGTTTAAGGGT
64 TGGTAATTTTGGGAAAGTTCGATGATAAAGGAAATTTTGGAAGTCTGAGGGT
* * * * *
13586373 AAAATGGTAATTTTTGGGAAGTTTAGAGTCAAAAATGGAATTTTTGGACA-TTCGAGGGTGAAAT
1 AAAATGGTAATTTTTAGGAAGTTTAGGGTCAAAAATGGAATTTTTGGAAATTTAG-GGGTAAAAT
* * * * * * *
13586437 GGTAATTTTGGGAAAGTTTGGGGTTAAAAATGGAATTTTTTGAAGTCT-AAGGT
65 GGTAATTTTGGGAAAG-TT-CGATGATAAA-GGAAATTTTGGAAGTCTGAGGGT
*
13586490 AAAATGGTAGTTTTTAGGAAGTTTAGGGTCAAAAATGGAATTTTTGGAAATTTAGGGGTAAAATG
1 AAAATGGTAATTTTTAGGAAGTTTAGGGTCAAAAATGGAATTTTTGGAAATTTAGGGGTAAAATG
* * * * *
13586555 GTAATTTTTGTG-AAGTTTCG-TGATAATGTAAATTTTGGAAAGTTTGGGGGTT
66 GTAA-TTTTGGGAAAG-TTCGATGATAAAGGAAATTTTGG-AAGTCTGAGGG-T
* * *
13586607 AAAAT-GTAACTTTT-GGAAAGTTTGGGGGTCAAAATAT-G-ATTTTTGGATAGTTTAGGG
1 AAAATGGTAATTTTTAGG-AAGTTT-AGGGTCAAAA-ATGGAATTTTTGGA-AATTTAGGG
13586664 ACCTTTTGGG
Statistics
Matches: 330, Mismatches: 56, Indels: 39
0.78 0.13 0.09
Matches are distributed among these distances:
114 46 0.14
115 62 0.19
116 27 0.08
117 152 0.46
118 41 0.12
119 2 0.01
ACGTcount: A:0.33, C:0.03, G:0.28, T:0.36
Consensus pattern (115 bp):
AAAATGGTAATTTTTAGGAAGTTTAGGGTCAAAAATGGAATTTTTGGAAATTTAGGGGTAAAATG
GTAATTTTGGGAAAGTTCGATGATAAAGGAAATTTTGGAAGTCTGAGGGT
Found at i:13586615 original size:30 final size:30
Alignment explanation
Indices: 13586579--13586659 Score: 108
Period size: 30 Copynumber: 2.7 Consensus size: 30
13586569 GTTTCGTGAT
*
13586579 AATGTAAATTTTGGAAAGTTTGGGGGTTAA
1 AATGTAAATTTTGGAAAGTTTGGGGGTCAA
*
13586609 AATGTAACTTTTGGAAAGTTTGGGGGTCAA
1 AATGTAAATTTTGGAAAGTTTGGGGGTCAA
* * * *
13586639 AATATGATTTTTGGATAGTTT
1 AATGTAAATTTTGGAAAGTTT
13586660 AGGGACCTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.31, C:0.02, G:0.27, T:0.40
Consensus pattern (30 bp):
AATGTAAATTTTGGAAAGTTTGGGGGTCAA
Found at i:13587798 original size:3 final size:3
Alignment explanation
Indices: 13587784--13587839 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
13587774 GACTGCCTTT
* ** * *
13587784 TTA TTA TT- TTA TTA TTA CTA TTA AAA ATA GTA TTA TTA TTA TTA TTGA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
13587832 TTA TTA TT
1 TTA TTA TT
13587840 GATACTATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
2 2 0.05
3 39 0.89
4 3 0.07
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:13587836 original size:10 final size:10
Alignment explanation
Indices: 13587814--13587842 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
13587804 TTAAAAATAG
13587814 TATTATT-AT
1 TATTATTGAT
13587823 TATTATTGAT
1 TATTATTGAT
13587833 TATTATTGAT
1 TATTATTGAT
13587843 ACTATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.37
10 12 0.63
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (10 bp):
TATTATTGAT
Found at i:13588598 original size:17 final size:16
Alignment explanation
Indices: 13588578--13588625 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 16
13588568 CTTTTGTTTA
13588578 TTTAAATTTAGAATATT
1 TTTAAATTTA-AATATT
*
13588595 TTTAAATTTAAATATAAA
1 TTTAAATTTAAATAT--T
13588613 TTTAAATTTAAAT
1 TTTAAATTTAAAT
13588626 TTTAAAACAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 5 0.18
17 10 0.36
18 13 0.46
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
TTTAAATTTAAATATT
Found at i:13588604 original size:6 final size:6
Alignment explanation
Indices: 13588595--13588660 Score: 62
Period size: 6 Copynumber: 11.0 Consensus size: 6
13588585 TTAGAATATT
* ** *
13588595 TTTAAA TTTAAA TATAAA TTTAAA TTTAAA TTTTAAA -ACATA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA TTTAAA TTTAAA
**
13588643 TTTAAA AATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA
13588661 ATGGGTTTAG
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
5 2 0.04
6 38 0.83
7 6 0.13
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (6 bp):
TTTAAA
Found at i:13588626 original size:24 final size:24
Alignment explanation
Indices: 13588595--13588648 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
13588585 TTAGAATATT
*
13588595 TTTAAA-TTTAAATATAAATTTAAA
1 TTTAAATTTTAAA-ACAAATTTAAA
*
13588619 TTTAAATTTTAAAACATATTTAAA
1 TTTAAATTTTAAAACAAATTTAAA
13588643 TTTAAA
1 TTTAAA
13588649 AATAAATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 21 0.78
25 6 0.22
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
TTTAAATTTTAAAACAAATTTAAA
Found at i:13588646 original size:42 final size:41
Alignment explanation
Indices: 13588577--13588660 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 41
13588567 ACTTTTGTTT
* * * *
13588577 ATTTAAATTTAGAATATTTTTAAATTTAAATATAAATTTAA
1 ATTTAAATTTAAAACATATTTAAATTTAAAAATAAATTTAA
13588618 ATTTAAATTTTAAAACATATTTAAATTTAAAAATAAATTTAA
1 ATTTAAA-TTTAAAACATATTTAAATTTAAAAATAAATTTAA
13588660 A
1 A
13588661 ATGGGTTTAG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
41 7 0.18
42 31 0.82
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (41 bp):
ATTTAAATTTAAAACATATTTAAATTTAAAAATAAATTTAA
Found at i:13589383 original size:208 final size:208
Alignment explanation
Indices: 13589022--13589677 Score: 843
Period size: 208 Copynumber: 3.1 Consensus size: 208
13589012 TTTCAATCCG
*
13589022 CTTCTCAGTATCTCATCAGGAAGATAACCATTTTATTGCTGCTTCGACCTGCTTCTCAATATCTC
1 CTTCTCAGTATCTCATCAGGAAGATAACCGTTTTA-T--TGCTTCGACCTGCTTCTCAATATCTC
* *
13589087 ATCAGGAAGCTGGGGTTCGAAGATTCGCTTACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTC
63 ATCAGGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTC
* ** * *
13589152 TCAGTATCTCATCAGGAAGATGACAGCATCACTTGTTTCAATCTGCTTCTCCGTATCTCATCAGA
128 TCAGTATCTCATCAGGAAGATGACAGCATCGCTTGTTT-AATCCACTTCTCTGTGTCTCATCAGA
* * *
13589217 AAGGCGAATTTGG-TCC
192 AAGACGAATCTGGTTCA
* *
13589233 CTTCTCAGTATCTCATCTGGAAGCTAACCGTTTTATTGCTTCGACCTGCTTCTCAATATCTCATC
1 CTTCTCAGTATCTCATCAGGAAGATAACCGTTTTATTGCTTCGACCTGCTTCTCAATATCTCATC
* * * *
13589298 AAGAAGTTGGGGTTCGAAGATTTGCTCATTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTTA
66 AGGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTCA
* * * * * *
13589363 GTATCTTATCAGGAAGATGACCGCTTCGCTAGTTTGATCCACTTCTCTGTGTCTCATTAGAAAGA
131 GTATCTCATCAGGAAGATGACAGCATCGCTTGTTTAATCCACTTCTCTGTGTCTCATCAGAAAGA
*
13589428 CGGATCTGGTTCA
196 CGAATCTGGTTCA
* * * * *
13589441 CTTCTCTGTATCTCATCAGGAAGGTAACTGCTTTATTGCTTCGACCTGCTTCTCAATATCTCATT
1 CTTCTCAGTATCTCATCAGGAAGATAACCGTTTTATTGCTTCGACCTGCTTCTCAATATCTCATC
* ** * *
13589506 AGGAAGCTGGGGTTCGAAGATTCT-CTCACTTTGAGCCTGATTTTATTGATTTGGTCTTCTTCTC
66 AGGAAGCTGGGGTTCGAAGATT-TGCTCACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTC
* * * *
13589570 AGTATCTCATCAAGAAGATGACTGAATCGCTTGTTTTAATCCACTTCTCTGTGTCTCATCAGGAA
130 AGTATCTCATCAGGAAGATGACAGCATCGCTTG-TTTAATCCACTTCTCTGTGTCTCATCAGAAA
*
13589635 GAC-AGATCTGCTTCA
194 GACGA-ATCTGGTTCA
* *
13589650 TTTCTCTA-TATCTCATCAGGAAGGTAAC
1 CTTCTC-AGTATCTCATCAGGAAGATAAC
13589678 TGCTTTATAT
Statistics
Matches: 388, Mismatches: 52, Indels: 12
0.86 0.12 0.03
Matches are distributed among these distances:
207 30 0.08
208 259 0.67
209 66 0.17
210 1 0.00
211 32 0.08
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (208 bp):
CTTCTCAGTATCTCATCAGGAAGATAACCGTTTTATTGCTTCGACCTGCTTCTCAATATCTCATC
AGGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTCA
GTATCTCATCAGGAAGATGACAGCATCGCTTGTTTAATCCACTTCTCTGTGTCTCATCAGAAAGA
CGAATCTGGTTCA
Found at i:13598632 original size:209 final size:209
Alignment explanation
Indices: 13597975--13598629 Score: 877
Period size: 209 Copynumber: 3.1 Consensus size: 209
13597965 TATCCAAAAT
* *
13597975 ATAAAGTGGTTACCTTCCTAATGAGATACAGAGAAGTGAACCAGA-TCTGTCTTCCTAATGAGAC
1 ATAAAATGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATTC-GTCTTCCTAATGAGAC
* * * *
13598039 ACAGAAAAGTGGATCAAAACAAGCGATACGGTCATCTTCTTGATGAGATACTGT-GAAGAAGACC
65 ACAGAGAAGTGGATTAAAACAAGCGATGCGGTCATCTTCTTGATGAGATACT-TAGAAGAAGGCC
*** * * *
13598103 AAATCAAT-AAAATAGGCTCAAAGTGAGAGAATCTTCGAACCCCAGCTTCCTAATGAGATATTGA
129 AAATCAATGAAGCCAAGCTCAAAGTGAGCGAATCTTCGAACCCCAGCTTCCTGATGAGATATTGA
13598167 GAAGCAGGTCGAAGCA
194 GAAGCAGGTCGAAGCA
*** *
13598183 ATAAAGCAGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTAATGAGACA
1 ATAAAATGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATTCGTCTTCCTAATGAGACA
* * * * *
13598248 CAGAGAAGTGGA-TCAAACTAAGCGAAGCGGTCATCTTCCTGATAAGATACTAAGAAGAAGGCCA
66 CAGAGAAGTGGATTAAAAC-AAGCGATGCGGTCATCTTCTTGATGAGATACTTAGAAGAAGGCCA
* * * *
13598312 AATCAATGAAGCCAAGCTCAAAATGAGCAAATCTTCGAACCCCAACTTCTTGATGAGATATTGAG
130 AATCAATGAAGCCAAGCTCAAAGTGAGCGAATCTTCGAACCCCAGCTTCCTGATGAGATATTGAG
13598377 AAGCAGGTCGAAGCA
195 AAGCAGGTCGAAGCA
* * * * * * * *
13598392 ATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGCCTTTCTGATGAGATA
1 ATAAAATGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATTCGTCTTCCTAATGAGACA
* * * * *
13598457 CGGAGAAGTAGATTGAAACAAGTGATGCTGTCATCTTCTTGATGAGATACTTAGAAGAAGGCCAA
66 CAGAGAAGTGGATTAAAACAAGCGATGCGGTCATCTTCTTGATGAGATACTTAGAAGAAGGCCAA
*
13598522 ATCAATGAAGCCAAGCTCAAAGTAAGCGAATCTTCGAACCCCAGCTTCCTGATGAGATATTGAGA
131 ATCAATGAAGCCAAGCTCAAAGTGAGCGAATCTTCGAACCCCAGCTTCCTGATGAGATATTGAGA
*
13598587 AGCAGGTCAAAGCA
196 AGCAGGTCGAAGCA
* *
13598601 ATAAAATGGTTATCATCCTGATGAGATAC
1 ATAAAATGGTTACCTTCCTGATGAGATAC
13598630 TGAAAAGCGG
Statistics
Matches: 390, Mismatches: 52, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
207 4 0.01
208 115 0.29
209 266 0.68
210 5 0.01
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (209 bp):
ATAAAATGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATTCGTCTTCCTAATGAGACA
CAGAGAAGTGGATTAAAACAAGCGATGCGGTCATCTTCTTGATGAGATACTTAGAAGAAGGCCAA
ATCAATGAAGCCAAGCTCAAAGTGAGCGAATCTTCGAACCCCAGCTTCCTGATGAGATATTGAGA
AGCAGGTCGAAGCA
Found at i:13599024 original size:18 final size:17
Alignment explanation
Indices: 13599001--13599064 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 17
13598991 CTAAACCAAT
13599001 TTTAAATTTATTTTGAAA
1 TTTAAATTTATTTT-AAA
* *
13599019 TTTAAATATGTTTTAAAA
1 TTTAAATTTATTTT-AAA
**
13599037 TTTAAATTTAAATTAATA
1 TTTAAATTTATTTTAA-A
13599055 TTTAAATTTA
1 TTTAAATTTA
13599065 AAAATATTCT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
17 2 0.05
18 36 0.95
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:13599047 original size:42 final size:41
Alignment explanation
Indices: 13599001--13599084 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 41
13598991 CTAAACCAAT
* * * *
13599001 TTTAAATTTAT-TTTGAAATTTAAATATGTTTTAAAATTTAAA
1 TTTAAATTAATATTT-AAATTTAAAAATATTCT-AAATTTAAA
13599043 TTTAAATTAATATTTAAATTTAAAAATATTCTAAATTTAAA
1 TTTAAATTAATATTTAAATTTAAAAATATTCTAAATTTAAA
13599084 T
1 T
13599085 AAACAAAAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
41 10 0.27
42 24 0.65
43 3 0.08
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.50
Consensus pattern (41 bp):
TTTAAATTAATATTTAAATTTAAAAATATTCTAAATTTAAA
Found at i:13599065 original size:18 final size:18
Alignment explanation
Indices: 13599031--13599084 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
13599021 TAAATATGTT
*
13599031 TTAAAATTTAAATTTAAA
1 TTAATATTTAAATTTAAA
13599049 TTAATATTTAAATTTAAA
1 TTAATATTTAAATTTAAA
13599067 --AATATTCTAAATTTAAA
1 TTAATATT-TAAATTTAAA
13599084 T
1 T
13599085 AAACAAAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
16 6 0.18
17 10 0.30
18 17 0.52
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
TTAATATTTAAATTTAAA
Found at i:13599084 original size:6 final size:6
Alignment explanation
Indices: 13599034--13599066 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
13599024 ATATGTTTTA
13599034 AAATTT AAATTT AAA-TT AATATTT AAATTT AAA
1 AAATTT AAATTT AAATTT AA-ATTT AAATTT AAA
13599067 AATATTCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 4 0.16
6 17 0.68
7 4 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (6 bp):
AAATTT
Found at i:13601032 original size:30 final size:30
Alignment explanation
Indices: 13600994--13601577 Score: 151
Period size: 30 Copynumber: 19.9 Consensus size: 30
13600984 CCCAAAAGGT
* *
13600994 CCCT-AAACTATCCAAAAATCATATTTTGA
1 CCCTCAAACTTTCCAAAAATCACATTTTGA
* *
13601023 CCCTCAAACTTTCCAAAAGTTACATTTTGA
1 CCCTCAAACTTTCCAAAAATCACATTTTGA
* *
13601053 CCCTCAAACTTTCCAAAATTTACA--TT-A
1 CCCTCAAACTTTCCAAAAATCACATTTTGA
* * * *
13601080 -TCACGAAC-TTCACAAAAATTACCATTTT-A
1 CCCTCAAACTTTC-CAAAAATCA-CATTTTGA
13601109 CCC-CTAAA-TTTCCAAAAATTC-CATTTTTGA
1 CCCTC-AAACTTTCCAAAAA-TCACA-TTTTGA
** * * *
13601139 -CCTTGAACTGTCCCAAAATTACCATTTT-A
1 CCCTCAAACTTTCCAAAAATCA-CATTTTGA
* *
13601168 TCCTCAAA-TGTCCAAAAATTC-CATTTTTGA
1 CCCTCAAACTTTCCAAAAA-TCACA-TTTTGA
13601198 CCCT-AAAC-TTCCTAAAAA-CTACCATTTT-A
1 CCCTCAAACTTTCC-AAAAATC-A-CATTTTGA
* * *
13601227 CCTTC-GAC-TTCCAAAAATTC-CATTTTTAA
1 CCCTCAAACTTTCCAAAAA-TCACA-TTTTGA
* *
13601256 CCC-CAAACTTTCCCAAAATTACCATTTT-A
1 CCCTCAAACTTTCCAAAAATCA-CATTTTGA
* *
13601285 TCCTC-GA-TTGTCCAAAAATTC-CATTTTTGA
1 CCCTCAAACTT-TCCAAAAA-TCACA-TTTTGA
* * *
13601315 CTCT-GAAC-TTCCAAAAAATTACCATTTT-A
1 CCCTCAAACTTTCC-AAAAATCA-CATTTTGA
*
13601344 CCC-CTAAAC-TTCCAAAAATTC-CATTTTTAA
1 CCCTC-AAACTTTCCAAAAA-TCACA-TTTTGA
* *
13601374 CCCT-GAACTTTCCCAAAATCACCATTTT-A
1 CCCTCAAACTTTCCAAAAATCA-CATTTTGA
* * *
13601403 CCCCCAAAC-ATCCAAAAATTC-CATTTTTA
1 CCCTCAAACTTTCCAAAAA-TCACATTTTGA
* * *
13601432 CCC-CAAATTTTCCTAAAATTACCATTTT-A
1 CCCTCAAACTTTCCAAAAATCA-CATTTTGA
* * *
13601461 CCCTCAAAC-TTCCAATAATTC-TATTTTTA
1 CCCTCAAACTTTCCAA-AAATCACATTTTGA
* * *
13601490 ACCTCAAACTTTCCCAAAATTACCATTTT-A
1 CCCTCAAACTTTCCAAAAATCA-CATTTTGA
* * *
13601520 CCCCCGAA-TGTCCAAAAATTCA-ATTTTTGA
1 CCCTCAAACTTTCCAAAAA-TCACA-TTTTGA
* *
13601550 -CCTCCAAC-TTCCTAAAAATTACCATTTT
1 CCCTCAAACTTTCC-AAAAATCA-CATTTT
13601578 TCCTGGGGCA
Statistics
Matches: 414, Mismatches: 70, Indels: 141
0.66 0.11 0.23
Matches are distributed among these distances:
25 3 0.01
26 13 0.03
27 5 0.01
28 40 0.10
29 160 0.39
30 177 0.43
31 16 0.04
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.34
Consensus pattern (30 bp):
CCCTCAAACTTTCCAAAAATCACATTTTGA
Found at i:13601157 original size:59 final size:58
Alignment explanation
Indices: 13600994--13601577 Score: 480
Period size: 59 Copynumber: 10.0 Consensus size: 58
13600984 CCCAAAAGGT
13600994 CCCTAAACTATCCAAAAA-T-CATATTTTGACCCTCAAACTTT-CCAAAAGTTA-CATTTTGA
1 CCCTAAACT-TCCAAAAATTCCAT-TTTTGACCC-CAAACTTTCCCAAAA-TTACCATTTT-A
* * * * * *
13601053 CCCTCAAACTTTCCAAAATTTACA---TT-ATCACGAAC-TTCACAAAAATTACCATTTTA
1 CCCT-AAAC-TTCCAAAAATTCCATTTTTGACCCCAAACTTTC-CCAAAATTACCATTTTA
* *** *
13601109 CCCCTAAATTTCCAAAAATTCCATTTTTGACCTTGAACTGTCCCAAAATTACCATTTTA
1 -CCCTAAACTTCCAAAAATTCCATTTTTGACCCCAAACTTTCCCAAAATTACCATTTTA
* * * *
13601168 TCCTCAAA-TGTCCAAAAATTCCATTTTTGACCCTAAAC-TTCCTAAAAACTACCATTTTA
1 CCCT-AAACT-TCCAAAAATTCCATTTTTGACCCCAAACTTTCC-CAAAATTACCATTTTA
* ** *
13601227 CCTTCGACTTCCAAAAATTCCATTTTTAACCCCAAACTTTCCCAAAATTACCATTTTA
1 CCCTAAACTTCCAAAAATTCCATTTTTGACCCCAAACTTTCCCAAAATTACCATTTTA
* ** * * ** *
13601285 TCCTCGATTGTCCAAAAATTCCATTTTTGACTCTGAAC-TTCCAAAAAATTACCATTTTA
1 CCCTAAACT-TCCAAAAATTCCATTTTTGACCCCAAACTTTCC-CAAAATTACCATTTTA
* ** *
13601344 CCCCTAAACTTCCAAAAATTCCATTTTTAACCCTGAACTTTCCCAAAATCACCATTTTA
1 -CCCTAAACTTCCAAAAATTCCATTTTTGACCCCAAACTTTCCCAAAATTACCATTTTA
* * * *
13601403 CCCCCAAACATCCAAAAATTCCATTTTT-ACCCCAAATTTTCCTAAAATTACCATTTTA
1 -CCCTAAACTTCCAAAAATTCCATTTTTGACCCCAAACTTTCCCAAAATTACCATTTTA
* * * *
13601461 CCCTCAAACTTCCAATAATTCTATTTTTAACCTCAAACTTTCCCAAAATTACCATTTTA
1 CCCT-AAACTTCCAAAAATTCCATTTTTGACCCCAAACTTTCCCAAAATTACCATTTTA
** * *
13601520 CCCCCGAA-TGTCCAAAAATTCAATTTTTGACCTCC-AAC-TTCCTAAAAATTACCATTTT
1 -CCCTAAACT-TCCAAAAATTCCATTTTTGACC-CCAAACTTTCC-CAAAATTACCATTTT
13601578 TCCTGGGGCA
Statistics
Matches: 433, Mismatches: 64, Indels: 56
0.78 0.12 0.10
Matches are distributed among these distances:
55 14 0.03
56 11 0.03
57 20 0.05
58 112 0.26
59 246 0.57
60 26 0.06
61 2 0.00
62 2 0.00
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.34
Consensus pattern (58 bp):
CCCTAAACTTCCAAAAATTCCATTTTTGACCCCAAACTTTCCCAAAATTACCATTTTA
Found at i:13601301 original size:176 final size:173
Alignment explanation
Indices: 13601094--13601577 Score: 582
Period size: 176 Copynumber: 2.7 Consensus size: 173
13601084 GAACTTCACA
*
13601094 AAAATTACCATTTTACCCCTAAATTTCCAAAAATTCCATTTTTGACCTTGAACTGTCCCAAAATT
1 AAAATTACCATTTTA-CCCTCAATTTCCAAAAATTCCATTTTTGACCTTGAACT-TCCCAAAATT
*
13601159 ACCATTTTATCCTCAAATGTCCAAAAATTCCATTTTTGACCCTAAACTTCCTAAAAACTACCATT
64 ACCATTTTA-CCCCAAATGTCCAAAAATTCCATTTTTGACCCTAAACTTCCTAAAAACTACCATT
** * *
13601224 TTACCTTC-GACTTCCAAAAATTCCATTTTTAACCCCAAACTTTCCC
128 TTACCCCCAAACATCCAAAAATTCCATTTTT-ACCCCAAACTTTCCC
* * *
13601270 AAAATTACCATTTTATCCTCGATTGTCCAAAAATTCCATTTTTGA-CTCTGAACTTCCAAAAAAT
1 AAAATTACCATTTTACCCTCAATT-TCCAAAAATTCCATTTTTGACCT-TGAACTTCC-CAAAAT
* * * *
13601334 TACCATTTTACCCCTAAACT-TCCAAAAATTCCATTTTTAACCCTGAACTTTCCCAAAATC-ACC
63 TACCATTTTACCCC-AAA-TGTCCAAAAATTCCATTTTTGACCCTAAAC-TTCCTAAAAACTACC
* *
13601397 ATTTTACCCCCAAACATCCAAAAATTCCATTTTTACCCCAAATTTTCCT
125 ATTTTACCCCCAAACATCCAAAAATTCCATTTTTACCCCAAACTTTCCC
* * * * **
13601446 AAAATTACCATTTTACCCTCAAACTTCCAATAATTCTATTTTTAACCTCAAACTTTCCCAAAATT
1 AAAATTACCATTTTACCCTC-AATTTCCAAAAATTCCATTTTTGACCTTGAAC-TTCCCAAAATT
* * * *
13601511 ACCATTTTACCCCCGAATGTCCAAAAATTCAATTTTTGA-CCTCCAACTTCCTAAAAATTACCAT
64 ACCATTTTA-CCCCAAATGTCCAAAAATTCCATTTTTGACCCT-AAACTTCCTAAAAACTACCAT
13601575 TTT
127 TTT
13601578 TCCTGGGGCA
Statistics
Matches: 263, Mismatches: 31, Indels: 28
0.82 0.10 0.09
Matches are distributed among these distances:
175 26 0.10
176 195 0.74
177 42 0.16
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.35
Consensus pattern (173 bp):
AAAATTACCATTTTACCCTCAATTTCCAAAAATTCCATTTTTGACCTTGAACTTCCCAAAATTAC
CATTTTACCCCAAATGTCCAAAAATTCCATTTTTGACCCTAAACTTCCTAAAAACTACCATTTTA
CCCCCAAACATCCAAAAATTCCATTTTTACCCCAAACTTTCCC
Found at i:13601592 original size:117 final size:117
Alignment explanation
Indices: 13600994--13601577 Score: 611
Period size: 117 Copynumber: 5.0 Consensus size: 117
13600984 CCCAAAAGGT
*
13600994 CCCTAAACTATCCAAAAA-T-CATATTTTGACCCTCAAACTTT-CCAAAAGTTA-CATTTTGACC
1 CCCTAAACT-TCCAAAAATTCCAT-TTTT-AACCTCAAACTTTCCCAAAA-TTACCATTTT-ACC
* * * * * * *
13601055 CTCAAACTTTCCAAAATTTACA-TTAT--CAC-GAACTTCAC-AAAAATTACCATTTTA
61 CCCAAA-TGTCCAAAAATTCCATTTTTGACCCTCAACTTC-CTAAAAATTACCATTTTA
* * ** * * *
13601109 CCCCTAAATTTCCAAAAATTCCATTTTTGACCTTGAACTGTCCCAAAATTACCATTTTATCCTCA
1 -CCCTAAACTTCCAAAAATTCCATTTTTAACCTCAAACTTTCCCAAAATTACCATTTTACCCCCA
* *
13601174 AATGTCCAAAAATTCCATTTTTGACCCTAAACTTCCTAAAAACTACCATTTTA
65 AATGTCCAAAAATTCCATTTTTGACCCTCAACTTCCTAAAAATTACCATTTTA
* ** * * * *
13601227 CCTTCGACTTCCAAAAATTCCATTTTTAACCCCAAACTTTCCCAAAATTACCATTTTATCCTCGA
1 CCCTAAACTTCCAAAAATTCCATTTTTAACCTCAAACTTTCCCAAAATTACCATTTTACCCCCAA
* * * *
13601292 TTGTCCAAAAATTCCATTTTTGACTCTGAACTTCCAAAAAATTACCATTTTA
66 ATGTCCAAAAATTCCATTTTTGACCCTCAACTTCCTAAAAATTACCATTTTA
* *
13601344 CCCCTAAACTTCCAAAAATTCCATTTTTAACC-CTGAACTTTCCCAAAATCACCATTTTACCCCC
1 -CCCTAAACTTCCAAAAATTCCATTTTTAACCTC-AAACTTTCCCAAAATTACCATTTTACCCCC
** *
13601408 AAACATCCAAAAATTCCATTTTT-ACCC-CAAATTTTCCT-AAAATTACCATTTTA
64 AAATGTCCAAAAATTCCATTTTTGACCCTC-AA-CTTCCTAAAAATTACCATTTTA
* * *
13601461 CCCTCAAACTTCCAATAATTCTATTTTTAACCTCAAACTTTCCCAAAATTACCATTTTACCCCCG
1 CCCT-AAACTTCCAAAAATTCCATTTTTAACCTCAAACTTTCCCAAAATTACCATTTTACCCCCA
*
13601526 AATGTCCAAAAATTCAATTTTTGA-CCTCCAACTTCCTAAAAATTACCATTTT
65 AATGTCCAAAAATTCCATTTTTGACCCT-CAACTTCCTAAAAATTACCATTTT
13601578 TCCTGGGGCA
Statistics
Matches: 396, Mismatches: 53, Indels: 36
0.82 0.11 0.07
Matches are distributed among these distances:
114 12 0.03
115 30 0.08
116 29 0.07
117 208 0.53
118 116 0.29
119 1 0.00
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.34
Consensus pattern (117 bp):
CCCTAAACTTCCAAAAATTCCATTTTTAACCTCAAACTTTCCCAAAATTACCATTTTACCCCCAA
ATGTCCAAAAATTCCATTTTTGACCCTCAACTTCCTAAAAATTACCATTTTA
Found at i:13621637 original size:23 final size:23
Alignment explanation
Indices: 13621607--13621702 Score: 104
Period size: 23 Copynumber: 4.2 Consensus size: 23
13621597 ACTCGTGATA
*
13621607 GCATTACATACATGCATTTTTTC
1 GCATTACATACATGCATATTTTC
*
13621630 GCATTACATACATGCATTTTTTC
1 GCATTACATACATGCATATTTTC
* ** *
13621653 GCATTGCATATTTGCACATTTTC
1 GCATTACATACATGCATATTTTC
**
13621676 GCA-TAGCATATTTGCATATTTTC
1 GCATTA-CATACATGCATATTTTC
13621699 GCAT
1 GCAT
13621703 AATAATTCTA
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
22 1 0.02
23 63 0.98
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.43
Consensus pattern (23 bp):
GCATTACATACATGCATATTTTC
Found at i:13630641 original size:18 final size:18
Alignment explanation
Indices: 13630618--13630663 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
13630608 CTAAACCCAT
*
13630618 TTTAAATTTATTTTTAAA
1 TTTAAATTTATTTTAAAA
* *
13630636 TTTAAATATGTTTTAAAA
1 TTTAAATTTATTTTAAAA
13630654 TTTAAATTTA
1 TTTAAATTTA
13630664 AATTTAAATA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
TTTAAATTTATTTTAAAA
Found at i:13630657 original size:30 final size:29
Alignment explanation
Indices: 13630617--13630673 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
13630607 ACTAAACCCA
**
13630617 TTTTAAATTTATTTTTAAATTTAAATATG
1 TTTTAAATTTAAATTTAAATTTAAATATG
13630646 TTTTAAAATTTAAATTTAAATTTAAATA
1 TTTT-AAATTTAAATTTAAATTTAAATA
13630674 AACAAAAGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (29 bp):
TTTTAAATTTAAATTTAAATTTAAATATG
Found at i:13630672 original size:18 final size:18
Alignment explanation
Indices: 13630618--13630672 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
13630608 CTAAACCCAT
*
13630618 TTTAAATTTATTTTTAAA
1 TTTAAATTTAATTTTAAA
* *
13630636 TTTAAATAT-GTTTTAAAA
1 TTTAAATTTAATTTT-AAA
*
13630654 TTTAAATTTAAATTTAAA
1 TTTAAATTTAATTTTAAA
13630672 T
1 T
13630673 AAACAAAAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
17 4 0.13
18 23 0.77
19 3 0.10
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
TTTAAATTTAATTTTAAA
Found at i:13632611 original size:30 final size:29
Alignment explanation
Indices: 13632571--13633002 Score: 144
Period size: 30 Copynumber: 14.8 Consensus size: 29
13632561 AAAGGTCCTT
*
13632571 AAACTATCCAAAAATCATATTTTGACCCCC
1 AAACTTTCCAAAAATCATATTTT-ACCCCC
* * *
13632601 AAACTTTCCAAAAGTTACATTTTGACCCCC
1 AAACTTTCCAAAAATCATATTTT-ACCCCC
* * ** * *
13632631 AAATTTTCC-AAAAT-TTACATTA-TCAC
1 AAACTTTCCAAAAATCATATTTTACCCCC
* * * *
13632657 GAAC-TTCACAAAAATTACCATTTTACCCCT
1 AAACTTTC-CAAAAATCA-TATTTTACCCCC
*
13632687 AAA-TTTCCAAAAATTCCAT-TTTTGA-CCCT
1 AAACTTTCCAAAAA-T-CATATTTT-ACCCCC
* * * * * *
13632716 GAACTTTCCCAAAATTACCATTTTATCCTC
1 AAACTTTCCAAAAATCA-TATTTTACCCCC
* *
13632746 AAA-TGTCCAAAAATTCCAT-TTTTAACCCC
1 AAACTTTCCAAAAA-T-CATATTTTACCCCC
* * *
13632775 AAACTTTCCCAAAATTACTATTTTACCCCT
1 AAACTTTCCAAAAATCA-TATTTTACCCCC
* *
13632805 AAAC-TTCCAAAAATTCCAT-TTTTAACCCT
1 AAACTTTCCAAAAA-T-CATATTTTACCCCC
* * * * *
13632834 AAACATTCCCAAAGTTACCATTTTACCCCC
1 AAACTTTCCAAAAATCA-TATTTTACCCCC
*
13632864 AAAC-ATCCAAAAATTCCAT-TTTTA-CCCC
1 AAACTTTCCAAAAA-T-CATATTTTACCCCC
* * * *
13632892 AAATTTTCCTAAAATTACTATTTTACCCTC
1 AAACTTTCCAAAAATCA-TATTTTACCCCC
* *
13632922 AAAC-TTCCAAAAATTC-TATTTTTAACCTC
1 AAACTTTCCAAAAA-TCATA-TTTTACCCCC
* * *
13632951 AAACTTTCCTAAAATTACCATTTTACCCCC
1 AAACTTTCCAAAAATCA-TATTTTACCCCC
* *
13632981 GAA-TGTCCAAAAATTCA-ATTTT
1 AAACTTTCCAAAAA-TCATATTTT
13633003 TAACCTCGAA
Statistics
Matches: 293, Mismatches: 74, Indels: 72
0.67 0.17 0.16
Matches are distributed among these distances:
25 3 0.01
26 5 0.02
27 7 0.02
28 22 0.08
29 122 0.42
30 129 0.44
31 5 0.02
ACGTcount: A:0.36, C:0.28, G:0.02, T:0.34
Consensus pattern (29 bp):
AAACTTTCCAAAAATCATATTTTACCCCC
Found at i:13632699 original size:29 final size:29
Alignment explanation
Indices: 13632589--13632995 Score: 243
Period size: 29 Copynumber: 13.9 Consensus size: 29
13632579 CAAAAATCAT
* *
13632589 ATTTTGACCCCCAAACTTTCCAAAAGTTA-C
1 ATTTT-ACCCCTAAA-TTTCCAAAAATTACC
* *
13632619 ATTTTGACCCCCAAATTTTCCAAAATTTA-C
1 ATTTT-ACCCCTAAA-TTTCCAAAAATTACC
* * * *
13632649 A--TTATCAC-GAACTTCACAAAAATTACC
1 ATTTTACCCCTAAATTTC-CAAAAATTACC
13632676 ATTTTACCCCTAAATTTCCAAAAATT-CC
1 ATTTTACCCCTAAATTTCCAAAAATTACC
* *
13632704 ATTTTTGA-CCCTGAACTTTCCCAAAATTACC
1 A-TTTT-ACCCCT-AAATTTCCAAAAATTACC
* *
13632735 ATTTTA-TCCTCAAATGTCCAAAAATT-CC
1 ATTTTACCCCT-AAATTTCCAAAAATTACC
* *
13632763 ATTTTTAACCCC-AAACTTTCCCAAAATTACT
1 A-TTTT-ACCCCTAAA-TTTCCAAAAATTACC
*
13632794 ATTTTACCCCTAAACTTCCAAAAATT-CC
1 ATTTTACCCCTAAATTTCCAAAAATTACC
* * * *
13632822 ATTTTTAACCCTAAACATTCCCAAAGTTACC
1 A-TTTTACCCCTAAA-TTTCCAAAAATTACC
* **
13632853 ATTTTACCCCCAAACATCCAAAAATT-CC
1 ATTTTACCCCTAAATTTCCAAAAATTACC
* *
13632881 ATTTTTACCCC-AAATTTTCCTAAAATTACT
1 A-TTTTACCCCTAAA-TTTCCAAAAATTACC
* *
13632911 ATTTTA-CCCTCAAACTTCCAAAAATT-CT
1 ATTTTACCCCT-AAATTTCCAAAAATTACC
* *
13632939 ATTTTTA-ACCTCAAACTTTCCTAAAATTACC
1 A-TTTTACCCCT-AAA-TTTCCAAAAATTACC
** *
13632970 ATTTTACCCCCGAATGTCCAAAAATT
1 ATTTTACCCCTAAATTTCCAAAAATT
13632996 CAATTTTTAA
Statistics
Matches: 300, Mismatches: 50, Indels: 55
0.74 0.12 0.14
Matches are distributed among these distances:
25 3 0.01
26 10 0.03
27 5 0.02
28 22 0.07
29 134 0.45
30 112 0.37
31 14 0.05
ACGTcount: A:0.35, C:0.28, G:0.02, T:0.34
Consensus pattern (29 bp):
ATTTTACCCCTAAATTTCCAAAAATTACC
Found at i:13633005 original size:59 final size:57
Alignment explanation
Indices: 13632667--13633033 Score: 421
Period size: 59 Copynumber: 6.2 Consensus size: 57
13632657 GAACTTCACA
* * *
13632667 AAAATTACCATTTTACCCCTAAATTTCCAAAAATTCCATTTTTGACCCTGAACTTTCCC
1 AAAATTACCATTTTACCCCCAAA-TTCCAAAAATTCCATTTTTAACCC-AAACTTTCCC
* *
13632726 AAAATTACCATTTTATCCTCAAATGTCCAAAAATTCCATTTTTAACCCCAAACTTTCCC
1 AAAATTACCATTTTACCCCCAAAT-TCCAAAAATTCCATTTTTAA-CCCAAACTTTCCC
* * *
13632785 AAAATTACTATTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCTAAACATTCCC
1 AAAATTACCATTTTACCCCCAAA-TTCCAAAAATTCCATTTTTAACCC-AAACTTTCCC
* * * * *
13632844 AAAGTTACCATTTTACCCCCAAACATCCAAAAATTCCATTTTTACCCCAAATTTTCCT
1 AAAATTACCATTTTACCCCCAAA-TTCCAAAAATTCCATTTTTAACCCAAACTTTCCC
* * * *
13632902 AAAATTACTATTTTACCCTCAAACTTCCAAAAATTCTATTTTTAACCTCAAACTTTCCT
1 AAAATTACCATTTTACCCCCAAA-TTCCAAAAATTCCATTTTTAACC-CAAACTTTCCC
* * * *
13632961 AAAATTACCATTTTACCCCCGAATGTCCAAAAATTCAATTTTTAACCTCGAAC-TTCCTA
1 AAAATTACCATTTTACCCCCAAAT-TCCAAAAATTCCATTTTTAACC-CAAACTTTCC-C
*
13633020 AAAATTATCATTTT
1 AAAATTACCATTTT
13633034 TCCTCGGGCA
Statistics
Matches: 269, Mismatches: 32, Indels: 14
0.85 0.10 0.04
Matches are distributed among these distances:
58 57 0.21
59 208 0.77
60 4 0.01
ACGTcount: A:0.35, C:0.28, G:0.02, T:0.35
Consensus pattern (57 bp):
AAAATTACCATTTTACCCCCAAATTCCAAAAATTCCATTTTTAACCCAAACTTTCCC
Found at i:13633018 original size:117 final size:117
Alignment explanation
Indices: 13632658--13633022 Score: 493
Period size: 117 Copynumber: 3.1 Consensus size: 117
13632648 CATTATCACG
* * * * *
13632658 AACTTCACAAAAATTACCATTTTACCCCTAAATTTCCAAAAATTCCATTTTTGACCCTGAACTTT
1 AACTTC-CTAAAATTACTATTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCTAAACTTT
* *
13632723 CCCAAAATTACCATTTTATCCTCAAATGTCCAAAAATTCCATTTTTAACCCCA
65 CCCAAAATTACCATTTTACCCCCAAATGTCCAAAAATTCCATTTTTAACCCCA
* *
13632776 AACTTTCCCAAAATTACTATTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCTAAACATT
1 AAC-TTCCTAAAATTACTATTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCTAAACTTT
* **
13632841 CCCAAAGTTACCATTTTACCCCCAAACATCCAAAAATTCCATTTTT-ACCCCA
65 CCCAAAATTACCATTTTACCCCCAAATGTCCAAAAATTCCATTTTTAACCCCA
* *
13632893 AATTTTCCTAAAATTACTATTTTA-CCCTCAAACTTCCAAAAATTCTATTTTTAA-CCTCAAACT
1 AA-CTTCCTAAAATTACTATTTTACCCCT-AAACTTCCAAAAATTCCATTTTTAACCCT-AAACT
* * * * *
13632956 TTCCTAAAATTACCATTTTACCCCCGAATGTCCAAAAATTCAATTTTTAACCTCG
63 TTCCCAAAATTACCATTTTACCCCCAAATGTCCAAAAATTCCATTTTTAACCCCA
13633011 AACTTCCTAAAA
1 AACTTCCTAAAA
13633023 ATTATCATTT
Statistics
Matches: 218, Mismatches: 24, Indels: 11
0.86 0.09 0.04
Matches are distributed among these distances:
116 7 0.03
117 106 0.49
118 102 0.47
119 3 0.01
ACGTcount: A:0.36, C:0.28, G:0.02, T:0.34
Consensus pattern (117 bp):
AACTTCCTAAAATTACTATTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCTAAACTTTC
CCAAAATTACCATTTTACCCCCAAATGTCCAAAAATTCCATTTTTAACCCCA
Found at i:13633038 original size:29 final size:29
Alignment explanation
Indices: 13632897--13633039 Score: 70
Period size: 29 Copynumber: 4.9 Consensus size: 29
13632887 ACCCCAAATT
* *
13632897 TTCCT-AAAATTA-CTATTTTACCCTCAAAC
1 TTCCTAAAAATTATC-ATTTT-TCCTCGAAC
* *
13632926 TTCC-AAAAATTCT-ATTTTTAACCTCAAAC
1 TTCCTAAAAATTATCATTTTT--CCTCGAAC
* * *
13632955 TTTCCT-AAAATTACCATTTTACCCCCGAA-
1 -TTCCTAAAAATTATCATTTT-TCCTCGAAC
13632984 TGTCC-AAAAA-T-TCAATTTTTAACCTCGAAC
1 T-TCCTAAAAATTATC-ATTTTT--CCTCGAAC
13633014 TTCCTAAAAATTATCATTTTTCCTCG
1 TTCCTAAAAATTATCATTTTTCCTCG
13633040 GGCATCCAAA
Statistics
Matches: 87, Mismatches: 10, Indels: 34
0.66 0.08 0.26
Matches are distributed among these distances:
27 1 0.01
28 12 0.14
29 39 0.45
30 21 0.24
31 12 0.14
32 2 0.02
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.38
Consensus pattern (29 bp):
TTCCTAAAAATTATCATTTTTCCTCGAAC
Found at i:13637919 original size:23 final size:23
Alignment explanation
Indices: 13637889--13637961 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
13637879 ACTCGTGATA
13637889 GCATTACATACATGCATTTTTTC
1 GCATTACATACATGCATTTTTTC
13637912 GCATTACATACATGCATTTTTTC
1 GCATTACATACATGCATTTTTTC
* ** *
13637935 GCATTGCATATTTGCATATTTTC
1 GCATTACATACATGCATTTTTTC
13637958 GCAT
1 GCAT
13637962 AGCATATTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.44
Consensus pattern (23 bp):
GCATTACATACATGCATTTTTTC
Found at i:13637966 original size:23 final size:23
Alignment explanation
Indices: 13637901--13637985 Score: 100
Period size: 23 Copynumber: 3.7 Consensus size: 23
13637891 ATTACATACA
* **
13637901 TGCATTTTTTCGCATTA-CATACA
1 TGCATATTTTCGCA-TAGCATATT
* *
13637924 TGCATTTTTTCGCATTGCATATT
1 TGCATATTTTCGCATAGCATATT
13637947 TGCATATTTTCGCATAGCATATT
1 TGCATATTTTCGCATAGCATATT
*
13637970 TGTATATTTTCGCATA
1 TGCATATTTTCGCATA
13637986 ATAATTCTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
22 1 0.02
23 54 0.98
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.47
Consensus pattern (23 bp):
TGCATATTTTCGCATAGCATATT
Found at i:13639253 original size:30 final size:29
Alignment explanation
Indices: 13639211--13639281 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
13639201 AACTGTTCAG
* * * *
13639211 AAATTATA-TTTTGGCATCGAAACTTCTAA
1 AAATTACATTTTTGCCA-CGAAAATTCCAA
* *
13639240 AATTTACATTTTTGCCACTAAAATTCCAA
1 AAATTACATTTTTGCCACGAAAATTCCAA
13639269 AAATTACATTTTT
1 AAATTACATTTTT
13639282 ACCCCCGAGA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 27 0.79
30 7 0.21
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.41
Consensus pattern (29 bp):
AAATTACATTTTTGCCACGAAAATTCCAA
Found at i:13639496 original size:29 final size:29
Alignment explanation
Indices: 13639443--13639506 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
13639433 CAAAATTTTT
*
13639443 CCAAAATTACCATTTTACCTCCGAGAGTC
1 CCAAAATTACCATTTTACCTCCGAGAATC
*
13639472 CCAAAATTACCATTTTGCC-CTCGAGAATC
1 CCAAAATTACCATTTTACCTC-CGAGAATC
*
13639501 CAAAAA
1 CCAAAA
13639507 GTCTCATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 1 0.03
29 30 0.97
ACGTcount: A:0.36, C:0.30, G:0.09, T:0.25
Consensus pattern (29 bp):
CCAAAATTACCATTTTACCTCCGAGAATC
Found at i:13641131 original size:49 final size:48
Alignment explanation
Indices: 13641072--13641219 Score: 143
Period size: 49 Copynumber: 3.0 Consensus size: 48
13641062 AGCATTAGTC
*
13641072 ATCTAAAGCCGTAACGGTGGATCCAGTATCACGAAGATATGAAGGGAAAG
1 ATCT-AAGCCGCAACGGTGGATCCAGTA-CACGAAGATATGAAGGGAAAG
* ** * * * *
13641122 ATCTAAGCCGCAATGACGGACCCAGTACTACGAAGACAGGAAGAGAAAG
1 ATCTAAGCCGCAACGGTGGATCCAGTAC-ACGAAGATATGAAGGGAAAG
* * * * *
13641171 ATCTAAGCTGCGACAGTAGATCCAGTACCACGAAGATTTGAAGGGAAAG
1 ATCTAAGCCGCAACGGTGGATCCAGTA-CACGAAGATATGAAGGGAAAG
13641220 GTTTAAGTCG
Statistics
Matches: 76, Mismatches: 20, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
48 1 0.01
49 70 0.92
50 5 0.07
ACGTcount: A:0.39, C:0.19, G:0.27, T:0.16
Consensus pattern (48 bp):
ATCTAAGCCGCAACGGTGGATCCAGTACACGAAGATATGAAGGGAAAG
Found at i:13642249 original size:204 final size:206
Alignment explanation
Indices: 13641606--13642394 Score: 1166
Period size: 204 Copynumber: 3.9 Consensus size: 206
13641596 AGTATACCAA
* * * * * * * *
13641606 CTCAATGTGAACAGATCTTTGAACCCTAGCTTCCTGATGACATACTAAGAGGCAGGGCGAAGTAA
1 CTCAATGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
* *
13641671 TAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATAT
66 TAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATAC
* * * * * *
13641736 AGAGAAGC-GAATTGAAACAAGTGAGGCGGTCACCATCCTGATGAGATAC-AGAGAAGTATACCA
131 AGAGAAGCAG-ATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTA-AGAAGAAGACCA
* *
13641799 ACTC--A---AGG
194 AATCAAACCCACG
* *
13641807 CTCAAAGTGAGCAAATCTTCGAACCCTAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
1 CTCAATGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
* * *
13641872 TAAAATGGTTAGCTTCCTGATGATATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGGTAT
66 TAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATAC
* *
13641937 AGAGAAGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAA
131 AGAGAAGCAGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTAAGAAGAAGACCAAA
13642002 TCAAACCCACG
196 TCAAACCCACG
* *
13642013 CTCGATGTGAGCAAATCTTCGAACCC-AGCTTCCTGATGAGATATTGAGAAGCAGGTCGAAGCAA
1 CTCAATGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
* * *
13642077 TAAAATGGTTAGCTTCTTGATGAGATACTGAGAAGTGGACCAAATTTGTCTTCCTGATGAGGTAC
66 TAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATAC
* *
13642142 AAAGAAGC-GATTGAAACAAGCGATGCAGTCATCTTCCTGATGAGATACTAAGAAGAAGACCAAA
131 AGAGAAGCAGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTAAGAAGAAGACCAAA
13642206 TCAAACCCACG
196 TCAAACCCACG
*
13642217 CTCCATGTGAGCAAATCTTCGAACCC-AGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
1 CTCAATGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
*
13642281 TAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATAC
66 TAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATAC
**
13642346 AGAGAAGCAGATTGAAACAAATGATGCGGTCATCTTCCTGATGAGATAC
131 AGAGAAGCAGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATAC
13642395 AGAGAAGCAG
Statistics
Matches: 537, Mismatches: 43, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
201 173 0.32
202 1 0.00
203 1 0.00
204 195 0.36
205 141 0.26
206 26 0.05
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (206 bp):
CTCAATGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
TAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATAC
AGAGAAGCAGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTAAGAAGAAGACCAAA
TCAAACCCACG
Found at i:13642389 original size:409 final size:407
Alignment explanation
Indices: 13641610--13642401 Score: 1187
Period size: 409 Copynumber: 1.9 Consensus size: 407
13641600 TACCAACTCA
* * * *
13641610 ATGTGAACAGATCTTTGAACCCTAGCTTCCTGATGACATACTAAGAGGCAGGGCGAAGTAATAAA
1 ATGTGAACAAATCTTCGAACCCTAGCTTCCTGATGACATACTAAGAAGCAGGGCGAAGCAATAAA
* *
13641675 ATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATATAGAG
66 ATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATACAAAG
* * * * *
13641740 AAGCGAATTGAAACAAGTGAGGCGGTCACCATCCTGATGAGATACAGAGAAGTATACCAACTCAA
131 AAGCGAATTGAAACAAGCGAGGCAGTCACCATCCTGATGAGATACAGAGAAGAAGACCAAATCAA
*
13641805 GGCTCAAAGTGAGCAAATCTTCGAACCCTAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGC
196 CGCTCAAAGTGAGCAAATCTTCGAACCCTAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGC
* *
13641870 AATAAAATGGTTAGCTTCCTGATGATATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGGT
261 AATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGAT
* * * *
13641935 ATAGAGAAGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCA
326 ACAGAGAAGCAGATTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACAGAGAAGAAGACCA
13642000 AATCAAACCCACGCTCG
391 AATCAAACCCACGCTCG
* * * * *
13642017 ATGTGAGCAAATCTTCGAACCC-AGCTTCCTGATGAGATATTGAGAAGCAGGTCGAAGCAATAAA
1 ATGTGAACAAATCTTCGAACCCTAGCTTCCTGATGACATACTAAGAAGCAGGGCGAAGCAATAAA
* ** *
13642081 ATGGTTAGCTTCTTGATGAGATACTGAGAAGTGGACCAAATTTGTCTTCCTGATGAGGTACAAAG
66 ATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATACAAAG
* * *
13642146 AAGCG-ATTGAAACAAGCGATGCAGTCATCTTCCTGATGAGATACTA-AGAAGAAGACCAAATCA
131 AAGCGAATTGAAACAAGCGAGGCAGTCACCATCCTGATGAGATAC-AGAGAAGAAGACCAAATC-
* * *
13642209 AACCCACGCTCCATGTGAGCAAATCTTCGAACCC-AGCTTCCTGATGAGATACTGAGAAGCAGGT
194 -A---ACGCTCAAAGTGAGCAAATCTTCGAACCCTAACTTCCTGATGAGATACTGAGAAGCAGGT
*
13642273 CGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCTTGA
255 CGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGA
*
13642338 TGAGATACAGAGAAGCAGATTGAAACAAATGATGCGGTCATCTTCCTGATGAGATACAGAGAAG
320 TGAGATACAGAGAAGCAGATTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACAGAGAAG
13642402 CAGATTGAAA
Statistics
Matches: 344, Mismatches: 35, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
405 47 0.14
406 101 0.29
407 20 0.06
409 150 0.44
410 26 0.08
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (407 bp):
ATGTGAACAAATCTTCGAACCCTAGCTTCCTGATGACATACTAAGAAGCAGGGCGAAGCAATAAA
ATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATACAAAG
AAGCGAATTGAAACAAGCGAGGCAGTCACCATCCTGATGAGATACAGAGAAGAAGACCAAATCAA
CGCTCAAAGTGAGCAAATCTTCGAACCCTAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGC
AATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGAT
ACAGAGAAGCAGATTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACAGAGAAGAAGACCA
AATCAAACCCACGCTCG
Found at i:13642401 original size:49 final size:49
Alignment explanation
Indices: 13642329--13642450 Score: 226
Period size: 49 Copynumber: 2.5 Consensus size: 49
13642319 ACCAAATTCG
*
13642329 TCTTCTTGATGAGATACAGAGAAGCAGATTGAAACAAATGATGCGGTCA
1 TCTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAATGATGCGGTCA
13642378 TCTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAATGATGCGGTCA
1 TCTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAATGATGCGGTCA
*
13642427 TCTTCCTGATGAGATACTGAGAAG
1 TCTTCCTGATGAGATACAGAGAAG
13642451 AAGACCAAAT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.25
Consensus pattern (49 bp):
TCTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAATGATGCGGTCA
Found at i:13642486 original size:254 final size:255
Alignment explanation
Indices: 13642125--13642657 Score: 827
Period size: 256 Copynumber: 2.1 Consensus size: 255
13642115 ACCAAATTTG
* * *
13642125 TCTTCCTGATGAGGTACAAAGAAGCGATTGAAACAAGCGATGCAGTCATCTTCCTGATGAGATAC
1 TCTTCCTGATGAGATACAGAGAAGCGATTGAAACAAACGATGCAGTCATCTTCCTGATGAGATAC
13642190 TAAGAAGAAGACCAAATCAAACCCACGCTCCATGTGAGCAAATCTTCGAA-CCC-AGCTTCCTGA
66 TAAGAAGAAGACCAAATCAAACCCACGCTCCATGTGAGCAAATCTTCGAACCCCTAGCTTCCTGA
*
13642253 TGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTG
131 TGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACGGAGAAGTG
* * * * * **
13642318 GACCAAATTCGTCTTCTTGATGAGATACAGAGAAGCAGATTGAAACAAATGATGCGGTCA
196 AACCAAATCCGTCTTCCTGATGAAACACAGAGAAGCAGATCAAAACAAATGATGCGGTCA
* *
13642378 TCTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAATGATGCGGTCATCTTCCTGATGAGATA
1 TCTTCCTGATGAGATACAGAGAAGC-GATTGAAACAAACGATGCAGTCATCTTCCTGATGAGATA
* * * **
13642443 CTGAGAAGAAGACCAAATCAAACCGACGCTCGATGTGAGCAAATCTTCGAACCCCTAGCTTTTTG
65 CTAAGAAGAAGACCAAATCAAACCCACGCTCCATGTGAGCAAATCTTCGAACCCCTAGCTTCCTG
* *
13642508 ATGAGATACTGAGAAGCAGGTCTAAGCAATAAAGTGGTTAGCTTCCTGATGAGATACGGAGAAGT
130 ATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACGGAGAAGT
** * *
13642573 GAACCAAATCCGTCTTCCTGATGAAACACAGAGAAGTGGATCAAAACAAGTGATGTGGTCA
195 GAACCAAATCCGTCTTCCTGATGAAACACAGAGAAGCAGATCAAAACAAATGATGCGGTCA
13642634 TCTTCCTGATGAGATACAGAGAAG
1 TCTTCCTGATGAGATACAGAGAAG
13642658 TGGTTAGCCC
Statistics
Matches: 253, Mismatches: 24, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
253 23 0.09
254 84 0.33
255 3 0.01
256 143 0.57
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (255 bp):
TCTTCCTGATGAGATACAGAGAAGCGATTGAAACAAACGATGCAGTCATCTTCCTGATGAGATAC
TAAGAAGAAGACCAAATCAAACCCACGCTCCATGTGAGCAAATCTTCGAACCCCTAGCTTCCTGA
TGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACGGAGAAGTG
AACCAAATCCGTCTTCCTGATGAAACACAGAGAAGCAGATCAAAACAAATGATGCGGTCA
Found at i:13644294 original size:29 final size:29
Alignment explanation
Indices: 13644226--13644404 Score: 159
Period size: 29 Copynumber: 6.2 Consensus size: 29
13644216 AAGAATTTAT
* * *
13644226 ATTTTGGCCCTGAAACTTCTAAAAATTAC
1 ATTTTGACCCTCAAACTTCCAAAAATTAC
*
13644255 A-TTTGTACCCTCGAACTTCCAAAAATTAC
1 ATTTTG-ACCCTCAAACTTCCAAAAATTAC
* * * * *
13644284 ATTTTGCCCCT-AAAATTTCAAATATTCC
1 ATTTTGACCCTCAAACTTCCAAAAATTAC
*
13644312 ATTTTTGACCCTAAAACTTCCAAAAATTAC
1 A-TTTTGACCCTCAAACTTCCAAAAATTAC
* * *
13644342 ATTTTTACCCCCAAACTTCC-AAAATTCC
1 ATTTTGACCCTCAAACTTCCAAAAATTAC
* *
13644370 ATTTTTGACCC-GAAACTTTCAAAAATTACC
1 A-TTTTGACCCTCAAACTTCCAAAAATTA-C
13644400 ATTTT
1 ATTTT
13644405 ACTCTTGGAT
Statistics
Matches: 120, Mismatches: 23, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
28 32 0.27
29 68 0.57
30 20 0.17
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (29 bp):
ATTTTGACCCTCAAACTTCCAAAAATTAC
Found at i:13644330 original size:58 final size:56
Alignment explanation
Indices: 13644268--13644406 Score: 188
Period size: 58 Copynumber: 2.4 Consensus size: 56
13644258 TGTACCCTCG
* * *
13644268 AACTTCCAAAAATTACATTTTGCCCCTAAAATTTCAAATATTCCATTTTTGACCCTAA
1 AACTTCCAAAAATTACATTTTACCCCCAAAATTCCAAA-ATTCCATTTTTGACCC-AA
* *
13644326 AACTTCCAAAAATTACATTTTTACCCCCAAACTTCCAAAATTCCATTTTTGACCCGA
1 AACTTCCAAAAATTACA-TTTTACCCCCAAAATTCCAAAATTCCATTTTTGACCCAA
*
13644383 AACTTTCAAAAATTACCATTTTAC
1 AACTTCCAAAAATTA-CATTTTAC
13644407 TCTTGGATGT
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
57 21 0.29
58 35 0.48
59 17 0.23
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.35
Consensus pattern (56 bp):
AACTTCCAAAAATTACATTTTACCCCCAAAATTCCAAAATTCCATTTTTGACCCAA
Found at i:13644376 original size:87 final size:88
Alignment explanation
Indices: 13644227--13644404 Score: 234
Period size: 87 Copynumber: 2.0 Consensus size: 88
13644217 AGAATTTATA
* * * * * *
13644227 TTTTGGCCCTGAAACTTCTAAAAATTACATTTGTACCCTCGAACTTCCAAAAATTACATTTTGCC
1 TTTTGACCCTAAAACTTCCAAAAATTACATTTGTACCCCCAAACTTCCAAAAATTACATTTTGAC
* *
13644292 CCTAAAATTTCAAATATT-CCAT
66 CCGAAAATTTCAAAAATTACCAT
* *
13644314 TTTTGACCCTAAAACTTCCAAAAATTACATTTTTACCCCCAAACTTCC-AAAATTCCATTTTTGA
1 TTTTGACCCTAAAACTTCCAAAAATTACATTTGTACCCCCAAACTTCCAAAAATTACA-TTTTGA
*
13644378 CCCGAAACTTTCAAAAATTACCAT
65 CCCGAAAATTTCAAAAATTACCAT
13644402 TTT
1 TTT
13644405 ACTCTTGGAT
Statistics
Matches: 78, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
86 8 0.10
87 63 0.81
88 7 0.09
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.35
Consensus pattern (88 bp):
TTTTGACCCTAAAACTTCCAAAAATTACATTTGTACCCCCAAACTTCCAAAAATTACATTTTGAC
CCGAAAATTTCAAAAATTACCAT
Found at i:13644424 original size:58 final size:58
Alignment explanation
Indices: 13644302--13644550 Score: 170
Period size: 58 Copynumber: 4.3 Consensus size: 58
13644292 CCTAAAATTT
* * * * **
13644302 CAAATATTCCATTTTTGACCCTAAAACTTCCAAAAATTA-CATTTTTACCCCCAAACT-TC
1 CAAAAATTCCATTTTTGACCC-GAAACTTTCAAAAATTACCA-TTTTACCCTCGGA-TGTC
* *
13644361 C-AAAATTCCATTTTTGACCCGAAACTTTCAAAAATTACCATTTTACTCTTGGATGTC
1 CAAAAATTCCATTTTTGACCCGAAACTTTCAAAAATTACCATTTTACCCTCGGATGTC
* * * * **
13644418 CAAAAATTTCGTTTTTTATCCG-ATTTTTCCAAAAATTACCATTTTACCCTCGGATGT-
1 CAAAAATTCCATTTTTGACCCGAAACTTT-CAAAAATTACCATTTTACCCTCGGATGTC
** * * * * *
13644475 CTTAAATGT-CATTTTTAACCCCACAATTTTTCCAAAATTACCATTTTACCCCCGAGA-GTC
1 CAAAAAT-TCCATTTTTGACCCGA-AA-CTTTCAAAAATTACCATTTTACCCTCG-GATGTC
*
13644535 CCAAAATTACCATTTT
1 CAAAAATT-CCATTTT
13644551 GTCCTCGGGT
Statistics
Matches: 151, Mismatches: 27, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
56 1 0.01
57 44 0.29
58 63 0.42
59 26 0.17
60 11 0.07
61 6 0.04
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (58 bp):
CAAAAATTCCATTTTTGACCCGAAACTTTCAAAAATTACCATTTTACCCTCGGATGTC
Found at i:13672507 original size:23 final size:23
Alignment explanation
Indices: 13672481--13672542 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
13672471 TTAGAATTAT
*
13672481 TATGCGAAAATATGCAAATATTC
1 TATGCGAAAATATGCAAATATGC
*
13672504 TATGCGAAAATGTGCAAATATGC
1 TATGCGAAAATATGCAAATATGC
* *
13672527 AATGCGAAAAAATGCA
1 TATGCGAAAATATGCA
13672543 TGCATGTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.24
Consensus pattern (23 bp):
TATGCGAAAATATGCAAATATGC
Found at i:13687388 original size:23 final size:23
Alignment explanation
Indices: 13687358--13687430 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
13687348 ACTCGTGATA
13687358 GCATTACATACATGCATTTTTTC
1 GCATTACATACATGCATTTTTTC
13687381 GCATTACATACATGCATTTTTTC
1 GCATTACATACATGCATTTTTTC
* ** *
13687404 GCATTGCATATTTGCATATTTTC
1 GCATTACATACATGCATTTTTTC
13687427 GCAT
1 GCAT
13687431 AGCATATTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.44
Consensus pattern (23 bp):
GCATTACATACATGCATTTTTTC
Found at i:13687435 original size:23 final size:23
Alignment explanation
Indices: 13687370--13687454 Score: 100
Period size: 23 Copynumber: 3.7 Consensus size: 23
13687360 ATTACATACA
* **
13687370 TGCATTTTTTCGCATTA-CATACA
1 TGCATATTTTCGCA-TAGCATATT
* *
13687393 TGCATTTTTTCGCATTGCATATT
1 TGCATATTTTCGCATAGCATATT
13687416 TGCATATTTTCGCATAGCATATT
1 TGCATATTTTCGCATAGCATATT
*
13687439 TGTATATTTTCGCATA
1 TGCATATTTTCGCATA
13687455 ATAATTCTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
22 1 0.02
23 54 0.98
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.47
Consensus pattern (23 bp):
TGCATATTTTCGCATAGCATATT
Found at i:13688723 original size:30 final size:29
Alignment explanation
Indices: 13688681--13688751 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
13688671 AACTGTTCAG
* * * *
13688681 AAATTATA-TTTTGGCATCGAAACTTCTAA
1 AAATTACATTTTTGCCA-CGAAAATTCCAA
* *
13688710 AATTTACATTTTTGCCACTAAAATTCCAA
1 AAATTACATTTTTGCCACGAAAATTCCAA
13688739 AAATTACATTTTT
1 AAATTACATTTTT
13688752 ACCCCCGAGA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 27 0.79
30 7 0.21
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.41
Consensus pattern (29 bp):
AAATTACATTTTTGCCACGAAAATTCCAA
Found at i:13688829 original size:59 final size:58
Alignment explanation
Indices: 13688766--13688931 Score: 158
Period size: 59 Copynumber: 2.8 Consensus size: 58
13688756 CCGAGAATCT
* * *
13688766 AAAAATCCCATTTTTGACCCCGAAACTTT-CAAAAGTTACCATTTTACTCTCGGATGTCCA
1 AAAAAT-CCATTTTTGACCCCGAAATTTTCCAAAA-TTACCATTTTACCCTCGAATGT-CA
* * * *
13688826 AAAAATCCGTTTTTGATCCCG-ATTTTTCCAAAAATTTCCATTTTACCCTCGAATGTC-
1 AAAAATCCATTTTTGACCCCGAAATTTTCC-AAAATTACCATTTTACCCTCGAATGTCA
* * * *
13688883 TAAAATGTCATTTTTAACCCCAAAAGTTTTCCAAAATTACCATTTTACC
1 AAAAAT-CCATTTTTGACCCCGAAA-TTTTCCAAAATTACCATTTTACC
13688932 TCCGAGAGTC
Statistics
Matches: 86, Mismatches: 15, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
57 5 0.06
58 15 0.17
59 50 0.58
60 16 0.19
ACGTcount: A:0.32, C:0.25, G:0.08, T:0.36
Consensus pattern (58 bp):
AAAAATCCATTTTTGACCCCGAAATTTTCCAAAATTACCATTTTACCCTCGAATGTCA
Found at i:13688966 original size:29 final size:29
Alignment explanation
Indices: 13688913--13688976 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
13688903 CAAAAGTTTT
*
13688913 CCAAAATTACCATTTTACCTCCGAGAGTC
1 CCAAAATTACCATTTTACCTCCGAGAATC
*
13688942 CCAAAATTACCATTTTGCC-CTCGAGAATC
1 CCAAAATTACCATTTTACCTC-CGAGAATC
*
13688971 CAAAAA
1 CCAAAA
13688977 GTCTCATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 1 0.03
29 30 0.97
ACGTcount: A:0.36, C:0.30, G:0.09, T:0.25
Consensus pattern (29 bp):
CCAAAATTACCATTTTACCTCCGAGAATC
Found at i:13690688 original size:49 final size:48
Alignment explanation
Indices: 13690560--13690688 Score: 145
Period size: 49 Copynumber: 2.6 Consensus size: 48
13690550 CGTAACGGTG
*
13690560 GATCCAGTATCACGAAGATATGAAGGGAAAGATCTAAGCCACAATGAC
1 GATCCAGTACCACGAAGATATGAAGGGAAAGATCTAAGCCACAATGAC
* * * * *
13690608 GGACCCAGTACAACGAAGATAGGAAGAGAAAGATCTAAGCTGCGACAGT-A-
1 -GATCCAGTACCACGAAGATATGAAGGGAAAGATCTAAGC--C-ACAATGAC
*
13690658 GATCCAGTACCACGAAGATTTGAAGGGAAAG
1 GATCCAGTACCACGAAGATATGAAGGGAAAG
13690689 GTTTAAGTCG
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
49 60 0.91
51 2 0.03
52 4 0.06
ACGTcount: A:0.41, C:0.18, G:0.26, T:0.15
Consensus pattern (48 bp):
GATCCAGTACCACGAAGATATGAAGGGAAAGATCTAAGCCACAATGAC
Found at i:13691588 original size:205 final size:206
Alignment explanation
Indices: 13691079--13692077 Score: 1402
Period size: 204 Copynumber: 4.9 Consensus size: 206
13691069 TACCAACTCA
* * * * * * * *
13691079 ATGTGAACAGATCTTTGAACCCTAGCTTCCTGATGACATACTAAGAGGCAGGGCGAAGTAATAAA
1 ATGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAA
* * *
13691144 ATGGTTAGCTTCCTGATGAGATACTGAGAAATGGACCAAATTCATCTTCCTGATGAGATATAGAG
66 ATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAG
* * * * * * * *
13691209 AAGCGAATTGAAACAAGTGAGGCGGTCACCATCCTGATGAGATACAGAGAAGTATACCAACTC--
131 AAGCGGATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAA
* *
13691272 A---AGGCTCA
196 ACCCACGCTCG
** *
13691280 AACTGAGCAAATCTTCGAACCCTAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAA
1 ATGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAA
* * *
13691345 ATGGTTAGCTTCCTGATGATATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGGTATAGAG
66 ATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAG
*
13691410 AAGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAA
131 AAGCGGATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAA
13691475 ACCCACGCTCG
196 ACCCACGCTCG
*
13691486 ATGTGAGCAAATCTTCGAACCC-AGCTTCCTGATGAGATATTGAGAAGCAGGTCGAAGCAATAAA
1 ATGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAA
* * * * *
13691550 ATGGTTAGCTTCTTGATGAGATACAGAGAAGTGGACCAAATTTGTCTTCCTGATGAGGTACAAAG
66 ATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAG
* * * *
13691615 AAAC-GATTGAAACAAGCGATGCAGTCATCTTCCTGATGAGATACTAAGAAGAAGACCAAATCAA
131 AAGCGGATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAA
*
13691679 ACCCACGCTCC
196 ACCCACGCTCG
*
13691690 ATGTAAGCAAATCTTCGAACCC-AGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAA
1 ATGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAA
*
13691754 ATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATACAGAG
66 ATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAG
* *
13691819 AAGCAGATTGAAACAAATGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAA
131 AAGCGGATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAA
*
13691884 ACCGACGCTCG
196 ACCCACGCTCG
** *
13691895 ATGTGAGCAAATCTTCGAACCCCTAGCTTTTTGATGAGATACTGAGAAGCAGGTCTAAGCAATAA
1 ATGTGAGCAAATCTTCGAA-CCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAA
* * * * * *
13691960 AGTGGTTAGCTTCCTGATGAGATACGGAGAAGTGAACCAATTTCGTCTTCCTGATGAAACACAGA
65 AATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGA
* ** * * *
13692025 GAAGTGGATCAAAATAAGTGATGTGGTCATCTTCCTGATGAGATACAGAGAAG
130 GAAGCGGATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAG
13692078 TGGTTAGCCC
Statistics
Matches: 716, Mismatches: 74, Indels: 10
0.89 0.09 0.01
Matches are distributed among these distances:
201 169 0.24
203 1 0.00
204 192 0.27
205 185 0.26
206 28 0.04
207 141 0.20
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (206 bp):
ATGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAA
ATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAG
AAGCGGATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAA
ACCCACGCTCG
Found at i:13691858 original size:409 final size:407
Alignment explanation
Indices: 13691079--13692016 Score: 1355
Period size: 409 Copynumber: 2.3 Consensus size: 407
13691069 TACCAACTCA
* * * * * * * *
13691079 ATGTGAACAGATCTTTGAACCCTAGCTTCCTGATGACATACTAAGAGGCAGGGCGAAGTAATAAA
1 ATGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAA
* * ** * *
13691144 ATGGTTAGCTTCCTGATGAGATACTGAGAAATGGACCAAATTCATCTTCCTGATGAGATATAGAG
66 ATGGTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTTGTCTTCCTGATGAGATACAAAG
* * * * * *
13691209 AAGCGAATTGAAACAAGTGAGGCGGTCACCATCCTGATGAGATACAGAGAAGTATACCAACTCAA
131 AAACGAATTGAAACAAGCGAGGCAGTCACCATCCTGATGAGATACAGAGAAGAAGACCAAATCAA
* *
13691274 GGCTCAAACTGAGCAAATCTTCGAACCCTAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGC
196 CGCTCAAACTAAGCAAATCTTCGAACCCTAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGC
* *
13691339 AATAAAATGGTTAGCTTCCTGATGATATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGGT
261 AATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGAT
* * *
13691404 ATAGAGAAGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCA
326 ACAGAGAAGCAGATTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCA
13691469 AATCAAACCCACGCTCG
391 AATCAAACCCACGCTCG
*
13691486 ATGTGAGCAAATCTTCGAACCC-AGCTTCCTGATGAGATATTGAGAAGCAGGTCGAAGCAATAAA
1 ATGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAA
* *
13691550 ATGGTTAGCTTCTTGATGAGATACAGAGAAGTGGACCAAATTTGTCTTCCTGATGAGGTACAAAG
66 ATGGTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTTGTCTTCCTGATGAGATACAAAG
* * *
13691615 AAACG-ATTGAAACAAGCGATGCAGTCATCTTCCTGATGAGATACTA-AGAAGAAGACCAAATCA
131 AAACGAATTGAAACAAGCGAGGCAGTCACCATCCTGATGAGATAC-AGAGAAGAAGACCAAATC-
* ** *
13691678 AACCCACGCTCCATGTAAGCAAATCTTCGAACCC-AGCTTCCTGATGAGATACTGAGAAGCAGGT
194 -A---ACGCTCAAACTAAGCAAATCTTCGAACCCTAACTTCCTGATGAGATACTGAGAAGCAGGT
*
13691742 CGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCTTGA
255 CGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGA
*
13691807 TGAGATACAGAGAAGCAGATTGAAACAAATGATGCGGTCATCTTCCTGATGAGATACTGAGAAGA
320 TGAGATACAGAGAAGCAGATTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACTGAGAAGA
*
13691872 AGACCAAATCAAACCGACGCTCG
385 AGACCAAATCAAACCCACGCTCG
** *
13691895 ATGTGAGCAAATCTTCGAACCCCTAGCTTTTTGATGAGATACTGAGAAGCAGGTCTAAGCAATAA
1 ATGTGAGCAAATCTTCGAA-CCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAA
* * *
13691960 AGTGGTTAGCTTCCTGATGAGATACGGAGAAGTGAACC-AATTTCGTCTTCCTGATGA
65 AATGGTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTT-GTCTTCCTGATGA
13692017 AACACAGAGA
Statistics
Matches: 474, Mismatches: 48, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
405 47 0.10
406 98 0.21
407 20 0.04
409 193 0.41
410 32 0.07
411 84 0.18
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (407 bp):
ATGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAA
ATGGTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTTGTCTTCCTGATGAGATACAAAG
AAACGAATTGAAACAAGCGAGGCAGTCACCATCCTGATGAGATACAGAGAAGAAGACCAAATCAA
CGCTCAAACTAAGCAAATCTTCGAACCCTAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGC
AATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGAT
ACAGAGAAGCAGATTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCA
AATCAAACCCACGCTCG
Found at i:13693758 original size:29 final size:28
Alignment explanation
Indices: 13693639--13693758 Score: 102
Period size: 29 Copynumber: 4.2 Consensus size: 28
13693629 AAGAATTTAT
*
13693639 ATTTTGGCCCTGAAACTTCTAAAAATTAC
1 ATTTTGACCCTGAAACTTC-AAAAATTAC
13693668 A-TTTGTACCCTCG-AACTTCCAAAAATTAC
1 ATTTTG-ACCCT-GAAACTT-CAAAAATTAC
* * * * *
13693697 A-TTTGCCCCTAAAATTTCAAATATTCC
1 ATTTTGACCCTGAAACTTCAAAAATTAC
*
13693724 ATTTTTGACCCTGAAAACTTCAAAAAATAC
1 A-TTTTGACCCTG-AAACTTCAAAAATTAC
13693754 ATTTT
1 ATTTT
13693759 TATACCCCAA
Statistics
Matches: 72, Mismatches: 12, Indels: 14
0.73 0.12 0.14
Matches are distributed among these distances:
27 9 0.12
28 12 0.17
29 36 0.50
30 15 0.21
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.35
Consensus pattern (28 bp):
ATTTTGACCCTGAAACTTCAAAAATTAC
Found at i:13701671 original size:28 final size:29
Alignment explanation
Indices: 13701622--13701799 Score: 103
Period size: 29 Copynumber: 6.1 Consensus size: 29
13701612 TGACATTTAG
* *
13701622 TTTTGAAAGTTT-CGGGTCAAAAATG-AAA
1 TTTTGGAAGTTTGAGGGT-AAAAATGTAAA
*
13701650 TTTTGGAAGTTTGGGGGTAAAAATGTAATGTA
1 TTTTGGAAGTTTGAGGGTAAAAATGTAA---A
* * *
13701682 ATTTGGAAGTTTTAGGGTCAAAAATG-GAA
1 TTTTGGAAGTTTGAGGGT-AAAAATGTAAA
* * ** *
13701711 TATTT-GAAATTTTAGGGGCAAAATGTAAT
1 T-TTTGGAAGTTTGAGGGTAAAAATGTAAA
* * *
13701740 TTTTGGAAGTTCGAGGGTACAAATGTAAT
1 TTTTGGAAGTTTGAGGGTAAAAATGTAAA
* * ** *
13701769 TTTTAGAAGTTTCAGGGCCAAAATATAAA
1 TTTTGGAAGTTTGAGGGTAAAAATGTAAA
13701798 TT
1 TT
13701800 CTTGACAGTT
Statistics
Matches: 115, Mismatches: 26, Indels: 17
0.73 0.16 0.11
Matches are distributed among these distances:
28 27 0.23
29 61 0.53
30 3 0.03
32 17 0.15
33 7 0.06
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (29 bp):
TTTTGGAAGTTTGAGGGTAAAAATGTAAA
Found at i:13701700 original size:61 final size:58
Alignment explanation
Indices: 13701622--13701750 Score: 145
Period size: 61 Copynumber: 2.2 Consensus size: 58
13701612 TGACATTTAG
* * * *
13701622 TTTTGAAAG-TTTCGGGTCAAAAATGAAAT-TTTGGAAGTTTGGGGGTAAAAATGTAAT
1 TTTTGGAAGTTTTAGGGTCAAAAATGAAATATTTGAAAGTTTAGGGG-AAAAATGTAAT
* * *
13701679 GTAATTTGGAAGTTTTAGGGTCAAAAATGGAATATTTGAAATTTTAGGGGCAAAATGTAAT
1 -T--TTTGGAAGTTTTAGGGTCAAAAATGAAATATTTGAAAGTTTAGGGGAAAAATGTAAT
13701740 TTTTGGAAGTT
1 TTTTGGAAGTT
13701751 CGAGGGTACA
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
58 11 0.18
60 8 0.13
61 28 0.47
62 13 0.22
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (58 bp):
TTTTGGAAGTTTTAGGGTCAAAAATGAAATATTTGAAAGTTTAGGGGAAAAATGTAAT
Done.