Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 46 of 170
Found at i:13468535 original size:80 final size:79
Alignment explanation
Indices: 13468394--13468619 Score: 290
Period size: 80 Copynumber: 2.8 Consensus size: 79
13468384 CCGTTTAACG
* * **
13468394 ATTTTATTCCAAATTTTGTTTTATTTCCAAAAATGAGTAAAATAAAATCTGTTTCCAGATTGATT
1 ATTTTATTCCAAATTTTGTTTTATTTCCAAAAACGAGTAAAATAAAATCCGTTTCGGGATTGATT
13468459 CCCACCATTCAACA
66 CCCACCATTCAACA
* * * *
13468473 ATTTTGTTCCACATTTTGTTTTATTTTTCAAAAACGAGTAAAATAAAATCCGTTTTGGGATTGAT
1 ATTTTATTCCAAATTTTGTTTTA-TTTCCAAAAACGAGTAAAATAAAATCCGTTTCGGGATTGAT
* * * **
13468538 TCTCGCCGTTCAATG
65 TCCCACCATTCAACA
* * * *
13468553 ATTTTATTCTAAATTTTGTTTTATTTCCAAAAACGAGTAAAATAAAATTCATTTCGGGATTAATT
1 ATTTTATTCCAAATTTTGTTTTATTTCCAAAAACGAGTAAAATAAAATCCGTTTCGGGATTGATT
13468618 CC
66 CC
13468620 TGCCGTTCAA
Statistics
Matches: 124, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
79 59 0.48
80 65 0.52
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.42
Consensus pattern (79 bp):
ATTTTATTCCAAATTTTGTTTTATTTCCAAAAACGAGTAAAATAAAATCCGTTTCGGGATTGATT
CCCACCATTCAACA
Found at i:13468639 original size:79 final size:79
Alignment explanation
Indices: 13468383--13468636 Score: 305
Period size: 79 Copynumber: 3.2 Consensus size: 79
13468373 AGTGACTCCC
* *
13468383 GCCGTTTAACGATTTTATTCCAAATTTTGTTTTATTTCCAAAAATGAGTAAAATAAAA-TCTGTT
1 GCCGTTCAACGATTTTATTCCAAATTTTGTTTTATTTCCAAAAACGAGTAAAATAAAATTC-GTT
** *
13468447 TCCAGATTGATTCCC
65 TCGGGATTGATTCCT
* * * * * * *
13468462 ACCATTCAACAATTTTGTTCCACATTTTGTTTTATTTTTCAAAAACGAGTAAAATAAAATCCGTT
1 GCCGTTCAACGATTTTATTCCAAATTTTGTTTTA-TTTCCAAAAACGAGTAAAATAAAATTCGTT
*
13468527 TTGGGATTGATT-CT
65 TCGGGATTGATTCCT
* * *
13468541 CGCCGTTCAATGATTTTATTCTAAATTTTGTTTTATTTCCAAAAACGAGTAAAATAAAATTCATT
1 -GCCGTTCAACGATTTTATTCCAAATTTTGTTTTATTTCCAAAAACGAGTAAAATAAAATTCGTT
*
13468606 TCGGGATTAATTCCT
65 TCGGGATTGATTCCT
13468621 GCCGTTCAACGGATTT
1 GCCGTTCAAC-GATTT
13468637 ATTACATTTT
Statistics
Matches: 144, Mismatches: 26, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
79 75 0.52
80 68 0.47
81 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (79 bp):
GCCGTTCAACGATTTTATTCCAAATTTTGTTTTATTTCCAAAAACGAGTAAAATAAAATTCGTTT
CGGGATTGATTCCT
Found at i:13468776 original size:84 final size:84
Alignment explanation
Indices: 13468604--13469076 Score: 592
Period size: 84 Copynumber: 5.7 Consensus size: 84
13468594 ATAAAATTCA
* * * * ** * *
13468604 TTTCGGGATTAATTCCTGCCGTTCAAC-GGA-TTTATTACATTTTAATTTTGTTGCCAAAAATGA
1 TTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTGATTTT-ATTTTGTTTCC--AAATTA
13468667 GAAATTAAATTAAATAAAATCTG
63 G-AATTAAATTAAATAAAATCTG
* *
13468690 TTTCAGAATTTATTCCCGCCGTTTAACAAGATTTTATTTGATTTTATTTTGTTTCCAAATTAGAA
1 TTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTGATTTTATTTTGTTTCCAAATTAGAA
*
13468755 -TATAATTAAATAAAACCTG
66 TTA-AATTAAATAAAATCTG
13468774 TTTCGGGATTTATT----CC-TTTAACAAGATTTTATTTGATTTTATTTTGTTTCCAAATTAGAA
1 TTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTGATTTTATTTTGTTTCCAAATTAGAA
13468834 -TATAATTAAAT---ATCTG
66 TTA-AATTAAATAAAATCTG
* * *
13468850 TTTCGGGATTTATTCCTGCCGTTTAATAAGATTTTATTTGATTTTATTTTGTTTCCAAATTTGAA
1 TTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTGATTTTATTTTGTTTCCAAATTAGAA
13468915 TTAAATTAAATAAAATCTG
66 TTAAATTAAATAAAATCTG
* * ** *
13468934 TTTTGAGATTTATTCCCATCGTTTAACAAGATTTTATTTGATTTTATTTTGTTTCCAAATTTGAA
1 TTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTGATTTTATTTTGTTTCCAAATTAGAA
*
13468999 TTGAATTAAATAAAATCTG
66 TTAAATTAAATAAAATCTG
* * * *
13469018 TTTCGGGATTTATTCCCGCCGTTGAACAAGATTTTATTCGATATTGTTTTGTTTCCAAA
1 TTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTGATTTTATTTTGTTTCCAAA
13469077 CAAAAACGTA
Statistics
Matches: 344, Mismatches: 31, Indels: 26
0.86 0.08 0.06
Matches are distributed among these distances:
76 18 0.05
79 55 0.16
80 4 0.01
81 50 0.15
82 2 0.01
83 2 0.01
84 162 0.47
85 6 0.02
86 22 0.06
87 12 0.03
88 11 0.03
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.46
Consensus pattern (84 bp):
TTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTGATTTTATTTTGTTTCCAAATTAGAA
TTAAATTAAATAAAATCTG
Found at i:13468852 original size:160 final size:162
Alignment explanation
Indices: 13468668--13469076 Score: 578
Period size: 160 Copynumber: 2.5 Consensus size: 162
13468658 CAAAAATGAG
* * *
13468668 AAATTA-AATTAAATAAA-ATCTGTTTCAGAATTTATTCCCGCCGTTTAACAAGATTTTATTTGA
1 AAATTAGAATTAATTAAATATCTGTTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTGA
*
13468731 TTTTATTTTGTTTCCAAATTAGAA-TATAATTAAATAAAACCTGTTTCGGGATTTATT-C-C-TT
66 TTTTATTTTGTTTCCAAATTAGAATTA-AATTAAATAAAACCTGTTTCGAGATTTATTCCACGTT
13468792 TAACAAGATTTTATTTGATTTTATTTTGTTTCC
130 TAACAAGATTTTATTTGATTTTATTTTGTTTCC
* *
13468825 AAATTAGAATATAATTAAATATCTGTTTCGGGATTTATTCCTGCCGTTTAATAAGATTTTATTTG
1 AAATTAGAAT-TAATTAAATATCTGTTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTG
* * *
13468890 ATTTTATTTTGTTTCCAAATTTGAATTAAATTAAATAAAATCTGTTTTGAGATTTATTCCCATCG
65 ATTTTATTTTGTTTCCAAATTAGAATTAAATTAAATAAAACCTGTTTCGAGATTTATT-CCA-CG
13468955 TTTAACAAGATTTTATTTGATTTTATTTTGTTTCC
128 TTTAACAAGATTTTATTTGATTTTATTTTGTTTCC
* *
13468990 AAATTTGAATTGAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTGAACAAGATTTTAT
1 AAATTAGAATT-AATTAAAT---ATCTGTTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTAT
* * *
13469055 TCGATATTGTTTTGTTTCCAAA
62 TTGATTTTATTTTGTTTCCAAA
13469077 CAAAAACGTA
Statistics
Matches: 223, Mismatches: 16, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
157 6 0.03
158 3 0.01
159 7 0.03
160 92 0.41
161 2 0.01
162 1 0.00
164 2 0.01
165 52 0.23
168 58 0.26
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.46
Consensus pattern (162 bp):
AAATTAGAATTAATTAAATATCTGTTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTGA
TTTTATTTTGTTTCCAAATTAGAATTAAATTAAATAAAACCTGTTTCGAGATTTATTCCACGTTT
AACAAGATTTTATTTGATTTTATTTTGTTTCC
Found at i:13474661 original size:13 final size:13
Alignment explanation
Indices: 13474643--13474669 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13474633 CCACCTTAGA
13474643 AATCCAACCATAT
1 AATCCAACCATAT
13474656 AATCCAACCATAT
1 AATCCAACCATAT
13474669 A
1 A
13474670 CTTTTATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (13 bp):
AATCCAACCATAT
Found at i:13475549 original size:16 final size:16
Alignment explanation
Indices: 13475528--13475573 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
13475518 TTATTAAATT
13475528 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
13475544 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
13475559 AT-TATGTTAAATTAT
1 ATATAT-TTTAATTAT
13475574 CTATATTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.44
16 12 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:13475582 original size:107 final size:108
Alignment explanation
Indices: 13475468--13475678 Score: 388
Period size: 107 Copynumber: 2.0 Consensus size: 108
13475458 TATAGTATTA
* * *
13475468 TATATTATGATTTTAGTAAATTCATATAAGAATGTTGATTATTAAGAATTTTATTAAATTATATA
1 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
13475533 TTTTAATTATAATATATTTAATAATAATTATG-TTAAATTATC
66 TTTTAATTATAATATATTTAATAATAATTATGTTTAAATTATC
13475575 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
1 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
13475640 TTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
66 TTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
13475679 ATGATTAAAT
Statistics
Matches: 100, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
107 94 0.94
108 6 0.06
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.49
Consensus pattern (108 bp):
TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
TTTTAATTATAATATATTTAATAATAATTATGTTTAAATTATC
Found at i:13475656 original size:16 final size:16
Alignment explanation
Indices: 13475635--13475676 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
13475625 TTATTAAATT
*
13475635 ATATATTTTAATTATA
1 ATATATTTTAATAATA
13475651 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
13475666 AT-TATGTTTAA
1 ATATAT-TTTAA
13475677 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:13475661 original size:15 final size:15
Alignment explanation
Indices: 13475626--13475667 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
13475616 TTAAGAATTT
*
13475626 TATTAAATTAT-ATA
1 TATTTAATTATAATA
13475640 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
13475654 TATTTAATAATAAT
1 TATTTAATTATAAT
13475668 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:13475913 original size:16 final size:16
Alignment explanation
Indices: 13475892--13475943 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
13475882 GATTTGTTAT
13475892 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
13475908 TACACCTCCAATCCAA
1 TACACCTCTAATCCAA
13475924 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
13475940 TACA
1 TACA
13475944 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.23
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:13484060 original size:23 final size:23
Alignment explanation
Indices: 13484020--13484063 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
13484010 TTCTTACTGC
*
13484020 AGTAATTTTCGGGGTATTACAGT
1 AGTAATTTTCGGGATATTACAGT
* *
13484043 AGTAATTTTTGGTATATTACA
1 AGTAATTTTCGGGATATTACA
13484064 TGCGCCTAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (23 bp):
AGTAATTTTCGGGATATTACAGT
Found at i:13492745 original size:23 final size:23
Alignment explanation
Indices: 13492700--13492747 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
13492690 CAAACTAGAA
*
13492700 AAAAAATAAACAAATGCTGAATT
1 AAAAAATAAACAAATGCTAAATT
*
13492723 AAAAAA-AAACAAGTGCATAAATT
1 AAAAAATAAACAAATGC-TAAATT
13492746 AA
1 AA
13492748 GAATTATTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.65, C:0.08, G:0.08, T:0.19
Consensus pattern (23 bp):
AAAAAATAAACAAATGCTAAATT
Found at i:13493774 original size:6 final size:6
Alignment explanation
Indices: 13493765--13493802 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
13493755 TAAGTATAAG
*
13493765 AAAATA AAAAGA AAAAGA AAAAG- AAAAGA AAAAGA AAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAA
13493803 CAAATAAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 5 0.17
6 25 0.83
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (6 bp):
AAAAGA
Found at i:13493778 original size:11 final size:11
Alignment explanation
Indices: 13493762--13493802 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
13493752 AAATAAGTAT
*
13493762 AAGAAAATAAA
1 AAGAAAAGAAA
13493773 AAGAAAAAGAAA
1 AAG-AAAAGAAA
13493785 AAGAAAAGAAA
1 AAGAAAAGAAA
13493796 AAGAAAA
1 AAGAAAA
13493803 CAAATAAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (11 bp):
AAGAAAAGAAA
Found at i:13493784 original size:17 final size:17
Alignment explanation
Indices: 13493762--13493802 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
13493752 AAATAAGTAT
13493762 AAGAAAATA-AAAAGAAA
1 AAGAAAA-AGAAAAGAAA
13493779 AAGAAAAAGAAAAGAAA
1 AAGAAAAAGAAAAGAAA
13493796 AAGAAAA
1 AAGAAAA
13493803 CAAATAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 1 0.04
17 22 0.96
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (17 bp):
AAGAAAAAGAAAAGAAA
Found at i:13496200 original size:85 final size:84
Alignment explanation
Indices: 13496058--13496236 Score: 279
Period size: 85 Copynumber: 2.1 Consensus size: 84
13496048 GTTACTCGGA
*
13496058 GGATTCAGCACTTAGCAACCACCTTAAATTCAGTGATGCGGGGAATCAGCACATAGCAACCCCTT
1 GGATTCAGCACTTAGCAACCACCTTAAATTCAGTGATACGGGGAATCAGCACATAGCAACCCCTT
*
13496123 TCACAGTAAAAAATACGGT
66 TCACAATAAAAAATACGGT
*
13496142 GGATTCAGCACTTAGCAACCACCTTTATATTCAGT-AGTACGGGGAATCAGCACATAGCAACCCC
1 GGATTCAGCACTTAGCAACCACC-TTAAATTCAGTGA-TACGGGGAATCAGCACATAGCAACCCC
* *
13496206 TTTCACAATCAAAGATACGGT
64 TTTCACAATAAAAAATACGGT
*
13496227 GGAATCAGCA
1 GGATTCAGCA
13496237 GCAACCCCCT
Statistics
Matches: 87, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
84 24 0.28
85 63 0.72
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (84 bp):
GGATTCAGCACTTAGCAACCACCTTAAATTCAGTGATACGGGGAATCAGCACATAGCAACCCCTT
TCACAATAAAAAATACGGT
Found at i:13496225 original size:42 final size:43
Alignment explanation
Indices: 13496099--13496236 Score: 165
Period size: 43 Copynumber: 3.2 Consensus size: 43
13496089 AGTGATGCGG
* * *
13496099 GGAATCAGCACATAGCAACCCCTTTCACAGTAAAAAATACGGT
1 GGAATCAGCACATAGCAACCCCTTTCACAATCAAAGATACGGT
* * * * *
13496142 GGATTCAGCACTTAGCAACCACCTTT-ATATTCAGTAG-TACGG-
1 GGAATCAGCACATAGCAACC-CCTTTCACAATCA-AAGATACGGT
13496184 GGAATCAGCACATAGCAACCCCTTTCACAATCAAAGATACGGT
1 GGAATCAGCACATAGCAACCCCTTTCACAATCAAAGATACGGT
13496227 GGAATCAGCA
1 GGAATCAGCA
13496237 GCAACCCCCT
Statistics
Matches: 78, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
41 7 0.09
42 28 0.36
43 37 0.47
44 6 0.08
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (43 bp):
GGAATCAGCACATAGCAACCCCTTTCACAATCAAAGATACGGT
Found at i:13503347 original size:158 final size:158
Alignment explanation
Indices: 13503058--13503354 Score: 459
Period size: 158 Copynumber: 1.9 Consensus size: 158
13503048 CCATCATCCA
* * ***
13503058 TTTTTTTCTTCTTTGAAGATGTGAAACCATCTTAGTTTGGCTTCGGTGGTTGCGATTGTGTAAAT
1 TTTTTTTCTTCTTTGAAAATATGAAACCATCTTAGTTTGGCTTCAACGGTTGCGATTGTGTAAAT
* * *
13503123 GAGACATCCATCTCATCCAAGGAAACATCATCTTCGCATCCACGGTAATTGTTTCTTTCTTCAAG
66 GAAACATCCATCTCATCCAAGGAAACATCATCTTCGCATCCACGGTAATTGTTTCCTGCTTCAAG
13503188 ATTATTTGCAATAGTTACATCAAAAATC
131 ATTATTTGCAATAGTTACATCAAAAATC
* * * **
13503216 TTTTTTTCTTCTTTGAAAATATGGAACCATCTTGGTTTGGCTTCAACGGTTGTGATTGTGTAGTT
1 TTTTTTTCTTCTTTGAAAATATGAAACCATCTTAGTTTGGCTTCAACGGTTGCGATTGTGTAAAT
* *
13503281 GAAACATCCATCTCATCCAAGGAAACATCATCTTCGCATCCATGGTAATTGTTTCCTGCTTTAAG
66 GAAACATCCATCTCATCCAAGGAAACATCATCTTCGCATCCACGGTAATTGTTTCCTGCTTCAAG
13503346 ATTATTTGC
131 ATTATTTGC
13503355 TGTAGCTACA
Statistics
Matches: 124, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
158 124 1.00
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (158 bp):
TTTTTTTCTTCTTTGAAAATATGAAACCATCTTAGTTTGGCTTCAACGGTTGCGATTGTGTAAAT
GAAACATCCATCTCATCCAAGGAAACATCATCTTCGCATCCACGGTAATTGTTTCCTGCTTCAAG
ATTATTTGCAATAGTTACATCAAAAATC
Found at i:13509146 original size:26 final size:26
Alignment explanation
Indices: 13509081--13509147 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
13509071 GTATTTGACA
*
13509081 AATTAAATTATAAATATTTCTATTTAT
1 AATT-AATTATATATATTTCTATTTAT
* * *
13509108 ATTTTATTTTATATATGTT-TATTTAT
1 AATTAATTATATATAT-TTCTATTTAT
13509134 AATTAATTATATAT
1 AATTAATTATATAT
13509148 TCGCTAACGT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
26 27 0.84
27 5 0.16
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (26 bp):
AATTAATTATATATATTTCTATTTAT
Found at i:13509610 original size:79 final size:79
Alignment explanation
Indices: 13509521--13509825 Score: 368
Period size: 79 Copynumber: 3.9 Consensus size: 79
13509511 AAAGGTAAAC
* * *
13509521 AAAATTCGTTTTGGGATTGGTTC-CTACCGTTCAATGATTTTATTCCAAATTTTGTTTTATTTCC
1 AAAATCCGTTTTGGGATTGATTCTC-ACCGTTCAACGATTTTATTCCAAATTTTGTTTTATTTCC
13509585 AAAAACTAGTAAAAT
65 AAAAACTAGTAAAAT
* * * *
13509600 AAAATCCGTTTCGGAATTGGTT-TC-CGTCGTTCAACGATTTTATTTCAAATTTTGTTTTATTTC
1 AAAATCCGTTTTGGGATTGATTCTCAC--CGTTCAACGATTTTATTCCAAATTTTGTTTTATTTC
*
13509663 CAAAAACAAGTAAAAT
64 CAAAAACTAGTAAAAT
** * * * * *
13509679 AAAATTTGTTTAGGGATTGATTTTCGCCGTTCAACAATTTTATTCCAAATTTTGTTTTATTGCCA
1 AAAATCCGTTTTGGGATTGATTCTCACCGTTCAACGATTTTATTCCAAATTTTGTTTTATTTCCA
13509744 AAAA-TGAGTAAAAT
66 AAAACT-AGTAAAAT
* * *
13509758 AAAATCCATTTTAGGATTGATTCTCACCATTCAACGATTTTATTCC-AATTTTGATTTTATTTCC
1 AAAATCCGTTTTGGGATTGATTCTCACCGTTCAACGATTTTATTCCAAATTTTG-TTTTATTTCC
13509822 AAAA
65 AAAA
13509826 CTGAGTATTA
Statistics
Matches: 194, Mismatches: 25, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
77 1 0.01
78 7 0.04
79 183 0.94
80 2 0.01
81 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (79 bp):
AAAATCCGTTTTGGGATTGATTCTCACCGTTCAACGATTTTATTCCAAATTTTGTTTTATTTCCA
AAAACTAGTAAAAT
Found at i:13509964 original size:86 final size:87
Alignment explanation
Indices: 13509766--13510049 Score: 342
Period size: 86 Copynumber: 3.3 Consensus size: 87
13509756 ATAAAATCCA
* * * * * * *
13509766 TTTT-AGGATTGATTCTCACCATTCAAC-GATTTTATTCCAATTTTGATTTTATTTCCAAAACTG
1 TTTTCAGGATTTATTCCCACCGTTCAACGGA-TTTATTAC-ATTTTGATTTTGTTGCCAAAAATG
* *
13509829 AG-TATTAAAATTAATTTAAAATCT
64 AGAAATTAAAATTAA-TTAAAATAT
* * * *
13509853 GTTTCGGGATTTATTCCCGCCGTTCAACGGATTTATTACATTTTGATTTTGTTGCAAAAAATGAG
1 TTTTCAGGATTTATTCCCACCGTTCAACGGATTTATTACATTTTGATTTTGTTGCCAAAAATGAG
* *
13509918 AAATTAAAATTAAAT-AAATTT
66 AAATTAAAATTAATTAAAATAT
*
13509939 TTTTCAGGATTTATTCCCACCGTTCAACGGATTTATTACATTTTGATTTTGTTGCCAAAAATAAG
1 TTTTCAGGATTTATTCCCACCGTTCAACGGATTTATTACATTTTGATTTTGTTGCCAAAAATGAG
13510004 AAATTAAAATTAATTAAAATAT
66 AAATTAAAATTAATTAAAATAT
* * *
13510026 ATTTCGGGATTTATTCCCGCCGTT
1 TTTTCAGGATTTATTCCCACCGTT
13510050 TAATAAGATT
Statistics
Matches: 169, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
86 79 0.47
87 52 0.31
88 36 0.21
89 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.42
Consensus pattern (87 bp):
TTTTCAGGATTTATTCCCACCGTTCAACGGATTTATTACATTTTGATTTTGTTGCCAAAAATGAG
AAATTAAAATTAATTAAAATAT
Found at i:13510108 original size:84 final size:85
Alignment explanation
Indices: 13509771--13510143 Score: 308
Period size: 86 Copynumber: 4.3 Consensus size: 85
13509761 ATCCATTTTA
* * * * * * * *
13509771 GGATTGATTCTCACCATTCAAC-GATTTTATTCCAATTTTGATTTTATTTCCAAA-ACTGAGTAT
1 GGATTTATTCCCACCGTTCAACAGA-TTTATTAC-ATTTTGATTTTGTTGCCAAATA-AGA-AAT
* * *
13509834 TAAAATTAATTTAAAATCTGTTTCG
62 TAAAATTAA-ATAAAATATTTTTCG
* * * *
13509859 GGATTTATTCCCGCCGTTCAACGGATTTATTACATTTTGATTTTGTTGCAAAAAATGAGAAATTA
1 GGATTTATTCCCACCGTTCAACAGATTTATTACATTTTGATTTTGTTGC--CAAATAAGAAATTA
* *
13509924 AAATTAAAT-AAATTTTTTTCA
64 AAATTAAATAAAATATTTTTCG
*
13509945 GGATTTATTCCCACCGTTCAACGGATTTATTACATTTTGATTTTGTTGCCAAAAATAAGAAATTA
1 GGATTTATTCCCACCGTTCAACAGATTTATTACATTTTGATTTTGTTGCC--AAATAAGAAATTA
* *
13510010 AAATTAATTAAAATATATTTCG
64 AAATTAAATAAAATATTTTTCG
* * * ** * *
13510032 GGATTTATTCCCGCCGTTTAATAAGATTTTATTTTATTTT-ATTTTGTTTCCAAATTAG-AATT-
1 GGATTTATTCCCACCGTTCAA-CAGA-TTTATTACATTTTGATTTTGTTGCCAAATAAGAAATTA
* *
13510094 CAATTAAATAAAATATTTTTTG
64 AAATTAAATAAAATATTTTTCG
* * * *
13510116 GGATTCATTCTCACCGTTTAACATATTT
1 GGATTTATTCCCACCGTTCAACAGATTT
13510144 TATTTTGATA
Statistics
Matches: 237, Mismatches: 39, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
82 3 0.01
83 2 0.01
84 36 0.15
85 4 0.02
86 83 0.35
87 43 0.18
88 48 0.20
89 18 0.08
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (85 bp):
GGATTTATTCCCACCGTTCAACAGATTTATTACATTTTGATTTTGTTGCCAAATAAGAAATTAAA
ATTAAATAAAATATTTTTCG
Found at i:13510114 original size:173 final size:172
Alignment explanation
Indices: 13509766--13510130 Score: 402
Period size: 173 Copynumber: 2.1 Consensus size: 172
13509756 ATAAAATCCA
* * * * *
13509766 TTTTAGGATTGATTCTCACCATTCAACGATTTTATTCCAATTTTGATTTTATTTCCAAAACTGAG
1 TTTTAGGATTGATTCCCACCATTCAACGATTTTATTACAATTTTGATTTTATTGCCAAAAATAAG
* * * **
13509831 TATTAAAATTAATTTAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGGATTTATTACATTT
66 AATTAAAATTAATTTAAAATATATTTCGGGATTTATTCCCGCCGTTCAAAAGATTTATTACATTT
13509896 TGATTTTGTTGCAAAAAATGAGAAATTAAAATTAAATAAATTT
131 TGATTTTGTTGC-AAAAATGAGAAATTAAAATTAAATAAATTT
* * *
13509939 TTTTCAGGATTTATTCCCACCGTTCAACGGA-TTTATTAC-ATTTTGATTTTGTTGCCAAAAATA
1 TTTT-AGGATTGATTCCCACCATTCAAC-GATTTTATTACAATTTTGATTTTATTGCCAAAAATA
* *
13510002 AGAAATTAAAATTAA-TTAAAATATATTTCGGGATTTATTCCCGCCGTTTAATAAGATTTTATTT
64 AG-AATTAAAATTAATTTAAAATATATTTCGGGATTTATTCCCGCCGTTCAA-AAGA-TTTATTA
* * * * *
13510066 TATTTT-ATTTTGTTTC-CAAATTAG-AATT-CAATTAAATAAAATATT
126 CATTTTGATTTTGTTGCAAAAATGAGAAATTAAAATTAAAT-AAAT-TT
* * *
13510111 TTTTGGGATTCATTCTCACC
1 TTTTAGGATTGATTCCCACC
13510131 GTTTAACATA
Statistics
Matches: 162, Mismatches: 23, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
170 8 0.05
171 21 0.13
172 12 0.07
173 59 0.36
174 49 0.30
175 13 0.08
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (172 bp):
TTTTAGGATTGATTCCCACCATTCAACGATTTTATTACAATTTTGATTTTATTGCCAAAAATAAG
AATTAAAATTAATTTAAAATATATTTCGGGATTTATTCCCGCCGTTCAAAAGATTTATTACATTT
TGATTTTGTTGCAAAAATGAGAAATTAAAATTAAATAAATTT
Found at i:13510160 original size:84 final size:84
Alignment explanation
Indices: 13510011--13510165 Score: 204
Period size: 84 Copynumber: 1.8 Consensus size: 84
13510001 AAGAAATTAA
* * * * *
13510011 AATTAATTAAAATATATTTCGGGATTTATTCCCGCCGTTTAATAAGATTTTATTTTATTTTATTT
1 AATTAAATAAAATATATTTCGGGATTCATTCCCACCGTTTAATAAGATTTTATTTTATATAATTT
13510076 TGTTTCCAAATTAGAATTC
66 TGTTTCCAAATTAGAATTC
* * * * *
13510095 AATTAAATAAAATATTTTTTGGGATTCATTCTCACCGTTTAA-CATATTTTATTTTGATATAATT
1 AATTAAATAAAATATATTTCGGGATTCATTCCCACCGTTTAATAAGATTTTATTTT-ATATAATT
13510159 TTGTTTC
65 TTGTTTC
13510166 GGGATTTAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
83 11 0.18
84 49 0.82
ACGTcount: A:0.31, C:0.10, G:0.09, T:0.50
Consensus pattern (84 bp):
AATTAAATAAAATATATTTCGGGATTCATTCCCACCGTTTAATAAGATTTTATTTTATATAATTT
TGTTTCCAAATTAGAATTC
Found at i:13517181 original size:18 final size:18
Alignment explanation
Indices: 13517147--13517184 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
13517137 TATTTCAAGG
*
13517147 CATGAAAGCTTAGCCTCA
1 CATGAAAGCTTAACCTCA
13517165 CATGAAAG-TTAAACCTCA
1 CATGAAAGCTT-AACCTCA
13517183 CA
1 CA
13517185 AGCAAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.21
Consensus pattern (18 bp):
CATGAAAGCTTAACCTCA
Found at i:13520575 original size:11 final size:11
Alignment explanation
Indices: 13520559--13520583 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13520549 AACCTATGTG
13520559 TTTTCTTTTTC
1 TTTTCTTTTTC
13520570 TTTTCTTTTTC
1 TTTTCTTTTTC
13520581 TTT
1 TTT
13520584 GTGATCGTTC
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:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:13528817 original size:33 final size:33
Alignment explanation
Indices: 13528761--13528893 Score: 104
Period size: 30 Copynumber: 4.2 Consensus size: 33
13528751 ACATAACATG
* * * *
13528761 CAGTAACAGTCTGGGACTAAGCCCTATT-CAGTAG
1 CAGT-ACAGTGTGGGCCTTAGCCC-ATTACAGTAA
*
13528795 TAGTACAGTGTGGGCCTTAGCCCATTACAGTAA
1 CAGTACAGTGTGGGCCTTAGCCCATTACAGTAA
* *
13528828 CAGT---GTGTGGGCCTTAGCCCAATACAATAA
1 CAGTACAGTGTGGGCCTTAGCCCATTACAGTAA
*
13528858 C---A-A-TGTGGGCCTTAGCCCAATACAGTAA
1 CAGTACAGTGTGGGCCTTAGCCCATTACAGTAA
13528886 TCAGTACA
1 -CAGTACA
13528894 ATGCAGTAAT
Statistics
Matches: 82, Mismatches: 9, Indels: 17
0.76 0.08 0.16
Matches are distributed among these distances:
28 24 0.29
29 1 0.01
30 25 0.30
32 4 0.05
33 25 0.30
34 3 0.04
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (33 bp):
CAGTACAGTGTGGGCCTTAGCCCATTACAGTAA
Found at i:13528838 original size:30 final size:30
Alignment explanation
Indices: 13528802--13528890 Score: 128
Period size: 30 Copynumber: 3.0 Consensus size: 30
13528792 TAGTAGTACA
*
13528802 GTGTGGGCCTTAGCCCATTACAGTAACAGT
1 GTGTGGGCCTTAGCCCAATACAGTAACAGT
*
13528832 GTGTGGGCCTTAGCCCAATACAATAACA--
1 GTGTGGGCCTTAGCCCAATACAGTAACAGT
*
13528860 ATGTGGGCCTTAGCCCAATACAGTAATCAGT
1 GTGTGGGCCTTAGCCCAATACAGTAA-CAGT
13528891 ACAATGCAGT
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
28 24 0.46
29 2 0.04
30 26 0.50
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.25
Consensus pattern (30 bp):
GTGTGGGCCTTAGCCCAATACAGTAACAGT
Found at i:13528873 original size:28 final size:29
Alignment explanation
Indices: 13528799--13528881 Score: 116
Period size: 28 Copynumber: 2.9 Consensus size: 29
13528789 CAGTAGTAGT
* *
13528799 ACAG-TGTGGGCCTTAGCCCATTACAGTA
1 ACAGATGTGGGCCTTAGCCCAATACAATA
*
13528827 ACAGTGTGTGGGCCTTAGCCCAATACAATA
1 ACAG-ATGTGGGCCTTAGCCCAATACAATA
13528857 ACA-ATGTGGGCCTTAGCCCAATACA
1 ACAGATGTGGGCCTTAGCCCAATACA
13528882 GTAATCAGTA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
28 25 0.50
30 25 0.50
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (29 bp):
ACAGATGTGGGCCTTAGCCCAATACAATA
Found at i:13529053 original size:26 final size:26
Alignment explanation
Indices: 13528990--13529072 Score: 94
Period size: 26 Copynumber: 3.2 Consensus size: 26
13528980 GCCAACACAC
* *
13528990 CAATATCGCAACAAAGTTGCCAGTAA
1 CAATAACGCAACAAAGCTGCCAGTAA
* * * *
13529016 TAATGACACAACAAAGCTGTCAGTAA
1 CAATAACGCAACAAAGCTGCCAGTAA
* *
13529042 CAGTAACGCAACGAAGCTGCCAGTAA
1 CAATAACGCAACAAAGCTGCCAGTAA
13529068 CAATA
1 CAATA
13529073 TATATGGCAA
Statistics
Matches: 44, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.43, C:0.23, G:0.17, T:0.17
Consensus pattern (26 bp):
CAATAACGCAACAAAGCTGCCAGTAA
Found at i:13529264 original size:27 final size:27
Alignment explanation
Indices: 13529247--13529497 Score: 192
Period size: 27 Copynumber: 9.3 Consensus size: 27
13529237 GGGTATAACA
*
13529247 GTCATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
13529274 GTCATTTTACCTTTTAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* * *
13529301 GTCATTTTACCAT-TCGGGACGTATTTTG
1 GTCATTTTACCCTATAGGG--GTATTTCG
* * *
13529329 ATCATTTTACCCT-TCAGGAGTATTTTG
1 GTCATTTTACCCTAT-AGGGGTATTTCG
* **
13529356 GTCATTTTACCCTTCTA-GGGTATTTTT
1 GTCATTTTACCC-TATAGGGGTATTTCG
* *
13529383 GTTATTTTACCC-ATTGAGGGTATTTCG
1 GTCATTTTACCCTATAG-GGGTATTTCG
* *
13529410 GTCATTTTACCC-ATCGAGGGTATTTTG
1 GTCATTTTACCCTATAG-GGGTATTTCG
* **
13529437 GTCATTTTACCC-ATCGAGGGTATTTTA
1 GTCATTTTACCCTATAG-GGGTATTTCG
* *
13529464 GTCATTTTACCCT-TCGAGGGTATTTCT
1 GTCATTTTACCCTATAG-GGGTATTTCG
13529491 GTCATTT
1 GTCATTT
13529498 GCCCACGAAT
Statistics
Matches: 192, Mismatches: 24, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
25 1 0.01
26 4 0.02
27 163 0.85
28 21 0.11
29 3 0.02
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.45
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTCG
Found at i:13529305 original size:54 final size:54
Alignment explanation
Indices: 13529247--13529497 Score: 228
Period size: 54 Copynumber: 4.6 Consensus size: 54
13529237 GGGTATAACA
*
13529247 GTCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCTTTTAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTTTAGGGGTATTTCG
* * * * * *
13529301 GTCATTTTACCAT-TCGGGACGTATTTTGATCATTTTACCCTTCAGGAGTATTTTG
1 GTCATTTTACCCTATAGGG--GTATTTTGGTCATTTTACCCTTTAGGGGTATTTCG
* * * *
13529356 GTCATTTTACCCTTCTA-GGGTATTTTTGTTATTTTACCCATT-GAGGGTATTTCG
1 GTCATTTTACCC-TATAGGGGTATTTTGGTCATTTTACCCTTTAG-GGGTATTTCG
* * * **
13529410 GTCATTTTACCC-ATCGAGGGTATTTTGGTCATTTTACCC-ATCGAGGGTATTTTA
1 GTCATTTTACCCTATAG-GGGTATTTTGGTCATTTTACCCTTTAG-GGGTATTTCG
*
13529464 GTCATTTTACCCT-TCGAGGGTATTTCT-GTCATTT
1 GTCATTTTACCCTATAG-GGGTATTT-TGGTCATTT
13529498 GCCCACGAAT
Statistics
Matches: 164, Mismatches: 23, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
52 1 0.01
53 6 0.04
54 111 0.68
55 42 0.26
56 3 0.02
57 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.45
Consensus pattern (54 bp):
GTCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTTTAGGGGTATTTCG
Found at i:13529446 original size:81 final size:82
Alignment explanation
Indices: 13529247--13529497 Score: 300
Period size: 81 Copynumber: 3.1 Consensus size: 82
13529237 GGGTATAACA
* * **
13529247 GTCATTTTACCCTATAG-GGGTATTTTGGTCATTTTA-CCTTTTAGGGGTATTTCGGTCATTTTA
1 GTCATTTTACCC-ATCGAGGGTATTTTGGTCATTTTACCCTTCTA-GGGTATTTTAGTCATTTTA
*
13529310 -CCATTCG-GGACGTATTTTG
64 CCCATTCGAGG--GTATTTCG
* * * *
13529329 ATCATTTTACCCTTC-AGGAGTATTTTGGTCATTTTACCCTTCTAGGGTATTTTTGTTATTTTAC
1 GTCATTTTACCCATCGAGG-GTATTTTGGTCATTTTACCCTTCTAGGGTATTTTAGTCATTTTAC
13529393 CCATT-GAGGGTATTTCG
65 CCATTCGAGGGTATTTCG
* *
13529410 GTCATTTTACCCATCGAGGGTATTTTGGTCATTTTACCCATCGAGGGTATTTTAGTCATTTTACC
1 GTCATTTTACCCATCGAGGGTATTTTGGTCATTTTACCCTTCTAGGGTATTTTAGTCATTTTACC
*
13529475 C-TTCGAGGGTATTTCT
66 CATTCGAGGGTATTTCG
13529491 GTCATTT
1 GTCATTT
13529498 GCCCACGAAT
Statistics
Matches: 147, Mismatches: 15, Indels: 15
0.83 0.08 0.08
Matches are distributed among these distances:
80 2 0.01
81 84 0.57
82 48 0.33
83 13 0.09
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.45
Consensus pattern (82 bp):
GTCATTTTACCCATCGAGGGTATTTTGGTCATTTTACCCTTCTAGGGTATTTTAGTCATTTTACC
CATTCGAGGGTATTTCG
Found at i:13531451 original size:72 final size:73
Alignment explanation
Indices: 13531334--13531514 Score: 319
Period size: 72 Copynumber: 2.5 Consensus size: 73
13531324 TCTCTGACTT
*
13531334 GGGTCACATGGCCAAGCCACAAGCCCGTGTGCTAGGCCGTGTAAGCATACTGACTCGCAATAAAT
1 GGGTCACATGGCCAAGCCACACGCCCGTGTGCTAGGCCGTGTAAGCATACTGACTCGCAATAAAT
13531399 AAGTGCA-
66 AAGTGCAG
*
13531406 GGGTCACATGGCCAAACCACACGCCCGTGTGCTAGGCCGTGTAAGCATACTGACTCGCAATAAAT
1 GGGTCACATGGCCAAGCCACACGCCCGTGTGCTAGGCCGTGTAAGCATACTGACTCGCAATAAAT
13531471 AAGTGCAG
66 AAGTGCAG
* *
13531479 GGGTCACATGGCCAAGCCACACGCTCGTGTTCTAGG
1 GGGTCACATGGCCAAGCCACACGCCCGTGTGCTAGG
13531515 TTGTTTGAAA
Statistics
Matches: 103, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
72 70 0.68
73 33 0.32
ACGTcount: A:0.27, C:0.28, G:0.27, T:0.18
Consensus pattern (73 bp):
GGGTCACATGGCCAAGCCACACGCCCGTGTGCTAGGCCGTGTAAGCATACTGACTCGCAATAAAT
AAGTGCAG
Found at i:13532661 original size:24 final size:24
Alignment explanation
Indices: 13532611--13532691 Score: 76
Period size: 24 Copynumber: 3.3 Consensus size: 24
13532601 TGTATAACGG
**
13532611 GAAGCTCATAAGAGCC-ATAATTAA
1 GAAGCTCAT-AGAGCCAATAATCGA
13532635 GAAGCTCATACGAGCCAAT-ATCGA
1 GAAGCTCATA-GAGCCAATAATCGA
* * *
13532659 GAAACTCCAGAGAGCCATTAATCGA
1 GAAGCT-CATAGAGCCAATAATCGA
13532684 GAAGCTCA
1 GAAGCTCA
13532692 GTAAAAGCCT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
23 1 0.02
24 31 0.66
25 15 0.32
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.17
Consensus pattern (24 bp):
GAAGCTCATAGAGCCAATAATCGA
Found at i:13532870 original size:24 final size:25
Alignment explanation
Indices: 13532816--13532862 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
13532806 TATTAATGGG
*
13532816 AAGCTCATGAGAGCCATATATCAGA
1 AAGCTCAAGAGAGCCATATATCAGA
13532841 AAGCTCAAGAGAGCCA-ATATCA
1 AAGCTCAAGAGAGCCATATATCA
13532863 AGATGCTCGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.17
Consensus pattern (25 bp):
AAGCTCAAGAGAGCCATATATCAGA
Found at i:13537251 original size:214 final size:214
Alignment explanation
Indices: 13536882--13537303 Score: 790
Period size: 214 Copynumber: 2.0 Consensus size: 214
13536872 ACCAAATTAA
* *
13536882 GTCATGCTTGATTCAATACTTTCTACCACATTATAGCATGATTTTACCATGATTTATTCTACATC
1 GTCATGCTTGATTCAATACTTTCTACCACATTATAACATGATTTTACCATGATTTATTCTACACC
13536947 AAATATGCATGAATCCAAACTCTTAAAATCTAAGTTTTCTAAAGTATCAATAATGATAAAATTAA
66 AAATATGCATGAATCCAAACTCTTAAAATCTAAGTTTTCTAAAGTATCAATAATGATAAAATTAA
13537012 CCAAAACTTCATCAATTTCATTTTCTAAGGTATGGCTACCTTAAGTTATTATGAACAGTTAAAAG
131 CCAAAACTTCATCAATTTCATTTTCTAAGGTATGGCTACCTTAAGTTATTATGAACAGTTAAAAG
13537077 TACACTAAGAATTGATGAG
196 TACACTAAGAATTGATGAG
*
13537096 GTCATGCTTGATTCAATACTTTCTACCACATTATAACATGATTTTAGCATGATTTATTCTACACC
1 GTCATGCTTGATTCAATACTTTCTACCACATTATAACATGATTTTACCATGATTTATTCTACACC
*
13537161 AAATATGCATGAATCCAAACTCTTAAAATCTAAGTTTTCTAATGTATCAATAATGATAAAATTAA
66 AAATATGCATGAATCCAAACTCTTAAAATCTAAGTTTTCTAAAGTATCAATAATGATAAAATTAA
* *
13537226 CCAAAACTTCATCAATTTCATTTTCTAAGGTATGGCTACCTTAAGTTGTTATGAATAGTTAAAAG
131 CCAAAACTTCATCAATTTCATTTTCTAAGGTATGGCTACCTTAAGTTATTATGAACAGTTAAAAG
13537291 TACACTAAGAATT
196 TACACTAAGAATT
13537304 TGAAAGAAAA
Statistics
Matches: 202, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
214 202 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.36
Consensus pattern (214 bp):
GTCATGCTTGATTCAATACTTTCTACCACATTATAACATGATTTTACCATGATTTATTCTACACC
AAATATGCATGAATCCAAACTCTTAAAATCTAAGTTTTCTAAAGTATCAATAATGATAAAATTAA
CCAAAACTTCATCAATTTCATTTTCTAAGGTATGGCTACCTTAAGTTATTATGAACAGTTAAAAG
TACACTAAGAATTGATGAG
Found at i:13545981 original size:17 final size:17
Alignment explanation
Indices: 13545946--13545981 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
13545936 TTCTGTTTGA
*
13545946 TTTGAGTTCCTTTATCT
1 TTTGAGTTCCTTTAGCT
*
13545963 TTTGAGTTCCTTTCGCT
1 TTTGAGTTCCTTTAGCT
13545980 TT
1 TT
13545982 ATTTCAGTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.08, C:0.19, G:0.14, T:0.58
Consensus pattern (17 bp):
TTTGAGTTCCTTTAGCT
Found at i:13548424 original size:14 final size:14
Alignment explanation
Indices: 13548405--13548433 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
13548395 TATATTATCT
13548405 ATCTTTCTATATGC
1 ATCTTTCTATATGC
13548419 ATCTTTCTATATGC
1 ATCTTTCTATATGC
13548433 A
1 A
13548434 CCATATATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.21, G:0.07, T:0.48
Consensus pattern (14 bp):
ATCTTTCTATATGC
Found at i:13550444 original size:14 final size:14
Alignment explanation
Indices: 13550425--13550452 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13550415 CTACAACATG
13550425 TTAGGTATGAATAA
1 TTAGGTATGAATAA
13550439 TTAGGTATGAATAA
1 TTAGGTATGAATAA
13550453 GATATGCATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.21, T:0.36
Consensus pattern (14 bp):
TTAGGTATGAATAA
Found at i:13565394 original size:26 final size:26
Alignment explanation
Indices: 13565365--13565421 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
13565355 TGCCAAAGGC
*
13565365 AAAATCGTCAAAATTTTAGC-AGGGGT
1 AAAATCATCAAAATTTT-GCTAGGGGT
*
13565391 AAAATCATTAAAATTTTGCTAGGGGT
1 AAAATCATCAAAATTTTGCTAGGGGT
13565417 AAAAT
1 AAAAT
13565422 AGGGATGAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 2 0.07
26 26 0.93
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.30
Consensus pattern (26 bp):
AAAATCATCAAAATTTTGCTAGGGGT
Found at i:13572519 original size:96 final size:97
Alignment explanation
Indices: 13572355--13572544 Score: 303
Period size: 96 Copynumber: 2.0 Consensus size: 97
13572345 TATGGTGTTA
* * * **
13572355 CTTTGTGGGAACTAGTTATCCCAGGAATGGAGGGTATTATGTCTTGGTAAAGATTGCAGTTACAA
1 CTTTGTGGGAACTAGTTATCCAAGGAAGGGAGGGTAGTATGTCCAGGTAAAGATTGCAGTTACAA
13572420 TAGCTACTT-GGTAGATGTCAAGTGTCGCCAG
66 TAGCTACTTGGGTAGATGTCAAGTGTCGCCAG
*
13572451 CTTTGT-GGACACTAGTTATCCAAGGAAGGGAGGGTAGTATGTCCAGGTAAATATTGCAGTTACA
1 CTTTGTGGGA-ACTAGTTATCCAAGGAAGGGAGGGTAGTATGTCCAGGTAAAGATTGCAGTTACA
13572515 ATAGCTACTTGGGTAGATGTCAAGTGTCGC
65 ATAGCTACTTGGGTAGATGTCAAGTGTCGC
13572545 TATCCAGAAC
Statistics
Matches: 86, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
95 3 0.03
96 64 0.74
97 19 0.22
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (97 bp):
CTTTGTGGGAACTAGTTATCCAAGGAAGGGAGGGTAGTATGTCCAGGTAAAGATTGCAGTTACAA
TAGCTACTTGGGTAGATGTCAAGTGTCGCCAG
Found at i:13579223 original size:25 final size:25
Alignment explanation
Indices: 13579195--13579242 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
13579185 GTATATTTCA
*
13579195 AAAAAGAAGAAGAAGAAAAGAAAGG
1 AAAAAGAAAAAGAAGAAAAGAAAGG
13579220 AAAAAGAAAAAGAAGAAAAGAAA
1 AAAAAGAAAAAGAAGAAAAGAAA
13579243 AACGGAGAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (25 bp):
AAAAAGAAAAAGAAGAAAAGAAAGG
Found at i:13579251 original size:15 final size:14
Alignment explanation
Indices: 13579196--13579244 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
13579186 TATATTTCAA
*
13579196 AAAAGAAGAAGAAG
1 AAAAGAAAAAGAAG
*
13579210 AAAAG--AAAGGA-
1 AAAAGAAAAAGAAG
13579221 AAAAGAAAAAGAAG
1 AAAAGAAAAAGAAG
13579235 AAAAGAAAAA
1 AAAAGAAAAA
13579245 CGGAGAAGCC
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
11 5 0.17
12 4 0.14
13 5 0.17
14 15 0.52
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAGAAG
Found at i:13580592 original size:50 final size:50
Alignment explanation
Indices: 13580524--13580901 Score: 380
Period size: 50 Copynumber: 7.6 Consensus size: 50
13580514 AGTGTAGTGG
* *
13580524 AACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGATATTGCAGTTA
1 AACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCTGACATTGCAGTTA
* * ** * * ** * **
13580574 AAAAGATTAAAGCTACAACAGCGAATCTTAATTCCTTGGCGGTGTAGTGG
1 AACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCTGACATTGCAGTTA
* * *
13580624 AACAGATTGAAGCTACAACAACGAATCTTGCTTCCCCGACATTACAGTTA
1 AACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCTGACATTGCAGTTA
* * * ** * **
13580674 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGTAGTGG
1 AACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCTGACATTGCAGTTA
* *
13580724 AACAGATTGAAGCTACTACAGCGAATATTGCTTCCCTGACATTGCAGTTA
1 AACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCTGACATTGCAGTTA
* * * ** * **
13580774 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGTAGTGG
1 AACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCTGACATTGCAGTTA
* * * * *
13580824 AACATATTGAAGCTACAACAACGAATCCTGCTTCCC-CAAATTGCAGTTA
1 AACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCTGACATTGCAGTTA
* *
13580873 AATAGATTGAAGCTACAACAGTGAATCTT
1 AACAGATTGAAGCTACAACAGCGAATCTT
13580902 ATTTCGTTGG
Statistics
Matches: 252, Mismatches: 76, Indels: 1
0.77 0.23 0.00
Matches are distributed among these distances:
49 29 0.12
50 223 0.88
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (50 bp):
AACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCTGACATTGCAGTTA
Found at i:13580688 original size:100 final size:100
Alignment explanation
Indices: 13580506--13580937 Score: 652
Period size: 100 Copynumber: 4.3 Consensus size: 100
13580496 GTTACCCATA
* * *
13580506 TCCCTGGCAGTGTAGTGGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGATATTGCAG
1 TCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAACAACGAATCTTGCTTCCCCGACATTGCAG
* * *
13580571 TTAAAAAGATTAAAGCTACAACAGCGAATCTTAAT
66 TTAAATAGATTGAAGCTACAACAGCGAATCTTACT
* *
13580606 TCCTTGGCGGTGTAGTGGAACAGATTGAAGCTACAACAACGAATCTTGCTTCCCCGACATTACAG
1 TCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAACAACGAATCTTGCTTCCCCGACATTGCAG
13580671 TTAAATAGATTGAAGCTACAACAGCGAATCTTACT
66 TTAAATAGATTGAAGCTACAACAGCGAATCTTACT
* * * *
13580706 TCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACTACAGCGAATATTGCTTCCCTGACATTGCAG
1 TCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAACAACGAATCTTGCTTCCCCGACATTGCAG
13580771 TTAAATAGATTGAAGCTACAACAGCGAATCTTACT
66 TTAAATAGATTGAAGCTACAACAGCGAATCTTACT
* * *
13580806 TCCCTGGCGGTGTAGTGGAACATATTGAAGCTACAACAACGAATCCTGCTTCCCC-AAATTGCAG
1 TCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAACAACGAATCTTGCTTCCCCGACATTGCAG
* *
13580870 TTAAATAGATTGAAGCTACAACAGTGAATCTTATT
66 TTAAATAGATTGAAGCTACAACAGCGAATCTTACT
** * *
13580905 TCGTTGGC-GTGGCAGTGGAACAGATTAAAGCTA
1 TCCCTGGCGGT-GTAGTGGAACAGATTGAAGCTA
13580938 AAGGTAGCGA
Statistics
Matches: 303, Mismatches: 28, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
98 2 0.01
99 66 0.22
100 235 0.78
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (100 bp):
TCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAACAACGAATCTTGCTTCCCCGACATTGCAG
TTAAATAGATTGAAGCTACAACAGCGAATCTTACT
Found at i:13580995 original size:21 final size:21
Alignment explanation
Indices: 13580969--13581008 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13580959 CTGGCATTGC
*
13580969 AGTGGAATAGCTTAAAGCTAA
1 AGTGGAATAGATTAAAGCTAA
*
13580990 AGTGGAGTAGATTAAAGCT
1 AGTGGAATAGATTAAAGCT
13581009 GAAGGCAGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.07, G:0.28, T:0.25
Consensus pattern (21 bp):
AGTGGAATAGATTAAAGCTAA
Found at i:13581262 original size:44 final size:44
Alignment explanation
Indices: 13581212--13581357 Score: 139
Period size: 44 Copynumber: 3.3 Consensus size: 44
13581202 AGGTAGTAGG
* *
13581212 GAAGCAGATTTAAGCCACCAGTCTTATCTCCCTGAAGTTGCAAT
1 GAAGCAGATTAAAGCCACAAGTCTTATCTCCCTGAAGTTGCAAT
* * * * * *
13581256 GGAGCAGACTAAAGCCACAAATCTTATCTCTCTGAAGTTACAGT
1 GAAGCAGATTAAAGCCACAAGTCTTATCTCCCTGAAGTTGCAAT
* * * *** * *
13581300 GCAGCAGGTTGAAGATGCAAGTCTTATCTCCCTAAAGTTGCAAA
1 GAAGCAGATTAAAGCCACAAGTCTTATCTCCCTGAAGTTGCAAT
*
13581344 GAAGCAGACTAAAG
1 GAAGCAGATTAAAG
13581358 ATAGCGAATC
Statistics
Matches: 77, Mismatches: 25, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
44 77 1.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.24
Consensus pattern (44 bp):
GAAGCAGATTAAAGCCACAAGTCTTATCTCCCTGAAGTTGCAAT
Found at i:13581306 original size:88 final size:89
Alignment explanation
Indices: 13581214--13581383 Score: 216
Period size: 88 Copynumber: 1.9 Consensus size: 89
13581204 GTAGTAGGGA
* * * * * * *
13581214 AGCAGATTTAAGCCACCAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAAGCCA-CAAAT
1 AGCAGATTGAAGACACAAGTCTTATCTCCCTAAAGTTGCAAAGAAGCAGACTAAAGACAGCAAAT
13581278 CTTATCTCTCTGAAGTTACAGTGC
66 CTTATCTCTCTGAAGTTACAGTGC
* ** * *
13581302 AGCAGGTTGAAGATGCAAGTCTTATCTCCCTAAAGTTGCAAAGAAGCAGACTAAAGATAGCGAAT
1 AGCAGATTGAAGACACAAGTCTTATCTCCCTAAAGTTGCAAAGAAGCAGACTAAAGACAGCAAAT
*
13581367 CTTATTTCTCTGAAGTT
66 CTTATCTCTCTGAAGTT
13581384 GTAGTGGAAT
Statistics
Matches: 68, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
88 48 0.71
89 20 0.29
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.27
Consensus pattern (89 bp):
AGCAGATTGAAGACACAAGTCTTATCTCCCTAAAGTTGCAAAGAAGCAGACTAAAGACAGCAAAT
CTTATCTCTCTGAAGTTACAGTGC
Found at i:13581359 original size:44 final size:44
Alignment explanation
Indices: 13581231--13581384 Score: 139
Period size: 44 Copynumber: 3.5 Consensus size: 44
13581221 TTAAGCCACC
* **
13581231 AGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAAGCCACA
1 AGTCTTATCTCCCTGAAGTTGCAATGAAGCAGACTAAAGATACA
* * * * * ** * *
13581275 AATCTTATCTCTCTGAAGTTACAGTGCAGCAGGTTGAAGATGCA
1 AGTCTTATCTCCCTGAAGTTGCAATGAAGCAGACTAAAGATACA
* *
13581319 AGTCTTATCTCCCTAAAGTTGCAAAGAAGCAGACTAAAGATAGCGA
1 AGTCTTATCTCCCTGAAGTTGCAATGAAGCAGACTAAAGATA-C-A
* *
13581365 A-TCTTATTTCTCTGAAGTTG
1 AGTCTTATCTCCCTGAAGTTG
13581385 TAGTGGAATA
Statistics
Matches: 83, Mismatches: 25, Indels: 3
0.75 0.23 0.03
Matches are distributed among these distances:
44 64 0.77
45 17 0.20
46 2 0.02
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCAATGAAGCAGACTAAAGATACA
Found at i:13581535 original size:44 final size:44
Alignment explanation
Indices: 13581454--13581573 Score: 145
Period size: 44 Copynumber: 2.8 Consensus size: 44
13581444 CAGATCATAT
* * * * * *
13581454 CAAACCTTATC-CCCTAAAATTACAGTGGGGCAGGTTGAA-ATTG
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGA-TA
13581497 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGATA
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGATA
* *
13581541 CCAATCTTATCTCCCTGAAGTTGCAGTGGAGCA
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCA
13581574 GATTAAAGCT
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
43 11 0.16
44 55 0.82
45 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.26
Consensus pattern (44 bp):
CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGATA
Found at i:13581596 original size:44 final size:44
Alignment explanation
Indices: 13581504--13581607 Score: 138
Period size: 44 Copynumber: 2.4 Consensus size: 44
13581494 TTGCAAACCT
* *
13581504 TATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGATACCAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAAGTTAAAGATACCAATCC
* **
13581548 TATCTCCCTGAAGTTGCAGTGGAGC-AGATTAAAGCTATTAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAAG-TTAAAGATACCAATCC
*
13581592 TATCTCCTTGAAGTTG
1 TATCTCCCTGAAGTTG
13581608 TAGTAGAGTG
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 2 0.04
44 51 0.96
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAAGTTAAAGATACCAATCC
Found at i:13590945 original size:14 final size:13
Alignment explanation
Indices: 13590912--13590936 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13590902 ATTTATTTCA
13590912 ATTAAAATAATAC
1 ATTAAAATAATAC
13590925 ATTAAAATAATA
1 ATTAAAATAATA
13590937 ATTTTAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAAAATAATAC
Found at i:13595051 original size:3 final size:3
Alignment explanation
Indices: 13595043--13595079 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
13595033 AAAGTGATAT
*
13595043 TAA TAA TAA TAA TAA TAA TAA TAA GAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
13595080 GATGATGATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:13595711 original size:13 final size:14
Alignment explanation
Indices: 13595685--13595714 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
13595675 CTTTTTTTCT
13595685 TTTTTTATACTATA
1 TTTTTTATACTATA
13595699 TTTTTTATA-TATA
1 TTTTTTATACTATA
13595712 TTT
1 TTT
13595715 ATATATAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTTTATACTATA
Found at i:13600816 original size:7 final size:7
Alignment explanation
Indices: 13600805--13600865 Score: 104
Period size: 7 Copynumber: 8.7 Consensus size: 7
13600795 ATAAATATAT
*
13600805 ATTTTTT
1 ATTTTTA
13600812 ATTTTTA
1 ATTTTTA
*
13600819 TTTTTTA
1 ATTTTTA
13600826 ATTTTTA
1 ATTTTTA
13600833 ATTTTTA
1 ATTTTTA
13600840 ATTTTTA
1 ATTTTTA
13600847 ATTTTTA
1 ATTTTTA
13600854 ATTTTTA
1 ATTTTTA
13600861 ATTTT
1 ATTTT
13600866 AAAATACTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 51 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (7 bp):
ATTTTTA
Found at i:13600897 original size:8 final size:8
Alignment explanation
Indices: 13600884--13600912 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
13600874 TTAAAAATAT
13600884 TTTTTTTA
1 TTTTTTTA
13600892 TTTTTTTA
1 TTTTTTTA
13600900 TTTTTTTA
1 TTTTTTTA
13600908 TTTTT
1 TTTTT
13600913 AAAATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTTA
Found at i:13602695 original size:26 final size:25
Alignment explanation
Indices: 13602666--13602715 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
13602656 ATATATTATA
13602666 AAAACT-AAAGAAAAAAAATTACCTAT
1 AAAACTGAAA-AAAAAAAA-TACCTAT
*
13602692 AAAACTGAAAAAAAAAGATACCTA
1 AAAACTGAAAAAAAAAAATACCTA
13602716 GAACAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 6 0.27
26 13 0.59
27 3 0.14
ACGTcount: A:0.66, C:0.12, G:0.06, T:0.16
Consensus pattern (25 bp):
AAAACTGAAAAAAAAAAATACCTAT
Found at i:13602704 original size:25 final size:26
Alignment explanation
Indices: 13602666--13602715 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
13602656 ATATATTATA
13602666 AAAACTAAAGAAAAAAA-ATTACCTAT
1 AAAACTAAAGAAAAAAAGA-TACCTAT
*
13602692 AAAACTGAA-AAAAAAAGATACCTA
1 AAAACTAAAGAAAAAAAGATACCTA
13602716 GAACAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.66, C:0.12, G:0.06, T:0.16
Consensus pattern (26 bp):
AAAACTAAAGAAAAAAAGATACCTAT
Found at i:13606289 original size:123 final size:124
Alignment explanation
Indices: 13606070--13606418 Score: 601
Period size: 123 Copynumber: 2.8 Consensus size: 124
13606060 TTATTTCGAG
* *
13606070 TTGACGTTTCTGGTCAAATTGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGATCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
13606135 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAA-TTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
** * *
13606193 TTGACGTTTCTGATCAAATAGTATAAAATTACTTCTACGAGGATGCTATTTGAGTAGAAATTGTG
1 TTGACGTTTCTGATCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
*
13606258 AAATCGCGCCCTCATGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
* *
13606317 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAAAAGAAATTGTG
1 TTGACGTTTCTGATCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
*
13606382 AAATCGCACCCTCGTGGACGCGATTTTGCTACAGTAG
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
13606419 CAAGTTTGGG
Statistics
Matches: 210, Mismatches: 15, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
123 111 0.53
124 99 0.47
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (124 bp):
TTGACGTTTCTGATCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
Found at i:13609478 original size:41 final size:42
Alignment explanation
Indices: 13609417--13609567 Score: 159
Period size: 41 Copynumber: 3.7 Consensus size: 42
13609407 CATAATTTAA
13609417 CATATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGA-TT
1 CATA-TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTT
* * * *
13609459 CATATCACCGGCACATAGCCTACTAGGTTTATAACCTGATTT
1 CATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTT
* * * **
13609501 C-GATCACCGGCACTTAGCCTGCTAGACTTATAGTCTGA-AA
1 CATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTT
*
13609541 AAT-TCACCGGCA-TTAAGCCTGCTAGGC
1 CATATCACCGGCACTT-AGCCTGCTAGGC
13609568 GCTTAGCCTG
Statistics
Matches: 90, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
39 2 0.02
40 20 0.22
41 61 0.68
42 7 0.08
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (42 bp):
CATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTT
Found at i:13609579 original size:40 final size:40
Alignment explanation
Indices: 13609420--13609586 Score: 106
Period size: 41 Copynumber: 4.1 Consensus size: 40
13609410 AATTTAACAT
* * ***
13609420 ATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTC
1 ATTCACCGGCACTTAGCCTGCTAGACCTATAGCCTGAAAA
* * *** * ***
13609460 ATATCACCGGCACATAGCCTACTAGGTTTATAACCTGATTTCG
1 AT-TCACCGGCACTTAGCCTGCTAGACCTATAGCCTGA--AAA
* *
13609503 A-TCACCGGCACTTAGCCTGCTAGACTTATAGTCTGAAAA
1 ATTCACCGGCACTTAGCCTGCTAGACCTATAGCCTGAAAA
*
13609542 ATTCACCGGCA-TTAAGCCTGCTAGGCGCT-TAGCCTGAAAA
1 ATTCACCGGCACTT-AGCCTGCTAGAC-CTATAGCCTGAAAA
*
13609582 TTTCA
1 ATTCA
13609587 ATTTCACAGA
Statistics
Matches: 102, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
39 3 0.03
40 36 0.35
41 61 0.60
43 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (40 bp):
ATTCACCGGCACTTAGCCTGCTAGACCTATAGCCTGAAAA
Found at i:13610003 original size:72 final size:71
Alignment explanation
Indices: 13609925--13610083 Score: 182
Period size: 72 Copynumber: 2.2 Consensus size: 71
13609915 TTATACCTAT
* *
13609925 ATATACATATATATAT-A-TTT-AAACCTTATATATATA-AATATATCGTCCATACCTTTAATTA
1 ATATACATATATATATAATTTTCAAACCTTATATATATATAACAT-TC-T---TACCTTTAACTA
13609986 AATTCAAAATC
61 AATTCAAAATC
* *
13609997 TTATACATATATATATACATTTTCAAATCTTATATATATATAACATTCTTACCTTTAACTAAATT
1 ATATACATATATATATA-ATTTTCAAACCTTATATATATATAACATTCTTACCTTTAACTAAATT
* *
13610062 TAAGATC
65 CAAAATC
13610069 ATATACATATATATA
1 ATATACATATATATA
13610084 CATGTTCGAA
Statistics
Matches: 75, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
72 49 0.65
74 1 0.01
75 4 0.05
76 17 0.23
77 4 0.05
ACGTcount: A:0.43, C:0.13, G:0.01, T:0.42
Consensus pattern (71 bp):
ATATACATATATATATAATTTTCAAACCTTATATATATATAACATTCTTACCTTTAACTAAATTC
AAAATC
Found at i:13611465 original size:13 final size:13
Alignment explanation
Indices: 13611447--13611471 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13611437 CAATCAAATG
13611447 CACACAAAATAAA
1 CACACAAAATAAA
13611460 CACACAAAATAA
1 CACACAAAATAA
13611472 TATTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:13612553 original size:55 final size:55
Alignment explanation
Indices: 13612439--13612595 Score: 235
Period size: 55 Copynumber: 2.8 Consensus size: 55
13612429 AACATTATGT
* * *
13612439 AAAAGTATGTAAAATTATTAAG-CCAAAAAATTTTTGTTAATGCTTAGTAACATTATC
1 AAAA-TATGTAAAATTATTAAGTCC-AAAAA-TTGTGTTAATGGTTAGTAAAATTATC
13612496 AAAATATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAAATATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
* *
13612551 AAATTATGTAAAATTATTAAGTCCAAAAATGGTGTTAATGGTTAG
1 AAAATATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAG
13612596 GGTTTTTAAT
Statistics
Matches: 94, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
55 66 0.70
56 22 0.23
57 6 0.06
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.36
Consensus pattern (55 bp):
AAAATATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
Found at i:13612632 original size:29 final size:29
Alignment explanation
Indices: 13612590--13613139 Score: 481
Period size: 29 Copynumber: 19.8 Consensus size: 29
13612580 TGGTGTTAAT
*
13612590 GGTTAGGGTTTTTAATTAAATTAGTTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* * * *
13612619 GGTTAGAGTTTTTAATTAAGTTAGTTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
13612648 GGTTAGGGTTTTTAATTAAGTTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
13612677 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
13612706 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
13612735 GGTTAAGGTTTTTAATT--A--A-GTTA-
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* * * * **
13612758 -GTTA--ATTGTTAGTAAAATTAAATTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
**
13612784 GGTT----TTTAATTAAATTAGTTTAGGGTTA-
1 GGTTAGGGTTT--TT-AATTAAATTA-GGTTAG
13612812 G-----GGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
13612836 GGTTAGGGTTTTTAATTAAGTTAGTTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
13612865 GGTTATGGTTTTTAATTAAGTTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
13612894 GGTTAGGGTTTTTAATTAAATTAGATTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
13612923 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
13612952 GGTTAGGGTTTTTAATT--A--A-GTTA-
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* * * **
13612975 -GTTA--ATTGTTAATAAAATTAAATTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
13613001 GGTT----TTTAATTAAATT--AGT---TTAG
1 GGTTAGGGTTT--TT-AATTAAATTAGGTTAG
13613024 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
13613053 AGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAG
1 GGTTAGGGTTTTTAATT-AA--A--TTAGGTTAG
13613087 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
13613116 GGTCAGGGTTTTTAATTAAATTAG
1 GGTTAGGGTTTTTAATTAAATTAG
13613140 TTAATTATTA
Statistics
Matches: 437, Mismatches: 41, Indels: 86
0.77 0.07 0.15
Matches are distributed among these distances:
20 13 0.03
22 10 0.02
23 13 0.03
24 23 0.05
25 16 0.04
26 4 0.01
27 18 0.04
28 10 0.02
29 299 0.68
30 2 0.00
31 1 0.00
32 1 0.00
33 2 0.00
34 25 0.06
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.46
Consensus pattern (29 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAG
Found at i:13612790 original size:130 final size:130
Alignment explanation
Indices: 13612650--13612975 Score: 436
Period size: 130 Copynumber: 2.4 Consensus size: 130
13612640 TAGTTTAAGG
*
13612650 TTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
13612715 TTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAGTTAGTTAATTGTTAGTAAAATTAAA
66 TTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAGTTAGTTAATTGTTAGTAAAATTAAA
*
13612780 TTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
* * * * *
13612845 TTTTAATTAAGTTAGTTTAGGGTTATGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAAT
66 TTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAGTTA-GTTA-----A---TTGTTAGT
*
13612910 TAAATTAGATTA
122 AAAATTA-A--A
*
13612922 GGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAG
1 ---TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAG
13612976 TTAATTGTTA
Statistics
Matches: 171, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
130 103 0.60
131 4 0.02
136 1 0.01
139 12 0.07
140 1 0.01
142 1 0.01
145 49 0.29
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (130 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
TTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAGTTAGTTAATTGTTAGTAAAATTAAA
Found at i:13612805 original size:159 final size:159
Alignment explanation
Indices: 13612621--13612917 Score: 504
Period size: 159 Copynumber: 1.9 Consensus size: 159
13612611 TAGTTTAGGG
* *
13612621 TTAGAGTTTTTAATTAAGTTAGTTTAAGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGT
1 TTAGAGTTTTTAATTAAATTAGTTTAAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
13612686 TTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAAT
66 TTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAAT
*
13612751 TAAGTTAGTTAATTGTTAGTAAAATTAAA
131 TAAATTAGTTAATTGTTAGTAAAATTAAA
* *
13612780 TTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
1 TTAGAGTTTTTAATTAAATTAGTTTAAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
* * * * *
13612845 TTTTAATTAAGTTAGTTTAGGGTTATGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAAT
66 TTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAAT
13612910 TAAATTAG
131 TAAATTAG
13612918 ATTAGGGTTA
Statistics
Matches: 128, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
159 128 1.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (159 bp):
TTAGAGTTTTTAATTAAATTAGTTTAAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
TTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAAT
TAAATTAGTTAATTGTTAGTAAAATTAAA
Found at i:13612927 original size:217 final size:217
Alignment explanation
Indices: 13612590--13613139 Score: 956
Period size: 217 Copynumber: 2.5 Consensus size: 217
13612580 TGGTGTTAAT
* * *
13612590 GGTTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGAGTTTTTAATTAAGTTAGTTTAAGGTTAGG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGTTTAGGGTTAGG
*
13612655 GTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTA
66 GTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGATTAGGGTTAGGGTTTTTA
*
13612720 ATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAGTTAGTTAATTGTTAGTAAAATTAAATTAGG
131 ATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAGTTAGTTAATTGTTAATAAAATTAAATTAGG
13612785 GTTTTTAATTAAATTAGTTTAG
196 GTTTTTAATTAAATTAGTTTAG
*
13612807 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGTTTAGGGTTATG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGTTTAGGGTTAGG
13612872 GTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGATTAGGGTTAGGGTTTTTA
66 GTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGATTAGGGTTAGGGTTTTTA
*
13612937 ATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGTTAATTGTTAATAAAATTAAATTAGG
131 ATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAGTTAGTTAATTGTTAATAAAATTAAATTAGG
13613002 GTTTTTAATTAAATTAGTTTAG
196 GTTTTTAATTAAATTAGTTTAG
* *
13613024 GGTTAGGGTTTTTAATTAAATTAGGTTAGAGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT--A--A-GTTAGTTTAGGG
* *
13613089 TTAGGGTTTTTAATTAAATTAGGTTAGGGTCAGGGTTTTTAATTAAATTAG
61 TTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAATTAG
13613140 TTAATTATTA
Statistics
Matches: 316, Mismatches: 12, Indels: 5
0.95 0.04 0.02
Matches are distributed among these distances:
217 255 0.81
219 1 0.00
221 1 0.00
222 59 0.19
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.46
Consensus pattern (217 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGTTTAGGGTTAGG
GTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGATTAGGGTTAGGGTTTTTA
ATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAGTTAGTTAATTGTTAATAAAATTAAATTAGG
GTTTTTAATTAAATTAGTTTAG
Found at i:13613114 original size:23 final size:23
Alignment explanation
Indices: 13613087--13613191 Score: 72
Period size: 23 Copynumber: 4.4 Consensus size: 23
13613077 GTTAGGTTAG
13613087 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
13613110 GGTTAGGGTCAGGGTTTTTAATTAAATTA
1 GG-T----T-AGGGTTTTTAATTAAATTA
* * * *
13613139 -GTTA--ATTATTAGTAAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
**
13613159 AATTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
*
13613182 GTTTAGGGTT
1 GGTTAGGGTT
13613192 AGGGTTTTTA
Statistics
Matches: 62, Mismatches: 11, Indels: 18
0.68 0.12 0.20
Matches are distributed among these distances:
20 12 0.19
21 3 0.05
22 1 0.02
23 23 0.37
24 1 0.02
27 1 0.02
28 2 0.03
29 19 0.31
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.46
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTAAATTA
Found at i:13613172 original size:164 final size:160
Alignment explanation
Indices: 13612838--13613240 Score: 664
Period size: 164 Copynumber: 2.5 Consensus size: 160
13612828 TAGGTTAGGG
* * *
13612838 TTAGGGTTTTTAATTAAGTTAGTTTAGGGTTATGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
*
13612903 TTTTAATTAAATTA-GATTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAA
66 TTTTAATTAAATTAGGATTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTCAGGGTTTTTAA
* *
13612967 TTAAGTTAGTTAATTGTTAATAAAATTAAA
131 TTAAATTAGTTAATTATTAATAAAATTAAA
*
13612997 TTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGAGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
13613062 TTTTAATTAAATTAGGTTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTCAGGGTTT
66 TTTTAATTAAATTAGG--A--TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTCAGGGTTT
*
13613127 TTAATTAAATTAGTTAATTATTAGTAAAATTAAA
127 TTAATTAAATTAGTTAATTATTAATAAAATTAAA
**
13613161 TTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTACATTAGGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
*
13613226 TTTTAATTAAGTTAG
66 TTTTAATTAAATTAG
13613241 TTAATTGTTA
Statistics
Matches: 227, Mismatches: 12, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
159 75 0.33
160 1 0.00
162 1 0.00
164 150 0.66
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (160 bp):
TTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
TTTTAATTAAATTAGGATTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTCAGGGTTTTTAA
TTAAATTAGTTAATTATTAATAAAATTAAA
Found at i:13613196 original size:29 final size:29
Alignment explanation
Indices: 13613161--13613242 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
13613151 TAAAATTAAA
13613161 TTAGGGTTTTTAATTAAATTAGTTTAGGG
1 TTAGGGTTTTTAATTAAATTAGTTTAGGG
**
13613190 TTAGGGTTTTTAATTAAATTACATTAGGG
1 TTAGGGTTTTTAATTAAATTAGTTTAGGG
*
13613219 TTAGGGTTTTTAATTAAGTTAGTT
1 TTAGGGTTTTTAATTAAATTAGTT
13613243 AATTGTTAGT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.28, C:0.01, G:0.22, T:0.49
Consensus pattern (29 bp):
TTAGGGTTTTTAATTAAATTAGTTTAGGG
Found at i:13613205 original size:101 final size:104
Alignment explanation
Indices: 13613055--13613273 Score: 354
Period size: 101 Copynumber: 2.1 Consensus size: 104
13613045 TAGGTTAGAG
**
13613055 TTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTC
1 TTAGGGTTTTTAATTAAATTAGGTT--GTTAGGGTTAGGGTTTTTAATTAAATTACATTAGGGTC
13613120 AGGGTTTTTAATTAAATTAGTTAATTATTAGTAAAATTAAA
64 AGGGTTTTTAATTAAATTAGTTAATTATTAGTAAAATTAAA
*
13613161 TTAGGGTTTTTAATTAAATTA-G-T-TTAGGGTTAGGGTTTTTAATTAAATTACATTAGGGTTAG
1 TTAGGGTTTTTAATTAAATTAGGTTGTTAGGGTTAGGGTTTTTAATTAAATTACATTAGGGTCAG
* *
13613223 GGTTTTTAATTAAGTTAGTTAATTGTTAGTAAAATTAAA
66 GGTTTTTAATTAAATTAGTTAATTATTAGTAAAATTAAA
13613262 TTAGGGTTTTTA
1 TTAGGGTTTTTA
13613274 TGACATCAAA
Statistics
Matches: 108, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
101 85 0.79
104 1 0.01
105 1 0.01
106 21 0.19
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.46
Consensus pattern (104 bp):
TTAGGGTTTTTAATTAAATTAGGTTGTTAGGGTTAGGGTTTTTAATTAAATTACATTAGGGTCAG
GGTTTTTAATTAAATTAGTTAATTATTAGTAAAATTAAA
Found at i:13614429 original size:7 final size:7
Alignment explanation
Indices: 13614419--13614443 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13614409 TTATATACAT
13614419 AATACTA
1 AATACTA
13614426 AATACTA
1 AATACTA
13614433 AATACTA
1 AATACTA
13614440 AATA
1 AATA
13614444 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:13615551 original size:11 final size:10
Alignment explanation
Indices: 13615521--13615586 Score: 60
Period size: 10 Copynumber: 6.5 Consensus size: 10
13615511 GCCATTGATG
*
13615521 AAAATATAAA
1 AAAATTTAAA
13615531 AAAATTTAAA
1 AAAATTTAAA
* *
13615541 ATTATTTTAAA
1 A-AAATTTAAA
*
13615552 AAAATATAAA
1 AAAATTTAAA
13615562 AAAATTTAAA
1 AAAATTTAAA
** *
13615572 ATTATTTTAA
1 AAAATTTAAA
13615582 AAAAT
1 AAAAT
13615587 GAAATTGAAG
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
10 35 0.81
11 8 0.19
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:13615556 original size:31 final size:31
Alignment explanation
Indices: 13615521--13615585 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
13615511 GCCATTGATG
13615521 AAAATATAAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAATTTAAAATTATTTTAAA
13615552 AAAATATAAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAATTTAAAATTATTTTAAA
13615583 AAA
1 AAA
13615586 TGAAATTGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (31 bp):
AAAATATAAAAAAATTTAAAATTATTTTAAA
Found at i:13615568 original size:21 final size:20
Alignment explanation
Indices: 13615521--13615572 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
13615511 GCCATTGATG
* *
13615521 AAAATATAAAAAAATTTAAA
1 AAAATTTAAAAAAATATAAA
* *
13615541 ATTATTTTAAAAAAATATAAA
1 A-AAATTTAAAAAAATATAAA
13615562 AAAATTTAAAA
1 AAAATTTAAAA
13615573 TTATTTTAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAATTTAAAAAAATATAAA
Found at i:13615697 original size:51 final size:51
Alignment explanation
Indices: 13615587--13615699 Score: 174
Period size: 51 Copynumber: 2.2 Consensus size: 51
13615577 TTTAAAAAAT
*
13615587 GAAATTGA-AGGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTCAAAG
1 GAAATTGAGA-GGAAATTGAAATTAAATATGGATTTCAGAGAATTTTCAAAG
* **
13615638 GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTCAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTCAGAGAATTTTCAAAG
13615689 GAAATTGAGAG
1 GAAATTGAGAG
13615700 AATTTTGGAA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
51 56 0.98
52 1 0.02
ACGTcount: A:0.43, C:0.02, G:0.27, T:0.28
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATGGATTTCAGAGAATTTTCAAAG
Found at i:13615715 original size:21 final size:22
Alignment explanation
Indices: 13615674--13615715 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
13615664 TATGGGTTTC
13615674 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
13615696 AGAGAATTTTGGAA-GAAATT
1 AGAGAATTTTGGAAGGAAATT
13615716 TAAGAGGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (22 bp):
AGAGAATTTTGGAAGGAAATTG
Found at i:13615721 original size:22 final size:22
Alignment explanation
Indices: 13615674--13615721 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
13615664 TATGGGTTTC
*
13615674 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTA
13615696 AGAGAATTTTGGAA-GAAATTTA
1 AGAGAATTTTGGAAGGAAA-TTA
13615718 AGAG
1 AGAG
13615722 GATTAGAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.44, C:0.00, G:0.29, T:0.27
Consensus pattern (22 bp):
AGAGAATTTTGGAAGGAAATTA
Found at i:13625317 original size:18 final size:16
Alignment explanation
Indices: 13625290--13625333 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 16
13625280 CACATGCACG
13625290 TTTTAAAATACACATGT
1 TTTTAAAATACACAT-T
13625307 TTTTCAAAATACACATT
1 TTTT-AAAATACACATT
*
13625324 TTTTATAATA
1 TTTTAAAATA
13625334 GATATATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 5 0.20
17 9 0.36
18 11 0.44
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.45
Consensus pattern (16 bp):
TTTTAAAATACACATT
Found at i:13630671 original size:30 final size:30
Alignment explanation
Indices: 13630637--13630694 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
13630627 TTCTTGAATT
* *
13630637 TTGAAACTGAAAAATAT-AGGATTAAATTTA
1 TTGAAAAT-AAAAATATAAGAATTAAATTTA
*
13630667 TTGAAAATAAAAGTATAAGAATTAAATT
1 TTGAAAATAAAAATATAAGAATTAAATT
13630695 CTAAAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.53, C:0.02, G:0.12, T:0.33
Consensus pattern (30 bp):
TTGAAAATAAAAATATAAGAATTAAATTTA
Found at i:13635027 original size:16 final size:17
Alignment explanation
Indices: 13635006--13635040 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
13634996 TTATGTAACT
*
13635006 TATTATTTTAT-TTATA
1 TATTATGTTATGTTATA
13635022 TATTATGTTATGTTATA
1 TATTATGTTATGTTATA
13635039 TA
1 TA
13635041 AAGATTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (17 bp):
TATTATGTTATGTTATA
Found at i:13646723 original size:26 final size:27
Alignment explanation
Indices: 13646655--13646728 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
13646645 TATTTTCTCG
**
13646655 AAATTTTACCAAAGGTAAAATCGTCAA
1 AAATTTTACCAGGGGTAAAATCGTCAA
* * *
13646682 AAATTTCATC-GAGGGTAAAATTGTC-A
1 AAATTTTACCAG-GGGTAAAATCGTCAA
13646708 AAATTTTACCAGGGGTAAAAT
1 AAATTTTACCAGGGGTAAAAT
13646729 AGAGATGAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
26 18 0.47
27 20 0.53
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.28
Consensus pattern (27 bp):
AAATTTTACCAGGGGTAAAATCGTCAA
Found at i:13649567 original size:22 final size:21
Alignment explanation
Indices: 13649504--13649580 Score: 63
Period size: 20 Copynumber: 3.8 Consensus size: 21
13649494 ATTCCAAAAA
13649504 TAATATTATTTTAATAGT-TT
1 TAATATTATTTTAATAGTATT
* * * *
13649524 AAATTTTAATTTAAT-TTAATT
1 TAATATTATTTTAATAGT-ATT
13649545 TAATACTTATTTTAATAGTATT
1 TAATA-TTATTTTAATAGTATT
*
13649567 T--TATTAATTTAATA
1 TAATATTATTTTAATA
13649581 TTGAATTGAT
Statistics
Matches: 44, Mismatches: 9, Indels: 9
0.71 0.15 0.15
Matches are distributed among these distances:
19 11 0.25
20 14 0.32
21 5 0.11
22 13 0.30
23 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (21 bp):
TAATATTATTTTAATAGTATT
Found at i:13653639 original size:19 final size:19
Alignment explanation
Indices: 13653615--13653654 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
13653605 TTAATTGATA
13653615 ATGTAATTATTTTATATAT
1 ATGTAATTATTTTATATAT
*
13653634 ATGTAATTATTTTATCTAT
1 ATGTAATTATTTTATATAT
13653653 AT
1 AT
13653655 ATGCATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (19 bp):
ATGTAATTATTTTATATAT
Found at i:13653691 original size:22 final size:23
Alignment explanation
Indices: 13653661--13653721 Score: 79
Period size: 25 Copynumber: 2.6 Consensus size: 23
13653651 ATATATGCAT
*
13653661 ATATATTTCTATTTTTT-AATGA
1 ATATTTTTCTATTTTTTAAATGA
13653683 ATATTTTTCTATATTTTTTAAATGA
1 ATATTTTTC--TATTTTTTAAATGA
*
13653708 ATATTTTTATATTT
1 ATATTTTTCTATTT
13653722 ATACGTATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 8 0.24
23 5 0.15
24 8 0.24
25 13 0.38
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (23 bp):
ATATTTTTCTATTTTTTAAATGA
Found at i:13653781 original size:11 final size:11
Alignment explanation
Indices: 13653758--13653794 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
13653748 TGATTAAATA
13653758 TTTACTTATT-T
1 TTTA-TTATTAT
13653769 TTTATT-TTAT
1 TTTATTATTAT
13653779 TTTATTATTAT
1 TTTATTATTAT
13653790 TTTAT
1 TTTAT
13653795 ATATATACGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.08
10 9 0.38
11 13 0.54
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTATTATTAT
Found at i:13660246 original size:21 final size:21
Alignment explanation
Indices: 13660220--13660290 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
13660210 TTATGTGTAT
13660220 TTATAAAATTTTAACAAAAAA
1 TTATAAAATTTTAACAAAAAA
* *
13660241 TTATAATATTTAAATCTTAAAAAA
1 TTATAAAATTTTAA-C--AAAAAA
* * *
13660265 TTCTAAAATTATGACAAAAAA
1 TTATAAAATTTTAACAAAAAA
*
13660286 GTATA
1 TTATA
13660291 TTACAAAAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
21 21 0.55
22 1 0.03
23 1 0.03
24 15 0.39
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (21 bp):
TTATAAAATTTTAACAAAAAA
Found at i:13662578 original size:27 final size:27
Alignment explanation
Indices: 13662540--13662594 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
13662530 TGGGGTTCTA
* *
13662540 ATTGAAATAACACTTTCGTTAGCACTT
1 ATTGAAAGAACACTTTCATTAGCACTT
13662567 ATTGAAAGAACACTTTCATTAGCACTT
1 ATTGAAAGAACACTTTCATTAGCACTT
13662594 A
1 A
13662595 CGACATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (27 bp):
ATTGAAAGAACACTTTCATTAGCACTT
Found at i:13662926 original size:21 final size:21
Alignment explanation
Indices: 13662902--13662945 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
13662892 ACGACCTAAT
*
13662902 TAAATAGAAAGGATA-ATTAAA
1 TAAATA-AAAGGATACAATAAA
*
13662923 TAAATAAAATGATACAATAAA
1 TAAATAAAAGGATACAATAAA
13662944 TA
1 TA
13662946 CTAAAGTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.25
Consensus pattern (21 bp):
TAAATAAAAGGATACAATAAA
Found at i:13665068 original size:27 final size:29
Alignment explanation
Indices: 13665027--13665080 Score: 85
Period size: 27 Copynumber: 1.9 Consensus size: 29
13665017 TTTTTTAGAA
*
13665027 TGTTTTGAATATTTTATATATTTTGAATT
1 TGTTTTGAATATTTTATAGATTTTGAATT
13665056 TGTTTT-AAT-TTTTATAGATTTTGAA
1 TGTTTTGAATATTTTATAGATTTTGAA
13665081 AAAAAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 15 0.62
28 3 0.12
29 6 0.25
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (29 bp):
TGTTTTGAATATTTTATAGATTTTGAATT
Found at i:13665095 original size:19 final size:19
Alignment explanation
Indices: 13665068--13665104 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13665058 TTTTAATTTT
13665068 TATAGATTTTGAAAAAAAA
1 TATAGATTTTGAAAAAAAA
* *
13665087 TATATATTTTTAAAAAAA
1 TATAGATTTTGAAAAAAA
13665105 TTTCAAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (19 bp):
TATAGATTTTGAAAAAAAA
Found at i:13665412 original size:29 final size:29
Alignment explanation
Indices: 13665380--13665446 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
13665370 TTTTGTAATT
**
13665380 ATATACATTAAATTTTGAATTTGGTTTAA
1 ATATACATTAAATTTTGAATTTAATTTAA
** * *
13665409 ATATATGTAAAATTTTTAATTTAATTTAA
1 ATATACATTAAATTTTGAATTTAATTTAA
*
13665438 TTATACATT
1 ATATACATT
13665447 TAAAAAAATA
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (29 bp):
ATATACATTAAATTTTGAATTTAATTTAA
Found at i:13665869 original size:5 final size:5
Alignment explanation
Indices: 13665859--13665883 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
13665849 ATTTGGATCT
13665859 CTCTC CTCTC CTCTC CTCTC CTCTC
1 CTCTC CTCTC CTCTC CTCTC CTCTC
13665884 TCTATCACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (5 bp):
CTCTC
Found at i:13671726 original size:85 final size:85
Alignment explanation
Indices: 13671617--13671784 Score: 259
Period size: 85 Copynumber: 2.0 Consensus size: 85
13671607 TCTTGAATGA
* *
13671617 AAGCTTTTCTCTTGGGACAGCTTCTTGGTAAGTTGGGG-ATATTTCTTGGTGAGTTGGTGTAACA
1 AAGCTTTTCTCTTGGGACAACTTCTTGGTAAGTTGGGGCA-ATTCCTTGGTGAGTTGGTGTAACA
* * *
13671681 CTCCTAATCTGTCTCCGTTGC
65 CCCCTAACCCGTCTCCGTTGC
13671702 AAGCTTTTCTCTTGGGGA-AACTTCTTGGTAAGTTGGGGCAATTCCTTGGTGAGTTGGTGTAACA
1 AAGCTTTTCTCTT-GGGACAACTTCTTGGTAAGTTGGGGCAATTCCTTGGTGAGTTGGTGTAACA
13671766 CCCCTAACCCGTCTCCGTT
65 CCCCTAACCCGTCTCCGTT
13671785 ACCGGAATAG
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
85 71 0.93
86 5 0.07
ACGTcount: A:0.17, C:0.21, G:0.26, T:0.36
Consensus pattern (85 bp):
AAGCTTTTCTCTTGGGACAACTTCTTGGTAAGTTGGGGCAATTCCTTGGTGAGTTGGTGTAACAC
CCCTAACCCGTCTCCGTTGC
Found at i:13671739 original size:21 final size:21
Alignment explanation
Indices: 13671713--13671758 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
13671703 AGCTTTTCTC
13671713 TTGGGGAAACTT-CTTGGTAAG
1 TTGGGGAAA-TTCCTTGGTAAG
* *
13671734 TTGGGGCAATTCCTTGGTGAG
1 TTGGGGAAATTCCTTGGTAAG
13671755 TTGG
1 TTGG
13671759 TGTAACACCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.17, C:0.11, G:0.37, T:0.35
Consensus pattern (21 bp):
TTGGGGAAATTCCTTGGTAAG
Found at i:13678050 original size:50 final size:49
Alignment explanation
Indices: 13677938--13678214 Score: 296
Period size: 50 Copynumber: 5.7 Consensus size: 49
13677928 TCGAATACAA
*
13677938 ATGTAAGACCATGTCTGGGACATGGCATT---A--AGAGGATGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACGAGATGA-GAGGTCCC
*
13677983 ATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGAGATGAGAGGTCCC
*
13678033 ATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATGAGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGAGATGAGAGGTCCC
** * * * * **
13678083 CCGTAAGACCATGTCTGGGACATAGCATGGGCACCGATATGAAAACTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGAGATGAGAGGTCCC
* * * * * **
13678133 ATGTAAAACCATATCTGGGATATGGCATTGGCA-GTACATGAAACATCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACG-AGATGAGAGGTCCC
*
13678182 ATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA
13678215 TGTTATTATT
Statistics
Matches: 198, Mismatches: 27, Indels: 10
0.84 0.11 0.04
Matches are distributed among these distances:
45 28 0.14
48 2 0.01
49 40 0.20
50 123 0.62
51 5 0.03
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (49 bp):
ATGTAAGACCATGTCTGGGACATGGCATTGGCACGAGATGAGAGGTCCC
Found at i:13680553 original size:41 final size:44
Alignment explanation
Indices: 13680492--13680572 Score: 114
Period size: 41 Copynumber: 1.9 Consensus size: 44
13680482 AAATTAAATT
*
13680492 TAATATTTATCTTATAGATAAATATTCTATTAATTTAATAGATC
1 TAATATTTATCTTATAGATAAATATTATATTAATTTAATAGATC
* *
13680536 TAATATTTATC-T-T-GATAAGTGTTATATTAATTTAATA
1 TAATATTTATCTTATAGATAAATATTATATTAATTTAATA
13680573 TTAAAGTGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
41 21 0.62
42 1 0.03
43 1 0.03
44 11 0.32
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.49
Consensus pattern (44 bp):
TAATATTTATCTTATAGATAAATATTATATTAATTTAATAGATC
Found at i:13682768 original size:8 final size:8
Alignment explanation
Indices: 13682755--13682788 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
13682745 AAGGTATGAG
13682755 TATGTATA
1 TATGTATA
13682763 TATGTATA
1 TATGTATA
* *
13682771 TGTATATA
1 TATGTATA
13682779 TATGTATA
1 TATGTATA
13682787 TA
1 TA
13682789 ATGCTCGGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (8 bp):
TATGTATA
Found at i:13683334 original size:41 final size:41
Alignment explanation
Indices: 13683282--13683388 Score: 133
Period size: 41 Copynumber: 2.6 Consensus size: 41
13683272 TGATCGAATG
* *
13683282 TTTCAGACTTTACGTCTAGCAGGTTTGATGCCGGTGAAATA
1 TTTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATA
* * *
13683323 TTTCAGGCTTTATGTCTAGCAGGCTTAATGCCGGTGAAACA
1 TTTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATA
* * * *
13683364 ATTCGGACTATAAGTCTAGCAGGCT
1 TTTCAGACTTTACGTCTAGCAGGCT
13683389 AAAAGCCGAT
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (41 bp):
TTTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATA
Found at i:13683594 original size:31 final size:30
Alignment explanation
Indices: 13683553--13683658 Score: 83
Period size: 31 Copynumber: 3.4 Consensus size: 30
13683543 GGCATATGTA
*
13683553 TATATGCATTCAGCTATTCATGTTTAAAGTG
1 TATATACATTC-GCTATTCATGTTTAAAGTG
* * *
13683584 TATATACATTCGGTGATAAT-AT-TTGTTATGTG
1 TATATACATTCGCT-AT--TCATGTT-TAAAGTG
*
13683616 TATA-AGCATTCGGCTATTCATGTTTAAACTG
1 TATATA-CATTC-GCTATTCATGTTTAAAGTG
13683647 TATATACATTCG
1 TATATACATTCG
13683659 ATGATAATAT
Statistics
Matches: 58, Mismatches: 8, Indels: 19
0.68 0.09 0.22
Matches are distributed among these distances:
30 4 0.07
31 30 0.52
32 21 0.36
33 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.42
Consensus pattern (30 bp):
TATATACATTCGCTATTCATGTTTAAAGTG
Found at i:13683625 original size:63 final size:63
Alignment explanation
Indices: 13683547--13683674 Score: 211
Period size: 63 Copynumber: 2.0 Consensus size: 63
13683537 TTGTTAGGCA
* * *
13683547 TATGTATATATGCATTCAGCTATTCATGTTTAAAGTGTATATACATTCGGTGATAATATTTGT
1 TATGTATATAAGCATTCAGCTATTCATGTTTAAACTGTATATACATTCGATGATAATATTTGT
* *
13683610 TATGTGTATAAGCATTCGGCTATTCATGTTTAAACTGTATATACATTCGATGATAATATTTGT
1 TATGTATATAAGCATTCAGCTATTCATGTTTAAACTGTATATACATTCGATGATAATATTTGT
13683673 TA
1 TA
13683675 AGCATATATG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (63 bp):
TATGTATATAAGCATTCAGCTATTCATGTTTAAACTGTATATACATTCGATGATAATATTTGT
Found at i:13685752 original size:46 final size:46
Alignment explanation
Indices: 13685651--13685939 Score: 243
Period size: 44 Copynumber: 6.4 Consensus size: 46
13685641 TACAAAAAAT
* * * * *
13685651 AATTTAATACAAACAAATTCATTTCTGTCATGCAC-AT-GCCATAC
1 AATTTAATACAAACAAATTCATTTATGTCAAGTACAATAACCAAAC
* * * * *
13685695 ACTTTAATACAAAGAAATCCATTTTTGTCAAGTTCAATAACCAAAC
1 AATTTAATACAAACAAATTCATTTATGTCAAGTACAATAACCAAAC
* * *
13685741 AATTTAATACAAACAAATTCATTTCTGTC-A-TGCATATAA-CAGAC
1 AATTTAATACAAACAAATTCATTTATGTCAAGTACA-ATAACCAAAC
** * * *
13685785 AATAAAATACAAAGAAATCCATTTATGTCATGTACAATAACCAAAC
1 AATTTAATACAAACAAATTCATTTATGTCAAGTACAATAACCAAAC
** * *** *
13685831 AATTTAATACAAACAAATTTGTTTTTGTC-A-TAC-ATATGGTAGAC
1 AATTTAATACAAACAAATTCATTTATGTCAAGTACAATA-ACCAAAC
** * *
13685875 AATAAAATACAAAGAAATTCATTTATGTCATGTACAATAACCAAAC
1 AATTTAATACAAACAAATTCATTTATGTCAAGTACAATAACCAAAC
13685921 AATTTAATACAAACAAATT
1 AATTTAATACAAACAAATT
13685940 TGTTTCTGTC
Statistics
Matches: 186, Mismatches: 49, Indels: 18
0.74 0.19 0.07
Matches are distributed among these distances:
43 3 0.02
44 88 0.47
45 11 0.06
46 81 0.44
47 3 0.02
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (46 bp):
AATTTAATACAAACAAATTCATTTATGTCAAGTACAATAACCAAAC
Found at i:13685756 original size:90 final size:90
Alignment explanation
Indices: 13685651--13685969 Score: 440
Period size: 90 Copynumber: 3.5 Consensus size: 90
13685641 TACAAAAAAT
* * * **
13685651 AATTTAATACAAACAAATTCATTTCTGTCATGCACATGCCATACACTTTAATACAAAGAAATCCA
1 AATTTAATACAAACAAATTCATTTCTGTCATGCACATGACAGACAATAAAATACAAAGAAATCCA
* * *
13685716 TTTTTGTCAAGTTCAATAACCAAAC
66 TTTATGTCATGTACAATAACCAAAC
* *
13685741 AATTTAATACAAACAAATTCATTTCTGTCATGCATATAACAGACAATAAAATACAAAGAAATCCA
1 AATTTAATACAAACAAATTCATTTCTGTCATGCACATGACAGACAATAAAATACAAAGAAATCCA
13685806 TTTATGTCATGTACAATAACCAAAC
66 TTTATGTCATGTACAATAACCAAAC
** * * * ** *
13685831 AATTTAATACAAACAAATTTGTTTTTGTCATACATATGGTAGACAATAAAATACAAAGAAATTCA
1 AATTTAATACAAACAAATTCATTTCTGTCATGCACATGACAGACAATAAAATACAAAGAAATCCA
13685896 TTTATGTCATGTACAATAACCAAAC
66 TTTATGTCATGTACAATAACCAAAC
** * *
13685921 AATTTAATACAAACAAATTTGTTTCTGTCATGCTCATGGCAGACAATAA
1 AATTTAATACAAACAAATTCATTTCTGTCATGCACATGACAGACAATAA
13685970 CCAAAGAAAT
Statistics
Matches: 206, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
90 206 1.00
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (90 bp):
AATTTAATACAAACAAATTCATTTCTGTCATGCACATGACAGACAATAAAATACAAAGAAATCCA
TTTATGTCATGTACAATAACCAAAC
Found at i:13685950 original size:46 final size:46
Alignment explanation
Indices: 13685651--13685952 Score: 278
Period size: 46 Copynumber: 6.7 Consensus size: 46
13685641 TACAAAAAAT
* * *
13685651 AATTTAATACAAACAAATTCATTTCTGTCATGCAC-AT-GCCATAC
1 AATTTAATACAAACAAATTCATTTCTGTCATGTACAATAACCAAAC
* * * * * *
13685695 ACTTTAATACAAAGAAATCCATTTTTGTCAAGTTCAATAACCAAAC
1 AATTTAATACAAACAAATTCATTTCTGTCATGTACAATAACCAAAC
*
13685741 AATTTAATACAAACAAATTCATTTCTGTCATG--CATATAA-CAGAC
1 AATTTAATACAAACAAATTCATTTCTGTCATGTACA-ATAACCAAAC
** * * *
13685785 AATAAAATACAAAGAAATCCATTTATGTCATGTACAATAACCAAAC
1 AATTTAATACAAACAAATTCATTTCTGTCATGTACAATAACCAAAC
** * *** *
13685831 AATTTAATACAAACAAATTTGTTTTTGTCA--TAC-ATATGGTAGAC
1 AATTTAATACAAACAAATTCATTTCTGTCATGTACAATA-ACCAAAC
** * *
13685875 AATAAAATACAAAGAAATTCATTTATGTCATGTACAATAACCAAAC
1 AATTTAATACAAACAAATTCATTTCTGTCATGTACAATAACCAAAC
**
13685921 AATTTAATACAAACAAATTTGTTTCTGTCATG
1 AATTTAATACAAACAAATTCATTTCTGTCATG
13685953 CTCATGGCAG
Statistics
Matches: 200, Mismatches: 48, Indels: 18
0.75 0.18 0.07
Matches are distributed among these distances:
43 3 0.01
44 91 0.46
45 10 0.05
46 93 0.47
47 3 0.01
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (46 bp):
AATTTAATACAAACAAATTCATTTCTGTCATGTACAATAACCAAAC
Found at i:13686082 original size:11 final size:11
Alignment explanation
Indices: 13686066--13686111 Score: 65
Period size: 11 Copynumber: 4.2 Consensus size: 11
13686056 ATCTGATTTG
*
13686066 TCATATTTGAT
1 TCATATTTGAA
*
13686077 TCATATTTAAA
1 TCATATTTGAA
*
13686088 TCATATTTGAG
1 TCATATTTGAA
13686099 TCATATTTGAA
1 TCATATTTGAA
13686110 TC
1 TC
13686112 CAAAGAAGCT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.48
Consensus pattern (11 bp):
TCATATTTGAA
Found at i:13686091 original size:22 final size:22
Alignment explanation
Indices: 13686066--13686111 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
13686056 ATCTGATTTG
*
13686066 TCATATTTGATTCATATTTAAA
1 TCATATTTGAGTCATATTTAAA
*
13686088 TCATATTTGAGTCATATTTGAA
1 TCATATTTGAGTCATATTTAAA
13686110 TC
1 TC
13686112 CAAAGAAGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.48
Consensus pattern (22 bp):
TCATATTTGAGTCATATTTAAA
Found at i:13687965 original size:28 final size:29
Alignment explanation
Indices: 13687932--13687993 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
13687922 TTAACTCCCT
13687932 ATTTTCAC-TTAAATCCCTAA-ATTTCAAA
1 ATTTTCACATTAAATCCCTAATA-TTCAAA
* *
13687960 ATTTTCACAATTTAATCCCTATTATTCAAA
1 ATTTTCAC-ATTAAATCCCTAATATTCAAA
13687990 ATTT
1 ATTT
13687994 ACAATTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 8 0.28
30 20 0.69
31 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.00, T:0.44
Consensus pattern (29 bp):
ATTTTCACATTAAATCCCTAATATTCAAA
Found at i:13687979 original size:30 final size:28
Alignment explanation
Indices: 13687943--13688001 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 28
13687933 TTTTCACTTA
13687943 AATCCCTAA-ATTTCAAAATTTTCACAATTT
1 AATCCCTAATA-TTCAAAA-TTT-ACAATTT
*
13687973 AATCCCTATTATTCAAAATTTACAATTT
1 AATCCCTAATATTCAAAATTTACAATTT
13688001 A
1 A
13688002 TTCTACAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 8 0.30
29 3 0.11
30 15 0.56
31 1 0.04
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (28 bp):
AATCCCTAATATTCAAAATTTACAATTT
Found at i:13688242 original size:4 final size:4
Alignment explanation
Indices: 13688233--13688288 Score: 50
Period size: 4 Copynumber: 14.8 Consensus size: 4
13688223 AAGGCAATGG
*
13688233 CTTT CTTT C-TT CTTTT CTCTT -TTT CTTT CCTT -TTT C-TT -TTT CTTT
1 CTTT CTTT CTTT C-TTT CT-TT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
13688278 CTTT CTTT CTT
1 CTTT CTTT CTT
13688289 CCTTGTTTCG
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
3 11 0.26
4 27 0.63
5 5 0.12
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
CTTT
Found at i:13688272 original size:17 final size:17
Alignment explanation
Indices: 13688234--13688288 Score: 65
Period size: 17 Copynumber: 3.0 Consensus size: 17
13688224 AGGCAATGGC
13688234 TTTCTTTCTTCTTTTCTCTT
1 TTTCTTTC--CTTTT-TCTT
13688254 TTTCTTTCCTTTTTCTT
1 TTTCTTTCCTTTTTCTT
*
13688271 TTTCTTTCTTTCTTTCTT
1 TTTCTTTCCTT-TTTCTT
13688289 CCTTGTTTCG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
17 14 0.42
18 11 0.33
20 8 0.24
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTCTTTCCTTTTTCTT
Found at i:13707854 original size:23 final size:23
Alignment explanation
Indices: 13707812--13707856 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
13707802 AGTAAAAAAC
* *
13707812 GGTTTGTAACTGTTGGAAATAAT
1 GGTTTGTAACTGCTGAAAATAAT
*
13707835 GGTTTGTAATTGCTGAAAATAA
1 GGTTTGTAACTGCTGAAAATAA
13707857 ATTTACATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.38
Consensus pattern (23 bp):
GGTTTGTAACTGCTGAAAATAAT
Found at i:13713092 original size:23 final size:23
Alignment explanation
Indices: 13713043--13713094 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
13713033 TTGTAATAGT
* * *
13713043 AAAA-AATGGTTTGTAATTGTTG
1 AAAATAATGATTTGTAACTGCTG
*
13713065 GAAATAATGATTTGTAACTGCTG
1 AAAATAATGATTTGTAACTGCTG
13713088 AAAATAA
1 AAAATAA
13713095 ATTTACATTA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 3 0.12
23 21 0.88
ACGTcount: A:0.42, C:0.04, G:0.19, T:0.35
Consensus pattern (23 bp):
AAAATAATGATTTGTAACTGCTG
Found at i:13718430 original size:58 final size:59
Alignment explanation
Indices: 13718339--13718463 Score: 216
Period size: 58 Copynumber: 2.1 Consensus size: 59
13718329 AGATATGCAT
*
13718339 CAAGTAAGGGAGAGTATTAGAAATAGGAATTGCTTGTGATTTTATTGAATTATCCTTAA
1 CAAGTAATGGAGAGTATTAGAAATAGGAATTGCTTGTGATTTTATTGAATTATCCTTAA
*
13718398 CAAGTAATGGAG-GTATTAGAAATAGGAATTGCTTGTGATTTTATTGAATTATCCTTAG
1 CAAGTAATGGAGAGTATTAGAAATAGGAATTGCTTGTGATTTTATTGAATTATCCTTAA
*
13718456 CATGTAAT
1 CAAGTAAT
13718464 TCTTTTATTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
58 52 0.83
59 11 0.17
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.37
Consensus pattern (59 bp):
CAAGTAATGGAGAGTATTAGAAATAGGAATTGCTTGTGATTTTATTGAATTATCCTTAA
Found at i:13718875 original size:27 final size:26
Alignment explanation
Indices: 13718839--13718912 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 26
13718829 ATATTTTTTA
13718839 TTTTTATTTTTTAATTTTAAAATAAAT
1 TTTTTATTTTTTAATTTTAAAAT-AAT
*
13718866 TTTTTATTTTTTATTTTTAAAATAAT
1 TTTTTATTTTTTAATTTTAAAATAAT
* *
13718892 TTTTTAATGTTT-ATTTTAAAA
1 TTTTTATTTTTTAATTTTAAAA
13718913 ATGGGTCGGG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.19
26 13 0.30
27 22 0.51
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (26 bp):
TTTTTATTTTTTAATTTTAAAATAAT
Found at i:13718914 original size:26 final size:26
Alignment explanation
Indices: 13718852--13718912 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
13718842 TTATTTTTTA
* *
13718852 ATTTTAAAATAAATTTTTTATTTTTT
1 ATTTTAAAATAAATTTTTTAATGTTT
13718878 ATTTTTAAAAT-AATTTTTTAATGTTT
1 A-TTTTAAAATAAATTTTTTAATGTTT
13718904 ATTTTAAAA
1 ATTTTAAAA
13718913 ATGGGTCGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 8 0.25
26 15 0.47
27 9 0.28
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (26 bp):
ATTTTAAAATAAATTTTTTAATGTTT
Found at i:13720314 original size:9 final size:9
Alignment explanation
Indices: 13720300--13720331 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
13720290 TAGTTAAAAA
13720300 ATATATTAT
1 ATATATTAT
13720309 ATATATTAT
1 ATATATTAT
*
13720318 ATATACTAT
1 ATATATTAT
13720327 ATATA
1 ATATA
13720332 ATTTATTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (9 bp):
ATATATTAT
Found at i:13720402 original size:19 final size:21
Alignment explanation
Indices: 13720365--13720404 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13720355 ATAATAGTTT
*
13720365 AAAAATATATTGCTAATATAA
1 AAAAATATATTGATAATATAA
13720386 AAAAATATATT-AT-ATATAA
1 AAAAATATATTGATAATATAA
13720405 TATATATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 11 0.61
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (21 bp):
AAAAATATATTGATAATATAA
Found at i:13724997 original size:21 final size:21
Alignment explanation
Indices: 13724955--13725000 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
13724945 GTGACCCCTG
* *
13724955 TTTTCAAAATTTTCAACTTTA
1 TTTTCAAAATTTCCAACATTA
13724976 TTTTCCAAAATTTCCAA-ATTA
1 TTTT-CAAAATTTCCAACATTA
13724997 TTTT
1 TTTT
13725001 AAATTAGTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTTCAAAATTTCCAACATTA
Done.