Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 80 of 163
Found at i:26054209 original size:68 final size:68
Alignment explanation
Indices: 26053953--26054201 Score: 399
Period size: 68 Copynumber: 3.7 Consensus size: 68
26053943 TCCGTTAGGT
* **
26053953 AATAAACATGGGATCATATTGTGTAAGACCACAACTAGGCTATGGCAACATATGAAGTTTTCCAG
1 AATAAACATGGGATCATATTGTGTAAGACCACAACTAGGCTATGGCAACATATAAAGTTCGCCAG
*
26054018 GAC
66 AAC
* * * *
26054021 AACAAAAATAGGATCATATTGTGTAAGACCACAACTAGGCTATGGCAACATATAAAGTCCGCCAG
1 AATAAACATGGGATCATATTGTGTAAGACCACAACTAGGCTATGGCAACATATAAAGTTCGCCAG
26054086 AAC
66 AAC
*
26054089 AATAAACATGGGATCATATTGTGTAAGACCACAACTAGGCTATAGCAACATATAAAGTTCGCCAG
1 AATAAACATGGGATCATATTGTGTAAGACCACAACTAGGCTATGGCAACATATAAAGTTCGCCAG
26054154 AAC
66 AAC
* *
26054157 AGTAAACATGGGATCATATTGTGTAAGACCACAGCTAGGCTATGG
1 AATAAACATGGGATCATATTGTGTAAGACCACAACTAGGCTATGG
26054202 TGCCATATGA
Statistics
Matches: 165, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 165 1.00
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.22
Consensus pattern (68 bp):
AATAAACATGGGATCATATTGTGTAAGACCACAACTAGGCTATGGCAACATATAAAGTTCGCCAG
AAC
Found at i:26056900 original size:21 final size:21
Alignment explanation
Indices: 26056875--26056931 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 21
26056865 ACCAAGACGT
*
26056875 GGTATCAATACTTTGGGTA-AG
1 GGTATCAATACTTT-GATAGAG
* * *
26056896 GGTATTATTACCTT-ATAGAG
1 GGTATCAATACTTTGATAGAG
26056916 GGTATCAATACTTTGA
1 GGTATCAATACTTTGA
26056932 CCCTTGGGAG
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
19 2 0.07
20 13 0.48
21 12 0.44
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.37
Consensus pattern (21 bp):
GGTATCAATACTTTGATAGAG
Found at i:26060738 original size:23 final size:25
Alignment explanation
Indices: 26060697--26060744 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
26060687 TTATCTTTTG
* *
26060697 TATTATTATATTAAGTTTCTTCATA
1 TATTAATATATTAAGTTTCATCATA
26060722 TATTAATAT-TTAA-TTTCATCATA
1 TATTAATATATTAAGTTTCATCATA
26060745 AATCATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.43
24 4 0.19
25 8 0.38
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.54
Consensus pattern (25 bp):
TATTAATATATTAAGTTTCATCATA
Found at i:26063865 original size:24 final size:24
Alignment explanation
Indices: 26063833--26063881 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
26063823 CAAAAAAACA
26063833 CATAAAAAATTTCTTTCTATTCTT
1 CATAAAAAATTTCTTTCTATTCTT
26063857 CATAAAAAATTTCTTTCTATTCTT
1 CATAAAAAATTTCTTTCTATTCTT
26063881 C
1 C
26063882 CACTATCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (24 bp):
CATAAAAAATTTCTTTCTATTCTT
Found at i:26065492 original size:21 final size:21
Alignment explanation
Indices: 26065467--26065517 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
26065457 CTTGCACAAA
26065467 GTATCAATATCTTTGTAATAC
1 GTATCAATATCTTTGTAATAC
* * * * *
26065488 GTATCGATATTTTTTTATTAG
1 GTATCAATATCTTTGTAATAC
26065509 GTATCAATA
1 GTATCAATA
26065518 CCAAATTAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
GTATCAATATCTTTGTAATAC
Found at i:26068148 original size:17 final size:17
Alignment explanation
Indices: 26068122--26068155 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
26068112 AAAATTAAAT
* *
26068122 ATTTTGATATGACACTA
1 ATTTTAATATAACACTA
26068139 ATTTTAATATAACACTA
1 ATTTTAATATAACACTA
26068156 TGACTTTGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (17 bp):
ATTTTAATATAACACTA
Found at i:26068952 original size:26 final size:26
Alignment explanation
Indices: 26068896--26068952 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
26068886 GTGAATATGT
*
26068896 ATTATCCACACAAACATCTTTCATTC
1 ATTATCCACACAAACATCTTTCATCC
* *
26068922 ATTATCCACTCACACA-CTTTTCATCC
1 ATTATCCACACAAACATC-TTTCATCC
*
26068948 TTTAT
1 ATTAT
26068953 AGAGGAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.30, C:0.32, G:0.00, T:0.39
Consensus pattern (26 bp):
ATTATCCACACAAACATCTTTCATCC
Found at i:26075605 original size:35 final size:35
Alignment explanation
Indices: 26075566--26075635 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
26075556 TTTTATCCCC
* *
26075566 AAGAAACTTCTTAGCACCTATTTTACGAATTTCTT
1 AAGAAACTTATTAGCACCTATTTTACAAATTTCTT
26075601 AAGAAACTTATTAGCACCTATTTTACAAATTTCTT
1 AAGAAACTTATTAGCACCTATTTTACAAATTTCTT
26075636 TCATAAGGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.40
Consensus pattern (35 bp):
AAGAAACTTATTAGCACCTATTTTACAAATTTCTT
Found at i:26081065 original size:28 final size:28
Alignment explanation
Indices: 26081034--26081098 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
26081024 ATTTAAGAAA
**
26081034 TAAATATAATATATGTAAATTAA-AATAT
1 TAAA-ATAATATAAATAAATTAACAATAT
*
26081062 TAAAATAAATTTAAATAAATTAACAATAT
1 TAAAAT-AATATAAATAAATTAACAATAT
26081091 TAAAATAA
1 TAAAATAA
26081099 GTTGAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 2 0.06
28 19 0.59
29 11 0.34
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (28 bp):
TAAAATAATATAAATAAATTAACAATAT
Found at i:26081089 original size:29 final size:28
Alignment explanation
Indices: 26081049--26081126 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 28
26081039 ATAATATATG
*
26081049 TAAATTAAAATATTAAAATAAATTTAAA
1 TAAATTAAAATATTAAAATAAATTGAAA
*
26081077 TAAATTAACAATATTAAAATAAGTTGAAA
1 TAAATTAA-AATATTAAAATAAATTGAAA
* *
26081106 TGAATTAAAGATGTTAAAATA
1 TAAATTAAA-ATATTAAAATA
26081127 TTTGAAGATT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 9 0.20
29 35 0.80
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.33
Consensus pattern (28 bp):
TAAATTAAAATATTAAAATAAATTGAAA
Found at i:26082674 original size:100 final size:100
Alignment explanation
Indices: 26082549--26082731 Score: 276
Period size: 100 Copynumber: 1.8 Consensus size: 100
26082539 CGCTGCCTTC
* *
26082549 AGCTTTAATCTATTTTACTACAACGTCGGAGAAGTAAAATTCGTTGTTGTAGCTTTAACCCGCTT
1 AGCTTTAATCTATTTTACTACAACGTCGGAGAAGTAAAATTCGCTATTGTAGCTTTAACCCGCTT
* *
26082614 CACTGCAACATCGGGGAAGTAAGATACGCTGTTGT
66 CACTACAACATCGAGGAAGTAAGATACGCTGTTGT
* ** * *
26082649 AGCTTTAGTCTATTTTACTGTAACGTCGGAGAAGTAAGATTCGCTATTGTAGCTTTAACCTGCTT
1 AGCTTTAATCTATTTTACTACAACGTCGGAGAAGTAAAATTCGCTATTGTAGCTTTAACCCGCTT
*
26082714 CACTACAACGTCGAGGAA
66 CACTACAACATCGAGGAA
26082732 ATAAAATTCG
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 73 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (100 bp):
AGCTTTAATCTATTTTACTACAACGTCGGAGAAGTAAAATTCGCTATTGTAGCTTTAACCCGCTT
CACTACAACATCGAGGAAGTAAGATACGCTGTTGT
Found at i:26082744 original size:50 final size:50
Alignment explanation
Indices: 26082565--26082746 Score: 186
Period size: 50 Copynumber: 3.6 Consensus size: 50
26082555 AATCTATTTT
* * *
26082565 ACTACAACGTCGGAGAAGTAAAATTCGTTGTTGTAGCTTTAACCCGCTTC
1 ACTACAACGTCGGAGAAGTAAAATTCGCTATTGTAGCTTTAACCTGCTTC
* * * * * * ** ** *
26082615 ACTGCAACATCGGGGAAGTAAGATACGCTGTTGTAGCTTTAGTCTATTTT
1 ACTACAACGTCGGAGAAGTAAAATTCGCTATTGTAGCTTTAACCTGCTTC
** *
26082665 ACTGTAACGTCGGAGAAGTAAGATTCGCTATTGTAGCTTTAACCTGCTTC
1 ACTACAACGTCGGAGAAGTAAAATTCGCTATTGTAGCTTTAACCTGCTTC
*
26082715 ACTACAACGTC-GAGGAAATAAAATTCGCTATT
1 ACTACAACGTCGGA-GAAGTAAAATTCGCTATT
26082747 ATAACCTCAA
Statistics
Matches: 105, Mismatches: 26, Indels: 2
0.79 0.20 0.02
Matches are distributed among these distances:
49 2 0.02
50 103 0.98
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (50 bp):
ACTACAACGTCGGAGAAGTAAAATTCGCTATTGTAGCTTTAACCTGCTTC
Found at i:26083001 original size:132 final size:132
Alignment explanation
Indices: 26082778--26083149 Score: 582
Period size: 132 Copynumber: 2.8 Consensus size: 132
26082768 ATTGCTCAGA
* *
26082778 GAGACATGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGTTTAA
1 GAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAA
* * *
26082843 ATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGCTTA
66 ATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCATCTTGGATCTGCTCCACTACTACTTA
26082908 GG
131 GG
* * * * *
26082910 GAGACGGGATCTACATTCTTTAACCTACTCCACTGTTGCTCAGGGAGATAGGATTGGTGGCTTAA
1 GAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAA
* * *
26082975 ATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCATATTGGATCTGCTCTACTATTACTTA
66 ATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCATCTTGGATCTGCTCCACTACTACTTA
26083040 GG
131 GG
* * *
26083042 GAGACAGGATCCACAATCTTCAACCTACTCCACTGCTGCTTAGGGAGACAGGACTGGTGGCTTAA
1 GAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAA
* *
26083107 ATCTGCTTCCCAACTACCTCGGGAAGATAAGATTCACCATCTT
66 ATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCATCTT
26083150 CTTCAATCCA
Statistics
Matches: 216, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
132 216 1.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (132 bp):
GAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAA
ATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCATCTTGGATCTGCTCCACTACTACTTA
GG
Found at i:26084146 original size:26 final size:26
Alignment explanation
Indices: 26084093--26084146 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
26084083 GTATCTTGAG
* * *
26084093 AAGAATAAATTATTCCAAGAATAGCA
1 AAGAATAAAGTATTCCAAGAACAACA
*
26084119 AAGAATAAAGTATTCCAAGGACAACA
1 AAGAATAAAGTATTCCAAGAACAACA
26084145 AA
1 AA
26084147 ATCAATATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.56, C:0.13, G:0.13, T:0.19
Consensus pattern (26 bp):
AAGAATAAAGTATTCCAAGAACAACA
Found at i:26086711 original size:50 final size:50
Alignment explanation
Indices: 26086608--26086848 Score: 243
Period size: 50 Copynumber: 4.7 Consensus size: 50
26086598 AAAGAGATCA
* *
26086608 CATGTAAGACCATGTCTGAGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCC
1 CATGTAAGACCATGTCAGGGACATGGCATTGGCA-CC--GAG---ATGAGAGGTCC
**
26086664 CATGTAAGACCATGTCAGGGACATGGTGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCAGGGACATGGCATTGGCACCGAGATGAGAGGTCC
* * *
26086714 CATGGAAGACCATGTCTA-CGACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTC-AGGGACATGGCATTGGCACCGAGATGAGAGGTCC
** * * * * **
26086764 CCCGTAAGACCATGTCTGGGACATGGCATGGGCATCGATATGAGAACATCC
1 CATGTAAGACCATGTCAGGGACATGGCATTGGCACCGAGATGAG-AGGTCC
*
26086815 CATGTAAGACCATGTCTA-GGACATGGCTTTGGCA
1 CATGTAAGACCATGTC-AGGGACATGGCATTGGCA
26086849 TGTTATGATT
Statistics
Matches: 158, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
50 90 0.57
51 33 0.21
53 3 0.02
55 2 0.01
56 30 0.19
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
CATGTAAGACCATGTCAGGGACATGGCATTGGCACCGAGATGAGAGGTCC
Found at i:26086807 original size:100 final size:103
Alignment explanation
Indices: 26086608--26086849 Score: 285
Period size: 100 Copynumber: 2.3 Consensus size: 103
26086598 AAAGAGATCA
*
26086608 CATGTAAGACCATGTCTGAGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCCCATGTAAGA
1 CATGTAAGACCATGTCT-AGACATGGCATTGGCATCC-TGAGA--ATGAGAGGTCCCACGTAAGA
** * **
26086673 CCATGTCAGGGACATGGTGTTGGCACCGAGATGAG-AGGTCC
62 CCATGTCAGGGACATGGCATGGGCACCGAGATGAGAACATCC
* * *
26086714 CATGGAAGACCATGTCTACGACATGGCGTTGGCA-CC-GAG-ATGAGAGGTCCCCCGTAAGACCA
1 CATGTAAGACCATGTCTA-GACATGGCATTGGCATCCTGAGAATGAGAGGTCCCACGTAAGACCA
* * *
26086776 TGTCTGGGACATGGCATGGGCATCGATATGAGAACATCC
65 TGTCAGGGACATGGCATGGGCACCGAGATGAGAACATCC
*
26086815 CATGTAAGACCATGTCTAGGACATGGCTTTGGCAT
1 CATGTAAGACCATGTCTA-GACATGGCATTGGCAT
26086850 GTTATGATTA
Statistics
Matches: 118, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
100 47 0.40
101 35 0.30
103 3 0.03
105 3 0.03
106 30 0.25
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.22
Consensus pattern (103 bp):
CATGTAAGACCATGTCTAGACATGGCATTGGCATCCTGAGAATGAGAGGTCCCACGTAAGACCAT
GTCAGGGACATGGCATGGGCACCGAGATGAGAACATCC
Found at i:26094154 original size:50 final size:50
Alignment explanation
Indices: 26094022--26094215 Score: 226
Period size: 50 Copynumber: 3.7 Consensus size: 50
26094012 GGTAAAGAGA
* * * *
26094022 TCCCATGTAAGACCATGTCTGGGACATAGCATTGGCATCCTTGAAATCATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC--G--A-GATGAAAGG
26094078 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAAAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAAAGG
* ** * **
26094128 TCCCATGGAAGACCATGTCTACGACATGGCGTTGGCACCGATATGAGAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGA-AAGG
*
26094179 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
26094216 TGTTATGATC
Statistics
Matches: 123, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
50 49 0.40
51 36 0.29
53 1 0.01
55 2 0.02
56 35 0.28
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAAAGG
Found at i:26104189 original size:16 final size:16
Alignment explanation
Indices: 26104168--26104202 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
26104158 CTTTTAGGAT
* *
26104168 AAAATGCTATGCAGTC
1 AAAATGCCATGCAATC
26104184 AAAATGCCATGCAATC
1 AAAATGCCATGCAATC
26104200 AAA
1 AAA
26104203 GCAAAACACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.20, G:0.14, T:0.20
Consensus pattern (16 bp):
AAAATGCCATGCAATC
Found at i:26104494 original size:34 final size:34
Alignment explanation
Indices: 26104451--26104518 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
26104441 TTATGGCTGC
* *
26104451 ATTTCGAAAGCAGTCCACTATCCTGCATGGAGGT
1 ATTTCGAAAGCAGCCCACTATCCTGCACGGAGGT
*
26104485 ATTTCGAAAGCGGCCCACTATCCTGCACGGAGGT
1 ATTTCGAAAGCAGCCCACTATCCTGCACGGAGGT
26104519 GAAAACCTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.24
Consensus pattern (34 bp):
ATTTCGAAAGCAGCCCACTATCCTGCACGGAGGT
Found at i:26105634 original size:28 final size:28
Alignment explanation
Indices: 26105603--26105667 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
26105593 ATTTAAGAAA
**
26105603 TAAATATAATATATGTAAATTAA-AATAT
1 TAAA-ATAATATAAATAAATTAACAATAT
*
26105631 TAAAATAAATTTAAATAAATTAACAATAT
1 TAAAAT-AATATAAATAAATTAACAATAT
26105660 TAAAATAA
1 TAAAATAA
26105668 GTTGAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 2 0.06
28 19 0.59
29 11 0.34
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (28 bp):
TAAAATAATATAAATAAATTAACAATAT
Found at i:26105658 original size:29 final size:28
Alignment explanation
Indices: 26105618--26105714 Score: 108
Period size: 29 Copynumber: 3.5 Consensus size: 28
26105608 ATAATATATG
*
26105618 TAAATTAAAATATTAAAATAAATTTAAA
1 TAAATTAAAATATTAAAATAAATTGAAA
*
26105646 TAAATTAACAATATTAAAATAAGTTGAAA
1 TAAATTAA-AATATTAAAATAAATTGAAA
* * *
26105675 TGAATTAAAGATGTTAAAAT-ATTTGAAA
1 TAAATTAAA-ATATTAAAATAAATTGAAA
*
26105703 GAAA-TAAAATAT
1 TAAATTAAAATAT
26105715 CTATATAATA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
26 3 0.05
27 4 0.07
28 18 0.31
29 34 0.58
ACGTcount: A:0.59, C:0.01, G:0.07, T:0.33
Consensus pattern (28 bp):
TAAATTAAAATATTAAAATAAATTGAAA
Found at i:26113291 original size:3 final size:3
Alignment explanation
Indices: 26113283--26113309 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
26113273 TATTTGAGAA
26113283 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
26113310 TCATTATTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:26114011 original size:33 final size:36
Alignment explanation
Indices: 26113951--26114023 Score: 107
Period size: 33 Copynumber: 2.1 Consensus size: 36
26113941 GGTATTAGAG
26113951 TTAATTAGTTATTATTTTGAATAATGTTACTTTG-A
1 TTAATTAGTTATTATTTTGAATAATGTTACTTTGCA
* *
26113986 TTAATTAGTTA-T-TTTTGAATTATGTTATTTTGCA
1 TTAATTAGTTATTATTTTGAATAATGTTACTTTGCA
26114020 TTAA
1 TTAA
26114024 CTACTGAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
33 18 0.51
34 6 0.17
35 11 0.31
ACGTcount: A:0.30, C:0.03, G:0.11, T:0.56
Consensus pattern (36 bp):
TTAATTAGTTATTATTTTGAATAATGTTACTTTGCA
Found at i:26114014 original size:16 final size:16
Alignment explanation
Indices: 26113965--26114016 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
26113955 TTAGTTATTA
*
26113965 TTTTGAATAATGTTACT
1 TTTTGAATTATGTTA-T
26113982 TTGATT-AATTA-GTTAT
1 TT--TTGAATTATGTTAT
26113998 TTTTGAATTATGTTAT
1 TTTTGAATTATGTTAT
26114014 TTT
1 TTT
26114017 GCATTAACTA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
14 2 0.07
15 5 0.17
16 11 0.37
17 6 0.20
18 4 0.13
19 2 0.07
ACGTcount: A:0.27, C:0.02, G:0.12, T:0.60
Consensus pattern (16 bp):
TTTTGAATTATGTTAT
Found at i:26114017 original size:15 final size:15
Alignment explanation
Indices: 26113962--26114022 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
26113952 TAATTAGTTA
*
26113962 TTATTTTGAATAATG
1 TTATTTTGAATTATG
*
26113977 TTACTTTG-ATTAATTAG
1 TTATTTTGAATT-A-T-G
26113994 TTATTTTTGAATTATG
1 TTA-TTTTGAATTATG
*
26114010 TTATTTTGCATTA
1 TTATTTTGAATTA
26114023 ACTACTGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
14 2 0.05
15 17 0.46
16 5 0.14
17 5 0.14
18 5 0.14
19 3 0.08
ACGTcount: A:0.28, C:0.03, G:0.11, T:0.57
Consensus pattern (15 bp):
TTATTTTGAATTATG
Found at i:26123414 original size:16 final size:16
Alignment explanation
Indices: 26123393--26123423 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
26123383 TTAGTATTAA
26123393 CCCTTTCAGCTTCAAT
1 CCCTTTCAGCTTCAAT
26123409 CCCTTTCAGCTTCAA
1 CCCTTTCAGCTTCAA
26123424 GCAACTCTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.39, G:0.06, T:0.35
Consensus pattern (16 bp):
CCCTTTCAGCTTCAAT
Found at i:26125778 original size:23 final size:23
Alignment explanation
Indices: 26125726--26125779 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
26125716 ATGTTTTAAA
*
26125726 ATTAAAATATTTGGAATTATTAT
1 ATTAAAATATTTGGAATTATGAT
*
26125749 ATAAAAATATTTGAGAATT-TGA-
1 ATTAAAATATTTG-GAATTATGAT
26125771 AGTTAAAAT
1 A-TTAAAAT
26125780 TTTATATTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 1 0.04
23 20 0.77
24 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (23 bp):
ATTAAAATATTTGGAATTATGAT
Found at i:26139220 original size:11 final size:11
Alignment explanation
Indices: 26139204--26139263 Score: 84
Period size: 11 Copynumber: 5.5 Consensus size: 11
26139194 AGAATGATGA
26139204 ATGATTGAGGG
1 ATGATTGAGGG
26139215 ATGATTGAGGG
1 ATGATTGAGGG
*
26139226 ATGCTTGAGGG
1 ATGATTGAGGG
*
26139237 ATGCTTGAGGG
1 ATGATTGAGGG
* *
26139248 ATGTTTCAGGG
1 ATGATTGAGGG
26139259 ATGAT
1 ATGAT
26139264 GAATGAAGGA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 45 1.00
ACGTcount: A:0.23, C:0.05, G:0.42, T:0.30
Consensus pattern (11 bp):
ATGATTGAGGG
Found at i:26139410 original size:15 final size:15
Alignment explanation
Indices: 26139381--26139410 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
26139371 GCTTAGTGGC
26139381 TTTTGACTTGATTTT
1 TTTTGACTTGATTTT
26139396 TTTTG-CTTGATTTT
1 TTTTGACTTGATTTT
26139410 T
1 T
26139411 AAGCAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.10, C:0.07, G:0.13, T:0.70
Consensus pattern (15 bp):
TTTTGACTTGATTTT
Found at i:26144067 original size:22 final size:22
Alignment explanation
Indices: 26144037--26144085 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
26144027 TATATCTATT
*
26144037 TATTATAATCATGTTAACATAA
1 TATTTTAATCATGTTAACATAA
* *
26144059 TATTTTAATCATTTTAACATCA
1 TATTTTAATCATGTTAACATAA
26144081 TATTT
1 TATTT
26144086 CCAAACTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (22 bp):
TATTTTAATCATGTTAACATAA
Found at i:26150768 original size:21 final size:22
Alignment explanation
Indices: 26150744--26150791 Score: 53
Period size: 24 Copynumber: 2.1 Consensus size: 22
26150734 AAAATAATCT
* *
26150744 AAAC-TAATCAGAGTTTAATTG
1 AAACATAAACAGAGTTTAACTG
26150765 AAACAAATAAACAGAGTTTAACTG
1 AAAC--ATAAACAGAGTTTAACTG
26150789 AAA
1 AAA
26150792 GATTATTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 4 0.18
24 18 0.82
ACGTcount: A:0.52, C:0.10, G:0.12, T:0.25
Consensus pattern (22 bp):
AAACATAAACAGAGTTTAACTG
Found at i:26156108 original size:17 final size:17
Alignment explanation
Indices: 26156082--26156114 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
26156072 CAATGTTTAC
26156082 AACTAAATAAA-AGATT
1 AACTAAATAAACAGATT
26156098 AACTGAAATAAACAGAT
1 AACT-AAATAAACAGAT
26156115 ATTCAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 7 0.47
18 4 0.27
ACGTcount: A:0.61, C:0.09, G:0.09, T:0.21
Consensus pattern (17 bp):
AACTAAATAAACAGATT
Found at i:26158879 original size:15 final size:16
Alignment explanation
Indices: 26158859--26158888 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
26158849 AGAAAAAGGC
26158859 AAGATTAAAT-GAAAA
1 AAGATTAAATCGAAAA
26158874 AAGATTAAATCGAAA
1 AAGATTAAATCGAAA
26158889 CCATAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.63, C:0.03, G:0.13, T:0.20
Consensus pattern (16 bp):
AAGATTAAATCGAAAA
Found at i:26160691 original size:94 final size:94
Alignment explanation
Indices: 26160572--26160851 Score: 294
Period size: 94 Copynumber: 3.0 Consensus size: 94
26160562 CAATTTCAAA
* * * ** * * *
26160572 GAGATAAGATTTGTTGTAGTAGATTCAATCTGATCCACTGCAACTTTAGGGGTATAGGATTTGTA
1 GAGATAAGATTCGCTATAGTAGATTCAATCAAACCCACTGCAACTTCAAGGGTATAGGATTTGTA
*
26160637 GCTTTAATCTGCTTCACTACAACTTCAGG
66 GCTTTAATCTGATTCACTACAACTTCAGG
* * *
26160666 GAGATAAGATTCGCTATGGTAGATTCAATCAAACCCACTGCAACTTCAAGGATAT-GAGATTTGC
1 GAGATAAGATTCGCTATAGTAGATTCAATCAAACCCACTGCAACTTCAAGGGTATAG-GATTTGT
* * * **
26160730 AGC-TTCATCTTGTTTTACTGTAACTTCAGG
65 AGCTTTAATC-TGATTCACTACAACTTCAGG
* * * * * * * * *
26160760 GAGATAAGATTCGCCATCGTAGTTTCATTCCAACCCACTACAACTTCACGGGTATAGAAATTGTA
1 GAGATAAGATTCGCTATAGTAGATTCAATCAAACCCACTGCAACTTCAAGGGTATAGGATTTGTA
26160825 GCTTTAATCTGATTCACTACAACTTCA
66 GCTTTAATCTGATTCACTACAACTTCA
26160852 AGGATATAGG
Statistics
Matches: 150, Mismatches: 32, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
93 6 0.04
94 138 0.92
95 6 0.04
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.33
Consensus pattern (94 bp):
GAGATAAGATTCGCTATAGTAGATTCAATCAAACCCACTGCAACTTCAAGGGTATAGGATTTGTA
GCTTTAATCTGATTCACTACAACTTCAGG
Found at i:26172747 original size:32 final size:30
Alignment explanation
Indices: 26172687--26172753 Score: 80
Period size: 32 Copynumber: 2.2 Consensus size: 30
26172677 TTATGGGGTA
* ** *
26172687 AAAATAAAAAAATAAAAAAGGAGTAGGACG
1 AAAATAAAAAAACAAAAAAGGAAAAGGACC
26172717 AAAATAAAAAGGAACAAAAAAGGAAAAGGACC
1 AAAATAAAAA--AACAAAAAAGGAAAAGGACC
26172749 AAAAT
1 AAAAT
26172754 GGAAATTACC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 10 0.32
32 21 0.68
ACGTcount: A:0.69, C:0.06, G:0.18, T:0.07
Consensus pattern (30 bp):
AAAATAAAAAAACAAAAAAGGAAAAGGACC
Found at i:26179317 original size:12 final size:12
Alignment explanation
Indices: 26179287--26179317 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
26179277 AAACTGATTT
*
26179287 GGGTAAAGTTGA
1 GGGTAAGGTTGA
26179299 GGGTAAGGTTGA
1 GGGTAAGGTTGA
26179311 GGGTAAG
1 GGGTAAG
26179318 TTTCGTATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (12 bp):
GGGTAAGGTTGA
Found at i:26186765 original size:18 final size:18
Alignment explanation
Indices: 26186742--26186790 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
26186732 TTTAGATTAA
26186742 TTAGAGTTTCATTACATT
1 TTAGAGTTTCATTACATT
* *
26186760 TTAGAGTTTTATTATATT
1 TTAGAGTTTCATTACATT
*
26186778 TTATAGTTTCATT
1 TTAGAGTTTCATT
26186791 TGGAGGTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.27, C:0.06, G:0.10, T:0.57
Consensus pattern (18 bp):
TTAGAGTTTCATTACATT
Found at i:26188606 original size:22 final size:24
Alignment explanation
Indices: 26188564--26188607 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
26188554 TGATAATATG
26188564 TTTTGATATAATAAATTAAAGTGA
1 TTTTGATATAATAAATTAAAGTGA
*
26188588 TTTTGA-ATAA-AAGTTAAAGT
1 TTTTGATATAATAAATTAAAGT
26188608 TGAACAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (24 bp):
TTTTGATATAATAAATTAAAGTGA
Found at i:26190047 original size:11 final size:11
Alignment explanation
Indices: 26190027--26190153 Score: 78
Period size: 11 Copynumber: 12.2 Consensus size: 11
26190017 TAAAAATTAA
26190027 AAAAAGTATTTT
1 AAAAA-TATTTT
26190039 AAAAATATTTT
1 AAAAATATTTT
26190050 --AAA-A--TT
1 AAAAATATTTT
* *
26190056 AAAAAAATTTA
1 AAAAATATTTT
26190067 AAAAAGTATTTT
1 AAAAA-TATTTT
*
26190079 AAAAA-AATTT
1 AAAAATATTTT
*
26190089 AAAAAAATTTT
1 AAAAATATTTT
*
26190100 -TAAA-A--TT
1 AAAAATATTTT
26190107 AAAAA-ATTTT
1 AAAAATATTTT
26190117 AAAAAAGTATTTT
1 -AAAAA-TATTTT
*
26190130 AAAAGTATTTT
1 AAAAATATTTT
*
26190141 AAAAGTATTTT
1 AAAAATATTTT
26190152 AA
1 AA
26190154 CCTCTAGGCC
Statistics
Matches: 94, Mismatches: 8, Indels: 27
0.73 0.06 0.21
Matches are distributed among these distances:
6 2 0.02
7 2 0.02
8 8 0.09
9 5 0.05
10 14 0.15
11 40 0.43
12 18 0.19
13 5 0.05
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:26190067 original size:10 final size:10
Alignment explanation
Indices: 26190050--26190122 Score: 71
Period size: 10 Copynumber: 7.3 Consensus size: 10
26190040 AAAATATTTT
26190050 AAAA-TTAAA
1 AAAATTTAAA
26190059 AAAATTTAAA
1 AAAATTTAAA
26190069 AAAGTATTTTAAA
1 AAA--A-TTTAAA
26190082 AAAATTTAAA
1 AAAATTTAAA
**
26190092 AAAATTT-TT
1 AAAATTTAAA
26190101 AAAA-TTAAA
1 AAAATTTAAA
*
26190110 AAATTTTAAA
1 AAAATTTAAA
26190120 AAA
1 AAA
26190123 GTATTTTAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
8 2 0.04
9 11 0.21
10 29 0.55
11 1 0.02
12 1 0.02
13 9 0.17
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:26190152 original size:51 final size:51
Alignment explanation
Indices: 26190028--26190153 Score: 191
Period size: 51 Copynumber: 2.5 Consensus size: 51
26190018 AAAAATTAAA
26190028 AAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTTAAAAAAGTATTTT
1 AAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTTAAAAAAGTATTTT
* * * *
26190079 AAAA-AAATTTAAAAAAATTTTTAAAATTAAAAAATTTTAAAAAAGTATTTT
1 AAAAGTATTTTAAAAATA-TTTTAAAATTAAAAAAATTTAAAAAAGTATTTT
*
26190130 AAAAGTATTTTAAAAGTATTTTAA
1 AAAAGTATTTTAAAAATATTTTAA
26190154 CCTCTAGGCC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
50 10 0.15
51 46 0.71
52 9 0.14
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (51 bp):
AAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTTAAAAAAGTATTTT
Found at i:26204166 original size:21 final size:21
Alignment explanation
Indices: 26204125--26204164 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
26204115 GATAAAATTG
* *
26204125 TTTTCTTTTAAGAATCTAAAT
1 TTTTCTTATAAAAATCTAAAT
26204146 TTTTCTTATAAAAAT-TAAA
1 TTTTCTTATAAAAATCTAAA
26204165 ATAATTTCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (21 bp):
TTTTCTTATAAAAATCTAAAT
Found at i:26204517 original size:30 final size:31
Alignment explanation
Indices: 26204468--26204530 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
26204458 TGTACCAAAT
*
26204468 CAAAATTTATATATTAAATT-ATATATTATAA
1 CAAAATGTATATATTAAATTCATAT-TTATAA
*
26204499 CAAAATGTATCTA-TAAATTCGATATTTATAA
1 CAAAATGTATATATTAAATTC-ATATTTATAA
26204530 C
1 C
26204531 TTGATTAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 6 0.21
31 18 0.64
32 4 0.14
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.41
Consensus pattern (31 bp):
CAAAATGTATATATTAAATTCATATTTATAA
Found at i:26208410 original size:20 final size:20
Alignment explanation
Indices: 26208385--26208422 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
26208375 CGTAAAATGA
*
26208385 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
26208405 TTTCTGTAAAATGATTTA
1 TTTCTGGAAAATGATTTA
26208423 TTGGAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:26208414 original size:34 final size:35
Alignment explanation
Indices: 26208370--26208436 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
26208360 CAGTAAAATA
*
26208370 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
* *
26208404 TTTTCTGTAAAATGATTTATTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
26208437 CTAATGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.48
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:26226177 original size:61 final size:61
Alignment explanation
Indices: 26226082--26226203 Score: 172
Period size: 61 Copynumber: 2.0 Consensus size: 61
26226072 AAATGCATAC
* *
26226082 GAATGGTGATTCCAATACAGGTACCATGGTGATTCCAACATAATATTAAAATTTTGCAAAT
1 GAATGGTGATTCCAATACAGGTACCATGGTGATTCCAACACAATACTAAAATTTTGCAAAT
* * * * * *
26226143 GAATGGTGCTTCCAATATAGTTACCATGGTGATTCCAATACATTACTAAGATTTTGCAAAT
1 GAATGGTGATTCCAATACAGGTACCATGGTGATTCCAACACAATACTAAAATTTTGCAAAT
26226204 ACAAATGAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (61 bp):
GAATGGTGATTCCAATACAGGTACCATGGTGATTCCAACACAATACTAAAATTTTGCAAAT
Found at i:26226241 original size:23 final size:23
Alignment explanation
Indices: 26226212--26226271 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
26226202 ATACAAATGA
*
26226212 ATAGTGATTCCAATACAATTATC
1 ATAGTGATTCCAATACAATTACC
* *
26226235 ATAGTGATTGCAATACAGTTACC
1 ATAGTGATTCCAATACAATTACC
*
26226258 ATGGTGATTCCAAT
1 ATAGTGATTCCAAT
26226272 GTAGTACTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (23 bp):
ATAGTGATTCCAATACAATTACC
Found at i:26226327 original size:42 final size:42
Alignment explanation
Indices: 26226280--26226386 Score: 205
Period size: 42 Copynumber: 2.5 Consensus size: 42
26226270 ATGTAGTACT
26226280 ATTTTGCAAATGAATGATGATTCTAATTCAATACAAACAAAG
1 ATTTTGCAAATGAATGATGATTCTAATTCAATACAAACAAAG
26226322 ATTTTGCAAATGAATGATGATTCTAATTCAATACAAACAAAG
1 ATTTTGCAAATGAATGATGATTCTAATTCAATACAAACAAAG
*
26226364 ATTTTGCAAATGAATGGTGATTC
1 ATTTTGCAAATGAATGATGATTC
26226387 ATATATAGTG
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (42 bp):
ATTTTGCAAATGAATGATGATTCTAATTCAATACAAACAAAG
Found at i:26226541 original size:17 final size:17
Alignment explanation
Indices: 26226519--26226614 Score: 105
Period size: 17 Copynumber: 5.9 Consensus size: 17
26226509 AATACTTAGT
26226519 GTTATGACCATTTTGAG
1 GTTATGACCATTTTGAG
26226536 GTTATGACCATTTTGAG
1 GTTATGACCATTTTGAG
*
26226553 GTTATGACCTTTTTGA-
1 GTTATGACCATTTTGAG
* *
26226569 --AATGA-CA-CTT-AG
1 GTTATGACCATTTTGAG
26226581 TGTTATGACCATTTTGAG
1 -GTTATGACCATTTTGAG
*
26226599 GTTATGACCTTTTTGA
1 GTTATGACCATTTTGA
26226615 AATAACACTT
Statistics
Matches: 65, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
11 1 0.02
12 2 0.03
13 1 0.02
14 4 0.06
15 4 0.06
16 2 0.03
17 49 0.75
18 2 0.03
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.43
Consensus pattern (17 bp):
GTTATGACCATTTTGAG
Found at i:26226591 original size:46 final size:46
Alignment explanation
Indices: 26226536--26226670 Score: 227
Period size: 46 Copynumber: 2.9 Consensus size: 46
26226526 CCATTTTGAG
26226536 GTTATGACCATTTTGAGGTTATGACCTTTTTGAAATGACACTTAGT
1 GTTATGACCATTTTGAGGTTATGACCTTTTTGAAATGACACTTAGT
*
26226582 GTTATGACCATTTTGAGGTTATGACCTTTTTGAAATAACACTTAGT
1 GTTATGACCATTTTGAGGTTATGACCTTTTTGAAATGACACTTAGT
* *
26226628 GTTATGACCTTTTTGAGGTTATGA-CTTTTCTGAAAGGACACTT
1 GTTATGACCATTTTGAGGTTATGACCTTTT-TGAAATGACACTT
26226671 TATGATCATT
Statistics
Matches: 84, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
45 5 0.06
46 79 0.94
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.41
Consensus pattern (46 bp):
GTTATGACCATTTTGAGGTTATGACCTTTTTGAAATGACACTTAGT
Found at i:26230557 original size:25 final size:25
Alignment explanation
Indices: 26230523--26230574 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
26230513 TAAGTATTAG
26230523 TAAGTTAAAATAGAATATCTAAACT
1 TAAGTTAAAATAGAATATCTAAACT
26230548 TAAGTTAAAATAGAATATCTAAACT
1 TAAGTTAAAATAGAATATCTAAACT
26230573 TA
1 TA
26230575 CCTTAATCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.33
Consensus pattern (25 bp):
TAAGTTAAAATAGAATATCTAAACT
Found at i:26230580 original size:25 final size:25
Alignment explanation
Indices: 26230527--26230580 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
26230517 TATTAGTAAG
*
26230527 TTAAAATAGAATATCTAAACTTAAG
1 TTAAAATAGAATATCTAAACTTAAC
*
26230552 TTAAAATAGAATATCTAAACTTACC
1 TTAAAATAGAATATCTAAACTTAAC
26230577 TTAA
1 TTAA
26230581 TCCATTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (25 bp):
TTAAAATAGAATATCTAAACTTAAC
Found at i:26233350 original size:41 final size:41
Alignment explanation
Indices: 26233280--26233373 Score: 125
Period size: 41 Copynumber: 2.3 Consensus size: 41
26233270 ACCAGAGTGT
* * *
26233280 AAACGGGGGCACGTATATGCTATTCAGGGGTACTGAAGTAC
1 AAACAGGGGCACGTATATGCAATTCAGGGGTACTAAAGTAC
* * *
26233321 AAACAGGGGCATGTATGTGCAATTTAGGGGTACTAAAGTAC
1 AAACAGGGGCACGTATATGCAATTCAGGGGTACTAAAGTAC
*
26233362 AAACAAGGGCAC
1 AAACAGGGGCAC
26233374 ACATGTTCAA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.20
Consensus pattern (41 bp):
AAACAGGGGCACGTATATGCAATTCAGGGGTACTAAAGTAC
Found at i:26233385 original size:41 final size:41
Alignment explanation
Indices: 26233301--26233390 Score: 117
Period size: 41 Copynumber: 2.2 Consensus size: 41
26233291 CGTATATGCT
* * ***
26233301 ATTCAGGGGTACTGAAGTACAAACAGGGGCATGTATGTGCA
1 ATTCAGGGGTACTAAAGTACAAACAAGGGCACACATGTGCA
* *
26233342 ATTTAGGGGTACTAAAGTACAAACAAGGGCACACATGTTCA
1 ATTCAGGGGTACTAAAGTACAAACAAGGGCACACATGTGCA
26233383 ATTCAGGG
1 ATTCAGGG
26233391 TATAATTAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (41 bp):
ATTCAGGGGTACTAAAGTACAAACAAGGGCACACATGTGCA
Found at i:26235380 original size:77 final size:77
Alignment explanation
Indices: 26235253--26235406 Score: 290
Period size: 77 Copynumber: 2.0 Consensus size: 77
26235243 CTCAAATACA
26235253 GAAAAACCACAAGACATAAAGAAACTCAATAAAACTTCGAAAGAAATTAAAAGGAGATCTTCAAT
1 GAAAAACCACAAGACATAAAGAAACTCAATAAAACTTCGAAAGAAATTAAAAGGAGATCTTCAAT
26235318 CTTGATGGAGAT
66 CTTGATGGAGAT
* *
26235330 GAAAAACCACATGACATAAAGAAACTTAATAAAACTTCGAAAGAAATTAAAAGGAGATCTTCAAT
1 GAAAAACCACAAGACATAAAGAAACTCAATAAAACTTCGAAAGAAATTAAAAGGAGATCTTCAAT
26235395 CTTGATGGAGAT
66 CTTGATGGAGAT
26235407 CCACTTCCGA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.21
Consensus pattern (77 bp):
GAAAAACCACAAGACATAAAGAAACTCAATAAAACTTCGAAAGAAATTAAAAGGAGATCTTCAAT
CTTGATGGAGAT
Found at i:26235668 original size:30 final size:30
Alignment explanation
Indices: 26235599--26235668 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
26235589 TGTGTGTCCG
*
26235599 GCCCATATGGCTCACATGGACGTGCGCCCA
1 GCCCATGTGGCTCACATGGACGTGCGCCCA
*
26235629 GCCCATGTGGCTCACATGGACGTGTGCCCA
1 GCCCATGTGGCTCACATGGACGTGCGCCCA
*
26235659 GCCCGTGTGG
1 GCCCATGTGG
26235669 AAATGCCCAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.16, C:0.34, G:0.31, T:0.19
Consensus pattern (30 bp):
GCCCATGTGGCTCACATGGACGTGCGCCCA
Found at i:26247404 original size:52 final size:52
Alignment explanation
Indices: 26247348--26247513 Score: 183
Period size: 52 Copynumber: 3.2 Consensus size: 52
26247338 GCCAACGTTT
* ** *
26247348 ATTTAGTAGGCCTTGATTCGGTCATTATTTAGTAGGCCTTACA-CCGGTGTTC
1 ATTTAGCAGGCCTTGAGCCGGTCATTATTTAGCAGGCCTTA-AGCCGGTGTTC
* * *
26247400 ATTTAGCAGGCCTTGAGCCGGTGATTATTTAGCAGGCCTTAAGCTGGTGTTT
1 ATTTAGCAGGCCTTGAGCCGGTCATTATTTAGCAGGCCTTAAGCCGGTGTTC
** * ** *
26247452 ATTTAGCAGGCCTTGAGCCGGTGGTTATTTAGCAGGTCTTGGGCCAGTGTAT-
1 ATTTAGCAGGCCTTGAGCCGGTCATTATTTAGCAGGCCTTAAGCCGGTGT-TC
26247504 ATTTAGCAGG
1 ATTTAGCAGG
26247514 TACTATGTAG
Statistics
Matches: 99, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
51 1 0.01
52 97 0.98
53 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.35
Consensus pattern (52 bp):
ATTTAGCAGGCCTTGAGCCGGTCATTATTTAGCAGGCCTTAAGCCGGTGTTC
Found at i:26247514 original size:26 final size:26
Alignment explanation
Indices: 26247347--26247513 Score: 146
Period size: 26 Copynumber: 6.4 Consensus size: 26
26247337 AGCCAACGTT
* ** *
26247347 TATTTAGTAGGCCTTGATTCGGT-CA
1 TATTTAGCAGGCCTTGAGCCGGTGTA
* *
26247372 TTATTTAGTAGGCCTT-ACACCGGTGT-
1 -TATTTAGCAGGCCTTGA-GCCGGTGTA
26247398 TCATTTAGCAGGCCTTGAGCCGGTG-A
1 T-ATTTAGCAGGCCTTGAGCCGGTGTA
* * *
26247424 TTATTTAGCAGGCCTTAAGCTGGTGTT
1 -TATTTAGCAGGCCTTGAGCCGGTGTA
26247451 TATTTAGCAGGCCTTGAGCCGGTGGT-
1 TATTTAGCAGGCCTTGAGCCGGT-GTA
* * *
26247477 TATTTAGCAGGTCTTGGGCCAGTGTA
1 TATTTAGCAGGCCTTGAGCCGGTGTA
26247503 TATTTAGCAGG
1 TATTTAGCAGG
26247514 TACTATGTAG
Statistics
Matches: 119, Mismatches: 13, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
25 4 0.03
26 111 0.93
27 4 0.03
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.35
Consensus pattern (26 bp):
TATTTAGCAGGCCTTGAGCCGGTGTA
Found at i:26251152 original size:32 final size:32
Alignment explanation
Indices: 26251111--26251175 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
26251101 TAATTACAAG
26251111 AACTAATTGACATAGGTTTTATTCGACCGAGT
1 AACTAATTGACATAGGTTTTATTCGACCGAGT
26251143 AACTAATTGACATAGGTTTTATTCGACCGAGT
1 AACTAATTGACATAGGTTTTATTCGACCGAGT
26251175 A
1 A
26251176 CATCACTGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.34
Consensus pattern (32 bp):
AACTAATTGACATAGGTTTTATTCGACCGAGT
Found at i:26255256 original size:52 final size:52
Alignment explanation
Indices: 26255197--26255311 Score: 167
Period size: 52 Copynumber: 2.2 Consensus size: 52
26255187 CTTGAGTCGA
26255197 TGGTTATTTAGCAGGACTTGAGTTGGTGTTGATTTAGCAGGCCATAAGCCAG
1 TGGTTATTTAGCAGGACTTGAGTTGGTGTTGATTTAGCAGGCCATAAGCCAG
* * * * * * *
26255249 TGTTTATTTAGCAGGCCTTGAGTTGGTGTTTATTTAGTAGGCCTTGAGCCAT
1 TGGTTATTTAGCAGGACTTGAGTTGGTGTTGATTTAGCAGGCCATAAGCCAG
26255301 TGGTTATTTAG
1 TGGTTATTTAG
26255312 TAAGCTTTGA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.20, C:0.12, G:0.29, T:0.39
Consensus pattern (52 bp):
TGGTTATTTAGCAGGACTTGAGTTGGTGTTGATTTAGCAGGCCATAAGCCAG
Found at i:26255312 original size:26 final size:26
Alignment explanation
Indices: 26255180--26255329 Score: 122
Period size: 26 Copynumber: 5.8 Consensus size: 26
26255170 ATACCAGAAA
* *
26255180 AGCAGGCCTTGAGTC-GATGGTTATTT
1 AGCAGGCCTTGAGCCAG-TGTTTATTT
* *** *
26255206 AGCAGGACTTGAGTTGGTGTTGATTT
1 AGCAGGCCTTGAGCCAGTGTTTATTT
* *
26255232 AGCAGGCCATAAGCCAGTGTTTATTT
1 AGCAGGCCTTGAGCCAGTGTTTATTT
***
26255258 AGCAGGCCTTGAGTTGGTGTTTATTT
1 AGCAGGCCTTGAGCCAGTGTTTATTT
* * *
26255284 AGTAGGCCTTGAGCCATTGGTTATTT
1 AGCAGGCCTTGAGCCAGTGTTTATTT
* * *
26255310 AGTAAGCTTTGAGCCAGTGT
1 AGCAGGCCTTGAGCCAGTGT
26255330 ATGTTTAATA
Statistics
Matches: 97, Mismatches: 26, Indels: 2
0.78 0.21 0.02
Matches are distributed among these distances:
26 96 0.99
27 1 0.01
ACGTcount: A:0.21, C:0.14, G:0.29, T:0.36
Consensus pattern (26 bp):
AGCAGGCCTTGAGCCAGTGTTTATTT
Found at i:26255322 original size:52 final size:50
Alignment explanation
Indices: 26255180--26255311 Score: 165
Period size: 52 Copynumber: 2.5 Consensus size: 50
26255170 ATACCAGAAA
*
26255180 AGCAGGCCTTGAGTCGATGGTTATTTAGCAGGACTTGAGTTGGTGTTGATTT
1 AGCAGGCCTTGAG-CCATGGTTATTTAGCAGG-CTTGAGTTGGTGTTGATTT
* * * *
26255232 AGCAGGCCATAAGCCAGTGTTTATTTAGCAGGCCTTGAGTTGGTGTTTATTT
1 AGCAGGCCTTGAGCCA-TGGTTATTTAGCAGG-CTTGAGTTGGTGTTGATTT
*
26255284 AGTAGGCCTTGAGCCATTGGTTATTTAG
1 AGCAGGCCTTGAGCCA-TGGTTATTTAG
26255312 TAAGCTTTGA
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
51 2 0.03
52 66 0.97
ACGTcount: A:0.20, C:0.14, G:0.30, T:0.36
Consensus pattern (50 bp):
AGCAGGCCTTGAGCCATGGTTATTTAGCAGGCTTGAGTTGGTGTTGATTT
Found at i:26264613 original size:40 final size:40
Alignment explanation
Indices: 26264568--26264836 Score: 326
Period size: 40 Copynumber: 6.8 Consensus size: 40
26264558 GATTATTGTT
* * *
26264568 TGATTGCACATACGTGCCCCTATTTATACTTCAGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCAATACCCC
* *
26264608 TGATTGCACACACGTGCCTCTGTTTGTACTTCAATACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCAATACCCC
* * *
26264648 TGATTGAACACACATGCCCCTGTTTGTACTTCAATACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCAATACCCC
* **
26264688 TGATTGCACATACGTGTCCCAT-TTTGTACTTCGGTACCCC
1 TGATTGCACATACGTG-CCCCTGTTTGTACTTCAATACCCC
* * * * *
26264728 TGATTGCACATACATGCTCCTGTTTATACTTCGATACCCT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCAATACCCC
*
26264768 TGATTGCACATACGTGTCCCTGTTTGTACTTCAATACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCAATACCCC
* * * *
26264808 -GAATGCACATTCGTGCCCTTGTTTATACT
1 TGATTGCACATACGTGCCCCTGTTTGTACT
26264837 CTGGTAAGTC
Statistics
Matches: 196, Mismatches: 31, Indels: 5
0.84 0.13 0.02
Matches are distributed among these distances:
39 27 0.14
40 165 0.84
41 4 0.02
ACGTcount: A:0.21, C:0.30, G:0.14, T:0.34
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTGTTTGTACTTCAATACCCC
Found at i:26264669 original size:20 final size:20
Alignment explanation
Indices: 26264604--26264669 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
26264594 TACTTCAGTA
* *
26264604 CCCCTGATTGCACACACGTG
1 CCCCTGATTGAACACACATG
* * * * *
26264624 CCTCTGTTTGTACTTCA-ATA
1 CCCCTGATTGAAC-ACACATG
26264644 CCCCTGATTGAACACACATG
1 CCCCTGATTGAACACACATG
26264664 CCCCTG
1 CCCCTG
26264670 TTTGTACTTC
Statistics
Matches: 33, Mismatches: 11, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
19 2 0.06
20 29 0.88
21 2 0.06
ACGTcount: A:0.21, C:0.36, G:0.15, T:0.27
Consensus pattern (20 bp):
CCCCTGATTGAACACACATG
Found at i:26264687 original size:20 final size:20
Alignment explanation
Indices: 26264627--26264689 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
26264617 ACACGTGCCT
26264627 CTGTTTGTACTTCAATACCC
1 CTGTTTGTACTTCAATACCC
* * * *
26264647 CTGATTGAAC-ACACATGCCC
1 CTGTTTGTACTTCA-ATACCC
26264667 CTGTTTGTACTTCAATACCC
1 CTGTTTGTACTTCAATACCC
26264687 CTG
1 CTG
26264690 ATTGCACATA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
19 2 0.06
20 29 0.88
21 2 0.06
ACGTcount: A:0.22, C:0.32, G:0.13, T:0.33
Consensus pattern (20 bp):
CTGTTTGTACTTCAATACCC
Found at i:26269440 original size:31 final size:33
Alignment explanation
Indices: 26269402--26269484 Score: 109
Period size: 31 Copynumber: 2.6 Consensus size: 33
26269392 TTACTCACTA
*
26269402 TTTAAAACTTTTTAAATTTTT-TTAT-ACATTT
1 TTTAAAACTTTTTAAATTTTTATTATGAAATTT
*
26269433 TTTAAAACTTTTTAAATTTTTATTTTGAAATTT
1 TTTAAAACTTTTTAAATTTTTATTATGAAATTT
*
26269466 TTT-AAACTATTTTATATTT
1 TTTAAAACT-TTTTAAATTT
26269485 AACGCTAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
31 21 0.46
32 8 0.17
33 17 0.37
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (33 bp):
TTTAAAACTTTTTAAATTTTTATTATGAAATTT
Found at i:26272223 original size:5 final size:5
Alignment explanation
Indices: 26272213--26272243 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
26272203 TGAGCATTCG
26272213 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
26272244 AATTTTCGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:26273076 original size:9 final size:9
Alignment explanation
Indices: 26273062--26273098 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
26273052 TATAGTTTGA
26273062 TATTCGAAT
1 TATTCGAAT
26273071 TATTCGAAT
1 TATTCGAAT
*
26273080 TATTCGAGT
1 TATTCGAAT
26273089 TATTCGAAT
1 TATTCGAAT
26273098 T
1 T
26273099 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:26273169 original size:9 final size:9
Alignment explanation
Indices: 26273152--26273182 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
26273142 TCGAGTTGAT
26273152 TCGAATAAC
1 TCGAATAAC
*
26273161 TCGATTAAC
1 TCGAATAAC
26273170 TCGAATAAC
1 TCGAATAAC
26273179 TCGA
1 TCGA
26273183 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:26277607 original size:10 final size:10
Alignment explanation
Indices: 26277575--26277608 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
26277565 GATTTGAAAC
26277575 TAATTAATAA
1 TAATTAATAA
*
26277585 TATATTAAAAA
1 TA-ATTAATAA
26277596 TAATTAATAA
1 TAATTAATAA
26277606 TAA
1 TAA
26277609 CATATGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAATTAATAA
Found at i:26278429 original size:3 final size:3
Alignment explanation
Indices: 26278421--26278446 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
26278411 TAATTAAAAT
26278421 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
26278447 TTTAAACCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:26282045 original size:20 final size:20
Alignment explanation
Indices: 26282022--26282062 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
26282012 TTAAATTCAT
*
26282022 TTGATTAAAATCAAATCAAA
1 TTGATTAAAATCAAATAAAA
**
26282042 TTGATTGGAATCAAATAAAA
1 TTGATTAAAATCAAATAAAA
26282062 T
1 T
26282063 CAGGATATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.32
Consensus pattern (20 bp):
TTGATTAAAATCAAATAAAA
Found at i:26287534 original size:5 final size:5
Alignment explanation
Indices: 26287524--26287556 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
26287514 TCATCTGTAT
26287524 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
26287557 ATTATGTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:26288990 original size:6 final size:6
Alignment explanation
Indices: 26288979--26289007 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
26288969 TTTATGCACT
26288979 TTATTG TTATTG TTATTG TTATTG TTATT
1 TTATTG TTATTG TTATTG TTATTG TTATT
26289008 TCAATTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (6 bp):
TTATTG
Found at i:26289014 original size:18 final size:18
Alignment explanation
Indices: 26288979--26289016 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
26288969 TTTATGCACT
*
26288979 TTATTGTTATTGTTATTG
1 TTATTGTTATTGTAATTG
26288997 TTATTGTTATT-TCAATTG
1 TTATTGTTATTGT-AATTG
26289015 TT
1 TT
26289017 TTTCTGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.18, C:0.03, G:0.13, T:0.66
Consensus pattern (18 bp):
TTATTGTTATTGTAATTG
Found at i:26296439 original size:5 final size:5
Alignment explanation
Indices: 26296429--26296460 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
26296419 GAGTTGAGCT
26296429 GACCA GACCA GACCA GACCA GACCA GACCA GA
1 GACCA GACCA GACCA GACCA GACCA GACCA GA
26296461 GCGGGGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.38, G:0.22, T:0.00
Consensus pattern (5 bp):
GACCA
Found at i:26301105 original size:26 final size:26
Alignment explanation
Indices: 26301071--26301122 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
26301061 ATATAGTGCC
26301071 ATTCAACTCAATTCAATTTCATTTAA
1 ATTCAACTCAATTCAATTTCATTTAA
26301097 ATTCAACTCAATTCAATTTCATTTAA
1 ATTCAACTCAATTCAATTTCATTTAA
26301123 TCATTTAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.42
Consensus pattern (26 bp):
ATTCAACTCAATTCAATTTCATTTAA
Found at i:26302599 original size:67 final size:67
Alignment explanation
Indices: 26302491--26302620 Score: 251
Period size: 67 Copynumber: 1.9 Consensus size: 67
26302481 AAATATGAAG
*
26302491 AAGATGACCACTTTGGTCATGTTTTAATATTTAGTAATTTAATTGAAATTTTAACATATAATTAA
1 AAGATGACCACTTTGGTCATGTTTTAATATTTAGTAATTTAATTAAAATTTTAACATATAATTAA
26302556 TT
66 TT
26302558 AAGATGACCACTTTGGTCATGTTTTAATATTTAGTAATTTAATTAAAATTTTAACATATAATT
1 AAGATGACCACTTTGGTCATGTTTTAATATTTAGTAATTTAATTAAAATTTTAACATATAATT
26302621 TCACCTTAAC
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.45
Consensus pattern (67 bp):
AAGATGACCACTTTGGTCATGTTTTAATATTTAGTAATTTAATTAAAATTTTAACATATAATTAA
TT
Found at i:26321458 original size:21 final size:20
Alignment explanation
Indices: 26321424--26321465 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
26321414 TGTCAGTAAC
26321424 CAAAAGTTCAGACAAACAGA
1 CAAAAGTTCAGACAAACAGA
* *
26321444 CAAAATGTTCTGACAAATAGA
1 CAAAA-GTTCAGACAAACAGA
26321465 C
1 C
26321466 GTATATGTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.50, C:0.19, G:0.14, T:0.17
Consensus pattern (20 bp):
CAAAAGTTCAGACAAACAGA
Found at i:26323739 original size:36 final size:36
Alignment explanation
Indices: 26323683--26323764 Score: 92
Period size: 36 Copynumber: 2.3 Consensus size: 36
26323673 CACACAATGG
* * * *
26323683 AAAATTAATACAGTTGGCCATATTAATACAAATCAC
1 AAAATTAACACAATTCGCCATAATAATACAAATCAC
* *
26323719 AAAATTAACACAATTCGCCATAATAATAGAATTCAC
1 AAAATTAACACAATTCGCCATAATAATACAAATCAC
* *
26323755 CAAGTTAACA
1 AAAATTAACA
26323765 TGGTTCACAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.49, C:0.18, G:0.07, T:0.26
Consensus pattern (36 bp):
AAAATTAACACAATTCGCCATAATAATACAAATCAC
Found at i:26330414 original size:16 final size:18
Alignment explanation
Indices: 26330386--26330419 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
26330376 TTAGAATTGC
26330386 ATTGAGAAAATT-ATTTA
1 ATTGAGAAAATTAATTTA
26330403 ATTGAG-AAATTAATTTA
1 ATTGAGAAAATTAATTTA
26330420 TTTAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (18 bp):
ATTGAGAAAATTAATTTA
Found at i:26336531 original size:21 final size:21
Alignment explanation
Indices: 26336507--26336571 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
26336497 AGCAAATAAA
**
26336507 AGGGAAAGAAAGGAAAGAAAG
1 AGGGAAAGAAAAAAAAGAAAG
* *
26336528 AGGGCAAGAAAAAAAAGAAAA
1 AGGGAAAGAAAAAAAAGAAAG
*
26336549 AGGAAAAACAGAAAAAAAAGAAA
1 AGG--GAA-AGAAAAAAAAGAAA
26336572 AGAAAATCTC
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
21 20 0.57
23 1 0.03
24 14 0.40
ACGTcount: A:0.71, C:0.03, G:0.26, T:0.00
Consensus pattern (21 bp):
AGGGAAAGAAAAAAAAGAAAG
Found at i:26337525 original size:153 final size:153
Alignment explanation
Indices: 26337349--26337658 Score: 548
Period size: 153 Copynumber: 2.0 Consensus size: 153
26337339 GGGTTCCATA
* **
26337349 TTTTCTTCTATTGACATAATTTATCAAGATCTTTTTATTTTCACTATCTCCATATTCCGTTTCAA
1 TTTTCTCCTATTGACATAATTTATCAAGATCTTTTTATTTTCACTATCTCCATATTCAATTTCAA
*
26337414 GTACTTGAATCTCTTTTGGAGTTTTAATAATTAGTTATGTCTTGGGTCTCTTTTGAAGCACTCGC
66 GTACTTGAATCTCTTTTGGAGTTTTAATAATTAGTCATGTCTTGGGTCTCTTTTGAAGCACTCGC
26337479 CTCCACAATATGACCATCTATAT
131 CTCCACAATATGACCATCTATAT
* *
26337502 TTTTCTCCTATTGACGTAATTTATCAAGATCTTTTTATTTTCACTATCTCCATCTTCAATTTCAA
1 TTTTCTCCTATTGACATAATTTATCAAGATCTTTTTATTTTCACTATCTCCATATTCAATTTCAA
26337567 GTACTTGAATCTCTTTTGGAGTTTTAATAATTAGTCATGTCTTGGGTCTCTTTTGAAGCACTCGC
66 GTACTTGAATCTCTTTTGGAGTTTTAATAATTAGTCATGTCTTGGGTCTCTTTTGAAGCACTCGC
* *
26337632 CTCCACTATATGACCATCTCTAT
131 CTCCACAATATGACCATCTATAT
26337655 TTTT
1 TTTT
26337659 ATTTTCTTTT
Statistics
Matches: 149, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
153 149 1.00
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.45
Consensus pattern (153 bp):
TTTTCTCCTATTGACATAATTTATCAAGATCTTTTTATTTTCACTATCTCCATATTCAATTTCAA
GTACTTGAATCTCTTTTGGAGTTTTAATAATTAGTCATGTCTTGGGTCTCTTTTGAAGCACTCGC
CTCCACAATATGACCATCTATAT
Found at i:26344282 original size:18 final size:17
Alignment explanation
Indices: 26344259--26344293 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
26344249 AATGGACCGA
26344259 AATGGGCCGAGTGGGCCC
1 AATGGGCC-AGTGGGCCC
*
26344277 AATGGGCCCGTGGGCCC
1 AATGGGCCAGTGGGCCC
26344294 TATGTGAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.14, C:0.31, G:0.43, T:0.11
Consensus pattern (17 bp):
AATGGGCCAGTGGGCCC
Found at i:26348555 original size:25 final size:25
Alignment explanation
Indices: 26348527--26348574 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
26348517 TGATGAGTTT
26348527 CAAGCAATCTTTAACAAGGGTGTTC
1 CAAGCAATCTTTAACAAGGGTGTTC
26348552 CAAGCAATCTTTAACAAGGGTGT
1 CAAGCAATCTTTAACAAGGGTGT
26348575 AAAAAGGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (25 bp):
CAAGCAATCTTTAACAAGGGTGTTC
Found at i:26352145 original size:15 final size:15
Alignment explanation
Indices: 26352125--26352159 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
26352115 CAACCCAACC
*
26352125 AGAACAGAACATAAT
1 AGAACAGAACAGAAT
*
26352140 AGAACAGAGCAGAAT
1 AGAACAGAACAGAAT
26352155 AGAAC
1 AGAAC
26352160 TACGCTGAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.57, C:0.14, G:0.20, T:0.09
Consensus pattern (15 bp):
AGAACAGAACAGAAT
Found at i:26358922 original size:31 final size:31
Alignment explanation
Indices: 26358887--26358956 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
26358877 CAGTAACTTC
* * * *
26358887 AATAAAAACTTTTGAATAGTTTAGTGATTTA
1 AATAAAAACTTTTAAATAGTTTAATGACTAA
26358918 AATAAAAACTTTTAAATAGTTTAATGACTAA
1 AATAAAAACTTTTAAATAGTTTAATGACTAA
26358949 AATAAAAA
1 AATAAAAA
26358957 TCTACTCATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (31 bp):
AATAAAAACTTTTAAATAGTTTAATGACTAA
Found at i:26361419 original size:31 final size:30
Alignment explanation
Indices: 26361366--26361423 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
26361356 ATTGAAATAC
* *
26361366 TTTTAGAAAAGTTTAGCTCTTATTTGAGCG
1 TTTTAGAAAAGTCTAGCCCTTATTTGAGCG
*
26361396 TTTTTGAAAAGGTCTAGCCCTTATTTGA
1 TTTTAGAAAA-GTCTAGCCCTTATTTGA
26361424 TCATTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 9 0.38
31 15 0.62
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (30 bp):
TTTTAGAAAAGTCTAGCCCTTATTTGAGCG
Found at i:26372003 original size:17 final size:16
Alignment explanation
Indices: 26371960--26372006 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
26371950 TACTTAACAA
26371960 AAGAGTTCGCCAAACC
1 AAGAGTTCGCCAAACC
*
26371976 ACAGA-TCTCGCCAAAGCT
1 A-AGAGT-TCGCCAAA-CC
26371994 AAGAGTTCGCCAA
1 AAGAGTTCGCCAA
26372007 TTGGCGTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 2 0.08
17 21 0.81
18 3 0.12
ACGTcount: A:0.36, C:0.30, G:0.19, T:0.15
Consensus pattern (16 bp):
AAGAGTTCGCCAAACC
Found at i:26374501 original size:17 final size:17
Alignment explanation
Indices: 26374479--26374512 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
26374469 ATGAACATTT
26374479 AAAACCATTAAGAAACA
1 AAAACCATTAAGAAACA
26374496 AAAACCATTAAGAAACA
1 AAAACCATTAAGAAACA
26374513 GACATTCTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.65, C:0.18, G:0.06, T:0.12
Consensus pattern (17 bp):
AAAACCATTAAGAAACA
Found at i:26393152 original size:44 final size:41
Alignment explanation
Indices: 26393103--26393774 Score: 302
Period size: 44 Copynumber: 15.6 Consensus size: 41
26393093 CCAATAATCC
* *
26393103 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTTGGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAATC-T-AGTCT
* * ***
26393147 TATCTCTCT-ATAGTTGCAG-AGAGCAGATCGTATCTAGTCT
1 TATCTCCCTGA-AGTTGCAGTGGAGCAGATAAAATCTAGTCT
* * *
26393187 TATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TAA--AATCTAGTCT
* * * **
26393231 TATC-CTCCTAAAGTTGCAGTGGGGCAGACTAAAGATGGCAAACCT
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGA-TAAA-AT--CTAGTCT
* *
26393276 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTTGGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAATC-TAG-TCT
* * ***
26393320 TATCTCTCTGAAGTTGCTG-GGAGCAGATCGCATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATAAAATCTAGTCT
* *
26393360 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TAA--AATCTAGTCT
* * * **
26393404 TATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACCT
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGA-T-AAAAT--CTAGTCT
* * * *
26393449 CATATCCCTGAAGTTGCAGTGGAGCAGATTAAATCCTTGGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATAAAAT-C-TAG-TCT
* * * *** *
26393493 TATCTCTCTGAAGTTGTAG-AGAGCAAGATCGCACCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGC-AGATAAAATCTAGTCT
* * * *
26393534 TATCTCCCTGAAATTGTAGTAGAGCAGACTAAGTAAGC-AGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TAA--AATCTA-GTCT
* * * * *
26393578 TATC-CTCTTGAAGTTGCAGTGGGGCAGACTGAAGATGGCGAATCT
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGA-T-AAAAT--CTAGTCT
** ** * *
26393623 TATCTCCCTGAAGTTGCAGTGGAATAGATTAAAGCCAATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAATC--TAGTCT
* * *
26393667 TATCTCCCTGAAGTTGCAGTGTAGCGGATTAAAATCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAATC-TAG-TCT
* * *** *
26393711 TATCTCTCTGAAGTTGCAG-AGAGCAGATCGCATTTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATAAAATCTAGTCT
*
26393751 TATCTCTCTGACA-TTGCAGTGGAG
1 TATCTCCCTGA-AGTTGCAGTGGAG
26393775 TAGACTGCAG
Statistics
Matches: 478, Mismatches: 109, Indels: 85
0.71 0.16 0.13
Matches are distributed among these distances:
40 61 0.13
41 48 0.10
42 25 0.05
43 36 0.08
44 213 0.45
45 91 0.19
46 4 0.01
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (41 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATAAAATCTAGTCT
Found at i:26393392 original size:173 final size:173
Alignment explanation
Indices: 26393103--26393645 Score: 867
Period size: 173 Copynumber: 3.1 Consensus size: 173
26393093 CCAATAATCC
* *
26393103 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTTGGGTCTTATCTCTCT-ATAGTTGCAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTTGGATCTTATCTCTCTGA-AGTTGCTGA
* *
26393167 GAGCAGATCGTATCTAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTT
65 GAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTT
* *
26393232 ATCCTCCTAAAGTTGCAGTGGGGCAGACTAAAGATGGCAAACCT
130 ATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACCT
*
26393276 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTTGGATCTTATCTCTCTGAAGTTGCTGGG
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTTGGATCTTATCTCTCTGAAGTTGCTGAG
26393341 AGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTA
66 AGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTA
26393406 TCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACCT
131 TCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACCT
* * *
26393449 CATATCCCTGAAGTTGCAGTGGAGCAGATT-AAATCCTTGGATCTTATCTCTCTGAAGTTG-TAG
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAT-CTTGGATCTTATCTCTCTGAAGTTGCT-G
* * * * *
26393512 AGAGCAAGATCGCACCTAGTCTTATCTCCCTGAAATTGTAGTAGAGCAGACTAAGTAAGCAGGTC
64 AGAGC-AGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTC
* * *
26393577 TTATCCTCTTGAAGTTGCAGTGGGGCAGACTGAAGATGGCGAATCT
128 TTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACCT
26393623 TATCTCCCTGAAGTTGCAGTGGA
1 TATCTCCCTGAAGTTGCAGTGGA
26393646 ATAGATTAAA
Statistics
Matches: 345, Mismatches: 21, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
172 5 0.01
173 221 0.64
174 119 0.34
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (173 bp):
TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTTGGATCTTATCTCTCTGAAGTTGCTGAG
AGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTA
TCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACCT
Found at i:26393752 original size:347 final size:346
Alignment explanation
Indices: 26393107--26393781 Score: 837
Period size: 347 Copynumber: 1.9 Consensus size: 346
26393097 TAATCCTATC
* *
26393107 TCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTTGGGTCTTATCTCTCTATAGTTGCAGAGAGCA
1 TCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTTGGATCTTATCTCTCTATAGTTGCAGAGAGCA
* * * * *
26393172 GATCGTATCTAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCT
66 GATCGCACCTAGTCTTATCTCCCTGAAATTGCAGTAGAGCAGACTAAGTAAGCAAGTCTTATCCT
* *
26393237 CCTAAAGTTGCAGTGGGGCAGACTAAAGATGGCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCG
131 CCTAAAGTTGCAGTGGGGCAGACTAAAGATGGCAAACCTTATCTCCCTGAAGTTGCAGTGGAACA
* * * * * * *** *
26393302 GATTAAAATCTTGGATCTTATCTCTCTGAAGTTGCTGGGAGCAGATCGCATCTAGTCTTATCTCC
196 GATTAAAACCATGAATCCTATCTCCCTGAAGTTGCAGGGAGCAGATAAAATCCAGTCTTATCTCC
* *
26393367 CTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATC-CTCCTGA-AGTTGCAGTGGGGCA
261 CTGAAGTTGCAGTAGAGCAGACTAAGTAAGCAAGTCTTATCTCT-CTGACA-TTGCAGTGGAGCA
26393430 GACTGAAGATGGCAAACCTCATA
324 GACTGAAGATGGCAAACCTCATA
*
26393453 TCCCTGAAGTTGCAGTGGAGCAGATT-AAATCCTTGGATCTTATCTCTCTGA-AGTTGTAGAGAG
1 TCCCTGAAGTTGCAGTGGAGCAGATTAAAAT-CTTGGATCTTATCTCTCT-ATAGTTGCAGAGAG
* *
26393516 CAAGATCGCACCTAGTCTTATCTCCCTGAAATTGTAGTAGAGCAGACTAAGTAAGCAGGTCTTAT
64 C-AGATCGCACCTAGTCTTATCTCCCTGAAATTGCAGTAGAGCAGACTAAGTAAGCAAGTCTTAT
* * * * *
26393581 CCTCTTGAAGTTGCAGTGGGGCAGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGA
128 CCTCCTAAAGTTGCAGTGGGGCAGACTAAAGATGGCAAACCTTATCTCCCTGAAGTTGCAGTGGA
* * * *
26393646 ATAGATTAAAGCCAAT-AATCCTATCTCCCTGAAGTTGCAGTGTAGCGGATTAAAATCACAGATC
193 ACAGATTAAAACC-ATGAATCCTATCTCCCTGAAGTTGCAG-GGAGCAGA-TAAAATC-CAG-TC
* * * ***
26393710 TTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CG-CATTTAGTCTTATCTCTCTGACATTGCAGT
253 TTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGTAAGCAAGTCTTATCTCTCTGACATTGCAGT
*
26393771 GGAGTAGACTG
318 GGAGCAGACTG
26393782 CAGCACTAGT
Statistics
Matches: 279, Mismatches: 40, Indels: 19
0.83 0.12 0.06
Matches are distributed among these distances:
345 4 0.01
346 54 0.19
347 175 0.63
348 11 0.04
349 5 0.02
350 9 0.03
351 21 0.08
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (346 bp):
TCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTTGGATCTTATCTCTCTATAGTTGCAGAGAGCA
GATCGCACCTAGTCTTATCTCCCTGAAATTGCAGTAGAGCAGACTAAGTAAGCAAGTCTTATCCT
CCTAAAGTTGCAGTGGGGCAGACTAAAGATGGCAAACCTTATCTCCCTGAAGTTGCAGTGGAACA
GATTAAAACCATGAATCCTATCTCCCTGAAGTTGCAGGGAGCAGATAAAATCCAGTCTTATCTCC
CTGAAGTTGCAGTAGAGCAGACTAAGTAAGCAAGTCTTATCTCTCTGACATTGCAGTGGAGCAGA
CTGAAGATGGCAAACCTCATA
Found at i:26395588 original size:19 final size:20
Alignment explanation
Indices: 26395547--26395588 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
26395537 ATTTCTATGC
* *
26395547 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
26395567 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
26395586 CAT
1 CAT
26395589 CCCATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:26398270 original size:12 final size:12
Alignment explanation
Indices: 26398253--26398283 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
26398243 ATTTAGCCTT
26398253 AAGTGAATATTG
1 AAGTGAATATTG
26398265 AAGTGAATATTG
1 AAGTGAATATTG
26398277 AAGTGAA
1 AAGTGAA
26398284 ATAAATTGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (12 bp):
AAGTGAATATTG
Found at i:26408303 original size:44 final size:45
Alignment explanation
Indices: 26408238--26408328 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
26408228 ACCTCTATTC
* * *
26408238 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
26408282 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
26408327 CA
1 CA
26408329 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:26408330 original size:16 final size:16
Alignment explanation
Indices: 26408309--26408344 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
26408299 GATTAGCTAT
26408309 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
26408325 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
26408341 TACA
1 TACA
26408345 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:26418328 original size:59 final size:59
Alignment explanation
Indices: 26418232--26418349 Score: 200
Period size: 59 Copynumber: 2.0 Consensus size: 59
26418222 TGATAAAAGA
* *
26418232 ATGTCTCTCACAAGGTACGTCTTTACTATTGGTGGTTGGGCCAGAGTTGGAAAGTCGCT
1 ATGTCTCTCACAAGGTACGTCTTTACTACTGGGGGTTGGGCCAGAGTTGGAAAGTCGCT
* *
26418291 ATGTCTCTCACAGGGTACGTCTTTACTACTGGGGGTTGGGCCATAGTTGGAAAGTCGCT
1 ATGTCTCTCACAAGGTACGTCTTTACTACTGGGGGTTGGGCCAGAGTTGGAAAGTCGCT
26418350 TTGCAGACTG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.31
Consensus pattern (59 bp):
ATGTCTCTCACAAGGTACGTCTTTACTACTGGGGGTTGGGCCAGAGTTGGAAAGTCGCT
Found at i:26428044 original size:108 final size:108
Alignment explanation
Indices: 26427855--26428178 Score: 639
Period size: 108 Copynumber: 3.0 Consensus size: 108
26427845 AGAACAAAAT
26427855 TATCATTATCACCCTTCTAAAGAAAGAAATTCATGCTTTTAAAGTTAGTCAGCTTAACTAATAAA
1 TATCATTATCACCCTTCTAAAGAAAGAAATTCATGCTTTTAAAGTTAGTCAGCTTAACTAATAAA
26427920 TTGGCATTCAAATTGTTAGAGTTGTGTGATCCAAATTCTAAGA
66 TTGGCATTCAAATTGTTAGAGTTGTGTGATCCAAATTCTAAGA
26427963 TATCATTATCACCCTTCTAAAGAAAGAAATTCATGCTTTTAAAGTTAGTCAGCTTAACTAATAAA
1 TATCATTATCACCCTTCTAAAGAAAGAAATTCATGCTTTTAAAGTTAGTCAGCTTAACTAATAAA
26428028 TTGGCATTCAAATTGTTAGAGTTGTGTGATCCAAATTCTAAGA
66 TTGGCATTCAAATTGTTAGAGTTGTGTGATCCAAATTCTAAGA
26428071 TATCATTATCACCCTTCTAAAGAAAGAAATTCATGCTTTTAAAGTTAGTCAGCTTAACTAATAAA
1 TATCATTATCACCCTTCTAAAGAAAGAAATTCATGCTTTTAAAGTTAGTCAGCTTAACTAATAAA
*
26428136 TTGGCATTCAAATTGTTAGAGTTGTGTGACCCAAATTCTAAGA
66 TTGGCATTCAAATTGTTAGAGTTGTGTGATCCAAATTCTAAGA
26428179 GATTGCTTGC
Statistics
Matches: 215, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 215 1.00
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (108 bp):
TATCATTATCACCCTTCTAAAGAAAGAAATTCATGCTTTTAAAGTTAGTCAGCTTAACTAATAAA
TTGGCATTCAAATTGTTAGAGTTGTGTGATCCAAATTCTAAGA
Found at i:26436363 original size:18 final size:18
Alignment explanation
Indices: 26436342--26436381 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
26436332 CTTTCTTCAA
* * *
26436342 TTTCTTTTTCACTTTTCT
1 TTTCTGTTTCACATTCCT
26436360 TTTCTGTTTCACATTCCT
1 TTTCTGTTTCACATTCCT
26436378 TTTC
1 TTTC
26436382 ACTCTCAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.07, C:0.25, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTCTGTTTCACATTCCT
Found at i:26439567 original size:22 final size:22
Alignment explanation
Indices: 26439537--26439579 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
26439527 ACACCAAAAC
*
26439537 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
26439559 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
26439580 AGCACCGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:26439817 original size:43 final size:43
Alignment explanation
Indices: 26439761--26439919 Score: 167
Period size: 43 Copynumber: 3.7 Consensus size: 43
26439751 TCCACTAAAG
* ****
26439761 CGCCGCTAA-AGACCCTGATCTTTAGCGGCGTTTTTTTTTCAAA
1 CGCCGC-AATAGACCCTGATCTATAGCGGCGTTTTCACCTCAAA
* * *
26439804 CGCCGCAATAGACCCTGATCTATAGCGGCGCTTTGACCACAAA
1 CGCCGCAATAGACCCTGATCTATAGCGGCGTTTTCACCTCAAA
* * * * * * *
26439847 CGCCACAAAAGAACCTAATCTTTAGCAGCGTTTTCCCCTCAAA
1 CGCCGCAATAGACCCTGATCTATAGCGGCGTTTTCACCTCAAA
26439890 CGCCGCAATAGACCCTGATCTATAGCGGCG
1 CGCCGCAATAGACCCTGATCTATAGCGGCG
26439920 CTTCGACCAC
Statistics
Matches: 92, Mismatches: 23, Indels: 2
0.79 0.20 0.02
Matches are distributed among these distances:
42 2 0.02
43 90 0.98
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (43 bp):
CGCCGCAATAGACCCTGATCTATAGCGGCGTTTTCACCTCAAA
Found at i:26439878 original size:86 final size:87
Alignment explanation
Indices: 26439799--26439990 Score: 298
Period size: 87 Copynumber: 2.2 Consensus size: 87
26439789 CGTTTTTTTT
* *
26439799 TCAAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTTGACCAC-AAACGCCACAAAAGAACCT
1 TCAAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTCGACCACAAAACACCACAAAAGAACCT
26439863 AATCTTTAGCAGCGTTTTCCCC
66 AATCTTTAGCAGCGTTTTCCCC
*
26439885 TCAAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTCGACCACAAAACACCACTAAAGAACCT
1 TCAAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTCGACCACAAAACACCACAAAAGAACCT
* *
26439950 AATCTTTAGCGGCGCTTTCCCC
66 AATCTTTAGCAGCGTTTTCCCC
* *
26439972 ACAAATGCCGCTAA-AGACC
1 TCAAACGCCGC-AATAGACC
26439991 NNNNNNNNNN
Statistics
Matches: 97, Mismatches: 7, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
86 44 0.45
87 51 0.53
88 2 0.02
ACGTcount: A:0.31, C:0.33, G:0.16, T:0.19
Consensus pattern (87 bp):
TCAAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTCGACCACAAAACACCACAAAAGAACCT
AATCTTTAGCAGCGTTTTCCCC
Found at i:26447683 original size:13 final size:13
Alignment explanation
Indices: 26447665--26447690 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26447655 CAATTGCGGC
26447665 GTTTGTAATATAG
1 GTTTGTAATATAG
26447678 GTTTGTAATATAG
1 GTTTGTAATATAG
26447691 CGCCACTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (13 bp):
GTTTGTAATATAG
Found at i:26448512 original size:15 final size:15
Alignment explanation
Indices: 26448440--26448521 Score: 62
Period size: 15 Copynumber: 5.5 Consensus size: 15
26448430 TTAATTGACA
*
26448440 CCCTAAA-CCCTAAAT
1 CCCTAAATCCCT-AAC
*
26448455 CCCT-AACCCCTAAC
1 CCCTAAATCCCTAAC
**
26448469 CTTTAAATCTCCTAGAC
1 CCCTAAATC-CCTA-AC
*
26448486 CCC-AAATTCCTAAC
1 CCCTAAATCCCTAAC
*
26448500 CCCTAACTCCCTAAC
1 CCCTAAATCCCTAAC
26448515 CCCTAAA
1 CCCTAAA
26448522 CCTTATATCC
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
14 11 0.21
15 30 0.58
16 8 0.15
17 3 0.06
ACGTcount: A:0.33, C:0.44, G:0.01, T:0.22
Consensus pattern (15 bp):
CCCTAAATCCCTAAC
Found at i:26451378 original size:21 final size:20
Alignment explanation
Indices: 26451348--26451388 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
26451338 CCTAACTCCT
*
26451348 AACCCCTAAACCTTAAATCCC
1 AACCCCTAAACCAT-AATCCC
*
26451369 AACCCTTAAACCATAATCCC
1 AACCCCTAAACCATAATCCC
26451389 TAAATCCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (20 bp):
AACCCCTAAACCATAATCCC
Found at i:26452202 original size:41 final size:41
Alignment explanation
Indices: 26452133--26452330 Score: 200
Period size: 41 Copynumber: 4.8 Consensus size: 41
26452123 TTATTATTAC
* * * *
26452133 TAGCGGCGCTTTTTTAAAAACGCCGCTAAAGGCCACAGCAA
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGCAT
* * * * ** *
26452174 TACCGGCACTTCTTTAAAAATGCCGCTAAAGATCTGAGCAT
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGCAT
* * * *
26452215 TAGCGACGCTTCTTCAAAAACGCCACTAAAAGACAGAGCAT
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGCAT
*
26452256 TAGCGGCGCTTAC-TCAAAAATGCCGCTAAAGGCCAGAGCAT
1 TAGCGGCGCTT-CTTCAAAAACGCCGCTAAAGGCCAGAGCAT
** * *
26452297 TAGCGGCATTTATTAAAAAACGCCGCTAAAGGCC
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCC
26452331 CGAAAAACTC
Statistics
Matches: 126, Mismatches: 29, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
41 125 0.99
42 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (41 bp):
TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGCAT
Found at i:26452491 original size:40 final size:40
Alignment explanation
Indices: 26452367--26452503 Score: 154
Period size: 40 Copynumber: 3.5 Consensus size: 40
26452357 TGGCTTAGGC
**
26452367 TTTTT-GCGGCGCTTTTCAGAAAA-CGCCGCTAATGCT-TA
1 TTTTTAGCGGCG-TTTTTTGAAAAGCGCCGCTAATGCTCTA
* *
26452405 TTTTTAGCGGCGTTTTTGGATAAGCGCCGCTAATGCTCTA
1 TTTTTAGCGGCGTTTTTTGAAAAGCGCCGCTAATGCTCTA
** * *
26452445 CCTTTAGCGGCGTTTTTTTAAAAGCGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTTTGAAAAGCGCCGCTAATGCTCTA
* *
26452485 TTTTTAGTGTCGTTTTTTG
1 TTTTTAGCGGCGTTTTTTG
26452504 TCCAAACGCC
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
38 13 0.16
39 19 0.23
40 50 0.61
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.39
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTTGAAAAGCGCCGCTAATGCTCTA
Found at i:26452524 original size:12 final size:12
Alignment explanation
Indices: 26452507--26452532 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
26452497 TTTTTTGTCC
26452507 AAACGCCGCTAA
1 AAACGCCGCTAA
26452519 AAACGCCGCTAA
1 AAACGCCGCTAA
26452531 AA
1 AA
26452533 GCCTATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:26452631 original size:20 final size:20
Alignment explanation
Indices: 26452606--26452645 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
26452596 TTTCAATGAG
26452606 AAGGTCCACAAATAAATTAA
1 AAGGTCCACAAATAAATTAA
*
26452626 AAGGTCCAGAAATAAATTAA
1 AAGGTCCACAAATAAATTAA
26452646 CTTAACCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.55, C:0.12, G:0.12, T:0.20
Consensus pattern (20 bp):
AAGGTCCACAAATAAATTAA
Found at i:26456149 original size:46 final size:45
Alignment explanation
Indices: 26456077--26456213 Score: 166
Period size: 46 Copynumber: 3.0 Consensus size: 45
26456067 ACAATGTTAT
* * *
26456077 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTT-ACTGAAATACCATACCTACGTTCCAA
* *
26456123 AACTCAATATGGTTTTCATTATTGAAATACCATACCTACGTTCCAA
1 AACTCAGTATGGTTTTC-TTACTGAAATACCATACCTACGTTCCAA
* * * *
26456169 AAATCAGTATTGATTTCTTTACTGAATTACCATACCTACGTTCCA
1 AACTCAGTATGGTTTTC-TTACTGAAATACCATACCTACGTTCCA
26456214 TACTTTTCCA
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
46 76 0.97
47 2 0.03
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.36
Consensus pattern (45 bp):
AACTCAGTATGGTTTTCTTACTGAAATACCATACCTACGTTCCAA
Found at i:26460759 original size:43 final size:43
Alignment explanation
Indices: 26460711--26460797 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
26460701 TTCAAAGTAT
26460711 GTTAAATCACACCATCTAACATTCAACCAATATG-CTTAACATA
1 GTTAAATCACACCATCTAACATTCAACCAATATGTC-TAACATA
26460754 GTTAAATCACACCATCTAACATTCAACCAATATGTCTAACATA
1 GTTAAATCACACCATCTAACATTCAACCAATATGTCTAACATA
26460797 G
1 G
26460798 GCAACTCAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
43 42 0.98
44 1 0.02
ACGTcount: A:0.41, C:0.25, G:0.06, T:0.28
Consensus pattern (43 bp):
GTTAAATCACACCATCTAACATTCAACCAATATGTCTAACATA
Found at i:26461383 original size:37 final size:37
Alignment explanation
Indices: 26461341--26461432 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
26461331 GAAACATACT
** *
26461341 AGATGCTCATAAGAGCTAATCCACCTGATAACATGCC
1 AGATGCTCATAAGAGCTAATCCACCCAATAACACGCC
26461378 AGATGCTCATAAGAG-TCAATCCACCCAATAACACGCC
1 AGATGCTCATAAGAGCT-AATCCACCCAATAACACGCC
*
26461415 A-ATTGCTCTTAAGAGCTA
1 AGA-TGCTCATAAGAGCTA
26461433 GTCTAACCGA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
36 2 0.04
37 45 0.94
38 1 0.02
ACGTcount: A:0.36, C:0.27, G:0.15, T:0.22
Consensus pattern (37 bp):
AGATGCTCATAAGAGCTAATCCACCCAATAACACGCC
Found at i:26463774 original size:26 final size:26
Alignment explanation
Indices: 26463739--26463829 Score: 101
Period size: 26 Copynumber: 3.2 Consensus size: 26
26463729 TCAATTAAAC
26463739 AAATAAATTACATAAAATGTAATTAA
1 AAATAAATTACATAAAATGTAATTAA
26463765 AAATAAATTACATAAAATTAGTTGAATTAA
1 AAATAAATTACATAAAA-T-G-T-AATTAA
* *
26463795 AAATTTAAATTAGATAAAATCTAATTACA
1 AAA--TAAATTACATAAAATGTAATTA-A
26463824 AAATAA
1 AAATAA
26463830 TGGCATAAAG
Statistics
Matches: 56, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
26 17 0.30
27 4 0.07
28 6 0.11
29 6 0.11
30 9 0.16
31 1 0.02
32 13 0.23
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.32
Consensus pattern (26 bp):
AAATAAATTACATAAAATGTAATTAA
Found at i:26470667 original size:30 final size:29
Alignment explanation
Indices: 26470607--26470674 Score: 77
Period size: 30 Copynumber: 2.4 Consensus size: 29
26470597 AGATATGCTC
* *
26470607 ATATTATTTT-TTTTATATTTTTAAAAAT
1 ATATTATTTTATTTAATATTTATAAAAAT
**
26470635 ATAATTATTTTATTTAATATTTATAATTAT
1 AT-ATTATTTTATTTAATATTTATAAAAAT
26470665 ATATT-TTTTA
1 ATATTATTTTA
26470675 CTATCCATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
28 7 0.21
29 11 0.32
30 16 0.47
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (29 bp):
ATATTATTTTATTTAATATTTATAAAAAT
Found at i:26472068 original size:22 final size:22
Alignment explanation
Indices: 26472043--26472085 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
26472033 AATTTAATTC
*
26472043 ACATTTATTGATTGAATGTAAT
1 ACATTTATTAATTGAATGTAAT
26472065 ACATTTATTAATTGAATGTAA
1 ACATTTATTAATTGAATGTAA
26472086 AGGAGCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.44
Consensus pattern (22 bp):
ACATTTATTAATTGAATGTAAT
Found at i:26478275 original size:86 final size:86
Alignment explanation
Indices: 26478125--26478371 Score: 275
Period size: 86 Copynumber: 2.8 Consensus size: 86
26478115 ACCACAAAAT
* * * *
26478125 CCGCTAAAGGTCATGGTCTTTAGCGGCGCTTACCACACAAACGCCGCTAAAGGTCATGGTCTTTA
1 CCGCTAAAGGTCATGGACTTTAGCGGCGCTTACCAAACAAACGCCGCTAAA-GACATGATCTTTA
26478190 GTGGCGCTT-ACAAAACAAACG
65 GTGGCGCTTCACAAAACAAACG
* *
26478211 CCGCTAAAGGTCATGGACTTTAGCGGCGCTTACGAAACAAACGCCGCTAAAGACAATGACCTTTA
1 CCGCTAAAGGTCATGGACTTTAGCGGCGCTTACCAAACAAACGCCGCTAAAGAC-ATGATCTTTA
* ***
26478276 GTGGCGCTTCTCTTTACAAACG
65 GTGGCGCTTCACAAAACAAACG
*** * * * *
26478298 CCGCTAAAAACCCT-GATCTTTAGCGGCGCTTCTCCAGA-AAACGCCGCTGAAGACCATGATCTT
1 CCGCTAAAGGTCATGGA-CTTTAGCGGCGCTT-ACCAAACAAACGCCGCTAAAGA-CATGATCTT
26478361 TAGTGGCGCTT
63 TAGTGGCGCTT
26478372 TTCCCACAAA
Statistics
Matches: 137, Mismatches: 19, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
85 2 0.01
86 67 0.49
87 64 0.47
88 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (86 bp):
CCGCTAAAGGTCATGGACTTTAGCGGCGCTTACCAAACAAACGCCGCTAAAGACATGATCTTTAG
TGGCGCTTCACAAAACAAACG
Found at i:26478394 original size:43 final size:43
Alignment explanation
Indices: 26478077--26478406 Score: 247
Period size: 43 Copynumber: 7.7 Consensus size: 43
26478067 TTATTTCTAA
* ** * *
26478077 AAACGCCACTAAAGACCAAAAGCTTTAACGGCGCTTTCACCAC
1 AAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTCACCAC
** ** * *
26478120 AAAATCCGCTAAAGGTCATGGTCTTTAGCGGCGCTTAC-CACAC
1 AAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTCAC-CAC
** * * * **
26478163 AAACGCCGCTAAAGGTCATGGTCTTTAGTGGCGCTTACAAAAC
1 AAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTCACCAC
** * *
26478206 AAACGCCGCTAAAGGTCATGGA-CTTTAGCGGCGCTTACGA-AAC
1 AAACGCCGCTAAAGACCAT-GATCTTTAGCGGCGCTTTC-ACCAC
* * * ***
26478249 AAACGCCGCTAAAGACAATGACCTTTAGTGGCGCTTCTCTTTAC
1 AAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTT-TCACCAC
* * * *
26478293 AAACGCCGCTAAAAACCCTGATCTTTAGCGGCGC-TTCTCCAGA
1 AAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTCACCA-C
* *
26478336 AAACGCCGCTGAAGACCATGATCTTTAGTGGCGCTTTTC-CCAC
1 AAACGCCGCTAAAGACCATGATCTTTAGCGGCGC-TTTCACCAC
* *
26478379 AAACGCCGCTAAAGACCATTACCTTTAG
1 AAACGCCGCTAAAGACCATGATCTTTAG
26478407 TGGTGTTTTT
Statistics
Matches: 236, Mismatches: 41, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
42 7 0.03
43 189 0.80
44 37 0.16
45 3 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTCACCAC
Found at i:26478831 original size:66 final size:66
Alignment explanation
Indices: 26478750--26478895 Score: 215
Period size: 66 Copynumber: 2.2 Consensus size: 66
26478740 CTCGCTGCAG
*
26478750 CCTCTGCTTCTCTCGCTGCCCCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTGCCCCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTT
26478813 GAA
64 GAA
** * *
26478816 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCCCCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
26478881 A
66 A
26478882 CCTCAGCTTCTCTC
1 CCTCAGCTTCTCTC
26478896 AATGTTGCCT
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
65 1 0.01
66 68 0.93
67 4 0.05
ACGTcount: A:0.13, C:0.30, G:0.17, T:0.40
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCCCCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:26478912 original size:66 final size:65
Alignment explanation
Indices: 26478771--26478920 Score: 194
Period size: 66 Copynumber: 2.3 Consensus size: 65
26478761 CTCGCTGCCC
* * **
26478771 CATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGCT
1 CATCCGCTTTAAGTTG-TGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCAATGCT
26478836 G
65 G
* * *
26478837 CATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCAATGT
1 CATCCGCTTTAAGTTGT-GCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCAATGC
26478901 TG
64 TG
*
26478903 CCTCCGCTTTAAGTTGTG
1 CATCCGCTTTAAGTTGTG
26478921 TAATTTGCTC
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
65 2 0.03
66 69 0.92
67 4 0.05
ACGTcount: A:0.15, C:0.25, G:0.19, T:0.41
Consensus pattern (65 bp):
CATCCGCTTTAAGTTGTGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCAATGCTG
Done.