Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 42 of 93
Found at i:5215158 original size:33 final size:33
Alignment explanation
Indices: 5215112--5215182 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
5215102 TCCTAAATTC
* **
5215112 ATGCACTAGACATTCTCAAATGCAATGCATGCT
1 ATGCACTAAACATTCAAAAATGCAATGCATGCT
5215145 ATGCACTAAACATTCAAAAATGCAATGCATGCT
1 ATGCACTAAACATTCAAAAATGCAATGCATGCT
5215178 ATGCA
1 ATGCA
5215183 AATGTCAAGC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (33 bp):
ATGCACTAAACATTCAAAAATGCAATGCATGCT
Found at i:5216238 original size:18 final size:16
Alignment explanation
Indices: 5216217--5216317 Score: 87
Period size: 18 Copynumber: 6.0 Consensus size: 16
5216207 TTTTCTCTTA
*
5216217 TTTTACATTTTTTCCAT
1 TTTTTCATTTTTT-CAT
*
5216234 TTTTTTATTTTTTCATTT
1 TTTTTCATTTTTTCA--T
*
5216252 TTTTTCATTTTTTTATGT
1 TTTTTCATTTTTTCA--T
* *
5216270 TTTTTCATTTTTCCGT
1 TTTTTCATTTTTTCAT
5216286 TTTTTCATTTTTTTCAT
1 TTTTTCA-TTTTTTCAT
*
5216303 TTCTT-ATTTTTTCAT
1 TTTTTCATTTTTTCAT
5216318 CCATTATTGA
Statistics
Matches: 70, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
15 9 0.13
16 11 0.16
17 22 0.31
18 28 0.40
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (16 bp):
TTTTTCATTTTTTCAT
Found at i:5216244 original size:7 final size:8
Alignment explanation
Indices: 5216217--5216317 Score: 87
Period size: 8 Copynumber: 12.0 Consensus size: 8
5216207 TTTTCTCTTA
*
5216217 TTTTACAT
1 TTTTTCAT
5216225 TTTTTCCAT
1 TTTTT-CAT
*
5216234 TTTTTTAT
1 TTTTTCAT
5216242 TTTTTCATTT
1 TTTTTCA--T
5216252 TTTTTCAT
1 TTTTTCAT
*
5216260 TTTTTTATGT
1 TTTTTCA--T
5216270 TTTTTCAT
1 TTTTTCAT
* *
5216278 TTTTCCGT
1 TTTTTCAT
5216286 TTTTTCATT
1 TTTTTCA-T
5216295 TTTTTCAT
1 TTTTTCAT
*
5216303 TTCTT-AT
1 TTTTTCAT
5216310 TTTTTCAT
1 TTTTTCAT
5216318 CCATTATTGA
Statistics
Matches: 75, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
7 6 0.08
8 38 0.51
9 16 0.21
10 15 0.20
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (8 bp):
TTTTTCAT
Found at i:5219082 original size:28 final size:28
Alignment explanation
Indices: 5219011--5219067 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
5219001 CTTAAGTACA
*
5219011 CAATTGAGTCATTATTAGAAATGCTATG
1 CAATTGTGTCATTATTAGAAATGCTATG
5219039 CAATTGTGTCATTATTAGAAATGCTATG
1 CAATTGTGTCATTATTAGAAATGCTATG
5219067 C
1 C
5219068 TTTATGTTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (28 bp):
CAATTGTGTCATTATTAGAAATGCTATG
Found at i:5226834 original size:439 final size:439
Alignment explanation
Indices: 5226016--5226897 Score: 1674
Period size: 439 Copynumber: 2.0 Consensus size: 439
5226006 ATCATTGCTG
5226016 TTATCGAGGAGAAAGAAGTTGGCATTTGGTTAGGAATTCATATAGACTATTTTTGCTTAAGCCTT
1 TTATCGAGGAGAAAGAAGTTGGCATTTGGTTAGGAATTCATATAGACTATTTTTGCTTAAGCCTT
*
5226081 TCACCAGAACTAGTTTGGTGCTTAAATCCTTCACCAAAAAATGAGATTAGCAAAATTTAATAGAG
66 TCACCAGAACTAGTTTGGTGCTTAAATCCTTCACCAAAAAATGAGATTAGCAAAATTTAACAGAG
*
5226146 ACTTTGTTAGTGTTACACGATTTTGAAATAAAAATTAGGTTTTTTCTCATATGAGGTACATACAA
131 ACTTTGTTAGTGTTACACGATTTTGAAATAAAAATGAGGTTTTTTCTCATATGAGGTACATACAA
*
5226211 GACATTTGATAATTAAAGAGATTTTGTAATAGTAGGAATAATAATAGAGCTTGTATGAGTAATTT
196 GACATTTGATAATTAAAGAGATTTTGTAATAGTAGGAATAATAATAGAGCCTGTATGAGTAATTT
*
5226276 TCAAACTTGTACCATTAGTAACAATTATTTCATTTGGCCCTCCATATTCTGAGTACAATGATAGA
261 TCAAACTTGTACCATCAGTAACAATTATTTCATTTGGCCCTCCATATTCTGAGTACAATGATAGA
5226341 TTATTCAAGTCTATTGTGACATAATTTGATGCTCATGAGTCCATAATCCAGTGTGGATTGTTTAC
326 TTATTCAAGTCTATTGTGACATAATTTGATGCTCATGAGTCCATAATCCAGTGTGGATTGTTTAC
5226406 ATAGAGAAATGTAATAACATTGTTGACTATTGGCTTTATGGGGTTAGAT
391 ATAGAGAAATGTAATAACATTGTTGACTATTGGCTTTATGGGGTTAGAT
5226455 TTATCGAGGAGAAAGAAGTTGGCATTTGGTTAGGAATTCATATAGACTATTTTTGCTTAAGCCTT
1 TTATCGAGGAGAAAGAAGTTGGCATTTGGTTAGGAATTCATATAGACTATTTTTGCTTAAGCCTT
*
5226520 TCACCAGAACTAGTTTGGTGCTTAAATCCTTCACTAAAAAATGAGATTAGCAAAATTTAACAGAG
66 TCACCAGAACTAGTTTGGTGCTTAAATCCTTCACCAAAAAATGAGATTAGCAAAATTTAACAGAG
* * *
5226585 GCTTTGTTAGTGTTACATGATTTTGAAATAGAAATGAGGTTTTTTCTCATATGAGGTACATACAA
131 ACTTTGTTAGTGTTACACGATTTTGAAATAAAAATGAGGTTTTTTCTCATATGAGGTACATACAA
5226650 GACATTTGATAATTAAAGAGATTTTGTAATAGTAGGAATAATAATAGAGCCTGTATGAGTAATTT
196 GACATTTGATAATTAAAGAGATTTTGTAATAGTAGGAATAATAATAGAGCCTGTATGAGTAATTT
5226715 TCAAACTTGTACCATCAGTAACAATTATTTCATTTGGCCCTCCATATTCTGAGTACAATGATAGA
261 TCAAACTTGTACCATCAGTAACAATTATTTCATTTGGCCCTCCATATTCTGAGTACAATGATAGA
*
5226780 TTATTCAAGTCTATTGTGACATAATTTGATGCTCATGAGTCCATAATCCAGTGTGGATTGTTTAT
326 TTATTCAAGTCTATTGTGACATAATTTGATGCTCATGAGTCCATAATCCAGTGTGGATTGTTTAC
*
5226845 ATAGGGAAATGTAATAACATTGTTGACTATTGGCTTTATGGGGTTAGAT
391 ATAGAGAAATGTAATAACATTGTTGACTATTGGCTTTATGGGGTTAGAT
5226894 TTAT
1 TTAT
5226898 AAAGCCTACA
Statistics
Matches: 433, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
439 433 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (439 bp):
TTATCGAGGAGAAAGAAGTTGGCATTTGGTTAGGAATTCATATAGACTATTTTTGCTTAAGCCTT
TCACCAGAACTAGTTTGGTGCTTAAATCCTTCACCAAAAAATGAGATTAGCAAAATTTAACAGAG
ACTTTGTTAGTGTTACACGATTTTGAAATAAAAATGAGGTTTTTTCTCATATGAGGTACATACAA
GACATTTGATAATTAAAGAGATTTTGTAATAGTAGGAATAATAATAGAGCCTGTATGAGTAATTT
TCAAACTTGTACCATCAGTAACAATTATTTCATTTGGCCCTCCATATTCTGAGTACAATGATAGA
TTATTCAAGTCTATTGTGACATAATTTGATGCTCATGAGTCCATAATCCAGTGTGGATTGTTTAC
ATAGAGAAATGTAATAACATTGTTGACTATTGGCTTTATGGGGTTAGAT
Found at i:5228757 original size:24 final size:24
Alignment explanation
Indices: 5228730--5228777 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
5228720 AAATTTTGAA
*
5228730 ACAAGAGTGAAAAAGATGAG-AAAG
1 ACAAAAGT-AAAAAGATGAGCAAAG
*
5228754 ACAAAAGTAGAAAGATGAGCAAAG
1 ACAAAAGTAAAAAGATGAGCAAAG
5228778 TAAGAGTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.58, C:0.06, G:0.27, T:0.08
Consensus pattern (24 bp):
ACAAAAGTAAAAAGATGAGCAAAG
Found at i:5232893 original size:16 final size:16
Alignment explanation
Indices: 5232872--5232904 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
5232862 GCTTTTTGGG
*
5232872 ATGTCTTTGTTGTTGT
1 ATGTCTTTGTTATTGT
5232888 ATGTCTTTGTTATTGT
1 ATGTCTTTGTTATTGT
5232904 A
1 A
5232905 ATAAGAGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.06, G:0.21, T:0.61
Consensus pattern (16 bp):
ATGTCTTTGTTATTGT
Found at i:5235970 original size:151 final size:149
Alignment explanation
Indices: 5235737--5236050 Score: 452
Period size: 151 Copynumber: 2.1 Consensus size: 149
5235727 CAAGTTTCTT
* * * *
5235737 GTGAACTAGTTGT-TCCCTTTTATTTTGTTTTGCTTGGCTTTCTTTGTATCACTTTGCTTGCTCA
1 GTGAACTAGTTGTCTCCCTTTTATTTTGTTTAGCTTGACTTTCTTTGTATCACTCTGCTTACTCA
* *
5235801 ACCAATGTATGAACAATAAATT-TGGTTGTAGGAAAACATAAAGAATGAAAGCTGAAAATAGGCC
66 ACCAATGCATCAACAATAAATTCTGGTTGTAGGAAAACATAAA-AATGAAAGCTGAAAATAGGCC
* *
5235865 ATATGTAATACATGCTTCAC
130 ATAGGTAATACATACTTCAC
* *
5235885 GTGAACTAGTTGTCTCCTTTTTTATTTTTGTTTAGCTTGACTTTCTTTGTATGACTCTGCTTACT
1 GTGAACTAGTTGTCTCC-CTTTTA-TTTTGTTTAGCTTGACTTTCTTTGTATCACTCTGCTTACT
5235950 CAACCAATGCATCAACAATAAATTCTGGTTGTAGGAAAACATAAAAATGAAAGCTGAAAATAGGC
64 CAACCAATGCATCAACAATAAATTCTGGTTGTAGGAAAACATAAAAATGAAAGCTGAAAATAGGC
* * *
5236015 TATAGGTAGTGCATACTTCAC
129 CATAGGTAATACATACTTCAC
*
5236036 GTGAACCAGGTTGTC
1 GTGAACTA-GTTGTC
5236051 CCATCTTCAT
Statistics
Matches: 147, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
148 13 0.09
149 3 0.02
150 5 0.03
151 100 0.68
152 26 0.18
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (149 bp):
GTGAACTAGTTGTCTCCCTTTTATTTTGTTTAGCTTGACTTTCTTTGTATCACTCTGCTTACTCA
ACCAATGCATCAACAATAAATTCTGGTTGTAGGAAAACATAAAAATGAAAGCTGAAAATAGGCCA
TAGGTAATACATACTTCAC
Found at i:5237729 original size:27 final size:28
Alignment explanation
Indices: 5237671--5237723 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
5237661 ATTTTAAAAG
*
5237671 AAAATTAAGAATATTTATTTTTAATACC
1 AAAATTAAGAATATTTATTATTAATACC
5237699 AAAATTAAGACA-ATTT-TTATTAATA
1 AAAATTAAGA-ATATTTATTATTAATA
5237724 TTAAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 8 0.35
28 14 0.61
29 1 0.04
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.42
Consensus pattern (28 bp):
AAAATTAAGAATATTTATTATTAATACC
Found at i:5239531 original size:26 final size:27
Alignment explanation
Indices: 5239501--5239553 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
5239491 TATAAAAAAA
*
5239501 AAATATTAACAATGAA-ATTTAAATTG
1 AAATATTAAAAATGAAGATTTAAATTG
5239527 AAATATTAAAAATGAAGTATTTAAATT
1 AAATATTAAAAATGAAG-ATTTAAATT
5239554 TTACAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 15 0.62
28 9 0.38
ACGTcount: A:0.55, C:0.02, G:0.08, T:0.36
Consensus pattern (27 bp):
AAATATTAAAAATGAAGATTTAAATTG
Found at i:5239535 original size:13 final size:13
Alignment explanation
Indices: 5239501--5239552 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
5239491 TATAAAAAAA
5239501 AAATATTAACAATG
1 AAATATTAA-AATG
*
5239515 AAAT-TTAAATTG
1 AAATATTAAAATG
5239527 AAATATTAAAAATG
1 AAATATT-AAAATG
* *
5239541 AAGTATTTAAAT
1 AAATATTAAAAT
5239553 TTTACAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
12 7 0.22
13 10 0.31
14 15 0.47
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.35
Consensus pattern (13 bp):
AAATATTAAAATG
Found at i:5243718 original size:5 final size:6
Alignment explanation
Indices: 5243703--5243806 Score: 68
Period size: 6 Copynumber: 16.7 Consensus size: 6
5243693 AAAGGCCCAT
* *
5243703 TTTTTA TTTTTA TTTTT- TTGTTTA TTATTTA TTTTTA TTATTTA CTATTA
1 TTTTTA TTTTTA TTTTTA TT-TTTA TT-TTTA TTTTTA TT-TTTA TTTTTA
* * * * **
5243753 TTTATTA GTTATA TTATTA TTTATA TTACTA TTATTT- TTTTTA TTTTTGA
1 TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA TT-TTTA TTTTTA TTTTT-A
5243803 TTTT
1 TTTT
5243807 ATCTTTTCTT
Statistics
Matches: 75, Mismatches: 16, Indels: 13
0.72 0.15 0.12
Matches are distributed among these distances:
5 5 0.07
6 46 0.61
7 24 0.32
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.73
Consensus pattern (6 bp):
TTTTTA
Found at i:5243776 original size:23 final size:20
Alignment explanation
Indices: 5243705--5243800 Score: 85
Period size: 19 Copynumber: 4.8 Consensus size: 20
5243695 AGGCCCATTT
*
5243705 TTTATT-TTTATTTTT-TTG
1 TTTATTATTTATTTTTATTA
5243723 TTTATTATTTATTTTTATTA
1 TTTATTATTTATTTTTATTA
*
5243743 TTTACTA-TTATTTATTAGTTA
1 TTTATTATTTATTT-TTA-TTA
*
5243764 TATTATTATTTATATTACTATTA
1 T-TTATTATTTAT-TT-TTATTA
5243787 TTT-TT-TTTATTTTT
1 TTTATTATTTATTTTT
5243801 GATTTTATCT
Statistics
Matches: 66, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
18 7 0.11
19 17 0.26
20 16 0.24
21 6 0.09
22 7 0.11
23 8 0.12
24 5 0.08
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTATTATTTATTTTTATTA
Found at i:5243787 original size:34 final size:30
Alignment explanation
Indices: 5243723--5243797 Score: 91
Period size: 34 Copynumber: 2.4 Consensus size: 30
5243713 TATTTTTTTG
*
5243723 TTTATTATTTATTTTTATTATTTACTATTA
1 TTTATTATTTATTATTATTATTTACTATTA
5243753 TTTATTAGTTATATTATTATTTATATTACTATTA
1 TTTATTA-TT-TATTATTA-TTAT-TTACTATTA
5243787 TTT-TT-TTTATT
1 TTTATTATTTATT
5243798 TTTGATTTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
30 11 0.28
31 4 0.10
32 7 0.17
33 6 0.15
34 12 0.30
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.69
Consensus pattern (30 bp):
TTTATTATTTATTATTATTATTTACTATTA
Found at i:5244574 original size:3 final size:3
Alignment explanation
Indices: 5244566--5244591 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
5244556 ATTTATTTAT
5244566 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
5244592 GTTGTTGTTA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:5244602 original size:12 final size:12
Alignment explanation
Indices: 5244587--5244614 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
5244577 ATTATTATTA
5244587 TTATTGTTGTTG
1 TTATTGTTGTTG
5244599 TTATTGTTGTTG
1 TTATTGTTGTTG
5244611 TTAT
1 TTAT
5244615 CTTTAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.11, C:0.00, G:0.21, T:0.68
Consensus pattern (12 bp):
TTATTGTTGTTG
Found at i:5244961 original size:117 final size:116
Alignment explanation
Indices: 5244741--5244971 Score: 274
Period size: 117 Copynumber: 2.0 Consensus size: 116
5244731 AAAAAAATAT
* *
5244741 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAATTTAACGAAAAAAATATTTT
1 TTTTGGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAACTTAAC-AAAAAAATATTTT
* * *
5244806 GAAGGAAAGTTGAATGTATCAATTTCCTTTGAACATAAAAATTTCCAAAAGCA
65 GAAGGAAAGTTGAAAGTATCAATTTCCTTTAAAAAT-AAAATTTCCAAAAGCA
* *
5244859 TTTTGGAGG-AAAGTTGAAAGTATCAATTTTTCT-AAAAATAAAAAGGCTT-A-AAAAATATATT
1 TTTTGGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAAT-AAAA--CTTAACAAAAAAATATT
* * *
5244920 TTTAGGGAAAAGTTGAAAGTATCAATTTTCC-TTAAAAATAAAATTTCTAAAA
63 TTGAAGG-AAAGTTGAAAGTATCAA-TTTCCTTTAAAAATAAAATTTCCAAAA
5244972 TAAAAATTAT
Statistics
Matches: 98, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
116 33 0.34
117 49 0.50
118 14 0.14
119 2 0.02
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.33
Consensus pattern (116 bp):
TTTTGGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAACTTAACAAAAAAATATTTTG
AAGGAAAGTTGAAAGTATCAATTTCCTTTAAAAATAAAATTTCCAAAAGCA
Found at i:5244971 original size:60 final size:58
Alignment explanation
Indices: 5244731--5244971 Score: 229
Period size: 60 Copynumber: 4.1 Consensus size: 58
5244721 CAAAAAATAA
* * *
5244731 AAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAATTTAACG
1 AAAAAAATA--TTTTGAGGGAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTT--CT
* * * * *
5244793 AAAAAAATATTTTGAAGGAAAGTTGAATGTATCAA-TTTCCTTTGAACATAAAAATTTCC
1 AAAAAAATATTTTGAGGGAAAGTTGAAAGTATCAATTTTCC-TTAAAAAT-AAAATTTCT
** * * ***
5244852 AAAAGCAT-TTTGGA-GGAAAGTTGAAAGTATCAATTTTTC-TAAAAATAAAAAGGCTT
1 AAAAAAATATTTTGAGGGAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC-T
*
5244908 AAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCT
1 AAAAAA-ATATTTTGAGGG-AAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCT
5244968 AAAA
1 AAAA
5244972 TAAAAATTAT
Statistics
Matches: 144, Mismatches: 26, Indels: 20
0.76 0.14 0.11
Matches are distributed among these distances:
55 5 0.03
56 9 0.06
57 20 0.14
58 13 0.09
59 14 0.10
60 55 0.38
61 19 0.13
62 9 0.06
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (58 bp):
AAAAAAATATTTTGAGGGAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCT
Found at i:5244975 original size:75 final size:75
Alignment explanation
Indices: 5244887--5245036 Score: 187
Period size: 74 Copynumber: 2.0 Consensus size: 75
5244877 AGTATCAATT
* * *
5244887 TTTCTAAAAATAAAAAGGCTTAA-AAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
1 TTTCTAAAAATAAAAAGGATCAAGAAAA-ACA-TTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
5244951 TTAAAAATAAAA
64 TTAAAAATAAAA
** * *
5244963 TTTCT-AAAATAAAAATTATCAAGAAAAGCATTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
1 TTTCTAAAAATAAAAAGGATCAAGAAAAACATTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
* *
5245027 GAAATTAAAA
66 AAAAATAAAA
5245037 CTTAAAAAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
74 41 0.64
75 14 0.22
76 9 0.14
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.33
Consensus pattern (75 bp):
TTTCTAAAAATAAAAAGGATCAAGAAAAACATTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
AAAAATAAAA
Found at i:5248772 original size:19 final size:19
Alignment explanation
Indices: 5248725--5248772 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
5248715 GTAATTTTTG
5248725 AAAAAAAAAAGAGCCCAAA
1 AAAAAAAAAAGAGCCCAAA
** * * *
5248744 AATCACAAAAGATCTCAAA
1 AAAAAAAAAAGAGCCCAAA
5248763 AAAAAAAAAA
1 AAAAAAAAAA
5248773 AAGAAAGAAA
Statistics
Matches: 21, Mismatches: 8, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.73, C:0.15, G:0.06, T:0.06
Consensus pattern (19 bp):
AAAAAAAAAAGAGCCCAAA
Found at i:5249156 original size:9 final size:9
Alignment explanation
Indices: 5249142--5249255 Score: 105
Period size: 9 Copynumber: 12.8 Consensus size: 9
5249132 TGGGTGAAAG
5249142 AATGAAAAA
1 AATGAAAAA
5249151 AATGAAAAA
1 AATGAAAAA
* *
5249160 AAAGGAAAA
1 AATGAAAAA
5249169 AA-GAAAACA
1 AATGAAAA-A
5249178 AATG-AAAA
1 AATGAAAAA
*
5249186 AA--AAAGA
1 AATGAAAAA
5249193 AAT-AAAAA
1 AATGAAAAA
5249201 AGA-GAAAAA
1 A-ATGAAAAA
*
5249210 AAAGAGAAAA
1 AATGA-AAAA
5249220 AATGAAAAAA
1 AATG-AAAAA
5249230 AATGAAAAA
1 AATGAAAAA
5249239 AATGAAAAA
1 AATGAAAAA
5249248 AGATGAAA
1 A-ATGAAA
5249256 GAAGAAAACG
Statistics
Matches: 89, Mismatches: 6, Indels: 19
0.78 0.05 0.17
Matches are distributed among these distances:
7 5 0.06
8 13 0.15
9 48 0.54
10 22 0.25
11 1 0.01
ACGTcount: A:0.78, C:0.01, G:0.14, T:0.07
Consensus pattern (9 bp):
AATGAAAAA
Found at i:5249168 original size:7 final size:7
Alignment explanation
Indices: 5249157--5249250 Score: 52
Period size: 7 Copynumber: 13.1 Consensus size: 7
5249147 AAAAAATGAA
5249157 AAAAAAGG
1 AAAAAA-G
5249165 AAAAAAG
1 AAAAAAG
5249172 AAAACAAATG
1 -AAA-AAA-G
5249182 AAAAAA-
1 AAAAAAG
*
5249188 AAAGAAAT
1 AAA-AAAG
5249196 AAAAAAG
1 AAAAAAG
*
5249203 AGAAAA-
1 AAAAAAG
*
5249209 AAAAGAG
1 AAAAAAG
5249216 AAAAAATG
1 AAAAAA-G
5249224 AAAAAA-
1 AAAAAAG
**
5249230 AATGAA-
1 AAAAAAG
*
5249236 AAAAATG
1 AAAAAAG
5249243 AAAAAAG
1 AAAAAAG
5249250 A
1 A
5249251 TGAAAGAAGA
Statistics
Matches: 67, Mismatches: 11, Indels: 17
0.71 0.12 0.18
Matches are distributed among these distances:
6 14 0.21
7 24 0.36
8 22 0.33
9 6 0.09
10 1 0.01
ACGTcount: A:0.80, C:0.01, G:0.14, T:0.05
Consensus pattern (7 bp):
AAAAAAG
Found at i:5249253 original size:19 final size:19
Alignment explanation
Indices: 5249142--5249255 Score: 111
Period size: 19 Copynumber: 6.4 Consensus size: 19
5249132 TGGGTGAAAG
5249142 AATGAAAAAAATGAAAAAA
1 AATGAAAAAAATGAAAAAA
* *
5249161 AA-GGAAAAAA-GAAAACA
1 AATGAAAAAAATGAAAAAA
*
5249178 AATG--AAAAA--AAAAGA
1 AATGAAAAAAATGAAAAAA
5249193 AAT-AAAAAAGA-GAAAAAA
1 AATGAAAAAA-ATGAAAAAA
5249211 AA-GAGAAAAAATGAAAAAA
1 AATGA-AAAAAATGAAAAAA
5249230 AATGAAAAAAATGAAAAAA
1 AATGAAAAAAATGAAAAAA
*
5249249 GATGAAA
1 AATGAAA
5249256 GAAGAAAACG
Statistics
Matches: 81, Mismatches: 5, Indels: 18
0.78 0.05 0.17
Matches are distributed among these distances:
15 8 0.10
16 9 0.11
17 9 0.11
18 17 0.21
19 36 0.44
20 2 0.02
ACGTcount: A:0.78, C:0.01, G:0.14, T:0.07
Consensus pattern (19 bp):
AATGAAAAAAATGAAAAAA
Found at i:5249260 original size:10 final size:10
Alignment explanation
Indices: 5249142--5249255 Score: 112
Period size: 10 Copynumber: 11.7 Consensus size: 10
5249132 TGGGTGAAAG
5249142 AATG-AAAAA
1 AATGAAAAAA
5249151 AATGAAAAAA
1 AATGAAAAAA
*
5249161 AA-G-GAAAA
1 AATGAAAAAA
*
5249169 AA-GAAAACA
1 AATGAAAAAA
5249178 AATGAAAAAA
1 AATGAAAAAA
*
5249188 AAAGAAATAAA
1 AATGAAA-AAA
*
5249199 AAAGAGAAAAA
1 AATGA-AAAAA
* *
5249210 AAAGAGAAAA
1 AATGAAAAAA
5249220 AATGAAAAAA
1 AATGAAAAAA
5249230 AATG-AAAAA
1 AATGAAAAAA
5249239 AATGAAAAAA
1 AATGAAAAAA
*
5249249 GATGAAA
1 AATGAAA
5249256 GAAGAAAACG
Statistics
Matches: 90, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
8 7 0.08
9 19 0.21
10 46 0.51
11 16 0.18
12 2 0.02
ACGTcount: A:0.78, C:0.01, G:0.14, T:0.07
Consensus pattern (10 bp):
AATGAAAAAA
Found at i:5251179 original size:41 final size:42
Alignment explanation
Indices: 5250979--5251251 Score: 248
Period size: 42 Copynumber: 6.5 Consensus size: 42
5250969 GACAAGAAGT
**
5250979 AATTTATTTTTTCAAAAGTCGTGGTTGCCTCTATTTAG-AGAAGC
1 AATTTA-TTTTTCAAAAGTTATGG-TGCCTCTATTTAGAAG-AGC
** * * * *
5251023 AATTTATTTTTTTGAAAGTCATGGTTGCCTTTGTTTAGAGGAGC
1 AATTTA-TTTTTCAAAAGTTATGG-TGCCTCTATTTAGAAGAGC
* ** * * *
5251067 AATTTATTTTTCAAAAATGGTAGTGACTCTATTTAGAGGAGC
1 AATTTATTTTTCAAAAGTTATGGTGCCTCTATTTAGAAGAGC
* * * *
5251109 AATTTATTTATCAAAAGTTTTAGTGCCTCTGTTTAGAAGAGC
1 AATTTATTTTTCAAAAGTTATGGTGCCTCTATTTAGAAGAGC
* *
5251151 AATTTA-TTTTCCAAAGTTACGGTGCCTCTATTTA-AAGGAGC
1 AATTTATTTTTCAAAAGTTATGGTGCCTCTATTTAGAA-GAGC
* * *
5251192 AATTTA-CTTTCAAAAGTTGTGGTGCCTCTGTTTAGAAGAGC
1 AATTTATTTTTCAAAAGTTATGGTGCCTCTATTTAGAAGAGC
*
5251233 AATTTACTTTTCAAAAGTT
1 AATTTATTTTTCAAAAGTT
5251252 GTTAAGTCTC
Statistics
Matches: 191, Mismatches: 34, Indels: 10
0.81 0.14 0.04
Matches are distributed among these distances:
40 2 0.01
41 65 0.34
42 70 0.37
43 11 0.06
44 42 0.22
45 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.40
Consensus pattern (42 bp):
AATTTATTTTTCAAAAGTTATGGTGCCTCTATTTAGAAGAGC
Found at i:5251229 original size:82 final size:82
Alignment explanation
Indices: 5251048--5251251 Score: 268
Period size: 83 Copynumber: 2.5 Consensus size: 82
5251038 AAGTCATGGT
* * * * *
5251048 TGCCTTTGTTTAGAGGAGCAATTTATTTTTCAAAAATGGTAGTGACTCTATTTAGAGGAGCAATT
1 TGCCTCTGTTTAGAAGAGCAATTTACTTTTC-AAAA-GTTAGTGACTCTATTTAAAGGAGCAATT
* *
5251113 TATTTATCAAAAGTTTTAG
64 TACTTATCAAAAGTTGTAG
* *
5251132 TGCCTCTGTTTAGAAGAGCAATTTA-TTTTCCAAAGTTACGGTGCCTCTATTTAAAGGAGCAATT
1 TGCCTCTGTTTAGAAGAGCAATTTACTTTTCAAAAGTTA--GTGACTCTATTTAAAGGAGCAATT
*
5251196 TACTT-TCAAAAGTTGTGG
64 TACTTATCAAAAGTTGTAG
5251214 TGCCTCTGTTTAGAAGAGCAATTTACTTTTCAAAAGTT
1 TGCCTCTGTTTAGAAGAGCAATTTACTTTTCAAAAGTT
5251252 GTTAAGTCTC
Statistics
Matches: 107, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
81 3 0.03
82 39 0.36
83 42 0.39
84 23 0.21
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (82 bp):
TGCCTCTGTTTAGAAGAGCAATTTACTTTTCAAAAGTTAGTGACTCTATTTAAAGGAGCAATTTA
CTTATCAAAAGTTGTAG
Found at i:5251263 original size:42 final size:40
Alignment explanation
Indices: 5251049--5251306 Score: 184
Period size: 42 Copynumber: 6.2 Consensus size: 40
5251039 AGTCATGGTT
* * * *
5251049 GCCTTTGTTTAGAGGAGCAATTTATTTTTCAAAA-ATGGTA
1 GCCTCTGTTTAGAAGAGCAATTTA-TTTTCAAAAGTTGTTA
* * *
5251089 GTGACTCTATTTAGAGGAGCAATTTATTTATCAAAAGTT-TTA
1 --GCCTCTGTTTAGAAGAGCAATTTATTT-TCAAAAGTTGTTA
* *
5251131 GTGCCTCTGTTTAGAAGAGCAATTTATTTTCCAAAGTTACGGT-
1 --GCCTCTGTTTAGAAGAGCAATTTATTTTCAAAAGTT--GTTA
* *
5251174 GCCTCTATTTA-AAGGAGCAATTTACTTTCAAAAGTTGTGGT-
1 GCCTCTGTTTAGAA-GAGCAATTTATTTTCAAAAGTTGT--TA
5251215 GCCTCTGTTTAGAAGAGCAATTTACTTTTCAAAAGTTGTTAA
1 GCCTCTGTTTAGAAGAGCAATTTA-TTTTCAAAAGTTGTT-A
* * ** *
5251257 GTCTCTGTTTAGAGGAGCTTTGTTTATTTTTCCAAAGTTGTTAA
1 GCCTCTGTTTAGAAGAGC--AATTTA-TTTTCAAAAGTTGTT-A
5251301 GCCTCT
1 GCCTCT
5251307 AATTGGAGGA
Statistics
Matches: 179, Mismatches: 23, Indels: 26
0.79 0.10 0.11
Matches are distributed among these distances:
39 1 0.01
40 3 0.02
41 62 0.35
42 86 0.48
43 1 0.01
44 26 0.15
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.40
Consensus pattern (40 bp):
GCCTCTGTTTAGAAGAGCAATTTATTTTCAAAAGTTGTTA
Found at i:5251295 original size:44 final size:44
Alignment explanation
Indices: 5251199--5251495 Score: 280
Period size: 44 Copynumber: 6.8 Consensus size: 44
5251189 AGCAATTTAC
* * * * ** *
5251199 TTTCAAAAGTTGTGGTGCCTCTGTTTAGAAGAGC--AATTTACT
1 TTTCAAAAGTTGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATT
* * *
5251241 TTTCAAAAGTTGTTAAGTCTCTGTTTAGAGGAGCTTTGTTTATT
1 TTTCAAAAGTTGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATT
* * * *
5251285 TTTCCAAAGTTGTTAAGCCTCTAATTGGAGGAGCTTTGTTTATT
1 TTTCAAAAGTTGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATT
* * * * *
5251329 TTTCTAAAGTTGGTGAGCCTCTGCTTAGAGGAGCTTTATTTAGT
1 TTTCAAAAGTTGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATT
* * * * *
5251373 TTTCAAAAGTCGTTGAGTCTCT-ATTTAAAGGAGCTTTGTGTACT
1 TTTCAAAAGTTGTTGAGCCTCTGA-TTAGAGGAGCTTTGTTTATT
*
5251417 TTTCAAAAATTGTTGAGCCTCTGATTAGAGGA-CTCTTGTTTATTTT
1 TTTCAAAAGTTGTTGAGCCTCTGATTAGAGGAGCT-TTGTTTA--TT
* *
5251463 TTTC-AAAGTCGTTGAGCCTTTGATTAGAGGAGC
1 TTTCAAAAGTTGTTGAGCCTCTGATTAGAGGAGC
5251496 ATTGATCAAG
Statistics
Matches: 208, Mismatches: 39, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
42 29 0.14
43 2 0.01
44 146 0.70
45 25 0.12
46 6 0.03
ACGTcount: A:0.24, C:0.13, G:0.22, T:0.42
Consensus pattern (44 bp):
TTTCAAAAGTTGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATT
Found at i:5251405 original size:132 final size:133
Alignment explanation
Indices: 5251234--5251495 Score: 348
Period size: 132 Copynumber: 2.0 Consensus size: 133
5251224 TAGAAGAGCA
* * * * * * *
5251234 ATTTACTTTTCAAAAGTTGTTAAGTCTCTGTTTAGAGGAGCTTTGTTTATTTTTCCAAAGTTGTT
1 ATTTACTTTTCAAAAGTCGTTAAGTCTCTATTTAAAGGAGCTTTGTGTACTTTTCAAAAATTGTT
* * *
5251299 AAGCCTCTAATTGGAGGAGCT-TTGTTTATTTTTCT-AAAGTTGGTGAGCCTCTGCTTAGAGGAG
66 AAGCCTCTAATTAGAGGA-CTCTTGTTTATTTTTCTCAAAGTCGGTGAGCCTCTGATTAGAGGAG
5251362 CTTT
130 CTTT
* *
5251366 ATTTAGTTTTCAAAAGTCGTTGAGTCTCTATTTAAAGGAGCTTTGTGTACTTTTCAAAAATTGTT
1 ATTTACTTTTCAAAAGTCGTTAAGTCTCTATTTAAAGGAGCTTTGTGTACTTTTCAAAAATTGTT
* * * * *
5251431 GAGCCTCTGATTAGAGGACTCTTGTTTATTTTTTTCAAAGTCGTTGAGCCTTTGATTAGAGGAGC
66 AAGCCTCTAATTAGAGGACTCTTGTTTATTTTTCTCAAAGTCGGTGAGCCTCTGATTAGAGGAGC
5251496 ATTGATCAAG
Statistics
Matches: 111, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
131 2 0.02
132 84 0.76
133 25 0.23
ACGTcount: A:0.23, C:0.13, G:0.21, T:0.43
Consensus pattern (133 bp):
ATTTACTTTTCAAAAGTCGTTAAGTCTCTATTTAAAGGAGCTTTGTGTACTTTTCAAAAATTGTT
AAGCCTCTAATTAGAGGACTCTTGTTTATTTTTCTCAAAGTCGGTGAGCCTCTGATTAGAGGAGC
TTT
Found at i:5251721 original size:13 final size:13
Alignment explanation
Indices: 5251676--5251751 Score: 59
Period size: 13 Copynumber: 5.7 Consensus size: 13
5251666 ATATGCCCTT
5251676 TTTTTATT-TTTA
1 TTTTTATTATTTA
*
5251688 TTTTT-TTATTTTT
1 TTTTTATTA-TTTA
5251701 TTCATTTATTATTTA
1 TT--TTTATTATTTA
5251716 TTTTTATTATTTA
1 TTTTTATTATTTA
*
5251729 CTATTATATTA-TTA
1 -T-TTTTATTATTTA
*
5251743 TTTATATTA
1 TTTTTATTA
5251752 CTATTACTAT
Statistics
Matches: 54, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
11 2 0.04
12 13 0.24
13 17 0.31
14 4 0.07
15 15 0.28
16 3 0.06
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTTATTATTTA
Found at i:5251742 original size:18 final size:18
Alignment explanation
Indices: 5251719--5251763 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
5251709 TTATTTATTT
5251719 TTATTATTTACTATTA-TA
1 TTATTATTTA-TATTACTA
5251737 TTATTATTTATATTACTA
1 TTATTATTTATATTACTA
*
5251755 TTACTATTT
1 TTATTATTT
5251764 TTTTATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 5 0.20
18 20 0.80
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (18 bp):
TTATTATTTATATTACTA
Found at i:5251747 original size:7 final size:7
Alignment explanation
Indices: 5251678--5251741 Score: 55
Period size: 7 Copynumber: 9.3 Consensus size: 7
5251668 ATGCCCTTTT
5251678 TTTATT-
1 TTTATTA
5251684 TTTATT-
1 TTTATTA
5251690 TTT-TTA
1 TTTATTA
*
5251696 TTTTTTTCA
1 -TTTATT-A
5251705 TTTATTA
1 TTTATTA
5251712 TTTATT-
1 TTTATTA
5251718 TTTATTA
1 TTTATTA
*
5251725 TTTACTA
1 TTTATTA
5251732 TTATATTA
1 TT-TATTA
5251740 TT
1 TT
5251742 ATTTATATTA
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
5 2 0.04
6 15 0.31
7 18 0.37
8 13 0.27
9 1 0.02
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTATTA
Found at i:5251752 original size:23 final size:23
Alignment explanation
Indices: 5251707--5251769 Score: 78
Period size: 23 Copynumber: 2.7 Consensus size: 23
5251697 TTTTTTCATT
5251707 TATTAT-TTATTTTTATTATTTAC
1 TATTATATTATTTTTA-TATTTAC
5251730 TATTATATTATTATTTATA-TTAC
1 TATTATATTATT-TTTATATTTAC
5251753 TATTACTATT-TTTTTAT
1 TATTA-TATTATTTTTAT
5251770 TTTTTATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
22 5 0.14
23 17 0.46
24 11 0.30
25 4 0.11
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (23 bp):
TATTATATTATTTTTATATTTAC
Found at i:5251762 original size:12 final size:11
Alignment explanation
Indices: 5251720--5251762 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
5251710 TATTTATTTT
5251720 TATTAT-TTAC
1 TATTATATTAC
*
5251730 TATTATATTAT
1 TATTATATTAC
5251741 TATTTATATTAC
1 TA-TTATATTAC
5251753 TATTACTATT
1 TATTA-TATT
5251763 TTTTTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 6 0.21
11 8 0.29
12 14 0.50
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTATATTAC
Found at i:5252916 original size:59 final size:57
Alignment explanation
Indices: 5252677--5252916 Score: 191
Period size: 59 Copynumber: 4.1 Consensus size: 57
5252667 TTTCAAAAAA
* * *
5252677 TAAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAATTT
1 TAAAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCTTAG-AAATAAAATTT
* * * * *
5252736 AAGGAAAAAATATTTTGA-AGAAAAGTTGAATGTATCAATTTTCTTTGAACATAAAAATTT
1 TA--AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCTTAGAA-AT-AAAATTT
* ** * * * **
5252796 T-CAAAAGCA-TTTTAGGGGAAAGTTGAAAGTATTAATTTCTCTGA-AAATAAAAAGGCT
1 TAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTT-TCTTAGAAAT-AAAA-TTT
* *
5252853 TAAAAATATATTTTTAGGGAGAAGTTGAAAGTATCAATTTTTCTTAGAAATAAAATTT
1 TAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAA-TTTTCTTAGAAATAAAATTT
5252911 CTAAAA
1 -TAAAA
5252917 TAAAAATTAT
Statistics
Matches: 139, Mismatches: 30, Indels: 24
0.72 0.16 0.12
Matches are distributed among these distances:
56 11 0.08
57 28 0.20
58 10 0.07
59 64 0.46
60 14 0.10
61 12 0.09
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.35
Consensus pattern (57 bp):
TAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCTTAGAAATAAAATTT
Found at i:5268864 original size:21 final size:21
Alignment explanation
Indices: 5268826--5268866 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
5268816 ATTCCTCGCG
*
5268826 TATTTCTATTTAATTATATTA
1 TATTTCTATTTAAATATATTA
5268847 TATTTCT-TTTAACATATATT
1 TATTTCTATTTAA-ATATATT
5268867 CTAATAATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (21 bp):
TATTTCTATTTAAATATATTA
Found at i:5283818 original size:42 final size:42
Alignment explanation
Indices: 5283766--5284071 Score: 361
Period size: 42 Copynumber: 7.3 Consensus size: 42
5283756 AAGGAGCTTC
* * *
5283766 ATTTATTTTTCAAAGTCGTAGTTGTCTCTATTTAGAGGAGCA
1 ATTTATTTTTCAAAGTCGTGGGTGCCTCTATTTAGAGGAGCA
5283808 ATTTATTTTTCAAAGTCGTGGGTGCCTCTATTTAGAGGAGCA
1 ATTTATTTTTCAAAGTCGTGGGTGCCTCTATTTAGAGGAGCA
* ** *
5283850 ATTCATTTTTCAAAGTCGTGGGTGCCTCTATTTAGAAAAGTA
1 ATTTATTTTTCAAAGTCGTGGGTGCCTCTATTTAGAGGAGCA
* * *
5283892 ATTTACTTTTCAAAAGT--TGAGTTGCCTCTATTTAAAGGAGCA
1 ATTTATTTTTC-AAAGTCGTG-GGTGCCTCTATTTAGAGGAGCA
*
5283934 ATTCATTTTTCAAAGTCGTGGGTGCCTCTATTTAGAGGAGCA
1 ATTTATTTTTCAAAGTCGTGGGTGCCTCTATTTAGAGGAGCA
* * * * * *
5283976 ATTTACTTTTCAAAGTTGT-GATGCCTCTGTTTAAAGGAGTA
1 ATTTATTTTTCAAAGTCGTGGGTGCCTCTATTTAGAGGAGCA
* *
5284017 ATTTACTTTTT-AAAGTTGT-GATGCCTCTATTTAGAGGAGCA
1 ATTTA-TTTTTCAAAGTCGTGGGTGCCTCTATTTAGAGGAGCA
* *
5284058 ATTTACTTTCCAAA
1 ATTTATTTTTCAAA
5284072 AGTTAAGCCT
Statistics
Matches: 227, Mismatches: 31, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
40 3 0.01
41 65 0.29
42 152 0.67
43 7 0.03
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (42 bp):
ATTTATTTTTCAAAGTCGTGGGTGCCTCTATTTAGAGGAGCA
Found at i:5283991 original size:126 final size:124
Alignment explanation
Indices: 5283766--5284060 Score: 421
Period size: 126 Copynumber: 2.4 Consensus size: 124
5283756 AAGGAGCTTC
* * * *
5283766 ATTTATTTTTCAAAGTCGTAGTTGTCTCTATTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGGT
1 ATTTACTTTTCAAAGTTG-AGTTGCCTCTATTTAGAGGAGCAATTCATTTTTCAAAGTCGTGGGT
* *
5283831 GCCTCTATTTAGAGGAGCAATTCATTTTTCAAAGTCGTGGGTGCCTCTATTTAGAA-AAGTA
65 GCCTCTATTTAGAGGAGCAATTCACTTTTCAAAGTCGT-GATGCCTCTATTTA-AAGAAGTA
*
5283892 ATTTACTTTTCAAAAGTTGAGTTGCCTCTATTTAAAGGAGCAATTCATTTTTCAAAGTCGTGGGT
1 ATTTACTTTTC-AAAGTTGAGTTGCCTCTATTTAGAGGAGCAATTCATTTTTCAAAGTCGTGGGT
* * * *
5283957 GCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTTGTGATGCCTCTGTTTAAAGGAGTA
65 GCCTCTATTTAGAGGAGCAATTCACTTTTCAAAGTCGTGATGCCTCTATTTAAAGAAGTA
* * *
5284017 ATTTACTTTTTAAAGTTGTGATGCCTCTATTTAGAGGAGCAATT
1 ATTTACTTTTCAAAGTTGAGTTGCCTCTATTTAGAGGAGCAATT
5284061 TACTTTCCAA
Statistics
Matches: 152, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
124 32 0.21
125 26 0.17
126 88 0.58
127 6 0.04
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.40
Consensus pattern (124 bp):
ATTTACTTTTCAAAGTTGAGTTGCCTCTATTTAGAGGAGCAATTCATTTTTCAAAGTCGTGGGTG
CCTCTATTTAGAGGAGCAATTCACTTTTCAAAGTCGTGATGCCTCTATTTAAAGAAGTA
Found at i:5284113 original size:39 final size:43
Alignment explanation
Indices: 5284039--5284140 Score: 117
Period size: 39 Copynumber: 2.5 Consensus size: 43
5284029 AAGTTGTGAT
* *
5284039 GCCTCTATTTAGAGGAGC--AATTTACTTTCCAAAAG-TTA-A
1 GCCTCTACTTAGAGGAGCTTTATTTACTTTCCAAAAGCTTAGA
*
5284078 GCCTCTACTTAGAGGAGCTTTATTTA-TTTTC-AAAGTCTTAGA
1 GCCTCTACTTAGAGGAGCTTTATTTACTTTCCAAAAG-CTTAGA
*
5284120 GCTTCTACTTAGAGGAGCTTT
1 GCCTCTACTTAGAGGAGCTTT
5284141 GATAAAAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
39 21 0.39
40 4 0.07
41 8 0.15
42 21 0.39
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (43 bp):
GCCTCTACTTAGAGGAGCTTTATTTACTTTCCAAAAGCTTAGA
Found at i:5284488 original size:17 final size:17
Alignment explanation
Indices: 5284375--5284493 Score: 73
Period size: 17 Copynumber: 6.6 Consensus size: 17
5284365 TATTTTCATT
5284375 TTTATTT-TTATTATT-
1 TTTATTTATTATTATTA
*
5284390 TGTCTATTTATTAATATATA
1 T-T-TATTTATTATTAT-TA
5284410 TTTATTTATTAGTTATTA
1 TTTATTTATTA-TTATTA
*
5284428 TTT-TTTATCTATTAATA
1 TTTATTTAT-TATTATTA
* * *
5284445 TTTTTATTATTTATCTGCTTT
1 TTTAT-TTA-TTAT-T-ATTA
5284466 TATTATTTATTATTATTA
1 T-TTATTTATTATTATTA
*
5284484 TTTATCTATT
1 TTTATTTATT
5284494 TCTTTTATTT
Statistics
Matches: 81, Mismatches: 10, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
15 1 0.01
16 1 0.01
17 26 0.32
18 26 0.32
19 12 0.15
20 7 0.09
21 5 0.06
22 3 0.04
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTATTTATTATTATTA
Found at i:5284499 original size:33 final size:33
Alignment explanation
Indices: 5284367--5284502 Score: 101
Period size: 33 Copynumber: 4.2 Consensus size: 33
5284357 TTTATTTGTA
* *
5284367 TTTTCATT-TTTATTTTTATTATTTGTCTATTTA
1 TTTT-ATTATTTATTTTTATTATTTATCTATTTC
* *
5284400 TTAATATATATTTA--TTTATTAGTTAT-TA-TT-
1 TT-TTAT-TATTTATTTTTATTATTTATCTATTTC
*
5284430 TTTTATCTATTAATATTTTTATTATTTATC---TGC
1 TTTTAT-TATT--TATTTTTATTATTTATCTATTTC
*
5284463 TTTTATTATTTATTATTATTATTTATCTATTTC
1 TTTTATTATTTATTTTTATTATTTATCTATTTC
5284496 TTTTATT
1 TTTTATT
5284503 TATCTAATTA
Statistics
Matches: 82, Mismatches: 9, Indels: 24
0.71 0.08 0.21
Matches are distributed among these distances:
29 7 0.09
30 18 0.22
31 4 0.05
32 7 0.09
33 40 0.49
34 2 0.02
35 4 0.05
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.68
Consensus pattern (33 bp):
TTTTATTATTTATTTTTATTATTTATCTATTTC
Found at i:5284516 original size:17 final size:17
Alignment explanation
Indices: 5284474--5284516 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
5284464 TTTATTATTT
5284474 ATTATTATTATTTATCTA
1 ATTATT-TTATTTATCTA
* *
5284492 TTTCTTTTATTTATCTA
1 ATTATTTTATTTATCTA
5284509 ATTATTTT
1 ATTATTTT
5284517 TTTTGTTATC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTATTTTATTTATCTA
Found at i:5284519 original size:20 final size:21
Alignment explanation
Indices: 5284490--5284528 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
5284480 ATTATTTATC
5284490 TATTTCTTTTAT-TTATCTAAT
1 TATTTCTTTT-TGTTATCTAAT
5284511 TATTT-TTTTTGTTATCTA
1 TATTTCTTTTTGTTATCTA
5284529 TTAATATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.06
20 11 0.65
21 5 0.29
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.69
Consensus pattern (21 bp):
TATTTCTTTTTGTTATCTAAT
Found at i:5284549 original size:24 final size:23
Alignment explanation
Indices: 5284492--5284549 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 23
5284482 TATTTATCTA
*
5284492 TTTC-TTTTATTTATCTAATTAT
1 TTTCTTTTTATCTATCTAATTAT
*
5284514 TTTTTTTGTTATCTAT-TAATATAT
1 TTTCTTT-TTATCTATCTAAT-TAT
5284538 TTGTCTTTTTAT
1 TT-TCTTTTTAT
5284550 TTTGATTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
22 3 0.10
23 6 0.21
24 16 0.55
25 4 0.14
ACGTcount: A:0.21, C:0.07, G:0.03, T:0.69
Consensus pattern (23 bp):
TTTCTTTTTATCTATCTAATTAT
Found at i:5285396 original size:5 final size:5
Alignment explanation
Indices: 5285386--5285455 Score: 63
Period size: 5 Copynumber: 13.2 Consensus size: 5
5285376 ATACTTTTTA
5285386 TTATT TTATT TTATT TTATT TT-TCT TTATTT TTATT TTCATTT TTATTT
1 TTATT TTATT TTATT TTATT TTAT-T TTA-TT TTATT TT-A-TT TTA-TT
*
5285435 TTATT TAATAT TT-TT TTATT T
1 TTATT TTAT-T TTATT TTATT T
5285456 CTTTAAATAA
Statistics
Matches: 56, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
4 4 0.07
5 33 0.59
6 14 0.25
7 5 0.09
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:5285419 original size:6 final size:6
Alignment explanation
Indices: 5285380--5285440 Score: 58
Period size: 6 Copynumber: 10.5 Consensus size: 6
5285370 TGTTTAATAC
* *
5285380 TTTTTA TTATTT- TATTTTA -TTTTA -TTTT- TCTTTA TTTTTA TTTTCA
1 TTTTTA TT-TTTA T-TTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
5285426 TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTT
5285441 AATATTTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
5 12 0.26
6 30 0.65
7 4 0.09
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:5285461 original size:19 final size:19
Alignment explanation
Indices: 5285410--5285449 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
5285400 TTTATTTTTC
5285410 TTTATTTTTATTT--TCATT
1 TTTATTTTTATTTAAT-ATT
5285428 TTTATTTTTATTTAATATT
1 TTTATTTTTATTTAATATT
5285447 TTT
1 TTT
5285450 TTATTTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 13 0.65
19 6 0.30
20 1 0.05
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTATTTTTATTTAATATT
Found at i:5285464 original size:20 final size:21
Alignment explanation
Indices: 5285426--5285464 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
5285416 TTTATTTTCA
* *
5285426 TTTTTATTTTTATTTAATATT
1 TTTTTATTTCTATTAAATATT
5285447 TTTTTATTTCT-TTAAATA
1 TTTTTATTTCTATTAAATA
5285465 AAATTAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTTATTTCTATTAAATATT
Found at i:5285550 original size:58 final size:58
Alignment explanation
Indices: 5285479--5285745 Score: 414
Period size: 58 Copynumber: 4.6 Consensus size: 58
5285469 TAAAAAATAT
* * *
5285479 ATATTTTTAAGGAAAAATTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTGTAAAAA
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAA
*
5285537 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTCTCTAAAAA
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAA
5285595 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAA
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAA
* * *
5285653 ATATTTTTG-GGAAAAAGTTGAAAATATCAATTTTCCTTAAAAATAAG-TTT-TCAAAA
1 ATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAA
*
5285709 ATGGATTTATGAGGAAAAGTTGAAAGTATCAATTTTC
1 AT--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTC
5285746 TTTTGTACAA
Statistics
Matches: 195, Mismatches: 10, Indels: 8
0.92 0.05 0.04
Matches are distributed among these distances:
56 7 0.04
57 5 0.03
58 181 0.93
59 2 0.01
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (58 bp):
ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAA
Found at i:5289397 original size:2 final size:2
Alignment explanation
Indices: 5289390--5289416 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5289380 TTTACTTCGA
5289390 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
5289417 ATTTTTTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5298733 original size:23 final size:24
Alignment explanation
Indices: 5298695--5298743 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
5298685 ATATTTTTTA
5298695 TTAGATAATATAAATTA-T-TATT
1 TTAGATAATATAAATTAGTATATT
5298717 TTAGATTAAT-TATAATTAGTATATT
1 TTAGA-TAATATA-AATTAGTATATT
5298742 TT
1 TT
5298744 TATTAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
22 7 0.30
23 9 0.39
24 1 0.04
25 6 0.26
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (24 bp):
TTAGATAATATAAATTAGTATATT
Found at i:5298768 original size:29 final size:27
Alignment explanation
Indices: 5298727--5298783 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 27
5298717 TTAGATTAAT
* * *
5298727 TATAATTAGTATATTTTTATTAAAAAAA
1 TATAATTAATATATATTTA-CAAAAAAA
5298755 TATATATTAATATATATTTACAAAAAAA
1 TATA-ATTAATATATATTTACAAAAAAA
5298783 T
1 T
5298784 TACATAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (27 bp):
TATAATTAATATATATTTACAAAAAAA
Found at i:5299115 original size:21 final size:21
Alignment explanation
Indices: 5299078--5299117 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
5299068 TTCCTCGTAA
*
5299078 ATTTCTATTTAATTATATTAT
1 ATTTCTATTTAAATATATTAT
5299099 ATTTCT-TTTAACATATATT
1 ATTTCTATTTAA-ATATATT
5299118 CTAATAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTCTATTTAAATATATTAT
Found at i:5300605 original size:21 final size:21
Alignment explanation
Indices: 5300566--5300617 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
5300556 ACAATCAACT
* *
5300566 AATAAATT-AACATATAATTA
1 AATAAATTCAACAAAAAATTA
5300586 AATAAATTCAACAAAAAATTA
1 AATAAATTCAACAAAAAATTA
5300607 AATCAAATTCA
1 AAT-AAATTCA
5300618 CATATGATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 8 0.29
21 13 0.46
22 7 0.25
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.29
Consensus pattern (21 bp):
AATAAATTCAACAAAAAATTA
Found at i:5301535 original size:19 final size:19
Alignment explanation
Indices: 5301483--5301536 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 19
5301473 AATAAGATTC
5301483 CAAATTAAATTTTCAGGTCT
1 CAAATTAAATTTT-AGGTCT
*
5301503 CAAACTTTAATTTTAGG-CT
1 CAAA-TTAAATTTTAGGTCT
5301522 CAAATTAAACTTTTA
1 CAAATTAAA-TTTTA
5301537 AGTCCAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 4 0.13
19 11 0.37
20 7 0.23
21 8 0.27
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (19 bp):
CAAATTAAATTTTAGGTCT
Found at i:5301566 original size:6 final size:6
Alignment explanation
Indices: 5301547--5301576 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
5301537 AGTCCAATTG
*
5301547 TATTTT TATCTT TATTTT TATTTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT
5301577 CCAAAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (6 bp):
TATTTT
Found at i:5302822 original size:128 final size:128
Alignment explanation
Indices: 5302683--5302914 Score: 376
Period size: 128 Copynumber: 1.8 Consensus size: 128
5302673 TAAAAAAAAG
*
5302683 CCTTCAATAATCTCTTG-AAAAATTTGGAAGGGATTATGGAAGGCATTTTTGGCCAAAAATACTT
1 CCTTCAATAATC-CTTGAAAAAATTTGGAAGGGATTATGGAAGGCATTTTTGACCAAAAATACTT
* *
5302747 ATAATAATCTCTCATAAAAATTTATTGAGGGGATTATTTATGATATTTTTTTTTACCAGAAACA
65 ACAATAATCTCTCATAAAAATTTATTGAGAGGATTATTTATGATATTTTTTTTTACCAGAAACA
* * * * *
5302811 CCTTCAATAATCCTTGAAAAAATTTGGAATGGATTATTGAAGGTATTTTTGACTAAAAATACTTG
1 CCTTCAATAATCCTTGAAAAAATTTGGAAGGGATTATGGAAGGCATTTTTGACCAAAAATACTTA
5302876 CAATAATCTCTCATAAAAATTTATTGAGAGGATTATTTA
66 CAATAATCTCTCATAAAAATTTATTGAGAGGATTATTTA
5302915 AAGCATTTTT
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
127 4 0.04
128 91 0.96
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (128 bp):
CCTTCAATAATCCTTGAAAAAATTTGGAAGGGATTATGGAAGGCATTTTTGACCAAAAATACTTA
CAATAATCTCTCATAAAAATTTATTGAGAGGATTATTTATGATATTTTTTTTTACCAGAAACA
Found at i:5302909 original size:64 final size:63
Alignment explanation
Indices: 5302713--5302912 Score: 167
Period size: 64 Copynumber: 3.1 Consensus size: 63
5302703 AATTTGGAAG
* * * * *
5302713 GGATTATGGAAGGCATTTTTGGCCAAAAATACTTATAATAATCTCTCATAAAAATTTATTGAGG
1 GGATTATTGAAGGTATTTTTGACCAAAAATACTT-CAATAATCTCTCATAAAAATTTATTGAGA
* * * * * * * *
5302777 GGATTATTTATGATATTTTTTTTTACCAGAAACACCTTCAATAATC-CT--TGAAAAAATT-TGG
1 GGATTATTGAAGGTA---TTTTTGACCAAAAATA-CTTCAATAATCTCTCAT-AAAAATTTATTG
5302838 A-A
61 AGA
*
5302840 TGGATTATTGAAGGTATTTTTGACTAAAAATACTTGCAATAATCTCTCATAAAAATTTATTGAGA
1 -GGATTATTGAAGGTATTTTTGACCAAAAATACTT-CAATAATCTCTCATAAAAATTTATTGAGA
5302905 GGATTATT
1 GGATTATT
5302913 TAAAGCATTT
Statistics
Matches: 102, Mismatches: 22, Indels: 24
0.69 0.15 0.16
Matches are distributed among these distances:
60 3 0.03
61 20 0.20
62 2 0.02
63 7 0.07
64 38 0.37
65 8 0.08
66 2 0.02
67 19 0.19
68 3 0.03
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.38
Consensus pattern (63 bp):
GGATTATTGAAGGTATTTTTGACCAAAAATACTTCAATAATCTCTCATAAAAATTTATTGAGA
Found at i:5302923 original size:128 final size:124
Alignment explanation
Indices: 5302683--5302944 Score: 357
Period size: 128 Copynumber: 2.1 Consensus size: 124
5302673 TAAAAAAAAG
*
5302683 CCTTCAATAATCTCTTGAAAAATTTGGAAGGGATTATGGAAGGCATTTTTGGCCAAAAATACTTA
1 CCTTCAATAATCTCTTGAAAAATTTGGAAGGGATTATGGAAGGCATTTTTGACCAAAAATACTTA
* * * *
5302748 TAATAATCTCTCATAAAAATTTATTGAGGGGATTATTTATGATATTTTTTTTTACCAGAAACA
66 CAATAATCTCTCATAAAAATTTATTGAGAGGATTATTTAAGACA----TTTTTACCAGAAACA
* * * *
5302811 CCTTCAATAATC-CTTGAAAAAATTTGGAATGGATTATTGAAGGTATTTTTGACTAAAAATACTT
1 CCTTCAATAATCTCTTG-AAAAATTTGGAAGGGATTATGGAAGGCATTTTTGACCAAAAATACTT
*
5302875 GCAATAATCTCTCATAAAAATTTATTGAGAGGATTATTTAA-AGCATTTTTACCAGAAACA
65 ACAATAATCTCTCATAAAAATTTATTGAGAGGATTATTTAAGA-CATTTTTACCAGAAACA
*
5302935 CCTTAAATAA
1 CCTTCAATAA
5302945 CCCCATTGAA
Statistics
Matches: 121, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
124 24 0.20
127 5 0.04
128 92 0.76
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.36
Consensus pattern (124 bp):
CCTTCAATAATCTCTTGAAAAATTTGGAAGGGATTATGGAAGGCATTTTTGACCAAAAATACTTA
CAATAATCTCTCATAAAAATTTATTGAGAGGATTATTTAAGACATTTTTACCAGAAACA
Found at i:5304239 original size:11 final size:11
Alignment explanation
Indices: 5304220--5304295 Score: 55
Period size: 11 Copynumber: 6.5 Consensus size: 11
5304210 TTTTTTGTAT
5304220 TTTTCATTTTTA
1 TTTT-ATTTTTA
**
5304232 TTTTATTTACA
1 TTTTATTTTTA
5304243 TTTTATTATTGTTA
1 TTTTA-T-TT-TTA
*
5304257 TTGT-TTTTTA
1 TTTTATTTTTA
*
5304267 TATATATTTTTA
1 T-TTTATTTTTA
5304279 TTTTATTTTTA
1 TTTTATTTTTA
*
5304290 TCTTAT
1 TTTTAT
5304296 GTATTTATTA
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
10 4 0.08
11 28 0.55
12 13 0.25
13 2 0.04
14 4 0.08
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.72
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:5304314 original size:47 final size:47
Alignment explanation
Indices: 5304225--5304358 Score: 112
Period size: 47 Copynumber: 2.8 Consensus size: 47
5304215 TGTATTTTTC
* *
5304225 ATTTTTATTTTATTTACATTTTATTATTGTTATTGTTTTTTATATAT
1 ATTTTTATTTTATTTACATCTTATTATTGTTATTATTTTTTATATAT
**
5304272 ATTTTTATTTTATTTTTATCTTATGTA-T-TTATTATTTATTTAT-TACT
1 ATTTTTATTTTATTTACATCTTAT-TATTGTTATTATTT-TTTATATA-T
* * * * *
5304319 ACTATTTATTAATATATATATCCTTATTATTATTATTATT
1 A-TTTTTATT-TTATTTACAT-CTTATTATTGTTATTATT
5304359 ATTGTTAATA
Statistics
Matches: 71, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
46 10 0.14
47 29 0.41
48 9 0.13
49 9 0.13
50 6 0.08
51 8 0.11
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.66
Consensus pattern (47 bp):
ATTTTTATTTTATTTACATCTTATTATTGTTATTATTTTTTATATAT
Found at i:5305351 original size:15 final size:15
Alignment explanation
Indices: 5305333--5305426 Score: 70
Period size: 15 Copynumber: 6.2 Consensus size: 15
5305323 TTCGTTTCTT
5305333 TTTATTATTTATTTA
1 TTTATTATTTATTTA
5305348 TTTATTA-TTATTATA
1 TTTATTATTTATT-TA
* *
5305363 TTATGATTGTTTA-ATA
1 TT-T-ATTATTTATTTA
* *
5305379 TTTTTTATTTTTTTA
1 TTTATTATTTATTTA
*
5305394 TTTATT-TTCATTTTA
1 TTTATTATTTA-TTTA
5305409 TTTATT-TTTATTTTA
1 TTTATTATTTA-TTTA
5305424 TTT
1 TTT
5305427 TCTTTAAATA
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
14 12 0.19
15 40 0.63
16 5 0.08
17 3 0.05
18 3 0.05
ACGTcount: A:0.23, C:0.01, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTATTATTTATTTA
Found at i:5305427 original size:11 final size:11
Alignment explanation
Indices: 5305380--5305427 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
5305370 TGTTTAATAT
*
5305380 TTTTTATTTTT
1 TTTTTATTTTA
5305391 TTATTTATTTTCA
1 TT-TTTATTTT-A
5305404 -TTTTA-TTTA
1 TTTTTATTTTA
5305413 TTTTTATTTTA
1 TTTTTATTTTA
5305424 TTTT
1 TTTT
5305428 CTTTAAATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
9 1 0.03
10 8 0.25
11 14 0.44
12 9 0.28
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:5305524 original size:60 final size:57
Alignment explanation
Indices: 5305445--5305781 Score: 363
Period size: 59 Copynumber: 5.7 Consensus size: 57
5305435 TAAAATTCAA
* * *
5305445 AAAAAAAATTTTTAG-GAAAAAGTTGAAAGTATCAATTTTCCTTAAGAATGAATTTTC
1 AAAAAAATTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAA-AATAAATTTTC
*
5305502 AAAAAAATGTTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
1 AAAAAAA--TTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTT-AAAATAAATTTTC
* * * *
5305562 AAAAAAGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAGTTTCC
1 AAAAAA-ATTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTT-AAAATAAA-TTTTC
* * *
5305622 AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCGATTTTCCTTAAAAATAAATTTTC
1 AAAAAAATTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTT-AAAATAAATTTTC
* * * * *
5305680 AAAAAAAAAAGTTTTTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTCGAAATTAAAGTTTC
1 ---AAAAAAA--TTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCT-TAAAATAAATTTTC
* * *
5305743 CAAAAAA-TATTTTGAGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAATTTTTTTGAGAAAAAGTTGAAAGTATCAATTTT
5305782 NNNNNNNNNN
Statistics
Matches: 239, Mismatches: 29, Indels: 24
0.82 0.10 0.08
Matches are distributed among these distances:
57 37 0.15
58 4 0.02
59 89 0.37
60 58 0.24
61 9 0.04
63 42 0.18
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (57 bp):
AAAAAAATTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAATTTTC
Found at i:5306975 original size:45 final size:45
Alignment explanation
Indices: 5306787--5307009 Score: 180
Period size: 45 Copynumber: 5.0 Consensus size: 45
5306777 NNNNNTGATG
* * * * *
5306787 CAACCGTCCGCACCAAGGGCCAACTTATACCGATGGTGGTCGAGA
1 CAACCGCCCGCACCAAGGGTCAGCTTGTGCCGATGGTGGTCGAGA
** *
5306832 CAACCGCTAGCACCAAGGGTCAGCTTGTGCCGATGGTGGTCGAGG
1 CAACCGCCCGCACCAAGGGTCAGCTTGTGCCGATGGTGGTCGAGA
** * * * *
5306877 CAACCGCATGCACCAAGGGTCGGCATGTGCC-AGTGGTGATCTAGA
1 CAACCGCCCGCACCAAGGGTCAGCTTGTGCCGA-TGGTGGTCGAGA
** * ** *
5306922 CAATTGCCCGCACCATGGCCCAGCTTGTGCCGATGGTGGTCGAGG
1 CAACCGCCCGCACCAAGGGTCAGCTTGTGCCGATGGTGGTCGAGA
** * * **
5306967 CAAGTGCCCGTACCAAAGGGT-AGCCTGTGCCGATCATGGTCGA
1 CAACCGCCCGCACC-AAGGGTCAGCTTGTGCCGATGGTGGTCGA
5307010 TGCATGTGCC
Statistics
Matches: 140, Mismatches: 35, Indels: 6
0.77 0.19 0.03
Matches are distributed among these distances:
44 1 0.01
45 135 0.96
46 4 0.03
ACGTcount: A:0.22, C:0.29, G:0.31, T:0.18
Consensus pattern (45 bp):
CAACCGCCCGCACCAAGGGTCAGCTTGTGCCGATGGTGGTCGAGA
Found at i:5307030 original size:13 final size:13
Alignment explanation
Indices: 5307012--5307036 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5307002 ATGGTCGATG
5307012 CATGTGCCATCAC
1 CATGTGCCATCAC
5307025 CATGTGCCATCA
1 CATGTGCCATCA
5307037 TGTGCCATTG
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:0.24, C:0.36, G:0.16, T:0.24
Consensus pattern (13 bp):
CATGTGCCATCAC
Found at i:5310249 original size:14 final size:13
Alignment explanation
Indices: 5310232--5310264 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
5310222 AGATAAAAGT
5310232 AAAAAAAAAGCAAA
1 AAAAAAAAAG-AAA
5310246 AAAAAAAAAGAAA
1 AAAAAAAAAGAAA
5310259 AAAAAA
1 AAAAAA
5310265 TGAATGCCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.91, C:0.03, G:0.06, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAGAAA
Found at i:5310651 original size:10 final size:10
Alignment explanation
Indices: 5310636--5310681 Score: 83
Period size: 10 Copynumber: 4.5 Consensus size: 10
5310626 TGAAAGATGG
5310636 AAAAAAATGA
1 AAAAAAATGA
5310646 AAAAAAATGA
1 AAAAAAATGA
5310656 AAAAAAATGAA
1 AAAAAAATG-A
5310667 AAAAAAATGA
1 AAAAAAATGA
5310677 AAAAA
1 AAAAA
5310682 TGAAAATGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
10 25 0.71
11 10 0.29
ACGTcount: A:0.83, C:0.00, G:0.09, T:0.09
Consensus pattern (10 bp):
AAAAAAATGA
Found at i:5310659 original size:19 final size:19
Alignment explanation
Indices: 5310635--5310687 Score: 81
Period size: 21 Copynumber: 2.7 Consensus size: 19
5310625 ATGAAAGATG
5310635 GAAAAAAATGAAAAAAAAT
1 GAAAAAAATGAAAAAAAAT
5310654 GAAAAAAAATGAAAAAAAAAT
1 G-AAAAAAATG-AAAAAAAAT
5310675 G-AAAAAATGAAAA
1 GAAAAAAATGAAAA
5310688 TGAGAGAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.12
19 9 0.28
20 9 0.28
21 10 0.31
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.09
Consensus pattern (19 bp):
GAAAAAAATGAAAAAAAAT
Found at i:5311239 original size:22 final size:22
Alignment explanation
Indices: 5311214--5311257 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
5311204 CCTGAAAAGA
*
5311214 TGATCTAA-AAGGACATATGGTG
1 TGATCAAATAAGGA-ATATGGTG
*
5311236 TGATCAAATAATGAATATGGTG
1 TGATCAAATAAGGAATATGGTG
5311258 ATGGATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (22 bp):
TGATCAAATAAGGAATATGGTG
Found at i:5311484 original size:63 final size:63
Alignment explanation
Indices: 5311414--5311600 Score: 216
Period size: 63 Copynumber: 3.0 Consensus size: 63
5311404 TAGTACTGAG
* *
5311414 AACCTATGAGTGGTGACCCAATGATGGAGGACAAAATTTATTTTGAAATGGTTAATGCTAAGA
1 AACCTATGAGTGGTGACCCAATGATAGAGGATAAAATTTATTTTGAAATGGTTAATGCTAAGA
* * * * ** *
5311477 AACCTATGAGTGGTGACTCAGTGATAGAGGATGAAATTT-TTTCTGAAATGGTTATTATTGAGA
1 AACCTATGAGTGGTGACCCAATGATAGAGGATAAAATTTATTT-TGAAATGGTTAATGCTAAGA
* * * * *
5311540 AACCTATGAGTGGTGA-CCAAGTGATAGAAGATAGAATTCATTTTGAAATGGCTAGTGCTAA
1 AACCTATGAGTGGTGACCCAA-TGATAGAGGATAAAATTTATTTTGAAATGGTTAATGCTAA
5311601 AAAGCTCAAA
Statistics
Matches: 101, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
62 5 0.05
63 93 0.92
64 3 0.03
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (63 bp):
AACCTATGAGTGGTGACCCAATGATAGAGGATAAAATTTATTTTGAAATGGTTAATGCTAAGA
Found at i:5312002 original size:21 final size:21
Alignment explanation
Indices: 5311937--5312023 Score: 75
Period size: 21 Copynumber: 3.9 Consensus size: 21
5311927 TTATGAATCT
5311937 TTAAATGAGAATCTTTGAATAAGTTC
1 TTAAATGAGAATCTTTG----AG-TC
* *
5311963 TCAAATGAGGAACCTTTGAGTC
1 TTAAATGA-GAATCTTTGAGTC
*
5311985 TTAAATGAGAATCTTTGAGTT
1 TTAAATGAGAATCTTTGAGTC
* *
5312006 TTAAATAAAAATCTTTGA
1 TTAAATGAGAATCTTTGA
5312024 AACTTTAGAT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
21 27 0.51
22 9 0.17
23 2 0.04
26 7 0.13
27 8 0.15
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (21 bp):
TTAAATGAGAATCTTTGAGTC
Found at i:5312178 original size:20 final size:20
Alignment explanation
Indices: 5312153--5312191 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5312143 AAATTTGTTA
*
5312153 AATGTGAACCTTTGAACTTG
1 AATGTGAACCTTGGAACTTG
*
5312173 AATGTGAAGCTTGGAACTT
1 AATGTGAACCTTGGAACTT
5312192 TTGGATATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (20 bp):
AATGTGAACCTTGGAACTTG
Found at i:5312584 original size:40 final size:41
Alignment explanation
Indices: 5312469--5312706 Score: 238
Period size: 41 Copynumber: 5.8 Consensus size: 41
5312459 AATGAGCTTT
5312469 TTTTATTTTTCAAAGTTGTTGTGCCTCTGA-TTAGAA-GAGCC
1 TTTTATTTTTCAAAGTTGTTGTGCCTCT-ATTTA-AAGGAGCC
*
5312510 TTTTATTTTTCCAAAATTGTTGTGCCTCTATTTAAAGGAG-C
1 TTTTATTTTT-CAAAGTTGTTGTGCCTCTATTTAAAGGAGCC
* * *
5312551 TTTTATTTTTCAAAGTTGTGGCGCCTCTATTTAAAGGAGCA
1 TTTTATTTTTCAAAGTTGTTGTGCCTCTATTTAAAGGAGCC
* *
5312592 TTTTATTTTTCAAAG-TGCTTGAGCCTCTATTTAGAGGAGCC
1 TTTTATTTTTCAAAGTTG-TTGTGCCTCTATTTAAAGGAGCC
** ** * *
5312633 TTTT-TTTTTCAAAGTCATTAAGCCTCTGTTTAGAA-AAGCC
1 TTTTATTTTTCAAAGTTGTTGTGCCTCTATTTA-AAGGAGCC
* *
5312673 TTTTTATTTTTTCAAAGTTG-TGAGCCTCTGTTTA
1 -TTTTA-TTTTTCAAAGTTGTTGTGCCTCTATTTA
5312707 GGGGAGTTTT
Statistics
Matches: 169, Mismatches: 18, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
40 55 0.33
41 67 0.40
42 36 0.21
43 11 0.07
ACGTcount: A:0.23, C:0.15, G:0.17, T:0.45
Consensus pattern (41 bp):
TTTTATTTTTCAAAGTTGTTGTGCCTCTATTTAAAGGAGCC
Found at i:5312783 original size:18 final size:19
Alignment explanation
Indices: 5312751--5312786 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
5312741 CTGATTTTGA
*
5312751 AAAATAAAAGTAAAAAAAT
1 AAAATAAAAGAAAAAAAAT
5312770 AAAA-AAAAGAAAAAAAA
1 AAAATAAAAGAAAAAAAA
5312787 AGATGAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.86, C:0.00, G:0.06, T:0.08
Consensus pattern (19 bp):
AAAATAAAAGAAAAAAAAT
Found at i:5313031 original size:23 final size:24
Alignment explanation
Indices: 5312988--5313032 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
5312978 CCAAAATTTT
*
5312988 TTTATTTTATTTATATGTTATTAG
1 TTTATTTTATTTATATATTATTAG
*
5313012 TTTA-TTTATTTATTTATTATT
1 TTTATTTTATTTATATATTATT
5313033 TTTAGGGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (24 bp):
TTTATTTTATTTATATATTATTAG
Found at i:5313470 original size:31 final size:30
Alignment explanation
Indices: 5313421--5313478 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 30
5313411 TTTCGATAAA
* *
5313421 ATTTTTTGGCATCGGTTGAATTTTTTGATG
1 ATTTTTTGGCACCAGTTGAATTTTTTGATG
5313451 ATTTTTTAGGCACCAGTTGAATTTTTTG
1 ATTTTTT-GGCACCAGTTGAATTTTTTG
5313479 GTAAGGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 7 0.28
31 18 0.72
ACGTcount: A:0.19, C:0.09, G:0.21, T:0.52
Consensus pattern (30 bp):
ATTTTTTGGCACCAGTTGAATTTTTTGATG
Found at i:5316142 original size:15 final size:15
Alignment explanation
Indices: 5316122--5316152 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5316112 CAGATGAAAA
*
5316122 TGGAACTGGGGTTGG
1 TGGAACTAGGGTTGG
5316137 TGGAACTAGGGTTGG
1 TGGAACTAGGGTTGG
5316152 T
1 T
5316153 AATAGATACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.06, G:0.48, T:0.29
Consensus pattern (15 bp):
TGGAACTAGGGTTGG
Found at i:5318941 original size:6 final size:6
Alignment explanation
Indices: 5318916--5318981 Score: 75
Period size: 6 Copynumber: 11.0 Consensus size: 6
5318906 TCTCTCATTT
*
5318916 TTTTTGG TTTTT- TTTGTG TTTTTG TTTTTG TTTTTG TTTTATG TTTTGTG
1 TTTTT-G TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTT-TG TTTT-TG
5318966 TTTTT- TTTTT- TTTTTG
1 TTTTTG TTTTTG TTTTTG
5318982 GGAGTTGAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
5 14 0.26
6 22 0.42
7 17 0.32
ACGTcount: A:0.02, C:0.00, G:0.17, T:0.82
Consensus pattern (6 bp):
TTTTTG
Found at i:5319221 original size:35 final size:35
Alignment explanation
Indices: 5319170--5319257 Score: 140
Period size: 35 Copynumber: 2.5 Consensus size: 35
5319160 GATCGAAACA
* * *
5319170 AAGCCATAAGTCAAAAAATAAAGGTAACTAAGATG
1 AAGCCATAAGTAAAAAAATAAAGCTAACCAAGATG
*
5319205 AAGCCATAAGTAAAAAAATAAAGCTAACCGAGATG
1 AAGCCATAAGTAAAAAAATAAAGCTAACCAAGATG
5319240 AAGCCATAAGTAAAAAAA
1 AAGCCATAAGTAAAAAAA
5319258 AATGATTAGG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 49 1.00
ACGTcount: A:0.57, C:0.12, G:0.16, T:0.15
Consensus pattern (35 bp):
AAGCCATAAGTAAAAAAATAAAGCTAACCAAGATG
Found at i:5320138 original size:50 final size:50
Alignment explanation
Indices: 5319922--5320137 Score: 222
Period size: 50 Copynumber: 4.3 Consensus size: 50
5319912 CTTTTGAAAG
* * * * *
5319922 AAATCTTGTTTGAAAATGGCTCC-CCTAAATA-AAGATCTTGAAACTTTAA
1 AAATCTTGTTTGAAAATAGCTCCTCCCAAACAGAGGCT-TTGAAACTTTAA
** *
5319971 AAATCTTGTTTGAAAATAGCTCCTTGCAAACAGAGGTTTTGAAACTTTAA
1 AAATCTTGTTTGAAAATAGCTCCTCCCAAACAGAGGCTTTGAAACTTTAA
* * * *
5320021 AAACCTTATTT-AAAGATAGCTCCTCCCCAATAGAGGCTTTGAAACTTTAA
1 AAATCTTGTTTGAAA-ATAGCTCCTCCCAAACAGAGGCTTTGAAACTTTAA
* * * ** * *
5320071 AAATCTTGTCTAAAAATGGCTTGTCCCTAACAGAGGCTTTGGAACTTTAA
1 AAATCTTGTTTGAAAATAGCTCCTCCCAAACAGAGGCTTTGAAACTTTAA
5320121 AAATCTTGTTTGAAAAT
1 AAATCTTGTTTGAAAAT
5320138 GCCTCACAAC
Statistics
Matches: 138, Mismatches: 25, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
49 25 0.18
50 107 0.78
51 6 0.04
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (50 bp):
AAATCTTGTTTGAAAATAGCTCCTCCCAAACAGAGGCTTTGAAACTTTAA
Found at i:5323764 original size:21 final size:21
Alignment explanation
Indices: 5323738--5323780 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
5323728 TCTACTTTTT
* *
5323738 TTTTAAGATTAACATTAATAA
1 TTTTAAGAATAACAATAATAA
*
5323759 TTTTAATAATAACAATAATAA
1 TTTTAAGAATAACAATAATAA
5323780 T
1 T
5323781 AATTATTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (21 bp):
TTTTAAGAATAACAATAATAA
Found at i:5323876 original size:8 final size:8
Alignment explanation
Indices: 5323815--5323870 Score: 76
Period size: 8 Copynumber: 7.0 Consensus size: 8
5323805 AAAAAATAAT
5323815 AATAAAAA
1 AATAAAAA
* *
5323823 AACAAAGA
1 AATAAAAA
*
5323831 AACAAAAA
1 AATAAAAA
5323839 AATAAAAA
1 AATAAAAA
5323847 AATAAAAA
1 AATAAAAA
5323855 AATAAAAA
1 AATAAAAA
*
5323863 AAGAAAAA
1 AATAAAAA
5323871 CAGAAAGTAG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 43 1.00
ACGTcount: A:0.86, C:0.04, G:0.04, T:0.07
Consensus pattern (8 bp):
AATAAAAA
Found at i:5325473 original size:16 final size:16
Alignment explanation
Indices: 5325310--5325471 Score: 122
Period size: 16 Copynumber: 10.2 Consensus size: 16
5325300 CTAGGTTTCT
*
5325310 AAAACCCCTGAAATCC
1 AAAACCCCTAAAATCC
* *
5325326 GAAACCCCTAAAATCT
1 AAAACCCCTAAAATCC
*
5325342 TAAA-CCCTAAAAATCC
1 AAAACCCCT-AAAATCC
* *
5325358 AAAATCCCTTAAATCC
1 AAAACCCCTAAAATCC
*
5325374 -AAACCTCTAAAAATCC
1 AAAACCCCT-AAAATCC
*
5325390 AAAACCCCCCAAAATCC
1 AAAA-CCCCTAAAATCC
*
5325407 AAAATCCC--AAA-CC
1 AAAACCCCTAAAATCC
*
5325420 TTTAAACCCCTAAAATCC
1 --AAAACCCCTAAAATCC
*
5325438 -AAACCTC-AAAATCC
1 AAAACCCCTAAAATCC
*
5325452 AAAATCCCTAAAATCC
1 AAAACCCCTAAAATCC
5325468 AAAA
1 AAAA
5325472 TCTTAAATCA
Statistics
Matches: 116, Mismatches: 18, Indels: 24
0.73 0.11 0.15
Matches are distributed among these distances:
13 2 0.02
14 10 0.09
15 27 0.23
16 51 0.44
17 21 0.18
18 5 0.04
ACGTcount: A:0.48, C:0.34, G:0.01, T:0.17
Consensus pattern (16 bp):
AAAACCCCTAAAATCC
Found at i:5325499 original size:51 final size:50
Alignment explanation
Indices: 5325436--5325543 Score: 137
Period size: 51 Copynumber: 2.1 Consensus size: 50
5325426 CCCCTAAAAT
* *
5325436 CCAAACCTCAAAATCCAAAATCCCTAAAA-TCCAAAATCTTAAATCAAAACC
1 CCAAACCCCAAAA-CCAAAA-CCCTAAAACTCCAAAATCTAAAATCAAAACC
* *
5325487 CCAAACCCCAAAACCCAAACCCTAAAATCTCCAAACTCTAAAATCAAAACC
1 CCAAACCCCAAAACCAAAACCCTAAAA-CTCCAAAATCTAAAATCAAAACC
*
5325538 CTAAAC
1 CCAAAC
5325544 TTTCCATATC
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
49 8 0.16
50 5 0.10
51 37 0.74
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (50 bp):
CCAAACCCCAAAACCAAAACCCTAAAACTCCAAAATCTAAAATCAAAACC
Found at i:5325505 original size:14 final size:15
Alignment explanation
Indices: 5325480--5325513 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
5325470 AATCTTAAAT
5325480 CAAAACCCCAAACCC
1 CAAAACCCCAAACCC
5325495 CAAAA-CCCAAACCC
1 CAAAACCCCAAACCC
*
5325509 TAAAA
1 CAAAA
5325514 TCTCCAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.53, C:0.44, G:0.00, T:0.03
Consensus pattern (15 bp):
CAAAACCCCAAACCC
Found at i:5325541 original size:14 final size:14
Alignment explanation
Indices: 5325315--5325542 Score: 78
Period size: 16 Copynumber: 15.5 Consensus size: 14
5325305 TTTCTAAAAC
*
5325315 CCCTGAAATCCGAAA
1 CCCTAAAATCC-AAA
*
5325330 CCCCTAAAATCTTAAA
1 -CCCTAAAATC-CAAA
5325346 CCCTAAAAATCCAAAA
1 CCCT-AAAATCC-AAA
*
5325362 TCCCTTAAATCCAAA
1 -CCCTAAAATCCAAA
5325377 CCTCTAAAAATCCAAAA
1 CC-CT-AAAATCC-AAA
*
5325394 CCCCCCAAAATCCAAAA
1 --CCCTAAAATCC-AAA
* **
5325411 TCCC-AAACCTTTAAA
1 -CCCTAAA-ATCCAAA
5325426 CCCCTAAAATCCAAA
1 -CCCTAAAATCCAAA
5325441 -CCTCAAAATCCAAAA
1 CCCT-AAAATCC-AAA
5325456 TCCCTAAAATCCAAA
1 -CCCTAAAATCCAAA
** *
5325471 ATCTTAAAT-CAAA
1 CCCTAAAATCCAAA
*
5325484 ACC------CCAAA
1 CCCTAAAATCCAAA
* *
5325492 CCCCAAAACCCAAA
1 CCCTAAAATCCAAA
5325506 CCCTAAAATCTCCAAA
1 CCCTAAAA--TCCAAA
* *
5325522 CTCTAAAATCAAAA
1 CCCTAAAATCCAAA
5325536 CCCTAAA
1 CCCTAAA
5325543 CTTTCCATAT
Statistics
Matches: 164, Mismatches: 24, Indels: 50
0.69 0.10 0.21
Matches are distributed among these distances:
8 6 0.04
13 9 0.05
14 38 0.23
15 28 0.17
16 59 0.36
17 21 0.13
18 1 0.01
19 2 0.01
ACGTcount: A:0.48, C:0.35, G:0.01, T:0.17
Consensus pattern (14 bp):
CCCTAAAATCCAAA
Found at i:5329745 original size:9 final size:9
Alignment explanation
Indices: 5329739--5329768 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
5329729 TCAAAAAAAT
*
5329739 AAAAAAATA
1 AAAAAAACA
5329748 AAAAAAACA
1 AAAAAAACA
5329757 AAAAAAACA
1 AAAAAAACA
5329766 AAA
1 AAA
5329769 GGGACATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.90, C:0.07, G:0.00, T:0.03
Consensus pattern (9 bp):
AAAAAAACA
Found at i:5329768 original size:17 final size:18
Alignment explanation
Indices: 5329730--5329768 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
5329720 GGGGCATCGT
*
5329730 CAAAAAAATAAAAAAATA
1 CAAAAAAACAAAAAAATA
5329748 -AAAAAAACAAAAAAA-A
1 CAAAAAAACAAAAAAATA
5329764 CAAAA
1 CAAAA
5329769 GGGACATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 1 0.05
17 18 0.95
ACGTcount: A:0.87, C:0.08, G:0.00, T:0.05
Consensus pattern (18 bp):
CAAAAAAACAAAAAAATA
Found at i:5331529 original size:41 final size:40
Alignment explanation
Indices: 5331474--5331568 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 40
5331464 TTAAAGTTTT
* * *
5331474 AAAGTCTCTGTTTAAGAAAAACC-GTTCTCAATCAATATTTC
1 AAAGCCTCTGTTTAAG-AAAACCAATT-TCAATCAAGATTTC
* **
5331515 AAAGCCTCTATTTAAGAGGACCAATTTCAATCAAGATTTC
1 AAAGCCTCTGTTTAAGAAAACCAATTTCAATCAAGATTTC
5331555 AAAGCCTCTGTTTA
1 AAAGCCTCTGTTTA
5331569 GAGGGAACCT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
40 30 0.65
41 16 0.35
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.33
Consensus pattern (40 bp):
AAAGCCTCTGTTTAAGAAAACCAATTTCAATCAAGATTTC
Found at i:5331757 original size:62 final size:62
Alignment explanation
Indices: 5331699--5331889 Score: 141
Period size: 62 Copynumber: 3.1 Consensus size: 62
5331689 CAAAGATTTT
5331699 AAGATTTGTAAGACCTCTGGGCATAATCTTTAAAAGCCTATGCGCACGACTTTCAAGATTAA
1 AAGATTTGTAAGACCTCTGGGCATAATCTTTAAAAGCCTATGCGCACGACTTTCAAGATTAA
* ** ** ** * *
5331761 AAGATTT-TCAA-A-AT-T--TTA-AAGT-TTT-ATTGCCTCTGATTATG-AGGAACATTCAAAG
1 AAGATTTGT-AAGACCTCTGGGCATAA-TCTTTAAAAG-C-CT-A-TGCGCACG-ACTTTC-AAG
**
5331816 ATTTT
58 ATTAA
5331821 AAGATTTGTAAGACCTCTGGGCATAATCTTTAAAAGCCTATGCGCACGACTTTCAAGATTAA
1 AAGATTTGTAAGACCTCTGGGCATAATCTTTAAAAGCCTATGCGCACGACTTTCAAGATTAA
5331883 AAGATTT
1 AAGATTT
5331890 TCAAAATTTA
Statistics
Matches: 89, Mismatches: 22, Indels: 36
0.61 0.15 0.24
Matches are distributed among these distances:
55 2 0.02
56 6 0.07
57 4 0.04
58 3 0.03
59 8 0.09
60 16 0.18
61 4 0.04
62 23 0.26
63 8 0.09
64 3 0.03
65 4 0.04
66 6 0.07
67 2 0.02
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.34
Consensus pattern (62 bp):
AAGATTTGTAAGACCTCTGGGCATAATCTTTAAAAGCCTATGCGCACGACTTTCAAGATTAA
Found at i:5331848 original size:122 final size:122
Alignment explanation
Indices: 5331635--5331967 Score: 596
Period size: 122 Copynumber: 2.7 Consensus size: 122
5331625 AAGCCATGTT
5331635 TTAAAAGATTTTCAAAATTTTAAAGTTTTATTGCCTCTGATTATGAGGAACATTCAAAGATTTTA
1 TTAAAAGATTTTCAAAATTTTAAAGTTTTATTGCCTCTGATTATGAGGAACATTCAAAGATTTTA
5331700 AGATTTGTAAGACCTCTGGGCATAATCTTTAAAAGCCTATGCGCACGACTTTCAAGA
66 AGATTTGTAAGACCTCTGGGCATAATCTTTAAAAGCCTATGCGCACGACTTTCAAGA
5331757 TTAAAAGATTTTCAAAATTTTAAAGTTTTATTGCCTCTGATTATGAGGAACATTCAAAGATTTTA
1 TTAAAAGATTTTCAAAATTTTAAAGTTTTATTGCCTCTGATTATGAGGAACATTCAAAGATTTTA
5331822 AGATTTGTAAGACCTCTGGGCATAATCTTTAAAAGCCTATGCGCACGACTTTCAAGA
66 AGATTTGTAAGACCTCTGGGCATAATCTTTAAAAGCCTATGCGCACGACTTTCAAGA
* * * *
5331879 TTAAAAGATTTTCAAAA-TTTAAAGTTTCATTGCCTCTGATTATAAGGAGCATTCAAAGATTTTG
1 TTAAAAGATTTTCAAAATTTTAAAGTTTTATTGCCTCTGATTATGAGGAACATTCAAAGATTTTA
* * *
5331943 AGATTTGTAAGTCCTCCGGACATAA
66 AGATTTGTAAGACCTCTGGGCATAA
5331968 ATTTGATTCA
Statistics
Matches: 204, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
121 65 0.32
122 139 0.68
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (122 bp):
TTAAAAGATTTTCAAAATTTTAAAGTTTTATTGCCTCTGATTATGAGGAACATTCAAAGATTTTA
AGATTTGTAAGACCTCTGGGCATAATCTTTAAAAGCCTATGCGCACGACTTTCAAGA
Found at i:5332141 original size:109 final size:109
Alignment explanation
Indices: 5331944--5332293 Score: 486
Period size: 109 Copynumber: 3.2 Consensus size: 109
5331934 AAGATTTTGA
* * * *
5331944 GATTTGTAAGTCCTCCGGACATAAATTTGATTCACGATGTTATCCCGATCGATTCTTTAT-TTTT
1 GATTTCTAAGACCTCCGGGCATAAATTTGATTCACGATGTTATCCCAATCGATTCTTTATCTTTT
* * *
5332008 GACTTGCGGTGTTATCCCAGTCAATTCTGTAAGACCTCCAGGTAT
66 GACTTGTGGTGTTAT-CTAGTCAATTCTGTAAGACCTCCAGGCAT
* *
5332053 GATTTCTAAGACCTCCGGGCATAAATTTGATTCACGATGTTATCCCAATTGATTCTTTATCCTTT
1 GATTTCTAAGACCTCCGGGCATAAATTTGATTCACGATGTTATCCCAATCGATTCTTTATCTTTT
*
5332118 GACTTGTGGTGTTATCTAATCAATTCTGTAAGACCTCCAGGCAT
66 GACTTGTGGTGTTATCTAGTCAATTCTGTAAGACCTCCAGGCAT
* * * * *
5332162 GATTTCTAAGACCTTCGAGCATAAATTCGATTCACGATTTTATCCCAATCAATTCTTTATCTTTT
1 GATTTCTAAGACCTCCGGGCATAAATTTGATTCACGATGTTATCCCAATCGATTCTTTATCTTTT
* **
5332227 GACTTGTGGTGTTATCTAGTCGATTCTGTAAGACCTCTGGGCAT
66 GACTTGTGGTGTTATCTAGTCAATTCTGTAAGACCTCCAGGCAT
* * *
5332271 GATACTGTAAGACCTCCGAGCAT
1 GAT-TTCTAAGACCTCCGGGCAT
5332294 GATTTATAAG
Statistics
Matches: 215, Mismatches: 24, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
109 182 0.85
110 33 0.15
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.37
Consensus pattern (109 bp):
GATTTCTAAGACCTCCGGGCATAAATTTGATTCACGATGTTATCCCAATCGATTCTTTATCTTTT
GACTTGTGGTGTTATCTAGTCAATTCTGTAAGACCTCCAGGCAT
Found at i:5332282 original size:23 final size:22
Alignment explanation
Indices: 5332251--5332315 Score: 85
Period size: 23 Copynumber: 2.9 Consensus size: 22
5332241 TCTAGTCGAT
5332251 TCTGTAAGACCTCTGGGCATGA
1 TCTGTAAGACCTCTGGGCATGA
* *
5332273 TACTGTAAGACCTCCGAGCATGA
1 T-CTGTAAGACCTCTGGGCATGA
* *
5332296 TTTATAAGACCTCTGGGCAT
1 TCTGTAAGACCTCTGGGCAT
5332316 AAATTCAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
22 16 0.44
23 20 0.56
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (22 bp):
TCTGTAAGACCTCTGGGCATGA
Found at i:5332385 original size:132 final size:132
Alignment explanation
Indices: 5332143--5332402 Score: 389
Period size: 132 Copynumber: 2.0 Consensus size: 132
5332133 CTAATCAATT
* * *
5332143 CTGTAAGACCTCCAGGCATGATTTCTAAGACCTTCGAGCATAAATTCGATTCACGATTTTATCCC
1 CTGTAAGACCTCCAGGCATGATTTATAAGACCTTCGAGCATAAATTCAATTCACGATGTTATCCC
* * * * *
5332208 AATCAATTCTTTATCTTTTGACTTGTGGTGTTATCTAGTCGATTCTGTAAGACCTCTGGGCATGA
66 AATCAATTCTTTATCCTTTGACTTGTGGTGTTATCTAATCAATTCTATAAGACCTCCGGGCATGA
5332273 TA
131 TA
*
5332275 CTGTAAGACCTCC-GAGCATGATTTATAAGACC-TCTGGGCATAAATTCAATTCACGATGTTATC
1 CTGTAAGACCTCCAG-GCATGATTTATAAGACCTTC-GAGCATAAATTCAATTCACGATGTTATC
* *
5332338 TCGATCAATTCTTTATCCTTTGACTTGTGGTGTTATCTAATCAATTCTATAAGACCTCCGGGCAT
64 CCAATCAATTCTTTATCCTTTGACTTGTGGTGTTATCTAATCAATTCTATAAGACCTCCGGGCAT
5332403 AAATTTGATT
Statistics
Matches: 115, Mismatches: 11, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
131 3 0.03
132 112 0.97
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.36
Consensus pattern (132 bp):
CTGTAAGACCTCCAGGCATGATTTATAAGACCTTCGAGCATAAATTCAATTCACGATGTTATCCC
AATCAATTCTTTATCCTTTGACTTGTGGTGTTATCTAATCAATTCTATAAGACCTCCGGGCATGA
TA
Found at i:5332406 original size:219 final size:220
Alignment explanation
Indices: 5332168--5332622 Score: 624
Period size: 219 Copynumber: 2.1 Consensus size: 220
5332158 GCATGATTTC
* * *
5332168 TAAGACCTTCGAGCATAAATTCGATTCACGATTTTATCCCAATCAATTCTTTATCTTTTGACTTG
1 TAAGACCTTCGGGCATAAATTCGATTCACGATGTTATCCCAATCAATTCTTTATCTTTTGACTTA
* * *
5332233 TGGTGTTATCTAGTCGATTCTGTAAGACCTCTGGGCATGATACTGTAAGACCTCCGAGCATGATT
66 TGGTGTTATCTAGTCGATTCTATAAGACCTCCGGGCATGATACTATAAGACCTCCGAGCATGATT
* * *
5332298 TATAAGACCTCTGGGCATAAATTCAATTCACGATGTTATCTCGATCAATTCTTTATCCTTTGACT
131 TATAAGACCTCCGAGCATAAATTCAATTCACGATGTTATCTCAATCAATTCTTTATCCTTTGACT
*
5332363 TGTGGTGTTA-TCTAATCAATTCTA
196 TGTGGTGTTATTCCAATCAATTCTA
* * ** * * **
5332387 TAAGACCTCCGGGCATAAATTTGATTTGCGGTGTTATCCCGATTGATTCTTTATCTTTTGACTTA
1 TAAGACCTTCGGGCATAAATTCGATTCACGATGTTATCCCAATCAATTCTTTATCTTTTGACTTA
* * *
5332452 TGGTGTTATCTAGTCGATTCTATAAGACTTCCGGGCATGATTCTATAAGACCTCCGGGCATGATT
66 TGGTGTTATCTAGTCGATTCTATAAGACCTCCGGGCATGATACTATAAGACCTCCGAGCATGATT
* * ** * * *
5332517 TCTAAGACCTCCGAGCATAAATTCGATTCGTGGTGTTATCTCAATCGATTCTTTATCTTTTGACT
131 TATAAGACCTCCGAGCATAAATTCAATTCACGATGTTATCTCAATCAATTCTTTATCCTTTGACT
* * *
5332582 TGTGGTGTTATTCCAATCGATTTTG
196 TGTGGTGTTATTCCAATCAATTCTA
5332607 TAAGACCTTCGGGCAT
1 TAAGACCTTCGGGCAT
5332623 GATTTTGTAA
Statistics
Matches: 203, Mismatches: 32, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
219 178 0.88
220 25 0.12
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (220 bp):
TAAGACCTTCGGGCATAAATTCGATTCACGATGTTATCCCAATCAATTCTTTATCTTTTGACTTA
TGGTGTTATCTAGTCGATTCTATAAGACCTCCGGGCATGATACTATAAGACCTCCGAGCATGATT
TATAAGACCTCCGAGCATAAATTCAATTCACGATGTTATCTCAATCAATTCTTTATCCTTTGACT
TGTGGTGTTATTCCAATCAATTCTA
Found at i:5332447 original size:87 final size:87
Alignment explanation
Indices: 5332298--5332489 Score: 258
Period size: 87 Copynumber: 2.2 Consensus size: 87
5332288 GAGCATGATT
* *
5332298 TATAAGACCTCTGGGCATAAATTCAATTCACGATGTTATCTCGATCAATTCTTTATCCTTTGACT
1 TATAAGACCTCCGGGCATAAATTCAATTCACGATGTTATCCCGATCAATTCTTTATCCTTTGACT
*
5332363 TGTGGTGTTATCTAATCAATTC
66 TATGGTGTTATCTAATCAATTC
** ** * ** *
5332385 TATAAGACCTCCGGGCATAAATTTGATTTGCGGTGTTATCCCGATTGATTCTTTATCTTTTGACT
1 TATAAGACCTCCGGGCATAAATTCAATTCACGATGTTATCCCGATCAATTCTTTATCCTTTGACT
* *
5332450 TATGGTGTTATCTAGTCGATTC
66 TATGGTGTTATCTAATCAATTC
*
5332472 TATAAGACTTCCGGGCAT
1 TATAAGACCTCCGGGCAT
5332490 GATTCTATAA
Statistics
Matches: 91, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
87 91 1.00
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (87 bp):
TATAAGACCTCCGGGCATAAATTCAATTCACGATGTTATCCCGATCAATTCTTTATCCTTTGACT
TATGGTGTTATCTAATCAATTC
Found at i:5332525 original size:22 final size:23
Alignment explanation
Indices: 5332467--5332534 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
5332457 TTATCTAGTC
*
5332467 GATTCTATAAGACTTCCGGGCAT
1 GATTCTATAAGACCTCCGGGCAT
5332490 GATTCTATAAGACCTCCGGGCAT
1 GATTCTATAAGACCTCCGGGCAT
* *
5332513 GATT-TCTAAGACCTCCGAGCAT
1 GATTCTATAAGACCTCCGGGCAT
5332535 AAATTCGATT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
22 16 0.38
23 26 0.62
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (23 bp):
GATTCTATAAGACCTCCGGGCAT
Found at i:5332626 original size:23 final size:24
Alignment explanation
Indices: 5332600--5332667 Score: 90
Period size: 22 Copynumber: 3.0 Consensus size: 24
5332590 TATTCCAATC
5332600 GATTTTGTAAGACCTTC-GGGCAT
1 GATTTTGTAAGACCTTCTGGGCAT
*
5332623 GATTTTGTAAGA-CTTCTGAGCAT
1 GATTTTGTAAGACCTTCTGGGCAT
*
5332646 GA-TTTCTAAGACC-TCTGGGCAT
1 GATTTTGTAAGACCTTCTGGGCAT
5332668 AAATTTGATT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
22 20 0.50
23 20 0.50
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (24 bp):
GATTTTGTAAGACCTTCTGGGCAT
Found at i:5332655 original size:22 final size:23
Alignment explanation
Indices: 5332600--5332667 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
5332590 TATTCCAATC
* *
5332600 GATTTTGTAAGACCT-TCGGGCAT
1 GATTTTCTAAGACCTCT-GAGCAT
* *
5332623 GATTTTGTAAGACTTCTGAGCAT
1 GATTTTCTAAGACCTCTGAGCAT
*
5332646 GA-TTTCTAAGACCTCTGGGCAT
1 GATTTTCTAAGACCTCTGAGCAT
5332668 AAATTTGATT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
22 17 0.44
23 21 0.54
24 1 0.03
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (23 bp):
GATTTTCTAAGACCTCTGAGCAT
Found at i:5332789 original size:22 final size:23
Alignment explanation
Indices: 5332732--5332798 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
5332722 TATCTAATCA
* * *
5332732 ATTCTATAAAACCTCCGGACATG
1 ATTCTCTAAGACCTCCGGGCATG
*
5332755 ATTCTGTAAGACCTCCGGGCATG
1 ATTCTCTAAGACCTCCGGGCATG
*
5332778 ATT-TCTAAGACCTCCAGGCAT
1 ATTCTCTAAGACCTCCGGGCAT
5332799 AAATTCGATT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
22 16 0.41
23 23 0.59
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (23 bp):
ATTCTCTAAGACCTCCGGGCATG
Found at i:5332798 original size:131 final size:130
Alignment explanation
Indices: 5332387--5333039 Score: 770
Period size: 132 Copynumber: 5.0 Consensus size: 130
5332377 ATCAATTCTA
* * * *
5332387 TAAGACCTCCGGGCATAAATTTGATTTGCGGTGTTATCCCGATTGATTCTTTATCTTTTGACTTA
1 TAAGACCTCCGGGCATAAATTCGATTCGCGGTGTTAT-CCGATCGATTCTTTATCTTTTGACTTG
* * * * *
5332452 TGGTGTTATCTAGTCGATTCTATAAGACTTCCGGGCATGATTCTATAAGACCTCCGGGCATGATT
65 TGGTGTTATCTAATCGATTCTGTAAGACCTCCGGACATGATT-TCTAAGACCTCCGGGCATGATT
5332517 TC
129 TC
* * *
5332519 TAAGACCTCCGAGCATAAATTCGATTCGTGGTGTTATCTCAATCGATTCTTTATCTTTTGACTTG
1 TAAGACCTCCGGGCATAAATTCGATTCGCGGTGTTATC-CGATCGATTCTTTATCTTTTGACTTG
* * * * * * * *
5332584 TGGTGTTATTCCAATCGATTTTGTAAGACCTTCGGGCATGATTTTGTAAGACTTCTGAGCATGAT
65 TGGTGTTA-TCTAATCGATTCTGTAAGACCTCCGGACATGA-TTTCTAAGACCTCCGGGCATGAT
5332649 TTC
128 TTC
* * * * *
5332652 TAAGACCTCTGGGCATAAATTTGATTCGCGGTGTTATCCGATTGATTCTTTATCCTTTGACTGGT
1 TAAGACCTCCGGGCATAAATTCGATTCGCGGTGTTATCCGATCGATTCTTTATCTTTTGACTTGT
* * * *
5332717 GGTGTTATCTAATCAATTCTATAAAACCTCCGGACATGATTCTGTAAGACCTCCGGGCATGATTT
66 GGTGTTATCTAATCGATTCTGTAAGACCTCCGGACATGATT-TCTAAGACCTCCGGGCATGATTT
5332782 C
130 C
* * * *
5332783 TAAGACCTCCAGGCATAAATTCGATTCGCGATGTTATCCCGATCAATTCTTTATCTTTTAACTTG
1 TAAGACCTCCGGGCATAAATTCGATTCGCGGTGTTAT-CCGATCGATTCTTTATCTTTTGACTTG
* * * * *
5332848 TAGTGTTATCTAGTTGATTCTGTAAGACCTTC-GAGCATGATTTCTAAGACCTCCGGGTATGATT
65 TGGTGTTATCTAATCGATTCTGTAAGACCTCCGGA-CATGATTTCTAAGACCTCCGGGCATGATT
5332912 TC
129 TC
* * * * * *
5332914 TAAGACCTCTGTGTATAAATTCGGTTCGCGGTGTTATCCTAATCGATTCTTTATTTTTTGACTTG
1 TAAGACCTCCGGGCATAAATTCGATTCGCGGTGTTATCC-GATCGATTCTTTATCTTTTGACTTG
* * *
5332979 TGGTGTTATTTCAATCGATTCTGTAAGACCTCCATG-CATGATTTCTAAGACCTCCGTGCAT
65 TGGTGTTATCT-AATCGATTCTGTAAGACCTCC-GGACATGATTTCTAAGACCTCCGGGCAT
5333040 AAATTTGATT
Statistics
Matches: 441, Mismatches: 70, Indels: 20
0.83 0.13 0.04
Matches are distributed among these distances:
130 4 0.01
131 165 0.37
132 189 0.43
133 80 0.18
134 3 0.01
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (130 bp):
TAAGACCTCCGGGCATAAATTCGATTCGCGGTGTTATCCGATCGATTCTTTATCTTTTGACTTGT
GGTGTTATCTAATCGATTCTGTAAGACCTCCGGACATGATTTCTAAGACCTCCGGGCATGATTTC
Found at i:5332929 original size:22 final size:22
Alignment explanation
Indices: 5332870--5332922 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
5332860 GTTGATTCTG
* * *
5332870 TAAGACCTTCGAGCATGATTTC
1 TAAGACCTCCGGGTATGATTTC
5332892 TAAGACCTCCGGGTATGATTTC
1 TAAGACCTCCGGGTATGATTTC
5332914 TAAGACCTC
1 TAAGACCTC
5332923 TGTGTATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (22 bp):
TAAGACCTCCGGGTATGATTTC
Found at i:5333085 original size:110 final size:110
Alignment explanation
Indices: 5332892--5333121 Score: 309
Period size: 110 Copynumber: 2.1 Consensus size: 110
5332882 GCATGATTTC
* * * * * ** *
5332892 TAAGACCTCCGGGTATGATTTCTAAGACCTCTGTGTATAAATTCGGTTCGCGGTGTTATCCTAAT
1 TAAGACCTCCAGGCATGATTTCTAAGACCTCCGTGCATAAATTCGATTCGCGAAGTTATCCGAAT
* *
5332957 CGATTCTTTATTTTTTGACTTGTGGTGTTATTTCAATCGATTCTG
66 CGATTCTTTATCTTTTGACTTGTGGTGTTATCTCAATCGATTCTG
* * *
5333002 TAAGACCTCCATGCATGATTTCTAAGACCTCCGTGCATAAATTTGATTCGCGAAGTTATTCCGAT
1 TAAGACCTCCAGGCATGATTTCTAAGACCTCCGTGCATAAATTCGATTCGCGAAGTTA-TCCGAA
* *
5333067 TC-ATTCTTTATCTTTTGACTTGTGGTGTTATCTCAGTCGATTTTG
65 TCGATTCTTTATCTTTTGACTTGTGGTGTTATCTCAATCGATTCTG
5333112 TAAGACCTCC
1 TAAGACCTCC
5333122 GAGCATAAAT
Statistics
Matches: 104, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
110 98 0.94
111 6 0.06
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.41
Consensus pattern (110 bp):
TAAGACCTCCAGGCATGATTTCTAAGACCTCCGTGCATAAATTCGATTCGCGAAGTTATCCGAAT
CGATTCTTTATCTTTTGACTTGTGGTGTTATCTCAATCGATTCTG
Found at i:5333193 original size:87 final size:88
Alignment explanation
Indices: 5333024--5333207 Score: 255
Period size: 88 Copynumber: 2.1 Consensus size: 88
5333014 GCATGATTTC
* * * *
5333024 TAAGACCTCCGTGCATAAATTTGATTCGCGAAGTTATTCCGATTCATTCTTTATCTTTTGACTTG
1 TAAGACCTCCGAGCATAAATTTAATTCACGAAGTTATTCCGATTCATTCTTTATCTTTTGACTTA
* *
5333089 TGGTGTTATCTCAGTCGATTTTG
66 TGGTGTTATCCCAGTCGATTCTG
** * *
5333112 TAAGACCTCCGAGCATAAATTTAATTCACGGTGTTA-TCCTGATTGATTTTTTAT-TTTTGACTT
1 TAAGACCTCCGAGCATAAATTTAATTCACGAAGTTATTCC-GATTCATTCTTTATCTTTTGACTT
5333175 ATGGTGTTATCCCAGTCGATTCTG
65 ATGGTGTTATCCCAGTCGATTCTG
5333199 TAAGACCTC
1 TAAGACCTC
5333208 TGGGCATGAT
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
87 42 0.49
88 43 0.51
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.42
Consensus pattern (88 bp):
TAAGACCTCCGAGCATAAATTTAATTCACGAAGTTATTCCGATTCATTCTTTATCTTTTGACTTA
TGGTGTTATCCCAGTCGATTCTG
Found at i:5333222 original size:23 final size:23
Alignment explanation
Indices: 5333192--5333259 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
5333182 TATCCCAGTC
5333192 GATTCTGTAAGACCTCTGGGCAT
1 GATTCTGTAAGACCTCTGGGCAT
*
5333215 GATTCTGTAAGA-CTTTCGGGCAT
1 GATTCTGTAAGACCTCT-GGGCAT
* * *
5333238 AATT-TCTAAGACCTCTGAGCAT
1 GATTCTGTAAGACCTCTGGGCAT
5333260 AAATTTGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
22 14 0.37
23 24 0.63
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (23 bp):
GATTCTGTAAGACCTCTGGGCAT
Found at i:5333355 original size:23 final size:23
Alignment explanation
Indices: 5333325--5333392 Score: 136
Period size: 23 Copynumber: 3.0 Consensus size: 23
5333315 TATTTCAATC
5333325 GATTCTGTAAGACCTCCGGGCAT
1 GATTCTGTAAGACCTCCGGGCAT
5333348 GATTCTGTAAGACCTCCGGGCAT
1 GATTCTGTAAGACCTCCGGGCAT
5333371 GATTCTGTAAGACCTCCGGGCA
1 GATTCTGTAAGACCTCCGGGCA
5333393 CAAATTCAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.25
Consensus pattern (23 bp):
GATTCTGTAAGACCTCCGGGCAT
Found at i:5333440 original size:134 final size:132
Alignment explanation
Indices: 5333112--5333636 Score: 604
Period size: 133 Copynumber: 4.0 Consensus size: 132
5333102 GTCGATTTTG
* * * * * *
5333112 TAAGACCTCCGAGCATAAATTTAATTCACGGTGTTATCCTGATTGATTTTTTATTTTTGACTTAT
1 TAAGACCTCCGAGCATAAATTCAATTCGCGATGTTATCCCGATCGATTCTTTATTTTTGACTTAT
* * * * * * *
5333177 GGTGTTATCCCAGTCGATTCTGTAAGACCTCTGGGCATGATTCTGTAAGACTTTCGGGCATAATT
66 GGTGTTATTCCAATCGATTCTGTAAGACCTCCGGGCATGATTCTGTAAGACCTCCAGGCATGATT
5333242 TC
131 TC
* ** * *
5333244 TAAGACCTCTGAGCATAAATTTGATTCGCGATGTTATCCCGATCGATTCTTTACCTTTTGACTTG
1 TAAGACCTCCGAGCATAAATTCAATTCGCGATGTTATCCCGATCGATTCTTTA-TTTTTGACTTA
* *
5333309 TGGTGTTATTTCAATCGATTCTGTAAGACCTCCGGGCATGATTCTGTAAGACCTCCGGGCATGAT
65 TGGTGTTATTCCAATCGATTCTGTAAGACCTCCGGGCATGATTCTGTAAGACCTCCAGGCATGAT
*
5333374 TCTG
130 T-TC
* *
5333378 TAAGACCTCCGGGCACAAATTCAATTCGCGATGTTATCCCGATCGATTCTTTATCTTTTGACTTA
1 TAAGACCTCCGAGCATAAATTCAATTCGCGATGTTATCCCGATCGATTCTTTAT-TTTTGACTTA
* * ** * * **
5333443 TGGTGTTACTCCAATCGATTCTATAAGACCTTTGGGCATGATTTTGCAAGACCTCCAAACATGAT
65 TGGTGTTATTCCAATCGATTCTGTAAGACCTCCGGGCATGATTCTGTAAGACCTCCAGGCATGAT
5333508 TTC
130 TTC
* * * * * * *
5333511 TAAGACCTCCGGGCATAAATTCGATTCGCGGTGTTATCCCGATCAATTTTTTATTTTTCAACTTG
1 TAAGACCTCCGAGCATAAATTCAATTCGCGATGTTATCCCGATCGATTCTTTATTTTT-GACTTA
* * * * *
5333576 CGGTGTTA-TCCTAATCAATTTTGTAAGACCTCCGAGTATGATT-TGTAAGACCTCCAGGCAT
65 TGGTGTTATTCC-AATCGATTCTGTAAGACCTCCGGGCATGATTCTGTAAGACCTCCAGGCAT
5333637 AAATTTGATT
Statistics
Matches: 335, Mismatches: 53, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
132 68 0.20
133 153 0.46
134 114 0.34
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (132 bp):
TAAGACCTCCGAGCATAAATTCAATTCGCGATGTTATCCCGATCGATTCTTTATTTTTGACTTAT
GGTGTTATTCCAATCGATTCTGTAAGACCTCCGGGCATGATTCTGTAAGACCTCCAGGCATGATT
TC
Found at i:5333676 original size:110 final size:109
Alignment explanation
Indices: 5333483--5333708 Score: 292
Period size: 110 Copynumber: 2.1 Consensus size: 109
5333473 TTTGGGCATG
* * ** *
5333483 ATTTTGCAAGACCTCCAAACATGATTTCTAAGACCTCCGGGCATAAATTCGATTCGCGGTGTTAT
1 ATTTTGTAAGACCTCCAAACATGATTTCTAAGACCTCCAGGCATAAATTCGATTCGCAATATTAT
**
5333548 CCCGATCAATTTTTTATTTTTCAACTTGCGGTGTTA-TCCTAATC
66 CCCGATCAATTCATTATTTTTCAACTTGCGGTGTTATTCC-AATC
* ** * *
5333592 AATTTTGTAAGACCTCCGAGTATGATTTGTAAGACCTCCAGGCATAAATTTGATTCGCAATATTA
1 -ATTTTGTAAGACCTCCAAACATGATTTCTAAGACCTCCAGGCATAAATTCGATTCGCAATATTA
* * *
5333657 TCTCGATCGATTCATTATTTTTCGACTTGCGGTGTTATTCCAATC
65 TCCCGATCAATTCATTATTTTTCAACTTGCGGTGTTATTCCAATC
5333702 ATTTTGT
1 ATTTTGT
5333709 GTTTTAAAAA
Statistics
Matches: 100, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
109 7 0.07
110 90 0.90
111 3 0.03
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.38
Consensus pattern (109 bp):
ATTTTGTAAGACCTCCAAACATGATTTCTAAGACCTCCAGGCATAAATTCGATTCGCAATATTAT
CCCGATCAATTCATTATTTTTCAACTTGCGGTGTTATTCCAATC
Found at i:5335000 original size:17 final size:17
Alignment explanation
Indices: 5334975--5335026 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
5334965 TTTTAATTTT
5334975 TTAA-TTTTTTTTTATA
1 TTAAGTTTTTTTTTATA
*
5334991 TT-A-TTATTTTTGTTATT
1 TTAAGTT-TTTTT-TTATA
5335008 TTAAGTTTTTTTTTATA
1 TTAAGTTTTTTTTTATA
5335025 TT
1 TT
5335027 GATGCATGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
15 3 0.10
16 7 0.23
17 12 0.40
18 6 0.20
19 2 0.07
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (17 bp):
TTAAGTTTTTTTTTATA
Found at i:5335026 original size:19 final size:18
Alignment explanation
Indices: 5334960--5335026 Score: 61
Period size: 19 Copynumber: 3.8 Consensus size: 18
5334950 AAAAAAATTT
*
5334960 TTTTTTTTTAATTTTTTAA
1 TTTTTTTTT-ATATTTTAA
5334979 TTTTTTTTTATA--TT-A
1 TTTTTTTTTATATTTTAA
*
5334994 TTATTTTTGT-TATTTTAA
1 TT-TTTTTTTATATTTTAA
5335012 GTTTTTTTTTATATT
1 -TTTTTTTTTATATT
5335027 GATGCATGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
15 5 0.13
16 8 0.21
17 2 0.05
18 9 0.23
19 15 0.38
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (18 bp):
TTTTTTTTTATATTTTAA
Found at i:5335143 original size:3 final size:3
Alignment explanation
Indices: 5335137--5335174 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
5335127 AAAAATACAT
5335137 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
5335175 TTCCCTACCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:5335475 original size:33 final size:32
Alignment explanation
Indices: 5335438--5335539 Score: 123
Period size: 33 Copynumber: 3.1 Consensus size: 32
5335428 AAAATCCCTG
* *
5335438 AAATCCAAAACCCCTAAAATCTTAAACCTCTAA
1 AAATCCAAAACCCCTAAAATC-CAAACCCCTAA
** *
5335471 AAATCCAAAATACCTTAAATCCAAACCCCTAA
1 AAATCCAAAACCCCTAAAATCCAAACCCCTAA
5335503 AAATCCAAAACCCCCTAAAATCCAAAACCCCCTAA
1 AAATCCAAAA-CCCCTAAAATCC-AAA-CCCCTAA
5335538 AA
1 AA
5335540 TCTAAAATCC
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
32 19 0.33
33 27 0.47
34 3 0.05
35 9 0.16
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (32 bp):
AAATCCAAAACCCCTAAAATCCAAACCCCTAA
Found at i:5335506 original size:49 final size:49
Alignment explanation
Indices: 5335428--5335529 Score: 127
Period size: 49 Copynumber: 2.1 Consensus size: 49
5335418 CTAGGCTTCT
* ** *
5335428 AAAATCCCTGAAATCCAAAACCCCTAAAATCTTAAA-CCTCTAAAAATCC
1 AAAATACCTGAAATCCAAAACCCCTAAAATCCAAAACCCCCT-AAAATCC
*
5335477 AAAATACCTTAAATCC-AAACCCCTAAAAATCCAAAACCCCCTAAAATCC
1 AAAATACCTGAAATCCAAAACCCCT-AAAATCCAAAACCCCCTAAAATCC
5335526 AAAA
1 AAAA
5335530 CCCCCTAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
48 8 0.17
49 34 0.74
50 4 0.09
ACGTcount: A:0.50, C:0.31, G:0.01, T:0.18
Consensus pattern (49 bp):
AAAATACCTGAAATCCAAAACCCCTAAAATCCAAAACCCCCTAAAATCC
Found at i:5335515 original size:17 final size:16
Alignment explanation
Indices: 5335428--5335607 Score: 129
Period size: 16 Copynumber: 11.2 Consensus size: 16
5335418 CTAGGCTTCT
* *
5335428 AAAATCCCTGAAATCC
1 AAAACCCCTAAAATCC
*
5335444 AAAACCCCTAAAATCT
1 AAAACCCCTAAAATCC
* *
5335460 TAAACCTCTAAAAATCC
1 AAAACCCCT-AAAATCC
** *
5335477 AAAATACCTTAAATCC
1 AAAACCCCTAAAATCC
5335493 -AAACCCCTAAAAATCC
1 AAAACCCCT-AAAATCC
5335509 AAAACCCCCTAAAATCC
1 AAAA-CCCCTAAAATCC
*
5335526 AAAACCCCCTAAAATCT
1 AAAA-CCCCTAAAATCC
*
5335543 AAAATCCC--AAA-CC
1 AAAACCCCTAAAATCC
*
5335556 TTTAAACCCCTAAAATCC
1 --AAAACCCCTAAAATCC
* *
5335574 -AAACCTC-AAAATTC
1 AAAACCCCTAAAATCC
* *
5335588 AAAATCCGTAAAATCC
1 AAAACCCCTAAAATCC
5335604 AAAA
1 AAAA
5335608 TCTTAAAGCA
Statistics
Matches: 128, Mismatches: 25, Indels: 22
0.73 0.14 0.13
Matches are distributed among these distances:
13 1 0.01
14 9 0.07
15 22 0.17
16 45 0.35
17 44 0.34
18 7 0.05
ACGTcount: A:0.49, C:0.32, G:0.01, T:0.18
Consensus pattern (16 bp):
AAAACCCCTAAAATCC
Found at i:5342906 original size:34 final size:34
Alignment explanation
Indices: 5342858--5342929 Score: 126
Period size: 34 Copynumber: 2.1 Consensus size: 34
5342848 TCTACTGTTC
5342858 TTAACGAATCTACTTCTCCATAAGCAAATTCTAA
1 TTAACGAATCTACTTCTCCATAAGCAAATTCTAA
* *
5342892 TTAATGAATCTACTTCTCTATAAGCAAATTCTAA
1 TTAACGAATCTACTTCTCCATAAGCAAATTCTAA
5342926 TTAA
1 TTAA
5342930 GTGAGTCCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.39, C:0.19, G:0.06, T:0.36
Consensus pattern (34 bp):
TTAACGAATCTACTTCTCCATAAGCAAATTCTAA
Found at i:5344732 original size:3 final size:3
Alignment explanation
Indices: 5344724--5344777 Score: 54
Period size: 3 Copynumber: 18.0 Consensus size: 3
5344714 TGTTTTCCTT
* * ** * *
5344724 TTA TTA TTA TTG TTG TTA TTA TTA CAA TTA TTA TTA TTA TTA CTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5344772 TTA TTA
1 TTA TTA
5344778 AAAAATTAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:5348576 original size:303 final size:304
Alignment explanation
Indices: 5348047--5348595 Score: 744
Period size: 303 Copynumber: 1.8 Consensus size: 304
5348037 TAGATGAAAC
* * ** *
5348047 TTTTAATGGTCAGATTATTGAAGGTAGTTATATCCATAAATGCCTTCAATAAAAATTTTCTTAGG
1 TTTTAATGGTCAGATTATTGAAGGCAGTTATATCCAAAAACACCTTCAATAAAAATTTTCTTAAG
* * * *
5348112 GATTATTCAAGGCATTACCCATAGGAAAACACCCTTCATAATTCATTCGATTAATTTTTAGTTGG
66 GATAATTAAAGGCATTACCCATAGGAAAACACCCTTCATAATCCATTCGATTAACTTTTAGTTGG
* ** * ** * **
5348177 TATTATTGAAGGTGTTTTTTGAAAACGCCTTTAATAATTTATACAAAAAAGACTCAATGGATTCT
131 TATTATTAAAGGCATTTTTTGAAAACGCCTTCAATAATCCATACAAAAAAGACACAACAGATTCT
*
5348242 TAAAGGCATTTTTTGCCCAAAAGCTTTTAATATTCCACACAATAAATTTTTGGTGGGATTATTGT
196 TAAAGGCATTTTTTGCCCAAAAGCCTTTAATATTCCACACAATAAATTTTTGGTGGGATTATTGT
5348307 AGGTGATTTTGGTAAAAAATACCATTAATATTCCAGACAATAAA
261 AGGTGATTTTGGTAAAAAATACCATTAATATTCCAGACAATAAA
* * *
5348351 TTTTAATGGTC-GAATTATTGAAGGCAGTTATATCCAAAAACACCTTTAAT-AACATTTTGTTAA
1 TTTTAATGGTCAG-ATTATTGAAGGCAGTTATATCCAAAAACACCTTCAATAAAAATTTTCTTAA
* ** *
5348414 GGATAATTAAAGGCATTACCCTTAGGAAAATGCCTTTCATAATCCATTCGATTAACTTTTAGTTG
65 GGATAATTAAAGGCATTACCCATAGGAAAACACCCTTCATAATCCATTCGATTAACTTTTAGTTG
* * * *
5348479 GTTTTATTAAAGGCATTTTTTTAAAACGCCTTCAATAATCCATAC-ATAAAGGCACAACAGATTC
130 GTATTATTAAAGGCATTTTTTGAAAACGCCTTCAATAATCCATACAAAAAAGACACAACAGATTC
* ** * *
5348543 TTGAAGGCATTTTTTTTCCAAAATGCCTTTAATATTCCATACAATTAATTTTT
195 TTAAAGGCATTTTTTGCCCAAAA-GCCTTTAATATTCCACACAATAAATTTTT
5348596 AGGGTGATTA
Statistics
Matches: 208, Mismatches: 35, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
302 34 0.16
303 131 0.63
304 43 0.21
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (304 bp):
TTTTAATGGTCAGATTATTGAAGGCAGTTATATCCAAAAACACCTTCAATAAAAATTTTCTTAAG
GATAATTAAAGGCATTACCCATAGGAAAACACCCTTCATAATCCATTCGATTAACTTTTAGTTGG
TATTATTAAAGGCATTTTTTGAAAACGCCTTCAATAATCCATACAAAAAAGACACAACAGATTCT
TAAAGGCATTTTTTGCCCAAAAGCCTTTAATATTCCACACAATAAATTTTTGGTGGGATTATTGT
AGGTGATTTTGGTAAAAAATACCATTAATATTCCAGACAATAAA
Found at i:5352238 original size:80 final size:79
Alignment explanation
Indices: 5352061--5352277 Score: 232
Period size: 80 Copynumber: 2.8 Consensus size: 79
5352051 TACGATTAGT
** * * * * *
5352061 CCCCTAATATCATACAAAATTATTCAACAAAACAATATCAGACAATAAGGCTTAGCAAA-C--T-
1 CCCCTAATATCATACAAAACCATTCAGCAAAAAAATATCAAACAACAAGGTTTAGCAAACCATTC
5352122 -GCATATATTCAAC
66 AGCATATATTCAAC
* *
5352135 CCCCTAATATCATACAAAACCATTCAGCAAAATATTATCAAACAACAAGGTTTAGCAAACCATTC
1 CCCCTAATATCATACAAAACCATTCAGCAAAAAAATATCAAACAACAAGGTTTAGCAAACCATTC
5352200 AGCATATGATTCAAC
66 AGCATAT-ATTCAAC
* * * * *
5352215 CACCC-AATATTAT-CTAATACCATTTAGCAAAAAAATATTAGACAACAAGGTTTAGCAAACCAT
1 C-CCCTAATATCATAC-AAAACCATTCAGCAAAAAAATATCAAACAACAAGGTTTAGCAAACCAT
5352278 AATATTTAAG
Statistics
Matches: 120, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
74 51 0.43
75 1 0.01
77 1 0.01
79 7 0.06
80 57 0.47
81 3 0.03
ACGTcount: A:0.45, C:0.23, G:0.07, T:0.24
Consensus pattern (79 bp):
CCCCTAATATCATACAAAACCATTCAGCAAAAAAATATCAAACAACAAGGTTTAGCAAACCATTC
AGCATATATTCAAC
Found at i:5362271 original size:134 final size:134
Alignment explanation
Indices: 5362126--5362498 Score: 421
Period size: 134 Copynumber: 2.8 Consensus size: 134
5362116 AAAGCAACAA
* * * * ** *
5362126 CATTTTTCTCATAAAAACGTCACTAAATTAACGGTGTCTCAAAGATACAAATGCTGCTAATATGG
1 CATTTTTCTCATAAAAATGCCACTAAATTAGCAGCATCTCAAAGATACAAATGCTGCTAATATAG
* * * * * *
5362191 AGGCATTTTCATATATAAATGCCTCTAAAGTAATGGTATTTTCATTTATAAACACCACCAAA-AC
66 AGGCATTTTCAAATACAAACGCCTCTAAAGTAACGGTATTTTCAGTTACAAACACCACCAAAGA-
*
5362255 AATGG
130 AAAGG
* *
5362260 CATTTTCCTCATAAAAATGCCACTAAATTAGCAGCATCTCAAAGATACAAATGCCGCTAGA-ATA
1 CATTTTTCTCATAAAAATGCCACTAAATTAGCAGCATCTCAAAGATACAAATGCTGCTA-ATATA
* * * * *** **
5362324 GAAGCATTTTCAGATACATACGCCTC-AAAGTAGCAACATTTTCAGTTACAAATGCCACCAAAGA
65 GAGGCATTTTCAAATACAAACGCCTCTAAAGTAACGGTATTTTCAGTTACAAACACCACCAAAGA
5362388 AAAGG
130 AAAGG
* * *
5362393 CATTTTTCTCAT-AAAATGCCACTATATTAGCAGCACCTCAAAGATACAAATACTGCTAATATAG
1 CATTTTTCTCATAAAAATGCCACTAAATTAGCAGCATCTCAAAGATACAAATGCTGCTAATATAG
** *
5362457 AGGCGGTTTCAAATACAAACGCCTCTAAAGTAACGGTGTTTT
66 AGGCATTTTCAAATACAAACGCCTCTAAAGTAACGGTATTTT
5362499 AAACATAGAA
Statistics
Matches: 196, Mismatches: 39, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
131 1 0.01
132 66 0.34
133 53 0.27
134 75 0.38
135 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.28
Consensus pattern (134 bp):
CATTTTTCTCATAAAAATGCCACTAAATTAGCAGCATCTCAAAGATACAAATGCTGCTAATATAG
AGGCATTTTCAAATACAAACGCCTCTAAAGTAACGGTATTTTCAGTTACAAACACCACCAAAGAA
AAGG
Done.