Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 49 of 213
Found at i:13254711 original size:44 final size:44
Alignment explanation
Indices: 13254663--13254844 Score: 219
Period size: 44 Copynumber: 4.2 Consensus size: 44
13254653 CTGTTGCTTG
*
13254663 GGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGATCA
1 GGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCA
* ** * *
13254707 GGGAGATAGGA-CCTACAATCTTCAATTTATTCCACTACT-TCCTA
1 GGGAGATAGGATTC-ACAATCTTCAACCTATTCCACTGCTGACC-A
* * * *
13254751 GGG-GATA-GAATCTCAATCGTCAACCTATTCCACTGTTGACCA
1 GGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCA
*
13254793 GGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACCA
1 GGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCA
13254837 GGGAGATA
1 GGGAGATA
13254845 AGGCTAGAGT
Statistics
Matches: 113, Mismatches: 19, Indels: 12
0.78 0.13 0.08
Matches are distributed among these distances:
42 25 0.22
43 13 0.12
44 75 0.66
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (44 bp):
GGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCA
Found at i:13255042 original size:86 final size:85
Alignment explanation
Indices: 13254857--13255120 Score: 392
Period size: 85 Copynumber: 3.1 Consensus size: 85
13254847 GCTAGAGTCA
* * * *
13254857 TCGATCTGCTTCGCTGTCGGTACAGGAATGCAAGATCTGC-ATTTTAACCTACTCCGCTGCAACC
1 TCGATCTGCTTCGCTGTCGGT-CAGGAAGGCAAGAGCTGCTATTTTTACCTGCTCCGCTGCAACC
*
13254921 CAGGAGGTAAGGCTGGTGTCT
65 CAGGAGGCAAGGCTGGTGTCT
*
13254942 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGAGCTGCTATTTTTTGCCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGT-CAGGAAGGCAAGAGCTGCTA-TTTTTACCTGCTCCGCTGCAAC
13255007 CCAGGA-GCAAGGCTGGTGTCT
64 CCAGGAGGCAAGGCTGGTGTCT
* *
13255028 TCGATTTGCTTCGCTGTC-GTCAGG-AGGCAAGAGCTGCTATTTTTACCTGCTCCGCTGTAACCC
1 TCGATCTGCTTCGCTGTCGGTCAGGAAGGCAAGAGCTGCTATTTTTACCTGCTCCGCTGCAACCC
13255091 AGGGAGGCAAGGCTGGTGTCT
66 A-GGAGGCAAGGCTGGTGTCT
13255112 TCGATCTGC
1 TCGATCTGC
13255121 CCTTCAGAAG
Statistics
Matches: 164, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
82 23 0.14
83 18 0.11
84 27 0.16
85 39 0.24
86 32 0.20
87 25 0.15
ACGTcount: A:0.18, C:0.26, G:0.28, T:0.28
Consensus pattern (85 bp):
TCGATCTGCTTCGCTGTCGGTCAGGAAGGCAAGAGCTGCTATTTTTACCTGCTCCGCTGCAACCC
AGGAGGCAAGGCTGGTGTCT
Found at i:13255084 original size:41 final size:42
Alignment explanation
Indices: 13254947--13255085 Score: 97
Period size: 41 Copynumber: 3.3 Consensus size: 42
13254937 TGTCTTCGAT
* * *
13254947 CTGCTTCGCTGTCGGTGCAGGAAGGCAAGAGCTGCTATTTTTTGC
1 CTGCTCCGCTGTCAGT-CAGG-AGGCAAGAGCTGCTA-TTTTTAC
** * * ** *
13254992 CTGCTCCGCTG-CAACCCAGGA-GCAAG-GCTGGTGTCTTCGAT
1 CTGCTCCGCTGTC-AGTCAGGAGGCAAGAGCTGCTAT-TTTTAC
* *
13255033 TTGCTTCGCTGTC-GTCAGGAGGCAAGAGCTGCTATTTTTAC
1 CTGCTCCGCTGTCAGTCAGGAGGCAAGAGCTGCTATTTTTAC
13255074 CTGCTCCGCTGT
1 CTGCTCCGCTGT
13255086 AACCCAGGGA
Statistics
Matches: 68, Mismatches: 21, Indels: 14
0.66 0.20 0.14
Matches are distributed among these distances:
40 6 0.09
41 34 0.50
42 12 0.18
43 1 0.01
44 5 0.07
45 10 0.15
ACGTcount: A:0.15, C:0.27, G:0.29, T:0.29
Consensus pattern (42 bp):
CTGCTCCGCTGTCAGTCAGGAGGCAAGAGCTGCTATTTTTAC
Found at i:13257035 original size:13 final size:14
Alignment explanation
Indices: 13257004--13257037 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
13256994 GGTAGAGTTT
*
13257004 TTTTTTGCGCCATC
1 TTTTTTACGCCATC
13257018 TTTTTTACGCCATC
1 TTTTTTACGCCATC
13257032 TTTTTT
1 TTTTTT
13257038 TGGGCAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.09, C:0.24, G:0.09, T:0.59
Consensus pattern (14 bp):
TTTTTTACGCCATC
Found at i:13260645 original size:30 final size:28
Alignment explanation
Indices: 13260587--13260664 Score: 79
Period size: 30 Copynumber: 2.8 Consensus size: 28
13260577 AAAAGGGTAC
* * *
13260587 AAAA-TATATACATGTACATATATAAAA
1 AAAATTATATACATATATATAGATAAAA
13260614 AAAATTATATACATATATATAGATTATAAA
1 AAAATTATATACATATATATAGA-TA-AAA
*
13260644 AAAGATAAT-TACATATATATA
1 AAA-ATTATATACATATATATA
13260665 TAAACAAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
27 4 0.09
28 15 0.35
29 2 0.05
30 18 0.42
31 4 0.09
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.33
Consensus pattern (28 bp):
AAAATTATATACATATATATAGATAAAA
Found at i:13260853 original size:17 final size:17
Alignment explanation
Indices: 13260831--13260874 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
13260821 TAGGAAATAA
13260831 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
13260848 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
13260865 -ATATGTATAT
1 AAAATGTATAT
13260875 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:13261007 original size:3 final size:3
Alignment explanation
Indices: 13261001--13261040 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
13260991 TATATAGTAG
*
13261001 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
13261041 TGTACAAGCC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:13263578 original size:22 final size:22
Alignment explanation
Indices: 13263553--13263621 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
13263543 TACAAATTAA
* *
13263553 ATCTTTAAGATTACAAAATCAT
1 ATCTTTAAGATTGCAATATCAT
13263575 ATCTTCTAAGATTGC-ATATCAT
1 ATCTT-TAAGATTGCAATATCAT
13263597 ATC--TAAGATTGCATATATCAT
1 ATCTTTAAGATTGCA-ATATCAT
13263618 ATCT
1 ATCT
13263622 AAGATCATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 9 0.22
21 10 0.24
22 14 0.34
23 8 0.20
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (22 bp):
ATCTTTAAGATTGCAATATCAT
Found at i:13263603 original size:19 final size:20
Alignment explanation
Indices: 13263579--13263626 Score: 80
Period size: 21 Copynumber: 2.4 Consensus size: 20
13263569 AATCATATCT
13263579 TCTAAGATTGC-ATATCATA
1 TCTAAGATTGCAATATCATA
13263598 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCA-ATATCATA
13263619 TCTAAGAT
1 TCTAAGAT
13263627 CATATCTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 11 0.41
21 16 0.59
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (20 bp):
TCTAAGATTGCAATATCATA
Found at i:13263646 original size:14 final size:12
Alignment explanation
Indices: 13263613--13263638 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13263603 GATTGCATAT
13263613 ATCATATCTAAG
1 ATCATATCTAAG
13263625 ATCATATCTAAG
1 ATCATATCTAAG
13263637 AT
1 AT
13263639 TGCATATCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (12 bp):
ATCATATCTAAG
Found at i:13270163 original size:24 final size:24
Alignment explanation
Indices: 13270136--13270187 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
13270126 TTAGTAAGTC
*
13270136 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
13270160 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
13270184 AAAT
1 AAAT
13270188 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:13272133 original size:24 final size:24
Alignment explanation
Indices: 13272106--13272157 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
13272096 TTAGTAAGTC
*
13272106 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
13272130 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
13272154 AAAT
1 AAAT
13272158 CTTCTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:13278066 original size:11 final size:11
Alignment explanation
Indices: 13278052--13278121 Score: 60
Period size: 11 Copynumber: 6.6 Consensus size: 11
13278042 TTTTTATTTT
13278052 TATTTTTAAAA
1 TATTTTTAAAA
13278063 TATTTTTAAAA
1 TATTTTTAAAA
**
13278074 TACTTTTTTTAA
1 TA-TTTTTAAAA
13278086 T-TTTTT----
1 TATTTTTAAAA
*
13278092 TATTTTGAAAA
1 TATTTTTAAAA
13278103 TATTTTTAAAA
1 TATTTTTAAAA
13278114 TACTTTTT
1 TA-TTTTT
13278122 TATTTTTTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
6 1 0.02
7 4 0.08
10 5 0.10
11 25 0.52
12 13 0.27
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:13278075 original size:40 final size:39
Alignment explanation
Indices: 13278048--13278131 Score: 143
Period size: 40 Copynumber: 2.2 Consensus size: 39
13278038 TTTATTTTTA
*
13278048 TTTTTATTTTTAAAATATTTTTAAAATACTTTTTTTAATT
1 TTTTTATTTTGAAAATATTTTTAAAATACTTTTTTT-ATT
13278088 TTTTTATTTTGAAAATATTTTTAAAATAC-TTTTTTATT
1 TTTTTATTTTGAAAATATTTTTAAAATACTTTTTTTATT
13278126 TTTTTA
1 TTTTTA
13278132 AAAGTTTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
38 9 0.21
39 6 0.14
40 28 0.65
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.65
Consensus pattern (39 bp):
TTTTTATTTTGAAAATATTTTTAAAATACTTTTTTTATT
Found at i:13278095 original size:29 final size:29
Alignment explanation
Indices: 13278063--13278128 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
13278053 ATTTTTAAAA
**
13278063 TATTTTTAAAATACTTTTTTTAAT-TTTTT
1 TATTTTTAAAATA-TTTTTAAAATATTTTT
*
13278092 TATTTTGAAAATATTTTTAAAATACTTTTT
1 TATTTTTAAAATATTTTTAAAATA-TTTTT
13278122 TATTTTT
1 TATTTTT
13278129 TTAAAAGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 8 0.26
29 12 0.39
30 11 0.35
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (29 bp):
TATTTTTAAAATATTTTTAAAATATTTTT
Found at i:13282291 original size:29 final size:30
Alignment explanation
Indices: 13282244--13282333 Score: 80
Period size: 29 Copynumber: 3.0 Consensus size: 30
13282234 AAACTTATTT
* *
13282244 ACTTTC-CCCAAAAATTTTTACTCCCTCCC
1 ACTTTCTCCCCAAAACTTTTACTCCCTCCC
*
13282273 ACTTTCTCCCCAAAA-TTTTACT-TC-CCC
1 ACTTTCTCCCCAAAACTTTTACTCCCTCCC
* *
13282300 ATTTTTTTCCCCCAAAACTTTTACTCTCCTCCC
1 A-CTTTCT-CCCCAAAACTTTTACTC-CCTCCC
13282333 A
1 A
13282334 TCCCATCCCC
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
27 4 0.08
28 5 0.10
29 21 0.43
30 14 0.29
32 1 0.02
33 4 0.08
ACGTcount: A:0.22, C:0.40, G:0.00, T:0.38
Consensus pattern (30 bp):
ACTTTCTCCCCAAAACTTTTACTCCCTCCC
Found at i:13283960 original size:12 final size:12
Alignment explanation
Indices: 13283932--13284025 Score: 52
Period size: 12 Copynumber: 7.8 Consensus size: 12
13283922 CACGAAAAAT
*
13283932 ATAATACTAATAG
1 ATAATAATAA-AG
13283945 -TAATAATAAAG
1 ATAATAATAAAG
13283956 ATAATAATAATAG
1 ATAATAATAA-AG
*
13283969 -TAATAATGAATG
1 ATAATAAT-AAAG
* * * *
13283981 TTCATATTAATAA
1 ATAATAATAA-AG
*
13283994 ATAA-AA-AAAC
1 ATAATAATAAAG
13284004 ATAATAATAAAG
1 ATAATAATAAAG
*
13284016 TTAATAATAA
1 ATAATAATAA
13284026 TAATGAGTAA
Statistics
Matches: 62, Mismatches: 12, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
10 5 0.08
11 6 0.10
12 40 0.65
13 11 0.18
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (12 bp):
ATAATAATAAAG
Found at i:13284299 original size:3 final size:3
Alignment explanation
Indices: 13284291--13284355 Score: 103
Period size: 3 Copynumber: 21.7 Consensus size: 3
13284281 TAAAACAAAT
* * *
13284291 TAA TAA TAA TAA TAA TAG TAT TAG TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13284339 TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
13284356 GGACAAAAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:13286067 original size:4 final size:4
Alignment explanation
Indices: 13286058--13286093 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
13286048 AATAGACATG
13286058 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
13286094 ATGAGTAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:13286325 original size:16 final size:17
Alignment explanation
Indices: 13286304--13286346 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
13286294 AAATTATAAA
* *
13286304 ATATATGTA-GATGTAT
1 ATATATGTATAATATAT
13286320 ATATAT-TATAATATAT
1 ATATATGTATAATATAT
13286336 ATATATGTATA
1 ATATATGTATA
13286347 CATACGGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 2 0.09
16 17 0.74
17 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (17 bp):
ATATATGTATAATATAT
Found at i:13286533 original size:3 final size:3
Alignment explanation
Indices: 13286527--13286568 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
13286517 TAATTAATCG
13286527 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13286569 CAAAAATGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:13287686 original size:20 final size:21
Alignment explanation
Indices: 13287645--13287686 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
13287635 TCTTTTGTGA
*
13287645 TTTGGGCTATTAGGGTTTGTT
1 TTTGGGCTATTAGGGTTGGTT
13287666 TTTGGG-TATT-GGGCTTGGTT
1 TTTGGGCTATTAGGG-TTGGTT
13287686 T
1 T
13287687 AATTGTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 3 0.16
20 10 0.53
21 6 0.32
ACGTcount: A:0.07, C:0.05, G:0.36, T:0.52
Consensus pattern (21 bp):
TTTGGGCTATTAGGGTTGGTT
Found at i:13289006 original size:21 final size:21
Alignment explanation
Indices: 13288982--13289047 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
13288972 AAGAATGACA
13288982 AAATTGGCATCTCTAGGACCT
1 AAATTGGCATCTCTAGGACCT
* ** ***
13289003 AAA-TGAGCAGC-AAAGGAGGG
1 AAATTG-GCATCTCTAGGACCT
13289023 AAATTGGCATCTCTAGGACCT
1 AAATTGGCATCTCTAGGACCT
13289044 AAAT
1 AAAT
13289048 GAGCAGCAAA
Statistics
Matches: 30, Mismatches: 12, Indels: 6
0.62 0.25 0.12
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.21
Consensus pattern (21 bp):
AAATTGGCATCTCTAGGACCT
Found at i:13289039 original size:41 final size:41
Alignment explanation
Indices: 13288982--13289064 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
13288972 AAGAATGACA
13288982 AAATTGGCATCTCTAGGACCTAAATGAGCAGCAAAGGAGGG
1 AAATTGGCATCTCTAGGACCTAAATGAGCAGCAAAGGAGGG
13289023 AAATTGGCATCTCTAGGACCTAAATGAGCAGCAAAGGAGGG
1 AAATTGGCATCTCTAGGACCTAAATGAGCAGCAAAGGAGGG
13289064 A
1 A
13289065 GTTTCCAAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.17
Consensus pattern (41 bp):
AAATTGGCATCTCTAGGACCTAAATGAGCAGCAAAGGAGGG
Found at i:13290300 original size:89 final size:89
Alignment explanation
Indices: 13290110--13290364 Score: 313
Period size: 88 Copynumber: 2.8 Consensus size: 89
13290100 TTAATGGTGT
* * * * *
13290110 AAAA-AACTCTCAAACTTTTTCAAAAAAAGCAATTAAGCCC-TGCCTTTTTTTTTTCACTTACTT
1 AAAAGAACCCTCAAACTTTTTAAAAAAAAGCAATTAAGCCCTTG-C-TTTTTTTTGCACTCAATT
* *
13290173 GGGCACTTGAAATTTCACAATACATA
64 GGGCACTTGAACTTTCAAAATACATA
*
13290199 AAAAG-CCCCTCAAACTTTTT-AAAAAAAGCAATTAAGCCCTTGCATTTTTTTTGCACTCAATTG
1 AAAAGAACCCTCAAACTTTTTAAAAAAAAGCAATTAAGCCCTTGC-TTTTTTTTGCACTCAATTG
13290262 GGCACTTGAACTTTCAAAATACATA
65 GGCACTTGAACTTTCAAAATACATA
* *
13290287 AAAAGAACCCTCAAACTTTTTCAAAAAAAAAAGCAATTAAG-CCTCTACCTTTTTTTGCACTCAA
1 AAAAGAACCCTCAAACTTTTT---AAAAAAAAGCAATTAAGCCCT-TGCTTTTTTTTGCACTCAA
*
13290351 TTGGGTACTTGAAC
62 TTGGGCACTTGAAC
13290365 CGCCCATAGT
Statistics
Matches: 146, Mismatches: 12, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
88 64 0.44
89 33 0.23
92 31 0.21
93 18 0.12
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.32
Consensus pattern (89 bp):
AAAAGAACCCTCAAACTTTTTAAAAAAAAGCAATTAAGCCCTTGCTTTTTTTTGCACTCAATTGG
GCACTTGAACTTTCAAAATACATA
Found at i:13290513 original size:29 final size:28
Alignment explanation
Indices: 13290425--13290507 Score: 89
Period size: 28 Copynumber: 3.0 Consensus size: 28
13290415 AAATGTGGCA
* *
13290425 AAAAAATGATAAAAA-A-TAAAAATTAAT
1 AAAAAAT-ATAAAAATATTAAATATTAAC
**
13290452 AAAAGTTATAAAAATATTAAATATTAAC
1 AAAAAATATAAAAATATTAAATATTAAC
*
13290480 AAAAAATATAAAAATATTTAAATTTTAA
1 AAAAAATATAAAAATA-TTAAATATTAA
13290508 TTAAAATTAG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
26 7 0.15
27 6 0.13
28 23 0.50
29 10 0.22
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.30
Consensus pattern (28 bp):
AAAAAATATAAAAATATTAAATATTAAC
Found at i:13290521 original size:29 final size:27
Alignment explanation
Indices: 13290427--13290527 Score: 89
Period size: 29 Copynumber: 3.7 Consensus size: 27
13290417 ATGTGGCAAA
* *
13290427 AAAATGATAAAAA-A-TAAAAATTAAT
1 AAAATTATAAAAATATTAAATATTAAT
*
13290452 AAAAGTTATAAAAATATTAAATATTAACA
1 AAAA-TTATAAAAATATTAAATATTAA-T
* *
13290481 AAAAATATAAAAATATTTAAATTTTAATT
1 AAAATTATAAAAATA-TTAAATATTAA-T
* *
13290510 AAAATTAGAAAAAAATTA
1 AAAATTATAAAAATATTA
13290528 CAAAAATCGA
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
25 4 0.07
26 8 0.13
27 1 0.02
28 22 0.36
29 26 0.43
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (27 bp):
AAAATTATAAAAATATTAAATATTAAT
Found at i:13290539 original size:19 final size:19
Alignment explanation
Indices: 13290517--13290587 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
13290507 ATTAAAATTA
*
13290517 GAAAAAAATTACAAAAATC
1 GAAAAAAATTATAAAAATC
*
13290536 GAAAAAAA-TATAAAAATT
1 GAAAAAAATTATAAAAATC
* **
13290554 GTAAAATTTTATAAAAATC
1 GAAAAAAATTATAAAAATC
*
13290573 GTAAAAAA-TATAAAA
1 GAAAAAAATTATAAAA
13290588 TTTTATAAAG
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
18 20 0.47
19 23 0.53
ACGTcount: A:0.66, C:0.04, G:0.06, T:0.24
Consensus pattern (19 bp):
GAAAAAAATTATAAAAATC
Found at i:13290550 original size:37 final size:36
Alignment explanation
Indices: 13290509--13290589 Score: 99
Period size: 37 Copynumber: 2.2 Consensus size: 36
13290499 AAATTTTAAT
13290509 TAAAATTAGAAAAAAATTACAAAAATCGAAAAAAATA
1 TAAAATT-GAAAAAAATTACAAAAATCGAAAAAAATA
* ** * *
13290546 TAAAAATTGTAAAATTTTATAAAAATCGTAAAAAATA
1 T-AAAATTGAAAAAAATTACAAAAATCGAAAAAAATA
13290583 TAAAATT
1 TAAAATT
13290590 TTATAAAGTC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
36 6 0.16
37 26 0.68
38 6 0.16
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.27
Consensus pattern (36 bp):
TAAAATTGAAAAAAATTACAAAAATCGAAAAAAATA
Found at i:13290608 original size:28 final size:29
Alignment explanation
Indices: 13290539--13290616 Score: 92
Period size: 28 Copynumber: 2.8 Consensus size: 29
13290529 AAAAATCGAA
*
13290539 AAAAAT-AT-AAAAATTGTAAAATTTTAT
1 AAAAATCATAAAAAATTATAAAATTTTAT
*
13290566 AAAAATCGTAAAAAA-TATAAAATTTTAT
1 AAAAATCATAAAAAATTATAAAATTTTAT
*
13290594 -AAAGTCATAAGAAAATTATAAAA
1 AAAAATCATAA-AAAATTATAAAA
13290617 AATGTAAAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
27 14 0.33
28 17 0.40
29 12 0.28
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (29 bp):
AAAAATCATAAAAAATTATAAAATTTTAT
Found at i:13290872 original size:19 final size:19
Alignment explanation
Indices: 13290848--13290959 Score: 86
Period size: 19 Copynumber: 5.8 Consensus size: 19
13290838 TTTATAATTT
*
13290848 TTTTATGATTTTTATAAAA
1 TTTTATAATTTTTATAAAA
13290867 TTTTATAATTTTT-TACAAA
1 TTTTATAATTTTTATA-AAA
* * **
13290886 TTGTTCTAATTTTTTTCTAA
1 TT-TTATAATTTTTATAAAA
*
13290906 TTTT-TATATTTTTATTATAA
1 TTTTATA-ATTTTTA-TAAAA
* *
13290926 TTTAATAATTGTTAT-AAA
1 TTTTATAATTTTTATAAAA
13290944 TTTTATTAATTTTTAT
1 TTTTA-TAATTTTTAT
13290960 TTTTTATAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
18 10 0.13
19 35 0.47
20 27 0.36
21 3 0.04
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTATAATTTTTATAAAA
Found at i:13290929 original size:10 final size:9
Alignment explanation
Indices: 13290847--13290973 Score: 71
Period size: 9 Copynumber: 13.6 Consensus size: 9
13290837 CTTTATAATT
*
13290847 TTTTTATGA
1 TTTTTATAA
13290856 TTTTTATAAA
1 TTTTTAT-AA
*
13290866 ATTTTATAA
1 TTTTTATAA
*
13290875 TTTTTTACAAA
1 -TTTTTA-TAA
* *
13290886 TTGTTCTAA
1 TTTTTATAA
*
13290895 TTTTTTTCTAA
1 --TTTTTATAA
13290906 TTTTTAT-A
1 TTTTTATAA
13290914 TTTTTATTATA
1 TTTTTA-TA-A
* *
13290925 ATTTAATAA
1 TTTTTATAA
*
13290934 TTGTTATAA
1 TTTTTATAA
*
13290943 ATTTTATTAA
1 TTTTTA-TAA
13290953 TTTTTAT--
1 TTTTTATAA
13290960 TTTTTATAA
1 TTTTTATAA
13290969 TTTTT
1 TTTTT
13290974 TGCCACATGT
Statistics
Matches: 90, Mismatches: 17, Indels: 22
0.70 0.13 0.17
Matches are distributed among these distances:
7 7 0.08
8 7 0.08
9 35 0.39
10 26 0.29
11 15 0.17
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTTTATAA
Found at i:13291260 original size:91 final size:95
Alignment explanation
Indices: 13291073--13291269 Score: 255
Period size: 91 Copynumber: 2.1 Consensus size: 95
13291063 TAATGGTCAA
13291073 AAGGCCTTTTTGATGCATTTGATAATTCAAGTAACCAATTGAGTGAAAAATAAAAATAAAAATCA
1 AAGGCCTTTTTGATGCATTTGATAATTCAAGTAACCAATTGAGTGAAAAATAAAAATAAAAA-CA
*
13291138 GGGACTTAATTGCTTTTCTTGAAAAAGTTTG
65 GGGACTTAATTGCTTTTCTTAAAAAAGTTTG
* * **
13291169 AAGGCCTTTTTGATGCATTTTGA-AAGTTCAAGTACCCAATTGAGTG-CAAA-AAAAA-AAGCA-
1 AAGGCCTTTTTGATGCA-TTTGATAA-TTCAAGTAACCAATTGAGTGAAAAATAAAAATAAAAAC
*
13291229 AGGG-CTTAATTGCTTTTGTTAAAAAAGTTTG
64 AGGGACTTAATTGCTTTTCTTAAAAAAGTTTG
*
13291260 -AGGGCTTTTT
1 AAGGCCTTTTT
13291270 ACACAGTCAA
Statistics
Matches: 92, Mismatches: 7, Indels: 10
0.84 0.06 0.09
Matches are distributed among these distances:
90 9 0.10
91 25 0.27
92 4 0.04
94 3 0.03
95 5 0.05
96 22 0.24
97 24 0.26
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.34
Consensus pattern (95 bp):
AAGGCCTTTTTGATGCATTTGATAATTCAAGTAACCAATTGAGTGAAAAATAAAAATAAAAACAG
GGACTTAATTGCTTTTCTTAAAAAAGTTTG
Found at i:13298048 original size:21 final size:21
Alignment explanation
Indices: 13298004--13298049 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
13297994 TAGATTGGTT
* *
13298004 AATTGTATTAATCATAATTGA
1 AATTGTATGAATCATAATTAA
13298025 AATTGT-TGAATCATAATTCAA
1 AATTGTATGAATCATAATT-AA
13298046 AATT
1 AATT
13298050 ATATAGCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (21 bp):
AATTGTATGAATCATAATTAA
Found at i:13304081 original size:8 final size:7
Alignment explanation
Indices: 13304054--13304079 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
13304044 GTTGAGTAAG
13304054 AAAAATT
1 AAAAATT
13304061 AAAAATT
1 AAAAATT
13304068 AAAAATT
1 AAAAATT
13304075 AAAAA
1 AAAAA
13304080 ATCGACTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAAATT
Found at i:13315737 original size:10 final size:8
Alignment explanation
Indices: 13315688--13315718 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
13315678 CGTTGGATTT
13315688 ACATCATTA
1 ACAT-ATTA
13315697 ACATATTA
1 ACATATTA
13315705 ACATATTA
1 ACATATTA
13315713 ACATAT
1 ACATAT
13315719 AGATCAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.35
Consensus pattern (8 bp):
ACATATTA
Found at i:13324485 original size:28 final size:28
Alignment explanation
Indices: 13324449--13324502 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
13324439 GTGATAGTAT
* *
13324449 AGTGAGGGCCTTAACCCAATTCAGTAGC
1 AGTGAGGGCCTCAACCCAATACAGTAGC
*
13324477 AGTGTGGGCCTCAACCCAATACAGTA
1 AGTGAGGGCCTCAACCCAATACAGTA
13324503 TCATTACAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.20
Consensus pattern (28 bp):
AGTGAGGGCCTCAACCCAATACAGTAGC
Found at i:13324909 original size:26 final size:27
Alignment explanation
Indices: 13324855--13325071 Score: 282
Period size: 27 Copynumber: 8.1 Consensus size: 27
13324845 CAGTCATATC
*
13324855 ATTTTACCCTTAGAGGGTATTACGGTA
1 ATTTTACCCTTAGAGGGTATTTCGGTA
*
13324882 ATTTTACCCTTAGA-GGTATTTCGATA
1 ATTTTACCCTTAGAGGGTATTTCGGTA
*
13324908 ATTTTACCCTTAGAGGGTATTACGGTA
1 ATTTTACCCTTAGAGGGTATTTCGGTA
*
13324935 A-GTTACCCTTCA-AGGGTATTTCGGTA
1 ATTTTACCCTT-AGAGGGTATTTCGGTA
* *
13324961 ATTTTACCCTTTGAAGGTATTTCGGTA
1 ATTTTACCCTTAGAGGGTATTTCGGTA
* *
13324988 A-TTTACCCTTCGAGGGTATTTCAGTA
1 ATTTTACCCTTAGAGGGTATTTCGGTA
* *
13325014 ATTTTTCCCTTCA-AGGGTATTTTGGTA
1 ATTTTACCCTT-AGAGGGTATTTCGGTA
*
13325041 ATTTTACCCTTCGAGGGTATTTCGGTA
1 ATTTTACCCTTAGAGGGTATTTCGGTA
13325068 ATTT
1 ATTT
13325072 CCTCATGAAT
Statistics
Matches: 164, Mismatches: 19, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
26 69 0.42
27 95 0.58
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (27 bp):
ATTTTACCCTTAGAGGGTATTTCGGTA
Found at i:13324935 original size:53 final size:53
Alignment explanation
Indices: 13324855--13325071 Score: 262
Period size: 53 Copynumber: 4.1 Consensus size: 53
13324845 CAGTCATATC
13324855 ATTTTACCCTTAGAGGGTATTACGGTAATTTTACCCTTAGA-GGTATTTCGATA
1 ATTTTACCCTTAGAGGGTATTACGGTAA-TTTACCCTTAGAGGGTATTTCGATA
* *
13324908 ATTTTACCCTTAGAGGGTATTACGGTAAGTTACCCTTCA-AGGGTATTTCGGTA
1 ATTTTACCCTTAGAGGGTATTACGGTAATTTACCCTT-AGAGGGTATTTCGATA
* * * *
13324961 ATTTTACCCTTTGAAGGTATTTCGGTAATTTACCCTTCGAGGGTATTTC-AGTA
1 ATTTTACCCTTAGAGGGTATTACGGTAATTTACCCTTAGAGGGTATTTCGA-TA
* ** * *
13325014 ATTTTTCCCTTCA-AGGGTATTTTGGTAATTTTACCCTTCGAGGGTATTTCGGTA
1 ATTTTACCCTT-AGAGGGTATTACGGTAA-TTTACCCTTAGAGGGTATTTCGATA
13325068 ATTT
1 ATTT
13325072 CCTCATGAAT
Statistics
Matches: 144, Mismatches: 13, Indels: 13
0.85 0.08 0.08
Matches are distributed among these distances:
52 9 0.06
53 108 0.75
54 27 0.19
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (53 bp):
ATTTTACCCTTAGAGGGTATTACGGTAATTTACCCTTAGAGGGTATTTCGATA
Found at i:13354373 original size:13 final size:13
Alignment explanation
Indices: 13354355--13354379 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13354345 AGAACCAAGA
13354355 AAACTTTCATTAC
1 AAACTTTCATTAC
13354368 AAACTTTCATTA
1 AAACTTTCATTA
13354380 TTTGGTTCTT
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:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (13 bp):
AAACTTTCATTAC
Found at i:13361408 original size:19 final size:19
Alignment explanation
Indices: 13361384--13361422 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
13361374 TTAAAAAGTT
13361384 AGTTCATAATCGCAAATAA
1 AGTTCATAATCGCAAATAA
13361403 AGTTCATAATCGCAAATAA
1 AGTTCATAATCGCAAATAA
13361422 A
1 A
13361423 AACATTACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.15, G:0.10, T:0.26
Consensus pattern (19 bp):
AGTTCATAATCGCAAATAA
Found at i:13362918 original size:103 final size:103
Alignment explanation
Indices: 13362729--13362918 Score: 242
Period size: 103 Copynumber: 1.8 Consensus size: 103
13362719 GACTTTAGTA
* * * *
13362729 TGGTGGAGGGATGATATAATACATGATATGTAACAGTTCCTACGAGCTTTGCACTATGGTGCACT
1 TGGTGGAGGGATGATACAATACATGATATGTAACAGTGCCTAAGAGCTTTGCACTACGGTGCACT
**
13362794 AGTGTGGTGTAGTTATTGCTCTTTTGAGCTATTTGATG
66 AGTGTGGTGTAGTTAACGCTCTTTTGAGCTATTTGATG
* **
13362832 TGGTGGAGGGATGATACATTACATGATATG-ATATTGTGCCTATAG-GCTTTGCACTACGGTGC-
1 TGGTGGAGGGATGATACAATACATGATATGTA-ACAGTGCCTA-AGAGCTTTGCACTACGGTGCA
*
13362894 CTCGGTGTGGTGTAGTTAACGCTCT
64 CT-AGTGTGGTGTAGTTAACGCTCT
13362919 GTCGTGCAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
102 3 0.04
103 70 0.95
104 1 0.01
ACGTcount: A:0.22, C:0.14, G:0.28, T:0.35
Consensus pattern (103 bp):
TGGTGGAGGGATGATACAATACATGATATGTAACAGTGCCTAAGAGCTTTGCACTACGGTGCACT
AGTGTGGTGTAGTTAACGCTCTTTTGAGCTATTTGATG
Found at i:13375686 original size:2 final size:2
Alignment explanation
Indices: 13375679--13375712 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
13375669 CTGTTTATTC
* *
13375679 AT AT AT AT AT AT TT AT AT AT AT AT AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13375713 TATTAGTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13379536 original size:27 final size:28
Alignment explanation
Indices: 13379475--13379537 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
13379465 ATTTATGTTC
* * *
13379475 ATATTTTTTTTTTGTCAATTTGGCTATT
1 ATATTTTTTTTATCTAAATTTGGCTATT
* *
13379503 ATGTTTTTTTTATCTAAATTTGTCTATT
1 ATATTTTTTTTATCTAAATTTGGCTATT
13379531 A-ATTTTT
1 ATATTTTT
13379538 CGGAAAGAGT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.21, C:0.06, G:0.08, T:0.65
Consensus pattern (28 bp):
ATATTTTTTTTATCTAAATTTGGCTATT
Found at i:13380381 original size:13 final size:13
Alignment explanation
Indices: 13380363--13380387 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13380353 CCTTCTAAAA
13380363 TTAATTTTTTAAT
1 TTAATTTTTTAAT
13380376 TTAATTTTTTAA
1 TTAATTTTTTAA
13380388 AATAAAATAT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTAATTTTTTAAT
Found at i:13390136 original size:20 final size:20
Alignment explanation
Indices: 13390111--13390151 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
13390101 GCAAATGTTC
13390111 TTTCATTCTTT-ACGATTTTT
1 TTTCATTCTTTCA-GATTTTT
13390131 TTTCATTCTTTCAGATTTTT
1 TTTCATTCTTTCAGATTTTT
13390151 T
1 T
13390152 CTGCCAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.15, C:0.15, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTCATTCTTTCAGATTTTT
Found at i:13392454 original size:45 final size:45
Alignment explanation
Indices: 13392319--13392454 Score: 123
Period size: 45 Copynumber: 3.1 Consensus size: 45
13392309 GATCAGTGAT
* *
13392319 GATAACAGATCTTGCTTTCCTGCATCGACAGTGAAGCAGATCGAA
1 GATAACAGATCTTGCCTTCCTGCATAGACAGTGAAGCAGATCGAA
* * * * * ** * * *
13392364 GACACCA-ACCTCGCCTCCCT-CGGAGACAGTGGAGCAGGTTGAA
1 GATAACAGATCTTGCCTTCCTGCATAGACAGTGAAGCAGATCGAA
* * *
13392407 GATAGCAGATCTTGCCTTCCTGCATAGACAGCGAAGCAGATCAAA
1 GATAACAGATCTTGCCTTCCTGCATAGACAGTGAAGCAGATCGAA
13392452 GAT
1 GAT
13392455 GGCATATTTT
Statistics
Matches: 65, Mismatches: 24, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
43 22 0.34
44 19 0.29
45 24 0.37
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.20
Consensus pattern (45 bp):
GATAACAGATCTTGCCTTCCTGCATAGACAGTGAAGCAGATCGAA
Found at i:13392620 original size:132 final size:132
Alignment explanation
Indices: 13392441--13392905 Score: 743
Period size: 132 Copynumber: 3.5 Consensus size: 132
13392431 TAGACAGCGA
* *
13392441 AGCAGATCAAAGATGGCATATTTTACCTCCCTGTGGTTACAGCGGAGTACATTGAAACCAGTAAT
1 AGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGCGGAGTACATTGAAGCCAGTAAT
*
13392506 TCTACTTCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAACAGTAGT
66 TCTACTTCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
13392571 GG
131 GG
* *
13392573 AGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGCGGAGTACATTGAAGCCAGTAAT
13392638 TCTACTTCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
13392703 GG
131 GG
* *
13392705 AGCAGATCAAAGATGGCAGATTTTACCTCCCTATGGTTACAGCAGAGTACATTGAAGCCAGTAAT
1 AGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGCGGAGTACATTGAAGCCAGTAAT
* * * **
13392770 TCTA-TCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTACCTCCCTAAGCAGTAG
66 TCTACT-TCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAG
13392834 TGG
130 TGG
* * * * * * *
13392837 AGTAGATCGAAGATAGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTATATTGAAGCCAGTAAT
1 AGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGCGGAGTACATTGAAGCCAGTAAT
13392902 TCTA
66 TCTA
13392906 TCCCCCTGGT
Statistics
Matches: 309, Mismatches: 23, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
131 1 0.00
132 308 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (132 bp):
AGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGCGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
GG
Found at i:13392823 original size:44 final size:44
Alignment explanation
Indices: 13392775--13392871 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 44
13392765 GTAATTCTAT
* *
13392775 CTCCCTGGGCAGCAGTGGAATAGATTGAAGATTA-CAGATCTTAC
1 CTCCCTGAGCAGCAGTGGAATAGATCGAAGA-TAGCAGATCTTAC
* * * * *
13392819 CTCCCTAAGCAGTAGTGGAGTAGATCGAAGATAGCGGATTTTAC
1 CTCCCTGAGCAGCAGTGGAATAGATCGAAGATAGCAGATCTTAC
13392863 CTCCCTGAG
1 CTCCCTGAG
13392872 GTTACAGTGG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 2 0.05
44 42 0.95
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.25
Consensus pattern (44 bp):
CTCCCTGAGCAGCAGTGGAATAGATCGAAGATAGCAGATCTTAC
Found at i:13397416 original size:2 final size:2
Alignment explanation
Indices: 13397409--13397437 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
13397399 TGTCTTGCTT
13397409 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13397438 AGGTAATGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13398787 original size:20 final size:21
Alignment explanation
Indices: 13398762--13398803 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
13398752 TTTGGGTGGA
*
13398762 TCAGCTC-TCCGAGCTTCTAT
1 TCAGCTCTTACGAGCTTCTAT
*
13398782 TCAGCTCTTATGAGCTTCTAT
1 TCAGCTCTTACGAGCTTCTAT
13398803 T
1 T
13398804 GGTGTGTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.17, C:0.29, G:0.14, T:0.40
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTAT
Found at i:13401457 original size:14 final size:14
Alignment explanation
Indices: 13401440--13401487 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
13401430 TATATTACTT
13401440 AATGATAAAAGTTA
1 AATGATAAAAGTTA
** *
13401454 AATGATTTAAG--G
1 AATGATAAAAGTTA
13401466 AATGATAAAAGTTA
1 AATGATAAAAGTTA
13401480 AATGATAA
1 AATGATAA
13401488 GATTTTAATA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
12 9 0.35
14 17 0.65
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (14 bp):
AATGATAAAAGTTA
Found at i:13401796 original size:41 final size:41
Alignment explanation
Indices: 13401739--13401864 Score: 119
Period size: 41 Copynumber: 3.1 Consensus size: 41
13401729 TTTATTGTCA
* * * *
13401739 GTGAAATAATTCAGACTTTATGTCTAGCAGACTTGATGCCG
1 GTGAAATAATTCAGACTATAAGTCCAGCAGACTTAATGCCG
* *
13401780 GTGAAATTATTCAGACTATAAGTCCAGCAGGCTTAATGCCG
1 GTGAAATAATTCAGACTATAAGTCCAGCAGACTTAATGCCG
* * * * * * *
13401821 GTGATATATTTTC-GACAATAAGTCTAGCAGGCTAAAAGCCG
1 GTGAAATA-ATTCAGACTATAAGTCCAGCAGACTTAATGCCG
13401862 GTG
1 GTG
13401865 TACTGAATTA
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
41 68 0.96
42 3 0.04
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (41 bp):
GTGAAATAATTCAGACTATAAGTCCAGCAGACTTAATGCCG
Found at i:13402123 original size:34 final size:34
Alignment explanation
Indices: 13402077--13402157 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 34
13402067 GCATATATAT
* *
13402077 ATTCGGTCTATGCA-ATTATTAGATATATATGTGC
1 ATTCGGTATATGCATA-TATTAAATATATATGTGC
13402111 ATTCGGTATATGCATATATTAAATATATA--TGC
1 ATTCGGTATATGCATATATTAAATATATATGTGC
* *
13402143 AATAGGTATATGCAT
1 ATTCGGTATATGCAT
13402158 TTGCTAAGCA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
32 16 0.38
34 25 0.60
35 1 0.02
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.40
Consensus pattern (34 bp):
ATTCGGTATATGCATATATTAAATATATATGTGC
Found at i:13402137 original size:32 final size:35
Alignment explanation
Indices: 13402069--13402157 Score: 100
Period size: 32 Copynumber: 2.7 Consensus size: 35
13402059 ATTGATGAGC
*
13402069 ATATATAT--ATTCGGTCTATGCA-ATTATTAGAT
1 ATATATATGCATTCGGTATATGCATATTATTAGAT
*
13402101 ATATATGTGCATTCGGTATATGCATA-TATTA-A-
1 ATATATATGCATTCGGTATATGCATATTATTAGAT
* *
13402133 ATATATATGCAATAGGTATATGCAT
1 ATATATATGCATTCGGTATATGCAT
13402158 TTGCTAAGCA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
32 29 0.59
33 1 0.02
34 18 0.37
35 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (35 bp):
ATATATATGCATTCGGTATATGCATATTATTAGAT
Found at i:13402310 original size:14 final size:14
Alignment explanation
Indices: 13402291--13402319 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
13402281 TATGCATATG
13402291 ATGTATCTGTATAC
1 ATGTATCTGTATAC
13402305 ATGTATCTGTATAC
1 ATGTATCTGTATAC
13402319 A
1 A
13402320 GAACCAGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (14 bp):
ATGTATCTGTATAC
Found at i:13408837 original size:41 final size:41
Alignment explanation
Indices: 13408792--13408917 Score: 144
Period size: 41 Copynumber: 3.1 Consensus size: 41
13408782 TTTATTGTTA
* * * *
13408792 GTGAAATAATTCAGACTTTATGTCTAGCAGGCTTGATGCTG
1 GTGAAATAATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
13408833 GTGAAATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGAAATAATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
* * * * * * *
13408874 GTGATACATTTCGGACAATAAGTCTAGCAGGCTAAAAGCCG
1 GTGAAATAATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
13408915 GTG
1 GTG
13408918 TATCGAATCA
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (41 bp):
GTGAAATAATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:13411062 original size:113 final size:112
Alignment explanation
Indices: 13410829--13411065 Score: 257
Period size: 113 Copynumber: 2.1 Consensus size: 112
13410819 AGATCTGAAG
* ** *
13410829 ACCAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGTTTATAGTAAATCGCCGC
1 ACCAAAACGCATCGTTTTGGTCTCGATGTATACTAGAATTAGTGGCGTTTATAAAAAAACGCCGC
* *
13410894 TAAAGCAATTATTAGCGGCGTAATGGATGAAGCGCCGCAAAAATCTAA
66 TAAAGCAAGTATTAGCGGCGTAAT-GATAAAGCGCCGCAAAAATCTAA
* * * **
13410942 ACGAAAACGCATCGTTTT-GTCTCGTTGTATATTAGCGTTAGTGGCGCTTTA-AAAAAACACGCC
1 ACCAAAACGCATCGTTTTGGTCTCGATGTATACTAGAATTAGTGGCG-TTTATAAAAAA-ACGCC
* * * *
13411005 GCTAAAGCAAGTATTAGCGGCGCTTACT-A-AAAGCGCCGCAATATATGTTA
64 GCTAAAGCAAGTATTAGCGGCG--TAATGATAAAGCGCCGCAA-AAATCTAA
13411055 ACCAAAACGCA
1 ACCAAAACGCA
13411066 GAGTTTGGCC
Statistics
Matches: 103, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
112 38 0.37
113 62 0.60
115 3 0.03
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (112 bp):
ACCAAAACGCATCGTTTTGGTCTCGATGTATACTAGAATTAGTGGCGTTTATAAAAAAACGCCGC
TAAAGCAAGTATTAGCGGCGTAATGATAAAGCGCCGCAAAAATCTAA
Found at i:13411573 original size:114 final size:111
Alignment explanation
Indices: 13411187--13411633 Score: 302
Period size: 114 Copynumber: 3.9 Consensus size: 111
13411177 TTTAATATAA
* * *
13411187 AACGCCGGTAAAGTATAATATTAGCGGCG-TGT-TGTGGTAAGCGCCGCAAAACAT-CTTAACCA
1 AACGCCGCTAAAGTATAATATTAGCGGCGCT-TCTGT-ATAAGCGCCGCAAAATATGC-TAACCA
* *
13411249 AAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGC-AG-AGG-G
63 AAACGC-GAGTTT-TTCTTGAGGTATA-TAGAATTAGTGGCGCTTGTAGGAG
* * * * * * *
13411298 CACACGCCGCTAATGCATACTATTAGCGGCGCTTCCGTATAAGCGCCGCAAAATTTGATAACAAA
1 -A-ACGCCGCTAAAGTATAATATTAGCGGCGCTTCTGTATAAGCGCCGCAAAATATGCTAACCAA
* * * * *
13411363 AACGCAACGTTTTTGTCTTGATGTATACAGTTATTAGTGGCGCATAT-TAAGA-
64 AACGCGA-G-TTTT-TCTTGAGGTATATAG-AATTAGTGGCGC-T-TGTAGGAG
* * ** * *
13411415 AACGCCGCTAAA-TCATAGTATTAGTGGCGCTTGGGCA-AACGCGCCGCAAAATATGCTCACCAA
1 AACGCCGCTAAAGT-ATAATATTAGCGGCGCTTCTGTATAA-GCGCCGCAAAATATGCTAACCAA
*
13411478 AACGCTGAGTTTTTACATGAGGTATATTAGAATTAGTGGCGCTTGTAGGAG
64 AACGC-GAGTTTTT-CTTGAGGTATA-TAGAATTAGTGGCGCTTGTAGGAG
* * * * ** *
13411529 ATCGCCGCTAAAGTATATTATTAGCGGCGCTTCTTTATAAGCGCCGCAAAAGATATTAACAAAAA
1 AACGCCGCTAAAGTATAATATTAGCGGCGCTTCTGTATAAGCGCCGCAAAATATGCTAACCAAAA
* * * *
13411594 CGCAGCGTTTAAGTCTTGATGTATACTGGAATTAGTGGCG
66 CGC-GAGTTT--TTCTTGAGGTATA-TAGAATTAGTGGCG
13411634 TCCACGAGAA
Statistics
Matches: 258, Mismatches: 53, Indels: 45
0.72 0.15 0.13
Matches are distributed among these distances:
112 3 0.01
113 60 0.23
114 110 0.43
115 80 0.31
116 3 0.01
117 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (111 bp):
AACGCCGCTAAAGTATAATATTAGCGGCGCTTCTGTATAAGCGCCGCAAAATATGCTAACCAAAA
CGCGAGTTTTTCTTGAGGTATATAGAATTAGTGGCGCTTGTAGGAG
Found at i:13411708 original size:229 final size:227
Alignment explanation
Indices: 13411227--13411719 Score: 527
Period size: 229 Copynumber: 2.2 Consensus size: 227
13411217 GTTGTGGTAA
* * *
13411227 GCGCCGCAAAACATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGC
1 GCGCCGCAAAATATCTTAACCAAAACGCAGAGTTT-TTCATGAGGTATACTAGAATTAGTGGCGC
* **
13411292 AGAGGGCACACGCCGCTAATGCATACTATTAGCGGCGCTTCCGTATAAGCGCCGCAAAATTTGAT
65 AGAGGGCACACGCCGCTAAAGCATACTATTAGCGGCGCTTCCGTATAAGCGCCGCAAAAGATGAT
** ** * *
13411357 AACAAAAACGCAACGTTTTTGTCTTGATGTATACAGTTATTAGTGGCGCATATTAAGAAACGCCG
130 AACAAAAACGCAACGTTTAAGTCTTGATGTATACAGGAATTAGTGGCGCACATCAAGAAACGCCG
* *
13411422 CTAAATCATAGTATTAGTGGCGCTTGGGCAAAC
195 CTAAAGCATAGTATCAGTGGCGCTTGGGCAAAC
* * *
13411455 GCGCCGCAAAATATGC-TCACCAAAACGCTGAGTTTTTACATGAGGTATATTAGAATTAGTGGCG
1 GCGCCGCAAAATAT-CTTAACCAAAACGCAGAGTTTTT-CATGAGGTATACTAGAATTAGTGGCG
* * * * **
13411519 CTTGTAGGAG-A-TCGCCGCTAAAGTATATTATTAGCGGCGCTTCTTTATAAGCGCCGCAAAAGA
64 C-AG-AGG-GCACACGCCGCTAAAGCATACTATTAGCGGCGCTTCCGTATAAGCGCCGCAAAAGA
* * *
13411582 T-ATTAACAAAAACGCAGCGTTTAAGTCTTGATGTATACTGGAATTAGTGGCGTC-CA-CGAGAA
126 TGA-TAACAAAAACGCAACGTTTAAGTCTTGATGTATACAGGAATTAGTGGCG-CACATCAAGAA
* **
13411644 ATCGCCGCTAAAGCATGGTATCAGCT-GCGCTTTTTG-ATAA-
189 A-CGCCGCTAAAGCATAGTATCAG-TGGCGC-TTGGGCA-AAC
* * *
13411684 GCGTCGGAAAATGTCTTAACCAAAACGCAGAGTTTT
1 GCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTT
13411720 GGTCTTAACC
Statistics
Matches: 219, Mismatches: 34, Indels: 23
0.79 0.12 0.08
Matches are distributed among these distances:
227 1 0.00
228 62 0.28
229 144 0.66
230 11 0.05
231 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (227 bp):
GCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTTTCATGAGGTATACTAGAATTAGTGGCGCA
GAGGGCACACGCCGCTAAAGCATACTATTAGCGGCGCTTCCGTATAAGCGCCGCAAAAGATGATA
ACAAAAACGCAACGTTTAAGTCTTGATGTATACAGGAATTAGTGGCGCACATCAAGAAACGCCGC
TAAAGCATAGTATCAGTGGCGCTTGGGCAAAC
Found at i:13411809 original size:21 final size:20
Alignment explanation
Indices: 13411785--13411823 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
13411775 TTTGGTCTAT
*
13411785 GGTTTATGGTTTAAAGGTTGG
1 GGTTTAAGGTTT-AAGGTTGG
13411806 GGTTTAAGGTTTAAGGTT
1 GGTTTAAGGTTTAAGGTT
13411824 ATGTGTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.44
Consensus pattern (20 bp):
GGTTTAAGGTTTAAGGTTGG
Found at i:13412676 original size:14 final size:15
Alignment explanation
Indices: 13412657--13412691 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
13412647 ACACTTGTAT
*
13412657 GGATTTAGGGTTT-G
1 GGATTTAAGGTTTAG
13412671 GGATTTAAGGTTTAG
1 GGATTTAAGGTTTAG
13412686 GGATTT
1 GGATTT
13412692 TGGGGTCAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (15 bp):
GGATTTAAGGTTTAG
Found at i:13415751 original size:36 final size:36
Alignment explanation
Indices: 13415720--13415970 Score: 288
Period size: 36 Copynumber: 7.5 Consensus size: 36
13415710 CTTACATTAA
*
13415720 TTACATAACTTACATAAATTAAGTAAATTACATAAC
1 TTACATAACTTACATAAATTAAGTAAATTAAATAAC
13415756 TTACATAACTTACATAAA-T---TAAA-T--AT--C
1 TTACATAACTTACATAAATTAAGTAAATTAAATAAC
*
13415783 TTGCATAACTTACATAAATTAAGTAAATTAAATAAC
1 TTACATAACTTACATAAATTAAGTAAATTAAATAAC
13415819 TTACATAACTTACATAAA-T---T-AA--AAAT--C
1 TTACATAACTTACATAAATTAAGTAAATTAAATAAC
13415846 TTACATAACTTACATAAATTAAGTAAATTAAATAAC
1 TTACATAACTTACATAAATTAAGTAAATTAAATAAC
* * *
13415882 TTACATAACTTATATAACTTACA-TAAATTAAATATC
1 TTACATAACTTACATAAATTA-AGTAAATTAAATAAC
*
13415918 TTACATAATTTACATAAATTAAGTAAATTAAATAAC
1 TTACATAACTTACATAAATTAAGTAAATTAAATAAC
* *
13415954 TTACACAACTCACATAA
1 TTACATAACTTACATAA
13415971 TGATGTAGTA
Statistics
Matches: 183, Mismatches: 12, Indels: 40
0.78 0.05 0.17
Matches are distributed among these distances:
27 37 0.20
28 2 0.01
29 6 0.03
31 8 0.04
32 8 0.04
34 6 0.03
35 3 0.02
36 112 0.61
37 1 0.01
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.34
Consensus pattern (36 bp):
TTACATAACTTACATAAATTAAGTAAATTAAATAAC
Found at i:13415796 original size:63 final size:63
Alignment explanation
Indices: 13415720--13415970 Score: 367
Period size: 63 Copynumber: 3.8 Consensus size: 63
13415710 CTTACATTAA
*
13415720 TTACATAACTTACATAAATTAAGTAAATTACATAACTTACATAACTTACATAAATTAAATATC
1 TTACATAACTTACATAAATTAAGTAAATTAAATAACTTACATAACTTACATAAATTAAATATC
* *
13415783 TTGCATAACTTACATAAATTAAGTAAATTAAATAACTTACATAACTTACATAAATTAAAAATC
1 TTACATAACTTACATAAATTAAGTAAATTAAATAACTTACATAACTTACATAAATTAAATATC
13415846 TTACATAACTTACATAAATTAAGTAAATTAAATAACTTACATAACTTATATAACTTACATAAATT
1 TTACATAACTTACATAAATTAAGTAAATTAAATAAC-T---T-AC----ATAACTTACATAAATT
13415911 AAATATC
57 AAATATC
* * *
13415918 TTACATAATTTACATAAATTAAGTAAATTAAATAACTTACACAACTCACATAA
1 TTACATAACTTACATAAATTAAGTAAATTAAATAACTTACATAACTTACATAA
13415971 TGATGTAGTA
Statistics
Matches: 171, Mismatches: 8, Indels: 18
0.87 0.04 0.09
Matches are distributed among these distances:
63 106 0.62
64 1 0.01
67 3 0.02
68 3 0.02
71 1 0.01
72 57 0.33
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.34
Consensus pattern (63 bp):
TTACATAACTTACATAAATTAAGTAAATTAAATAACTTACATAACTTACATAAATTAAATATC
Found at i:13415826 original size:9 final size:9
Alignment explanation
Indices: 13415706--13416071 Score: 231
Period size: 9 Copynumber: 41.4 Consensus size: 9
13415696 CACAAATTAA
13415706 ATAACTTAC
1 ATAACTTAC
13415715 ATTAA-TTAC
1 A-TAACTTAC
13415724 ATAACTTAC
1 ATAACTTAC
*
13415733 ATAAATTA-
1 ATAACTTAC
*
13415741 AGTAAATTAC
1 A-TAACTTAC
13415751 ATAACTTAC
1 ATAACTTAC
13415760 ATAACTTAC
1 ATAACTTAC
* *
13415769 ATAAATTAA
1 ATAACTTAC
* *
13415778 ATATCTTGC
1 ATAACTTAC
13415787 ATAACTTAC
1 ATAACTTAC
*
13415796 ATAAATTA-
1 ATAACTTAC
* *
13415804 AGTAAATTAA
1 A-TAACTTAC
13415814 ATAACTTAC
1 ATAACTTAC
13415823 ATAACTTAC
1 ATAACTTAC
*
13415832 ATAAATTA-
1 ATAACTTAC
*
13415840 AAAATCTTAC
1 ATAA-CTTAC
13415850 ATAACTTAC
1 ATAACTTAC
*
13415859 ATAAATTA-
1 ATAACTTAC
* *
13415867 AGTAAATTAA
1 A-TAACTTAC
13415877 ATAACTTAC
1 ATAACTTAC
*
13415886 ATAACTTAT
1 ATAACTTAC
13415895 ATAACTTAC
1 ATAACTTAC
* *
13415904 ATAAATTAA
1 ATAACTTAC
*
13415913 ATATCTTAC
1 ATAACTTAC
*
13415922 ATAATTTAC
1 ATAACTTAC
*
13415931 ATAAATTA-
1 ATAACTTAC
* *
13415939 AGTAAATTAA
1 A-TAACTTAC
13415949 ATAACTTAC
1 ATAACTTAC
* *
13415958 ACAACTCAC
1 ATAACTTAC
* *
13415967 ATAA-TGAT
1 ATAACTTAC
* *
13415975 GT-A-GTAC
1 ATAACTTAC
*
13415982 ACAACTTAC
1 ATAACTTAC
*
13415991 ATAA--TAT
1 ATAACTTAC
*
13415998 ATTACTTAC
1 ATAACTTAC
*
13416007 ATAGCTTAC
1 ATAACTTAC
*
13416016 ATTACTTAC
1 ATAACTTAC
** *
13416025 ATGGGGCATAC
1 AT--AACTTAC
13416036 ATAA--TAC
1 ATAACTTAC
13416043 ATAA--TAC
1 ATAACTTAC
13416050 ATAACTTAC
1 ATAACTTAC
13416059 ATAACTTAC
1 ATAACTTAC
13416068 ATAA
1 ATAA
13416072 TACATAAAAA
Statistics
Matches: 280, Mismatches: 57, Indels: 40
0.74 0.15 0.11
Matches are distributed among these distances:
7 21 0.08
8 14 0.05
9 229 0.82
10 10 0.04
11 6 0.02
ACGTcount: A:0.48, C:0.15, G:0.04, T:0.34
Consensus pattern (9 bp):
ATAACTTAC
Found at i:13416044 original size:7 final size:7
Alignment explanation
Indices: 13416032--13416078 Score: 58
Period size: 7 Copynumber: 6.1 Consensus size: 7
13416022 TACATGGGGC
13416032 ATACATA
1 ATACATA
13416039 ATACATA
1 ATACATA
13416046 ATACATA
1 ATACATA
13416053 ACTTACATA
1 A--TACATA
13416062 ACTTACATA
1 A--TACATA
13416071 ATACATA
1 ATACATA
13416078 A
1 A
13416079 AAATATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 22 0.58
9 16 0.42
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (7 bp):
ATACATA
Found at i:13421605 original size:21 final size:21
Alignment explanation
Indices: 13421580--13421619 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13421570 CAGCAACTTA
*
13421580 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCCGCAGCGAGGG
*
13421601 AAGCAGATGCCGCAGCGAG
1 AAGCAGAGGCCGCAGCGAG
13421620 AGAAACAGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.23, G:0.45, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGGG
Found at i:13421647 original size:12 final size:12
Alignment explanation
Indices: 13421612--13421651 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
13421602 AGCAGATGCC
13421612 GCAGCGAGAGAA
1 GCAGCGAGAGAA
* *
13421624 ACAGCAAGAGAA
1 GCAGCGAGAGAA
*
13421636 GCAGCGATAGAA
1 GCAGCGAGAGAA
13421648 GCAG
1 GCAG
13421652 AGGTTCAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.45, C:0.17, G:0.35, T:0.03
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:13422129 original size:42 final size:43
Alignment explanation
Indices: 13422057--13422149 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 43
13422047 TCAAAACAGT
* * * *
13422057 GGCGTTTGTGAAATAAGCGCCGCTAAAGAACACTACTTTTAGC
1 GGCGTTTTTGAAACAAGCGCCACTAAAGAACACTACTTTTAGA
* * *
13422100 GGCGTTTTTG-AACAAGCGCCACTATAGAACATTGCTTTTAGA
1 GGCGTTTTTGAAACAAGCGCCACTAAAGAACACTACTTTTAGA
*
13422142 AGCGTTTT
1 GGCGTTTT
13422150 CTTCCAAAGC
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 33 0.79
43 9 0.21
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (43 bp):
GGCGTTTTTGAAACAAGCGCCACTAAAGAACACTACTTTTAGA
Found at i:13422321 original size:42 final size:42
Alignment explanation
Indices: 13422070--13422339 Score: 287
Period size: 42 Copynumber: 6.4 Consensus size: 42
13422060 GTTTGTGAAA
* **
13422070 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGAAC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCATTTTT-TTC
* * * ** * *
13422113 -AAGCGCCACTATAGAACATTGCT-TTTAGAAGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACA-TGATCTTTAGCGGCATTTT-TTTC
* * *
13422155 AAAGCGCCGCTAAAGAACGTGATCTTTAGCGGCATTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTC
*
13422197 TAAACGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTC
*
13422239 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTC
* *
13422281 TAAGCGCCGTTAAAGAACATGATCTTTAGCGGCATTTTTTTATG
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCA-TTTTTT-TC
*
13422325 TAAGCGCCGCAAAAG
1 TAAGCGCCGCTAAAG
13422340 GTAGCGACGT
Statistics
Matches: 194, Mismatches: 26, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
42 147 0.76
43 33 0.17
44 14 0.07
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTC
Found at i:13422321 original size:127 final size:127
Alignment explanation
Indices: 13422074--13422320 Score: 315
Period size: 127 Copynumber: 2.0 Consensus size: 127
13422064 GTGAAATAAG
* * *
13422074 CGCCGCTAAAGAACACTACTTTTAGCGGCGTTTTTGAACAAGCGCCACTATAGAACATTGCTTTT
1 CGCCGCTAAAGAACACTACTTTTAGCGGCATTTTTGAACAAGCGCCACTAAAGAACATTGATTTT
*
13422139 AGAAGCGTTTTCTTCCAAAGCGCCGCTAAAGAACGTGATCTTTAGCGGCATTTTTTCCTAAA
66 AGAAGCGTTTTCTTCCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTCCTAAA
** *
13422201 CGCCGCTAAAGAACA-TGA-TCTTTAGCGGCATTTTT-TTCTAAGCGCCGCTAAAGAACA-TGAT
1 CGCCGCTAAAGAACACT-ACT-TTTAGCGGCATTTTTGAAC-AAGCGCCACTAAAGAACATTGAT
** * * *
13422262 CTTTAGCGGCGTTTT-TTTCTAAGCGCCGTTAAAGAACATGATCTTTAGCGGCATTTTTT
63 -TTTAGAAGCGTTTTCTTCCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTT
13422321 TATGTAAGCG
Statistics
Matches: 104, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
126 46 0.44
127 58 0.56
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (127 bp):
CGCCGCTAAAGAACACTACTTTTAGCGGCATTTTTGAACAAGCGCCACTAAAGAACATTGATTTT
AGAAGCGTTTTCTTCCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTCCTAAA
Found at i:13422442 original size:22 final size:22
Alignment explanation
Indices: 13422411--13422453 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
13422401 TAGTGGCGTT
* *
13422411 AAAAAGCGCCGCTAAAGACCTA
1 AAAAAACGCCGCTAAAAACCTA
13422433 AAAAAACGCCGCTAAAAACCT
1 AAAAAACGCCGCTAAAAACCT
13422454 GTTCTGCTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.28, G:0.14, T:0.09
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAACCTA
Found at i:13426134 original size:9 final size:9
Alignment explanation
Indices: 13426120--13426157 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
13426110 AAAAAAAAAG
13426120 TTGTTTTCA
1 TTGTTTTCA
13426129 TTGTTTTCA
1 TTGTTTTCA
13426138 TTGTTTTCA
1 TTGTTTTCA
*
13426147 TTGTATTCA
1 TTGTTTTCA
13426156 TT
1 TT
13426158 AAAAATGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.13, C:0.11, G:0.11, T:0.66
Consensus pattern (9 bp):
TTGTTTTCA
Found at i:13430322 original size:16 final size:15
Alignment explanation
Indices: 13430301--13430330 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
13430291 GTTTATTTTA
13430301 ATTATTTGATGAAATT
1 ATTATTTGAT-AAATT
13430317 ATTATTTGATAAAT
1 ATTATTTGATAAAT
13430331 GTTTTGATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (15 bp):
ATTATTTGATAAATT
Found at i:13431151 original size:13 final size:14
Alignment explanation
Indices: 13431127--13431160 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
13431117 GCATAGGTAA
13431127 AGATCATTTTGAAG
1 AGATCATTTTGAAG
13431141 AGATC-TTTTGAAG
1 AGATCATTTTGAAG
*
13431154 TGATCAT
1 AGATCAT
13431161 CCTCATCCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (14 bp):
AGATCATTTTGAAG
Found at i:13435568 original size:9 final size:9
Alignment explanation
Indices: 13435556--13435593 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
13435546 ATAAAACATG
13435556 TTATTCGAA
1 TTATTCGAA
13435565 TTATTCGAA
1 TTATTCGAA
*
13435574 TTATTCGAG
1 TTATTCGAA
*
13435583 TTATTTGAA
1 TTATTCGAA
13435592 TT
1 TT
13435594 GTAAATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.50
Consensus pattern (9 bp):
TTATTCGAA
Found at i:13437198 original size:21 final size:20
Alignment explanation
Indices: 13437172--13437225 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 20
13437162 TTAAAAAAAT
13437172 ATTTGAGAATTGAAAATTAAA
1 ATTTGA-AATTGAAAATTAAA
13437193 ATTTGAAGATTGAAAATATAAA
1 ATTTGAA-ATTGAAAAT-TAAA
*
13437215 ATTAGAAATTG
1 ATTTGAAATTG
13437226 GAGATTAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 1 0.03
21 19 0.63
22 10 0.33
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (20 bp):
ATTTGAAATTGAAAATTAAA
Found at i:13441221 original size:25 final size:26
Alignment explanation
Indices: 13441166--13441222 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
13441156 AGAATGACAT
* *
13441166 CGTTATAGTAGCACAATTAATAACAT
1 CGTTATAGTAGCACAAGTAATAACAA
*
13441192 CGTTATAGTAGCACAAGTCA-AACAA
1 CGTTATAGTAGCACAAGTAATAACAA
13441217 CGTTAT
1 CGTTAT
13441223 TAAATAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 10 0.36
26 18 0.64
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (26 bp):
CGTTATAGTAGCACAAGTAATAACAA
Found at i:13453514 original size:11 final size:12
Alignment explanation
Indices: 13453467--13453515 Score: 50
Period size: 11 Copynumber: 4.2 Consensus size: 12
13453457 TAAAATCATT
13453467 AAAATTATTATTA
1 AAAATTA-TATTA
13453480 AACAA-TATA-TA
1 AA-AATTATATTA
*
13453491 AAAATTATTTTA
1 AAAATTATATTA
13453503 AAAATTA-ATTA
1 AAAATTATATTA
13453514 AA
1 AA
13453516 TACTAACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
10 2 0.06
11 12 0.39
12 11 0.35
13 4 0.13
14 2 0.06
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (12 bp):
AAAATTATATTA
Found at i:13459802 original size:15 final size:15
Alignment explanation
Indices: 13459782--13459813 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
13459772 TATCTTTACT
13459782 ATTATTTTGATTTTA
1 ATTATTTTGATTTTA
*
13459797 ATTATTTTTATTTTA
1 ATTATTTTGATTTTA
13459812 AT
1 AT
13459814 CAAATTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
ATTATTTTGATTTTA
Found at i:13460640 original size:15 final size:16
Alignment explanation
Indices: 13460615--13460653 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
13460605 ATCAAATTAC
13460615 TTAATAATTAACTA-AA
1 TTAA-AATTAACTATAA
*
13460631 TTTAAATTAACTATAA
1 TTAAAATTAACTATAA
13460647 TTAAAAT
1 TTAAAAT
13460654 AAATCTAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (16 bp):
TTAAAATTAACTATAA
Found at i:13468993 original size:26 final size:26
Alignment explanation
Indices: 13468957--13469011 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
13468947 TTCGAATTAA
13468957 TTACAAGAGGAGTAGACTATGTCTAT
1 TTACAAGAGGAGTAGACTATGTCTAT
13468983 TTACAAGAGGAGTAGACTATGTCTAT
1 TTACAAGAGGAGTAGACTATGTCTAT
13469009 TTA
1 TTA
13469012 TAGGCTTGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.33
Consensus pattern (26 bp):
TTACAAGAGGAGTAGACTATGTCTAT
Found at i:13475103 original size:15 final size:16
Alignment explanation
Indices: 13475076--13475106 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13475066 ATAAAAAATC
13475076 AATAAAAATTATATAT
1 AATAAAAATTATATAT
13475092 AATAAAAA-TATATAT
1 AATAAAAATTATATAT
13475107 TTTGAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AATAAAAATTATATAT
Found at i:13482407 original size:44 final size:45
Alignment explanation
Indices: 13482314--13482408 Score: 131
Period size: 44 Copynumber: 2.1 Consensus size: 45
13482304 GGTTCGCTGT
*
13482314 AATGGAATAGATGCGTAATAGCAAATCAATTGTTTGGTTGAATGT
1 AATGGAATAGATGCGTAATAGCAAATCAATTGTTTGGTTGAATGG
* * *
13482359 AATGGAATAGATGCGTAATAG-TATTC-TTGTGTTTGGTTGAATGG
1 AATGGAATAGATGCGTAATAGCAAATCAAT-TGTTTGGTTGAATGG
13482403 AATGGA
1 AATGGA
13482409 GATGTAATAG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.51
45 21 0.47
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.35
Consensus pattern (45 bp):
AATGGAATAGATGCGTAATAGCAAATCAATTGTTTGGTTGAATGG
Found at i:13482606 original size:17 final size:18
Alignment explanation
Indices: 13482565--13482599 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
13482555 TTATTATTAA
*
13482565 ATATATTTTAATTAAAAT
1 ATATAATTTAATTAAAAT
13482583 ATATAATTTAA-TAAAAT
1 ATATAATTTAATTAAAAT
13482600 TATTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATAATTTAATTAAAAT
Found at i:13482658 original size:61 final size:61
Alignment explanation
Indices: 13482593--13482780 Score: 172
Period size: 61 Copynumber: 3.1 Consensus size: 61
13482583 ATATAATTTA
* *
13482593 ATAAAATTATTAATAATCAATATTGTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTATTAATAATCAATATTATTATATGAATTTACTAAAATCATAATATATGATACT
* * * * * ** * * *
13482654 ATAAAA-TA-TAAT-TTAAGATAATTATTAT-TAAATATATTTTAATTAAAATATATGAT-TT
1 ATAAAATTATTAATAATCA-AT-ATTATTATATGAATTTACTAAAATCATAATATATGATACT
* *
13482712 AATAAAATTCTTAATAATCAATATTATTATATGAATTT-CTTAAAATCATAATATATGATAGT
1 -ATAAAATTATTAATAATCAATATTATTATATGAATTTAC-TAAAATCATAATATATGATACT
13482774 ATAAAAT
1 ATAAAAT
13482781 ATAATTTGAA
Statistics
Matches: 96, Mismatches: 22, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
58 3 0.03
59 33 0.34
60 18 0.19
61 39 0.41
62 3 0.03
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.43
Consensus pattern (61 bp):
ATAAAATTATTAATAATCAATATTATTATATGAATTTACTAAAATCATAATATATGATACT
Found at i:13482682 original size:120 final size:119
Alignment explanation
Indices: 13482545--13482860 Score: 510
Period size: 120 Copynumber: 2.6 Consensus size: 119
13482535 TTAATCATAT
*
13482545 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTATTAATAAT
1 TTTAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTATTAATAAT
* *
13482610 CAATATTGTTATATGAATTTAC-TCAAATCATAATATATGATACTATAAAATATAA
65 CAATATTATTATATGAATTT-CTTAAAATCATAATATATGATACTATAAAATATAA
*
13482665 TTTAAGATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
1 TTTAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTATTAATAAT
*
13482730 CAATATTATTATATGAATTTCTTAAAATCATAATATATGATAGTATAAAATATAA
65 CAATATTATTATATGAATTTCTTAAAATCATAATATATGATACTATAAAATATAA
*
13482785 TTTGAAATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT-TAAAATAA
1 TTT-AAATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTAT-TAATAA
*
13482849 TCATTATTATTA
64 TCAATATTATTA
13482861 AATATAATTT
Statistics
Matches: 185, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
119 2 0.01
120 181 0.98
121 2 0.01
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (119 bp):
TTTAAATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTATTAATAATC
AATATTATTATATGAATTTCTTAAAATCATAATATATGATACTATAAAATATAA
Found at i:13482706 original size:18 final size:17
Alignment explanation
Indices: 13482683--13482719 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
13482673 AATTATTATT
13482683 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
13482699 AAATATATGATTTAATA
1 AAATATATGATTTAATA
13482716 AAAT
1 AAAT
13482720 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:13482826 original size:18 final size:17
Alignment explanation
Indices: 13482803--13482839 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
13482793 AATTATTATT
13482803 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
13482819 AAATATATGATTTAATA
1 AAATATATGATTTAATA
13482836 AAAT
1 AAAT
13482840 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:13482869 original size:29 final size:28
Alignment explanation
Indices: 13482777--13482872 Score: 92
Period size: 28 Copynumber: 3.5 Consensus size: 28
13482767 TGATAGTATA
*
13482777 AAATATAATTTGAAAT-A-ATTATTATT
1 AAATATAATTTAAAATAATATTATTATT
* *
13482803 AAATATATTTTAATTAA-AATA-TATGATT
1 AAATATAATTTAA--AATAATATTATTATT
* *
13482831 TAATAAAATTTAAAATAATCATTATTATT
1 AAATATAATTTAAAATAAT-ATTATTATT
13482860 AAATATAATTTAA
1 AAATATAATTTAA
13482873 TTATATGAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
26 13 0.24
27 3 0.06
28 20 0.37
29 18 0.33
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (28 bp):
AAATATAATTTAAAATAATATTATTATT
Found at i:13482911 original size:226 final size:238
Alignment explanation
Indices: 13482551--13482975 Score: 556
Period size: 226 Copynumber: 1.8 Consensus size: 238
13482541 ATATTTTAAC
13482551 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTATTAATAATCAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTATTAATAATCAATAT
* *
13482616 TGTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTAAGATAATTATTA
66 TATTATATGAATATACT-AAATCATAATATATGATACTAT-AAATATAATTTAAGATAATTATTA
* * * *
13482681 TTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTCTTAATAATCAATATTATTATATG
129 TTAAATATAATTTAA-TAATAATATATAACTTAATAAAATTCTTAATAATAAATATTATTATATG
13482745 AATTTCTTAAAATCATAATATATGATAGTATAAAATATAATTTGAA
193 AATTTCTTAAAATCATAATATATGATAGTATAAAATATAATTTGAA
*
13482791 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAA-T-TTAA-AAT-AATCA
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTATTAATAATCAAT-A
* ** *
13482852 TTATTAT-T-AA-ATA-T-AAT-TTAATTATATGA-A-T-T-TGTATAATTTAATATAATTATTA
65 TTATTATATGAATATACTAAATCATAA-TATATGATACTATAAATATAATTTAAGATAATTATTA
* * * * *
13482907 TTAAATATAATTTAATAATAATATATAACTTCATCAAATTCTTGATAATAAATTTTGTTATATGA
129 TTAAATATAATTTAATAATAATATATAACTTAATAAAATTCTTAATAATAAATATTATTATATGA
13482972 ATTT
194 ATTT
13482976 ATATAATTTA
Statistics
Matches: 166, Mismatches: 16, Indels: 20
0.82 0.08 0.10
Matches are distributed among these distances:
225 3 0.02
226 76 0.46
228 1 0.01
229 1 0.01
230 4 0.02
231 10 0.06
233 1 0.01
234 2 0.01
235 2 0.01
236 4 0.02
237 10 0.06
238 4 0.02
239 1 0.01
240 47 0.28
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (238 bp):
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTATTAATAATCAATAT
TATTATATGAATATACTAAATCATAATATATGATACTATAAATATAATTTAAGATAATTATTATT
AAATATAATTTAATAATAATATATAACTTAATAAAATTCTTAATAATAAATATTATTATATGAAT
TTCTTAAAATCATAATATATGATAGTATAAAATATAATTTGAA
Found at i:13482934 original size:44 final size:44
Alignment explanation
Indices: 13482851--13483027 Score: 128
Period size: 44 Copynumber: 3.8 Consensus size: 44
13482841 TAAAATAATC
*
13482851 ATTATTATTAAATATAATTTAATTATATGAATTTGTATAATTTAATATA
1 ATTATTATTAAATATAATTTAA-TA-AT-AA--TATATAATTTAATATA
* *
13482900 ATTATTATTAAATATAATTTAATAATAATATATAACTTCATCA-A
1 ATTATTATTAAATATAATTTAATAATAATATATAATTTAAT-ATA
* * * *
13482944 ATTCTTGATAATAAAT-T-TTGTTATATGAAT-TTATATAATTTAAAATA
1 ATTATT-AT--TAAATATAAT-TTA-AT-AATAATATATAATTTAATATA
* * *
13482991 ATTAATATTAAATATAATATAATAATGATATATAATT
1 ATTATTATTAAATATAATTTAATAATAATATATAATT
13483028 CATAAAATTC
Statistics
Matches: 103, Mismatches: 14, Indels: 27
0.72 0.10 0.19
Matches are distributed among these distances:
43 3 0.03
44 32 0.31
45 7 0.07
46 10 0.10
47 24 0.23
48 5 0.05
49 22 0.21
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.47
Consensus pattern (44 bp):
ATTATTATTAAATATAATTTAATAATAATATATAATTTAATATA
Found at i:13482961 original size:91 final size:89
Alignment explanation
Indices: 13482861--13483066 Score: 286
Period size: 91 Copynumber: 2.3 Consensus size: 89
13482851 ATTATTATTA
* * * *
13482861 AATATAATTTAATTATATGAATTTGTATAATTTAATATAATTATTATTAAATATAATTTAATAAT
1 AATA-AATTT-ATTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATATAATAAT
* *
13482926 AATATATAACTTCATCAAATTCTTGAT
64 AATATATAA-TTCATAAAATTCTTAAT
* *
13482953 AATAAATTTTGTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATATAATAATG
1 AATAAA-TTTATTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATATAATAATA
13483018 ATATATAATTCATAAAATTCTTAAT
65 ATATATAATTCATAAAATTCTTAAT
*
13483043 AATAAATATTCTTATATGAATTTA
1 AATAAAT-TTATTATATGAATTTA
13483067 CTAAAATCAT
Statistics
Matches: 103, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
89 1 0.01
90 36 0.35
91 59 0.57
92 7 0.07
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (89 bp):
AATAAATTTATTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATATAATAATAA
TATATAATTCATAAAATTCTTAAT
Found at i:13483077 original size:46 final size:45
Alignment explanation
Indices: 13482937--13483078 Score: 110
Period size: 46 Copynumber: 3.1 Consensus size: 45
13482927 ATATATAACT
* * * * *
13482937 TCATCAAATTCTTGATAATAAATTTTGTTATATGAATTTATATAA
1 TCATAAAATTCTTAATAATAAATATTATTATATGAATTTATAAAA
* ** * * * *
13482982 T-TTAAAATAATTAATATTAAATA-TAATATAAT-AATGATATATAAT
1 TCATAAAATTCTTAATAATAAATATTATTAT-ATGAAT-TTATA-AAA
*
13483027 TCATAAAATTCTTAATAATAAATATTCTTATATGAATTTACTAAAA
1 TCATAAAATTCTTAATAATAAATATTATTATATGAATTTA-TAAAA
13483073 TCATAA
1 TCATAA
13483079 TATAACTTGA
Statistics
Matches: 70, Mismatches: 20, Indels: 13
0.68 0.19 0.13
Matches are distributed among these distances:
43 7 0.10
44 21 0.30
45 3 0.04
46 30 0.43
47 9 0.13
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.43
Consensus pattern (45 bp):
TCATAAAATTCTTAATAATAAATATTATTATATGAATTTATAAAA
Found at i:13490837 original size:21 final size:21
Alignment explanation
Indices: 13490782--13490839 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
13490772 AATTTAAAAT
13490782 TAATAAGCCTTAATT-AATTAA
1 TAATAAG-CTTAATTAAATTAA
* * *
13490803 -ACTAAACCTAAATTAAATTAA
1 TAAT-AAGCTTAATTAAATTAA
13490824 TAATAAGCTTAATTAA
1 TAATAAGCTTAATTAA
13490840 CATAAATTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
20 8 0.29
21 18 0.64
22 2 0.07
ACGTcount: A:0.52, C:0.10, G:0.03, T:0.34
Consensus pattern (21 bp):
TAATAAGCTTAATTAAATTAA
Found at i:13495860 original size:153 final size:153
Alignment explanation
Indices: 13495582--13495890 Score: 618
Period size: 153 Copynumber: 2.0 Consensus size: 153
13495572 TAAGGGCCAA
13495582 TTGAAGCCAACTGAGGCTCCTGGAATTGCAGGCCAGGAAAAGGAGTTTTAAAGATGCAAGGAGAG
1 TTGAAGCCAACTGAGGCTCCTGGAATTGCAGGCCAGGAAAAGGAGTTTTAAAGATGCAAGGAGAG
13495647 ACAGAAGAGCTGGTACTATAACATAAATCTCCATCATCATCAGTTACATCTTTCTCCTTAGATTC
66 ACAGAAGAGCTGGTACTATAACATAAATCTCCATCATCATCAGTTACATCTTTCTCCTTAGATTC
13495712 CAGCTTTGGATTTGTGTCCCAGT
131 CAGCTTTGGATTTGTGTCCCAGT
13495735 TTGAAGCCAACTGAGGCTCCTGGAATTGCAGGCCAGGAAAAGGAGTTTTAAAGATGCAAGGAGAG
1 TTGAAGCCAACTGAGGCTCCTGGAATTGCAGGCCAGGAAAAGGAGTTTTAAAGATGCAAGGAGAG
13495800 ACAGAAGAGCTGGTACTATAACATAAATCTCCATCATCATCAGTTACATCTTTCTCCTTAGATTC
66 ACAGAAGAGCTGGTACTATAACATAAATCTCCATCATCATCAGTTACATCTTTCTCCTTAGATTC
13495865 CAGCTTTGGATTTGTGTCCCAGT
131 CAGCTTTGGATTTGTGTCCCAGT
13495888 TTG
1 TTG
13495891 CCTCAACGGA
Statistics
Matches: 156, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
153 156 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (153 bp):
TTGAAGCCAACTGAGGCTCCTGGAATTGCAGGCCAGGAAAAGGAGTTTTAAAGATGCAAGGAGAG
ACAGAAGAGCTGGTACTATAACATAAATCTCCATCATCATCAGTTACATCTTTCTCCTTAGATTC
CAGCTTTGGATTTGTGTCCCAGT
Found at i:13496303 original size:72 final size:72
Alignment explanation
Indices: 13496182--13496328 Score: 276
Period size: 72 Copynumber: 2.0 Consensus size: 72
13496172 ACCTTTTTCC
13496182 TTTATTGTGATATCCATCATCGATCTTTGCAGAGACTTCTTCACGTTGAAGGTTGCAGATCTGAG
1 TTTATTGTGATATCCATCATCGATCTTTGCAGAGACTTCTTCACGTTGAAGGTTGCAGATCTGAG
13496247 TTTCTTT
66 TTTCTTT
*
13496254 TTTATTGTGATATCCATCATCGATCTTTGCAGAGACTTCTTCACTTTGAAGGTTGCAGATCTGAG
1 TTTATTGTGATATCCATCATCGATCTTTGCAGAGACTTCTTCACGTTGAAGGTTGCAGATCTGAG
*
13496319 TTTGTTT
66 TTTCTTT
13496326 TTT
1 TTT
13496329 TTAGCTATTG
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.44
Consensus pattern (72 bp):
TTTATTGTGATATCCATCATCGATCTTTGCAGAGACTTCTTCACGTTGAAGGTTGCAGATCTGAG
TTTCTTT
Found at i:13496777 original size:25 final size:24
Alignment explanation
Indices: 13496756--13496810 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 24
13496746 TCCGTTTTCA
13496756 TTTT-TTTATTT-TTTTAAAGTTT
1 TTTTATTTATTTATTTTAAAGTTT
*
13496778 TTTTATTTATTTACTTTTTAAGTTT
1 TTTTATTTATTTA-TTTTAAAGTTT
13496803 TTTTATTT
1 TTTTATTT
13496811 GTCCTTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 4 0.14
23 7 0.24
25 18 0.62
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (24 bp):
TTTTATTTATTTATTTTAAAGTTT
Found at i:13496901 original size:22 final size:21
Alignment explanation
Indices: 13496859--13496959 Score: 97
Period size: 21 Copynumber: 4.9 Consensus size: 21
13496849 TTATGAAATG
13496859 TTTTATAATATTATTTTTTAAAA
1 TTTTA-AATA-TATTTTTTAAAA
13496882 TTTTAAATATATTTTCTTAAAA
1 TTTTAAATATATTTT-TTAAAA
*
13496904 --TT-ATTA-ATTTTTTAAAA
1 TTTTAAATATATTTTTTAAAA
*
13496921 -TTTAAACAT-TATTTTTAAAA
1 TTTTAAATATAT-TTTTTAAAA
*
13496941 TTTTAAATATACTTTTTAA
1 TTTTAAATATATTTTTTAA
13496960 TAATATAAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
17 6 0.09
18 7 0.11
19 6 0.09
20 11 0.17
21 21 0.32
22 10 0.15
23 5 0.08
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTTAAATATATTTTTTAAAA
Found at i:13496920 original size:39 final size:37
Alignment explanation
Indices: 13496859--13496946 Score: 103
Period size: 39 Copynumber: 2.4 Consensus size: 37
13496849 TTATGAAATG
* *
13496859 TTTTATAA-TATT-ATTTTTTAAAATTTTAA-ATATATT
1 TTTTAAAATTATTAATTTTTTAAAATTTAAACAT-TA-T
13496895 TTCTTAAAATTATTAATTTTTTAAAATTTAAACATTAT
1 TT-TTAAAATTATTAATTTTTTAAAATTTAAACATTAT
13496933 TTTTAAAATT-TTAA
1 TTTTAAAATTATTAA
13496947 ATATACTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
36 6 0.13
37 13 0.28
38 7 0.15
39 18 0.39
40 2 0.04
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (37 bp):
TTTTAAAATTATTAATTTTTTAAAATTTAAACATTAT
Found at i:13496925 original size:38 final size:38
Alignment explanation
Indices: 13496859--13496946 Score: 105
Period size: 38 Copynumber: 2.4 Consensus size: 38
13496849 TTATGAAATG
* *
13496859 TTTTATAA-TATT-ATTTTTTAAAATTTTAAATA-TATT
1 TTTTAAAATTATTAATTTTTTAAAATTTTAAACATTA-T
13496895 TTCTTAAAATTATTAATTTTTTAAAA-TTTAAACATTAT
1 TT-TTAAAATTATTAATTTTTTAAAATTTTAAACATTAT
13496933 TTTTAAAATT-TTAA
1 TTTTAAAATTATTAA
13496947 ATATACTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
36 6 0.13
37 13 0.28
38 14 0.30
39 13 0.28
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (38 bp):
TTTTAAAATTATTAATTTTTTAAAATTTTAAACATTAT
Found at i:13497045 original size:23 final size:22
Alignment explanation
Indices: 13497019--13497097 Score: 81
Period size: 22 Copynumber: 3.5 Consensus size: 22
13497009 ATTTATTATT
* *
13497019 TATTTTATAATATTTTAAATGTA
1 TATTTTAAAAT-TTTTAAATATA
13497042 TATTTTAAAATTTTTAAATATA
1 TATTTTAAAATTTTTAAATATA
**
13497064 TATTTATTTAA-TTTTAAATATA
1 TATTT-TAAAATTTTTAAATATA
13497086 -ATTTTTAAAATT
1 TA-TTTTAAAATT
13497098 ATGATTTTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
21 4 0.09
22 30 0.64
23 13 0.28
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (22 bp):
TATTTTAAAATTTTTAAATATA
Found at i:13497106 original size:15 final size:15
Alignment explanation
Indices: 13497086--13497114 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13497076 TTTAAATATA
13497086 ATTTTTAAAATTATG
1 ATTTTTAAAATTATG
13497101 ATTTTTAAAATTAT
1 ATTTTTAAAATTAT
13497115 TTTTAAAGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
ATTTTTAAAATTATG
Found at i:13497118 original size:12 final size:12
Alignment explanation
Indices: 13497075--13497157 Score: 55
Period size: 12 Copynumber: 6.8 Consensus size: 12
13497065 ATTTATTTAA
*
13497075 TTTTAAATATAAT
1 TTTTAAA-ATTAT
13497088 TTTTAAAATTATGAT
1 TTTTAAAA-T-T-AT
13497103 TTTTAAAATTAT
1 TTTTAAAATTAT
**
13497115 TTTTAAAGGTA-
1 TTTTAAAATTAT
*
13497126 -TTTAAACTT-T
1 TTTTAAAATTAT
*
13497136 TTTTAAAATTCT
1 TTTTAAAATTAT
*
13497148 ATTTAAAATT
1 TTTTAAAATT
13497158 TTAAAAAATA
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
10 7 0.12
11 8 0.14
12 22 0.39
13 9 0.16
14 1 0.02
15 10 0.18
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (12 bp):
TTTTAAAATTAT
Found at i:13497290 original size:21 final size:21
Alignment explanation
Indices: 13497261--13497312 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
13497251 TTGTAAATAT
13497261 ATATATATTAAAAAAGTAAAA
1 ATATATATTAAAAAAGTAAAA
* * *
13497282 ATTTATATTAAAAAATTAAAT
1 ATATATATTAAAAAAGTAAAA
13497303 ATATATATTA
1 ATATATATTA
13497313 TAACTAATCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
ATATATATTAAAAAAGTAAAA
Found at i:13504842 original size:7 final size:7
Alignment explanation
Indices: 13504830--13504859 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
13504820 CACCAAAATA
13504830 AAATTTT
1 AAATTTT
13504837 AAATTTT
1 AAATTTT
13504844 AAATTTT
1 AAATTTT
13504851 AAAATTTT
1 -AAATTTT
13504859 A
1 A
13504860 TATTAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
AAATTTT
Found at i:13504849 original size:14 final size:15
Alignment explanation
Indices: 13504830--13504859 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13504820 CACCAAAATA
13504830 AAATTTT-AAATTTT
1 AAATTTTAAAATTTT
13504844 AAATTTTAAAATTTT
1 AAATTTTAAAATTTT
13504859 A
1 A
13504860 TATTAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AAATTTTAAAATTTT
Found at i:13504971 original size:21 final size:19
Alignment explanation
Indices: 13504939--13504982 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
13504929 TTAATTTTTT
13504939 AAATTTTAAATATAATTTAA
1 AAATTTTAAATAT-ATTTAA
* *
13504959 AAATGTTTGAATATCTTTAA
1 AAAT-TTTAAATATATTTAA
13504979 AAAT
1 AAAT
13504983 AATTTTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (19 bp):
AAATTTTAAATATATTTAA
Found at i:13504992 original size:21 final size:22
Alignment explanation
Indices: 13504940--13504992 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
13504930 TAATTTTTTA
13504940 AATTTTAAATATAATTTAAAAAT
1 AATTTT-AATATAATTTAAAAAT
* * *
13504963 -GTTTGAATAT-CTTTAAAAAT
1 AATTTTAATATAATTTAAAAAT
13504983 AATTTTAATA
1 AATTTTAATA
13504993 ATTAATAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
20 9 0.38
21 12 0.50
22 3 0.12
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (22 bp):
AATTTTAATATAATTTAAAAAT
Found at i:13505148 original size:22 final size:22
Alignment explanation
Indices: 13505110--13505179 Score: 87
Period size: 20 Copynumber: 3.4 Consensus size: 22
13505100 TATATTTTAA
*
13505110 ATAT-TTTATAATATTAAAAAAT
1 ATATATTTA-AATTTTAAAAAAT
13505132 ATATATTTAAATTTT-AAAAAT
1 ATATATTTAAATTTTAAAAAAT
13505153 A-ATATTTAAATTTTAAAAAA-
1 ATATATTTAAATTTTAAAAAAT
13505173 ATA-ATTT
1 ATATATTT
13505180 TAAAAATATA
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
20 18 0.41
21 13 0.30
22 9 0.20
23 4 0.09
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATATATTTAAATTTTAAAAAAT
Found at i:13505150 original size:20 final size:20
Alignment explanation
Indices: 13505108--13505251 Score: 88
Period size: 21 Copynumber: 7.2 Consensus size: 20
13505098 AATATATTTT
* *
13505108 AAATAT-TTTATAATATTAAA
1 AAATATATTTAAAAT-TTTAA
*
13505128 AAATATATATTTAAATTTTAA
1 AAATATAT-TTAAAATTTTAA
13505149 AAATAATATTT-AAATTTTAA
1 AAAT-ATATTTAAAATTTTAA
13505169 AAA-A-A--T--AATTTTAAA
1 AAATATATTTAAAATTTT-AA
13505184 AATATATATTTAAAATTTTAA
1 AA-ATATATTTAAAATTTTAA
*
13505205 AAATAATATTATAAAACATTTAA
1 AAAT-ATATT-TAAAA-TTTTAA
* * *
13505228 ATATATCTTTCAAATTTTATA
1 AAATATATTTAAAATTTTA-A
13505249 AAA
1 AAA
13505252 CCAATAATAA
Statistics
Matches: 100, Mismatches: 9, Indels: 29
0.72 0.07 0.21
Matches are distributed among these distances:
14 6 0.06
15 5 0.05
16 1 0.01
17 2 0.02
18 2 0.02
20 25 0.25
21 27 0.27
22 24 0.24
23 8 0.08
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
AAATATATTTAAAATTTTAA
Found at i:13505153 original size:55 final size:57
Alignment explanation
Indices: 13505089--13505213 Score: 154
Period size: 55 Copynumber: 2.2 Consensus size: 57
13505079 AGGTCATATC
* *
13505089 TTTAAAAATAATATATTTTAAATATTT-TATAAT-A-TTAAAAAATATATATTT-AAAT
1 TTTAAAAATAATATA-TTTAAAT-TTTAAAAAATAATTTAAAAAATATATATTTAAAAT
*
13505144 TTTAAAAAT-A-ATATTTAAATTTTAAAAAAATAATTTTAAAAATATATATTTAAAAT
1 TTTAAAAATAATATATTTAAATTTT-AAAAAATAATTTAAAAAATATATATTTAAAAT
13505200 TTTAAAAATAATAT
1 TTTAAAAATAATAT
13505214 TATAAAACAT
Statistics
Matches: 60, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
51 3 0.05
52 7 0.12
53 7 0.12
54 2 0.03
55 25 0.42
56 13 0.22
57 1 0.02
58 2 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (57 bp):
TTTAAAAATAATATATTTAAATTTTAAAAAATAATTTAAAAAATATATATTTAAAAT
Found at i:13505178 original size:14 final size:14
Alignment explanation
Indices: 13505161--13505198 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
13505151 ATAATATTTA
13505161 AATTTTAAAAAAAT
1 AATTTTAAAAAAAT
*
13505175 AATTTTAAAAATAT
1 AATTTTAAAAAAAT
13505189 -ATATTTAAAA
1 AAT-TTTAAAA
13505199 TTTTAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 2 0.09
14 20 0.91
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AATTTTAAAAAAAT
Found at i:13505179 original size:34 final size:37
Alignment explanation
Indices: 13505141--13505220 Score: 123
Period size: 36 Copynumber: 2.3 Consensus size: 37
13505131 TATATATTTA
13505141 AATTTTAAAAATA-ATATTT-AAATTTTAAAAA-AAT
1 AATTTTAAAAATATATATTTAAAATTTTAAAAATAAT
13505175 AATTTTAAAAATATATATTTAAAATTTTAAAAATAAT
1 AATTTTAAAAATATATATTTAAAATTTTAAAAATAAT
*
13505212 -ATTATAAAA
1 AATTTTAAAA
13505221 CATTTAAATA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
34 13 0.31
35 6 0.14
36 20 0.48
37 3 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (37 bp):
AATTTTAAAAATATATATTTAAAATTTTAAAAATAAT
Found at i:13505202 original size:22 final size:22
Alignment explanation
Indices: 13505175--13505251 Score: 79
Period size: 22 Copynumber: 3.5 Consensus size: 22
13505165 TTAAAAAAAT
13505175 AATTTTAAAAATATATATTTAA
1 AATTTTAAAAATATATATTTAA
13505197 AATTTTAAAAATA-ATATTATAA
1 AATTTTAAAAATATATATT-TAA
* * *
13505219 AACATTT--AAATATATCTTTCA
1 AA-TTTTAAAAATATATATTTAA
13505240 AATTTTATAAAA
1 AATTTTA-AAAA
13505252 CCAATAATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
20 3 0.07
21 14 0.31
22 22 0.49
23 6 0.13
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (22 bp):
AATTTTAAAAATATATATTTAA
Found at i:13505268 original size:11 final size:11
Alignment explanation
Indices: 13505248--13505295 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
13505238 CAAATTTTAT
*
13505248 AAAACCAATAA
1 AAAACAAATAA
*
13505259 TAAACAAATAA
1 AAAACAAATAA
*
13505270 AAAATAAATAA
1 AAAACAAATAA
**
13505281 AGGACAAATAA
1 AAAACAAATAA
13505292 AAAA
1 AAAA
13505296 ACTTAAAAAG
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.75, C:0.08, G:0.04, T:0.12
Consensus pattern (11 bp):
AAAACAAATAA
Found at i:13505277 original size:15 final size:15
Alignment explanation
Indices: 13505257--13505319 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
13505247 TAAAACCAAT
*
13505257 AATAAACAAATAAAA
1 AATAAATAAATAAAA
** *
13505272 AATAAATAAAGGACA
1 AATAAATAAATAAAA
*
13505287 AATAAAAAAACTTAAAA
1 AATAAATAAA--TAAAA
*
13505304 AGTAAATAAATAAAA
1 AATAAATAAATAAAA
13505319 A
1 A
13505320 CTTTAAAAAA
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
15 26 0.72
17 10 0.28
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.16
Consensus pattern (15 bp):
AATAAATAAATAAAA
Found at i:13508698 original size:41 final size:39
Alignment explanation
Indices: 13508653--13508779 Score: 123
Period size: 40 Copynumber: 3.2 Consensus size: 39
13508643 AAACAGGTTT
13508653 TTAGCGGCGTTTGGACAAAAAACGCCACTAAAAATCGAGCA
1 TTAGCGGCGTTT--ACAAAAAACGCCACTAAAAATCGAGCA
** * *
13508694 TTAGCGGCGCTTTACGTAAAACGCCGCTAAAGATCGAGCA
1 TTAGCGGCG-TTTACAAAAAACGCCACTAAAAATCGAGCA
* * * *
13508734 TTAGCGGCGTTT-CTAGGAAAGCGCCGCTAAAAAT-TAGCA
1 TTAGCGGCGTTTAC-A-AAAAACGCCACTAAAAATCGAGCA
13508773 TTAGCGG
1 TTAGCGG
13508780 TTTTTTTGGA
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
38 1 0.01
39 14 0.19
40 47 0.64
41 9 0.12
42 3 0.04
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (39 bp):
TTAGCGGCGTTTACAAAAAACGCCACTAAAAATCGAGCA
Found at i:13508798 original size:39 final size:40
Alignment explanation
Indices: 13508670--13508804 Score: 141
Period size: 40 Copynumber: 3.4 Consensus size: 40
13508660 CGTTTGGACA
* ** *
13508670 AAAAACGCCACTAAAAATCGAGCATTAGCGGCGCTTTACG
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCTTTTTAGG
* * *
13508710 TAAAACGCCGCTAAAGATCGAGCATTAGCGGCGTTTCTAGG
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGC-TTTTTAGG
* * * *
13508751 -AAAGCGCCGCTAAAAAT-TAGCATTAGCGGTTTTTTTGG
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCTTTTTAGG
13508789 AAAAACGCCGC-AAAAA
1 AAAAACGCCGCTAAAAA
13508805 GTCTAAGCCC
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
38 11 0.14
39 20 0.25
40 44 0.56
41 4 0.05
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (40 bp):
AAAAACGCCGCTAAAAATCGAGCATTAGCGGCTTTTTAGG
Found at i:13509367 original size:14 final size:14
Alignment explanation
Indices: 13509337--13509375 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
13509327 GGGTTGTGAT
* *
13509337 TTAAGGTTTATGGG
1 TTAAGGGTTAGGGG
*
13509351 TTAGGGGTTAGGGG
1 TTAAGGGTTAGGGG
13509365 TTAAGGGTTAG
1 TTAAGGGTTAG
13509376 AGTAAGAGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.21, C:0.00, G:0.44, T:0.36
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Done.